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# coding=utf-8
# Copyright 2023 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
import argparse
import os
import re
import torch
from flax.traverse_util import flatten_dict
from t5x import checkpoints
from transformers import (
AutoTokenizer,
Pix2StructConfig,
Pix2StructForConditionalGeneration,
Pix2StructImageProcessor,
Pix2StructProcessor,
Pix2StructTextConfig,
Pix2StructVisionConfig,
)
def get_flax_param(t5x_checkpoint_path):
flax_params = checkpoints.load_t5x_checkpoint(t5x_checkpoint_path)
flax_params = flatten_dict(flax_params)
return flax_params
def rename_and_convert_flax_params(flax_dict):
converted_dict = {}
CONVERSION_MAPPING = {
"token_embedder": "embeddings",
"encoder_norm": "layernorm",
"kernel": "weight",
".out": ".output",
"scale": "weight",
"embedders_0.pos_embedding": "row_embedder.weight",
"embedders_1.pos_embedding": "column_embedder.weight",
}
DECODER_CONVERSION_MAPPING = {
"query": "attention.query",
"key": "attention.key",
"value": "attention.value",
"output.dense": "output",
"encoder_decoder_attention.o": "encoder_decoder_attention.attention.o",
"pre_self_attention_layer_norm": "self_attention.layer_norm",
"pre_cross_attention_layer_norm": "encoder_decoder_attention.layer_norm",
"mlp.": "mlp.DenseReluDense.",
"pre_mlp_layer_norm": "mlp.layer_norm",
"self_attention.o": "self_attention.attention.o",
"decoder.embeddings.embedding": "decoder.embed_tokens.weight",
"decoder.relpos_bias.rel_embedding": "decoder.layer.0.self_attention.attention.relative_attention_bias.weight",
"decoder.decoder_norm.weight": "decoder.final_layer_norm.weight",
"decoder.logits_dense.weight": "decoder.lm_head.weight",
}
for key in flax_dict.keys():
if "target" in key:
# remove the first prefix from the key
new_key = ".".join(key[1:])
# rename the key
for old, new in CONVERSION_MAPPING.items():
new_key = new_key.replace(old, new)
if "decoder" in new_key:
for old, new in DECODER_CONVERSION_MAPPING.items():
new_key = new_key.replace(old, new)
if "layers" in new_key and "decoder" not in new_key:
# use regex to replace the layer number
new_key = re.sub(r"layers_(\d+)", r"layer.\1", new_key)
new_key = new_key.replace("encoder", "encoder.encoder")
elif "layers" in new_key and "decoder" in new_key:
# use regex to replace the layer number
new_key = re.sub(r"layers_(\d+)", r"layer.\1", new_key)
converted_dict[new_key] = flax_dict[key]
converted_torch_dict = {}
# convert converted_dict into torch format
for key in converted_dict.keys():
if ("embed_tokens" not in key) and ("embedder" not in key):
converted_torch_dict[key] = torch.from_numpy(converted_dict[key].T)
else:
converted_torch_dict[key] = torch.from_numpy(converted_dict[key])
return converted_torch_dict
def convert_pix2struct_original_pytorch_checkpoint_to_hf(
t5x_checkpoint_path, pytorch_dump_folder_path, use_large=False, is_vqa=False
):
flax_params = get_flax_param(t5x_checkpoint_path)
if not use_large:
encoder_config = Pix2StructVisionConfig()
decoder_config = Pix2StructTextConfig()
else:
encoder_config = Pix2StructVisionConfig(
hidden_size=1536, d_ff=3968, num_attention_heads=24, num_hidden_layers=18
)
decoder_config = Pix2StructTextConfig(hidden_size=1536, d_ff=3968, num_heads=24, num_layers=18)
config = Pix2StructConfig(
vision_config=encoder_config.to_dict(), text_config=decoder_config.to_dict(), is_vqa=is_vqa
)
model = Pix2StructForConditionalGeneration(config)
torch_params = rename_and_convert_flax_params(flax_params)
model.load_state_dict(torch_params)
tok = AutoTokenizer.from_pretrained("ybelkada/test-pix2struct-tokenizer")
image_processor = Pix2StructImageProcessor()
processor = Pix2StructProcessor(image_processor=image_processor, tokenizer=tok)
if use_large:
processor.image_processor.max_patches = 4096
processor.image_processor.is_vqa = True
# mkdir if needed
os.makedirs(pytorch_dump_folder_path, exist_ok=True)
model.save_pretrained(pytorch_dump_folder_path)
processor.save_pretrained(pytorch_dump_folder_path)
print("Model saved in {}".format(pytorch_dump_folder_path))
if __name__ == "__main__":
parser = argparse.ArgumentParser()
parser.add_argument("--t5x_checkpoint_path", default=None, type=str, help="Path to the original T5x checkpoint.")
parser.add_argument("--pytorch_dump_folder_path", default=None, type=str, help="Path to the output PyTorch model.")
parser.add_argument("--use_large", action="store_true", help="Use large model.")
parser.add_argument("--is_vqa", action="store_true", help="Use large model.")
args = parser.parse_args()
convert_pix2struct_original_pytorch_checkpoint_to_hf(
args.t5x_checkpoint_path, args.pytorch_dump_folder_path, args.use_large
)
| transformers-main | src/transformers/models/pix2struct/convert_pix2struct_original_pytorch_to_hf.py |
# coding=utf-8
# Copyright 2023 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""
Processor class for Pix2Struct.
"""
from typing import List, Optional, Union
from ...processing_utils import ProcessorMixin
from ...tokenization_utils_base import BatchEncoding, PaddingStrategy, PreTokenizedInput, TextInput, TruncationStrategy
from ...utils import TensorType
class Pix2StructProcessor(ProcessorMixin):
r"""
Constructs a PIX2STRUCT processor which wraps a BERT tokenizer and PIX2STRUCT image processor into a single
processor.
[`Pix2StructProcessor`] offers all the functionalities of [`Pix2StructImageProcessor`] and [`T5TokenizerFast`]. See
the docstring of [`~Pix2StructProcessor.__call__`] and [`~Pix2StructProcessor.decode`] for more information.
Args:
image_processor (`Pix2StructImageProcessor`):
An instance of [`Pix2StructImageProcessor`]. The image processor is a required input.
tokenizer (Union[`T5TokenizerFast`, `T5Tokenizer`]):
An instance of ['T5TokenizerFast`] or ['T5Tokenizer`]. The tokenizer is a required input.
"""
attributes = ["image_processor", "tokenizer"]
image_processor_class = "Pix2StructImageProcessor"
tokenizer_class = ("T5Tokenizer", "T5TokenizerFast")
def __init__(self, image_processor, tokenizer):
tokenizer.return_token_type_ids = False
super().__init__(image_processor, tokenizer)
def __call__(
self,
images=None,
text: Union[TextInput, PreTokenizedInput, List[TextInput], List[PreTokenizedInput]] = None,
add_special_tokens: bool = True,
padding: Union[bool, str, PaddingStrategy] = False,
truncation: Union[bool, str, TruncationStrategy] = None,
max_length: Optional[int] = None,
max_patches: Optional[int] = 2048,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_token_type_ids: bool = False,
return_length: bool = False,
verbose: bool = True,
return_tensors: Optional[Union[str, TensorType]] = None,
**kwargs,
) -> BatchEncoding:
"""
This method uses [`Pix2StructImageProcessor.preprocess`] method to prepare image(s) for the model, and
[`T5TokenizerFast.__call__`] to prepare text for the model.
Please refer to the docstring of the above two methods for more information.
"""
if images is None and text is None:
raise ValueError("You have to specify either images or text.")
# Get only text
if images is None and not self.image_processor.is_vqa:
self.current_processor = self.tokenizer
text_encoding = self.tokenizer(
text=text,
add_special_tokens=add_special_tokens,
padding=padding,
truncation=truncation,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_token_type_ids=return_token_type_ids,
return_length=return_length,
verbose=verbose,
return_tensors=return_tensors,
**kwargs,
)
return text_encoding
if not self.image_processor.is_vqa:
# add pixel_values
encoding_image_processor = self.image_processor(
images, return_tensors=return_tensors, max_patches=max_patches, **kwargs
)
else:
# add pixel_values and bbox
encoding_image_processor = self.image_processor(
images, return_tensors=return_tensors, max_patches=max_patches, header_text=text, **kwargs
)
if text is not None and not self.image_processor.is_vqa:
text_encoding = self.tokenizer(
text=text,
add_special_tokens=add_special_tokens,
padding=padding,
truncation=truncation,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_token_type_ids=return_token_type_ids,
return_length=return_length,
verbose=verbose,
return_tensors=return_tensors,
**kwargs,
)
if "attention_mask" in text_encoding:
text_encoding["decoder_attention_mask"] = text_encoding.pop("attention_mask")
if "input_ids" in text_encoding:
text_encoding["decoder_input_ids"] = text_encoding.pop("input_ids")
else:
text_encoding = None
if text_encoding is not None:
encoding_image_processor.update(text_encoding)
return encoding_image_processor
def batch_decode(self, *args, **kwargs):
"""
This method forwards all its arguments to Pix2StructTokenizerFast's [`~PreTrainedTokenizer.batch_decode`].
Please refer to the docstring of this method for more information.
"""
return self.tokenizer.batch_decode(*args, **kwargs)
def decode(self, *args, **kwargs):
"""
This method forwards all its arguments to Pix2StructTokenizerFast's [`~PreTrainedTokenizer.decode`]. Please
refer to the docstring of this method for more information.
"""
return self.tokenizer.decode(*args, **kwargs)
@property
def model_input_names(self):
tokenizer_input_names = self.tokenizer.model_input_names
image_processor_input_names = self.image_processor.model_input_names
return list(dict.fromkeys(tokenizer_input_names + image_processor_input_names))
| transformers-main | src/transformers/models/pix2struct/processing_pix2struct.py |
# Copyright 2023 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import OptionalDependencyNotAvailable, _LazyModule, is_torch_available, is_vision_available
_import_structure = {
"configuration_pix2struct": [
"PIX2STRUCT_PRETRAINED_CONFIG_ARCHIVE_MAP",
"Pix2StructConfig",
"Pix2StructTextConfig",
"Pix2StructVisionConfig",
],
"processing_pix2struct": ["Pix2StructProcessor"],
}
try:
if not is_vision_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["image_processing_pix2struct"] = ["Pix2StructImageProcessor"]
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_pix2struct"] = [
"PIX2STRUCT_PRETRAINED_MODEL_ARCHIVE_LIST",
"Pix2StructPreTrainedModel",
"Pix2StructForConditionalGeneration",
"Pix2StructVisionModel",
"Pix2StructTextModel",
]
if TYPE_CHECKING:
from .configuration_pix2struct import (
PIX2STRUCT_PRETRAINED_CONFIG_ARCHIVE_MAP,
Pix2StructConfig,
Pix2StructTextConfig,
Pix2StructVisionConfig,
)
from .processing_pix2struct import Pix2StructProcessor
try:
if not is_vision_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .image_processing_pix2struct import Pix2StructImageProcessor
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_pix2struct import (
PIX2STRUCT_PRETRAINED_MODEL_ARCHIVE_LIST,
Pix2StructForConditionalGeneration,
Pix2StructPreTrainedModel,
Pix2StructTextModel,
Pix2StructVisionModel,
)
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/pix2struct/__init__.py |
# coding=utf-8
# Copyright 2023 The HuggingFace Inc. & Google team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" Pix2Struct modeling file"""
import math
from typing import Dict, List, Optional, Tuple, Union
import torch
import torch.utils.checkpoint
from torch import nn
from torch.utils.checkpoint import checkpoint
from ...activations import ACT2FN
from ...modeling_outputs import (
BaseModelOutput,
BaseModelOutputWithPooling,
CausalLMOutputWithCrossAttentions,
Seq2SeqLMOutput,
Seq2SeqModelOutput,
)
from ...modeling_utils import PreTrainedModel
from ...pytorch_utils import ALL_LAYERNORM_LAYERS
from ...utils import (
DUMMY_INPUTS,
DUMMY_MASK,
add_start_docstrings,
add_start_docstrings_to_model_forward,
is_torch_fx_proxy,
logging,
replace_return_docstrings,
)
from .configuration_pix2struct import Pix2StructConfig, Pix2StructTextConfig, Pix2StructVisionConfig
logger = logging.get_logger(__name__)
# General docstring
_CONFIG_FOR_DOC = "Pix2StructConfig"
PIX2STRUCT_PRETRAINED_MODEL_ARCHIVE_LIST = [
"google/pix2struct-textcaps-base",
"google/pix2struct-textcaps-large",
"google/pix2struct-base",
"google/pix2struct-large",
"google/pix2struct-ai2d-base",
"google/pix2struct-ai2d-large",
"google/pix2struct-widget-captioning-base",
"google/pix2struct-widget-captioning-large",
"google/pix2struct-screen2words-base",
"google/pix2struct-screen2words-large",
"google/pix2struct-docvqa-base",
"google/pix2struct-docvqa-large",
"google/pix2struct-ocrvqa-base",
"google/pix2struct-ocrvqa-large",
"google/pix2struct-chartqa-base",
"google/pix2struct-inforgraphics-vqa-base",
"google/pix2struct-inforgraphics-vqa-large",
# See all Pix2StructVision models at https://huggingface.co/models?filter=pix2struct
]
# Adapted from transformers.models.t5.modeling_t5.T5LayerNorm with T5->Pix2Struct
class Pix2StructLayerNorm(nn.Module):
def __init__(self, hidden_size, eps=1e-6):
"""
Construct a layernorm module in the T5 style. No bias and no subtraction of mean.
"""
super().__init__()
self.weight = nn.Parameter(torch.ones(hidden_size))
self.variance_epsilon = eps
def forward(self, hidden_states):
# T5 uses a layer_norm which only scales and doesn't shift, which is also known as Root Mean
# Square Layer Normalization https://arxiv.org/abs/1910.07467 thus varience is calculated
# w/o mean and there is no bias. Additionally we want to make sure that the accumulation for
# half-precision inputs is done in fp32
variance = hidden_states.to(torch.float32).pow(2).mean(-1, keepdim=True)
hidden_states = hidden_states * torch.rsqrt(variance + self.variance_epsilon)
# convert into half-precision if necessary
if self.weight.dtype in [torch.float16, torch.bfloat16]:
hidden_states = hidden_states.to(self.weight.dtype)
return self.weight * hidden_states
try:
from apex.normalization import FusedRMSNorm
Pix2StructLayerNorm = FusedRMSNorm # noqa
logger.info("Discovered apex.normalization.FusedRMSNorm - will use it instead of Pix2StructLayerNorm")
except ImportError:
# using the normal Pix2StructLayerNorm
pass
except Exception:
logger.warning("Discovered apex but it failed to load, falling back to Pix2StructLayerNorm")
pass
ALL_LAYERNORM_LAYERS.append(Pix2StructLayerNorm)
class Pix2StructVisionEmbeddings(nn.Module):
r"""
Construct the embeddings from patch. In `Pix2Struct` the input is different from classic Vision-transformer models.
Here the input is a sequence of `seq_len` flattened patches that also combines padding patches (tokens). Each patch
is represented by a vector of `hidden_size` values.
"""
def __init__(self, config: Pix2StructConfig) -> None:
super().__init__()
self.patch_projection = nn.Linear(config.patch_embed_hidden_size, config.hidden_size)
self.row_embedder = nn.Embedding(config.seq_len, config.hidden_size)
self.column_embedder = nn.Embedding(config.seq_len, config.hidden_size)
self.dropout = nn.Dropout(config.dropout_rate)
def forward(self, flattened_patches: torch.Tensor) -> torch.Tensor:
# the row and column indices are stored in the first and second position of the flattened_patches
# flattened_patches: `batch_size`, `seq_len`, `hidden_size` + 2
row_indices = flattened_patches[:, :, 0].long()
col_indices = flattened_patches[:, :, 1].long()
flattened_patches = flattened_patches[:, :, 2:]
embeddings = self.patch_projection(flattened_patches)
row_embeddings = self.row_embedder(row_indices)
col_embeddings = self.column_embedder(col_indices)
# sum all embeddings together
embeddings = embeddings + row_embeddings + col_embeddings
embeddings = self.dropout(embeddings)
return embeddings
class Pix2StructVisionAttention(nn.Module):
def __init__(self, config):
super().__init__()
self.hidden_size = config.hidden_size
self.key_value_proj_dim = config.d_kv
self.n_heads = config.num_attention_heads
self.dropout = config.attention_dropout
self.inner_dim = self.n_heads * self.key_value_proj_dim
# Mesh TensorFlow initialization to avoid scaling before softmax
self.query = nn.Linear(self.hidden_size, self.inner_dim, bias=False)
self.key = nn.Linear(self.hidden_size, self.inner_dim, bias=False)
self.value = nn.Linear(self.hidden_size, self.inner_dim, bias=False)
self.output = nn.Linear(self.inner_dim, self.hidden_size, bias=False)
self.gradient_checkpointing = False
def forward(
self,
hidden_states,
attention_mask=None,
position_bias=None,
layer_head_mask=None,
output_attentions=False,
):
"""
Self-attention block
"""
# Input is (batch_size, seq_length, dim)
# Mask is (batch_size, key_length) (non-causal) or (batch_size, key_length, key_length)
# past_key_value[0] is (batch_size, n_heads, q_len - 1, dim_per_head)
batch_size, seq_length = hidden_states.shape[:2]
def to_projection_shape(states):
"""projection"""
return states.contiguous().view(batch_size, -1, self.n_heads, self.key_value_proj_dim).transpose(1, 2)
# get query states
# (batch_size, n_heads, seq_length, dim_per_head)
query_states = to_projection_shape(self.query(hidden_states))
# get key/value states
key_states = to_projection_shape(self.key(hidden_states))
value_states = to_projection_shape(self.value(hidden_states))
# compute scores
# equivalent of torch.einsum("bnqd,bnkd->bnqk", query_states, key_states), compatible with onnx op>9
scores = torch.matmul(query_states, key_states.transpose(3, 2))
if position_bias is None:
position_bias = torch.zeros(
(1, self.n_heads, seq_length, seq_length), device=scores.device, dtype=scores.dtype
)
if self.gradient_checkpointing and self.training:
position_bias.requires_grad = True
if attention_mask is None:
attention_mask = torch.ones((batch_size, seq_length), device=scores.device, dtype=scores.dtype)
if attention_mask.dim() == 2:
position_bias = position_bias + attention_mask[:, None, None, :].to(position_bias.device)
else:
# (batch_size, n_heads, seq_length, key_length)
position_bias = position_bias + attention_mask.to(position_bias.device)
position_bias = 1 - position_bias
position_bias_masked = position_bias.masked_fill(position_bias == 1, torch.finfo(scores.dtype).min)
scores += position_bias_masked
scores = torch.max(scores, torch.tensor(torch.finfo(scores.dtype).min))
# (batch_size, n_heads, seq_length, key_length)
attn_weights = nn.functional.softmax(scores, dim=-1, dtype=torch.float32).type_as(scores)
# (batch_size, n_heads, seq_length, key_length)
attn_weights = nn.functional.dropout(attn_weights, p=self.dropout, training=self.training)
# Mask heads if we want to
if layer_head_mask is not None:
attn_weights = attn_weights * layer_head_mask
attn_output = torch.matmul(attn_weights, value_states)
# (batch_size, seq_length, dim)
attn_output = attn_output.transpose(1, 2).contiguous().view(batch_size, -1, self.inner_dim)
attn_output = self.output(attn_output)
outputs = (attn_output,) + (position_bias,)
if output_attentions:
outputs = outputs + (attn_weights,)
return outputs
# Copied from transformers.models.t5.modeling_t5.T5DenseGatedActDense with T5DenseGatedActDense->Pix2StructVisionMlp,T5Config->Pix2StructVisionConfig,config.d_model->config.hidden_size,dropout_rate->dropout_rate
class Pix2StructVisionMlp(nn.Module):
def __init__(self, config: Pix2StructVisionConfig):
super().__init__()
self.wi_0 = nn.Linear(config.hidden_size, config.d_ff, bias=False)
self.wi_1 = nn.Linear(config.hidden_size, config.d_ff, bias=False)
self.wo = nn.Linear(config.d_ff, config.hidden_size, bias=False)
self.dropout = nn.Dropout(config.dropout_rate)
self.act = ACT2FN[config.dense_act_fn]
def forward(self, hidden_states):
hidden_gelu = self.act(self.wi_0(hidden_states))
hidden_linear = self.wi_1(hidden_states)
hidden_states = hidden_gelu * hidden_linear
hidden_states = self.dropout(hidden_states)
# To make 8bit quantization work for google/flan-t5-xxl, self.wo is kept in float32.
# See https://github.com/huggingface/transformers/issues/20287
# we also make sure the weights are not in `int8` in case users will force `_keep_in_fp32_modules` to be `None``
if (
isinstance(self.wo.weight, torch.Tensor)
and hidden_states.dtype != self.wo.weight.dtype
and self.wo.weight.dtype != torch.int8
):
hidden_states = hidden_states.to(self.wo.weight.dtype)
hidden_states = self.wo(hidden_states)
return hidden_states
class Pix2StructVisionLayer(nn.Module):
def __init__(self, config: Pix2StructConfig) -> None:
super().__init__()
self.chunk_size_feed_forward = config.chunk_size_feed_forward
self.seq_len_dim = 1
self.attention = Pix2StructVisionAttention(config)
self.mlp = Pix2StructVisionMlp(config)
self.pre_mlp_layer_norm = Pix2StructLayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.pre_attention_layer_norm = Pix2StructLayerNorm(config.hidden_size, eps=config.layer_norm_eps)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.Tensor] = None,
head_mask: Optional[torch.Tensor] = None,
output_attentions: bool = False,
) -> Union[Tuple[torch.Tensor, torch.Tensor], Tuple[torch.Tensor]]:
residual = hidden_states
# in Pix2StructVision, layernorm is applied before self-attention
hidden_states = self.pre_attention_layer_norm(hidden_states)
self_attention_outputs = self.attention(
hidden_states,
attention_mask=attention_mask,
layer_head_mask=head_mask,
output_attentions=output_attentions,
)
attention_output = self_attention_outputs[0]
outputs = self_attention_outputs[1:] # add self attentions if we output attention weights
# first residual connection
hidden_states = attention_output + residual
# in Pix2StructVision, layernorm is also applied after self-attention
layer_output = self.pre_mlp_layer_norm(hidden_states)
layer_output = self.mlp(layer_output) + hidden_states # second residual connection
outputs = (layer_output,) + outputs
return outputs
class Pix2StructVisionEncoder(nn.Module):
def __init__(self, config: Pix2StructConfig) -> None:
super().__init__()
self.config = config
self.layer = nn.ModuleList([Pix2StructVisionLayer(config) for _ in range(config.num_hidden_layers)])
self.gradient_checkpointing = False
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.Tensor] = None,
head_mask: Optional[torch.Tensor] = None,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
) -> Union[tuple, BaseModelOutput]:
all_hidden_states = () if output_hidden_states else None
all_self_attentions = () if output_attentions else None
for i, layer_module in enumerate(self.layer):
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
layer_head_mask = head_mask[i] if head_mask is not None else None
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(layer_module),
hidden_states,
attention_mask,
layer_head_mask,
)
else:
layer_outputs = layer_module(hidden_states, attention_mask, layer_head_mask, output_attentions)
hidden_states = layer_outputs[0]
if output_attentions:
all_self_attentions = all_self_attentions + (layer_outputs[1],)
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
if not return_dict:
return tuple(v for v in [hidden_states, all_hidden_states, all_self_attentions] if v is not None)
return BaseModelOutput(
last_hidden_state=hidden_states,
hidden_states=all_hidden_states,
attentions=all_self_attentions,
)
class Pix2StructPreTrainedModel(PreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
config_class = Pix2StructConfig
@property
def dummy_inputs(self):
input_ids = torch.tensor(DUMMY_INPUTS)
input_mask = torch.tensor(DUMMY_MASK)
dummy_inputs = {
"decoder_input_ids": input_ids,
"input_ids": input_ids,
"decoder_attention_mask": input_mask,
}
return dummy_inputs
def _init_weights(self, module):
"""Initialize the weights"""
factor = self.config.initializer_factor # Used for testing weights initialization
if isinstance(module, Pix2StructLayerNorm):
module.weight.data.fill_(factor * 1.0)
elif isinstance(module, Pix2StructTextDenseGatedActDense):
hidden_size = (
self.config.text_config.hidden_size
if isinstance(self.config, Pix2StructConfig)
else self.config.hidden_size
)
d_ff = self.config.text_config.d_ff if isinstance(self.config, Pix2StructConfig) else self.config.d_ff
module.wi_0.weight.data.normal_(mean=0.0, std=factor * ((hidden_size) ** -0.5))
if hasattr(module.wi_0, "bias") and module.wi_0.bias is not None:
module.wi_0.bias.data.zero_()
module.wi_1.weight.data.normal_(mean=0.0, std=factor * ((hidden_size) ** -0.5))
if hasattr(module.wi_1, "bias") and module.wi_1.bias is not None:
module.wi_1.bias.data.zero_()
module.wo.weight.data.normal_(mean=0.0, std=factor * ((d_ff) ** -0.5))
if hasattr(module.wo, "bias") and module.wo.bias is not None:
module.wo.bias.data.zero_()
elif isinstance(module, Pix2StructTextAttention):
# Mesh TensorFlow attention initialization to avoid scaling before softmax
# See https://github.com/tensorflow/mesh/blob/fa19d69eafc9a482aff0b59ddd96b025c0cb207d/mesh_tensorflow/transformer/attention.py#L136
hidden_size = (
self.config.text_config.hidden_size
if isinstance(self.config, Pix2StructConfig)
else self.config.hidden_size
)
key_value_proj_dim = (
self.config.text_config.d_kv if isinstance(self.config, Pix2StructConfig) else self.config.hidden_size
)
n_heads = (
self.config.text_config.num_heads
if isinstance(self.config, Pix2StructConfig)
else self.config.num_heads
)
module.query.weight.data.normal_(mean=0.0, std=factor * ((hidden_size * key_value_proj_dim) ** -0.5))
module.key.weight.data.normal_(mean=0.0, std=factor * (hidden_size**-0.5))
module.value.weight.data.normal_(mean=0.0, std=factor * (hidden_size**-0.5))
module.output.weight.data.normal_(mean=0.0, std=factor * ((n_heads * key_value_proj_dim) ** -0.5))
if module.has_relative_attention_bias:
module.relative_attention_bias.weight.data.normal_(mean=0.0, std=factor * ((hidden_size) ** -0.5))
elif isinstance(module, nn.Embedding):
hidden_size = (
self.config.text_config.hidden_size
if isinstance(self.config, Pix2StructConfig)
else self.config.hidden_size
)
module.weight.data.normal_(mean=0.0, std=factor * ((hidden_size) ** -0.5))
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
elif isinstance(module, Pix2StructTextModel):
hidden_size = (
self.config.text_config.hidden_size
if isinstance(self.config, Pix2StructConfig)
else self.config.hidden_size
)
module.lm_head.weight.data.normal_(mean=0.0, std=factor * ((hidden_size) ** -0.5))
elif isinstance(module, (nn.Linear, nn.Conv2d)):
# Upcast the input in `fp32` and cast it back to desired `dtype` to avoid
# `trunc_normal_cpu` not implemented in `half` issues
module.weight.data = nn.init.trunc_normal_(
module.weight.data.to(torch.float32), mean=0.0, std=self.config.initializer_range
).to(module.weight.dtype)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, Pix2StructLayerNorm):
if module.weight is not None:
module.weight.data.fill_(1.0)
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=self.config.initializer_range)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
# Copied from transformers.models.t5.modeling_t5.T5PreTrainedModel._shift_right with T5->Pix2Struct
def _shift_right(self, input_ids):
decoder_start_token_id = self.config.decoder_start_token_id
pad_token_id = self.config.pad_token_id
if decoder_start_token_id is None:
raise ValueError(
"self.model.config.decoder_start_token_id has to be defined. In Pix2Struct it is usually set to the pad_token_id."
"See Pix2Struct docs for more information."
)
# shift inputs to the right
if is_torch_fx_proxy(input_ids):
# Item assignment is not supported natively for proxies.
shifted_input_ids = torch.full(input_ids.shape[:-1] + (1,), decoder_start_token_id)
shifted_input_ids = torch.cat([shifted_input_ids, input_ids[..., :-1]], dim=-1)
else:
shifted_input_ids = input_ids.new_zeros(input_ids.shape)
shifted_input_ids[..., 1:] = input_ids[..., :-1].clone()
shifted_input_ids[..., 0] = decoder_start_token_id
if pad_token_id is None:
raise ValueError("self.model.config.pad_token_id has to be defined.")
# replace possible -100 values in labels by `pad_token_id`
shifted_input_ids.masked_fill_(shifted_input_ids == -100, pad_token_id)
return shifted_input_ids
PIX2STRUCT_VISION_START_DOCSTRING = r"""
This model is a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) subclass. Use it
as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage and
behavior.
Parameters:
config ([`Pix2StructConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
PIX2STRUCT_VISION_INPUTS_DOCSTRING = r"""
Args:
flattened_patches (`torch.FloatTensor` of shape `(batch_size, sequence_length, num_channels x patch_height x patch_width)`):
Flattened and padded pixel values. These values can be obtained using [`AutoImageProcessor`]. See
[`Pix2StructVisionImageProcessor.__call__`] for details. Check the [original
paper](https://arxiv.org/abs/2210.03347) (figure 5) for more details.
attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding pixel values. Mask values selected in `[0, 1]`:
head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
@add_start_docstrings(
"The bare Pix2StructVision Model transformer outputting raw hidden-states without any specific head on top.",
PIX2STRUCT_VISION_START_DOCSTRING,
)
class Pix2StructVisionModel(Pix2StructPreTrainedModel):
config_class = Pix2StructVisionConfig
main_input_name = "flattened_patches"
supports_gradient_checkpointing = True
_no_split_modules = ["Pix2StructVisionLayer"]
def __init__(self, config: Pix2StructConfig):
super().__init__(config)
self.config = config
self.embeddings = Pix2StructVisionEmbeddings(config)
self.encoder = Pix2StructVisionEncoder(config)
self.layernorm = Pix2StructLayerNorm(config.hidden_size, eps=config.layer_norm_eps)
# Initialize weights and apply final processing
self.post_init()
def _set_gradient_checkpointing(self, module: Pix2StructVisionEncoder, value: bool = False) -> None:
if isinstance(module, Pix2StructVisionEncoder):
module.gradient_checkpointing = value
def get_input_embeddings(self):
return self.embeddings.patch_projection
def _prune_heads(self, heads_to_prune: Dict[int, List[int]]) -> None:
"""
Prunes heads of the model. heads_to_prune: dict of {layer_num: list of heads to prune in this layer} See base
class PreTrainedModel
"""
for layer, heads in heads_to_prune.items():
self.encoder.layer[layer].attention.prune_heads(heads)
@add_start_docstrings_to_model_forward(PIX2STRUCT_VISION_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=BaseModelOutputWithPooling, config_class=_CONFIG_FOR_DOC)
def forward(
self,
flattened_patches: Optional[torch.Tensor] = None,
attention_mask: Optional[torch.Tensor] = None,
head_mask: Optional[torch.Tensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, BaseModelOutputWithPooling]:
r"""
Returns:
Example:
```python
>>> import requests
>>> from PIL import Image
>>> from transformers import AutoProcessor, Pix2StructVisionModel
>>> image_processor = AutoProcessor.from_pretrained("google/pix2struct-textcaps-base")
>>> model = Pix2StructVisionModel.from_pretrained("google/pix2struct-textcaps-base")
>>> url = "https://www.ilankelman.org/stopsigns/australia.jpg"
>>> image = Image.open(requests.get(url, stream=True).raw)
>>> inputs = image_processor(images=image, return_tensors="pt")
>>> with torch.no_grad():
... outputs = model(**inputs)
>>> last_hidden_states = outputs.last_hidden_state
>>> list(last_hidden_states.shape)
[1, 2048, 768]
```
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if flattened_patches is None:
raise ValueError("You have to specify flattened_patches")
if attention_mask is None:
# check where `flattened_patches` is not 0
attention_mask = (flattened_patches.sum(dim=-1) != 0).float()
# Prepare head mask if needed
# 1.0 in head_mask indicate we keep the head
# attention_probs has shape bsz x n_heads x N x N
# input head_mask has shape [num_heads] or [num_hidden_layers x num_heads]
# and head_mask is converted to shape [num_hidden_layers x batch x num_heads x seq_length x seq_length]
head_mask = self.get_head_mask(head_mask, self.config.num_hidden_layers)
embedding_output = self.embeddings(flattened_patches)
encoder_outputs = self.encoder(
embedding_output,
attention_mask=attention_mask,
head_mask=head_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = encoder_outputs[0]
sequence_output = self.layernorm(sequence_output)
if not return_dict:
head_outputs = (sequence_output,)
return head_outputs + encoder_outputs[1:]
return BaseModelOutput(
last_hidden_state=sequence_output,
hidden_states=encoder_outputs.hidden_states,
attentions=encoder_outputs.attentions,
)
# Copied from transformers.models.t5.modeling_t5.T5DenseGatedActDense with T5->Pix2StructText,d_model->hidden_size
class Pix2StructTextDenseGatedActDense(nn.Module):
def __init__(self, config: Pix2StructTextConfig):
super().__init__()
self.wi_0 = nn.Linear(config.hidden_size, config.d_ff, bias=False)
self.wi_1 = nn.Linear(config.hidden_size, config.d_ff, bias=False)
self.wo = nn.Linear(config.d_ff, config.hidden_size, bias=False)
self.dropout = nn.Dropout(config.dropout_rate)
self.act = ACT2FN[config.dense_act_fn]
def forward(self, hidden_states):
hidden_gelu = self.act(self.wi_0(hidden_states))
hidden_linear = self.wi_1(hidden_states)
hidden_states = hidden_gelu * hidden_linear
hidden_states = self.dropout(hidden_states)
# To make 8bit quantization work for google/flan-t5-xxl, self.wo is kept in float32.
# See https://github.com/huggingface/transformers/issues/20287
# we also make sure the weights are not in `int8` in case users will force `_keep_in_fp32_modules` to be `None``
if (
isinstance(self.wo.weight, torch.Tensor)
and hidden_states.dtype != self.wo.weight.dtype
and self.wo.weight.dtype != torch.int8
):
hidden_states = hidden_states.to(self.wo.weight.dtype)
hidden_states = self.wo(hidden_states)
return hidden_states
class Pix2StructTextLayerFF(nn.Module):
def __init__(self, config: Pix2StructTextConfig):
super().__init__()
self.DenseReluDense = Pix2StructTextDenseGatedActDense(config)
self.layer_norm = Pix2StructLayerNorm(config.hidden_size, eps=config.layer_norm_epsilon)
self.dropout = nn.Dropout(config.dropout_rate)
# Copied from transformers.models.t5.modeling_t5.T5LayerFF.forward
def forward(self, hidden_states):
forwarded_states = self.layer_norm(hidden_states)
forwarded_states = self.DenseReluDense(forwarded_states)
hidden_states = hidden_states + self.dropout(forwarded_states)
return hidden_states
class Pix2StructTextAttention(nn.Module):
def __init__(self, config: Pix2StructTextConfig, has_relative_attention_bias=False):
super().__init__()
self.has_relative_attention_bias = has_relative_attention_bias
self.relative_attention_num_buckets = config.relative_attention_num_buckets
self.relative_attention_max_distance = config.relative_attention_max_distance
self.hidden_size = config.hidden_size
self.key_value_proj_dim = config.d_kv
self.n_heads = config.num_heads
self.dropout = config.dropout_rate
self.inner_dim = self.n_heads * self.key_value_proj_dim
# Mesh TensorFlow initialization to avoid scaling before softmax
self.query = nn.Linear(self.hidden_size, self.hidden_size, bias=False)
self.key = nn.Linear(self.hidden_size, self.hidden_size, bias=False)
self.value = nn.Linear(self.hidden_size, self.hidden_size, bias=False)
self.output = nn.Linear(self.hidden_size, self.hidden_size, bias=False)
if self.has_relative_attention_bias:
self.relative_attention_bias = nn.Embedding(self.relative_attention_num_buckets, self.n_heads)
self.pruned_heads = set()
self.gradient_checkpointing = False
@staticmethod
# Copied from transformers.models.t5.modeling_t5.T5Attention._relative_position_bucket
def _relative_position_bucket(relative_position, bidirectional=True, num_buckets=32, max_distance=128):
"""
Adapted from Mesh Tensorflow:
https://github.com/tensorflow/mesh/blob/0cb87fe07da627bf0b7e60475d59f95ed6b5be3d/mesh_tensorflow/transformer/transformer_layers.py#L593
Translate relative position to a bucket number for relative attention. The relative position is defined as
memory_position - query_position, i.e. the distance in tokens from the attending position to the attended-to
position. If bidirectional=False, then positive relative positions are invalid. We use smaller buckets for
small absolute relative_position and larger buckets for larger absolute relative_positions. All relative
positions >=max_distance map to the same bucket. All relative positions <=-max_distance map to the same bucket.
This should allow for more graceful generalization to longer sequences than the model has been trained on
Args:
relative_position: an int32 Tensor
bidirectional: a boolean - whether the attention is bidirectional
num_buckets: an integer
max_distance: an integer
Returns:
a Tensor with the same shape as relative_position, containing int32 values in the range [0, num_buckets)
"""
relative_buckets = 0
if bidirectional:
num_buckets //= 2
relative_buckets += (relative_position > 0).to(torch.long) * num_buckets
relative_position = torch.abs(relative_position)
else:
relative_position = -torch.min(relative_position, torch.zeros_like(relative_position))
# now relative_position is in the range [0, inf)
# half of the buckets are for exact increments in positions
max_exact = num_buckets // 2
is_small = relative_position < max_exact
# The other half of the buckets are for logarithmically bigger bins in positions up to max_distance
relative_position_if_large = max_exact + (
torch.log(relative_position.float() / max_exact)
/ math.log(max_distance / max_exact)
* (num_buckets - max_exact)
).to(torch.long)
relative_position_if_large = torch.min(
relative_position_if_large, torch.full_like(relative_position_if_large, num_buckets - 1)
)
relative_buckets += torch.where(is_small, relative_position, relative_position_if_large)
return relative_buckets
# Adapted from transformers.models.t5.modeling_t5.T5Attention.compute_bias
def compute_bias(self, query_length, key_length, device=None):
"""Compute binned relative position bias"""
if device is None:
device = self.relative_attention_bias.weight.device
context_position = torch.arange(query_length, dtype=torch.long, device=device)[:, None]
memory_position = torch.arange(key_length, dtype=torch.long, device=device)[None, :]
relative_position = memory_position - context_position # shape (query_length, key_length)
relative_position_bucket = self._relative_position_bucket(
relative_position, # shape (query_length, key_length)
bidirectional=False,
num_buckets=self.relative_attention_num_buckets,
max_distance=self.relative_attention_max_distance,
)
values = self.relative_attention_bias(relative_position_bucket) # shape (query_length, key_length, num_heads)
values = values.permute([2, 0, 1]).unsqueeze(0) # shape (1, num_heads, query_length, key_length)
return values
def forward(
self,
hidden_states,
mask=None,
key_value_states=None,
position_bias=None,
past_key_value=None,
layer_head_mask=None,
query_length=None,
use_cache=False,
output_attentions=False,
):
"""
Self-attention (if key_value_states is None) or attention over source sentence (provided by key_value_states).
"""
# Input is (batch_size, seq_length, dim)
# Mask is (batch_size, key_length) (non-causal) or (batch_size, key_length, key_length)
# past_key_value[0] is (batch_size, n_heads, q_len - 1, dim_per_head)
batch_size, seq_length = hidden_states.shape[:2]
real_seq_length = seq_length
if past_key_value is not None:
if len(past_key_value) != 2:
raise ValueError(
f"past_key_value should have 2 past states: keys and values. Got { len(past_key_value)} past states"
)
real_seq_length += past_key_value[0].shape[2] if query_length is None else query_length
key_length = real_seq_length if key_value_states is None else key_value_states.shape[1]
def to_projection_shape(states):
"""projection"""
return states.contiguous().view(batch_size, -1, self.n_heads, self.key_value_proj_dim).transpose(1, 2)
def project(hidden_states, proj_layer, key_value_states, past_key_value):
"""projects hidden states correctly to key/query states"""
if key_value_states is None:
# self-attn
# (batch_size, n_heads, seq_length, dim_per_head)
hidden_states = to_projection_shape(proj_layer(hidden_states))
elif past_key_value is None:
# cross-attn
# (batch_size, n_heads, seq_length, dim_per_head)
hidden_states = to_projection_shape(proj_layer(key_value_states))
if past_key_value is not None:
if key_value_states is None:
# self-attn
# (batch_size, n_heads, key_length, dim_per_head)
hidden_states = torch.cat([past_key_value, hidden_states], dim=2)
elif past_key_value.shape[2] != key_value_states.shape[1]:
# checking that the `sequence_length` of the `past_key_value` is the same as
# the provided `key_value_states` to support prefix tuning
# cross-attn
# (batch_size, n_heads, seq_length, dim_per_head)
hidden_states = to_projection_shape(proj_layer(key_value_states))
else:
# cross-attn
hidden_states = past_key_value
return hidden_states
# get query states
# (batch_size, n_heads, seq_length, dim_per_head)
query_states = to_projection_shape(self.query(hidden_states))
# get key/value states
key_states = project(
hidden_states, self.key, key_value_states, past_key_value[0] if past_key_value is not None else None
)
value_states = project(
hidden_states, self.value, key_value_states, past_key_value[1] if past_key_value is not None else None
)
# compute scores
scores = torch.matmul(
query_states, key_states.transpose(3, 2)
) # equivalent of torch.einsum("bnqd,bnkd->bnqk", query_states, key_states), compatible with onnx op>9
if position_bias is None:
if not self.has_relative_attention_bias:
position_bias = torch.zeros(
(1, self.n_heads, real_seq_length, key_length), device=scores.device, dtype=scores.dtype
)
if self.gradient_checkpointing and self.training:
position_bias.requires_grad = True
else:
position_bias = self.compute_bias(real_seq_length, key_length, device=scores.device)
# if key and values are already calculated
# we want only the last query position bias
if past_key_value is not None:
position_bias = position_bias[:, :, -hidden_states.size(1) :, :]
if mask is not None:
position_bias = position_bias + mask # (batch_size, n_heads, seq_length, key_length)
if self.pruned_heads:
mask = torch.ones(position_bias.shape[1])
mask[list(self.pruned_heads)] = 0
position_bias_masked = position_bias[:, mask.bool()]
else:
position_bias_masked = position_bias
scores += position_bias_masked
# (batch_size, n_heads, seq_length, key_length)
attn_weights = nn.functional.softmax(scores.float(), dim=-1).type_as(scores)
# (batch_size, n_heads, seq_length, key_length)
attn_weights = nn.functional.dropout(attn_weights, p=self.dropout, training=self.training)
# Mask heads if we want to
if layer_head_mask is not None:
attn_weights = attn_weights * layer_head_mask
attn_output = torch.matmul(attn_weights, value_states)
# (batch_size, seq_length, dim)
attn_output = attn_output.transpose(1, 2).contiguous().view(batch_size, -1, self.inner_dim)
attn_output = self.output(attn_output)
present_key_value_state = (key_states, value_states) if use_cache else None
outputs = (attn_output,) + (present_key_value_state,) + (position_bias,)
if output_attentions:
outputs = outputs + (attn_weights,)
return outputs
# Copied from transformers.models.t5.modeling_t5.T5LayerSelfAttention with T5LayerNorm->Pix2StructLayerNorm,T5Attention->Pix2StructTextAttention,self.SelfAttention->self.attention,config.d_model->config.hidden_size
class Pix2StructTextLayerSelfAttention(nn.Module):
def __init__(self, config, has_relative_attention_bias=False):
super().__init__()
self.attention = Pix2StructTextAttention(config, has_relative_attention_bias=has_relative_attention_bias)
self.layer_norm = Pix2StructLayerNorm(config.hidden_size, eps=config.layer_norm_epsilon)
self.dropout = nn.Dropout(config.dropout_rate)
def forward(
self,
hidden_states,
attention_mask=None,
position_bias=None,
layer_head_mask=None,
past_key_value=None,
use_cache=False,
output_attentions=False,
):
normed_hidden_states = self.layer_norm(hidden_states)
attention_output = self.attention(
normed_hidden_states,
mask=attention_mask,
position_bias=position_bias,
layer_head_mask=layer_head_mask,
past_key_value=past_key_value,
use_cache=use_cache,
output_attentions=output_attentions,
)
hidden_states = hidden_states + self.dropout(attention_output[0])
outputs = (hidden_states,) + attention_output[1:] # add attentions if we output them
return outputs
# Copied from transformers.models.t5.modeling_t5.T5LayerCrossAttention with T5LayerNorm->Pix2StructLayerNorm,T5Attention->Pix2StructTextAttention,self.EncDecAttention->self.attention,config.d_model->config.hidden_size
class Pix2StructTextLayerCrossAttention(nn.Module):
def __init__(self, config):
super().__init__()
self.attention = Pix2StructTextAttention(config, has_relative_attention_bias=False)
self.layer_norm = Pix2StructLayerNorm(config.hidden_size, eps=config.layer_norm_epsilon)
self.dropout = nn.Dropout(config.dropout_rate)
def forward(
self,
hidden_states,
key_value_states,
attention_mask=None,
position_bias=None,
layer_head_mask=None,
past_key_value=None,
use_cache=False,
query_length=None,
output_attentions=False,
):
normed_hidden_states = self.layer_norm(hidden_states)
attention_output = self.attention(
normed_hidden_states,
mask=attention_mask,
key_value_states=key_value_states,
position_bias=position_bias,
layer_head_mask=layer_head_mask,
past_key_value=past_key_value,
use_cache=use_cache,
query_length=query_length,
output_attentions=output_attentions,
)
layer_output = hidden_states + self.dropout(attention_output[0])
outputs = (layer_output,) + attention_output[1:] # add attentions if we output them
return outputs
class Pix2StructTextBlock(nn.Module):
def __init__(self, config, has_relative_attention_bias=False):
super().__init__()
self.self_attention = Pix2StructTextLayerSelfAttention(
config, has_relative_attention_bias=has_relative_attention_bias
)
self.encoder_decoder_attention = Pix2StructTextLayerCrossAttention(config)
self.mlp = Pix2StructTextLayerFF(config)
def forward(
self,
hidden_states,
attention_mask=None,
position_bias=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
encoder_decoder_position_bias=None,
layer_head_mask=None,
cross_attn_layer_head_mask=None,
past_key_value=None,
use_cache=False,
output_attentions=False,
return_dict=True,
):
if past_key_value is not None:
expected_num_past_key_values = 2 if encoder_hidden_states is None else 4
if len(past_key_value) != expected_num_past_key_values:
raise ValueError(
f"There should be {expected_num_past_key_values} past states. "
f"{'2 (past / key) for cross attention. ' if expected_num_past_key_values == 4 else ''}"
f"Got {len(past_key_value)} past key / value states"
)
self_attn_past_key_value = past_key_value[:2]
cross_attn_past_key_value = past_key_value[2:]
else:
self_attn_past_key_value, cross_attn_past_key_value = None, None
self_attention_outputs = self.self_attention(
hidden_states,
attention_mask=attention_mask,
position_bias=position_bias,
layer_head_mask=layer_head_mask,
past_key_value=self_attn_past_key_value,
use_cache=use_cache,
output_attentions=output_attentions,
)
hidden_states, present_key_value_state = self_attention_outputs[:2]
attention_outputs = self_attention_outputs[2:] # Keep self-attention outputs and relative position weights
# clamp inf values to enable fp16 training
if hidden_states.dtype == torch.float16 and torch.isinf(hidden_states).any():
clamp_value = torch.finfo(hidden_states.dtype).max - 1000
hidden_states = torch.clamp(hidden_states, min=-clamp_value, max=clamp_value)
do_cross_attention = encoder_hidden_states is not None
if do_cross_attention:
# the actual query length is unknown for cross attention
# if using past key value states. Need to inject it here
if present_key_value_state is not None:
query_length = present_key_value_state[0].shape[2]
else:
query_length = None
cross_attention_outputs = self.encoder_decoder_attention(
hidden_states,
key_value_states=encoder_hidden_states,
attention_mask=encoder_attention_mask,
position_bias=encoder_decoder_position_bias,
layer_head_mask=cross_attn_layer_head_mask,
past_key_value=cross_attn_past_key_value,
query_length=query_length,
use_cache=use_cache,
output_attentions=output_attentions,
)
hidden_states = cross_attention_outputs[0]
# clamp inf values to enable fp16 training
if hidden_states.dtype == torch.float16 and torch.isinf(hidden_states).any():
clamp_value = torch.finfo(hidden_states.dtype).max - 1000
hidden_states = torch.clamp(hidden_states, min=-clamp_value, max=clamp_value)
# Combine self attn and cross attn key value states
if present_key_value_state is not None:
present_key_value_state = present_key_value_state + cross_attention_outputs[1]
# Keep cross-attention outputs and relative position weights
attention_outputs = attention_outputs + cross_attention_outputs[2:]
# Apply Feed Forward layer
hidden_states = self.mlp(hidden_states)
# clamp inf values to enable fp16 training
if hidden_states.dtype == torch.float16 and torch.isinf(hidden_states).any():
clamp_value = torch.finfo(hidden_states.dtype).max - 1000
hidden_states = torch.clamp(hidden_states, min=-clamp_value, max=clamp_value)
outputs = (hidden_states,)
if use_cache:
outputs = outputs + (present_key_value_state,) + attention_outputs
else:
outputs = outputs + attention_outputs
return outputs
PIX2STRUCT_START_DOCSTRING = r"""
The Pix2Struct model was proposed in [Pix2Struct: Screenshot Parsing as Pretraining for Visual Language
Understanding](https://arxiv.org/abs/2210.03347) by Kenton Lee, Mandar Joshi, Iulia Turc, Hexiang Hu, Fangyu Liu,
Julian Eisenschlos, Urvashi Khandelwal, Peter Shaw, Ming-Wei Chang, Kristina Toutanova. It's an encoder decoder
transformer pre-trained in a image-to-text setting.
This model inherits from [`PreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) subclass.
Use it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage
and behavior.
Parameters:
config (Union[`Pix2StructConfig`, `Pix2StructTextConfig`]):
Model configuration class with all the parameters of the model. Initializing with a config file does not
load the weights associated with the model, only the configuration. Check out the
[`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
PIX2STRUCT_TEXT_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Pix2StructText is a model with relative position
embeddings so you should be able to pad the inputs on both the right and the left.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for detail.
[What are input IDs?](../glossary#input-ids)
To know more on how to prepare `input_ids` for pretraining take a look a [Pix2StructText
Training](./t5#training).
attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
decoder_input_ids (`torch.LongTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Indices of decoder input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are decoder input IDs?](../glossary#decoder-input-ids)
Pix2StructText uses the `pad_token_id` as the starting token for `decoder_input_ids` generation. If
`past_key_values` is used, optionally only the last `decoder_input_ids` have to be input (see
`past_key_values`).
To know more on how to prepare `decoder_input_ids` for pretraining take a look at [Pix2StructText
Training](./t5#training).
decoder_attention_mask (`torch.BoolTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Default behavior: generate a tensor that ignores pad tokens in `decoder_input_ids`. Causal mask will also
be used by default.
head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules in the encoder. Mask values selected in `[0,
1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
decoder_head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules in the decoder. Mask values selected in `[0,
1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
cross_attn_head_mask (`torch.Tensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the cross-attention modules in the decoder. Mask values selected in
`[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
encoder_outputs (`tuple(tuple(torch.FloatTensor)`, *optional*):
Tuple consists of (`last_hidden_state`, `optional`: *hidden_states*, `optional`: *attentions*)
`last_hidden_state` of shape `(batch_size, sequence_length, hidden_size)` is a sequence of hidden states at
the output of the last layer of the encoder. Used in the cross-attention of the decoder.
past_key_values (`tuple(tuple(torch.FloatTensor))` of length `config.n_layers` with each tuple having 4 tensors of shape `(batch_size, num_heads, sequence_length - 1, embed_size_per_head)`):
Contains precomputed key and value hidden states of the attention layers. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation. This
is useful if you want more control over how to convert `input_ids` indices into associated vectors than the
model's internal embedding lookup matrix.
decoder_inputs_embeds (`torch.FloatTensor` of shape `(batch_size, target_sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `decoder_input_ids` you can choose to directly pass an embedded
representation. If `past_key_values` is used, optionally only the last `decoder_inputs_embeds` have to be
input (see `past_key_values`). This is useful if you want more control over how to convert
`decoder_input_ids` indices into associated vectors than the model's internal embedding lookup matrix.
If `decoder_input_ids` and `decoder_inputs_embeds` are both unset, `decoder_inputs_embeds` takes the value
of `inputs_embeds`.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
PIX2STRUCT_INPUTS_DOCSTRING = r"""
Args:
flattened_patches (`torch.FloatTensor` of shape `(batch_size, seq_length, hidden_size)`):
Flattened pixel patches. the `hidden_size` is obtained by the following formula: `hidden_size` =
`num_channels` * `patch_size` * `patch_size`
The process of flattening the pixel patches is done by `Pix2StructProcessor`.
attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
decoder_input_ids (`torch.LongTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Indices of decoder input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are decoder input IDs?](../glossary#decoder-input-ids)
Pix2StructText uses the `pad_token_id` as the starting token for `decoder_input_ids` generation. If
`past_key_values` is used, optionally only the last `decoder_input_ids` have to be input (see
`past_key_values`).
To know more on how to prepare `decoder_input_ids` for pretraining take a look at [Pix2StructText
Training](./t5#training).
decoder_attention_mask (`torch.BoolTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Default behavior: generate a tensor that ignores pad tokens in `decoder_input_ids`. Causal mask will also
be used by default.
head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules in the encoder. Mask values selected in `[0,
1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
decoder_head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules in the decoder. Mask values selected in `[0,
1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
cross_attn_head_mask (`torch.Tensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the cross-attention modules in the decoder. Mask values selected in
`[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
encoder_outputs (`tuple(tuple(torch.FloatTensor)`, *optional*):
Tuple consists of (`last_hidden_state`, `optional`: *hidden_states*, `optional`: *attentions*)
`last_hidden_state` of shape `(batch_size, sequence_length, hidden_size)` is a sequence of hidden states at
the output of the last layer of the encoder. Used in the cross-attention of the decoder.
past_key_values (`tuple(tuple(torch.FloatTensor))` of length `config.n_layers` with each tuple having 4 tensors of shape `(batch_size, num_heads, sequence_length - 1, embed_size_per_head)`):
Contains precomputed key and value hidden states of the attention layers. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
decoder_inputs_embeds (`torch.FloatTensor` of shape `(batch_size, target_sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `decoder_input_ids` you can choose to directly pass an embedded
representation. If `past_key_values` is used, optionally only the last `decoder_inputs_embeds` have to be
input (see `past_key_values`). This is useful if you want more control over how to convert
`decoder_input_ids` indices into associated vectors than the model's internal embedding lookup matrix.
If `decoder_input_ids` and `decoder_inputs_embeds` are both unset, `decoder_inputs_embeds` takes the value
of `inputs_embeds`.
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the masked language modeling loss for the decoder.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
@add_start_docstrings(
"The standalone text decoder of Pix2Struct",
PIX2STRUCT_START_DOCSTRING,
)
class Pix2StructTextModel(Pix2StructPreTrainedModel):
config_class = Pix2StructTextConfig
_no_split_modules = ["Pix2StructTextBlock"]
_tied_weights_keys = ["lm_head.weight"]
supports_gradient_checkpointing = True
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, (Pix2StructTextAttention, Pix2StructTextModel)):
module.gradient_checkpointing = value
def __init__(self, config):
super().__init__(config)
self.embed_tokens = nn.Embedding(config.vocab_size, config.hidden_size)
self.layer = nn.ModuleList(
[Pix2StructTextBlock(config, has_relative_attention_bias=bool(i == 0)) for i in range(config.num_layers)]
)
self.final_layer_norm = Pix2StructLayerNorm(config.hidden_size, eps=config.layer_norm_epsilon)
self.dropout = nn.Dropout(config.dropout_rate)
self.lm_head = nn.Linear(config.hidden_size, config.vocab_size, bias=False)
# Initialize weights and apply final processing
self.post_init()
self.gradient_checkpointing = False
# Copied from transformers.models.t5.modeling_t5.T5PreTrainedModel._reorder_cache
def _reorder_cache(self, past_key_values, beam_idx):
# if decoder past is not included in output
# speedy decoding is disabled and no need to reorder
if past_key_values is None:
logger.warning("You might want to consider setting `use_cache=True` to speed up decoding")
return past_key_values
reordered_decoder_past = ()
for layer_past_states in past_key_values:
# get the correct batch idx from layer past batch dim
# batch dim of `past` is at 2nd position
reordered_layer_past_states = ()
for layer_past_state in layer_past_states:
# need to set correct `past` for each of the four key / value states
reordered_layer_past_states = reordered_layer_past_states + (
layer_past_state.index_select(0, beam_idx.to(layer_past_state.device)),
)
if reordered_layer_past_states[0].shape != layer_past_states[0].shape:
raise ValueError(
f"reordered_layer_past_states[0] shape {reordered_layer_past_states[0].shape} and layer_past_states[0] shape {layer_past_states[0].shape} mismatched"
)
if len(reordered_layer_past_states) != len(layer_past_states):
raise ValueError(
f"length of reordered_layer_past_states {len(reordered_layer_past_states)} and length of layer_past_states {len(layer_past_states)} mismatched"
)
reordered_decoder_past = reordered_decoder_past + (reordered_layer_past_states,)
return reordered_decoder_past
def get_input_embeddings(self):
return self.embed_tokens
def set_input_embeddings(self, new_embeddings):
self.embed_tokens = new_embeddings
def get_output_embeddings(self):
return self.lm_head
def set_output_embeddings(self, new_embeddings):
self.lm_head = new_embeddings
@add_start_docstrings_to_model_forward(PIX2STRUCT_TEXT_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=CausalLMOutputWithCrossAttentions, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids=None,
attention_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
inputs_embeds=None,
head_mask=None,
cross_attn_head_mask=None,
past_key_values=None,
use_cache=None,
output_attentions=None,
output_hidden_states=None,
labels=None,
return_dict=None,
**kwargs,
):
r"""
Returns:
Example:
```python
>>> from transformers import AutoProcessor, Pix2StructTextModel
>>> processor = AutoProcessor.from_pretrained("google/pix2struct-textcaps-base")
>>> model = Pix2StructTextModel.from_pretrained("google/pix2struct-textcaps-base")
>>> inputs = processor(text="Hello, my dog is cute", return_tensors="pt")
>>> outputs = model(**inputs)
>>> loss = outputs.loss
```
"""
use_cache = use_cache if use_cache is not None else self.config.use_cache
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both decoder_input_ids and decoder_inputs_embeds at the same time")
elif input_ids is not None:
input_shape = input_ids.size()
input_ids = input_ids.view(-1, input_shape[-1])
elif inputs_embeds is not None:
input_shape = inputs_embeds.size()[:-1]
else:
raise ValueError("You have to specify either decoder_input_ids or decoder_inputs_embeds")
if inputs_embeds is None:
assert self.embed_tokens is not None, "You have to initialize the model with valid token embeddings"
inputs_embeds = self.embed_tokens(input_ids)
batch_size, seq_length = input_shape
# required mask seq length can be calculated via length of past
mask_seq_length = past_key_values[0][0].shape[2] + seq_length if past_key_values is not None else seq_length
if attention_mask is None:
attention_mask = torch.ones(batch_size, mask_seq_length, device=inputs_embeds.device)
if encoder_attention_mask is None and encoder_hidden_states is not None:
encoder_seq_length = encoder_hidden_states.shape[1]
encoder_attention_mask = torch.ones(
batch_size, encoder_seq_length, device=inputs_embeds.device, dtype=torch.long
)
# initialize past_key_values with `None` if past does not exist
if past_key_values is None:
past_key_values = [None] * len(self.layer)
# We can provide a self-attention mask of dimensions [batch_size, from_seq_length, to_seq_length]
# ourselves in which case we just need to make it broadcastable to all heads.
extended_attention_mask = self.get_extended_attention_mask(attention_mask, input_shape)
# If a 2D or 3D attention mask is provided for the cross-attention
# we need to make broadcastable to [batch_size, num_heads, seq_length, seq_length]
if encoder_hidden_states is not None:
encoder_batch_size, encoder_sequence_length, _ = encoder_hidden_states.size()
encoder_hidden_shape = (encoder_batch_size, encoder_sequence_length)
if encoder_attention_mask is None:
encoder_attention_mask = torch.ones(encoder_hidden_shape, device=inputs_embeds.device)
encoder_extended_attention_mask = self.invert_attention_mask(encoder_attention_mask)
else:
encoder_extended_attention_mask = None
# Prepare head mask if needed
head_mask = self.get_head_mask(head_mask, self.config.num_layers)
cross_attn_head_mask = self.get_head_mask(cross_attn_head_mask, self.config.num_layers)
present_key_value_states = () if use_cache else None
all_hidden_states = () if output_hidden_states else None
all_attentions = () if output_attentions else None
all_cross_attentions = () if (output_attentions) else None
position_bias = None
encoder_decoder_position_bias = None
hidden_states = self.dropout(inputs_embeds)
for i, (layer_module, past_key_value) in enumerate(zip(self.layer, past_key_values)):
layer_head_mask = head_mask[i]
cross_attn_layer_head_mask = cross_attn_head_mask[i]
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
if self.gradient_checkpointing and self.training:
if use_cache:
logger.warning(
"`use_cache=True` is incompatible with gradient checkpointing. Setting `use_cache=False`..."
)
use_cache = False
def create_custom_forward(module):
def custom_forward(*inputs):
return tuple(module(*inputs, use_cache, output_attentions))
return custom_forward
layer_outputs = checkpoint(
create_custom_forward(layer_module),
hidden_states,
extended_attention_mask,
position_bias,
encoder_hidden_states,
encoder_extended_attention_mask,
encoder_decoder_position_bias,
layer_head_mask,
cross_attn_layer_head_mask,
None, # past_key_value is always None with gradient checkpointing
)
else:
layer_outputs = layer_module(
hidden_states,
attention_mask=extended_attention_mask,
position_bias=position_bias,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_extended_attention_mask,
encoder_decoder_position_bias=encoder_decoder_position_bias,
layer_head_mask=layer_head_mask,
cross_attn_layer_head_mask=cross_attn_layer_head_mask,
past_key_value=past_key_value,
use_cache=use_cache,
output_attentions=output_attentions,
)
# layer_outputs is a tuple with:
# hidden-states, key-value-states, (self-attention position bias), (self-attention weights), (cross-attention position bias), (cross-attention weights)
if use_cache is False:
layer_outputs = layer_outputs[:1] + (None,) + layer_outputs[1:]
hidden_states, present_key_value_state = layer_outputs[:2]
# We share the position biases between the layers - the first layer store them
# layer_outputs = hidden-states, key-value-states (self-attention position bias), (self-attention weights),
# (cross-attention position bias), (cross-attention weights)
position_bias = layer_outputs[2]
if encoder_hidden_states is not None:
encoder_decoder_position_bias = layer_outputs[4 if output_attentions else 3]
# append next layer key value states
if use_cache:
present_key_value_states = present_key_value_states + (present_key_value_state,)
if output_attentions:
all_attentions = all_attentions + (layer_outputs[3],)
if encoder_hidden_states is not None:
all_cross_attentions = all_cross_attentions + (layer_outputs[5],)
hidden_states = self.final_layer_norm(hidden_states)
hidden_states = self.dropout(hidden_states)
logits = self.lm_head(hidden_states)
# Add last layer
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
loss = None
if labels is not None:
# move labels to correct device to enable model parallelism
labels = labels.to(logits.device)
loss_fct = nn.CrossEntropyLoss(ignore_index=-100, reduction="mean")
loss = loss_fct(logits.contiguous().view(-1, logits.size(-1)), labels.contiguous().view(-1))
if not return_dict:
return tuple(
v
for v in [
loss,
logits,
present_key_value_states,
all_hidden_states,
all_attentions,
all_cross_attentions,
]
if v is not None
)
return CausalLMOutputWithCrossAttentions(
loss=loss,
logits=logits,
past_key_values=present_key_value_states,
hidden_states=all_hidden_states,
attentions=all_attentions,
cross_attentions=all_cross_attentions,
)
@add_start_docstrings(
"A conditional generation model with a language modeling head. Can be used for sequence generation tasks.",
PIX2STRUCT_START_DOCSTRING,
)
class Pix2StructForConditionalGeneration(Pix2StructPreTrainedModel):
config_class = Pix2StructConfig
main_input_name = "flattened_patches"
_tied_weights_keys = ["decoder.lm_head.weight"]
def __init__(self, config: Pix2StructConfig):
super().__init__(config)
self.encoder = Pix2StructVisionModel(config.vision_config)
self.decoder = Pix2StructTextModel(config.text_config)
self.is_vqa = config.is_vqa
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.decoder.get_input_embeddings()
def set_input_embeddings(self, new_embeddings):
self.decoder.set_input_embeddings(new_embeddings)
def get_output_embeddings(self) -> nn.Module:
return self.decoder.get_output_embeddings()
def set_output_embeddings(self, new_embeddings):
self.decoder.set_output_embeddings(new_embeddings)
def resize_token_embeddings(self, new_num_tokens: Optional[int] = None) -> nn.Embedding:
model_embeds = self.decoder.resize_token_embeddings(new_num_tokens)
# update vocab size
self.config.text_config.vocab_size = new_num_tokens
return model_embeds
def get_decoder(self):
return self.decoder
def get_encoder(self):
return self.encoder
@add_start_docstrings_to_model_forward(PIX2STRUCT_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=Seq2SeqModelOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
flattened_patches: Optional[torch.FloatTensor] = None,
attention_mask: Optional[torch.FloatTensor] = None,
decoder_input_ids: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.BoolTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
decoder_head_mask: Optional[torch.FloatTensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
past_key_values: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
labels: Optional[torch.LongTensor] = None,
decoder_inputs_embeds: Optional[torch.Tensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.FloatTensor], Seq2SeqModelOutput]:
r"""
Returns:
Example:
Inference:
```python
>>> from PIL import Image
>>> import requests
>>> from transformers import AutoProcessor, Pix2StructForConditionalGeneration
>>> processor = AutoProcessor.from_pretrained("google/pix2struct-textcaps-base")
>>> model = Pix2StructForConditionalGeneration.from_pretrained("google/pix2struct-textcaps-base")
>>> url = "https://www.ilankelman.org/stopsigns/australia.jpg"
>>> image = Image.open(requests.get(url, stream=True).raw)
>>> inputs = processor(images=image, return_tensors="pt")
>>> # autoregressive generation
>>> generated_ids = model.generate(**inputs, max_new_tokens=50)
>>> generated_text = processor.batch_decode(generated_ids, skip_special_tokens=True)[0]
>>> print(generated_text)
A stop sign is on a street corner.
>>> # conditional generation
>>> text = "A picture of"
>>> inputs = processor(text=text, images=image, return_tensors="pt", add_special_tokens=False)
>>> generated_ids = model.generate(**inputs, max_new_tokens=50)
>>> generated_text = processor.batch_decode(generated_ids, skip_special_tokens=True)[0]
>>> print(generated_text)
A picture of a stop sign with a red stop sign
```
Training:
```python
>>> from PIL import Image
>>> import requests
>>> from transformers import AutoProcessor, Pix2StructForConditionalGeneration
>>> processor = AutoProcessor.from_pretrained("google/pix2struct-base")
>>> model = Pix2StructForConditionalGeneration.from_pretrained("google/pix2struct-base")
>>> url = "https://www.ilankelman.org/stopsigns/australia.jpg"
>>> image = Image.open(requests.get(url, stream=True).raw)
>>> text = "A stop sign is on the street corner."
>>> inputs = processor(images=image, return_tensors="pt")
>>> labels = processor(text=text, return_tensors="pt").input_ids
>>> # forward pass
>>> outputs = model(**inputs, labels=labels)
>>> loss = outputs.loss
>>> print(f"{loss.item():.5f}")
5.94282
```"""
use_cache = use_cache if use_cache is not None else self.config.text_config.use_cache
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# Encode if needed (training, first prediction pass)
if encoder_outputs is None:
encoder_outputs = self.encoder(
flattened_patches=flattened_patches,
attention_mask=attention_mask,
head_mask=head_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
elif return_dict and not isinstance(encoder_outputs, BaseModelOutput):
encoder_outputs = BaseModelOutput(
last_hidden_state=encoder_outputs[0],
hidden_states=encoder_outputs[1] if len(encoder_outputs) > 1 else None,
attentions=encoder_outputs[2] if len(encoder_outputs) > 2 else None,
)
hidden_states = encoder_outputs[0]
if labels is not None and decoder_input_ids is None and decoder_inputs_embeds is None:
# get decoder inputs from shifting lm labels to the right
decoder_input_ids = self._shift_right(labels)
decoder_attention_mask = (
decoder_attention_mask
if decoder_attention_mask is not None
else decoder_input_ids.ne(self.config.pad_token_id).float()
)
# Always attend to the first token
decoder_attention_mask[:, 0] = 1
# Decode
decoder_outputs = self.decoder(
input_ids=decoder_input_ids,
attention_mask=decoder_attention_mask,
inputs_embeds=decoder_inputs_embeds,
past_key_values=past_key_values,
encoder_hidden_states=hidden_states,
encoder_attention_mask=attention_mask,
head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
labels=labels,
return_dict=return_dict,
)
if not return_dict:
return decoder_outputs + encoder_outputs
return Seq2SeqLMOutput(
loss=decoder_outputs.loss,
logits=decoder_outputs.logits,
past_key_values=decoder_outputs.past_key_values,
decoder_hidden_states=decoder_outputs.hidden_states,
decoder_attentions=decoder_outputs.attentions,
cross_attentions=decoder_outputs.cross_attentions,
encoder_last_hidden_state=encoder_outputs.last_hidden_state,
encoder_hidden_states=encoder_outputs.hidden_states,
encoder_attentions=encoder_outputs.attentions,
)
def prepare_inputs_for_generation(
self,
input_ids,
flattened_patches: Optional[torch.FloatTensor] = None,
attention_mask: Optional[torch.FloatTensor] = None,
decoder_attention_mask: Optional[torch.BoolTensor] = None,
past_key_values=None,
head_mask=None,
decoder_head_mask=None,
cross_attn_head_mask=None,
use_cache=None,
encoder_outputs=None,
**kwargs,
):
if decoder_attention_mask is None:
decoder_attention_mask = torch.ones_like(input_ids).to(input_ids.device)
# cut decoder_input_ids if past is used
if past_key_values is not None:
input_ids = input_ids[:, -1:]
return {
"flattened_patches": flattened_patches,
"decoder_input_ids": input_ids,
"past_key_values": past_key_values,
"encoder_outputs": encoder_outputs,
"attention_mask": attention_mask,
"decoder_attention_mask": decoder_attention_mask,
"head_mask": head_mask,
"decoder_head_mask": decoder_head_mask,
"cross_attn_head_mask": cross_attn_head_mask,
"use_cache": use_cache,
}
| transformers-main | src/transformers/models/pix2struct/modeling_pix2struct.py |
# coding=utf-8
# Copyright 2023 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Image processor class for Pix2Struct."""
import io
import math
from typing import Dict, Optional, Union
import numpy as np
from huggingface_hub import hf_hub_download
from ...image_processing_utils import BaseImageProcessor, BatchFeature
from ...image_transforms import convert_to_rgb, normalize, to_channel_dimension_format, to_pil_image
from ...image_utils import (
ChannelDimension,
ImageInput,
get_image_size,
infer_channel_dimension_format,
make_list_of_images,
to_numpy_array,
valid_images,
)
from ...utils import TensorType, is_torch_available, is_vision_available, logging
from ...utils.import_utils import requires_backends
if is_vision_available():
import textwrap
from PIL import Image, ImageDraw, ImageFont
if is_torch_available():
import torch
from transformers.pytorch_utils import is_torch_greater_or_equal_than_1_11
else:
is_torch_greater_or_equal_than_1_11 = False
logger = logging.get_logger(__name__)
DEFAULT_FONT_PATH = "ybelkada/fonts"
def _check_torch_version():
if is_torch_available() and not is_torch_greater_or_equal_than_1_11:
raise ImportError(
f"You are using torch=={torch.__version__}, but torch>=1.11.0 is required to use "
"Pix2StructImageProcessor. Please upgrade torch."
)
# adapted from: https://discuss.pytorch.org/t/tf-image-extract-patches-in-pytorch/171409/2
def torch_extract_patches(image_tensor, patch_height, patch_width):
"""
Utiliy function to extract patches from a given image tensor. Returns a tensor of shape (1, `patch_height`,
`patch_width`, `num_channels`x `patch_height` x `patch_width`)
Args:
image_tensor (torch.Tensor):
The image tensor to extract patches from.
patch_height (int):
The height of the patches to extract.
patch_width (int):
The width of the patches to extract.
"""
requires_backends(torch_extract_patches, ["torch"])
_check_torch_version()
image_tensor = image_tensor.unsqueeze(0)
patches = torch.nn.functional.unfold(image_tensor, (patch_height, patch_width), stride=(patch_height, patch_width))
patches = patches.reshape(image_tensor.size(0), image_tensor.size(1), patch_height, patch_width, -1)
patches = patches.permute(0, 4, 2, 3, 1).reshape(
image_tensor.size(2) // patch_height,
image_tensor.size(3) // patch_width,
image_tensor.size(1) * patch_height * patch_width,
)
return patches.unsqueeze(0)
# Adapted from https://github.com/google-research/pix2struct/blob/0e1779af0f4db4b652c1d92b3bbd2550a7399123/pix2struct/preprocessing/preprocessing_utils.py#L106
def render_text(
text: str,
text_size: int = 36,
text_color: str = "black",
background_color: str = "white",
left_padding: int = 5,
right_padding: int = 5,
top_padding: int = 5,
bottom_padding: int = 5,
font_bytes: Optional[bytes] = None,
font_path: Optional[str] = None,
) -> Image.Image:
"""
Render text. This script is entirely adapted from the original script that can be found here:
https://github.com/google-research/pix2struct/blob/main/pix2struct/preprocessing/preprocessing_utils.py
Args:
text (`str`, *optional*, defaults to ):
Text to render.
text_size (`int`, *optional*, defaults to 36):
Size of the text.
text_color (`str`, *optional*, defaults to `"black"`):
Color of the text.
background_color (`str`, *optional*, defaults to `"white"`):
Color of the background.
left_padding (`int`, *optional*, defaults to 5):
Padding on the left.
right_padding (`int`, *optional*, defaults to 5):
Padding on the right.
top_padding (`int`, *optional*, defaults to 5):
Padding on the top.
bottom_padding (`int`, *optional*, defaults to 5):
Padding on the bottom.
font_bytes (`bytes`, *optional*):
Bytes of the font to use. If `None`, the default font will be used.
font_path (`str`, *optional*):
Path to the font to use. If `None`, the default font will be used.
"""
requires_backends(render_text, "vision")
# Add new lines so that each line is no more than 80 characters.
wrapper = textwrap.TextWrapper(width=80)
lines = wrapper.wrap(text=text)
wrapped_text = "\n".join(lines)
if font_bytes is not None and font_path is None:
font = io.BytesIO(font_bytes)
elif font_path is not None:
font = font_path
else:
font = hf_hub_download(DEFAULT_FONT_PATH, "Arial.TTF")
font = ImageFont.truetype(font, encoding="UTF-8", size=text_size)
# Use a temporary canvas to determine the width and height in pixels when
# rendering the text.
temp_draw = ImageDraw.Draw(Image.new("RGB", (1, 1), background_color))
_, _, text_width, text_height = temp_draw.textbbox((0, 0), wrapped_text, font)
# Create the actual image with a bit of padding around the text.
image_width = text_width + left_padding + right_padding
image_height = text_height + top_padding + bottom_padding
image = Image.new("RGB", (image_width, image_height), background_color)
draw = ImageDraw.Draw(image)
draw.text(xy=(left_padding, top_padding), text=wrapped_text, fill=text_color, font=font)
return image
# Adapted from https://github.com/google-research/pix2struct/blob/0e1779af0f4db4b652c1d92b3bbd2550a7399123/pix2struct/preprocessing/preprocessing_utils.py#L87
def render_header(image: np.ndarray, header: str, **kwargs):
"""
Renders the input text as a header on the input image.
Args:
image (`np.ndarray`):
The image to render the header on.
header (`str`):
The header text.
data_format (`Union[ChannelDimension, str]`, *optional*):
The data format of the image. Can be either "ChannelDimension.channels_first" or
"ChannelDimension.channels_last".
Returns:
`np.ndarray`: The image with the header rendered.
"""
requires_backends(render_header, "vision")
# Convert to PIL image if necessary
image = to_pil_image(image)
header_image = render_text(header, **kwargs)
new_width = max(header_image.width, image.width)
new_height = int(image.height * (new_width / image.width))
new_header_height = int(header_image.height * (new_width / header_image.width))
new_image = Image.new("RGB", (new_width, new_height + new_header_height), "white")
new_image.paste(header_image.resize((new_width, new_header_height)), (0, 0))
new_image.paste(image.resize((new_width, new_height)), (0, new_header_height))
# Convert back to the original framework if necessary
new_image = to_numpy_array(new_image)
if infer_channel_dimension_format(new_image) == ChannelDimension.LAST:
new_image = to_channel_dimension_format(new_image, ChannelDimension.LAST)
return new_image
class Pix2StructImageProcessor(BaseImageProcessor):
r"""
Constructs a Pix2Struct image processor.
Args:
do_convert_rgb (`bool`, *optional*, defaults to `True`):
Whether to convert the image to RGB.
do_normalize (`bool`, *optional*, defaults to `True`):
Whether to normalize the image. Can be overridden by the `do_normalize` parameter in the `preprocess`
method. According to Pix2Struct paper and code, the image is normalized with its own mean and standard
deviation.
patch_size (`Dict[str, int]`, *optional*, defaults to `{"height": 16, "width": 16}`):
The patch size to use for the image. According to Pix2Struct paper and code, the patch size is 16x16.
max_patches (`int`, *optional*, defaults to 2048):
The maximum number of patches to extract from the image as per the [Pix2Struct
paper](https://arxiv.org/pdf/2210.03347.pdf).
is_vqa (`bool`, *optional*, defaults to `False`):
Whether or not the image processor is for the VQA task. If `True` and `header_text` is passed in, text is
rendered onto the input images.
"""
model_input_names = ["flattened_patches"]
def __init__(
self,
do_convert_rgb: bool = True,
do_normalize: bool = True,
patch_size: Dict[str, int] = None,
max_patches: int = 2048,
is_vqa: bool = False,
**kwargs,
) -> None:
super().__init__(**kwargs)
self.patch_size = patch_size if patch_size is not None else {"height": 16, "width": 16}
self.do_normalize = do_normalize
self.do_convert_rgb = do_convert_rgb
self.max_patches = max_patches
self.is_vqa = is_vqa
def extract_flattened_patches(self, image: np.ndarray, max_patches: int, patch_size: dict, **kwargs) -> np.ndarray:
"""
Extract flattened patches from an image.
Args:
image (`np.ndarray`):
Image to extract flattened patches from.
max_patches (`int`):
Maximum number of patches to extract.
patch_size (`dict`):
Dictionary containing the patch height and width.
Returns:
result (`np.ndarray`):
A sequence of `max_patches` flattened patches.
"""
requires_backends(self.extract_flattened_patches, "torch")
_check_torch_version()
# convert to torch
image = to_channel_dimension_format(image, ChannelDimension.FIRST)
image = torch.from_numpy(image)
patch_height, patch_width = patch_size["height"], patch_size["width"]
image_height, image_width = get_image_size(image)
# maximize scale s.t.
scale = math.sqrt(max_patches * (patch_height / image_height) * (patch_width / image_width))
num_feasible_rows = max(min(math.floor(scale * image_height / patch_height), max_patches), 1)
num_feasible_cols = max(min(math.floor(scale * image_width / patch_width), max_patches), 1)
resized_height = max(num_feasible_rows * patch_height, 1)
resized_width = max(num_feasible_cols * patch_width, 1)
image = torch.nn.functional.interpolate(
image.unsqueeze(0),
size=(resized_height, resized_width),
mode="bilinear",
align_corners=False,
antialias=True,
).squeeze(0)
# [1, rows, columns, patch_height * patch_width * image_channels]
patches = torch_extract_patches(image, patch_height, patch_width)
patches_shape = patches.shape
rows = patches_shape[1]
columns = patches_shape[2]
depth = patches_shape[3]
# [rows * columns, patch_height * patch_width * image_channels]
patches = patches.reshape([rows * columns, depth])
# [rows * columns, 1]
row_ids = torch.arange(rows).reshape([rows, 1]).repeat(1, columns).reshape([rows * columns, 1])
col_ids = torch.arange(columns).reshape([1, columns]).repeat(rows, 1).reshape([rows * columns, 1])
# Offset by 1 so the ids do not contain zeros, which represent padding.
row_ids += 1
col_ids += 1
# Prepare additional patch features.
# [rows * columns, 1]
row_ids = row_ids.to(torch.float32)
col_ids = col_ids.to(torch.float32)
# [rows * columns, 2 + patch_height * patch_width * image_channels]
result = torch.cat([row_ids, col_ids, patches], -1)
# [max_patches, 2 + patch_height * patch_width * image_channels]
result = torch.nn.functional.pad(result, [0, 0, 0, max_patches - (rows * columns)]).float()
result = to_numpy_array(result)
return result
def normalize(
self, image: np.ndarray, data_format: Optional[Union[str, ChannelDimension]] = None, **kwargs
) -> np.ndarray:
"""
Normalize an image. image = (image - image_mean) / image_std.
The image std is to mimic the tensorflow implementation of the `per_image_standardization`:
https://www.tensorflow.org/api_docs/python/tf/image/per_image_standardization
Args:
image (`np.ndarray`):
Image to normalize.
"""
if image.dtype == np.uint8:
image = image.astype(np.float32)
# take mean across the whole `image`
mean = np.mean(image)
std = np.std(image)
adjusted_stddev = max(std, 1.0 / math.sqrt(np.prod(image.shape)))
return normalize(image, mean=mean, std=adjusted_stddev, **kwargs)
def preprocess(
self,
images: ImageInput,
header_text: Optional[str] = None,
do_convert_rgb: bool = None,
do_normalize: Optional[bool] = None,
max_patches: Optional[int] = None,
patch_size: Optional[Dict[str, int]] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
data_format: ChannelDimension = ChannelDimension.FIRST,
**kwargs,
) -> ImageInput:
"""
Preprocess an image or batch of images. The processor first computes the maximum possible number of
aspect-ratio preserving patches of size `patch_size` that can be extracted from the image. It then pads the
image with zeros to make the image respect the constraint of `max_patches`. Before extracting the patches the
images are standardized following the tensorflow implementation of `per_image_standardization`
(https://www.tensorflow.org/api_docs/python/tf/image/per_image_standardization).
Args:
images (`ImageInput`):
Image to preprocess.
header_text (`Union[List[str], str]`, *optional*):
Text to render as a header. Only has an effect if `image_processor.is_vqa` is `True`.
do_convert_rgb (`bool`, *optional*, defaults to `self.do_convert_rgb`):
Whether to convert the image to RGB.
do_normalize (`bool`, *optional*, defaults to `self.do_normalize`):
Whether to normalize the image.
max_patches (`int`, *optional*, defaults to `self.max_patches`):
Maximum number of patches to extract.
patch_size (`dict`, *optional*, defaults to `self.patch_size`):
Dictionary containing the patch height and width.
return_tensors (`str` or `TensorType`, *optional*):
The type of tensors to return. Can be one of:
- Unset: Return a list of `np.ndarray`.
- `TensorType.TENSORFLOW` or `'tf'`: Return a batch of type `tf.Tensor`.
- `TensorType.PYTORCH` or `'pt'`: Return a batch of type `torch.Tensor`.
- `TensorType.NUMPY` or `'np'`: Return a batch of type `np.ndarray`.
- `TensorType.JAX` or `'jax'`: Return a batch of type `jax.numpy.ndarray`.
"""
do_normalize = do_normalize if do_normalize is not None else self.do_normalize
do_convert_rgb = do_convert_rgb if do_convert_rgb is not None else self.do_convert_rgb
patch_size = patch_size if patch_size is not None else self.patch_size
max_patches = max_patches if max_patches is not None else self.max_patches
is_vqa = self.is_vqa
if kwargs.get("data_format", None) is not None:
raise ValueError("data_format is not an accepted input as the outputs are ")
images = make_list_of_images(images)
if not valid_images(images):
raise ValueError(
"Invalid image type. Must be of type PIL.Image.Image, numpy.ndarray, "
"torch.Tensor, tf.Tensor or jax.ndarray."
)
# PIL RGBA images are converted to RGB
if do_convert_rgb:
images = [convert_to_rgb(image) for image in images]
# All transformations expect numpy arrays.
images = [to_numpy_array(image) for image in images]
if is_vqa:
if header_text is None:
raise ValueError("A header text must be provided for VQA models.")
font_bytes = kwargs.pop("font_bytes", None)
font_path = kwargs.pop("font_path", None)
if isinstance(header_text, str):
header_text = [header_text] * len(images)
images = [
render_header(image, header_text[i], font_bytes=font_bytes, font_path=font_path)
for i, image in enumerate(images)
]
if do_normalize:
images = [self.normalize(image=image) for image in images]
# convert to torch tensor and permute
images = [
self.extract_flattened_patches(image=image, max_patches=max_patches, patch_size=patch_size)
for image in images
]
# create attention mask in numpy
attention_masks = [(image.sum(axis=-1) != 0).astype(np.float32) for image in images]
encoded_outputs = BatchFeature(
data={"flattened_patches": images, "attention_mask": attention_masks}, tensor_type=return_tensors
)
return encoded_outputs
| transformers-main | src/transformers/models/pix2struct/image_processing_pix2struct.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Feature extractor class for Conditional DETR."""
import warnings
from ...utils import logging
from .image_processing_conditional_detr import ConditionalDetrImageProcessor
logger = logging.get_logger(__name__)
class ConditionalDetrFeatureExtractor(ConditionalDetrImageProcessor):
def __init__(self, *args, **kwargs) -> None:
warnings.warn(
"The class ConditionalDetrFeatureExtractor is deprecated and will be removed in version 5 of Transformers."
" Please use ConditionalDetrImageProcessor instead.",
FutureWarning,
)
super().__init__(*args, **kwargs)
| transformers-main | src/transformers/models/conditional_detr/feature_extraction_conditional_detr.py |
# coding=utf-8
# Copyright 2022 Microsoft Research Asia and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch Conditional DETR model."""
import math
from dataclasses import dataclass
from typing import Dict, List, Optional, Tuple, Union
import torch
from torch import Tensor, nn
from ...activations import ACT2FN
from ...modeling_outputs import BaseModelOutput, BaseModelOutputWithCrossAttentions, Seq2SeqModelOutput
from ...modeling_utils import PreTrainedModel
from ...utils import (
ModelOutput,
add_start_docstrings,
add_start_docstrings_to_model_forward,
is_scipy_available,
is_timm_available,
is_vision_available,
logging,
replace_return_docstrings,
requires_backends,
)
from ..auto import AutoBackbone
from .configuration_conditional_detr import ConditionalDetrConfig
if is_scipy_available():
from scipy.optimize import linear_sum_assignment
if is_timm_available():
from timm import create_model
if is_vision_available():
from ...image_transforms import center_to_corners_format
logger = logging.get_logger(__name__)
_CONFIG_FOR_DOC = "ConditionalDetrConfig"
_CHECKPOINT_FOR_DOC = "microsoft/conditional-detr-resnet-50"
CONDITIONAL_DETR_PRETRAINED_MODEL_ARCHIVE_LIST = [
"microsoft/conditional-detr-resnet-50",
# See all Conditional DETR models at https://huggingface.co/models?filter=conditional_detr
]
@dataclass
class ConditionalDetrDecoderOutput(BaseModelOutputWithCrossAttentions):
"""
Base class for outputs of the Conditional DETR decoder. This class adds one attribute to
BaseModelOutputWithCrossAttentions, namely an optional stack of intermediate decoder activations, i.e. the output
of each decoder layer, each of them gone through a layernorm. This is useful when training the model with auxiliary
decoding losses.
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the model.
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`. Hidden-states of the model at the output of each layer
plus the initial embedding outputs.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights after the attention softmax, used to compute the weighted average in
the self-attention heads.
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` and `config.add_cross_attention=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights of the decoder's cross-attention layer, after the attention softmax,
used to compute the weighted average in the cross-attention heads.
intermediate_hidden_states (`torch.FloatTensor` of shape `(config.decoder_layers, batch_size, num_queries, hidden_size)`, *optional*, returned when `config.auxiliary_loss=True`):
Intermediate decoder activations, i.e. the output of each decoder layer, each of them gone through a
layernorm.
"""
intermediate_hidden_states: Optional[torch.FloatTensor] = None
reference_points: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
class ConditionalDetrModelOutput(Seq2SeqModelOutput):
"""
Base class for outputs of the Conditional DETR encoder-decoder model. This class adds one attribute to
Seq2SeqModelOutput, namely an optional stack of intermediate decoder activations, i.e. the output of each decoder
layer, each of them gone through a layernorm. This is useful when training the model with auxiliary decoding
losses.
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the decoder of the model.
decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`. Hidden-states of the decoder at the output of each
layer plus the initial embedding outputs.
decoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights of the decoder, after the attention softmax, used to compute the
weighted average in the self-attention heads.
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights of the decoder's cross-attention layer, after the attention softmax,
used to compute the weighted average in the cross-attention heads.
encoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder of the model.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`. Hidden-states of the encoder at the output of each
layer plus the initial embedding outputs.
encoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights of the encoder, after the attention softmax, used to compute the
weighted average in the self-attention heads.
intermediate_hidden_states (`torch.FloatTensor` of shape `(config.decoder_layers, batch_size, sequence_length, hidden_size)`, *optional*, returned when `config.auxiliary_loss=True`):
Intermediate decoder activations, i.e. the output of each decoder layer, each of them gone through a
layernorm.
"""
intermediate_hidden_states: Optional[torch.FloatTensor] = None
reference_points: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
# Copied from transformers.models.detr.modeling_detr.DetrObjectDetectionOutput with Detr->ConditionalDetr
class ConditionalDetrObjectDetectionOutput(ModelOutput):
"""
Output type of [`ConditionalDetrForObjectDetection`].
Args:
loss (`torch.FloatTensor` of shape `(1,)`, *optional*, returned when `labels` are provided)):
Total loss as a linear combination of a negative log-likehood (cross-entropy) for class prediction and a
bounding box loss. The latter is defined as a linear combination of the L1 loss and the generalized
scale-invariant IoU loss.
loss_dict (`Dict`, *optional*):
A dictionary containing the individual losses. Useful for logging.
logits (`torch.FloatTensor` of shape `(batch_size, num_queries, num_classes + 1)`):
Classification logits (including no-object) for all queries.
pred_boxes (`torch.FloatTensor` of shape `(batch_size, num_queries, 4)`):
Normalized boxes coordinates for all queries, represented as (center_x, center_y, width, height). These
values are normalized in [0, 1], relative to the size of each individual image in the batch (disregarding
possible padding). You can use [`~ConditionalDetrImageProcessor.post_process_object_detection`] to retrieve
the unnormalized bounding boxes.
auxiliary_outputs (`list[Dict]`, *optional*):
Optional, only returned when auxilary losses are activated (i.e. `config.auxiliary_loss` is set to `True`)
and labels are provided. It is a list of dictionaries containing the two above keys (`logits` and
`pred_boxes`) for each decoder layer.
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the decoder of the model.
decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`. Hidden-states of the decoder at the output of each
layer plus the initial embedding outputs.
decoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights of the decoder, after the attention softmax, used to compute the
weighted average in the self-attention heads.
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights of the decoder's cross-attention layer, after the attention softmax,
used to compute the weighted average in the cross-attention heads.
encoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder of the model.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`. Hidden-states of the encoder at the output of each
layer plus the initial embedding outputs.
encoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights of the encoder, after the attention softmax, used to compute the
weighted average in the self-attention heads.
"""
loss: Optional[torch.FloatTensor] = None
loss_dict: Optional[Dict] = None
logits: torch.FloatTensor = None
pred_boxes: torch.FloatTensor = None
auxiliary_outputs: Optional[List[Dict]] = None
last_hidden_state: Optional[torch.FloatTensor] = None
decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
decoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
cross_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_last_hidden_state: Optional[torch.FloatTensor] = None
encoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
encoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
# Copied from transformers.models.detr.modeling_detr.DetrSegmentationOutput with Detr->ConditionalDetr
class ConditionalDetrSegmentationOutput(ModelOutput):
"""
Output type of [`ConditionalDetrForSegmentation`].
Args:
loss (`torch.FloatTensor` of shape `(1,)`, *optional*, returned when `labels` are provided)):
Total loss as a linear combination of a negative log-likehood (cross-entropy) for class prediction and a
bounding box loss. The latter is defined as a linear combination of the L1 loss and the generalized
scale-invariant IoU loss.
loss_dict (`Dict`, *optional*):
A dictionary containing the individual losses. Useful for logging.
logits (`torch.FloatTensor` of shape `(batch_size, num_queries, num_classes + 1)`):
Classification logits (including no-object) for all queries.
pred_boxes (`torch.FloatTensor` of shape `(batch_size, num_queries, 4)`):
Normalized boxes coordinates for all queries, represented as (center_x, center_y, width, height). These
values are normalized in [0, 1], relative to the size of each individual image in the batch (disregarding
possible padding). You can use [`~ConditionalDetrImageProcessor.post_process_object_detection`] to retrieve
the unnormalized bounding boxes.
pred_masks (`torch.FloatTensor` of shape `(batch_size, num_queries, height/4, width/4)`):
Segmentation masks logits for all queries. See also
[`~ConditionalDetrImageProcessor.post_process_semantic_segmentation`] or
[`~ConditionalDetrImageProcessor.post_process_instance_segmentation`]
[`~ConditionalDetrImageProcessor.post_process_panoptic_segmentation`] to evaluate semantic, instance and
panoptic segmentation masks respectively.
auxiliary_outputs (`list[Dict]`, *optional*):
Optional, only returned when auxiliary losses are activated (i.e. `config.auxiliary_loss` is set to `True`)
and labels are provided. It is a list of dictionaries containing the two above keys (`logits` and
`pred_boxes`) for each decoder layer.
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the decoder of the model.
decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`. Hidden-states of the decoder at the output of each
layer plus the initial embedding outputs.
decoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights of the decoder, after the attention softmax, used to compute the
weighted average in the self-attention heads.
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights of the decoder's cross-attention layer, after the attention softmax,
used to compute the weighted average in the cross-attention heads.
encoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder of the model.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`. Hidden-states of the encoder at the output of each
layer plus the initial embedding outputs.
encoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights of the encoder, after the attention softmax, used to compute the
weighted average in the self-attention heads.
"""
loss: Optional[torch.FloatTensor] = None
loss_dict: Optional[Dict] = None
logits: torch.FloatTensor = None
pred_boxes: torch.FloatTensor = None
pred_masks: torch.FloatTensor = None
auxiliary_outputs: Optional[List[Dict]] = None
last_hidden_state: Optional[torch.FloatTensor] = None
decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
decoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
cross_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_last_hidden_state: Optional[torch.FloatTensor] = None
encoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
encoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
# Copied from transformers.models.detr.modeling_detr.DetrFrozenBatchNorm2d with Detr->ConditionalDetr
class ConditionalDetrFrozenBatchNorm2d(nn.Module):
"""
BatchNorm2d where the batch statistics and the affine parameters are fixed.
Copy-paste from torchvision.misc.ops with added eps before rqsrt, without which any other models than
torchvision.models.resnet[18,34,50,101] produce nans.
"""
def __init__(self, n):
super().__init__()
self.register_buffer("weight", torch.ones(n))
self.register_buffer("bias", torch.zeros(n))
self.register_buffer("running_mean", torch.zeros(n))
self.register_buffer("running_var", torch.ones(n))
def _load_from_state_dict(
self, state_dict, prefix, local_metadata, strict, missing_keys, unexpected_keys, error_msgs
):
num_batches_tracked_key = prefix + "num_batches_tracked"
if num_batches_tracked_key in state_dict:
del state_dict[num_batches_tracked_key]
super()._load_from_state_dict(
state_dict, prefix, local_metadata, strict, missing_keys, unexpected_keys, error_msgs
)
def forward(self, x):
# move reshapes to the beginning
# to make it user-friendly
weight = self.weight.reshape(1, -1, 1, 1)
bias = self.bias.reshape(1, -1, 1, 1)
running_var = self.running_var.reshape(1, -1, 1, 1)
running_mean = self.running_mean.reshape(1, -1, 1, 1)
epsilon = 1e-5
scale = weight * (running_var + epsilon).rsqrt()
bias = bias - running_mean * scale
return x * scale + bias
# Copied from transformers.models.detr.modeling_detr.replace_batch_norm with Detr->ConditionalDetr
def replace_batch_norm(model):
r"""
Recursively replace all `torch.nn.BatchNorm2d` with `ConditionalDetrFrozenBatchNorm2d`.
Args:
model (torch.nn.Module):
input model
"""
for name, module in model.named_children():
if isinstance(module, nn.BatchNorm2d):
new_module = ConditionalDetrFrozenBatchNorm2d(module.num_features)
new_module.weight.data.copy_(module.weight)
new_module.bias.data.copy_(module.bias)
new_module.running_mean.data.copy_(module.running_mean)
new_module.running_var.data.copy_(module.running_var)
model._modules[name] = new_module
if len(list(module.children())) > 0:
replace_batch_norm(module)
# Copied from transformers.models.detr.modeling_detr.DetrConvEncoder
class ConditionalDetrConvEncoder(nn.Module):
"""
Convolutional backbone, using either the AutoBackbone API or one from the timm library.
nn.BatchNorm2d layers are replaced by DetrFrozenBatchNorm2d as defined above.
"""
def __init__(self, config):
super().__init__()
self.config = config
if config.use_timm_backbone:
requires_backends(self, ["timm"])
kwargs = {}
if config.dilation:
kwargs["output_stride"] = 16
backbone = create_model(
config.backbone,
pretrained=config.use_pretrained_backbone,
features_only=True,
out_indices=(1, 2, 3, 4),
in_chans=config.num_channels,
**kwargs,
)
else:
backbone = AutoBackbone.from_config(config.backbone_config)
# replace batch norm by frozen batch norm
with torch.no_grad():
replace_batch_norm(backbone)
self.model = backbone
self.intermediate_channel_sizes = (
self.model.feature_info.channels() if config.use_timm_backbone else self.model.channels
)
backbone_model_type = config.backbone if config.use_timm_backbone else config.backbone_config.model_type
if "resnet" in backbone_model_type:
for name, parameter in self.model.named_parameters():
if config.use_timm_backbone:
if "layer2" not in name and "layer3" not in name and "layer4" not in name:
parameter.requires_grad_(False)
else:
if "stage.1" not in name and "stage.2" not in name and "stage.3" not in name:
parameter.requires_grad_(False)
def forward(self, pixel_values: torch.Tensor, pixel_mask: torch.Tensor):
# send pixel_values through the model to get list of feature maps
features = self.model(pixel_values) if self.config.use_timm_backbone else self.model(pixel_values).feature_maps
out = []
for feature_map in features:
# downsample pixel_mask to match shape of corresponding feature_map
mask = nn.functional.interpolate(pixel_mask[None].float(), size=feature_map.shape[-2:]).to(torch.bool)[0]
out.append((feature_map, mask))
return out
# Copied from transformers.models.detr.modeling_detr.DetrConvModel with Detr->ConditionalDetr
class ConditionalDetrConvModel(nn.Module):
"""
This module adds 2D position embeddings to all intermediate feature maps of the convolutional encoder.
"""
def __init__(self, conv_encoder, position_embedding):
super().__init__()
self.conv_encoder = conv_encoder
self.position_embedding = position_embedding
def forward(self, pixel_values, pixel_mask):
# send pixel_values and pixel_mask through backbone to get list of (feature_map, pixel_mask) tuples
out = self.conv_encoder(pixel_values, pixel_mask)
pos = []
for feature_map, mask in out:
# position encoding
pos.append(self.position_embedding(feature_map, mask).to(feature_map.dtype))
return out, pos
# Copied from transformers.models.detr.modeling_detr._expand_mask with Detr->ConditionalDetr
def _expand_mask(mask: torch.Tensor, dtype: torch.dtype, target_len: Optional[int] = None):
"""
Expands attention_mask from `[batch_size, seq_len]` to `[batch_size, 1, target_seq_len, source_seq_len]`.
"""
batch_size, source_len = mask.size()
target_len = target_len if target_len is not None else source_len
expanded_mask = mask[:, None, None, :].expand(batch_size, 1, target_len, source_len).to(dtype)
inverted_mask = 1.0 - expanded_mask
return inverted_mask.masked_fill(inverted_mask.bool(), torch.finfo(dtype).min)
# Copied from transformers.models.detr.modeling_detr.DetrSinePositionEmbedding with Detr->ConditionalDetr
class ConditionalDetrSinePositionEmbedding(nn.Module):
"""
This is a more standard version of the position embedding, very similar to the one used by the Attention is all you
need paper, generalized to work on images.
"""
def __init__(self, embedding_dim=64, temperature=10000, normalize=False, scale=None):
super().__init__()
self.embedding_dim = embedding_dim
self.temperature = temperature
self.normalize = normalize
if scale is not None and normalize is False:
raise ValueError("normalize should be True if scale is passed")
if scale is None:
scale = 2 * math.pi
self.scale = scale
def forward(self, pixel_values, pixel_mask):
if pixel_mask is None:
raise ValueError("No pixel mask provided")
y_embed = pixel_mask.cumsum(1, dtype=torch.float32)
x_embed = pixel_mask.cumsum(2, dtype=torch.float32)
if self.normalize:
y_embed = y_embed / (y_embed[:, -1:, :] + 1e-6) * self.scale
x_embed = x_embed / (x_embed[:, :, -1:] + 1e-6) * self.scale
dim_t = torch.arange(self.embedding_dim, dtype=torch.float32, device=pixel_values.device)
dim_t = self.temperature ** (2 * torch.div(dim_t, 2, rounding_mode="floor") / self.embedding_dim)
pos_x = x_embed[:, :, :, None] / dim_t
pos_y = y_embed[:, :, :, None] / dim_t
pos_x = torch.stack((pos_x[:, :, :, 0::2].sin(), pos_x[:, :, :, 1::2].cos()), dim=4).flatten(3)
pos_y = torch.stack((pos_y[:, :, :, 0::2].sin(), pos_y[:, :, :, 1::2].cos()), dim=4).flatten(3)
pos = torch.cat((pos_y, pos_x), dim=3).permute(0, 3, 1, 2)
return pos
# Copied from transformers.models.detr.modeling_detr.DetrLearnedPositionEmbedding with Detr->ConditionalDetr
class ConditionalDetrLearnedPositionEmbedding(nn.Module):
"""
This module learns positional embeddings up to a fixed maximum size.
"""
def __init__(self, embedding_dim=256):
super().__init__()
self.row_embeddings = nn.Embedding(50, embedding_dim)
self.column_embeddings = nn.Embedding(50, embedding_dim)
def forward(self, pixel_values, pixel_mask=None):
height, width = pixel_values.shape[-2:]
width_values = torch.arange(width, device=pixel_values.device)
height_values = torch.arange(height, device=pixel_values.device)
x_emb = self.column_embeddings(width_values)
y_emb = self.row_embeddings(height_values)
pos = torch.cat([x_emb.unsqueeze(0).repeat(height, 1, 1), y_emb.unsqueeze(1).repeat(1, width, 1)], dim=-1)
pos = pos.permute(2, 0, 1)
pos = pos.unsqueeze(0)
pos = pos.repeat(pixel_values.shape[0], 1, 1, 1)
return pos
# Copied from transformers.models.detr.modeling_detr.build_position_encoding with Detr->ConditionalDetr
def build_position_encoding(config):
n_steps = config.d_model // 2
if config.position_embedding_type == "sine":
# TODO find a better way of exposing other arguments
position_embedding = ConditionalDetrSinePositionEmbedding(n_steps, normalize=True)
elif config.position_embedding_type == "learned":
position_embedding = ConditionalDetrLearnedPositionEmbedding(n_steps)
else:
raise ValueError(f"Not supported {config.position_embedding_type}")
return position_embedding
# function to generate sine positional embedding for 2d coordinates
def gen_sine_position_embeddings(pos_tensor, d_model):
scale = 2 * math.pi
dim = d_model // 2
dim_t = torch.arange(dim, dtype=torch.float32, device=pos_tensor.device)
dim_t = 10000 ** (2 * torch.div(dim_t, 2, rounding_mode="floor") / dim)
x_embed = pos_tensor[:, :, 0] * scale
y_embed = pos_tensor[:, :, 1] * scale
pos_x = x_embed[:, :, None] / dim_t
pos_y = y_embed[:, :, None] / dim_t
pos_x = torch.stack((pos_x[:, :, 0::2].sin(), pos_x[:, :, 1::2].cos()), dim=3).flatten(2)
pos_y = torch.stack((pos_y[:, :, 0::2].sin(), pos_y[:, :, 1::2].cos()), dim=3).flatten(2)
pos = torch.cat((pos_y, pos_x), dim=2)
return pos
def inverse_sigmoid(x, eps=1e-5):
x = x.clamp(min=0, max=1)
x1 = x.clamp(min=eps)
x2 = (1 - x).clamp(min=eps)
return torch.log(x1 / x2)
# Copied from transformers.models.detr.modeling_detr.DetrAttention
class DetrAttention(nn.Module):
"""
Multi-headed attention from 'Attention Is All You Need' paper.
Here, we add position embeddings to the queries and keys (as explained in the DETR paper).
"""
def __init__(
self,
embed_dim: int,
num_heads: int,
dropout: float = 0.0,
bias: bool = True,
):
super().__init__()
self.embed_dim = embed_dim
self.num_heads = num_heads
self.dropout = dropout
self.head_dim = embed_dim // num_heads
if self.head_dim * num_heads != self.embed_dim:
raise ValueError(
f"embed_dim must be divisible by num_heads (got `embed_dim`: {self.embed_dim} and `num_heads`:"
f" {num_heads})."
)
self.scaling = self.head_dim**-0.5
self.k_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.v_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.q_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.out_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
def _shape(self, tensor: torch.Tensor, seq_len: int, batch_size: int):
return tensor.view(batch_size, seq_len, self.num_heads, self.head_dim).transpose(1, 2).contiguous()
def with_pos_embed(self, tensor: torch.Tensor, position_embeddings: Optional[Tensor]):
return tensor if position_embeddings is None else tensor + position_embeddings
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.Tensor] = None,
position_embeddings: Optional[torch.Tensor] = None,
key_value_states: Optional[torch.Tensor] = None,
key_value_position_embeddings: Optional[torch.Tensor] = None,
output_attentions: bool = False,
) -> Tuple[torch.Tensor, Optional[torch.Tensor], Optional[Tuple[torch.Tensor]]]:
"""Input shape: Batch x Time x Channel"""
# if key_value_states are provided this layer is used as a cross-attention layer
# for the decoder
is_cross_attention = key_value_states is not None
batch_size, target_len, embed_dim = hidden_states.size()
# add position embeddings to the hidden states before projecting to queries and keys
if position_embeddings is not None:
hidden_states_original = hidden_states
hidden_states = self.with_pos_embed(hidden_states, position_embeddings)
# add key-value position embeddings to the key value states
if key_value_position_embeddings is not None:
key_value_states_original = key_value_states
key_value_states = self.with_pos_embed(key_value_states, key_value_position_embeddings)
# get query proj
query_states = self.q_proj(hidden_states) * self.scaling
# get key, value proj
if is_cross_attention:
# cross_attentions
key_states = self._shape(self.k_proj(key_value_states), -1, batch_size)
value_states = self._shape(self.v_proj(key_value_states_original), -1, batch_size)
else:
# self_attention
key_states = self._shape(self.k_proj(hidden_states), -1, batch_size)
value_states = self._shape(self.v_proj(hidden_states_original), -1, batch_size)
proj_shape = (batch_size * self.num_heads, -1, self.head_dim)
query_states = self._shape(query_states, target_len, batch_size).view(*proj_shape)
key_states = key_states.view(*proj_shape)
value_states = value_states.view(*proj_shape)
source_len = key_states.size(1)
attn_weights = torch.bmm(query_states, key_states.transpose(1, 2))
if attn_weights.size() != (batch_size * self.num_heads, target_len, source_len):
raise ValueError(
f"Attention weights should be of size {(batch_size * self.num_heads, target_len, source_len)}, but is"
f" {attn_weights.size()}"
)
if attention_mask is not None:
if attention_mask.size() != (batch_size, 1, target_len, source_len):
raise ValueError(
f"Attention mask should be of size {(batch_size, 1, target_len, source_len)}, but is"
f" {attention_mask.size()}"
)
attn_weights = attn_weights.view(batch_size, self.num_heads, target_len, source_len) + attention_mask
attn_weights = attn_weights.view(batch_size * self.num_heads, target_len, source_len)
attn_weights = nn.functional.softmax(attn_weights, dim=-1)
if output_attentions:
# this operation is a bit awkward, but it's required to
# make sure that attn_weights keeps its gradient.
# In order to do so, attn_weights have to reshaped
# twice and have to be reused in the following
attn_weights_reshaped = attn_weights.view(batch_size, self.num_heads, target_len, source_len)
attn_weights = attn_weights_reshaped.view(batch_size * self.num_heads, target_len, source_len)
else:
attn_weights_reshaped = None
attn_probs = nn.functional.dropout(attn_weights, p=self.dropout, training=self.training)
attn_output = torch.bmm(attn_probs, value_states)
if attn_output.size() != (batch_size * self.num_heads, target_len, self.head_dim):
raise ValueError(
f"`attn_output` should be of size {(batch_size, self.num_heads, target_len, self.head_dim)}, but is"
f" {attn_output.size()}"
)
attn_output = attn_output.view(batch_size, self.num_heads, target_len, self.head_dim)
attn_output = attn_output.transpose(1, 2)
attn_output = attn_output.reshape(batch_size, target_len, embed_dim)
attn_output = self.out_proj(attn_output)
return attn_output, attn_weights_reshaped
class ConditionalDetrAttention(nn.Module):
"""
Cross-Attention used in Conditional DETR 'Conditional DETR for Fast Training Convergence' paper.
The key q_proj, k_proj, v_proj are defined outside the attention. This attention allows the dim of q, k to be
different to v.
"""
def __init__(
self,
embed_dim: int,
out_dim: int,
num_heads: int,
dropout: float = 0.0,
bias: bool = True,
):
super().__init__()
self.embed_dim = embed_dim
self.out_dim = out_dim
self.num_heads = num_heads
self.dropout = dropout
self.head_dim = embed_dim // num_heads
if self.head_dim * num_heads != self.embed_dim:
raise ValueError(
f"embed_dim must be divisible by num_heads (got `embed_dim`: {self.embed_dim} and `num_heads`:"
f" {num_heads})."
)
# head dimension of values
self.v_head_dim = out_dim // num_heads
if self.v_head_dim * num_heads != self.out_dim:
raise ValueError(
f"out_dim must be divisible by num_heads (got `out_dim`: {self.out_dim} and `num_heads`: {num_heads})."
)
self.scaling = self.head_dim**-0.5
self.out_proj = nn.Linear(out_dim, out_dim, bias=bias)
def _qk_shape(self, tensor: torch.Tensor, seq_len: int, batch_size: int):
return tensor.view(batch_size, seq_len, self.num_heads, self.head_dim).transpose(1, 2).contiguous()
def _v_shape(self, tensor: torch.Tensor, seq_len: int, batch_size: int):
return tensor.view(batch_size, seq_len, self.num_heads, self.v_head_dim).transpose(1, 2).contiguous()
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.Tensor] = None,
key_states: Optional[torch.Tensor] = None,
value_states: Optional[torch.Tensor] = None,
output_attentions: bool = False,
) -> Tuple[torch.Tensor, Optional[torch.Tensor], Optional[Tuple[torch.Tensor]]]:
"""Input shape: Batch x Time x Channel"""
batch_size, target_len, _ = hidden_states.size()
# get query proj
query_states = hidden_states * self.scaling
# get key, value proj
key_states = self._qk_shape(key_states, -1, batch_size)
value_states = self._v_shape(value_states, -1, batch_size)
proj_shape = (batch_size * self.num_heads, -1, self.head_dim)
v_proj_shape = (batch_size * self.num_heads, -1, self.v_head_dim)
query_states = self._qk_shape(query_states, target_len, batch_size).view(*proj_shape)
key_states = key_states.view(*proj_shape)
value_states = value_states.view(*v_proj_shape)
source_len = key_states.size(1)
attn_weights = torch.bmm(query_states, key_states.transpose(1, 2))
if attn_weights.size() != (batch_size * self.num_heads, target_len, source_len):
raise ValueError(
f"Attention weights should be of size {(batch_size * self.num_heads, target_len, source_len)}, but is"
f" {attn_weights.size()}"
)
if attention_mask is not None:
if attention_mask.size() != (batch_size, 1, target_len, source_len):
raise ValueError(
f"Attention mask should be of size {(batch_size, 1, target_len, source_len)}, but is"
f" {attention_mask.size()}"
)
attn_weights = attn_weights.view(batch_size, self.num_heads, target_len, source_len) + attention_mask
attn_weights = attn_weights.view(batch_size * self.num_heads, target_len, source_len)
attn_weights = nn.functional.softmax(attn_weights, dim=-1)
if output_attentions:
# this operation is a bit awkward, but it's required to
# make sure that attn_weights keeps its gradient.
# In order to do so, attn_weights have to reshaped
# twice and have to be reused in the following
attn_weights_reshaped = attn_weights.view(batch_size, self.num_heads, target_len, source_len)
attn_weights = attn_weights_reshaped.view(batch_size * self.num_heads, target_len, source_len)
else:
attn_weights_reshaped = None
attn_probs = nn.functional.dropout(attn_weights, p=self.dropout, training=self.training)
attn_output = torch.bmm(attn_probs, value_states)
if attn_output.size() != (batch_size * self.num_heads, target_len, self.v_head_dim):
raise ValueError(
f"`attn_output` should be of size {(batch_size, self.num_heads, target_len, self.v_head_dim)}, but is"
f" {attn_output.size()}"
)
attn_output = attn_output.view(batch_size, self.num_heads, target_len, self.v_head_dim)
attn_output = attn_output.transpose(1, 2)
attn_output = attn_output.reshape(batch_size, target_len, self.out_dim)
attn_output = self.out_proj(attn_output)
return attn_output, attn_weights_reshaped
# Copied from transformers.models.detr.modeling_detr.DetrEncoderLayer with DetrEncoderLayer->ConditionalDetrEncoderLayer,DetrConfig->ConditionalDetrConfig
class ConditionalDetrEncoderLayer(nn.Module):
def __init__(self, config: ConditionalDetrConfig):
super().__init__()
self.embed_dim = config.d_model
self.self_attn = DetrAttention(
embed_dim=self.embed_dim,
num_heads=config.encoder_attention_heads,
dropout=config.attention_dropout,
)
self.self_attn_layer_norm = nn.LayerNorm(self.embed_dim)
self.dropout = config.dropout
self.activation_fn = ACT2FN[config.activation_function]
self.activation_dropout = config.activation_dropout
self.fc1 = nn.Linear(self.embed_dim, config.encoder_ffn_dim)
self.fc2 = nn.Linear(config.encoder_ffn_dim, self.embed_dim)
self.final_layer_norm = nn.LayerNorm(self.embed_dim)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: torch.Tensor,
position_embeddings: torch.Tensor = None,
output_attentions: bool = False,
):
"""
Args:
hidden_states (`torch.FloatTensor`): input to the layer of shape `(batch, seq_len, embed_dim)`
attention_mask (`torch.FloatTensor`): attention mask of size
`(batch, 1, target_len, source_len)` where padding elements are indicated by very large negative
values.
position_embeddings (`torch.FloatTensor`, *optional*): position embeddings, to be added to hidden_states.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
"""
residual = hidden_states
hidden_states, attn_weights = self.self_attn(
hidden_states=hidden_states,
attention_mask=attention_mask,
position_embeddings=position_embeddings,
output_attentions=output_attentions,
)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.self_attn_layer_norm(hidden_states)
residual = hidden_states
hidden_states = self.activation_fn(self.fc1(hidden_states))
hidden_states = nn.functional.dropout(hidden_states, p=self.activation_dropout, training=self.training)
hidden_states = self.fc2(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.final_layer_norm(hidden_states)
if self.training:
if torch.isinf(hidden_states).any() or torch.isnan(hidden_states).any():
clamp_value = torch.finfo(hidden_states.dtype).max - 1000
hidden_states = torch.clamp(hidden_states, min=-clamp_value, max=clamp_value)
outputs = (hidden_states,)
if output_attentions:
outputs += (attn_weights,)
return outputs
class ConditionalDetrDecoderLayer(nn.Module):
def __init__(self, config: ConditionalDetrConfig):
super().__init__()
self.embed_dim = config.d_model
d_model = config.d_model
# Decoder Self-Attention projections
self.sa_qcontent_proj = nn.Linear(d_model, d_model)
self.sa_qpos_proj = nn.Linear(d_model, d_model)
self.sa_kcontent_proj = nn.Linear(d_model, d_model)
self.sa_kpos_proj = nn.Linear(d_model, d_model)
self.sa_v_proj = nn.Linear(d_model, d_model)
self.self_attn = ConditionalDetrAttention(
embed_dim=self.embed_dim,
out_dim=self.embed_dim,
num_heads=config.decoder_attention_heads,
dropout=config.attention_dropout,
)
self.dropout = config.dropout
self.activation_fn = ACT2FN[config.activation_function]
self.activation_dropout = config.activation_dropout
self.self_attn_layer_norm = nn.LayerNorm(self.embed_dim)
# Decoder Cross-Attention projections
self.ca_qcontent_proj = nn.Linear(d_model, d_model)
self.ca_qpos_proj = nn.Linear(d_model, d_model)
self.ca_kcontent_proj = nn.Linear(d_model, d_model)
self.ca_kpos_proj = nn.Linear(d_model, d_model)
self.ca_v_proj = nn.Linear(d_model, d_model)
self.ca_qpos_sine_proj = nn.Linear(d_model, d_model)
self.encoder_attn = ConditionalDetrAttention(
self.embed_dim * 2, self.embed_dim, config.decoder_attention_heads, dropout=config.attention_dropout
)
self.encoder_attn_layer_norm = nn.LayerNorm(self.embed_dim)
self.fc1 = nn.Linear(self.embed_dim, config.decoder_ffn_dim)
self.fc2 = nn.Linear(config.decoder_ffn_dim, self.embed_dim)
self.final_layer_norm = nn.LayerNorm(self.embed_dim)
self.nhead = config.decoder_attention_heads
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.Tensor] = None,
position_embeddings: Optional[torch.Tensor] = None,
query_position_embeddings: Optional[torch.Tensor] = None,
query_sine_embed: Optional[torch.Tensor] = None,
encoder_hidden_states: Optional[torch.Tensor] = None,
encoder_attention_mask: Optional[torch.Tensor] = None,
output_attentions: Optional[bool] = False,
is_first: Optional[bool] = False,
):
"""
Args:
hidden_states (`torch.FloatTensor`): input to the layer of shape `(seq_len, batch, embed_dim)`
attention_mask (`torch.FloatTensor`): attention mask of size
`(batch, 1, target_len, source_len)` where padding elements are indicated by very large negative
values.
position_embeddings (`torch.FloatTensor`, *optional*):
position embeddings that are added to the queries and keys
in the cross-attention layer.
query_position_embeddings (`torch.FloatTensor`, *optional*):
position embeddings that are added to the queries and keys
in the self-attention layer.
encoder_hidden_states (`torch.FloatTensor`):
cross attention input to the layer of shape `(seq_len, batch, embed_dim)`
encoder_attention_mask (`torch.FloatTensor`): encoder attention mask of size
`(batch, 1, target_len, source_len)` where padding elements are indicated by very large negative
values.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
"""
residual = hidden_states
# ========== Begin of Self-Attention =============
# Apply projections here
# shape: num_queries x batch_size x 256
q_content = self.sa_qcontent_proj(
hidden_states
) # target is the input of the first decoder layer. zero by default.
q_pos = self.sa_qpos_proj(query_position_embeddings)
k_content = self.sa_kcontent_proj(hidden_states)
k_pos = self.sa_kpos_proj(query_position_embeddings)
v = self.sa_v_proj(hidden_states)
_, num_queries, n_model = q_content.shape
q = q_content + q_pos
k = k_content + k_pos
hidden_states, self_attn_weights = self.self_attn(
hidden_states=q,
attention_mask=attention_mask,
key_states=k,
value_states=v,
output_attentions=output_attentions,
)
# ============ End of Self-Attention =============
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.self_attn_layer_norm(hidden_states)
# ========== Begin of Cross-Attention =============
# Apply projections here
# shape: num_queries x batch_size x 256
q_content = self.ca_qcontent_proj(hidden_states)
k_content = self.ca_kcontent_proj(encoder_hidden_states)
v = self.ca_v_proj(encoder_hidden_states)
batch_size, num_queries, n_model = q_content.shape
_, source_len, _ = k_content.shape
k_pos = self.ca_kpos_proj(position_embeddings)
# For the first decoder layer, we concatenate the positional embedding predicted from
# the object query (the positional embedding) into the original query (key) in DETR.
if is_first:
q_pos = self.ca_qpos_proj(query_position_embeddings)
q = q_content + q_pos
k = k_content + k_pos
else:
q = q_content
k = k_content
q = q.view(batch_size, num_queries, self.nhead, n_model // self.nhead)
query_sine_embed = self.ca_qpos_sine_proj(query_sine_embed)
query_sine_embed = query_sine_embed.view(batch_size, num_queries, self.nhead, n_model // self.nhead)
q = torch.cat([q, query_sine_embed], dim=3).view(batch_size, num_queries, n_model * 2)
k = k.view(batch_size, source_len, self.nhead, n_model // self.nhead)
k_pos = k_pos.view(batch_size, source_len, self.nhead, n_model // self.nhead)
k = torch.cat([k, k_pos], dim=3).view(batch_size, source_len, n_model * 2)
# Cross-Attention Block
cross_attn_weights = None
if encoder_hidden_states is not None:
residual = hidden_states
hidden_states, cross_attn_weights = self.encoder_attn(
hidden_states=q,
attention_mask=encoder_attention_mask,
key_states=k,
value_states=v,
output_attentions=output_attentions,
)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.encoder_attn_layer_norm(hidden_states)
# ============ End of Cross-Attention =============
# Fully Connected
residual = hidden_states
hidden_states = self.activation_fn(self.fc1(hidden_states))
hidden_states = nn.functional.dropout(hidden_states, p=self.activation_dropout, training=self.training)
hidden_states = self.fc2(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.final_layer_norm(hidden_states)
outputs = (hidden_states,)
if output_attentions:
outputs += (self_attn_weights, cross_attn_weights)
return outputs
# Copied from transformers.models.detr.modeling_detr.DetrClassificationHead with Detr->ConditionalDetr
class ConditionalDetrClassificationHead(nn.Module):
"""Head for sentence-level classification tasks."""
def __init__(self, input_dim: int, inner_dim: int, num_classes: int, pooler_dropout: float):
super().__init__()
self.dense = nn.Linear(input_dim, inner_dim)
self.dropout = nn.Dropout(p=pooler_dropout)
self.out_proj = nn.Linear(inner_dim, num_classes)
def forward(self, hidden_states: torch.Tensor):
hidden_states = self.dropout(hidden_states)
hidden_states = self.dense(hidden_states)
hidden_states = torch.tanh(hidden_states)
hidden_states = self.dropout(hidden_states)
hidden_states = self.out_proj(hidden_states)
return hidden_states
# Copied from transformers.models.detr.modeling_detr.DetrMLPPredictionHead with DetrMLPPredictionHead->MLP
class MLP(nn.Module):
"""
Very simple multi-layer perceptron (MLP, also called FFN), used to predict the normalized center coordinates,
height and width of a bounding box w.r.t. an image.
Copied from https://github.com/facebookresearch/detr/blob/master/models/detr.py
"""
def __init__(self, input_dim, hidden_dim, output_dim, num_layers):
super().__init__()
self.num_layers = num_layers
h = [hidden_dim] * (num_layers - 1)
self.layers = nn.ModuleList(nn.Linear(n, k) for n, k in zip([input_dim] + h, h + [output_dim]))
def forward(self, x):
for i, layer in enumerate(self.layers):
x = nn.functional.relu(layer(x)) if i < self.num_layers - 1 else layer(x)
return x
# Copied from transformers.models.detr.modeling_detr.DetrPreTrainedModel with Detr->ConditionalDetr
class ConditionalDetrPreTrainedModel(PreTrainedModel):
config_class = ConditionalDetrConfig
base_model_prefix = "model"
main_input_name = "pixel_values"
def _init_weights(self, module):
std = self.config.init_std
xavier_std = self.config.init_xavier_std
if isinstance(module, ConditionalDetrMHAttentionMap):
nn.init.zeros_(module.k_linear.bias)
nn.init.zeros_(module.q_linear.bias)
nn.init.xavier_uniform_(module.k_linear.weight, gain=xavier_std)
nn.init.xavier_uniform_(module.q_linear.weight, gain=xavier_std)
elif isinstance(module, ConditionalDetrLearnedPositionEmbedding):
nn.init.uniform_(module.row_embeddings.weight)
nn.init.uniform_(module.column_embeddings.weight)
if isinstance(module, (nn.Linear, nn.Conv2d, nn.BatchNorm2d)):
# Slightly different from the TF version which uses truncated_normal for initialization
# cf https://github.com/pytorch/pytorch/pull/5617
module.weight.data.normal_(mean=0.0, std=std)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=std)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, ConditionalDetrDecoder):
module.gradient_checkpointing = value
CONDITIONAL_DETR_START_DOCSTRING = r"""
This model inherits from [`PreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) subclass.
Use it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage
and behavior.
Parameters:
config ([`ConditionalDetrConfig`]):
Model configuration class with all the parameters of the model. Initializing with a config file does not
load the weights associated with the model, only the configuration. Check out the
[`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
CONDITIONAL_DETR_INPUTS_DOCSTRING = r"""
Args:
pixel_values (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Pixel values. Padding will be ignored by default should you provide it.
Pixel values can be obtained using [`AutoImageProcessor`]. See [`ConditionalDetrImageProcessor.__call__`]
for details.
pixel_mask (`torch.LongTensor` of shape `(batch_size, height, width)`, *optional*):
Mask to avoid performing attention on padding pixel values. Mask values selected in `[0, 1]`:
- 1 for pixels that are real (i.e. **not masked**),
- 0 for pixels that are padding (i.e. **masked**).
[What are attention masks?](../glossary#attention-mask)
decoder_attention_mask (`torch.LongTensor` of shape `(batch_size, num_queries)`, *optional*):
Not used by default. Can be used to mask object queries.
encoder_outputs (`tuple(tuple(torch.FloatTensor)`, *optional*):
Tuple consists of (`last_hidden_state`, *optional*: `hidden_states`, *optional*: `attentions`)
`last_hidden_state` of shape `(batch_size, sequence_length, hidden_size)`, *optional*) is a sequence of
hidden-states at the output of the last layer of the encoder. Used in the cross-attention of the decoder.
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing the flattened feature map (output of the backbone + projection layer), you
can choose to directly pass a flattened representation of an image.
decoder_inputs_embeds (`torch.FloatTensor` of shape `(batch_size, num_queries, hidden_size)`, *optional*):
Optionally, instead of initializing the queries with a tensor of zeros, you can choose to directly pass an
embedded representation.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
# Copied from transformers.models.detr.modeling_detr.DetrEncoder with Detr->ConditionalDetr,DETR->ConditionalDETR
class ConditionalDetrEncoder(ConditionalDetrPreTrainedModel):
"""
Transformer encoder consisting of *config.encoder_layers* self attention layers. Each layer is a
[`ConditionalDetrEncoderLayer`].
The encoder updates the flattened feature map through multiple self-attention layers.
Small tweak for ConditionalDETR:
- position_embeddings are added to the forward pass.
Args:
config: ConditionalDetrConfig
"""
def __init__(self, config: ConditionalDetrConfig):
super().__init__(config)
self.dropout = config.dropout
self.layerdrop = config.encoder_layerdrop
self.layers = nn.ModuleList([ConditionalDetrEncoderLayer(config) for _ in range(config.encoder_layers)])
# in the original ConditionalDETR, no layernorm is used at the end of the encoder, as "normalize_before" is set to False by default
# Initialize weights and apply final processing
self.post_init()
def forward(
self,
inputs_embeds=None,
attention_mask=None,
position_embeddings=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
r"""
Args:
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Flattened feature map (output of the backbone + projection layer) that is passed to the encoder.
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding pixel features. Mask values selected in `[0, 1]`:
- 1 for pixel features that are real (i.e. **not masked**),
- 0 for pixel features that are padding (i.e. **masked**).
[What are attention masks?](../glossary#attention-mask)
position_embeddings (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Position embeddings that are added to the queries and keys in each self-attention layer.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors
for more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
hidden_states = inputs_embeds
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
# expand attention_mask
if attention_mask is not None:
# [batch_size, seq_len] -> [batch_size, 1, target_seq_len, source_seq_len]
attention_mask = _expand_mask(attention_mask, inputs_embeds.dtype)
encoder_states = () if output_hidden_states else None
all_attentions = () if output_attentions else None
for i, encoder_layer in enumerate(self.layers):
if output_hidden_states:
encoder_states = encoder_states + (hidden_states,)
# add LayerDrop (see https://arxiv.org/abs/1909.11556 for description)
to_drop = False
if self.training:
dropout_probability = torch.rand([])
if dropout_probability < self.layerdrop: # skip the layer
to_drop = True
if to_drop:
layer_outputs = (None, None)
else:
# we add position_embeddings as extra input to the encoder_layer
layer_outputs = encoder_layer(
hidden_states,
attention_mask,
position_embeddings=position_embeddings,
output_attentions=output_attentions,
)
hidden_states = layer_outputs[0]
if output_attentions:
all_attentions = all_attentions + (layer_outputs[1],)
if output_hidden_states:
encoder_states = encoder_states + (hidden_states,)
if not return_dict:
return tuple(v for v in [hidden_states, encoder_states, all_attentions] if v is not None)
return BaseModelOutput(
last_hidden_state=hidden_states, hidden_states=encoder_states, attentions=all_attentions
)
class ConditionalDetrDecoder(ConditionalDetrPreTrainedModel):
"""
Transformer decoder consisting of *config.decoder_layers* layers. Each layer is a [`ConditionalDetrDecoderLayer`].
The decoder updates the query embeddings through multiple self-attention and cross-attention layers.
Some small tweaks for Conditional DETR:
- position_embeddings and query_position_embeddings are added to the forward pass.
- if self.config.auxiliary_loss is set to True, also returns a stack of activations from all decoding layers.
Args:
config: ConditionalDetrConfig
"""
def __init__(self, config: ConditionalDetrConfig):
super().__init__(config)
self.dropout = config.dropout
self.layerdrop = config.decoder_layerdrop
self.layers = nn.ModuleList([ConditionalDetrDecoderLayer(config) for _ in range(config.decoder_layers)])
# in Conditional DETR, the decoder uses layernorm after the last decoder layer output
self.layernorm = nn.LayerNorm(config.d_model)
d_model = config.d_model
self.gradient_checkpointing = False
# query_scale is the FFN applied on f to generate transformation T
self.query_scale = MLP(d_model, d_model, d_model, 2)
self.ref_point_head = MLP(d_model, d_model, 2, 2)
for layer_id in range(config.decoder_layers - 1):
self.layers[layer_id + 1].ca_qpos_proj = None
# Initialize weights and apply final processing
self.post_init()
def forward(
self,
inputs_embeds=None,
attention_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
position_embeddings=None,
query_position_embeddings=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
r"""
Args:
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
The query embeddings that are passed into the decoder.
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on certain queries. Mask values selected in `[0, 1]`:
- 1 for queries that are **not masked**,
- 0 for queries that are **masked**.
[What are attention masks?](../glossary#attention-mask)
encoder_hidden_states (`torch.FloatTensor` of shape `(batch_size, encoder_sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention
of the decoder.
encoder_attention_mask (`torch.LongTensor` of shape `(batch_size, encoder_sequence_length)`, *optional*):
Mask to avoid performing cross-attention on padding pixel_values of the encoder. Mask values selected
in `[0, 1]`:
- 1 for pixels that are real (i.e. **not masked**),
- 0 for pixels that are padding (i.e. **masked**).
position_embeddings (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Position embeddings that are added to the queries and keys in each cross-attention layer.
query_position_embeddings (`torch.FloatTensor` of shape `(batch_size, num_queries, hidden_size)`):
, *optional*): Position embeddings that are added to the queries and keys in each self-attention layer.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors
for more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if inputs_embeds is not None:
hidden_states = inputs_embeds
input_shape = inputs_embeds.size()[:-1]
combined_attention_mask = None
if attention_mask is not None and combined_attention_mask is not None:
# [batch_size, seq_len] -> [batch_size, 1, target_seq_len, source_seq_len]
combined_attention_mask = combined_attention_mask + _expand_mask(
attention_mask, inputs_embeds.dtype, target_len=input_shape[-1]
)
# expand encoder attention mask
if encoder_hidden_states is not None and encoder_attention_mask is not None:
# [batch_size, seq_len] -> [batch_size, 1, target_seq_len, source_seq_len]
encoder_attention_mask = _expand_mask(
encoder_attention_mask, inputs_embeds.dtype, target_len=input_shape[-1]
)
# optional intermediate hidden states
intermediate = () if self.config.auxiliary_loss else None
# decoder layers
all_hidden_states = () if output_hidden_states else None
all_self_attns = () if output_attentions else None
all_cross_attentions = () if (output_attentions and encoder_hidden_states is not None) else None
reference_points_before_sigmoid = self.ref_point_head(
query_position_embeddings
) # [num_queries, batch_size, 2]
reference_points = reference_points_before_sigmoid.sigmoid().transpose(0, 1)
obj_center = reference_points[..., :2].transpose(0, 1)
# get sine embedding for the query vector
query_sine_embed_before_transformation = gen_sine_position_embeddings(obj_center, self.config.d_model)
for idx, decoder_layer in enumerate(self.layers):
# add LayerDrop (see https://arxiv.org/abs/1909.11556 for description)
if output_hidden_states:
all_hidden_states += (hidden_states,)
if self.training:
dropout_probability = torch.rand([])
if dropout_probability < self.layerdrop:
continue
if idx == 0:
pos_transformation = 1
else:
pos_transformation = self.query_scale(hidden_states)
# apply transformation
query_sine_embed = query_sine_embed_before_transformation * pos_transformation
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(decoder_layer),
hidden_states,
combined_attention_mask,
position_embeddings,
query_position_embeddings,
query_sine_embed,
encoder_hidden_states,
encoder_attention_mask,
None,
None,
)
else:
layer_outputs = decoder_layer(
hidden_states,
attention_mask=combined_attention_mask,
position_embeddings=position_embeddings,
query_position_embeddings=query_position_embeddings,
query_sine_embed=query_sine_embed,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
output_attentions=output_attentions,
is_first=(idx == 0),
)
hidden_states = layer_outputs[0]
if self.config.auxiliary_loss:
hidden_states = self.layernorm(hidden_states)
intermediate += (hidden_states,)
if output_attentions:
all_self_attns += (layer_outputs[1],)
if encoder_hidden_states is not None:
all_cross_attentions += (layer_outputs[2],)
# finally, apply layernorm
hidden_states = self.layernorm(hidden_states)
# add hidden states from the last decoder layer
if output_hidden_states:
all_hidden_states += (hidden_states,)
# stack intermediate decoder activations
if self.config.auxiliary_loss:
intermediate = torch.stack(intermediate)
if not return_dict:
return tuple(
v
for v in [
hidden_states,
all_hidden_states,
all_self_attns,
all_cross_attentions,
intermediate,
reference_points,
]
if v is not None
)
return ConditionalDetrDecoderOutput(
last_hidden_state=hidden_states,
hidden_states=all_hidden_states,
attentions=all_self_attns,
cross_attentions=all_cross_attentions,
intermediate_hidden_states=intermediate,
reference_points=reference_points,
)
@add_start_docstrings(
"""
The bare Conditional DETR Model (consisting of a backbone and encoder-decoder Transformer) outputting raw
hidden-states without any specific head on top.
""",
CONDITIONAL_DETR_START_DOCSTRING,
)
class ConditionalDetrModel(ConditionalDetrPreTrainedModel):
def __init__(self, config: ConditionalDetrConfig):
super().__init__(config)
# Create backbone + positional encoding
backbone = ConditionalDetrConvEncoder(config)
position_embeddings = build_position_encoding(config)
self.backbone = ConditionalDetrConvModel(backbone, position_embeddings)
# Create projection layer
self.input_projection = nn.Conv2d(backbone.intermediate_channel_sizes[-1], config.d_model, kernel_size=1)
self.query_position_embeddings = nn.Embedding(config.num_queries, config.d_model)
self.encoder = ConditionalDetrEncoder(config)
self.decoder = ConditionalDetrDecoder(config)
# Initialize weights and apply final processing
self.post_init()
def get_encoder(self):
return self.encoder
def get_decoder(self):
return self.decoder
def freeze_backbone(self):
for name, param in self.backbone.conv_encoder.model.named_parameters():
param.requires_grad_(False)
def unfreeze_backbone(self):
for name, param in self.backbone.conv_encoder.model.named_parameters():
param.requires_grad_(True)
@add_start_docstrings_to_model_forward(CONDITIONAL_DETR_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=ConditionalDetrModelOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
pixel_values: torch.FloatTensor,
pixel_mask: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.LongTensor] = None,
encoder_outputs: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.FloatTensor], ConditionalDetrModelOutput]:
r"""
Returns:
Examples:
```python
>>> from transformers import AutoImageProcessor, AutoModel
>>> from PIL import Image
>>> import requests
>>> url = "http://images.cocodataset.org/val2017/000000039769.jpg"
>>> image = Image.open(requests.get(url, stream=True).raw)
>>> image_processor = AutoImageProcessor.from_pretrained("microsoft/conditional-detr-resnet-50")
>>> model = AutoModel.from_pretrained("microsoft/conditional-detr-resnet-50")
>>> # prepare image for the model
>>> inputs = image_processor(images=image, return_tensors="pt")
>>> # forward pass
>>> outputs = model(**inputs)
>>> # the last hidden states are the final query embeddings of the Transformer decoder
>>> # these are of shape (batch_size, num_queries, hidden_size)
>>> last_hidden_states = outputs.last_hidden_state
>>> list(last_hidden_states.shape)
[1, 300, 256]
```"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
batch_size, num_channels, height, width = pixel_values.shape
device = pixel_values.device
if pixel_mask is None:
pixel_mask = torch.ones(((batch_size, height, width)), device=device)
# First, sent pixel_values + pixel_mask through Backbone to obtain the features
# pixel_values should be of shape (batch_size, num_channels, height, width)
# pixel_mask should be of shape (batch_size, height, width)
features, position_embeddings_list = self.backbone(pixel_values, pixel_mask)
# get final feature map and downsampled mask
feature_map, mask = features[-1]
if mask is None:
raise ValueError("Backbone does not return downsampled pixel mask")
# Second, apply 1x1 convolution to reduce the channel dimension to d_model (256 by default)
projected_feature_map = self.input_projection(feature_map)
# Third, flatten the feature map + position embeddings of shape NxCxHxW to NxCxHW, and permute it to NxHWxC
# In other words, turn their shape into (batch_size, sequence_length, hidden_size)
flattened_features = projected_feature_map.flatten(2).permute(0, 2, 1)
position_embeddings = position_embeddings_list[-1].flatten(2).permute(0, 2, 1)
flattened_mask = mask.flatten(1)
# Fourth, sent flattened_features + flattened_mask + position embeddings through encoder
# flattened_features is a Tensor of shape (batch_size, heigth*width, hidden_size)
# flattened_mask is a Tensor of shape (batch_size, heigth*width)
if encoder_outputs is None:
encoder_outputs = self.encoder(
inputs_embeds=flattened_features,
attention_mask=flattened_mask,
position_embeddings=position_embeddings,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
# If the user passed a tuple for encoder_outputs, we wrap it in a BaseModelOutput when return_dict=True
elif return_dict and not isinstance(encoder_outputs, BaseModelOutput):
encoder_outputs = BaseModelOutput(
last_hidden_state=encoder_outputs[0],
hidden_states=encoder_outputs[1] if len(encoder_outputs) > 1 else None,
attentions=encoder_outputs[2] if len(encoder_outputs) > 2 else None,
)
# Fifth, sent query embeddings + position embeddings through the decoder (which is conditioned on the encoder output)
query_position_embeddings = self.query_position_embeddings.weight.unsqueeze(0).repeat(batch_size, 1, 1)
queries = torch.zeros_like(query_position_embeddings)
# decoder outputs consists of (dec_features, dec_hidden, dec_attn)
decoder_outputs = self.decoder(
inputs_embeds=queries,
attention_mask=None,
position_embeddings=position_embeddings,
query_position_embeddings=query_position_embeddings,
encoder_hidden_states=encoder_outputs[0],
encoder_attention_mask=flattened_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
if not return_dict:
return decoder_outputs + encoder_outputs
return ConditionalDetrModelOutput(
last_hidden_state=decoder_outputs.last_hidden_state,
decoder_hidden_states=decoder_outputs.hidden_states,
decoder_attentions=decoder_outputs.attentions,
cross_attentions=decoder_outputs.cross_attentions,
encoder_last_hidden_state=encoder_outputs.last_hidden_state,
encoder_hidden_states=encoder_outputs.hidden_states,
encoder_attentions=encoder_outputs.attentions,
intermediate_hidden_states=decoder_outputs.intermediate_hidden_states,
reference_points=decoder_outputs.reference_points,
)
@add_start_docstrings(
"""
CONDITIONAL_DETR Model (consisting of a backbone and encoder-decoder Transformer) with object detection heads on
top, for tasks such as COCO detection.
""",
CONDITIONAL_DETR_START_DOCSTRING,
)
class ConditionalDetrForObjectDetection(ConditionalDetrPreTrainedModel):
def __init__(self, config: ConditionalDetrConfig):
super().__init__(config)
# CONDITIONAL DETR encoder-decoder model
self.model = ConditionalDetrModel(config)
# Object detection heads
self.class_labels_classifier = nn.Linear(
config.d_model, config.num_labels
) # We add one for the "no object" class
self.bbox_predictor = ConditionalDetrMLPPredictionHead(
input_dim=config.d_model, hidden_dim=config.d_model, output_dim=4, num_layers=3
)
# Initialize weights and apply final processing
self.post_init()
# taken from https://github.com/Atten4Vis/conditionalDETR/blob/master/models/conditional_detr.py
@torch.jit.unused
def _set_aux_loss(self, outputs_class, outputs_coord):
# this is a workaround to make torchscript happy, as torchscript
# doesn't support dictionary with non-homogeneous values, such
# as a dict having both a Tensor and a list.
return [{"logits": a, "pred_boxes": b} for a, b in zip(outputs_class[:-1], outputs_coord[:-1])]
@add_start_docstrings_to_model_forward(CONDITIONAL_DETR_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=ConditionalDetrObjectDetectionOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
pixel_values: torch.FloatTensor,
pixel_mask: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.LongTensor] = None,
encoder_outputs: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[List[dict]] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.FloatTensor], ConditionalDetrObjectDetectionOutput]:
r"""
labels (`List[Dict]` of len `(batch_size,)`, *optional*):
Labels for computing the bipartite matching loss. List of dicts, each dictionary containing at least the
following 2 keys: 'class_labels' and 'boxes' (the class labels and bounding boxes of an image in the batch
respectively). The class labels themselves should be a `torch.LongTensor` of len `(number of bounding boxes
in the image,)` and the boxes a `torch.FloatTensor` of shape `(number of bounding boxes in the image, 4)`.
Returns:
Examples:
```python
>>> from transformers import AutoImageProcessor, AutoModelForObjectDetection
>>> from PIL import Image
>>> import requests
>>> url = "http://images.cocodataset.org/val2017/000000039769.jpg"
>>> image = Image.open(requests.get(url, stream=True).raw)
>>> image_processor = AutoImageProcessor.from_pretrained("microsoft/conditional-detr-resnet-50")
>>> model = AutoModelForObjectDetection.from_pretrained("microsoft/conditional-detr-resnet-50")
>>> inputs = image_processor(images=image, return_tensors="pt")
>>> outputs = model(**inputs)
>>> # convert outputs (bounding boxes and class logits) to COCO API
>>> target_sizes = torch.tensor([image.size[::-1]])
>>> results = image_processor.post_process_object_detection(outputs, threshold=0.5, target_sizes=target_sizes)[
... 0
... ]
>>> for score, label, box in zip(results["scores"], results["labels"], results["boxes"]):
... box = [round(i, 2) for i in box.tolist()]
... print(
... f"Detected {model.config.id2label[label.item()]} with confidence "
... f"{round(score.item(), 3)} at location {box}"
... )
Detected remote with confidence 0.833 at location [38.31, 72.1, 177.63, 118.45]
Detected cat with confidence 0.831 at location [9.2, 51.38, 321.13, 469.0]
Detected cat with confidence 0.804 at location [340.3, 16.85, 642.93, 370.95]
Detected remote with confidence 0.683 at location [334.48, 73.49, 366.37, 190.01]
Detected couch with confidence 0.535 at location [0.52, 1.19, 640.35, 475.1]
```"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# First, sent images through CONDITIONAL_DETR base model to obtain encoder + decoder outputs
outputs = self.model(
pixel_values,
pixel_mask=pixel_mask,
decoder_attention_mask=decoder_attention_mask,
encoder_outputs=encoder_outputs,
inputs_embeds=inputs_embeds,
decoder_inputs_embeds=decoder_inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
# class logits + predicted bounding boxes
logits = self.class_labels_classifier(sequence_output)
reference = outputs.reference_points if return_dict else outputs[-1]
reference_before_sigmoid = inverse_sigmoid(reference).transpose(0, 1)
outputs_coords = []
hs = sequence_output
tmp = self.bbox_predictor(hs)
tmp[..., :2] += reference_before_sigmoid
pred_boxes = tmp.sigmoid()
# pred_boxes = self.bbox_predictor(sequence_output).sigmoid()
loss, loss_dict, auxiliary_outputs = None, None, None
if labels is not None:
# First: create the matcher
matcher = ConditionalDetrHungarianMatcher(
class_cost=self.config.class_cost, bbox_cost=self.config.bbox_cost, giou_cost=self.config.giou_cost
)
# Second: create the criterion
losses = ["labels", "boxes", "cardinality"]
criterion = ConditionalDetrLoss(
matcher=matcher,
num_classes=self.config.num_labels,
focal_alpha=self.config.focal_alpha,
losses=losses,
)
criterion.to(self.device)
# Third: compute the losses, based on outputs and labels
outputs_loss = {}
outputs_loss["logits"] = logits
outputs_loss["pred_boxes"] = pred_boxes
if self.config.auxiliary_loss:
intermediate = outputs.intermediate_hidden_states if return_dict else outputs[4]
outputs_class = self.class_labels_classifier(intermediate)
for lvl in range(hs.shape[0]):
tmp = self.bbox_predictor(hs[lvl])
tmp[..., :2] += reference_before_sigmoid
outputs_coord = tmp.sigmoid()
outputs_coords.append(outputs_coord)
outputs_coord = torch.stack(outputs_coords)
auxiliary_outputs = self._set_aux_loss(outputs_class, outputs_coord)
outputs_loss["auxiliary_outputs"] = auxiliary_outputs
loss_dict = criterion(outputs_loss, labels)
# Fourth: compute total loss, as a weighted sum of the various losses
weight_dict = {"loss_ce": self.config.cls_loss_coefficient, "loss_bbox": self.config.bbox_loss_coefficient}
weight_dict["loss_giou"] = self.config.giou_loss_coefficient
if self.config.auxiliary_loss:
aux_weight_dict = {}
for i in range(self.config.decoder_layers - 1):
aux_weight_dict.update({k + f"_{i}": v for k, v in weight_dict.items()})
weight_dict.update(aux_weight_dict)
loss = sum(loss_dict[k] * weight_dict[k] for k in loss_dict.keys() if k in weight_dict)
if not return_dict:
if auxiliary_outputs is not None:
output = (logits, pred_boxes) + auxiliary_outputs + outputs
else:
output = (logits, pred_boxes) + outputs
return ((loss, loss_dict) + output) if loss is not None else output
return ConditionalDetrObjectDetectionOutput(
loss=loss,
loss_dict=loss_dict,
logits=logits,
pred_boxes=pred_boxes,
auxiliary_outputs=auxiliary_outputs,
last_hidden_state=outputs.last_hidden_state,
decoder_hidden_states=outputs.decoder_hidden_states,
decoder_attentions=outputs.decoder_attentions,
cross_attentions=outputs.cross_attentions,
encoder_last_hidden_state=outputs.encoder_last_hidden_state,
encoder_hidden_states=outputs.encoder_hidden_states,
encoder_attentions=outputs.encoder_attentions,
)
@add_start_docstrings(
"""
CONDITIONAL_DETR Model (consisting of a backbone and encoder-decoder Transformer) with a segmentation head on top,
for tasks such as COCO panoptic.
""",
CONDITIONAL_DETR_START_DOCSTRING,
)
class ConditionalDetrForSegmentation(ConditionalDetrPreTrainedModel):
def __init__(self, config: ConditionalDetrConfig):
super().__init__(config)
# object detection model
self.conditional_detr = ConditionalDetrForObjectDetection(config)
# segmentation head
hidden_size, number_of_heads = config.d_model, config.encoder_attention_heads
intermediate_channel_sizes = self.conditional_detr.model.backbone.conv_encoder.intermediate_channel_sizes
self.mask_head = ConditionalDetrMaskHeadSmallConv(
hidden_size + number_of_heads, intermediate_channel_sizes[::-1][-3:], hidden_size
)
self.bbox_attention = ConditionalDetrMHAttentionMap(
hidden_size, hidden_size, number_of_heads, dropout=0.0, std=config.init_xavier_std
)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(CONDITIONAL_DETR_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=ConditionalDetrSegmentationOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
pixel_values: torch.FloatTensor,
pixel_mask: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.LongTensor] = None,
encoder_outputs: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[List[dict]] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.FloatTensor], ConditionalDetrSegmentationOutput]:
r"""
labels (`List[Dict]` of len `(batch_size,)`, *optional*):
Labels for computing the bipartite matching loss, DICE/F-1 loss and Focal loss. List of dicts, each
dictionary containing at least the following 3 keys: 'class_labels', 'boxes' and 'masks' (the class labels,
bounding boxes and segmentation masks of an image in the batch respectively). The class labels themselves
should be a `torch.LongTensor` of len `(number of bounding boxes in the image,)`, the boxes a
`torch.FloatTensor` of shape `(number of bounding boxes in the image, 4)` and the masks a
`torch.FloatTensor` of shape `(number of bounding boxes in the image, height, width)`.
Returns:
Examples:
```python
>>> import io
>>> import requests
>>> from PIL import Image
>>> import torch
>>> import numpy
>>> from transformers import (
... AutoImageProcessor,
... ConditionalDetrConfig,
... ConditionalDetrForSegmentation,
... )
>>> from transformers.image_transforms import rgb_to_id
>>> url = "http://images.cocodataset.org/val2017/000000039769.jpg"
>>> image = Image.open(requests.get(url, stream=True).raw)
>>> image_processor = AutoImageProcessor.from_pretrained("microsoft/conditional-detr-resnet-50")
>>> # randomly initialize all weights of the model
>>> config = ConditionalDetrConfig()
>>> model = ConditionalDetrForSegmentation(config)
>>> # prepare image for the model
>>> inputs = image_processor(images=image, return_tensors="pt")
>>> # forward pass
>>> outputs = model(**inputs)
>>> # Use the `post_process_panoptic_segmentation` method of the `image_processor` to retrieve post-processed panoptic segmentation maps
>>> # Segmentation results are returned as a list of dictionaries
>>> result = image_processor.post_process_panoptic_segmentation(outputs, target_sizes=[(300, 500)])
>>> # A tensor of shape (height, width) where each value denotes a segment id, filled with -1 if no segment is found
>>> panoptic_seg = result[0]["segmentation"]
>>> # Get prediction score and segment_id to class_id mapping of each segment
>>> panoptic_segments_info = result[0]["segments_info"]
```"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
batch_size, num_channels, height, width = pixel_values.shape
device = pixel_values.device
if pixel_mask is None:
pixel_mask = torch.ones((batch_size, height, width), device=device)
# First, get list of feature maps and position embeddings
features, position_embeddings_list = self.conditional_detr.model.backbone(pixel_values, pixel_mask=pixel_mask)
# Second, apply 1x1 convolution to reduce the channel dimension to d_model (256 by default)
feature_map, mask = features[-1]
batch_size, num_channels, height, width = feature_map.shape
projected_feature_map = self.conditional_detr.model.input_projection(feature_map)
# Third, flatten the feature map + position embeddings of shape NxCxHxW to NxCxHW, and permute it to NxHWxC
# In other words, turn their shape into (batch_size, sequence_length, hidden_size)
flattened_features = projected_feature_map.flatten(2).permute(0, 2, 1)
position_embeddings = position_embeddings_list[-1].flatten(2).permute(0, 2, 1)
flattened_mask = mask.flatten(1)
# Fourth, sent flattened_features + flattened_mask + position embeddings through encoder
# flattened_features is a Tensor of shape (batch_size, heigth*width, hidden_size)
# flattened_mask is a Tensor of shape (batch_size, heigth*width)
if encoder_outputs is None:
encoder_outputs = self.conditional_detr.model.encoder(
inputs_embeds=flattened_features,
attention_mask=flattened_mask,
position_embeddings=position_embeddings,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
# If the user passed a tuple for encoder_outputs, we wrap it in a BaseModelOutput when return_dict=True
elif return_dict and not isinstance(encoder_outputs, BaseModelOutput):
encoder_outputs = BaseModelOutput(
last_hidden_state=encoder_outputs[0],
hidden_states=encoder_outputs[1] if len(encoder_outputs) > 1 else None,
attentions=encoder_outputs[2] if len(encoder_outputs) > 2 else None,
)
# Fifth, sent query embeddings + position embeddings through the decoder (which is conditioned on the encoder output)
query_position_embeddings = self.conditional_detr.model.query_position_embeddings.weight.unsqueeze(0).repeat(
batch_size, 1, 1
)
queries = torch.zeros_like(query_position_embeddings)
# decoder outputs consists of (dec_features, dec_hidden, dec_attn)
decoder_outputs = self.conditional_detr.model.decoder(
inputs_embeds=queries,
attention_mask=None,
position_embeddings=position_embeddings,
query_position_embeddings=query_position_embeddings,
encoder_hidden_states=encoder_outputs[0],
encoder_attention_mask=flattened_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = decoder_outputs[0]
# Sixth, compute logits, pred_boxes and pred_masks
logits = self.conditional_detr.class_labels_classifier(sequence_output)
pred_boxes = self.conditional_detr.bbox_predictor(sequence_output).sigmoid()
memory = encoder_outputs[0].permute(0, 2, 1).view(batch_size, self.config.d_model, height, width)
mask = flattened_mask.view(batch_size, height, width)
# FIXME h_boxes takes the last one computed, keep this in mind
# important: we need to reverse the mask, since in the original implementation the mask works reversed
# bbox_mask is of shape (batch_size, num_queries, number_of_attention_heads in bbox_attention, height/32, width/32)
bbox_mask = self.bbox_attention(sequence_output, memory, mask=~mask)
seg_masks = self.mask_head(projected_feature_map, bbox_mask, [features[2][0], features[1][0], features[0][0]])
pred_masks = seg_masks.view(
batch_size, self.conditional_detr.config.num_queries, seg_masks.shape[-2], seg_masks.shape[-1]
)
loss, loss_dict, auxiliary_outputs = None, None, None
if labels is not None:
# First: create the matcher
matcher = ConditionalDetrHungarianMatcher(
class_cost=self.config.class_cost, bbox_cost=self.config.bbox_cost, giou_cost=self.config.giou_cost
)
# Second: create the criterion
losses = ["labels", "boxes", "cardinality", "masks"]
criterion = ConditionalDetrLoss(
matcher=matcher,
num_classes=self.config.num_labels,
focal_alpha=self.config.focal_alpha,
losses=losses,
)
criterion.to(self.device)
# Third: compute the losses, based on outputs and labels
outputs_loss = {}
outputs_loss["logits"] = logits
outputs_loss["pred_boxes"] = pred_boxes
outputs_loss["pred_masks"] = pred_masks
if self.config.auxiliary_loss:
intermediate = decoder_outputs.intermediate_hidden_states if return_dict else decoder_outputs[-1]
outputs_class = self.class_labels_classifier(intermediate)
outputs_coord = self.bbox_predictor(intermediate).sigmoid()
auxiliary_outputs = self._set_aux_loss(outputs_class, outputs_coord)
outputs_loss["auxiliary_outputs"] = auxiliary_outputs
loss_dict = criterion(outputs_loss, labels)
# Fourth: compute total loss, as a weighted sum of the various losses
weight_dict = {"loss_ce": 1, "loss_bbox": self.config.bbox_loss_coefficient}
weight_dict["loss_giou"] = self.config.giou_loss_coefficient
weight_dict["loss_mask"] = self.config.mask_loss_coefficient
weight_dict["loss_dice"] = self.config.dice_loss_coefficient
if self.config.auxiliary_loss:
aux_weight_dict = {}
for i in range(self.config.decoder_layers - 1):
aux_weight_dict.update({k + f"_{i}": v for k, v in weight_dict.items()})
weight_dict.update(aux_weight_dict)
loss = sum(loss_dict[k] * weight_dict[k] for k in loss_dict.keys() if k in weight_dict)
if not return_dict:
if auxiliary_outputs is not None:
output = (logits, pred_boxes, pred_masks) + auxiliary_outputs + decoder_outputs + encoder_outputs
else:
output = (logits, pred_boxes, pred_masks) + decoder_outputs + encoder_outputs
return ((loss, loss_dict) + output) if loss is not None else output
return ConditionalDetrSegmentationOutput(
loss=loss,
loss_dict=loss_dict,
logits=logits,
pred_boxes=pred_boxes,
pred_masks=pred_masks,
auxiliary_outputs=auxiliary_outputs,
last_hidden_state=decoder_outputs.last_hidden_state,
decoder_hidden_states=decoder_outputs.hidden_states,
decoder_attentions=decoder_outputs.attentions,
cross_attentions=decoder_outputs.cross_attentions,
encoder_last_hidden_state=encoder_outputs.last_hidden_state,
encoder_hidden_states=encoder_outputs.hidden_states,
encoder_attentions=encoder_outputs.attentions,
)
def _expand(tensor, length: int):
return tensor.unsqueeze(1).repeat(1, int(length), 1, 1, 1).flatten(0, 1)
# Copied from transformers.models.detr.modeling_detr.DetrMaskHeadSmallConv with Detr->ConditionalDetr
class ConditionalDetrMaskHeadSmallConv(nn.Module):
"""
Simple convolutional head, using group norm. Upsampling is done using a FPN approach
"""
def __init__(self, dim, fpn_dims, context_dim):
super().__init__()
if dim % 8 != 0:
raise ValueError(
"The hidden_size + number of attention heads must be divisible by 8 as the number of groups in"
" GroupNorm is set to 8"
)
inter_dims = [dim, context_dim // 2, context_dim // 4, context_dim // 8, context_dim // 16, context_dim // 64]
self.lay1 = nn.Conv2d(dim, dim, 3, padding=1)
self.gn1 = nn.GroupNorm(8, dim)
self.lay2 = nn.Conv2d(dim, inter_dims[1], 3, padding=1)
self.gn2 = nn.GroupNorm(min(8, inter_dims[1]), inter_dims[1])
self.lay3 = nn.Conv2d(inter_dims[1], inter_dims[2], 3, padding=1)
self.gn3 = nn.GroupNorm(min(8, inter_dims[2]), inter_dims[2])
self.lay4 = nn.Conv2d(inter_dims[2], inter_dims[3], 3, padding=1)
self.gn4 = nn.GroupNorm(min(8, inter_dims[3]), inter_dims[3])
self.lay5 = nn.Conv2d(inter_dims[3], inter_dims[4], 3, padding=1)
self.gn5 = nn.GroupNorm(min(8, inter_dims[4]), inter_dims[4])
self.out_lay = nn.Conv2d(inter_dims[4], 1, 3, padding=1)
self.dim = dim
self.adapter1 = nn.Conv2d(fpn_dims[0], inter_dims[1], 1)
self.adapter2 = nn.Conv2d(fpn_dims[1], inter_dims[2], 1)
self.adapter3 = nn.Conv2d(fpn_dims[2], inter_dims[3], 1)
for m in self.modules():
if isinstance(m, nn.Conv2d):
nn.init.kaiming_uniform_(m.weight, a=1)
nn.init.constant_(m.bias, 0)
def forward(self, x: Tensor, bbox_mask: Tensor, fpns: List[Tensor]):
# here we concatenate x, the projected feature map, of shape (batch_size, d_model, heigth/32, width/32) with
# the bbox_mask = the attention maps of shape (batch_size, n_queries, n_heads, height/32, width/32).
# We expand the projected feature map to match the number of heads.
x = torch.cat([_expand(x, bbox_mask.shape[1]), bbox_mask.flatten(0, 1)], 1)
x = self.lay1(x)
x = self.gn1(x)
x = nn.functional.relu(x)
x = self.lay2(x)
x = self.gn2(x)
x = nn.functional.relu(x)
cur_fpn = self.adapter1(fpns[0])
if cur_fpn.size(0) != x.size(0):
cur_fpn = _expand(cur_fpn, x.size(0) // cur_fpn.size(0))
x = cur_fpn + nn.functional.interpolate(x, size=cur_fpn.shape[-2:], mode="nearest")
x = self.lay3(x)
x = self.gn3(x)
x = nn.functional.relu(x)
cur_fpn = self.adapter2(fpns[1])
if cur_fpn.size(0) != x.size(0):
cur_fpn = _expand(cur_fpn, x.size(0) // cur_fpn.size(0))
x = cur_fpn + nn.functional.interpolate(x, size=cur_fpn.shape[-2:], mode="nearest")
x = self.lay4(x)
x = self.gn4(x)
x = nn.functional.relu(x)
cur_fpn = self.adapter3(fpns[2])
if cur_fpn.size(0) != x.size(0):
cur_fpn = _expand(cur_fpn, x.size(0) // cur_fpn.size(0))
x = cur_fpn + nn.functional.interpolate(x, size=cur_fpn.shape[-2:], mode="nearest")
x = self.lay5(x)
x = self.gn5(x)
x = nn.functional.relu(x)
x = self.out_lay(x)
return x
# Copied from transformers.models.detr.modeling_detr.DetrMHAttentionMap with Detr->ConditionalDetr
class ConditionalDetrMHAttentionMap(nn.Module):
"""This is a 2D attention module, which only returns the attention softmax (no multiplication by value)"""
def __init__(self, query_dim, hidden_dim, num_heads, dropout=0.0, bias=True, std=None):
super().__init__()
self.num_heads = num_heads
self.hidden_dim = hidden_dim
self.dropout = nn.Dropout(dropout)
self.q_linear = nn.Linear(query_dim, hidden_dim, bias=bias)
self.k_linear = nn.Linear(query_dim, hidden_dim, bias=bias)
self.normalize_fact = float(hidden_dim / self.num_heads) ** -0.5
def forward(self, q, k, mask: Optional[Tensor] = None):
q = self.q_linear(q)
k = nn.functional.conv2d(k, self.k_linear.weight.unsqueeze(-1).unsqueeze(-1), self.k_linear.bias)
queries_per_head = q.view(q.shape[0], q.shape[1], self.num_heads, self.hidden_dim // self.num_heads)
keys_per_head = k.view(k.shape[0], self.num_heads, self.hidden_dim // self.num_heads, k.shape[-2], k.shape[-1])
weights = torch.einsum("bqnc,bnchw->bqnhw", queries_per_head * self.normalize_fact, keys_per_head)
if mask is not None:
weights.masked_fill_(mask.unsqueeze(1).unsqueeze(1), torch.finfo(weights.dtype).min)
weights = nn.functional.softmax(weights.flatten(2), dim=-1).view(weights.size())
weights = self.dropout(weights)
return weights
# Copied from transformers.models.detr.modeling_detr.dice_loss
def dice_loss(inputs, targets, num_boxes):
"""
Compute the DICE loss, similar to generalized IOU for masks
Args:
inputs: A float tensor of arbitrary shape.
The predictions for each example.
targets: A float tensor with the same shape as inputs. Stores the binary
classification label for each element in inputs (0 for the negative class and 1 for the positive
class).
"""
inputs = inputs.sigmoid()
inputs = inputs.flatten(1)
numerator = 2 * (inputs * targets).sum(1)
denominator = inputs.sum(-1) + targets.sum(-1)
loss = 1 - (numerator + 1) / (denominator + 1)
return loss.sum() / num_boxes
# Copied from transformers.models.detr.modeling_detr.sigmoid_focal_loss
def sigmoid_focal_loss(inputs, targets, num_boxes, alpha: float = 0.25, gamma: float = 2):
"""
Loss used in RetinaNet for dense detection: https://arxiv.org/abs/1708.02002.
Args:
inputs (`torch.FloatTensor` of arbitrary shape):
The predictions for each example.
targets (`torch.FloatTensor` with the same shape as `inputs`)
A tensor storing the binary classification label for each element in the `inputs` (0 for the negative class
and 1 for the positive class).
alpha (`float`, *optional*, defaults to `0.25`):
Optional weighting factor in the range (0,1) to balance positive vs. negative examples.
gamma (`int`, *optional*, defaults to `2`):
Exponent of the modulating factor (1 - p_t) to balance easy vs hard examples.
Returns:
Loss tensor
"""
prob = inputs.sigmoid()
ce_loss = nn.functional.binary_cross_entropy_with_logits(inputs, targets, reduction="none")
# add modulating factor
p_t = prob * targets + (1 - prob) * (1 - targets)
loss = ce_loss * ((1 - p_t) ** gamma)
if alpha >= 0:
alpha_t = alpha * targets + (1 - alpha) * (1 - targets)
loss = alpha_t * loss
return loss.mean(1).sum() / num_boxes
class ConditionalDetrLoss(nn.Module):
"""
This class computes the losses for ConditionalDetrForObjectDetection/ConditionalDetrForSegmentation. The process
happens in two steps: 1) we compute hungarian assignment between ground truth boxes and the outputs of the model 2)
we supervise each pair of matched ground-truth / prediction (supervise class and box).
Args:
matcher (`ConditionalDetrHungarianMatcher`):
Module able to compute a matching between targets and proposals.
num_classes (`int`):
Number of object categories, omitting the special no-object category.
focal_alpha (`float`):
Alpha parameter in focal loss.
losses (`List[str]`):
List of all the losses to be applied. See `get_loss` for a list of all available losses.
"""
# Copied from transformers.models.deformable_detr.modeling_deformable_detr.DeformableDetrLoss.__init__
def __init__(self, matcher, num_classes, focal_alpha, losses):
super().__init__()
self.matcher = matcher
self.num_classes = num_classes
self.focal_alpha = focal_alpha
self.losses = losses
# Copied from transformers.models.deformable_detr.modeling_deformable_detr.DeformableDetrLoss.loss_labels
def loss_labels(self, outputs, targets, indices, num_boxes):
"""
Classification loss (Binary focal loss) targets dicts must contain the key "class_labels" containing a tensor
of dim [nb_target_boxes]
"""
if "logits" not in outputs:
raise KeyError("No logits were found in the outputs")
source_logits = outputs["logits"]
idx = self._get_source_permutation_idx(indices)
target_classes_o = torch.cat([t["class_labels"][J] for t, (_, J) in zip(targets, indices)])
target_classes = torch.full(
source_logits.shape[:2], self.num_classes, dtype=torch.int64, device=source_logits.device
)
target_classes[idx] = target_classes_o
target_classes_onehot = torch.zeros(
[source_logits.shape[0], source_logits.shape[1], source_logits.shape[2] + 1],
dtype=source_logits.dtype,
layout=source_logits.layout,
device=source_logits.device,
)
target_classes_onehot.scatter_(2, target_classes.unsqueeze(-1), 1)
target_classes_onehot = target_classes_onehot[:, :, :-1]
loss_ce = (
sigmoid_focal_loss(source_logits, target_classes_onehot, num_boxes, alpha=self.focal_alpha, gamma=2)
* source_logits.shape[1]
)
losses = {"loss_ce": loss_ce}
return losses
@torch.no_grad()
# Copied from transformers.models.deformable_detr.modeling_deformable_detr.DeformableDetrLoss.loss_cardinality
def loss_cardinality(self, outputs, targets, indices, num_boxes):
"""
Compute the cardinality error, i.e. the absolute error in the number of predicted non-empty boxes.
This is not really a loss, it is intended for logging purposes only. It doesn't propagate gradients.
"""
logits = outputs["logits"]
device = logits.device
target_lengths = torch.as_tensor([len(v["class_labels"]) for v in targets], device=device)
# Count the number of predictions that are NOT "no-object" (which is the last class)
card_pred = (logits.argmax(-1) != logits.shape[-1] - 1).sum(1)
card_err = nn.functional.l1_loss(card_pred.float(), target_lengths.float())
losses = {"cardinality_error": card_err}
return losses
# Copied from transformers.models.deformable_detr.modeling_deformable_detr.DeformableDetrLoss.loss_boxes
def loss_boxes(self, outputs, targets, indices, num_boxes):
"""
Compute the losses related to the bounding boxes, the L1 regression loss and the GIoU loss.
Targets dicts must contain the key "boxes" containing a tensor of dim [nb_target_boxes, 4]. The target boxes
are expected in format (center_x, center_y, w, h), normalized by the image size.
"""
if "pred_boxes" not in outputs:
raise KeyError("No predicted boxes found in outputs")
idx = self._get_source_permutation_idx(indices)
source_boxes = outputs["pred_boxes"][idx]
target_boxes = torch.cat([t["boxes"][i] for t, (_, i) in zip(targets, indices)], dim=0)
loss_bbox = nn.functional.l1_loss(source_boxes, target_boxes, reduction="none")
losses = {}
losses["loss_bbox"] = loss_bbox.sum() / num_boxes
loss_giou = 1 - torch.diag(
generalized_box_iou(center_to_corners_format(source_boxes), center_to_corners_format(target_boxes))
)
losses["loss_giou"] = loss_giou.sum() / num_boxes
return losses
# Copied from transformers.models.detr.modeling_detr.DetrLoss.loss_masks
def loss_masks(self, outputs, targets, indices, num_boxes):
"""
Compute the losses related to the masks: the focal loss and the dice loss.
Targets dicts must contain the key "masks" containing a tensor of dim [nb_target_boxes, h, w].
"""
if "pred_masks" not in outputs:
raise KeyError("No predicted masks found in outputs")
source_idx = self._get_source_permutation_idx(indices)
target_idx = self._get_target_permutation_idx(indices)
source_masks = outputs["pred_masks"]
source_masks = source_masks[source_idx]
masks = [t["masks"] for t in targets]
# TODO use valid to mask invalid areas due to padding in loss
target_masks, valid = nested_tensor_from_tensor_list(masks).decompose()
target_masks = target_masks.to(source_masks)
target_masks = target_masks[target_idx]
# upsample predictions to the target size
source_masks = nn.functional.interpolate(
source_masks[:, None], size=target_masks.shape[-2:], mode="bilinear", align_corners=False
)
source_masks = source_masks[:, 0].flatten(1)
target_masks = target_masks.flatten(1)
target_masks = target_masks.view(source_masks.shape)
losses = {
"loss_mask": sigmoid_focal_loss(source_masks, target_masks, num_boxes),
"loss_dice": dice_loss(source_masks, target_masks, num_boxes),
}
return losses
# Copied from transformers.models.deformable_detr.modeling_deformable_detr.DeformableDetrLoss._get_source_permutation_idx
def _get_source_permutation_idx(self, indices):
# permute predictions following indices
batch_idx = torch.cat([torch.full_like(source, i) for i, (source, _) in enumerate(indices)])
source_idx = torch.cat([source for (source, _) in indices])
return batch_idx, source_idx
# Copied from transformers.models.deformable_detr.modeling_deformable_detr.DeformableDetrLoss._get_target_permutation_idx
def _get_target_permutation_idx(self, indices):
# permute targets following indices
batch_idx = torch.cat([torch.full_like(target, i) for i, (_, target) in enumerate(indices)])
target_idx = torch.cat([target for (_, target) in indices])
return batch_idx, target_idx
# Copied from transformers.models.detr.modeling_detr.DetrLoss.get_loss
def get_loss(self, loss, outputs, targets, indices, num_boxes):
loss_map = {
"labels": self.loss_labels,
"cardinality": self.loss_cardinality,
"boxes": self.loss_boxes,
"masks": self.loss_masks,
}
if loss not in loss_map:
raise ValueError(f"Loss {loss} not supported")
return loss_map[loss](outputs, targets, indices, num_boxes)
# Copied from transformers.models.detr.modeling_detr.DetrLoss.forward
def forward(self, outputs, targets):
"""
This performs the loss computation.
Args:
outputs (`dict`, *optional*):
Dictionary of tensors, see the output specification of the model for the format.
targets (`List[dict]`, *optional*):
List of dicts, such that `len(targets) == batch_size`. The expected keys in each dict depends on the
losses applied, see each loss' doc.
"""
outputs_without_aux = {k: v for k, v in outputs.items() if k != "auxiliary_outputs"}
# Retrieve the matching between the outputs of the last layer and the targets
indices = self.matcher(outputs_without_aux, targets)
# Compute the average number of target boxes across all nodes, for normalization purposes
num_boxes = sum(len(t["class_labels"]) for t in targets)
num_boxes = torch.as_tensor([num_boxes], dtype=torch.float, device=next(iter(outputs.values())).device)
# (Niels): comment out function below, distributed training to be added
# if is_dist_avail_and_initialized():
# torch.distributed.all_reduce(num_boxes)
# (Niels) in original implementation, num_boxes is divided by get_world_size()
num_boxes = torch.clamp(num_boxes, min=1).item()
# Compute all the requested losses
losses = {}
for loss in self.losses:
losses.update(self.get_loss(loss, outputs, targets, indices, num_boxes))
# In case of auxiliary losses, we repeat this process with the output of each intermediate layer.
if "auxiliary_outputs" in outputs:
for i, auxiliary_outputs in enumerate(outputs["auxiliary_outputs"]):
indices = self.matcher(auxiliary_outputs, targets)
for loss in self.losses:
if loss == "masks":
# Intermediate masks losses are too costly to compute, we ignore them.
continue
l_dict = self.get_loss(loss, auxiliary_outputs, targets, indices, num_boxes)
l_dict = {k + f"_{i}": v for k, v in l_dict.items()}
losses.update(l_dict)
return losses
# Copied from transformers.models.detr.modeling_detr.DetrMLPPredictionHead with Detr->ConditionalDetr
class ConditionalDetrMLPPredictionHead(nn.Module):
"""
Very simple multi-layer perceptron (MLP, also called FFN), used to predict the normalized center coordinates,
height and width of a bounding box w.r.t. an image.
Copied from https://github.com/facebookresearch/detr/blob/master/models/detr.py
"""
def __init__(self, input_dim, hidden_dim, output_dim, num_layers):
super().__init__()
self.num_layers = num_layers
h = [hidden_dim] * (num_layers - 1)
self.layers = nn.ModuleList(nn.Linear(n, k) for n, k in zip([input_dim] + h, h + [output_dim]))
def forward(self, x):
for i, layer in enumerate(self.layers):
x = nn.functional.relu(layer(x)) if i < self.num_layers - 1 else layer(x)
return x
# Copied from transformers.models.deformable_detr.modeling_deformable_detr.DeformableDetrHungarianMatcher with DeformableDetr->ConditionalDetr
class ConditionalDetrHungarianMatcher(nn.Module):
"""
This class computes an assignment between the targets and the predictions of the network.
For efficiency reasons, the targets don't include the no_object. Because of this, in general, there are more
predictions than targets. In this case, we do a 1-to-1 matching of the best predictions, while the others are
un-matched (and thus treated as non-objects).
Args:
class_cost:
The relative weight of the classification error in the matching cost.
bbox_cost:
The relative weight of the L1 error of the bounding box coordinates in the matching cost.
giou_cost:
The relative weight of the giou loss of the bounding box in the matching cost.
"""
def __init__(self, class_cost: float = 1, bbox_cost: float = 1, giou_cost: float = 1):
super().__init__()
requires_backends(self, ["scipy"])
self.class_cost = class_cost
self.bbox_cost = bbox_cost
self.giou_cost = giou_cost
if class_cost == 0 and bbox_cost == 0 and giou_cost == 0:
raise ValueError("All costs of the Matcher can't be 0")
@torch.no_grad()
def forward(self, outputs, targets):
"""
Args:
outputs (`dict`):
A dictionary that contains at least these entries:
* "logits": Tensor of dim [batch_size, num_queries, num_classes] with the classification logits
* "pred_boxes": Tensor of dim [batch_size, num_queries, 4] with the predicted box coordinates.
targets (`List[dict]`):
A list of targets (len(targets) = batch_size), where each target is a dict containing:
* "class_labels": Tensor of dim [num_target_boxes] (where num_target_boxes is the number of
ground-truth
objects in the target) containing the class labels
* "boxes": Tensor of dim [num_target_boxes, 4] containing the target box coordinates.
Returns:
`List[Tuple]`: A list of size `batch_size`, containing tuples of (index_i, index_j) where:
- index_i is the indices of the selected predictions (in order)
- index_j is the indices of the corresponding selected targets (in order)
For each batch element, it holds: len(index_i) = len(index_j) = min(num_queries, num_target_boxes)
"""
batch_size, num_queries = outputs["logits"].shape[:2]
# We flatten to compute the cost matrices in a batch
out_prob = outputs["logits"].flatten(0, 1).sigmoid() # [batch_size * num_queries, num_classes]
out_bbox = outputs["pred_boxes"].flatten(0, 1) # [batch_size * num_queries, 4]
# Also concat the target labels and boxes
target_ids = torch.cat([v["class_labels"] for v in targets])
target_bbox = torch.cat([v["boxes"] for v in targets])
# Compute the classification cost.
alpha = 0.25
gamma = 2.0
neg_cost_class = (1 - alpha) * (out_prob**gamma) * (-(1 - out_prob + 1e-8).log())
pos_cost_class = alpha * ((1 - out_prob) ** gamma) * (-(out_prob + 1e-8).log())
class_cost = pos_cost_class[:, target_ids] - neg_cost_class[:, target_ids]
# Compute the L1 cost between boxes
bbox_cost = torch.cdist(out_bbox, target_bbox, p=1)
# Compute the giou cost between boxes
giou_cost = -generalized_box_iou(center_to_corners_format(out_bbox), center_to_corners_format(target_bbox))
# Final cost matrix
cost_matrix = self.bbox_cost * bbox_cost + self.class_cost * class_cost + self.giou_cost * giou_cost
cost_matrix = cost_matrix.view(batch_size, num_queries, -1).cpu()
sizes = [len(v["boxes"]) for v in targets]
indices = [linear_sum_assignment(c[i]) for i, c in enumerate(cost_matrix.split(sizes, -1))]
return [(torch.as_tensor(i, dtype=torch.int64), torch.as_tensor(j, dtype=torch.int64)) for i, j in indices]
# Copied from transformers.models.detr.modeling_detr._upcast
def _upcast(t: Tensor) -> Tensor:
# Protects from numerical overflows in multiplications by upcasting to the equivalent higher type
if t.is_floating_point():
return t if t.dtype in (torch.float32, torch.float64) else t.float()
else:
return t if t.dtype in (torch.int32, torch.int64) else t.int()
# Copied from transformers.models.detr.modeling_detr.box_area
def box_area(boxes: Tensor) -> Tensor:
"""
Computes the area of a set of bounding boxes, which are specified by its (x1, y1, x2, y2) coordinates.
Args:
boxes (`torch.FloatTensor` of shape `(number_of_boxes, 4)`):
Boxes for which the area will be computed. They are expected to be in (x1, y1, x2, y2) format with `0 <= x1
< x2` and `0 <= y1 < y2`.
Returns:
`torch.FloatTensor`: a tensor containing the area for each box.
"""
boxes = _upcast(boxes)
return (boxes[:, 2] - boxes[:, 0]) * (boxes[:, 3] - boxes[:, 1])
# Copied from transformers.models.detr.modeling_detr.box_iou
def box_iou(boxes1, boxes2):
area1 = box_area(boxes1)
area2 = box_area(boxes2)
left_top = torch.max(boxes1[:, None, :2], boxes2[:, :2]) # [N,M,2]
right_bottom = torch.min(boxes1[:, None, 2:], boxes2[:, 2:]) # [N,M,2]
width_height = (right_bottom - left_top).clamp(min=0) # [N,M,2]
inter = width_height[:, :, 0] * width_height[:, :, 1] # [N,M]
union = area1[:, None] + area2 - inter
iou = inter / union
return iou, union
# Copied from transformers.models.detr.modeling_detr.generalized_box_iou
def generalized_box_iou(boxes1, boxes2):
"""
Generalized IoU from https://giou.stanford.edu/. The boxes should be in [x0, y0, x1, y1] (corner) format.
Returns:
`torch.FloatTensor`: a [N, M] pairwise matrix, where N = len(boxes1) and M = len(boxes2)
"""
# degenerate boxes gives inf / nan results
# so do an early check
if not (boxes1[:, 2:] >= boxes1[:, :2]).all():
raise ValueError(f"boxes1 must be in [x0, y0, x1, y1] (corner) format, but got {boxes1}")
if not (boxes2[:, 2:] >= boxes2[:, :2]).all():
raise ValueError(f"boxes2 must be in [x0, y0, x1, y1] (corner) format, but got {boxes2}")
iou, union = box_iou(boxes1, boxes2)
top_left = torch.min(boxes1[:, None, :2], boxes2[:, :2])
bottom_right = torch.max(boxes1[:, None, 2:], boxes2[:, 2:])
width_height = (bottom_right - top_left).clamp(min=0) # [N,M,2]
area = width_height[:, :, 0] * width_height[:, :, 1]
return iou - (area - union) / area
# Copied from transformers.models.detr.modeling_detr._max_by_axis
def _max_by_axis(the_list):
# type: (List[List[int]]) -> List[int]
maxes = the_list[0]
for sublist in the_list[1:]:
for index, item in enumerate(sublist):
maxes[index] = max(maxes[index], item)
return maxes
# Copied from transformers.models.detr.modeling_detr.NestedTensor
class NestedTensor(object):
def __init__(self, tensors, mask: Optional[Tensor]):
self.tensors = tensors
self.mask = mask
def to(self, device):
cast_tensor = self.tensors.to(device)
mask = self.mask
if mask is not None:
cast_mask = mask.to(device)
else:
cast_mask = None
return NestedTensor(cast_tensor, cast_mask)
def decompose(self):
return self.tensors, self.mask
def __repr__(self):
return str(self.tensors)
# Copied from transformers.models.detr.modeling_detr.nested_tensor_from_tensor_list
def nested_tensor_from_tensor_list(tensor_list: List[Tensor]):
if tensor_list[0].ndim == 3:
max_size = _max_by_axis([list(img.shape) for img in tensor_list])
batch_shape = [len(tensor_list)] + max_size
batch_size, num_channels, height, width = batch_shape
dtype = tensor_list[0].dtype
device = tensor_list[0].device
tensor = torch.zeros(batch_shape, dtype=dtype, device=device)
mask = torch.ones((batch_size, height, width), dtype=torch.bool, device=device)
for img, pad_img, m in zip(tensor_list, tensor, mask):
pad_img[: img.shape[0], : img.shape[1], : img.shape[2]].copy_(img)
m[: img.shape[1], : img.shape[2]] = False
else:
raise ValueError("Only 3-dimensional tensors are supported")
return NestedTensor(tensor, mask)
| transformers-main | src/transformers/models/conditional_detr/modeling_conditional_detr.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Image processor class for Conditional DETR."""
import io
import pathlib
from collections import defaultdict
from typing import Any, Callable, Dict, Iterable, List, Optional, Set, Tuple, Union
import numpy as np
from ...feature_extraction_utils import BatchFeature
from ...image_processing_utils import BaseImageProcessor, get_size_dict
from ...image_transforms import (
PaddingMode,
center_to_corners_format,
corners_to_center_format,
id_to_rgb,
pad,
rescale,
resize,
rgb_to_id,
to_channel_dimension_format,
)
from ...image_utils import (
IMAGENET_DEFAULT_MEAN,
IMAGENET_DEFAULT_STD,
ChannelDimension,
ImageInput,
PILImageResampling,
get_image_size,
infer_channel_dimension_format,
make_list_of_images,
to_numpy_array,
valid_coco_detection_annotations,
valid_coco_panoptic_annotations,
valid_images,
)
from ...utils import (
ExplicitEnum,
TensorType,
is_flax_available,
is_jax_tensor,
is_scipy_available,
is_tf_available,
is_tf_tensor,
is_torch_available,
is_torch_tensor,
is_vision_available,
logging,
)
if is_torch_available():
import torch
from torch import nn
if is_vision_available():
import PIL
if is_scipy_available():
import scipy.special
import scipy.stats
logger = logging.get_logger(__name__) # pylint: disable=invalid-name
AnnotationType = Dict[str, Union[int, str, List[Dict]]]
class AnnotionFormat(ExplicitEnum):
COCO_DETECTION = "coco_detection"
COCO_PANOPTIC = "coco_panoptic"
SUPPORTED_ANNOTATION_FORMATS = (AnnotionFormat.COCO_DETECTION, AnnotionFormat.COCO_PANOPTIC)
# Copied from transformers.models.detr.image_processing_detr.get_size_with_aspect_ratio
def get_size_with_aspect_ratio(image_size, size, max_size=None) -> Tuple[int, int]:
"""
Computes the output image size given the input image size and the desired output size.
Args:
image_size (`Tuple[int, int]`):
The input image size.
size (`int`):
The desired output size.
max_size (`int`, *optional*):
The maximum allowed output size.
"""
height, width = image_size
if max_size is not None:
min_original_size = float(min((height, width)))
max_original_size = float(max((height, width)))
if max_original_size / min_original_size * size > max_size:
size = int(round(max_size * min_original_size / max_original_size))
if (height <= width and height == size) or (width <= height and width == size):
return height, width
if width < height:
ow = size
oh = int(size * height / width)
else:
oh = size
ow = int(size * width / height)
return (oh, ow)
# Copied from transformers.models.detr.image_processing_detr.get_resize_output_image_size
def get_resize_output_image_size(
input_image: np.ndarray, size: Union[int, Tuple[int, int], List[int]], max_size: Optional[int] = None
) -> Tuple[int, int]:
"""
Computes the output image size given the input image size and the desired output size. If the desired output size
is a tuple or list, the output image size is returned as is. If the desired output size is an integer, the output
image size is computed by keeping the aspect ratio of the input image size.
Args:
image_size (`Tuple[int, int]`):
The input image size.
size (`int`):
The desired output size.
max_size (`int`, *optional*):
The maximum allowed output size.
"""
image_size = get_image_size(input_image)
if isinstance(size, (list, tuple)):
return size
return get_size_with_aspect_ratio(image_size, size, max_size)
# Copied from transformers.models.detr.image_processing_detr.get_numpy_to_framework_fn
def get_numpy_to_framework_fn(arr) -> Callable:
"""
Returns a function that converts a numpy array to the framework of the input array.
Args:
arr (`np.ndarray`): The array to convert.
"""
if isinstance(arr, np.ndarray):
return np.array
if is_tf_available() and is_tf_tensor(arr):
import tensorflow as tf
return tf.convert_to_tensor
if is_torch_available() and is_torch_tensor(arr):
import torch
return torch.tensor
if is_flax_available() and is_jax_tensor(arr):
import jax.numpy as jnp
return jnp.array
raise ValueError(f"Cannot convert arrays of type {type(arr)}")
# Copied from transformers.models.detr.image_processing_detr.safe_squeeze
def safe_squeeze(arr: np.ndarray, axis: Optional[int] = None) -> np.ndarray:
"""
Squeezes an array, but only if the axis specified has dim 1.
"""
if axis is None:
return arr.squeeze()
try:
return arr.squeeze(axis=axis)
except ValueError:
return arr
# Copied from transformers.models.detr.image_processing_detr.normalize_annotation
def normalize_annotation(annotation: Dict, image_size: Tuple[int, int]) -> Dict:
image_height, image_width = image_size
norm_annotation = {}
for key, value in annotation.items():
if key == "boxes":
boxes = value
boxes = corners_to_center_format(boxes)
boxes /= np.asarray([image_width, image_height, image_width, image_height], dtype=np.float32)
norm_annotation[key] = boxes
else:
norm_annotation[key] = value
return norm_annotation
# Copied from transformers.models.detr.image_processing_detr.max_across_indices
def max_across_indices(values: Iterable[Any]) -> List[Any]:
"""
Return the maximum value across all indices of an iterable of values.
"""
return [max(values_i) for values_i in zip(*values)]
# Copied from transformers.models.detr.image_processing_detr.get_max_height_width
def get_max_height_width(images: List[np.ndarray]) -> List[int]:
"""
Get the maximum height and width across all images in a batch.
"""
input_channel_dimension = infer_channel_dimension_format(images[0])
if input_channel_dimension == ChannelDimension.FIRST:
_, max_height, max_width = max_across_indices([img.shape for img in images])
elif input_channel_dimension == ChannelDimension.LAST:
max_height, max_width, _ = max_across_indices([img.shape for img in images])
else:
raise ValueError(f"Invalid channel dimension format: {input_channel_dimension}")
return (max_height, max_width)
# Copied from transformers.models.detr.image_processing_detr.make_pixel_mask
def make_pixel_mask(image: np.ndarray, output_size: Tuple[int, int]) -> np.ndarray:
"""
Make a pixel mask for the image, where 1 indicates a valid pixel and 0 indicates padding.
Args:
image (`np.ndarray`):
Image to make the pixel mask for.
output_size (`Tuple[int, int]`):
Output size of the mask.
"""
input_height, input_width = get_image_size(image)
mask = np.zeros(output_size, dtype=np.int64)
mask[:input_height, :input_width] = 1
return mask
# Copied from transformers.models.detr.image_processing_detr.convert_coco_poly_to_mask
def convert_coco_poly_to_mask(segmentations, height: int, width: int) -> np.ndarray:
"""
Convert a COCO polygon annotation to a mask.
Args:
segmentations (`List[List[float]]`):
List of polygons, each polygon represented by a list of x-y coordinates.
height (`int`):
Height of the mask.
width (`int`):
Width of the mask.
"""
try:
from pycocotools import mask as coco_mask
except ImportError:
raise ImportError("Pycocotools is not installed in your environment.")
masks = []
for polygons in segmentations:
rles = coco_mask.frPyObjects(polygons, height, width)
mask = coco_mask.decode(rles)
if len(mask.shape) < 3:
mask = mask[..., None]
mask = np.asarray(mask, dtype=np.uint8)
mask = np.any(mask, axis=2)
masks.append(mask)
if masks:
masks = np.stack(masks, axis=0)
else:
masks = np.zeros((0, height, width), dtype=np.uint8)
return masks
# Copied from transformers.models.detr.image_processing_detr.prepare_coco_detection_annotation with DETR->ConditionalDetr
def prepare_coco_detection_annotation(image, target, return_segmentation_masks: bool = False):
"""
Convert the target in COCO format into the format expected by ConditionalDetr.
"""
image_height, image_width = get_image_size(image)
image_id = target["image_id"]
image_id = np.asarray([image_id], dtype=np.int64)
# Get all COCO annotations for the given image.
annotations = target["annotations"]
annotations = [obj for obj in annotations if "iscrowd" not in obj or obj["iscrowd"] == 0]
classes = [obj["category_id"] for obj in annotations]
classes = np.asarray(classes, dtype=np.int64)
# for conversion to coco api
area = np.asarray([obj["area"] for obj in annotations], dtype=np.float32)
iscrowd = np.asarray([obj["iscrowd"] if "iscrowd" in obj else 0 for obj in annotations], dtype=np.int64)
boxes = [obj["bbox"] for obj in annotations]
# guard against no boxes via resizing
boxes = np.asarray(boxes, dtype=np.float32).reshape(-1, 4)
boxes[:, 2:] += boxes[:, :2]
boxes[:, 0::2] = boxes[:, 0::2].clip(min=0, max=image_width)
boxes[:, 1::2] = boxes[:, 1::2].clip(min=0, max=image_height)
keep = (boxes[:, 3] > boxes[:, 1]) & (boxes[:, 2] > boxes[:, 0])
new_target = {}
new_target["image_id"] = image_id
new_target["class_labels"] = classes[keep]
new_target["boxes"] = boxes[keep]
new_target["area"] = area[keep]
new_target["iscrowd"] = iscrowd[keep]
new_target["orig_size"] = np.asarray([int(image_height), int(image_width)], dtype=np.int64)
if annotations and "keypoints" in annotations[0]:
keypoints = [obj["keypoints"] for obj in annotations]
keypoints = np.asarray(keypoints, dtype=np.float32)
num_keypoints = keypoints.shape[0]
keypoints = keypoints.reshape((-1, 3)) if num_keypoints else keypoints
new_target["keypoints"] = keypoints[keep]
if return_segmentation_masks:
segmentation_masks = [obj["segmentation"] for obj in annotations]
masks = convert_coco_poly_to_mask(segmentation_masks, image_height, image_width)
new_target["masks"] = masks[keep]
return new_target
# Copied from transformers.models.detr.image_processing_detr.masks_to_boxes
def masks_to_boxes(masks: np.ndarray) -> np.ndarray:
"""
Compute the bounding boxes around the provided panoptic segmentation masks.
Args:
masks: masks in format `[number_masks, height, width]` where N is the number of masks
Returns:
boxes: bounding boxes in format `[number_masks, 4]` in xyxy format
"""
if masks.size == 0:
return np.zeros((0, 4))
h, w = masks.shape[-2:]
y = np.arange(0, h, dtype=np.float32)
x = np.arange(0, w, dtype=np.float32)
# see https://github.com/pytorch/pytorch/issues/50276
y, x = np.meshgrid(y, x, indexing="ij")
x_mask = masks * np.expand_dims(x, axis=0)
x_max = x_mask.reshape(x_mask.shape[0], -1).max(-1)
x = np.ma.array(x_mask, mask=~(np.array(masks, dtype=bool)))
x_min = x.filled(fill_value=1e8)
x_min = x_min.reshape(x_min.shape[0], -1).min(-1)
y_mask = masks * np.expand_dims(y, axis=0)
y_max = y_mask.reshape(x_mask.shape[0], -1).max(-1)
y = np.ma.array(y_mask, mask=~(np.array(masks, dtype=bool)))
y_min = y.filled(fill_value=1e8)
y_min = y_min.reshape(y_min.shape[0], -1).min(-1)
return np.stack([x_min, y_min, x_max, y_max], 1)
# Copied from transformers.models.detr.image_processing_detr.prepare_coco_panoptic_annotation with DETR->ConditionalDetr
def prepare_coco_panoptic_annotation(
image: np.ndarray, target: Dict, masks_path: Union[str, pathlib.Path], return_masks: bool = True
) -> Dict:
"""
Prepare a coco panoptic annotation for ConditionalDetr.
"""
image_height, image_width = get_image_size(image)
annotation_path = pathlib.Path(masks_path) / target["file_name"]
new_target = {}
new_target["image_id"] = np.asarray([target["image_id"] if "image_id" in target else target["id"]], dtype=np.int64)
new_target["size"] = np.asarray([image_height, image_width], dtype=np.int64)
new_target["orig_size"] = np.asarray([image_height, image_width], dtype=np.int64)
if "segments_info" in target:
masks = np.asarray(PIL.Image.open(annotation_path), dtype=np.uint32)
masks = rgb_to_id(masks)
ids = np.array([segment_info["id"] for segment_info in target["segments_info"]])
masks = masks == ids[:, None, None]
masks = masks.astype(np.uint8)
if return_masks:
new_target["masks"] = masks
new_target["boxes"] = masks_to_boxes(masks)
new_target["class_labels"] = np.array(
[segment_info["category_id"] for segment_info in target["segments_info"]], dtype=np.int64
)
new_target["iscrowd"] = np.asarray(
[segment_info["iscrowd"] for segment_info in target["segments_info"]], dtype=np.int64
)
new_target["area"] = np.asarray(
[segment_info["area"] for segment_info in target["segments_info"]], dtype=np.float32
)
return new_target
# Copied from transformers.models.detr.image_processing_detr.get_segmentation_image
def get_segmentation_image(
masks: np.ndarray, input_size: Tuple, target_size: Tuple, stuff_equiv_classes, deduplicate=False
):
h, w = input_size
final_h, final_w = target_size
m_id = scipy.special.softmax(masks.transpose(0, 1), -1)
if m_id.shape[-1] == 0:
# We didn't detect any mask :(
m_id = np.zeros((h, w), dtype=np.int64)
else:
m_id = m_id.argmax(-1).reshape(h, w)
if deduplicate:
# Merge the masks corresponding to the same stuff class
for equiv in stuff_equiv_classes.values():
for eq_id in equiv:
m_id[m_id == eq_id] = equiv[0]
seg_img = id_to_rgb(m_id)
seg_img = resize(seg_img, (final_w, final_h), resample=PILImageResampling.NEAREST)
return seg_img
# Copied from transformers.models.detr.image_processing_detr.get_mask_area
def get_mask_area(seg_img: np.ndarray, target_size: Tuple[int, int], n_classes: int) -> np.ndarray:
final_h, final_w = target_size
np_seg_img = seg_img.astype(np.uint8)
np_seg_img = np_seg_img.reshape(final_h, final_w, 3)
m_id = rgb_to_id(np_seg_img)
area = [(m_id == i).sum() for i in range(n_classes)]
return area
# Copied from transformers.models.detr.image_processing_detr.score_labels_from_class_probabilities
def score_labels_from_class_probabilities(logits: np.ndarray) -> Tuple[np.ndarray, np.ndarray]:
probs = scipy.special.softmax(logits, axis=-1)
labels = probs.argmax(-1, keepdims=True)
scores = np.take_along_axis(probs, labels, axis=-1)
scores, labels = scores.squeeze(-1), labels.squeeze(-1)
return scores, labels
# Copied from transformers.models.detr.image_processing_detr.post_process_panoptic_sample with DetrForSegmentation->ConditionalDetrForSegmentation
def post_process_panoptic_sample(
out_logits: np.ndarray,
masks: np.ndarray,
boxes: np.ndarray,
processed_size: Tuple[int, int],
target_size: Tuple[int, int],
is_thing_map: Dict,
threshold=0.85,
) -> Dict:
"""
Converts the output of [`ConditionalDetrForSegmentation`] into panoptic segmentation predictions for a single
sample.
Args:
out_logits (`torch.Tensor`):
The logits for this sample.
masks (`torch.Tensor`):
The predicted segmentation masks for this sample.
boxes (`torch.Tensor`):
The prediced bounding boxes for this sample. The boxes are in the normalized format `(center_x, center_y,
width, height)` and values between `[0, 1]`, relative to the size the image (disregarding padding).
processed_size (`Tuple[int, int]`):
The processed size of the image `(height, width)`, as returned by the preprocessing step i.e. the size
after data augmentation but before batching.
target_size (`Tuple[int, int]`):
The target size of the image, `(height, width)` corresponding to the requested final size of the
prediction.
is_thing_map (`Dict`):
A dictionary mapping class indices to a boolean value indicating whether the class is a thing or not.
threshold (`float`, *optional*, defaults to 0.85):
The threshold used to binarize the segmentation masks.
"""
# we filter empty queries and detection below threshold
scores, labels = score_labels_from_class_probabilities(out_logits)
keep = (labels != out_logits.shape[-1] - 1) & (scores > threshold)
cur_scores = scores[keep]
cur_classes = labels[keep]
cur_boxes = center_to_corners_format(boxes[keep])
if len(cur_boxes) != len(cur_classes):
raise ValueError("Not as many boxes as there are classes")
cur_masks = masks[keep]
cur_masks = resize(cur_masks[:, None], processed_size, resample=PILImageResampling.BILINEAR)
cur_masks = safe_squeeze(cur_masks, 1)
b, h, w = cur_masks.shape
# It may be that we have several predicted masks for the same stuff class.
# In the following, we track the list of masks ids for each stuff class (they are merged later on)
cur_masks = cur_masks.reshape(b, -1)
stuff_equiv_classes = defaultdict(list)
for k, label in enumerate(cur_classes):
if not is_thing_map[label]:
stuff_equiv_classes[label].append(k)
seg_img = get_segmentation_image(cur_masks, processed_size, target_size, stuff_equiv_classes, deduplicate=True)
area = get_mask_area(cur_masks, processed_size, n_classes=len(cur_scores))
# We filter out any mask that is too small
if cur_classes.size() > 0:
# We know filter empty masks as long as we find some
filtered_small = np.array([a <= 4 for a in area], dtype=bool)
while filtered_small.any():
cur_masks = cur_masks[~filtered_small]
cur_scores = cur_scores[~filtered_small]
cur_classes = cur_classes[~filtered_small]
seg_img = get_segmentation_image(cur_masks, (h, w), target_size, stuff_equiv_classes, deduplicate=True)
area = get_mask_area(seg_img, target_size, n_classes=len(cur_scores))
filtered_small = np.array([a <= 4 for a in area], dtype=bool)
else:
cur_classes = np.ones((1, 1), dtype=np.int64)
segments_info = [
{"id": i, "isthing": is_thing_map[cat], "category_id": int(cat), "area": a}
for i, (cat, a) in enumerate(zip(cur_classes, area))
]
del cur_classes
with io.BytesIO() as out:
PIL.Image.fromarray(seg_img).save(out, format="PNG")
predictions = {"png_string": out.getvalue(), "segments_info": segments_info}
return predictions
# Copied from transformers.models.detr.image_processing_detr.resize_annotation
def resize_annotation(
annotation: Dict[str, Any],
orig_size: Tuple[int, int],
target_size: Tuple[int, int],
threshold: float = 0.5,
resample: PILImageResampling = PILImageResampling.NEAREST,
):
"""
Resizes an annotation to a target size.
Args:
annotation (`Dict[str, Any]`):
The annotation dictionary.
orig_size (`Tuple[int, int]`):
The original size of the input image.
target_size (`Tuple[int, int]`):
The target size of the image, as returned by the preprocessing `resize` step.
threshold (`float`, *optional*, defaults to 0.5):
The threshold used to binarize the segmentation masks.
resample (`PILImageResampling`, defaults to `PILImageResampling.NEAREST`):
The resampling filter to use when resizing the masks.
"""
ratios = tuple(float(s) / float(s_orig) for s, s_orig in zip(target_size, orig_size))
ratio_height, ratio_width = ratios
new_annotation = {}
new_annotation["size"] = target_size
for key, value in annotation.items():
if key == "boxes":
boxes = value
scaled_boxes = boxes * np.asarray([ratio_width, ratio_height, ratio_width, ratio_height], dtype=np.float32)
new_annotation["boxes"] = scaled_boxes
elif key == "area":
area = value
scaled_area = area * (ratio_width * ratio_height)
new_annotation["area"] = scaled_area
elif key == "masks":
masks = value[:, None]
masks = np.array([resize(mask, target_size, resample=resample) for mask in masks])
masks = masks.astype(np.float32)
masks = masks[:, 0] > threshold
new_annotation["masks"] = masks
elif key == "size":
new_annotation["size"] = target_size
else:
new_annotation[key] = value
return new_annotation
# Copied from transformers.models.detr.image_processing_detr.binary_mask_to_rle
def binary_mask_to_rle(mask):
"""
Converts given binary mask of shape `(height, width)` to the run-length encoding (RLE) format.
Args:
mask (`torch.Tensor` or `numpy.array`):
A binary mask tensor of shape `(height, width)` where 0 denotes background and 1 denotes the target
segment_id or class_id.
Returns:
`List`: Run-length encoded list of the binary mask. Refer to COCO API for more information about the RLE
format.
"""
if is_torch_tensor(mask):
mask = mask.numpy()
pixels = mask.flatten()
pixels = np.concatenate([[0], pixels, [0]])
runs = np.where(pixels[1:] != pixels[:-1])[0] + 1
runs[1::2] -= runs[::2]
return list(runs)
# Copied from transformers.models.detr.image_processing_detr.convert_segmentation_to_rle
def convert_segmentation_to_rle(segmentation):
"""
Converts given segmentation map of shape `(height, width)` to the run-length encoding (RLE) format.
Args:
segmentation (`torch.Tensor` or `numpy.array`):
A segmentation map of shape `(height, width)` where each value denotes a segment or class id.
Returns:
`List[List]`: A list of lists, where each list is the run-length encoding of a segment / class id.
"""
segment_ids = torch.unique(segmentation)
run_length_encodings = []
for idx in segment_ids:
mask = torch.where(segmentation == idx, 1, 0)
rle = binary_mask_to_rle(mask)
run_length_encodings.append(rle)
return run_length_encodings
# Copied from transformers.models.detr.image_processing_detr.remove_low_and_no_objects
def remove_low_and_no_objects(masks, scores, labels, object_mask_threshold, num_labels):
"""
Binarize the given masks using `object_mask_threshold`, it returns the associated values of `masks`, `scores` and
`labels`.
Args:
masks (`torch.Tensor`):
A tensor of shape `(num_queries, height, width)`.
scores (`torch.Tensor`):
A tensor of shape `(num_queries)`.
labels (`torch.Tensor`):
A tensor of shape `(num_queries)`.
object_mask_threshold (`float`):
A number between 0 and 1 used to binarize the masks.
Raises:
`ValueError`: Raised when the first dimension doesn't match in all input tensors.
Returns:
`Tuple[`torch.Tensor`, `torch.Tensor`, `torch.Tensor`]`: The `masks`, `scores` and `labels` without the region
< `object_mask_threshold`.
"""
if not (masks.shape[0] == scores.shape[0] == labels.shape[0]):
raise ValueError("mask, scores and labels must have the same shape!")
to_keep = labels.ne(num_labels) & (scores > object_mask_threshold)
return masks[to_keep], scores[to_keep], labels[to_keep]
# Copied from transformers.models.detr.image_processing_detr.check_segment_validity
def check_segment_validity(mask_labels, mask_probs, k, mask_threshold=0.5, overlap_mask_area_threshold=0.8):
# Get the mask associated with the k class
mask_k = mask_labels == k
mask_k_area = mask_k.sum()
# Compute the area of all the stuff in query k
original_area = (mask_probs[k] >= mask_threshold).sum()
mask_exists = mask_k_area > 0 and original_area > 0
# Eliminate disconnected tiny segments
if mask_exists:
area_ratio = mask_k_area / original_area
if not area_ratio.item() > overlap_mask_area_threshold:
mask_exists = False
return mask_exists, mask_k
# Copied from transformers.models.detr.image_processing_detr.compute_segments
def compute_segments(
mask_probs,
pred_scores,
pred_labels,
mask_threshold: float = 0.5,
overlap_mask_area_threshold: float = 0.8,
label_ids_to_fuse: Optional[Set[int]] = None,
target_size: Tuple[int, int] = None,
):
height = mask_probs.shape[1] if target_size is None else target_size[0]
width = mask_probs.shape[2] if target_size is None else target_size[1]
segmentation = torch.zeros((height, width), dtype=torch.int32, device=mask_probs.device)
segments: List[Dict] = []
if target_size is not None:
mask_probs = nn.functional.interpolate(
mask_probs.unsqueeze(0), size=target_size, mode="bilinear", align_corners=False
)[0]
current_segment_id = 0
# Weigh each mask by its prediction score
mask_probs *= pred_scores.view(-1, 1, 1)
mask_labels = mask_probs.argmax(0) # [height, width]
# Keep track of instances of each class
stuff_memory_list: Dict[str, int] = {}
for k in range(pred_labels.shape[0]):
pred_class = pred_labels[k].item()
should_fuse = pred_class in label_ids_to_fuse
# Check if mask exists and large enough to be a segment
mask_exists, mask_k = check_segment_validity(
mask_labels, mask_probs, k, mask_threshold, overlap_mask_area_threshold
)
if mask_exists:
if pred_class in stuff_memory_list:
current_segment_id = stuff_memory_list[pred_class]
else:
current_segment_id += 1
# Add current object segment to final segmentation map
segmentation[mask_k] = current_segment_id
segment_score = round(pred_scores[k].item(), 6)
segments.append(
{
"id": current_segment_id,
"label_id": pred_class,
"was_fused": should_fuse,
"score": segment_score,
}
)
if should_fuse:
stuff_memory_list[pred_class] = current_segment_id
return segmentation, segments
class ConditionalDetrImageProcessor(BaseImageProcessor):
r"""
Constructs a Conditional Detr image processor.
Args:
format (`str`, *optional*, defaults to `"coco_detection"`):
Data format of the annotations. One of "coco_detection" or "coco_panoptic".
do_resize (`bool`, *optional*, defaults to `True`):
Controls whether to resize the image's (height, width) dimensions to the specified `size`. Can be
overridden by the `do_resize` parameter in the `preprocess` method.
size (`Dict[str, int]` *optional*, defaults to `{"shortest_edge": 800, "longest_edge": 1333}`):
Size of the image's (height, width) dimensions after resizing. Can be overridden by the `size` parameter in
the `preprocess` method.
resample (`PILImageResampling`, *optional*, defaults to `PILImageResampling.BILINEAR`):
Resampling filter to use if resizing the image.
do_rescale (`bool`, *optional*, defaults to `True`):
Controls whether to rescale the image by the specified scale `rescale_factor`. Can be overridden by the
`do_rescale` parameter in the `preprocess` method.
rescale_factor (`int` or `float`, *optional*, defaults to `1/255`):
Scale factor to use if rescaling the image. Can be overridden by the `rescale_factor` parameter in the
`preprocess` method.
do_normalize:
Controls whether to normalize the image. Can be overridden by the `do_normalize` parameter in the
`preprocess` method.
image_mean (`float` or `List[float]`, *optional*, defaults to `IMAGENET_DEFAULT_MEAN`):
Mean values to use when normalizing the image. Can be a single value or a list of values, one for each
channel. Can be overridden by the `image_mean` parameter in the `preprocess` method.
image_std (`float` or `List[float]`, *optional*, defaults to `IMAGENET_DEFAULT_STD`):
Standard deviation values to use when normalizing the image. Can be a single value or a list of values, one
for each channel. Can be overridden by the `image_std` parameter in the `preprocess` method.
do_pad (`bool`, *optional*, defaults to `True`):
Controls whether to pad the image to the largest image in a batch and create a pixel mask. Can be
overridden by the `do_pad` parameter in the `preprocess` method.
"""
model_input_names = ["pixel_values", "pixel_mask"]
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.__init__
def __init__(
self,
format: Union[str, AnnotionFormat] = AnnotionFormat.COCO_DETECTION,
do_resize: bool = True,
size: Dict[str, int] = None,
resample: PILImageResampling = PILImageResampling.BILINEAR,
do_rescale: bool = True,
rescale_factor: Union[int, float] = 1 / 255,
do_normalize: bool = True,
image_mean: Union[float, List[float]] = None,
image_std: Union[float, List[float]] = None,
do_pad: bool = True,
**kwargs,
) -> None:
if "pad_and_return_pixel_mask" in kwargs:
do_pad = kwargs.pop("pad_and_return_pixel_mask")
if "max_size" in kwargs:
logger.warning_once(
"The `max_size` parameter is deprecated and will be removed in v4.26. "
"Please specify in `size['longest_edge'] instead`.",
)
max_size = kwargs.pop("max_size")
else:
max_size = None if size is None else 1333
size = size if size is not None else {"shortest_edge": 800, "longest_edge": 1333}
size = get_size_dict(size, max_size=max_size, default_to_square=False)
super().__init__(**kwargs)
self.format = format
self.do_resize = do_resize
self.size = size
self.resample = resample
self.do_rescale = do_rescale
self.rescale_factor = rescale_factor
self.do_normalize = do_normalize
self.image_mean = image_mean if image_mean is not None else IMAGENET_DEFAULT_MEAN
self.image_std = image_std if image_std is not None else IMAGENET_DEFAULT_STD
self.do_pad = do_pad
@classmethod
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.from_dict with Detr->ConditionalDetr
def from_dict(cls, image_processor_dict: Dict[str, Any], **kwargs):
"""
Overrides the `from_dict` method from the base class to make sure parameters are updated if image processor is
created using from_dict and kwargs e.g. `ConditionalDetrImageProcessor.from_pretrained(checkpoint, size=600,
max_size=800)`
"""
image_processor_dict = image_processor_dict.copy()
if "max_size" in kwargs:
image_processor_dict["max_size"] = kwargs.pop("max_size")
if "pad_and_return_pixel_mask" in kwargs:
image_processor_dict["pad_and_return_pixel_mask"] = kwargs.pop("pad_and_return_pixel_mask")
return super().from_dict(image_processor_dict, **kwargs)
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.prepare_annotation with DETR->ConditionalDetr
def prepare_annotation(
self,
image: np.ndarray,
target: Dict,
format: Optional[AnnotionFormat] = None,
return_segmentation_masks: bool = None,
masks_path: Optional[Union[str, pathlib.Path]] = None,
) -> Dict:
"""
Prepare an annotation for feeding into ConditionalDetr model.
"""
format = format if format is not None else self.format
if format == AnnotionFormat.COCO_DETECTION:
return_segmentation_masks = False if return_segmentation_masks is None else return_segmentation_masks
target = prepare_coco_detection_annotation(image, target, return_segmentation_masks)
elif format == AnnotionFormat.COCO_PANOPTIC:
return_segmentation_masks = True if return_segmentation_masks is None else return_segmentation_masks
target = prepare_coco_panoptic_annotation(
image, target, masks_path=masks_path, return_masks=return_segmentation_masks
)
else:
raise ValueError(f"Format {format} is not supported.")
return target
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.prepare
def prepare(self, image, target, return_segmentation_masks=None, masks_path=None):
logger.warning_once(
"The `prepare` method is deprecated and will be removed in a v4.33. "
"Please use `prepare_annotation` instead. Note: the `prepare_annotation` method "
"does not return the image anymore.",
)
target = self.prepare_annotation(image, target, return_segmentation_masks, masks_path, self.format)
return image, target
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.convert_coco_poly_to_mask
def convert_coco_poly_to_mask(self, *args, **kwargs):
logger.warning_once("The `convert_coco_poly_to_mask` method is deprecated and will be removed in v4.33. ")
return convert_coco_poly_to_mask(*args, **kwargs)
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.prepare_coco_detection with DETR->ConditionalDetr
def prepare_coco_detection(self, *args, **kwargs):
logger.warning_once("The `prepare_coco_detection` method is deprecated and will be removed in v4.33. ")
return prepare_coco_detection_annotation(*args, **kwargs)
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.prepare_coco_panoptic
def prepare_coco_panoptic(self, *args, **kwargs):
logger.warning_once("The `prepare_coco_panoptic` method is deprecated and will be removed in v4.33. ")
return prepare_coco_panoptic_annotation(*args, **kwargs)
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.resize
def resize(
self,
image: np.ndarray,
size: Dict[str, int],
resample: PILImageResampling = PILImageResampling.BILINEAR,
data_format: Optional[ChannelDimension] = None,
**kwargs,
) -> np.ndarray:
"""
Resize the image to the given size. Size can be `min_size` (scalar) or `(height, width)` tuple. If size is an
int, smaller edge of the image will be matched to this number.
"""
if "max_size" in kwargs:
logger.warning_once(
"The `max_size` parameter is deprecated and will be removed in v4.26. "
"Please specify in `size['longest_edge'] instead`.",
)
max_size = kwargs.pop("max_size")
else:
max_size = None
size = get_size_dict(size, max_size=max_size, default_to_square=False)
if "shortest_edge" in size and "longest_edge" in size:
size = get_resize_output_image_size(image, size["shortest_edge"], size["longest_edge"])
elif "height" in size and "width" in size:
size = (size["height"], size["width"])
else:
raise ValueError(
"Size must contain 'height' and 'width' keys or 'shortest_edge' and 'longest_edge' keys. Got"
f" {size.keys()}."
)
image = resize(image, size=size, resample=resample, data_format=data_format)
return image
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.resize_annotation
def resize_annotation(
self,
annotation,
orig_size,
size,
resample: PILImageResampling = PILImageResampling.NEAREST,
) -> Dict:
"""
Resize the annotation to match the resized image. If size is an int, smaller edge of the mask will be matched
to this number.
"""
return resize_annotation(annotation, orig_size=orig_size, target_size=size, resample=resample)
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.rescale
def rescale(
self, image: np.ndarray, rescale_factor: float, data_format: Optional[Union[str, ChannelDimension]] = None
) -> np.ndarray:
"""
Rescale the image by the given factor. image = image * rescale_factor.
Args:
image (`np.ndarray`):
Image to rescale.
rescale_factor (`float`):
The value to use for rescaling.
data_format (`str` or `ChannelDimension`, *optional*):
The channel dimension format for the output image. If unset, the channel dimension format of the input
image is used. Can be one of:
- `"channels_first"` or `ChannelDimension.FIRST`: image in (num_channels, height, width) format.
- `"channels_last"` or `ChannelDimension.LAST`: image in (height, width, num_channels) format.
"""
return rescale(image, rescale_factor, data_format=data_format)
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.normalize_annotation
def normalize_annotation(self, annotation: Dict, image_size: Tuple[int, int]) -> Dict:
"""
Normalize the boxes in the annotation from `[top_left_x, top_left_y, bottom_right_x, bottom_right_y]` to
`[center_x, center_y, width, height]` format.
"""
return normalize_annotation(annotation, image_size=image_size)
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor._pad_image
def _pad_image(
self,
image: np.ndarray,
output_size: Tuple[int, int],
constant_values: Union[float, Iterable[float]] = 0,
data_format: Optional[ChannelDimension] = None,
) -> np.ndarray:
"""
Pad an image with zeros to the given size.
"""
input_height, input_width = get_image_size(image)
output_height, output_width = output_size
pad_bottom = output_height - input_height
pad_right = output_width - input_width
padding = ((0, pad_bottom), (0, pad_right))
padded_image = pad(
image, padding, mode=PaddingMode.CONSTANT, constant_values=constant_values, data_format=data_format
)
return padded_image
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.pad
def pad(
self,
images: List[np.ndarray],
constant_values: Union[float, Iterable[float]] = 0,
return_pixel_mask: bool = True,
return_tensors: Optional[Union[str, TensorType]] = None,
data_format: Optional[ChannelDimension] = None,
) -> BatchFeature:
"""
Pads a batch of images to the bottom and right of the image with zeros to the size of largest height and width
in the batch and optionally returns their corresponding pixel mask.
Args:
image (`np.ndarray`):
Image to pad.
constant_values (`float` or `Iterable[float]`, *optional*):
The value to use for the padding if `mode` is `"constant"`.
return_pixel_mask (`bool`, *optional*, defaults to `True`):
Whether to return a pixel mask.
return_tensors (`str` or `TensorType`, *optional*):
The type of tensors to return. Can be one of:
- Unset: Return a list of `np.ndarray`.
- `TensorType.TENSORFLOW` or `'tf'`: Return a batch of type `tf.Tensor`.
- `TensorType.PYTORCH` or `'pt'`: Return a batch of type `torch.Tensor`.
- `TensorType.NUMPY` or `'np'`: Return a batch of type `np.ndarray`.
- `TensorType.JAX` or `'jax'`: Return a batch of type `jax.numpy.ndarray`.
data_format (`str` or `ChannelDimension`, *optional*):
The channel dimension format of the image. If not provided, it will be the same as the input image.
"""
pad_size = get_max_height_width(images)
padded_images = [
self._pad_image(image, pad_size, constant_values=constant_values, data_format=data_format)
for image in images
]
data = {"pixel_values": padded_images}
if return_pixel_mask:
masks = [make_pixel_mask(image=image, output_size=pad_size) for image in images]
data["pixel_mask"] = masks
return BatchFeature(data=data, tensor_type=return_tensors)
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.preprocess
def preprocess(
self,
images: ImageInput,
annotations: Optional[Union[AnnotationType, List[AnnotationType]]] = None,
return_segmentation_masks: bool = None,
masks_path: Optional[Union[str, pathlib.Path]] = None,
do_resize: Optional[bool] = None,
size: Optional[Dict[str, int]] = None,
resample=None, # PILImageResampling
do_rescale: Optional[bool] = None,
rescale_factor: Optional[Union[int, float]] = None,
do_normalize: Optional[bool] = None,
image_mean: Optional[Union[float, List[float]]] = None,
image_std: Optional[Union[float, List[float]]] = None,
do_pad: Optional[bool] = None,
format: Optional[Union[str, AnnotionFormat]] = None,
return_tensors: Optional[Union[TensorType, str]] = None,
data_format: Union[str, ChannelDimension] = ChannelDimension.FIRST,
**kwargs,
) -> BatchFeature:
"""
Preprocess an image or a batch of images so that it can be used by the model.
Args:
images (`ImageInput`):
Image or batch of images to preprocess.
annotations (`AnnotationType` or `List[AnnotationType]`, *optional*):
List of annotations associated with the image or batch of images. If annotation is for object
detection, the annotations should be a dictionary with the following keys:
- "image_id" (`int`): The image id.
- "annotations" (`List[Dict]`): List of annotations for an image. Each annotation should be a
dictionary. An image can have no annotations, in which case the list should be empty.
If annotation is for segmentation, the annotations should be a dictionary with the following keys:
- "image_id" (`int`): The image id.
- "segments_info" (`List[Dict]`): List of segments for an image. Each segment should be a dictionary.
An image can have no segments, in which case the list should be empty.
- "file_name" (`str`): The file name of the image.
return_segmentation_masks (`bool`, *optional*, defaults to self.return_segmentation_masks):
Whether to return segmentation masks.
masks_path (`str` or `pathlib.Path`, *optional*):
Path to the directory containing the segmentation masks.
do_resize (`bool`, *optional*, defaults to self.do_resize):
Whether to resize the image.
size (`Dict[str, int]`, *optional*, defaults to self.size):
Size of the image after resizing.
resample (`PILImageResampling`, *optional*, defaults to self.resample):
Resampling filter to use when resizing the image.
do_rescale (`bool`, *optional*, defaults to self.do_rescale):
Whether to rescale the image.
rescale_factor (`float`, *optional*, defaults to self.rescale_factor):
Rescale factor to use when rescaling the image.
do_normalize (`bool`, *optional*, defaults to self.do_normalize):
Whether to normalize the image.
image_mean (`float` or `List[float]`, *optional*, defaults to self.image_mean):
Mean to use when normalizing the image.
image_std (`float` or `List[float]`, *optional*, defaults to self.image_std):
Standard deviation to use when normalizing the image.
do_pad (`bool`, *optional*, defaults to self.do_pad):
Whether to pad the image.
format (`str` or `AnnotionFormat`, *optional*, defaults to self.format):
Format of the annotations.
return_tensors (`str` or `TensorType`, *optional*, defaults to self.return_tensors):
Type of tensors to return. If `None`, will return the list of images.
data_format (`str` or `ChannelDimension`, *optional*, defaults to self.data_format):
The channel dimension format of the image. If not provided, it will be the same as the input image.
"""
if "pad_and_return_pixel_mask" in kwargs:
logger.warning_once(
"The `pad_and_return_pixel_mask` argument is deprecated and will be removed in a future version, "
"use `do_pad` instead."
)
do_pad = kwargs.pop("pad_and_return_pixel_mask")
max_size = None
if "max_size" in kwargs:
logger.warning_once(
"The `max_size` argument is deprecated and will be removed in a future version, use"
" `size['longest_edge']` instead."
)
size = kwargs.pop("max_size")
do_resize = self.do_resize if do_resize is None else do_resize
size = self.size if size is None else size
size = get_size_dict(size=size, max_size=max_size, default_to_square=False)
resample = self.resample if resample is None else resample
do_rescale = self.do_rescale if do_rescale is None else do_rescale
rescale_factor = self.rescale_factor if rescale_factor is None else rescale_factor
do_normalize = self.do_normalize if do_normalize is None else do_normalize
image_mean = self.image_mean if image_mean is None else image_mean
image_std = self.image_std if image_std is None else image_std
do_pad = self.do_pad if do_pad is None else do_pad
format = self.format if format is None else format
if do_resize is not None and size is None:
raise ValueError("Size and max_size must be specified if do_resize is True.")
if do_rescale is not None and rescale_factor is None:
raise ValueError("Rescale factor must be specified if do_rescale is True.")
if do_normalize is not None and (image_mean is None or image_std is None):
raise ValueError("Image mean and std must be specified if do_normalize is True.")
images = make_list_of_images(images)
if annotations is not None and isinstance(annotations, dict):
annotations = [annotations]
if annotations is not None and len(images) != len(annotations):
raise ValueError(
f"The number of images ({len(images)}) and annotations ({len(annotations)}) do not match."
)
if not valid_images(images):
raise ValueError(
"Invalid image type. Must be of type PIL.Image.Image, numpy.ndarray, "
"torch.Tensor, tf.Tensor or jax.ndarray."
)
format = AnnotionFormat(format)
if annotations is not None:
if format == AnnotionFormat.COCO_DETECTION and not valid_coco_detection_annotations(annotations):
raise ValueError(
"Invalid COCO detection annotations. Annotations must a dict (single image) of list of dicts"
"(batch of images) with the following keys: `image_id` and `annotations`, with the latter "
"being a list of annotations in the COCO format."
)
elif format == AnnotionFormat.COCO_PANOPTIC and not valid_coco_panoptic_annotations(annotations):
raise ValueError(
"Invalid COCO panoptic annotations. Annotations must a dict (single image) of list of dicts "
"(batch of images) with the following keys: `image_id`, `file_name` and `segments_info`, with "
"the latter being a list of annotations in the COCO format."
)
elif format not in SUPPORTED_ANNOTATION_FORMATS:
raise ValueError(
f"Unsupported annotation format: {format} must be one of {SUPPORTED_ANNOTATION_FORMATS}"
)
if (
masks_path is not None
and format == AnnotionFormat.COCO_PANOPTIC
and not isinstance(masks_path, (pathlib.Path, str))
):
raise ValueError(
"The path to the directory containing the mask PNG files should be provided as a"
f" `pathlib.Path` or string object, but is {type(masks_path)} instead."
)
# All transformations expect numpy arrays
images = [to_numpy_array(image) for image in images]
# prepare (COCO annotations as a list of Dict -> DETR target as a single Dict per image)
if annotations is not None:
prepared_images = []
prepared_annotations = []
for image, target in zip(images, annotations):
target = self.prepare_annotation(
image, target, format, return_segmentation_masks=return_segmentation_masks, masks_path=masks_path
)
prepared_images.append(image)
prepared_annotations.append(target)
images = prepared_images
annotations = prepared_annotations
del prepared_images, prepared_annotations
# transformations
if do_resize:
if annotations is not None:
resized_images, resized_annotations = [], []
for image, target in zip(images, annotations):
orig_size = get_image_size(image)
resized_image = self.resize(image, size=size, max_size=max_size, resample=resample)
resized_annotation = self.resize_annotation(target, orig_size, get_image_size(resized_image))
resized_images.append(resized_image)
resized_annotations.append(resized_annotation)
images = resized_images
annotations = resized_annotations
del resized_images, resized_annotations
else:
images = [self.resize(image, size=size, resample=resample) for image in images]
if do_rescale:
images = [self.rescale(image, rescale_factor) for image in images]
if do_normalize:
images = [self.normalize(image, image_mean, image_std) for image in images]
if annotations is not None:
annotations = [
self.normalize_annotation(annotation, get_image_size(image))
for annotation, image in zip(annotations, images)
]
if do_pad:
# Pads images and returns their mask: {'pixel_values': ..., 'pixel_mask': ...}
data = self.pad(images, return_pixel_mask=True, data_format=data_format)
else:
images = [to_channel_dimension_format(image, data_format) for image in images]
data = {"pixel_values": images}
encoded_inputs = BatchFeature(data=data, tensor_type=return_tensors)
if annotations is not None:
encoded_inputs["labels"] = [
BatchFeature(annotation, tensor_type=return_tensors) for annotation in annotations
]
return encoded_inputs
# POSTPROCESSING METHODS - TODO: add support for other frameworks
def post_process(self, outputs, target_sizes):
"""
Converts the output of [`ConditionalDetrForObjectDetection`] into the format expected by the COCO api. Only
supports PyTorch.
Args:
outputs ([`ConditionalDetrObjectDetectionOutput`]):
Raw outputs of the model.
target_sizes (`torch.Tensor` of shape `(batch_size, 2)`):
Tensor containing the size (h, w) of each image of the batch. For evaluation, this must be the original
image size (before any data augmentation). For visualization, this should be the image size after data
augment, but before padding.
Returns:
`List[Dict]`: A list of dictionaries, each dictionary containing the scores, labels and boxes for an image
in the batch as predicted by the model.
"""
logging.warning_once(
"`post_process` is deprecated and will be removed in v5 of Transformers, please use"
" `post_process_object_detection` instead, with `threshold=0.` for equivalent results.",
)
out_logits, out_bbox = outputs.logits, outputs.pred_boxes
if len(out_logits) != len(target_sizes):
raise ValueError("Make sure that you pass in as many target sizes as the batch dimension of the logits")
if target_sizes.shape[1] != 2:
raise ValueError("Each element of target_sizes must contain the size (h, w) of each image of the batch")
prob = out_logits.sigmoid()
topk_values, topk_indexes = torch.topk(prob.view(out_logits.shape[0], -1), 300, dim=1)
scores = topk_values
topk_boxes = torch.div(topk_indexes, out_logits.shape[2], rounding_mode="floor")
labels = topk_indexes % out_logits.shape[2]
boxes = center_to_corners_format(out_bbox)
boxes = torch.gather(boxes, 1, topk_boxes.unsqueeze(-1).repeat(1, 1, 4))
# and from relative [0, 1] to absolute [0, height] coordinates
img_h, img_w = target_sizes.unbind(1)
scale_fct = torch.stack([img_w, img_h, img_w, img_h], dim=1)
boxes = boxes * scale_fct[:, None, :]
results = [{"scores": s, "labels": l, "boxes": b} for s, l, b in zip(scores, labels, boxes)]
return results
# Copied from transformers.models.deformable_detr.image_processing_deformable_detr.DeformableDetrImageProcessor.post_process_object_detection with DeformableDetr->ConditionalDetr
def post_process_object_detection(
self, outputs, threshold: float = 0.5, target_sizes: Union[TensorType, List[Tuple]] = None, top_k: int = 100
):
"""
Converts the raw output of [`ConditionalDetrForObjectDetection`] into final bounding boxes in (top_left_x,
top_left_y, bottom_right_x, bottom_right_y) format. Only supports PyTorch.
Args:
outputs ([`DetrObjectDetectionOutput`]):
Raw outputs of the model.
threshold (`float`, *optional*):
Score threshold to keep object detection predictions.
target_sizes (`torch.Tensor` or `List[Tuple[int, int]]`, *optional*):
Tensor of shape `(batch_size, 2)` or list of tuples (`Tuple[int, int]`) containing the target size
(height, width) of each image in the batch. If left to None, predictions will not be resized.
top_k (`int`, *optional*, defaults to 100):
Keep only top k bounding boxes before filtering by thresholding.
Returns:
`List[Dict]`: A list of dictionaries, each dictionary containing the scores, labels and boxes for an image
in the batch as predicted by the model.
"""
out_logits, out_bbox = outputs.logits, outputs.pred_boxes
if target_sizes is not None:
if len(out_logits) != len(target_sizes):
raise ValueError(
"Make sure that you pass in as many target sizes as the batch dimension of the logits"
)
prob = out_logits.sigmoid()
prob = prob.view(out_logits.shape[0], -1)
k_value = min(top_k, prob.size(1))
topk_values, topk_indexes = torch.topk(prob, k_value, dim=1)
scores = topk_values
topk_boxes = torch.div(topk_indexes, out_logits.shape[2], rounding_mode="floor")
labels = topk_indexes % out_logits.shape[2]
boxes = center_to_corners_format(out_bbox)
boxes = torch.gather(boxes, 1, topk_boxes.unsqueeze(-1).repeat(1, 1, 4))
# and from relative [0, 1] to absolute [0, height] coordinates
if isinstance(target_sizes, List):
img_h = torch.Tensor([i[0] for i in target_sizes])
img_w = torch.Tensor([i[1] for i in target_sizes])
else:
img_h, img_w = target_sizes.unbind(1)
scale_fct = torch.stack([img_w, img_h, img_w, img_h], dim=1).to(boxes.device)
boxes = boxes * scale_fct[:, None, :]
results = []
for s, l, b in zip(scores, labels, boxes):
score = s[s > threshold]
label = l[s > threshold]
box = b[s > threshold]
results.append({"scores": score, "labels": label, "boxes": box})
return results
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.post_process_semantic_segmentation with Detr->ConditionalDetr
def post_process_semantic_segmentation(self, outputs, target_sizes: List[Tuple[int, int]] = None):
"""
Converts the output of [`ConditionalDetrForSegmentation`] into semantic segmentation maps. Only supports
PyTorch.
Args:
outputs ([`ConditionalDetrForSegmentation`]):
Raw outputs of the model.
target_sizes (`List[Tuple[int, int]]`, *optional*):
A list of tuples (`Tuple[int, int]`) containing the target size (height, width) of each image in the
batch. If unset, predictions will not be resized.
Returns:
`List[torch.Tensor]`:
A list of length `batch_size`, where each item is a semantic segmentation map of shape (height, width)
corresponding to the target_sizes entry (if `target_sizes` is specified). Each entry of each
`torch.Tensor` correspond to a semantic class id.
"""
class_queries_logits = outputs.logits # [batch_size, num_queries, num_classes+1]
masks_queries_logits = outputs.pred_masks # [batch_size, num_queries, height, width]
# Remove the null class `[..., :-1]`
masks_classes = class_queries_logits.softmax(dim=-1)[..., :-1]
masks_probs = masks_queries_logits.sigmoid() # [batch_size, num_queries, height, width]
# Semantic segmentation logits of shape (batch_size, num_classes, height, width)
segmentation = torch.einsum("bqc, bqhw -> bchw", masks_classes, masks_probs)
batch_size = class_queries_logits.shape[0]
# Resize logits and compute semantic segmentation maps
if target_sizes is not None:
if batch_size != len(target_sizes):
raise ValueError(
"Make sure that you pass in as many target sizes as the batch dimension of the logits"
)
semantic_segmentation = []
for idx in range(batch_size):
resized_logits = nn.functional.interpolate(
segmentation[idx].unsqueeze(dim=0), size=target_sizes[idx], mode="bilinear", align_corners=False
)
semantic_map = resized_logits[0].argmax(dim=0)
semantic_segmentation.append(semantic_map)
else:
semantic_segmentation = segmentation.argmax(dim=1)
semantic_segmentation = [semantic_segmentation[i] for i in range(semantic_segmentation.shape[0])]
return semantic_segmentation
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.post_process_instance_segmentation with Detr->ConditionalDetr
def post_process_instance_segmentation(
self,
outputs,
threshold: float = 0.5,
mask_threshold: float = 0.5,
overlap_mask_area_threshold: float = 0.8,
target_sizes: Optional[List[Tuple[int, int]]] = None,
return_coco_annotation: Optional[bool] = False,
) -> List[Dict]:
"""
Converts the output of [`ConditionalDetrForSegmentation`] into instance segmentation predictions. Only supports
PyTorch.
Args:
outputs ([`ConditionalDetrForSegmentation`]):
Raw outputs of the model.
threshold (`float`, *optional*, defaults to 0.5):
The probability score threshold to keep predicted instance masks.
mask_threshold (`float`, *optional*, defaults to 0.5):
Threshold to use when turning the predicted masks into binary values.
overlap_mask_area_threshold (`float`, *optional*, defaults to 0.8):
The overlap mask area threshold to merge or discard small disconnected parts within each binary
instance mask.
target_sizes (`List[Tuple]`, *optional*):
List of length (batch_size), where each list item (`Tuple[int, int]]`) corresponds to the requested
final size (height, width) of each prediction. If unset, predictions will not be resized.
return_coco_annotation (`bool`, *optional*):
Defaults to `False`. If set to `True`, segmentation maps are returned in COCO run-length encoding (RLE)
format.
Returns:
`List[Dict]`: A list of dictionaries, one per image, each dictionary containing two keys:
- **segmentation** -- A tensor of shape `(height, width)` where each pixel represents a `segment_id` or
`List[List]` run-length encoding (RLE) of the segmentation map if return_coco_annotation is set to
`True`. Set to `None` if no mask if found above `threshold`.
- **segments_info** -- A dictionary that contains additional information on each segment.
- **id** -- An integer representing the `segment_id`.
- **label_id** -- An integer representing the label / semantic class id corresponding to `segment_id`.
- **score** -- Prediction score of segment with `segment_id`.
"""
class_queries_logits = outputs.logits # [batch_size, num_queries, num_classes+1]
masks_queries_logits = outputs.pred_masks # [batch_size, num_queries, height, width]
batch_size = class_queries_logits.shape[0]
num_labels = class_queries_logits.shape[-1] - 1
mask_probs = masks_queries_logits.sigmoid() # [batch_size, num_queries, height, width]
# Predicted label and score of each query (batch_size, num_queries)
pred_scores, pred_labels = nn.functional.softmax(class_queries_logits, dim=-1).max(-1)
# Loop over items in batch size
results: List[Dict[str, TensorType]] = []
for i in range(batch_size):
mask_probs_item, pred_scores_item, pred_labels_item = remove_low_and_no_objects(
mask_probs[i], pred_scores[i], pred_labels[i], threshold, num_labels
)
# No mask found
if mask_probs_item.shape[0] <= 0:
height, width = target_sizes[i] if target_sizes is not None else mask_probs_item.shape[1:]
segmentation = torch.zeros((height, width)) - 1
results.append({"segmentation": segmentation, "segments_info": []})
continue
# Get segmentation map and segment information of batch item
target_size = target_sizes[i] if target_sizes is not None else None
segmentation, segments = compute_segments(
mask_probs=mask_probs_item,
pred_scores=pred_scores_item,
pred_labels=pred_labels_item,
mask_threshold=mask_threshold,
overlap_mask_area_threshold=overlap_mask_area_threshold,
label_ids_to_fuse=[],
target_size=target_size,
)
# Return segmentation map in run-length encoding (RLE) format
if return_coco_annotation:
segmentation = convert_segmentation_to_rle(segmentation)
results.append({"segmentation": segmentation, "segments_info": segments})
return results
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.post_process_panoptic_segmentation with Detr->ConditionalDetr
def post_process_panoptic_segmentation(
self,
outputs,
threshold: float = 0.5,
mask_threshold: float = 0.5,
overlap_mask_area_threshold: float = 0.8,
label_ids_to_fuse: Optional[Set[int]] = None,
target_sizes: Optional[List[Tuple[int, int]]] = None,
) -> List[Dict]:
"""
Converts the output of [`ConditionalDetrForSegmentation`] into image panoptic segmentation predictions. Only
supports PyTorch.
Args:
outputs ([`ConditionalDetrForSegmentation`]):
The outputs from [`ConditionalDetrForSegmentation`].
threshold (`float`, *optional*, defaults to 0.5):
The probability score threshold to keep predicted instance masks.
mask_threshold (`float`, *optional*, defaults to 0.5):
Threshold to use when turning the predicted masks into binary values.
overlap_mask_area_threshold (`float`, *optional*, defaults to 0.8):
The overlap mask area threshold to merge or discard small disconnected parts within each binary
instance mask.
label_ids_to_fuse (`Set[int]`, *optional*):
The labels in this state will have all their instances be fused together. For instance we could say
there can only be one sky in an image, but several persons, so the label ID for sky would be in that
set, but not the one for person.
target_sizes (`List[Tuple]`, *optional*):
List of length (batch_size), where each list item (`Tuple[int, int]]`) corresponds to the requested
final size (height, width) of each prediction in batch. If unset, predictions will not be resized.
Returns:
`List[Dict]`: A list of dictionaries, one per image, each dictionary containing two keys:
- **segmentation** -- a tensor of shape `(height, width)` where each pixel represents a `segment_id` or
`None` if no mask if found above `threshold`. If `target_sizes` is specified, segmentation is resized to
the corresponding `target_sizes` entry.
- **segments_info** -- A dictionary that contains additional information on each segment.
- **id** -- an integer representing the `segment_id`.
- **label_id** -- An integer representing the label / semantic class id corresponding to `segment_id`.
- **was_fused** -- a boolean, `True` if `label_id` was in `label_ids_to_fuse`, `False` otherwise.
Multiple instances of the same class / label were fused and assigned a single `segment_id`.
- **score** -- Prediction score of segment with `segment_id`.
"""
if label_ids_to_fuse is None:
logger.warning_once("`label_ids_to_fuse` unset. No instance will be fused.")
label_ids_to_fuse = set()
class_queries_logits = outputs.logits # [batch_size, num_queries, num_classes+1]
masks_queries_logits = outputs.pred_masks # [batch_size, num_queries, height, width]
batch_size = class_queries_logits.shape[0]
num_labels = class_queries_logits.shape[-1] - 1
mask_probs = masks_queries_logits.sigmoid() # [batch_size, num_queries, height, width]
# Predicted label and score of each query (batch_size, num_queries)
pred_scores, pred_labels = nn.functional.softmax(class_queries_logits, dim=-1).max(-1)
# Loop over items in batch size
results: List[Dict[str, TensorType]] = []
for i in range(batch_size):
mask_probs_item, pred_scores_item, pred_labels_item = remove_low_and_no_objects(
mask_probs[i], pred_scores[i], pred_labels[i], threshold, num_labels
)
# No mask found
if mask_probs_item.shape[0] <= 0:
height, width = target_sizes[i] if target_sizes is not None else mask_probs_item.shape[1:]
segmentation = torch.zeros((height, width)) - 1
results.append({"segmentation": segmentation, "segments_info": []})
continue
# Get segmentation map and segment information of batch item
target_size = target_sizes[i] if target_sizes is not None else None
segmentation, segments = compute_segments(
mask_probs=mask_probs_item,
pred_scores=pred_scores_item,
pred_labels=pred_labels_item,
mask_threshold=mask_threshold,
overlap_mask_area_threshold=overlap_mask_area_threshold,
label_ids_to_fuse=label_ids_to_fuse,
target_size=target_size,
)
results.append({"segmentation": segmentation, "segments_info": segments})
return results
| transformers-main | src/transformers/models/conditional_detr/image_processing_conditional_detr.py |
# Copyright 2022 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import OptionalDependencyNotAvailable, _LazyModule, is_torch_available, is_vision_available
_import_structure = {
"configuration_conditional_detr": [
"CONDITIONAL_DETR_PRETRAINED_CONFIG_ARCHIVE_MAP",
"ConditionalDetrConfig",
"ConditionalDetrOnnxConfig",
]
}
try:
if not is_vision_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["feature_extraction_conditional_detr"] = ["ConditionalDetrFeatureExtractor"]
_import_structure["image_processing_conditional_detr"] = ["ConditionalDetrImageProcessor"]
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_conditional_detr"] = [
"CONDITIONAL_DETR_PRETRAINED_MODEL_ARCHIVE_LIST",
"ConditionalDetrForObjectDetection",
"ConditionalDetrForSegmentation",
"ConditionalDetrModel",
"ConditionalDetrPreTrainedModel",
]
if TYPE_CHECKING:
from .configuration_conditional_detr import (
CONDITIONAL_DETR_PRETRAINED_CONFIG_ARCHIVE_MAP,
ConditionalDetrConfig,
ConditionalDetrOnnxConfig,
)
try:
if not is_vision_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .feature_extraction_conditional_detr import ConditionalDetrFeatureExtractor
from .image_processing_conditional_detr import ConditionalDetrImageProcessor
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_conditional_detr import (
CONDITIONAL_DETR_PRETRAINED_MODEL_ARCHIVE_LIST,
ConditionalDetrForObjectDetection,
ConditionalDetrForSegmentation,
ConditionalDetrModel,
ConditionalDetrPreTrainedModel,
)
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/conditional_detr/__init__.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Convert Conditional DETR checkpoints."""
import argparse
import json
from collections import OrderedDict
from pathlib import Path
import requests
import torch
from huggingface_hub import hf_hub_download
from PIL import Image
from transformers import (
ConditionalDetrConfig,
ConditionalDetrForObjectDetection,
ConditionalDetrForSegmentation,
ConditionalDetrImageProcessor,
)
from transformers.utils import logging
logging.set_verbosity_info()
logger = logging.get_logger(__name__)
# here we list all keys to be renamed (original name on the left, our name on the right)
rename_keys = []
for i in range(6):
# encoder layers: output projection, 2 feedforward neural networks and 2 layernorms
rename_keys.append(
(f"transformer.encoder.layers.{i}.self_attn.out_proj.weight", f"encoder.layers.{i}.self_attn.out_proj.weight")
)
rename_keys.append(
(f"transformer.encoder.layers.{i}.self_attn.out_proj.bias", f"encoder.layers.{i}.self_attn.out_proj.bias")
)
rename_keys.append((f"transformer.encoder.layers.{i}.linear1.weight", f"encoder.layers.{i}.fc1.weight"))
rename_keys.append((f"transformer.encoder.layers.{i}.linear1.bias", f"encoder.layers.{i}.fc1.bias"))
rename_keys.append((f"transformer.encoder.layers.{i}.linear2.weight", f"encoder.layers.{i}.fc2.weight"))
rename_keys.append((f"transformer.encoder.layers.{i}.linear2.bias", f"encoder.layers.{i}.fc2.bias"))
rename_keys.append(
(f"transformer.encoder.layers.{i}.norm1.weight", f"encoder.layers.{i}.self_attn_layer_norm.weight")
)
rename_keys.append((f"transformer.encoder.layers.{i}.norm1.bias", f"encoder.layers.{i}.self_attn_layer_norm.bias"))
rename_keys.append((f"transformer.encoder.layers.{i}.norm2.weight", f"encoder.layers.{i}.final_layer_norm.weight"))
rename_keys.append((f"transformer.encoder.layers.{i}.norm2.bias", f"encoder.layers.{i}.final_layer_norm.bias"))
# decoder layers: 2 times output projection, 2 feedforward neural networks and 3 layernorms
rename_keys.append(
(f"transformer.decoder.layers.{i}.self_attn.out_proj.weight", f"decoder.layers.{i}.self_attn.out_proj.weight")
)
rename_keys.append(
(f"transformer.decoder.layers.{i}.self_attn.out_proj.bias", f"decoder.layers.{i}.self_attn.out_proj.bias")
)
rename_keys.append(
(
f"transformer.decoder.layers.{i}.cross_attn.out_proj.weight",
f"decoder.layers.{i}.encoder_attn.out_proj.weight",
)
)
rename_keys.append(
(
f"transformer.decoder.layers.{i}.cross_attn.out_proj.bias",
f"decoder.layers.{i}.encoder_attn.out_proj.bias",
)
)
rename_keys.append((f"transformer.decoder.layers.{i}.linear1.weight", f"decoder.layers.{i}.fc1.weight"))
rename_keys.append((f"transformer.decoder.layers.{i}.linear1.bias", f"decoder.layers.{i}.fc1.bias"))
rename_keys.append((f"transformer.decoder.layers.{i}.linear2.weight", f"decoder.layers.{i}.fc2.weight"))
rename_keys.append((f"transformer.decoder.layers.{i}.linear2.bias", f"decoder.layers.{i}.fc2.bias"))
rename_keys.append(
(f"transformer.decoder.layers.{i}.norm1.weight", f"decoder.layers.{i}.self_attn_layer_norm.weight")
)
rename_keys.append((f"transformer.decoder.layers.{i}.norm1.bias", f"decoder.layers.{i}.self_attn_layer_norm.bias"))
rename_keys.append(
(f"transformer.decoder.layers.{i}.norm2.weight", f"decoder.layers.{i}.encoder_attn_layer_norm.weight")
)
rename_keys.append(
(f"transformer.decoder.layers.{i}.norm2.bias", f"decoder.layers.{i}.encoder_attn_layer_norm.bias")
)
rename_keys.append((f"transformer.decoder.layers.{i}.norm3.weight", f"decoder.layers.{i}.final_layer_norm.weight"))
rename_keys.append((f"transformer.decoder.layers.{i}.norm3.bias", f"decoder.layers.{i}.final_layer_norm.bias"))
# q, k, v projections in self/cross-attention in decoder for conditional DETR
rename_keys.append(
(f"transformer.decoder.layers.{i}.sa_qcontent_proj.weight", f"decoder.layers.{i}.sa_qcontent_proj.weight")
)
rename_keys.append(
(f"transformer.decoder.layers.{i}.sa_kcontent_proj.weight", f"decoder.layers.{i}.sa_kcontent_proj.weight")
)
rename_keys.append(
(f"transformer.decoder.layers.{i}.sa_qpos_proj.weight", f"decoder.layers.{i}.sa_qpos_proj.weight")
)
rename_keys.append(
(f"transformer.decoder.layers.{i}.sa_kpos_proj.weight", f"decoder.layers.{i}.sa_kpos_proj.weight")
)
rename_keys.append((f"transformer.decoder.layers.{i}.sa_v_proj.weight", f"decoder.layers.{i}.sa_v_proj.weight"))
rename_keys.append(
(f"transformer.decoder.layers.{i}.ca_qcontent_proj.weight", f"decoder.layers.{i}.ca_qcontent_proj.weight")
)
# rename_keys.append((f"transformer.decoder.layers.{i}.ca_qpos_proj.weight", f"decoder.layers.{i}.ca_qpos_proj.weight"))
rename_keys.append(
(f"transformer.decoder.layers.{i}.ca_kcontent_proj.weight", f"decoder.layers.{i}.ca_kcontent_proj.weight")
)
rename_keys.append(
(f"transformer.decoder.layers.{i}.ca_kpos_proj.weight", f"decoder.layers.{i}.ca_kpos_proj.weight")
)
rename_keys.append((f"transformer.decoder.layers.{i}.ca_v_proj.weight", f"decoder.layers.{i}.ca_v_proj.weight"))
rename_keys.append(
(f"transformer.decoder.layers.{i}.ca_qpos_sine_proj.weight", f"decoder.layers.{i}.ca_qpos_sine_proj.weight")
)
rename_keys.append(
(f"transformer.decoder.layers.{i}.sa_qcontent_proj.bias", f"decoder.layers.{i}.sa_qcontent_proj.bias")
)
rename_keys.append(
(f"transformer.decoder.layers.{i}.sa_kcontent_proj.bias", f"decoder.layers.{i}.sa_kcontent_proj.bias")
)
rename_keys.append((f"transformer.decoder.layers.{i}.sa_qpos_proj.bias", f"decoder.layers.{i}.sa_qpos_proj.bias"))
rename_keys.append((f"transformer.decoder.layers.{i}.sa_kpos_proj.bias", f"decoder.layers.{i}.sa_kpos_proj.bias"))
rename_keys.append((f"transformer.decoder.layers.{i}.sa_v_proj.bias", f"decoder.layers.{i}.sa_v_proj.bias"))
rename_keys.append(
(f"transformer.decoder.layers.{i}.ca_qcontent_proj.bias", f"decoder.layers.{i}.ca_qcontent_proj.bias")
)
# rename_keys.append((f"transformer.decoder.layers.{i}.ca_qpos_proj.bias", f"decoder.layers.{i}.ca_qpos_proj.bias"))
rename_keys.append(
(f"transformer.decoder.layers.{i}.ca_kcontent_proj.bias", f"decoder.layers.{i}.ca_kcontent_proj.bias")
)
rename_keys.append((f"transformer.decoder.layers.{i}.ca_kpos_proj.bias", f"decoder.layers.{i}.ca_kpos_proj.bias"))
rename_keys.append((f"transformer.decoder.layers.{i}.ca_v_proj.bias", f"decoder.layers.{i}.ca_v_proj.bias"))
rename_keys.append(
(f"transformer.decoder.layers.{i}.ca_qpos_sine_proj.bias", f"decoder.layers.{i}.ca_qpos_sine_proj.bias")
)
# convolutional projection + query embeddings + layernorm of decoder + class and bounding box heads
# for conditional DETR, also convert reference point head and query scale MLP
rename_keys.extend(
[
("input_proj.weight", "input_projection.weight"),
("input_proj.bias", "input_projection.bias"),
("query_embed.weight", "query_position_embeddings.weight"),
("transformer.decoder.norm.weight", "decoder.layernorm.weight"),
("transformer.decoder.norm.bias", "decoder.layernorm.bias"),
("class_embed.weight", "class_labels_classifier.weight"),
("class_embed.bias", "class_labels_classifier.bias"),
("bbox_embed.layers.0.weight", "bbox_predictor.layers.0.weight"),
("bbox_embed.layers.0.bias", "bbox_predictor.layers.0.bias"),
("bbox_embed.layers.1.weight", "bbox_predictor.layers.1.weight"),
("bbox_embed.layers.1.bias", "bbox_predictor.layers.1.bias"),
("bbox_embed.layers.2.weight", "bbox_predictor.layers.2.weight"),
("bbox_embed.layers.2.bias", "bbox_predictor.layers.2.bias"),
("transformer.decoder.ref_point_head.layers.0.weight", "decoder.ref_point_head.layers.0.weight"),
("transformer.decoder.ref_point_head.layers.0.bias", "decoder.ref_point_head.layers.0.bias"),
("transformer.decoder.ref_point_head.layers.1.weight", "decoder.ref_point_head.layers.1.weight"),
("transformer.decoder.ref_point_head.layers.1.bias", "decoder.ref_point_head.layers.1.bias"),
("transformer.decoder.query_scale.layers.0.weight", "decoder.query_scale.layers.0.weight"),
("transformer.decoder.query_scale.layers.0.bias", "decoder.query_scale.layers.0.bias"),
("transformer.decoder.query_scale.layers.1.weight", "decoder.query_scale.layers.1.weight"),
("transformer.decoder.query_scale.layers.1.bias", "decoder.query_scale.layers.1.bias"),
("transformer.decoder.layers.0.ca_qpos_proj.weight", "decoder.layers.0.ca_qpos_proj.weight"),
("transformer.decoder.layers.0.ca_qpos_proj.bias", "decoder.layers.0.ca_qpos_proj.bias"),
]
)
def rename_key(state_dict, old, new):
val = state_dict.pop(old)
state_dict[new] = val
def rename_backbone_keys(state_dict):
new_state_dict = OrderedDict()
for key, value in state_dict.items():
if "backbone.0.body" in key:
new_key = key.replace("backbone.0.body", "backbone.conv_encoder.model")
new_state_dict[new_key] = value
else:
new_state_dict[key] = value
return new_state_dict
def read_in_q_k_v(state_dict, is_panoptic=False):
prefix = ""
if is_panoptic:
prefix = "conditional_detr."
# first: transformer encoder
for i in range(6):
# read in weights + bias of input projection layer (in PyTorch's MultiHeadAttention, this is a single matrix + bias)
in_proj_weight = state_dict.pop(f"{prefix}transformer.encoder.layers.{i}.self_attn.in_proj_weight")
in_proj_bias = state_dict.pop(f"{prefix}transformer.encoder.layers.{i}.self_attn.in_proj_bias")
# next, add query, keys and values (in that order) to the state dict
state_dict[f"encoder.layers.{i}.self_attn.q_proj.weight"] = in_proj_weight[:256, :]
state_dict[f"encoder.layers.{i}.self_attn.q_proj.bias"] = in_proj_bias[:256]
state_dict[f"encoder.layers.{i}.self_attn.k_proj.weight"] = in_proj_weight[256:512, :]
state_dict[f"encoder.layers.{i}.self_attn.k_proj.bias"] = in_proj_bias[256:512]
state_dict[f"encoder.layers.{i}.self_attn.v_proj.weight"] = in_proj_weight[-256:, :]
state_dict[f"encoder.layers.{i}.self_attn.v_proj.bias"] = in_proj_bias[-256:]
# We will verify our results on an image of cute cats
def prepare_img():
url = "http://images.cocodataset.org/val2017/000000039769.jpg"
im = Image.open(requests.get(url, stream=True).raw)
return im
@torch.no_grad()
def convert_conditional_detr_checkpoint(model_name, pytorch_dump_folder_path):
"""
Copy/paste/tweak model's weights to our CONDITIONAL_DETR structure.
"""
# load default config
config = ConditionalDetrConfig()
# set backbone and dilation attributes
if "resnet101" in model_name:
config.backbone = "resnet101"
if "dc5" in model_name:
config.dilation = True
is_panoptic = "panoptic" in model_name
if is_panoptic:
config.num_labels = 250
else:
config.num_labels = 91
repo_id = "huggingface/label-files"
filename = "coco-detection-id2label.json"
id2label = json.load(open(hf_hub_download(repo_id, filename, repo_type="dataset"), "r"))
id2label = {int(k): v for k, v in id2label.items()}
config.id2label = id2label
config.label2id = {v: k for k, v in id2label.items()}
# load image processor
format = "coco_panoptic" if is_panoptic else "coco_detection"
image_processor = ConditionalDetrImageProcessor(format=format)
# prepare image
img = prepare_img()
encoding = image_processor(images=img, return_tensors="pt")
pixel_values = encoding["pixel_values"]
logger.info(f"Converting model {model_name}...")
# load original model from torch hub
conditional_detr = torch.hub.load("DeppMeng/ConditionalDETR", model_name, pretrained=True).eval()
state_dict = conditional_detr.state_dict()
# rename keys
for src, dest in rename_keys:
if is_panoptic:
src = "conditional_detr." + src
rename_key(state_dict, src, dest)
state_dict = rename_backbone_keys(state_dict)
# query, key and value matrices need special treatment
read_in_q_k_v(state_dict, is_panoptic=is_panoptic)
# important: we need to prepend a prefix to each of the base model keys as the head models use different attributes for them
prefix = "conditional_detr.model." if is_panoptic else "model."
for key in state_dict.copy().keys():
if is_panoptic:
if (
key.startswith("conditional_detr")
and not key.startswith("class_labels_classifier")
and not key.startswith("bbox_predictor")
):
val = state_dict.pop(key)
state_dict["conditional_detr.model" + key[4:]] = val
elif "class_labels_classifier" in key or "bbox_predictor" in key:
val = state_dict.pop(key)
state_dict["conditional_detr." + key] = val
elif key.startswith("bbox_attention") or key.startswith("mask_head"):
continue
else:
val = state_dict.pop(key)
state_dict[prefix + key] = val
else:
if not key.startswith("class_labels_classifier") and not key.startswith("bbox_predictor"):
val = state_dict.pop(key)
state_dict[prefix + key] = val
# finally, create HuggingFace model and load state dict
model = ConditionalDetrForSegmentation(config) if is_panoptic else ConditionalDetrForObjectDetection(config)
model.load_state_dict(state_dict)
model.eval()
model.push_to_hub(repo_id=model_name, organization="DepuMeng", commit_message="Add model")
# verify our conversion
original_outputs = conditional_detr(pixel_values)
outputs = model(pixel_values)
assert torch.allclose(outputs.logits, original_outputs["pred_logits"], atol=1e-4)
assert torch.allclose(outputs.pred_boxes, original_outputs["pred_boxes"], atol=1e-4)
if is_panoptic:
assert torch.allclose(outputs.pred_masks, original_outputs["pred_masks"], atol=1e-4)
# Save model and image processor
logger.info(f"Saving PyTorch model and image processor to {pytorch_dump_folder_path}...")
Path(pytorch_dump_folder_path).mkdir(exist_ok=True)
model.save_pretrained(pytorch_dump_folder_path)
image_processor.save_pretrained(pytorch_dump_folder_path)
if __name__ == "__main__":
parser = argparse.ArgumentParser()
parser.add_argument(
"--model_name",
default="conditional_detr_resnet50",
type=str,
help="Name of the CONDITIONAL_DETR model you'd like to convert.",
)
parser.add_argument(
"--pytorch_dump_folder_path", default=None, type=str, help="Path to the folder to output PyTorch model."
)
args = parser.parse_args()
convert_conditional_detr_checkpoint(args.model_name, args.pytorch_dump_folder_path)
| transformers-main | src/transformers/models/conditional_detr/convert_conditional_detr_original_pytorch_checkpoint_to_pytorch.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" Conditional DETR model configuration"""
from collections import OrderedDict
from typing import Mapping
from packaging import version
from ...configuration_utils import PretrainedConfig
from ...onnx import OnnxConfig
from ...utils import logging
from ..auto import CONFIG_MAPPING
logger = logging.get_logger(__name__)
CONDITIONAL_DETR_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"microsoft/conditional-detr-resnet-50": (
"https://huggingface.co/microsoft/conditional-detr-resnet-50/resolve/main/config.json"
),
}
class ConditionalDetrConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`ConditionalDetrModel`]. It is used to instantiate
a Conditional DETR model according to the specified arguments, defining the model architecture. Instantiating a
configuration with the defaults will yield a similar configuration to that of the Conditional DETR
[microsoft/conditional-detr-resnet-50](https://huggingface.co/microsoft/conditional-detr-resnet-50) architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
use_timm_backbone (`bool`, *optional*, defaults to `True`):
Whether or not to use the `timm` library for the backbone. If set to `False`, will use the [`AutoBackbone`]
API.
backbone_config (`PretrainedConfig` or `dict`, *optional*):
The configuration of the backbone model. Only used in case `use_timm_backbone` is set to `False` in which
case it will default to `ResNetConfig()`.
num_channels (`int`, *optional*, defaults to 3):
The number of input channels.
num_queries (`int`, *optional*, defaults to 100):
Number of object queries, i.e. detection slots. This is the maximal number of objects
[`ConditionalDetrModel`] can detect in a single image. For COCO, we recommend 100 queries.
d_model (`int`, *optional*, defaults to 256):
Dimension of the layers.
encoder_layers (`int`, *optional*, defaults to 6):
Number of encoder layers.
decoder_layers (`int`, *optional*, defaults to 6):
Number of decoder layers.
encoder_attention_heads (`int`, *optional*, defaults to 8):
Number of attention heads for each attention layer in the Transformer encoder.
decoder_attention_heads (`int`, *optional*, defaults to 8):
Number of attention heads for each attention layer in the Transformer decoder.
decoder_ffn_dim (`int`, *optional*, defaults to 2048):
Dimension of the "intermediate" (often named feed-forward) layer in decoder.
encoder_ffn_dim (`int`, *optional*, defaults to 2048):
Dimension of the "intermediate" (often named feed-forward) layer in decoder.
activation_function (`str` or `function`, *optional*, defaults to `"relu"`):
The non-linear activation function (function or string) in the encoder and pooler. If string, `"gelu"`,
`"relu"`, `"silu"` and `"gelu_new"` are supported.
dropout (`float`, *optional*, defaults to 0.1):
The dropout probability for all fully connected layers in the embeddings, encoder, and pooler.
attention_dropout (`float`, *optional*, defaults to 0.0):
The dropout ratio for the attention probabilities.
activation_dropout (`float`, *optional*, defaults to 0.0):
The dropout ratio for activations inside the fully connected layer.
init_std (`float`, *optional*, defaults to 0.02):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
init_xavier_std (`float`, *optional*, defaults to 1):
The scaling factor used for the Xavier initialization gain in the HM Attention map module.
encoder_layerdrop (`float`, *optional*, defaults to 0.0):
The LayerDrop probability for the encoder. See the [LayerDrop paper](see https://arxiv.org/abs/1909.11556)
for more details.
decoder_layerdrop (`float`, *optional*, defaults to 0.0):
The LayerDrop probability for the decoder. See the [LayerDrop paper](see https://arxiv.org/abs/1909.11556)
for more details.
auxiliary_loss (`bool`, *optional*, defaults to `False`):
Whether auxiliary decoding losses (loss at each decoder layer) are to be used.
position_embedding_type (`str`, *optional*, defaults to `"sine"`):
Type of position embeddings to be used on top of the image features. One of `"sine"` or `"learned"`.
backbone (`str`, *optional*, defaults to `"resnet50"`):
Name of convolutional backbone to use in case `use_timm_backbone` = `True`. Supports any convolutional
backbone from the timm package. For a list of all available models, see [this
page](https://rwightman.github.io/pytorch-image-models/#load-a-pretrained-model).
use_pretrained_backbone (`bool`, *optional*, defaults to `True`):
Whether to use pretrained weights for the backbone. Only supported when `use_timm_backbone` = `True`.
dilation (`bool`, *optional*, defaults to `False`):
Whether to replace stride with dilation in the last convolutional block (DC5). Only supported when
`use_timm_backbone` = `True`.
class_cost (`float`, *optional*, defaults to 1):
Relative weight of the classification error in the Hungarian matching cost.
bbox_cost (`float`, *optional*, defaults to 5):
Relative weight of the L1 error of the bounding box coordinates in the Hungarian matching cost.
giou_cost (`float`, *optional*, defaults to 2):
Relative weight of the generalized IoU loss of the bounding box in the Hungarian matching cost.
mask_loss_coefficient (`float`, *optional*, defaults to 1):
Relative weight of the Focal loss in the panoptic segmentation loss.
dice_loss_coefficient (`float`, *optional*, defaults to 1):
Relative weight of the DICE/F-1 loss in the panoptic segmentation loss.
bbox_loss_coefficient (`float`, *optional*, defaults to 5):
Relative weight of the L1 bounding box loss in the object detection loss.
giou_loss_coefficient (`float`, *optional*, defaults to 2):
Relative weight of the generalized IoU loss in the object detection loss.
eos_coefficient (`float`, *optional*, defaults to 0.1):
Relative classification weight of the 'no-object' class in the object detection loss.
focal_alpha (`float`, *optional*, defaults to 0.25):
Alpha parameter in the focal loss.
Examples:
```python
>>> from transformers import ConditionalDetrConfig, ConditionalDetrModel
>>> # Initializing a Conditional DETR microsoft/conditional-detr-resnet-50 style configuration
>>> configuration = ConditionalDetrConfig()
>>> # Initializing a model (with random weights) from the microsoft/conditional-detr-resnet-50 style configuration
>>> model = ConditionalDetrModel(configuration)
>>> # Accessing the model configuration
>>> configuration = model.config
```"""
model_type = "conditional_detr"
keys_to_ignore_at_inference = ["past_key_values"]
attribute_map = {
"hidden_size": "d_model",
"num_attention_heads": "encoder_attention_heads",
}
def __init__(
self,
use_timm_backbone=True,
backbone_config=None,
num_channels=3,
num_queries=300,
encoder_layers=6,
encoder_ffn_dim=2048,
encoder_attention_heads=8,
decoder_layers=6,
decoder_ffn_dim=2048,
decoder_attention_heads=8,
encoder_layerdrop=0.0,
decoder_layerdrop=0.0,
is_encoder_decoder=True,
activation_function="relu",
d_model=256,
dropout=0.1,
attention_dropout=0.0,
activation_dropout=0.0,
init_std=0.02,
init_xavier_std=1.0,
auxiliary_loss=False,
position_embedding_type="sine",
backbone="resnet50",
use_pretrained_backbone=True,
dilation=False,
class_cost=2,
bbox_cost=5,
giou_cost=2,
mask_loss_coefficient=1,
dice_loss_coefficient=1,
cls_loss_coefficient=2,
bbox_loss_coefficient=5,
giou_loss_coefficient=2,
focal_alpha=0.25,
**kwargs,
):
if backbone_config is not None and use_timm_backbone:
raise ValueError("You can't specify both `backbone_config` and `use_timm_backbone`.")
if not use_timm_backbone:
if backbone_config is None:
logger.info("`backbone_config` is `None`. Initializing the config with the default `ResNet` backbone.")
backbone_config = CONFIG_MAPPING["resnet"](out_features=["stage4"])
elif isinstance(backbone_config, dict):
backbone_model_type = backbone_config.get("model_type")
config_class = CONFIG_MAPPING[backbone_model_type]
backbone_config = config_class.from_dict(backbone_config)
self.use_timm_backbone = use_timm_backbone
self.backbone_config = backbone_config
self.num_channels = num_channels
self.num_queries = num_queries
self.d_model = d_model
self.encoder_ffn_dim = encoder_ffn_dim
self.encoder_layers = encoder_layers
self.encoder_attention_heads = encoder_attention_heads
self.decoder_ffn_dim = decoder_ffn_dim
self.decoder_layers = decoder_layers
self.decoder_attention_heads = decoder_attention_heads
self.dropout = dropout
self.attention_dropout = attention_dropout
self.activation_dropout = activation_dropout
self.activation_function = activation_function
self.init_std = init_std
self.init_xavier_std = init_xavier_std
self.encoder_layerdrop = encoder_layerdrop
self.decoder_layerdrop = decoder_layerdrop
self.num_hidden_layers = encoder_layers
self.auxiliary_loss = auxiliary_loss
self.position_embedding_type = position_embedding_type
self.backbone = backbone
self.use_pretrained_backbone = use_pretrained_backbone
self.dilation = dilation
# Hungarian matcher
self.class_cost = class_cost
self.bbox_cost = bbox_cost
self.giou_cost = giou_cost
# Loss coefficients
self.mask_loss_coefficient = mask_loss_coefficient
self.dice_loss_coefficient = dice_loss_coefficient
self.cls_loss_coefficient = cls_loss_coefficient
self.bbox_loss_coefficient = bbox_loss_coefficient
self.giou_loss_coefficient = giou_loss_coefficient
self.focal_alpha = focal_alpha
super().__init__(is_encoder_decoder=is_encoder_decoder, **kwargs)
@property
def num_attention_heads(self) -> int:
return self.encoder_attention_heads
@property
def hidden_size(self) -> int:
return self.d_model
class ConditionalDetrOnnxConfig(OnnxConfig):
torch_onnx_minimum_version = version.parse("1.11")
@property
def inputs(self) -> Mapping[str, Mapping[int, str]]:
return OrderedDict(
[
("pixel_values", {0: "batch", 1: "num_channels", 2: "height", 3: "width"}),
("pixel_mask", {0: "batch"}),
]
)
@property
def atol_for_validation(self) -> float:
return 1e-5
@property
def default_onnx_opset(self) -> int:
return 12
| transformers-main | src/transformers/models/conditional_detr/configuration_conditional_detr.py |
# coding=utf-8
# Copyright 2021 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""
Processor class for VisionTextDualEncoder
"""
import warnings
from ...processing_utils import ProcessorMixin
from ...tokenization_utils_base import BatchEncoding
class VisionTextDualEncoderProcessor(ProcessorMixin):
r"""
Constructs a VisionTextDualEncoder processor which wraps an image processor and a tokenizer into a single
processor.
[`VisionTextDualEncoderProcessor`] offers all the functionalities of [`AutoImageProcessor`] and [`AutoTokenizer`].
See the [`~VisionTextDualEncoderProcessor.__call__`] and [`~VisionTextDualEncoderProcessor.decode`] for more
information.
Args:
image_processor ([`AutoImageProcessor`]):
The image processor is a required input.
tokenizer ([`PreTrainedTokenizer`]):
The tokenizer is a required input.
"""
attributes = ["image_processor", "tokenizer"]
image_processor_class = "AutoImageProcessor"
tokenizer_class = "AutoTokenizer"
def __init__(self, image_processor=None, tokenizer=None, **kwargs):
feature_extractor = None
if "feature_extractor" in kwargs:
warnings.warn(
"The `feature_extractor` argument is deprecated and will be removed in v5, use `image_processor`"
" instead.",
FutureWarning,
)
feature_extractor = kwargs.pop("feature_extractor")
image_processor = image_processor if image_processor is not None else feature_extractor
if image_processor is None:
raise ValueError("You have to specify an image_processor.")
if tokenizer is None:
raise ValueError("You have to specify a tokenizer.")
super().__init__(image_processor, tokenizer)
self.current_processor = self.image_processor
def __call__(self, text=None, images=None, return_tensors=None, **kwargs):
"""
Main method to prepare for the model one or several sequences(s) and image(s). This method forwards the `text`
and `kwargs` arguments to VisionTextDualEncoderTokenizer's [`~PreTrainedTokenizer.__call__`] if `text` is not
`None` to encode the text. To prepare the image(s), this method forwards the `images` and `kwargs` arguments to
AutoImageProcessor's [`~AutoImageProcessor.__call__`] if `images` is not `None`. Please refer to the doctsring
of the above two methods for more information.
Args:
text (`str`, `List[str]`, `List[List[str]]`):
The sequence or batch of sequences to be encoded. Each sequence can be a string or a list of strings
(pretokenized string). If the sequences are provided as list of strings (pretokenized), you must set
`is_split_into_words=True` (to lift the ambiguity with a batch of sequences).
images (`PIL.Image.Image`, `np.ndarray`, `torch.Tensor`, `List[PIL.Image.Image]`, `List[np.ndarray]`, `List[torch.Tensor]`):
The image or batch of images to be prepared. Each image can be a PIL image, NumPy array or PyTorch
tensor. In case of a NumPy array/PyTorch tensor, each image should be of shape (C, H, W), where C is a
number of channels, H and W are image height and width.
return_tensors (`str` or [`~utils.TensorType`], *optional*):
If set, will return tensors of a particular framework. Acceptable values are:
- `'tf'`: Return TensorFlow `tf.constant` objects.
- `'pt'`: Return PyTorch `torch.Tensor` objects.
- `'np'`: Return NumPy `np.ndarray` objects.
- `'jax'`: Return JAX `jnp.ndarray` objects.
Returns:
[`BatchEncoding`]: A [`BatchEncoding`] with the following fields:
- **input_ids** -- List of token ids to be fed to a model. Returned when `text` is not `None`.
- **attention_mask** -- List of indices specifying which tokens should be attended to by the model (when
`return_attention_mask=True` or if *"attention_mask"* is in `self.model_input_names` and if `text` is not
`None`).
- **pixel_values** -- Pixel values to be fed to a model. Returned when `images` is not `None`.
"""
if text is None and images is None:
raise ValueError("You have to specify either text or images. Both cannot be none.")
if text is not None:
encoding = self.tokenizer(text, return_tensors=return_tensors, **kwargs)
if images is not None:
image_features = self.image_processor(images, return_tensors=return_tensors, **kwargs)
if text is not None and images is not None:
encoding["pixel_values"] = image_features.pixel_values
return encoding
elif text is not None:
return encoding
else:
return BatchEncoding(data=dict(**image_features), tensor_type=return_tensors)
def batch_decode(self, *args, **kwargs):
"""
This method forwards all its arguments to VisionTextDualEncoderTokenizer's
[`~PreTrainedTokenizer.batch_decode`]. Please refer to the docstring of this method for more information.
"""
return self.tokenizer.batch_decode(*args, **kwargs)
def decode(self, *args, **kwargs):
"""
This method forwards all its arguments to VisionTextDualEncoderTokenizer's [`~PreTrainedTokenizer.decode`].
Please refer to the docstring of this method for more information.
"""
return self.tokenizer.decode(*args, **kwargs)
@property
def model_input_names(self):
tokenizer_input_names = self.tokenizer.model_input_names
image_processor_input_names = self.image_processor.model_input_names
return list(dict.fromkeys(tokenizer_input_names + image_processor_input_names))
@property
def feature_extractor_class(self):
warnings.warn(
"`feature_extractor_class` is deprecated and will be removed in v5. Use `image_processor_class` instead.",
FutureWarning,
)
return self.image_processor_class
@property
def feature_extractor(self):
warnings.warn(
"`feature_extractor` is deprecated and will be removed in v5. Use `image_processor` instead.",
FutureWarning,
)
return self.image_processor
| transformers-main | src/transformers/models/vision_text_dual_encoder/processing_vision_text_dual_encoder.py |
# coding=utf-8
# Copyright 2023 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""TensorFlow VisionTextDualEncoder model."""
from __future__ import annotations
import re
from typing import Optional, Tuple, Union
import tensorflow as tf
from tensorflow.keras.layers import Dense
from ...configuration_utils import PretrainedConfig
from ...modeling_tf_utils import TFPreTrainedModel, unpack_inputs
from ...tf_utils import shape_list
from ...utils import (
DUMMY_INPUTS,
add_start_docstrings,
add_start_docstrings_to_model_forward,
logging,
replace_return_docstrings,
)
from ..auto.configuration_auto import AutoConfig
from ..auto.modeling_tf_auto import TFAutoModel
from ..clip.modeling_tf_clip import CLIPVisionConfig, TFCLIPOutput, TFCLIPVisionModel
from .configuration_vision_text_dual_encoder import VisionTextDualEncoderConfig
logger = logging.get_logger(__name__)
_CONFIG_FOR_DOC = "VisionTextDualEncoderConfig"
VISION_TEXT_DUAL_ENCODER_START_DOCSTRING = r"""
This class can be used to initialize a vision-text dual encoder model with any pretrained vision autoencoding model
as the vision encoder and any pretrained text model as the text encoder. The vision and text encoders are loaded
via the [`~TFAutoModel.from_pretrained`] method. The projection layers are automatically added to the model and
should be fine-tuned on a downstream task, like contrastive image-text modeling.
In [LiT: Zero-Shot Transfer with Locked-image Text Tuning](https://arxiv.org/abs/2111.07991) it is shown how
leveraging pre-trained (locked/frozen) image and text model for contrastive learning yields significant improvment
on new zero-shot vision tasks such as image classification or retrieval.
After such a Vision-Text-Dual-Encoder model has been trained/fine-tuned, it can be saved/loaded just like any other
models (see the examples for more information).
This model inherits from [`TFPreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a Keras [Model](https://www.tensorflow.org/api_docs/python/tf/keras/Model) subclass. Use it as a
regular Keras Model and refer to the TF documentation for all matter related to general usage and behavior.
Parameters:
config ([`VisionEncoderDecoderConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~TFPreTrainedModel.from_pretrained`] method to load the model weights.
"""
VISION_TEXT_DUAL_ENCODER_TEXT_INPUTS_DOCSTRING = r"""
Args:
input_ids (`tf.Tensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you provide
it.
Indices can be obtained using [`PreTrainedTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`tf.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
position_ids (`tf.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Indices of positions of each input sequence tokens in the position embeddings. Selected in the range `[0,
config.max_position_embeddings - 1]`.
[What are position IDs?](../glossary#position-ids)
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
VISION_TEXT_DUAL_ENCODER_VISION_INPUTS_DOCSTRING = r"""
Args:
pixel_values (`tf.Tensor` of shape `(batch_size, num_channels, height, width)`):
Pixel values. Padding will be ignored by default should you provide it. Pixel values can be obtained using
[`AutoImageProcessor`]. See [`CLIPImageProcessor.__call__`] for details.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
VISION_TEXT_DUAL_ENCODER_INPUTS_DOCSTRING = r"""
Args:
input_ids (`tf.Tensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you provide
it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`tf.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
position_ids (`tf.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Indices of positions of each input sequence tokens in the position embeddings. Selected in the range `[0,
config.max_position_embeddings - 1]`.
[What are position IDs?](../glossary#position-ids)
pixel_values (`tf.Tensor` of shape `(batch_size, num_channels, height, width)`):
Pixel values. Padding will be ignored by default should you provide it. Pixel values can be obtained using
an image processor (e.g. if you use ViT as the encoder, you should use [`AutoImageProcessor`]). See
[`ViTImageProcessor.__call__`] for details.
return_loss (`bool`, *optional*):
Whether or not to return the contrastive loss.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
# Copied from transformers.models.clip.modeling_tf_clip.contrastive_loss
def contrastive_loss(logits: tf.Tensor) -> tf.Tensor:
return tf.math.reduce_mean(
tf.keras.metrics.sparse_categorical_crossentropy(
y_true=tf.range(shape_list(logits)[0]), y_pred=logits, from_logits=True
)
)
# Copied from transformers.models.clip.modeling_tf_clip.clip_loss
def clip_loss(similarity: tf.Tensor) -> tf.Tensor:
caption_loss = contrastive_loss(similarity)
image_loss = contrastive_loss(tf.transpose(similarity))
return (caption_loss + image_loss) / 2.0
@add_start_docstrings(VISION_TEXT_DUAL_ENCODER_START_DOCSTRING)
class TFVisionTextDualEncoderModel(TFPreTrainedModel):
config_class = VisionTextDualEncoderConfig
base_model_prefix = "vision_text_dual_encoder"
load_weight_prefix = "tf_vision_text_dual_encoder_model"
def __init__(
self,
config: Optional[VisionTextDualEncoderConfig] = None,
vision_model: Optional[TFPreTrainedModel] = None,
text_model: Optional[TFPreTrainedModel] = None,
):
if config is None and (vision_model is None or text_model is None):
raise ValueError("Either a configuration or an vision and a text model has to be provided")
if config is None:
config = VisionTextDualEncoderConfig.from_vision_text_configs(vision_model.config, text_model.config)
else:
if not isinstance(config, self.config_class):
raise ValueError(f"config: {config} has to be of type {self.config_class}")
# initialize with config
super().__init__(config)
if vision_model is None:
if isinstance(config.vision_config, CLIPVisionConfig):
vision_model = TFCLIPVisionModel.from_config(config.vision_config, name="vision_model")
else:
vision_model = TFAutoModel.from_config(config.vision_config, name="vision_model")
if text_model is None:
text_model = TFAutoModel.from_config(config.text_config, name="text_model")
self.vision_model = vision_model
self.text_model = text_model
# make sure that the individual model's config refers to the shared config
# so that the updates to the config will be synced
self.vision_model.config = self.config.vision_config
self.text_model.config = self.config.text_config
self.vision_embed_dim = config.vision_config.hidden_size
self.text_embed_dim = config.text_config.hidden_size
self.projection_dim = config.projection_dim
self.visual_projection = Dense(self.projection_dim, use_bias=False, name="visual_projection")
self.text_projection = Dense(self.projection_dim, use_bias=False, name="text_projection")
self.logit_scale = None
def build(self, input_shape=None):
# Build in the build() method to make sure the names are right
initializer = tf.keras.initializers.Constant(self.config.logit_scale_init_value)
self.logit_scale = self.add_weight(shape=(1,), initializer=initializer, name="logit_scale")
super().build(input_shape)
@classmethod
def from_pretrained(cls, pretrained_model_name_or_path, *model_args, **kwargs):
# Matt: The TF and PT weights don't align because our TF base classes have an extra layer compared to PT models
# (the main model stem is in the MainLayer class). If we remove that layer, then weight names sync up as normal.
# However, the name of that extra layer is the name of the MainLayer in the base model.
if kwargs.get("from_pt", False):
def tf_to_pt_weight_rename(tf_weight):
if "vision_model" in tf_weight:
if tf_weight.count("vision_model") == 1:
return re.sub(r"vision_model\..*?\.", "vision_model.", tf_weight)
elif tf_weight.count("vision_model") == 2:
return re.sub(r"vision_model\..*?\.vision_model", "vision_model.vision_model", tf_weight)
else:
raise ValueError(
f"Unexpected weight name {tf_weight}. Please file an issue on the"
" Transformers repo to let us know about this error!"
)
elif "text_model" in tf_weight:
return re.sub(r"text_model\..*?\.", "text_model.", tf_weight)
else:
return tf_weight
kwargs["tf_to_pt_weight_rename"] = tf_to_pt_weight_rename
return super().from_pretrained(pretrained_model_name_or_path, *model_args, **kwargs)
@add_start_docstrings_to_model_forward(VISION_TEXT_DUAL_ENCODER_TEXT_INPUTS_DOCSTRING)
def get_text_features(
self,
input_ids=None,
attention_mask=None,
position_ids=None,
token_type_ids=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
r"""
Returns:
text_features (`tf.Tensor` of shape `(batch_size, output_dim`): The text embeddings obtained by applying
the projection layer to the pooled output of [`TFCLIPTextModel`].
Examples:
```python
>>> from transformers import TFVisionTextDualEncoderModel, AutoTokenizer
>>> model = TFVisionTextDualEncoderModel.from_pretrained("clip-italian/clip-italian", from_pt=True)
>>> tokenizer = AutoTokenizer.from_pretrained("clip-italian/clip-italian")
>>> inputs = tokenizer(["una foto di un gatto", "una foto di un cane"], padding=True, return_tensors="np")
>>> text_features = model.get_text_features(**inputs)
```"""
text_outputs = self.text_model(
input_ids=input_ids,
attention_mask=attention_mask,
position_ids=position_ids,
token_type_ids=token_type_ids,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
pooled_output = text_outputs[1]
text_features = self.text_projection(pooled_output)
return text_features
@add_start_docstrings_to_model_forward(VISION_TEXT_DUAL_ENCODER_VISION_INPUTS_DOCSTRING)
def get_image_features(
self,
pixel_values=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
r"""
Returns:
image_features (`tf.Tensor` of shape `(batch_size, output_dim`): The image embeddings obtained by applying
the projection layer to the pooled output of [`TFCLIPVisionModel`].
Examples:
```python
>>> from PIL import Image
>>> import requests
>>> from transformers import TFVisionTextDualEncoderModel, AutoImageProcessor
>>> model = TFVisionTextDualEncoderModel.from_pretrained("clip-italian/clip-italian", from_pt=True)
>>> image_processor = AutoImageProcessor.from_pretrained("google/vit-base-patch16-224")
>>> url = "http://images.cocodataset.org/val2017/000000039769.jpg"
>>> image = Image.open(requests.get(url, stream=True).raw)
>>> inputs = image_processor(images=image, return_tensors="np")
>>> image_features = model.get_image_features(**inputs)
```"""
vision_outputs = self.vision_model(
pixel_values=pixel_values,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
pooled_output = vision_outputs[1] # pooled_output
image_features = self.visual_projection(pooled_output)
return image_features
@unpack_inputs
@add_start_docstrings_to_model_forward(VISION_TEXT_DUAL_ENCODER_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=TFCLIPOutput, config_class=_CONFIG_FOR_DOC)
def call(
self,
input_ids: tf.Tensor | None = None,
pixel_values: tf.Tensor | None = None,
attention_mask: tf.Tensor | None = None,
position_ids: tf.Tensor | None = None,
return_loss: Optional[bool] = None,
token_type_ids: tf.Tensor | None = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
training: bool = False,
) -> Union[Tuple[tf.Tensor], TFCLIPOutput]:
r"""
Returns:
Examples:
```python
>>> from PIL import Image
>>> import requests
>>> from transformers import (
... TFVisionTextDualEncoderModel,
... VisionTextDualEncoderProcessor,
... AutoImageProcessor,
... AutoTokenizer,
... )
>>> tokenizer = AutoTokenizer.from_pretrained("bert-base-uncased")
>>> image_processor = AutoImageProcessor.from_pretrained("google/vit-base-patch16-224")
>>> processor = VisionTextDualEncoderProcessor(image_processor, tokenizer)
>>> model = TFVisionTextDualEncoderModel.from_vision_text_pretrained(
... "google/vit-base-patch16-224", "bert-base-uncased"
... )
>>> # contrastive training
>>> urls = [
... "http://images.cocodataset.org/val2017/000000039769.jpg",
... "https://farm3.staticflickr.com/2674/5850229113_4fe05d5265_z.jpg",
... ]
>>> images = [Image.open(requests.get(url, stream=True).raw) for url in urls]
>>> inputs = processor(
... text=["a photo of a cat", "a photo of a dog"], images=images, return_tensors="np", padding=True
... )
>>> outputs = model(
... input_ids=inputs.input_ids,
... attention_mask=inputs.attention_mask,
... pixel_values=inputs.pixel_values,
... return_loss=True,
... )
>>> loss, logits_per_image = outputs.loss, outputs.logits_per_image # this is the image-text similarity score
>>> # save and load from pretrained
>>> model.save_pretrained("vit-bert")
>>> model = TFVisionTextDualEncoderModel.from_pretrained("vit-bert")
>>> # inference
>>> outputs = model(**inputs)
>>> logits_per_image = outputs.logits_per_image # this is the image-text similarity score
>>> probs = tf.nn.softmax(logits_per_image, axis=1) # we can take the softmax to get the label probabilities
```"""
return_dict = return_dict if return_dict is not None else self.config.return_dict
vision_outputs = self.vision_model(
pixel_values=pixel_values,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
training=training,
)
text_outputs = self.text_model(
input_ids=input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
training=training,
)
image_embeds = vision_outputs[1] # pooler_output
image_embeds = self.visual_projection(image_embeds)
text_embeds = text_outputs[1] # pooler_output
text_embeds = self.text_projection(text_embeds)
# normalized features
image_embeds = image_embeds / tf.norm(image_embeds, axis=-1, keepdims=True)
text_embeds = text_embeds / tf.norm(text_embeds, axis=-1, keepdims=True)
# cosine similarity as logits
logit_scale = tf.math.exp(self.logit_scale)
logits_per_text = tf.matmul(text_embeds, image_embeds, transpose_b=True) * logit_scale
logits_per_image = tf.transpose(logits_per_text)
loss = None
if return_loss:
loss = clip_loss(logits_per_text)
if loss.shape.rank == 0:
loss = tf.expand_dims(loss, 0)
if not return_dict:
output = (logits_per_image, logits_per_text, text_embeds, image_embeds, text_outputs, vision_outputs)
return ((loss,) + output) if loss is not None else output
return TFCLIPOutput(
loss=loss,
logits_per_image=logits_per_image,
logits_per_text=logits_per_text,
text_embeds=text_embeds,
image_embeds=image_embeds,
text_model_output=text_outputs,
vision_model_output=vision_outputs,
)
@classmethod
def from_vision_text_pretrained(
cls,
vision_model_name_or_path: str = None,
text_model_name_or_path: str = None,
*model_args,
**kwargs,
) -> TFPreTrainedModel:
"""
Params:
vision_model_name_or_path (`str`, *optional*, defaults to `None`):
Information necessary to initiate the vision model. Can be either:
- A string, the *model id* of a pretrained model hosted inside a model repo on huggingface.co.
Valid model ids can be located at the root-level, like `bert-base-uncased`, or namespaced under a
user or organization name, like `dbmdz/bert-base-german-cased`.
- A path to a *directory* containing model weights saved using
[`~TFPreTrainedModel.save_pretrained`], e.g., `./my_model_directory/`.
- A path or url to a *PyTorch checkpoint folder* (e.g, `./pt_model`). In this case, `from_pt`
should be set to `True` and a configuration object should be provided as `config` argument.
text_model_name_or_path (`str`, *optional*):
Information necessary to initiate the text model. Can be either:
- A string, the *model id* of a pretrained model hosted inside a model repo on huggingface.co.
Valid model ids can be located at the root-level, like `bert-base-uncased`, or namespaced under a
user or organization name, like `dbmdz/bert-base-german-cased`.
- A path to a *directory* containing model weights saved using
[`~TFPreTrainedModel.save_pretrained`], e.g., `./my_model_directory/`.
- A path or url to a *PyTorch checkpoint folder* (e.g, `./pt_model`). In this case, `from_pt`
should be set to `True` and a configuration object should be provided as `config` argument.
model_args (remaining positional arguments, *optional*):
All remaning positional arguments will be passed to the underlying model's `__init__` method.
kwargs (remaining dictionary of keyword arguments, *optional*):
Can be used to update the configuration object (after it being loaded) and initiate the model (e.g.,
`output_attentions=True`).
- To update the text configuration, use the prefix *text_* for each configuration parameter.
- To update the vision configuration, use the prefix *vision_* for each configuration parameter.
- To update the parent model configuration, do not use a prefix for each configuration parameter.
Behaves differently depending on whether a `config` is provided or automatically loaded.
Example:
```python
>>> from transformers import TFVisionTextDualEncoderModel
>>> # initialize a model from pretrained ViT and BERT models. Note that the projection layers will be randomly initialized.
>>> model = TFVisionTextDualEncoderModel.from_vision_text_pretrained(
... "google/vit-base-patch16-224", "bert-base-uncased"
... )
>>> # saving model after fine-tuning
>>> model.save_pretrained("./vit-bert")
>>> # load fine-tuned model
>>> model = TFVisionTextDualEncoderModel.from_pretrained("./vit-bert")
```"""
kwargs_vision = {
argument[len("vision_") :]: value for argument, value in kwargs.items() if argument.startswith("vision_")
}
kwargs_text = {
argument[len("text_") :]: value for argument, value in kwargs.items() if argument.startswith("text_")
}
# remove vision, text kwargs from kwargs
for key in kwargs_vision.keys():
del kwargs["vision_" + key]
for key in kwargs_text.keys():
del kwargs["text_" + key]
# Load and initialize the vision and text model
vision_model = kwargs_vision.pop("model", None)
if vision_model is None:
if vision_model_name_or_path is None:
raise ValueError(
"If `vision_model` is not defined as an argument, a `vision_model_name_or_path` has to be defined"
)
kwargs_vision["name"] = "vision_model"
kwargs_vision["load_weight_prefix"] = cls.load_weight_prefix
vision_config_dict, unused_args = PretrainedConfig.get_config_dict(vision_model_name_or_path, **kwargs)
if vision_config_dict.get("model_type", None) == "clip_vision_model":
vision_config = CLIPVisionConfig.from_dict(vision_config_dict)
else:
vision_config = AutoConfig.from_pretrained(vision_model_name_or_path)
if vision_config.model_type == "clip_vision_model":
kwargs_vision["config"] = vision_config
vision_class = TFCLIPVisionModel
elif vision_config.model_type == "clip":
kwargs_vision["config"] = vision_config.vision_config
vision_class = TFCLIPVisionModel
else:
kwargs_vision["config"] = vision_config
vision_class = TFAutoModel
vision_model = vision_class.from_pretrained(vision_model_name_or_path, *model_args, **kwargs_vision)
text_model = kwargs_text.pop("model", None)
if text_model is None:
if text_model_name_or_path is None:
raise ValueError(
"If `text_model` is not defined as an argument, a `text_model_name_or_path` has to be defined"
)
kwargs_text["name"] = "text_model"
kwargs_text["load_weight_prefix"] = cls.load_weight_prefix
if "config" not in kwargs_text:
text_config = AutoConfig.from_pretrained(text_model_name_or_path)
kwargs_text["config"] = text_config
text_model = TFAutoModel.from_pretrained(text_model_name_or_path, *model_args, **kwargs_text)
# instantiate config with corresponding kwargs
config = VisionTextDualEncoderConfig.from_vision_text_configs(vision_model.config, text_model.config, **kwargs)
# init model
model = cls(config=config, vision_model=vision_model, text_model=text_model)
# the projection layers are always newly initialized when loading the model
# using pre-trained vision and text model.
logger.warning(
"The projection layer and logit scale weights `['visual_projection.weight', 'text_projection.weight',"
" 'logit_scale']` are newly initialized. You should probably TRAIN this model on a down-stream task to be"
" able to use it for predictions and inference."
)
if vision_model.name != "vision_model":
raise ValueError("vision model must be created with the name `vision_model`.")
if text_model.name != "text_model":
raise ValueError("text model must be created with the name `text_model`.")
model.build() # Ensure model is fully built
return model
@property
def dummy_inputs(self):
"""
Dummy inputs to build the network.
Returns:
`Dict[str, tf.Tensor]`: The dummy inputs.
"""
input_ids = tf.constant(DUMMY_INPUTS, dtype=tf.int32)
batch_size, seq_len = input_ids.shape
VISION_DUMMY_INPUTS = tf.random.uniform(
shape=(
batch_size,
self.config.vision_config.num_channels,
self.config.vision_config.image_size,
self.config.vision_config.image_size,
),
dtype=tf.float32,
)
pixel_values = tf.constant(VISION_DUMMY_INPUTS)
dummy = {"pixel_values": pixel_values, "input_ids": input_ids}
return dummy
| transformers-main | src/transformers/models/vision_text_dual_encoder/modeling_tf_vision_text_dual_encoder.py |
# Copyright 2021 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import (
OptionalDependencyNotAvailable,
_LazyModule,
is_flax_available,
is_tf_available,
is_torch_available,
)
_import_structure = {
"configuration_vision_text_dual_encoder": ["VisionTextDualEncoderConfig"],
"processing_vision_text_dual_encoder": ["VisionTextDualEncoderProcessor"],
}
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_vision_text_dual_encoder"] = ["VisionTextDualEncoderModel"]
try:
if not is_flax_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_flax_vision_text_dual_encoder"] = ["FlaxVisionTextDualEncoderModel"]
try:
if not is_tf_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_tf_vision_text_dual_encoder"] = ["TFVisionTextDualEncoderModel"]
if TYPE_CHECKING:
from .configuration_vision_text_dual_encoder import VisionTextDualEncoderConfig
from .processing_vision_text_dual_encoder import VisionTextDualEncoderProcessor
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_vision_text_dual_encoder import VisionTextDualEncoderModel
try:
if not is_flax_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_flax_vision_text_dual_encoder import FlaxVisionTextDualEncoderModel
try:
if not is_tf_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_tf_vision_text_dual_encoder import TFVisionTextDualEncoderModel
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure)
| transformers-main | src/transformers/models/vision_text_dual_encoder/__init__.py |
# coding=utf-8
# Copyright 2021 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" Flax VisionTextDualEncoder model."""
from typing import Optional, Tuple
import flax.linen as nn
import jax
import jax.numpy as jnp
from flax.core.frozen_dict import FrozenDict, freeze, unfreeze
from flax.traverse_util import flatten_dict, unflatten_dict
from ...modeling_flax_utils import FlaxPreTrainedModel, append_replace_return_docstrings, overwrite_call_docstring
from ...utils import add_start_docstrings, logging
from ..auto.configuration_auto import AutoConfig
from ..auto.modeling_flax_auto import FLAX_MODEL_MAPPING, FlaxAutoModel
from ..clip.modeling_flax_clip import FlaxCLIPOutput, FlaxCLIPVisionModel
from .configuration_vision_text_dual_encoder import VisionTextDualEncoderConfig
logger = logging.get_logger(__name__)
_CONFIG_FOR_DOC = "VisionTextDualEncoderConfig"
VISION_TEXT_DUAL_ENCODER_START_DOCSTRING = r"""
This class can be used to initialize a vision-text dual encoder model with any pretrained vision autoencoding model
as the vision encoder and any pretrained text model as the text encoder. The vision and text encoders are loaded
via the [`~FlaxAutoModel.from_pretrained`] method. The projection layers are automatically added to the model and
should be fine-tuned on a downstream task, like contrastive image-text modeling.
In [LiT: Zero-Shot Transfer with Locked-image Text Tuning](https://arxiv.org/abs/2111.07991) it is shown how
leveraging pre-trained (locked/frozen) image and text model for contrastive learning yields significant improvment
on new zero-shot vision tasks such as image classification or retrieval.
After such a Vision-Text-Dual-Encoder model has been trained/fine-tuned, it can be saved/loaded just like any other
models (see the examples for more information).
This model inherits from [`PreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a Flax Linen [flax.linen.Module](https://flax.readthedocs.io/en/latest/flax.linen.html#module)
subclass. Use it as a regular Flax linen Module and refer to the Flax documentation for all matter related to
general usage and behavior.
Finally, this model supports inherent JAX features such as:
- [Just-In-Time (JIT) compilation](https://jax.readthedocs.io/en/latest/jax.html#just-in-time-compilation-jit)
- [Automatic Differentiation](https://jax.readthedocs.io/en/latest/jax.html#automatic-differentiation)
- [Vectorization](https://jax.readthedocs.io/en/latest/jax.html#vectorization-vmap)
- [Parallelization](https://jax.readthedocs.io/en/latest/jax.html#parallelization-pmap)
Parameters:
config ([`VisionTextDualEncoderConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~FlaxPreTrainedModel.from_pretrained`] method to load the model weights.
dtype (`jax.numpy.dtype`, *optional*, defaults to `jax.numpy.float32`):
The data type of the computation. Can be one of `jax.numpy.float32`, `jax.numpy.float16` (on GPUs) and
`jax.numpy.bfloat16` (on TPUs).
This can be used to enable mixed-precision training or half-precision inference on GPUs or TPUs. If
specified all the computation will be performed with the given `dtype`.
**Note that this only specifies the dtype of the computation and does not influence the dtype of model
parameters.**
If you wish to change the dtype of the model parameters, see [`~FlaxPreTrainedModel.to_fp16`] and
[`~FlaxPreTrainedModel.to_bf16`].
"""
VISION_TEXT_DUAL_ENCODER_INPUTS_DOCSTRING = r"""
Args:
input_ids (`numpy.ndarray` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you provide
it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
position_ids (`numpy.ndarray` of shape `(batch_size, sequence_length)`, *optional*):
Indices of positions of each input sequence tokens in the position embeddings. Selected in the range `[0,
config.max_position_embeddings - 1]`.
[What are position IDs?](../glossary#position-ids)
pixel_values (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Pixel values. Padding will be ignored by default should you provide it. Pixel values can be obtained using
an image processor (e.g. if you use ViT as the encoder, you should use [`AutoImageProcessor`]). See
[`ViTImageProcessor.__call__`] for details.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
class FlaxVisionTextDualEncoderModule(nn.Module):
config: VisionTextDualEncoderConfig
dtype: jnp.dtype = jnp.float32
def setup(self):
vision_config = self.config.vision_config
text_config = self.config.text_config
self.vision_embed_dim = vision_config.hidden_size
self.text_embed_dim = text_config.hidden_size
self.projection_dim = self.config.projection_dim
vision_module = FLAX_MODEL_MAPPING.get(self.config.vision_config.__class__, FlaxCLIPVisionModel).module_class
text_module = FLAX_MODEL_MAPPING[self.config.text_config.__class__].module_class
self.vision_model = vision_module(vision_config, dtype=self.dtype)
self.text_model = text_module(text_config, dtype=self.dtype)
self.visual_projection = nn.Dense(
self.projection_dim,
dtype=self.dtype,
kernel_init=jax.nn.initializers.normal(0.02),
use_bias=False,
)
self.text_projection = nn.Dense(
self.projection_dim,
dtype=self.dtype,
kernel_init=jax.nn.initializers.normal(0.02),
use_bias=False,
)
self.logit_scale = self.param(
"logit_scale", lambda _, shape: jnp.ones(shape) * self.config.logit_scale_init_value, []
)
def __call__(
self,
input_ids=None,
pixel_values=None,
attention_mask=None,
position_ids=None,
token_type_ids=None,
deterministic: bool = True,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
return_dict = return_dict if return_dict is not None else self.config.return_dict
vision_outputs = self.vision_model(
pixel_values=pixel_values,
deterministic=deterministic,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
text_outputs = self.text_model(
input_ids=input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
deterministic=deterministic,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
image_embeds = vision_outputs[1]
image_embeds = self.visual_projection(image_embeds)
text_embeds = text_outputs[1]
text_embeds = self.text_projection(text_embeds)
# normalized features
image_embeds = image_embeds / jnp.linalg.norm(image_embeds, axis=-1, keepdims=True)
text_embeds = text_embeds / jnp.linalg.norm(text_embeds, axis=-1, keepdims=True)
# cosine similarity as logits
logit_scale = jnp.exp(self.logit_scale)
logits_per_text = jnp.matmul(text_embeds, image_embeds.T) * logit_scale
logits_per_image = logits_per_text.T
if not return_dict:
return (logits_per_image, logits_per_text, text_embeds, image_embeds, text_outputs, vision_outputs)
return FlaxCLIPOutput(
logits_per_image=logits_per_image,
logits_per_text=logits_per_text,
text_embeds=text_embeds,
image_embeds=image_embeds,
text_model_output=text_outputs,
vision_model_output=vision_outputs,
)
@add_start_docstrings(VISION_TEXT_DUAL_ENCODER_START_DOCSTRING)
class FlaxVisionTextDualEncoderModel(FlaxPreTrainedModel):
config_class = VisionTextDualEncoderConfig
module_class = FlaxVisionTextDualEncoderModule
def __init__(
self,
config: VisionTextDualEncoderConfig,
input_shape: Optional[Tuple] = None,
seed: int = 0,
dtype: jnp.dtype = jnp.float32,
_do_init: bool = True,
**kwargs,
):
if not _do_init:
raise ValueError(
"`FlaxVisionTextDualEncoderModel` cannot be created without initializing, `_do_init` must be `True`."
)
if input_shape is None:
input_shape = ((1, 1), (1, config.vision_config.image_size, config.vision_config.image_size, 3))
module = self.module_class(config=config, dtype=dtype, **kwargs)
super().__init__(config, module, input_shape=input_shape, seed=seed, dtype=dtype)
def init_weights(self, rng: jax.random.PRNGKey, input_shape: Tuple, params: FrozenDict = None) -> FrozenDict:
# init input tensor
input_ids = jnp.zeros(input_shape[0], dtype="i4")
position_ids = jnp.broadcast_to(jnp.arange(jnp.atleast_2d(input_ids).shape[-1]), input_shape[0])
token_type_ids = jnp.ones_like(input_ids)
attention_mask = jnp.ones_like(input_ids)
pixel_values = jax.random.normal(rng, input_shape[1])
params_rng, dropout_rng = jax.random.split(rng)
rngs = {"params": params_rng, "dropout": dropout_rng}
random_params = self.module.init(rngs, input_ids, pixel_values, attention_mask, position_ids, token_type_ids)[
"params"
]
if params is not None:
random_params = flatten_dict(unfreeze(random_params))
params = flatten_dict(unfreeze(params))
for missing_key in self._missing_keys:
params[missing_key] = random_params[missing_key]
self._missing_keys = set()
return freeze(unflatten_dict(params))
else:
return random_params
def __call__(
self,
input_ids,
pixel_values,
attention_mask=None,
position_ids=None,
token_type_ids=None,
params: dict = None,
dropout_rng: jax.random.PRNGKey = None,
train: bool = False,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
):
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.return_dict
pixel_values = jnp.transpose(pixel_values, (0, 2, 3, 1))
if position_ids is None:
position_ids = jnp.broadcast_to(jnp.arange(jnp.atleast_2d(input_ids).shape[-1]), input_ids.shape)
if token_type_ids is None:
token_type_ids = jnp.zeros_like(input_ids)
if attention_mask is None:
attention_mask = jnp.ones_like(input_ids)
# Handle any PRNG if needed
rngs = {}
if dropout_rng is not None:
rngs["dropout"] = dropout_rng
return self.module.apply(
{"params": params or self.params},
jnp.array(input_ids, dtype="i4"),
jnp.array(pixel_values, dtype=jnp.float32),
jnp.array(attention_mask, dtype="i4"),
jnp.array(position_ids, dtype="i4"),
jnp.array(token_type_ids, dtype="i4"),
not train,
output_attentions,
output_hidden_states,
return_dict,
rngs=rngs,
)
def get_text_features(
self,
input_ids,
attention_mask=None,
position_ids=None,
token_type_ids=None,
params: dict = None,
dropout_rng: jax.random.PRNGKey = None,
train=False,
):
r"""
Args:
input_ids (`numpy.ndarray` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you
provide it.
Indices can be obtained using [`PreTrainedTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
Returns:
text_features (`jnp.ndarray` of shape `(batch_size, output_dim`): The text embeddings obtained by applying
the projection layer to the pooled output of text model.
"""
if position_ids is None:
position_ids = jnp.broadcast_to(jnp.arange(jnp.atleast_2d(input_ids).shape[-1]), input_ids.shape)
if token_type_ids is None:
token_type_ids = jnp.zeros_like(input_ids)
if attention_mask is None:
attention_mask = jnp.ones_like(input_ids)
# Handle any PRNG if needed
rngs = {}
if dropout_rng is not None:
rngs["dropout"] = dropout_rng
def _get_features(module, input_ids, attention_mask, position_ids, token_type_ids, deterministic):
text_outputs = module.text_model(
input_ids=input_ids,
attention_mask=attention_mask,
position_ids=position_ids,
token_type_ids=token_type_ids,
deterministic=deterministic,
)
pooled_output = text_outputs[1]
text_features = module.text_projection(pooled_output)
return text_features
return self.module.apply(
{"params": params or self.params},
jnp.array(input_ids, dtype="i4"),
jnp.array(attention_mask, dtype="i4"),
jnp.array(position_ids, dtype="i4"),
jnp.array(token_type_ids, dtype="i4"),
not train,
method=_get_features,
rngs=rngs,
)
def get_image_features(
self, pixel_values, params: dict = None, dropout_rng: jax.random.PRNGKey = None, train=False
):
r"""
Args:
pixel_values (`numpy.ndarray` of shape `(batch_size, num_channels, height, width)`):
Pixel values. Padding will be ignored by default should you provide it. Pixel values can be obtained
using [`ImageFeatureExtractionMixin`]. See [`ImageFeatureExtractionMixin.__call__`] for details.
Returns:
image_features (`jnp.ndarray` of shape `(batch_size, output_dim`): The image embeddings obtained by
applying the projection layer to the pooled output of vision model.
"""
# Handle any PRNG if needed
rngs = {}
if dropout_rng is not None:
rngs["dropout"] = dropout_rng
def _get_features(module, pixel_values, deterministic):
vision_outputs = module.vision_model(pixel_values=pixel_values, deterministic=deterministic)
pooled_output = vision_outputs[1] # pooled_output
image_features = module.visual_projection(pooled_output)
return image_features
return self.module.apply(
{"params": params or self.params},
jnp.array(pixel_values, dtype=jnp.float32),
not train,
method=_get_features,
rngs=rngs,
)
@classmethod
def from_vision_text_pretrained(
cls,
vision_model_name_or_path: str = None,
text_model_name_or_path: str = None,
*model_args,
**kwargs,
) -> FlaxPreTrainedModel:
"""
Params:
vision_model_name_or_path (`str`, *optional*, defaults to `None`):
Information necessary to initiate the vision model. Can be either:
- A string, the *model id* of a pretrained model hosted inside a model repo on huggingface.co.
Valid model ids can be located at the root-level, like `bert-base-uncased`, or namespaced under a
user or organization name, like `dbmdz/bert-base-german-cased`.
- A path to a *directory* containing model weights saved using
[`~FlaxPreTrainedModel.save_pretrained`], e.g., `./my_model_directory/`.
- A path or url to a *PyTorch checkpoint folder* (e.g, `./pt_model`). In this case, `from_pt`
should be set to `True` and a configuration object should be provided as `config` argument. This
loading path is slower than converting the PyTorch checkpoint in a Flax model using the provided
conversion scripts and loading the Flax model afterwards.
text_model_name_or_path (`str`, *optional*):
Information necessary to initiate the text model. Can be either:
- A string, the *model id* of a pretrained model hosted inside a model repo on huggingface.co.
Valid model ids can be located at the root-level, like `bert-base-uncased`, or namespaced under a
user or organization name, like `dbmdz/bert-base-german-cased`.
- A path to a *directory* containing model weights saved using
[`~FlaxPreTrainedModel.save_pretrained`], e.g., `./my_model_directory/`.
- A path or url to a *PyTorch checkpoint folder* (e.g, `./pt_model`). In this case, `from_pt`
should be set to `True` and a configuration object should be provided as `config` argument. This
loading path is slower than converting the PyTorch checkpoint in a Flax model using the provided
conversion scripts and loading the Flax model afterwards.
model_args (remaining positional arguments, *optional*):
All remaning positional arguments will be passed to the underlying model's `__init__` method.
kwargs (remaining dictionary of keyword arguments, *optional*):
Can be used to update the configuration object (after it being loaded) and initiate the model (e.g.,
`output_attentions=True`).
- To update the text configuration, use the prefix *text_* for each configuration parameter.
- To update the vision configuration, use the prefix *vision_* for each configuration parameter.
- To update the parent model configuration, do not use a prefix for each configuration parameter.
Behaves differently depending on whether a `config` is provided or automatically loaded.
Example:
```python
>>> from transformers import FlaxVisionTextDualEncoderModel
>>> # initialize a model from pretrained ViT and BERT models. Note that the projection layers will be randomly initialized.
>>> model = FlaxVisionTextDualEncoderModel.from_vision_text_pretrained(
... "google/vit-base-patch16-224", "bert-base-uncased"
... )
>>> # saving model after fine-tuning
>>> model.save_pretrained("./vit-bert")
>>> # load fine-tuned model
>>> model = FlaxVisionTextDualEncoderModel.from_pretrained("./vit-bert")
```"""
kwargs_vision = {
argument[len("vision_") :]: value for argument, value in kwargs.items() if argument.startswith("vision_")
}
kwargs_text = {
argument[len("text_") :]: value for argument, value in kwargs.items() if argument.startswith("text_")
}
# remove text, vision kwargs from kwargs
for key in kwargs_vision.keys():
del kwargs["vision_" + key]
for key in kwargs_text.keys():
del kwargs["text_" + key]
# Load and initialize the text and vision model
vision_model = kwargs_vision.pop("model", None)
if vision_model is None:
if vision_model_name_or_path is None:
raise ValueError(
"If `vision_model` is not defined as an argument, a `vision_model_name_or_path` has to be defined"
)
if "config" not in kwargs_vision:
vision_config = AutoConfig.from_pretrained(vision_model_name_or_path)
if vision_config.model_type == "clip":
kwargs_vision["config"] = vision_config.vision_config
vision_model = FlaxCLIPVisionModel.from_pretrained(
vision_model_name_or_path, *model_args, **kwargs_vision
)
else:
kwargs_vision["config"] = vision_config
vision_model = FlaxAutoModel.from_pretrained(vision_model_name_or_path, *model_args, **kwargs_vision)
text_model = kwargs_text.pop("model", None)
if text_model is None:
if text_model_name_or_path is None:
raise ValueError(
"If `text_model` is not defined as an argument, a `text_model_name_or_path` has to be defined"
)
if "config" not in kwargs_text:
text_config = AutoConfig.from_pretrained(text_model_name_or_path)
kwargs_text["config"] = text_config
text_model = FlaxAutoModel.from_pretrained(text_model_name_or_path, *model_args, **kwargs_text)
# instantiate config with corresponding kwargs
dtype = kwargs.pop("dtype", jnp.float32)
config = VisionTextDualEncoderConfig.from_vision_text_configs(vision_model.config, text_model.config, **kwargs)
# init model
model = cls(config, *model_args, dtype=dtype, **kwargs)
model.params["vision_model"] = vision_model.params
model.params["text_model"] = text_model.params
# the projection layers are always newly initialized when loading the model
# using pre-trained vision and text model.
logger.warning(
"The projection layer and logit scale weights `[('visual_projection', 'kernel'), ('text_projection',"
" 'kernel'), ('logit_scale',)]` are newly initialized. You should probably TRAIN this model on a"
" down-stream task to be able to use it for predictions and inference."
)
return model
VISION_TEXT_DUAL_ENCODER_MODEL_DOCSTRING = r"""
Returns:
Examples:
```python
>>> from PIL import Image
>>> import requests
>>> import jax
>>> from transformers import (
... FlaxVisionTextDualEncoderModel,
... VisionTextDualEncoderProcessor,
... AutoImageProcessor,
... AutoTokenizer,
... )
>>> tokenizer = AutoTokenizer.from_pretrained("bert-base-uncased")
>>> image_processor = AutoImageProcesor.from_pretrained("google/vit-base-patch16-224")
>>> processor = VisionTextDualEncoderProcessor(image_processor, tokenizer)
>>> model = FlaxVisionTextDualEncoderModel.from_vision_text_pretrained(
... "google/vit-base-patch16-224", "bert-base-uncased"
... )
>>> # contrastive training
>>> urls = [
... "http://images.cocodataset.org/val2017/000000039769.jpg",
... "https://farm3.staticflickr.com/2674/5850229113_4fe05d5265_z.jpg",
... ]
>>> images = [Image.open(requests.get(url, stream=True).raw) for url in urls]
>>> inputs = processor(
... text=["a photo of a cat", "a photo of a dog"], images=images, return_tensors="np", padding=True
... )
>>> outputs = model(
... input_ids=inputs.input_ids,
... attention_mask=inputs.attention_mask,
... pixel_values=inputs.pixel_values,
... )
>>> logits_per_image = outputs.logits_per_image # this is the image-text similarity score
>>> # save and load from pretrained
>>> model.save_pretrained("vit-bert")
>>> model = FlaxVisionTextDualEncoderModel.from_pretrained("vit-bert")
>>> # inference
>>> outputs = model(**inputs)
>>> logits_per_image = outputs.logits_per_image # this is the image-text similarity score
>>> probs = jax.nn.softmax(logits_per_image, axis=1) # we can take the softmax to get the label probabilities
```
"""
overwrite_call_docstring(
FlaxVisionTextDualEncoderModel,
VISION_TEXT_DUAL_ENCODER_INPUTS_DOCSTRING + VISION_TEXT_DUAL_ENCODER_MODEL_DOCSTRING,
)
append_replace_return_docstrings(
FlaxVisionTextDualEncoderModel, output_type=FlaxCLIPOutput, config_class=_CONFIG_FOR_DOC
)
| transformers-main | src/transformers/models/vision_text_dual_encoder/modeling_flax_vision_text_dual_encoder.py |
# coding=utf-8
# Copyright The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" VisionTextDualEncoder model configuration"""
from ...configuration_utils import PretrainedConfig
from ...utils import logging
from ..auto.configuration_auto import AutoConfig
from ..clip.configuration_clip import CLIPVisionConfig
logger = logging.get_logger(__name__)
class VisionTextDualEncoderConfig(PretrainedConfig):
r"""
[`VisionTextDualEncoderConfig`] is the configuration class to store the configuration of a
[`VisionTextDualEncoderModel`]. It is used to instantiate [`VisionTextDualEncoderModel`] model according to the
specified arguments, defining the text model and vision model configs.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
text_config (`dict`):
Dictionary of configuration options that defines text model config.
vision_config (`dict`):
Dictionary of configuration options that defines vison model config.
projection_dim (`int`, *optional*, defaults to 512):
Dimentionality of text and vision projection layers.
logit_scale_init_value (`float`, *optional*, defaults to 2.6592):
The inital value of the *logit_scale* paramter. Default is used as per the original CLIP implementation.
kwargs (*optional*):
Dictionary of keyword arguments.
Examples:
```python
>>> from transformers import ViTConfig, BertConfig, VisionTextDualEncoderConfig, VisionTextDualEncoderModel
>>> # Initializing a BERT and ViT configuration
>>> config_vision = ViTConfig()
>>> config_text = BertConfig()
>>> config = VisionTextDualEncoderConfig.from_vision_text_configs(config_vision, config_text, projection_dim=512)
>>> # Initializing a BERT and ViT model (with random weights)
>>> model = VisionTextDualEncoderModel(config=config)
>>> # Accessing the model configuration
>>> config_vision = model.config.vision_config
>>> config_text = model.config.text_config
>>> # Saving the model, including its configuration
>>> model.save_pretrained("vit-bert")
>>> # loading model and config from pretrained folder
>>> vision_text_config = VisionTextDualEncoderConfig.from_pretrained("vit-bert")
>>> model = VisionTextDualEncoderModel.from_pretrained("vit-bert", config=vision_text_config)
```"""
model_type = "vision-text-dual-encoder"
is_composition = True
def __init__(self, projection_dim=512, logit_scale_init_value=2.6592, **kwargs):
super().__init__(**kwargs)
if "vision_config" not in kwargs:
raise ValueError("`vision_config` can not be `None`.")
if "text_config" not in kwargs:
raise ValueError("`text_config` can not be `None`.")
vision_config = kwargs.pop("vision_config")
text_config = kwargs.pop("text_config")
vision_model_type = vision_config.pop("model_type")
text_model_type = text_config.pop("model_type")
if vision_model_type == "clip":
self.vision_config = AutoConfig.for_model(vision_model_type, **vision_config).vision_config
elif vision_model_type == "clip_vision_model":
self.vision_config = CLIPVisionConfig(**vision_config)
else:
self.vision_config = AutoConfig.for_model(vision_model_type, **vision_config)
self.text_config = AutoConfig.for_model(text_model_type, **text_config)
self.projection_dim = projection_dim
self.logit_scale_init_value = logit_scale_init_value
@classmethod
def from_vision_text_configs(cls, vision_config: PretrainedConfig, text_config: PretrainedConfig, **kwargs):
r"""
Instantiate a [`VisionTextDualEncoderConfig`] (or a derived class) from text model configuration and vision
model configuration.
Returns:
[`VisionTextDualEncoderConfig`]: An instance of a configuration object
"""
return cls(vision_config=vision_config.to_dict(), text_config=text_config.to_dict(), **kwargs)
| transformers-main | src/transformers/models/vision_text_dual_encoder/configuration_vision_text_dual_encoder.py |
# coding=utf-8
# Copyright 2021 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch VisionTextDualEncoder model."""
from typing import Optional, Tuple, Union
import torch
from torch import nn
from ...modeling_utils import PreTrainedModel
from ...utils import add_start_docstrings, add_start_docstrings_to_model_forward, logging, replace_return_docstrings
from ..auto.configuration_auto import AutoConfig
from ..auto.modeling_auto import AutoModel
from ..clip.modeling_clip import CLIPOutput, CLIPVisionConfig, CLIPVisionModel
from .configuration_vision_text_dual_encoder import VisionTextDualEncoderConfig
logger = logging.get_logger(__name__)
_CONFIG_FOR_DOC = "VisionTextDualEncoderConfig"
VISION_TEXT_DUAL_ENCODER_START_DOCSTRING = r"""
This class can be used to initialize a vision-text dual encoder model with any pretrained vision autoencoding model
as the vision encoder and any pretrained text model as the text encoder. The vision and text encoders are loaded
via the [`~AutoModel.from_pretrained`] method. The projection layers are automatically added to the model and
should be fine-tuned on a downstream task, like contrastive image-text modeling.
In [LiT: Zero-Shot Transfer with Locked-image Text Tuning](https://arxiv.org/abs/2111.07991) it is shown how
leveraging pre-trained (locked/frozen) image and text model for contrastive learning yields significant improvment
on new zero-shot vision tasks such as image classification or retrieval.
After such a Vision-Text-Dual-Encoder model has been trained/fine-tuned, it can be saved/loaded just like any other
models (see the examples for more information).
This model inherits from [`PreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) subclass.
Use it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage
and behavior.
Parameters:
config ([`VisionEncoderDecoderConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
VISION_TEXT_DUAL_ENCODER_TEXT_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you provide
it.
Indices can be obtained using [`PreTrainedTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
position_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Indices of positions of each input sequence tokens in the position embeddings. Selected in the range `[0,
config.max_position_embeddings - 1]`.
[What are position IDs?](../glossary#position-ids)
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
VISION_TEXT_DUAL_ENCODER_VISION_INPUTS_DOCSTRING = r"""
Args:
pixel_values (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Pixel values. Padding will be ignored by default should you provide it. Pixel values can be obtained using
[`AutoImageProcessor`]. See [`CLIPImageProcessor.__call__`] for details.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
VISION_TEXT_DUAL_ENCODER_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you provide
it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
position_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Indices of positions of each input sequence tokens in the position embeddings. Selected in the range `[0,
config.max_position_embeddings - 1]`.
[What are position IDs?](../glossary#position-ids)
pixel_values (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Pixel values. Padding will be ignored by default should you provide it. Pixel values can be obtained using
an image processor (e.g. if you use ViT as the encoder, you should use [`AutoImageProcessor`]). See
[`ViTImageProcessor.__call__`] for details.
return_loss (`bool`, *optional*):
Whether or not to return the contrastive loss.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
# Copied from transformers.models.clip.modeling_clip.contrastive_loss
def contrastive_loss(logits: torch.Tensor) -> torch.Tensor:
return nn.functional.cross_entropy(logits, torch.arange(len(logits), device=logits.device))
# Copied from transformers.models.clip.modeling_clip.clip_loss
def clip_loss(similarity: torch.Tensor) -> torch.Tensor:
caption_loss = contrastive_loss(similarity)
image_loss = contrastive_loss(similarity.t())
return (caption_loss + image_loss) / 2.0
@add_start_docstrings(VISION_TEXT_DUAL_ENCODER_START_DOCSTRING)
class VisionTextDualEncoderModel(PreTrainedModel):
config_class = VisionTextDualEncoderConfig
base_model_prefix = "vision_text_dual_encoder"
def __init__(
self,
config: Optional[VisionTextDualEncoderConfig] = None,
vision_model: Optional[PreTrainedModel] = None,
text_model: Optional[PreTrainedModel] = None,
):
if config is None and (vision_model is None or text_model is None):
raise ValueError("Either a configuration or an vision and a text model has to be provided")
if config is None:
config = VisionTextDualEncoderConfig.from_vision_text_configs(vision_model.config, text_model.config)
else:
if not isinstance(config, self.config_class):
raise ValueError(f"config: {config} has to be of type {self.config_class}")
# initialize with config
super().__init__(config)
if vision_model is None:
if isinstance(config.vision_config, CLIPVisionConfig):
vision_model = CLIPVisionModel(config.vision_config)
else:
vision_model = AutoModel.from_config(config.vision_config)
if text_model is None:
text_model = AutoModel.from_config(config.text_config)
self.vision_model = vision_model
self.text_model = text_model
# make sure that the individual model's config refers to the shared config
# so that the updates to the config will be synced
self.vision_model.config = self.config.vision_config
self.text_model.config = self.config.text_config
self.vision_embed_dim = config.vision_config.hidden_size
self.text_embed_dim = config.text_config.hidden_size
self.projection_dim = config.projection_dim
self.visual_projection = nn.Linear(self.vision_embed_dim, self.projection_dim, bias=False)
self.text_projection = nn.Linear(self.text_embed_dim, self.projection_dim, bias=False)
self.logit_scale = nn.Parameter(torch.tensor(self.config.logit_scale_init_value))
@add_start_docstrings_to_model_forward(VISION_TEXT_DUAL_ENCODER_TEXT_INPUTS_DOCSTRING)
def get_text_features(
self,
input_ids=None,
attention_mask=None,
position_ids=None,
token_type_ids=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
r"""
Returns:
text_features (`torch.FloatTensor` of shape `(batch_size, output_dim`): The text embeddings obtained by
applying the projection layer to the pooled output of [`CLIPTextModel`].
Examples:
```python
>>> from transformers import VisionTextDualEncoderModel, AutoTokenizer
>>> model = VisionTextDualEncoderModel.from_pretrained("clip-italian/clip-italian")
>>> tokenizer = AutoTokenizer.from_pretrained("clip-italian/clip-italian")
>>> inputs = tokenizer(["una foto di un gatto", "una foto di un cane"], padding=True, return_tensors="pt")
>>> text_features = model.get_text_features(**inputs)
```"""
text_outputs = self.text_model(
input_ids=input_ids,
attention_mask=attention_mask,
position_ids=position_ids,
token_type_ids=token_type_ids,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
pooled_output = text_outputs[1]
text_features = self.text_projection(pooled_output)
return text_features
@add_start_docstrings_to_model_forward(VISION_TEXT_DUAL_ENCODER_VISION_INPUTS_DOCSTRING)
def get_image_features(
self,
pixel_values=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
r"""
Returns:
image_features (`torch.FloatTensor` of shape `(batch_size, output_dim`): The image embeddings obtained by
applying the projection layer to the pooled output of [`CLIPVisionModel`].
Examples:
```python
>>> from PIL import Image
>>> import requests
>>> from transformers import VisionTextDualEncoderModel, AutoImageProcessor
>>> model = VisionTextDualEncoderModel.from_pretrained("clip-italian/clip-italian")
>>> image_processor = AutoImageProcessor.from_pretrained("google/vit-base-patch16-224")
>>> url = "http://images.cocodataset.org/val2017/000000039769.jpg"
>>> image = Image.open(requests.get(url, stream=True).raw)
>>> inputs = image_processor(images=image, return_tensors="pt")
>>> image_features = model.get_image_features(**inputs)
```"""
vision_outputs = self.vision_model(
pixel_values=pixel_values,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
pooled_output = vision_outputs[1] # pooled_output
image_features = self.visual_projection(pooled_output)
return image_features
@add_start_docstrings_to_model_forward(VISION_TEXT_DUAL_ENCODER_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=CLIPOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
pixel_values: Optional[torch.FloatTensor] = None,
attention_mask: Optional[torch.Tensor] = None,
position_ids: Optional[torch.LongTensor] = None,
return_loss: Optional[bool] = None,
token_type_ids: Optional[torch.LongTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor], CLIPOutput]:
r"""
Returns:
Examples:
```python
>>> from PIL import Image
>>> import requests
>>> from transformers import (
... VisionTextDualEncoderModel,
... VisionTextDualEncoderProcessor,
... AutoImageProcessor,
... AutoTokenizer,
... )
>>> tokenizer = AutoTokenizer.from_pretrained("bert-base-uncased")
>>> image_processor = AutoImageProcessor.from_pretrained("google/vit-base-patch16-224")
>>> processor = VisionTextDualEncoderProcessor(image_processor, tokenizer)
>>> model = VisionTextDualEncoderModel.from_vision_text_pretrained(
... "google/vit-base-patch16-224", "bert-base-uncased"
... )
>>> # contrastive training
>>> urls = [
... "http://images.cocodataset.org/val2017/000000039769.jpg",
... "https://farm3.staticflickr.com/2674/5850229113_4fe05d5265_z.jpg",
... ]
>>> images = [Image.open(requests.get(url, stream=True).raw) for url in urls]
>>> inputs = processor(
... text=["a photo of a cat", "a photo of a dog"], images=images, return_tensors="pt", padding=True
... )
>>> outputs = model(
... input_ids=inputs.input_ids,
... attention_mask=inputs.attention_mask,
... pixel_values=inputs.pixel_values,
... return_loss=True,
... )
>>> loss, logits_per_image = outputs.loss, outputs.logits_per_image # this is the image-text similarity score
>>> # save and load from pretrained
>>> model.save_pretrained("vit-bert")
>>> model = VisionTextDualEncoderModel.from_pretrained("vit-bert")
>>> # inference
>>> outputs = model(**inputs)
>>> logits_per_image = outputs.logits_per_image # this is the image-text similarity score
>>> probs = logits_per_image.softmax(dim=1) # we can take the softmax to get the label probabilities
```"""
return_dict = return_dict if return_dict is not None else self.config.return_dict
vision_outputs = self.vision_model(
pixel_values=pixel_values,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
text_outputs = self.text_model(
input_ids=input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
image_embeds = vision_outputs[1] # pooler_output
image_embeds = self.visual_projection(image_embeds)
text_embeds = text_outputs[1] # pooler_output
text_embeds = self.text_projection(text_embeds)
# normalized features
image_embeds = image_embeds / image_embeds.norm(dim=-1, keepdim=True)
text_embeds = text_embeds / text_embeds.norm(dim=-1, keepdim=True)
# cosine similarity as logits
logit_scale = self.logit_scale.exp()
logits_per_text = torch.matmul(text_embeds, image_embeds.t()) * logit_scale
logits_per_image = logits_per_text.T
loss = None
if return_loss:
loss = clip_loss(logits_per_text)
if not return_dict:
output = (logits_per_image, logits_per_text, text_embeds, image_embeds, text_outputs, vision_outputs)
return ((loss,) + output) if loss is not None else output
return CLIPOutput(
loss=loss,
logits_per_image=logits_per_image,
logits_per_text=logits_per_text,
text_embeds=text_embeds,
image_embeds=image_embeds,
text_model_output=text_outputs,
vision_model_output=vision_outputs,
)
@classmethod
def from_pretrained(cls, *args, **kwargs):
# At the moment fast initialization is not supported
# for composite models
kwargs["_fast_init"] = False
return super().from_pretrained(*args, **kwargs)
@classmethod
def from_vision_text_pretrained(
cls,
vision_model_name_or_path: str = None,
text_model_name_or_path: str = None,
*model_args,
**kwargs,
) -> PreTrainedModel:
"""
Params:
vision_model_name_or_path (`str`, *optional*, defaults to `None`):
Information necessary to initiate the vision model. Can be either:
- A string, the *model id* of a pretrained model hosted inside a model repo on huggingface.co.
Valid model ids can be located at the root-level, like `bert-base-uncased`, or namespaced under a
user or organization name, like `dbmdz/bert-base-german-cased`.
- A path to a *directory* containing model weights saved using
[`~PreTrainedModel.save_pretrained`], e.g., `./my_model_directory/`.
- A path or url to a *PyTorch checkpoint folder* (e.g, `./pt_model`). In this case, `from_pt`
should be set to `True` and a configuration object should be provided as `config` argument. This
loading path is slower than converting the PyTorch checkpoint in a Flax model using the provided
conversion scripts and loading the Flax model afterwards.
text_model_name_or_path (`str`, *optional*):
Information necessary to initiate the text model. Can be either:
- A string, the *model id* of a pretrained model hosted inside a model repo on huggingface.co.
Valid model ids can be located at the root-level, like `bert-base-uncased`, or namespaced under a
user or organization name, like `dbmdz/bert-base-german-cased`.
- A path to a *directory* containing model weights saved using
[`~PreTrainedModel.save_pretrained`], e.g., `./my_model_directory/`.
- A path or url to a *PyTorch checkpoint folder* (e.g, `./pt_model`). In this case, `from_pt`
should be set to `True` and a configuration object should be provided as `config` argument. This
loading path is slower than converting the PyTorch checkpoint in a Flax model using the provided
conversion scripts and loading the Flax model afterwards.
model_args (remaining positional arguments, *optional*):
All remaning positional arguments will be passed to the underlying model's `__init__` method.
kwargs (remaining dictionary of keyword arguments, *optional*):
Can be used to update the configuration object (after it being loaded) and initiate the model (e.g.,
`output_attentions=True`).
- To update the text configuration, use the prefix *text_* for each configuration parameter.
- To update the vision configuration, use the prefix *vision_* for each configuration parameter.
- To update the parent model configuration, do not use a prefix for each configuration parameter.
Behaves differently depending on whether a `config` is provided or automatically loaded.
Example:
```python
>>> from transformers import VisionTextDualEncoderModel
>>> # initialize a model from pretrained ViT and BERT models. Note that the projection layers will be randomly initialized.
>>> model = VisionTextDualEncoderModel.from_vision_text_pretrained(
... "google/vit-base-patch16-224", "bert-base-uncased"
... )
>>> # saving model after fine-tuning
>>> model.save_pretrained("./vit-bert")
>>> # load fine-tuned model
>>> model = VisionTextDualEncoderModel.from_pretrained("./vit-bert")
```"""
kwargs_vision = {
argument[len("vision_") :]: value for argument, value in kwargs.items() if argument.startswith("vision_")
}
kwargs_text = {
argument[len("text_") :]: value for argument, value in kwargs.items() if argument.startswith("text_")
}
# remove vision, text kwargs from kwargs
for key in kwargs_vision.keys():
del kwargs["vision_" + key]
for key in kwargs_text.keys():
del kwargs["text_" + key]
# Load and initialize the vision and text model
vision_model = kwargs_vision.pop("model", None)
if vision_model is None:
if vision_model_name_or_path is None:
raise ValueError(
"If `vision_model` is not defined as an argument, a `vision_model_name_or_path` has to be defined"
)
if "config" not in kwargs_vision:
vision_config = AutoConfig.from_pretrained(vision_model_name_or_path)
if vision_config.model_type == "clip":
kwargs_vision["config"] = vision_config.vision_config
vision_model = CLIPVisionModel.from_pretrained(vision_model_name_or_path, *model_args, **kwargs_vision)
# TODO: Should we use the pre-trained projection as well ?
else:
kwargs_vision["config"] = vision_config
vision_model = AutoModel.from_pretrained(vision_model_name_or_path, *model_args, **kwargs_vision)
text_model = kwargs_text.pop("model", None)
if text_model is None:
if text_model_name_or_path is None:
raise ValueError(
"If `text_model` is not defined as an argument, a `text_model_name_or_path` has to be defined"
)
if "config" not in kwargs_text:
text_config = AutoConfig.from_pretrained(text_model_name_or_path)
kwargs_text["config"] = text_config
text_model = AutoModel.from_pretrained(text_model_name_or_path, *model_args, **kwargs_text)
# instantiate config with corresponding kwargs
config = VisionTextDualEncoderConfig.from_vision_text_configs(vision_model.config, text_model.config, **kwargs)
# init model
model = cls(config=config, vision_model=vision_model, text_model=text_model)
# the projection layers are always newly initialized when loading the model
# using pre-trained vision and text model.
logger.warning(
"The projection layer and logit scale weights `['visual_projection.weight', 'text_projection.weight',"
" 'logit_scale']` are newly initialized. You should probably TRAIN this model on a down-stream task to be"
" able to use it for predictions and inference."
)
return model
| transformers-main | src/transformers/models/vision_text_dual_encoder/modeling_vision_text_dual_encoder.py |
# coding=utf-8
# Copyright 2022 The Fairseq Authors and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch MVP model."""
import copy
import math
from typing import List, Optional, Tuple, Union
import torch
import torch.utils.checkpoint
from torch import nn
from torch.nn import BCEWithLogitsLoss, CrossEntropyLoss, MSELoss
from ...activations import ACT2FN
from ...modeling_outputs import (
BaseModelOutput,
BaseModelOutputWithPastAndCrossAttentions,
CausalLMOutputWithCrossAttentions,
Seq2SeqLMOutput,
Seq2SeqModelOutput,
Seq2SeqQuestionAnsweringModelOutput,
Seq2SeqSequenceClassifierOutput,
)
from ...modeling_utils import PreTrainedModel
from ...utils import (
add_code_sample_docstrings,
add_end_docstrings,
add_start_docstrings,
add_start_docstrings_to_model_forward,
logging,
replace_return_docstrings,
)
from .configuration_mvp import MvpConfig
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "RUCAIBox/mvp"
_CONFIG_FOR_DOC = "MvpConfig"
# Base model docstring
_EXPECTED_OUTPUT_SHAPE = [1, 8, 1024]
MVP_PRETRAINED_MODEL_ARCHIVE_LIST = [
"RUCAIBox/mvp",
"RUCAIBox/mvp-data-to-text",
"RUCAIBox/mvp-open-dialog",
"RUCAIBox/mvp-question-answering",
"RUCAIBox/mvp-question-generation",
"RUCAIBox/mvp-story",
"RUCAIBox/mvp-summarization",
"RUCAIBox/mvp-task-dialog",
"RUCAIBox/mtl-data-to-text",
"RUCAIBox/mtl-multi-task",
"RUCAIBox/mtl-open-dialog",
"RUCAIBox/mtl-question-answering",
"RUCAIBox/mtl-question-generation",
"RUCAIBox/mtl-story",
"RUCAIBox/mtl-summarization",
# See all MVP models at https://huggingface.co/models?filter=mvp
]
# Copied from transformers.models.bart.modeling_bart.shift_tokens_right
def shift_tokens_right(input_ids: torch.Tensor, pad_token_id: int, decoder_start_token_id: int):
"""
Shift input ids one token to the right.
"""
shifted_input_ids = input_ids.new_zeros(input_ids.shape)
shifted_input_ids[:, 1:] = input_ids[:, :-1].clone()
shifted_input_ids[:, 0] = decoder_start_token_id
if pad_token_id is None:
raise ValueError("self.model.config.pad_token_id has to be defined.")
# replace possible -100 values in labels by `pad_token_id`
shifted_input_ids.masked_fill_(shifted_input_ids == -100, pad_token_id)
return shifted_input_ids
# Copied from transformers.models.bart.modeling_bart._make_causal_mask
def _make_causal_mask(
input_ids_shape: torch.Size, dtype: torch.dtype, device: torch.device, past_key_values_length: int = 0
):
"""
Make causal mask used for bi-directional self-attention.
"""
bsz, tgt_len = input_ids_shape
mask = torch.full((tgt_len, tgt_len), torch.finfo(dtype).min, device=device)
mask_cond = torch.arange(mask.size(-1), device=device)
mask.masked_fill_(mask_cond < (mask_cond + 1).view(mask.size(-1), 1), 0)
mask = mask.to(dtype)
if past_key_values_length > 0:
mask = torch.cat([torch.zeros(tgt_len, past_key_values_length, dtype=dtype, device=device), mask], dim=-1)
return mask[None, None, :, :].expand(bsz, 1, tgt_len, tgt_len + past_key_values_length)
# Copied from transformers.models.bart.modeling_bart._expand_mask
def _expand_mask(mask: torch.Tensor, dtype: torch.dtype, tgt_len: Optional[int] = None):
"""
Expands attention_mask from `[bsz, seq_len]` to `[bsz, 1, tgt_seq_len, src_seq_len]`.
"""
bsz, src_len = mask.size()
tgt_len = tgt_len if tgt_len is not None else src_len
expanded_mask = mask[:, None, None, :].expand(bsz, 1, tgt_len, src_len).to(dtype)
inverted_mask = 1.0 - expanded_mask
return inverted_mask.masked_fill(inverted_mask.to(torch.bool), torch.finfo(dtype).min)
# Copied from transformers.models.bart.modeling_bart.BartLearnedPositionalEmbedding with Bart->MVP
class MvpLearnedPositionalEmbedding(nn.Embedding):
"""
This module learns positional embeddings up to a fixed maximum size.
"""
def __init__(self, num_embeddings: int, embedding_dim: int):
# MVP is set up so that if padding_idx is specified then offset the embedding ids by 2
# and adjust num_embeddings appropriately. Other models don't have this hack
self.offset = 2
super().__init__(num_embeddings + self.offset, embedding_dim)
def forward(self, input_ids: torch.Tensor, past_key_values_length: int = 0):
"""`input_ids' shape is expected to be [bsz x seqlen]."""
bsz, seq_len = input_ids.shape[:2]
positions = torch.arange(
past_key_values_length, past_key_values_length + seq_len, dtype=torch.long, device=self.weight.device
).expand(bsz, -1)
return super().forward(positions + self.offset)
class MvpAttention(nn.Module):
"""Multi-headed attention from 'Attention Is All You Need' paper"""
def __init__(
self,
embed_dim: int,
num_heads: int,
dropout: float = 0.0,
is_decoder: bool = False,
bias: bool = True,
):
super().__init__()
self.embed_dim = embed_dim
self.num_heads = num_heads
self.dropout = dropout
self.head_dim = embed_dim // num_heads
if (self.head_dim * num_heads) != self.embed_dim:
raise ValueError(
f"embed_dim must be divisible by num_heads (got `embed_dim`: {self.embed_dim}"
f" and `num_heads`: {num_heads})."
)
self.scaling = self.head_dim**-0.5
self.is_decoder = is_decoder
self.k_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.v_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.q_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.out_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
def _shape(self, tensor: torch.Tensor, seq_len: int, bsz: int):
return tensor.view(bsz, seq_len, self.num_heads, self.head_dim).transpose(1, 2).contiguous()
def forward(
self,
hidden_states: torch.Tensor,
key_value_states: Optional[torch.Tensor] = None,
past_key_value: Optional[Tuple[torch.Tensor]] = None,
attention_mask: Optional[torch.Tensor] = None,
layer_head_mask: Optional[torch.Tensor] = None,
attn_prompt: Optional[torch.Tensor] = None,
output_attentions: bool = False,
) -> Tuple[torch.Tensor, Optional[torch.Tensor], Optional[Tuple[torch.Tensor]]]:
"""Input shape: Batch x Time x Channel"""
# if key_value_states are provided this layer is used as a cross-attention layer
# for the decoder
is_cross_attention = key_value_states is not None
bsz, tgt_len, _ = hidden_states.size()
# get query proj
query_states = self.q_proj(hidden_states) * self.scaling
# get key, value proj
if is_cross_attention and past_key_value is not None:
# reuse k,v, cross_attentions
key_states = past_key_value[0]
value_states = past_key_value[1]
elif is_cross_attention:
# cross_attentions
key_states = self._shape(self.k_proj(key_value_states), -1, bsz)
value_states = self._shape(self.v_proj(key_value_states), -1, bsz)
elif past_key_value is not None:
# reuse k, v, self_attention
key_states = self._shape(self.k_proj(hidden_states), -1, bsz)
value_states = self._shape(self.v_proj(hidden_states), -1, bsz)
key_states = torch.cat([past_key_value[0], key_states], dim=2)
value_states = torch.cat([past_key_value[1], value_states], dim=2)
else:
# self_attention
key_states = self._shape(self.k_proj(hidden_states), -1, bsz)
value_states = self._shape(self.v_proj(hidden_states), -1, bsz)
if self.is_decoder:
# if cross_attention save Tuple(torch.Tensor, torch.Tensor) of all cross attention key/value_states.
# Further calls to cross_attention layer can then reuse all cross-attention
# key/value_states (first "if" case)
# if uni-directional self-attention (decoder) save Tuple(torch.Tensor, torch.Tensor) of
# all previous decoder key/value_states. Further calls to uni-directional self-attention
# can concat previous decoder key/value_states to current projected key/value_states (third "elif" case)
# if encoder bi-directional self-attention `past_key_value` is always `None`
past_key_value = (key_states, value_states)
if attn_prompt is not None:
key_states = torch.cat([attn_prompt[0].expand(bsz, -1, -1, -1), key_states], dim=2)
value_states = torch.cat([attn_prompt[1].expand(bsz, -1, -1, -1), value_states], dim=2)
if attention_mask is not None:
prompt_mask = torch.zeros(bsz, 1, tgt_len, attn_prompt[0].size(1)).to(attention_mask.device)
attention_mask = torch.cat([prompt_mask, attention_mask], dim=(-1))
proj_shape = (bsz * self.num_heads, -1, self.head_dim)
query_states = self._shape(query_states, tgt_len, bsz).view(*proj_shape)
key_states = key_states.view(*proj_shape)
value_states = value_states.view(*proj_shape)
src_len = key_states.size(1)
attn_weights = torch.bmm(query_states, key_states.transpose(1, 2))
if attn_weights.size() != (bsz * self.num_heads, tgt_len, src_len):
raise ValueError(
f"Attention weights should be of size {(bsz * self.num_heads, tgt_len, src_len)}, but is"
f" {attn_weights.size()}"
)
if attention_mask is not None:
if attention_mask.size() != (bsz, 1, tgt_len, src_len):
raise ValueError(
f"Attention mask should be of size {(bsz, 1, tgt_len, src_len)}, but is {attention_mask.size()}"
)
attn_weights = attn_weights.view(bsz, self.num_heads, tgt_len, src_len) + attention_mask
attn_weights = attn_weights.view(bsz * self.num_heads, tgt_len, src_len)
attn_weights = nn.functional.softmax(attn_weights, dim=-1)
if layer_head_mask is not None:
if layer_head_mask.size() != (self.num_heads,):
raise ValueError(
f"Head mask for a single layer should be of size {(self.num_heads,)}, but is"
f" {layer_head_mask.size()}"
)
attn_weights = layer_head_mask.view(1, -1, 1, 1) * attn_weights.view(bsz, self.num_heads, tgt_len, src_len)
attn_weights = attn_weights.view(bsz * self.num_heads, tgt_len, src_len)
if output_attentions:
# this operation is a bit awkward, but it's required to
# make sure that attn_weights keeps its gradient.
# In order to do so, attn_weights have to be reshaped
# twice and have to be reused in the following
attn_weights_reshaped = attn_weights.view(bsz, self.num_heads, tgt_len, src_len)
attn_weights = attn_weights_reshaped.view(bsz * self.num_heads, tgt_len, src_len)
else:
attn_weights_reshaped = None
attn_probs = nn.functional.dropout(attn_weights, p=self.dropout, training=self.training)
attn_output = torch.bmm(attn_probs, value_states)
if attn_output.size() != (bsz * self.num_heads, tgt_len, self.head_dim):
raise ValueError(
f"`attn_output` should be of size {(bsz, self.num_heads, tgt_len, self.head_dim)}, but is"
f" {attn_output.size()}"
)
attn_output = attn_output.view(bsz, self.num_heads, tgt_len, self.head_dim)
attn_output = attn_output.transpose(1, 2)
# Use the `embed_dim` from the config (stored in the class) rather than `hidden_state` because `attn_output` can be
# partitioned aross GPUs when using tensor-parallelism.
attn_output = attn_output.reshape(bsz, tgt_len, self.embed_dim)
attn_output = self.out_proj(attn_output)
return attn_output, attn_weights_reshaped, past_key_value
class MvpEncoderLayer(nn.Module):
def __init__(self, config: MvpConfig):
super().__init__()
self.embed_dim = config.d_model
self.self_attn = MvpAttention(
embed_dim=self.embed_dim,
num_heads=config.encoder_attention_heads,
dropout=config.attention_dropout,
)
self.self_attn_layer_norm = nn.LayerNorm(self.embed_dim)
self.dropout = config.dropout
self.activation_fn = ACT2FN[config.activation_function]
self.activation_dropout = config.activation_dropout
self.fc1 = nn.Linear(self.embed_dim, config.encoder_ffn_dim)
self.fc2 = nn.Linear(config.encoder_ffn_dim, self.embed_dim)
self.final_layer_norm = nn.LayerNorm(self.embed_dim)
def forward(
self,
hidden_states: torch.FloatTensor,
attention_mask: torch.FloatTensor,
layer_head_mask: torch.FloatTensor,
self_attn_prompt: torch.FloatTensor,
output_attentions: Optional[bool] = False,
) -> Tuple[torch.FloatTensor, Optional[torch.FloatTensor]]:
"""
Args:
hidden_states (`torch.FloatTensor`): input to the layer of shape `(batch, seq_len, embed_dim)`
attention_mask (`torch.FloatTensor`): attention mask of size
`(batch, 1, tgt_len, src_len)` where padding elements are indicated by very large negative values.
layer_head_mask (`torch.FloatTensor`): mask for attention heads in a given layer of size
`(encoder_attention_heads,)`.
self_attn_prompt (`torch.FloatTensor`): prompt of self attention of shape
`(2, encoder_attention_heads, pro_len, head_dim)`.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
"""
residual = hidden_states
hidden_states, attn_weights, _ = self.self_attn(
hidden_states=hidden_states,
attention_mask=attention_mask,
layer_head_mask=layer_head_mask,
attn_prompt=self_attn_prompt,
output_attentions=output_attentions,
)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.self_attn_layer_norm(hidden_states)
residual = hidden_states
hidden_states = self.activation_fn(self.fc1(hidden_states))
hidden_states = nn.functional.dropout(hidden_states, p=self.activation_dropout, training=self.training)
hidden_states = self.fc2(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.final_layer_norm(hidden_states)
if hidden_states.dtype == torch.float16 and (
torch.isinf(hidden_states).any() or torch.isnan(hidden_states).any()
):
clamp_value = torch.finfo(hidden_states.dtype).max - 1000
hidden_states = torch.clamp(hidden_states, min=-clamp_value, max=clamp_value)
outputs = (hidden_states,)
if output_attentions:
outputs += (attn_weights,)
return outputs
class MvpDecoderLayer(nn.Module):
def __init__(self, config: MvpConfig):
super().__init__()
self.embed_dim = config.d_model
self.self_attn = MvpAttention(
embed_dim=self.embed_dim,
num_heads=config.decoder_attention_heads,
dropout=config.attention_dropout,
is_decoder=True,
)
self.dropout = config.dropout
self.activation_fn = ACT2FN[config.activation_function]
self.activation_dropout = config.activation_dropout
self.self_attn_layer_norm = nn.LayerNorm(self.embed_dim)
self.encoder_attn = MvpAttention(
self.embed_dim,
config.decoder_attention_heads,
dropout=config.attention_dropout,
is_decoder=True,
)
self.encoder_attn_layer_norm = nn.LayerNorm(self.embed_dim)
self.fc1 = nn.Linear(self.embed_dim, config.decoder_ffn_dim)
self.fc2 = nn.Linear(config.decoder_ffn_dim, self.embed_dim)
self.final_layer_norm = nn.LayerNorm(self.embed_dim)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.Tensor] = None,
encoder_hidden_states: Optional[torch.Tensor] = None,
encoder_attention_mask: Optional[torch.Tensor] = None,
layer_head_mask: Optional[torch.Tensor] = None,
cross_attn_layer_head_mask: Optional[torch.Tensor] = None,
self_attn_prompt: Optional[torch.Tensor] = None,
cross_attn_prompt: Optional[torch.Tensor] = None,
past_key_value: Optional[Tuple[torch.Tensor]] = None,
output_attentions: Optional[bool] = False,
use_cache: Optional[bool] = True,
) -> Tuple[torch.FloatTensor, Optional[Tuple[torch.FloatTensor, torch.FloatTensor]]]:
"""
Args:
hidden_states (`torch.FloatTensor`): input to the layer of shape `(batch, seq_len, embed_dim)`
attention_mask (`torch.FloatTensor`): attention mask of size
`(batch, 1, tgt_len, src_len)` where padding elements are indicated by very large negative values.
encoder_hidden_states (`torch.FloatTensor`):
cross attention input to the layer of shape `(batch, seq_len, embed_dim)`
encoder_attention_mask (`torch.FloatTensor`): encoder attention mask of size
`(batch, 1, tgt_len, src_len)` where padding elements are indicated by very large negative values.
layer_head_mask (`torch.FloatTensor`): mask for attention heads in a given layer of size
`(encoder_attention_heads,)`.
cross_attn_layer_head_mask (`torch.FloatTensor`): mask for cross-attention heads in a given layer of
size `(decoder_attention_heads,)`.
self_attn_prompt (`torch.FloatTensor`): prompt of self attention of shape
`(2, decoder_attention_heads, pro_len, head_dim)`.
cross_attn_prompt (`torch.FloatTensor`): prompt of cross attention of shape
`(2, decoder_attention_heads, pro_len, head_dim)`.
past_key_value (`Tuple(torch.FloatTensor)`): cached past key and value projection states
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
"""
residual = hidden_states
# Self Attention
# decoder uni-directional self-attention cached key/values tuple is at positions 1,2
self_attn_past_key_value = past_key_value[:2] if past_key_value is not None else None
# add present self-attn cache to positions 1,2 of present_key_value tuple
hidden_states, self_attn_weights, present_key_value = self.self_attn(
hidden_states=hidden_states,
past_key_value=self_attn_past_key_value,
attention_mask=attention_mask,
layer_head_mask=layer_head_mask,
attn_prompt=self_attn_prompt,
output_attentions=output_attentions,
)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.self_attn_layer_norm(hidden_states)
# Cross-Attention Block
cross_attn_present_key_value = None
cross_attn_weights = None
if encoder_hidden_states is not None:
residual = hidden_states
# cross_attn cached key/values tuple is at positions 3,4 of present_key_value tuple
cross_attn_past_key_value = past_key_value[-2:] if past_key_value is not None else None
hidden_states, cross_attn_weights, cross_attn_present_key_value = self.encoder_attn(
hidden_states=hidden_states,
key_value_states=encoder_hidden_states,
attention_mask=encoder_attention_mask,
layer_head_mask=cross_attn_layer_head_mask,
attn_prompt=cross_attn_prompt,
past_key_value=cross_attn_past_key_value,
output_attentions=output_attentions,
)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.encoder_attn_layer_norm(hidden_states)
# add cross-attn to positions 3,4 of present_key_value tuple
present_key_value = present_key_value + cross_attn_present_key_value
# Fully Connected
residual = hidden_states
hidden_states = self.activation_fn(self.fc1(hidden_states))
hidden_states = nn.functional.dropout(hidden_states, p=self.activation_dropout, training=self.training)
hidden_states = self.fc2(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.final_layer_norm(hidden_states)
outputs = (hidden_states,)
if output_attentions:
outputs += (self_attn_weights, cross_attn_weights)
if use_cache:
outputs += (present_key_value,)
return outputs
# Copied from transformers.models.bart.modeling_bart.BartClassificationHead with Bart->MVP
class MvpClassificationHead(nn.Module):
"""Head for sentence-level classification tasks."""
def __init__(
self,
input_dim: int,
inner_dim: int,
num_classes: int,
pooler_dropout: float,
):
super().__init__()
self.dense = nn.Linear(input_dim, inner_dim)
self.dropout = nn.Dropout(p=pooler_dropout)
self.out_proj = nn.Linear(inner_dim, num_classes)
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.dropout(hidden_states)
hidden_states = self.dense(hidden_states)
hidden_states = torch.tanh(hidden_states)
hidden_states = self.dropout(hidden_states)
hidden_states = self.out_proj(hidden_states)
return hidden_states
class MvpPrompt(nn.Module):
"""Layer-wise prompt for encoder or decoder."""
def __init__(self, config, num_layers, num_heads):
super().__init__()
self.prompt_length = config.prompt_length
self.num_layers = num_layers
self.num_heads = num_heads
self.head_dim = config.d_model // num_heads
self.dropout = nn.Dropout(p=config.dropout)
self.prompt_embedding = nn.Embedding(config.prompt_length, config.d_model)
self.prompt_trans = nn.Sequential(
nn.Linear(config.d_model, config.prompt_mid_dim),
nn.GELU(),
nn.Linear(config.prompt_mid_dim, num_layers * 2 * config.d_model),
)
def forward(self, prompt_ids: torch.Tensor) -> Tuple[torch.Tensor]:
prompt = self.prompt_trans(self.prompt_embedding(prompt_ids))
prompt = prompt.view(self.prompt_length, self.num_layers * 2, self.num_heads, self.head_dim)
prompt = self.dropout(prompt)
prompt = prompt.permute([1, 2, 0, 3]).split(2)
return prompt
class MvpPreTrainedModel(PreTrainedModel):
config_class = MvpConfig
base_model_prefix = "model"
supports_gradient_checkpointing = True
def _init_weights(self, module):
std = self.config.init_std
if isinstance(module, nn.Linear):
module.weight.data.normal_(mean=0.0, std=std)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=std)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, (MvpDecoder, MvpEncoder, MvpPrompt)):
module.gradient_checkpointing = value
@property
def dummy_inputs(self):
pad_token = self.config.pad_token_id
input_ids = torch.tensor([[0, 6, 10, 4, 2], [0, 8, 12, 2, pad_token]], device=self.device)
dummy_inputs = {
"attention_mask": input_ids.ne(pad_token),
"input_ids": input_ids,
}
return dummy_inputs
MVP_START_DOCSTRING = r"""
This model inherits from [`PreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) subclass.
Use it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage
and behavior.
Parameters:
config ([`MvpConfig`]):
Model configuration class with all the parameters of the model. Initializing with a config file does not
load the weights associated with the model, only the configuration. Check out the
[`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
MVP_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you provide
it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
decoder_input_ids (`torch.LongTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Indices of decoder input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are decoder input IDs?](../glossary#decoder-input-ids)
Mvp uses the `eos_token_id` as the starting token for `decoder_input_ids` generation. If `past_key_values`
is used, optionally only the last `decoder_input_ids` have to be input (see `past_key_values`).
For translation and summarization training, `decoder_input_ids` should be provided. If no
`decoder_input_ids` is provided, the model will create this tensor by shifting the `input_ids` to the right
for denoising pre-training following the paper.
decoder_attention_mask (`torch.LongTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Default behavior: generate a tensor that ignores pad tokens in `decoder_input_ids`. Causal mask will also
be used by default.
If you want to change padding behavior, you should read [`modeling_mvp._prepare_decoder_attention_mask`]
and modify to your needs. See diagram 1 in [the paper](https://arxiv.org/abs/1910.13461) for more
information on the default strategy.
head_mask (`torch.Tensor` of shape `(encoder_layers, encoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules in the encoder. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
decoder_head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules in the decoder. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
cross_attn_head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the cross-attention modules in the decoder. Mask values selected in `[0,
1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
encoder_outputs (`tuple(tuple(torch.FloatTensor)`, *optional*):
Tuple consists of (`last_hidden_state`, *optional*: `hidden_states`, *optional*: `attentions`)
`last_hidden_state` of shape `(batch_size, sequence_length, hidden_size)`, *optional*) is a sequence of
hidden-states at the output of the last layer of the encoder. Used in the cross-attention of the decoder.
past_key_values (`tuple(tuple(torch.FloatTensor))`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
Tuple of `tuple(torch.FloatTensor)` of length `config.n_layers`, with each tuple having 2 tensors of shape
`(batch_size, num_heads, sequence_length, embed_size_per_head)`) and 2 additional tensors of shape
`(batch_size, num_heads, encoder_sequence_length, embed_size_per_head)`.
Contains pre-computed hidden-states (key and values in the self-attention blocks and in the cross-attention
blocks) that can be used (see `past_key_values` input) to speed up sequential decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`. inputs_embeds (`torch.FloatTensor` of shape
`(batch_size, sequence_length, hidden_size)`, *optional*): Optionally, instead of passing `input_ids` you
can choose to directly pass an embedded representation. This is useful if you want more control over how to
convert `input_ids` indices into associated vectors than the model's internal embedding lookup matrix.
decoder_inputs_embeds (`torch.FloatTensor` of shape `(batch_size, target_sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `decoder_input_ids` you can choose to directly pass an embedded
representation. If `past_key_values` is used, optionally only the last `decoder_inputs_embeds` have to be
input (see `past_key_values`). This is useful if you want more control over how to convert
`decoder_input_ids` indices into associated vectors than the model's internal embedding lookup matrix.
If `decoder_input_ids` and `decoder_inputs_embeds` are both unset, `decoder_inputs_embeds` takes the value
of `inputs_embeds`.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
MVP_CONDITIONAL_GENERATION_EXAMPLE = r"""
Example of summarization:
Fine-tuning a model
```python
>>> import torch
>>> from transformers import AutoTokenizer, MvpForConditionalGeneration
>>> tokenizer = AutoTokenizer.from_pretrained("RUCAIBox/mvp")
>>> model = MvpForConditionalGeneration.from_pretrained("RUCAIBox/mvp")
>>> inputs = tokenizer(
... "Summarize: You may want to stick it to your boss and leave your job, but don't do it if these are your reasons.",
... return_tensors="pt",
... )
>>> labels = tokenizer("Bad Reasons To Quit Your Job", return_tensors="pt")["input_ids"]
>>> loss = model(**inputs, labels=labels).loss
>>> loss.backward()
```
Inference after the model fine-tuned
```python
>>> with torch.no_grad():
... generated_ids = model.generate(**inputs)
>>> generated_text = tokenizer.batch_decode(generated_ids, skip_special_tokens=True)
```
"""
MVP_SEQUENCE_CLASSIFICATION_SAMPLE = r"""
Example of single-label classification:
Fine-tuning a model on `num_labels` classes
```python
>>> import torch
>>> from transformers import AutoTokenizer, MvpForSequenceClassification
>>> num_labels = 2 # for example, this is a binary classification task
>>> tokenizer = AutoTokenizer.from_pretrained("RUCAIBox/mvp")
>>> model = MvpForSequenceClassification.from_pretrained("RUCAIBox/mvp", num_labels=num_labels)
>>> inputs = tokenizer("Classify: Hello, my dog is cute", return_tensors="pt")
>>> labels = torch.tensor(1) # the real label for inputs
>>> loss = model(**inputs, labels=labels).loss
>>> loss.backward()
```
Inference after the model fine-tuned
```python
>>> with torch.no_grad():
... logits = model(**inputs).logits
>>> predicted_class_id = logits.argmax()
```
"""
MVP_QUESTION_ANSWERING_SAMPLE = r"""
Example:
Fine-tuning a model for extrative question answering, and our model also supports generative question answering
using `BartForConditionalGeneration`
```python
>>> import torch
>>> from transformers import AutoTokenizer, MvpForQuestionAnswering
>>> tokenizer = AutoTokenizer.from_pretrained("RUCAIBox/mvp")
>>> model = MvpForQuestionAnswering.from_pretrained("RUCAIBox/mvp")
>>> inputs = tokenizer(
... "Answer the following question: Who was Jim Henson? [SEP] Jim Henson was a nice puppet",
... return_tensors="pt",
... )
>>> target_start_index = torch.tensor([18])
>>> target_end_index = torch.tensor([19])
>>> loss = model(**inputs, start_positions=target_start_index, end_positions=target_end_index).loss
>>> loss.backward()
```
Inference after the model fine-tuned
```python
>>> with torch.no_grad():
... outputs = model(**inputs)
>>> answer_start_index = outputs.start_logits.argmax()
>>> answer_end_index = outputs.end_logits.argmax()
>>> predict_answer_tokens = inputs.input_ids[0, answer_start_index : answer_end_index + 1]
>>> predict_answer = tokenizer.decode(predict_answer_tokens)
```
"""
class MvpEncoder(MvpPreTrainedModel):
"""
Transformer encoder consisting of *config.encoder_layers* self attention layers. Each layer is a
[`MvpEncoderLayer`].
Args:
config: MvpConfig
embed_tokens (nn.Embedding): output embedding
use_prompt (bool): whether to use prompt
"""
def __init__(
self, config: MvpConfig, embed_tokens: Optional[nn.Embedding] = None, use_prompt: Optional[bool] = False
):
super().__init__(config)
self.dropout = config.dropout
self.layerdrop = config.encoder_layerdrop
embed_dim = config.d_model
self.padding_idx = config.pad_token_id
self.max_source_positions = config.max_position_embeddings
self.embed_scale = math.sqrt(embed_dim) if config.scale_embedding else 1.0
if embed_tokens is not None:
self.embed_tokens = embed_tokens
else:
self.embed_tokens = nn.Embedding(config.vocab_size, embed_dim, self.padding_idx)
self.embed_positions = MvpLearnedPositionalEmbedding(
config.max_position_embeddings,
embed_dim,
)
self.layers = nn.ModuleList([MvpEncoderLayer(config) for _ in range(config.encoder_layers)])
self.layernorm_embedding = nn.LayerNorm(embed_dim)
self.use_prompt = use_prompt
if use_prompt:
self.prompt_length = config.prompt_length
self.self_attn_prompt = MvpPrompt(
config,
config.encoder_layers,
config.encoder_attention_heads,
)
self.gradient_checkpointing = False
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.embed_tokens
def set_input_embeddings(self, value):
self.embed_tokens = value
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.Tensor] = None,
head_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, BaseModelOutput]:
r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you
provide it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
head_mask (`torch.Tensor` of shape `(encoder_layers, encoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation.
This is useful if you want more control over how to convert `input_ids` indices into associated vectors
than the model's internal embedding lookup matrix.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors
for more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# retrieve input_ids and inputs_embeds
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both input_ids and inputs_embeds at the same time")
elif input_ids is not None:
input = input_ids
input_shape = input.shape
input_ids = input_ids.view(-1, input_shape[-1])
elif inputs_embeds is not None:
input_shape = inputs_embeds.size()[:-1]
input = inputs_embeds[:, :, -1]
else:
raise ValueError("You have to specify either input_ids or inputs_embeds")
if inputs_embeds is None:
inputs_embeds = self.embed_tokens(input_ids) * self.embed_scale
embed_pos = self.embed_positions(input)
hidden_states = inputs_embeds + embed_pos
hidden_states = self.layernorm_embedding(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
# layer-wise prompt
if self.use_prompt:
prompt_ids = torch.arange(self.prompt_length).to(self.device)
self_attn_prompt = self.self_attn_prompt(prompt_ids)
# expand attention_mask
if attention_mask is not None:
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
attention_mask = _expand_mask(attention_mask, inputs_embeds.dtype)
encoder_states = () if output_hidden_states else None
all_attentions = () if output_attentions else None
# check if head_mask has a correct number of layers specified if desired
if head_mask is not None:
if head_mask.size()[0] != (len(self.layers)):
raise ValueError(
f"The head_mask should be specified for {len(self.layers)} layers, but it is for"
f" {head_mask.size()[0]}."
)
for idx, encoder_layer in enumerate(self.layers):
if output_hidden_states:
encoder_states = encoder_states + (hidden_states,)
# add LayerDrop (see https://arxiv.org/abs/1909.11556 for description)
to_drop = False
if self.training:
dropout_probability = torch.rand([])
if dropout_probability < self.layerdrop: # skip the layer
to_drop = True
if to_drop:
layer_outputs = (None, None)
else:
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(encoder_layer),
hidden_states,
attention_mask,
(head_mask[idx] if head_mask is not None else None),
(self_attn_prompt[idx] if self.use_prompt else None),
)
else:
layer_outputs = encoder_layer(
hidden_states,
attention_mask,
layer_head_mask=(head_mask[idx] if head_mask is not None else None),
self_attn_prompt=(self_attn_prompt[idx] if self.use_prompt else None),
output_attentions=output_attentions,
)
hidden_states = layer_outputs[0]
if output_attentions:
all_attentions = all_attentions + (layer_outputs[1],)
if output_hidden_states:
encoder_states = encoder_states + (hidden_states,)
if not return_dict:
return tuple(v for v in [hidden_states, encoder_states, all_attentions] if v is not None)
return BaseModelOutput(
last_hidden_state=hidden_states, hidden_states=encoder_states, attentions=all_attentions
)
class MvpDecoder(MvpPreTrainedModel):
"""
Transformer decoder consisting of *config.decoder_layers* layers. Each layer is a [`MvpDecoderLayer`]
Args:
config: MvpConfig
embed_tokens (nn.Embedding): output embedding
use_prompt (bool): whether to use prompt
"""
def __init__(
self, config: MvpConfig, embed_tokens: Optional[nn.Embedding] = None, use_prompt: Optional[bool] = False
):
super().__init__(config)
self.dropout = config.dropout
self.layerdrop = config.decoder_layerdrop
self.padding_idx = config.pad_token_id
self.max_target_positions = config.max_position_embeddings
self.embed_scale = math.sqrt(config.d_model) if config.scale_embedding else 1.0
if embed_tokens is not None:
self.embed_tokens = embed_tokens
else:
self.embed_tokens = nn.Embedding(config.vocab_size, config.d_model, self.padding_idx)
self.embed_positions = MvpLearnedPositionalEmbedding(
config.max_position_embeddings,
config.d_model,
)
self.layers = nn.ModuleList([MvpDecoderLayer(config) for _ in range(config.decoder_layers)])
self.layernorm_embedding = nn.LayerNorm(config.d_model)
self.use_prompt = use_prompt
if use_prompt:
self.prompt_length = config.prompt_length
self.self_attn_prompt = MvpPrompt(
config,
config.decoder_layers,
config.decoder_attention_heads,
)
self.cross_attn_prompt = MvpPrompt(
config,
config.decoder_layers,
config.decoder_attention_heads,
)
self.gradient_checkpointing = False
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.embed_tokens
def set_input_embeddings(self, value):
self.embed_tokens = value
def _prepare_decoder_attention_mask(self, attention_mask, input_shape, inputs_embeds, past_key_values_length):
# create causal mask
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
combined_attention_mask = None
if input_shape[-1] > 1:
combined_attention_mask = _make_causal_mask(
input_shape,
inputs_embeds.dtype,
device=inputs_embeds.device,
past_key_values_length=past_key_values_length,
)
if attention_mask is not None:
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
expanded_attn_mask = _expand_mask(attention_mask, inputs_embeds.dtype, tgt_len=input_shape[-1])
combined_attention_mask = (
expanded_attn_mask if combined_attention_mask is None else expanded_attn_mask + combined_attention_mask
)
return combined_attention_mask
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.Tensor] = None,
encoder_hidden_states: Optional[torch.FloatTensor] = None,
encoder_attention_mask: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
past_key_values: Optional[List[torch.FloatTensor]] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, BaseModelOutputWithPastAndCrossAttentions]:
r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you
provide it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
encoder_hidden_states (`torch.FloatTensor` of shape `(batch_size, encoder_sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention
of the decoder.
encoder_attention_mask (`torch.LongTensor` of shape `(batch_size, encoder_sequence_length)`, *optional*):
Mask to avoid performing cross-attention on padding tokens indices of encoder input_ids. Mask values
selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
cross_attn_head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the cross-attention modules in the decoder to avoid performing
cross-attention on hidden heads. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
past_key_values (`tuple(tuple(torch.FloatTensor))`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
Tuple of `tuple(torch.FloatTensor)` of length `config.n_layers`, with each tuple having 2 tensors of
shape `(batch_size, num_heads, sequence_length, embed_size_per_head)`) and 2 additional tensors of
shape `(batch_size, num_heads, encoder_sequence_length, embed_size_per_head)`.
Contains pre-computed hidden-states (key and values in the self-attention blocks and in the
cross-attention blocks) that can be used (see `past_key_values` input) to speed up sequential decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those
that don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of
all `decoder_input_ids` of shape `(batch_size, sequence_length)`. inputs_embeds (`torch.FloatTensor` of
shape `(batch_size, sequence_length, hidden_size)`, *optional*): Optionally, instead of passing
`input_ids` you can choose to directly pass an embedded representation. This is useful if you want more
control over how to convert `input_ids` indices into associated vectors than the model's internal
embedding lookup matrix.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors
for more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
use_cache = use_cache if use_cache is not None else self.config.use_cache
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# retrieve input_ids and inputs_embeds
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both decoder_input_ids and decoder_inputs_embeds at the same time")
elif input_ids is not None:
input = input_ids
input_shape = input_ids.shape
input_ids = input_ids.view(-1, input_shape[-1])
elif inputs_embeds is not None:
input_shape = inputs_embeds.size()[:-1]
input = inputs_embeds[:, :, -1]
else:
raise ValueError("You have to specify either decoder_input_ids or decoder_inputs_embeds")
# past_key_values_length
past_key_values_length = past_key_values[0][0].shape[2] if past_key_values is not None else 0
if inputs_embeds is None:
inputs_embeds = self.embed_tokens(input_ids) * self.embed_scale
attention_mask = self._prepare_decoder_attention_mask(
attention_mask, input_shape, inputs_embeds, past_key_values_length
)
# expand encoder attention mask
if encoder_hidden_states is not None and encoder_attention_mask is not None:
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
encoder_attention_mask = _expand_mask(encoder_attention_mask, inputs_embeds.dtype, tgt_len=input_shape[-1])
# embed positions
positions = self.embed_positions(input, past_key_values_length)
hidden_states = inputs_embeds + positions
hidden_states = self.layernorm_embedding(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
# layer-wise prompt
if self.use_prompt:
prompt_ids = torch.arange(self.prompt_length).to(self.device)
self_attn_prompt = self.self_attn_prompt(prompt_ids)
cross_attn_prompt = self.cross_attn_prompt(prompt_ids)
if self.gradient_checkpointing and self.training:
if use_cache:
logger.warning_once(
"`use_cache=True` is incompatible with gradient checkpointing. Setting `use_cache=False`..."
)
use_cache = False
# decoder layers
all_hidden_states = () if output_hidden_states else None
all_self_attns = () if output_attentions else None
all_cross_attentions = () if (output_attentions and encoder_hidden_states is not None) else None
next_decoder_cache = () if use_cache else None
# check if head_mask/cross_attn_head_mask has a correct number of layers specified if desired
for attn_mask, mask_name in zip([head_mask, cross_attn_head_mask], ["head_mask", "cross_attn_head_mask"]):
if attn_mask is not None:
if attn_mask.size()[0] != (len(self.layers)):
raise ValueError(
f"The `{mask_name}` should be specified for {len(self.layers)} layers, but it is for"
f" {head_mask.size()[0]}."
)
for idx, decoder_layer in enumerate(self.layers):
# add LayerDrop (see https://arxiv.org/abs/1909.11556 for description)
if output_hidden_states:
all_hidden_states += (hidden_states,)
if self.training:
dropout_probability = torch.rand([])
if dropout_probability < self.layerdrop:
continue
past_key_value = past_key_values[idx] if past_key_values is not None else None
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
# None for past_key_value
return module(*inputs, output_attentions, use_cache)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(decoder_layer),
hidden_states,
attention_mask,
encoder_hidden_states,
encoder_attention_mask,
head_mask[idx] if head_mask is not None else None,
cross_attn_head_mask[idx] if cross_attn_head_mask is not None else None,
self_attn_prompt[idx] if self.use_prompt else None,
cross_attn_prompt[idx] if self.use_prompt else None,
None,
)
else:
layer_outputs = decoder_layer(
hidden_states,
attention_mask=attention_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
layer_head_mask=(head_mask[idx] if head_mask is not None else None),
cross_attn_layer_head_mask=(
cross_attn_head_mask[idx] if cross_attn_head_mask is not None else None
),
self_attn_prompt=(self_attn_prompt[idx] if self.use_prompt else None),
cross_attn_prompt=(cross_attn_prompt[idx] if self.use_prompt else None),
past_key_value=past_key_value,
output_attentions=output_attentions,
use_cache=use_cache,
)
hidden_states = layer_outputs[0]
if use_cache:
next_decoder_cache += (layer_outputs[3 if output_attentions else 1],)
if output_attentions:
all_self_attns += (layer_outputs[1],)
if encoder_hidden_states is not None:
all_cross_attentions += (layer_outputs[2],)
# add hidden states from the last decoder layer
if output_hidden_states:
all_hidden_states += (hidden_states,)
next_cache = next_decoder_cache if use_cache else None
if not return_dict:
return tuple(
v
for v in [hidden_states, next_cache, all_hidden_states, all_self_attns, all_cross_attentions]
if v is not None
)
return BaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
past_key_values=next_cache,
hidden_states=all_hidden_states,
attentions=all_self_attns,
cross_attentions=all_cross_attentions,
)
@add_start_docstrings(
"The bare MVP Model outputting raw hidden-states without any specific head on top.",
MVP_START_DOCSTRING,
)
class MvpModel(MvpPreTrainedModel):
_keys_to_ignore_on_load_unexpected = ["final_logits_bias"]
_tied_weights_keys = ["encoder.embed_tokens.weight", "decoder.embed_tokens.weight"]
def __init__(self, config: MvpConfig):
super().__init__(config)
padding_idx, vocab_size = config.pad_token_id, config.vocab_size
self.use_prompt = config.use_prompt
self.shared = nn.Embedding(vocab_size, config.d_model, padding_idx)
self.encoder = MvpEncoder(config, self.shared, config.use_prompt)
self.decoder = MvpDecoder(config, self.shared, config.use_prompt)
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.shared
def set_input_embeddings(self, value):
self.shared = value
self.encoder.embed_tokens = self.shared
self.decoder.embed_tokens = self.shared
def get_encoder(self):
return self.encoder
def get_decoder(self):
return self.decoder
def set_lightweight_tuning(self):
assert self.use_prompt, "If you want to use lightweight tuning, make sure that `use_prompt=True`."
self.requires_grad_(False)
self.encoder.self_attn_prompt.requires_grad_(True)
self.decoder.self_attn_prompt.requires_grad_(True)
self.decoder.cross_attn_prompt.requires_grad_(True)
@add_start_docstrings_to_model_forward(MVP_INPUTS_DOCSTRING)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=Seq2SeqModelOutput,
config_class=_CONFIG_FOR_DOC,
expected_output=_EXPECTED_OUTPUT_SHAPE,
)
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.Tensor] = None,
decoder_input_ids: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
decoder_head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[List[torch.FloatTensor]] = None,
past_key_values: Optional[List[torch.FloatTensor]] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, Seq2SeqModelOutput]:
# different to other models, Mvp automatically creates decoder_input_ids from
# input_ids if no decoder_input_ids are provided
if decoder_input_ids is None and decoder_inputs_embeds is None:
if input_ids is None:
raise ValueError(
"If no `decoder_input_ids` or `decoder_inputs_embeds` are "
"passed, `input_ids` cannot be `None`. Please pass either "
"`input_ids` or `decoder_input_ids` or `decoder_inputs_embeds`."
)
decoder_input_ids = shift_tokens_right(
input_ids, self.config.pad_token_id, self.config.decoder_start_token_id
)
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
use_cache = use_cache if use_cache is not None else self.config.use_cache
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if encoder_outputs is None:
encoder_outputs = self.encoder(
input_ids=input_ids,
attention_mask=attention_mask,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
# If the user passed a tuple for encoder_outputs, we wrap it in a BaseModelOutput when return_dict=True
elif return_dict and not isinstance(encoder_outputs, BaseModelOutput):
encoder_outputs = BaseModelOutput(
last_hidden_state=encoder_outputs[0],
hidden_states=encoder_outputs[1] if len(encoder_outputs) > 1 else None,
attentions=encoder_outputs[2] if len(encoder_outputs) > 2 else None,
)
# decoder outputs consists of (dec_features, past_key_value, dec_hidden, dec_attn)
decoder_outputs = self.decoder(
input_ids=decoder_input_ids,
attention_mask=decoder_attention_mask,
encoder_hidden_states=encoder_outputs[0],
encoder_attention_mask=attention_mask,
head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
past_key_values=past_key_values,
inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
if not return_dict:
return decoder_outputs + encoder_outputs
return Seq2SeqModelOutput(
last_hidden_state=decoder_outputs.last_hidden_state,
past_key_values=decoder_outputs.past_key_values,
decoder_hidden_states=decoder_outputs.hidden_states,
decoder_attentions=decoder_outputs.attentions,
cross_attentions=decoder_outputs.cross_attentions,
encoder_last_hidden_state=encoder_outputs.last_hidden_state,
encoder_hidden_states=encoder_outputs.hidden_states,
encoder_attentions=encoder_outputs.attentions,
)
@add_start_docstrings(
"The MVP Model with a language modeling head. Can be used for various text generation tasks.", MVP_START_DOCSTRING
)
class MvpForConditionalGeneration(MvpPreTrainedModel):
_tied_weights_keys = ["encoder.embed_tokens.weight", "decoder.embed_tokens.weight", "lm_head.weight"]
def __init__(self, config: MvpConfig):
super().__init__(config)
self.model = MvpModel(config)
self.register_buffer("final_logits_bias", torch.zeros((1, self.model.shared.num_embeddings)))
self.lm_head = nn.Linear(config.d_model, self.model.shared.num_embeddings, bias=False)
# Initialize weights and apply final processing
self.post_init()
def get_encoder(self):
return self.model.get_encoder()
def get_decoder(self):
return self.model.get_decoder()
def resize_token_embeddings(self, new_num_tokens: int) -> nn.Embedding:
new_embeddings = super().resize_token_embeddings(new_num_tokens)
self._resize_final_logits_bias(new_num_tokens)
return new_embeddings
def _resize_final_logits_bias(self, new_num_tokens: int) -> None:
old_num_tokens = self.final_logits_bias.shape[-1]
if new_num_tokens <= old_num_tokens:
new_bias = self.final_logits_bias[:, :new_num_tokens]
else:
extra_bias = torch.zeros((1, new_num_tokens - old_num_tokens), device=self.final_logits_bias.device)
new_bias = torch.cat([self.final_logits_bias, extra_bias], dim=1)
self.register_buffer("final_logits_bias", new_bias)
def get_output_embeddings(self):
return self.lm_head
def set_output_embeddings(self, new_embeddings):
self.lm_head = new_embeddings
def set_lightweight_tuning(self):
self.model.set_lightweight_tuning()
self.lm_head.requires_grad_(False)
@add_start_docstrings_to_model_forward(MVP_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=Seq2SeqLMOutput, config_class=_CONFIG_FOR_DOC)
@add_end_docstrings(MVP_CONDITIONAL_GENERATION_EXAMPLE)
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.Tensor] = None,
decoder_input_ids: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
decoder_head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[List[torch.FloatTensor]] = None,
past_key_values: Optional[List[torch.FloatTensor]] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, Seq2SeqLMOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the masked language modeling loss. Indices should either be in `[0, ...,
config.vocab_size]` or -100 (see `input_ids` docstring). Tokens with indices set to `-100` are ignored
(masked), the loss is only computed for the tokens with labels in `[0, ..., config.vocab_size]`.
Returns:
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if labels is not None:
if use_cache:
logger.warning("The `use_cache` argument is changed to `False` since `labels` is provided.")
use_cache = False
if decoder_input_ids is None and decoder_inputs_embeds is None:
decoder_input_ids = shift_tokens_right(
labels, self.config.pad_token_id, self.config.decoder_start_token_id
)
outputs = self.model(
input_ids,
attention_mask=attention_mask,
decoder_input_ids=decoder_input_ids,
encoder_outputs=encoder_outputs,
decoder_attention_mask=decoder_attention_mask,
head_mask=head_mask,
decoder_head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
past_key_values=past_key_values,
inputs_embeds=inputs_embeds,
decoder_inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
lm_logits = self.lm_head(outputs[0]) + self.final_logits_bias
masked_lm_loss = None
if labels is not None:
loss_fct = CrossEntropyLoss()
masked_lm_loss = loss_fct(lm_logits.view(-1, self.config.vocab_size), labels.view(-1))
if not return_dict:
output = (lm_logits,) + outputs[1:]
return ((masked_lm_loss,) + output) if masked_lm_loss is not None else output
return Seq2SeqLMOutput(
loss=masked_lm_loss,
logits=lm_logits,
past_key_values=outputs.past_key_values,
decoder_hidden_states=outputs.decoder_hidden_states,
decoder_attentions=outputs.decoder_attentions,
cross_attentions=outputs.cross_attentions,
encoder_last_hidden_state=outputs.encoder_last_hidden_state,
encoder_hidden_states=outputs.encoder_hidden_states,
encoder_attentions=outputs.encoder_attentions,
)
def prepare_inputs_for_generation(
self,
decoder_input_ids,
past_key_values=None,
attention_mask=None,
head_mask=None,
decoder_head_mask=None,
cross_attn_head_mask=None,
use_cache=None,
encoder_outputs=None,
**kwargs,
):
# cut decoder_input_ids if past is used
if past_key_values is not None:
decoder_input_ids = decoder_input_ids[:, -1:]
return {
"input_ids": None, # encoder_outputs is defined. input_ids not needed
"encoder_outputs": encoder_outputs,
"past_key_values": past_key_values,
"decoder_input_ids": decoder_input_ids,
"attention_mask": attention_mask,
"head_mask": head_mask,
"decoder_head_mask": decoder_head_mask,
"cross_attn_head_mask": cross_attn_head_mask,
"use_cache": use_cache, # change this to avoid caching (presumably for debugging)
}
def prepare_decoder_input_ids_from_labels(self, labels: torch.Tensor):
return shift_tokens_right(labels, self.config.pad_token_id, self.config.decoder_start_token_id)
@staticmethod
def _reorder_cache(past_key_values, beam_idx):
reordered_past = ()
for layer_past in past_key_values:
# cached cross_attention states don't have to be reordered -> they are always the same
reordered_past += (
tuple(past_state.index_select(0, beam_idx) for past_state in layer_past[:2]) + layer_past[2:],
)
return reordered_past
@add_start_docstrings(
"""
Mvp model with a sequence classification/head on top (a linear layer on top of the pooled output) e.g. for GLUE
tasks.
""",
MVP_START_DOCSTRING,
)
class MvpForSequenceClassification(MvpPreTrainedModel):
_tied_weights_keys = ["encoder.embed_tokens.weight", "decoder.embed_tokens.weight"]
def __init__(self, config: MvpConfig, **kwargs):
super().__init__(config, **kwargs)
self.model = MvpModel(config)
self.classification_head = MvpClassificationHead(
config.d_model,
config.d_model,
config.num_labels,
config.classifier_dropout,
)
# Initialize weights and apply final processing
self.post_init()
def set_lightweight_tuning(self):
self.model.set_lightweight_tuning()
self.classification_head.requires_grad_(False)
@add_start_docstrings_to_model_forward(MVP_INPUTS_DOCSTRING)
@add_end_docstrings(MVP_SEQUENCE_CLASSIFICATION_SAMPLE)
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.Tensor] = None,
decoder_input_ids: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
decoder_head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[List[torch.FloatTensor]] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, Seq2SeqSequenceClassifierOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for computing the sequence classification/regression loss. Indices should be in `[0, ...,
config.num_labels - 1]`. If `config.num_labels > 1` a classification loss is computed (Cross-Entropy).
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if labels is not None:
use_cache = False
if input_ids is None and inputs_embeds is not None:
raise NotImplementedError(
f"Passing input embeddings is currently not supported for {self.__class__.__name__}"
)
outputs = self.model(
input_ids,
attention_mask=attention_mask,
decoder_input_ids=decoder_input_ids,
decoder_attention_mask=decoder_attention_mask,
head_mask=head_mask,
decoder_head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
encoder_outputs=encoder_outputs,
inputs_embeds=inputs_embeds,
decoder_inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
hidden_states = outputs[0] # last hidden state
eos_mask = input_ids.eq(self.config.eos_token_id).to(hidden_states.device)
if len(torch.unique_consecutive(eos_mask.sum(1))) > 1:
raise ValueError("All examples must have the same number of <eos> tokens.")
sentence_representation = hidden_states[eos_mask, :].view(hidden_states.size(0), -1, hidden_states.size(-1))[
:, -1, :
]
logits = self.classification_head(sentence_representation)
loss = None
if labels is not None:
if self.config.problem_type is None:
if self.config.num_labels == 1:
self.config.problem_type = "regression"
elif self.config.num_labels > 1 and (labels.dtype == torch.long or labels.dtype == torch.int):
self.config.problem_type = "single_label_classification"
else:
self.config.problem_type = "multi_label_classification"
if self.config.problem_type == "regression":
loss_fct = MSELoss()
if self.config.num_labels == 1:
loss = loss_fct(logits.squeeze(), labels.squeeze())
else:
loss = loss_fct(logits, labels)
elif self.config.problem_type == "single_label_classification":
loss_fct = CrossEntropyLoss()
loss = loss_fct(logits.view(-1, self.config.num_labels), labels.view(-1))
elif self.config.problem_type == "multi_label_classification":
loss_fct = BCEWithLogitsLoss()
loss = loss_fct(logits, labels)
if not return_dict:
output = (logits,) + outputs[1:]
return ((loss,) + output) if loss is not None else output
return Seq2SeqSequenceClassifierOutput(
loss=loss,
logits=logits,
past_key_values=outputs.past_key_values,
decoder_hidden_states=outputs.decoder_hidden_states,
decoder_attentions=outputs.decoder_attentions,
cross_attentions=outputs.cross_attentions,
encoder_last_hidden_state=outputs.encoder_last_hidden_state,
encoder_hidden_states=outputs.encoder_hidden_states,
encoder_attentions=outputs.encoder_attentions,
)
@add_start_docstrings(
"""
MVP Model with a span classification head on top for extractive question-answering tasks like SQuAD (a linear layer
on top of the hidden-states output to compute `span start logits` and `span end logits`).
""",
MVP_START_DOCSTRING,
)
class MvpForQuestionAnswering(MvpPreTrainedModel):
_tied_weights_keys = ["encoder.embed_tokens.weight", "decoder.embed_tokens.weight"]
def __init__(self, config):
super().__init__(config)
config.num_labels = 2
self.num_labels = config.num_labels
self.model = MvpModel(config)
self.qa_outputs = nn.Linear(config.hidden_size, config.num_labels)
# Initialize weights and apply final processing
self.post_init()
def set_lightweight_tuning(self):
self.model.set_lightweight_tuning()
self.qa_outputs.requires_grad_(False)
@add_start_docstrings_to_model_forward(MVP_INPUTS_DOCSTRING)
@add_end_docstrings(MVP_QUESTION_ANSWERING_SAMPLE)
def forward(
self,
input_ids: torch.Tensor = None,
attention_mask: Optional[torch.Tensor] = None,
decoder_input_ids: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
decoder_head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[List[torch.FloatTensor]] = None,
start_positions: Optional[torch.LongTensor] = None,
end_positions: Optional[torch.LongTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, Seq2SeqQuestionAnsweringModelOutput]:
r"""
start_positions (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for position (index) of the start of the labelled span for computing the token classification loss.
Positions are clamped to the length of the sequence (*sequence_length*). Position outside of the sequence
are not taken into account for computing the loss.
end_positions (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for position (index) of the end of the labelled span for computing the token classification loss.
Positions are clamped to the length of the sequence (*sequence_length*). Position outside of the sequence
are not taken into account for computing the loss.
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if start_positions is not None and end_positions is not None:
use_cache = False
outputs = self.model(
input_ids,
attention_mask=attention_mask,
decoder_input_ids=decoder_input_ids,
decoder_attention_mask=decoder_attention_mask,
head_mask=head_mask,
decoder_head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
encoder_outputs=encoder_outputs,
inputs_embeds=inputs_embeds,
decoder_inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
logits = self.qa_outputs(sequence_output)
start_logits, end_logits = logits.split(1, dim=-1)
start_logits = start_logits.squeeze(-1).contiguous()
end_logits = end_logits.squeeze(-1).contiguous()
total_loss = None
if start_positions is not None and end_positions is not None:
# If we are on multi-GPU, split add a dimension
if len(start_positions.size()) > 1:
start_positions = start_positions.squeeze(-1)
if len(end_positions.size()) > 1:
end_positions = end_positions.squeeze(-1)
# sometimes the start/end positions are outside our model inputs, we ignore these terms
ignored_index = start_logits.size(1)
start_positions = start_positions.clamp(0, ignored_index)
end_positions = end_positions.clamp(0, ignored_index)
loss_fct = CrossEntropyLoss(ignore_index=ignored_index)
start_loss = loss_fct(start_logits, start_positions)
end_loss = loss_fct(end_logits, end_positions)
total_loss = (start_loss + end_loss) / 2
if not return_dict:
output = (
start_logits,
end_logits,
) + outputs[1:]
return ((total_loss,) + output) if total_loss is not None else output
return Seq2SeqQuestionAnsweringModelOutput(
loss=total_loss,
start_logits=start_logits,
end_logits=end_logits,
past_key_values=outputs.past_key_values,
decoder_hidden_states=outputs.decoder_hidden_states,
decoder_attentions=outputs.decoder_attentions,
cross_attentions=outputs.cross_attentions,
encoder_last_hidden_state=outputs.encoder_last_hidden_state,
encoder_hidden_states=outputs.encoder_hidden_states,
encoder_attentions=outputs.encoder_attentions,
)
# Copied from transformers.models.bart.modeling_bart.BartDecoderWrapper with Bart->Mvp
class MvpDecoderWrapper(MvpPreTrainedModel):
"""
This wrapper class is a helper class to correctly load pretrained checkpoints when the causal language model is
used in combination with the [`EncoderDecoderModel`] framework.
"""
def __init__(self, config):
super().__init__(config)
self.decoder = MvpDecoder(config)
def forward(self, *args, **kwargs):
return self.decoder(*args, **kwargs)
class MvpForCausalLM(MvpPreTrainedModel):
_tied_weights_keys = ["lm_head.weight"]
def __init__(self, config):
config = copy.deepcopy(config)
config.is_decoder = True
config.is_encoder_decoder = False
super().__init__(config)
self.model = MvpDecoderWrapper(config)
self.lm_head = nn.Linear(config.hidden_size, config.vocab_size, bias=False)
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.model.decoder.embed_tokens
def set_input_embeddings(self, value):
self.model.decoder.embed_tokens = value
def get_output_embeddings(self):
return self.lm_head
def set_output_embeddings(self, new_embeddings):
self.lm_head = new_embeddings
def set_decoder(self, decoder):
self.model.decoder = decoder
def get_decoder(self):
return self.model.decoder
def set_lightweight_tuning(self):
self.model.set_lightweight_tuning()
self.lm_head.requires_grad_(False)
@replace_return_docstrings(output_type=CausalLMOutputWithCrossAttentions, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.Tensor] = None,
encoder_hidden_states: Optional[torch.FloatTensor] = None,
encoder_attention_mask: Optional[torch.FloatTensor] = None,
head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
past_key_values: Optional[List[torch.FloatTensor]] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, CausalLMOutputWithCrossAttentions]:
r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you
provide it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
encoder_hidden_states (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention
if the model is configured as a decoder.
encoder_attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on the padding token indices of the encoder input. This mask is used
in the cross-attention if the model is configured as a decoder. Mask values selected in `[0, 1]`:
head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
cross_attn_head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the cross-attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
past_key_values (`tuple(tuple(torch.FloatTensor))`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
Tuple of `tuple(torch.FloatTensor)` of length `config.n_layers`, with each tuple having 2 tensors of
shape `(batch_size, num_heads, sequence_length, embed_size_per_head)`) and 2 additional tensors of
shape `(batch_size, num_heads, encoder_sequence_length, embed_size_per_head)`. The two additional
tensors are only required when the model is used as a decoder in a Sequence to Sequence model.
Contains pre-computed hidden-states (key and values in the self-attention blocks and in the
cross-attention blocks) that can be used (see `past_key_values` input) to speed up sequential decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those
that don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of
all `decoder_input_ids` of shape `(batch_size, sequence_length)`.
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the masked language modeling loss. Indices should either be in `[0, ...,
config.vocab_size]` or -100 (see `input_ids` docstring). Tokens with indices set to `-100` are ignored
(masked), the loss is only computed for the tokens with labels in `[0, ..., config.vocab_size]`.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding
(see `past_key_values`).
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors
for more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, MvpForCausalLM
>>> tokenizer = AutoTokenizer.from_pretrained("RUCAIBox/mvp")
>>> model = MvpForCausalLM.from_pretrained("RUCAIBox/mvp", add_cross_attention=False)
>>> inputs = tokenizer("Hello, my dog is cute", return_tensors="pt")
>>> outputs = model(**inputs)
>>> logits = outputs.logits
>>> list(logits.shape)
[1, 8, 50267]
```"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# decoder outputs consists of (dec_features, layer_state, dec_hidden, dec_attn)
outputs = self.model.decoder(
input_ids=input_ids,
attention_mask=attention_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
head_mask=head_mask,
cross_attn_head_mask=cross_attn_head_mask,
past_key_values=past_key_values,
inputs_embeds=inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
logits = self.lm_head(outputs[0])
loss = None
if labels is not None:
loss_fct = CrossEntropyLoss()
loss = loss_fct(logits.view(-1, self.config.vocab_size), labels.view(-1))
if not return_dict:
output = (logits,) + outputs[1:]
return (loss,) + output if loss is not None else output
return CausalLMOutputWithCrossAttentions(
loss=loss,
logits=logits,
past_key_values=outputs.past_key_values,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
cross_attentions=outputs.cross_attentions,
)
def prepare_inputs_for_generation(
self, input_ids, past_key_values=None, attention_mask=None, use_cache=None, **kwargs
):
# if model is used as a decoder in encoder-decoder model, the decoder attention mask is created on the fly
if attention_mask is None:
attention_mask = input_ids.new_ones(input_ids.shape)
if past_key_values:
input_ids = input_ids[:, -1:]
# first step, decoder_cached_states are empty
return {
"input_ids": input_ids, # encoder_outputs is defined. input_ids not needed
"attention_mask": attention_mask,
"past_key_values": past_key_values,
"use_cache": use_cache,
}
@staticmethod
def _reorder_cache(past_key_values, beam_idx):
reordered_past = ()
for layer_past in past_key_values:
reordered_past += (tuple(past_state.index_select(0, beam_idx) for past_state in layer_past),)
return reordered_past
| transformers-main | src/transformers/models/mvp/modeling_mvp.py |
# Copyright 2022 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import OptionalDependencyNotAvailable, _LazyModule, is_tokenizers_available, is_torch_available
_import_structure = {
"configuration_mvp": ["MVP_PRETRAINED_CONFIG_ARCHIVE_MAP", "MvpConfig", "MvpOnnxConfig"],
"tokenization_mvp": ["MvpTokenizer"],
}
try:
if not is_tokenizers_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["tokenization_mvp_fast"] = ["MvpTokenizerFast"]
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_mvp"] = [
"MVP_PRETRAINED_MODEL_ARCHIVE_LIST",
"MvpForCausalLM",
"MvpForConditionalGeneration",
"MvpForQuestionAnswering",
"MvpForSequenceClassification",
"MvpModel",
"MvpPreTrainedModel",
]
if TYPE_CHECKING:
from .configuration_mvp import MVP_PRETRAINED_CONFIG_ARCHIVE_MAP, MvpConfig, MvpOnnxConfig
from .tokenization_mvp import MvpTokenizer
try:
if not is_tokenizers_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .tokenization_mvp_fast import MvpTokenizerFast
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_mvp import (
MVP_PRETRAINED_MODEL_ARCHIVE_LIST,
MvpForCausalLM,
MvpForConditionalGeneration,
MvpForQuestionAnswering,
MvpForSequenceClassification,
MvpModel,
MvpPreTrainedModel,
)
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/mvp/__init__.py |
# coding=utf-8
# Copyright 2022 The Facebook AI Research Team Authors and The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
import json
from typing import List, Optional, Tuple
from tokenizers import pre_tokenizers, processors
from ...tokenization_utils_base import AddedToken, BatchEncoding
from ...tokenization_utils_fast import PreTrainedTokenizerFast
from ...utils import logging
from .tokenization_mvp import MvpTokenizer
logger = logging.get_logger(__name__)
VOCAB_FILES_NAMES = {"vocab_file": "vocab.json", "merges_file": "merges.txt", "tokenizer_file": "tokenizer.json"}
# See all MVP models at https://huggingface.co/models?filter=mvp
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"RUCAIBox/mvp": "https://huggingface.co/RUCAIBox/mvp/resolve/main/vocab.json",
},
"added_tokens.json": {
"RUCAIBox/mvp": "https://huggingface.co/RUCAIBox/mvp/resolve/main/added_tokens.json",
},
"merges_file": {
"RUCAIBox/mvp": "https://huggingface.co/RUCAIBox/mvp/resolve/main/merges.txt",
},
"tokenizer_file": {
"RUCAIBox/mvp": "https://huggingface.co/RUCAIBox/mvp/resolve/main/tokenizer.json",
},
}
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {
"RUCAIBox/mvp": 1024,
}
class MvpTokenizerFast(PreTrainedTokenizerFast):
r"""
Construct a "fast" MVP tokenizer (backed by HuggingFace's *tokenizers* library), derived from the GPT-2 tokenizer,
using byte-level Byte-Pair-Encoding.
This tokenizer has been trained to treat spaces like parts of the tokens (a bit like sentencepiece) so a word will
be encoded differently whether it is at the beginning of the sentence (without space) or not:
```python
>>> from transformers import MvpTokenizerFast
>>> tokenizer = MvpTokenizerFast.from_pretrained("RUCAIBox/mvp")
>>> tokenizer("Hello world")["input_ids"]
[0, 31414, 232, 2]
>>> tokenizer(" Hello world")["input_ids"]
[0, 20920, 232, 2]
```
You can get around that behavior by passing `add_prefix_space=True` when instantiating this tokenizer or when you
call it on some text, but since the model was not pretrained this way, it might yield a decrease in performance.
<Tip>
When used with `is_split_into_words=True`, this tokenizer needs to be instantiated with `add_prefix_space=True`.
</Tip>
This tokenizer inherits from [`PreTrainedTokenizerFast`] which contains most of the main methods. Users should
refer to this superclass for more information regarding those methods.
Args:
vocab_file (`str`):
Path to the vocabulary file.
merges_file (`str`):
Path to the merges file.
errors (`str`, *optional*, defaults to `"replace"`):
Paradigm to follow when decoding bytes to UTF-8. See
[bytes.decode](https://docs.python.org/3/library/stdtypes.html#bytes.decode) for more information.
bos_token (`str`, *optional*, defaults to `"<s>"`):
The beginning of sequence token that was used during pretraining. Can be used a sequence classifier token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the beginning of
sequence. The token used is the `cls_token`.
</Tip>
eos_token (`str`, *optional*, defaults to `"</s>"`):
The end of sequence token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the end of sequence.
The token used is the `sep_token`.
</Tip>
sep_token (`str`, *optional*, defaults to `"</s>"`):
The separator token, which is used when building a sequence from multiple sequences, e.g. two sequences for
sequence classification or for a text and a question for question answering. It is also used as the last
token of a sequence built with special tokens.
cls_token (`str`, *optional*, defaults to `"<s>"`):
The classifier token which is used when doing sequence classification (classification of the whole sequence
instead of per-token classification). It is the first token of the sequence when built with special tokens.
unk_token (`str`, *optional*, defaults to `"<unk>"`):
The unknown token. A token that is not in the vocabulary cannot be converted to an ID and is set to be this
token instead.
pad_token (`str`, *optional*, defaults to `"<pad>"`):
The token used for padding, for example when batching sequences of different lengths.
mask_token (`str`, *optional*, defaults to `"<mask>"`):
The token used for masking values. This is the token used when training this model with masked language
modeling. This is the token which the model will try to predict.
add_prefix_space (`bool`, *optional*, defaults to `False`):
Whether or not to add an initial space to the input. This allows to treat the leading word just as any
other word. (MVP tokenizer detect beginning of words by the preceding space).
trim_offsets (`bool`, *optional*, defaults to `True`):
Whether the post processing step should trim offsets to avoid including whitespaces.
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
model_input_names = ["input_ids", "attention_mask"]
slow_tokenizer_class = MvpTokenizer
def __init__(
self,
vocab_file=None,
merges_file=None,
tokenizer_file=None,
errors="replace",
bos_token="<s>",
eos_token="</s>",
sep_token="</s>",
cls_token="<s>",
unk_token="<unk>",
pad_token="<pad>",
mask_token="<mask>",
add_prefix_space=False,
trim_offsets=True,
**kwargs,
):
super().__init__(
vocab_file,
merges_file,
tokenizer_file=tokenizer_file,
errors=errors,
bos_token=bos_token,
eos_token=eos_token,
sep_token=sep_token,
cls_token=cls_token,
unk_token=unk_token,
pad_token=pad_token,
mask_token=mask_token,
add_prefix_space=add_prefix_space,
trim_offsets=trim_offsets,
**kwargs,
)
pre_tok_state = json.loads(self.backend_tokenizer.pre_tokenizer.__getstate__())
if pre_tok_state.get("add_prefix_space", add_prefix_space) != add_prefix_space:
pre_tok_class = getattr(pre_tokenizers, pre_tok_state.pop("type"))
pre_tok_state["add_prefix_space"] = add_prefix_space
self.backend_tokenizer.pre_tokenizer = pre_tok_class(**pre_tok_state)
self.add_prefix_space = add_prefix_space
# the pre_tokenizer is already updated in the GPT2TokenizerFast `__init__`
tokenizer_component = "post_processor"
tokenizer_component_instance = getattr(self.backend_tokenizer, tokenizer_component, None)
if tokenizer_component_instance:
state = json.loads(tokenizer_component_instance.__getstate__())
# The lists 'sep' and 'cls' must be cased in tuples for the object `post_processor_class`
if "sep" in state:
state["sep"] = tuple(state["sep"])
if "cls" in state:
state["cls"] = tuple(state["cls"])
changes_to_apply = False
if state.get("add_prefix_space", add_prefix_space) != add_prefix_space:
state["add_prefix_space"] = add_prefix_space
changes_to_apply = True
if state.get("trim_offsets", trim_offsets) != trim_offsets:
state["trim_offsets"] = trim_offsets
changes_to_apply = True
if changes_to_apply:
component_class = getattr(processors, state.pop("type"))
new_value = component_class(**state)
setattr(self.backend_tokenizer, tokenizer_component, new_value)
@property
def mask_token(self) -> str:
"""
`str`: Mask token, to use when training a model with masked-language modeling. Log an error if used while not
having been set.
MVP tokenizer has a special mask token to be usable in the fill-mask pipeline. The mask token will greedily
comprise the space before the *<mask>*.
"""
if self._mask_token is None:
if self.verbose:
logger.error("Using mask_token, but it is not set yet.")
return None
return str(self._mask_token)
@mask_token.setter
def mask_token(self, value):
"""
Overriding the default behavior of the mask token to have it eat the space before it.
This is needed to preserve backward compatibility with all the previously used models based on Mvp.
"""
# Mask token behave like a normal word, i.e. include the space before it
# So we set lstrip to True
value = AddedToken(value, lstrip=True, rstrip=False) if isinstance(value, str) else value
self._mask_token = value
def _batch_encode_plus(self, *args, **kwargs) -> BatchEncoding:
is_split_into_words = kwargs.get("is_split_into_words", False)
if is_split_into_words and not self.add_prefix_space:
raise ValueError(
f"You need to instantiate {self.__class__.__name__} with add_prefix_space=True "
"to use it with pretokenized inputs."
)
return super()._batch_encode_plus(*args, **kwargs)
def _encode_plus(self, *args, **kwargs) -> BatchEncoding:
is_split_into_words = kwargs.get("is_split_into_words", False)
if is_split_into_words and not self.add_prefix_space:
raise ValueError(
f"You need to instantiate {self.__class__.__name__} with add_prefix_space=True "
"to use it with pretokenized inputs."
)
return super()._encode_plus(*args, **kwargs)
def save_vocabulary(self, save_directory: str, filename_prefix: Optional[str] = None) -> Tuple[str]:
files = self._tokenizer.model.save(save_directory, name=filename_prefix)
return tuple(files)
def build_inputs_with_special_tokens(self, token_ids_0, token_ids_1=None):
output = [self.bos_token_id] + token_ids_0 + [self.eos_token_id]
if token_ids_1 is None:
return output
return output + [self.eos_token_id] + token_ids_1 + [self.eos_token_id]
def create_token_type_ids_from_sequences(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Create a mask from the two sequences passed to be used in a sequence-pair classification task. MVP does not
make use of token type ids, therefore a list of zeros is returned.
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of zeros.
"""
sep = [self.sep_token_id]
cls = [self.cls_token_id]
if token_ids_1 is None:
return len(cls + token_ids_0 + sep) * [0]
return len(cls + token_ids_0 + sep + sep + token_ids_1 + sep) * [0]
| transformers-main | src/transformers/models/mvp/tokenization_mvp_fast.py |
# coding=utf-8
# Copyright 2022 The Fairseq Authors and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" MVP model configuration"""
import warnings
from ...configuration_utils import PretrainedConfig
from ...utils import logging
logger = logging.get_logger(__name__)
MVP_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"RUCAIBox/mvp": "https://huggingface.co/RUCAIBox/mvp/resolve/main/config.json",
}
class MvpConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`MvpModel`]. It is used to instantiate a MVP model
according to the specified arguments, defining the model architecture. Instantiating a configuration with the
defaults will yield a similar configuration to that of the MVP [RUCAIBox/mvp](https://huggingface.co/RUCAIBox/mvp)
architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
vocab_size (`int`, *optional*, defaults to 50267):
Vocabulary size of the MVP model. Defines the number of different tokens that can be represented by the
`inputs_ids` passed when calling [`MvpModel`].
d_model (`int`, *optional*, defaults to 1024):
Dimensionality of the layers and the pooler layer.
encoder_layers (`int`, *optional*, defaults to 12):
Number of encoder layers.
decoder_layers (`int`, *optional*, defaults to 12):
Number of decoder layers.
encoder_attention_heads (`int`, *optional*, defaults to 16):
Number of attention heads for each attention layer in the Transformer encoder.
decoder_attention_heads (`int`, *optional*, defaults to 16):
Number of attention heads for each attention layer in the Transformer decoder.
decoder_ffn_dim (`int`, *optional*, defaults to 4096):
Dimensionality of the "intermediate" (often named feed-forward) layer in decoder.
encoder_ffn_dim (`int`, *optional*, defaults to 4096):
Dimensionality of the "intermediate" (often named feed-forward) layer in decoder.
activation_function (`str` or `function`, *optional*, defaults to `"gelu"`):
The non-linear activation function (function or string) in the encoder and pooler. If string, `"gelu"`,
`"relu"`, `"silu"` and `"gelu_new"` are supported.
dropout (`float`, *optional*, defaults to 0.1):
The dropout probability for all fully connected layers in the embeddings, encoder, and pooler.
attention_dropout (`float`, *optional*, defaults to 0.0):
The dropout ratio for the attention probabilities.
activation_dropout (`float`, *optional*, defaults to 0.0):
The dropout ratio for activations inside the fully connected layer.
classifier_dropout (`float`, *optional*, defaults to 0.0):
The dropout ratio for classifier.
max_position_embeddings (`int`, *optional*, defaults to 1024):
The maximum sequence length that this model might ever be used with. Typically set this to something large
just in case (e.g., 512 or 1024 or 2048).
init_std (`float`, *optional*, defaults to 0.02):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
encoder_layerdrop (`float`, *optional*, defaults to 0.0):
The LayerDrop probability for the encoder. See the [LayerDrop paper](see https://arxiv.org/abs/1909.11556)
for more details.
decoder_layerdrop (`float`, *optional*, defaults to 0.0):
The LayerDrop probability for the decoder. See the [LayerDrop paper](see https://arxiv.org/abs/1909.11556)
for more details.
scale_embedding (`bool`, *optional*, defaults to `False`):
Scale embeddings by diving by sqrt(d_model).
use_cache (`bool`, *optional*, defaults to `True`):
Whether or not the model should return the last key/values attentions (not used by all models).
forced_eos_token_id (`int`, *optional*, defaults to 2):
The id of the token to force as the last generated token when `max_length` is reached. Usually set to
`eos_token_id`.
use_prompt (`bool`, *optional*, defaults to `False`):
Whether or not to use prompt.
prompt_length (`int`, *optional*, defaults to 100):
The length of prompt.
prompt_mid_dim (`int`, *optional*, defaults to 800):
Dimensionality of the "intermediate" layer in prompt.
Example:
```python
>>> from transformers import MvpConfig, MvpModel
>>> # Initializing a MVP RUCAIBox/mvp style configuration
>>> configuration = MvpConfig()
>>> # Initializing a model (with random weights) from the RUCAIBox/mvp style configuration
>>> model = MvpModel(configuration)
>>> # Accessing the model configuration
>>> configuration = model.config
```"""
model_type = "mvp"
keys_to_ignore_at_inference = ["past_key_values"]
attribute_map = {"num_attention_heads": "encoder_attention_heads", "hidden_size": "d_model"}
def __init__(
self,
vocab_size=50267,
max_position_embeddings=1024,
encoder_layers=12,
encoder_ffn_dim=4096,
encoder_attention_heads=16,
decoder_layers=12,
decoder_ffn_dim=4096,
decoder_attention_heads=16,
encoder_layerdrop=0.0,
decoder_layerdrop=0.0,
activation_function="gelu",
d_model=1024,
dropout=0.1,
attention_dropout=0.0,
activation_dropout=0.0,
init_std=0.02,
classifier_dropout=0.0,
scale_embedding=False,
use_cache=True,
pad_token_id=1,
bos_token_id=0,
eos_token_id=2,
is_encoder_decoder=True,
decoder_start_token_id=2,
forced_eos_token_id=2,
use_prompt=False,
prompt_length=100,
prompt_mid_dim=800,
**kwargs,
):
self.vocab_size = vocab_size
self.max_position_embeddings = max_position_embeddings
self.d_model = d_model
self.encoder_ffn_dim = encoder_ffn_dim
self.encoder_layers = encoder_layers
self.encoder_attention_heads = encoder_attention_heads
self.decoder_ffn_dim = decoder_ffn_dim
self.decoder_layers = decoder_layers
self.decoder_attention_heads = decoder_attention_heads
self.dropout = dropout
self.attention_dropout = attention_dropout
self.activation_dropout = activation_dropout
self.activation_function = activation_function
self.init_std = init_std
self.encoder_layerdrop = encoder_layerdrop
self.decoder_layerdrop = decoder_layerdrop
self.classifier_dropout = classifier_dropout
self.use_cache = use_cache
self.num_hidden_layers = encoder_layers
self.scale_embedding = scale_embedding # scale factor will be sqrt(d_model) if True
self.use_prompt = use_prompt
self.prompt_length = prompt_length
self.prompt_mid_dim = prompt_mid_dim
super().__init__(
pad_token_id=pad_token_id,
bos_token_id=bos_token_id,
eos_token_id=eos_token_id,
is_encoder_decoder=is_encoder_decoder,
decoder_start_token_id=decoder_start_token_id,
forced_eos_token_id=forced_eos_token_id,
**kwargs,
)
if self.forced_bos_token_id is None and kwargs.get("force_bos_token_to_be_generated", False):
self.forced_bos_token_id = self.bos_token_id
warnings.warn(
f"Please make sure the config includes `forced_bos_token_id={self.bos_token_id}` in future versions. "
"The config can simply be saved and uploaded again to be fixed."
)
| transformers-main | src/transformers/models/mvp/configuration_mvp.py |
# coding=utf-8
# Copyright 2022 The Facebook AI Research Team Authors and The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
import json
import os
from functools import lru_cache
from typing import List, Optional, Tuple
import regex as re
from ...tokenization_utils import AddedToken, PreTrainedTokenizer
from ...utils import logging
logger = logging.get_logger(__name__)
VOCAB_FILES_NAMES = {"vocab_file": "vocab.json", "merges_file": "merges.txt"}
# See all MVP models at https://huggingface.co/models?filter=mvp
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"RUCAIBox/mvp": "https://huggingface.co/RUCAIBox/mvp/resolve/main/vocab.json",
},
"added_tokens.json": {
"RUCAIBox/mvp": "https://huggingface.co/RUCAIBox/mvp/resolve/main/added_tokens.json",
},
"merges_file": {
"RUCAIBox/mvp": "https://huggingface.co/RUCAIBox/mvp/resolve/main/merges.txt",
},
}
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {
"RUCAIBox/mvp": 1024,
}
@lru_cache()
def bytes_to_unicode():
"""
Returns list of utf-8 byte and a mapping to unicode strings. We specifically avoids mapping to whitespace/control
characters the bpe code barfs on.
The reversible bpe codes work on unicode strings. This means you need a large # of unicode characters in your vocab
if you want to avoid UNKs. When you're at something like a 10B token dataset you end up needing around 5K for
decent coverage. This is a significant percentage of your normal, say, 32K bpe vocab. To avoid that, we want lookup
tables between utf-8 bytes and unicode strings.
"""
bs = (
list(range(ord("!"), ord("~") + 1)) + list(range(ord("¡"), ord("¬") + 1)) + list(range(ord("®"), ord("ÿ") + 1))
)
cs = bs[:]
n = 0
for b in range(2**8):
if b not in bs:
bs.append(b)
cs.append(2**8 + n)
n += 1
cs = [chr(n) for n in cs]
return dict(zip(bs, cs))
def get_pairs(word):
"""
Return set of symbol pairs in a word.
Word is represented as tuple of symbols (symbols being variable-length strings).
"""
pairs = set()
prev_char = word[0]
for char in word[1:]:
pairs.add((prev_char, char))
prev_char = char
return pairs
class MvpTokenizer(PreTrainedTokenizer):
"""
Constructs a MVP tokenizer, which is smilar to the RoBERTa tokenizer, using byte-level Byte-Pair-Encoding.
This tokenizer has been trained to treat spaces like parts of the tokens (a bit like sentencepiece) so a word will
be encoded differently whether it is at the beginning of the sentence (without space) or not:
```python
>>> from transformers import MvpTokenizer
>>> tokenizer = MvpTokenizer.from_pretrained("RUCAIBox/mvp")
>>> tokenizer("Hello world")["input_ids"]
[0, 31414, 232, 2]
>>> tokenizer(" Hello world")["input_ids"]
[0, 20920, 232, 2]
```
You can get around that behavior by passing `add_prefix_space=True` when instantiating this tokenizer or when you
call it on some text, but since the model was not pretrained this way, it might yield a decrease in performance.
<Tip>
When used with `is_split_into_words=True`, this tokenizer will add a space before each word (even the first one).
</Tip>
This tokenizer inherits from [`PreTrainedTokenizer`] which contains most of the main methods. Users should refer to
this superclass for more information regarding those methods.
Args:
vocab_file (`str`):
Path to the vocabulary file.
merges_file (`str`):
Path to the merges file.
errors (`str`, *optional*, defaults to `"replace"`):
Paradigm to follow when decoding bytes to UTF-8. See
[bytes.decode](https://docs.python.org/3/library/stdtypes.html#bytes.decode) for more information.
bos_token (`str`, *optional*, defaults to `"<s>"`):
The beginning of sequence token that was used during pretraining. Can be used a sequence classifier token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the beginning of
sequence. The token used is the `cls_token`.
</Tip>
eos_token (`str`, *optional*, defaults to `"</s>"`):
The end of sequence token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the end of sequence.
The token used is the `sep_token`.
</Tip>
sep_token (`str`, *optional*, defaults to `"</s>"`):
The separator token, which is used when building a sequence from multiple sequences, e.g. two sequences for
sequence classification or for a text and a question for question answering. It is also used as the last
token of a sequence built with special tokens.
cls_token (`str`, *optional*, defaults to `"<s>"`):
The classifier token which is used when doing sequence classification (classification of the whole sequence
instead of per-token classification). It is the first token of the sequence when built with special tokens.
unk_token (`str`, *optional*, defaults to `"<unk>"`):
The unknown token. A token that is not in the vocabulary cannot be converted to an ID and is set to be this
token instead.
pad_token (`str`, *optional*, defaults to `"<pad>"`):
The token used for padding, for example when batching sequences of different lengths.
mask_token (`str`, *optional*, defaults to `"<mask>"`):
The token used for masking values. This is the token used when training this model with masked language
modeling. This is the token which the model will try to predict.
add_prefix_space (`bool`, *optional*, defaults to `False`):
Whether or not to add an initial space to the input. This allows to treat the leading word just as any
other word. (MVP tokenizer detect beginning of words by the preceding space).
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
model_input_names = ["input_ids", "attention_mask"]
def __init__(
self,
vocab_file,
merges_file,
errors="replace",
bos_token="<s>",
eos_token="</s>",
sep_token="</s>",
cls_token="<s>",
unk_token="<unk>",
pad_token="<pad>",
mask_token="<mask>",
add_prefix_space=False,
**kwargs,
):
bos_token = AddedToken(bos_token, lstrip=False, rstrip=False) if isinstance(bos_token, str) else bos_token
eos_token = AddedToken(eos_token, lstrip=False, rstrip=False) if isinstance(eos_token, str) else eos_token
sep_token = AddedToken(sep_token, lstrip=False, rstrip=False) if isinstance(sep_token, str) else sep_token
cls_token = AddedToken(cls_token, lstrip=False, rstrip=False) if isinstance(cls_token, str) else cls_token
unk_token = AddedToken(unk_token, lstrip=False, rstrip=False) if isinstance(unk_token, str) else unk_token
pad_token = AddedToken(pad_token, lstrip=False, rstrip=False) if isinstance(pad_token, str) else pad_token
# Mask token behave like a normal word, i.e. include the space before it
mask_token = AddedToken(mask_token, lstrip=True, rstrip=False) if isinstance(mask_token, str) else mask_token
super().__init__(
errors=errors,
bos_token=bos_token,
eos_token=eos_token,
unk_token=unk_token,
sep_token=sep_token,
cls_token=cls_token,
pad_token=pad_token,
mask_token=mask_token,
add_prefix_space=add_prefix_space,
**kwargs,
)
with open(vocab_file, encoding="utf-8") as vocab_handle:
self.encoder = json.load(vocab_handle)
self.decoder = {v: k for k, v in self.encoder.items()}
self.errors = errors # how to handle errors in decoding
self.byte_encoder = bytes_to_unicode()
self.byte_decoder = {v: k for k, v in self.byte_encoder.items()}
with open(merges_file, encoding="utf-8") as merges_handle:
bpe_merges = merges_handle.read().split("\n")[1:-1]
bpe_merges = [tuple(merge.split()) for merge in bpe_merges]
self.bpe_ranks = dict(zip(bpe_merges, range(len(bpe_merges))))
self.cache = {}
self.add_prefix_space = add_prefix_space
# Should have added re.IGNORECASE so BPE merges can happen for capitalized versions of contractions
self.pat = re.compile(r"""'s|'t|'re|'ve|'m|'ll|'d| ?\p{L}+| ?\p{N}+| ?[^\s\p{L}\p{N}]+|\s+(?!\S)|\s+""")
@property
def vocab_size(self):
return len(self.encoder)
def get_vocab(self):
return dict(self.encoder, **self.added_tokens_encoder)
def bpe(self, token):
if token in self.cache:
return self.cache[token]
word = tuple(token)
pairs = get_pairs(word)
if not pairs:
return token
while True:
bigram = min(pairs, key=lambda pair: self.bpe_ranks.get(pair, float("inf")))
if bigram not in self.bpe_ranks:
break
first, second = bigram
new_word = []
i = 0
while i < len(word):
try:
j = word.index(first, i)
except ValueError:
new_word.extend(word[i:])
break
else:
new_word.extend(word[i:j])
i = j
if word[i] == first and i < len(word) - 1 and word[i + 1] == second:
new_word.append(first + second)
i += 2
else:
new_word.append(word[i])
i += 1
new_word = tuple(new_word)
word = new_word
if len(word) == 1:
break
else:
pairs = get_pairs(word)
word = " ".join(word)
self.cache[token] = word
return word
def _tokenize(self, text):
"""Tokenize a string."""
bpe_tokens = []
for token in re.findall(self.pat, text):
token = "".join(
self.byte_encoder[b] for b in token.encode("utf-8")
) # Maps all our bytes to unicode strings, avoiding control tokens of the BPE (spaces in our case)
bpe_tokens.extend(bpe_token for bpe_token in self.bpe(token).split(" "))
return bpe_tokens
def _convert_token_to_id(self, token):
"""Converts a token (str) in an id using the vocab."""
return self.encoder.get(token, self.encoder.get(self.unk_token))
def _convert_id_to_token(self, index):
"""Converts an index (integer) in a token (str) using the vocab."""
return self.decoder.get(index)
def convert_tokens_to_string(self, tokens):
"""Converts a sequence of tokens (string) in a single string."""
text = "".join(tokens)
text = bytearray([self.byte_decoder[c] for c in text]).decode("utf-8", errors=self.errors)
return text
def save_vocabulary(self, save_directory: str, filename_prefix: Optional[str] = None) -> Tuple[str]:
if not os.path.isdir(save_directory):
logger.error(f"Vocabulary path ({save_directory}) should be a directory")
return
vocab_file = os.path.join(
save_directory, (filename_prefix + "-" if filename_prefix else "") + VOCAB_FILES_NAMES["vocab_file"]
)
merge_file = os.path.join(
save_directory, (filename_prefix + "-" if filename_prefix else "") + VOCAB_FILES_NAMES["merges_file"]
)
with open(vocab_file, "w", encoding="utf-8") as f:
f.write(json.dumps(self.encoder, indent=2, sort_keys=True, ensure_ascii=False) + "\n")
index = 0
with open(merge_file, "w", encoding="utf-8") as writer:
writer.write("#version: 0.2\n")
for bpe_tokens, token_index in sorted(self.bpe_ranks.items(), key=lambda kv: kv[1]):
if index != token_index:
logger.warning(
f"Saving vocabulary to {merge_file}: BPE merge indices are not consecutive."
" Please check that the tokenizer is not corrupted!"
)
index = token_index
writer.write(" ".join(bpe_tokens) + "\n")
index += 1
return vocab_file, merge_file
def build_inputs_with_special_tokens(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Build model inputs from a sequence or a pair of sequence for sequence classification tasks by concatenating and
adding special tokens. A MVP sequence has the following format:
- single sequence: `<s> X </s>`
- pair of sequences: `<s> A </s></s> B </s>`
Args:
token_ids_0 (`List[int]`):
List of IDs to which the special tokens will be added.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of [input IDs](../glossary#input-ids) with the appropriate special tokens.
"""
if token_ids_1 is None:
return [self.cls_token_id] + token_ids_0 + [self.sep_token_id]
cls = [self.cls_token_id]
sep = [self.sep_token_id]
return cls + token_ids_0 + sep + sep + token_ids_1 + sep
def get_special_tokens_mask(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None, already_has_special_tokens: bool = False
) -> List[int]:
"""
Retrieve sequence ids from a token list that has no special tokens added. This method is called when adding
special tokens using the tokenizer `prepare_for_model` method.
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
already_has_special_tokens (`bool`, *optional*, defaults to `False`):
Whether or not the token list is already formatted with special tokens for the model.
Returns:
`List[int]`: A list of integers in the range [0, 1]: 1 for a special token, 0 for a sequence token.
"""
if already_has_special_tokens:
return super().get_special_tokens_mask(
token_ids_0=token_ids_0, token_ids_1=token_ids_1, already_has_special_tokens=True
)
if token_ids_1 is None:
return [1] + ([0] * len(token_ids_0)) + [1]
return [1] + ([0] * len(token_ids_0)) + [1, 1] + ([0] * len(token_ids_1)) + [1]
def create_token_type_ids_from_sequences(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Create a mask from the two sequences passed to be used in a sequence-pair classification task. MVP does not
make use of token type ids, therefore a list of zeros is returned.
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of zeros.
"""
sep = [self.sep_token_id]
cls = [self.cls_token_id]
if token_ids_1 is None:
return len(cls + token_ids_0 + sep) * [0]
return len(cls + token_ids_0 + sep + sep + token_ids_1 + sep) * [0]
def prepare_for_tokenization(self, text, is_split_into_words=False, **kwargs):
add_prefix_space = kwargs.pop("add_prefix_space", self.add_prefix_space)
if (is_split_into_words or add_prefix_space) and (len(text) > 0 and not text[0].isspace()):
text = " " + text
return (text, kwargs)
| transformers-main | src/transformers/models/mvp/tokenization_mvp.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Convert Donut checkpoints using the original `donut-python` library. URL: https://github.com/clovaai/donut"""
import argparse
import torch
from datasets import load_dataset
from donut import DonutModel
from transformers import (
DonutImageProcessor,
DonutProcessor,
DonutSwinConfig,
DonutSwinModel,
MBartConfig,
MBartForCausalLM,
VisionEncoderDecoderModel,
XLMRobertaTokenizerFast,
)
def get_configs(model):
original_config = model.config
encoder_config = DonutSwinConfig(
image_size=original_config.input_size,
patch_size=4,
depths=original_config.encoder_layer,
num_heads=[4, 8, 16, 32],
window_size=original_config.window_size,
embed_dim=128,
)
decoder_config = MBartConfig(
is_decoder=True,
is_encoder_decoder=False,
add_cross_attention=True,
decoder_layers=original_config.decoder_layer,
max_position_embeddings=original_config.max_position_embeddings,
vocab_size=len(
model.decoder.tokenizer
), # several special tokens are added to the vocab of XLMRobertaTokenizer, see repo on the hub (added_tokens.json)
scale_embedding=True,
add_final_layer_norm=True,
)
return encoder_config, decoder_config
def rename_key(name):
if "encoder.model" in name:
name = name.replace("encoder.model", "encoder")
if "decoder.model" in name:
name = name.replace("decoder.model", "decoder")
if "patch_embed.proj" in name:
name = name.replace("patch_embed.proj", "embeddings.patch_embeddings.projection")
if "patch_embed.norm" in name:
name = name.replace("patch_embed.norm", "embeddings.norm")
if name.startswith("encoder"):
if "layers" in name:
name = "encoder." + name
if "attn.proj" in name:
name = name.replace("attn.proj", "attention.output.dense")
if "attn" in name and "mask" not in name:
name = name.replace("attn", "attention.self")
if "norm1" in name:
name = name.replace("norm1", "layernorm_before")
if "norm2" in name:
name = name.replace("norm2", "layernorm_after")
if "mlp.fc1" in name:
name = name.replace("mlp.fc1", "intermediate.dense")
if "mlp.fc2" in name:
name = name.replace("mlp.fc2", "output.dense")
if name == "encoder.norm.weight":
name = "encoder.layernorm.weight"
if name == "encoder.norm.bias":
name = "encoder.layernorm.bias"
return name
def convert_state_dict(orig_state_dict, model):
for key in orig_state_dict.copy().keys():
val = orig_state_dict.pop(key)
if "qkv" in key:
key_split = key.split(".")
layer_num = int(key_split[3])
block_num = int(key_split[5])
dim = model.encoder.encoder.layers[layer_num].blocks[block_num].attention.self.all_head_size
if "weight" in key:
orig_state_dict[
f"encoder.encoder.layers.{layer_num}.blocks.{block_num}.attention.self.query.weight"
] = val[:dim, :]
orig_state_dict[
f"encoder.encoder.layers.{layer_num}.blocks.{block_num}.attention.self.key.weight"
] = val[dim : dim * 2, :]
orig_state_dict[
f"encoder.encoder.layers.{layer_num}.blocks.{block_num}.attention.self.value.weight"
] = val[-dim:, :]
else:
orig_state_dict[
f"encoder.encoder.layers.{layer_num}.blocks.{block_num}.attention.self.query.bias"
] = val[:dim]
orig_state_dict[
f"encoder.encoder.layers.{layer_num}.blocks.{block_num}.attention.self.key.bias"
] = val[dim : dim * 2]
orig_state_dict[
f"encoder.encoder.layers.{layer_num}.blocks.{block_num}.attention.self.value.bias"
] = val[-dim:]
elif "attn_mask" in key or key in ["encoder.model.norm.weight", "encoder.model.norm.bias"]:
# HuggingFace implementation doesn't use attn_mask buffer
# and model doesn't use final LayerNorms for the encoder
pass
else:
orig_state_dict[rename_key(key)] = val
return orig_state_dict
def convert_donut_checkpoint(model_name, pytorch_dump_folder_path=None, push_to_hub=False):
# load original model
original_model = DonutModel.from_pretrained(model_name).eval()
# load HuggingFace model
encoder_config, decoder_config = get_configs(original_model)
encoder = DonutSwinModel(encoder_config)
decoder = MBartForCausalLM(decoder_config)
model = VisionEncoderDecoderModel(encoder=encoder, decoder=decoder)
model.eval()
state_dict = original_model.state_dict()
new_state_dict = convert_state_dict(state_dict, model)
model.load_state_dict(new_state_dict)
# verify results on scanned document
dataset = load_dataset("hf-internal-testing/example-documents")
image = dataset["test"][0]["image"].convert("RGB")
tokenizer = XLMRobertaTokenizerFast.from_pretrained(model_name, from_slow=True)
image_processor = DonutImageProcessor(
do_align_long_axis=original_model.config.align_long_axis, size=original_model.config.input_size[::-1]
)
processor = DonutProcessor(image_processor, tokenizer)
pixel_values = processor(image, return_tensors="pt").pixel_values
if model_name == "naver-clova-ix/donut-base-finetuned-docvqa":
task_prompt = "<s_docvqa><s_question>{user_input}</s_question><s_answer>"
question = "When is the coffee break?"
task_prompt = task_prompt.replace("{user_input}", question)
elif model_name == "naver-clova-ix/donut-base-finetuned-rvlcdip":
task_prompt = "<s_rvlcdip>"
elif model_name in [
"naver-clova-ix/donut-base-finetuned-cord-v1",
"naver-clova-ix/donut-base-finetuned-cord-v1-2560",
]:
task_prompt = "<s_cord>"
elif model_name == "naver-clova-ix/donut-base-finetuned-cord-v2":
task_prompt = "s_cord-v2>"
elif model_name == "naver-clova-ix/donut-base-finetuned-zhtrainticket":
task_prompt = "<s_zhtrainticket>"
elif model_name in ["naver-clova-ix/donut-proto", "naver-clova-ix/donut-base"]:
# use a random prompt
task_prompt = "hello world"
else:
raise ValueError("Model name not supported")
prompt_tensors = original_model.decoder.tokenizer(task_prompt, add_special_tokens=False, return_tensors="pt")[
"input_ids"
]
original_patch_embed = original_model.encoder.model.patch_embed(pixel_values)
patch_embeddings, _ = model.encoder.embeddings(pixel_values)
assert torch.allclose(original_patch_embed, patch_embeddings, atol=1e-3)
# verify encoder hidden states
original_last_hidden_state = original_model.encoder(pixel_values)
last_hidden_state = model.encoder(pixel_values).last_hidden_state
assert torch.allclose(original_last_hidden_state, last_hidden_state, atol=1e-2)
# verify decoder hidden states
original_logits = original_model(pixel_values, prompt_tensors, None).logits
logits = model(pixel_values, decoder_input_ids=prompt_tensors).logits
assert torch.allclose(original_logits, logits, atol=1e-3)
print("Looks ok!")
if pytorch_dump_folder_path is not None:
print(f"Saving model and processor to {pytorch_dump_folder_path}")
model.save_pretrained(pytorch_dump_folder_path)
processor.save_pretrained(pytorch_dump_folder_path)
if push_to_hub:
model.push_to_hub("nielsr/" + model_name.split("/")[-1], commit_message="Update model")
processor.push_to_hub("nielsr/" + model_name.split("/")[-1], commit_message="Update model")
if __name__ == "__main__":
parser = argparse.ArgumentParser()
# Required parameters
parser.add_argument(
"--model_name",
default="naver-clova-ix/donut-base-finetuned-docvqa",
required=False,
type=str,
help="Name of the original model you'd like to convert.",
)
parser.add_argument(
"--pytorch_dump_folder_path",
default=None,
required=False,
type=str,
help="Path to the output PyTorch model directory.",
)
parser.add_argument(
"--push_to_hub",
action="store_true",
help="Whether or not to push the converted model and processor to the 🤗 hub.",
)
args = parser.parse_args()
convert_donut_checkpoint(args.model_name, args.pytorch_dump_folder_path, args.push_to_hub)
| transformers-main | src/transformers/models/donut/convert_donut_to_pytorch.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" Donut Swin Transformer model configuration"""
from ...configuration_utils import PretrainedConfig
from ...utils import logging
logger = logging.get_logger(__name__)
DONUT_SWIN_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"naver-clova-ix/donut-base": "https://huggingface.co/naver-clova-ix/donut-base/resolve/main/config.json",
# See all Donut models at https://huggingface.co/models?filter=donut-swin
}
class DonutSwinConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`DonutSwinModel`]. It is used to instantiate a
Donut model according to the specified arguments, defining the model architecture. Instantiating a configuration
with the defaults will yield a similar configuration to that of the Donut
[naver-clova-ix/donut-base](https://huggingface.co/naver-clova-ix/donut-base) architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
image_size (`int`, *optional*, defaults to 224):
The size (resolution) of each image.
patch_size (`int`, *optional*, defaults to 4):
The size (resolution) of each patch.
num_channels (`int`, *optional*, defaults to 3):
The number of input channels.
embed_dim (`int`, *optional*, defaults to 96):
Dimensionality of patch embedding.
depths (`list(int)`, *optional*, defaults to [2, 2, 6, 2]):
Depth of each layer in the Transformer encoder.
num_heads (`list(int)`, *optional*, defaults to [3, 6, 12, 24]):
Number of attention heads in each layer of the Transformer encoder.
window_size (`int`, *optional*, defaults to 7):
Size of windows.
mlp_ratio (`float`, *optional*, defaults to 4.0):
Ratio of MLP hidden dimensionality to embedding dimensionality.
qkv_bias (`bool`, *optional*, defaults to True):
Whether or not a learnable bias should be added to the queries, keys and values.
hidden_dropout_prob (`float`, *optional*, defaults to 0.0):
The dropout probability for all fully connected layers in the embeddings and encoder.
attention_probs_dropout_prob (`float`, *optional*, defaults to 0.0):
The dropout ratio for the attention probabilities.
drop_path_rate (`float`, *optional*, defaults to 0.1):
Stochastic depth rate.
hidden_act (`str` or `function`, *optional*, defaults to `"gelu"`):
The non-linear activation function (function or string) in the encoder. If string, `"gelu"`, `"relu"`,
`"selu"` and `"gelu_new"` are supported.
use_absolute_embeddings (`bool`, *optional*, defaults to False):
Whether or not to add absolute position embeddings to the patch embeddings.
initializer_range (`float`, *optional*, defaults to 0.02):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
layer_norm_eps (`float`, *optional*, defaults to 1e-12):
The epsilon used by the layer normalization layers.
Example:
```python
>>> from transformers import DonutSwinConfig, DonutSwinModel
>>> # Initializing a Donut naver-clova-ix/donut-base style configuration
>>> configuration = DonutSwinConfig()
>>> # Randomly initializing a model from the naver-clova-ix/donut-base style configuration
>>> model = DonutSwinModel(configuration)
>>> # Accessing the model configuration
>>> configuration = model.config
```"""
model_type = "donut-swin"
attribute_map = {
"num_attention_heads": "num_heads",
"num_hidden_layers": "num_layers",
}
def __init__(
self,
image_size=224,
patch_size=4,
num_channels=3,
embed_dim=96,
depths=[2, 2, 6, 2],
num_heads=[3, 6, 12, 24],
window_size=7,
mlp_ratio=4.0,
qkv_bias=True,
hidden_dropout_prob=0.0,
attention_probs_dropout_prob=0.0,
drop_path_rate=0.1,
hidden_act="gelu",
use_absolute_embeddings=False,
initializer_range=0.02,
layer_norm_eps=1e-5,
**kwargs,
):
super().__init__(**kwargs)
self.image_size = image_size
self.patch_size = patch_size
self.num_channels = num_channels
self.embed_dim = embed_dim
self.depths = depths
self.num_layers = len(depths)
self.num_heads = num_heads
self.window_size = window_size
self.mlp_ratio = mlp_ratio
self.qkv_bias = qkv_bias
self.hidden_dropout_prob = hidden_dropout_prob
self.attention_probs_dropout_prob = attention_probs_dropout_prob
self.drop_path_rate = drop_path_rate
self.hidden_act = hidden_act
self.use_absolute_embeddings = use_absolute_embeddings
self.layer_norm_eps = layer_norm_eps
self.initializer_range = initializer_range
# we set the hidden_size attribute in order to make Swin work with VisionEncoderDecoderModel
# this indicates the channel dimension after the last stage of the model
self.hidden_size = int(embed_dim * 2 ** (len(depths) - 1))
| transformers-main | src/transformers/models/donut/configuration_donut_swin.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch Donut Swin Transformer model.
This implementation is identical to a regular Swin Transformer, without final layer norm on top of the final hidden
states."""
import collections.abc
import math
from dataclasses import dataclass
from typing import Optional, Tuple, Union
import torch
import torch.utils.checkpoint
from torch import nn
from ...activations import ACT2FN
from ...modeling_utils import PreTrainedModel
from ...pytorch_utils import find_pruneable_heads_and_indices, meshgrid, prune_linear_layer
from ...utils import (
ModelOutput,
add_code_sample_docstrings,
add_start_docstrings,
add_start_docstrings_to_model_forward,
logging,
)
from .configuration_donut_swin import DonutSwinConfig
logger = logging.get_logger(__name__)
# General docstring
_CONFIG_FOR_DOC = "DonutSwinConfig"
# Base docstring
_CHECKPOINT_FOR_DOC = "https://huggingface.co/naver-clova-ix/donut-base"
_EXPECTED_OUTPUT_SHAPE = [1, 49, 768]
DONUT_SWIN_PRETRAINED_MODEL_ARCHIVE_LIST = [
"naver-clova-ix/donut-base",
# See all Donut Swin models at https://huggingface.co/models?filter=donut
]
@dataclass
# Copied from transformers.models.swin.modeling_swin.SwinEncoderOutput with Swin->DonutSwin
class DonutSwinEncoderOutput(ModelOutput):
"""
DonutSwin encoder's outputs, with potential hidden states and attentions.
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the model.
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each stage) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
reshaped_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, hidden_size, height, width)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs reshaped to
include the spatial dimensions.
"""
last_hidden_state: torch.FloatTensor = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
reshaped_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
# Copied from transformers.models.swin.modeling_swin.SwinModelOutput with Swin->DonutSwin
class DonutSwinModelOutput(ModelOutput):
"""
DonutSwin model's outputs that also contains a pooling of the last hidden states.
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the model.
pooler_output (`torch.FloatTensor` of shape `(batch_size, hidden_size)`, *optional*, returned when `add_pooling_layer=True` is passed):
Average pooling of the last layer hidden-state.
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each stage) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
reshaped_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, hidden_size, height, width)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs reshaped to
include the spatial dimensions.
"""
last_hidden_state: torch.FloatTensor = None
pooler_output: Optional[torch.FloatTensor] = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
reshaped_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
# Copied from transformers.models.swin.modeling_swin.window_partition
def window_partition(input_feature, window_size):
"""
Partitions the given input into windows.
"""
batch_size, height, width, num_channels = input_feature.shape
input_feature = input_feature.view(
batch_size, height // window_size, window_size, width // window_size, window_size, num_channels
)
windows = input_feature.permute(0, 1, 3, 2, 4, 5).contiguous().view(-1, window_size, window_size, num_channels)
return windows
# Copied from transformers.models.swin.modeling_swin.window_reverse
def window_reverse(windows, window_size, height, width):
"""
Merges windows to produce higher resolution features.
"""
num_channels = windows.shape[-1]
windows = windows.view(-1, height // window_size, width // window_size, window_size, window_size, num_channels)
windows = windows.permute(0, 1, 3, 2, 4, 5).contiguous().view(-1, height, width, num_channels)
return windows
# Copied from transformers.models.swin.modeling_swin.SwinEmbeddings with Swin->DonutSwin
class DonutSwinEmbeddings(nn.Module):
"""
Construct the patch and position embeddings. Optionally, also the mask token.
"""
def __init__(self, config, use_mask_token=False):
super().__init__()
self.patch_embeddings = DonutSwinPatchEmbeddings(config)
num_patches = self.patch_embeddings.num_patches
self.patch_grid = self.patch_embeddings.grid_size
self.mask_token = nn.Parameter(torch.zeros(1, 1, config.embed_dim)) if use_mask_token else None
if config.use_absolute_embeddings:
self.position_embeddings = nn.Parameter(torch.zeros(1, num_patches + 1, config.embed_dim))
else:
self.position_embeddings = None
self.norm = nn.LayerNorm(config.embed_dim)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
def forward(
self, pixel_values: Optional[torch.FloatTensor], bool_masked_pos: Optional[torch.BoolTensor] = None
) -> Tuple[torch.Tensor]:
embeddings, output_dimensions = self.patch_embeddings(pixel_values)
embeddings = self.norm(embeddings)
batch_size, seq_len, _ = embeddings.size()
if bool_masked_pos is not None:
mask_tokens = self.mask_token.expand(batch_size, seq_len, -1)
# replace the masked visual tokens by mask_tokens
mask = bool_masked_pos.unsqueeze(-1).type_as(mask_tokens)
embeddings = embeddings * (1.0 - mask) + mask_tokens * mask
if self.position_embeddings is not None:
embeddings = embeddings + self.position_embeddings
embeddings = self.dropout(embeddings)
return embeddings, output_dimensions
# Copied from transformers.models.swin.modeling_swin.SwinPatchEmbeddings
class DonutSwinPatchEmbeddings(nn.Module):
"""
This class turns `pixel_values` of shape `(batch_size, num_channels, height, width)` into the initial
`hidden_states` (patch embeddings) of shape `(batch_size, seq_length, hidden_size)` to be consumed by a
Transformer.
"""
def __init__(self, config):
super().__init__()
image_size, patch_size = config.image_size, config.patch_size
num_channels, hidden_size = config.num_channels, config.embed_dim
image_size = image_size if isinstance(image_size, collections.abc.Iterable) else (image_size, image_size)
patch_size = patch_size if isinstance(patch_size, collections.abc.Iterable) else (patch_size, patch_size)
num_patches = (image_size[1] // patch_size[1]) * (image_size[0] // patch_size[0])
self.image_size = image_size
self.patch_size = patch_size
self.num_channels = num_channels
self.num_patches = num_patches
self.grid_size = (image_size[0] // patch_size[0], image_size[1] // patch_size[1])
self.projection = nn.Conv2d(num_channels, hidden_size, kernel_size=patch_size, stride=patch_size)
def maybe_pad(self, pixel_values, height, width):
if width % self.patch_size[1] != 0:
pad_values = (0, self.patch_size[1] - width % self.patch_size[1])
pixel_values = nn.functional.pad(pixel_values, pad_values)
if height % self.patch_size[0] != 0:
pad_values = (0, 0, 0, self.patch_size[0] - height % self.patch_size[0])
pixel_values = nn.functional.pad(pixel_values, pad_values)
return pixel_values
def forward(self, pixel_values: Optional[torch.FloatTensor]) -> Tuple[torch.Tensor, Tuple[int]]:
_, num_channels, height, width = pixel_values.shape
if num_channels != self.num_channels:
raise ValueError(
"Make sure that the channel dimension of the pixel values match with the one set in the configuration."
)
# pad the input to be divisible by self.patch_size, if needed
pixel_values = self.maybe_pad(pixel_values, height, width)
embeddings = self.projection(pixel_values)
_, _, height, width = embeddings.shape
output_dimensions = (height, width)
embeddings = embeddings.flatten(2).transpose(1, 2)
return embeddings, output_dimensions
# Copied from transformers.models.swin.modeling_swin.SwinPatchMerging
class DonutSwinPatchMerging(nn.Module):
"""
Patch Merging Layer.
Args:
input_resolution (`Tuple[int]`):
Resolution of input feature.
dim (`int`):
Number of input channels.
norm_layer (`nn.Module`, *optional*, defaults to `nn.LayerNorm`):
Normalization layer class.
"""
def __init__(self, input_resolution: Tuple[int], dim: int, norm_layer: nn.Module = nn.LayerNorm) -> None:
super().__init__()
self.input_resolution = input_resolution
self.dim = dim
self.reduction = nn.Linear(4 * dim, 2 * dim, bias=False)
self.norm = norm_layer(4 * dim)
def maybe_pad(self, input_feature, height, width):
should_pad = (height % 2 == 1) or (width % 2 == 1)
if should_pad:
pad_values = (0, 0, 0, width % 2, 0, height % 2)
input_feature = nn.functional.pad(input_feature, pad_values)
return input_feature
def forward(self, input_feature: torch.Tensor, input_dimensions: Tuple[int, int]) -> torch.Tensor:
height, width = input_dimensions
# `dim` is height * width
batch_size, dim, num_channels = input_feature.shape
input_feature = input_feature.view(batch_size, height, width, num_channels)
# pad input to be disible by width and height, if needed
input_feature = self.maybe_pad(input_feature, height, width)
# [batch_size, height/2, width/2, num_channels]
input_feature_0 = input_feature[:, 0::2, 0::2, :]
# [batch_size, height/2, width/2, num_channels]
input_feature_1 = input_feature[:, 1::2, 0::2, :]
# [batch_size, height/2, width/2, num_channels]
input_feature_2 = input_feature[:, 0::2, 1::2, :]
# [batch_size, height/2, width/2, num_channels]
input_feature_3 = input_feature[:, 1::2, 1::2, :]
# batch_size height/2 width/2 4*num_channels
input_feature = torch.cat([input_feature_0, input_feature_1, input_feature_2, input_feature_3], -1)
input_feature = input_feature.view(batch_size, -1, 4 * num_channels) # batch_size height/2*width/2 4*C
input_feature = self.norm(input_feature)
input_feature = self.reduction(input_feature)
return input_feature
# Copied from transformers.models.beit.modeling_beit.drop_path
def drop_path(input: torch.Tensor, drop_prob: float = 0.0, training: bool = False) -> torch.Tensor:
"""
Drop paths (Stochastic Depth) per sample (when applied in main path of residual blocks).
Comment by Ross Wightman: This is the same as the DropConnect impl I created for EfficientNet, etc networks,
however, the original name is misleading as 'Drop Connect' is a different form of dropout in a separate paper...
See discussion: https://github.com/tensorflow/tpu/issues/494#issuecomment-532968956 ... I've opted for changing the
layer and argument names to 'drop path' rather than mix DropConnect as a layer name and use 'survival rate' as the
argument.
"""
if drop_prob == 0.0 or not training:
return input
keep_prob = 1 - drop_prob
shape = (input.shape[0],) + (1,) * (input.ndim - 1) # work with diff dim tensors, not just 2D ConvNets
random_tensor = keep_prob + torch.rand(shape, dtype=input.dtype, device=input.device)
random_tensor.floor_() # binarize
output = input.div(keep_prob) * random_tensor
return output
# Copied from transformers.models.swin.modeling_swin.SwinDropPath
class DonutSwinDropPath(nn.Module):
"""Drop paths (Stochastic Depth) per sample (when applied in main path of residual blocks)."""
def __init__(self, drop_prob: Optional[float] = None) -> None:
super().__init__()
self.drop_prob = drop_prob
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
return drop_path(hidden_states, self.drop_prob, self.training)
def extra_repr(self) -> str:
return "p={}".format(self.drop_prob)
# Copied from transformers.models.swin.modeling_swin.SwinSelfAttention with Swin->DonutSwin
class DonutSwinSelfAttention(nn.Module):
def __init__(self, config, dim, num_heads, window_size):
super().__init__()
if dim % num_heads != 0:
raise ValueError(
f"The hidden size ({dim}) is not a multiple of the number of attention heads ({num_heads})"
)
self.num_attention_heads = num_heads
self.attention_head_size = int(dim / num_heads)
self.all_head_size = self.num_attention_heads * self.attention_head_size
self.window_size = (
window_size if isinstance(window_size, collections.abc.Iterable) else (window_size, window_size)
)
self.relative_position_bias_table = nn.Parameter(
torch.zeros((2 * self.window_size[0] - 1) * (2 * self.window_size[1] - 1), num_heads)
)
# get pair-wise relative position index for each token inside the window
coords_h = torch.arange(self.window_size[0])
coords_w = torch.arange(self.window_size[1])
coords = torch.stack(meshgrid([coords_h, coords_w], indexing="ij"))
coords_flatten = torch.flatten(coords, 1)
relative_coords = coords_flatten[:, :, None] - coords_flatten[:, None, :]
relative_coords = relative_coords.permute(1, 2, 0).contiguous()
relative_coords[:, :, 0] += self.window_size[0] - 1
relative_coords[:, :, 1] += self.window_size[1] - 1
relative_coords[:, :, 0] *= 2 * self.window_size[1] - 1
relative_position_index = relative_coords.sum(-1)
self.register_buffer("relative_position_index", relative_position_index)
self.query = nn.Linear(self.all_head_size, self.all_head_size, bias=config.qkv_bias)
self.key = nn.Linear(self.all_head_size, self.all_head_size, bias=config.qkv_bias)
self.value = nn.Linear(self.all_head_size, self.all_head_size, bias=config.qkv_bias)
self.dropout = nn.Dropout(config.attention_probs_dropout_prob)
def transpose_for_scores(self, x):
new_x_shape = x.size()[:-1] + (self.num_attention_heads, self.attention_head_size)
x = x.view(new_x_shape)
return x.permute(0, 2, 1, 3)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.FloatTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = False,
) -> Tuple[torch.Tensor]:
batch_size, dim, num_channels = hidden_states.shape
mixed_query_layer = self.query(hidden_states)
key_layer = self.transpose_for_scores(self.key(hidden_states))
value_layer = self.transpose_for_scores(self.value(hidden_states))
query_layer = self.transpose_for_scores(mixed_query_layer)
# Take the dot product between "query" and "key" to get the raw attention scores.
attention_scores = torch.matmul(query_layer, key_layer.transpose(-1, -2))
attention_scores = attention_scores / math.sqrt(self.attention_head_size)
relative_position_bias = self.relative_position_bias_table[self.relative_position_index.view(-1)]
relative_position_bias = relative_position_bias.view(
self.window_size[0] * self.window_size[1], self.window_size[0] * self.window_size[1], -1
)
relative_position_bias = relative_position_bias.permute(2, 0, 1).contiguous()
attention_scores = attention_scores + relative_position_bias.unsqueeze(0)
if attention_mask is not None:
# Apply the attention mask is (precomputed for all layers in DonutSwinModel forward() function)
mask_shape = attention_mask.shape[0]
attention_scores = attention_scores.view(
batch_size // mask_shape, mask_shape, self.num_attention_heads, dim, dim
)
attention_scores = attention_scores + attention_mask.unsqueeze(1).unsqueeze(0)
attention_scores = attention_scores.view(-1, self.num_attention_heads, dim, dim)
# Normalize the attention scores to probabilities.
attention_probs = nn.functional.softmax(attention_scores, dim=-1)
# This is actually dropping out entire tokens to attend to, which might
# seem a bit unusual, but is taken from the original Transformer paper.
attention_probs = self.dropout(attention_probs)
# Mask heads if we want to
if head_mask is not None:
attention_probs = attention_probs * head_mask
context_layer = torch.matmul(attention_probs, value_layer)
context_layer = context_layer.permute(0, 2, 1, 3).contiguous()
new_context_layer_shape = context_layer.size()[:-2] + (self.all_head_size,)
context_layer = context_layer.view(new_context_layer_shape)
outputs = (context_layer, attention_probs) if output_attentions else (context_layer,)
return outputs
# Copied from transformers.models.swin.modeling_swin.SwinSelfOutput
class DonutSwinSelfOutput(nn.Module):
def __init__(self, config, dim):
super().__init__()
self.dense = nn.Linear(dim, dim)
self.dropout = nn.Dropout(config.attention_probs_dropout_prob)
def forward(self, hidden_states: torch.Tensor, input_tensor: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states)
return hidden_states
# Copied from transformers.models.swin.modeling_swin.SwinAttention with Swin->DonutSwin
class DonutSwinAttention(nn.Module):
def __init__(self, config, dim, num_heads, window_size):
super().__init__()
self.self = DonutSwinSelfAttention(config, dim, num_heads, window_size)
self.output = DonutSwinSelfOutput(config, dim)
self.pruned_heads = set()
def prune_heads(self, heads):
if len(heads) == 0:
return
heads, index = find_pruneable_heads_and_indices(
heads, self.self.num_attention_heads, self.self.attention_head_size, self.pruned_heads
)
# Prune linear layers
self.self.query = prune_linear_layer(self.self.query, index)
self.self.key = prune_linear_layer(self.self.key, index)
self.self.value = prune_linear_layer(self.self.value, index)
self.output.dense = prune_linear_layer(self.output.dense, index, dim=1)
# Update hyper params and store pruned heads
self.self.num_attention_heads = self.self.num_attention_heads - len(heads)
self.self.all_head_size = self.self.attention_head_size * self.self.num_attention_heads
self.pruned_heads = self.pruned_heads.union(heads)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.FloatTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = False,
) -> Tuple[torch.Tensor]:
self_outputs = self.self(hidden_states, attention_mask, head_mask, output_attentions)
attention_output = self.output(self_outputs[0], hidden_states)
outputs = (attention_output,) + self_outputs[1:] # add attentions if we output them
return outputs
# Copied from transformers.models.swin.modeling_swin.SwinIntermediate
class DonutSwinIntermediate(nn.Module):
def __init__(self, config, dim):
super().__init__()
self.dense = nn.Linear(dim, int(config.mlp_ratio * dim))
if isinstance(config.hidden_act, str):
self.intermediate_act_fn = ACT2FN[config.hidden_act]
else:
self.intermediate_act_fn = config.hidden_act
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.intermediate_act_fn(hidden_states)
return hidden_states
# Copied from transformers.models.swin.modeling_swin.SwinOutput
class DonutSwinOutput(nn.Module):
def __init__(self, config, dim):
super().__init__()
self.dense = nn.Linear(int(config.mlp_ratio * dim), dim)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states)
return hidden_states
# Copied from transformers.models.swin.modeling_swin.SwinLayer with Swin->DonutSwin
class DonutSwinLayer(nn.Module):
def __init__(self, config, dim, input_resolution, num_heads, shift_size=0):
super().__init__()
self.chunk_size_feed_forward = config.chunk_size_feed_forward
self.shift_size = shift_size
self.window_size = config.window_size
self.input_resolution = input_resolution
self.layernorm_before = nn.LayerNorm(dim, eps=config.layer_norm_eps)
self.attention = DonutSwinAttention(config, dim, num_heads, window_size=self.window_size)
self.drop_path = DonutSwinDropPath(config.drop_path_rate) if config.drop_path_rate > 0.0 else nn.Identity()
self.layernorm_after = nn.LayerNorm(dim, eps=config.layer_norm_eps)
self.intermediate = DonutSwinIntermediate(config, dim)
self.output = DonutSwinOutput(config, dim)
def set_shift_and_window_size(self, input_resolution):
if min(input_resolution) <= self.window_size:
# if window size is larger than input resolution, we don't partition windows
self.shift_size = 0
self.window_size = min(input_resolution)
def get_attn_mask(self, height, width, dtype):
if self.shift_size > 0:
# calculate attention mask for SW-MSA
img_mask = torch.zeros((1, height, width, 1), dtype=dtype)
height_slices = (
slice(0, -self.window_size),
slice(-self.window_size, -self.shift_size),
slice(-self.shift_size, None),
)
width_slices = (
slice(0, -self.window_size),
slice(-self.window_size, -self.shift_size),
slice(-self.shift_size, None),
)
count = 0
for height_slice in height_slices:
for width_slice in width_slices:
img_mask[:, height_slice, width_slice, :] = count
count += 1
mask_windows = window_partition(img_mask, self.window_size)
mask_windows = mask_windows.view(-1, self.window_size * self.window_size)
attn_mask = mask_windows.unsqueeze(1) - mask_windows.unsqueeze(2)
attn_mask = attn_mask.masked_fill(attn_mask != 0, float(-100.0)).masked_fill(attn_mask == 0, float(0.0))
else:
attn_mask = None
return attn_mask
def maybe_pad(self, hidden_states, height, width):
pad_right = (self.window_size - width % self.window_size) % self.window_size
pad_bottom = (self.window_size - height % self.window_size) % self.window_size
pad_values = (0, 0, 0, pad_right, 0, pad_bottom)
hidden_states = nn.functional.pad(hidden_states, pad_values)
return hidden_states, pad_values
def forward(
self,
hidden_states: torch.Tensor,
input_dimensions: Tuple[int, int],
head_mask: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = False,
always_partition: Optional[bool] = False,
) -> Tuple[torch.Tensor, torch.Tensor]:
if not always_partition:
self.set_shift_and_window_size(input_dimensions)
else:
pass
height, width = input_dimensions
batch_size, _, channels = hidden_states.size()
shortcut = hidden_states
hidden_states = self.layernorm_before(hidden_states)
hidden_states = hidden_states.view(batch_size, height, width, channels)
# pad hidden_states to multiples of window size
hidden_states, pad_values = self.maybe_pad(hidden_states, height, width)
_, height_pad, width_pad, _ = hidden_states.shape
# cyclic shift
if self.shift_size > 0:
shifted_hidden_states = torch.roll(hidden_states, shifts=(-self.shift_size, -self.shift_size), dims=(1, 2))
else:
shifted_hidden_states = hidden_states
# partition windows
hidden_states_windows = window_partition(shifted_hidden_states, self.window_size)
hidden_states_windows = hidden_states_windows.view(-1, self.window_size * self.window_size, channels)
attn_mask = self.get_attn_mask(height_pad, width_pad, dtype=hidden_states.dtype)
if attn_mask is not None:
attn_mask = attn_mask.to(hidden_states_windows.device)
attention_outputs = self.attention(
hidden_states_windows, attn_mask, head_mask, output_attentions=output_attentions
)
attention_output = attention_outputs[0]
attention_windows = attention_output.view(-1, self.window_size, self.window_size, channels)
shifted_windows = window_reverse(attention_windows, self.window_size, height_pad, width_pad)
# reverse cyclic shift
if self.shift_size > 0:
attention_windows = torch.roll(shifted_windows, shifts=(self.shift_size, self.shift_size), dims=(1, 2))
else:
attention_windows = shifted_windows
was_padded = pad_values[3] > 0 or pad_values[5] > 0
if was_padded:
attention_windows = attention_windows[:, :height, :width, :].contiguous()
attention_windows = attention_windows.view(batch_size, height * width, channels)
hidden_states = shortcut + self.drop_path(attention_windows)
layer_output = self.layernorm_after(hidden_states)
layer_output = self.intermediate(layer_output)
layer_output = hidden_states + self.output(layer_output)
layer_outputs = (layer_output, attention_outputs[1]) if output_attentions else (layer_output,)
return layer_outputs
# Copied from transformers.models.swin.modeling_swin.SwinStage with Swin->DonutSwin
class DonutSwinStage(nn.Module):
def __init__(self, config, dim, input_resolution, depth, num_heads, drop_path, downsample):
super().__init__()
self.config = config
self.dim = dim
self.blocks = nn.ModuleList(
[
DonutSwinLayer(
config=config,
dim=dim,
input_resolution=input_resolution,
num_heads=num_heads,
shift_size=0 if (i % 2 == 0) else config.window_size // 2,
)
for i in range(depth)
]
)
# patch merging layer
if downsample is not None:
self.downsample = downsample(input_resolution, dim=dim, norm_layer=nn.LayerNorm)
else:
self.downsample = None
self.pointing = False
def forward(
self,
hidden_states: torch.Tensor,
input_dimensions: Tuple[int, int],
head_mask: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = False,
always_partition: Optional[bool] = False,
) -> Tuple[torch.Tensor]:
height, width = input_dimensions
for i, layer_module in enumerate(self.blocks):
layer_head_mask = head_mask[i] if head_mask is not None else None
layer_outputs = layer_module(
hidden_states, input_dimensions, layer_head_mask, output_attentions, always_partition
)
hidden_states = layer_outputs[0]
hidden_states_before_downsampling = hidden_states
if self.downsample is not None:
height_downsampled, width_downsampled = (height + 1) // 2, (width + 1) // 2
output_dimensions = (height, width, height_downsampled, width_downsampled)
hidden_states = self.downsample(hidden_states_before_downsampling, input_dimensions)
else:
output_dimensions = (height, width, height, width)
stage_outputs = (hidden_states, hidden_states_before_downsampling, output_dimensions)
if output_attentions:
stage_outputs += layer_outputs[1:]
return stage_outputs
# Copied from transformers.models.swin.modeling_swin.SwinEncoder with Swin->DonutSwin
class DonutSwinEncoder(nn.Module):
def __init__(self, config, grid_size):
super().__init__()
self.num_layers = len(config.depths)
self.config = config
dpr = [x.item() for x in torch.linspace(0, config.drop_path_rate, sum(config.depths))]
self.layers = nn.ModuleList(
[
DonutSwinStage(
config=config,
dim=int(config.embed_dim * 2**i_layer),
input_resolution=(grid_size[0] // (2**i_layer), grid_size[1] // (2**i_layer)),
depth=config.depths[i_layer],
num_heads=config.num_heads[i_layer],
drop_path=dpr[sum(config.depths[:i_layer]) : sum(config.depths[: i_layer + 1])],
downsample=DonutSwinPatchMerging if (i_layer < self.num_layers - 1) else None,
)
for i_layer in range(self.num_layers)
]
)
self.gradient_checkpointing = False
def forward(
self,
hidden_states: torch.Tensor,
input_dimensions: Tuple[int, int],
head_mask: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = False,
output_hidden_states: Optional[bool] = False,
output_hidden_states_before_downsampling: Optional[bool] = False,
always_partition: Optional[bool] = False,
return_dict: Optional[bool] = True,
) -> Union[Tuple, DonutSwinEncoderOutput]:
all_hidden_states = () if output_hidden_states else None
all_reshaped_hidden_states = () if output_hidden_states else None
all_self_attentions = () if output_attentions else None
if output_hidden_states:
batch_size, _, hidden_size = hidden_states.shape
# rearrange b (h w) c -> b c h w
reshaped_hidden_state = hidden_states.view(batch_size, *input_dimensions, hidden_size)
reshaped_hidden_state = reshaped_hidden_state.permute(0, 3, 1, 2)
all_hidden_states += (hidden_states,)
all_reshaped_hidden_states += (reshaped_hidden_state,)
for i, layer_module in enumerate(self.layers):
layer_head_mask = head_mask[i] if head_mask is not None else None
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(layer_module), hidden_states, input_dimensions, layer_head_mask
)
else:
layer_outputs = layer_module(
hidden_states, input_dimensions, layer_head_mask, output_attentions, always_partition
)
hidden_states = layer_outputs[0]
hidden_states_before_downsampling = layer_outputs[1]
output_dimensions = layer_outputs[2]
input_dimensions = (output_dimensions[-2], output_dimensions[-1])
if output_hidden_states and output_hidden_states_before_downsampling:
batch_size, _, hidden_size = hidden_states_before_downsampling.shape
# rearrange b (h w) c -> b c h w
# here we use the original (not downsampled) height and width
reshaped_hidden_state = hidden_states_before_downsampling.view(
batch_size, *(output_dimensions[0], output_dimensions[1]), hidden_size
)
reshaped_hidden_state = reshaped_hidden_state.permute(0, 3, 1, 2)
all_hidden_states += (hidden_states_before_downsampling,)
all_reshaped_hidden_states += (reshaped_hidden_state,)
elif output_hidden_states and not output_hidden_states_before_downsampling:
batch_size, _, hidden_size = hidden_states.shape
# rearrange b (h w) c -> b c h w
reshaped_hidden_state = hidden_states.view(batch_size, *input_dimensions, hidden_size)
reshaped_hidden_state = reshaped_hidden_state.permute(0, 3, 1, 2)
all_hidden_states += (hidden_states,)
all_reshaped_hidden_states += (reshaped_hidden_state,)
if output_attentions:
all_self_attentions += layer_outputs[3:]
if not return_dict:
return tuple(v for v in [hidden_states, all_hidden_states, all_self_attentions] if v is not None)
return DonutSwinEncoderOutput(
last_hidden_state=hidden_states,
hidden_states=all_hidden_states,
attentions=all_self_attentions,
reshaped_hidden_states=all_reshaped_hidden_states,
)
# Copied from transformers.models.swin.modeling_swin.SwinPreTrainedModel with Swin->DonutSwin
class DonutSwinPreTrainedModel(PreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
config_class = DonutSwinConfig
base_model_prefix = "swin"
main_input_name = "pixel_values"
supports_gradient_checkpointing = True
def _init_weights(self, module):
"""Initialize the weights"""
if isinstance(module, (nn.Linear, nn.Conv2d)):
# Slightly different from the TF version which uses truncated_normal for initialization
# cf https://github.com/pytorch/pytorch/pull/5617
module.weight.data.normal_(mean=0.0, std=self.config.initializer_range)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.LayerNorm):
module.bias.data.zero_()
module.weight.data.fill_(1.0)
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, DonutSwinEncoder):
module.gradient_checkpointing = value
SWIN_START_DOCSTRING = r"""
This model is a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) sub-class. Use
it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage and
behavior.
Parameters:
config ([`DonutSwinConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
SWIN_INPUTS_DOCSTRING = r"""
Args:
pixel_values (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Pixel values. Pixel values can be obtained using [`AutoImageProcessor`]. See
[`DonutImageProcessor.__call__`] for details.
head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
@add_start_docstrings(
"The bare Donut Swin Model transformer outputting raw hidden-states without any specific head on top.",
SWIN_START_DOCSTRING,
)
class DonutSwinModel(DonutSwinPreTrainedModel):
def __init__(self, config, add_pooling_layer=True, use_mask_token=False):
super().__init__(config)
self.config = config
self.num_layers = len(config.depths)
self.num_features = int(config.embed_dim * 2 ** (self.num_layers - 1))
self.embeddings = DonutSwinEmbeddings(config, use_mask_token=use_mask_token)
self.encoder = DonutSwinEncoder(config, self.embeddings.patch_grid)
self.pooler = nn.AdaptiveAvgPool1d(1) if add_pooling_layer else None
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.embeddings.patch_embeddings
def _prune_heads(self, heads_to_prune):
"""
Prunes heads of the model. heads_to_prune: dict of {layer_num: list of heads to prune in this layer} See base
class PreTrainedModel
"""
for layer, heads in heads_to_prune.items():
self.encoder.layer[layer].attention.prune_heads(heads)
@add_start_docstrings_to_model_forward(SWIN_INPUTS_DOCSTRING)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=DonutSwinModelOutput,
config_class=_CONFIG_FOR_DOC,
modality="vision",
expected_output=_EXPECTED_OUTPUT_SHAPE,
)
def forward(
self,
pixel_values: Optional[torch.FloatTensor] = None,
bool_masked_pos: Optional[torch.BoolTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, DonutSwinModelOutput]:
r"""
bool_masked_pos (`torch.BoolTensor` of shape `(batch_size, num_patches)`):
Boolean masked positions. Indicates which patches are masked (1) and which aren't (0).
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if pixel_values is None:
raise ValueError("You have to specify pixel_values")
# Prepare head mask if needed
# 1.0 in head_mask indicate we keep the head
# attention_probs has shape bsz x n_heads x N x N
# input head_mask has shape [num_heads] or [num_hidden_layers x num_heads]
# and head_mask is converted to shape [num_hidden_layers x batch x num_heads x seq_length x seq_length]
head_mask = self.get_head_mask(head_mask, len(self.config.depths))
embedding_output, input_dimensions = self.embeddings(pixel_values, bool_masked_pos=bool_masked_pos)
encoder_outputs = self.encoder(
embedding_output,
input_dimensions,
head_mask=head_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = encoder_outputs[0]
pooled_output = None
if self.pooler is not None:
pooled_output = self.pooler(sequence_output.transpose(1, 2))
pooled_output = torch.flatten(pooled_output, 1)
if not return_dict:
output = (sequence_output, pooled_output) + encoder_outputs[1:]
return output
return DonutSwinModelOutput(
last_hidden_state=sequence_output,
pooler_output=pooled_output,
hidden_states=encoder_outputs.hidden_states,
attentions=encoder_outputs.attentions,
reshaped_hidden_states=encoder_outputs.reshaped_hidden_states,
)
| transformers-main | src/transformers/models/donut/modeling_donut_swin.py |
# Copyright 2022 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import OptionalDependencyNotAvailable, _LazyModule, is_torch_available, is_vision_available
_import_structure = {
"configuration_donut_swin": ["DONUT_SWIN_PRETRAINED_CONFIG_ARCHIVE_MAP", "DonutSwinConfig"],
"processing_donut": ["DonutProcessor"],
}
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_donut_swin"] = [
"DONUT_SWIN_PRETRAINED_MODEL_ARCHIVE_LIST",
"DonutSwinModel",
"DonutSwinPreTrainedModel",
]
try:
if not is_vision_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["feature_extraction_donut"] = ["DonutFeatureExtractor"]
_import_structure["image_processing_donut"] = ["DonutImageProcessor"]
if TYPE_CHECKING:
from .configuration_donut_swin import DONUT_SWIN_PRETRAINED_CONFIG_ARCHIVE_MAP, DonutSwinConfig
from .processing_donut import DonutProcessor
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_donut_swin import (
DONUT_SWIN_PRETRAINED_MODEL_ARCHIVE_LIST,
DonutSwinModel,
DonutSwinPreTrainedModel,
)
try:
if not is_vision_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .feature_extraction_donut import DonutFeatureExtractor
from .image_processing_donut import DonutImageProcessor
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/donut/__init__.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Feature extractor class for Donut."""
import warnings
from ...utils import logging
from .image_processing_donut import DonutImageProcessor
logger = logging.get_logger(__name__)
class DonutFeatureExtractor(DonutImageProcessor):
def __init__(self, *args, **kwargs) -> None:
warnings.warn(
"The class DonutFeatureExtractor is deprecated and will be removed in version 5 of Transformers. Please"
" use DonutImageProcessor instead.",
FutureWarning,
)
super().__init__(*args, **kwargs)
| transformers-main | src/transformers/models/donut/feature_extraction_donut.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""
Processor class for Donut.
"""
import re
import warnings
from contextlib import contextmanager
from ...processing_utils import ProcessorMixin
class DonutProcessor(ProcessorMixin):
r"""
Constructs a Donut processor which wraps a Donut image processor and an XLMRoBERTa tokenizer into a single
processor.
[`DonutProcessor`] offers all the functionalities of [`DonutImageProcessor`] and
[`XLMRobertaTokenizer`/`XLMRobertaTokenizerFast`]. See the [`~DonutProcessor.__call__`] and
[`~DonutProcessor.decode`] for more information.
Args:
image_processor ([`DonutImageProcessor`]):
An instance of [`DonutImageProcessor`]. The image processor is a required input.
tokenizer ([`XLMRobertaTokenizer`/`XLMRobertaTokenizerFast`]):
An instance of [`XLMRobertaTokenizer`/`XLMRobertaTokenizerFast`]. The tokenizer is a required input.
"""
attributes = ["image_processor", "tokenizer"]
image_processor_class = "AutoImageProcessor"
tokenizer_class = "AutoTokenizer"
def __init__(self, image_processor=None, tokenizer=None, **kwargs):
feature_extractor = None
if "feature_extractor" in kwargs:
warnings.warn(
"The `feature_extractor` argument is deprecated and will be removed in v5, use `image_processor`"
" instead.",
FutureWarning,
)
feature_extractor = kwargs.pop("feature_extractor")
image_processor = image_processor if image_processor is not None else feature_extractor
if image_processor is None:
raise ValueError("You need to specify an `image_processor`.")
if tokenizer is None:
raise ValueError("You need to specify a `tokenizer`.")
super().__init__(image_processor, tokenizer)
self.current_processor = self.image_processor
self._in_target_context_manager = False
def __call__(self, *args, **kwargs):
"""
When used in normal mode, this method forwards all its arguments to AutoImageProcessor's
[`~AutoImageProcessor.__call__`] and returns its output. If used in the context
[`~DonutProcessor.as_target_processor`] this method forwards all its arguments to DonutTokenizer's
[`~DonutTokenizer.__call__`]. Please refer to the doctsring of the above two methods for more information.
"""
# For backward compatibility
if self._in_target_context_manager:
return self.current_processor(*args, **kwargs)
images = kwargs.pop("images", None)
text = kwargs.pop("text", None)
if len(args) > 0:
images = args[0]
args = args[1:]
if images is None and text is None:
raise ValueError("You need to specify either an `images` or `text` input to process.")
if images is not None:
inputs = self.image_processor(images, *args, **kwargs)
if text is not None:
encodings = self.tokenizer(text, **kwargs)
if text is None:
return inputs
elif images is None:
return encodings
else:
inputs["labels"] = encodings["input_ids"]
return inputs
def batch_decode(self, *args, **kwargs):
"""
This method forwards all its arguments to DonutTokenizer's [`~PreTrainedTokenizer.batch_decode`]. Please refer
to the docstring of this method for more information.
"""
return self.tokenizer.batch_decode(*args, **kwargs)
def decode(self, *args, **kwargs):
"""
This method forwards all its arguments to DonutTokenizer's [`~PreTrainedTokenizer.decode`]. Please refer to the
docstring of this method for more information.
"""
return self.tokenizer.decode(*args, **kwargs)
@contextmanager
def as_target_processor(self):
"""
Temporarily sets the tokenizer for processing the input. Useful for encoding the labels when fine-tuning TrOCR.
"""
warnings.warn(
"`as_target_processor` is deprecated and will be removed in v5 of Transformers. You can process your "
"labels by using the argument `text` of the regular `__call__` method (either in the same call as "
"your images inputs, or in a separate call."
)
self._in_target_context_manager = True
self.current_processor = self.tokenizer
yield
self.current_processor = self.image_processor
self._in_target_context_manager = False
def token2json(self, tokens, is_inner_value=False, added_vocab=None):
"""
Convert a (generated) token sequence into an ordered JSON format.
"""
if added_vocab is None:
added_vocab = self.tokenizer.get_added_vocab()
output = {}
while tokens:
start_token = re.search(r"<s_(.*?)>", tokens, re.IGNORECASE)
if start_token is None:
break
key = start_token.group(1)
key_escaped = re.escape(key)
end_token = re.search(rf"</s_{key_escaped}>", tokens, re.IGNORECASE)
start_token = start_token.group()
if end_token is None:
tokens = tokens.replace(start_token, "")
else:
end_token = end_token.group()
start_token_escaped = re.escape(start_token)
end_token_escaped = re.escape(end_token)
content = re.search(f"{start_token_escaped}(.*?){end_token_escaped}", tokens, re.IGNORECASE)
if content is not None:
content = content.group(1).strip()
if r"<s_" in content and r"</s_" in content: # non-leaf node
value = self.token2json(content, is_inner_value=True, added_vocab=added_vocab)
if value:
if len(value) == 1:
value = value[0]
output[key] = value
else: # leaf nodes
output[key] = []
for leaf in content.split(r"<sep/>"):
leaf = leaf.strip()
if leaf in added_vocab and leaf[0] == "<" and leaf[-2:] == "/>":
leaf = leaf[1:-2] # for categorical special tokens
output[key].append(leaf)
if len(output[key]) == 1:
output[key] = output[key][0]
tokens = tokens[tokens.find(end_token) + len(end_token) :].strip()
if tokens[:6] == r"<sep/>": # non-leaf nodes
return [output] + self.token2json(tokens[6:], is_inner_value=True, added_vocab=added_vocab)
if len(output):
return [output] if is_inner_value else output
else:
return [] if is_inner_value else {"text_sequence": tokens}
@property
def feature_extractor_class(self):
warnings.warn(
"`feature_extractor_class` is deprecated and will be removed in v5. Use `image_processor_class` instead.",
FutureWarning,
)
return self.image_processor_class
@property
def feature_extractor(self):
warnings.warn(
"`feature_extractor` is deprecated and will be removed in v5. Use `image_processor` instead.",
FutureWarning,
)
return self.image_processor
| transformers-main | src/transformers/models/donut/processing_donut.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Image processor class for Donut."""
from typing import Dict, List, Optional, Union
import numpy as np
from ...image_processing_utils import BaseImageProcessor, BatchFeature, get_size_dict
from ...image_transforms import (
get_resize_output_image_size,
pad,
resize,
to_channel_dimension_format,
)
from ...image_utils import (
IMAGENET_STANDARD_MEAN,
IMAGENET_STANDARD_STD,
ChannelDimension,
ImageInput,
PILImageResampling,
get_image_size,
make_list_of_images,
to_numpy_array,
valid_images,
)
from ...utils import TensorType, logging
from ...utils.import_utils import is_vision_available
logger = logging.get_logger(__name__)
if is_vision_available():
import PIL
class DonutImageProcessor(BaseImageProcessor):
r"""
Constructs a Donut image processor.
Args:
do_resize (`bool`, *optional*, defaults to `True`):
Whether to resize the image's (height, width) dimensions to the specified `size`. Can be overridden by
`do_resize` in the `preprocess` method.
size (`Dict[str, int]` *optional*, defaults to `{"shortest_edge": 224}`):
Size of the image after resizing. The shortest edge of the image is resized to size["shortest_edge"], with
the longest edge resized to keep the input aspect ratio. Can be overridden by `size` in the `preprocess`
method.
resample (`PILImageResampling`, *optional*, defaults to `PILImageResampling.BILINEAR`):
Resampling filter to use if resizing the image. Can be overridden by `resample` in the `preprocess` method.
do_thumbnail (`bool`, *optional*, defaults to `True`):
Whether to resize the image using thumbnail method.
do_align_long_axis (`bool`, *optional*, defaults to `False`):
Whether to align the long axis of the image with the long axis of `size` by rotating by 90 degrees.
do_pad (`bool`, *optional*, defaults to `True`):
Whether to pad the image. If `random_padding` is set to `True` in `preprocess`, each image is padded with a
random amont of padding on each size, up to the largest image size in the batch. Otherwise, all images are
padded to the largest image size in the batch.
do_rescale (`bool`, *optional*, defaults to `True`):
Whether to rescale the image by the specified scale `rescale_factor`. Can be overridden by `do_rescale` in
the `preprocess` method.
rescale_factor (`int` or `float`, *optional*, defaults to `1/255`):
Scale factor to use if rescaling the image. Can be overridden by `rescale_factor` in the `preprocess`
method.
do_normalize:
Whether to normalize the image. Can be overridden by `do_normalize` in the `preprocess` method.
image_mean (`float` or `List[float]`, *optional*, defaults to `IMAGENET_STANDARD_MEAN`):
Mean to use if normalizing the image. This is a float or list of floats the length of the number of
channels in the image. Can be overridden by the `image_mean` parameter in the `preprocess` method.
image_std (`float` or `List[float]`, *optional*, defaults to `IMAGENET_STANDARD_STD`):
Image standard deviation.
"""
model_input_names = ["pixel_values"]
def __init__(
self,
do_resize: bool = True,
size: Dict[str, int] = None,
resample: PILImageResampling = PILImageResampling.BILINEAR,
do_thumbnail: bool = True,
do_align_long_axis: bool = False,
do_pad: bool = True,
do_rescale: bool = True,
rescale_factor: Union[int, float] = 1 / 255,
do_normalize: bool = True,
image_mean: Optional[Union[float, List[float]]] = None,
image_std: Optional[Union[float, List[float]]] = None,
**kwargs,
) -> None:
super().__init__(**kwargs)
size = size if size is not None else {"height": 2560, "width": 1920}
if isinstance(size, (tuple, list)):
# The previous feature extractor size parameter was in (width, height) format
size = size[::-1]
size = get_size_dict(size)
self.do_resize = do_resize
self.size = size
self.resample = resample
self.do_thumbnail = do_thumbnail
self.do_align_long_axis = do_align_long_axis
self.do_pad = do_pad
self.do_rescale = do_rescale
self.rescale_factor = rescale_factor
self.do_normalize = do_normalize
self.image_mean = image_mean if image_mean is not None else IMAGENET_STANDARD_MEAN
self.image_std = image_std if image_std is not None else IMAGENET_STANDARD_STD
def align_long_axis(
self, image: np.ndarray, size: Dict[str, int], data_format: Optional[Union[str, ChannelDimension]] = None
) -> np.ndarray:
"""
Align the long axis of the image to the longest axis of the specified size.
Args:
image (`np.ndarray`):
The image to be aligned.
size (`Dict[str, int]`):
The size `{"height": h, "width": w}` to align the long axis to.
Returns:
`np.ndarray`: The aligned image.
"""
input_height, input_width = get_image_size(image)
output_height, output_width = size["height"], size["width"]
if (output_width < output_height and input_width > input_height) or (
output_width > output_height and input_width < input_height
):
image = np.rot90(image, 3)
if data_format is not None:
image = to_channel_dimension_format(image, data_format)
return image
def pad_image(
self,
image: np.ndarray,
size: Dict[str, int],
random_padding: bool = False,
data_format: Optional[Union[str, ChannelDimension]] = None,
) -> np.ndarray:
"""
Pad the image to the specified size.
Args:
image (`np.ndarray`):
The image to be padded.
size (`Dict[str, int]`):
The size `{"height": h, "width": w}` to pad the image to.
random_padding (`bool`, *optional*, defaults to `False`):
Whether to use random padding or not.
data_format (`str` or `ChannelDimension`, *optional*):
The data format of the output image. If unset, the same format as the input image is used.
"""
output_height, output_width = size["height"], size["width"]
input_height, input_width = get_image_size(image)
delta_width = output_width - input_width
delta_height = output_height - input_height
if random_padding:
pad_top = np.random.randint(low=0, high=delta_height + 1)
pad_left = np.random.randint(low=0, high=delta_width + 1)
else:
pad_top = delta_height // 2
pad_left = delta_width // 2
pad_bottom = delta_height - pad_top
pad_right = delta_width - pad_left
padding = ((pad_top, pad_bottom), (pad_left, pad_right))
return pad(image, padding, data_format=data_format)
def pad(self, *args, **kwargs):
logger.info("pad is deprecated and will be removed in version 4.27. Please use pad_image instead.")
return self.pad_image(*args, **kwargs)
def thumbnail(
self,
image: np.ndarray,
size: Dict[str, int],
resample: PILImageResampling = PILImageResampling.BICUBIC,
data_format: Optional[Union[str, ChannelDimension]] = None,
**kwargs,
) -> np.ndarray:
"""
Resize the image to make a thumbnail. The image is resized so that no dimension is larger than any
corresponding dimension of the specified size.
Args:
image (`np.ndarray`):
The image to be resized.
size (`Dict[str, int]`):
The size `{"height": h, "width": w}` to resize the image to.
resample (`PILImageResampling`, *optional*, defaults to `PILImageResampling.BICUBIC`):
The resampling filter to use.
data_format (`Optional[Union[str, ChannelDimension]]`, *optional*):
The data format of the output image. If unset, the same format as the input image is used.
"""
input_height, input_width = get_image_size(image)
output_height, output_width = size["height"], size["width"]
# We always resize to the smallest of either the input or output size.
height = min(input_height, output_height)
width = min(input_width, output_width)
if height == input_height and width == input_width:
return image
if input_height > input_width:
width = int(input_width * height / input_height)
elif input_width > input_height:
height = int(input_height * width / input_width)
return resize(
image, size=(height, width), resample=resample, reducing_gap=2.0, data_format=data_format, **kwargs
)
def resize(
self,
image: np.ndarray,
size: Dict[str, int],
resample: PILImageResampling = PILImageResampling.BICUBIC,
data_format: Optional[Union[str, ChannelDimension]] = None,
**kwargs,
) -> np.ndarray:
"""
Resize an image. The shortest edge of the image is resized to size["shortest_edge"], with the longest edge
resized to keep the input aspect ratio.
Args:
image (`np.ndarray`):
Image to resize.
size (`Dict[str, int]`):
Size of the output image.
resample (`PILImageResampling`, *optional*, defaults to `PILImageResampling.BICUBIC`):
Resampling filter to use when resiizing the image.
data_format (`str` or `ChannelDimension`, *optional*):
The channel dimension format of the image. If not provided, it will be the same as the input image.
"""
size = get_size_dict(size)
shortest_edge = min(size["height"], size["width"])
output_size = get_resize_output_image_size(image, size=shortest_edge, default_to_square=False)
resized_image = resize(image, size=output_size, resample=resample, data_format=data_format, **kwargs)
return resized_image
def preprocess(
self,
images: ImageInput,
do_resize: bool = None,
size: Dict[str, int] = None,
resample: PILImageResampling = None,
do_thumbnail: bool = None,
do_align_long_axis: bool = None,
do_pad: bool = None,
random_padding: bool = False,
do_rescale: bool = None,
rescale_factor: float = None,
do_normalize: bool = None,
image_mean: Optional[Union[float, List[float]]] = None,
image_std: Optional[Union[float, List[float]]] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
data_format: Optional[ChannelDimension] = ChannelDimension.FIRST,
**kwargs,
) -> PIL.Image.Image:
"""
Preprocess an image or batch of images.
Args:
images (`ImageInput`):
Image to preprocess.
do_resize (`bool`, *optional*, defaults to `self.do_resize`):
Whether to resize the image.
size (`Dict[str, int]`, *optional*, defaults to `self.size`):
Size of the image after resizing. Shortest edge of the image is resized to min(size["height"],
size["width"]) with the longest edge resized to keep the input aspect ratio.
resample (`int`, *optional*, defaults to `self.resample`):
Resampling filter to use if resizing the image. This can be one of the enum `PILImageResampling`. Only
has an effect if `do_resize` is set to `True`.
do_thumbnail (`bool`, *optional*, defaults to `self.do_thumbnail`):
Whether to resize the image using thumbnail method.
do_align_long_axis (`bool`, *optional*, defaults to `self.do_align_long_axis`):
Whether to align the long axis of the image with the long axis of `size` by rotating by 90 degrees.
do_pad (`bool`, *optional*, defaults to `self.do_pad`):
Whether to pad the image. If `random_padding` is set to `True`, each image is padded with a random
amont of padding on each size, up to the largest image size in the batch. Otherwise, all images are
padded to the largest image size in the batch.
random_padding (`bool`, *optional*, defaults to `self.random_padding`):
Whether to use random padding when padding the image. If `True`, each image in the batch with be padded
with a random amount of padding on each side up to the size of the largest image in the batch.
do_rescale (`bool`, *optional*, defaults to `self.do_rescale`):
Whether to rescale the image pixel values.
rescale_factor (`float`, *optional*, defaults to `self.rescale_factor`):
Rescale factor to rescale the image by if `do_rescale` is set to `True`.
do_normalize (`bool`, *optional*, defaults to `self.do_normalize`):
Whether to normalize the image.
image_mean (`float` or `List[float]`, *optional*, defaults to `self.image_mean`):
Image mean to use for normalization.
image_std (`float` or `List[float]`, *optional*, defaults to `self.image_std`):
Image standard deviation to use for normalization.
return_tensors (`str` or `TensorType`, *optional*):
The type of tensors to return. Can be one of:
- Unset: Return a list of `np.ndarray`.
- `TensorType.TENSORFLOW` or `'tf'`: Return a batch of type `tf.Tensor`.
- `TensorType.PYTORCH` or `'pt'`: Return a batch of type `torch.Tensor`.
- `TensorType.NUMPY` or `'np'`: Return a batch of type `np.ndarray`.
- `TensorType.JAX` or `'jax'`: Return a batch of type `jax.numpy.ndarray`.
data_format (`ChannelDimension` or `str`, *optional*, defaults to `ChannelDimension.FIRST`):
The channel dimension format for the output image. Can be one of:
- `ChannelDimension.FIRST`: image in (num_channels, height, width) format.
- `ChannelDimension.LAST`: image in (height, width, num_channels) format.
- Unset: defaults to the channel dimension format of the input image.
"""
do_resize = do_resize if do_resize is not None else self.do_resize
size = size if size is not None else self.size
if isinstance(size, (tuple, list)):
# Previous feature extractor had size in (width, height) format
size = size[::-1]
size = get_size_dict(size)
resample = resample if resample is not None else self.resample
do_thumbnail = do_thumbnail if do_thumbnail is not None else self.do_thumbnail
do_align_long_axis = do_align_long_axis if do_align_long_axis is not None else self.do_align_long_axis
do_pad = do_pad if do_pad is not None else self.do_pad
do_rescale = do_rescale if do_rescale is not None else self.do_rescale
rescale_factor = rescale_factor if rescale_factor is not None else self.rescale_factor
do_normalize = do_normalize if do_normalize is not None else self.do_normalize
image_mean = image_mean if image_mean is not None else self.image_mean
image_std = image_std if image_std is not None else self.image_std
images = make_list_of_images(images)
if not valid_images(images):
raise ValueError(
"Invalid image type. Must be of type PIL.Image.Image, numpy.ndarray, "
"torch.Tensor, tf.Tensor or jax.ndarray."
)
if do_resize and size is None:
raise ValueError("Size must be specified if do_resize is True.")
if do_rescale and rescale_factor is None:
raise ValueError("Rescale factor must be specified if do_rescale is True.")
if do_pad and size is None:
raise ValueError("Size must be specified if do_pad is True.")
if do_normalize and (image_mean is None or image_std is None):
raise ValueError("Image mean and std must be specified if do_normalize is True.")
# All transformations expect numpy arrays.
images = [to_numpy_array(image) for image in images]
if do_align_long_axis:
images = [self.align_long_axis(image, size=size) for image in images]
if do_resize:
images = [self.resize(image=image, size=size, resample=resample) for image in images]
if do_thumbnail:
images = [self.thumbnail(image=image, size=size) for image in images]
if do_pad:
images = [self.pad_image(image=image, size=size, random_padding=random_padding) for image in images]
if do_rescale:
images = [self.rescale(image=image, scale=rescale_factor) for image in images]
if do_normalize:
images = [self.normalize(image=image, mean=image_mean, std=image_std) for image in images]
images = [to_channel_dimension_format(image, data_format) for image in images]
data = {"pixel_values": images}
return BatchFeature(data=data, tensor_type=return_tensors)
| transformers-main | src/transformers/models/donut/image_processing_donut.py |
# coding=utf-8
# Copyright 2023 The Meta AI Authors and The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch SAM model."""
import collections
import math
from dataclasses import dataclass
from typing import Dict, List, Optional, Tuple, Union
import numpy as np
import torch
import torch.nn.functional as F
import torch.utils.checkpoint
from torch import Tensor, nn
from ...activations import ACT2FN
from ...modeling_outputs import BaseModelOutput
from ...modeling_utils import PreTrainedModel
from ...utils import ModelOutput, add_start_docstrings, add_start_docstrings_to_model_forward, logging
from .configuration_sam import SamConfig, SamMaskDecoderConfig, SamPromptEncoderConfig, SamVisionConfig
logger = logging.get_logger(__name__)
_CONFIG_FOR_DOC = "SamConfig"
_CHECKPOINT_FOR_DOC = "facebook/sam-vit-huge"
SAM_PRETRAINED_MODEL_ARCHIVE_LIST = [
"facebook/sam-vit-huge",
"facebook/sam-vit-large",
"facebook/sam-vit-base",
# See all SAM models at https://huggingface.co/models?filter=sam
]
@dataclass
class SamVisionEncoderOutput(ModelOutput):
"""
Base class for sam vision model's outputs that also contains image embeddings obtained by applying the projection
layer to the pooler_output.
Args:
image_embeds (`torch.FloatTensor` of shape `(batch_size, output_dim)` *optional* returned when model is initialized with `with_projection=True`):
The image embeddings obtained by applying the projection layer to the pooler_output.
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the model.
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings, if the model has an embedding layer, +
one for the output of each layer) of shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the optional initial embedding outputs.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
"""
image_embeds: Optional[torch.FloatTensor] = None
last_hidden_state: torch.FloatTensor = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
class SamImageSegmentationOutput(ModelOutput):
"""
Base class for Segment-Anything model's output
Args:
iou_scores (`torch.FloatTensor` of shape `(batch_size, num_masks)`):
The iou scores of the predicted masks.
pred_masks (`torch.FloatTensor` of shape `(batch_size, num_masks, height, width)`):
The predicted low resolutions masks. Needs to be post-processed by the processor
vision_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings, if the model has an embedding layer, +
one for the output of each layer) of shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the vision model at the output of each layer plus the optional initial embedding outputs.
vision_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
mask_decoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
"""
iou_scores: torch.FloatTensor = None
pred_masks: torch.FloatTensor = None
vision_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
vision_attentions: Optional[Tuple[torch.FloatTensor]] = None
mask_decoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
class SamPatchEmbeddings(nn.Module):
"""
This class turns `pixel_values` of shape `(batch_size, num_channels, height, width)` into the initial
`hidden_states` (patch embeddings) of shape `(batch_size, seq_length, hidden_size)` to be consumed by a
Transformer.
"""
def __init__(self, config):
super().__init__()
image_size, patch_size = config.image_size, config.patch_size
num_channels, hidden_size = config.num_channels, config.hidden_size
image_size = image_size if isinstance(image_size, collections.abc.Iterable) else (image_size, image_size)
patch_size = patch_size if isinstance(patch_size, collections.abc.Iterable) else (patch_size, patch_size)
num_patches = (image_size[1] // patch_size[1]) * (image_size[0] // patch_size[0])
self.image_size = image_size
self.patch_size = patch_size
self.num_channels = num_channels
self.num_patches = num_patches
self.projection = nn.Conv2d(num_channels, hidden_size, kernel_size=patch_size, stride=patch_size)
def forward(self, pixel_values):
batch_size, num_channels, height, width = pixel_values.shape
if num_channels != self.num_channels:
raise ValueError(
"Make sure that the channel dimension of the pixel values match with the one set in the configuration."
)
if height != self.image_size[0] or width != self.image_size[1]:
raise ValueError(
f"Input image size ({height}*{width}) doesn't match model ({self.image_size[0]}*{self.image_size[1]})."
)
embeddings = self.projection(pixel_values).permute(0, 2, 3, 1)
return embeddings
class SamMLPBlock(nn.Module):
def __init__(self, config):
super().__init__()
self.lin1 = nn.Linear(config.hidden_size, config.mlp_dim)
self.lin2 = nn.Linear(config.mlp_dim, config.hidden_size)
self.act = ACT2FN[config.hidden_act]
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.lin1(hidden_states)
hidden_states = self.act(hidden_states)
hidden_states = self.lin2(hidden_states)
return hidden_states
# Copied from transformers.models.convnext.modeling_convnext.ConvNextLayerNorm with ConvNext->Sam
class SamLayerNorm(nn.Module):
r"""LayerNorm that supports two data formats: channels_last (default) or channels_first.
The ordering of the dimensions in the inputs. channels_last corresponds to inputs with shape (batch_size, height,
width, channels) while channels_first corresponds to inputs with shape (batch_size, channels, height, width).
"""
def __init__(self, normalized_shape, eps=1e-6, data_format="channels_last"):
super().__init__()
self.weight = nn.Parameter(torch.ones(normalized_shape))
self.bias = nn.Parameter(torch.zeros(normalized_shape))
self.eps = eps
self.data_format = data_format
if self.data_format not in ["channels_last", "channels_first"]:
raise NotImplementedError(f"Unsupported data format: {self.data_format}")
self.normalized_shape = (normalized_shape,)
def forward(self, x: torch.Tensor) -> torch.Tensor:
if self.data_format == "channels_last":
x = torch.nn.functional.layer_norm(x, self.normalized_shape, self.weight, self.bias, self.eps)
elif self.data_format == "channels_first":
input_dtype = x.dtype
x = x.float()
u = x.mean(1, keepdim=True)
s = (x - u).pow(2).mean(1, keepdim=True)
x = (x - u) / torch.sqrt(s + self.eps)
x = x.to(dtype=input_dtype)
x = self.weight[:, None, None] * x + self.bias[:, None, None]
return x
class SamAttention(nn.Module):
"""
SAM's attention layer that allows for downscaling the size of the embedding after projection to queries, keys, and
values.
"""
def __init__(self, config, downsample_rate=None):
super().__init__()
self.hidden_size = config.hidden_size
downsample_rate = config.attention_downsample_rate if downsample_rate is None else downsample_rate
self.internal_dim = config.hidden_size // downsample_rate
self.num_attention_heads = config.num_attention_heads
if self.internal_dim % config.num_attention_heads != 0:
raise ValueError("num_attention_heads must divide hidden_size.")
self.q_proj = nn.Linear(self.hidden_size, self.internal_dim)
self.k_proj = nn.Linear(self.hidden_size, self.internal_dim)
self.v_proj = nn.Linear(self.hidden_size, self.internal_dim)
self.out_proj = nn.Linear(self.internal_dim, self.hidden_size)
def _separate_heads(self, hidden_states: Tensor, num_attention_heads: int) -> Tensor:
batch, point_batch_size, n_tokens, channel = hidden_states.shape
c_per_head = channel // num_attention_heads
hidden_states = hidden_states.reshape(batch * point_batch_size, n_tokens, num_attention_heads, c_per_head)
return hidden_states.transpose(1, 2)
def _recombine_heads(self, hidden_states: Tensor, point_batch_size: int) -> Tensor:
batch, n_heads, n_tokens, c_per_head = hidden_states.shape
hidden_states = hidden_states.transpose(1, 2)
return hidden_states.reshape(batch // point_batch_size, point_batch_size, n_tokens, n_heads * c_per_head)
def forward(self, query: Tensor, key: Tensor, value: Tensor, attention_similarity: Tensor = None) -> Tensor:
# Input projections
query = self.q_proj(query)
key = self.k_proj(key)
value = self.v_proj(value)
point_batch_size = query.shape[1]
# Separate into heads
query = self._separate_heads(query, self.num_attention_heads)
key = self._separate_heads(key, self.num_attention_heads)
value = self._separate_heads(value, self.num_attention_heads)
# SamAttention
_, _, _, c_per_head = query.shape
attn = query @ key.permute(0, 1, 3, 2) # batch_size * point_batch_size x N_heads x N_tokens x N_tokens
attn = attn / math.sqrt(c_per_head)
attn = torch.softmax(attn, dim=-1)
if attention_similarity is not None:
attn = attn + attention_similarity
attn = torch.softmax(attn, dim=-1)
# Get output
out = attn @ value
out = self._recombine_heads(out, point_batch_size)
out = self.out_proj(out)
return out
class SamTwoWayAttentionBlock(nn.Module):
def __init__(self, config, attention_downsample_rate: int = 2, skip_first_layer_pe: bool = False):
"""
A transformer block with four layers:
(1) self-attention of sparse inputs (2) cross attention of sparse inputs -> dense inputs (3) mlp block on
sparse inputs (4) cross attention of dense inputs -> sparse inputs
Arguments:
config (`SamMaskDecoderConfig`):
The configuration file used to instantiate the block
attention_downsample_rate (*optionalk*, int, defaults to 2):
The downsample ratio of the block used to reduce the inner dim of the attention.
skip_first_layer_pe (*optional*, bool, defaults to `False`):
Whether or not to skip the addition of the query_point_embedding on the first layer.
"""
super().__init__()
self.hidden_size = config.hidden_size
self.layer_norm_eps = config.layer_norm_eps
self.self_attn = SamAttention(config, downsample_rate=1)
self.layer_norm1 = nn.LayerNorm(self.hidden_size, eps=self.layer_norm_eps)
self.cross_attn_token_to_image = SamAttention(config, downsample_rate=attention_downsample_rate)
self.layer_norm2 = nn.LayerNorm(self.hidden_size, eps=self.layer_norm_eps)
self.mlp = SamMLPBlock(config)
self.layer_norm3 = nn.LayerNorm(self.hidden_size, eps=self.layer_norm_eps)
self.layer_norm4 = nn.LayerNorm(self.hidden_size, eps=self.layer_norm_eps)
self.cross_attn_image_to_token = SamAttention(config, downsample_rate=attention_downsample_rate)
self.skip_first_layer_pe = skip_first_layer_pe
def forward(
self,
queries: Tensor,
keys: Tensor,
query_point_embedding: Tensor,
key_point_embedding: Tensor,
attention_similarity: Tensor,
output_attentions: bool = False,
):
# Self attention block
if self.skip_first_layer_pe:
queries = self.self_attn(query=queries, key=queries, value=queries)
else:
query = queries + query_point_embedding
attn_out = self.self_attn(query=query, key=query, value=queries)
queries = queries + attn_out
queries = self.layer_norm1(queries)
# Cross attention block, tokens attending to image embedding
query = queries + query_point_embedding
key = keys + key_point_embedding
attn_out = self.cross_attn_token_to_image(
query=query, key=key, value=keys, attention_similarity=attention_similarity
)
queries = queries + attn_out
queries = self.layer_norm2(queries)
# MLP block
mlp_out = self.mlp(queries)
queries = queries + mlp_out
queries = self.layer_norm3(queries)
# Cross attention block, image embedding attending to tokens
query = queries + query_point_embedding
key = keys + key_point_embedding
attn_out = self.cross_attn_image_to_token(query=key, key=query, value=queries)
keys = keys + attn_out
keys = self.layer_norm4(keys)
outputs = (queries, keys)
if output_attentions:
outputs = outputs + (attn_out,)
else:
outputs = outputs + (None,)
return outputs
class SamTwoWayTransformer(nn.Module):
def __init__(self, config: SamMaskDecoderConfig):
super().__init__()
self.config = config
self.num_hidden_layers = config.num_hidden_layers
self.layers = nn.ModuleList()
for i in range(self.num_hidden_layers):
self.layers.append(SamTwoWayAttentionBlock(config, skip_first_layer_pe=(i == 0)))
self.final_attn_token_to_image = SamAttention(config)
self.layer_norm_final_attn = nn.LayerNorm(config.hidden_size)
def forward(
self,
point_embeddings: Tensor,
image_embeddings: Tensor,
image_positional_embeddings: Tensor,
attention_similarity: Tensor,
target_embedding=None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, BaseModelOutput]:
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
all_attentions = ()
if image_embeddings is None:
raise ValueError("You have to specify an image_embedding")
image_embeddings = image_embeddings.flatten(2).permute(0, 2, 1).unsqueeze(1)
image_positional_embeddings = image_positional_embeddings.flatten(2).permute(0, 2, 1).unsqueeze(1)
# Prepare queries
queries = point_embeddings
keys = image_embeddings
# Apply transformer blocks and final layernorm
for layer in self.layers:
if target_embedding is not None:
queries += target_embedding
queries, keys, attention_outputs = layer(
queries=queries,
keys=keys,
query_point_embedding=point_embeddings,
key_point_embedding=image_positional_embeddings,
attention_similarity=attention_similarity,
output_attentions=output_attentions,
)
if output_attentions:
all_attentions = all_attentions + (attention_outputs,)
# Apply the final attenion layer from the points to the image
query = queries + point_embeddings
key = keys + image_positional_embeddings
attn_out = self.final_attn_token_to_image(query=query, key=key, value=keys)
queries = queries + attn_out
queries = self.layer_norm_final_attn(queries)
return queries, keys, all_attentions
class SamFeedForward(nn.Module):
def __init__(
self, input_dim: int, hidden_dim: int, output_dim: int, num_layers: int, sigmoid_output: bool = False
):
super().__init__()
self.num_layers = num_layers
self.activation = nn.ReLU()
self.proj_in = nn.Linear(input_dim, hidden_dim)
self.proj_out = nn.Linear(hidden_dim, output_dim)
self.layers = nn.ModuleList([nn.Linear(hidden_dim, hidden_dim) for _ in range(num_layers - 2)])
self.sigmoid_output = sigmoid_output
def forward(self, hidden_states):
hidden_states = self.proj_in(hidden_states)
hidden_states = self.activation(hidden_states)
for layer in self.layers:
hidden_states = self.activation(layer(hidden_states))
hidden_states = self.proj_out(hidden_states)
if self.sigmoid_output:
hidden_states = F.sigmoid(hidden_states)
return hidden_states
class SamMaskDecoder(nn.Module):
def __init__(self, config: SamMaskDecoderConfig):
super().__init__()
self.hidden_size = config.hidden_size
self.num_multimask_outputs = config.num_multimask_outputs
self.num_mask_tokens = config.num_multimask_outputs + 1
self.iou_token = nn.Embedding(1, self.hidden_size)
self.mask_tokens = nn.Embedding(self.num_mask_tokens, self.hidden_size)
self.transformer = SamTwoWayTransformer(config)
# should we create a new class for this?
self.upscale_conv1 = nn.ConvTranspose2d(self.hidden_size, self.hidden_size // 4, kernel_size=2, stride=2)
self.upscale_conv2 = nn.ConvTranspose2d(self.hidden_size // 4, self.hidden_size // 8, kernel_size=2, stride=2)
self.upscale_layer_norm = SamLayerNorm(self.hidden_size // 4, data_format="channels_first")
self.activation = nn.GELU()
mlps_list = []
for _ in range(self.num_mask_tokens):
mlps_list += [SamFeedForward(self.hidden_size, self.hidden_size, self.hidden_size // 8, 3)]
self.output_hypernetworks_mlps = nn.ModuleList(mlps_list)
self.iou_prediction_head = SamFeedForward(
self.hidden_size, config.iou_head_hidden_dim, self.num_mask_tokens, config.iou_head_depth
)
def forward(
self,
image_embeddings: torch.Tensor,
image_positional_embeddings: torch.Tensor,
sparse_prompt_embeddings: torch.Tensor,
dense_prompt_embeddings: torch.Tensor,
multimask_output: bool,
output_attentions: Optional[bool] = None,
attention_similarity: torch.Tensor = None,
target_embedding: torch.Tensor = None,
) -> Tuple[torch.Tensor, torch.Tensor]:
"""
Predict masks given image and prompt embeddings.
Args:
image_embeddings (`torch.Tensor`):
the embeddings from the image encoder
image_positional_embedding (`torch.Tensor`):
positional encoding with the shape of image_embeddings
sparse_prompt_embeddings (`torch.Tensor`):
The embeddings of the points and boxes
dense_prompt_embeddings (`torch.Tensor`):
the embeddings of the mask inputs
multimask_output (bool):
Whether to return multiple masks or a single mask.
output_attentions (bool, *optional*):
Whether or not to return the attentions tensors of all attention layers.
"""
batch_size, num_channels, height, width = image_embeddings.shape
point_batch_size = sparse_prompt_embeddings.shape[1]
# Concatenate output tokens
output_tokens = torch.cat([self.iou_token.weight, self.mask_tokens.weight], dim=0)
output_tokens = output_tokens.repeat(batch_size, point_batch_size, 1, 1)
if sparse_prompt_embeddings.sum().item() != 0:
tokens = torch.cat((output_tokens, sparse_prompt_embeddings), dim=2)
else:
tokens = output_tokens
point_embeddings = tokens.to(self.iou_token.weight.dtype)
# Expand per-image data in batch direction to be per-point
image_embeddings = image_embeddings + dense_prompt_embeddings
image_embeddings = image_embeddings.repeat_interleave(point_batch_size, 0)
image_positional_embeddings = image_positional_embeddings.repeat_interleave(point_batch_size, 0)
# Run the transformer, image_positional_embedding are consumed
point_embedding, image_embeddings, attentions = self.transformer(
point_embeddings=point_embeddings,
image_embeddings=image_embeddings,
image_positional_embeddings=image_positional_embeddings,
attention_similarity=attention_similarity,
target_embedding=target_embedding,
output_attentions=output_attentions,
)
iou_token_out = point_embedding[:, :, 0, :]
mask_tokens_out = point_embedding[:, :, 1 : (1 + self.num_mask_tokens), :]
# Upscale mask embeddings and predict masks using the mask tokens
image_embeddings = image_embeddings.transpose(2, 3).reshape(
batch_size * point_batch_size, num_channels, height, width
)
upscaled_embedding = self.upscale_conv1(image_embeddings)
upscaled_embedding = self.activation(self.upscale_layer_norm(upscaled_embedding))
upscaled_embedding = self.activation(self.upscale_conv2(upscaled_embedding))
hyper_in_list = []
for i in range(self.num_mask_tokens):
current_mlp = self.output_hypernetworks_mlps[i]
hyper_in_list += [current_mlp(mask_tokens_out[:, :, i, :])]
hyper_in = torch.stack(hyper_in_list, dim=2)
_, num_channels, height, width = upscaled_embedding.shape
upscaled_embedding = upscaled_embedding.reshape(batch_size, point_batch_size, num_channels, height * width)
masks = (hyper_in @ upscaled_embedding).reshape(batch_size, point_batch_size, -1, height, width)
# Generate mask quality predictions
iou_pred = self.iou_prediction_head(iou_token_out)
# Select the correct mask or masks for output
if multimask_output:
mask_slice = slice(1, None)
else:
mask_slice = slice(0, 1)
masks = masks[:, :, mask_slice, :, :]
iou_pred = iou_pred[:, :, mask_slice]
outputs = (masks, iou_pred)
if output_attentions:
outputs = outputs + (attentions,)
else:
outputs = outputs + (None,)
return outputs
class SamPositionalEmbedding(nn.Module):
def __init__(self, config):
super().__init__()
self.scale = config.hidden_size // 2
self.register_buffer("positional_embedding", self.scale * torch.randn((2, config.num_pos_feats)))
def forward(self, input_coords, input_shape=None):
"""Positionally encode points that are normalized to [0,1]."""
coordinates = input_coords.clone()
if input_shape is not None:
coordinates[:, :, :, 0] = coordinates[:, :, :, 0] / input_shape[1]
coordinates[:, :, :, 1] = coordinates[:, :, :, 1] / input_shape[0]
# assuming coords are in [0, 1]^2 square and have d_1 x ... x d_n x 2 shape
coordinates = 2 * coordinates - 1
coordinates = coordinates.to(self.positional_embedding.dtype)
coordinates = coordinates @ self.positional_embedding
coordinates = 2 * np.pi * coordinates
# outputs d_1 x ... x d_n x channel shape
return torch.cat([torch.sin(coordinates), torch.cos(coordinates)], dim=-1)
class SamMaskEmbedding(nn.Module):
def __init__(self, config: SamPromptEncoderConfig):
super().__init__()
self.mask_input_channels = config.mask_input_channels // 4
self.activation = ACT2FN[config.hidden_act]
self.conv1 = nn.Conv2d(1, self.mask_input_channels, kernel_size=2, stride=2)
self.conv2 = nn.Conv2d(self.mask_input_channels, config.mask_input_channels, kernel_size=2, stride=2)
self.conv3 = nn.Conv2d(config.mask_input_channels, config.hidden_size, kernel_size=1)
self.layer_norm1 = SamLayerNorm(
self.mask_input_channels, eps=config.layer_norm_eps, data_format="channels_first"
)
self.layer_norm2 = SamLayerNorm(
self.mask_input_channels * 4, eps=config.layer_norm_eps, data_format="channels_first"
)
def forward(self, masks):
hidden_states = self.conv1(masks)
hidden_states = self.layer_norm1(hidden_states)
hidden_states = self.activation(hidden_states)
hidden_states = self.conv2(hidden_states)
hidden_states = self.layer_norm2(hidden_states)
hidden_states = self.activation(hidden_states)
dense_embeddings = self.conv3(hidden_states)
return dense_embeddings
class SamPromptEncoder(nn.Module):
def __init__(self, config: SamPromptEncoderConfig, shared_patch_embedding):
super().__init__()
self.shared_embedding = shared_patch_embedding
self.mask_embed = SamMaskEmbedding(config)
self.no_mask_embed = nn.Embedding(1, config.hidden_size)
self.image_embedding_size = (config.image_embedding_size, config.image_embedding_size)
self.input_image_size = config.image_size
self.point_embed = nn.ModuleList(
[nn.Embedding(1, config.hidden_size) for i in range(config.num_point_embeddings)]
)
self.hidden_size = config.hidden_size
self.not_a_point_embed = nn.Embedding(1, config.hidden_size)
def _embed_points(self, points: torch.Tensor, labels: torch.Tensor, pad: bool) -> torch.Tensor:
"""Embeds point prompts."""
points = points + 0.5 # Shift to center of pixel
if pad:
target_point_shape = (points.shape[0], points.shape[1], 1, points.shape[-1])
target_labels_shape = (points.shape[0], points.shape[1], 1)
padding_point = torch.zeros(target_point_shape, device=points.device)
padding_label = -torch.ones(target_labels_shape, device=labels.device)
points = torch.cat([points, padding_point], dim=2)
labels = torch.cat([labels, padding_label], dim=2)
input_shape = (self.input_image_size, self.input_image_size)
point_embedding = self.shared_embedding(points, input_shape)
# torch.where and expanding the labels tensor is required by the ONNX export
point_embedding = torch.where(labels[..., None] == -1, self.not_a_point_embed.weight, point_embedding)
# This is required for the ONNX export. The dtype, device need to be explicitely
# specificed as otherwise torch.onnx.export interprets as double
point_embedding = torch.where(
labels[..., None] != -10,
point_embedding,
torch.tensor(0.0, dtype=point_embedding.dtype, device=point_embedding.device),
)
point_embedding = torch.where(
(labels == 0)[:, :, :, None],
point_embedding + self.point_embed[0].weight[None, None, :, :],
point_embedding,
)
point_embedding = torch.where(
(labels == 1)[:, :, :, None],
point_embedding + self.point_embed[1].weight[None, None, :, :],
point_embedding,
)
return point_embedding
def _embed_boxes(self, boxes: torch.Tensor) -> torch.Tensor:
"""Embeds box prompts."""
boxes = boxes + 0.5 # Shift to center of pixel
batch_size, nb_boxes = boxes.shape[:2]
coords = boxes.reshape(batch_size, nb_boxes, 2, 2)
input_shape = (self.input_image_size, self.input_image_size)
corner_embedding = self.shared_embedding(coords, input_shape)
corner_embedding[:, :, 0, :] += self.point_embed[2].weight
corner_embedding[:, :, 1, :] += self.point_embed[3].weight
return corner_embedding
def forward(
self,
input_points: Optional[Tuple[torch.Tensor, torch.Tensor]],
input_labels: Optional[torch.Tensor],
input_boxes: Optional[torch.Tensor],
input_masks: Optional[torch.Tensor],
) -> Tuple[torch.Tensor, torch.Tensor]:
"""
Embeds different types of prompts, returning both sparse and dense embeddings.
Args:
points (`torch.Tensor`, *optional*):
point coordinates and labels to embed.
boxes (`torch.Tensor`, *optional*):
boxes to embed
masks (`torch.Tensor`, *optional*):
masks to embed
"""
sparse_embeddings = None
batch_size = 1
target_device = self.shared_embedding.positional_embedding.device
if input_points is not None:
batch_size, point_batch_size = input_points.shape[:2]
if input_labels is None:
raise ValueError("If points are provided, labels must also be provided.")
point_embeddings = self._embed_points(input_points, input_labels, pad=(input_boxes is None))
sparse_embeddings = point_embeddings
if input_boxes is not None:
batch_size = input_boxes.shape[0]
box_embeddings = self._embed_boxes(input_boxes)
if sparse_embeddings is None:
sparse_embeddings = box_embeddings
else:
sparse_embeddings = torch.cat([sparse_embeddings, box_embeddings], dim=2)
if input_masks is not None:
dense_embeddings = self.mask_embed(input_masks)
else:
dense_embeddings = self.no_mask_embed.weight.reshape(1, -1, 1, 1).expand(
batch_size, -1, self.image_embedding_size[0], self.image_embedding_size[1]
)
if sparse_embeddings is None:
sparse_embeddings = torch.zeros((batch_size, 1, 1, self.hidden_size), device=target_device)
return sparse_embeddings, dense_embeddings
class SamVisionAttention(nn.Module):
"""Multi-head Attention block with relative position embeddings."""
def __init__(self, config, window_size):
super().__init__()
input_size = (
(config.image_size // config.patch_size, config.image_size // config.patch_size)
if window_size == 0
else (window_size, window_size)
)
self.num_attention_heads = config.num_attention_heads
head_dim = config.hidden_size // config.num_attention_heads
self.scale = head_dim**-0.5
self.dropout = config.attention_dropout
self.qkv = nn.Linear(config.hidden_size, config.hidden_size * 3, bias=config.qkv_bias)
self.proj = nn.Linear(config.hidden_size, config.hidden_size)
self.use_rel_pos = config.use_rel_pos
if self.use_rel_pos:
if input_size is None:
raise ValueError("Input size must be provided if using relative positional encoding.")
# initialize relative positional embeddings
self.rel_pos_h = nn.Parameter(torch.zeros(2 * input_size[0] - 1, head_dim))
self.rel_pos_w = nn.Parameter(torch.zeros(2 * input_size[1] - 1, head_dim))
def get_rel_pos(self, q_size: int, k_size: int, rel_pos: torch.Tensor) -> torch.Tensor:
"""
Get relative positional embeddings according to the relative positions of
query and key sizes.
Args:
q_size (int):
size of the query.
k_size (int):
size of key k.
rel_pos (`torch.Tensor`):
relative position embeddings (L, channel).
Returns:
Extracted positional embeddings according to relative positions.
"""
max_rel_dist = int(2 * max(q_size, k_size) - 1)
# Interpolate rel pos.
rel_pos_resized = F.interpolate(
rel_pos.reshape(1, rel_pos.shape[0], -1).permute(0, 2, 1),
size=max_rel_dist,
mode="linear",
)
rel_pos_resized = rel_pos_resized.reshape(-1, max_rel_dist).permute(1, 0)
# Scale the coords with short length if shapes for q and k are different.
q_coords = torch.arange(q_size)[:, None] * max(k_size / q_size, 1.0)
k_coords = torch.arange(k_size)[None, :] * max(q_size / k_size, 1.0)
relative_coords = (q_coords - k_coords) + (k_size - 1) * max(q_size / k_size, 1.0)
return rel_pos_resized[relative_coords.long()]
def add_decomposed_rel_pos(
self,
attn: torch.Tensor,
query: torch.Tensor,
rel_pos_h: torch.Tensor,
rel_pos_w: torch.Tensor,
q_size: Tuple[int, int],
k_size: Tuple[int, int],
) -> torch.Tensor:
"""
Calculate decomposed Relative Positional Embeddings from :paper:`mvitv2`.
https://github.com/facebookresearch/mvit/blob/19786631e330df9f3622e5402b4a419a263a2c80/mvit/models/attention.py
Args:
attn (`torch.Tensor`):
attention map.
query (`torch.Tensor`):
query q in the attention layer with shape (batch_size, query_height * query_width, channel).
rel_pos_h (`torch.Tensor`):
relative position embeddings (Lh, channel) for height axis.
rel_pos_w (`torch.Tensor`):
relative position embeddings (Lw, channel) for width axis.
q_size (tuple):
spatial sequence size of query q with (query_height, query_width).
k_size (tuple):
spatial sequence size of key k with (key_height, key_width).
Returns:
attn (`torch.Tensor`):
attention map with added relative positional embeddings.
"""
query_height, query_width = q_size
key_height, key_width = k_size
relative_position_height = self.get_rel_pos(query_height, key_height, rel_pos_h)
relative_position_width = self.get_rel_pos(query_width, key_width, rel_pos_w)
batch_size, _, dim = query.shape
reshaped_query = query.reshape(batch_size, query_height, query_width, dim)
rel_h = torch.einsum("bhwc,hkc->bhwk", reshaped_query, relative_position_height)
rel_w = torch.einsum("bhwc,wkc->bhwk", reshaped_query, relative_position_width)
attn = attn.reshape(batch_size, query_height, query_width, key_height, key_width)
attn = attn + rel_h[:, :, :, :, None] + rel_w[:, :, :, None, :]
attn = attn.reshape(batch_size, query_height * query_width, key_height * key_width)
return attn
def forward(self, hidden_states: torch.Tensor, output_attentions=False) -> torch.Tensor:
batch_size, height, width, _ = hidden_states.shape
# qkv with shape (3, batch_size, nHead, height * width, channel)
qkv = (
self.qkv(hidden_states)
.reshape(batch_size, height * width, 3, self.num_attention_heads, -1)
.permute(2, 0, 3, 1, 4)
)
# q, k, v with shape (batch_size * nHead, height * width, channel)
query, key, value = qkv.reshape(3, batch_size * self.num_attention_heads, height * width, -1).unbind(0)
attn_weights = (query * self.scale) @ key.transpose(-2, -1)
if self.use_rel_pos:
attn_weights = self.add_decomposed_rel_pos(
attn_weights, query, self.rel_pos_h, self.rel_pos_w, (height, width), (height, width)
)
attn_weights = torch.nn.functional.softmax(attn_weights, dtype=torch.float32, dim=-1).to(query.dtype)
attn_probs = nn.functional.dropout(attn_weights, p=self.dropout, training=self.training)
attn_output = (attn_probs @ value).reshape(batch_size, self.num_attention_heads, height, width, -1)
attn_output = attn_output.permute(0, 2, 3, 1, 4).reshape(batch_size, height, width, -1)
attn_output = self.proj(attn_output)
if output_attentions:
outputs = (attn_output, attn_weights)
else:
outputs = (attn_output, None)
return outputs
class SamVisionLayer(nn.Module):
def __init__(self, config, window_size):
super().__init__()
self.layer_norm1 = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.attn = SamVisionAttention(config, window_size)
self.layer_norm2 = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.mlp = SamMLPBlock(config)
self.window_size = window_size
def window_partition(self, hidden_states: torch.Tensor, window_size: int) -> Tuple[torch.Tensor, Tuple[int, int]]:
"""
Args:
Partition into non-overlapping windows with padding if needed.
hidden_states (tensor): input tokens with [batch_size, height, width, channel]. window_size (int): window
size.
Returns:
windows: windows after partition with [batch_size * num_windows, window_size, window_size, channel].
(pad_height, pad_width): padded height and width before partition
"""
batch_size, height, width, channel = hidden_states.shape
pad_h = (window_size - height % window_size) % window_size
pad_w = (window_size - width % window_size) % window_size
hidden_states = F.pad(hidden_states, (0, 0, 0, pad_w, 0, pad_h))
pad_height, pad_width = height + pad_h, width + pad_w
hidden_states = hidden_states.reshape(
batch_size, pad_height // window_size, window_size, pad_width // window_size, window_size, channel
)
windows = hidden_states.permute(0, 1, 3, 2, 4, 5).contiguous().reshape(-1, window_size, window_size, channel)
return windows, (pad_height, pad_width)
def window_unpartition(
self, windows: torch.Tensor, window_size: int, padding_shape: Tuple[int, int], original_shape: Tuple[int, int]
) -> torch.Tensor:
"""
Args:
Window unpartition into original sequences and removing padding.
hidden_states (tensor):
input tokens with [batch_size * num_windows, window_size, window_size, channel].
window_size (int):
window size.
padding_shape (Tuple):
padded height and width (pad_height, pad_width).
original_shape (Tuple): original height and width (height, width) before padding.
Returns:
hidden_states: unpartitioned sequences with [batch_size, height, width, channel].
"""
pad_height, pad_width = padding_shape
height, width = original_shape
batch_size = windows.shape[0] // (pad_height * pad_width // window_size // window_size)
hidden_states = windows.reshape(
batch_size, pad_height // window_size, pad_width // window_size, window_size, window_size, -1
)
hidden_states = (
hidden_states.permute(0, 1, 3, 2, 4, 5).contiguous().reshape(batch_size, pad_height, pad_width, -1)
)
hidden_states = hidden_states[:, :height, :width, :].contiguous()
return hidden_states
def forward(
self,
hidden_states: torch.Tensor,
output_attentions: Optional[bool] = False,
) -> Tuple[torch.FloatTensor]:
residual = hidden_states
hidden_states = self.layer_norm1(hidden_states)
# Window partition
if self.window_size > 0:
height, width = hidden_states.shape[1], hidden_states.shape[2]
hidden_states, padding_shape = self.window_partition(hidden_states, self.window_size)
hidden_states, attn_weights = self.attn(
hidden_states=hidden_states,
output_attentions=output_attentions,
)
# Reverse window partition
if self.window_size > 0:
hidden_states = self.window_unpartition(hidden_states, self.window_size, padding_shape, (height, width))
hidden_states = residual + hidden_states
layernorm_output = self.layer_norm2(hidden_states)
hidden_states = hidden_states + self.mlp(layernorm_output)
outputs = (hidden_states,)
if output_attentions:
outputs += (attn_weights,)
return outputs
class SamVisionNeck(nn.Module):
def __init__(self, config: SamVisionConfig):
super().__init__()
self.config = config
self.conv1 = nn.Conv2d(config.hidden_size, config.output_channels, kernel_size=1, bias=False)
self.layer_norm1 = SamLayerNorm(config.output_channels, data_format="channels_first")
self.conv2 = nn.Conv2d(config.output_channels, config.output_channels, kernel_size=3, padding=1, bias=False)
self.layer_norm2 = SamLayerNorm(config.output_channels, data_format="channels_first")
def forward(self, hidden_states):
hidden_states = hidden_states.permute(0, 3, 1, 2)
hidden_states = self.conv1(hidden_states)
hidden_states = self.layer_norm1(hidden_states)
hidden_states = self.conv2(hidden_states)
hidden_states = self.layer_norm2(hidden_states)
return hidden_states
class SamVisionEncoder(nn.Module):
def __init__(self, config: SamVisionConfig):
super().__init__()
self.config = config
self.image_size = config.image_size
self.patch_embed = SamPatchEmbeddings(config)
self.pos_embed = None
if config.use_abs_pos:
# Initialize absolute positional embedding with pretrain image size.
self.pos_embed = nn.Parameter(
torch.zeros(
1,
config.image_size // config.patch_size,
config.image_size // config.patch_size,
config.hidden_size,
)
)
self.layers = nn.ModuleList()
for i in range(config.num_hidden_layers):
layer = SamVisionLayer(
config,
window_size=config.window_size if i not in config.global_attn_indexes else 0,
)
self.layers.append(layer)
self.neck = SamVisionNeck(config)
self.gradient_checkpointing = False
def get_input_embeddings(self):
return self.patch_embed
def forward(
self,
pixel_values: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, SamVisionEncoderOutput]:
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if pixel_values is None:
raise ValueError("You have to specify pixel_values")
hidden_states = self.patch_embed(pixel_values)
if self.pos_embed is not None:
hidden_states = hidden_states + self.pos_embed
all_hidden_states = () if output_hidden_states else None
all_self_attentions = () if output_attentions else None
for i, layer_module in enumerate(self.layers):
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(layer_module),
hidden_states,
)
else:
layer_outputs = layer_module(hidden_states, output_attentions=output_attentions)
hidden_states = layer_outputs[0]
if output_attentions:
all_self_attentions = all_self_attentions + (layer_outputs[1],)
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
hidden_states = self.neck(hidden_states)
if not return_dict:
outputs = (hidden_states,)
if output_hidden_states:
outputs = outputs + (all_hidden_states,)
if output_attentions:
outputs = outputs + (all_self_attentions,)
return outputs
return SamVisionEncoderOutput(
last_hidden_state=hidden_states,
hidden_states=all_hidden_states,
attentions=all_self_attentions,
)
class SamPreTrainedModel(PreTrainedModel):
config_class = SamConfig
base_model_prefix = "sam"
main_input_name = "pixel_values"
def _init_weights(self, module):
std = self.config.initializer_range
if isinstance(module, (nn.Linear, nn.Conv2d, nn.ConvTranspose2d)):
module.weight.data.normal_(mean=0.0, std=std)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=std)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
SAM_START_DOCSTRING = r"""
This model inherits from [`PreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) subclass.
Use it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage
and behavior.
Parameters:
config ([`SamConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
SAM_INPUTS_DOCSTRING = r"""
Args:
pixel_values (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Pixel values. Pixel values can be obtained using [`SamProcessor`]. See [`SamProcessor.__call__`] for
details.
input_points (`torch.FloatTensor` of shape `(batch_size, num_points, 2)`):
Input 2D spatial points, this is used by the prompt encoder to encode the prompt. Generally yields to much
better results. The points can be obtained by passing a list of list of list to the processor that will
create corresponding `torch` tensors of dimension 4. The first dimension is the image batch size, the
second dimension is the point batch size (i.e. how many segmentation masks do we want the model to predict
per input point), the third dimension is the number of points per segmentation mask (it is possible to pass
multiple points for a single mask), and the last dimension is the x (vertical) and y (horizontal)
coordinates of the point. If a different number of points is passed either for each image, or for each
mask, the processor will create "PAD" points that will correspond to the (0, 0) coordinate, and the
computation of the embedding will be skipped for these points using the labels.
input_labels (`torch.LongTensor` of shape `(batch_size, point_batch_size, num_points)`):
Input labels for the points, this is used by the prompt encoder to encode the prompt. According to the
official implementation, there are 3 types of labels
- `1`: the point is a point that contains the object of interest
- `0`: the point is a point that does not contain the object of interest
- `-1`: the point corresponds to the background
We added the label:
- `-10`: the point is a padding point, thus should be ignored by the prompt encoder
The padding labels should be automatically done by the processor.
input_boxes (`torch.FloatTensor` of shape `(batch_size, num_boxes, 4)`):
Input boxes for the points, this is used by the prompt encoder to encode the prompt. Generally yields to
much better generated masks. The boxes can be obtained by passing a list of list of list to the processor,
that will generate a `torch` tensor, with each dimension corresponding respectively to the image batch
size, the number of boxes per image and the coordinates of the top left and botton right point of the box.
In the order (`x1`, `y1`, `x2`, `y2`):
- `x1`: the x coordinate of the top left point of the input box
- `y1`: the y coordinate of the top left point of the input box
- `x2`: the x coordinate of the bottom right point of the input box
- `y2`: the y coordinate of the bottom right point of the input box
input_masks (`torch.FloatTensor` of shape `(batch_size, image_size, image_size)`):
SAM model also accepts segmentation masks as input. The mask will be embedded by the prompt encoder to
generate a corresponding embedding, that will be fed later on to the mask decoder. These masks needs to be
manually fed by the user, and they need to be of shape (`batch_size`, `image_size`, `image_size`).
image_embeddings (`torch.FloatTensor` of shape `(batch_size, output_channels, window_size, window_size)`):
Image embeddings, this is used by the mask decder to generate masks and iou scores. For more memory
efficient computation, users can first retrieve the image embeddings using the `get_image_embeddings`
method, and then feed them to the `forward` method instead of feeding the `pixel_values`.
multimask_output (`bool`, *optional*):
In the original implementation and paper, the model always outputs 3 masks per image (or per point / per
bounding box if relevant). However, it is possible to just output a single mask, that corresponds to the
"best" mask, by specifying `multimask_output=False`.
attention_similarity (`torch.FloatTensor`, *optional*):
Attention similarity tensor, to be provided to the mask decoder for target-guided attention in case the
model is used for personalization as introduced in [PerSAM](https://arxiv.org/abs/2305.03048).
target_embedding (`torch.FloatTensor`, *optional*):
Embedding of the target concept, to be provided to the mask decoder for target-semantic prompting in case
the model is used for personalization as introduced in [PerSAM](https://arxiv.org/abs/2305.03048).
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
@add_start_docstrings(
"Segment Anything Model (SAM) for generating segmentation masks, given an input image and ",
" optional 2D location and bounding boxes.",
SAM_START_DOCSTRING,
)
class SamModel(SamPreTrainedModel):
_tied_weights_keys = ["prompt_encoder.shared_embedding.positional_embedding"]
def __init__(self, config):
super().__init__(config)
self.shared_image_embedding = SamPositionalEmbedding(config.vision_config)
self.vision_encoder = SamVisionEncoder(config.vision_config)
self.prompt_encoder = SamPromptEncoder(config.prompt_encoder_config, self.shared_image_embedding)
self.mask_decoder = SamMaskDecoder(config.mask_decoder_config)
self.post_init()
def get_input_embeddings(self):
return self.vision_encoder.get_input_embeddings()
def get_image_wide_positional_embeddings(self):
size = self.config.prompt_encoder_config.image_embedding_size
target_device = self.shared_image_embedding.positional_embedding.device
target_dtype = self.shared_image_embedding.positional_embedding.dtype
grid = torch.ones((size, size), device=target_device, dtype=target_dtype)
y_embed = grid.cumsum(dim=0) - 0.5
x_embed = grid.cumsum(dim=1) - 0.5
y_embed = y_embed / size
x_embed = x_embed / size
positional_embedding = self.shared_image_embedding(torch.stack([x_embed, y_embed], dim=-1))
return positional_embedding.permute(2, 0, 1).unsqueeze(0) # channel x height x width
@torch.no_grad()
def get_image_embeddings(
self,
pixel_values,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
):
r"""
Returns the image embeddings by passing the pixel values through the vision encoder.
Args:
pixel_values (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Input pixel values
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
vision_output = self.vision_encoder(
pixel_values,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
image_embeddings = vision_output[0]
return image_embeddings
@torch.no_grad()
def get_prompt_embeddings(
self,
input_points: Optional[torch.FloatTensor] = None,
input_labels: Optional[torch.LongTensor] = None,
input_boxes: Optional[torch.FloatTensor] = None,
input_masks: Optional[torch.LongTensor] = None,
):
r"""
Returns the prompt embeddings by passing the input points, labels, boxes and masks through the prompt encoder.
Args:
input_points (`torch.FloatTensor` of shape `(batch_size, point_batch_size, num_points_per_image, 2)`):
Optional input points for the prompt encoder. The padding of the point is automatically done by the
processor. `point_batch_size` refers to the number of masks that we want the model to predict per
point. The model will output `point_batch_size` times 3 masks in total.
input_labels (`torch.LongTensor` of shape `(batch_size, point_batch_size, num_points_per_image)`):
Optional input labels for the prompt encoder. The padding of the labels is automatically done by the
processor, or can be fed by the user.
input_boxes (`torch.FloatTensor` of shape `(batch_size, num_boxes_per_image, 4)`):
Optional input boxes for the prompt encoder. The padding of the boxes is automatically done by the
processor. users can also pass manually the input boxes.
input_masks (`torch.LongTensor` of shape `(batch_size, image_size, image_size)`):
Optional input masks for the prompt encoder.
"""
prompt_output = self.prompt_encoder(
input_points=input_points,
input_labels=input_labels,
input_boxes=input_boxes,
input_masks=input_masks,
)
return prompt_output
@add_start_docstrings_to_model_forward(SAM_INPUTS_DOCSTRING)
def forward(
self,
pixel_values: Optional[torch.FloatTensor] = None,
input_points: Optional[torch.FloatTensor] = None,
input_labels: Optional[torch.LongTensor] = None,
input_boxes: Optional[torch.FloatTensor] = None,
input_masks: Optional[torch.LongTensor] = None,
image_embeddings: Optional[torch.FloatTensor] = None,
multimask_output: bool = True,
attention_similarity: Optional[torch.FloatTensor] = None,
target_embedding: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict=None,
**kwargs,
) -> List[Dict[str, torch.Tensor]]:
r"""
Example:
```python
>>> from PIL import Image
>>> import requests
>>> from transformers import AutoModel, AutoProcessor
>>> model = AutoModel.from_pretrained("facebook/sam-vit-base")
>>> processor = AutoProcessor.from_pretrained("facebook/sam-vit-base")
>>> img_url = "https://huggingface.co/datasets/huggingface/documentation-images/resolve/main/transformers/model_doc/sam-car.png"
>>> raw_image = Image.open(requests.get(img_url, stream=True).raw).convert("RGB")
>>> input_points = [[[400, 650]]] # 2D location of a window on the car
>>> inputs = processor(images=raw_image, input_points=input_points, return_tensors="pt")
>>> # Get segmentation mask
>>> outputs = model(**inputs)
>>> # Postprocess masks
>>> masks = processor.post_process_masks(
... outputs.pred_masks, inputs["original_sizes"], inputs["reshaped_input_sizes"]
... )
```
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if pixel_values is None and image_embeddings is None:
raise ValueError("Either pixel_values or image_embeddings must be provided.")
if pixel_values is not None and image_embeddings is not None:
raise ValueError("Only one of pixel_values and image_embeddings can be provided.")
if input_points is not None and len(input_points.shape) != 4:
raise ValueError(
"The input_points must be a 4D tensor. Of shape `batch_size`, `point_batch_size`, `nb_points_per_image`, `2`.",
" got {}.".format(input_points.shape),
)
if input_boxes is not None and len(input_boxes.shape) != 3:
raise ValueError(
"The input_points must be a 3D tensor. Of shape `batch_size`, `nb_boxes`, `4`.",
" got {}.".format(input_boxes.shape),
)
if input_points is not None and input_boxes is not None:
point_batch_size = input_points.shape[1]
box_batch_size = input_boxes.shape[1]
if point_batch_size != box_batch_size:
raise ValueError(
"You should provide as many bounding boxes as input points per box. Got {} and {}.".format(
point_batch_size, box_batch_size
)
)
image_positional_embeddings = self.get_image_wide_positional_embeddings()
# repeat with batch size
batch_size = pixel_values.shape[0] if pixel_values is not None else image_embeddings.shape[0]
image_positional_embeddings = image_positional_embeddings.repeat(batch_size, 1, 1, 1)
vision_attentions = None
vision_hidden_states = None
if pixel_values is not None:
vision_outputs = self.vision_encoder(
pixel_values,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
image_embeddings = vision_outputs[0]
if output_hidden_states:
vision_hidden_states = vision_outputs[1]
if output_attentions:
vision_attentions = vision_outputs[-1]
if input_points is not None and input_labels is None:
input_labels = torch.ones_like(input_points[:, :, :, 0], dtype=torch.int, device=input_points.device)
if input_points is not None and image_embeddings.shape[0] != input_points.shape[0]:
raise ValueError(
"The batch size of the image embeddings and the input points must be the same. ",
"Got {} and {} respectively.".format(image_embeddings.shape[0], input_points.shape[0]),
" if you want to pass multiple points for the same image, make sure that you passed ",
" input_points of shape (batch_size, point_batch_size, num_points_per_image, 3) and ",
" input_labels of shape (batch_size, point_batch_size, num_points_per_image)",
)
sparse_embeddings, dense_embeddings = self.prompt_encoder(
input_points=input_points,
input_labels=input_labels,
input_boxes=input_boxes,
input_masks=input_masks,
)
low_res_masks, iou_predictions, mask_decoder_attentions = self.mask_decoder(
image_embeddings=image_embeddings,
image_positional_embeddings=image_positional_embeddings,
sparse_prompt_embeddings=sparse_embeddings,
dense_prompt_embeddings=dense_embeddings,
multimask_output=multimask_output,
attention_similarity=attention_similarity,
target_embedding=target_embedding,
output_attentions=output_attentions,
)
if not return_dict:
output = (iou_predictions, low_res_masks)
if output_hidden_states:
output = output + (vision_hidden_states,)
if output_attentions:
output = output + (vision_attentions, mask_decoder_attentions)
return output
return SamImageSegmentationOutput(
iou_scores=iou_predictions,
pred_masks=low_res_masks,
vision_hidden_states=vision_hidden_states,
vision_attentions=vision_attentions,
mask_decoder_attentions=mask_decoder_attentions,
)
| transformers-main | src/transformers/models/sam/modeling_sam.py |
# coding=utf-8
# Copyright 2023 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""
Convert SAM checkpoints from the original repository.
"""
import argparse
import re
import numpy as np
import requests
import torch
from huggingface_hub import hf_hub_download
from PIL import Image
from transformers import (
SamConfig,
SamImageProcessor,
SamModel,
SamProcessor,
SamVisionConfig,
)
KEYS_TO_MODIFY_MAPPING = {
"iou_prediction_head.layers.0": "iou_prediction_head.proj_in",
"iou_prediction_head.layers.1": "iou_prediction_head.layers.0",
"iou_prediction_head.layers.2": "iou_prediction_head.proj_out",
"mask_decoder.output_upscaling.0": "mask_decoder.upscale_conv1",
"mask_decoder.output_upscaling.1": "mask_decoder.upscale_layer_norm",
"mask_decoder.output_upscaling.3": "mask_decoder.upscale_conv2",
"mask_downscaling.0": "mask_embed.conv1",
"mask_downscaling.1": "mask_embed.layer_norm1",
"mask_downscaling.3": "mask_embed.conv2",
"mask_downscaling.4": "mask_embed.layer_norm2",
"mask_downscaling.6": "mask_embed.conv3",
"point_embeddings": "point_embed",
"pe_layer.positional_encoding_gaussian_matrix": "shared_embedding.positional_embedding",
"image_encoder": "vision_encoder",
"neck.0": "neck.conv1",
"neck.1": "neck.layer_norm1",
"neck.2": "neck.conv2",
"neck.3": "neck.layer_norm2",
"patch_embed.proj": "patch_embed.projection",
".norm": ".layer_norm",
"blocks": "layers",
}
def replace_keys(state_dict):
model_state_dict = {}
state_dict.pop("pixel_mean", None)
state_dict.pop("pixel_std", None)
output_hypernetworks_mlps_pattern = r".*.output_hypernetworks_mlps.(\d+).layers.(\d+).*"
for key, value in state_dict.items():
for key_to_modify, new_key in KEYS_TO_MODIFY_MAPPING.items():
if key_to_modify in key:
key = key.replace(key_to_modify, new_key)
if re.match(output_hypernetworks_mlps_pattern, key):
layer_nb = int(re.match(output_hypernetworks_mlps_pattern, key).group(2))
if layer_nb == 0:
key = key.replace("layers.0", "proj_in")
elif layer_nb == 1:
key = key.replace("layers.1", "layers.0")
elif layer_nb == 2:
key = key.replace("layers.2", "proj_out")
model_state_dict[key] = value
model_state_dict["shared_image_embedding.positional_embedding"] = model_state_dict[
"prompt_encoder.shared_embedding.positional_embedding"
]
return model_state_dict
def convert_sam_checkpoint(model_name, pytorch_dump_folder, push_to_hub, model_hub_id="ybelkada/segment-anything"):
checkpoint_path = hf_hub_download(model_hub_id, f"checkpoints/{model_name}.pth")
if "sam_vit_b" in model_name:
config = SamConfig()
elif "sam_vit_l" in model_name:
vision_config = SamVisionConfig(
hidden_size=1024,
num_hidden_layers=24,
num_attention_heads=16,
global_attn_indexes=[5, 11, 17, 23],
)
config = SamConfig(
vision_config=vision_config,
)
elif "sam_vit_h" in model_name:
vision_config = SamVisionConfig(
hidden_size=1280,
num_hidden_layers=32,
num_attention_heads=16,
global_attn_indexes=[7, 15, 23, 31],
)
config = SamConfig(
vision_config=vision_config,
)
state_dict = torch.load(checkpoint_path, map_location="cpu")
state_dict = replace_keys(state_dict)
image_processor = SamImageProcessor()
processor = SamProcessor(image_processor=image_processor)
hf_model = SamModel(config)
hf_model.load_state_dict(state_dict)
hf_model = hf_model.to("cuda")
img_url = "https://huggingface.co/ybelkada/segment-anything/resolve/main/assets/car.png"
raw_image = Image.open(requests.get(img_url, stream=True).raw).convert("RGB")
input_points = [[[400, 650]]]
input_labels = [[1]]
inputs = processor(images=np.array(raw_image), return_tensors="pt").to("cuda")
with torch.no_grad():
output = hf_model(**inputs)
scores = output.iou_scores.squeeze()
if model_name == "sam_vit_h_4b8939":
assert scores[-1].item() == 0.579890251159668
inputs = processor(
images=np.array(raw_image), input_points=input_points, input_labels=input_labels, return_tensors="pt"
).to("cuda")
with torch.no_grad():
output = hf_model(**inputs)
scores = output.iou_scores.squeeze()
assert scores[-1].item() == 0.9712603092193604
input_boxes = ((75, 275, 1725, 850),)
inputs = processor(images=np.array(raw_image), input_boxes=input_boxes, return_tensors="pt").to("cuda")
with torch.no_grad():
output = hf_model(**inputs)
scores = output.iou_scores.squeeze()
assert scores[-1].item() == 0.8686015605926514
# Test with 2 points and 1 image.
input_points = [[[400, 650], [800, 650]]]
input_labels = [[1, 1]]
inputs = processor(
images=np.array(raw_image), input_points=input_points, input_labels=input_labels, return_tensors="pt"
).to("cuda")
with torch.no_grad():
output = hf_model(**inputs)
scores = output.iou_scores.squeeze()
assert scores[-1].item() == 0.9936047792434692
if __name__ == "__main__":
parser = argparse.ArgumentParser()
choices = ["sam_vit_b_01ec64", "sam_vit_h_4b8939", "sam_vit_l_0b3195"]
parser.add_argument(
"--model_name",
default="sam_vit_h_4b8939",
choices=choices,
type=str,
help="Path to hf config.json of model to convert",
)
parser.add_argument("--pytorch_dump_folder_path", default=None, type=str, help="Path to the output PyTorch model.")
parser.add_argument(
"--push_to_hub",
action="store_true",
help="Whether to push the model and processor to the hub after converting",
)
parser.add_argument(
"--model_hub_id",
default="ybelkada/segment-anything",
choices=choices,
type=str,
help="Path to hf config.json of model to convert",
)
args = parser.parse_args()
convert_sam_checkpoint(args.model_name, args.pytorch_dump_folder_path, args.push_to_hub, args.model_hub_id)
| transformers-main | src/transformers/models/sam/convert_sam_original_to_hf_format.py |
# coding=utf-8
# Copyright 2023 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""
Processor class for SAM.
"""
from copy import deepcopy
from typing import Optional, Union
import numpy as np
from ...processing_utils import ProcessorMixin
from ...tokenization_utils_base import BatchEncoding
from ...utils import TensorType, is_tf_available, is_torch_available
if is_torch_available():
import torch
if is_tf_available():
import tensorflow as tf
class SamProcessor(ProcessorMixin):
r"""
Constructs a SAM processor which wraps a SAM image processor and an 2D points & Bounding boxes processor into a
single processor.
[`SamProcessor`] offers all the functionalities of [`SamImageProcessor`]. See the docstring of
[`~SamImageProcessor.__call__`] for more information.
Args:
image_processor (`SamImageProcessor`):
An instance of [`SamImageProcessor`]. The image processor is a required input.
"""
attributes = ["image_processor"]
image_processor_class = "SamImageProcessor"
def __init__(self, image_processor):
super().__init__(image_processor)
self.current_processor = self.image_processor
self.point_pad_value = -10
self.target_size = self.image_processor.size["longest_edge"]
def __call__(
self,
images=None,
input_points=None,
input_labels=None,
input_boxes=None,
return_tensors: Optional[Union[str, TensorType]] = None,
**kwargs,
) -> BatchEncoding:
"""
This method uses [`SamImageProcessor.__call__`] method to prepare image(s) for the model. It also prepares 2D
points and bounding boxes for the model if they are provided.
"""
encoding_image_processor = self.image_processor(
images,
return_tensors=return_tensors,
**kwargs,
)
# pop arguments that are not used in the foward but used nevertheless
original_sizes = encoding_image_processor["original_sizes"]
if hasattr(original_sizes, "numpy"): # Checks if Torch or TF tensor
original_sizes = original_sizes.numpy()
input_points, input_labels, input_boxes = self._check_and_preprocess_points(
input_points=input_points,
input_labels=input_labels,
input_boxes=input_boxes,
)
encoding_image_processor = self._normalize_and_convert(
encoding_image_processor,
original_sizes,
input_points=input_points,
input_labels=input_labels,
input_boxes=input_boxes,
return_tensors=return_tensors,
)
return encoding_image_processor
def _normalize_and_convert(
self,
encoding_image_processor,
original_sizes,
input_points=None,
input_labels=None,
input_boxes=None,
return_tensors="pt",
):
if input_points is not None:
if len(original_sizes) != len(input_points):
input_points = [
self._normalize_coordinates(self.target_size, point, original_sizes[0]) for point in input_points
]
else:
input_points = [
self._normalize_coordinates(self.target_size, point, original_size)
for point, original_size in zip(input_points, original_sizes)
]
# check that all arrays have the same shape
if not all(point.shape == input_points[0].shape for point in input_points):
if input_labels is not None:
input_points, input_labels = self._pad_points_and_labels(input_points, input_labels)
input_points = np.array(input_points)
if input_labels is not None:
input_labels = np.array(input_labels)
if input_boxes is not None:
if len(original_sizes) != len(input_boxes):
input_boxes = [
self._normalize_coordinates(self.target_size, box, original_sizes[0], is_bounding_box=True)
for box in input_boxes
]
else:
input_boxes = [
self._normalize_coordinates(self.target_size, box, original_size, is_bounding_box=True)
for box, original_size in zip(input_boxes, original_sizes)
]
input_boxes = np.array(input_boxes)
if input_boxes is not None:
if return_tensors == "pt":
input_boxes = torch.from_numpy(input_boxes)
# boxes batch size of 1 by default
input_boxes = input_boxes.unsqueeze(1) if len(input_boxes.shape) != 3 else input_boxes
elif return_tensors == "tf":
input_boxes = tf.convert_to_tensor(input_boxes)
# boxes batch size of 1 by default
input_boxes = tf.expand_dims(input_boxes, 1) if len(input_boxes.shape) != 3 else input_boxes
encoding_image_processor.update({"input_boxes": input_boxes})
if input_points is not None:
if return_tensors == "pt":
input_points = torch.from_numpy(input_points)
# point batch size of 1 by default
input_points = input_points.unsqueeze(1) if len(input_points.shape) != 4 else input_points
elif return_tensors == "tf":
input_points = tf.convert_to_tensor(input_points)
# point batch size of 1 by default
input_points = tf.expand_dims(input_points, 1) if len(input_points.shape) != 4 else input_points
encoding_image_processor.update({"input_points": input_points})
if input_labels is not None:
if return_tensors == "pt":
input_labels = torch.from_numpy(input_labels)
# point batch size of 1 by default
input_labels = input_labels.unsqueeze(1) if len(input_labels.shape) != 3 else input_labels
elif return_tensors == "tf":
input_labels = tf.convert_to_tensor(input_labels)
# point batch size of 1 by default
input_labels = tf.expand_dims(input_labels, 1) if len(input_labels.shape) != 3 else input_labels
encoding_image_processor.update({"input_labels": input_labels})
return encoding_image_processor
def _pad_points_and_labels(self, input_points, input_labels):
r"""
The method pads the 2D points and labels to the maximum number of points in the batch.
"""
expected_nb_points = max([point.shape[0] for point in input_points])
processed_input_points = []
for i, point in enumerate(input_points):
if point.shape[0] != expected_nb_points:
point = np.concatenate(
[point, np.zeros((expected_nb_points - point.shape[0], 2)) + self.point_pad_value], axis=0
)
input_labels[i] = np.append(input_labels[i], [self.point_pad_value])
processed_input_points.append(point)
input_points = processed_input_points
return input_points, input_labels
def _normalize_coordinates(
self, target_size: int, coords: np.ndarray, original_size, is_bounding_box=False
) -> np.ndarray:
"""
Expects a numpy array of length 2 in the final dimension. Requires the original image size in (H, W) format.
"""
old_h, old_w = original_size
new_h, new_w = self.image_processor._get_preprocess_shape(original_size, longest_edge=target_size)
coords = deepcopy(coords).astype(float)
if is_bounding_box:
coords = coords.reshape(-1, 2, 2)
coords[..., 0] = coords[..., 0] * (new_w / old_w)
coords[..., 1] = coords[..., 1] * (new_h / old_h)
if is_bounding_box:
coords = coords.reshape(-1, 4)
return coords
def _check_and_preprocess_points(
self,
input_points=None,
input_labels=None,
input_boxes=None,
):
r"""
Check and preprocesses the 2D points, labels and bounding boxes. It checks if the input is valid and if they
are, it converts the coordinates of the points and bounding boxes. If a user passes directly a `torch.Tensor`,
it is converted to a `numpy.ndarray` and then to a `list`.
"""
if input_points is not None:
if hasattr(input_points, "numpy"): # Checks for TF or Torch tensor
input_points = input_points.numpy().tolist()
if not isinstance(input_points, list) or not isinstance(input_points[0], list):
raise ValueError("Input points must be a list of list of floating points.")
input_points = [np.array(input_point) for input_point in input_points]
else:
input_points = None
if input_labels is not None:
if hasattr(input_labels, "numpy"):
input_labels = input_labels.numpy().tolist()
if not isinstance(input_labels, list) or not isinstance(input_labels[0], list):
raise ValueError("Input labels must be a list of list integers.")
input_labels = [np.array(label) for label in input_labels]
else:
input_labels = None
if input_boxes is not None:
if hasattr(input_boxes, "numpy"):
input_boxes = input_boxes.numpy().tolist()
if (
not isinstance(input_boxes, list)
or not isinstance(input_boxes[0], list)
or not isinstance(input_boxes[0][0], list)
):
raise ValueError("Input boxes must be a list of list of list of floating points.")
input_boxes = [np.array(box).astype(np.float32) for box in input_boxes]
else:
input_boxes = None
return input_points, input_labels, input_boxes
@property
def model_input_names(self):
image_processor_input_names = self.image_processor.model_input_names
return list(dict.fromkeys(image_processor_input_names))
def post_process_masks(self, *args, **kwargs):
return self.image_processor.post_process_masks(*args, **kwargs)
| transformers-main | src/transformers/models/sam/processing_sam.py |
# Copyright 2023 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import (
OptionalDependencyNotAvailable,
_LazyModule,
is_tf_available,
is_torch_available,
is_vision_available,
)
_import_structure = {
"configuration_sam": [
"SAM_PRETRAINED_CONFIG_ARCHIVE_MAP",
"SamConfig",
"SamMaskDecoderConfig",
"SamPromptEncoderConfig",
"SamVisionConfig",
],
"processing_sam": ["SamProcessor"],
}
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_sam"] = [
"SAM_PRETRAINED_MODEL_ARCHIVE_LIST",
"SamModel",
"SamPreTrainedModel",
]
try:
if not is_tf_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_tf_sam"] = [
"TF_SAM_PRETRAINED_MODEL_ARCHIVE_LIST",
"TFSamModel",
"TFSamPreTrainedModel",
]
try:
if not is_vision_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["image_processing_sam"] = ["SamImageProcessor"]
if TYPE_CHECKING:
from .configuration_sam import (
SAM_PRETRAINED_CONFIG_ARCHIVE_MAP,
SamConfig,
SamMaskDecoderConfig,
SamPromptEncoderConfig,
SamVisionConfig,
)
from .processing_sam import SamProcessor
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_sam import SAM_PRETRAINED_MODEL_ARCHIVE_LIST, SamModel, SamPreTrainedModel
try:
if not is_tf_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_tf_sam import TF_SAM_PRETRAINED_MODEL_ARCHIVE_LIST, TFSamModel, TFSamPreTrainedModel
try:
if not is_vision_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .image_processing_sam import SamImageProcessor
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/sam/__init__.py |
# coding=utf-8
# Copyright 2023 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Image processor class for SAM."""
import math
from copy import deepcopy
from itertools import product
from typing import Any, Dict, List, Optional, Tuple, Union
import numpy as np
from ...image_processing_utils import BaseImageProcessor, BatchFeature, get_size_dict
from ...image_transforms import convert_to_rgb, pad, resize, to_channel_dimension_format
from ...image_utils import (
IMAGENET_DEFAULT_MEAN,
IMAGENET_DEFAULT_STD,
ChannelDimension,
ImageInput,
PILImageResampling,
get_image_size,
infer_channel_dimension_format,
make_list_of_images,
to_numpy_array,
valid_images,
)
from ...utils import (
TensorType,
is_tf_available,
is_torch_available,
is_torchvision_available,
logging,
requires_backends,
)
if is_torch_available():
import torch
import torch.nn.functional as F
if is_torchvision_available():
from torchvision.ops.boxes import batched_nms
if is_tf_available():
import tensorflow as tf
from tensorflow.experimental import numpy as tnp
from ...tf_utils import flatten, shape_list
logger = logging.get_logger(__name__)
class SamImageProcessor(BaseImageProcessor):
r"""
Constructs a SAM image processor.
Args:
do_resize (`bool`, *optional*, defaults to `True`):
Whether to resize the image's (height, width) dimensions to the specified `size`. Can be overridden by the
`do_resize` parameter in the `preprocess` method.
size (`dict`, *optional*, defaults to `{"longest_edge": 1024}`):
Size of the output image after resizing. Resizes the longest edge of the image to match
`size["longest_edge"]` while maintaining the aspect ratio. Can be overridden by the `size` parameter in the
`preprocess` method.
resample (`PILImageResampling`, *optional*, defaults to `PILImageResampling.BICUBIC`):
Resampling filter to use if resizing the image. Can be overridden by the `resample` parameter in the
`preprocess` method.
do_rescale (`bool`, *optional*, defaults to `True`):
Wwhether to rescale the image by the specified scale `rescale_factor`. Can be overridden by the
`do_rescale` parameter in the `preprocess` method.
rescale_factor (`int` or `float`, *optional*, defaults to `1/255`):
Scale factor to use if rescaling the image. Only has an effect if `do_rescale` is set to `True`. Can be
overridden by the `rescale_factor` parameter in the `preprocess` method.
do_normalize (`bool`, *optional*, defaults to `True`):
Whether to normalize the image. Can be overridden by the `do_normalize` parameter in the `preprocess`
method. Can be overridden by the `do_normalize` parameter in the `preprocess` method.
image_mean (`float` or `List[float]`, *optional*, defaults to `IMAGENET_DEFAULT_MEAN`):
Mean to use if normalizing the image. This is a float or list of floats the length of the number of
channels in the image. Can be overridden by the `image_mean` parameter in the `preprocess` method. Can be
overridden by the `image_mean` parameter in the `preprocess` method.
image_std (`float` or `List[float]`, *optional*, defaults to `IMAGENET_DEFAULT_STD`):
Standard deviation to use if normalizing the image. This is a float or list of floats the length of the
number of channels in the image. Can be overridden by the `image_std` parameter in the `preprocess` method.
Can be overridden by the `image_std` parameter in the `preprocess` method.
do_pad (`bool`, *optional*, defaults to `True`):
Whether to pad the image to the specified `pad_size`. Can be overridden by the `do_pad` parameter in the
`preprocess` method.
pad_size (`dict`, *optional*, defaults to `{"height": 1024, "width": 1024}`):
Size of the output image after padding. Can be overridden by the `pad_size` parameter in the `preprocess`
method.
do_convert_rgb (`bool`, *optional*, defaults to `True`):
Whether to convert the image to RGB.
"""
model_input_names = ["pixel_values"]
def __init__(
self,
do_resize: bool = True,
size: Dict[str, int] = None,
resample: PILImageResampling = PILImageResampling.BILINEAR,
do_rescale: bool = True,
rescale_factor: Union[int, float] = 1 / 255,
do_normalize: bool = True,
image_mean: Optional[Union[float, List[float]]] = None,
image_std: Optional[Union[float, List[float]]] = None,
do_pad: bool = True,
pad_size: int = None,
do_convert_rgb: bool = True,
**kwargs,
) -> None:
super().__init__(**kwargs)
size = size if size is not None else {"longest_edge": 1024}
size = get_size_dict(max_size=size, default_to_square=False) if not isinstance(size, dict) else size
pad_size = pad_size if pad_size is not None else {"height": 1024, "width": 1024}
pad_size = get_size_dict(pad_size, default_to_square=True)
self.do_resize = do_resize
self.size = size
self.resample = resample
self.do_rescale = do_rescale
self.rescale_factor = rescale_factor
self.do_normalize = do_normalize
self.image_mean = image_mean if image_mean is not None else IMAGENET_DEFAULT_MEAN
self.image_std = image_std if image_std is not None else IMAGENET_DEFAULT_STD
self.do_pad = do_pad
self.pad_size = pad_size
self.do_convert_rgb = do_convert_rgb
def pad_image(
self,
image: np.ndarray,
pad_size: Dict[str, int],
data_format: Optional[Union[str, ChannelDimension]] = None,
**kwargs,
) -> np.ndarray:
"""
Pad an image to `(pad_size["height"], pad_size["width"])` with zeros to the right and bottom.
Args:
image (`np.ndarray`):
Image to pad.
pad_size (`Dict[str, int]`):
Size of the output image after padding.
data_format (`str` or `ChannelDimension`, *optional*):
The data format of the image. Can be either "channels_first" or "channels_last". If `None`, the
`data_format` of the `image` will be used.
"""
output_height, output_width = pad_size["height"], pad_size["width"]
input_height, input_width = get_image_size(image)
pad_width = output_width - input_width
pad_height = output_height - input_height
padded_image = pad(image, ((0, pad_height), (0, pad_width)), data_format=data_format, **kwargs)
return padded_image
def _get_preprocess_shape(self, old_shape: Tuple[int, int], longest_edge: int):
"""
Compute the output size given input size and target long side length.
"""
oldh, oldw = old_shape
scale = longest_edge * 1.0 / max(oldh, oldw)
newh, neww = oldh * scale, oldw * scale
newh = int(newh + 0.5)
neww = int(neww + 0.5)
return (newh, neww)
def resize(
self,
image: np.ndarray,
size: Dict[str, int],
resample: PILImageResampling = PILImageResampling.BICUBIC,
data_format: Optional[Union[str, ChannelDimension]] = None,
**kwargs,
) -> np.ndarray:
"""
Resize an image to `(size["height"], size["width"])`.
Args:
image (`np.ndarray`):
Image to resize.
size (`Dict[str, int]`):
Dictionary in the format `{"longest_edge": int}` specifying the size of the output image. The longest
edge of the image will be resized to the specified size, while the other edge will be resized to
maintain the aspect ratio.
resample:
`PILImageResampling` filter to use when resizing the image e.g. `PILImageResampling.BILINEAR`.
data_format (`ChannelDimension` or `str`, *optional*):
The channel dimension format for the output image. If unset, the channel dimension format of the input
image is used. Can be one of:
- `"channels_first"` or `ChannelDimension.FIRST`: image in (num_channels, height, width) format.
- `"channels_last"` or `ChannelDimension.LAST`: image in (height, width, num_channels) format.
Returns:
`np.ndarray`: The resized image.
"""
size = get_size_dict(size)
if "longest_edge" not in size:
raise ValueError(f"The `size` dictionary must contain the key `longest_edge`. Got {size.keys()}")
input_size = get_image_size(image)
output_height, output_width = self._get_preprocess_shape(input_size, size["longest_edge"])
return resize(image, size=(output_height, output_width), resample=resample, data_format=data_format, **kwargs)
def preprocess(
self,
images: ImageInput,
do_resize: Optional[bool] = None,
size: Optional[Dict[str, int]] = None,
resample: Optional["PILImageResampling"] = None,
do_rescale: Optional[bool] = None,
rescale_factor: Optional[Union[int, float]] = None,
do_normalize: Optional[bool] = None,
image_mean: Optional[Union[float, List[float]]] = None,
image_std: Optional[Union[float, List[float]]] = None,
do_pad: Optional[bool] = None,
pad_size: Optional[Dict[str, int]] = None,
do_convert_rgb: bool = None,
return_tensors: Optional[Union[str, TensorType]] = None,
data_format: ChannelDimension = ChannelDimension.FIRST,
**kwargs,
):
"""
Preprocess an image or batch of images.
Args:
images (`ImageInput`):
Image to preprocess.
do_resize (`bool`, *optional*, defaults to `self.do_resize`):
Whether to resize the image.
size (`Dict[str, int]`, *optional*, defaults to `self.size`):
Controls the size of the image after `resize`. The longest edge of the image is resized to
`size["longest_edge"]` whilst preserving the aspect ratio.
resample (`PILImageResampling`, *optional*, defaults to `self.resample`):
`PILImageResampling` filter to use when resizing the image e.g. `PILImageResampling.BILINEAR`.
do_rescale (`bool`, *optional*, defaults to `self.do_rescale`):
Whether to rescale the image pixel values by rescaling factor.
rescale_factor (`int` or `float`, *optional*, defaults to `self.rescale_factor`):
Rescale factor to apply to the image pixel values.
do_normalize (`bool`, *optional*, defaults to `self.do_normalize`):
Whether to normalize the image.
image_mean (`float` or `List[float]`, *optional*, defaults to `self.image_mean`):
Image mean to normalize the image by if `do_normalize` is set to `True`.
image_std (`float` or `List[float]`, *optional*, defaults to `self.image_std`):
Image standard deviation to normalize the image by if `do_normalize` is set to `True`.
do_pad (`bool`, *optional*, defaults to `self.do_pad`):
Whether to pad the image.
pad_size (`Dict[str, int]`, *optional*, defaults to `self.pad_size`):
Controls the size of the padding applied to the image. The image is padded to `pad_size["height"]` and
`pad_size["width"]` if `do_pad` is set to `True`.
do_convert_rgb (`bool`, *optional*, defaults to `self.do_convert_rgb`):
Whether to convert the image to RGB.
return_tensors (`str` or `TensorType`, *optional*):
The type of tensors to return. Can be one of:
- Unset: Return a list of `np.ndarray`.
- `TensorType.TENSORFLOW` or `'tf'`: Return a batch of type `tf.Tensor`.
- `TensorType.PYTORCH` or `'pt'`: Return a batch of type `torch.Tensor`.
- `TensorType.NUMPY` or `'np'`: Return a batch of type `np.ndarray`.
- `TensorType.JAX` or `'jax'`: Return a batch of type `jax.numpy.ndarray`.
data_format (`ChannelDimension` or `str`, *optional*, defaults to `ChannelDimension.FIRST`):
The channel dimension format for the output image. Can be one of:
- `"channels_first"` or `ChannelDimension.FIRST`: image in (num_channels, height, width) format.
- `"channels_last"` or `ChannelDimension.LAST`: image in (height, width, num_channels) format.
- Unset: Use the channel dimension format of the input image.
"""
do_resize = do_resize if do_resize is not None else self.do_resize
size = size if size is not None else self.size
size = get_size_dict(max_size=size, default_to_square=False) if not isinstance(size, dict) else size
resample = resample if resample is not None else self.resample
do_rescale = do_rescale if do_rescale is not None else self.do_rescale
rescale_factor = rescale_factor if rescale_factor is not None else self.rescale_factor
do_normalize = do_normalize if do_normalize is not None else self.do_normalize
image_mean = image_mean if image_mean is not None else self.image_mean
image_std = image_std if image_std is not None else self.image_std
do_pad = do_pad if do_pad is not None else self.do_pad
pad_size = pad_size if pad_size is not None else self.pad_size
pad_size = get_size_dict(pad_size, default_to_square=True)
do_convert_rgb = do_convert_rgb if do_convert_rgb is not None else self.do_convert_rgb
images = make_list_of_images(images)
if not valid_images(images):
raise ValueError(
"Invalid image type. Must be of type PIL.Image.Image, numpy.ndarray, "
"torch.Tensor, tf.Tensor or jax.ndarray."
)
if do_resize and (size is None or resample is None):
raise ValueError("Size and resample must be specified if do_resize is True.")
if do_rescale and rescale_factor is None:
raise ValueError("Rescale factor must be specified if do_rescale is True.")
if do_normalize and (image_mean is None or image_std is None):
raise ValueError("Image mean and std must be specified if do_normalize is True.")
if do_pad and pad_size is None:
raise ValueError("Pad size must be specified if do_pad is True.")
# PIL RGBA images are converted to RGB
if do_convert_rgb:
images = [convert_to_rgb(image) for image in images]
# All transformations expect numpy arrays.
images = [to_numpy_array(image) for image in images]
original_sizes = [get_image_size(image) for image in images]
if do_resize:
images = [self.resize(image=image, size=size, resample=resample) for image in images]
reshaped_input_sizes = [get_image_size(image) for image in images]
if do_rescale:
images = [self.rescale(image=image, scale=rescale_factor) for image in images]
if do_normalize:
images = [self.normalize(image=image, mean=image_mean, std=image_std) for image in images]
if do_pad:
images = [self.pad_image(image=image, pad_size=pad_size) for image in images]
images = [to_channel_dimension_format(image, data_format) for image in images]
encoded_outputs = BatchFeature(
data={
"pixel_values": images,
"original_sizes": original_sizes,
"reshaped_input_sizes": reshaped_input_sizes,
},
tensor_type=return_tensors,
)
return encoded_outputs
def post_process_masks(
self,
masks,
original_sizes,
reshaped_input_sizes,
mask_threshold=0.0,
binarize=True,
pad_size=None,
return_tensors="pt",
):
"""
Remove padding and upscale masks to the original image size.
Args:
masks (`Union[List[torch.Tensor], List[np.ndarray], List[tf.Tensor]]`):
Batched masks from the mask_decoder in (batch_size, num_channels, height, width) format.
original_sizes (`Union[torch.Tensor, tf.Tensor, List[Tuple[int,int]]]`):
The original sizes of each image before it was resized to the model's expected input shape, in (height,
width) format.
reshaped_input_sizes (`Union[torch.Tensor, tf.Tensor, List[Tuple[int,int]]]`):
The size of each image as it is fed to the model, in (height, width) format. Used to remove padding.
mask_threshold (`float`, *optional*, defaults to 0.0):
The threshold to use for binarizing the masks.
binarize (`bool`, *optional*, defaults to `True`):
Whether to binarize the masks.
pad_size (`int`, *optional*, defaults to `self.pad_size`):
The target size the images were padded to before being passed to the model. If None, the target size is
assumed to be the processor's `pad_size`.
return_tensors (`str`, *optional*, defaults to `"pt"`):
If `"pt"`, return PyTorch tensors. If `"tf"`, return TensorFlow tensors.
Returns:
(`Union[torch.Tensor, tf.Tensor]`): Batched masks in batch_size, num_channels, height, width) format, where
(height, width) is given by original_size.
"""
if return_tensors == "pt":
return self._post_process_masks_pt(
masks=masks,
original_sizes=original_sizes,
reshaped_input_sizes=reshaped_input_sizes,
mask_threshold=mask_threshold,
binarize=binarize,
pad_size=pad_size,
)
elif return_tensors == "tf":
return self._post_process_masks_tf(
masks=masks,
original_sizes=original_sizes,
reshaped_input_sizes=reshaped_input_sizes,
mask_threshold=mask_threshold,
binarize=binarize,
pad_size=pad_size,
)
else:
raise ValueError("return_tensors must be either 'pt' or 'tf'")
def _post_process_masks_pt(
self, masks, original_sizes, reshaped_input_sizes, mask_threshold=0.0, binarize=True, pad_size=None
):
"""
Remove padding and upscale masks to the original image size.
Args:
masks (`Union[List[torch.Tensor], List[np.ndarray]]`):
Batched masks from the mask_decoder in (batch_size, num_channels, height, width) format.
original_sizes (`Union[torch.Tensor, List[Tuple[int,int]]]`):
The original sizes of each image before it was resized to the model's expected input shape, in (height,
width) format.
reshaped_input_sizes (`Union[torch.Tensor, List[Tuple[int,int]]]`):
The size of each image as it is fed to the model, in (height, width) format. Used to remove padding.
mask_threshold (`float`, *optional*, defaults to 0.0):
The threshold to use for binarizing the masks.
binarize (`bool`, *optional*, defaults to `True`):
Whether to binarize the masks.
pad_size (`int`, *optional*, defaults to `self.pad_size`):
The target size the images were padded to before being passed to the model. If None, the target size is
assumed to be the processor's `pad_size`.
Returns:
(`torch.Tensor`): Batched masks in batch_size, num_channels, height, width) format, where (height, width)
is given by original_size.
"""
requires_backends(self, ["torch"])
pad_size = self.pad_size if pad_size is None else pad_size
target_image_size = (pad_size["height"], pad_size["width"])
if isinstance(original_sizes, (torch.Tensor, np.ndarray)):
original_sizes = original_sizes.tolist()
if isinstance(reshaped_input_sizes, (torch.Tensor, np.ndarray)):
reshaped_input_sizes = reshaped_input_sizes.tolist()
output_masks = []
for i, original_size in enumerate(original_sizes):
if isinstance(masks[i], np.ndarray):
masks[i] = torch.from_numpy(masks[i])
elif not isinstance(masks[i], torch.Tensor):
raise ValueError("Input masks should be a list of `torch.tensors` or a list of `np.ndarray`")
interpolated_mask = F.interpolate(masks[i], target_image_size, mode="bilinear", align_corners=False)
interpolated_mask = interpolated_mask[..., : reshaped_input_sizes[i][0], : reshaped_input_sizes[i][1]]
interpolated_mask = F.interpolate(interpolated_mask, original_size, mode="bilinear", align_corners=False)
if binarize:
interpolated_mask = interpolated_mask > mask_threshold
output_masks.append(interpolated_mask)
return output_masks
def _post_process_masks_tf(
self, masks, original_sizes, reshaped_input_sizes, mask_threshold=0.0, binarize=True, pad_size=None
):
"""
Remove padding and upscale masks to the original image size.
Args:
masks (`tf.Tensor`):
Batched masks from the mask_decoder in (batch_size, num_channels, height, width) format.
original_sizes (`tf.Tensor`):
The original size of the images before resizing for input to the model, in (height, width) format.
reshaped_input_sizes (`tf.Tensor`):
The size of the image input to the model, in (height, width) format. Used to remove padding.
mask_threshold (`float`, *optional*, defaults to 0.0):
The threshold to use for binarizing the masks.
binarize (`bool`, *optional*, defaults to `True`):
Whether to binarize the masks.
pad_size (`int`, *optional*, defaults to `self.pad_size`):
The target size the images were padded to before being passed to the model. If None, the target size is
assumed to be the processor's `pad_size`.
Returns:
(`tf.Tensor`): Batched masks in batch_size, num_channels, height, width) format, where (height, width) is
given by original_size.
"""
requires_backends(self, ["tf"])
pad_size = self.pad_size if pad_size is None else pad_size
target_image_size = (pad_size["height"], pad_size["width"])
output_masks = []
for i, original_size in enumerate(original_sizes):
# tf.image expects NHWC, we transpose the NCHW inputs for it
mask = tf.transpose(masks[i], perm=[0, 2, 3, 1])
interpolated_mask = tf.image.resize(mask, target_image_size, method="bilinear")
interpolated_mask = interpolated_mask[:, : reshaped_input_sizes[i][0], : reshaped_input_sizes[i][1], :]
interpolated_mask = tf.image.resize(interpolated_mask, original_size, method="bilinear")
if binarize:
interpolated_mask = interpolated_mask > mask_threshold
# And then we transpose them back at the end
output_masks.append(tf.transpose(interpolated_mask, perm=[0, 3, 1, 2]))
return output_masks
def post_process_for_mask_generation(
self, all_masks, all_scores, all_boxes, crops_nms_thresh, return_tensors="pt"
):
"""
Post processes mask that are generated by calling the Non Maximum Suppression algorithm on the predicted masks.
Args:
all_masks (`Union[List[torch.Tensor], List[tf.Tensor]]`):
List of all predicted segmentation masks
all_scores (`Union[List[torch.Tensor], List[tf.Tensor]]`):
List of all predicted iou scores
all_boxes (`Union[List[torch.Tensor], List[tf.Tensor]]`):
List of all bounding boxes of the predicted masks
crops_nms_thresh (`float`):
Threshold for NMS (Non Maximum Suppression) algorithm.
return_tensors (`str`, *optional*, defaults to `pt`):
If `pt`, returns `torch.Tensor`. If `tf`, returns `tf.Tensor`.
"""
if return_tensors == "pt":
return _postprocess_for_mg(all_masks, all_scores, all_boxes, crops_nms_thresh)
elif return_tensors == "tf":
return _postprocess_for_mg_tf(all_masks, all_scores, all_boxes, crops_nms_thresh)
def generate_crop_boxes(
self,
image,
target_size,
crop_n_layers: int = 0,
overlap_ratio: float = 512 / 1500,
points_per_crop: Optional[int] = 32,
crop_n_points_downscale_factor: Optional[List[int]] = 1,
device: Optional["torch.device"] = None,
return_tensors: str = "pt",
):
"""
Generates a list of crop boxes of different sizes. Each layer has (2**i)**2 boxes for the ith layer.
Args:
image (`np.array`):
Input original image
target_size (`int`):
Target size of the resized image
crop_n_layers (`int`, *optional*, defaults to 0):
If >0, mask prediction will be run again on crops of the image. Sets the number of layers to run, where
each layer has 2**i_layer number of image crops.
overlap_ratio (`float`, *optional*, defaults to 512/1500):
Sets the degree to which crops overlap. In the first crop layer, crops will overlap by this fraction of
the image length. Later layers with more crops scale down this overlap.
points_per_crop (`int`, *optional*, defaults to 32):
Number of points to sample from each crop.
crop_n_points_downscale_factor (`List[int]`, *optional*, defaults to 1):
The number of points-per-side sampled in layer n is scaled down by crop_n_points_downscale_factor**n.
device (`torch.device`, *optional*, defaults to None):
Device to use for the computation. If None, cpu will be used.
return_tensors (`str`, *optional*, defaults to `pt`):
If `pt`, returns `torch.Tensor`. If `tf`, returns `tf.Tensor`.
"""
crop_boxes, points_per_crop, cropped_images, input_labels = _generate_crop_boxes(
image,
target_size,
crop_n_layers,
overlap_ratio,
points_per_crop,
crop_n_points_downscale_factor,
)
if return_tensors == "pt":
if device is None:
device = torch.device("cpu")
crop_boxes = torch.tensor(crop_boxes, device=device)
points_per_crop = torch.tensor(points_per_crop, device=device)
# cropped_images stays as np
input_labels = torch.tensor(input_labels, device=device)
elif return_tensors == "tf":
if device is not None:
raise ValueError("device is not a supported argument when return_tensors is tf!")
crop_boxes = tf.convert_to_tensor(crop_boxes)
points_per_crop = tf.convert_to_tensor(points_per_crop)
# cropped_images stays as np
input_labels = tf.convert_to_tensor(input_labels)
else:
raise ValueError("return_tensors must be either 'pt' or 'tf'.")
return crop_boxes, points_per_crop, cropped_images, input_labels
def filter_masks(
self,
masks,
iou_scores,
original_size,
cropped_box_image,
pred_iou_thresh=0.88,
stability_score_thresh=0.95,
mask_threshold=0,
stability_score_offset=1,
return_tensors="pt",
):
"""
Filters the predicted masks by selecting only the ones that meets several criteria. The first criterion being
that the iou scores needs to be greater than `pred_iou_thresh`. The second criterion is that the stability
score needs to be greater than `stability_score_thresh`. The method also converts the predicted masks to
bounding boxes and pad the predicted masks if necessary.
Args:
masks (`Union[torch.Tensor, tf.Tensor]`):
Input masks.
iou_scores (`Union[torch.Tensor, tf.Tensor]`):
List of IoU scores.
original_size (`Tuple[int,int]`):
Size of the orginal image.
cropped_box_image (`np.array`):
The cropped image.
pred_iou_thresh (`float`, *optional*, defaults to 0.88):
The threshold for the iou scores.
stability_score_thresh (`float`, *optional*, defaults to 0.95):
The threshold for the stability score.
mask_threshold (`float`, *optional*, defaults to 0):
The threshold for the predicted masks.
stability_score_offset (`float`, *optional*, defaults to 1):
The offset for the stability score used in the `_compute_stability_score` method.
return_tensors (`str`, *optional*, defaults to `pt`):
If `pt`, returns `torch.Tensor`. If `tf`, returns `tf.Tensor`.
"""
if return_tensors == "pt":
return self._filter_masks_pt(
masks=masks,
iou_scores=iou_scores,
original_size=original_size,
cropped_box_image=cropped_box_image,
pred_iou_thresh=pred_iou_thresh,
stability_score_thresh=stability_score_thresh,
mask_threshold=mask_threshold,
stability_score_offset=stability_score_offset,
)
elif return_tensors == "tf":
return self._filter_masks_tf(
masks=masks,
iou_scores=iou_scores,
original_size=original_size,
cropped_box_image=cropped_box_image,
pred_iou_thresh=pred_iou_thresh,
stability_score_thresh=stability_score_thresh,
mask_threshold=mask_threshold,
stability_score_offset=stability_score_offset,
)
def _filter_masks_pt(
self,
masks,
iou_scores,
original_size,
cropped_box_image,
pred_iou_thresh=0.88,
stability_score_thresh=0.95,
mask_threshold=0,
stability_score_offset=1,
):
"""
Filters the predicted masks by selecting only the ones that meets several criteria. The first criterion being
that the iou scores needs to be greater than `pred_iou_thresh`. The second criterion is that the stability
score needs to be greater than `stability_score_thresh`. The method also converts the predicted masks to
bounding boxes and pad the predicted masks if necessary.
Args:
masks (`torch.Tensor`):
Input masks.
iou_scores (`torch.Tensor`):
List of IoU scores.
original_size (`Tuple[int,int]`):
Size of the orginal image.
cropped_box_image (`np.array`):
The cropped image.
pred_iou_thresh (`float`, *optional*, defaults to 0.88):
The threshold for the iou scores.
stability_score_thresh (`float`, *optional*, defaults to 0.95):
The threshold for the stability score.
mask_threshold (`float`, *optional*, defaults to 0):
The threshold for the predicted masks.
stability_score_offset (`float`, *optional*, defaults to 1):
The offset for the stability score used in the `_compute_stability_score` method.
"""
requires_backends(self, ["torch"])
original_height, original_width = original_size
iou_scores = iou_scores.flatten(0, 1)
masks = masks.flatten(0, 1)
if masks.shape[0] != iou_scores.shape[0]:
raise ValueError("masks and iou_scores must have the same batch size.")
if masks.device != iou_scores.device:
iou_scores = iou_scores.to(masks.device)
batch_size = masks.shape[0]
keep_mask = torch.ones(batch_size, dtype=torch.bool, device=masks.device)
if pred_iou_thresh > 0.0:
keep_mask = keep_mask & (iou_scores > pred_iou_thresh)
# compute stability score
if stability_score_thresh > 0.0:
stability_scores = _compute_stability_score_pt(masks, mask_threshold, stability_score_offset)
keep_mask = keep_mask & (stability_scores > stability_score_thresh)
scores = iou_scores[keep_mask]
masks = masks[keep_mask]
# binarize masks
masks = masks > mask_threshold
converted_boxes = _batched_mask_to_box(masks)
keep_mask = ~_is_box_near_crop_edge(
converted_boxes, cropped_box_image, [0, 0, original_width, original_height]
)
scores = scores[keep_mask]
masks = masks[keep_mask]
converted_boxes = converted_boxes[keep_mask]
masks = _pad_masks(masks, cropped_box_image, original_height, original_width)
# conversion to rle is necessary to run non-maximum suppresion
masks = _mask_to_rle_pytorch(masks)
return masks, scores, converted_boxes
def _filter_masks_tf(
self,
masks,
iou_scores,
original_size,
cropped_box_image,
pred_iou_thresh=0.88,
stability_score_thresh=0.95,
mask_threshold=0,
stability_score_offset=1,
):
"""
Filters the predicted masks by selecting only the ones that meets several criteria. The first criterion being
that the iou scores needs to be greater than `pred_iou_thresh`. The second criterion is that the stability
score needs to be greater than `stability_score_thresh`. The method also converts the predicted masks to
bounding boxes and pad the predicted masks if necessary.
Args:
masks (`tf.Tensor`):
Input masks.
iou_scores (`tf.Tensor`):
List of IoU scores.
original_size (`Tuple[int,int]`):
Size of the orginal image.
cropped_box_image (`np.array`):
The cropped image.
pred_iou_thresh (`float`, *optional*, defaults to 0.88):
The threshold for the iou scores.
stability_score_thresh (`float`, *optional*, defaults to 0.95):
The threshold for the stability score.
mask_threshold (`float`, *optional*, defaults to 0):
The threshold for the predicted masks.
stability_score_offset (`float`, *optional*, defaults to 1):
The offset for the stability score used in the `_compute_stability_score` method.
"""
requires_backends(self, ["tf"])
original_height, original_width = original_size
iou_scores = tf.reshape(iou_scores, [iou_scores.shape[0] * iou_scores.shape[1], iou_scores.shape[2:]])
masks = tf.reshape(masks, [masks.shape[0] * masks.shape[1], masks.shape[2:]])
if masks.shape[0] != iou_scores.shape[0]:
raise ValueError("masks and iou_scores must have the same batch size.")
batch_size = masks.shape[0]
keep_mask = tf.ones(batch_size, dtype=tf.bool)
if pred_iou_thresh > 0.0:
keep_mask = keep_mask & (iou_scores > pred_iou_thresh)
# compute stability score
if stability_score_thresh > 0.0:
stability_scores = _compute_stability_score_tf(masks, mask_threshold, stability_score_offset)
keep_mask = keep_mask & (stability_scores > stability_score_thresh)
scores = iou_scores[keep_mask]
masks = masks[keep_mask]
# binarize masks
masks = masks > mask_threshold
converted_boxes = _batched_mask_to_box_tf(masks)
keep_mask = ~_is_box_near_crop_edge_tf(
converted_boxes, cropped_box_image, [0, 0, original_width, original_height]
)
scores = scores[keep_mask]
masks = masks[keep_mask]
converted_boxes = converted_boxes[keep_mask]
masks = _pad_masks_tf(masks, cropped_box_image, original_height, original_width)
# conversion to rle is necessary to run non-maximum suppresion
masks = _mask_to_rle_tf(masks)
return masks, scores, converted_boxes
def _compute_stability_score_pt(masks: "torch.Tensor", mask_threshold: float, stability_score_offset: int):
# One mask is always contained inside the other.
# Save memory by preventing unnecesary cast to torch.int64
intersections = (
(masks > (mask_threshold + stability_score_offset)).sum(-1, dtype=torch.int16).sum(-1, dtype=torch.int32)
)
unions = (masks > (mask_threshold - stability_score_offset)).sum(-1, dtype=torch.int16).sum(-1, dtype=torch.int32)
stability_scores = intersections / unions
return stability_scores
def _compute_stability_score_tf(masks: "tf.Tensor", mask_threshold: float, stability_score_offset: int):
# Torch does Py3-style division but TF does floor division with ints. We cast to float32 in TF to make sure
# we get the right division results.
intersections = tf.count_nonzero(
masks > (mask_threshold + stability_score_offset), axis=[-1, -2], dtype=tf.float32
)
unions = tf.count_nonzero(masks > (mask_threshold - stability_score_offset), axis=[-1, -2], dtype=tf.float32)
stability_scores = intersections / unions
return stability_scores
def _build_point_grid(n_per_side: int) -> np.ndarray:
"""Generates a 2D grid of points evenly spaced in [0,1]x[0,1]."""
offset = 1 / (2 * n_per_side)
points_one_side = np.linspace(offset, 1 - offset, n_per_side)
points_x = np.tile(points_one_side[None, :], (n_per_side, 1))
points_y = np.tile(points_one_side[:, None], (1, n_per_side))
points = np.stack([points_x, points_y], axis=-1).reshape(-1, 2)
return points
def _normalize_coordinates(
target_size: int, coords: np.ndarray, original_size: Tuple[int, int], is_bounding_box=False
) -> np.ndarray:
"""
Expects a numpy array of length 2 in the final dimension. Requires the original image size in (height, width)
format.
"""
old_height, old_width = original_size
scale = target_size * 1.0 / max(old_height, old_width)
new_height, new_width = old_height * scale, old_width * scale
new_width = int(new_width + 0.5)
new_height = int(new_height + 0.5)
coords = deepcopy(coords).astype(float)
if is_bounding_box:
coords = coords.reshape(-1, 2, 2)
coords[..., 0] = coords[..., 0] * (new_width / old_width)
coords[..., 1] = coords[..., 1] * (new_height / old_height)
if is_bounding_box:
coords = coords.reshape(-1, 4)
return coords
def _generate_crop_boxes(
image,
target_size: int, # Is it tuple here?
crop_n_layers: int = 0,
overlap_ratio: float = 512 / 1500,
points_per_crop: Optional[int] = 32,
crop_n_points_downscale_factor: Optional[List[int]] = 1,
) -> Tuple[List[List[int]], List[int]]:
"""
Generates a list of crop boxes of different sizes. Each layer has (2**i)**2 boxes for the ith layer.
Args:
image (Union[`numpy.ndarray`, `PIL.Image`, `torch.Tensor`]):
Image to generate crops for.
target_size (`int`):
Size of the smallest crop.
crop_n_layers (`int`, *optional*):
If `crops_n_layers>0`, mask prediction will be run again on crops of the image. Sets the number of layers
to run, where each layer has 2**i_layer number of image crops.
overlap_ratio (`int`, *optional*):
Sets the degree to which crops overlap. In the first crop layer, crops will overlap by this fraction of the
image length. Later layers with more crops scale down this overlap.
points_per_crop (`int`, *optional*):
Number of points to sample per crop.
crop_n_points_downscale_factor (`int`, *optional*):
The number of points-per-side sampled in layer n is scaled down by crop_n_points_downscale_factor**n.
"""
if isinstance(image, list):
raise ValueError("Only one image is allowed for crop generation.")
image = to_numpy_array(image)
original_size = get_image_size(image)
points_grid = []
for i in range(crop_n_layers + 1):
n_points = int(points_per_crop / (crop_n_points_downscale_factor**i))
points_grid.append(_build_point_grid(n_points))
crop_boxes, layer_idxs = _generate_per_layer_crops(crop_n_layers, overlap_ratio, original_size)
cropped_images, point_grid_per_crop = _generate_crop_images(
crop_boxes, image, points_grid, layer_idxs, target_size, original_size
)
crop_boxes = np.array(crop_boxes)
crop_boxes = crop_boxes.astype(np.float32)
points_per_crop = np.array([point_grid_per_crop])
points_per_crop = np.transpose(points_per_crop, axes=(0, 2, 1, 3))
input_labels = np.ones_like(points_per_crop[:, :, :, 0], dtype=np.int64)
return crop_boxes, points_per_crop, cropped_images, input_labels
def _generate_per_layer_crops(crop_n_layers, overlap_ratio, original_size):
"""
Generates 2 ** (layers idx + 1) crops for each crop_n_layers. Crops are in the XYWH format : The XYWH format
consists of the following required indices:
- X: X coordinate of the top left of the bounding box
- Y: Y coordinate of the top left of the bounding box
- W: width of the bounding box
- H: height of the bounding box
"""
crop_boxes, layer_idxs = [], []
im_height, im_width = original_size
short_side = min(im_height, im_width)
# Original image
crop_boxes.append([0, 0, im_width, im_height])
layer_idxs.append(0)
for i_layer in range(crop_n_layers):
n_crops_per_side = 2 ** (i_layer + 1)
overlap = int(overlap_ratio * short_side * (2 / n_crops_per_side))
crop_width = int(math.ceil((overlap * (n_crops_per_side - 1) + im_width) / n_crops_per_side))
crop_height = int(math.ceil((overlap * (n_crops_per_side - 1) + im_height) / n_crops_per_side))
crop_box_x0 = [int((crop_width - overlap) * i) for i in range(n_crops_per_side)]
crop_box_y0 = [int((crop_height - overlap) * i) for i in range(n_crops_per_side)]
for left, top in product(crop_box_x0, crop_box_y0):
box = [left, top, min(left + crop_width, im_width), min(top + crop_height, im_height)]
crop_boxes.append(box)
layer_idxs.append(i_layer + 1)
return crop_boxes, layer_idxs
def _generate_crop_images(crop_boxes, image, points_grid, layer_idxs, target_size, original_size):
"""
Takes as an input bounding boxes that are used to crop the image. Based in the crops, the corresponding points are
also passed.
"""
cropped_images = []
total_points_per_crop = []
for i, crop_box in enumerate(crop_boxes):
left, top, right, bottom = crop_box
channel_dim = infer_channel_dimension_format(image)
if channel_dim == ChannelDimension.LAST:
cropped_im = image[top:bottom, left:right, :]
else:
cropped_im = image[:, top:bottom, left:right]
cropped_images.append(cropped_im)
cropped_im_size = get_image_size(cropped_im)
points_scale = np.array(cropped_im_size)[None, ::-1]
points = points_grid[layer_idxs[i]] * points_scale
normalized_points = _normalize_coordinates(target_size, points, original_size)
total_points_per_crop.append(normalized_points)
return cropped_images, total_points_per_crop
def _pad_masks(masks, crop_box: List[int], orig_height: int, orig_width: int):
left, top, right, bottom = crop_box
if left == 0 and top == 0 and right == orig_width and bottom == orig_height:
return masks
# Coordinate transform masks
pad_x, pad_y = orig_width - (right - left), orig_height - (bottom - top)
pad = (left, pad_x - left, top, pad_y - top)
return torch.nn.functional.pad(masks, pad, value=0)
def _pad_masks_tf(masks, crop_box: List[int], orig_height: int, orig_width: int):
left, top, right, bottom = crop_box
if left == 0 and top == 0 and right == orig_width and bottom == orig_height:
return masks
# Coordinate transform masks
pad_x, pad_y = orig_width - (right - left), orig_height - (bottom - top)
pad = (left, pad_x - left, top, pad_y - top)
return tf.pad(masks, pad, constant_values=0)
def _is_box_near_crop_edge(boxes, crop_box, orig_box, atol=20.0):
"""Filter masks at the edge of a crop, but not at the edge of the original image."""
crop_box_torch = torch.as_tensor(crop_box, dtype=torch.float, device=boxes.device)
orig_box_torch = torch.as_tensor(orig_box, dtype=torch.float, device=boxes.device)
left, top, _, _ = crop_box
offset = torch.tensor([[left, top, left, top]], device=boxes.device)
# Check if boxes has a channel dimension
if len(boxes.shape) == 3:
offset = offset.unsqueeze(1)
boxes = (boxes + offset).float()
near_crop_edge = torch.isclose(boxes, crop_box_torch[None, :], atol=atol, rtol=0)
near_image_edge = torch.isclose(boxes, orig_box_torch[None, :], atol=atol, rtol=0)
near_crop_edge = torch.logical_and(near_crop_edge, ~near_image_edge)
return torch.any(near_crop_edge, dim=1)
def _is_box_near_crop_edge_tf(boxes, crop_box, orig_box, atol=20.0):
"""Filter masks at the edge of a crop, but not at the edge of the original image."""
crop_box_tf = tf.convert_to_tensor(crop_box, dtype=tf.float32)
orig_box_tf = tf.convert_to_tensor(orig_box, dtype=tf.float32)
left, top, _, _ = crop_box
offset = tf.convert_to_tensor([[left, top, left, top]])
# Check if boxes has a channel dimension
if len(boxes.shape) == 3:
offset = tf.expand_dims(offset, 1)
boxes = tf.cast(boxes + offset, tf.float32)
near_crop_edge = tnp.isclose(boxes, crop_box_tf[None, :], atol=atol, rtol=0)
near_image_edge = tnp.isclose(boxes, orig_box_tf[None, :], atol=atol, rtol=0)
near_crop_edge = tf.math.logical_and(near_crop_edge, ~near_image_edge)
return tf.reduce_any(near_crop_edge, axis=1)
def _batched_mask_to_box(masks: "torch.Tensor"):
"""
Computes the bounding boxes around the given input masks. The bounding boxes are in the XYXY format which
corresponds the following required indices:
- LEFT: left hand side of the bounding box
- TOP: top of the bounding box
- RIGHT: right of the bounding box
- BOTTOM: bottom of the bounding box
Return [0,0,0,0] for an empty mask. For input shape channel_1 x channel_2 x ... x height x width, the output shape
is channel_1 x channel_2 x ... x 4.
Args:
- masks (`torch.Tensor` of shape `(batch, nb_mask, height, width)`)
"""
# torch.max below raises an error on empty inputs, just skip in this case
if torch.numel(masks) == 0:
return torch.zeros(*masks.shape[:-2], 4, device=masks.device)
# Normalize shape to Cxheightxwidth
shape = masks.shape
height, width = shape[-2:]
# Get top and bottom edges
in_height, _ = torch.max(masks, dim=-1)
in_height_coords = in_height * torch.arange(height, device=in_height.device)[None, :]
bottom_edges, _ = torch.max(in_height_coords, dim=-1)
in_height_coords = in_height_coords + height * (~in_height)
top_edges, _ = torch.min(in_height_coords, dim=-1)
# Get left and right edges
in_width, _ = torch.max(masks, dim=-2)
in_width_coords = in_width * torch.arange(width, device=in_width.device)[None, :]
right_edges, _ = torch.max(in_width_coords, dim=-1)
in_width_coords = in_width_coords + width * (~in_width)
left_edges, _ = torch.min(in_width_coords, dim=-1)
# If the mask is empty the right edge will be to the left of the left edge.
# Replace these boxes with [0, 0, 0, 0]
empty_filter = (right_edges < left_edges) | (bottom_edges < top_edges)
out = torch.stack([left_edges, top_edges, right_edges, bottom_edges], dim=-1)
out = out * (~empty_filter).unsqueeze(-1)
# Return to original shape
out = out.reshape(*shape[:-2], 4)
return out
def _batched_mask_to_box_tf(masks: "tf.Tensor"):
"""
Computes the bounding boxes around the given input masks. The bounding boxes are in the XYXY format which
corresponds the following required indices:
- LEFT: left hand side of the bounding box
- TOP: top of the bounding box
- RIGHT: right of the bounding box
- BOTTOM: bottom of the bounding box
Return [0,0,0,0] for an empty mask. For input shape channel_1 x channel_2 x ... x height x width, the output shape
is channel_1 x channel_2 x ... x 4.
Args:
- masks (`tf.Tensor` of shape `(batch, nb_mask, height, width)`)
"""
if tf.size(masks) == 0:
return tf.zeros([*masks.shape[:-2], 4])
# Normalize shape to Cxheightxwidth
shape = shape_list(masks)
height, width = shape[-2:]
# Get top and bottom edges
in_height = tf.reduce_max(masks, axis=-1)
in_height_coords = in_height * tf.range(height)[None, :]
bottom_edges = tf.reduce_max(in_height_coords, axis=-1)
in_height_coords = in_height_coords + height * (~in_height)
top_edges = tf.reduce_min(in_height_coords, axis=-1)
# Get left and right edges
in_width, _ = tf.reduce_max(masks, axis=-2)
in_width_coords = in_width * tf.range(width)[None, :]
right_edges, _ = tf.reduce_max(in_width_coords, axis=-1)
in_width_coords = in_width_coords + width * (~in_width)
left_edges, _ = tf.reduce_min(in_width_coords, axis=-1)
# If the mask is empty the right edge will be to the left of the left edge.
# Replace these boxes with [0, 0, 0, 0]
empty_filter = (right_edges < left_edges) | (bottom_edges < top_edges)
out = tf.stack([left_edges, top_edges, right_edges, bottom_edges], axis=-1)
out = out * tf.expand_dims(~empty_filter, -1)
# Return to original shape
out = tf.reshape(out, *shape[:-2], 4)
return out
def _mask_to_rle_pytorch(input_mask: "torch.Tensor"):
"""
Encodes masks the run-length encoding (RLE), in the format expected by pycoco tools.
"""
# Put in fortran order and flatten height and width
batch_size, height, width = input_mask.shape
input_mask = input_mask.permute(0, 2, 1).flatten(1)
# Compute change indices
diff = input_mask[:, 1:] ^ input_mask[:, :-1]
change_indices = diff.nonzero()
# Encode run length
out = []
for i in range(batch_size):
cur_idxs = change_indices[change_indices[:, 0] == i, 1] + 1
btw_idxs = cur_idxs[1:] - cur_idxs[:-1]
counts = [] if input_mask[i, 0] == 0 else [0]
counts += [cur_idxs[0].item()] + btw_idxs.tolist() + [height * width - cur_idxs[-1]]
out.append({"size": [height, width], "counts": counts})
return out
def _mask_to_rle_tf(input_mask: "tf.Tensor"):
"""
Encodes masks the run-length encoding (RLE), in the format expected by pycoco tools.
"""
# Put in fortran order and flatten height and width
batch_size, height, width = input_mask.shape
input_mask = flatten(tf.transpose(input_mask, perm=(0, 2, 1)), 1)
# Compute change indices
diff = input_mask[:, 1:] ^ input_mask[:, :-1]
change_indices = tf.where(diff)
# Encode run length
out = []
for i in range(batch_size):
cur_idxs = change_indices[change_indices[:, 0] == i, 1] + 1
btw_idxs = cur_idxs[1:] - cur_idxs[:-1]
counts = [] if input_mask[i, 0] == 0 else [0]
counts += [cur_idxs[0].item()] + btw_idxs.tolist() + [height * width - cur_idxs[-1]]
out.append({"size": [height, width], "counts": counts})
return out
def _rle_to_mask(rle: Dict[str, Any]) -> np.ndarray:
"""Compute a binary mask from an uncompressed RLE."""
height, width = rle["size"]
mask = np.empty(height * width, dtype=bool)
idx = 0
parity = False
for count in rle["counts"]:
mask[idx : idx + count] = parity
idx += count
parity = not parity
mask = mask.reshape(width, height)
return mask.transpose() # Reshape to original shape
def _postprocess_for_mg(rle_masks, iou_scores, mask_boxes, amg_crops_nms_thresh=0.7):
"""
Perform NMS (Non Maximum Suppression) on the outputs.
Args:
rle_masks (`torch.Tensor`):
binary masks in the RLE format
iou_scores (`torch.Tensor` of shape (nb_masks, 1)):
iou_scores predicted by the model
mask_boxes (`torch.Tensor`):
The bounding boxes corresponding to segmentation masks
amg_crops_nms_thresh (`float`, *optional*, defaults to 0.7):
NMS threshold.
"""
keep_by_nms = batched_nms(
boxes=mask_boxes.float(),
scores=iou_scores,
idxs=torch.zeros(mask_boxes.shape[0]),
iou_threshold=amg_crops_nms_thresh,
)
iou_scores = iou_scores[keep_by_nms]
rle_masks = [rle_masks[i] for i in keep_by_nms]
mask_boxes = mask_boxes[keep_by_nms]
masks = [_rle_to_mask(rle) for rle in rle_masks]
return masks, iou_scores, rle_masks, mask_boxes
def _postprocess_for_mg_tf(rle_masks, iou_scores, mask_boxes, amg_crops_nms_thresh=0.7):
"""
Perform NMS (Non Maximum Suppression) on the outputs.
Args:
rle_masks (`tf.Tensor`):
binary masks in the RLE format
iou_scores (`tf.Tensor` of shape (nb_masks, 1)):
iou_scores predicted by the model
mask_boxes (`tf.Tensor`):
The bounding boxes corresponding to segmentation masks
amg_crops_nms_thresh (`float`, *optional*, defaults to 0.7):
NMS threshold.
"""
keep_by_nms = tf.image.combined_non_max_suppression(
boxes=mask_boxes.float(),
scores=iou_scores,
idxs=torch.zeros(mask_boxes.shape[0]),
iou_threshold=amg_crops_nms_thresh,
)
iou_scores = iou_scores[keep_by_nms]
rle_masks = [rle_masks[i] for i in keep_by_nms]
mask_boxes = mask_boxes[keep_by_nms]
masks = [_rle_to_mask(rle) for rle in rle_masks]
return masks, iou_scores, rle_masks, mask_boxes
| transformers-main | src/transformers/models/sam/image_processing_sam.py |
# coding=utf-8
# Copyright 2023 The Meta AI Authors and The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""
TensorFlow SAM model. This file was mostly generated by auto-translation from the PyTorch original. In the event of a
discrepancy, the original file should be regarded as the 'reference' version.
"""
from __future__ import annotations
import collections
from dataclasses import dataclass
from typing import Dict, List, Optional, Tuple, Union
import numpy as np
import tensorflow as tf
from ...activations_tf import ACT2FN
from ...modeling_tf_outputs import TFBaseModelOutput
from ...modeling_tf_utils import TFModelInputType, TFPreTrainedModel, shape_list, unpack_inputs
from ...tf_utils import flatten, functional_layernorm
from ...utils import ModelOutput, add_start_docstrings, add_start_docstrings_to_model_forward, logging
from .configuration_sam import SamConfig, SamMaskDecoderConfig, SamPromptEncoderConfig, SamVisionConfig
logger = logging.get_logger(__name__)
_CONFIG_FOR_DOC = "SamConfig"
_CHECKPOINT_FOR_DOC = "facebook/sam-vit-huge"
TF_SAM_PRETRAINED_MODEL_ARCHIVE_LIST = [
"facebook/sam-vit-huge",
"facebook/sam-vit-large",
"facebook/sam-vit-base",
# See all SAM models at https://huggingface.co/models?filter=sam
]
@dataclass
class TFSamVisionEncoderOutput(ModelOutput):
"""
Base class for sam vision model's outputs that also contains image embeddings obtained by applying the projection
layer to the pooler_output.
Args:
image_embeds (`tf.Tensor` of shape `(batch_size, output_dim)` *optional* returned when model is initialized with `with_projection=True`):
The image embeddings obtained by applying the projection layer to the pooler_output.
last_hidden_state (`tf.Tensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the model.
hidden_states (`tuple(tf.Tensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `tf.Tensor` (one for the output of the embeddings, if the model has an embedding layer, + one for
the output of each layer) of shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the optional initial embedding outputs.
attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
"""
image_embeds: tf.Tensor | None = None
last_hidden_state: tf.Tensor = None
hidden_states: Tuple[tf.Tensor] | None = None
attentions: Tuple[tf.Tensor] | None = None
@dataclass
class TFSamImageSegmentationOutput(ModelOutput):
"""
Base class for Segment-Anything model's output
Args:
iou_scores (`tf.Tensor` of shape `(batch_size, num_masks)`):
The iou scores of the predicted masks.
pred_masks (`tf.Tensor` of shape `(batch_size, num_masks, height, width)`):
The predicted low resolutions masks. Needs to be post-processed by the processor
vision_hidden_states (`tuple(tf.Tensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `tf.Tensor` (one for the output of the embeddings, if the model has an embedding layer, + one for
the output of each layer) of shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the vision model at the output of each layer plus the optional initial embedding outputs.
vision_attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
mask_decoder_attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
"""
iou_scores: tf.Tensor = None
pred_masks: tf.Tensor = None
vision_hidden_states: Tuple[tf.Tensor] | None = None
vision_attentions: Tuple[tf.Tensor] | None = None
mask_decoder_attentions: Tuple[tf.Tensor] | None = None
class TFSamPatchEmbeddings(tf.keras.layers.Layer):
"""
This class turns `pixel_values` of shape `(batch_size, num_channels, height, width)` into the initial
`hidden_states` (patch embeddings) of shape `(batch_size, seq_length, hidden_size)` to be consumed by a
Transformer.
"""
def __init__(self, config, **kwargs):
super().__init__(**kwargs)
image_size, patch_size = config.image_size, config.patch_size
num_channels, hidden_size = config.num_channels, config.hidden_size
image_size = image_size if isinstance(image_size, collections.abc.Iterable) else (image_size, image_size)
patch_size = patch_size if isinstance(patch_size, collections.abc.Iterable) else (patch_size, patch_size)
num_patches = (image_size[1] // patch_size[1]) * (image_size[0] // patch_size[0])
self.image_size = image_size
self.patch_size = patch_size
self.num_channels = num_channels
self.num_patches = num_patches
self.projection = tf.keras.layers.Conv2D(
hidden_size, kernel_size=patch_size, strides=patch_size, name="projection"
)
def call(self, pixel_values):
batch_size, num_channels, height, width = shape_list(pixel_values)
if num_channels != self.num_channels:
raise ValueError(
"Make sure that the channel dimension of the pixel values match with the one set in the configuration."
)
if height != self.image_size[0] or width != self.image_size[1]:
raise ValueError(
f"Input image size ({height}*{width}) doesn't match model ({self.image_size[0]}*{self.image_size[1]})."
)
embeddings = self.projection(tf.transpose(pixel_values, perm=[0, 2, 3, 1]))
return embeddings
class TFSamMLPBlock(tf.keras.layers.Layer):
def __init__(self, config, **kwargs):
super().__init__(**kwargs)
self.lin1 = tf.keras.layers.Dense(config.mlp_dim, name="lin1")
self.lin2 = tf.keras.layers.Dense(config.hidden_size, name="lin2")
self.act = ACT2FN[config.hidden_act]
def call(self, hidden_states: tf.Tensor) -> tf.Tensor:
hidden_states = self.lin1(hidden_states)
hidden_states = self.act(hidden_states)
hidden_states = self.lin2(hidden_states)
return hidden_states
class TFSamLayerNorm(tf.keras.layers.Layer):
r"""LayerNorm that supports two data formats: channels_last (default) or channels_first.
The ordering of the dimensions in the inputs. channels_last corresponds to inputs with shape (batch_size, height,
width, channels) while channels_first corresponds to inputs with shape (batch_size, channels, height, width).
"""
def __init__(self, normalized_shape, eps=1e-6, data_format="channels_last", **kwargs):
super().__init__(**kwargs)
self.eps = eps
self.data_format = data_format
self.normalized_shape = normalized_shape
if self.data_format not in ["channels_last", "channels_first"]:
raise NotImplementedError(f"Unsupported data format: {self.data_format}")
def build(self, input_shape):
self.weight = self.add_weight(shape=self.normalized_shape, initializer="ones", name="weight")
self.bias = self.add_weight(shape=self.normalized_shape, initializer="zeros", name="bias")
super().build(input_shape)
def call(self, x: tf.Tensor) -> tf.Tensor:
if self.data_format == "channels_last":
x = functional_layernorm(x, weight=self.weight, bias=self.bias, epsilon=self.eps, axis=-1)
elif self.data_format == "channels_first":
x = functional_layernorm(x, weight=self.weight, bias=self.bias, epsilon=self.eps, axis=1)
return x
class TFSamAttention(tf.keras.layers.Layer):
"""
SAM's attention layer that allows for downscaling the size of the embedding after projection to queries, keys, and
values.
"""
def __init__(self, config, downsample_rate=None, **kwargs):
super().__init__(**kwargs)
self.hidden_size = config.hidden_size
downsample_rate = config.attention_downsample_rate if downsample_rate is None else downsample_rate
self.internal_dim = config.hidden_size // downsample_rate
self.num_attention_heads = config.num_attention_heads
if self.internal_dim % config.num_attention_heads != 0:
raise ValueError("num_attention_heads must divide hidden_size.")
self.q_proj = tf.keras.layers.Dense(self.internal_dim, name="q_proj")
self.k_proj = tf.keras.layers.Dense(self.internal_dim, name="k_proj")
self.v_proj = tf.keras.layers.Dense(self.internal_dim, name="v_proj")
self.out_proj = tf.keras.layers.Dense(self.hidden_size, name="out_proj")
def _separate_heads(self, hidden_states: tf.Tensor, num_attention_heads: int) -> tf.Tensor:
batch, point_batch_size, n_tokens, channel = shape_list(hidden_states)
c_per_head = channel // num_attention_heads
hidden_states = tf.reshape(
hidden_states, (batch * point_batch_size, n_tokens, num_attention_heads, c_per_head)
)
return tf.transpose(hidden_states, perm=[0, 2, 1, 3])
def _recombine_heads(self, hidden_states: tf.Tensor, point_batch_size: int) -> tf.Tensor:
batch, n_heads, n_tokens, c_per_head = shape_list(hidden_states)
hidden_states = tf.transpose(hidden_states, perm=[0, 2, 1, 3])
return tf.reshape(
hidden_states,
(batch // tf.reduce_max([1, point_batch_size]), point_batch_size, n_tokens, n_heads * c_per_head),
)
def call(self, query: tf.Tensor, key: tf.Tensor, value: tf.Tensor) -> tf.Tensor:
# Input projections
query = self.q_proj(query)
key = self.k_proj(key)
value = self.v_proj(value)
point_batch_size = shape_list(query)[1]
# Separate into heads
query = self._separate_heads(query, self.num_attention_heads)
key = self._separate_heads(key, self.num_attention_heads)
value = self._separate_heads(value, self.num_attention_heads)
# SamAttention
_, _, _, c_per_head = shape_list(query)
attn = tf.matmul(
query, tf.transpose(key, perm=[0, 1, 3, 2])
) # batch_size * point_batch_size x N_heads x N_tokens x N_tokens
attn = attn / tf.math.sqrt(float(c_per_head))
attn = tf.nn.softmax(attn, axis=-1)
# Get output
out = tf.matmul(attn, value)
out = self._recombine_heads(out, point_batch_size)
out = self.out_proj(out)
return out
class TFSamTwoWayAttentionBlock(tf.keras.layers.Layer):
def __init__(self, config, attention_downsample_rate: int = 2, skip_first_layer_pe: bool = False, **kwargs):
"""
A transformer block with four layers:
(1) self-attention of sparse inputs (2) cross attention of sparse inputs -> dense inputs (3) mlp block on
sparse inputs (4) cross attention of dense inputs -> sparse inputs
Arguments:
config (`SamMaskDecoderConfig`):
The configuration file used to instantiate the block
attention_downsample_rate (*optionalk*, int, defaults to 2):
The downsample ratio of the block used to reduce the inner dim of the attention.
skip_first_layer_pe (*optional*, bool, defaults to `False`):
Whether or not to skip the addition of the query_point_embedding on the first layer.
"""
super().__init__(**kwargs)
self.hidden_size = config.hidden_size
self.layer_norm_eps = config.layer_norm_eps
self.self_attn = TFSamAttention(config, downsample_rate=1, name="self_attn")
self.layer_norm1 = tf.keras.layers.LayerNormalization(epsilon=self.layer_norm_eps, name="layer_norm1")
self.cross_attn_token_to_image = TFSamAttention(
config, downsample_rate=attention_downsample_rate, name="cross_attn_token_to_image"
)
self.layer_norm2 = tf.keras.layers.LayerNormalization(epsilon=self.layer_norm_eps, name="layer_norm2")
self.mlp = TFSamMLPBlock(config, name="mlp")
self.layer_norm3 = tf.keras.layers.LayerNormalization(epsilon=self.layer_norm_eps, name="layer_norm3")
self.layer_norm4 = tf.keras.layers.LayerNormalization(epsilon=self.layer_norm_eps, name="layer_norm4")
self.cross_attn_image_to_token = TFSamAttention(
config, downsample_rate=attention_downsample_rate, name="cross_attn_image_to_token"
)
self.skip_first_layer_pe = skip_first_layer_pe
def call(
self,
queries: tf.Tensor,
keys: tf.Tensor,
query_point_embedding: tf.Tensor,
key_point_embedding: tf.Tensor,
output_attentions: bool = False,
):
# Self attention block
if self.skip_first_layer_pe:
queries = self.self_attn(query=queries, key=queries, value=queries)
else:
query = queries + query_point_embedding
attn_out = self.self_attn(query=query, key=query, value=queries)
queries = queries + attn_out
queries = self.layer_norm1(queries)
# Cross attention block, tokens attending to image embedding
query = queries + query_point_embedding
key = keys + key_point_embedding
attn_out = self.cross_attn_token_to_image(query=query, key=key, value=keys)
queries = queries + attn_out
queries = self.layer_norm2(queries)
# MLP block
mlp_out = self.mlp(queries)
queries = queries + mlp_out
queries = self.layer_norm3(queries)
# Cross attention block, image embedding attending to tokens
query = queries + query_point_embedding
key = keys + key_point_embedding
attn_out = self.cross_attn_image_to_token(query=key, key=query, value=queries)
keys = keys + attn_out
keys = self.layer_norm4(keys)
outputs = (queries, keys)
if output_attentions:
outputs = outputs + (attn_out,)
else:
outputs = outputs + (None,)
return outputs
class TFSamTwoWayTransformer(tf.keras.layers.Layer):
def __init__(self, config: SamMaskDecoderConfig, **kwargs):
super().__init__(**kwargs)
self.config = config
self.num_hidden_layers = config.num_hidden_layers
self.layers = []
for i in range(self.num_hidden_layers):
self.layers.append(TFSamTwoWayAttentionBlock(config, skip_first_layer_pe=(i == 0), name=f"layers_._{i}"))
self.final_attn_token_to_image = TFSamAttention(config, name="final_attn_token_to_image")
self.layer_norm_final_attn = tf.keras.layers.LayerNormalization(
epsilon=config.layer_norm_eps, name="layer_norm_final_attn"
)
def call(
self,
point_embeddings: tf.Tensor,
image_embeddings: tf.Tensor,
image_positional_embeddings: tf.Tensor,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, TFBaseModelOutput]:
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
all_attentions = ()
if image_embeddings is None:
raise ValueError("You have to specify an image_embedding")
image_embeddings = tf.transpose(flatten(image_embeddings, 2), perm=(0, 2, 1))[:, None]
image_positional_embeddings = tf.transpose(flatten(image_positional_embeddings, 2), (0, 2, 1))[:, None]
# Prepare queries
queries = point_embeddings
keys = image_embeddings
# Apply transformer blocks and final layernorm
for layer in self.layers:
queries, keys, attention_outputs = layer(
queries=queries,
keys=keys,
query_point_embedding=point_embeddings,
key_point_embedding=image_positional_embeddings,
output_attentions=output_attentions,
)
if output_attentions:
all_attentions = all_attentions + (attention_outputs,)
# Apply the final attenion layer from the points to the image
query = queries + point_embeddings
key = keys + image_positional_embeddings
attn_out = self.final_attn_token_to_image(query=query, key=key, value=keys)
queries = queries + attn_out
queries = self.layer_norm_final_attn(queries)
return queries, keys, all_attentions
class TFSamFeedForward(tf.keras.layers.Layer):
def __init__(
self, input_dim: int, hidden_dim: int, output_dim: int, num_layers: int, sigmoid_output: bool = False, **kwargs
):
super().__init__(**kwargs)
self.num_layers = num_layers
self.activation = tf.keras.layers.ReLU()
self.proj_in = tf.keras.layers.Dense(hidden_dim, input_shape=(input_dim,), name="proj_in")
self.proj_out = tf.keras.layers.Dense(output_dim, input_shape=(hidden_dim,), name="proj_out")
self.layers = [
tf.keras.layers.Dense(hidden_dim, input_shape=(hidden_dim,), name=f"layers_._{i}")
for i in range(num_layers - 2)
]
self.sigmoid_output = sigmoid_output
def call(self, hidden_states):
hidden_states = self.proj_in(hidden_states)
hidden_states = self.activation(hidden_states)
for layer in self.layers:
hidden_states = self.activation(layer(hidden_states))
hidden_states = self.proj_out(hidden_states)
if self.sigmoid_output:
hidden_states = tf.sigmoid(hidden_states)
return hidden_states
class TFSamMaskDecoder(tf.keras.layers.Layer):
def __init__(self, config: SamMaskDecoderConfig, **kwargs):
super().__init__(**kwargs)
self.hidden_size = config.hidden_size
self.num_multimask_outputs = config.num_multimask_outputs
self.num_mask_tokens = config.num_multimask_outputs + 1
self.transformer = TFSamTwoWayTransformer(config, name="transformer")
self.upscale_conv1 = tf.keras.layers.Conv2DTranspose(
self.hidden_size // 4, kernel_size=2, strides=2, name="upscale_conv1", data_format="channels_first"
)
self.upscale_conv2 = tf.keras.layers.Conv2DTranspose(
self.hidden_size // 8, kernel_size=2, strides=2, name="upscale_conv2", data_format="channels_first"
)
self.upscale_layer_norm = TFSamLayerNorm(
self.hidden_size // 4, data_format="channels_first", name="upscale_layer_norm"
)
self.activation = tf.nn.gelu
mlps_list = []
for i in range(self.num_mask_tokens):
mlps_list += [
TFSamFeedForward(
self.hidden_size,
self.hidden_size,
self.hidden_size // 8,
3,
name=f"output_hypernetworks_mlps_._{i}",
)
]
self.output_hypernetworks_mlps = mlps_list
self.iou_prediction_head = TFSamFeedForward(
self.hidden_size,
config.iou_head_hidden_dim,
self.num_mask_tokens,
config.iou_head_depth,
name="iou_prediction_head",
)
def build(self, input_shape):
self.iou_token = self.add_weight(shape=(1, self.hidden_size), name="iou_token.weight", trainable=True)
self.mask_tokens = self.add_weight(
shape=(self.num_mask_tokens, self.hidden_size), name="mask_tokens.weight", trainable=True
)
super().build(input_shape)
def call(
self,
image_embeddings: tf.Tensor,
image_positional_embeddings: tf.Tensor,
sparse_prompt_embeddings: tf.Tensor,
dense_prompt_embeddings: tf.Tensor,
multimask_output: bool,
output_attentions: Optional[bool] = None,
) -> Tuple[tf.Tensor, tf.Tensor]:
batch_size, num_channels, height, width = shape_list(image_embeddings)
point_batch_size = tf.math.maximum(1, tf.shape(sparse_prompt_embeddings)[1])
output_tokens = tf.concat([self.iou_token, self.mask_tokens], axis=0) # Should be (1, 32) + (4, 32) = (5, 32)
output_tokens = tf.tile(
output_tokens[None, None, :], [batch_size, point_batch_size, 1, 1]
) # Should be (batch_size, point_size, 5, 32)
# Matt: The original Torch code checked that the sum of sparse_prompt_embeddings equalled 0. However, this only
# happens when the sparse prompt embeddings are an empty tensor with shape[1] == 0. I replaced
# it with an explicit shape check to avoid data-dependent control flow which breaks XLA.
if shape_list(sparse_prompt_embeddings)[1] != 0:
tokens = tf.concat((output_tokens, sparse_prompt_embeddings), axis=2)
else:
tokens = output_tokens
point_embeddings = tf.cast(tokens, self.iou_token.dtype)
image_embeddings = image_embeddings + dense_prompt_embeddings
image_embeddings = tf.repeat(image_embeddings, point_batch_size, axis=0)
image_positional_embeddings = tf.repeat(image_positional_embeddings, point_batch_size, axis=0)
point_embedding, image_embeddings, attentions = self.transformer(
point_embeddings=point_embeddings,
image_embeddings=image_embeddings,
image_positional_embeddings=image_positional_embeddings,
output_attentions=output_attentions,
)
iou_token_out = point_embedding[:, :, 0, :]
mask_tokens_out = point_embedding[:, :, 1 : (1 + self.num_mask_tokens), :]
image_embeddings = tf.transpose(image_embeddings, perm=(0, 1, 3, 2))
image_embeddings = tf.reshape(image_embeddings, [batch_size * point_batch_size, num_channels, height, width])
upscaled_embedding = self.upscale_conv1(image_embeddings)
upscaled_embedding = self.activation(self.upscale_layer_norm(upscaled_embedding))
upscaled_embedding = self.activation(self.upscale_conv2(upscaled_embedding))
hyper_in_list = []
for i in range(self.num_mask_tokens):
current_mlp = self.output_hypernetworks_mlps[i]
hyper_in_list += [current_mlp(mask_tokens_out[:, :, i, :])]
hyper_in = tf.stack(hyper_in_list, axis=2)
_, num_channels, height, width = shape_list(upscaled_embedding)
upscaled_embedding = tf.reshape(
upscaled_embedding, [batch_size, point_batch_size, num_channels, height * width]
)
masks = tf.reshape(hyper_in @ upscaled_embedding, [batch_size, point_batch_size, -1, height, width])
iou_pred = self.iou_prediction_head(iou_token_out)
if multimask_output:
mask_slice = slice(1, None)
else:
mask_slice = slice(0, 1)
masks = masks[:, :, mask_slice, :, :]
iou_pred = iou_pred[:, :, mask_slice]
outputs = (masks, iou_pred)
if output_attentions:
outputs = outputs + (attentions,)
else:
outputs = outputs + (None,)
return outputs
class TFSamPositionalEmbedding(tf.keras.layers.Layer):
def __init__(self, config, **kwargs):
super().__init__(**kwargs)
self.scale = config.hidden_size // 2
self.config = config
def build(self, input_shape):
# TODO Matt: What is going on here? Why is a non-trainable weight randomly initialized?
self.positional_embedding = self.add_weight(
name="positional_embedding",
shape=(2, self.config.num_pos_feats),
initializer=tf.keras.initializers.RandomNormal(mean=0.0, stddev=self.scale),
trainable=False,
)
super().build(input_shape)
def call(self, input_coords, input_shape=None):
"""Positionally encode points that are normalized to [0,1]."""
coordinates = tf.identity(input_coords)
if input_shape is not None:
coordinates = tf.stack(
[
tf.cast(coordinates[:, :, :, 0], tf.float32) / input_shape[1],
tf.cast(coordinates[:, :, :, 1], tf.float32) / input_shape[0],
],
axis=-1,
)
# assuming coords are in [0, 1]^2 square and have d_1 x ... x d_n x 2 shape
coordinates = 2 * coordinates - 1
coordinates = tf.cast(coordinates, self.positional_embedding.dtype)
coordinates = tf.matmul(coordinates, self.positional_embedding)
coordinates = 2 * np.pi * coordinates
# outputs d_1 x ... x d_n x channel shape
return tf.concat([tf.sin(coordinates), tf.cos(coordinates)], axis=-1)
class TFSamMaskEmbedding(tf.keras.layers.Layer):
def __init__(self, config: SamPromptEncoderConfig, **kwargs):
super().__init__(**kwargs)
self.mask_input_channels = config.mask_input_channels // 4
self.activation = ACT2FN[config.hidden_act]
self.conv1 = tf.keras.layers.Conv2D(self.mask_input_channels, kernel_size=2, strides=2, name="conv1")
self.conv2 = tf.keras.layers.Conv2D(config.mask_input_channels, kernel_size=2, strides=2, name="conv2")
self.conv3 = tf.keras.layers.Conv2D(config.hidden_size, kernel_size=1, name="conv3")
self.layer_norm1 = TFSamLayerNorm(self.mask_input_channels, config.layer_norm_eps, name="layer_norm1")
self.layer_norm2 = TFSamLayerNorm(self.mask_input_channels * 4, config.layer_norm_eps, name="layer_norm2")
def call(self, masks):
masks = tf.transpose(masks, perm=(0, 2, 3, 1)) # Convert to channels-last
hidden_states = self.conv1(masks)
hidden_states = self.layer_norm1(hidden_states)
hidden_states = self.activation(hidden_states)
hidden_states = self.conv2(hidden_states)
hidden_states = self.layer_norm2(hidden_states)
hidden_states = self.activation(hidden_states)
dense_embeddings = self.conv3(hidden_states)
dense_embeddings = tf.transpose(dense_embeddings, perm=(0, 3, 1, 2)) # Convert back to channels-first
return dense_embeddings
def build(self, input_shape):
# This class needs an explicit build method because it isn't called with the standard dummy inputs
conv1_shape = [None, None, None, 1]
conv2_shape = [None, None, None, self.mask_input_channels]
conv3_shape = [None, None, None, self.mask_input_channels * 4]
layer_norm1_shape = [None, None, None, self.mask_input_channels]
layer_norm2_shape = [None, None, None, self.mask_input_channels * 4]
with tf.name_scope("conv1"):
self.conv1.build(conv1_shape)
with tf.name_scope("conv2"):
self.conv2.build(conv2_shape)
with tf.name_scope("conv3"):
self.conv3.build(conv3_shape)
with tf.name_scope("layer_norm1"):
self.layer_norm1.build(layer_norm1_shape)
with tf.name_scope("layer_norm2"):
self.layer_norm2.build(layer_norm2_shape)
super().build(input_shape)
class TFSamPromptEncoder(tf.keras.layers.Layer):
def __init__(self, config: SamPromptEncoderConfig, shared_patch_embedding, **kwargs):
super().__init__(**kwargs)
self.shared_embedding = shared_patch_embedding
self.mask_embed = TFSamMaskEmbedding(config, name="mask_embed")
self.no_mask_embed = None
self.image_embedding_size = (config.image_embedding_size, config.image_embedding_size)
self.input_image_size = config.image_size
self.point_embed = []
self.hidden_size = config.hidden_size
self.not_a_point_embed = None
self.config = config
def build(self, input_shape):
self.no_mask_embed = self.add_weight(
name="no_mask_embed.weight",
shape=(1, self.hidden_size),
initializer=tf.keras.initializers.RandomNormal(mean=0.0, stddev=0.02),
trainable=True,
)
self.point_embed = [
self.add_weight(
name=f"point_embed_._{i}.weight",
shape=(1, self.hidden_size),
initializer=tf.keras.initializers.RandomNormal(mean=0.0, stddev=0.02),
trainable=True,
)
for i in range(self.config.num_point_embeddings)
]
self.not_a_point_embed = self.add_weight(
name="not_a_point_embed.weight",
shape=(1, self.hidden_size),
initializer=tf.keras.initializers.RandomNormal(mean=0.0, stddev=0.02),
trainable=True,
)
with tf.name_scope("mask_embed"):
# We must explicitly build the mask embed because it isn't touched by the standard dummy inputs
self.mask_embed.build(
(None, self.config.mask_input_channels, self.config.image_size, self.config.image_size)
)
super().build(input_shape)
def _embed_points(self, points: tf.Tensor, labels: tf.Tensor, pad: bool) -> tf.Tensor:
"""Embeds point prompts."""
points = points + 0.5 # Shift to center of pixel
if pad:
target_point_shape = (shape_list(points)[0], shape_list(points)[1], 1, shape_list(points)[-1])
target_labels_shape = (shape_list(points)[0], shape_list(points)[1], 1)
padding_point = tf.zeros(target_point_shape, dtype=points.dtype)
padding_label = -tf.ones(target_labels_shape, dtype=labels.dtype)
points = tf.concat([points, padding_point], axis=2)
labels = tf.concat([labels, padding_label], axis=2)
input_shape = (self.input_image_size, self.input_image_size)
point_embedding = self.shared_embedding(points, input_shape)
point_embedding = tf.where(labels[..., None] == -1, self.not_a_point_embed[0], point_embedding)
point_embedding = tf.where(
labels[..., None] != -10,
point_embedding,
tf.zeros_like(point_embedding),
)
point_embedding = tf.where(
(labels == 0)[:, :, :, None], point_embedding + self.point_embed[0], point_embedding
)
point_embedding = tf.where(
(labels == 1)[:, :, :, None], point_embedding + self.point_embed[1], point_embedding
)
return point_embedding
def _embed_boxes(self, boxes: tf.Tensor) -> tf.Tensor:
"""Embeds box prompts."""
boxes = boxes + 0.5 # Shift to center of pixel
batch_size, nb_boxes = shape_list(boxes)[:2]
coords = tf.reshape(boxes, (batch_size, nb_boxes, 2, 2))
input_shape = (self.input_image_size, self.input_image_size)
corner_embedding = self.shared_embedding(coords, input_shape)
corner_embedding += tf.where(
tf.range(shape_list(corner_embedding)[2])[None, None, :, None] == 0,
self.point_embed[2][0],
self.point_embed[3][0],
)
return corner_embedding
def call(
self,
batch_size: Optional[int],
input_points: Optional[Tuple[tf.Tensor, tf.Tensor]],
input_labels: tf.Tensor | None,
input_boxes: tf.Tensor | None,
input_masks: tf.Tensor | None,
) -> Tuple[tf.Tensor, tf.Tensor]:
"""
Embeds different types of prompts, returning both sparse and dense embeddings.
Args:
points (`tf.Tensor`, *optional*):
point coordinates and labels to embed.
boxes (`tf.Tensor`, *optional*):
boxes to embed
masks (`tf.Tensor`, *optional*):
masks to embed
"""
sparse_embeddings = None
if input_points is not None:
batch_size, point_batch_size = shape_list(input_points)[:2]
if input_labels is None:
raise ValueError("If points are provided, labels must also be provided.")
point_embeddings = self._embed_points(input_points, input_labels, pad=(input_boxes is None))
sparse_embeddings = tf.zeros(
(batch_size, point_batch_size, 0, self.hidden_size), dtype=point_embeddings.dtype
)
sparse_embeddings = tf.concat([sparse_embeddings, point_embeddings], axis=2)
if input_boxes is not None:
batch_size = shape_list(input_boxes)[0]
box_embeddings = self._embed_boxes(input_boxes)
if sparse_embeddings is None:
sparse_embeddings = box_embeddings
else:
sparse_embeddings = tf.concat([sparse_embeddings, box_embeddings], axis=2)
if input_masks is not None:
dense_embeddings = self.mask_embed(input_masks)
else:
dense_embeddings = self.no_mask_embed[0]
dense_embeddings = tf.reshape(dense_embeddings, (1, -1, 1, 1))
dense_embeddings = tf.tile(
dense_embeddings, (batch_size, 1, self.image_embedding_size[0], self.image_embedding_size[1])
)
if sparse_embeddings is None:
sparse_embeddings = tf.zeros((batch_size, 0, 1, self.hidden_size), dtype=dense_embeddings.dtype)
return sparse_embeddings, dense_embeddings
class TFSamVisionAttention(tf.keras.layers.Layer):
"""Multi-head Attention block with relative position embeddings."""
def __init__(self, config, window_size, **kwargs):
super().__init__(**kwargs)
input_size = (
(config.image_size // config.patch_size, config.image_size // config.patch_size)
if window_size == 0
else (window_size, window_size)
)
self.input_size = input_size
self.num_attention_heads = config.num_attention_heads
head_dim = config.hidden_size // config.num_attention_heads
self.head_dim = head_dim
self.scale = head_dim**-0.5
self.dropout = config.attention_dropout
self.qkv = tf.keras.layers.Dense(config.hidden_size * 3, use_bias=config.qkv_bias, name="qkv")
self.proj = tf.keras.layers.Dense(config.hidden_size, name="proj")
self.use_rel_pos = config.use_rel_pos
if self.use_rel_pos:
if input_size is None:
raise ValueError("Input size must be provided if using relative positional encoding.")
self.config = config
def build(self, input_shape):
if self.input_size is not None:
# initialize relative positional embeddings
self.rel_pos_h = self.add_weight(
shape=(2 * self.input_size[0] - 1, self.head_dim), initializer="zeros", name="rel_pos_h"
)
self.rel_pos_w = self.add_weight(
shape=(2 * self.input_size[1] - 1, self.head_dim), initializer="zeros", name="rel_pos_w"
)
super().build(input_shape)
def get_rel_pos(self, q_size: int, k_size: int, rel_pos: tf.Tensor) -> tf.Tensor:
"""
Get relative positional embeddings according to the relative positions of
query and key sizes.
Args:
q_size (int):
size of the query.
k_size (int):
size of key k.
rel_pos (`tf.Tensor`):
relative position embeddings (L, channel).
Returns:
Extracted positional embeddings according to relative positions.
"""
max_rel_dist = int(2 * max(q_size, k_size) - 1)
# Interpolate rel pos if needed.
if rel_pos.shape[0] != max_rel_dist:
# Interpolate rel pos.
rel_pos_resized = tf.image.resize(
tf.reshape(rel_pos, (1, rel_pos.shape[0], -1)),
size=(max_rel_dist, rel_pos.shape[1]),
method="bilinear",
)
rel_pos_resized = tf.reshape(rel_pos_resized, (-1, max_rel_dist))
else:
rel_pos_resized = rel_pos
# Scale the coords with short length if shapes for q and k are different.
q_coords = tf.expand_dims(tf.range(q_size, dtype=tf.float32), 1) * max(k_size / q_size, 1.0)
k_coords = tf.expand_dims(tf.range(k_size, dtype=tf.float32), 0) * max(q_size / k_size, 1.0)
relative_coords = (q_coords - k_coords) + (k_size - 1) * max(q_size / k_size, 1.0)
return tf.gather(rel_pos_resized, tf.cast(relative_coords, tf.int32))
def add_decomposed_rel_pos(
self,
attn: tf.Tensor,
query: tf.Tensor,
rel_pos_h: tf.Tensor,
rel_pos_w: tf.Tensor,
q_size: Tuple[int, int],
k_size: Tuple[int, int],
) -> tf.Tensor:
"""
Calculate decomposed Relative Positional Embeddings from :paper:`mvitv2`.
https://github.com/facebookresearch/mvit/blob/19786631e330df9f3622e5402b4a419a263a2c80/mvit/models/attention.py
Args:
attn (`tf.Tensor`):
attention map.
query (`tf.Tensor`):
query q in the attention layer with shape (batch_size, query_height * query_width, channel).
rel_pos_h (`tf.Tensor`):
relative position embeddings (Lh, channel) for height axis.
rel_pos_w (`tf.Tensor`):
relative position embeddings (Lw, channel) for width axis.
q_size (tuple):
spatial sequence size of query q with (query_height, query_width).
k_size (tuple):
spatial sequence size of key k with (key_height, key_width).
Returns:
attn (`tf.Tensor`):
attention map with added relative positional embeddings.
"""
query_height, query_width = q_size
key_height, key_width = k_size
relative_position_height = self.get_rel_pos(query_height, key_height, rel_pos_h)
relative_position_width = self.get_rel_pos(query_width, key_width, rel_pos_w)
batch_size, _, dim = shape_list(query)
reshaped_query = tf.reshape(query, (batch_size, query_height, query_width, dim))
rel_h = tf.einsum("bhwc,hkc->bhwk", reshaped_query, relative_position_height)
rel_w = tf.einsum("bhwc,wkc->bhwk", reshaped_query, relative_position_width)
attn = tf.reshape(attn, (batch_size, query_height, query_width, key_height, key_width))
attn = attn + tf.expand_dims(rel_h, axis=-1) + tf.expand_dims(rel_w, axis=-2)
attn = tf.reshape(attn, (batch_size, query_height * query_width, key_height * key_width))
return attn
def call(self, hidden_states: tf.Tensor, output_attentions=False, training=False) -> tf.Tensor:
batch_size, height, width, _ = shape_list(hidden_states)
# qkv with shape (3, batch_size, nHead, height * width, channel)
qkv = tf.reshape(self.qkv(hidden_states), (batch_size, height * width, 3, self.num_attention_heads, -1))
qkv = tf.transpose(qkv, perm=(2, 0, 3, 1, 4))
# q, k, v with shape (batch_size * nHead, height * width, channel)
query, key, value = tf.unstack(
tf.reshape(qkv, (3, batch_size * self.num_attention_heads, height * width, -1)), axis=0
)
attn_weights = tf.matmul(query * self.scale, key, transpose_b=True)
if self.use_rel_pos:
attn_weights = self.add_decomposed_rel_pos(
attn_weights, query, self.rel_pos_h, self.rel_pos_w, (height, width), (height, width)
)
attn_weights = tf.nn.softmax(attn_weights, axis=-1)
if training:
attn_probs = tf.nn.dropout(attn_weights, rate=self.dropout)
else:
attn_probs = attn_weights
attn_output = tf.reshape(attn_probs @ value, (batch_size, self.num_attention_heads, height, width, -1))
attn_output = tf.transpose(attn_output, perm=(0, 2, 3, 1, 4))
attn_output = tf.reshape(attn_output, (batch_size, height, width, self.config.hidden_size))
attn_output = self.proj(attn_output)
if output_attentions:
outputs = (attn_output, attn_weights)
else:
outputs = (attn_output, None)
return outputs
class TFSamVisionLayer(tf.keras.layers.Layer):
def __init__(self, config, window_size, **kwargs):
super().__init__(**kwargs)
self.layer_norm1 = tf.keras.layers.LayerNormalization(epsilon=config.layer_norm_eps, name="layer_norm1")
self.attn = TFSamVisionAttention(config, window_size, name="attn")
self.layer_norm2 = tf.keras.layers.LayerNormalization(epsilon=config.layer_norm_eps, name="layer_norm2")
self.mlp = TFSamMLPBlock(config, name="mlp")
self.window_size = window_size
def window_partition(self, hidden_states: tf.Tensor, window_size: int) -> Tuple[tf.Tensor, Tuple[int, int]]:
batch_size, height, width, channel = shape_list(hidden_states)
pad_h = (window_size - height % window_size) % window_size
pad_w = (window_size - width % window_size) % window_size
if pad_h > 0 or pad_w > 0:
hidden_states = tf.pad(hidden_states, [[0, 0], [0, pad_h], [0, pad_w], [0, 0]])
pad_height, pad_width = height + pad_h, width + pad_w
hidden_states = tf.reshape(
hidden_states,
[batch_size, pad_height // window_size, window_size, pad_width // window_size, window_size, channel],
)
windows = tf.reshape(
tf.transpose(hidden_states, perm=[0, 1, 3, 2, 4, 5]), [-1, window_size, window_size, channel]
)
return windows, (pad_height, pad_width)
def window_unpartition(
self, windows: tf.Tensor, window_size: int, padding_shape: Tuple[int, int], original_shape: Tuple[int, int]
) -> tf.Tensor:
pad_height, pad_width = padding_shape
height, width = original_shape
batch_size = shape_list(windows)[0] // (pad_height * pad_width // window_size // window_size)
hidden_states = tf.reshape(
windows, [batch_size, pad_height // window_size, pad_width // window_size, window_size, window_size, -1]
)
hidden_states = tf.reshape(
tf.transpose(hidden_states, perm=[0, 1, 3, 2, 4, 5]), [batch_size, pad_height, pad_width, -1]
)
if pad_height > height or pad_width > width:
hidden_states = hidden_states[:, :height, :width, :]
return hidden_states
def call(
self,
hidden_states: tf.Tensor,
output_attentions: Optional[bool] = False,
training: Optional[bool] = False,
) -> Tuple[tf.Tensor]:
residual = hidden_states
hidden_states = self.layer_norm1(hidden_states)
if self.window_size > 0:
height, width = hidden_states.shape[1], hidden_states.shape[2]
hidden_states, padding_shape = self.window_partition(hidden_states, self.window_size)
hidden_states, attn_weights = self.attn(
hidden_states=hidden_states,
output_attentions=output_attentions,
training=training,
)
if self.window_size > 0:
hidden_states = self.window_unpartition(hidden_states, self.window_size, padding_shape, (height, width))
hidden_states = residual + hidden_states
layernorm_output = self.layer_norm2(hidden_states)
hidden_states = hidden_states + self.mlp(layernorm_output)
outputs = (hidden_states,)
if output_attentions:
outputs += (attn_weights,)
return outputs
class TFSamVisionNeck(tf.keras.layers.Layer):
def __init__(self, config: SamVisionConfig, **kwargs):
super().__init__(**kwargs)
self.config = config
self.conv1 = tf.keras.layers.Conv2D(
config.output_channels,
kernel_size=1,
use_bias=False,
name="conv1",
)
self.layer_norm1 = TFSamLayerNorm(config.output_channels, name="layer_norm1")
self.conv2 = tf.keras.layers.Conv2D(
config.output_channels,
kernel_size=3,
padding="same",
use_bias=False,
name="conv2",
)
self.layer_norm2 = TFSamLayerNorm(config.output_channels, name="layer_norm2")
def call(self, hidden_states):
hidden_states = self.conv1(hidden_states)
hidden_states = self.layer_norm1(hidden_states)
hidden_states = self.conv2(hidden_states)
hidden_states = self.layer_norm2(hidden_states)
hidden_states = tf.transpose(hidden_states, perm=[0, 3, 1, 2])
return hidden_states
class TFSamVisionEncoder(tf.keras.layers.Layer):
def __init__(self, config: SamVisionConfig, **kwargs):
super().__init__(**kwargs)
self.config = config
self.image_size = config.image_size
self.patch_embed = TFSamPatchEmbeddings(config, name="patch_embed")
self.pos_embed = None
self.layers = []
for i in range(config.num_hidden_layers):
layer = TFSamVisionLayer(
config,
window_size=config.window_size if i not in config.global_attn_indexes else 0,
name=f"layers_._{i}",
)
self.layers.append(layer)
self.neck = TFSamVisionNeck(config, name="neck")
def build(self, input_shape):
if self.config.use_abs_pos:
# Initialize absolute positional embedding with pretrain image size.
self.pos_embed = self.add_weight(
shape=[
1,
self.config.image_size // self.config.patch_size,
self.config.image_size // self.config.patch_size,
self.config.hidden_size,
],
initializer="zeros",
trainable=True,
name="pos_embed",
)
super().build(input_shape)
def get_input_embeddings(self):
return self.patch_embed
def call(
self,
pixel_values: tf.Tensor | None = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
training: Optional[bool] = False,
) -> Union[Tuple, TFSamVisionEncoderOutput]:
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if pixel_values is None:
raise ValueError("You have to specify pixel_values")
hidden_states = self.patch_embed(pixel_values)
if self.pos_embed is not None:
hidden_states = hidden_states + self.pos_embed
all_hidden_states = () if output_hidden_states else None
all_self_attentions = () if output_attentions else None
for i, layer_module in enumerate(self.layers):
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
layer_outputs = layer_module(hidden_states, output_attentions=output_attentions, training=training)
hidden_states = layer_outputs[0]
if output_attentions:
all_self_attentions = all_self_attentions + (layer_outputs[1],)
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
hidden_states = self.neck(hidden_states)
if not return_dict:
outputs = (hidden_states,)
if output_hidden_states:
outputs = outputs + (all_hidden_states,)
if output_attentions:
outputs = outputs + (all_self_attentions,)
return outputs
return TFSamVisionEncoderOutput(
last_hidden_state=hidden_states,
hidden_states=all_hidden_states,
attentions=all_self_attentions,
)
class TFSamPreTrainedModel(TFPreTrainedModel):
config_class = SamConfig
base_model_prefix = "sam"
main_input_name = "pixel_values"
SAM_START_DOCSTRING = r"""
This model inherits from [`TFPreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a TensorFlow [tf.keras.Model](https://www.tensorflow.org/api_docs/python/tf/keras/Model)
subclass. Use it as a regular TensorFlow Model and refer to the TensorFlow documentation for all matter related to
general usage and behavior.
Parameters:
config ([`SamConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~TFPreTrainedModel.from_pretrained`] method to load the model weights.
"""
SAM_INPUTS_DOCSTRING = r"""
Args:
pixel_values (`tf.Tensor` of shape `(batch_size, num_channels, height, width)`):
Pixel values. Pixel values can be obtained using [`SamProcessor`]. See [`SamProcessor.__call__`] for
details.
input_points (`tf.Tensor` of shape `(batch_size, num_points, 2)`):
Input 2D spatial points, this is used by the prompt encoder to encode the prompt. Generally yields to much
better results. The points can be obtained by passing a list of list of list to the processor that will
create corresponding `tf` tensors of dimension 4. The first dimension is the image batch size, the second
dimension is the point batch size (i.e. how many segmentation masks do we want the model to predict per
input point), the third dimension is the number of points per segmentation mask (it is possible to pass
multiple points for a single mask), and the last dimension is the x (vertical) and y (horizontal)
coordinates of the point. If a different number of points is passed either for each image, or for each
mask, the processor will create "PAD" points that will correspond to the (0, 0) coordinate, and the
computation of the embedding will be skipped for these points using the labels.
input_labels (`tf.Tensor` of shape `(batch_size, point_batch_size, num_points)`):
Input labels for the points, this is used by the prompt encoder to encode the prompt. According to the
official implementation, there are 3 types of labels
- `1`: the point is a point that contains the object of interest
- `0`: the point is a point that does not contain the object of interest
- `-1`: the point corresponds to the background
We added the label:
- `-10`: the point is a padding point, thus should be ignored by the prompt encoder
The padding labels should be automatically done by the processor.
input_boxes (`tf.Tensor` of shape `(batch_size, num_boxes, 4)`):
Input boxes for the points, this is used by the prompt encoder to encode the prompt. Generally yields to
much better generated masks. The boxes can be obtained by passing a list of list of list to the processor,
that will generate a `tf` tensor, with each dimension corresponding respectively to the image batch size,
the number of boxes per image and the coordinates of the top left and botton right point of the box. In the
order (`x1`, `y1`, `x2`, `y2`):
- `x1`: the x coordinate of the top left point of the input box
- `y1`: the y coordinate of the top left point of the input box
- `x2`: the x coordinate of the bottom right point of the input box
- `y2`: the y coordinate of the bottom right point of the input box
input_masks (`tf.Tensor` of shape `(batch_size, image_size, image_size)`):
SAM model also accepts segmentation masks as input. The mask will be embedded by the prompt encoder to
generate a corresponding embedding, that will be fed later on to the mask decoder. These masks needs to be
manually fed by the user, and they need to be of shape (`batch_size`, `image_size`, `image_size`).
image_embeddings (`tf.Tensor` of shape `(batch_size, output_channels, window_size, window_size)`):
Image embeddings, this is used by the mask decder to generate masks and iou scores. For more memory
efficient computation, users can first retrieve the image embeddings using the `get_image_embeddings`
method, and then feed them to the `call` method instead of feeding the `pixel_values`.
multimask_output (`bool`, *optional*):
In the original implementation and paper, the model always outputs 3 masks per image (or per point / per
bounding box if relevant). However, it is possible to just output a single mask, that corresponds to the
"best" mask, by specifying `multimask_output=False`.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
@add_start_docstrings(
"Segment Anything Model (SAM) for generating segmentation masks, given an input image and ",
" optional 2D location and bounding boxes.",
SAM_START_DOCSTRING,
)
class TFSamModel(TFSamPreTrainedModel):
_keys_to_ignore_on_load_missing = [r"prompt_encoder.shared_embedding.positional_embedding"]
def __init__(self, config, **kwargs):
super().__init__(config, **kwargs)
self.shared_image_embedding = TFSamPositionalEmbedding(config.vision_config, name="shared_image_embedding")
self.vision_encoder = TFSamVisionEncoder(config.vision_config, name="vision_encoder")
self.prompt_encoder = TFSamPromptEncoder(
config.prompt_encoder_config, self.shared_image_embedding, name="prompt_encoder"
)
self.mask_decoder = TFSamMaskDecoder(config.mask_decoder_config, name="mask_decoder")
self.config = config
def get_input_embeddings(self):
return self.vision_encoder.get_input_embeddings()
def get_image_wide_positional_embeddings(self):
size = self.config.prompt_encoder_config.image_embedding_size
grid = tf.ones((size, size))
y_embed = tf.math.cumsum(grid, axis=0) - 0.5
x_embed = tf.math.cumsum(grid, axis=1) - 0.5
y_embed = y_embed / size
x_embed = x_embed / size
positional_embedding = self.shared_image_embedding(tf.stack([x_embed, y_embed], axis=-1))
return tf.expand_dims(tf.transpose(positional_embedding, perm=[2, 0, 1]), axis=0) # channel x height x width
def get_image_embeddings(
self,
pixel_values,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
):
r"""
Returns the image embeddings by passing the pixel values through the vision encoder.
Args:
pixel_values (`tf.Tensor` of shape `(batch_size, num_channels, height, width)`):
Input pixel values
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.TFModelOutput`] instead of a plain tuple.
"""
vision_output = self.vision_encoder(
pixel_values,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
image_embeddings = vision_output[0]
return image_embeddings
def get_prompt_embeddings(
self,
input_points: tf.Tensor | None = None,
input_labels: tf.Tensor | None = None,
input_boxes: tf.Tensor | None = None,
input_masks: tf.Tensor | None = None,
):
r"""
Returns the prompt embeddings by passing the input points, labels, boxes and masks through the prompt encoder.
Args:
input_points (`tf.Tensor` of shape `(batch_size, point_batch_size, num_points_per_image, 2)`):
Optional input points for the prompt encoder. The padding of the point is automatically done by the
processor. `point_batch_size` refers to the number of masks that we want the model to predict per
point. The model will output `point_batch_size` times 3 masks in total.
input_labels (`tf.Tensor` of shape `(batch_size, point_batch_size, num_points_per_image)`):
Optional input labels for the prompt encoder. The padding of the labels is automatically done by the
processor, or can be fed by the user.
input_boxes (`tf.Tensor` of shape `(batch_size, num_boxes_per_image, 4)`):
Optional input boxes for the prompt encoder. The padding of the boxes is automatically done by the
processor. users can also pass manually the input boxes.
input_masks (`tf.Tensor` of shape `(batch_size, image_size, image_size)`):
Optional input masks for the prompt encoder.
"""
prompt_output = self.prompt_encoder(
input_points=input_points,
input_labels=input_labels,
input_boxes=input_boxes,
input_masks=input_masks,
)
return prompt_output
@unpack_inputs
@add_start_docstrings_to_model_forward(SAM_INPUTS_DOCSTRING)
def call(
self,
pixel_values: TFModelInputType | None = None,
input_points: tf.Tensor | None = None,
input_labels: tf.Tensor | None = None,
input_boxes: tf.Tensor | None = None,
input_masks: tf.Tensor | None = None,
image_embeddings: tf.Tensor | None = None,
multimask_output: bool = True,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict=None,
training=False,
**kwargs,
) -> List[Dict[str, tf.Tensor]]:
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if pixel_values is None and image_embeddings is None:
raise ValueError("Either pixel_values or image_embeddings must be provided.")
if pixel_values is not None and image_embeddings is not None:
raise ValueError("Only one of pixel_values and image_embeddings can be provided.")
if input_points is not None and len(input_points.shape) != 4:
raise ValueError(
"The input_points must be a 4D tensor. Of shape `batch_size`, `point_batch_size`, `nb_points_per_image`, `2`.",
" got {}.".format(input_points.shape),
)
if input_boxes is not None and len(input_boxes.shape) != 3:
raise ValueError(
"The input_points must be a 3D tensor. Of shape `batch_size`, `nb_boxes`, `4`.",
" got {}.".format(input_boxes.shape),
)
if input_points is not None and input_boxes is not None:
point_batch_size = shape_list(input_points)[1]
box_batch_size = shape_list(input_boxes)[1]
if point_batch_size != box_batch_size:
raise ValueError(
"You should provide as many bounding boxes as input points per box. Got {} and {}.".format(
point_batch_size, box_batch_size
)
)
if pixel_values is not None:
# Ensures that later checks pass even with an all-None shape from the serving signature
pixel_values = tf.ensure_shape(
pixel_values,
[
None,
self.config.vision_config.num_channels,
self.config.vision_config.image_size,
self.config.vision_config.image_size,
],
)
image_positional_embeddings = self.get_image_wide_positional_embeddings()
# repeat with batch size
batch_size = shape_list(pixel_values)[0] if pixel_values is not None else shape_list(image_embeddings)[0]
image_positional_embeddings = tf.repeat(image_positional_embeddings, batch_size, axis=0)
vision_attentions = None
vision_hidden_states = None
if pixel_values is not None:
vision_outputs = self.vision_encoder(
pixel_values,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=True,
training=training,
)
image_embeddings = vision_outputs["last_hidden_state"]
if output_hidden_states:
vision_hidden_states = vision_outputs["hidden_states"]
if output_attentions:
vision_attentions = vision_outputs["attentions"]
if input_points is not None and input_labels is None:
input_labels = tf.ones_like(input_points[:, :, :, 0], dtype=tf.int32)
if input_points is not None and image_embeddings.shape[0] != input_points.shape[0]:
raise ValueError(
"The batch size of the image embeddings and the input points must be the same. ",
"Got {} and {} respectively.".format(image_embeddings.shape[0], input_points.shape[0]),
" if you want to pass multiple points for the same image, make sure that you passed ",
" input_points of shape (batch_size, point_batch_size, num_points_per_image, 3) and ",
" input_labels of shape (batch_size, point_batch_size, num_points_per_image)",
)
sparse_embeddings, dense_embeddings = self.prompt_encoder(
batch_size=shape_list(image_embeddings)[0],
input_points=input_points,
input_labels=input_labels,
input_boxes=input_boxes,
input_masks=input_masks,
)
low_res_masks, iou_predictions, mask_decoder_attentions = self.mask_decoder(
image_embeddings=image_embeddings,
image_positional_embeddings=image_positional_embeddings,
sparse_prompt_embeddings=sparse_embeddings,
dense_prompt_embeddings=dense_embeddings,
multimask_output=multimask_output,
output_attentions=output_attentions,
)
if not return_dict:
output = (iou_predictions, low_res_masks)
if output_hidden_states:
output = output + (vision_hidden_states,)
if output_attentions:
output = output + (vision_attentions, mask_decoder_attentions)
return output
return TFSamImageSegmentationOutput(
iou_scores=iou_predictions,
pred_masks=low_res_masks,
vision_hidden_states=vision_hidden_states,
vision_attentions=vision_attentions,
mask_decoder_attentions=mask_decoder_attentions,
)
def serving_output(self, output: TFSamImageSegmentationOutput) -> TFSamImageSegmentationOutput:
hs = tf.convert_to_tensor(output.vision_hidden_states) if self.config.output_hidden_states else None
attns = tf.convert_to_tensor(output.vision_attentions) if self.config.output_attentions else None
return TFSamImageSegmentationOutput(
iou_scores=output.iou_scores,
pred_masks=output.pred_masks,
vision_hidden_states=hs if self.config.output_hidden_states else None,
vision_attentions=attns if self.config.output_attentions else None,
mask_decoder_attentions=output.mask_decoder_attentions if self.config.output_attentions else None,
)
| transformers-main | src/transformers/models/sam/modeling_tf_sam.py |
# coding=utf-8
# Copyright 2023 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" SAM model configuration"""
from ...configuration_utils import PretrainedConfig
from ...utils import logging
logger = logging.get_logger(__name__)
SAM_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"facebook/sam-vit-huge": "https://huggingface.co/facebook/sam-vit-huge/resolve/main/config.json",
"facebook/sam-vit-large": "https://huggingface.co/facebook/sam-vit-large/resolve/main/config.json",
"facebook/sam-vit-base": "https://huggingface.co/facebook/sam-vit-base/resolve/main/config.json",
}
class SamPromptEncoderConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`SamPromptEncoder`]. The [`SamPromptEncoder`]
module is used to encode the input 2D points and bounding boxes. Instantiating a configuration defaults will yield
a similar configuration to that of the SAM-vit-h
[facebook/sam-vit-huge](https://huggingface.co/facebook/sam-vit-huge) architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
hidden_size (`int`, *optional*, defaults to 256):
Dimensionality of the hidden states.
image_size (`int`, *optional*, defaults to 1024):
The expected output resolution of the image.
patch_size (`int`, *optional*, defaults to 16):
The size (resolution) of each patch.
mask_input_channels (`int`, *optional*, defaults to 16):
The number of channels to be fed to the `MaskDecoder` module.
num_point_embeddings (`int`, *optional*, defaults to 4):
The number of point embeddings to be used.
hidden_act (`str`, *optional*, defaults to `"gelu"`):
The non-linear activation function in the encoder and pooler.
"""
def __init__(
self,
hidden_size=256,
image_size=1024,
patch_size=16,
mask_input_channels=16,
num_point_embeddings=4,
hidden_act="gelu",
layer_norm_eps=1e-6,
**kwargs,
):
super().__init__(**kwargs)
self.hidden_size = hidden_size
self.image_size = image_size
self.patch_size = patch_size
self.image_embedding_size = image_size // patch_size
self.mask_input_channels = mask_input_channels
self.num_point_embeddings = num_point_embeddings
self.hidden_act = hidden_act
self.layer_norm_eps = layer_norm_eps
class SamMaskDecoderConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`SamMaskDecoder`]. It is used to instantiate a SAM
mask decoder to the specified arguments, defining the model architecture. Instantiating a configuration defaults
will yield a similar configuration to that of the SAM-vit-h
[facebook/sam-vit-huge](https://huggingface.co/facebook/sam-vit-huge) architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
hidden_size (`int`, *optional*, defaults to 256):
Dimensionality of the hidden states.
hidden_act (`str`, *optional*, defaults to `"relu"`):
The non-linear activation function used inside the `SamMaskDecoder` module.
mlp_dim (`int`, *optional*, defaults to 2048):
Dimensionality of the "intermediate" (i.e., feed-forward) layer in the Transformer encoder.
num_hidden_layers (`int`, *optional*, defaults to 2):
Number of hidden layers in the Transformer encoder.
num_attention_heads (`int`, *optional*, defaults to 8):
Number of attention heads for each attention layer in the Transformer encoder.
attention_downsample_rate (`int`, *optional*, defaults to 2):
The downsampling rate of the attention layer.
num_multimask_outputs (`int`, *optional*, defaults to 3):
The number of outputs from the `SamMaskDecoder` module. In the Segment Anything paper, this is set to 3.
iou_head_depth (`int`, *optional*, defaults to 3):
The number of layers in the IoU head module.
iou_head_hidden_dim (`int`, *optional*, defaults to 256):
The dimensionality of the hidden states in the IoU head module.
layer_norm_eps (`float`, *optional*, defaults to 1e-6):
The epsilon used by the layer normalization layers.
"""
def __init__(
self,
hidden_size=256,
hidden_act="relu",
mlp_dim=2048,
num_hidden_layers=2,
num_attention_heads=8,
attention_downsample_rate=2,
num_multimask_outputs=3,
iou_head_depth=3,
iou_head_hidden_dim=256,
layer_norm_eps=1e-6,
**kwargs,
):
super().__init__(**kwargs)
self.hidden_size = hidden_size
self.hidden_act = hidden_act
self.mlp_dim = mlp_dim
self.num_hidden_layers = num_hidden_layers
self.num_attention_heads = num_attention_heads
self.attention_downsample_rate = attention_downsample_rate
self.num_multimask_outputs = num_multimask_outputs
self.iou_head_depth = iou_head_depth
self.iou_head_hidden_dim = iou_head_hidden_dim
self.layer_norm_eps = layer_norm_eps
class SamVisionConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`SamVisionModel`]. It is used to instantiate a SAM
vision encoder according to the specified arguments, defining the model architecture. Instantiating a configuration
defaults will yield a similar configuration to that of the SAM ViT-h
[facebook/sam-vit-huge](https://huggingface.co/facebook/sam-vit-huge) architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
hidden_size (`int`, *optional*, defaults to 768):
Dimensionality of the encoder layers and the pooler layer.
output_channels (`int`, *optional*, defaults to 256):
Dimensionality of the output channels in the Patch Encoder.
num_hidden_layers (`int`, *optional*, defaults to 12):
Number of hidden layers in the Transformer encoder.
num_attention_heads (`int`, *optional*, defaults to 12):
Number of attention heads for each attention layer in the Transformer encoder.
num_channels (`int`, *optional*, defaults to 3):
Number of channels in the input image.
image_size (`int`, *optional*, defaults to 1024):
Expected resolution. Target size of the resized input image.
patch_size (`int`, *optional*, defaults to 16):
Size of the patches to be extracted from the input image.
hidden_act (`str`, *optional*, defaults to `"gelu"`):
The non-linear activation function (function or string)
layer_norm_eps (`float`, *optional*, defaults to 1e-6):
The epsilon used by the layer normalization layers.
attention_dropout (`float`, *optional*, defaults to 0.0):
The dropout ratio for the attention probabilities.
initializer_range (`float`, *optional*, defaults to 1e-10):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
qkv_bias (`bool`, *optional*, defaults to `True`):
Whether to add a bias to query, key, value projections.
mlp_ratio (`float`, *optional*, defaults to 4.0):
Ratio of mlp hidden dim to embedding dim.
use_abs_pos (`bool`, *optional*, defaults to True):
Whether to use absolute position embedding.
use_rel_pos (`bool`, *optional*, defaults to True):
Whether to use relative position embedding.
window_size (`int`, *optional*, defaults to 14):
Window size for relative position.
global_attn_indexes (`List[int]`, *optional*, defaults to `[2, 5, 8, 11]`):
The indexes of the global attention layers.
num_pos_feats (`int`, *optional*, defaults to 128):
The dimensionality of the position embedding.
mlp_dim (`int`, *optional*, defaults to None):
The dimensionality of the MLP layer in the Transformer encoder. If `None`, defaults to `mlp_ratio *
hidden_size`.
"""
def __init__(
self,
hidden_size=768,
output_channels=256,
num_hidden_layers=12,
num_attention_heads=12,
num_channels=3,
image_size=1024,
patch_size=16,
hidden_act="gelu",
layer_norm_eps=1e-06,
attention_dropout=0.0,
initializer_range=1e-10,
qkv_bias=True,
mlp_ratio=4.0,
use_abs_pos=True,
use_rel_pos=True,
window_size=14,
global_attn_indexes=[2, 5, 8, 11],
num_pos_feats=128,
mlp_dim=None,
**kwargs,
):
super().__init__(**kwargs)
self.hidden_size = hidden_size
self.output_channels = output_channels
self.num_hidden_layers = num_hidden_layers
self.num_attention_heads = num_attention_heads
self.num_channels = num_channels
self.image_size = image_size
self.patch_size = patch_size
self.hidden_act = hidden_act
self.layer_norm_eps = layer_norm_eps
self.attention_dropout = attention_dropout
self.initializer_range = initializer_range
self.qkv_bias = qkv_bias
self.mlp_ratio = mlp_ratio
self.use_abs_pos = use_abs_pos
self.use_rel_pos = use_rel_pos
self.window_size = window_size
self.global_attn_indexes = global_attn_indexes
self.num_pos_feats = num_pos_feats
self.mlp_dim = int(hidden_size * mlp_ratio) if mlp_dim is None else mlp_dim
class SamConfig(PretrainedConfig):
r"""
[`SamConfig`] is the configuration class to store the configuration of a [`SamModel`]. It is used to instantiate a
SAM model according to the specified arguments, defining the vision model, prompt-encoder model and mask decoder
configs. Instantiating a configuration with the defaults will yield a similar configuration to that of the
SAM-ViT-H [facebook/sam-vit-huge](https://huggingface.co/facebook/sam-vit-huge) architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
vision_config (Union[`dict`, `SamVisionConfig`], *optional*):
Dictionary of configuration options used to initialize [`SamVisionConfig`].
prompt_encoder_config (Union[`dict`, `SamPromptEncoderConfig`], *optional*):
Dictionary of configuration options used to initialize [`SamPromptEncoderConfig`].
mask_decoder_config (Union[`dict`, `SamMaskDecoderConfig`], *optional*):
Dictionary of configuration options used to initialize [`SamMaskDecoderConfig`].
kwargs (*optional*):
Dictionary of keyword arguments.
Example:
```python
>>> from transformers import (
... SamVisionConfig,
... SamPromptEncoderConfig,
... SamMaskDecoderConfig,
... SamModel,
... )
>>> # Initializing a SamConfig with `"facebook/sam-vit-huge"` style configuration
>>> configuration = SamConfig()
>>> # Initializing a SamModel (with random weights) from the `"facebook/sam-vit-huge"` style configuration
>>> model = SamModel(configuration)
>>> # Accessing the model configuration
>>> configuration = model.config
>>> # We can also initialize a SamConfig from a SamVisionConfig, SamPromptEncoderConfig, and SamMaskDecoderConfig
>>> # Initializing SAM vision, SAM Q-Former and language model configurations
>>> vision_config = SamVisionConfig()
>>> prompt_encoder_config = SamPromptEncoderConfig()
>>> mask_decoder_config = SamMaskDecoderConfig()
>>> config = SamConfig(vision_config, prompt_encoder_config, mask_decoder_config)
```"""
model_type = "sam"
def __init__(
self,
vision_config=None,
prompt_encoder_config=None,
mask_decoder_config=None,
initializer_range=0.02,
**kwargs,
):
super().__init__(**kwargs)
vision_config = vision_config if vision_config is not None else {}
prompt_encoder_config = prompt_encoder_config if prompt_encoder_config is not None else {}
mask_decoder_config = mask_decoder_config if mask_decoder_config is not None else {}
if isinstance(vision_config, SamVisionConfig):
vision_config = vision_config.to_dict()
if isinstance(prompt_encoder_config, SamPromptEncoderConfig):
prompt_encoder_config = prompt_encoder_config.to_dict()
if isinstance(mask_decoder_config, SamMaskDecoderConfig):
mask_decoder_config = mask_decoder_config.to_dict()
self.vision_config = SamVisionConfig(**vision_config)
self.prompt_encoder_config = SamPromptEncoderConfig(**prompt_encoder_config)
self.mask_decoder_config = SamMaskDecoderConfig(**mask_decoder_config)
self.initializer_range = initializer_range
| transformers-main | src/transformers/models/sam/configuration_sam.py |
# Copyright 2023 HuggingFace Inc. team and MosaicML NLP team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import OptionalDependencyNotAvailable, _LazyModule, is_torch_available
_import_structure = {
"configuration_mpt": ["MPT_PRETRAINED_CONFIG_ARCHIVE_MAP", "MptConfig", "MptOnnxConfig"],
}
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_mpt"] = [
"MPT_PRETRAINED_MODEL_ARCHIVE_LIST",
"MptForCausalLM",
"MptModel",
"MptPreTrainedModel",
"MptForSequenceClassification",
"MptForTokenClassification",
"MptForQuestionAnswering",
]
if TYPE_CHECKING:
from .configuration_mpt import MPT_PRETRAINED_CONFIG_ARCHIVE_MAP, MptConfig, MptOnnxConfig
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_mpt import (
MPT_PRETRAINED_MODEL_ARCHIVE_LIST,
MptForCausalLM,
MptForQuestionAnswering,
MptForSequenceClassification,
MptForTokenClassification,
MptModel,
MptPreTrainedModel,
)
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/mpt/__init__.py |
# coding=utf-8
# Copyright 2023 HuggingFace Inc. team and MosaicML NLP team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""PyTorch MPT model."""
import math
from typing import Optional, Tuple, Union
import torch
import torch.utils.checkpoint
from torch import nn
from torch.nn import BCEWithLogitsLoss, CrossEntropyLoss, LayerNorm, MSELoss
from torch.nn import functional as F
from ...file_utils import add_code_sample_docstrings, add_start_docstrings, add_start_docstrings_to_model_forward
from ...modeling_outputs import (
BaseModelOutputWithPastAndCrossAttentions,
CausalLMOutputWithCrossAttentions,
QuestionAnsweringModelOutput,
SequenceClassifierOutputWithPast,
TokenClassifierOutput,
)
from ...modeling_utils import PreTrainedModel
from ...utils import logging
from .configuration_mpt import MptConfig
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "mosaicml/mpt-7b"
_CONFIG_FOR_DOC = "MptConfig"
MPT_PRETRAINED_MODEL_ARCHIVE_LIST = [
"mosaicml/mpt-7b",
"mosaicml/mpt-7b-storywriter",
"mosaicml/mpt-7b-instruct",
"mosaicml/mpt-7b-8k",
"mosaicml/mpt-7b-8k-instruct",
"mosaicml/mpt-7b-8k-chat",
"mosaicml/mpt-30b",
"mosaicml/mpt-30b-instruct",
"mosaicml/mpt-30b-chat"
# See all MPT models at https://huggingface.co/models?filter=mpt
]
# Copied from transformers.models.bloom.modeling_bloom._make_causal_mask
def _make_causal_mask(
input_ids_shape: torch.Size, device: torch.device, past_key_values_length: int
) -> torch.BoolTensor:
"""
Make causal mask used for self-attention.
"""
batch_size, target_length = input_ids_shape
mask = torch.empty((target_length, target_length + past_key_values_length), dtype=torch.bool, device=device)
# ONNX doesn't support `torch.Tensor.triu` properly, thus we use this workaround
seq_ids = torch.arange(target_length, device=device)
mask[:, past_key_values_length:] = seq_ids[:, None] < seq_ids[None, :]
if past_key_values_length > 0:
mask[:, :past_key_values_length] = False
expanded_mask = mask[None, None, :, :].expand(batch_size, 1, target_length, target_length + past_key_values_length)
return expanded_mask
# Copied from transformers.models.bloom.modeling_bloom._expand_mask
def _expand_mask(mask: torch.Tensor, tgt_length: int) -> torch.BoolTensor:
"""
Expands attention_mask from `[batch_size, src_length]` to `[batch_size, 1, tgt_length, src_length]`.
"""
batch_size, src_length = mask.shape
tgt_length = tgt_length if tgt_length is not None else src_length
expanded_mask = ~(mask[:, None, None, :].to(torch.bool))
return expanded_mask.expand(batch_size, 1, tgt_length, src_length)
def build_mpt_alibi_tensor(num_heads, sequence_length, alibi_bias_max=8, device=None):
r"""
Link to paper: https://arxiv.org/abs/2108.12409 - Alibi tensor is not causal as the original paper mentions, it
relies on a translation invariance of softmax for quick implementation. This implementation has been copied from
the alibi implementation of MPT source code that led to slightly different results than the Bloom alibi:
https://huggingface.co/mosaicml/mpt-7b/blob/main/attention.py#L292
"""
alibi = torch.arange(1 - sequence_length, 1, dtype=torch.int32, device=device).view(1, 1, 1, sequence_length)
num_heads_power_of_2 = 2 ** math.ceil(math.log2(num_heads))
base = torch.arange(1, num_heads_power_of_2 + 1, dtype=torch.float32, device=device)
base = base * (alibi_bias_max / num_heads_power_of_2)
slopes = 1.0 / torch.pow(2, base)
slopes = slopes.view(1, num_heads, 1, 1)
if num_heads_power_of_2 != num_heads:
slopes = torch.concat([slopes[1::2], slopes[::2]])[:num_heads]
alibi = alibi * slopes
return alibi.squeeze(0)
class MptAttention(nn.Module):
"""Multi-head self attention.
Using torch or triton attention implemetation enables user to also use additive bias.
"""
def __init__(self, config: MptConfig):
super().__init__()
self.hidden_size = config.hidden_size
self.n_heads = config.n_heads
self.max_seq_length = config.max_seq_len
self.head_dim = self.hidden_size // self.n_heads
self.softmax_scale = config.attn_config.softmax_scale
if self.softmax_scale is None:
self.softmax_scale = 1 / math.sqrt(self.hidden_size / self.n_heads)
self.attn_dropout_p = config.attn_config.attn_pdrop
self.Wqkv = nn.Linear(self.hidden_size, 3 * self.hidden_size, bias=False)
self.out_proj = nn.Linear(self.hidden_size, self.hidden_size, bias=False)
def forward(
self,
hidden_states: torch.Tensor,
position_bias: torch.Tensor,
past_key_value: Optional[Tuple[torch.Tensor]] = None,
attention_mask: Optional[torch.Tensor] = None,
):
batch_size, seq_length = hidden_states.shape[:2]
mixed_qkv = self.Wqkv(hidden_states)
query_states, key_states, value_states = mixed_qkv.chunk(3, dim=2)
query_states = query_states.reshape(batch_size, seq_length, self.n_heads, self.head_dim).transpose(1, 2)
key_states = key_states.reshape(batch_size, seq_length, self.n_heads, self.head_dim).transpose(1, 2)
value_states = value_states.reshape(batch_size, seq_length, self.n_heads, self.head_dim).transpose(1, 2)
if past_key_value is not None:
if len(past_key_value) != 0:
key_states = torch.cat([past_key_value[0], key_states], dim=2)
value_states = torch.cat([past_key_value[1], value_states], dim=2)
past_key_value = (key_states, value_states)
else:
past_key_value = (key_states, value_states)
attention_scores = torch.matmul(query_states, key_states.transpose(-1, -2)) * self.softmax_scale
query_length = seq_length if past_key_value is None else seq_length + past_key_value[0].shape[2]
if position_bias is not None:
if len(position_bias.shape) != 3:
raise ValueError(f"Expecting position_bias shape to be 3 dimensions, got {len(position_bias.shape)}")
key_length = key_states.shape[-2]
position_bias_query_index = max(0, position_bias.size(1) - query_length)
position_bias_key_index = max(0, position_bias.size(2) - key_length)
position_bias = position_bias[:, position_bias_query_index:, position_bias_key_index:]
attention_scores = attention_scores + position_bias
if attention_mask is not None:
attention_scores = attention_scores.masked_fill(attention_mask, torch.finfo(query_states.dtype).min)
# (batch_size, n_heads, seq_length, key_length)
attn_weights = nn.functional.softmax(attention_scores.float(), dim=-1).to(value_states.dtype)
attn_weights = nn.functional.dropout(attn_weights, p=self.attn_dropout_p, training=self.training)
context_states = torch.matmul(attn_weights, value_states)
context_states = context_states.permute(0, 2, 1, 3).contiguous().view(batch_size, seq_length, -1)
attn_output = self.out_proj(context_states)
return attn_output, attn_weights, past_key_value
class MptMLP(nn.Module):
def __init__(self, config: MptConfig):
super().__init__()
hidden_size = config.hidden_size
self.up_proj = nn.Linear(hidden_size, 4 * hidden_size, bias=False)
self.act = nn.GELU(approximate="none")
self.down_proj = nn.Linear(4 * hidden_size, hidden_size, bias=False)
self.hidden_dropout = config.attn_config.attn_pdrop
def forward(self, hidden_states: torch.Tensor, residual: torch.Tensor) -> torch.Tensor:
hidden_states = self.act(self.up_proj(hidden_states))
intermediate_output = self.down_proj(hidden_states)
output = F.dropout(intermediate_output, p=self.hidden_dropout, training=self.training)
output = output + residual
return output
class MptBlock(nn.Module):
def __init__(self, config: MptConfig):
super().__init__()
hidden_size = config.hidden_size
self.norm_1 = LayerNorm(hidden_size, eps=config.layer_norm_epsilon)
# backward compatibility with weights on the Hub
self.norm_1.bias = None
self.num_heads = config.n_heads
self.attn = MptAttention(config)
self.norm_2 = LayerNorm(hidden_size, eps=config.layer_norm_epsilon)
# backward compatibility with weights on the Hub
self.norm_2.bias = None
self.ffn = MptMLP(config)
self.dropout_rate = config.attn_config.attn_pdrop
self.resid_attn_dropout = nn.Dropout(self.dropout_rate)
def forward(
self,
hidden_states: torch.Tensor,
position_bias: torch.Tensor,
attention_mask: torch.Tensor,
layer_past: Optional[Tuple[torch.Tensor, torch.Tensor]] = None,
use_cache: bool = False,
output_attentions: bool = False,
):
# hidden_states: [batch_size, seq_length, hidden_size]
# Layer norm at the beginning of the transformer layer.
layernorm_output = self.norm_1(hidden_states)
residual = hidden_states
# Self attention.
attn_outputs, attn_weights, past_key_value = self.attn(
layernorm_output,
position_bias=position_bias,
attention_mask=attention_mask,
past_key_value=layer_past,
)
hidden_states = self.resid_attn_dropout(attn_outputs) + residual
layernorm_output = self.norm_2(hidden_states)
# Get residual
residual = hidden_states
# MLP.
output = self.ffn(layernorm_output, residual)
outputs = (output,)
if use_cache:
outputs += (past_key_value,)
if output_attentions:
outputs += (attn_weights,)
return outputs # hidden_states, present, attentions
class MptPreTrainedModel(PreTrainedModel):
config_class = MptConfig
base_model_prefix = "transformer"
supports_gradient_checkpointing = True
_no_split_modules = ["MptBlock"]
_keys_to_ignore_on_load_missing = [r"lm_head.*."]
def __init__(self, *inputs, **kwargs):
super().__init__(*inputs, **kwargs)
def _init_weights(self, module: nn.Module):
"""Initialize the weights."""
if isinstance(module, nn.Linear):
# Slightly different from the TF version which uses truncated_normal for initialization
# cf https://github.com/pytorch/pytorch/pull/5617
module.weight.data.normal_(mean=0.0, std=self.config.initializer_range)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=self.config.initializer_range)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
elif isinstance(module, LayerNorm):
if module.bias is not None:
module.bias.data.zero_()
module.weight.data.fill_(1.0)
def _set_gradient_checkpointing(self, module: nn.Module, value: bool = False):
if isinstance(module, MptModel):
module.gradient_checkpointing = value
@staticmethod
def _convert_to_mpt_cache(
past_key_value: Tuple[Tuple[torch.Tensor, torch.Tensor]]
) -> Tuple[Tuple[torch.Tensor, torch.Tensor]]:
"""
Converts the cache to the format expected by Mpt, i.e. to tuple(tuple([batch_size * num_heads, ...]))
"""
batch_size, num_heads, head_dim, seq_length = past_key_value[0][0].shape
batch_size_times_num_heads = batch_size * num_heads
# key: [batch_size, num_heads, head_dim, seq_length] -> [batch_size * num_heads, head_dim, seq_length]
# value: [batch_size, num_heads, seq_length, head_dim] -> [batch_size * num_heads, seq_length, head_dim]
return tuple(
(
layer_past[0].reshape(batch_size_times_num_heads, head_dim, seq_length),
layer_past[1].reshape(batch_size_times_num_heads, seq_length, head_dim),
)
for layer_past in past_key_value
)
MPT_START_DOCSTRING = r"""
This model inherits from [`PreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings etc.)
This model is also a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) subclass.
Use it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage
and behavior.
Parameters:
config ([`MptConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
MPT_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, input_ids_length)`):
`input_ids_length` = `sequence_length` if `past_key_values` is `None` else `past_key_values[0][0].shape[2]`
(`sequence_length` of input past key value states). Indices of input sequence tokens in the vocabulary.
If `past_key_values` is used, only `input_ids` that do not have their past calculated should be passed as
`input_ids`.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
past_key_values (`Tuple[Tuple[torch.Tensor]]` of length `config.n_layers`):
Contains precomputed hidden-states (key and values in the attention blocks) as computed by the model (see
`past_key_values` output below). Can be used to speed up sequential decoding. The `input_ids` which have
their past given to this model should not be passed as `input_ids` as they have already been computed.
Each element of `past_key_values` is a tuple (past_key, past_value):
- past_key: [batch_size * num_heads, head_dim, kv_length]
- past_value: [batch_size * num_heads, kv_length, head_dim]
attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation. This
is useful if you want more control over how to convert `input_ids` indices into associated vectors than the
model's internal embedding lookup matrix.
If `past_key_values` is used, optionally only the last `inputs_embeds` have to be input (see
`past_key_values`).
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~file_utils.ModelOutput`] instead of a plain tuple.
"""
@add_start_docstrings(
"The bare Mpt Model transformer outputting raw hidden-states without any specific head on top.",
MPT_START_DOCSTRING,
)
class MptModel(MptPreTrainedModel):
def __init__(self, config: MptConfig):
super().__init__(config)
self.hidden_size = config.hidden_size
self.num_heads = config.n_heads
# Embedding + LN Embedding
self.wte = nn.Embedding(config.vocab_size, self.hidden_size)
# Transformer blocks
self.blocks = nn.ModuleList([MptBlock(config) for _ in range(config.n_layers)])
# Final Layer Norm
self.norm_f = LayerNorm(self.hidden_size, eps=config.layer_norm_epsilon)
# backward compatibility with weights on the Hub
self.norm_f.bias = None
self.gradient_checkpointing = False
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.wte
def build_mpt_alibi_tensor(self, num_heads, sequence_length, alibi_bias_max=8, device=None):
return build_mpt_alibi_tensor(num_heads, sequence_length, alibi_bias_max, device)
def _prepare_attn_mask(
self, attention_mask: torch.Tensor, input_shape: Tuple[int, int], past_key_values_length: int
) -> torch.BoolTensor:
# create causal mask
# [batch_size, seq_length] -> [batch_size, 1, tgt_length, src_length]
if input_shape[1] + past_key_values_length != attention_mask.shape[1]:
raise ValueError(
"Attention mask shape should be (batch_size, seq_length + past_key_values_length)"
f" but is {attention_mask.shape} with input_ids shape {input_shape} and past length"
f" {past_key_values_length}."
)
combined_attention_mask = None
device = attention_mask.device
_, src_length = input_shape
if src_length > 1:
combined_attention_mask = _make_causal_mask(
input_shape, device=device, past_key_values_length=past_key_values_length
)
# [batch_size, seq_length] -> [batch_size, 1, tgt_length, src_length]
expanded_attn_mask = _expand_mask(attention_mask, tgt_length=src_length)
combined_attention_mask = (
expanded_attn_mask if combined_attention_mask is None else expanded_attn_mask | combined_attention_mask
)
return combined_attention_mask
def set_input_embeddings(self, new_embeddings: torch.Tensor):
self.wte = new_embeddings
@add_start_docstrings_to_model_forward(MPT_INPUTS_DOCSTRING)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=BaseModelOutputWithPastAndCrossAttentions,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.Tensor, torch.Tensor], ...]] = None,
attention_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.LongTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor, ...], BaseModelOutputWithPastAndCrossAttentions]:
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
use_cache = use_cache if use_cache is not None else self.config.use_cache
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both input_ids and inputs_embeds at the same time")
elif input_ids is not None:
batch_size, seq_length = input_ids.shape
elif inputs_embeds is not None:
batch_size, seq_length, _ = inputs_embeds.shape
else:
raise ValueError("You have to specify either input_ids or inputs_embeds")
if past_key_values is None:
past_key_values = tuple([None] * len(self.blocks))
if inputs_embeds is None:
inputs_embeds = self.wte(input_ids)
hidden_states = inputs_embeds
presents = () if use_cache else None
all_self_attentions = () if output_attentions else None
all_hidden_states = () if output_hidden_states else None
if self.gradient_checkpointing and self.training:
if use_cache:
logger.warning_once(
"`use_cache=True` is incompatible with gradient checkpointing. Setting `use_cache=False`..."
)
use_cache = False
# Compute alibi tensor: check build_alibi_tensor documentation
seq_length_with_past = seq_length
past_key_values_length = 0
if past_key_values[0] is not None:
past_key_values_length = past_key_values[0][0].shape[2]
seq_length_with_past = seq_length_with_past + past_key_values_length
if attention_mask is None:
attention_mask = torch.ones((batch_size, seq_length_with_past), device=hidden_states.device)
else:
attention_mask = attention_mask.to(hidden_states.device)
alibi = self.build_mpt_alibi_tensor(self.num_heads, self.config.max_seq_len, device=hidden_states.device)
causal_mask = self._prepare_attn_mask(
attention_mask,
input_shape=(batch_size, seq_length),
past_key_values_length=past_key_values_length,
)
for i, (block, layer_past) in enumerate(zip(self.blocks, past_key_values)):
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
# None for past_key_value
return module(*inputs, use_cache=use_cache, output_attentions=output_attentions)
return custom_forward
outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(block),
hidden_states,
alibi,
causal_mask,
layer_past,
)
else:
outputs = block(
hidden_states,
layer_past=layer_past,
attention_mask=causal_mask,
use_cache=use_cache,
output_attentions=output_attentions,
position_bias=alibi,
)
hidden_states = outputs[0]
if use_cache is True:
presents = presents + (outputs[1],)
if output_attentions:
all_self_attentions = all_self_attentions + (outputs[2 if use_cache else 1],)
# Add last hidden state
hidden_states = self.norm_f(hidden_states)
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
if not return_dict:
return tuple(v for v in [hidden_states, presents, all_hidden_states, all_self_attentions] if v is not None)
return BaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
past_key_values=presents,
hidden_states=all_hidden_states,
attentions=all_self_attentions,
)
@add_start_docstrings(
"""
The MPT Model transformer with a language modeling head on top (linear layer with weights tied to the input
embeddings).
""",
MPT_START_DOCSTRING,
)
class MptForCausalLM(MptPreTrainedModel):
_tied_weights_keys = ["lm_head.weight"]
def __init__(self, config: MptConfig):
super().__init__(config)
self.transformer = MptModel(config)
self.lm_head = nn.Linear(config.hidden_size, config.vocab_size, bias=False)
# Initialize weights and apply final processing
self.post_init()
def get_output_embeddings(self):
return self.lm_head
def set_output_embeddings(self, new_embeddings: torch.Tensor):
self.lm_head = new_embeddings
def prepare_inputs_for_generation(
self,
input_ids: torch.LongTensor,
past_key_values: Optional[torch.Tensor] = None,
attention_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.Tensor] = None,
use_cache: Optional[bool] = None,
**kwargs,
) -> dict:
# only last token for input_ids if past is not None
if past_key_values:
input_ids = input_ids[:, -1].unsqueeze(-1)
# if `inputs_embeds` are passed, we only want to use them in the 1st generation step
if inputs_embeds is not None and past_key_values is None:
model_inputs = {"inputs_embeds": inputs_embeds}
else:
model_inputs = {"input_ids": input_ids}
model_inputs.update(
{
"past_key_values": past_key_values, # NITS should it be layer_past?
"use_cache": use_cache,
"attention_mask": attention_mask,
}
)
return model_inputs
@add_start_docstrings_to_model_forward(MPT_INPUTS_DOCSTRING)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=CausalLMOutputWithCrossAttentions,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.Tensor, torch.Tensor], ...]] = None,
attention_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.Tensor] = None,
labels: Optional[torch.Tensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor], CausalLMOutputWithCrossAttentions]:
r"""
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for language modeling. Note that the labels **are shifted** inside the model, i.e. you can set
`labels = input_ids` Indices are selected in `[-100, 0, ..., config.vocab_size]` All labels set to `-100`
are ignored (masked), the loss is only computed for labels in `[0, ..., config.vocab_size]`
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
transformer_outputs = self.transformer(
input_ids,
past_key_values=past_key_values,
attention_mask=attention_mask,
inputs_embeds=inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
hidden_states = transformer_outputs[0]
lm_logits = self.lm_head(hidden_states)
loss = None
if labels is not None:
# move labels to correct device to enable model parallelism
labels = labels.to(lm_logits.device)
# Shift so that tokens < n predict n
shift_logits = lm_logits[..., :-1, :].contiguous()
shift_labels = labels[..., 1:].contiguous()
batch_size, seq_length, vocab_size = shift_logits.shape
# Flatten the tokens
loss_fct = CrossEntropyLoss()
loss = loss_fct(
shift_logits.view(batch_size * seq_length, vocab_size), shift_labels.view(batch_size * seq_length)
)
if not return_dict:
output = (lm_logits,) + transformer_outputs[1:]
return ((loss,) + output) if loss is not None else output
return CausalLMOutputWithCrossAttentions(
loss=loss,
logits=lm_logits,
past_key_values=transformer_outputs.past_key_values,
hidden_states=transformer_outputs.hidden_states,
attentions=transformer_outputs.attentions,
)
def _reorder_cache(
self, past: Tuple[Tuple[torch.Tensor, torch.Tensor], ...], beam_idx: torch.LongTensor
) -> Tuple[Tuple[torch.Tensor, torch.Tensor], ...]:
"""
This function is used to re-order the `past_key_values` cache if [`~PreTrainedModel.beam_search`] or
[`~PreTrainedModel.beam_sample`] is called. This is required to match `past_key_values` with the correct
beam_idx at every generation step.
Output shares the same memory storage as `past`.
"""
# Get a copy of `beam_idx` on all the devices where we need those indices.
device_to_beam_idx = {
past_state.device: beam_idx.to(past_state.device) for layer_past in past for past_state in layer_past
}
reordered_past = tuple(
(
layer_past[0].index_select(0, device_to_beam_idx[layer_past[0].device]),
layer_past[1].index_select(0, device_to_beam_idx[layer_past[0].device]),
)
for layer_past in past
)
return reordered_past
@add_start_docstrings(
"""
The MPT Model transformer with a sequence classification head on top (linear layer).
[`MptForSequenceClassification`] uses the last token in order to do the classification, as other causal models
(e.g. GPT-1) do.
Since it does classification on the last token, it requires to know the position of the last token. If a
`pad_token_id` is defined in the configuration, it finds the last token that is not a padding token in each row. If
no `pad_token_id` is defined, it simply takes the last value in each row of the batch. Since it cannot guess the
padding tokens when `inputs_embeds` are passed instead of `input_ids`, it does the same (take the last value in
each row of the batch).
""",
MPT_START_DOCSTRING,
)
class MptForSequenceClassification(MptPreTrainedModel):
def __init__(self, config: MptConfig):
super().__init__(config)
self.num_labels = config.num_labels
self.transformer = MptModel(config)
self.score = nn.Linear(config.hidden_size, config.num_labels, bias=False)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(MPT_INPUTS_DOCSTRING)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=SequenceClassifierOutputWithPast,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.Tensor, torch.Tensor], ...]] = None,
attention_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.Tensor] = None,
labels: Optional[torch.Tensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor], SequenceClassifierOutputWithPast]:
r"""
labels (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for computing the sequence classification/regression loss. Indices should be in `[0, ...,
config.num_labels - 1]`. If `config.num_labels == 1` a regression loss is computed (Mean-Square loss), If
`config.num_labels > 1` a classification loss is computed (Cross-Entropy).
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
transformer_outputs = self.transformer(
input_ids,
past_key_values=past_key_values,
attention_mask=attention_mask,
inputs_embeds=inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
hidden_states = transformer_outputs[0]
logits = self.score(hidden_states)
if input_ids is not None:
batch_size = input_ids.shape[0]
else:
batch_size = inputs_embeds.shape[0]
if self.config.pad_token_id is None and batch_size != 1:
raise ValueError("Cannot handle batch sizes > 1 if no padding token is defined.")
if self.config.pad_token_id is None:
sequence_lengths = -1
else:
if input_ids is not None:
sequence_lengths = (torch.ne(input_ids, self.config.pad_token_id).sum(-1) - 1).to(logits.device)
else:
sequence_lengths = -1
logger.warning(
f"{self.__class__.__name__} will not detect padding tokens in `inputs_embeds`. Results may be "
"unexpected if using padding tokens in conjunction with `inputs_embeds.`"
)
pooled_logits = logits[torch.arange(batch_size, device=logits.device), sequence_lengths]
loss = None
if labels is not None:
if self.config.problem_type is None:
if self.num_labels == 1:
self.config.problem_type = "regression"
elif self.num_labels > 1 and (labels.dtype == torch.long or labels.dtype == torch.int):
self.config.problem_type = "single_label_classification"
else:
self.config.problem_type = "multi_label_classification"
if self.config.problem_type == "regression":
loss_fct = MSELoss()
if self.num_labels == 1:
loss = loss_fct(pooled_logits.squeeze(), labels.squeeze())
else:
loss = loss_fct(pooled_logits, labels)
elif self.config.problem_type == "single_label_classification":
loss_fct = CrossEntropyLoss()
loss = loss_fct(pooled_logits, labels)
elif self.config.problem_type == "multi_label_classification":
loss_fct = BCEWithLogitsLoss()
loss = loss_fct(pooled_logits, labels)
if not return_dict:
output = (pooled_logits,) + transformer_outputs[1:]
return ((loss,) + output) if loss is not None else output
return SequenceClassifierOutputWithPast(
loss=loss,
logits=pooled_logits,
past_key_values=transformer_outputs.past_key_values,
hidden_states=transformer_outputs.hidden_states,
attentions=transformer_outputs.attentions,
)
@add_start_docstrings(
"""
MPT Model with a token classification head on top (a linear layer on top of the hidden-states output) e.g. for
Named-Entity-Recognition (NER) tasks.
""",
MPT_START_DOCSTRING,
)
class MptForTokenClassification(MptPreTrainedModel):
def __init__(self, config: MptConfig):
super().__init__(config)
self.num_labels = config.num_labels
self.transformer = MptModel(config)
if hasattr(config, "classifier_dropout") and config.classifier_dropout is not None:
classifier_dropout = config.classifier_dropout
elif hasattr(config, "hidden_dropout") and config.hidden_dropout is not None:
classifier_dropout = config.hidden_dropout
else:
classifier_dropout = 0.1
self.dropout = nn.Dropout(classifier_dropout)
self.classifier = nn.Linear(config.hidden_size, config.num_labels)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(MPT_INPUTS_DOCSTRING)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=TokenClassifierOutput,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.Tensor, torch.Tensor], ...]] = None,
attention_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.Tensor] = None,
labels: Optional[torch.Tensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
**deprecated_arguments,
) -> Union[Tuple[torch.Tensor], TokenClassifierOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for computing the sequence classification/regression loss. Indices should be in `[0, ...,
config.num_labels - 1]`. If `config.num_labels == 1` a regression loss is computed (Mean-Square loss), If
`config.num_labels > 1` a classification loss is computed (Cross-Entropy).
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
transformer_outputs = self.transformer(
input_ids,
past_key_values=past_key_values,
attention_mask=attention_mask,
inputs_embeds=inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
hidden_states = transformer_outputs[0]
hidden_states = self.dropout(hidden_states)
logits = self.classifier(hidden_states)
loss = None
if labels is not None:
# move labels to correct device to enable model parallelism
labels = labels.to(logits.device)
batch_size, seq_length = labels.shape
loss_fct = CrossEntropyLoss()
loss = loss_fct(
logits.view(batch_size * seq_length, self.num_labels), labels.view(batch_size * seq_length)
)
if not return_dict:
output = (logits,) + transformer_outputs[2:]
return ((loss,) + output) if loss is not None else output
return TokenClassifierOutput(
loss=loss,
logits=logits,
hidden_states=transformer_outputs.hidden_states,
attentions=transformer_outputs.attentions,
)
@add_start_docstrings(
"""
The MPT Model transformer with a span classification head on top for extractive question-answering tasks like SQuAD
(a linear layers on top of the hidden-states output to compute `span start logits` and `span end logits`).
""",
MPT_START_DOCSTRING,
)
class MptForQuestionAnswering(MptPreTrainedModel):
def __init__(self, config):
super().__init__(config)
self.transformer = MptModel(config)
self.qa_outputs = nn.Linear(config.hidden_size, 2)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(MPT_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
start_positions: Optional[torch.LongTensor] = None,
end_positions: Optional[torch.LongTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, QuestionAnsweringModelOutput]:
r"""
start_positions (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for position (index) of the start of the labelled span for computing the token classification loss.
Positions are clamped to the length of the sequence (`sequence_length`). Position outside of the sequence
are not taken into account for computing the loss.
end_positions (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for position (index) of the end of the labelled span for computing the token classification loss.
Positions are clamped to the length of the sequence (`sequence_length`). Position outside of the sequence
are not taken into account for computing the loss.
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.transformer(
input_ids,
attention_mask=attention_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
logits = self.qa_outputs(sequence_output)
start_logits, end_logits = logits.split(1, dim=-1)
start_logits = start_logits.squeeze(-1).contiguous()
end_logits = end_logits.squeeze(-1).contiguous()
total_loss = None
if start_positions is not None and end_positions is not None:
# If we are on multi-GPU, split add a dimension
if len(start_positions.size()) > 1:
start_positions = start_positions.squeeze(-1)
if len(end_positions.size()) > 1:
end_positions = end_positions.squeeze(-1)
# sometimes the start/end positions are outside our model inputs, we ignore these terms
ignored_index = start_logits.size(1)
start_positions = start_positions.clamp(0, ignored_index)
end_positions = end_positions.clamp(0, ignored_index)
loss_fct = CrossEntropyLoss(ignore_index=ignored_index)
start_loss = loss_fct(start_logits, start_positions)
end_loss = loss_fct(end_logits, end_positions)
total_loss = (start_loss + end_loss) / 2
if not return_dict:
output = (start_logits, end_logits) + outputs[2:]
return ((total_loss,) + output) if total_loss is not None else output
return QuestionAnsweringModelOutput(
loss=total_loss,
start_logits=start_logits,
end_logits=end_logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
| transformers-main | src/transformers/models/mpt/modeling_mpt.py |
# coding=utf-8
# Copyright 2023 HuggingFace Inc. team and MosaicML NLP team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" Mpt configuration"""
from typing import TYPE_CHECKING, Optional, Union
if TYPE_CHECKING:
pass
from ...configuration_utils import PretrainedConfig
from ...utils import logging
logger = logging.get_logger(__name__)
MPT_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"mosaicml/mpt-7b": "https://huggingface.co/mosaicml/mpt-7b/resolve/main/config.json",
}
class MptAttentionConfig(PretrainedConfig):
"""
This is the configuration class to store the configuration of a [`MptAttention`] class. It is used to instantiate
attention layers according to the specified arguments, defining the layers architecture. Instantiating a
configuration with the defaults will yield a similar configuration to that of the MPT
[mosaicml/mpt-7b](https://huggingface.co/mosaicml/mpt-7b) architecture. Most of the arguments are kept for backward
compatibility with previous MPT models that are hosted on the Hub (previously with `trust_remote_code=True`).
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
attn_type (`str`, *optional*, defaults to `"multihead_attention"`):
type of attention to use. Options: `"multihead_attention"`, `"multiquery_attention"`.
attn_pdrop (`float`, *optional*, defaults to 0.0):
The dropout probability for the attention layers.
attn_impl (`str`, *optional*, defaults to `"torch"`):
The attention implementation to use. One of `"torch"`, `"flash"`, or `"triton"`.
clip_qkv (`float`, *optional*):
If not `None`, clip the queries, keys, and values in the attention layer to this value.
softmax_scale (`float`, *optional*, defaults to `None`):
If not `None`, scale the softmax in the attention layer by this value. If `None`, will default to
`1/sqrt(hidden_size)`.
prefix_lm (`bool`, *optional*, defaults to `False`)):
Whether the model should operate as a Prefix LM. This requires passing an extra `prefix_mask` argument
which indicates which tokens belong to the prefix. Tokens in the prefix can attend to one another
bi-directionally. Tokens outside the prefix use causal attention.
qk_ln (`bool`, *optional*, defaults to `False`):
Whether to apply layer normalization to the queries and keys in the attention layer.
attn_uses_sequence_id (`bool`, *optional*, defaults to `False`)):
Whether to restrict attention to tokens that have the same token_type_ids. When the model is in `train`
mode, this requires passing an extra *token_type_ids* argument which indicates which sub-sequence each
token belongs to. Defaults to `False` meaning any provided *token_type_ids* will be ignored.
alibi (`bool`, *optional*, defaults to `True`):
Whether or not to use the alibi bias instead of positional embedding.
alibi_bias_max (`int`, *optional*, defaults to 8):
The maximum value of the alibi bias.
"""
def __init__(
self,
attn_type="multihead_attention",
attn_pdrop=0,
attn_impl="torch",
clip_qkv=None,
softmax_scale=None,
prefix_lm=False,
qk_ln=False,
attn_uses_sequence_id=False,
alibi=True,
alibi_bias_max=8,
**kwargs,
):
super().__init__()
self.attn_type = attn_type
self.attn_pdrop = attn_pdrop
self.attn_impl = attn_impl
self.clip_qkv = clip_qkv
self.softmax_scale = softmax_scale
self.prefix_lm = prefix_lm
self.attn_uses_sequence_id = attn_uses_sequence_id
self.alibi = alibi
self.qk_ln = qk_ln
self.alibi_bias_max = alibi_bias_max
if attn_type not in ["multihead_attention", "multiquery_attention"]:
raise ValueError(
f"`attn_type` has to be either `multihead_attention` or `multiquery_attention`. Received: {attn_type}"
)
@classmethod
def from_pretrained(cls, pretrained_model_name_or_path, **kwargs) -> "PretrainedConfig":
cls._set_token_in_kwargs(kwargs)
config_dict, kwargs = cls.get_config_dict(pretrained_model_name_or_path, **kwargs)
if config_dict.get("model_type") == "mpt":
config_dict = config_dict["attn_config"]
if "model_type" in config_dict and hasattr(cls, "model_type") and config_dict["model_type"] != cls.model_type:
logger.warning(
f"You are using a model of type {config_dict['model_type']} to instantiate a model of type "
f"{cls.model_type}. This is not supported for all configurations of models and can yield errors."
)
return cls.from_dict(config_dict, **kwargs)
class MptConfig(PretrainedConfig):
"""
This is the configuration class to store the configuration of a [`MptModel`]. It is used to instantiate a Mpt model
according to the specified arguments, defining the model architecture. Instantiating a configuration with the
defaults will yield a similar configuration to the Mpt-7b architecture
[mosaicml/mpt-7b](https://huggingface.co/mosaicml/mpt-7b).
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
d_model (`int`, *optional*, defaults to 2048):
Dimensionality of the embeddings and hidden states.
n_heads (`int`, *optional*, defaults to 16):
Number of attention heads for each attention layer in the Transformer encoder.
n_layers (`int`, *optional*, defaults to 24):
Number of hidden layers in the Transformer encoder.
expansion_ratio (`int`, *optional*, defaults to 4):
The ratio of the up/down scale in the MLP.
max_seq_len (`int`, *optional*, defaults to 2048):
The maximum sequence length of the model.
vocab_size (`int`, *optional*, defaults to 50368):
Vocabulary size of the Mpt model. Defines the maximum number of different tokens that can be represented by
the `inputs_ids` passed when calling [`MptModel`]. Check [this
discussion](https://huggingface.co/bigscience/mpt/discussions/120#633d28389addb8530b406c2a) on how the
`vocab_size` has been defined.
resid_pdrop (`float`, *optional*, defaults to 0.1):
The dropout probability applied to the attention output before combining with residual.
layer_norm_epsilon (`float`, *optional*, defaults to 1e-5):
The epsilon to use in the layer normalization layers.
emb_pdrop (`float`, *optional*, defaults to 0.1):
The dropout probability for the embedding layer.
learned_pos_emb (`bool`, *optional*, defaults to `False`):
Whether to use learned positional embeddings.
attn_config (`dict`, *optional*):
A dictionary used to configure the model's attention module.
init_device (`str`, *optional*):
The device to use for parameter initialization. Defined for backward compatibility
logit_scale (`float`, *optional*):
If not None, scale the logits by this value.
no_bias (`bool`, *optional*, defaults to `True`):
Whether to use bias in all linear layers.
verbose (`int`, *optional*, defaults to 0):
The verbosity level to use for logging. Used in the previous versions of MPT models for logging. This
argument is deprecated.
embedding_fraction (`float`, *optional*, defaults to 1.0):
The fraction to scale the gradients of the embedding layer by.
norm_type (`str`, *optional*, defaults to `"low_precision_layernorm"`):
Type of layer norm to use. All MPT models uses the same layer norm implementation. Defined for backward
compatibility.
use_cache (`bool`, *optional*, defaults to `True`):
Whether or not the model should return the last key/values attentions (not used by all models).
initializer_range (`float`, *optional*, defaults to 0.02):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
Example:
```python
>>> from transformers import MptConfig, MptModel
>>> # Initializing a Mpt configuration
>>> configuration = MptConfig()
>>> # Initializing a model (with random weights) from the configuration
>>> model = MptModel(configuration)
>>> # Accessing the model configuration
>>> configuration = model.config
```
"""
model_type = "mpt"
attribute_map = {
"num_attention_heads": "n_heads",
"hidden_size": "d_model",
"num_hidden_layers": "n_layers",
}
def __init__(
self,
d_model: int = 2048,
n_heads: int = 16,
n_layers: int = 24,
expansion_ratio: int = 4,
max_seq_len: int = 2048,
vocab_size: int = 50368,
resid_pdrop: float = 0.0,
layer_norm_epsilon: float = 1e-5,
emb_pdrop: float = 0.0,
learned_pos_emb: bool = True,
attn_config: MptAttentionConfig = None,
init_device: str = "cpu",
logit_scale: Optional[Union[float, str]] = None,
no_bias: bool = True,
verbose: int = 0,
embedding_fraction: float = 1.0,
norm_type: str = "low_precision_layernorm",
use_cache: bool = False,
initializer_range=0.02,
**kwargs,
):
if attn_config is None:
self.attn_config = MptAttentionConfig()
elif isinstance(attn_config, dict):
self.attn_config = MptAttentionConfig(**attn_config)
else:
self.attn_config = attn_config
self.d_model = d_model
self.n_heads = n_heads
self.n_layers = n_layers
self.expansion_ratio = expansion_ratio
self.max_seq_len = max_seq_len
self.vocab_size = vocab_size
self.resid_pdrop = resid_pdrop
self.emb_pdrop = emb_pdrop
self.learned_pos_emb = learned_pos_emb
self.init_device = init_device
self.logit_scale = logit_scale
self.no_bias = no_bias
self.verbose = verbose
self.embedding_fraction = embedding_fraction
self.norm_type = norm_type
self.layer_norm_epsilon = layer_norm_epsilon
self.use_cache = use_cache
self.initializer_range = initializer_range
super().__init__(**kwargs)
| transformers-main | src/transformers/models/mpt/configuration_mpt.py |
# coding=utf-8
# Copyright 2021 The Facebook Inc. and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Tokenization class for Wav2Vec2Phoneme."""
import json
import os
import sys
from dataclasses import dataclass
from itertools import groupby
from typing import TYPE_CHECKING, Any, Dict, List, Optional, Tuple, Union
import numpy as np
from ...tokenization_utils import PreTrainedTokenizer, _insert_one_token_to_ordered_list
from ...tokenization_utils_base import AddedToken
from ...utils import (
ModelOutput,
is_flax_available,
is_tf_available,
is_torch_available,
logging,
requires_backends,
to_py_obj,
)
logger = logging.get_logger(__name__)
if TYPE_CHECKING:
if is_torch_available():
import torch
if is_tf_available():
import tensorflow as tf
if is_flax_available():
import jax.numpy as jnp # noqa: F401
VOCAB_FILES_NAMES = {
"vocab_file": "vocab.json",
"tokenizer_config_file": "tokenizer_config.json",
}
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"facebook/wav2vec2-lv-60-espeak-cv-ft": (
"https://huggingface.co/facebook/wav2vec2-lv-60-espeak-cv-ft/resolve/main/vocab.json"
),
},
"tokenizer_config_file": {
"facebook/wav2vec2-lv-60-espeak-cv-ft": (
"https://huggingface.co/facebook/wav2vec2-lv-60-espeak-cv-ft/resolve/main/tokenizer_config.json"
),
},
}
# Wav2Vec2Phoneme has no max input length
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {"facebook/wav2vec2-lv-60-espeak-cv-ft": sys.maxsize}
ListOfDict = List[Dict[str, Union[int, str]]]
@dataclass
class Wav2Vec2PhonemeCTCTokenizerOutput(ModelOutput):
"""
Output type of [` Wav2Vec2PhonemeCTCTokenizer`], with transcription.
Args:
text (list of `str` or `str`):
Decoded logits in text from. Usually the speech transcription.
char_offsets (list of `List[Dict[str, Union[int, str]]]` or `List[Dict[str, Union[int, str]]]`):
Offsets of the decoded characters. In combination with sampling rate and model downsampling rate char
offsets can be used to compute time stamps for each charater. Total logit score of the beam associated with
produced text.
"""
text: Union[List[str], str]
char_offsets: Union[List[ListOfDict], ListOfDict] = None
class Wav2Vec2PhonemeCTCTokenizer(PreTrainedTokenizer):
"""
Constructs a Wav2Vec2PhonemeCTC tokenizer.
This tokenizer inherits from [`PreTrainedTokenizer`] which contains some of the main methods. Users should refer to
the superclass for more information regarding such methods.
Args:
vocab_file (`str`):
File containing the vocabulary.
bos_token (`str`, *optional*, defaults to `"<s>"`):
The beginning of sentence token.
eos_token (`str`, *optional*, defaults to `"</s>"`):
The end of sentence token.
unk_token (`str`, *optional*, defaults to `"<unk>"`):
The unknown token. A token that is not in the vocabulary cannot be converted to an ID and is set to be this
token instead.
pad_token (`str`, *optional*, defaults to `"<pad>"`):
The token used for padding, for example when batching sequences of different lengths.
do_phonemize (`bool`, *optional*, defaults to `True`):
Whether the tokenizer should phonetize the input or not. Only if a sequence of phonemes is passed to the
tokenizer, `do_phonemize` should be set to `False`.
phonemizer_lang (`str`, *optional*, defaults to `"en-us"`):
The language of the phoneme set to which the tokenizer should phonetize the input text to.
phonemizer_backend (`str`, *optional*. defaults to `"espeak"`):
The backend phonetization library that shall be used by the phonemizer library. Defaults to `espeak-ng`.
See the [phonemizer package](https://github.com/bootphon/phonemizer#readme). for more information.
**kwargs
Additional keyword arguments passed along to [`PreTrainedTokenizer`]
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
model_input_names = ["input_ids", "attention_mask"]
def __init__(
self,
vocab_file,
bos_token="<s>",
eos_token="</s>",
unk_token="<unk>",
pad_token="<pad>",
phone_delimiter_token=" ",
word_delimiter_token=None,
do_phonemize=True,
phonemizer_lang="en-us",
phonemizer_backend="espeak",
**kwargs,
):
super().__init__(
unk_token=unk_token,
bos_token=bos_token,
eos_token=eos_token,
pad_token=pad_token,
word_delimiter_token=word_delimiter_token,
phone_delimiter_token=phone_delimiter_token,
do_phonemize=do_phonemize,
phonemizer_lang=phonemizer_lang,
phonemizer_backend=phonemizer_backend,
**kwargs,
)
self._word_delimiter_token = word_delimiter_token
self._phone_delimiter_token = phone_delimiter_token
self.do_phonemize = do_phonemize
self.phonemizer_lang = phonemizer_lang
self.phonemizer_backend = phonemizer_backend
if do_phonemize:
self.init_backend(self.phonemizer_lang)
with open(vocab_file, encoding="utf-8") as vocab_handle:
self.encoder = json.load(vocab_handle)
self.decoder = {v: k for k, v in self.encoder.items()}
@property
def vocab_size(self) -> int:
return len(self.decoder)
def get_vocab(self) -> Dict:
return dict(self.encoder, **self.added_tokens_encoder)
def init_backend(self, phonemizer_lang: str):
"""
Initializes the backend.
Args:
phonemizer_lang (`str`): The language to be used.
"""
requires_backends(self, "phonemizer")
from phonemizer.backend import BACKENDS
self.backend = BACKENDS[self.phonemizer_backend](phonemizer_lang, language_switch="remove-flags")
def prepare_for_tokenization(
self,
text: str,
is_split_into_words: bool = False,
phonemizer_lang: Optional[str] = None,
do_phonemize: Optional[bool] = None,
) -> Tuple[str, Dict[str, Any]]:
"""
Performs any necessary transformations before tokenization.
This method should pop the arguments from kwargs and return the remaining `kwargs` as well. We test the
`kwargs` at the end of the encoding process to be sure all the arguments have been used.
Args:
text (`str`):
The text to prepare.
is_split_into_words (`bool`, *optional*, defaults to `False`):
Whether or not the input is already pre-tokenized (e.g., split into words). If set to `True`, the
tokenizer assumes the input is already split into words (for instance, by splitting it on whitespace)
which it will tokenize. This is useful for NER or token classification.
phonemizer_lang (`str`, *optional*):
The language of the phoneme set to which the tokenizer should phonetize the input text to.
do_phonemize (`bool`, *optional*):
Whether the tokenizer should phonetize the input text or not. Only if a sequence of phonemes is passed
to the tokenizer, `do_phonemize` should be set to `False`.
Returns:
`Tuple[str, Dict[str, Any]]`: The prepared text and the unused kwargs.
"""
if is_split_into_words:
text = " " + text
# set whether tokenizer should phonemize or not
if do_phonemize is not None:
self.do_phonemize = do_phonemize
# set the correct phonemizer language
if phonemizer_lang is not None:
self.phonemizer_lang = phonemizer_lang
self.init_backend(phonemizer_lang)
return (text, {})
def _tokenize(self, text, **kwargs):
"""
Converts a string in a sequence of tokens (string), using the tokenizer.
"""
# make sure whitespace is stripped to prevent <unk>
text = text.strip()
# phonemize
if self.do_phonemize:
text = text.lower()
# create list of phonemes
text = self.phonemize(text, self.phonemizer_lang)
# make sure ' ' is between phonemes
tokens = text.split(" ")
tokens = list(filter(lambda p: p.strip() != "", tokens))
return tokens
def phonemize(self, text: str, phonemizer_lang: Optional[str] = None) -> str:
from phonemizer.separator import Separator
word_delimiter = self.word_delimiter_token + " " if self.word_delimiter_token is not None else ""
if phonemizer_lang is not None and phonemizer_lang != self.phonemizer_lang:
self.init_backend(phonemizer_lang)
else:
phonemizer_lang = self.phonemizer_lang
separator = Separator(phone=self.phone_delimiter_token, word=word_delimiter, syllable="")
phonemes = self.backend.phonemize(
[text],
separator=separator,
)
phonemes = phonemes[0].strip()
return phonemes
@property
def word_delimiter_token(self) -> str:
"""
`str`: Word delimiter token. Log an error if used while not having been set.
"""
if self._word_delimiter_token is None and self.verbose:
return None
return str(self._word_delimiter_token)
@property
def word_delimiter_token_id(self) -> Optional[int]:
"""
`Optional[int]`: Id of the word_delimiter_token in the vocabulary. Returns `None` if the token has not been
set.
"""
if self._word_delimiter_token is None:
return None
return self.convert_tokens_to_ids(self.word_delimiter_token)
@word_delimiter_token.setter
def word_delimiter_token(self, value):
self._word_delimiter_token = value
@word_delimiter_token_id.setter
def word_delimiter_token_id(self, value):
self._word_delimiter_token = self.convert_tokens_to_ids(value)
@property
def phone_delimiter_token(self) -> str:
"""
`str`: Word delimiter token. Log an error if used while not having been set.
"""
if self._phone_delimiter_token is None and self.verbose:
logger.error("Using phone_delimiter_token, but it is not set yet.")
return None
return str(self._phone_delimiter_token)
@property
def phone_delimiter_token_id(self) -> Optional[int]:
"""
`Optional[int]`: Id of the phone_delimiter_token in the vocabulary. Returns `None` if the token has not been
set.
"""
if self._phone_delimiter_token is None:
return None
return self.convert_tokens_to_ids(self.phone_delimiter_token)
@phone_delimiter_token.setter
def phone_delimiter_token(self, value):
self._phone_delimiter_token = value
@phone_delimiter_token_id.setter
def phone_delimiter_token_id(self, value):
self._phone_delimiter_token = self.convert_tokens_to_ids(value)
def _convert_token_to_id(self, token: str) -> int:
"""Converts a token (str) in an index (integer) using the vocab."""
return self.encoder.get(token, self.encoder.get(self.unk_token))
def _convert_id_to_token(self, index: int) -> str:
"""Converts an index (integer) in a token (str) using the vocab."""
result = self.decoder.get(index, self.unk_token)
return result
def convert_tokens_to_string(
self,
tokens: List[str],
group_tokens: bool = True,
spaces_between_special_tokens: bool = False,
filter_word_delimiter_token: bool = True,
output_char_offsets: bool = False,
) -> str:
"""
Converts a connectionist-temporal-classification (CTC) output tokens into a single string.
"""
# group same tokens into non-repeating tokens in CTC style decoding
if group_tokens:
chars, char_repetitions = zip(*((token, len(list(group_iter))) for token, group_iter in groupby(tokens)))
else:
chars = tokens
char_repetitions = len(tokens) * [1]
# filter self.pad_token which is used as CTC-blank token
processed_chars = list(filter(lambda char: char != self.pad_token, chars))
# also filter self.word_delimiter_token if not not
if filter_word_delimiter_token and self.word_delimiter_token is not None:
processed_chars = list(filter(lambda token: token != self.word_delimiter_token, processed_chars))
# retrieve offsets
char_offsets = None
if output_char_offsets:
word_delimiter_token_for_offsets = (
self.word_delimiter_token if filter_word_delimiter_token is True else None
)
char_offsets = self._compute_offsets(
char_repetitions, chars, self.pad_token, word_delimiter_token=word_delimiter_token_for_offsets
)
if len(char_offsets) != len(processed_chars):
raise ValueError(
f"`char_offsets`: {char_offsets} and `processed_tokens`: {processed_chars}"
" have to be of the same length, but are: `len(offsets)`: "
f"{len(char_offsets)} and `len(processed_tokens)`: {len(processed_chars)}"
)
# set tokens to correct processed token
for i, char in enumerate(processed_chars):
char_offsets[i]["char"] = char
string = " ".join(processed_chars).strip()
return {"text": string, "char_offsets": char_offsets}
@staticmethod
def _compute_offsets(
char_repetitions: List[int], chars: List[str], ctc_token: int, word_delimiter_token: Optional[int] = None
) -> List[Dict[str, Union[str, int]]]:
end_indices = np.asarray(char_repetitions).cumsum()
start_indices = np.concatenate(([0], end_indices[:-1]))
offsets = [
{"char": t, "start_offset": s, "end_offset": e} for t, s, e in zip(chars, start_indices, end_indices)
]
# filter out CTC token
offsets = list(filter(lambda offsets: offsets["char"] != ctc_token, offsets))
# filter out word delimiter token if necessary
if word_delimiter_token is not None:
offsets = list(filter(lambda offsets: offsets["char"] != word_delimiter_token, offsets))
return offsets
def _decode(
self,
token_ids: List[int],
skip_special_tokens: bool = False,
clean_up_tokenization_spaces: bool = None,
group_tokens: bool = True,
filter_word_delimiter_token: bool = True,
spaces_between_special_tokens: bool = False,
output_char_offsets: bool = False,
) -> str:
"""
special _decode function is needed for Wav2Vec2PhonemeTokenizer because added tokens should be treated exactly
the same as tokens of the base vocabulary and therefore the function `convert_tokens_to_string` has to be
called on the whole token list and not individually on added tokens
"""
filtered_tokens = self.convert_ids_to_tokens(token_ids, skip_special_tokens=skip_special_tokens)
result = []
for token in filtered_tokens:
if skip_special_tokens and token in self.all_special_ids:
continue
result.append(token)
string_output = self.convert_tokens_to_string(
result,
group_tokens=group_tokens,
spaces_between_special_tokens=spaces_between_special_tokens,
filter_word_delimiter_token=filter_word_delimiter_token,
output_char_offsets=output_char_offsets,
)
text = string_output["text"]
clean_up_tokenization_spaces = (
clean_up_tokenization_spaces
if clean_up_tokenization_spaces is not None
else self.clean_up_tokenization_spaces
)
if clean_up_tokenization_spaces:
text = self.clean_up_tokenization(text)
if output_char_offsets:
return Wav2Vec2PhonemeCTCTokenizerOutput(text=text, char_offsets=string_output["char_offsets"])
else:
return text
# overwritten from `tokenization_utils_base.py` because we need docs for `output_char_offsets` here
def decode(
self,
token_ids: Union[int, List[int], "np.ndarray", "torch.Tensor", "tf.Tensor"],
skip_special_tokens: bool = False,
clean_up_tokenization_spaces: bool = None,
output_char_offsets: bool = False,
**kwargs,
) -> str:
"""
Converts a sequence of ids in a string, using the tokenizer and vocabulary with options to remove special
tokens and clean up tokenization spaces.
Similar to doing `self.convert_tokens_to_string(self.convert_ids_to_tokens(token_ids))`.
Args:
token_ids (`Union[int, List[int], np.ndarray, torch.Tensor, tf.Tensor]`):
List of tokenized input ids. Can be obtained using the `__call__` method.
skip_special_tokens (`bool`, *optional*, defaults to `False`):
Whether or not to remove special tokens in the decoding.
clean_up_tokenization_spaces (`bool`, *optional*):
Whether or not to clean up the tokenization spaces.
output_char_offsets (`bool`, *optional*, defaults to `False`):
Whether or not to output character offsets. Character offsets can be used in combination with the
sampling rate and model downsampling rate to compute the time-stamps of transcribed characters.
<Tip>
Please take a look at the Example of [`~models.wav2vec2.tokenization_wav2vec2.decode`] to better
understand how to make use of `output_word_offsets`.
[`~model.wav2vec2_phoneme.tokenization_wav2vec2_phoneme.batch_decode`] works the same way with
phonemes.
</Tip>
kwargs (additional keyword arguments, *optional*):
Will be passed to the underlying model specific decode method.
Returns:
`str` or [`~models.wav2vec2.tokenization_wav2vec2_phoneme.Wav2Vec2PhonemeCTCTokenizerOutput`]: The decoded
sentence. Will be a [`~models.wav2vec2.tokenization_wav2vec2_phoneme.Wav2Vec2PhonemeCTCTokenizerOutput`]
when `output_char_offsets == True`.
"""
# Convert inputs to python lists
token_ids = to_py_obj(token_ids)
return self._decode(
token_ids=token_ids,
skip_special_tokens=skip_special_tokens,
clean_up_tokenization_spaces=clean_up_tokenization_spaces,
output_char_offsets=output_char_offsets,
**kwargs,
)
# overwritten from `tokenization_utils_base.py` because tokenizer can output
# `ModelOutput` which should not be a list for batched output and because
# we need docs for `output_char_offsets` here
def batch_decode(
self,
sequences: Union[List[int], List[List[int]], "np.ndarray", "torch.Tensor", "tf.Tensor"],
skip_special_tokens: bool = False,
clean_up_tokenization_spaces: bool = None,
output_char_offsets: bool = False,
**kwargs,
) -> List[str]:
"""
Convert a list of lists of token ids into a list of strings by calling decode.
Args:
sequences (`Union[List[int], List[List[int]], np.ndarray, torch.Tensor, tf.Tensor]`):
List of tokenized input ids. Can be obtained using the `__call__` method.
skip_special_tokens (`bool`, *optional*, defaults to `False`):
Whether or not to remove special tokens in the decoding.
clean_up_tokenization_spaces (`bool`, *optional*):
Whether or not to clean up the tokenization spaces.
output_char_offsets (`bool`, *optional*, defaults to `False`):
Whether or not to output character offsets. Character offsets can be used in combination with the
sampling rate and model downsampling rate to compute the time-stamps of transcribed characters.
<Tip>
Please take a look at the Example of [`~models.wav2vec2.tokenization_wav2vec2.decode`] to better
understand how to make use of `output_word_offsets`.
[`~model.wav2vec2_phoneme.tokenization_wav2vec2_phoneme.batch_decode`] works analogous with phonemes
and batched output.
</Tip>
kwargs (additional keyword arguments, *optional*):
Will be passed to the underlying model specific decode method.
Returns:
`List[str]` or [`~models.wav2vec2.tokenization_wav2vec2_phoneme.Wav2Vec2PhonemeCTCTokenizerOutput`]: The
decoded sentence. Will be a
[`~models.wav2vec2.tokenization_wav2vec2_phoneme.Wav2Vec2PhonemeCTCTokenizerOutput`] when
`output_char_offsets == True`.
"""
batch_decoded = [
self.decode(
seq,
skip_special_tokens=skip_special_tokens,
clean_up_tokenization_spaces=clean_up_tokenization_spaces,
output_char_offsets=output_char_offsets,
**kwargs,
)
for seq in sequences
]
if output_char_offsets:
# transform list of dicts to dict of lists
return Wav2Vec2PhonemeCTCTokenizerOutput({k: [d[k] for d in batch_decoded] for k in batch_decoded[0]})
return batch_decoded
def save_vocabulary(self, save_directory: str, filename_prefix: Optional[str] = None) -> Tuple[str]:
if not os.path.isdir(save_directory):
logger.error(f"Vocabulary path ({save_directory}) should be a directory")
return
vocab_file = os.path.join(
save_directory, (filename_prefix + "-" if filename_prefix else "") + VOCAB_FILES_NAMES["vocab_file"]
)
with open(vocab_file, "w", encoding="utf-8") as f:
f.write(json.dumps(self.encoder, indent=2, sort_keys=True, ensure_ascii=False) + "\n")
return (vocab_file,)
def _add_tokens(self, new_tokens: Union[List[str], List[AddedToken]], special_tokens: bool = False) -> int:
"""
Add a list of new tokens to the tokenizer class. If the new tokens are not in the vocabulary, they are added to
it with indices starting from length of the current vocabulary.
Args:
new_tokens (`List[str]`or `List[tokenizers.AddedToken]`):
Token(s) to add in vocabulary. A token is only added if it's not already in the vocabulary (tested by
checking if the tokenizer assign the index of the `unk_token` to them).
special_tokens (`bool`, *optional*, defaults to `False`):
Whether or not the tokens should be added as special tokens.
Returns:
`int`: The number of tokens actually added to the vocabulary.
Examples:
```python
# Let's see how to increase the vocabulary of Bert model and tokenizer
tokenizer = Wav2Vec2PhonemeCTCTokenizer.from_pretrained("facebook/wav2vec2-lv-60-espeak-cv-ft")
model = Wav2Vec2PhonemeForCTC.from_pretrained("facebook/wav2vec2-lv-60-espeak-cv-ft")
num_added_toks = tokenizer.add_tokens(["new_tok1", "my_new-tok2"])
print("We have added", num_added_toks, "tokens")
# Note: resize_token_embeddings expects to receive the full size of the new vocabulary, i.e. the length of the tokenizer.
model.resize_token_embeddings(len(tokenizer))
```"""
new_tokens = [str(tok) for tok in new_tokens]
tokens_to_add = []
for token in new_tokens:
if not isinstance(token, str):
raise ValueError(f"Token {token} has to be of type string, but is of type {type(token)}.")
assert isinstance(token, str)
if (
token != self.unk_token
and self.convert_tokens_to_ids(token) == self.convert_tokens_to_ids(self.unk_token)
and token not in tokens_to_add
):
tokens_to_add.append(token)
if self.verbose:
logger.info(f"Adding {token} to the vocabulary")
added_tok_encoder = {tok: len(self) + i for i, tok in enumerate(tokens_to_add)}
added_tok_decoder = {v: k for k, v in added_tok_encoder.items()}
self.added_tokens_encoder.update(added_tok_encoder)
self.added_tokens_decoder.update(added_tok_decoder)
# Make sure we don't split on any special tokens (even they were already in the vocab before)
for token in tokens_to_add:
if len(token) > 1:
self._additional_special_tokens.append(AddedToken(token))
_insert_one_token_to_ordered_list(self.unique_no_split_tokens, token)
self._create_trie(self.unique_no_split_tokens)
return len(tokens_to_add)
| transformers-main | src/transformers/models/wav2vec2_phoneme/tokenization_wav2vec2_phoneme.py |
# Copyright 2021 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import _LazyModule
_import_structure = {"tokenization_wav2vec2_phoneme": ["Wav2Vec2PhonemeCTCTokenizer"]}
if TYPE_CHECKING:
from .tokenization_wav2vec2_phoneme import Wav2Vec2PhonemeCTCTokenizer
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/wav2vec2_phoneme/__init__.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Feature extractor class for MaskFormer."""
import warnings
from ...utils import logging
from .image_processing_maskformer import MaskFormerImageProcessor
logger = logging.get_logger(__name__)
class MaskFormerFeatureExtractor(MaskFormerImageProcessor):
def __init__(self, *args, **kwargs) -> None:
warnings.warn(
"The class MaskFormerFeatureExtractor is deprecated and will be removed in version 5 of Transformers."
" Please use MaskFormerImageProcessor instead.",
FutureWarning,
)
super().__init__(*args, **kwargs)
| transformers-main | src/transformers/models/maskformer/feature_extraction_maskformer.py |
# coding=utf-8
# Copyright 2022 Meta Platforms, Inc. and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""MaskFormer Swin Transformer. The reason Swin Transformer is implemented here is because MaskFormer uses the hidden
states before downsampling, which is different from the default Swin Transformer."""
import collections.abc
import math
from dataclasses import dataclass
from typing import Optional, Tuple
import torch
from torch import Tensor, nn
from ...activations import ACT2FN
from ...file_utils import ModelOutput
from ...modeling_outputs import BackboneOutput
from ...modeling_utils import PreTrainedModel
from ...pytorch_utils import find_pruneable_heads_and_indices, meshgrid, prune_linear_layer
from ...utils.backbone_utils import BackboneMixin
from .configuration_maskformer_swin import MaskFormerSwinConfig
@dataclass
class MaskFormerSwinModelOutputWithPooling(ModelOutput):
"""
Class for MaskFormerSwinModel's outputs that also contains the spatial dimensions of the hidden states.
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the model.
pooler_output (`torch.FloatTensor` of shape `(batch_size, hidden_size)`):
Last layer hidden-state after a mean pooling operation.
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs.
hidden_states_spatial_dimensions (`tuple(tuple(int, int))`, *optional*):
A tuple containing the spatial dimension of each `hidden_state` needed to reshape the `hidden_states` to
`batch, channels, height, width`. Due to padding, their spatial size cannot be inferred before the
`forward` method.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
"""
last_hidden_state: torch.FloatTensor = None
pooler_output: torch.FloatTensor = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
hidden_states_spatial_dimensions: Tuple[Tuple[int, int]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
class MaskFormerSwinBaseModelOutput(ModelOutput):
"""
Class for SwinEncoder's outputs.
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the model.
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs.
hidden_states_spatial_dimensions (`tuple(tuple(int, int))`, *optional*):
A tuple containing the spatial dimension of each `hidden_state` needed to reshape the `hidden_states` to
`batch, channels, height, width`. Due to padding, their spatial size cannot inferred before the `forward`
method.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
"""
last_hidden_state: torch.FloatTensor = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
hidden_states_spatial_dimensions: Tuple[Tuple[int, int]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
# Copied from transformers.models.swin.modeling_swin.window_partition
def window_partition(input_feature, window_size):
"""
Partitions the given input into windows.
"""
batch_size, height, width, num_channels = input_feature.shape
input_feature = input_feature.view(
batch_size, height // window_size, window_size, width // window_size, window_size, num_channels
)
windows = input_feature.permute(0, 1, 3, 2, 4, 5).contiguous().view(-1, window_size, window_size, num_channels)
return windows
# Copied from transformers.models.swin.modeling_swin.window_reverse
def window_reverse(windows, window_size, height, width):
"""
Merges windows to produce higher resolution features.
"""
num_channels = windows.shape[-1]
windows = windows.view(-1, height // window_size, width // window_size, window_size, window_size, num_channels)
windows = windows.permute(0, 1, 3, 2, 4, 5).contiguous().view(-1, height, width, num_channels)
return windows
# Copied from transformers.models.swin.modeling_swin.drop_path
def drop_path(input: torch.Tensor, drop_prob: float = 0.0, training: bool = False) -> torch.Tensor:
"""
Drop paths (Stochastic Depth) per sample (when applied in main path of residual blocks).
Comment by Ross Wightman: This is the same as the DropConnect impl I created for EfficientNet, etc networks,
however, the original name is misleading as 'Drop Connect' is a different form of dropout in a separate paper...
See discussion: https://github.com/tensorflow/tpu/issues/494#issuecomment-532968956 ... I've opted for changing the
layer and argument names to 'drop path' rather than mix DropConnect as a layer name and use 'survival rate' as the
argument.
"""
if drop_prob == 0.0 or not training:
return input
keep_prob = 1 - drop_prob
shape = (input.shape[0],) + (1,) * (input.ndim - 1) # work with diff dim tensors, not just 2D ConvNets
random_tensor = keep_prob + torch.rand(shape, dtype=input.dtype, device=input.device)
random_tensor.floor_() # binarize
output = input.div(keep_prob) * random_tensor
return output
class MaskFormerSwinEmbeddings(nn.Module):
"""
Construct the patch and position embeddings.
"""
def __init__(self, config):
super().__init__()
self.patch_embeddings = MaskFormerSwinPatchEmbeddings(config)
num_patches = self.patch_embeddings.num_patches
self.patch_grid = self.patch_embeddings.grid_size
if config.use_absolute_embeddings:
self.position_embeddings = nn.Parameter(torch.zeros(1, num_patches + 1, config.embed_dim))
else:
self.position_embeddings = None
self.norm = nn.LayerNorm(config.embed_dim)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
def forward(self, pixel_values):
embeddings, output_dimensions = self.patch_embeddings(pixel_values)
embeddings = self.norm(embeddings)
if self.position_embeddings is not None:
embeddings = embeddings + self.position_embeddings
embeddings = self.dropout(embeddings)
return embeddings, output_dimensions
# Copied from transformers.models.swin.modeling_swin.SwinPatchEmbeddings
class MaskFormerSwinPatchEmbeddings(nn.Module):
"""
This class turns `pixel_values` of shape `(batch_size, num_channels, height, width)` into the initial
`hidden_states` (patch embeddings) of shape `(batch_size, seq_length, hidden_size)` to be consumed by a
Transformer.
"""
def __init__(self, config):
super().__init__()
image_size, patch_size = config.image_size, config.patch_size
num_channels, hidden_size = config.num_channels, config.embed_dim
image_size = image_size if isinstance(image_size, collections.abc.Iterable) else (image_size, image_size)
patch_size = patch_size if isinstance(patch_size, collections.abc.Iterable) else (patch_size, patch_size)
num_patches = (image_size[1] // patch_size[1]) * (image_size[0] // patch_size[0])
self.image_size = image_size
self.patch_size = patch_size
self.num_channels = num_channels
self.num_patches = num_patches
self.grid_size = (image_size[0] // patch_size[0], image_size[1] // patch_size[1])
self.projection = nn.Conv2d(num_channels, hidden_size, kernel_size=patch_size, stride=patch_size)
def maybe_pad(self, pixel_values, height, width):
if width % self.patch_size[1] != 0:
pad_values = (0, self.patch_size[1] - width % self.patch_size[1])
pixel_values = nn.functional.pad(pixel_values, pad_values)
if height % self.patch_size[0] != 0:
pad_values = (0, 0, 0, self.patch_size[0] - height % self.patch_size[0])
pixel_values = nn.functional.pad(pixel_values, pad_values)
return pixel_values
def forward(self, pixel_values: Optional[torch.FloatTensor]) -> Tuple[torch.Tensor, Tuple[int]]:
_, num_channels, height, width = pixel_values.shape
if num_channels != self.num_channels:
raise ValueError(
"Make sure that the channel dimension of the pixel values match with the one set in the configuration."
)
# pad the input to be divisible by self.patch_size, if needed
pixel_values = self.maybe_pad(pixel_values, height, width)
embeddings = self.projection(pixel_values)
_, _, height, width = embeddings.shape
output_dimensions = (height, width)
embeddings = embeddings.flatten(2).transpose(1, 2)
return embeddings, output_dimensions
# Copied from transformers.models.swin.modeling_swin.SwinPatchMerging
class MaskFormerSwinPatchMerging(nn.Module):
"""
Patch Merging Layer.
Args:
input_resolution (`Tuple[int]`):
Resolution of input feature.
dim (`int`):
Number of input channels.
norm_layer (`nn.Module`, *optional*, defaults to `nn.LayerNorm`):
Normalization layer class.
"""
def __init__(self, input_resolution: Tuple[int], dim: int, norm_layer: nn.Module = nn.LayerNorm) -> None:
super().__init__()
self.input_resolution = input_resolution
self.dim = dim
self.reduction = nn.Linear(4 * dim, 2 * dim, bias=False)
self.norm = norm_layer(4 * dim)
def maybe_pad(self, input_feature, height, width):
should_pad = (height % 2 == 1) or (width % 2 == 1)
if should_pad:
pad_values = (0, 0, 0, width % 2, 0, height % 2)
input_feature = nn.functional.pad(input_feature, pad_values)
return input_feature
def forward(self, input_feature: torch.Tensor, input_dimensions: Tuple[int, int]) -> torch.Tensor:
height, width = input_dimensions
# `dim` is height * width
batch_size, dim, num_channels = input_feature.shape
input_feature = input_feature.view(batch_size, height, width, num_channels)
# pad input to be disible by width and height, if needed
input_feature = self.maybe_pad(input_feature, height, width)
# [batch_size, height/2, width/2, num_channels]
input_feature_0 = input_feature[:, 0::2, 0::2, :]
# [batch_size, height/2, width/2, num_channels]
input_feature_1 = input_feature[:, 1::2, 0::2, :]
# [batch_size, height/2, width/2, num_channels]
input_feature_2 = input_feature[:, 0::2, 1::2, :]
# [batch_size, height/2, width/2, num_channels]
input_feature_3 = input_feature[:, 1::2, 1::2, :]
# batch_size height/2 width/2 4*num_channels
input_feature = torch.cat([input_feature_0, input_feature_1, input_feature_2, input_feature_3], -1)
input_feature = input_feature.view(batch_size, -1, 4 * num_channels) # batch_size height/2*width/2 4*C
input_feature = self.norm(input_feature)
input_feature = self.reduction(input_feature)
return input_feature
# Copied from transformers.models.swin.modeling_swin.SwinDropPath with Swin->MaskFormerSwin
class MaskFormerSwinDropPath(nn.Module):
"""Drop paths (Stochastic Depth) per sample (when applied in main path of residual blocks)."""
def __init__(self, drop_prob: Optional[float] = None) -> None:
super().__init__()
self.drop_prob = drop_prob
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
return drop_path(hidden_states, self.drop_prob, self.training)
def extra_repr(self) -> str:
return "p={}".format(self.drop_prob)
# Copied from transformers.models.swin.modeling_swin.SwinSelfAttention with Swin->MaskFormerSwin
class MaskFormerSwinSelfAttention(nn.Module):
def __init__(self, config, dim, num_heads, window_size):
super().__init__()
if dim % num_heads != 0:
raise ValueError(
f"The hidden size ({dim}) is not a multiple of the number of attention heads ({num_heads})"
)
self.num_attention_heads = num_heads
self.attention_head_size = int(dim / num_heads)
self.all_head_size = self.num_attention_heads * self.attention_head_size
self.window_size = (
window_size if isinstance(window_size, collections.abc.Iterable) else (window_size, window_size)
)
self.relative_position_bias_table = nn.Parameter(
torch.zeros((2 * self.window_size[0] - 1) * (2 * self.window_size[1] - 1), num_heads)
)
# get pair-wise relative position index for each token inside the window
coords_h = torch.arange(self.window_size[0])
coords_w = torch.arange(self.window_size[1])
coords = torch.stack(meshgrid([coords_h, coords_w], indexing="ij"))
coords_flatten = torch.flatten(coords, 1)
relative_coords = coords_flatten[:, :, None] - coords_flatten[:, None, :]
relative_coords = relative_coords.permute(1, 2, 0).contiguous()
relative_coords[:, :, 0] += self.window_size[0] - 1
relative_coords[:, :, 1] += self.window_size[1] - 1
relative_coords[:, :, 0] *= 2 * self.window_size[1] - 1
relative_position_index = relative_coords.sum(-1)
self.register_buffer("relative_position_index", relative_position_index)
self.query = nn.Linear(self.all_head_size, self.all_head_size, bias=config.qkv_bias)
self.key = nn.Linear(self.all_head_size, self.all_head_size, bias=config.qkv_bias)
self.value = nn.Linear(self.all_head_size, self.all_head_size, bias=config.qkv_bias)
self.dropout = nn.Dropout(config.attention_probs_dropout_prob)
def transpose_for_scores(self, x):
new_x_shape = x.size()[:-1] + (self.num_attention_heads, self.attention_head_size)
x = x.view(new_x_shape)
return x.permute(0, 2, 1, 3)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.FloatTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = False,
) -> Tuple[torch.Tensor]:
batch_size, dim, num_channels = hidden_states.shape
mixed_query_layer = self.query(hidden_states)
key_layer = self.transpose_for_scores(self.key(hidden_states))
value_layer = self.transpose_for_scores(self.value(hidden_states))
query_layer = self.transpose_for_scores(mixed_query_layer)
# Take the dot product between "query" and "key" to get the raw attention scores.
attention_scores = torch.matmul(query_layer, key_layer.transpose(-1, -2))
attention_scores = attention_scores / math.sqrt(self.attention_head_size)
relative_position_bias = self.relative_position_bias_table[self.relative_position_index.view(-1)]
relative_position_bias = relative_position_bias.view(
self.window_size[0] * self.window_size[1], self.window_size[0] * self.window_size[1], -1
)
relative_position_bias = relative_position_bias.permute(2, 0, 1).contiguous()
attention_scores = attention_scores + relative_position_bias.unsqueeze(0)
if attention_mask is not None:
# Apply the attention mask is (precomputed for all layers in MaskFormerSwinModel forward() function)
mask_shape = attention_mask.shape[0]
attention_scores = attention_scores.view(
batch_size // mask_shape, mask_shape, self.num_attention_heads, dim, dim
)
attention_scores = attention_scores + attention_mask.unsqueeze(1).unsqueeze(0)
attention_scores = attention_scores.view(-1, self.num_attention_heads, dim, dim)
# Normalize the attention scores to probabilities.
attention_probs = nn.functional.softmax(attention_scores, dim=-1)
# This is actually dropping out entire tokens to attend to, which might
# seem a bit unusual, but is taken from the original Transformer paper.
attention_probs = self.dropout(attention_probs)
# Mask heads if we want to
if head_mask is not None:
attention_probs = attention_probs * head_mask
context_layer = torch.matmul(attention_probs, value_layer)
context_layer = context_layer.permute(0, 2, 1, 3).contiguous()
new_context_layer_shape = context_layer.size()[:-2] + (self.all_head_size,)
context_layer = context_layer.view(new_context_layer_shape)
outputs = (context_layer, attention_probs) if output_attentions else (context_layer,)
return outputs
# Copied from transformers.models.swin.modeling_swin.SwinSelfOutput with Swin->MaskFormerSwin
class MaskFormerSwinSelfOutput(nn.Module):
def __init__(self, config, dim):
super().__init__()
self.dense = nn.Linear(dim, dim)
self.dropout = nn.Dropout(config.attention_probs_dropout_prob)
def forward(self, hidden_states: torch.Tensor, input_tensor: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states)
return hidden_states
# Copied from transformers.models.swin.modeling_swin.SwinAttention with Swin->MaskFormerSwin
class MaskFormerSwinAttention(nn.Module):
def __init__(self, config, dim, num_heads, window_size):
super().__init__()
self.self = MaskFormerSwinSelfAttention(config, dim, num_heads, window_size)
self.output = MaskFormerSwinSelfOutput(config, dim)
self.pruned_heads = set()
def prune_heads(self, heads):
if len(heads) == 0:
return
heads, index = find_pruneable_heads_and_indices(
heads, self.self.num_attention_heads, self.self.attention_head_size, self.pruned_heads
)
# Prune linear layers
self.self.query = prune_linear_layer(self.self.query, index)
self.self.key = prune_linear_layer(self.self.key, index)
self.self.value = prune_linear_layer(self.self.value, index)
self.output.dense = prune_linear_layer(self.output.dense, index, dim=1)
# Update hyper params and store pruned heads
self.self.num_attention_heads = self.self.num_attention_heads - len(heads)
self.self.all_head_size = self.self.attention_head_size * self.self.num_attention_heads
self.pruned_heads = self.pruned_heads.union(heads)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.FloatTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = False,
) -> Tuple[torch.Tensor]:
self_outputs = self.self(hidden_states, attention_mask, head_mask, output_attentions)
attention_output = self.output(self_outputs[0], hidden_states)
outputs = (attention_output,) + self_outputs[1:] # add attentions if we output them
return outputs
# Copied from transformers.models.swin.modeling_swin.SwinIntermediate with Swin->MaskFormerSwin
class MaskFormerSwinIntermediate(nn.Module):
def __init__(self, config, dim):
super().__init__()
self.dense = nn.Linear(dim, int(config.mlp_ratio * dim))
if isinstance(config.hidden_act, str):
self.intermediate_act_fn = ACT2FN[config.hidden_act]
else:
self.intermediate_act_fn = config.hidden_act
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.intermediate_act_fn(hidden_states)
return hidden_states
# Copied from transformers.models.swin.modeling_swin.SwinOutput with Swin->MaskFormerSwin
class MaskFormerSwinOutput(nn.Module):
def __init__(self, config, dim):
super().__init__()
self.dense = nn.Linear(int(config.mlp_ratio * dim), dim)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states)
return hidden_states
class MaskFormerSwinLayer(nn.Module):
def __init__(self, config, dim, input_resolution, num_heads, shift_size=0):
super().__init__()
self.shift_size = shift_size
self.window_size = config.window_size
self.input_resolution = input_resolution
self.layernorm_before = nn.LayerNorm(dim, eps=config.layer_norm_eps)
self.attention = MaskFormerSwinAttention(config, dim, num_heads, self.window_size)
self.drop_path = (
MaskFormerSwinDropPath(config.drop_path_rate) if config.drop_path_rate > 0.0 else nn.Identity()
)
self.layernorm_after = nn.LayerNorm(dim, eps=config.layer_norm_eps)
self.intermediate = MaskFormerSwinIntermediate(config, dim)
self.output = MaskFormerSwinOutput(config, dim)
def get_attn_mask(self, input_resolution):
if self.shift_size > 0:
# calculate attention mask for SW-MSA
height, width = input_resolution
img_mask = torch.zeros((1, height, width, 1))
height_slices = (
slice(0, -self.window_size),
slice(-self.window_size, -self.shift_size),
slice(-self.shift_size, None),
)
width_slices = (
slice(0, -self.window_size),
slice(-self.window_size, -self.shift_size),
slice(-self.shift_size, None),
)
count = 0
for height_slice in height_slices:
for width_slice in width_slices:
img_mask[:, height_slice, width_slice, :] = count
count += 1
mask_windows = window_partition(img_mask, self.window_size)
mask_windows = mask_windows.view(-1, self.window_size * self.window_size)
attn_mask = mask_windows.unsqueeze(1) - mask_windows.unsqueeze(2)
attn_mask = attn_mask.masked_fill(attn_mask != 0, float(-100.0)).masked_fill(attn_mask == 0, float(0.0))
else:
attn_mask = None
return attn_mask
def maybe_pad(self, hidden_states, height, width):
pad_left = pad_top = 0
pad_rigth = (self.window_size - width % self.window_size) % self.window_size
pad_bottom = (self.window_size - height % self.window_size) % self.window_size
pad_values = (0, 0, pad_left, pad_rigth, pad_top, pad_bottom)
hidden_states = nn.functional.pad(hidden_states, pad_values)
return hidden_states, pad_values
def forward(self, hidden_states, input_dimensions, head_mask=None, output_attentions=False):
height, width = input_dimensions
batch_size, dim, channels = hidden_states.size()
shortcut = hidden_states
hidden_states = self.layernorm_before(hidden_states)
hidden_states = hidden_states.view(batch_size, height, width, channels)
# pad hidden_states to multiples of window size
hidden_states, pad_values = self.maybe_pad(hidden_states, height, width)
_, height_pad, width_pad, _ = hidden_states.shape
# cyclic shift
if self.shift_size > 0:
shifted_hidden_states = torch.roll(hidden_states, shifts=(-self.shift_size, -self.shift_size), dims=(1, 2))
else:
shifted_hidden_states = hidden_states
# partition windows
hidden_states_windows = window_partition(shifted_hidden_states, self.window_size)
hidden_states_windows = hidden_states_windows.view(-1, self.window_size * self.window_size, channels)
attn_mask = self.get_attn_mask((height_pad, width_pad))
if attn_mask is not None:
attn_mask = attn_mask.to(hidden_states_windows.device)
self_attention_outputs = self.attention(
hidden_states_windows, attn_mask, head_mask, output_attentions=output_attentions
)
attention_output = self_attention_outputs[0]
outputs = self_attention_outputs[1:] # add self attentions if we output attention weights
attention_windows = attention_output.view(-1, self.window_size, self.window_size, channels)
shifted_windows = window_reverse(
attention_windows, self.window_size, height_pad, width_pad
) # B height' width' C
# reverse cyclic shift
if self.shift_size > 0:
attention_windows = torch.roll(shifted_windows, shifts=(self.shift_size, self.shift_size), dims=(1, 2))
else:
attention_windows = shifted_windows
was_padded = pad_values[3] > 0 or pad_values[5] > 0
if was_padded:
attention_windows = attention_windows[:, :height, :width, :].contiguous()
attention_windows = attention_windows.view(batch_size, height * width, channels)
hidden_states = shortcut + self.drop_path(attention_windows)
layer_output = self.layernorm_after(hidden_states)
layer_output = self.intermediate(layer_output)
layer_output = hidden_states + self.output(layer_output)
outputs = (layer_output,) + outputs
return outputs
class MaskFormerSwinStage(nn.Module):
# Copied from transformers.models.swin.modeling_swin.SwinStage.__init__ with Swin->MaskFormerSwin
def __init__(self, config, dim, input_resolution, depth, num_heads, drop_path, downsample):
super().__init__()
self.config = config
self.dim = dim
self.blocks = nn.ModuleList(
[
MaskFormerSwinLayer(
config=config,
dim=dim,
input_resolution=input_resolution,
num_heads=num_heads,
shift_size=0 if (i % 2 == 0) else config.window_size // 2,
)
for i in range(depth)
]
)
# patch merging layer
if downsample is not None:
self.downsample = downsample(input_resolution, dim=dim, norm_layer=nn.LayerNorm)
else:
self.downsample = None
self.pointing = False
def forward(
self, hidden_states, input_dimensions, head_mask=None, output_attentions=False, output_hidden_states=False
):
all_hidden_states = () if output_hidden_states else None
height, width = input_dimensions
for i, block_module in enumerate(self.blocks):
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
layer_head_mask = head_mask[i] if head_mask is not None else None
block_hidden_states = block_module(hidden_states, input_dimensions, layer_head_mask, output_attentions)
hidden_states = block_hidden_states[0]
if output_hidden_states:
all_hidden_states += (hidden_states,)
if self.downsample is not None:
height_downsampled, width_downsampled = (height + 1) // 2, (width + 1) // 2
output_dimensions = (height, width, height_downsampled, width_downsampled)
hidden_states = self.downsample(hidden_states, input_dimensions)
else:
output_dimensions = (height, width, height, width)
return hidden_states, output_dimensions, all_hidden_states
class MaskFormerSwinEncoder(nn.Module):
# Copied from transformers.models.swin.modeling_swin.SwinEncoder.__init__ with Swin->MaskFormerSwin
def __init__(self, config, grid_size):
super().__init__()
self.num_layers = len(config.depths)
self.config = config
dpr = [x.item() for x in torch.linspace(0, config.drop_path_rate, sum(config.depths))]
self.layers = nn.ModuleList(
[
MaskFormerSwinStage(
config=config,
dim=int(config.embed_dim * 2**i_layer),
input_resolution=(grid_size[0] // (2**i_layer), grid_size[1] // (2**i_layer)),
depth=config.depths[i_layer],
num_heads=config.num_heads[i_layer],
drop_path=dpr[sum(config.depths[:i_layer]) : sum(config.depths[: i_layer + 1])],
downsample=MaskFormerSwinPatchMerging if (i_layer < self.num_layers - 1) else None,
)
for i_layer in range(self.num_layers)
]
)
self.gradient_checkpointing = False
def forward(
self,
hidden_states,
input_dimensions,
head_mask=None,
output_attentions=False,
output_hidden_states=False,
return_dict=True,
):
all_hidden_states = () if output_hidden_states else None
all_input_dimensions = ()
all_self_attentions = () if output_attentions else None
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
for i, layer_module in enumerate(self.layers):
layer_head_mask = head_mask[i] if head_mask is not None else None
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, output_attentions)
return custom_forward
layer_hidden_states, output_dimensions, layer_all_hidden_states = torch.utils.checkpoint.checkpoint(
create_custom_forward(layer_module), hidden_states, layer_head_mask
)
else:
layer_hidden_states, output_dimensions, layer_all_hidden_states = layer_module(
hidden_states,
input_dimensions,
layer_head_mask,
output_attentions,
output_hidden_states,
)
input_dimensions = (output_dimensions[-2], output_dimensions[-1])
all_input_dimensions += (input_dimensions,)
if output_hidden_states:
all_hidden_states += (layer_all_hidden_states,)
hidden_states = layer_hidden_states
if output_attentions:
all_self_attentions = all_self_attentions + (layer_all_hidden_states[1],)
if not return_dict:
return tuple(v for v in [hidden_states, all_hidden_states, all_self_attentions] if v is not None)
return MaskFormerSwinBaseModelOutput(
last_hidden_state=hidden_states,
hidden_states=all_hidden_states,
hidden_states_spatial_dimensions=all_input_dimensions,
attentions=all_self_attentions,
)
# Copied from transformers.models.swin.modeling_swin.SwinPreTrainedModel with Swin->MaskFormerSwin, swin->model
class MaskFormerSwinPreTrainedModel(PreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
config_class = MaskFormerSwinConfig
base_model_prefix = "model"
main_input_name = "pixel_values"
supports_gradient_checkpointing = True
def _init_weights(self, module):
"""Initialize the weights"""
if isinstance(module, (nn.Linear, nn.Conv2d)):
# Slightly different from the TF version which uses truncated_normal for initialization
# cf https://github.com/pytorch/pytorch/pull/5617
module.weight.data.normal_(mean=0.0, std=self.config.initializer_range)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.LayerNorm):
module.bias.data.zero_()
module.weight.data.fill_(1.0)
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, MaskFormerSwinEncoder):
module.gradient_checkpointing = value
class MaskFormerSwinModel(MaskFormerSwinPreTrainedModel):
def __init__(self, config, add_pooling_layer=True):
super().__init__(config)
self.config = config
self.num_layers = len(config.depths)
self.num_features = int(config.embed_dim * 2 ** (self.num_layers - 1))
self.embeddings = MaskFormerSwinEmbeddings(config)
self.encoder = MaskFormerSwinEncoder(config, self.embeddings.patch_grid)
self.layernorm = nn.LayerNorm(self.num_features, eps=config.layer_norm_eps)
self.pooler = nn.AdaptiveAvgPool1d(1) if add_pooling_layer else None
def get_input_embeddings(self):
return self.embeddings.patch_embeddings
def _prune_heads(self, heads_to_prune):
"""
Prunes heads of the model. heads_to_prune: dict of {layer_num: list of heads to prune in this layer} See base
class PreTrainedModel
"""
for layer, heads in heads_to_prune.items():
self.encoder.layer[layer].attention.prune_heads(heads)
def forward(
self,
pixel_values=None,
head_mask=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if pixel_values is None:
raise ValueError("You have to specify pixel_values")
# Prepare head mask if needed
# 1.0 in head_mask indicate we keep the head
# attention_probs has shape bsz x n_heads x N x N
# input head_mask has shape [num_heads] or [num_hidden_layers x num_heads]
# and head_mask is converted to shape [num_hidden_layers x batch x num_heads x seq_length x seq_length]
head_mask = self.get_head_mask(head_mask, len(self.config.depths))
embedding_output, input_dimensions = self.embeddings(pixel_values)
encoder_outputs = self.encoder(
embedding_output,
input_dimensions,
head_mask=head_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = encoder_outputs.last_hidden_state if return_dict else encoder_outputs[0]
sequence_output = self.layernorm(sequence_output)
pooled_output = None
if self.pooler is not None:
pooled_output = self.pooler(sequence_output.transpose(1, 2))
pooled_output = torch.flatten(pooled_output, 1)
if not return_dict:
return (sequence_output, pooled_output) + encoder_outputs[1:]
hidden_states_spatial_dimensions = (input_dimensions,) + encoder_outputs.hidden_states_spatial_dimensions
return MaskFormerSwinModelOutputWithPooling(
last_hidden_state=sequence_output,
pooler_output=pooled_output,
hidden_states=encoder_outputs.hidden_states,
hidden_states_spatial_dimensions=hidden_states_spatial_dimensions,
attentions=encoder_outputs.attentions,
)
class MaskFormerSwinBackbone(MaskFormerSwinPreTrainedModel, BackboneMixin):
"""
MaskFormerSwin backbone, designed especially for the MaskFormer framework.
This classes reshapes `hidden_states` from (`batch_size, sequence_length, hidden_size)` to (`batch_size,
num_channels, height, width)`). It also adds additional layernorms after each stage.
Args:
config (`MaskFormerSwinConfig`):
The configuration used by [`MaskFormerSwinModel`].
"""
def __init__(self, config: MaskFormerSwinConfig):
super().__init__(config)
super()._init_backbone(config)
self.model = MaskFormerSwinModel(config)
if "stem" in self.out_features:
raise ValueError("This backbone does not support 'stem' in the `out_features`.")
self.num_features = [config.embed_dim] + [int(config.embed_dim * 2**i) for i in range(len(config.depths))]
self.hidden_states_norms = nn.ModuleList(
[nn.LayerNorm(num_channels) for num_channels in self.num_features[1:]]
)
# Initialize weights and apply final processing
self.post_init()
def forward(
self,
pixel_values: Tensor,
output_hidden_states: Optional[bool] = None,
output_attentions: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> BackboneOutput:
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
outputs = self.model(
pixel_values, output_hidden_states=True, output_attentions=output_attentions, return_dict=True
)
# we skip the stem
hidden_states = outputs.hidden_states[1:]
# we need to reshape the hidden states to their original spatial dimensions
# spatial dimensions contains all the heights and widths of each stage, including after the embeddings
spatial_dimensions: Tuple[Tuple[int, int]] = outputs.hidden_states_spatial_dimensions
feature_maps = ()
for i, (hidden_state, stage, (height, width)) in enumerate(
zip(hidden_states, self.stage_names[1:], spatial_dimensions)
):
norm = self.hidden_states_norms[i]
# the last element corespond to the layer's last block output but before patch merging
hidden_state_unpolled = hidden_state[-1]
hidden_state_norm = norm(hidden_state_unpolled)
# the pixel decoder (FPN) expects 3D tensors (features)
batch_size, _, hidden_size = hidden_state_norm.shape
# reshape "b (h w) d -> b d h w"
hidden_state_permuted = (
hidden_state_norm.permute(0, 2, 1).view((batch_size, hidden_size, height, width)).contiguous()
)
if stage in self.out_features:
feature_maps += (hidden_state_permuted,)
if not return_dict:
output = (feature_maps,)
if output_hidden_states:
output += (outputs.hidden_states,)
if output_attentions:
output += (outputs.attentions,)
return output
return BackboneOutput(
feature_maps=feature_maps,
hidden_states=outputs.hidden_states if output_hidden_states else None,
attentions=outputs.attentions,
)
| transformers-main | src/transformers/models/maskformer/modeling_maskformer_swin.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Convert MaskFormer checkpoints with ResNet backbone from the original repository. URL:
https://github.com/facebookresearch/MaskFormer"""
import argparse
import json
import pickle
from pathlib import Path
import requests
import torch
from huggingface_hub import hf_hub_download
from PIL import Image
from transformers import MaskFormerConfig, MaskFormerForInstanceSegmentation, MaskFormerImageProcessor, ResNetConfig
from transformers.utils import logging
logging.set_verbosity_info()
logger = logging.get_logger(__name__)
def get_maskformer_config(model_name: str):
if "resnet101c" in model_name:
# TODO add support for ResNet-C backbone, which uses a "deeplab" stem
raise NotImplementedError("To do")
elif "resnet101" in model_name:
backbone_config = ResNetConfig.from_pretrained(
"microsoft/resnet-101", out_features=["stage1", "stage2", "stage3", "stage4"]
)
else:
backbone_config = ResNetConfig.from_pretrained(
"microsoft/resnet-50", out_features=["stage1", "stage2", "stage3", "stage4"]
)
config = MaskFormerConfig(backbone_config=backbone_config)
repo_id = "huggingface/label-files"
if "ade20k-full" in model_name:
config.num_labels = 847
filename = "maskformer-ade20k-full-id2label.json"
elif "ade" in model_name:
config.num_labels = 150
filename = "ade20k-id2label.json"
elif "coco-stuff" in model_name:
config.num_labels = 171
filename = "maskformer-coco-stuff-id2label.json"
elif "coco" in model_name:
# TODO
config.num_labels = 133
filename = "coco-panoptic-id2label.json"
elif "cityscapes" in model_name:
config.num_labels = 19
filename = "cityscapes-id2label.json"
elif "vistas" in model_name:
config.num_labels = 65
filename = "mapillary-vistas-id2label.json"
id2label = json.load(open(hf_hub_download(repo_id, filename, repo_type="dataset"), "r"))
id2label = {int(k): v for k, v in id2label.items()}
config.id2label = id2label
config.label2id = {v: k for k, v in id2label.items()}
return config
def create_rename_keys(config):
rename_keys = []
# stem
# fmt: off
rename_keys.append(("backbone.stem.conv1.weight", "model.pixel_level_module.encoder.embedder.embedder.convolution.weight"))
rename_keys.append(("backbone.stem.conv1.norm.weight", "model.pixel_level_module.encoder.embedder.embedder.normalization.weight"))
rename_keys.append(("backbone.stem.conv1.norm.bias", "model.pixel_level_module.encoder.embedder.embedder.normalization.bias"))
rename_keys.append(("backbone.stem.conv1.norm.running_mean", "model.pixel_level_module.encoder.embedder.embedder.normalization.running_mean"))
rename_keys.append(("backbone.stem.conv1.norm.running_var", "model.pixel_level_module.encoder.embedder.embedder.normalization.running_var"))
# fmt: on
# stages
for stage_idx in range(len(config.backbone_config.depths)):
for layer_idx in range(config.backbone_config.depths[stage_idx]):
# shortcut
if layer_idx == 0:
rename_keys.append(
(
f"backbone.res{stage_idx + 2}.{layer_idx}.shortcut.weight",
f"model.pixel_level_module.encoder.encoder.stages.{stage_idx}.layers.{layer_idx}.shortcut.convolution.weight",
)
)
rename_keys.append(
(
f"backbone.res{stage_idx + 2}.{layer_idx}.shortcut.norm.weight",
f"model.pixel_level_module.encoder.encoder.stages.{stage_idx}.layers.{layer_idx}.shortcut.normalization.weight",
)
)
rename_keys.append(
(
f"backbone.res{stage_idx + 2}.{layer_idx}.shortcut.norm.bias",
f"model.pixel_level_module.encoder.encoder.stages.{stage_idx}.layers.{layer_idx}.shortcut.normalization.bias",
)
)
rename_keys.append(
(
f"backbone.res{stage_idx + 2}.{layer_idx}.shortcut.norm.running_mean",
f"model.pixel_level_module.encoder.encoder.stages.{stage_idx}.layers.{layer_idx}.shortcut.normalization.running_mean",
)
)
rename_keys.append(
(
f"backbone.res{stage_idx + 2}.{layer_idx}.shortcut.norm.running_var",
f"model.pixel_level_module.encoder.encoder.stages.{stage_idx}.layers.{layer_idx}.shortcut.normalization.running_var",
)
)
# 3 convs
for i in range(3):
rename_keys.append(
(
f"backbone.res{stage_idx + 2}.{layer_idx}.conv{i+1}.weight",
f"model.pixel_level_module.encoder.encoder.stages.{stage_idx}.layers.{layer_idx}.layer.{i}.convolution.weight",
)
)
rename_keys.append(
(
f"backbone.res{stage_idx + 2}.{layer_idx}.conv{i+1}.norm.weight",
f"model.pixel_level_module.encoder.encoder.stages.{stage_idx}.layers.{layer_idx}.layer.{i}.normalization.weight",
)
)
rename_keys.append(
(
f"backbone.res{stage_idx + 2}.{layer_idx}.conv{i+1}.norm.bias",
f"model.pixel_level_module.encoder.encoder.stages.{stage_idx}.layers.{layer_idx}.layer.{i}.normalization.bias",
)
)
rename_keys.append(
(
f"backbone.res{stage_idx + 2}.{layer_idx}.conv{i+1}.norm.running_mean",
f"model.pixel_level_module.encoder.encoder.stages.{stage_idx}.layers.{layer_idx}.layer.{i}.normalization.running_mean",
)
)
rename_keys.append(
(
f"backbone.res{stage_idx + 2}.{layer_idx}.conv{i+1}.norm.running_var",
f"model.pixel_level_module.encoder.encoder.stages.{stage_idx}.layers.{layer_idx}.layer.{i}.normalization.running_var",
)
)
# FPN
# fmt: off
rename_keys.append(("sem_seg_head.layer_4.weight", "model.pixel_level_module.decoder.fpn.stem.0.weight"))
rename_keys.append(("sem_seg_head.layer_4.norm.weight", "model.pixel_level_module.decoder.fpn.stem.1.weight"))
rename_keys.append(("sem_seg_head.layer_4.norm.bias", "model.pixel_level_module.decoder.fpn.stem.1.bias"))
for source_index, target_index in zip(range(3, 0, -1), range(0, 3)):
rename_keys.append((f"sem_seg_head.adapter_{source_index}.weight", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.proj.0.weight"))
rename_keys.append((f"sem_seg_head.adapter_{source_index}.norm.weight", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.proj.1.weight"))
rename_keys.append((f"sem_seg_head.adapter_{source_index}.norm.bias", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.proj.1.bias"))
rename_keys.append((f"sem_seg_head.layer_{source_index}.weight", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.block.0.weight"))
rename_keys.append((f"sem_seg_head.layer_{source_index}.norm.weight", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.block.1.weight"))
rename_keys.append((f"sem_seg_head.layer_{source_index}.norm.bias", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.block.1.bias"))
rename_keys.append(("sem_seg_head.mask_features.weight", "model.pixel_level_module.decoder.mask_projection.weight"))
rename_keys.append(("sem_seg_head.mask_features.bias", "model.pixel_level_module.decoder.mask_projection.bias"))
# fmt: on
# Transformer decoder
# fmt: off
for idx in range(config.decoder_config.decoder_layers):
# self-attention out projection
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.self_attn.out_proj.weight", f"model.transformer_module.decoder.layers.{idx}.self_attn.out_proj.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.self_attn.out_proj.bias", f"model.transformer_module.decoder.layers.{idx}.self_attn.out_proj.bias"))
# cross-attention out projection
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.multihead_attn.out_proj.weight", f"model.transformer_module.decoder.layers.{idx}.encoder_attn.out_proj.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.multihead_attn.out_proj.bias", f"model.transformer_module.decoder.layers.{idx}.encoder_attn.out_proj.bias"))
# MLP 1
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.linear1.weight", f"model.transformer_module.decoder.layers.{idx}.fc1.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.linear1.bias", f"model.transformer_module.decoder.layers.{idx}.fc1.bias"))
# MLP 2
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.linear2.weight", f"model.transformer_module.decoder.layers.{idx}.fc2.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.linear2.bias", f"model.transformer_module.decoder.layers.{idx}.fc2.bias"))
# layernorm 1 (self-attention layernorm)
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm1.weight", f"model.transformer_module.decoder.layers.{idx}.self_attn_layer_norm.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm1.bias", f"model.transformer_module.decoder.layers.{idx}.self_attn_layer_norm.bias"))
# layernorm 2 (cross-attention layernorm)
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm2.weight", f"model.transformer_module.decoder.layers.{idx}.encoder_attn_layer_norm.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm2.bias", f"model.transformer_module.decoder.layers.{idx}.encoder_attn_layer_norm.bias"))
# layernorm 3 (final layernorm)
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm3.weight", f"model.transformer_module.decoder.layers.{idx}.final_layer_norm.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm3.bias", f"model.transformer_module.decoder.layers.{idx}.final_layer_norm.bias"))
rename_keys.append(("sem_seg_head.predictor.transformer.decoder.norm.weight", "model.transformer_module.decoder.layernorm.weight"))
rename_keys.append(("sem_seg_head.predictor.transformer.decoder.norm.bias", "model.transformer_module.decoder.layernorm.bias"))
# fmt: on
# heads on top
# fmt: off
rename_keys.append(("sem_seg_head.predictor.query_embed.weight", "model.transformer_module.queries_embedder.weight"))
rename_keys.append(("sem_seg_head.predictor.input_proj.weight", "model.transformer_module.input_projection.weight"))
rename_keys.append(("sem_seg_head.predictor.input_proj.bias", "model.transformer_module.input_projection.bias"))
rename_keys.append(("sem_seg_head.predictor.class_embed.weight", "class_predictor.weight"))
rename_keys.append(("sem_seg_head.predictor.class_embed.bias", "class_predictor.bias"))
for i in range(3):
rename_keys.append((f"sem_seg_head.predictor.mask_embed.layers.{i}.weight", f"mask_embedder.{i}.0.weight"))
rename_keys.append((f"sem_seg_head.predictor.mask_embed.layers.{i}.bias", f"mask_embedder.{i}.0.bias"))
# fmt: on
return rename_keys
def rename_key(dct, old, new):
val = dct.pop(old)
dct[new] = val
# we split up the matrix of each encoder layer into queries, keys and values
def read_in_decoder_q_k_v(state_dict, config):
# fmt: off
hidden_size = config.decoder_config.hidden_size
for idx in range(config.decoder_config.decoder_layers):
# read in weights + bias of self-attention input projection layer (in the original implementation, this is a single matrix + bias)
in_proj_weight = state_dict.pop(f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.self_attn.in_proj_weight")
in_proj_bias = state_dict.pop(f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.self_attn.in_proj_bias")
# next, add query, keys and values (in that order) to the state dict
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.q_proj.weight"] = in_proj_weight[: hidden_size, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.q_proj.bias"] = in_proj_bias[:config.hidden_size]
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.k_proj.weight"] = in_proj_weight[hidden_size : hidden_size * 2, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.k_proj.bias"] = in_proj_bias[hidden_size : hidden_size * 2]
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.v_proj.weight"] = in_proj_weight[-hidden_size :, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.v_proj.bias"] = in_proj_bias[-hidden_size :]
# read in weights + bias of cross-attention input projection layer (in the original implementation, this is a single matrix + bias)
in_proj_weight = state_dict.pop(f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.multihead_attn.in_proj_weight")
in_proj_bias = state_dict.pop(f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.multihead_attn.in_proj_bias")
# next, add query, keys and values (in that order) to the state dict
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.q_proj.weight"] = in_proj_weight[: hidden_size, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.q_proj.bias"] = in_proj_bias[:config.hidden_size]
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.k_proj.weight"] = in_proj_weight[hidden_size : hidden_size * 2, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.k_proj.bias"] = in_proj_bias[hidden_size : hidden_size * 2]
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.v_proj.weight"] = in_proj_weight[-hidden_size :, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.v_proj.bias"] = in_proj_bias[-hidden_size :]
# fmt: on
# We will verify our results on an image of cute cats
def prepare_img() -> torch.Tensor:
url = "http://images.cocodataset.org/val2017/000000039769.jpg"
im = Image.open(requests.get(url, stream=True).raw)
return im
@torch.no_grad()
def convert_maskformer_checkpoint(
model_name: str, checkpoint_path: str, pytorch_dump_folder_path: str, push_to_hub: bool = False
):
"""
Copy/paste/tweak model's weights to our MaskFormer structure.
"""
config = get_maskformer_config(model_name)
# load original state_dict
with open(checkpoint_path, "rb") as f:
data = pickle.load(f)
state_dict = data["model"]
# rename keys
rename_keys = create_rename_keys(config)
for src, dest in rename_keys:
rename_key(state_dict, src, dest)
read_in_decoder_q_k_v(state_dict, config)
# update to torch tensors
for key, value in state_dict.items():
state_dict[key] = torch.from_numpy(value)
# load 🤗 model
model = MaskFormerForInstanceSegmentation(config)
model.eval()
model.load_state_dict(state_dict)
# verify results
image = prepare_img()
if "vistas" in model_name:
ignore_index = 65
elif "cityscapes" in model_name:
ignore_index = 65535
else:
ignore_index = 255
reduce_labels = True if "ade" in model_name else False
image_processor = MaskFormerImageProcessor(ignore_index=ignore_index, reduce_labels=reduce_labels)
inputs = image_processor(image, return_tensors="pt")
outputs = model(**inputs)
if model_name == "maskformer-resnet50-ade":
expected_logits = torch.tensor(
[[6.7710, -0.1452, -3.5687], [1.9165, -1.0010, -1.8614], [3.6209, -0.2950, -1.3813]]
)
elif model_name == "maskformer-resnet101-ade":
expected_logits = torch.tensor(
[[4.0381, -1.1483, -1.9688], [2.7083, -1.9147, -2.2555], [3.4367, -1.3711, -2.1609]]
)
elif model_name == "maskformer-resnet50-coco-stuff":
expected_logits = torch.tensor(
[[3.2309, -3.0481, -2.8695], [5.4986, -5.4242, -2.4211], [6.2100, -5.2279, -2.7786]]
)
elif model_name == "maskformer-resnet101-coco-stuff":
expected_logits = torch.tensor(
[[4.7188, -3.2585, -2.8857], [6.6871, -2.9181, -1.2487], [7.2449, -2.2764, -2.1874]]
)
elif model_name == "maskformer-resnet101-cityscapes":
expected_logits = torch.tensor(
[[-1.8861, -1.5465, 0.6749], [-2.3677, -1.6707, -0.0867], [-2.2314, -1.9530, -0.9132]]
)
elif model_name == "maskformer-resnet50-vistas":
expected_logits = torch.tensor(
[[-6.3917, -1.5216, -1.1392], [-5.5335, -4.5318, -1.8339], [-4.3576, -4.0301, 0.2162]]
)
elif model_name == "maskformer-resnet50-ade20k-full":
expected_logits = torch.tensor(
[[3.6146, -1.9367, -3.2534], [4.0099, 0.2027, -2.7576], [3.3913, -2.3644, -3.9519]]
)
elif model_name == "maskformer-resnet101-ade20k-full":
expected_logits = torch.tensor(
[[3.2211, -1.6550, -2.7605], [2.8559, -2.4512, -2.9574], [2.6331, -2.6775, -2.1844]]
)
assert torch.allclose(outputs.class_queries_logits[0, :3, :3], expected_logits, atol=1e-4)
print("Looks ok!")
if pytorch_dump_folder_path is not None:
print(f"Saving model and image processor of {model_name} to {pytorch_dump_folder_path}")
Path(pytorch_dump_folder_path).mkdir(exist_ok=True)
model.save_pretrained(pytorch_dump_folder_path)
image_processor.save_pretrained(pytorch_dump_folder_path)
if push_to_hub:
print(f"Pushing model and image processor of {model_name} to the hub...")
model.push_to_hub(f"facebook/{model_name}")
image_processor.push_to_hub(f"facebook/{model_name}")
if __name__ == "__main__":
parser = argparse.ArgumentParser()
# Required parameters
parser.add_argument(
"--model_name",
default="maskformer-resnet50-ade",
type=str,
required=True,
choices=[
"maskformer-resnet50-ade",
"maskformer-resnet101-ade",
"maskformer-resnet50-coco-stuff",
"maskformer-resnet101-coco-stuff",
"maskformer-resnet101-cityscapes",
"maskformer-resnet50-vistas",
"maskformer-resnet50-ade20k-full",
"maskformer-resnet101-ade20k-full",
],
help=("Name of the MaskFormer model you'd like to convert",),
)
parser.add_argument(
"--checkpoint_path",
type=str,
required=True,
help=("Path to the original pickle file (.pkl) of the original checkpoint.",),
)
parser.add_argument(
"--pytorch_dump_folder_path", default=None, type=str, help="Path to the output PyTorch model directory."
)
parser.add_argument(
"--push_to_hub", action="store_true", help="Whether or not to push the converted model to the 🤗 hub."
)
args = parser.parse_args()
convert_maskformer_checkpoint(
args.model_name, args.checkpoint_path, args.pytorch_dump_folder_path, args.push_to_hub
)
| transformers-main | src/transformers/models/maskformer/convert_maskformer_resnet_to_pytorch.py |
# Copyright 2022 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import OptionalDependencyNotAvailable, _LazyModule, is_torch_available, is_vision_available
_import_structure = {
"configuration_maskformer": ["MASKFORMER_PRETRAINED_CONFIG_ARCHIVE_MAP", "MaskFormerConfig"],
"configuration_maskformer_swin": ["MaskFormerSwinConfig"],
}
try:
if not is_vision_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["feature_extraction_maskformer"] = ["MaskFormerFeatureExtractor"]
_import_structure["image_processing_maskformer"] = ["MaskFormerImageProcessor"]
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_maskformer"] = [
"MASKFORMER_PRETRAINED_MODEL_ARCHIVE_LIST",
"MaskFormerForInstanceSegmentation",
"MaskFormerModel",
"MaskFormerPreTrainedModel",
]
_import_structure["modeling_maskformer_swin"] = [
"MaskFormerSwinBackbone",
"MaskFormerSwinModel",
"MaskFormerSwinPreTrainedModel",
]
if TYPE_CHECKING:
from .configuration_maskformer import MASKFORMER_PRETRAINED_CONFIG_ARCHIVE_MAP, MaskFormerConfig
from .configuration_maskformer_swin import MaskFormerSwinConfig
try:
if not is_vision_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .feature_extraction_maskformer import MaskFormerFeatureExtractor
from .image_processing_maskformer import MaskFormerImageProcessor
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_maskformer import (
MASKFORMER_PRETRAINED_MODEL_ARCHIVE_LIST,
MaskFormerForInstanceSegmentation,
MaskFormerModel,
MaskFormerPreTrainedModel,
)
from .modeling_maskformer_swin import (
MaskFormerSwinBackbone,
MaskFormerSwinModel,
MaskFormerSwinPreTrainedModel,
)
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure)
| transformers-main | src/transformers/models/maskformer/__init__.py |
# coding=utf-8
# Copyright 2022 Meta Platforms, Inc. and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
import sys
from argparse import ArgumentParser
from dataclasses import dataclass
from pathlib import Path
from pprint import pformat
from typing import Any, Dict, Iterator, List, Set, Tuple
import requests
import torch
import torchvision.transforms as T
from detectron2.checkpoint import DetectionCheckpointer
from detectron2.config import get_cfg
from detectron2.data import MetadataCatalog
from detectron2.projects.deeplab import add_deeplab_config
from PIL import Image
from torch import Tensor, nn
from transformers.models.maskformer.feature_extraction_maskformer import MaskFormerImageProcessor
from transformers.models.maskformer.modeling_maskformer import (
MaskFormerConfig,
MaskFormerForInstanceSegmentation,
MaskFormerForInstanceSegmentationOutput,
MaskFormerModel,
MaskFormerModelOutput,
)
from transformers.utils import logging
StateDict = Dict[str, Tensor]
logging.set_verbosity_info()
logger = logging.get_logger()
torch.manual_seed(0)
class TrackedStateDict:
def __init__(self, to_track: Dict):
"""This class "tracks" a python dictionary by keeping track of which item is accessed.
Args:
to_track (Dict): The dictionary we wish to track
"""
self.to_track = to_track
self._seen: Set[str] = set()
def __getitem__(self, key: str) -> Any:
return self.to_track[key]
def __setitem__(self, key: str, item: Any):
self._seen.add(key)
self.to_track[key] = item
def diff(self) -> List[str]:
"""This method returns a set difference between the keys in the tracked state dict and the one we have access so far.
This is an effective method to check if we have update all the keys
Returns:
List[str]: List of keys not yet updated
"""
return set(self.to_track.keys()) - self._seen
def copy(self) -> Dict:
# proxy the call to the internal dictionary
return self.to_track.copy()
# We will verify our results on an image of cute cats
def prepare_img():
url = "http://images.cocodataset.org/val2017/000000039769.jpg"
img_data = requests.get(url, stream=True).raw
im = Image.open(img_data)
return im
@dataclass
class Args:
"""Fake command line arguments needed by maskformer/detectron implementation"""
config_file: str
def setup_cfg(args: Args):
# load config from file and command-line arguments
cfg = get_cfg()
add_deeplab_config(cfg)
add_mask_former_config(cfg)
cfg.merge_from_file(args.config_file)
cfg.freeze()
return cfg
class OriginalMaskFormerConfigToOursConverter:
def __call__(self, original_config: object) -> MaskFormerConfig:
model = original_config.MODEL
mask_former = model.MASK_FORMER
swin = model.SWIN
dataset_catalog = MetadataCatalog.get(original_config.DATASETS.TEST[0])
id2label = dict(enumerate(dataset_catalog.stuff_classes))
label2id = {label: idx for idx, label in id2label.items()}
config: MaskFormerConfig = MaskFormerConfig(
fpn_feature_size=model.SEM_SEG_HEAD.CONVS_DIM,
mask_feature_size=model.SEM_SEG_HEAD.MASK_DIM,
num_labels=model.SEM_SEG_HEAD.NUM_CLASSES,
no_object_weight=mask_former.NO_OBJECT_WEIGHT,
num_queries=mask_former.NUM_OBJECT_QUERIES,
backbone_config={
"pretrain_img_size": swin.PRETRAIN_IMG_SIZE,
"image_size": swin.PRETRAIN_IMG_SIZE,
"in_channels": 3,
"patch_size": swin.PATCH_SIZE,
"embed_dim": swin.EMBED_DIM,
"depths": swin.DEPTHS,
"num_heads": swin.NUM_HEADS,
"window_size": swin.WINDOW_SIZE,
"drop_path_rate": swin.DROP_PATH_RATE,
"model_type": "swin",
},
dice_weight=mask_former.DICE_WEIGHT,
ce_weight=1.0,
mask_weight=mask_former.MASK_WEIGHT,
decoder_config={
"model_type": "detr",
"max_position_embeddings": 1024,
"encoder_layers": 6,
"encoder_ffn_dim": 2048,
"encoder_attention_heads": 8,
"decoder_layers": mask_former.DEC_LAYERS,
"decoder_ffn_dim": mask_former.DIM_FEEDFORWARD,
"decoder_attention_heads": mask_former.NHEADS,
"encoder_layerdrop": 0.0,
"decoder_layerdrop": 0.0,
"d_model": mask_former.HIDDEN_DIM,
"dropout": mask_former.DROPOUT,
"attention_dropout": 0.0,
"activation_dropout": 0.0,
"init_std": 0.02,
"init_xavier_std": 1.0,
"scale_embedding": False,
"auxiliary_loss": False,
"dilation": False,
# default pretrained config values
},
id2label=id2label,
label2id=label2id,
)
return config
class OriginalMaskFormerConfigToImageProcessorConverter:
def __call__(self, original_config: object) -> MaskFormerImageProcessor:
model = original_config.MODEL
model_input = original_config.INPUT
dataset_catalog = MetadataCatalog.get(original_config.DATASETS.TEST[0])
return MaskFormerImageProcessor(
image_mean=(torch.tensor(model.PIXEL_MEAN) / 255).tolist(),
image_std=(torch.tensor(model.PIXEL_STD) / 255).tolist(),
size=model_input.MIN_SIZE_TEST,
max_size=model_input.MAX_SIZE_TEST,
num_labels=model.SEM_SEG_HEAD.NUM_CLASSES,
ignore_index=dataset_catalog.ignore_label,
size_divisibility=32, # 32 is required by swin
)
class OriginalMaskFormerCheckpointToOursConverter:
def __init__(self, original_model: nn.Module, config: MaskFormerConfig):
self.original_model = original_model
self.config = config
def pop_all(self, renamed_keys: List[Tuple[str, str]], dst_state_dict: StateDict, src_state_dict: StateDict):
for src_key, dst_key in renamed_keys:
dst_state_dict[dst_key] = src_state_dict.pop(src_key)
def replace_backbone(self, dst_state_dict: StateDict, src_state_dict: StateDict, config: MaskFormerConfig):
dst_prefix: str = "pixel_level_module.encoder"
src_prefix: str = "backbone"
renamed_keys = [
(
f"{src_prefix}.patch_embed.proj.weight",
f"{dst_prefix}.model.embeddings.patch_embeddings.projection.weight",
),
(f"{src_prefix}.patch_embed.proj.bias", f"{dst_prefix}.model.embeddings.patch_embeddings.projection.bias"),
(f"{src_prefix}.patch_embed.norm.weight", f"{dst_prefix}.model.embeddings.norm.weight"),
(f"{src_prefix}.patch_embed.norm.bias", f"{dst_prefix}.model.embeddings.norm.bias"),
]
num_layers = len(config.backbone_config.depths)
for layer_idx in range(num_layers):
for block_idx in range(config.backbone_config.depths[layer_idx]):
renamed_keys.extend(
[ # src, dst
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.norm1.weight",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.layernorm_before.weight",
),
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.norm1.bias",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.layernorm_before.bias",
),
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.attn.relative_position_bias_table",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.attention.self.relative_position_bias_table",
),
]
)
# now we need to handle the attentions
# read in weights + bias of input projection layer of cross-attention
src_att_weight = src_state_dict[f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.attn.qkv.weight"]
src_att_bias = src_state_dict[f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.attn.qkv.bias"]
size = src_att_weight.shape[0]
offset = size // 3
dst_state_dict[
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.attention.self.query.weight"
] = src_att_weight[:offset, :]
dst_state_dict[
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.attention.self.query.bias"
] = src_att_bias[:offset]
dst_state_dict[
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.attention.self.key.weight"
] = src_att_weight[offset : offset * 2, :]
dst_state_dict[
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.attention.self.key.bias"
] = src_att_bias[offset : offset * 2]
dst_state_dict[
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.attention.self.value.weight"
] = src_att_weight[-offset:, :]
dst_state_dict[
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.attention.self.value.bias"
] = src_att_bias[-offset:]
# let's pop them
src_state_dict.pop(f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.attn.qkv.weight")
src_state_dict.pop(f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.attn.qkv.bias")
# proj
renamed_keys.extend(
[
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.attn.proj.weight",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.attention.output.dense.weight",
),
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.attn.proj.bias",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.attention.output.dense.bias",
),
]
)
# second norm
renamed_keys.extend(
[
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.norm2.weight",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.layernorm_after.weight",
),
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.norm2.bias",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.layernorm_after.bias",
),
]
)
# mlp
renamed_keys.extend(
[
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.mlp.fc1.weight",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.intermediate.dense.weight",
),
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.mlp.fc1.bias",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.intermediate.dense.bias",
),
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.mlp.fc2.weight",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.output.dense.weight",
),
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.mlp.fc2.bias",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.output.dense.bias",
),
]
)
renamed_keys.extend(
[
(
f"{src_prefix}.layers.{layer_idx}.blocks.{block_idx}.attn.relative_position_index",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.blocks.{block_idx}.attention.self.relative_position_index",
)
]
)
if layer_idx < num_layers - 1:
# patch merging
renamed_keys.extend(
[
(
f"{src_prefix}.layers.{layer_idx}.downsample.reduction.weight",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.downsample.reduction.weight",
),
(
f"{src_prefix}.layers.{layer_idx}.downsample.norm.weight",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.downsample.norm.weight",
),
(
f"{src_prefix}.layers.{layer_idx}.downsample.norm.bias",
f"{dst_prefix}.model.encoder.layers.{layer_idx}.downsample.norm.bias",
),
]
)
# hidden states norms
renamed_keys.extend(
[
(
f"{src_prefix}.norm{layer_idx}.weight",
f"{dst_prefix}.hidden_states_norms.{layer_idx}.weight",
),
(
f"{src_prefix}.norm{layer_idx}.bias",
f"{dst_prefix}.hidden_states_norms.{layer_idx}.bias",
),
]
)
self.pop_all(renamed_keys, dst_state_dict, src_state_dict)
def replace_pixel_module(self, dst_state_dict: StateDict, src_state_dict: StateDict):
dst_prefix: str = "pixel_level_module.decoder"
src_prefix: str = "sem_seg_head.pixel_decoder"
self.replace_backbone(dst_state_dict, src_state_dict, self.config)
def rename_keys_for_conv(detectron_conv: str, mine_conv: str):
return [
(f"{detectron_conv}.weight", f"{mine_conv}.0.weight"),
# 2 cuz the have act in the middle -> rename it
(f"{detectron_conv}.norm.weight", f"{mine_conv}.1.weight"),
(f"{detectron_conv}.norm.bias", f"{mine_conv}.1.bias"),
]
renamed_keys = [
(f"{src_prefix}.mask_features.weight", f"{dst_prefix}.mask_projection.weight"),
(f"{src_prefix}.mask_features.bias", f"{dst_prefix}.mask_projection.bias"),
# the layers in the original one are in reverse order, stem is the last one!
]
renamed_keys.extend(rename_keys_for_conv(f"{src_prefix}.layer_4", f"{dst_prefix}.fpn.stem"))
# add all the fpn layers (here we need some config parameters to know the size in advance)
for src_i, dst_i in zip(range(3, 0, -1), range(0, 3)):
renamed_keys.extend(
rename_keys_for_conv(f"{src_prefix}.adapter_{src_i}", f"{dst_prefix}.fpn.layers.{dst_i}.proj")
)
renamed_keys.extend(
rename_keys_for_conv(f"{src_prefix}.layer_{src_i}", f"{dst_prefix}.fpn.layers.{dst_i}.block")
)
self.pop_all(renamed_keys, dst_state_dict, src_state_dict)
def rename_keys_in_detr_decoder(self, dst_state_dict: StateDict, src_state_dict: StateDict):
dst_prefix: str = "transformer_module.decoder"
src_prefix: str = "sem_seg_head.predictor.transformer.decoder"
# not sure why we are not popping direcetly here!
# here we list all keys to be renamed (original name on the left, our name on the right)
rename_keys = []
for i in range(self.config.decoder_config.decoder_layers):
# decoder layers: 2 times output projection, 2 feedforward neural networks and 3 layernorms
rename_keys.append(
(
f"{src_prefix}.layers.{i}.self_attn.out_proj.weight",
f"{dst_prefix}.layers.{i}.self_attn.out_proj.weight",
)
)
rename_keys.append(
(
f"{src_prefix}.layers.{i}.self_attn.out_proj.bias",
f"{dst_prefix}.layers.{i}.self_attn.out_proj.bias",
)
)
rename_keys.append(
(
f"{src_prefix}.layers.{i}.multihead_attn.out_proj.weight",
f"{dst_prefix}.layers.{i}.encoder_attn.out_proj.weight",
)
)
rename_keys.append(
(
f"{src_prefix}.layers.{i}.multihead_attn.out_proj.bias",
f"{dst_prefix}.layers.{i}.encoder_attn.out_proj.bias",
)
)
rename_keys.append((f"{src_prefix}.layers.{i}.linear1.weight", f"{dst_prefix}.layers.{i}.fc1.weight"))
rename_keys.append((f"{src_prefix}.layers.{i}.linear1.bias", f"{dst_prefix}.layers.{i}.fc1.bias"))
rename_keys.append((f"{src_prefix}.layers.{i}.linear2.weight", f"{dst_prefix}.layers.{i}.fc2.weight"))
rename_keys.append((f"{src_prefix}.layers.{i}.linear2.bias", f"{dst_prefix}.layers.{i}.fc2.bias"))
rename_keys.append(
(f"{src_prefix}.layers.{i}.norm1.weight", f"{dst_prefix}.layers.{i}.self_attn_layer_norm.weight")
)
rename_keys.append(
(f"{src_prefix}.layers.{i}.norm1.bias", f"{dst_prefix}.layers.{i}.self_attn_layer_norm.bias")
)
rename_keys.append(
(f"{src_prefix}.layers.{i}.norm2.weight", f"{dst_prefix}.layers.{i}.encoder_attn_layer_norm.weight")
)
rename_keys.append(
(f"{src_prefix}.layers.{i}.norm2.bias", f"{dst_prefix}.layers.{i}.encoder_attn_layer_norm.bias")
)
rename_keys.append(
(f"{src_prefix}.layers.{i}.norm3.weight", f"{dst_prefix}.layers.{i}.final_layer_norm.weight")
)
rename_keys.append(
(f"{src_prefix}.layers.{i}.norm3.bias", f"{dst_prefix}.layers.{i}.final_layer_norm.bias")
)
return rename_keys
def replace_q_k_v_in_detr_decoder(self, dst_state_dict: StateDict, src_state_dict: StateDict):
dst_prefix: str = "transformer_module.decoder"
src_prefix: str = "sem_seg_head.predictor.transformer.decoder"
for i in range(self.config.decoder_config.decoder_layers):
# read in weights + bias of input projection layer of self-attention
in_proj_weight = src_state_dict.pop(f"{src_prefix}.layers.{i}.self_attn.in_proj_weight")
in_proj_bias = src_state_dict.pop(f"{src_prefix}.layers.{i}.self_attn.in_proj_bias")
# next, add query, keys and values (in that order) to the state dict
dst_state_dict[f"{dst_prefix}.layers.{i}.self_attn.q_proj.weight"] = in_proj_weight[:256, :]
dst_state_dict[f"{dst_prefix}.layers.{i}.self_attn.q_proj.bias"] = in_proj_bias[:256]
dst_state_dict[f"{dst_prefix}.layers.{i}.self_attn.k_proj.weight"] = in_proj_weight[256:512, :]
dst_state_dict[f"{dst_prefix}.layers.{i}.self_attn.k_proj.bias"] = in_proj_bias[256:512]
dst_state_dict[f"{dst_prefix}.layers.{i}.self_attn.v_proj.weight"] = in_proj_weight[-256:, :]
dst_state_dict[f"{dst_prefix}.layers.{i}.self_attn.v_proj.bias"] = in_proj_bias[-256:]
# read in weights + bias of input projection layer of cross-attention
in_proj_weight_cross_attn = src_state_dict.pop(f"{src_prefix}.layers.{i}.multihead_attn.in_proj_weight")
in_proj_bias_cross_attn = src_state_dict.pop(f"{src_prefix}.layers.{i}.multihead_attn.in_proj_bias")
# next, add query, keys and values (in that order) of cross-attention to the state dict
dst_state_dict[f"{dst_prefix}.layers.{i}.encoder_attn.q_proj.weight"] = in_proj_weight_cross_attn[:256, :]
dst_state_dict[f"{dst_prefix}.layers.{i}.encoder_attn.q_proj.bias"] = in_proj_bias_cross_attn[:256]
dst_state_dict[f"{dst_prefix}.layers.{i}.encoder_attn.k_proj.weight"] = in_proj_weight_cross_attn[
256:512, :
]
dst_state_dict[f"{dst_prefix}.layers.{i}.encoder_attn.k_proj.bias"] = in_proj_bias_cross_attn[256:512]
dst_state_dict[f"{dst_prefix}.layers.{i}.encoder_attn.v_proj.weight"] = in_proj_weight_cross_attn[-256:, :]
dst_state_dict[f"{dst_prefix}.layers.{i}.encoder_attn.v_proj.bias"] = in_proj_bias_cross_attn[-256:]
def replace_detr_decoder(self, dst_state_dict: StateDict, src_state_dict: StateDict):
dst_prefix: str = "transformer_module.decoder"
src_prefix: str = "sem_seg_head.predictor.transformer.decoder"
renamed_keys = self.rename_keys_in_detr_decoder(dst_state_dict, src_state_dict)
# add more
renamed_keys.extend(
[
(f"{src_prefix}.norm.weight", f"{dst_prefix}.layernorm.weight"),
(f"{src_prefix}.norm.bias", f"{dst_prefix}.layernorm.bias"),
]
)
self.pop_all(renamed_keys, dst_state_dict, src_state_dict)
self.replace_q_k_v_in_detr_decoder(dst_state_dict, src_state_dict)
def replace_transformer_module(self, dst_state_dict: StateDict, src_state_dict: StateDict):
dst_prefix: str = "transformer_module"
src_prefix: str = "sem_seg_head.predictor"
self.replace_detr_decoder(dst_state_dict, src_state_dict)
renamed_keys = [
(f"{src_prefix}.query_embed.weight", f"{dst_prefix}.queries_embedder.weight"),
(f"{src_prefix}.input_proj.weight", f"{dst_prefix}.input_projection.weight"),
(f"{src_prefix}.input_proj.bias", f"{dst_prefix}.input_projection.bias"),
]
self.pop_all(renamed_keys, dst_state_dict, src_state_dict)
def replace_instance_segmentation_module(self, dst_state_dict: StateDict, src_state_dict: StateDict):
# NOTE in our case we don't have a prefix, thus we removed the "." from the keys later on!
dst_prefix: str = ""
src_prefix: str = "sem_seg_head.predictor"
renamed_keys = [
(f"{src_prefix}.class_embed.weight", f"{dst_prefix}class_predictor.weight"),
(f"{src_prefix}.class_embed.bias", f"{dst_prefix}class_predictor.bias"),
]
mlp_len = 3
for i in range(mlp_len):
renamed_keys.extend(
[
(f"{src_prefix}.mask_embed.layers.{i}.weight", f"{dst_prefix}mask_embedder.{i}.0.weight"),
(f"{src_prefix}.mask_embed.layers.{i}.bias", f"{dst_prefix}mask_embedder.{i}.0.bias"),
]
)
logger.info(f"Replacing keys {pformat(renamed_keys)}")
self.pop_all(renamed_keys, dst_state_dict, src_state_dict)
def convert(self, mask_former: MaskFormerModel) -> MaskFormerModel:
dst_state_dict = TrackedStateDict(mask_former.state_dict())
src_state_dict = self.original_model.state_dict()
self.replace_pixel_module(dst_state_dict, src_state_dict)
self.replace_transformer_module(dst_state_dict, src_state_dict)
logger.info(f"Missed keys are {pformat(dst_state_dict.diff())}")
logger.info(f"Not copied keys are {pformat(src_state_dict.keys())}")
logger.info("🙌 Done")
mask_former.load_state_dict(dst_state_dict)
return mask_former
def convert_instance_segmentation(
self, mask_former: MaskFormerForInstanceSegmentation
) -> MaskFormerForInstanceSegmentation:
dst_state_dict = TrackedStateDict(mask_former.state_dict())
src_state_dict = self.original_model.state_dict()
self.replace_instance_segmentation_module(dst_state_dict, src_state_dict)
mask_former.load_state_dict(dst_state_dict)
return mask_former
@staticmethod
def using_dirs(checkpoints_dir: Path, config_dir: Path) -> Iterator[Tuple[object, Path, Path]]:
checkpoints: List[Path] = checkpoints_dir.glob("**/*.pkl")
for checkpoint in checkpoints:
logger.info(f"💪 Converting {checkpoint.stem}")
# find associated config file
config: Path = config_dir / checkpoint.parents[0].stem / "swin" / f"{checkpoint.stem}.yaml"
yield config, checkpoint
def test(original_model, our_model: MaskFormerForInstanceSegmentation, image_processor: MaskFormerImageProcessor):
with torch.no_grad():
original_model = original_model.eval()
our_model = our_model.eval()
im = prepare_img()
tr = T.Compose(
[
T.Resize((384, 384)),
T.ToTensor(),
T.Normalize(
mean=torch.tensor([123.675, 116.280, 103.530]) / 255.0,
std=torch.tensor([58.395, 57.120, 57.375]) / 255.0,
),
],
)
x = tr(im).unsqueeze(0)
original_model_backbone_features = original_model.backbone(x.clone())
our_model_output: MaskFormerModelOutput = our_model.model(x.clone(), output_hidden_states=True)
for original_model_feature, our_model_feature in zip(
original_model_backbone_features.values(), our_model_output.encoder_hidden_states
):
assert torch.allclose(
original_model_feature, our_model_feature, atol=1e-3
), "The backbone features are not the same."
original_model_pixel_out = original_model.sem_seg_head.pixel_decoder.forward_features(
original_model_backbone_features
)
assert torch.allclose(
original_model_pixel_out[0], our_model_output.pixel_decoder_last_hidden_state, atol=1e-4
), "The pixel decoder feature are not the same"
# let's test the full model
original_model_out = original_model([{"image": x.squeeze(0)}])
original_segmentation = original_model_out[0]["sem_seg"]
our_model_out: MaskFormerForInstanceSegmentationOutput = our_model(x)
our_segmentation = image_processor.post_process_segmentation(our_model_out, target_size=(384, 384))
assert torch.allclose(
original_segmentation, our_segmentation, atol=1e-3
), "The segmentation image is not the same."
logger.info("✅ Test passed!")
def get_name(checkpoint_file: Path):
model_name_raw: str = checkpoint_file.stem
# model_name_raw is something like maskformer_panoptic_swin_base_IN21k_384_bs64_554k
parent_name: str = checkpoint_file.parents[0].stem
backbone = "swin"
dataset = ""
if "coco" in parent_name:
dataset = "coco"
elif "ade" in parent_name:
dataset = "ade"
else:
raise ValueError(f"{parent_name} must be wrong since we didn't find 'coco' or 'ade' in it ")
backbone_types = ["tiny", "small", "base", "large"]
backbone_type = list(filter(lambda x: x in model_name_raw, backbone_types))[0]
model_name = f"maskformer-{backbone}-{backbone_type}-{dataset}"
return model_name
if __name__ == "__main__":
parser = ArgumentParser(
description="Command line to convert the original maskformers (with swin backbone) to our implementations."
)
parser.add_argument(
"--checkpoints_dir",
type=Path,
help=(
"A directory containing the model's checkpoints. The directory has to have the following structure:"
" <DIR_NAME>/<DATASET_NAME>/<CONFIG_NAME>.pkl"
),
)
parser.add_argument(
"--configs_dir",
type=Path,
help=(
"A directory containing the model's configs, see detectron2 doc. The directory has to have the following"
" structure: <DIR_NAME>/<DATASET_NAME>/<CONFIG_NAME>.yaml"
),
)
parser.add_argument(
"--pytorch_dump_folder_path",
required=True,
type=Path,
help="Path to the folder to output PyTorch models.",
)
parser.add_argument(
"--maskformer_dir",
required=True,
type=Path,
help=(
"A path to MaskFormer's original implementation directory. You can download from here:"
" https://github.com/facebookresearch/MaskFormer"
),
)
args = parser.parse_args()
checkpoints_dir: Path = args.checkpoints_dir
config_dir: Path = args.configs_dir
save_directory: Path = args.pytorch_dump_folder_path
maskformer_dir: Path = args.maskformer_dir
# append the path to the parents to maskformer dir
sys.path.append(str(maskformer_dir.parent))
# and import what's needed
from MaskFormer.mask_former import add_mask_former_config
from MaskFormer.mask_former.mask_former_model import MaskFormer as OriginalMaskFormer
if not save_directory.exists():
save_directory.mkdir(parents=True)
for config_file, checkpoint_file in OriginalMaskFormerCheckpointToOursConverter.using_dirs(
checkpoints_dir, config_dir
):
image_processor = OriginalMaskFormerConfigToImageProcessorConverter()(setup_cfg(Args(config_file=config_file)))
original_config = setup_cfg(Args(config_file=config_file))
mask_former_kwargs = OriginalMaskFormer.from_config(original_config)
original_model = OriginalMaskFormer(**mask_former_kwargs).eval()
DetectionCheckpointer(original_model).load(str(checkpoint_file))
config: MaskFormerConfig = OriginalMaskFormerConfigToOursConverter()(original_config)
mask_former = MaskFormerModel(config=config).eval()
converter = OriginalMaskFormerCheckpointToOursConverter(original_model, config)
maskformer = converter.convert(mask_former)
mask_former_for_instance_segmentation = MaskFormerForInstanceSegmentation(config=config).eval()
mask_former_for_instance_segmentation.model = mask_former
mask_former_for_instance_segmentation = converter.convert_instance_segmentation(
mask_former_for_instance_segmentation
)
test(original_model, mask_former_for_instance_segmentation, image_processor)
model_name = get_name(checkpoint_file)
logger.info(f"🪄 Saving {model_name}")
image_processor.save_pretrained(save_directory / model_name)
mask_former_for_instance_segmentation.save_pretrained(save_directory / model_name)
image_processor.push_to_hub(
repo_path_or_name=save_directory / model_name,
commit_message="Add model",
use_temp_dir=True,
)
mask_former_for_instance_segmentation.push_to_hub(
repo_path_or_name=save_directory / model_name,
commit_message="Add model",
use_temp_dir=True,
)
| transformers-main | src/transformers/models/maskformer/convert_maskformer_original_pytorch_checkpoint_to_pytorch.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" MaskFormer Swin Transformer model configuration"""
from ...configuration_utils import PretrainedConfig
from ...utils import logging
from ...utils.backbone_utils import BackboneConfigMixin, get_aligned_output_features_output_indices
logger = logging.get_logger(__name__)
class MaskFormerSwinConfig(BackboneConfigMixin, PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`MaskFormerSwinModel`]. It is used to instantiate
a Donut model according to the specified arguments, defining the model architecture. Instantiating a configuration
with the defaults will yield a similar configuration to that of the Swin
[microsoft/swin-tiny-patch4-window7-224](https://huggingface.co/microsoft/swin-tiny-patch4-window7-224)
architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
image_size (`int`, *optional*, defaults to 224):
The size (resolution) of each image.
patch_size (`int`, *optional*, defaults to 4):
The size (resolution) of each patch.
num_channels (`int`, *optional*, defaults to 3):
The number of input channels.
embed_dim (`int`, *optional*, defaults to 96):
Dimensionality of patch embedding.
depths (`List[int]`, *optional*, defaults to `[2, 2, 6, 2]`):
Depth of each layer in the Transformer encoder.
num_heads (`List[int]`, *optional*, defaults to `[3, 6, 12, 24]`):
Number of attention heads in each layer of the Transformer encoder.
window_size (`int`, *optional*, defaults to 7):
Size of windows.
mlp_ratio (`float`, *optional*, defaults to 4.0):
Ratio of MLP hidden dimensionality to embedding dimensionality.
qkv_bias (`bool`, *optional*, defaults to True):
Whether or not a learnable bias should be added to the queries, keys and values.
hidden_dropout_prob (`float`, *optional*, defaults to 0.0):
The dropout probability for all fully connected layers in the embeddings and encoder.
attention_probs_dropout_prob (`float`, *optional*, defaults to 0.0):
The dropout ratio for the attention probabilities.
drop_path_rate (`float`, *optional*, defaults to 0.1):
Stochastic depth rate.
hidden_act (`str` or `function`, *optional*, defaults to `"gelu"`):
The non-linear activation function (function or string) in the encoder. If string, `"gelu"`, `"relu"`,
`"selu"` and `"gelu_new"` are supported.
use_absolute_embeddings (`bool`, *optional*, defaults to False):
Whether or not to add absolute position embeddings to the patch embeddings.
initializer_range (`float`, *optional*, defaults to 0.02):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
layer_norm_eps (`float`, *optional*, defaults to 1e-12):
The epsilon used by the layer normalization layers.
out_features (`List[str]`, *optional*):
If used as backbone, list of features to output. Can be any of `"stem"`, `"stage1"`, `"stage2"`, etc.
(depending on how many stages the model has). If unset and `out_indices` is set, will default to the
corresponding stages. If unset and `out_indices` is unset, will default to the last stage.
out_indices (`List[int]`, *optional*):
If used as backbone, list of indices of features to output. Can be any of 0, 1, 2, etc. (depending on how
many stages the model has). If unset and `out_features` is set, will default to the corresponding stages.
If unset and `out_features` is unset, will default to the last stage.
Example:
```python
>>> from transformers import MaskFormerSwinConfig, MaskFormerSwinModel
>>> # Initializing a microsoft/swin-tiny-patch4-window7-224 style configuration
>>> configuration = MaskFormerSwinConfig()
>>> # Initializing a model (with random weights) from the microsoft/swin-tiny-patch4-window7-224 style configuration
>>> model = MaskFormerSwinModel(configuration)
>>> # Accessing the model configuration
>>> configuration = model.config
```"""
model_type = "maskformer-swin"
attribute_map = {
"num_attention_heads": "num_heads",
"num_hidden_layers": "num_layers",
}
def __init__(
self,
image_size=224,
patch_size=4,
num_channels=3,
embed_dim=96,
depths=[2, 2, 6, 2],
num_heads=[3, 6, 12, 24],
window_size=7,
mlp_ratio=4.0,
qkv_bias=True,
hidden_dropout_prob=0.0,
attention_probs_dropout_prob=0.0,
drop_path_rate=0.1,
hidden_act="gelu",
use_absolute_embeddings=False,
initializer_range=0.02,
layer_norm_eps=1e-5,
out_features=None,
out_indices=None,
**kwargs,
):
super().__init__(**kwargs)
self.image_size = image_size
self.patch_size = patch_size
self.num_channels = num_channels
self.embed_dim = embed_dim
self.depths = depths
self.num_layers = len(depths)
self.num_heads = num_heads
self.window_size = window_size
self.mlp_ratio = mlp_ratio
self.qkv_bias = qkv_bias
self.hidden_dropout_prob = hidden_dropout_prob
self.attention_probs_dropout_prob = attention_probs_dropout_prob
self.drop_path_rate = drop_path_rate
self.hidden_act = hidden_act
self.use_absolute_embeddings = use_absolute_embeddings
self.layer_norm_eps = layer_norm_eps
self.initializer_range = initializer_range
# we set the hidden_size attribute in order to make Swin work with VisionEncoderDecoderModel
# this indicates the channel dimension after the last stage of the model
self.hidden_size = int(embed_dim * 2 ** (len(depths) - 1))
self.stage_names = ["stem"] + [f"stage{idx}" for idx in range(1, len(depths) + 1)]
self._out_features, self._out_indices = get_aligned_output_features_output_indices(
out_features=out_features, out_indices=out_indices, stage_names=self.stage_names
)
| transformers-main | src/transformers/models/maskformer/configuration_maskformer_swin.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Image processor class for MaskFormer."""
import math
import warnings
from typing import TYPE_CHECKING, Any, Dict, Iterable, List, Optional, Set, Tuple, Union
import numpy as np
from ...image_processing_utils import BaseImageProcessor, BatchFeature, get_size_dict
from ...image_transforms import (
PaddingMode,
get_resize_output_image_size,
pad,
rescale,
resize,
to_channel_dimension_format,
)
from ...image_utils import (
ChannelDimension,
ImageInput,
PILImageResampling,
get_image_size,
infer_channel_dimension_format,
make_list_of_images,
to_numpy_array,
valid_images,
)
from ...utils import (
IMAGENET_DEFAULT_MEAN,
IMAGENET_DEFAULT_STD,
TensorType,
is_torch_available,
is_torch_tensor,
logging,
)
logger = logging.get_logger(__name__)
if TYPE_CHECKING:
from transformers import MaskFormerForInstanceSegmentationOutput
if is_torch_available():
import torch
from torch import nn
# Copied from transformers.models.detr.image_processing_detr.max_across_indices
def max_across_indices(values: Iterable[Any]) -> List[Any]:
"""
Return the maximum value across all indices of an iterable of values.
"""
return [max(values_i) for values_i in zip(*values)]
# Copied from transformers.models.detr.image_processing_detr.get_max_height_width
def get_max_height_width(images: List[np.ndarray]) -> List[int]:
"""
Get the maximum height and width across all images in a batch.
"""
input_channel_dimension = infer_channel_dimension_format(images[0])
if input_channel_dimension == ChannelDimension.FIRST:
_, max_height, max_width = max_across_indices([img.shape for img in images])
elif input_channel_dimension == ChannelDimension.LAST:
max_height, max_width, _ = max_across_indices([img.shape for img in images])
else:
raise ValueError(f"Invalid channel dimension format: {input_channel_dimension}")
return (max_height, max_width)
# Copied from transformers.models.detr.image_processing_detr.make_pixel_mask
def make_pixel_mask(image: np.ndarray, output_size: Tuple[int, int]) -> np.ndarray:
"""
Make a pixel mask for the image, where 1 indicates a valid pixel and 0 indicates padding.
Args:
image (`np.ndarray`):
Image to make the pixel mask for.
output_size (`Tuple[int, int]`):
Output size of the mask.
"""
input_height, input_width = get_image_size(image)
mask = np.zeros(output_size, dtype=np.int64)
mask[:input_height, :input_width] = 1
return mask
# Copied from transformers.models.detr.image_processing_detr.binary_mask_to_rle
def binary_mask_to_rle(mask):
"""
Converts given binary mask of shape `(height, width)` to the run-length encoding (RLE) format.
Args:
mask (`torch.Tensor` or `numpy.array`):
A binary mask tensor of shape `(height, width)` where 0 denotes background and 1 denotes the target
segment_id or class_id.
Returns:
`List`: Run-length encoded list of the binary mask. Refer to COCO API for more information about the RLE
format.
"""
if is_torch_tensor(mask):
mask = mask.numpy()
pixels = mask.flatten()
pixels = np.concatenate([[0], pixels, [0]])
runs = np.where(pixels[1:] != pixels[:-1])[0] + 1
runs[1::2] -= runs[::2]
return list(runs)
# Copied from transformers.models.detr.image_processing_detr.convert_segmentation_to_rle
def convert_segmentation_to_rle(segmentation):
"""
Converts given segmentation map of shape `(height, width)` to the run-length encoding (RLE) format.
Args:
segmentation (`torch.Tensor` or `numpy.array`):
A segmentation map of shape `(height, width)` where each value denotes a segment or class id.
Returns:
`List[List]`: A list of lists, where each list is the run-length encoding of a segment / class id.
"""
segment_ids = torch.unique(segmentation)
run_length_encodings = []
for idx in segment_ids:
mask = torch.where(segmentation == idx, 1, 0)
rle = binary_mask_to_rle(mask)
run_length_encodings.append(rle)
return run_length_encodings
# Copied from transformers.models.detr.image_processing_detr.remove_low_and_no_objects
def remove_low_and_no_objects(masks, scores, labels, object_mask_threshold, num_labels):
"""
Binarize the given masks using `object_mask_threshold`, it returns the associated values of `masks`, `scores` and
`labels`.
Args:
masks (`torch.Tensor`):
A tensor of shape `(num_queries, height, width)`.
scores (`torch.Tensor`):
A tensor of shape `(num_queries)`.
labels (`torch.Tensor`):
A tensor of shape `(num_queries)`.
object_mask_threshold (`float`):
A number between 0 and 1 used to binarize the masks.
Raises:
`ValueError`: Raised when the first dimension doesn't match in all input tensors.
Returns:
`Tuple[`torch.Tensor`, `torch.Tensor`, `torch.Tensor`]`: The `masks`, `scores` and `labels` without the region
< `object_mask_threshold`.
"""
if not (masks.shape[0] == scores.shape[0] == labels.shape[0]):
raise ValueError("mask, scores and labels must have the same shape!")
to_keep = labels.ne(num_labels) & (scores > object_mask_threshold)
return masks[to_keep], scores[to_keep], labels[to_keep]
# Copied from transformers.models.detr.image_processing_detr.check_segment_validity
def check_segment_validity(mask_labels, mask_probs, k, mask_threshold=0.5, overlap_mask_area_threshold=0.8):
# Get the mask associated with the k class
mask_k = mask_labels == k
mask_k_area = mask_k.sum()
# Compute the area of all the stuff in query k
original_area = (mask_probs[k] >= mask_threshold).sum()
mask_exists = mask_k_area > 0 and original_area > 0
# Eliminate disconnected tiny segments
if mask_exists:
area_ratio = mask_k_area / original_area
if not area_ratio.item() > overlap_mask_area_threshold:
mask_exists = False
return mask_exists, mask_k
# Copied from transformers.models.detr.image_processing_detr.compute_segments
def compute_segments(
mask_probs,
pred_scores,
pred_labels,
mask_threshold: float = 0.5,
overlap_mask_area_threshold: float = 0.8,
label_ids_to_fuse: Optional[Set[int]] = None,
target_size: Tuple[int, int] = None,
):
height = mask_probs.shape[1] if target_size is None else target_size[0]
width = mask_probs.shape[2] if target_size is None else target_size[1]
segmentation = torch.zeros((height, width), dtype=torch.int32, device=mask_probs.device)
segments: List[Dict] = []
if target_size is not None:
mask_probs = nn.functional.interpolate(
mask_probs.unsqueeze(0), size=target_size, mode="bilinear", align_corners=False
)[0]
current_segment_id = 0
# Weigh each mask by its prediction score
mask_probs *= pred_scores.view(-1, 1, 1)
mask_labels = mask_probs.argmax(0) # [height, width]
# Keep track of instances of each class
stuff_memory_list: Dict[str, int] = {}
for k in range(pred_labels.shape[0]):
pred_class = pred_labels[k].item()
should_fuse = pred_class in label_ids_to_fuse
# Check if mask exists and large enough to be a segment
mask_exists, mask_k = check_segment_validity(
mask_labels, mask_probs, k, mask_threshold, overlap_mask_area_threshold
)
if mask_exists:
if pred_class in stuff_memory_list:
current_segment_id = stuff_memory_list[pred_class]
else:
current_segment_id += 1
# Add current object segment to final segmentation map
segmentation[mask_k] = current_segment_id
segment_score = round(pred_scores[k].item(), 6)
segments.append(
{
"id": current_segment_id,
"label_id": pred_class,
"was_fused": should_fuse,
"score": segment_score,
}
)
if should_fuse:
stuff_memory_list[pred_class] = current_segment_id
return segmentation, segments
# TODO: (Amy) Move to image_transforms
def convert_segmentation_map_to_binary_masks(
segmentation_map: "np.ndarray",
instance_id_to_semantic_id: Optional[Dict[int, int]] = None,
ignore_index: Optional[int] = None,
reduce_labels: bool = False,
):
if reduce_labels and ignore_index is None:
raise ValueError("If `reduce_labels` is True, `ignore_index` must be provided.")
if reduce_labels:
segmentation_map = np.where(segmentation_map == 0, ignore_index, segmentation_map - 1)
# Get unique ids (class or instance ids based on input)
all_labels = np.unique(segmentation_map)
# Drop background label if applicable
if ignore_index is not None:
all_labels = all_labels[all_labels != ignore_index]
# Generate a binary mask for each object instance
binary_masks = [(segmentation_map == i) for i in all_labels]
binary_masks = np.stack(binary_masks, axis=0) # (num_labels, height, width)
# Convert instance ids to class ids
if instance_id_to_semantic_id is not None:
labels = np.zeros(all_labels.shape[0])
for label in all_labels:
class_id = instance_id_to_semantic_id[label + 1 if reduce_labels else label]
labels[all_labels == label] = class_id - 1 if reduce_labels else class_id
else:
labels = all_labels
return binary_masks.astype(np.float32), labels.astype(np.int64)
def get_maskformer_resize_output_image_size(
image: np.ndarray,
size: Union[int, Tuple[int, int], List[int], Tuple[int]],
max_size: Optional[int] = None,
size_divisor: int = 0,
default_to_square: bool = True,
) -> tuple:
"""
Computes the output size given the desired size.
Args:
input_image (`np.ndarray`):
The input image.
size (`int`, `Tuple[int, int]`, `List[int]`, `Tuple[int]`):
The size of the output image.
default_to_square (`bool`, *optional*, defaults to `True`):
Whether to default to square if no size is provided.
max_size (`int`, *optional*):
The maximum size of the output image.
size_divisible (`int`, *optional*, defaults to `0`):
If size_divisible is given, the output image size will be divisible by the number.
Returns:
`Tuple[int, int]`: The output size.
"""
output_size = get_resize_output_image_size(
input_image=image, size=size, default_to_square=default_to_square, max_size=max_size
)
if size_divisor > 0:
height, width = output_size
height = int(math.ceil(height / size_divisor) * size_divisor)
width = int(math.ceil(width / size_divisor) * size_divisor)
output_size = (height, width)
return output_size
class MaskFormerImageProcessor(BaseImageProcessor):
r"""
Constructs a MaskFormer image processor. The image processor can be used to prepare image(s) and optional targets
for the model.
This image processor inherits from [`BaseImageProcessor`] which contains most of the main methods. Users should
refer to this superclass for more information regarding those methods.
Args:
do_resize (`bool`, *optional*, defaults to `True`):
Whether to resize the input to a certain `size`.
size (`int`, *optional*, defaults to 800):
Resize the input to the given size. Only has an effect if `do_resize` is set to `True`. If size is a
sequence like `(width, height)`, output size will be matched to this. If size is an int, smaller edge of
the image will be matched to this number. i.e, if `height > width`, then image will be rescaled to `(size *
height / width, size)`.
max_size (`int`, *optional*, defaults to 1333):
The largest size an image dimension can have (otherwise it's capped). Only has an effect if `do_resize` is
set to `True`.
resample (`int`, *optional*, defaults to `PIL.Image.Resampling.BILINEAR`):
An optional resampling filter. This can be one of `PIL.Image.Resampling.NEAREST`,
`PIL.Image.Resampling.BOX`, `PIL.Image.Resampling.BILINEAR`, `PIL.Image.Resampling.HAMMING`,
`PIL.Image.Resampling.BICUBIC` or `PIL.Image.Resampling.LANCZOS`. Only has an effect if `do_resize` is set
to `True`.
size_divisor (`int`, *optional*, defaults to 32):
Some backbones need images divisible by a certain number. If not passed, it defaults to the value used in
Swin Transformer.
do_rescale (`bool`, *optional*, defaults to `True`):
Whether to rescale the input to a certain `scale`.
rescale_factor (`float`, *optional*, defaults to 1/ 255):
Rescale the input by the given factor. Only has an effect if `do_rescale` is set to `True`.
do_normalize (`bool`, *optional*, defaults to `True`):
Whether or not to normalize the input with mean and standard deviation.
image_mean (`int`, *optional*, defaults to `[0.485, 0.456, 0.406]`):
The sequence of means for each channel, to be used when normalizing images. Defaults to the ImageNet mean.
image_std (`int`, *optional*, defaults to `[0.229, 0.224, 0.225]`):
The sequence of standard deviations for each channel, to be used when normalizing images. Defaults to the
ImageNet std.
ignore_index (`int`, *optional*):
Label to be assigned to background pixels in segmentation maps. If provided, segmentation map pixels
denoted with 0 (background) will be replaced with `ignore_index`.
do_reduce_labels (`bool`, *optional*, defaults to `False`):
Whether or not to decrement all label values of segmentation maps by 1. Usually used for datasets where 0
is used for background, and background itself is not included in all classes of a dataset (e.g. ADE20k).
The background label will be replaced by `ignore_index`.
"""
model_input_names = ["pixel_values", "pixel_mask"]
def __init__(
self,
do_resize: bool = True,
size: Dict[str, int] = None,
size_divisor: int = 32,
resample: PILImageResampling = PILImageResampling.BILINEAR,
do_rescale: bool = True,
rescale_factor: float = 1 / 255,
do_normalize: bool = True,
image_mean: Union[float, List[float]] = None,
image_std: Union[float, List[float]] = None,
ignore_index: Optional[int] = None,
do_reduce_labels: bool = False,
**kwargs,
):
if "size_divisibility" in kwargs:
warnings.warn(
"The `size_divisibility` argument is deprecated and will be removed in v4.27. Please use "
"`size_divisor` instead.",
FutureWarning,
)
size_divisor = kwargs.pop("size_divisibility")
if "max_size" in kwargs:
warnings.warn(
"The `max_size` argument is deprecated and will be removed in v4.27. Please use size['longest_edge']"
" instead.",
FutureWarning,
)
# We make max_size a private attribute so we can pass it as a default value in the preprocess method whilst
# `size` can still be pass in as an int
self._max_size = kwargs.pop("max_size")
else:
self._max_size = 1333
if "reduce_labels" in kwargs:
warnings.warn(
"The `reduce_labels` argument is deprecated and will be removed in v4.27. Please use "
"`do_reduce_labels` instead.",
FutureWarning,
)
do_reduce_labels = kwargs.pop("reduce_labels")
size = size if size is not None else {"shortest_edge": 800, "longest_edge": self._max_size}
size = get_size_dict(size, max_size=self._max_size, default_to_square=False)
super().__init__(**kwargs)
self.do_resize = do_resize
self.size = size
self.resample = resample
self.size_divisor = size_divisor
self.do_rescale = do_rescale
self.rescale_factor = rescale_factor
self.do_normalize = do_normalize
self.image_mean = image_mean if image_mean is not None else IMAGENET_DEFAULT_MEAN
self.image_std = image_std if image_std is not None else IMAGENET_DEFAULT_STD
self.ignore_index = ignore_index
self.do_reduce_labels = do_reduce_labels
@classmethod
def from_dict(cls, image_processor_dict: Dict[str, Any], **kwargs):
"""
Overrides the `from_dict` method from the base class to make sure parameters are updated if image processor is
created using from_dict and kwargs e.g. `MaskFormerImageProcessor.from_pretrained(checkpoint, max_size=800)`
"""
image_processor_dict = image_processor_dict.copy()
if "max_size" in kwargs:
image_processor_dict["max_size"] = kwargs.pop("max_size")
if "size_divisibility" in kwargs:
image_processor_dict["size_divisibility"] = kwargs.pop("size_divisibility")
return super().from_dict(image_processor_dict, **kwargs)
def resize(
self,
image: np.ndarray,
size: Dict[str, int],
size_divisor: int = 0,
resample: PILImageResampling = PILImageResampling.BILINEAR,
data_format=None,
**kwargs,
) -> np.ndarray:
"""
Resize the image to the given size. Size can be min_size (scalar) or `(height, width)` tuple. If size is an
int, smaller edge of the image will be matched to this number.
"""
if "max_size" in kwargs:
warnings.warn(
"The `max_size` parameter is deprecated and will be removed in v4.27. "
"Please specify in `size['longest_edge'] instead`.",
FutureWarning,
)
max_size = kwargs.pop("max_size")
else:
max_size = None
size = get_size_dict(size, max_size=max_size, default_to_square=False)
if "shortest_edge" in size and "longest_edge" in size:
size, max_size = size["shortest_edge"], size["longest_edge"]
elif "height" in size and "width" in size:
size = (size["height"], size["width"])
max_size = None
else:
raise ValueError(
"Size must contain 'height' and 'width' keys or 'shortest_edge' and 'longest_edge' keys. Got"
f" {size.keys()}."
)
size = get_maskformer_resize_output_image_size(
image=image,
size=size,
max_size=max_size,
size_divisor=size_divisor,
default_to_square=False,
)
image = resize(image, size=size, resample=resample, data_format=data_format)
return image
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.rescale
def rescale(
self, image: np.ndarray, rescale_factor: float, data_format: Optional[Union[str, ChannelDimension]] = None
) -> np.ndarray:
"""
Rescale the image by the given factor. image = image * rescale_factor.
Args:
image (`np.ndarray`):
Image to rescale.
rescale_factor (`float`):
The value to use for rescaling.
data_format (`str` or `ChannelDimension`, *optional*):
The channel dimension format for the output image. If unset, the channel dimension format of the input
image is used. Can be one of:
- `"channels_first"` or `ChannelDimension.FIRST`: image in (num_channels, height, width) format.
- `"channels_last"` or `ChannelDimension.LAST`: image in (height, width, num_channels) format.
"""
return rescale(image, rescale_factor, data_format=data_format)
def convert_segmentation_map_to_binary_masks(
self,
segmentation_map: "np.ndarray",
instance_id_to_semantic_id: Optional[Dict[int, int]] = None,
ignore_index: Optional[int] = None,
reduce_labels: bool = False,
):
reduce_labels = reduce_labels if reduce_labels is not None else self.reduce_labels
ignore_index = ignore_index if ignore_index is not None else self.ignore_index
return convert_segmentation_map_to_binary_masks(
segmentation_map=segmentation_map,
instance_id_to_semantic_id=instance_id_to_semantic_id,
ignore_index=ignore_index,
reduce_labels=reduce_labels,
)
def __call__(self, images, segmentation_maps=None, **kwargs) -> BatchFeature:
return self.preprocess(images, segmentation_maps=segmentation_maps, **kwargs)
def _preprocess(
self,
image: ImageInput,
do_resize: bool = None,
size: Dict[str, int] = None,
size_divisor: int = None,
resample: PILImageResampling = None,
do_rescale: bool = None,
rescale_factor: float = None,
do_normalize: bool = None,
image_mean: Optional[Union[float, List[float]]] = None,
image_std: Optional[Union[float, List[float]]] = None,
):
if do_resize:
image = self.resize(image, size=size, size_divisor=size_divisor, resample=resample)
if do_rescale:
image = self.rescale(image, rescale_factor=rescale_factor)
if do_normalize:
image = self.normalize(image, mean=image_mean, std=image_std)
return image
def _preprocess_image(
self,
image: ImageInput,
do_resize: bool = None,
size: Dict[str, int] = None,
size_divisor: int = None,
resample: PILImageResampling = None,
do_rescale: bool = None,
rescale_factor: float = None,
do_normalize: bool = None,
image_mean: Optional[Union[float, List[float]]] = None,
image_std: Optional[Union[float, List[float]]] = None,
data_format: Optional[Union[str, ChannelDimension]] = None,
) -> np.ndarray:
"""Preprocesses a single image."""
# All transformations expect numpy arrays.
image = to_numpy_array(image)
image = self._preprocess(
image=image,
do_resize=do_resize,
size=size,
size_divisor=size_divisor,
resample=resample,
do_rescale=do_rescale,
rescale_factor=rescale_factor,
do_normalize=do_normalize,
image_mean=image_mean,
image_std=image_std,
)
if data_format is not None:
image = to_channel_dimension_format(image, data_format)
return image
def _preprocess_mask(
self,
segmentation_map: ImageInput,
do_resize: bool = None,
size: Dict[str, int] = None,
size_divisor: int = 0,
) -> np.ndarray:
"""Preprocesses a single mask."""
segmentation_map = to_numpy_array(segmentation_map)
# Add channel dimension if missing - needed for certain transformations
added_channel_dim = False
if segmentation_map.ndim == 2:
added_channel_dim = True
segmentation_map = segmentation_map[None, ...]
# TODO: (Amy)
# Remork segmentation map processing to include reducing labels and resizing which doesn't
# drop segment IDs > 255.
segmentation_map = self._preprocess(
image=segmentation_map,
do_resize=do_resize,
resample=PILImageResampling.NEAREST,
size=size,
size_divisor=size_divisor,
do_rescale=False,
do_normalize=False,
)
# Remove extra channel dimension if added for processing
if added_channel_dim:
segmentation_map = segmentation_map.squeeze(0)
return segmentation_map
def preprocess(
self,
images: ImageInput,
segmentation_maps: Optional[ImageInput] = None,
instance_id_to_semantic_id: Optional[Dict[int, int]] = None,
do_resize: Optional[bool] = None,
size: Optional[Dict[str, int]] = None,
size_divisor: Optional[int] = None,
resample: PILImageResampling = None,
do_rescale: Optional[bool] = None,
rescale_factor: Optional[float] = None,
do_normalize: Optional[bool] = None,
image_mean: Optional[Union[float, List[float]]] = None,
image_std: Optional[Union[float, List[float]]] = None,
ignore_index: Optional[int] = None,
do_reduce_labels: Optional[bool] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
data_format: Union[str, ChannelDimension] = ChannelDimension.FIRST,
**kwargs,
) -> BatchFeature:
if "pad_and_return_pixel_mask" in kwargs:
warnings.warn(
"The `pad_and_return_pixel_mask` argument is deprecated and will be removed in v4.27",
FutureWarning,
)
if "reduce_labels" in kwargs:
warnings.warn(
"The `reduce_labels` argument is deprecated and will be removed in v4.27. Please use"
" `do_reduce_labels` instead.",
FutureWarning,
)
if do_reduce_labels is not None:
raise ValueError(
"Cannot use both `reduce_labels` and `do_reduce_labels`. Please use `do_reduce_labels` instead."
)
do_resize = do_resize if do_resize is not None else self.do_resize
size = size if size is not None else self.size
size = get_size_dict(size, default_to_square=False, max_size=self._max_size)
size_divisor = size_divisor if size_divisor is not None else self.size_divisor
resample = resample if resample is not None else self.resample
do_rescale = do_rescale if do_rescale is not None else self.do_rescale
rescale_factor = rescale_factor if rescale_factor is not None else self.rescale_factor
do_normalize = do_normalize if do_normalize is not None else self.do_normalize
image_mean = image_mean if image_mean is not None else self.image_mean
image_std = image_std if image_std is not None else self.image_std
ignore_index = ignore_index if ignore_index is not None else self.ignore_index
do_reduce_labels = do_reduce_labels if do_reduce_labels is not None else self.do_reduce_labels
if do_resize is not None and size is None or size_divisor is None:
raise ValueError("If `do_resize` is True, `size` and `size_divisor` must be provided.")
if do_rescale is not None and rescale_factor is None:
raise ValueError("If `do_rescale` is True, `rescale_factor` must be provided.")
if do_normalize is not None and (image_mean is None or image_std is None):
raise ValueError("If `do_normalize` is True, `image_mean` and `image_std` must be provided.")
if not valid_images(images):
raise ValueError(
"Invalid image type. Must be of type PIL.Image.Image, numpy.ndarray, "
"torch.Tensor, tf.Tensor or jax.ndarray."
)
if segmentation_maps is not None and not valid_images(segmentation_maps):
raise ValueError(
"Invalid segmentation map type. Must be of type PIL.Image.Image, numpy.ndarray, "
"torch.Tensor, tf.Tensor or jax.ndarray."
)
images = make_list_of_images(images)
if segmentation_maps is not None:
segmentation_maps = make_list_of_images(segmentation_maps, expected_ndims=2)
if segmentation_maps is not None and len(images) != len(segmentation_maps):
raise ValueError("Images and segmentation maps must have the same length.")
images = [
self._preprocess_image(
image,
do_resize=do_resize,
size=size,
size_divisor=size_divisor,
resample=resample,
do_rescale=do_rescale,
rescale_factor=rescale_factor,
do_normalize=do_normalize,
image_mean=image_mean,
image_std=image_std,
data_format=data_format,
)
for image in images
]
if segmentation_maps is not None:
segmentation_maps = [
self._preprocess_mask(segmentation_map, do_resize, size, size_divisor)
for segmentation_map in segmentation_maps
]
encoded_inputs = self.encode_inputs(
images, segmentation_maps, instance_id_to_semantic_id, ignore_index, do_reduce_labels, return_tensors
)
return encoded_inputs
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor._pad_image
def _pad_image(
self,
image: np.ndarray,
output_size: Tuple[int, int],
constant_values: Union[float, Iterable[float]] = 0,
data_format: Optional[ChannelDimension] = None,
) -> np.ndarray:
"""
Pad an image with zeros to the given size.
"""
input_height, input_width = get_image_size(image)
output_height, output_width = output_size
pad_bottom = output_height - input_height
pad_right = output_width - input_width
padding = ((0, pad_bottom), (0, pad_right))
padded_image = pad(
image, padding, mode=PaddingMode.CONSTANT, constant_values=constant_values, data_format=data_format
)
return padded_image
# Copied from transformers.models.detr.image_processing_detr.DetrImageProcessor.pad
def pad(
self,
images: List[np.ndarray],
constant_values: Union[float, Iterable[float]] = 0,
return_pixel_mask: bool = True,
return_tensors: Optional[Union[str, TensorType]] = None,
data_format: Optional[ChannelDimension] = None,
) -> BatchFeature:
"""
Pads a batch of images to the bottom and right of the image with zeros to the size of largest height and width
in the batch and optionally returns their corresponding pixel mask.
Args:
image (`np.ndarray`):
Image to pad.
constant_values (`float` or `Iterable[float]`, *optional*):
The value to use for the padding if `mode` is `"constant"`.
return_pixel_mask (`bool`, *optional*, defaults to `True`):
Whether to return a pixel mask.
return_tensors (`str` or `TensorType`, *optional*):
The type of tensors to return. Can be one of:
- Unset: Return a list of `np.ndarray`.
- `TensorType.TENSORFLOW` or `'tf'`: Return a batch of type `tf.Tensor`.
- `TensorType.PYTORCH` or `'pt'`: Return a batch of type `torch.Tensor`.
- `TensorType.NUMPY` or `'np'`: Return a batch of type `np.ndarray`.
- `TensorType.JAX` or `'jax'`: Return a batch of type `jax.numpy.ndarray`.
data_format (`str` or `ChannelDimension`, *optional*):
The channel dimension format of the image. If not provided, it will be the same as the input image.
"""
pad_size = get_max_height_width(images)
padded_images = [
self._pad_image(image, pad_size, constant_values=constant_values, data_format=data_format)
for image in images
]
data = {"pixel_values": padded_images}
if return_pixel_mask:
masks = [make_pixel_mask(image=image, output_size=pad_size) for image in images]
data["pixel_mask"] = masks
return BatchFeature(data=data, tensor_type=return_tensors)
def encode_inputs(
self,
pixel_values_list: List[ImageInput],
segmentation_maps: ImageInput = None,
instance_id_to_semantic_id: Optional[Union[List[Dict[int, int]], Dict[int, int]]] = None,
ignore_index: Optional[int] = None,
reduce_labels: bool = False,
return_tensors: Optional[Union[str, TensorType]] = None,
):
"""
Pad images up to the largest image in a batch and create a corresponding `pixel_mask`.
MaskFormer addresses semantic segmentation with a mask classification paradigm, thus input segmentation maps
will be converted to lists of binary masks and their respective labels. Let's see an example, assuming
`segmentation_maps = [[2,6,7,9]]`, the output will contain `mask_labels =
[[1,0,0,0],[0,1,0,0],[0,0,1,0],[0,0,0,1]]` (four binary masks) and `class_labels = [2,6,7,9]`, the labels for
each mask.
Args:
pixel_values_list (`List[ImageInput]`):
List of images (pixel values) to be padded. Each image should be a tensor of shape `(channels, height,
width)`.
segmentation_maps (`ImageInput`, *optional*):
The corresponding semantic segmentation maps with the pixel-wise annotations.
(`bool`, *optional*, defaults to `True`):
Whether or not to pad images up to the largest image in a batch and create a pixel mask.
If left to the default, will return a pixel mask that is:
- 1 for pixels that are real (i.e. **not masked**),
- 0 for pixels that are padding (i.e. **masked**).
instance_id_to_semantic_id (`List[Dict[int, int]]` or `Dict[int, int]`, *optional*):
A mapping between object instance ids and class ids. If passed, `segmentation_maps` is treated as an
instance segmentation map where each pixel represents an instance id. Can be provided as a single
dictionary with a global/dataset-level mapping or as a list of dictionaries (one per image), to map
instance ids in each image separately.
return_tensors (`str` or [`~file_utils.TensorType`], *optional*):
If set, will return tensors instead of NumPy arrays. If set to `'pt'`, return PyTorch `torch.Tensor`
objects.
Returns:
[`BatchFeature`]: A [`BatchFeature`] with the following fields:
- **pixel_values** -- Pixel values to be fed to a model.
- **pixel_mask** -- Pixel mask to be fed to a model (when `=True` or if `pixel_mask` is in
`self.model_input_names`).
- **mask_labels** -- Optional list of mask labels of shape `(labels, height, width)` to be fed to a model
(when `annotations` are provided).
- **class_labels** -- Optional list of class labels of shape `(labels)` to be fed to a model (when
`annotations` are provided). They identify the labels of `mask_labels`, e.g. the label of
`mask_labels[i][j]` if `class_labels[i][j]`.
"""
ignore_index = self.ignore_index if ignore_index is None else ignore_index
reduce_labels = self.do_reduce_labels if reduce_labels is None else reduce_labels
pixel_values_list = [to_numpy_array(pixel_values) for pixel_values in pixel_values_list]
encoded_inputs = self.pad(pixel_values_list, return_tensors=return_tensors)
if segmentation_maps is not None:
mask_labels = []
class_labels = []
pad_size = get_max_height_width(pixel_values_list)
# Convert to list of binary masks and labels
for idx, segmentation_map in enumerate(segmentation_maps):
segmentation_map = to_numpy_array(segmentation_map)
if isinstance(instance_id_to_semantic_id, list):
instance_id = instance_id_to_semantic_id[idx]
else:
instance_id = instance_id_to_semantic_id
# Use instance2class_id mapping per image
masks, classes = self.convert_segmentation_map_to_binary_masks(
segmentation_map, instance_id, ignore_index=ignore_index, reduce_labels=reduce_labels
)
# We add an axis to make them compatible with the transformations library
# this will be removed in the future
masks = [mask[None, ...] for mask in masks]
masks = [
self._pad_image(image=mask, output_size=pad_size, constant_values=ignore_index) for mask in masks
]
masks = np.concatenate(masks, axis=0)
mask_labels.append(torch.from_numpy(masks))
class_labels.append(torch.from_numpy(classes))
# we cannot batch them since they don't share a common class size
encoded_inputs["mask_labels"] = mask_labels
encoded_inputs["class_labels"] = class_labels
return encoded_inputs
def post_process_segmentation(
self, outputs: "MaskFormerForInstanceSegmentationOutput", target_size: Tuple[int, int] = None
) -> "torch.Tensor":
"""
Converts the output of [`MaskFormerForInstanceSegmentationOutput`] into image segmentation predictions. Only
supports PyTorch.
Args:
outputs ([`MaskFormerForInstanceSegmentationOutput`]):
The outputs from [`MaskFormerForInstanceSegmentation`].
target_size (`Tuple[int, int]`, *optional*):
If set, the `masks_queries_logits` will be resized to `target_size`.
Returns:
`torch.Tensor`:
A tensor of shape (`batch_size, num_class_labels, height, width`).
"""
logger.warning(
"`post_process_segmentation` is deprecated and will be removed in v5 of Transformers, please use"
" `post_process_instance_segmentation`",
FutureWarning,
)
# class_queries_logits has shape [BATCH, QUERIES, CLASSES + 1]
class_queries_logits = outputs.class_queries_logits
# masks_queries_logits has shape [BATCH, QUERIES, HEIGHT, WIDTH]
masks_queries_logits = outputs.masks_queries_logits
if target_size is not None:
masks_queries_logits = torch.nn.functional.interpolate(
masks_queries_logits,
size=target_size,
mode="bilinear",
align_corners=False,
)
# remove the null class `[..., :-1]`
masks_classes = class_queries_logits.softmax(dim=-1)[..., :-1]
# mask probs has shape [BATCH, QUERIES, HEIGHT, WIDTH]
masks_probs = masks_queries_logits.sigmoid()
# now we want to sum over the queries,
# $ out_{c,h,w} = \sum_q p_{q,c} * m_{q,h,w} $
# where $ softmax(p) \in R^{q, c} $ is the mask classes
# and $ sigmoid(m) \in R^{q, h, w}$ is the mask probabilities
# b(atch)q(uery)c(lasses), b(atch)q(uery)h(eight)w(idth)
segmentation = torch.einsum("bqc, bqhw -> bchw", masks_classes, masks_probs)
return segmentation
def post_process_semantic_segmentation(
self, outputs, target_sizes: Optional[List[Tuple[int, int]]] = None
) -> "torch.Tensor":
"""
Converts the output of [`MaskFormerForInstanceSegmentation`] into semantic segmentation maps. Only supports
PyTorch.
Args:
outputs ([`MaskFormerForInstanceSegmentation`]):
Raw outputs of the model.
target_sizes (`List[Tuple[int, int]]`, *optional*):
List of length (batch_size), where each list item (`Tuple[int, int]]`) corresponds to the requested
final size (height, width) of each prediction. If left to None, predictions will not be resized.
Returns:
`List[torch.Tensor]`:
A list of length `batch_size`, where each item is a semantic segmentation map of shape (height, width)
corresponding to the target_sizes entry (if `target_sizes` is specified). Each entry of each
`torch.Tensor` correspond to a semantic class id.
"""
class_queries_logits = outputs.class_queries_logits # [batch_size, num_queries, num_classes+1]
masks_queries_logits = outputs.masks_queries_logits # [batch_size, num_queries, height, width]
# Remove the null class `[..., :-1]`
masks_classes = class_queries_logits.softmax(dim=-1)[..., :-1]
masks_probs = masks_queries_logits.sigmoid() # [batch_size, num_queries, height, width]
# Semantic segmentation logits of shape (batch_size, num_classes, height, width)
segmentation = torch.einsum("bqc, bqhw -> bchw", masks_classes, masks_probs)
batch_size = class_queries_logits.shape[0]
# Resize logits and compute semantic segmentation maps
if target_sizes is not None:
if batch_size != len(target_sizes):
raise ValueError(
"Make sure that you pass in as many target sizes as the batch dimension of the logits"
)
semantic_segmentation = []
for idx in range(batch_size):
resized_logits = torch.nn.functional.interpolate(
segmentation[idx].unsqueeze(dim=0), size=target_sizes[idx], mode="bilinear", align_corners=False
)
semantic_map = resized_logits[0].argmax(dim=0)
semantic_segmentation.append(semantic_map)
else:
semantic_segmentation = segmentation.argmax(dim=1)
semantic_segmentation = [semantic_segmentation[i] for i in range(semantic_segmentation.shape[0])]
return semantic_segmentation
def post_process_instance_segmentation(
self,
outputs,
threshold: float = 0.5,
mask_threshold: float = 0.5,
overlap_mask_area_threshold: float = 0.8,
target_sizes: Optional[List[Tuple[int, int]]] = None,
return_coco_annotation: Optional[bool] = False,
return_binary_maps: Optional[bool] = False,
) -> List[Dict]:
"""
Converts the output of [`MaskFormerForInstanceSegmentationOutput`] into instance segmentation predictions. Only
supports PyTorch.
Args:
outputs ([`MaskFormerForInstanceSegmentation`]):
Raw outputs of the model.
threshold (`float`, *optional*, defaults to 0.5):
The probability score threshold to keep predicted instance masks.
mask_threshold (`float`, *optional*, defaults to 0.5):
Threshold to use when turning the predicted masks into binary values.
overlap_mask_area_threshold (`float`, *optional*, defaults to 0.8):
The overlap mask area threshold to merge or discard small disconnected parts within each binary
instance mask.
target_sizes (`List[Tuple]`, *optional*):
List of length (batch_size), where each list item (`Tuple[int, int]]`) corresponds to the requested
final size (height, width) of each prediction. If left to None, predictions will not be resized.
return_coco_annotation (`bool`, *optional*, defaults to `False`):
If set to `True`, segmentation maps are returned in COCO run-length encoding (RLE) format.
return_binary_maps (`bool`, *optional*, defaults to `False`):
If set to `True`, segmentation maps are returned as a concatenated tensor of binary segmentation maps
(one per detected instance).
Returns:
`List[Dict]`: A list of dictionaries, one per image, each dictionary containing two keys:
- **segmentation** -- A tensor of shape `(height, width)` where each pixel represents a `segment_id` or
`List[List]` run-length encoding (RLE) of the segmentation map if return_coco_annotation is set to
`True`. Set to `None` if no mask if found above `threshold`.
- **segments_info** -- A dictionary that contains additional information on each segment.
- **id** -- An integer representing the `segment_id`.
- **label_id** -- An integer representing the label / semantic class id corresponding to `segment_id`.
- **score** -- Prediction score of segment with `segment_id`.
"""
if return_coco_annotation and return_binary_maps:
raise ValueError("return_coco_annotation and return_binary_maps can not be both set to True.")
# [batch_size, num_queries, num_classes+1]
class_queries_logits = outputs.class_queries_logits
# [batch_size, num_queries, height, width]
masks_queries_logits = outputs.masks_queries_logits
device = masks_queries_logits.device
num_classes = class_queries_logits.shape[-1] - 1
num_queries = class_queries_logits.shape[-2]
# Loop over items in batch size
results: List[Dict[str, TensorType]] = []
for i in range(class_queries_logits.shape[0]):
mask_pred = masks_queries_logits[i]
mask_cls = class_queries_logits[i]
scores = torch.nn.functional.softmax(mask_cls, dim=-1)[:, :-1]
labels = torch.arange(num_classes, device=device).unsqueeze(0).repeat(num_queries, 1).flatten(0, 1)
scores_per_image, topk_indices = scores.flatten(0, 1).topk(num_queries, sorted=False)
labels_per_image = labels[topk_indices]
topk_indices = torch.div(topk_indices, num_classes, rounding_mode="floor")
mask_pred = mask_pred[topk_indices]
pred_masks = (mask_pred > 0).float()
# Calculate average mask prob
mask_scores_per_image = (mask_pred.sigmoid().flatten(1) * pred_masks.flatten(1)).sum(1) / (
pred_masks.flatten(1).sum(1) + 1e-6
)
pred_scores = scores_per_image * mask_scores_per_image
pred_classes = labels_per_image
segmentation = torch.zeros(masks_queries_logits.shape[2:]) - 1
if target_sizes is not None:
segmentation = torch.zeros(target_sizes[i]) - 1
pred_masks = torch.nn.functional.interpolate(
pred_masks.unsqueeze(0), size=target_sizes[i], mode="nearest"
)[0]
instance_maps, segments = [], []
current_segment_id = 0
for j in range(num_queries):
score = pred_scores[j].item()
if not torch.all(pred_masks[j] == 0) and score >= threshold:
segmentation[pred_masks[j] == 1] = current_segment_id
segments.append(
{
"id": current_segment_id,
"label_id": pred_classes[j].item(),
"was_fused": False,
"score": round(score, 6),
}
)
current_segment_id += 1
instance_maps.append(pred_masks[j])
# Return segmentation map in run-length encoding (RLE) format
if return_coco_annotation:
segmentation = convert_segmentation_to_rle(segmentation)
# Return a concatenated tensor of binary instance maps
if return_binary_maps and len(instance_maps) != 0:
segmentation = torch.stack(instance_maps, dim=0)
results.append({"segmentation": segmentation, "segments_info": segments})
return results
def post_process_panoptic_segmentation(
self,
outputs,
threshold: float = 0.5,
mask_threshold: float = 0.5,
overlap_mask_area_threshold: float = 0.8,
label_ids_to_fuse: Optional[Set[int]] = None,
target_sizes: Optional[List[Tuple[int, int]]] = None,
) -> List[Dict]:
"""
Converts the output of [`MaskFormerForInstanceSegmentationOutput`] into image panoptic segmentation
predictions. Only supports PyTorch.
Args:
outputs ([`MaskFormerForInstanceSegmentationOutput`]):
The outputs from [`MaskFormerForInstanceSegmentation`].
threshold (`float`, *optional*, defaults to 0.5):
The probability score threshold to keep predicted instance masks.
mask_threshold (`float`, *optional*, defaults to 0.5):
Threshold to use when turning the predicted masks into binary values.
overlap_mask_area_threshold (`float`, *optional*, defaults to 0.8):
The overlap mask area threshold to merge or discard small disconnected parts within each binary
instance mask.
label_ids_to_fuse (`Set[int]`, *optional*):
The labels in this state will have all their instances be fused together. For instance we could say
there can only be one sky in an image, but several persons, so the label ID for sky would be in that
set, but not the one for person.
target_sizes (`List[Tuple]`, *optional*):
List of length (batch_size), where each list item (`Tuple[int, int]]`) corresponds to the requested
final size (height, width) of each prediction in batch. If left to None, predictions will not be
resized.
Returns:
`List[Dict]`: A list of dictionaries, one per image, each dictionary containing two keys:
- **segmentation** -- a tensor of shape `(height, width)` where each pixel represents a `segment_id`, set
to `None` if no mask if found above `threshold`. If `target_sizes` is specified, segmentation is resized
to the corresponding `target_sizes` entry.
- **segments_info** -- A dictionary that contains additional information on each segment.
- **id** -- an integer representing the `segment_id`.
- **label_id** -- An integer representing the label / semantic class id corresponding to `segment_id`.
- **was_fused** -- a boolean, `True` if `label_id` was in `label_ids_to_fuse`, `False` otherwise.
Multiple instances of the same class / label were fused and assigned a single `segment_id`.
- **score** -- Prediction score of segment with `segment_id`.
"""
if label_ids_to_fuse is None:
logger.warning("`label_ids_to_fuse` unset. No instance will be fused.")
label_ids_to_fuse = set()
class_queries_logits = outputs.class_queries_logits # [batch_size, num_queries, num_classes+1]
masks_queries_logits = outputs.masks_queries_logits # [batch_size, num_queries, height, width]
batch_size = class_queries_logits.shape[0]
num_labels = class_queries_logits.shape[-1] - 1
mask_probs = masks_queries_logits.sigmoid() # [batch_size, num_queries, height, width]
# Predicted label and score of each query (batch_size, num_queries)
pred_scores, pred_labels = nn.functional.softmax(class_queries_logits, dim=-1).max(-1)
# Loop over items in batch size
results: List[Dict[str, TensorType]] = []
for i in range(batch_size):
mask_probs_item, pred_scores_item, pred_labels_item = remove_low_and_no_objects(
mask_probs[i], pred_scores[i], pred_labels[i], threshold, num_labels
)
# No mask found
if mask_probs_item.shape[0] <= 0:
height, width = target_sizes[i] if target_sizes is not None else mask_probs_item.shape[1:]
segmentation = torch.zeros((height, width)) - 1
results.append({"segmentation": segmentation, "segments_info": []})
continue
# Get segmentation map and segment information of batch item
target_size = target_sizes[i] if target_sizes is not None else None
segmentation, segments = compute_segments(
mask_probs=mask_probs_item,
pred_scores=pred_scores_item,
pred_labels=pred_labels_item,
mask_threshold=mask_threshold,
overlap_mask_area_threshold=overlap_mask_area_threshold,
label_ids_to_fuse=label_ids_to_fuse,
target_size=target_size,
)
results.append({"segmentation": segmentation, "segments_info": segments})
return results
| transformers-main | src/transformers/models/maskformer/image_processing_maskformer.py |
# coding=utf-8
# Copyright 2022 Meta Platforms, Inc.s and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch MaskFormer model."""
import math
from dataclasses import dataclass
from numbers import Number
from typing import Dict, List, Optional, Tuple
import numpy as np
import torch
from torch import Tensor, nn
from ... import AutoBackbone
from ...activations import ACT2FN
from ...modeling_outputs import BaseModelOutputWithCrossAttentions
from ...modeling_utils import PreTrainedModel
from ...utils import (
ModelOutput,
add_start_docstrings,
add_start_docstrings_to_model_forward,
is_scipy_available,
logging,
replace_return_docstrings,
requires_backends,
)
from ..detr import DetrConfig
from .configuration_maskformer import MaskFormerConfig
from .configuration_maskformer_swin import MaskFormerSwinConfig
if is_scipy_available():
from scipy.optimize import linear_sum_assignment
logger = logging.get_logger(__name__)
_CONFIG_FOR_DOC = "MaskFormerConfig"
_CHECKPOINT_FOR_DOC = "facebook/maskformer-swin-base-ade"
MASKFORMER_PRETRAINED_MODEL_ARCHIVE_LIST = [
"facebook/maskformer-swin-base-ade",
# See all MaskFormer models at https://huggingface.co/models?filter=maskformer
]
@dataclass
# Copied from transformers.models.detr.modeling_detr.DetrDecoderOutput
class DetrDecoderOutput(BaseModelOutputWithCrossAttentions):
"""
Base class for outputs of the DETR decoder. This class adds one attribute to BaseModelOutputWithCrossAttentions,
namely an optional stack of intermediate decoder activations, i.e. the output of each decoder layer, each of them
gone through a layernorm. This is useful when training the model with auxiliary decoding losses.
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the model.
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`. Hidden-states of the model at the output of each layer
plus the initial embedding outputs.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights after the attention softmax, used to compute the weighted average in
the self-attention heads.
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` and `config.add_cross_attention=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights of the decoder's cross-attention layer, after the attention softmax,
used to compute the weighted average in the cross-attention heads.
intermediate_hidden_states (`torch.FloatTensor` of shape `(config.decoder_layers, batch_size, num_queries, hidden_size)`, *optional*, returned when `config.auxiliary_loss=True`):
Intermediate decoder activations, i.e. the output of each decoder layer, each of them gone through a
layernorm.
"""
intermediate_hidden_states: Optional[torch.FloatTensor] = None
@dataclass
class MaskFormerPixelLevelModuleOutput(ModelOutput):
"""
MaskFormer's pixel level module output. It returns both the last and (optionally) the hidden states from the
`encoder` and `decoder`. By default, the `encoder` is a MaskFormerSwin Transformer and the `decoder` is a Feature
Pyramid Network (FPN).
The `encoder_last_hidden_state` are referred on the paper as **images features**, while `decoder_last_hidden_state`
as **pixel embeddings**
Args:
encoder_last_hidden_state (`torch.FloatTensor` of shape`(batch_size, num_channels, height, width)`):
Last hidden states (final feature map) of the last stage of the encoder.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, num_channels, height, width)`. Hidden-states (also called feature maps) of the model at
the output of each stage.
decoder_last_hidden_state (`torch.FloatTensor` of shape`(batch_size, num_channels, height, width)`):
Last hidden states (final feature map) of the last stage of the decoder.
decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, num_channels, height, width)`. Hidden-states (also called feature maps) of the model at
the output of each stage.
"""
encoder_last_hidden_state: Optional[torch.FloatTensor] = None
decoder_last_hidden_state: Optional[torch.FloatTensor] = None
encoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
class MaskFormerPixelDecoderOutput(ModelOutput):
"""
MaskFormer's pixel decoder module output, practically a Feature Pyramid Network. It returns the last hidden state
and (optionally) the hidden states.
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Last hidden states (final feature map) of the last stage of the model.
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, num_channels, height, width)`. Hidden-states of the model at the output of each layer
plus the initial embedding outputs.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights from Detr's decoder after the attention softmax, used to compute the
weighted average in the self-attention heads.
"""
last_hidden_state: torch.FloatTensor = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
class MaskFormerModelOutput(ModelOutput):
"""
Class for outputs of [`MaskFormerModel`]. This class returns all the needed hidden states to compute the logits.
Args:
encoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Last hidden states (final feature map) of the last stage of the encoder model (backbone).
pixel_decoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Last hidden states (final feature map) of the last stage of the pixel decoder model (FPN).
transformer_decoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Last hidden states (final feature map) of the last stage of the transformer decoder model.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, num_channels, height, width)`. Hidden-states (also called feature maps) of the encoder
model at the output of each stage.
pixel_decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, num_channels, height, width)`. Hidden-states (also called feature maps) of the pixel
decoder model at the output of each stage.
transformer_decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, sequence_length, hidden_size)`. Hidden-states (also called feature maps) of the
transformer decoder at the output of each stage.
hidden_states `tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` containing `encoder_hidden_states`, `pixel_decoder_hidden_states` and
`decoder_hidden_states`
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights from Detr's decoder after the attention softmax, used to compute the
weighted average in the self-attention heads.
"""
encoder_last_hidden_state: Optional[torch.FloatTensor] = None
pixel_decoder_last_hidden_state: Optional[torch.FloatTensor] = None
transformer_decoder_last_hidden_state: Optional[torch.FloatTensor] = None
encoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
pixel_decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
transformer_decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
class MaskFormerForInstanceSegmentationOutput(ModelOutput):
"""
Class for outputs of [`MaskFormerForInstanceSegmentation`].
This output can be directly passed to [`~MaskFormerImageProcessor.post_process_semantic_segmentation`] or or
[`~MaskFormerImageProcessor.post_process_instance_segmentation`] or
[`~MaskFormerImageProcessor.post_process_panoptic_segmentation`] depending on the task. Please, see
[`~MaskFormerImageProcessor] for details regarding usage.
Args:
loss (`torch.Tensor`, *optional*):
The computed loss, returned when labels are present.
class_queries_logits (`torch.FloatTensor`):
A tensor of shape `(batch_size, num_queries, num_labels + 1)` representing the proposed classes for each
query. Note the `+ 1` is needed because we incorporate the null class.
masks_queries_logits (`torch.FloatTensor`):
A tensor of shape `(batch_size, num_queries, height, width)` representing the proposed masks for each
query.
encoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Last hidden states (final feature map) of the last stage of the encoder model (backbone).
pixel_decoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Last hidden states (final feature map) of the last stage of the pixel decoder model (FPN).
transformer_decoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Last hidden states (final feature map) of the last stage of the transformer decoder model.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, num_channels, height, width)`. Hidden-states (also called feature maps) of the encoder
model at the output of each stage.
pixel_decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, num_channels, height, width)`. Hidden-states (also called feature maps) of the pixel
decoder model at the output of each stage.
transformer_decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each stage) of
shape `(batch_size, sequence_length, hidden_size)`. Hidden-states of the transformer decoder at the output
of each stage.
hidden_states `tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` containing `encoder_hidden_states`, `pixel_decoder_hidden_states` and
`decoder_hidden_states`.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`. Attentions weights from Detr's decoder after the attention softmax, used to compute the
weighted average in the self-attention heads.
"""
loss: Optional[torch.FloatTensor] = None
class_queries_logits: torch.FloatTensor = None
masks_queries_logits: torch.FloatTensor = None
auxiliary_logits: torch.FloatTensor = None
encoder_last_hidden_state: Optional[torch.FloatTensor] = None
pixel_decoder_last_hidden_state: Optional[torch.FloatTensor] = None
transformer_decoder_last_hidden_state: Optional[torch.FloatTensor] = None
encoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
pixel_decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
transformer_decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
def upsample_like(pixel_values: Tensor, like: Tensor, mode: str = "bilinear") -> Tensor:
"""
An utility function that upsamples `pixel_values` to match the dimension of `like`.
Args:
pixel_values (`torch.Tensor`):
The tensor we wish to upsample.
like (`torch.Tensor`):
The tensor we wish to use as size target.
mode (str, *optional*, defaults to `"bilinear"`):
The interpolation mode.
Returns:
`torch.Tensor`: The upsampled tensor
"""
_, _, height, width = like.shape
upsampled = nn.functional.interpolate(pixel_values, size=(height, width), mode=mode, align_corners=False)
return upsampled
# refactored from original implementation
def dice_loss(inputs: Tensor, labels: Tensor, num_masks: int) -> Tensor:
r"""
Compute the DICE loss, similar to generalized IOU for masks as follows:
$$ \mathcal{L}_{\text{dice}(x, y) = 1 - \frac{2 * x \cap y }{x \cup y + 1}} $$
In practice, since `labels` is a binary mask, (only 0s and 1s), dice can be computed as follow
$$ \mathcal{L}_{\text{dice}(x, y) = 1 - \frac{2 * x * y }{x + y + 1}} $$
Args:
inputs (`torch.Tensor`):
A tensor representing a mask.
labels (`torch.Tensor`):
A tensor with the same shape as inputs. Stores the binary classification labels for each element in inputs
(0 for the negative class and 1 for the positive class).
num_masks (`int`):
The number of masks present in the current batch, used for normalization.
Returns:
`torch.Tensor`: The computed loss.
"""
probs = inputs.sigmoid().flatten(1)
numerator = 2 * (probs * labels).sum(-1)
denominator = probs.sum(-1) + labels.sum(-1)
loss = 1 - (numerator + 1) / (denominator + 1)
loss = loss.sum() / num_masks
return loss
# refactored from original implementation
def sigmoid_focal_loss(
inputs: Tensor, labels: Tensor, num_masks: int, alpha: float = 0.25, gamma: float = 2
) -> Tensor:
r"""
Focal loss proposed in [Focal Loss for Dense Object Detection](https://arxiv.org/abs/1708.02002) originally used in
RetinaNet. The loss is computed as follows:
$$ \mathcal{L}_{\text{focal loss} = -(1 - p_t)^{\gamma}\log{(p_t)} $$
where \\(CE(p_t) = -\log{(p_t)}}\\), CE is the standard Cross Entropy Loss
Please refer to equation (1,2,3) of the paper for a better understanding.
Args:
inputs (`torch.Tensor`):
A float tensor of arbitrary shape.
labels (`torch.Tensor`):
A tensor with the same shape as inputs. Stores the binary classification labels for each element in inputs
(0 for the negative class and 1 for the positive class).
num_masks (`int`):
The number of masks present in the current batch, used for normalization.
alpha (float, *optional*, defaults to 0.25):
Weighting factor in range (0,1) to balance positive vs negative examples.
gamma (float, *optional*, defaults to 2.0):
Exponent of the modulating factor \\(1 - p_t\\) to balance easy vs hard examples.
Returns:
`torch.Tensor`: The computed loss.
"""
criterion = nn.BCEWithLogitsLoss(reduction="none")
probs = inputs.sigmoid()
cross_entropy_loss = criterion(inputs, labels)
p_t = probs * labels + (1 - probs) * (1 - labels)
loss = cross_entropy_loss * ((1 - p_t) ** gamma)
if alpha >= 0:
alpha_t = alpha * labels + (1 - alpha) * (1 - labels)
loss = alpha_t * loss
loss = loss.mean(1).sum() / num_masks
return loss
# refactored from original implementation
def pair_wise_dice_loss(inputs: Tensor, labels: Tensor) -> Tensor:
"""
A pair wise version of the dice loss, see `dice_loss` for usage.
Args:
inputs (`torch.Tensor`):
A tensor representing a mask
labels (`torch.Tensor`):
A tensor with the same shape as inputs. Stores the binary classification labels for each element in inputs
(0 for the negative class and 1 for the positive class).
Returns:
`torch.Tensor`: The computed loss between each pairs.
"""
inputs = inputs.sigmoid().flatten(1)
numerator = 2 * torch.matmul(inputs, labels.T)
# using broadcasting to get a [num_queries, NUM_CLASSES] matrix
denominator = inputs.sum(-1)[:, None] + labels.sum(-1)[None, :]
loss = 1 - (numerator + 1) / (denominator + 1)
return loss
# refactored from original implementation
def pair_wise_sigmoid_focal_loss(inputs: Tensor, labels: Tensor, alpha: float = 0.25, gamma: float = 2.0) -> Tensor:
r"""
A pair wise version of the focal loss, see `sigmoid_focal_loss` for usage.
Args:
inputs (`torch.Tensor`):
A tensor representing a mask.
labels (`torch.Tensor`):
A tensor with the same shape as inputs. Stores the binary classification labels for each element in inputs
(0 for the negative class and 1 for the positive class).
alpha (float, *optional*, defaults to 0.25):
Weighting factor in range (0,1) to balance positive vs negative examples.
gamma (float, *optional*, defaults to 2.0):
Exponent of the modulating factor \\(1 - p_t\\) to balance easy vs hard examples.
Returns:
`torch.Tensor`: The computed loss between each pairs.
"""
if alpha < 0:
raise ValueError("alpha must be positive")
height_and_width = inputs.shape[1]
criterion = nn.BCEWithLogitsLoss(reduction="none")
prob = inputs.sigmoid()
cross_entropy_loss_pos = criterion(inputs, torch.ones_like(inputs))
focal_pos = ((1 - prob) ** gamma) * cross_entropy_loss_pos
focal_pos *= alpha
cross_entropy_loss_neg = criterion(inputs, torch.zeros_like(inputs))
focal_neg = (prob**gamma) * cross_entropy_loss_neg
focal_neg *= 1 - alpha
loss = torch.matmul(focal_pos, labels.T) + torch.matmul(focal_neg, (1 - labels).T)
return loss / height_and_width
# Copied from transformers.models.detr.modeling_detr.DetrAttention
class DetrAttention(nn.Module):
"""
Multi-headed attention from 'Attention Is All You Need' paper.
Here, we add position embeddings to the queries and keys (as explained in the DETR paper).
"""
def __init__(
self,
embed_dim: int,
num_heads: int,
dropout: float = 0.0,
bias: bool = True,
):
super().__init__()
self.embed_dim = embed_dim
self.num_heads = num_heads
self.dropout = dropout
self.head_dim = embed_dim // num_heads
if self.head_dim * num_heads != self.embed_dim:
raise ValueError(
f"embed_dim must be divisible by num_heads (got `embed_dim`: {self.embed_dim} and `num_heads`:"
f" {num_heads})."
)
self.scaling = self.head_dim**-0.5
self.k_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.v_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.q_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.out_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
def _shape(self, tensor: torch.Tensor, seq_len: int, batch_size: int):
return tensor.view(batch_size, seq_len, self.num_heads, self.head_dim).transpose(1, 2).contiguous()
def with_pos_embed(self, tensor: torch.Tensor, position_embeddings: Optional[Tensor]):
return tensor if position_embeddings is None else tensor + position_embeddings
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.Tensor] = None,
position_embeddings: Optional[torch.Tensor] = None,
key_value_states: Optional[torch.Tensor] = None,
key_value_position_embeddings: Optional[torch.Tensor] = None,
output_attentions: bool = False,
) -> Tuple[torch.Tensor, Optional[torch.Tensor], Optional[Tuple[torch.Tensor]]]:
"""Input shape: Batch x Time x Channel"""
# if key_value_states are provided this layer is used as a cross-attention layer
# for the decoder
is_cross_attention = key_value_states is not None
batch_size, target_len, embed_dim = hidden_states.size()
# add position embeddings to the hidden states before projecting to queries and keys
if position_embeddings is not None:
hidden_states_original = hidden_states
hidden_states = self.with_pos_embed(hidden_states, position_embeddings)
# add key-value position embeddings to the key value states
if key_value_position_embeddings is not None:
key_value_states_original = key_value_states
key_value_states = self.with_pos_embed(key_value_states, key_value_position_embeddings)
# get query proj
query_states = self.q_proj(hidden_states) * self.scaling
# get key, value proj
if is_cross_attention:
# cross_attentions
key_states = self._shape(self.k_proj(key_value_states), -1, batch_size)
value_states = self._shape(self.v_proj(key_value_states_original), -1, batch_size)
else:
# self_attention
key_states = self._shape(self.k_proj(hidden_states), -1, batch_size)
value_states = self._shape(self.v_proj(hidden_states_original), -1, batch_size)
proj_shape = (batch_size * self.num_heads, -1, self.head_dim)
query_states = self._shape(query_states, target_len, batch_size).view(*proj_shape)
key_states = key_states.view(*proj_shape)
value_states = value_states.view(*proj_shape)
source_len = key_states.size(1)
attn_weights = torch.bmm(query_states, key_states.transpose(1, 2))
if attn_weights.size() != (batch_size * self.num_heads, target_len, source_len):
raise ValueError(
f"Attention weights should be of size {(batch_size * self.num_heads, target_len, source_len)}, but is"
f" {attn_weights.size()}"
)
if attention_mask is not None:
if attention_mask.size() != (batch_size, 1, target_len, source_len):
raise ValueError(
f"Attention mask should be of size {(batch_size, 1, target_len, source_len)}, but is"
f" {attention_mask.size()}"
)
attn_weights = attn_weights.view(batch_size, self.num_heads, target_len, source_len) + attention_mask
attn_weights = attn_weights.view(batch_size * self.num_heads, target_len, source_len)
attn_weights = nn.functional.softmax(attn_weights, dim=-1)
if output_attentions:
# this operation is a bit awkward, but it's required to
# make sure that attn_weights keeps its gradient.
# In order to do so, attn_weights have to reshaped
# twice and have to be reused in the following
attn_weights_reshaped = attn_weights.view(batch_size, self.num_heads, target_len, source_len)
attn_weights = attn_weights_reshaped.view(batch_size * self.num_heads, target_len, source_len)
else:
attn_weights_reshaped = None
attn_probs = nn.functional.dropout(attn_weights, p=self.dropout, training=self.training)
attn_output = torch.bmm(attn_probs, value_states)
if attn_output.size() != (batch_size * self.num_heads, target_len, self.head_dim):
raise ValueError(
f"`attn_output` should be of size {(batch_size, self.num_heads, target_len, self.head_dim)}, but is"
f" {attn_output.size()}"
)
attn_output = attn_output.view(batch_size, self.num_heads, target_len, self.head_dim)
attn_output = attn_output.transpose(1, 2)
attn_output = attn_output.reshape(batch_size, target_len, embed_dim)
attn_output = self.out_proj(attn_output)
return attn_output, attn_weights_reshaped
# Copied from transformers.models.detr.modeling_detr.DetrDecoderLayer
class DetrDecoderLayer(nn.Module):
def __init__(self, config: DetrConfig):
super().__init__()
self.embed_dim = config.d_model
self.self_attn = DetrAttention(
embed_dim=self.embed_dim,
num_heads=config.decoder_attention_heads,
dropout=config.attention_dropout,
)
self.dropout = config.dropout
self.activation_fn = ACT2FN[config.activation_function]
self.activation_dropout = config.activation_dropout
self.self_attn_layer_norm = nn.LayerNorm(self.embed_dim)
self.encoder_attn = DetrAttention(
self.embed_dim,
config.decoder_attention_heads,
dropout=config.attention_dropout,
)
self.encoder_attn_layer_norm = nn.LayerNorm(self.embed_dim)
self.fc1 = nn.Linear(self.embed_dim, config.decoder_ffn_dim)
self.fc2 = nn.Linear(config.decoder_ffn_dim, self.embed_dim)
self.final_layer_norm = nn.LayerNorm(self.embed_dim)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.Tensor] = None,
position_embeddings: Optional[torch.Tensor] = None,
query_position_embeddings: Optional[torch.Tensor] = None,
encoder_hidden_states: Optional[torch.Tensor] = None,
encoder_attention_mask: Optional[torch.Tensor] = None,
output_attentions: Optional[bool] = False,
):
"""
Args:
hidden_states (`torch.FloatTensor`): input to the layer of shape `(batch, seq_len, embed_dim)`
attention_mask (`torch.FloatTensor`): attention mask of size
`(batch, 1, target_len, source_len)` where padding elements are indicated by very large negative
values.
position_embeddings (`torch.FloatTensor`, *optional*):
position embeddings that are added to the queries and keys
in the cross-attention layer.
query_position_embeddings (`torch.FloatTensor`, *optional*):
position embeddings that are added to the queries and keys
in the self-attention layer.
encoder_hidden_states (`torch.FloatTensor`):
cross attention input to the layer of shape `(batch, seq_len, embed_dim)`
encoder_attention_mask (`torch.FloatTensor`): encoder attention mask of size
`(batch, 1, target_len, source_len)` where padding elements are indicated by very large negative
values.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
"""
residual = hidden_states
# Self Attention
hidden_states, self_attn_weights = self.self_attn(
hidden_states=hidden_states,
position_embeddings=query_position_embeddings,
attention_mask=attention_mask,
output_attentions=output_attentions,
)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.self_attn_layer_norm(hidden_states)
# Cross-Attention Block
cross_attn_weights = None
if encoder_hidden_states is not None:
residual = hidden_states
hidden_states, cross_attn_weights = self.encoder_attn(
hidden_states=hidden_states,
position_embeddings=query_position_embeddings,
key_value_states=encoder_hidden_states,
attention_mask=encoder_attention_mask,
key_value_position_embeddings=position_embeddings,
output_attentions=output_attentions,
)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.encoder_attn_layer_norm(hidden_states)
# Fully Connected
residual = hidden_states
hidden_states = self.activation_fn(self.fc1(hidden_states))
hidden_states = nn.functional.dropout(hidden_states, p=self.activation_dropout, training=self.training)
hidden_states = self.fc2(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.final_layer_norm(hidden_states)
outputs = (hidden_states,)
if output_attentions:
outputs += (self_attn_weights, cross_attn_weights)
return outputs
# Copied from transformers.models.detr.modeling_detr._expand_mask
def _expand_mask(mask: torch.Tensor, dtype: torch.dtype, target_len: Optional[int] = None):
"""
Expands attention_mask from `[batch_size, seq_len]` to `[batch_size, 1, target_seq_len, source_seq_len]`.
"""
batch_size, source_len = mask.size()
target_len = target_len if target_len is not None else source_len
expanded_mask = mask[:, None, None, :].expand(batch_size, 1, target_len, source_len).to(dtype)
inverted_mask = 1.0 - expanded_mask
return inverted_mask.masked_fill(inverted_mask.bool(), torch.finfo(dtype).min)
class DetrDecoder(nn.Module):
"""
Transformer decoder consisting of *config.decoder_layers* layers. Each layer is a [`DetrDecoderLayer`].
The decoder updates the query embeddings through multiple self-attention and cross-attention layers.
Some small tweaks for DETR:
- position_embeddings and query_position_embeddings are added to the forward pass.
- if self.config.auxiliary_loss is set to True, also returns a stack of activations from all decoding layers.
Args:
config: DetrConfig
"""
def __init__(self, config: DetrConfig):
super().__init__()
self.config = config
self.dropout = config.dropout
self.layerdrop = config.decoder_layerdrop
self.layers = nn.ModuleList([DetrDecoderLayer(config) for _ in range(config.decoder_layers)])
# in DETR, the decoder uses layernorm after the last decoder layer output
self.layernorm = nn.LayerNorm(config.d_model)
self.gradient_checkpointing = False
def forward(
self,
inputs_embeds=None,
attention_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
position_embeddings=None,
query_position_embeddings=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
r"""
Args:
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
The query embeddings that are passed into the decoder.
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on certain queries. Mask values selected in `[0, 1]`:
- 1 for queries that are **not masked**,
- 0 for queries that are **masked**.
[What are attention masks?](../glossary#attention-mask)
encoder_hidden_states (`torch.FloatTensor` of shape `(batch_size, encoder_sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention
of the decoder.
encoder_attention_mask (`torch.LongTensor` of shape `(batch_size, encoder_sequence_length)`, *optional*):
Mask to avoid performing cross-attention on padding pixel_values of the encoder. Mask values selected
in `[0, 1]`:
- 1 for pixels that are real (i.e. **not masked**),
- 0 for pixels that are padding (i.e. **masked**).
position_embeddings (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Position embeddings that are added to the queries and keys in each cross-attention layer.
query_position_embeddings (`torch.FloatTensor` of shape `(batch_size, num_queries, hidden_size)`):
, *optional*): Position embeddings that are added to the queries and keys in each self-attention layer.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors
for more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if inputs_embeds is not None:
hidden_states = inputs_embeds
input_shape = inputs_embeds.size()[:-1]
combined_attention_mask = None
if attention_mask is not None and combined_attention_mask is not None:
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
combined_attention_mask = combined_attention_mask + _expand_mask(
attention_mask, inputs_embeds.dtype, tgt_len=input_shape[-1]
)
# expand encoder attention mask
if encoder_hidden_states is not None and encoder_attention_mask is not None:
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
encoder_attention_mask = _expand_mask(encoder_attention_mask, inputs_embeds.dtype, tgt_len=input_shape[-1])
# optional intermediate hidden states
intermediate = () if self.config.auxiliary_loss else None
# decoder layers
all_hidden_states = () if output_hidden_states else None
all_self_attns = () if output_attentions else None
all_cross_attentions = () if (output_attentions and encoder_hidden_states is not None) else None
for idx, decoder_layer in enumerate(self.layers):
# add LayerDrop (see https://arxiv.org/abs/1909.11556 for description)
if output_hidden_states:
all_hidden_states += (hidden_states,)
if self.training:
dropout_probability = torch.rand([])
if dropout_probability < self.layerdrop:
continue
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(decoder_layer),
hidden_states,
combined_attention_mask,
encoder_hidden_states,
encoder_attention_mask,
None,
)
else:
layer_outputs = decoder_layer(
hidden_states,
attention_mask=combined_attention_mask,
position_embeddings=position_embeddings,
query_position_embeddings=query_position_embeddings,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
output_attentions=output_attentions,
)
hidden_states = layer_outputs[0]
if self.config.auxiliary_loss:
hidden_states = self.layernorm(hidden_states)
intermediate += (hidden_states,)
if output_attentions:
all_self_attns += (layer_outputs[1],)
if encoder_hidden_states is not None:
all_cross_attentions += (layer_outputs[2],)
# finally, apply layernorm
hidden_states = self.layernorm(hidden_states)
# add hidden states from the last decoder layer
if output_hidden_states:
all_hidden_states += (hidden_states,)
# stack intermediate decoder activations
if self.config.auxiliary_loss:
intermediate = torch.stack(intermediate)
if not return_dict:
return tuple(
v
for v in [hidden_states, all_hidden_states, all_self_attns, all_cross_attentions, intermediate]
if v is not None
)
return DetrDecoderOutput(
last_hidden_state=hidden_states,
hidden_states=all_hidden_states,
attentions=all_self_attns,
cross_attentions=all_cross_attentions,
intermediate_hidden_states=intermediate,
)
# refactored from original implementation
class MaskFormerHungarianMatcher(nn.Module):
"""This class computes an assignment between the labels and the predictions of the network.
For efficiency reasons, the labels don't include the no_object. Because of this, in general, there are more
predictions than labels. In this case, we do a 1-to-1 matching of the best predictions, while the others are
un-matched (and thus treated as non-objects).
"""
def __init__(self, cost_class: float = 1.0, cost_mask: float = 1.0, cost_dice: float = 1.0):
"""Creates the matcher
Params:
cost_class (float, *optional*, defaults to 1.0):
This is the relative weight of the classification error in the matching cost.
cost_mask (float, *optional*, defaults to 1.0):
This is the relative weight of the focal loss of the binary mask in the matching cost.
cost_dice (float, *optional*, defaults to 1.0):
This is the relative weight of the dice loss of the binary mask in the matching cost
"""
super().__init__()
if cost_class == 0 and cost_mask == 0 and cost_dice == 0:
raise ValueError("All costs cant be 0")
self.cost_class = cost_class
self.cost_mask = cost_mask
self.cost_dice = cost_dice
@torch.no_grad()
def forward(self, masks_queries_logits, class_queries_logits, mask_labels, class_labels) -> List[Tuple[Tensor]]:
"""Performs the matching
Params:
masks_queries_logits (`torch.Tensor`):
A tensor` of dim `batch_size, num_queries, num_labels` with the
classification logits.
class_queries_logits (`torch.Tensor`):
A tensor` of dim `batch_size, num_queries, height, width` with the
predicted masks.
class_labels (`torch.Tensor`):
A tensor` of dim `num_target_boxes` (where num_target_boxes is the number
of ground-truth objects in the target) containing the class labels.
mask_labels (`torch.Tensor`):
A tensor` of dim `num_target_boxes, height, width` containing the target
masks.
Returns:
`List[Tuple[Tensor]]`: A list of size batch_size, containing tuples of (index_i, index_j) where:
- index_i is the indices of the selected predictions (in order)
- index_j is the indices of the corresponding selected labels (in order)
For each batch element, it holds:
len(index_i) = len(index_j) = min(num_queries, num_target_boxes).
"""
indices: List[Tuple[np.array]] = []
preds_masks = masks_queries_logits
preds_probs = class_queries_logits
# iterate through batch size
for pred_probs, pred_mask, target_mask, labels in zip(preds_probs, preds_masks, mask_labels, class_labels):
# downsample the target mask, save memory
target_mask = nn.functional.interpolate(target_mask[:, None], size=pred_mask.shape[-2:], mode="nearest")
pred_probs = pred_probs.softmax(-1)
# Compute the classification cost. Contrary to the loss, we don't use the NLL,
# but approximate it in 1 - proba[target class].
# The 1 is a constant that doesn't change the matching, it can be ommitted.
cost_class = -pred_probs[:, labels]
# flatten spatial dimension "q h w -> q (h w)"
pred_mask_flat = pred_mask.flatten(1) # [num_queries, height*width]
# same for target_mask "c h w -> c (h w)"
target_mask_flat = target_mask[:, 0].flatten(1) # [num_total_labels, height*width]
# compute the focal loss between each mask pairs -> shape (num_queries, num_labels)
cost_mask = pair_wise_sigmoid_focal_loss(pred_mask_flat, target_mask_flat)
# Compute the dice loss betwen each mask pairs -> shape (num_queries, num_labels)
cost_dice = pair_wise_dice_loss(pred_mask_flat, target_mask_flat)
# final cost matrix
cost_matrix = self.cost_mask * cost_mask + self.cost_class * cost_class + self.cost_dice * cost_dice
# do the assigmented using the hungarian algorithm in scipy
assigned_indices: Tuple[np.array] = linear_sum_assignment(cost_matrix.cpu())
indices.append(assigned_indices)
# It could be stacked in one tensor
matched_indices = [
(torch.as_tensor(i, dtype=torch.int64), torch.as_tensor(j, dtype=torch.int64)) for i, j in indices
]
return matched_indices
def __repr__(self):
head = "Matcher " + self.__class__.__name__
body = [
f"cost_class: {self.cost_class}",
f"cost_mask: {self.cost_mask}",
f"cost_dice: {self.cost_dice}",
]
_repr_indent = 4
lines = [head] + [" " * _repr_indent + line for line in body]
return "\n".join(lines)
# copied and adapted from original implementation
class MaskFormerLoss(nn.Module):
def __init__(
self,
num_labels: int,
matcher: MaskFormerHungarianMatcher,
weight_dict: Dict[str, float],
eos_coef: float,
):
"""
The MaskFormer Loss. The loss is computed very similar to DETR. The process happens in two steps: 1) we compute
hungarian assignment between ground truth masks and the outputs of the model 2) we supervise each pair of
matched ground-truth / prediction (supervise class and mask)
Args:
num_labels (`int`):
The number of classes.
matcher (`MaskFormerHungarianMatcher`):
A torch module that computes the assigments between the predictions and labels.
weight_dict (`Dict[str, float]`):
A dictionary of weights to be applied to the different losses.
eos_coef (`float`):
Weight to apply to the null class.
"""
super().__init__()
requires_backends(self, ["scipy"])
self.num_labels = num_labels
self.matcher = matcher
self.weight_dict = weight_dict
self.eos_coef = eos_coef
empty_weight = torch.ones(self.num_labels + 1)
empty_weight[-1] = self.eos_coef
self.register_buffer("empty_weight", empty_weight)
def _max_by_axis(self, the_list: List[List[int]]) -> List[int]:
maxes = the_list[0]
for sublist in the_list[1:]:
for index, item in enumerate(sublist):
maxes[index] = max(maxes[index], item)
return maxes
def _pad_images_to_max_in_batch(self, tensors: List[Tensor]) -> Tuple[Tensor, Tensor]:
# get the maximum size in the batch
max_size = self._max_by_axis([list(tensor.shape) for tensor in tensors])
batch_size = len(tensors)
# compute finel size
batch_shape = [batch_size] + max_size
b, _, h, w = batch_shape
# get metadata
dtype = tensors[0].dtype
device = tensors[0].device
padded_tensors = torch.zeros(batch_shape, dtype=dtype, device=device)
padding_masks = torch.ones((b, h, w), dtype=torch.bool, device=device)
# pad the tensors to the size of the biggest one
for tensor, padded_tensor, padding_mask in zip(tensors, padded_tensors, padding_masks):
padded_tensor[: tensor.shape[0], : tensor.shape[1], : tensor.shape[2]].copy_(tensor)
padding_mask[: tensor.shape[1], : tensor.shape[2]] = False
return padded_tensors, padding_masks
def loss_labels(
self, class_queries_logits: Tensor, class_labels: List[Tensor], indices: Tuple[np.array]
) -> Dict[str, Tensor]:
"""Compute the losses related to the labels using cross entropy.
Args:
class_queries_logits (`torch.Tensor`):
A tensor of shape `batch_size, num_queries, num_labels`
class_labels (`List[torch.Tensor]`):
List of class labels of shape `(labels)`.
indices (`Tuple[np.array])`:
The indices computed by the Hungarian matcher.
Returns:
`Dict[str, Tensor]`: A dict of `torch.Tensor` containing the following key:
- **loss_cross_entropy** -- The loss computed using cross entropy on the predicted and ground truth labels.
"""
pred_logits = class_queries_logits
batch_size, num_queries, _ = pred_logits.shape
criterion = nn.CrossEntropyLoss(weight=self.empty_weight)
idx = self._get_predictions_permutation_indices(indices)
# shape = (batch_size, num_queries)
target_classes_o = torch.cat([target[j] for target, (_, j) in zip(class_labels, indices)])
# shape = (batch_size, num_queries)
target_classes = torch.full(
(batch_size, num_queries), fill_value=self.num_labels, dtype=torch.int64, device=pred_logits.device
)
target_classes[idx] = target_classes_o
# target_classes is a (batch_size, num_labels, num_queries), we need to permute pred_logits "b q c -> b c q"
pred_logits_transposed = pred_logits.transpose(1, 2)
loss_ce = criterion(pred_logits_transposed, target_classes)
losses = {"loss_cross_entropy": loss_ce}
return losses
def loss_masks(
self, masks_queries_logits: Tensor, mask_labels: List[Tensor], indices: Tuple[np.array], num_masks: int
) -> Dict[str, Tensor]:
"""Compute the losses related to the masks using focal and dice loss.
Args:
masks_queries_logits (`torch.Tensor`):
A tensor of shape `batch_size, num_queries, height, width`
mask_labels (`torch.Tensor`):
List of mask labels of shape `(labels, height, width)`.
indices (`Tuple[np.array])`:
The indices computed by the Hungarian matcher.
num_masks (`int)`:
The number of masks, used for normalization.
Returns:
`Dict[str, Tensor]`: A dict of `torch.Tensor` containing two keys:
- **loss_mask** -- The loss computed using sigmoid focal loss on the predicted and ground truth masks.
- **loss_dice** -- The loss computed using dice loss on the predicted on the predicted and ground truth
masks.
"""
src_idx = self._get_predictions_permutation_indices(indices)
tgt_idx = self._get_targets_permutation_indices(indices)
# shape (batch_size * num_queries, height, width)
pred_masks = masks_queries_logits[src_idx]
# shape (batch_size, num_queries, height, width)
# pad all and stack the targets to the num_labels dimension
target_masks, _ = self._pad_images_to_max_in_batch(mask_labels)
target_masks = target_masks[tgt_idx]
# upsample predictions to the target size, we have to add one dim to use interpolate
pred_masks = nn.functional.interpolate(
pred_masks[:, None], size=target_masks.shape[-2:], mode="bilinear", align_corners=False
)
pred_masks = pred_masks[:, 0].flatten(1)
target_masks = target_masks.flatten(1)
losses = {
"loss_mask": sigmoid_focal_loss(pred_masks, target_masks, num_masks),
"loss_dice": dice_loss(pred_masks, target_masks, num_masks),
}
return losses
def _get_predictions_permutation_indices(self, indices):
# permute predictions following indices
batch_indices = torch.cat([torch.full_like(src, i) for i, (src, _) in enumerate(indices)])
predictions_indices = torch.cat([src for (src, _) in indices])
return batch_indices, predictions_indices
def _get_targets_permutation_indices(self, indices):
# permute labels following indices
batch_indices = torch.cat([torch.full_like(tgt, i) for i, (_, tgt) in enumerate(indices)])
target_indices = torch.cat([tgt for (_, tgt) in indices])
return batch_indices, target_indices
def forward(
self,
masks_queries_logits: Tensor,
class_queries_logits: Tensor,
mask_labels: List[Tensor],
class_labels: List[Tensor],
auxiliary_predictions: Optional[Dict[str, Tensor]] = None,
) -> Dict[str, Tensor]:
"""
This performs the loss computation.
Args:
masks_queries_logits (`torch.Tensor`):
A tensor of shape `batch_size, num_queries, height, width`
class_queries_logits (`torch.Tensor`):
A tensor of shape `batch_size, num_queries, num_labels`
mask_labels (`torch.Tensor`):
List of mask labels of shape `(labels, height, width)`.
class_labels (`List[torch.Tensor]`):
List of class labels of shape `(labels)`.
auxiliary_predictions (`Dict[str, torch.Tensor]`, *optional*):
if `use_auxiliary_loss` was set to `true` in [`MaskFormerConfig`], then it contains the logits from the
inner layers of the Detr's Decoder.
Returns:
`Dict[str, Tensor]`: A dict of `torch.Tensor` containing two keys:
- **loss_cross_entropy** -- The loss computed using cross entropy on the predicted and ground truth labels.
- **loss_mask** -- The loss computed using sigmoid focal loss on the predicted and ground truth masks.
- **loss_dice** -- The loss computed using dice loss on the predicted on the predicted and ground truth
masks.
if `use_auxiliary_loss` was set to `true` in [`MaskFormerConfig`], the dictionary contains addional losses
for each auxiliary predictions.
"""
# retrieve the matching between the outputs of the last layer and the labels
indices = self.matcher(masks_queries_logits, class_queries_logits, mask_labels, class_labels)
# compute the average number of target masks for normalization purposes
num_masks: Number = self.get_num_masks(class_labels, device=class_labels[0].device)
# get all the losses
losses: Dict[str, Tensor] = {
**self.loss_masks(masks_queries_logits, mask_labels, indices, num_masks),
**self.loss_labels(class_queries_logits, class_labels, indices),
}
# in case of auxiliary losses, we repeat this process with the output of each intermediate layer.
if auxiliary_predictions is not None:
for idx, aux_outputs in enumerate(auxiliary_predictions):
masks_queries_logits = aux_outputs["masks_queries_logits"]
class_queries_logits = aux_outputs["class_queries_logits"]
loss_dict = self.forward(masks_queries_logits, class_queries_logits, mask_labels, class_labels)
loss_dict = {f"{key}_{idx}": value for key, value in loss_dict.items()}
losses.update(loss_dict)
return losses
def get_num_masks(self, class_labels: torch.Tensor, device: torch.device) -> torch.Tensor:
"""
Computes the average number of target masks across the batch, for normalization purposes.
"""
num_masks = sum([len(classes) for classes in class_labels])
num_masks_pt = torch.as_tensor([num_masks], dtype=torch.float, device=device)
return num_masks_pt
class MaskFormerFPNConvLayer(nn.Module):
def __init__(self, in_features: int, out_features: int, kernel_size: int = 3, padding: int = 1):
"""
A basic module that executes conv - norm - in sequence used in MaskFormer.
Args:
in_features (`int`):
The number of input features (channels).
out_features (`int`):
The number of outputs features (channels).
"""
super().__init__()
self.layers = [
nn.Conv2d(in_features, out_features, kernel_size=kernel_size, padding=padding, bias=False),
nn.GroupNorm(32, out_features),
nn.ReLU(inplace=True),
]
for i, layer in enumerate(self.layers):
# Provide backwards compatibility from when the class inherited from nn.Sequential
# In nn.Sequential subclasses, the name given to the layer is its index in the sequence.
# In nn.Module subclasses they derived from the instance attribute they are assigned to e.g.
# self.my_layer_name = Layer()
# We can't give instance attributes integer names i.e. self.0 is not permitted and so need to register
# explicitly
self.add_module(str(i), layer)
def forward(self, input: Tensor) -> Tensor:
hidden_state = input
for layer in self.layers:
hidden_state = layer(hidden_state)
return hidden_state
class MaskFormerFPNLayer(nn.Module):
def __init__(self, in_features: int, lateral_features: int):
"""
A Feature Pyramid Network Layer (FPN) layer. It creates a feature map by aggregating features from the previous
and backbone layer. Due to the spatial mismatch, the tensor coming from the previous layer is upsampled.
Args:
in_features (`int`):
The number of input features (channels).
lateral_features (`int`):
The number of lateral features (channels).
"""
super().__init__()
self.proj = nn.Sequential(
nn.Conv2d(lateral_features, in_features, kernel_size=1, padding=0, bias=False),
nn.GroupNorm(32, in_features),
)
self.block = MaskFormerFPNConvLayer(in_features, in_features)
def forward(self, down: Tensor, left: Tensor) -> Tensor:
left = self.proj(left)
down = nn.functional.interpolate(down, size=left.shape[-2:], mode="nearest")
down += left
down = self.block(down)
return down
class MaskFormerFPNModel(nn.Module):
def __init__(self, in_features: int, lateral_widths: List[int], feature_size: int = 256):
"""
Feature Pyramid Network, given an input tensor and a set of feature map of different feature/spatial size, it
creates a list of feature maps with the same feature size.
Args:
in_features (`int`):
The number of input features (channels).
lateral_widths (`List[int]`):
A list with the features (channels) size of each lateral connection.
feature_size (int, *optional*, defaults to 256):
The features (channels) of the resulting feature maps.
"""
super().__init__()
self.stem = MaskFormerFPNConvLayer(in_features, feature_size)
self.layers = nn.Sequential(
*[MaskFormerFPNLayer(feature_size, lateral_width) for lateral_width in lateral_widths[::-1]]
)
def forward(self, features: List[Tensor]) -> List[Tensor]:
fpn_features = []
last_feature = features[-1]
other_features = features[:-1]
output = self.stem(last_feature)
for layer, left in zip(self.layers, other_features[::-1]):
output = layer(output, left)
fpn_features.append(output)
return fpn_features
class MaskFormerPixelDecoder(nn.Module):
def __init__(self, *args, feature_size: int = 256, mask_feature_size: int = 256, **kwargs):
r"""
Pixel Decoder Module proposed in [Per-Pixel Classification is Not All You Need for Semantic
Segmentation](https://arxiv.org/abs/2107.06278). It first runs the backbone's features into a Feature Pyramid
Network creating a list of feature maps. Then, it projects the last one to the correct `mask_size`.
Args:
feature_size (`int`, *optional*, defaults to 256):
The feature size (channel dimension) of the FPN feature maps.
mask_feature_size (`int`, *optional*, defaults to 256):
The features (channels) of the target masks size \\(C_{\epsilon}\\) in the paper.
"""
super().__init__()
self.fpn = MaskFormerFPNModel(*args, feature_size=feature_size, **kwargs)
self.mask_projection = nn.Conv2d(feature_size, mask_feature_size, kernel_size=3, padding=1)
def forward(
self, features: List[Tensor], output_hidden_states: bool = False, return_dict: bool = True
) -> MaskFormerPixelDecoderOutput:
fpn_features = self.fpn(features)
# we use the last feature map
last_feature_projected = self.mask_projection(fpn_features[-1])
if not return_dict:
return (last_feature_projected, tuple(fpn_features)) if output_hidden_states else (last_feature_projected,)
return MaskFormerPixelDecoderOutput(
last_hidden_state=last_feature_projected, hidden_states=tuple(fpn_features) if output_hidden_states else ()
)
# copied and adapted from original implementation, also practically equal to DetrSinePositionEmbedding
class MaskFormerSinePositionEmbedding(nn.Module):
"""
This is a more standard version of the position embedding, very similar to the one used by the Attention is all you
need paper, generalized to work on images.
"""
def __init__(
self, num_pos_feats: int = 64, temperature: int = 10000, normalize: bool = False, scale: Optional[float] = None
):
super().__init__()
if scale is not None and normalize is False:
raise ValueError("normalize should be True if scale is passed")
self.num_pos_feats = num_pos_feats
self.temperature = temperature
self.normalize = normalize
self.scale = 2 * math.pi if scale is None else scale
def forward(self, x: Tensor, mask: Optional[Tensor] = None) -> Tensor:
if mask is None:
mask = torch.zeros((x.size(0), x.size(2), x.size(3)), device=x.device, dtype=torch.bool)
not_mask = (~mask).to(x.dtype)
y_embed = not_mask.cumsum(1)
x_embed = not_mask.cumsum(2)
if self.normalize:
eps = 1e-6
y_embed = y_embed / (y_embed[:, -1:, :] + eps) * self.scale
x_embed = x_embed / (x_embed[:, :, -1:] + eps) * self.scale
dim_t = torch.arange(self.num_pos_feats, dtype=x.dtype, device=x.device)
dim_t = self.temperature ** (2 * torch.div(dim_t, 2, rounding_mode="floor") / self.num_pos_feats)
pos_x = x_embed[:, :, :, None] / dim_t
pos_y = y_embed[:, :, :, None] / dim_t
pos_x = torch.stack((pos_x[:, :, :, 0::2].sin(), pos_x[:, :, :, 1::2].cos()), dim=4).flatten(3)
pos_y = torch.stack((pos_y[:, :, :, 0::2].sin(), pos_y[:, :, :, 1::2].cos()), dim=4).flatten(3)
pos = torch.cat((pos_y, pos_x), dim=3).permute(0, 3, 1, 2)
return pos
class PredictionBlock(nn.Module):
def __init__(self, in_dim: int, out_dim: int, activation: nn.Module) -> None:
super().__init__()
self.layers = [nn.Linear(in_dim, out_dim), activation]
# Maintain submodule indexing as if part of a Sequential block
for i, layer in enumerate(self.layers):
self.add_module(str(i), layer)
def forward(self, input: Tensor) -> Tensor:
hidden_state = input
for layer in self.layers:
hidden_state = layer(hidden_state)
return hidden_state
class MaskformerMLPPredictionHead(nn.Module):
def __init__(self, input_dim: int, hidden_dim: int, output_dim: int, num_layers: int = 3):
"""
A classic Multi Layer Perceptron (MLP).
Args:
input_dim (`int`):
The input dimensions.
hidden_dim (`int`):
The hidden dimensions.
output_dim (`int`):
The output dimensions.
num_layers (int, *optional*, defaults to 3):
The number of layers.
"""
super().__init__()
in_dims = [input_dim] + [hidden_dim] * (num_layers - 1)
out_dims = [hidden_dim] * (num_layers - 1) + [output_dim]
self.layers = []
for i, (in_dim, out_dim) in enumerate(zip(in_dims, out_dims)):
activation = nn.ReLU() if i < num_layers - 1 else nn.Identity()
layer = PredictionBlock(in_dim, out_dim, activation=activation)
self.layers.append(layer)
# Provide backwards compatibility from when the class inherited from nn.Sequential
# In nn.Sequential subclasses, the name given to the layer is its index in the sequence.
# In nn.Module subclasses they derived from the instance attribute they are assigned to e.g.
# self.my_layer_name = Layer()
# We can't give instance attributes integer names i.e. self.0 is not permitted and so need to register
# explicitly
self.add_module(str(i), layer)
def forward(self, input: Tensor) -> Tensor:
hidden_state = input
for layer in self.layers:
hidden_state = layer(hidden_state)
return hidden_state
class MaskFormerPixelLevelModule(nn.Module):
def __init__(self, config: MaskFormerConfig):
"""
Pixel Level Module proposed in [Per-Pixel Classification is Not All You Need for Semantic
Segmentation](https://arxiv.org/abs/2107.06278). It runs the input image through a backbone and a pixel
decoder, generating an image feature map and pixel embeddings.
Args:
config ([`MaskFormerConfig`]):
The configuration used to instantiate this model.
"""
super().__init__()
# TODD: add method to load pretrained weights of backbone
backbone_config = config.backbone_config
if backbone_config.model_type == "swin":
# for backwards compatibility
backbone_config = MaskFormerSwinConfig.from_dict(backbone_config.to_dict())
backbone_config.out_features = ["stage1", "stage2", "stage3", "stage4"]
self.encoder = AutoBackbone.from_config(backbone_config)
feature_channels = self.encoder.channels
self.decoder = MaskFormerPixelDecoder(
in_features=feature_channels[-1],
feature_size=config.fpn_feature_size,
mask_feature_size=config.mask_feature_size,
lateral_widths=feature_channels[:-1],
)
def forward(
self, pixel_values: Tensor, output_hidden_states: bool = False, return_dict: bool = True
) -> MaskFormerPixelLevelModuleOutput:
features = self.encoder(pixel_values).feature_maps
decoder_output = self.decoder(features, output_hidden_states, return_dict=return_dict)
if not return_dict:
last_hidden_state = decoder_output[0]
outputs = (features[-1], last_hidden_state)
if output_hidden_states:
hidden_states = decoder_output[1]
outputs = outputs + (tuple(features),) + (hidden_states,)
return outputs
return MaskFormerPixelLevelModuleOutput(
# the last feature is actually the output from the last layer
encoder_last_hidden_state=features[-1],
decoder_last_hidden_state=decoder_output.last_hidden_state,
encoder_hidden_states=tuple(features) if output_hidden_states else (),
decoder_hidden_states=decoder_output.hidden_states if output_hidden_states else (),
)
class MaskFormerTransformerModule(nn.Module):
"""
The MaskFormer's transformer module.
"""
def __init__(self, in_features: int, config: MaskFormerConfig):
super().__init__()
hidden_size = config.decoder_config.hidden_size
should_project = in_features != hidden_size
self.position_embedder = MaskFormerSinePositionEmbedding(num_pos_feats=hidden_size // 2, normalize=True)
self.queries_embedder = nn.Embedding(config.decoder_config.num_queries, hidden_size)
self.input_projection = nn.Conv2d(in_features, hidden_size, kernel_size=1) if should_project else None
self.decoder = DetrDecoder(config=config.decoder_config)
def forward(
self,
image_features: Tensor,
output_hidden_states: bool = False,
output_attentions: bool = False,
return_dict: Optional[bool] = None,
) -> DetrDecoderOutput:
if self.input_projection is not None:
image_features = self.input_projection(image_features)
position_embeddings = self.position_embedder(image_features)
# repeat the queries "q c -> b q c"
batch_size = image_features.shape[0]
queries_embeddings = self.queries_embedder.weight.unsqueeze(0).repeat(batch_size, 1, 1)
inputs_embeds = torch.zeros_like(queries_embeddings, requires_grad=True)
batch_size, num_channels, height, width = image_features.shape
# rearrange both image_features and position_embeddings "b c h w -> b (h w) c"
image_features = image_features.view(batch_size, num_channels, height * width).permute(0, 2, 1)
position_embeddings = position_embeddings.view(batch_size, num_channels, height * width).permute(0, 2, 1)
decoder_output: DetrDecoderOutput = self.decoder(
inputs_embeds=inputs_embeds,
attention_mask=None,
encoder_hidden_states=image_features,
encoder_attention_mask=None,
position_embeddings=position_embeddings,
query_position_embeddings=queries_embeddings,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
return decoder_output
MASKFORMER_START_DOCSTRING = r"""
This model is a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) sub-class. Use
it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage and
behavior.
Parameters:
config ([`MaskFormerConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
MASKFORMER_INPUTS_DOCSTRING = r"""
Args:
pixel_values (`torch.FloatTensor` of shape `(batch_size, num_channels, height, width)`):
Pixel values. Pixel values can be obtained using [`AutoImageProcessor`]. See
[`MaskFormerImageProcessor.__call__`] for details.
pixel_mask (`torch.LongTensor` of shape `(batch_size, height, width)`, *optional*):
Mask to avoid performing attention on padding pixel values. Mask values selected in `[0, 1]`:
- 1 for pixels that are real (i.e. **not masked**),
- 0 for pixels that are padding (i.e. **masked**).
[What are attention masks?](../glossary#attention-mask)
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of Detr's decoder attention layers.
return_dict (`bool`, *optional*):
Whether or not to return a [`~MaskFormerModelOutput`] instead of a plain tuple.
"""
class MaskFormerPreTrainedModel(PreTrainedModel):
config_class = MaskFormerConfig
base_model_prefix = "model"
main_input_name = "pixel_values"
def _init_weights(self, module: nn.Module):
xavier_std = self.config.init_xavier_std
std = self.config.init_std
if isinstance(module, MaskFormerTransformerModule):
if module.input_projection is not None:
nn.init.xavier_uniform_(module.input_projection.weight, gain=xavier_std)
nn.init.constant_(module.input_projection.bias, 0)
# FPN
elif isinstance(module, MaskFormerFPNModel):
nn.init.xavier_uniform_(module.stem.get_submodule("0").weight, gain=xavier_std)
elif isinstance(module, MaskFormerFPNLayer):
nn.init.xavier_uniform_(module.proj[0].weight, gain=xavier_std)
elif isinstance(module, MaskFormerFPNConvLayer):
nn.init.xavier_uniform_(module.get_submodule("0").weight, gain=xavier_std)
# The MLP head
elif isinstance(module, MaskformerMLPPredictionHead):
# I was not able to find the correct initializer in the original implementation
# we'll use xavier
for submodule in module.modules():
if isinstance(submodule, nn.Linear):
nn.init.xavier_uniform_(submodule.weight, gain=xavier_std)
nn.init.constant_(submodule.bias, 0)
elif isinstance(module, nn.LayerNorm):
module.bias.data.zero_()
module.weight.data.fill_(1.0)
# copied from DETR
if isinstance(module, (nn.Linear, nn.Conv2d, nn.BatchNorm2d)):
# Slightly different from the TF version which uses truncated_normal for initialization
# cf https://github.com/pytorch/pytorch/pull/5617
module.weight.data.normal_(mean=0.0, std=std)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=std)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, MaskFormerPixelLevelModule):
module.encoder.gradient_checkpointing = value
if isinstance(module, DetrDecoder):
module.gradient_checkpointing = value
@add_start_docstrings(
"The bare MaskFormer Model outputting raw hidden-states without any specific head on top.",
MASKFORMER_START_DOCSTRING,
)
class MaskFormerModel(MaskFormerPreTrainedModel):
def __init__(self, config: MaskFormerConfig):
super().__init__(config)
self.pixel_level_module = MaskFormerPixelLevelModule(config)
self.transformer_module = MaskFormerTransformerModule(
in_features=self.pixel_level_module.encoder.channels[-1], config=config
)
self.post_init()
@add_start_docstrings_to_model_forward(MASKFORMER_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=MaskFormerModelOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
pixel_values: Tensor,
pixel_mask: Optional[Tensor] = None,
output_hidden_states: Optional[bool] = None,
output_attentions: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> MaskFormerModelOutput:
r"""
Returns:
Examples:
```python
>>> from transformers import AutoImageProcessor, MaskFormerModel
>>> from PIL import Image
>>> import requests
>>> # load MaskFormer fine-tuned on ADE20k semantic segmentation
>>> image_processor = AutoImageProcessor.from_pretrained("facebook/maskformer-swin-base-ade")
>>> model = MaskFormerModel.from_pretrained("facebook/maskformer-swin-base-ade")
>>> url = "http://images.cocodataset.org/val2017/000000039769.jpg"
>>> image = Image.open(requests.get(url, stream=True).raw)
>>> inputs = image_processor(image, return_tensors="pt")
>>> # forward pass
>>> outputs = model(**inputs)
>>> # the decoder of MaskFormer outputs hidden states of shape (batch_size, num_queries, hidden_size)
>>> transformer_decoder_last_hidden_state = outputs.transformer_decoder_last_hidden_state
>>> list(transformer_decoder_last_hidden_state.shape)
[1, 100, 256]
```"""
if pixel_values is None:
raise ValueError("You have to specify pixel_values")
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
batch_size, _, height, width = pixel_values.shape
if pixel_mask is None:
pixel_mask = torch.ones((batch_size, height, width), device=pixel_values.device)
pixel_level_module_output = self.pixel_level_module(
pixel_values, output_hidden_states, return_dict=return_dict
)
image_features = pixel_level_module_output[0]
pixel_embeddings = pixel_level_module_output[1]
transformer_module_output = self.transformer_module(image_features, output_hidden_states, output_attentions)
queries = transformer_module_output.last_hidden_state
encoder_hidden_states = None
pixel_decoder_hidden_states = None
transformer_decoder_hidden_states = None
hidden_states = None
if output_hidden_states:
encoder_hidden_states = pixel_level_module_output[2]
pixel_decoder_hidden_states = pixel_level_module_output[3]
transformer_decoder_hidden_states = transformer_module_output[1]
hidden_states = encoder_hidden_states + pixel_decoder_hidden_states + transformer_decoder_hidden_states
output = MaskFormerModelOutput(
encoder_last_hidden_state=image_features,
pixel_decoder_last_hidden_state=pixel_embeddings,
transformer_decoder_last_hidden_state=queries,
encoder_hidden_states=encoder_hidden_states,
pixel_decoder_hidden_states=pixel_decoder_hidden_states,
transformer_decoder_hidden_states=transformer_decoder_hidden_states,
hidden_states=hidden_states,
attentions=transformer_module_output.attentions,
)
if not return_dict:
output = tuple(v for v in output.values())
return output
class MaskFormerForInstanceSegmentation(MaskFormerPreTrainedModel):
def __init__(self, config: MaskFormerConfig):
super().__init__(config)
self.model = MaskFormerModel(config)
hidden_size = config.decoder_config.hidden_size
# + 1 because we add the "null" class
self.class_predictor = nn.Linear(hidden_size, config.num_labels + 1)
self.mask_embedder = MaskformerMLPPredictionHead(hidden_size, hidden_size, config.mask_feature_size)
self.matcher = MaskFormerHungarianMatcher(
cost_class=1.0, cost_dice=config.dice_weight, cost_mask=config.mask_weight
)
self.weight_dict: Dict[str, float] = {
"loss_cross_entropy": config.cross_entropy_weight,
"loss_mask": config.mask_weight,
"loss_dice": config.dice_weight,
}
self.criterion = MaskFormerLoss(
config.num_labels,
matcher=self.matcher,
weight_dict=self.weight_dict,
eos_coef=config.no_object_weight,
)
self.post_init()
def get_loss_dict(
self,
masks_queries_logits: Tensor,
class_queries_logits: Tensor,
mask_labels: Tensor,
class_labels: Tensor,
auxiliary_logits: Dict[str, Tensor],
) -> Dict[str, Tensor]:
loss_dict: Dict[str, Tensor] = self.criterion(
masks_queries_logits, class_queries_logits, mask_labels, class_labels, auxiliary_logits
)
# weight each loss by `self.weight_dict[<LOSS_NAME>]` including auxiliary losses
for key, weight in self.weight_dict.items():
for loss_key, loss in loss_dict.items():
if key in loss_key:
loss *= weight
return loss_dict
def get_loss(self, loss_dict: Dict[str, Tensor]) -> Tensor:
return sum(loss_dict.values())
def get_logits(self, outputs: MaskFormerModelOutput) -> Tuple[Tensor, Tensor, Dict[str, Tensor]]:
pixel_embeddings = outputs.pixel_decoder_last_hidden_state
# get the auxiliary predictions (one for each decoder's layer)
auxiliary_logits: List[str, Tensor] = []
# This code is a little bit cumbersome, an improvement can be to return a list of predictions. If we have auxiliary loss then we are going to return more than one element in the list
if self.config.use_auxiliary_loss:
stacked_transformer_decoder_outputs = torch.stack(outputs.transformer_decoder_hidden_states)
classes = self.class_predictor(stacked_transformer_decoder_outputs)
class_queries_logits = classes[-1]
# get the masks
mask_embeddings = self.mask_embedder(stacked_transformer_decoder_outputs)
# sum up over the channels for each embedding
# (num_embeddings, batch_size, num_queries, num_channels, 1, 1)
mask_embeddings = mask_embeddings.unsqueeze(-1).unsqueeze(-1)
# (1, batch_size, 1, num_channels, height, width)
pixel_embeddings = pixel_embeddings.unsqueeze(0).unsqueeze(2)
# (num_embeddings, batch_size, num_queries, height, width)
binaries_masks = (mask_embeddings * pixel_embeddings).sum(dim=3)
masks_queries_logits = binaries_masks[-1]
# go til [:-1] because the last one is always used
for aux_binary_masks, aux_classes in zip(binaries_masks[:-1], classes[:-1]):
auxiliary_logits.append(
{"masks_queries_logits": aux_binary_masks, "class_queries_logits": aux_classes}
)
else:
transformer_decoder_hidden_states = outputs.transformer_decoder_last_hidden_state
classes = self.class_predictor(transformer_decoder_hidden_states)
class_queries_logits = classes
# get the masks
mask_embeddings = self.mask_embedder(transformer_decoder_hidden_states)
# sum up over the channels
# (batch_size, num_queries, num_channels, 1, 1)
mask_embeddings = mask_embeddings.unsqueeze(-1).unsqueeze(-1)
# (batch_size, 1, num_channels, height, width)
pixel_embeddings = pixel_embeddings.unsqueeze(1)
# (batch_size, num_queries, height, width)
masks_queries_logits = (mask_embeddings * pixel_embeddings).sum(dim=2)
return class_queries_logits, masks_queries_logits, auxiliary_logits
@add_start_docstrings_to_model_forward(MASKFORMER_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=MaskFormerForInstanceSegmentationOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
pixel_values: Tensor,
mask_labels: Optional[List[Tensor]] = None,
class_labels: Optional[List[Tensor]] = None,
pixel_mask: Optional[Tensor] = None,
output_auxiliary_logits: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
output_attentions: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> MaskFormerForInstanceSegmentationOutput:
r"""
mask_labels (`List[torch.Tensor]`, *optional*):
List of mask labels of shape `(num_labels, height, width)` to be fed to a model
class_labels (`List[torch.LongTensor]`, *optional*):
list of target class labels of shape `(num_labels, height, width)` to be fed to a model. They identify the
labels of `mask_labels`, e.g. the label of `mask_labels[i][j]` if `class_labels[i][j]`.
Returns:
Examples:
Semantic segmentation example:
```python
>>> from transformers import AutoImageProcessor, MaskFormerForInstanceSegmentation
>>> from PIL import Image
>>> import requests
>>> # load MaskFormer fine-tuned on ADE20k semantic segmentation
>>> image_processor = AutoImageProcessor.from_pretrained("facebook/maskformer-swin-base-ade")
>>> model = MaskFormerForInstanceSegmentation.from_pretrained("facebook/maskformer-swin-base-ade")
>>> url = (
... "https://huggingface.co/datasets/hf-internal-testing/fixtures_ade20k/resolve/main/ADE_val_00000001.jpg"
... )
>>> image = Image.open(requests.get(url, stream=True).raw)
>>> inputs = image_processor(images=image, return_tensors="pt")
>>> outputs = model(**inputs)
>>> # model predicts class_queries_logits of shape `(batch_size, num_queries)`
>>> # and masks_queries_logits of shape `(batch_size, num_queries, height, width)`
>>> class_queries_logits = outputs.class_queries_logits
>>> masks_queries_logits = outputs.masks_queries_logits
>>> # you can pass them to image_processor for postprocessing
>>> predicted_semantic_map = image_processor.post_process_semantic_segmentation(
... outputs, target_sizes=[image.size[::-1]]
... )[0]
>>> # we refer to the demo notebooks for visualization (see "Resources" section in the MaskFormer docs)
>>> list(predicted_semantic_map.shape)
[512, 683]
```
Panoptic segmentation example:
```python
>>> from transformers import AutoImageProcessor, MaskFormerForInstanceSegmentation
>>> from PIL import Image
>>> import requests
>>> # load MaskFormer fine-tuned on COCO panoptic segmentation
>>> image_processor = AutoImageProcessor.from_pretrained("facebook/maskformer-swin-base-coco")
>>> model = MaskFormerForInstanceSegmentation.from_pretrained("facebook/maskformer-swin-base-coco")
>>> url = "http://images.cocodataset.org/val2017/000000039769.jpg"
>>> image = Image.open(requests.get(url, stream=True).raw)
>>> inputs = image_processor(images=image, return_tensors="pt")
>>> outputs = model(**inputs)
>>> # model predicts class_queries_logits of shape `(batch_size, num_queries)`
>>> # and masks_queries_logits of shape `(batch_size, num_queries, height, width)`
>>> class_queries_logits = outputs.class_queries_logits
>>> masks_queries_logits = outputs.masks_queries_logits
>>> # you can pass them to image_processor for postprocessing
>>> result = image_processor.post_process_panoptic_segmentation(outputs, target_sizes=[image.size[::-1]])[0]
>>> # we refer to the demo notebooks for visualization (see "Resources" section in the MaskFormer docs)
>>> predicted_panoptic_map = result["segmentation"]
>>> list(predicted_panoptic_map.shape)
[480, 640]
```
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
raw_outputs = self.model(
pixel_values,
pixel_mask,
output_hidden_states=output_hidden_states or self.config.use_auxiliary_loss,
return_dict=return_dict,
output_attentions=output_attentions,
)
# We need to have raw_outputs optionally be returned as a dict to use torch.compile. For backwards
# compatibility we convert to a dataclass for the rest of the model logic
outputs = MaskFormerModelOutput(
encoder_last_hidden_state=raw_outputs[0],
pixel_decoder_last_hidden_state=raw_outputs[1],
transformer_decoder_last_hidden_state=raw_outputs[2],
encoder_hidden_states=raw_outputs[3] if output_hidden_states else None,
pixel_decoder_hidden_states=raw_outputs[4] if output_hidden_states else None,
transformer_decoder_hidden_states=raw_outputs[5] if output_hidden_states else None,
hidden_states=raw_outputs[6] if output_hidden_states else None,
attentions=raw_outputs[-1] if output_attentions else None,
)
loss, loss_dict, auxiliary_logits = None, None, None
class_queries_logits, masks_queries_logits, auxiliary_logits = self.get_logits(outputs)
if mask_labels is not None and class_labels is not None:
loss_dict: Dict[str, Tensor] = self.get_loss_dict(
masks_queries_logits, class_queries_logits, mask_labels, class_labels, auxiliary_logits
)
loss = self.get_loss(loss_dict)
output_auxiliary_logits = (
self.config.output_auxiliary_logits if output_auxiliary_logits is None else output_auxiliary_logits
)
if not output_auxiliary_logits:
auxiliary_logits = None
if not return_dict:
output = tuple(
v
for v in (loss, class_queries_logits, masks_queries_logits, auxiliary_logits, *outputs.values())
if v is not None
)
return output
return MaskFormerForInstanceSegmentationOutput(
loss=loss,
**outputs,
class_queries_logits=class_queries_logits,
masks_queries_logits=masks_queries_logits,
auxiliary_logits=auxiliary_logits,
)
| transformers-main | src/transformers/models/maskformer/modeling_maskformer.py |
# coding=utf-8
# Copyright 2022 Meta Platforms, Inc.and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" MaskFormer model configuration"""
from typing import Dict, Optional
from ...configuration_utils import PretrainedConfig
from ...utils import logging
from ..auto import CONFIG_MAPPING
from ..detr import DetrConfig
from ..swin import SwinConfig
MASKFORMER_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"facebook/maskformer-swin-base-ade": (
"https://huggingface.co/facebook/maskformer-swin-base-ade/blob/main/config.json"
)
# See all MaskFormer models at https://huggingface.co/models?filter=maskformer
}
logger = logging.get_logger(__name__)
class MaskFormerConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`MaskFormerModel`]. It is used to instantiate a
MaskFormer model according to the specified arguments, defining the model architecture. Instantiating a
configuration with the defaults will yield a similar configuration to that of the MaskFormer
[facebook/maskformer-swin-base-ade](https://huggingface.co/facebook/maskformer-swin-base-ade) architecture trained
on [ADE20k-150](https://huggingface.co/datasets/scene_parse_150).
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Currently, MaskFormer only supports the [Swin Transformer](swin) as backbone.
Args:
mask_feature_size (`int`, *optional*, defaults to 256):
The masks' features size, this value will also be used to specify the Feature Pyramid Network features'
size.
no_object_weight (`float`, *optional*, defaults to 0.1):
Weight to apply to the null (no object) class.
use_auxiliary_loss(`bool`, *optional*, defaults to `False`):
If `True` [`MaskFormerForInstanceSegmentationOutput`] will contain the auxiliary losses computed using the
logits from each decoder's stage.
backbone_config (`Dict`, *optional*):
The configuration passed to the backbone, if unset, the configuration corresponding to
`swin-base-patch4-window12-384` will be used.
decoder_config (`Dict`, *optional*):
The configuration passed to the transformer decoder model, if unset the base config for `detr-resnet-50`
will be used.
init_std (`float`, *optional*, defaults to 0.02):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
init_xavier_std (`float`, *optional*, defaults to 1):
The scaling factor used for the Xavier initialization gain in the HM Attention map module.
dice_weight (`float`, *optional*, defaults to 1.0):
The weight for the dice loss.
cross_entropy_weight (`float`, *optional*, defaults to 1.0):
The weight for the cross entropy loss.
mask_weight (`float`, *optional*, defaults to 20.0):
The weight for the mask loss.
output_auxiliary_logits (`bool`, *optional*):
Should the model output its `auxiliary_logits` or not.
Raises:
`ValueError`:
Raised if the backbone model type selected is not in `["swin"]` or the decoder model type selected is not
in `["detr"]`
Examples:
```python
>>> from transformers import MaskFormerConfig, MaskFormerModel
>>> # Initializing a MaskFormer facebook/maskformer-swin-base-ade configuration
>>> configuration = MaskFormerConfig()
>>> # Initializing a model (with random weights) from the facebook/maskformer-swin-base-ade style configuration
>>> model = MaskFormerModel(configuration)
>>> # Accessing the model configuration
>>> configuration = model.config
```
"""
model_type = "maskformer"
attribute_map = {"hidden_size": "mask_feature_size"}
backbones_supported = ["resnet", "swin"]
decoders_supported = ["detr"]
def __init__(
self,
fpn_feature_size: int = 256,
mask_feature_size: int = 256,
no_object_weight: float = 0.1,
use_auxiliary_loss: bool = False,
backbone_config: Optional[Dict] = None,
decoder_config: Optional[Dict] = None,
init_std: float = 0.02,
init_xavier_std: float = 1.0,
dice_weight: float = 1.0,
cross_entropy_weight: float = 1.0,
mask_weight: float = 20.0,
output_auxiliary_logits: Optional[bool] = None,
**kwargs,
):
if backbone_config is None:
# fall back to https://huggingface.co/microsoft/swin-base-patch4-window12-384-in22k
backbone_config = SwinConfig(
image_size=384,
in_channels=3,
patch_size=4,
embed_dim=128,
depths=[2, 2, 18, 2],
num_heads=[4, 8, 16, 32],
window_size=12,
drop_path_rate=0.3,
out_features=["stage1", "stage2", "stage3", "stage4"],
)
if isinstance(backbone_config, dict):
backbone_model_type = backbone_config.pop("model_type")
config_class = CONFIG_MAPPING[backbone_model_type]
backbone_config = config_class.from_dict(backbone_config)
# verify that the backbone is supported
if backbone_config.model_type not in self.backbones_supported:
logger.warning_once(
f"Backbone {backbone_config.model_type} is not a supported model and may not be compatible with MaskFormer. "
f"Supported model types: {','.join(self.backbones_supported)}"
)
if decoder_config is None:
# fall back to https://huggingface.co/facebook/detr-resnet-50
decoder_config = DetrConfig()
else:
# verify that the decoder is supported
decoder_type = (
decoder_config.pop("model_type") if isinstance(decoder_config, dict) else decoder_config.model_type
)
if decoder_type not in self.decoders_supported:
raise ValueError(
f"Transformer Decoder {decoder_type} not supported, please use one of"
f" {','.join(self.decoders_supported)}"
)
if isinstance(decoder_config, dict):
config_class = CONFIG_MAPPING[decoder_type]
decoder_config = config_class.from_dict(decoder_config)
self.backbone_config = backbone_config
self.decoder_config = decoder_config
# main feature dimension for the model
self.fpn_feature_size = fpn_feature_size
self.mask_feature_size = mask_feature_size
# initializer
self.init_std = init_std
self.init_xavier_std = init_xavier_std
# Hungarian matcher && loss
self.cross_entropy_weight = cross_entropy_weight
self.dice_weight = dice_weight
self.mask_weight = mask_weight
self.use_auxiliary_loss = use_auxiliary_loss
self.no_object_weight = no_object_weight
self.output_auxiliary_logits = output_auxiliary_logits
self.num_attention_heads = self.decoder_config.encoder_attention_heads
self.num_hidden_layers = self.decoder_config.num_hidden_layers
super().__init__(**kwargs)
@classmethod
def from_backbone_and_decoder_configs(
cls, backbone_config: PretrainedConfig, decoder_config: PretrainedConfig, **kwargs
):
"""Instantiate a [`MaskFormerConfig`] (or a derived class) from a pre-trained backbone model configuration and DETR model
configuration.
Args:
backbone_config ([`PretrainedConfig`]):
The backbone configuration.
decoder_config ([`PretrainedConfig`]):
The transformer decoder configuration to use.
Returns:
[`MaskFormerConfig`]: An instance of a configuration object
"""
return cls(
backbone_config=backbone_config,
decoder_config=decoder_config,
**kwargs,
)
| transformers-main | src/transformers/models/maskformer/configuration_maskformer.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Convert MaskFormer checkpoints with Swin backbone from the original repository. URL:
https://github.com/facebookresearch/MaskFormer"""
import argparse
import json
import pickle
from pathlib import Path
import requests
import torch
from huggingface_hub import hf_hub_download
from PIL import Image
from transformers import MaskFormerConfig, MaskFormerForInstanceSegmentation, MaskFormerImageProcessor, SwinConfig
from transformers.utils import logging
logging.set_verbosity_info()
logger = logging.get_logger(__name__)
def get_maskformer_config(model_name: str):
backbone_config = SwinConfig.from_pretrained(
"microsoft/swin-tiny-patch4-window7-224", out_features=["stage1", "stage2", "stage3", "stage4"]
)
config = MaskFormerConfig(backbone_config=backbone_config)
repo_id = "huggingface/label-files"
if "ade20k-full" in model_name:
# this should be ok
config.num_labels = 847
filename = "maskformer-ade20k-full-id2label.json"
elif "ade" in model_name:
# this should be ok
config.num_labels = 150
filename = "ade20k-id2label.json"
elif "coco-stuff" in model_name:
# this should be ok
config.num_labels = 171
filename = "maskformer-coco-stuff-id2label.json"
elif "coco" in model_name:
# TODO
config.num_labels = 133
filename = "coco-panoptic-id2label.json"
elif "cityscapes" in model_name:
# this should be ok
config.num_labels = 19
filename = "cityscapes-id2label.json"
elif "vistas" in model_name:
# this should be ok
config.num_labels = 65
filename = "mapillary-vistas-id2label.json"
id2label = json.load(open(hf_hub_download(repo_id, filename, repo_type="dataset"), "r"))
id2label = {int(k): v for k, v in id2label.items()}
return config
def create_rename_keys(config):
rename_keys = []
# stem
# fmt: off
rename_keys.append(("backbone.patch_embed.proj.weight", "model.pixel_level_module.encoder.model.embeddings.patch_embeddings.projection.weight"))
rename_keys.append(("backbone.patch_embed.proj.bias", "model.pixel_level_module.encoder.model.embeddings.patch_embeddings.projection.bias"))
rename_keys.append(("backbone.patch_embed.norm.weight", "model.pixel_level_module.encoder.model.embeddings.norm.weight"))
rename_keys.append(("backbone.patch_embed.norm.bias", "model.pixel_level_module.encoder.model.embeddings.norm.bias"))
# stages
for i in range(len(config.backbone_config.depths)):
for j in range(config.backbone_config.depths[i]):
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.norm1.weight", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.layernorm_before.weight"))
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.norm1.bias", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.layernorm_before.bias"))
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.attn.relative_position_bias_table", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.attention.self.relative_position_bias_table"))
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.attn.relative_position_index", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.attention.self.relative_position_index"))
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.attn.proj.weight", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.attention.output.dense.weight"))
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.attn.proj.bias", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.attention.output.dense.bias"))
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.norm2.weight", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.layernorm_after.weight"))
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.norm2.bias", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.layernorm_after.bias"))
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.mlp.fc1.weight", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.intermediate.dense.weight"))
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.mlp.fc1.bias", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.intermediate.dense.bias"))
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.mlp.fc2.weight", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.output.dense.weight"))
rename_keys.append((f"backbone.layers.{i}.blocks.{j}.mlp.fc2.bias", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.output.dense.bias"))
if i < 3:
rename_keys.append((f"backbone.layers.{i}.downsample.reduction.weight", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.downsample.reduction.weight"))
rename_keys.append((f"backbone.layers.{i}.downsample.norm.weight", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.downsample.norm.weight"))
rename_keys.append((f"backbone.layers.{i}.downsample.norm.bias", f"model.pixel_level_module.encoder.model.encoder.layers.{i}.downsample.norm.bias"))
rename_keys.append((f"backbone.norm{i}.weight", f"model.pixel_level_module.encoder.hidden_states_norms.{i}.weight"))
rename_keys.append((f"backbone.norm{i}.bias", f"model.pixel_level_module.encoder.hidden_states_norms.{i}.bias"))
# FPN
rename_keys.append(("sem_seg_head.layer_4.weight", "model.pixel_level_module.decoder.fpn.stem.0.weight"))
rename_keys.append(("sem_seg_head.layer_4.norm.weight", "model.pixel_level_module.decoder.fpn.stem.1.weight"))
rename_keys.append(("sem_seg_head.layer_4.norm.bias", "model.pixel_level_module.decoder.fpn.stem.1.bias"))
for source_index, target_index in zip(range(3, 0, -1), range(0, 3)):
rename_keys.append((f"sem_seg_head.adapter_{source_index}.weight", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.proj.0.weight"))
rename_keys.append((f"sem_seg_head.adapter_{source_index}.norm.weight", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.proj.1.weight"))
rename_keys.append((f"sem_seg_head.adapter_{source_index}.norm.bias", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.proj.1.bias"))
rename_keys.append((f"sem_seg_head.layer_{source_index}.weight", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.block.0.weight"))
rename_keys.append((f"sem_seg_head.layer_{source_index}.norm.weight", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.block.1.weight"))
rename_keys.append((f"sem_seg_head.layer_{source_index}.norm.bias", f"model.pixel_level_module.decoder.fpn.layers.{target_index}.block.1.bias"))
rename_keys.append(("sem_seg_head.mask_features.weight", "model.pixel_level_module.decoder.mask_projection.weight"))
rename_keys.append(("sem_seg_head.mask_features.bias", "model.pixel_level_module.decoder.mask_projection.bias"))
# Transformer decoder
for idx in range(config.decoder_config.decoder_layers):
# self-attention out projection
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.self_attn.out_proj.weight", f"model.transformer_module.decoder.layers.{idx}.self_attn.out_proj.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.self_attn.out_proj.bias", f"model.transformer_module.decoder.layers.{idx}.self_attn.out_proj.bias"))
# cross-attention out projection
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.multihead_attn.out_proj.weight", f"model.transformer_module.decoder.layers.{idx}.encoder_attn.out_proj.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.multihead_attn.out_proj.bias", f"model.transformer_module.decoder.layers.{idx}.encoder_attn.out_proj.bias"))
# MLP 1
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.linear1.weight", f"model.transformer_module.decoder.layers.{idx}.fc1.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.linear1.bias", f"model.transformer_module.decoder.layers.{idx}.fc1.bias"))
# MLP 2
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.linear2.weight", f"model.transformer_module.decoder.layers.{idx}.fc2.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.linear2.bias", f"model.transformer_module.decoder.layers.{idx}.fc2.bias"))
# layernorm 1 (self-attention layernorm)
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm1.weight", f"model.transformer_module.decoder.layers.{idx}.self_attn_layer_norm.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm1.bias", f"model.transformer_module.decoder.layers.{idx}.self_attn_layer_norm.bias"))
# layernorm 2 (cross-attention layernorm)
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm2.weight", f"model.transformer_module.decoder.layers.{idx}.encoder_attn_layer_norm.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm2.bias", f"model.transformer_module.decoder.layers.{idx}.encoder_attn_layer_norm.bias"))
# layernorm 3 (final layernorm)
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm3.weight", f"model.transformer_module.decoder.layers.{idx}.final_layer_norm.weight"))
rename_keys.append((f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.norm3.bias", f"model.transformer_module.decoder.layers.{idx}.final_layer_norm.bias"))
rename_keys.append(("sem_seg_head.predictor.transformer.decoder.norm.weight", "model.transformer_module.decoder.layernorm.weight"))
rename_keys.append(("sem_seg_head.predictor.transformer.decoder.norm.bias", "model.transformer_module.decoder.layernorm.bias"))
# heads on top
rename_keys.append(("sem_seg_head.predictor.query_embed.weight", "model.transformer_module.queries_embedder.weight"))
rename_keys.append(("sem_seg_head.predictor.input_proj.weight", "model.transformer_module.input_projection.weight"))
rename_keys.append(("sem_seg_head.predictor.input_proj.bias", "model.transformer_module.input_projection.bias"))
rename_keys.append(("sem_seg_head.predictor.class_embed.weight", "class_predictor.weight"))
rename_keys.append(("sem_seg_head.predictor.class_embed.bias", "class_predictor.bias"))
for i in range(3):
rename_keys.append((f"sem_seg_head.predictor.mask_embed.layers.{i}.weight", f"mask_embedder.{i}.0.weight"))
rename_keys.append((f"sem_seg_head.predictor.mask_embed.layers.{i}.bias", f"mask_embedder.{i}.0.bias"))
# fmt: on
return rename_keys
def rename_key(dct, old, new):
val = dct.pop(old)
dct[new] = val
# we split up the matrix of each encoder layer into queries, keys and values
def read_in_swin_q_k_v(state_dict, backbone_config):
num_features = [int(backbone_config.embed_dim * 2**i) for i in range(len(backbone_config.depths))]
for i in range(len(backbone_config.depths)):
dim = num_features[i]
for j in range(backbone_config.depths[i]):
# fmt: off
# read in weights + bias of input projection layer (in original implementation, this is a single matrix + bias)
in_proj_weight = state_dict.pop(f"backbone.layers.{i}.blocks.{j}.attn.qkv.weight")
in_proj_bias = state_dict.pop(f"backbone.layers.{i}.blocks.{j}.attn.qkv.bias")
# next, add query, keys and values (in that order) to the state dict
state_dict[f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.attention.self.query.weight"] = in_proj_weight[:dim, :]
state_dict[f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.attention.self.query.bias"] = in_proj_bias[: dim]
state_dict[f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.attention.self.key.weight"] = in_proj_weight[
dim : dim * 2, :
]
state_dict[f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.attention.self.key.bias"] = in_proj_bias[
dim : dim * 2
]
state_dict[f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.attention.self.value.weight"] = in_proj_weight[
-dim :, :
]
state_dict[f"model.pixel_level_module.encoder.model.encoder.layers.{i}.blocks.{j}.attention.self.value.bias"] = in_proj_bias[-dim :]
# fmt: on
# we split up the matrix of each encoder layer into queries, keys and values
def read_in_decoder_q_k_v(state_dict, config):
# fmt: off
hidden_size = config.decoder_config.hidden_size
for idx in range(config.decoder_config.decoder_layers):
# read in weights + bias of self-attention input projection layer (in the original implementation, this is a single matrix + bias)
in_proj_weight = state_dict.pop(f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.self_attn.in_proj_weight")
in_proj_bias = state_dict.pop(f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.self_attn.in_proj_bias")
# next, add query, keys and values (in that order) to the state dict
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.q_proj.weight"] = in_proj_weight[: hidden_size, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.q_proj.bias"] = in_proj_bias[:config.hidden_size]
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.k_proj.weight"] = in_proj_weight[hidden_size : hidden_size * 2, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.k_proj.bias"] = in_proj_bias[hidden_size : hidden_size * 2]
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.v_proj.weight"] = in_proj_weight[-hidden_size :, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.self_attn.v_proj.bias"] = in_proj_bias[-hidden_size :]
# read in weights + bias of cross-attention input projection layer (in the original implementation, this is a single matrix + bias)
in_proj_weight = state_dict.pop(f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.multihead_attn.in_proj_weight")
in_proj_bias = state_dict.pop(f"sem_seg_head.predictor.transformer.decoder.layers.{idx}.multihead_attn.in_proj_bias")
# next, add query, keys and values (in that order) to the state dict
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.q_proj.weight"] = in_proj_weight[: hidden_size, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.q_proj.bias"] = in_proj_bias[:config.hidden_size]
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.k_proj.weight"] = in_proj_weight[hidden_size : hidden_size * 2, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.k_proj.bias"] = in_proj_bias[hidden_size : hidden_size * 2]
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.v_proj.weight"] = in_proj_weight[-hidden_size :, :]
state_dict[f"model.transformer_module.decoder.layers.{idx}.encoder_attn.v_proj.bias"] = in_proj_bias[-hidden_size :]
# fmt: on
# We will verify our results on an image of cute cats
def prepare_img() -> torch.Tensor:
url = "http://images.cocodataset.org/val2017/000000039769.jpg"
im = Image.open(requests.get(url, stream=True).raw)
return im
@torch.no_grad()
def convert_maskformer_checkpoint(
model_name: str, checkpoint_path: str, pytorch_dump_folder_path: str, push_to_hub: bool = False
):
"""
Copy/paste/tweak model's weights to our MaskFormer structure.
"""
config = get_maskformer_config(model_name)
# load original state_dict
with open(checkpoint_path, "rb") as f:
data = pickle.load(f)
state_dict = data["model"]
# for name, param in state_dict.items():
# print(name, param.shape)
# rename keys
rename_keys = create_rename_keys(config)
for src, dest in rename_keys:
rename_key(state_dict, src, dest)
read_in_swin_q_k_v(state_dict, config.backbone_config)
read_in_decoder_q_k_v(state_dict, config)
# update to torch tensors
for key, value in state_dict.items():
state_dict[key] = torch.from_numpy(value)
# load 🤗 model
model = MaskFormerForInstanceSegmentation(config)
model.eval()
for name, param in model.named_parameters():
print(name, param.shape)
missing_keys, unexpected_keys = model.load_state_dict(state_dict, strict=False)
assert missing_keys == [
"model.pixel_level_module.encoder.model.layernorm.weight",
"model.pixel_level_module.encoder.model.layernorm.bias",
]
assert len(unexpected_keys) == 0, f"Unexpected keys: {unexpected_keys}"
# verify results
image = prepare_img()
if "vistas" in model_name:
ignore_index = 65
elif "cityscapes" in model_name:
ignore_index = 65535
else:
ignore_index = 255
reduce_labels = True if "ade" in model_name else False
image_processor = MaskFormerImageProcessor(ignore_index=ignore_index, reduce_labels=reduce_labels)
inputs = image_processor(image, return_tensors="pt")
outputs = model(**inputs)
print("Logits:", outputs.class_queries_logits[0, :3, :3])
if model_name == "maskformer-swin-tiny-ade":
expected_logits = torch.tensor(
[[3.6353, -4.4770, -2.6065], [0.5081, -4.2394, -3.5343], [2.1909, -5.0353, -1.9323]]
)
assert torch.allclose(outputs.class_queries_logits[0, :3, :3], expected_logits, atol=1e-4)
print("Looks ok!")
if pytorch_dump_folder_path is not None:
print(f"Saving model and image processor to {pytorch_dump_folder_path}")
Path(pytorch_dump_folder_path).mkdir(exist_ok=True)
model.save_pretrained(pytorch_dump_folder_path)
image_processor.save_pretrained(pytorch_dump_folder_path)
if push_to_hub:
print("Pushing model and image processor to the hub...")
model.push_to_hub(f"nielsr/{model_name}")
image_processor.push_to_hub(f"nielsr/{model_name}")
if __name__ == "__main__":
parser = argparse.ArgumentParser()
# Required parameters
parser.add_argument(
"--model_name",
default="maskformer-swin-tiny-ade",
type=str,
help=("Name of the MaskFormer model you'd like to convert",),
)
parser.add_argument(
"--checkpoint_path",
default="/Users/nielsrogge/Documents/MaskFormer_checkpoints/MaskFormer-Swin-tiny-ADE20k/model.pkl",
type=str,
help="Path to the original state dict (.pth file).",
)
parser.add_argument(
"--pytorch_dump_folder_path", default=None, type=str, help="Path to the output PyTorch model directory."
)
parser.add_argument(
"--push_to_hub", action="store_true", help="Whether or not to push the converted model to the 🤗 hub."
)
args = parser.parse_args()
convert_maskformer_checkpoint(
args.model_name, args.checkpoint_path, args.pytorch_dump_folder_path, args.push_to_hub
)
| transformers-main | src/transformers/models/maskformer/convert_maskformer_swin_to_pytorch.py |
# coding=utf-8
# Copyright 2022 Microsoft Research Asia and the HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch MarkupLM model."""
import math
import os
from typing import Optional, Tuple, Union
import torch
import torch.utils.checkpoint
from torch import nn
from torch.nn import BCEWithLogitsLoss, CrossEntropyLoss, MSELoss
from ...activations import ACT2FN
from ...file_utils import (
add_start_docstrings,
add_start_docstrings_to_model_forward,
replace_return_docstrings,
)
from ...modeling_outputs import (
BaseModelOutputWithPastAndCrossAttentions,
BaseModelOutputWithPoolingAndCrossAttentions,
MaskedLMOutput,
QuestionAnsweringModelOutput,
SequenceClassifierOutput,
TokenClassifierOutput,
)
from ...modeling_utils import (
PreTrainedModel,
apply_chunking_to_forward,
find_pruneable_heads_and_indices,
prune_linear_layer,
)
from ...utils import logging
from .configuration_markuplm import MarkupLMConfig
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "microsoft/markuplm-base"
_CONFIG_FOR_DOC = "MarkupLMConfig"
MARKUPLM_PRETRAINED_MODEL_ARCHIVE_LIST = [
"microsoft/markuplm-base",
"microsoft/markuplm-large",
]
class XPathEmbeddings(nn.Module):
"""Construct the embeddings from xpath tags and subscripts.
We drop tree-id in this version, as its info can be covered by xpath.
"""
def __init__(self, config):
super(XPathEmbeddings, self).__init__()
self.max_depth = config.max_depth
self.xpath_unitseq2_embeddings = nn.Linear(config.xpath_unit_hidden_size * self.max_depth, config.hidden_size)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
self.activation = nn.ReLU()
self.xpath_unitseq2_inner = nn.Linear(config.xpath_unit_hidden_size * self.max_depth, 4 * config.hidden_size)
self.inner2emb = nn.Linear(4 * config.hidden_size, config.hidden_size)
self.xpath_tag_sub_embeddings = nn.ModuleList(
[
nn.Embedding(config.max_xpath_tag_unit_embeddings, config.xpath_unit_hidden_size)
for _ in range(self.max_depth)
]
)
self.xpath_subs_sub_embeddings = nn.ModuleList(
[
nn.Embedding(config.max_xpath_subs_unit_embeddings, config.xpath_unit_hidden_size)
for _ in range(self.max_depth)
]
)
def forward(self, xpath_tags_seq=None, xpath_subs_seq=None):
xpath_tags_embeddings = []
xpath_subs_embeddings = []
for i in range(self.max_depth):
xpath_tags_embeddings.append(self.xpath_tag_sub_embeddings[i](xpath_tags_seq[:, :, i]))
xpath_subs_embeddings.append(self.xpath_subs_sub_embeddings[i](xpath_subs_seq[:, :, i]))
xpath_tags_embeddings = torch.cat(xpath_tags_embeddings, dim=-1)
xpath_subs_embeddings = torch.cat(xpath_subs_embeddings, dim=-1)
xpath_embeddings = xpath_tags_embeddings + xpath_subs_embeddings
xpath_embeddings = self.inner2emb(self.dropout(self.activation(self.xpath_unitseq2_inner(xpath_embeddings))))
return xpath_embeddings
# Copied from transformers.models.roberta.modeling_roberta.create_position_ids_from_input_ids
def create_position_ids_from_input_ids(input_ids, padding_idx, past_key_values_length=0):
"""
Replace non-padding symbols with their position numbers. Position numbers begin at padding_idx+1. Padding symbols
are ignored. This is modified from fairseq's `utils.make_positions`.
Args:
x: torch.Tensor x:
Returns: torch.Tensor
"""
# The series of casts and type-conversions here are carefully balanced to both work with ONNX export and XLA.
mask = input_ids.ne(padding_idx).int()
incremental_indices = (torch.cumsum(mask, dim=1).type_as(mask) + past_key_values_length) * mask
return incremental_indices.long() + padding_idx
class MarkupLMEmbeddings(nn.Module):
"""Construct the embeddings from word, position and token_type embeddings."""
def __init__(self, config):
super(MarkupLMEmbeddings, self).__init__()
self.config = config
self.word_embeddings = nn.Embedding(config.vocab_size, config.hidden_size, padding_idx=config.pad_token_id)
self.position_embeddings = nn.Embedding(config.max_position_embeddings, config.hidden_size)
self.max_depth = config.max_depth
self.xpath_embeddings = XPathEmbeddings(config)
self.token_type_embeddings = nn.Embedding(config.type_vocab_size, config.hidden_size)
self.LayerNorm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
self.register_buffer(
"position_ids", torch.arange(config.max_position_embeddings).expand((1, -1)), persistent=False
)
self.padding_idx = config.pad_token_id
self.position_embeddings = nn.Embedding(
config.max_position_embeddings, config.hidden_size, padding_idx=self.padding_idx
)
# Copied from transformers.models.roberta.modeling_roberta.RobertaEmbeddings.create_position_ids_from_inputs_embeds
def create_position_ids_from_inputs_embeds(self, inputs_embeds):
"""
We are provided embeddings directly. We cannot infer which are padded so just generate sequential position ids.
Args:
inputs_embeds: torch.Tensor
Returns: torch.Tensor
"""
input_shape = inputs_embeds.size()[:-1]
sequence_length = input_shape[1]
position_ids = torch.arange(
self.padding_idx + 1, sequence_length + self.padding_idx + 1, dtype=torch.long, device=inputs_embeds.device
)
return position_ids.unsqueeze(0).expand(input_shape)
def forward(
self,
input_ids=None,
xpath_tags_seq=None,
xpath_subs_seq=None,
token_type_ids=None,
position_ids=None,
inputs_embeds=None,
past_key_values_length=0,
):
if input_ids is not None:
input_shape = input_ids.size()
else:
input_shape = inputs_embeds.size()[:-1]
device = input_ids.device if input_ids is not None else inputs_embeds.device
if position_ids is None:
if input_ids is not None:
# Create the position ids from the input token ids. Any padded tokens remain padded.
position_ids = create_position_ids_from_input_ids(input_ids, self.padding_idx, past_key_values_length)
else:
position_ids = self.create_position_ids_from_inputs_embeds(inputs_embeds)
if token_type_ids is None:
token_type_ids = torch.zeros(input_shape, dtype=torch.long, device=device)
if inputs_embeds is None:
inputs_embeds = self.word_embeddings(input_ids)
# prepare xpath seq
if xpath_tags_seq is None:
xpath_tags_seq = self.config.tag_pad_id * torch.ones(
tuple(list(input_shape) + [self.max_depth]), dtype=torch.long, device=device
)
if xpath_subs_seq is None:
xpath_subs_seq = self.config.subs_pad_id * torch.ones(
tuple(list(input_shape) + [self.max_depth]), dtype=torch.long, device=device
)
words_embeddings = inputs_embeds
position_embeddings = self.position_embeddings(position_ids)
token_type_embeddings = self.token_type_embeddings(token_type_ids)
xpath_embeddings = self.xpath_embeddings(xpath_tags_seq, xpath_subs_seq)
embeddings = words_embeddings + position_embeddings + token_type_embeddings + xpath_embeddings
embeddings = self.LayerNorm(embeddings)
embeddings = self.dropout(embeddings)
return embeddings
# Copied from transformers.models.bert.modeling_bert.BertSelfOutput with Bert->MarkupLM
class MarkupLMSelfOutput(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.hidden_size)
self.LayerNorm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
def forward(self, hidden_states: torch.Tensor, input_tensor: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states)
hidden_states = self.LayerNorm(hidden_states + input_tensor)
return hidden_states
# Copied from transformers.models.bert.modeling_bert.BertIntermediate
class MarkupLMIntermediate(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.intermediate_size)
if isinstance(config.hidden_act, str):
self.intermediate_act_fn = ACT2FN[config.hidden_act]
else:
self.intermediate_act_fn = config.hidden_act
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.intermediate_act_fn(hidden_states)
return hidden_states
# Copied from transformers.models.bert.modeling_bert.BertOutput with Bert->MarkupLM
class MarkupLMOutput(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.intermediate_size, config.hidden_size)
self.LayerNorm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
def forward(self, hidden_states: torch.Tensor, input_tensor: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states)
hidden_states = self.LayerNorm(hidden_states + input_tensor)
return hidden_states
# Copied from transformers.models.bert.modeling_bert.BertPooler
class MarkupLMPooler(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.hidden_size)
self.activation = nn.Tanh()
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
# We "pool" the model by simply taking the hidden state corresponding
# to the first token.
first_token_tensor = hidden_states[:, 0]
pooled_output = self.dense(first_token_tensor)
pooled_output = self.activation(pooled_output)
return pooled_output
# Copied from transformers.models.bert.modeling_bert.BertPredictionHeadTransform with Bert->MarkupLM
class MarkupLMPredictionHeadTransform(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.hidden_size)
if isinstance(config.hidden_act, str):
self.transform_act_fn = ACT2FN[config.hidden_act]
else:
self.transform_act_fn = config.hidden_act
self.LayerNorm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.transform_act_fn(hidden_states)
hidden_states = self.LayerNorm(hidden_states)
return hidden_states
# Copied from transformers.models.bert.modeling_bert.BertLMPredictionHead with Bert->MarkupLM
class MarkupLMLMPredictionHead(nn.Module):
def __init__(self, config):
super().__init__()
self.transform = MarkupLMPredictionHeadTransform(config)
# The output weights are the same as the input embeddings, but there is
# an output-only bias for each token.
self.decoder = nn.Linear(config.hidden_size, config.vocab_size, bias=False)
self.bias = nn.Parameter(torch.zeros(config.vocab_size))
# Need a link between the two variables so that the bias is correctly resized with `resize_token_embeddings`
self.decoder.bias = self.bias
def forward(self, hidden_states):
hidden_states = self.transform(hidden_states)
hidden_states = self.decoder(hidden_states)
return hidden_states
# Copied from transformers.models.bert.modeling_bert.BertOnlyMLMHead with Bert->MarkupLM
class MarkupLMOnlyMLMHead(nn.Module):
def __init__(self, config):
super().__init__()
self.predictions = MarkupLMLMPredictionHead(config)
def forward(self, sequence_output: torch.Tensor) -> torch.Tensor:
prediction_scores = self.predictions(sequence_output)
return prediction_scores
# Copied from transformers.models.bert.modeling_bert.BertSelfAttention with Bert->MarkupLM
class MarkupLMSelfAttention(nn.Module):
def __init__(self, config, position_embedding_type=None):
super().__init__()
if config.hidden_size % config.num_attention_heads != 0 and not hasattr(config, "embedding_size"):
raise ValueError(
f"The hidden size ({config.hidden_size}) is not a multiple of the number of attention "
f"heads ({config.num_attention_heads})"
)
self.num_attention_heads = config.num_attention_heads
self.attention_head_size = int(config.hidden_size / config.num_attention_heads)
self.all_head_size = self.num_attention_heads * self.attention_head_size
self.query = nn.Linear(config.hidden_size, self.all_head_size)
self.key = nn.Linear(config.hidden_size, self.all_head_size)
self.value = nn.Linear(config.hidden_size, self.all_head_size)
self.dropout = nn.Dropout(config.attention_probs_dropout_prob)
self.position_embedding_type = position_embedding_type or getattr(
config, "position_embedding_type", "absolute"
)
if self.position_embedding_type == "relative_key" or self.position_embedding_type == "relative_key_query":
self.max_position_embeddings = config.max_position_embeddings
self.distance_embedding = nn.Embedding(2 * config.max_position_embeddings - 1, self.attention_head_size)
self.is_decoder = config.is_decoder
def transpose_for_scores(self, x: torch.Tensor) -> torch.Tensor:
new_x_shape = x.size()[:-1] + (self.num_attention_heads, self.attention_head_size)
x = x.view(new_x_shape)
return x.permute(0, 2, 1, 3)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.FloatTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
encoder_hidden_states: Optional[torch.FloatTensor] = None,
encoder_attention_mask: Optional[torch.FloatTensor] = None,
past_key_value: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
output_attentions: Optional[bool] = False,
) -> Tuple[torch.Tensor]:
mixed_query_layer = self.query(hidden_states)
# If this is instantiated as a cross-attention module, the keys
# and values come from an encoder; the attention mask needs to be
# such that the encoder's padding tokens are not attended to.
is_cross_attention = encoder_hidden_states is not None
if is_cross_attention and past_key_value is not None:
# reuse k,v, cross_attentions
key_layer = past_key_value[0]
value_layer = past_key_value[1]
attention_mask = encoder_attention_mask
elif is_cross_attention:
key_layer = self.transpose_for_scores(self.key(encoder_hidden_states))
value_layer = self.transpose_for_scores(self.value(encoder_hidden_states))
attention_mask = encoder_attention_mask
elif past_key_value is not None:
key_layer = self.transpose_for_scores(self.key(hidden_states))
value_layer = self.transpose_for_scores(self.value(hidden_states))
key_layer = torch.cat([past_key_value[0], key_layer], dim=2)
value_layer = torch.cat([past_key_value[1], value_layer], dim=2)
else:
key_layer = self.transpose_for_scores(self.key(hidden_states))
value_layer = self.transpose_for_scores(self.value(hidden_states))
query_layer = self.transpose_for_scores(mixed_query_layer)
use_cache = past_key_value is not None
if self.is_decoder:
# if cross_attention save Tuple(torch.Tensor, torch.Tensor) of all cross attention key/value_states.
# Further calls to cross_attention layer can then reuse all cross-attention
# key/value_states (first "if" case)
# if uni-directional self-attention (decoder) save Tuple(torch.Tensor, torch.Tensor) of
# all previous decoder key/value_states. Further calls to uni-directional self-attention
# can concat previous decoder key/value_states to current projected key/value_states (third "elif" case)
# if encoder bi-directional self-attention `past_key_value` is always `None`
past_key_value = (key_layer, value_layer)
# Take the dot product between "query" and "key" to get the raw attention scores.
attention_scores = torch.matmul(query_layer, key_layer.transpose(-1, -2))
if self.position_embedding_type == "relative_key" or self.position_embedding_type == "relative_key_query":
query_length, key_length = query_layer.shape[2], key_layer.shape[2]
if use_cache:
position_ids_l = torch.tensor(key_length - 1, dtype=torch.long, device=hidden_states.device).view(
-1, 1
)
else:
position_ids_l = torch.arange(query_length, dtype=torch.long, device=hidden_states.device).view(-1, 1)
position_ids_r = torch.arange(key_length, dtype=torch.long, device=hidden_states.device).view(1, -1)
distance = position_ids_l - position_ids_r
positional_embedding = self.distance_embedding(distance + self.max_position_embeddings - 1)
positional_embedding = positional_embedding.to(dtype=query_layer.dtype) # fp16 compatibility
if self.position_embedding_type == "relative_key":
relative_position_scores = torch.einsum("bhld,lrd->bhlr", query_layer, positional_embedding)
attention_scores = attention_scores + relative_position_scores
elif self.position_embedding_type == "relative_key_query":
relative_position_scores_query = torch.einsum("bhld,lrd->bhlr", query_layer, positional_embedding)
relative_position_scores_key = torch.einsum("bhrd,lrd->bhlr", key_layer, positional_embedding)
attention_scores = attention_scores + relative_position_scores_query + relative_position_scores_key
attention_scores = attention_scores / math.sqrt(self.attention_head_size)
if attention_mask is not None:
# Apply the attention mask is (precomputed for all layers in MarkupLMModel forward() function)
attention_scores = attention_scores + attention_mask
# Normalize the attention scores to probabilities.
attention_probs = nn.functional.softmax(attention_scores, dim=-1)
# This is actually dropping out entire tokens to attend to, which might
# seem a bit unusual, but is taken from the original Transformer paper.
attention_probs = self.dropout(attention_probs)
# Mask heads if we want to
if head_mask is not None:
attention_probs = attention_probs * head_mask
context_layer = torch.matmul(attention_probs, value_layer)
context_layer = context_layer.permute(0, 2, 1, 3).contiguous()
new_context_layer_shape = context_layer.size()[:-2] + (self.all_head_size,)
context_layer = context_layer.view(new_context_layer_shape)
outputs = (context_layer, attention_probs) if output_attentions else (context_layer,)
if self.is_decoder:
outputs = outputs + (past_key_value,)
return outputs
# Copied from transformers.models.bert.modeling_bert.BertAttention with Bert->MarkupLM
class MarkupLMAttention(nn.Module):
def __init__(self, config, position_embedding_type=None):
super().__init__()
self.self = MarkupLMSelfAttention(config, position_embedding_type=position_embedding_type)
self.output = MarkupLMSelfOutput(config)
self.pruned_heads = set()
def prune_heads(self, heads):
if len(heads) == 0:
return
heads, index = find_pruneable_heads_and_indices(
heads, self.self.num_attention_heads, self.self.attention_head_size, self.pruned_heads
)
# Prune linear layers
self.self.query = prune_linear_layer(self.self.query, index)
self.self.key = prune_linear_layer(self.self.key, index)
self.self.value = prune_linear_layer(self.self.value, index)
self.output.dense = prune_linear_layer(self.output.dense, index, dim=1)
# Update hyper params and store pruned heads
self.self.num_attention_heads = self.self.num_attention_heads - len(heads)
self.self.all_head_size = self.self.attention_head_size * self.self.num_attention_heads
self.pruned_heads = self.pruned_heads.union(heads)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.FloatTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
encoder_hidden_states: Optional[torch.FloatTensor] = None,
encoder_attention_mask: Optional[torch.FloatTensor] = None,
past_key_value: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
output_attentions: Optional[bool] = False,
) -> Tuple[torch.Tensor]:
self_outputs = self.self(
hidden_states,
attention_mask,
head_mask,
encoder_hidden_states,
encoder_attention_mask,
past_key_value,
output_attentions,
)
attention_output = self.output(self_outputs[0], hidden_states)
outputs = (attention_output,) + self_outputs[1:] # add attentions if we output them
return outputs
# Copied from transformers.models.bert.modeling_bert.BertLayer with Bert->MarkupLM
class MarkupLMLayer(nn.Module):
def __init__(self, config):
super().__init__()
self.chunk_size_feed_forward = config.chunk_size_feed_forward
self.seq_len_dim = 1
self.attention = MarkupLMAttention(config)
self.is_decoder = config.is_decoder
self.add_cross_attention = config.add_cross_attention
if self.add_cross_attention:
if not self.is_decoder:
raise ValueError(f"{self} should be used as a decoder model if cross attention is added")
self.crossattention = MarkupLMAttention(config, position_embedding_type="absolute")
self.intermediate = MarkupLMIntermediate(config)
self.output = MarkupLMOutput(config)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.FloatTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
encoder_hidden_states: Optional[torch.FloatTensor] = None,
encoder_attention_mask: Optional[torch.FloatTensor] = None,
past_key_value: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
output_attentions: Optional[bool] = False,
) -> Tuple[torch.Tensor]:
# decoder uni-directional self-attention cached key/values tuple is at positions 1,2
self_attn_past_key_value = past_key_value[:2] if past_key_value is not None else None
self_attention_outputs = self.attention(
hidden_states,
attention_mask,
head_mask,
output_attentions=output_attentions,
past_key_value=self_attn_past_key_value,
)
attention_output = self_attention_outputs[0]
# if decoder, the last output is tuple of self-attn cache
if self.is_decoder:
outputs = self_attention_outputs[1:-1]
present_key_value = self_attention_outputs[-1]
else:
outputs = self_attention_outputs[1:] # add self attentions if we output attention weights
cross_attn_present_key_value = None
if self.is_decoder and encoder_hidden_states is not None:
if not hasattr(self, "crossattention"):
raise ValueError(
f"If `encoder_hidden_states` are passed, {self} has to be instantiated with cross-attention layers"
" by setting `config.add_cross_attention=True`"
)
# cross_attn cached key/values tuple is at positions 3,4 of past_key_value tuple
cross_attn_past_key_value = past_key_value[-2:] if past_key_value is not None else None
cross_attention_outputs = self.crossattention(
attention_output,
attention_mask,
head_mask,
encoder_hidden_states,
encoder_attention_mask,
cross_attn_past_key_value,
output_attentions,
)
attention_output = cross_attention_outputs[0]
outputs = outputs + cross_attention_outputs[1:-1] # add cross attentions if we output attention weights
# add cross-attn cache to positions 3,4 of present_key_value tuple
cross_attn_present_key_value = cross_attention_outputs[-1]
present_key_value = present_key_value + cross_attn_present_key_value
layer_output = apply_chunking_to_forward(
self.feed_forward_chunk, self.chunk_size_feed_forward, self.seq_len_dim, attention_output
)
outputs = (layer_output,) + outputs
# if decoder, return the attn key/values as the last output
if self.is_decoder:
outputs = outputs + (present_key_value,)
return outputs
def feed_forward_chunk(self, attention_output):
intermediate_output = self.intermediate(attention_output)
layer_output = self.output(intermediate_output, attention_output)
return layer_output
# Copied from transformers.models.bert.modeling_bert.BertEncoder with Bert->MarkupLM
class MarkupLMEncoder(nn.Module):
def __init__(self, config):
super().__init__()
self.config = config
self.layer = nn.ModuleList([MarkupLMLayer(config) for _ in range(config.num_hidden_layers)])
self.gradient_checkpointing = False
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.FloatTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
encoder_hidden_states: Optional[torch.FloatTensor] = None,
encoder_attention_mask: Optional[torch.FloatTensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = False,
output_hidden_states: Optional[bool] = False,
return_dict: Optional[bool] = True,
) -> Union[Tuple[torch.Tensor], BaseModelOutputWithPastAndCrossAttentions]:
all_hidden_states = () if output_hidden_states else None
all_self_attentions = () if output_attentions else None
all_cross_attentions = () if output_attentions and self.config.add_cross_attention else None
if self.gradient_checkpointing and self.training:
if use_cache:
logger.warning_once(
"`use_cache=True` is incompatible with gradient checkpointing. Setting `use_cache=False`..."
)
use_cache = False
next_decoder_cache = () if use_cache else None
for i, layer_module in enumerate(self.layer):
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
layer_head_mask = head_mask[i] if head_mask is not None else None
past_key_value = past_key_values[i] if past_key_values is not None else None
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, past_key_value, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(layer_module),
hidden_states,
attention_mask,
layer_head_mask,
encoder_hidden_states,
encoder_attention_mask,
)
else:
layer_outputs = layer_module(
hidden_states,
attention_mask,
layer_head_mask,
encoder_hidden_states,
encoder_attention_mask,
past_key_value,
output_attentions,
)
hidden_states = layer_outputs[0]
if use_cache:
next_decoder_cache += (layer_outputs[-1],)
if output_attentions:
all_self_attentions = all_self_attentions + (layer_outputs[1],)
if self.config.add_cross_attention:
all_cross_attentions = all_cross_attentions + (layer_outputs[2],)
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
if not return_dict:
return tuple(
v
for v in [
hidden_states,
next_decoder_cache,
all_hidden_states,
all_self_attentions,
all_cross_attentions,
]
if v is not None
)
return BaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
past_key_values=next_decoder_cache,
hidden_states=all_hidden_states,
attentions=all_self_attentions,
cross_attentions=all_cross_attentions,
)
class MarkupLMPreTrainedModel(PreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
config_class = MarkupLMConfig
pretrained_model_archive_map = MARKUPLM_PRETRAINED_MODEL_ARCHIVE_LIST
base_model_prefix = "markuplm"
# Copied from transformers.models.bert.modeling_bert.BertPreTrainedModel._init_weights with Bert->MarkupLM
def _init_weights(self, module):
"""Initialize the weights"""
if isinstance(module, nn.Linear):
# Slightly different from the TF version which uses truncated_normal for initialization
# cf https://github.com/pytorch/pytorch/pull/5617
module.weight.data.normal_(mean=0.0, std=self.config.initializer_range)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=self.config.initializer_range)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
elif isinstance(module, nn.LayerNorm):
module.bias.data.zero_()
module.weight.data.fill_(1.0)
@classmethod
def from_pretrained(cls, pretrained_model_name_or_path: Optional[Union[str, os.PathLike]], *model_args, **kwargs):
return super(MarkupLMPreTrainedModel, cls).from_pretrained(
pretrained_model_name_or_path, *model_args, **kwargs
)
MARKUPLM_START_DOCSTRING = r"""
This model is a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) sub-class. Use
it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage and
behavior.
Parameters:
config ([`MarkupLMConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
MARKUPLM_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `({0})`):
Indices of input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
xpath_tags_seq (`torch.LongTensor` of shape `({0}, config.max_depth)`, *optional*):
Tag IDs for each token in the input sequence, padded up to config.max_depth.
xpath_subs_seq (`torch.LongTensor` of shape `({0}, config.max_depth)`, *optional*):
Subscript IDs for each token in the input sequence, padded up to config.max_depth.
attention_mask (`torch.FloatTensor` of shape `({0})`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`: `1` for
tokens that are NOT MASKED, `0` for MASKED tokens.
[What are attention masks?](../glossary#attention-mask)
token_type_ids (`torch.LongTensor` of shape `({0})`, *optional*):
Segment token indices to indicate first and second portions of the inputs. Indices are selected in `[0,
1]`: `0` corresponds to a *sentence A* token, `1` corresponds to a *sentence B* token
[What are token type IDs?](../glossary#token-type-ids)
position_ids (`torch.LongTensor` of shape `({0})`, *optional*):
Indices of positions of each input sequence tokens in the position embeddings. Selected in the range `[0,
config.max_position_embeddings - 1]`.
[What are position IDs?](../glossary#position-ids)
head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules. Mask values selected in `[0, 1]`: `1`
indicates the head is **not masked**, `0` indicates the head is **masked**.
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation. This
is useful if you want more control over how to convert *input_ids* indices into associated vectors than the
model's internal embedding lookup matrix.
output_attentions (`bool`, *optional*):
If set to `True`, the attentions tensors of all attention layers are returned. See `attentions` under
returned tensors for more detail.
output_hidden_states (`bool`, *optional*):
If set to `True`, the hidden states of all layers are returned. See `hidden_states` under returned tensors
for more detail.
return_dict (`bool`, *optional*):
If set to `True`, the model will return a [`~file_utils.ModelOutput`] instead of a plain tuple.
"""
@add_start_docstrings(
"The bare MarkupLM Model transformer outputting raw hidden-states without any specific head on top.",
MARKUPLM_START_DOCSTRING,
)
class MarkupLMModel(MarkupLMPreTrainedModel):
# Copied from transformers.models.bert.modeling_bert.BertModel.__init__ with Bert->MarkupLM
def __init__(self, config, add_pooling_layer=True):
super().__init__(config)
self.config = config
self.embeddings = MarkupLMEmbeddings(config)
self.encoder = MarkupLMEncoder(config)
self.pooler = MarkupLMPooler(config) if add_pooling_layer else None
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.embeddings.word_embeddings
def set_input_embeddings(self, value):
self.embeddings.word_embeddings = value
def _prune_heads(self, heads_to_prune):
"""
Prunes heads of the model. heads_to_prune: dict of {layer_num: list of heads to prune in this layer} See base
class PreTrainedModel
"""
for layer, heads in heads_to_prune.items():
self.encoder.layer[layer].attention.prune_heads(heads)
@add_start_docstrings_to_model_forward(MARKUPLM_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@replace_return_docstrings(output_type=BaseModelOutputWithPoolingAndCrossAttentions, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
xpath_tags_seq: Optional[torch.LongTensor] = None,
xpath_subs_seq: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.FloatTensor] = None,
token_type_ids: Optional[torch.LongTensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, BaseModelOutputWithPoolingAndCrossAttentions]:
r"""
Returns:
Examples:
```python
>>> from transformers import AutoProcessor, MarkupLMModel
>>> processor = AutoProcessor.from_pretrained("microsoft/markuplm-base")
>>> model = MarkupLMModel.from_pretrained("microsoft/markuplm-base")
>>> html_string = "<html> <head> <title>Page Title</title> </head> </html>"
>>> encoding = processor(html_string, return_tensors="pt")
>>> outputs = model(**encoding)
>>> last_hidden_states = outputs.last_hidden_state
>>> list(last_hidden_states.shape)
[1, 4, 768]
```"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both input_ids and inputs_embeds at the same time")
elif input_ids is not None:
self.warn_if_padding_and_no_attention_mask(input_ids, attention_mask)
input_shape = input_ids.size()
elif inputs_embeds is not None:
input_shape = inputs_embeds.size()[:-1]
else:
raise ValueError("You have to specify either input_ids or inputs_embeds")
device = input_ids.device if input_ids is not None else inputs_embeds.device
if attention_mask is None:
attention_mask = torch.ones(input_shape, device=device)
if token_type_ids is None:
token_type_ids = torch.zeros(input_shape, dtype=torch.long, device=device)
extended_attention_mask = attention_mask.unsqueeze(1).unsqueeze(2)
extended_attention_mask = extended_attention_mask.to(dtype=self.dtype)
extended_attention_mask = (1.0 - extended_attention_mask) * -10000.0
if head_mask is not None:
if head_mask.dim() == 1:
head_mask = head_mask.unsqueeze(0).unsqueeze(0).unsqueeze(-1).unsqueeze(-1)
head_mask = head_mask.expand(self.config.num_hidden_layers, -1, -1, -1, -1)
elif head_mask.dim() == 2:
head_mask = head_mask.unsqueeze(1).unsqueeze(-1).unsqueeze(-1)
head_mask = head_mask.to(dtype=next(self.parameters()).dtype)
else:
head_mask = [None] * self.config.num_hidden_layers
embedding_output = self.embeddings(
input_ids=input_ids,
xpath_tags_seq=xpath_tags_seq,
xpath_subs_seq=xpath_subs_seq,
position_ids=position_ids,
token_type_ids=token_type_ids,
inputs_embeds=inputs_embeds,
)
encoder_outputs = self.encoder(
embedding_output,
extended_attention_mask,
head_mask=head_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = encoder_outputs[0]
pooled_output = self.pooler(sequence_output) if self.pooler is not None else None
if not return_dict:
return (sequence_output, pooled_output) + encoder_outputs[1:]
return BaseModelOutputWithPoolingAndCrossAttentions(
last_hidden_state=sequence_output,
pooler_output=pooled_output,
hidden_states=encoder_outputs.hidden_states,
attentions=encoder_outputs.attentions,
cross_attentions=encoder_outputs.cross_attentions,
)
# Copied from transformers.models.bert.modeling_bert.BertModel.prepare_inputs_for_generation
def prepare_inputs_for_generation(
self, input_ids, past_key_values=None, attention_mask=None, use_cache=True, **model_kwargs
):
input_shape = input_ids.shape
# if model is used as a decoder in encoder-decoder model, the decoder attention mask is created on the fly
if attention_mask is None:
attention_mask = input_ids.new_ones(input_shape)
# cut decoder_input_ids if past_key_values is used
if past_key_values is not None:
input_ids = input_ids[:, -1:]
return {
"input_ids": input_ids,
"attention_mask": attention_mask,
"past_key_values": past_key_values,
"use_cache": use_cache,
}
# Copied from transformers.models.bert.modeling_bert.BertModel._reorder_cache
def _reorder_cache(self, past_key_values, beam_idx):
reordered_past = ()
for layer_past in past_key_values:
reordered_past += (tuple(past_state.index_select(0, beam_idx) for past_state in layer_past),)
return reordered_past
@add_start_docstrings(
"""
MarkupLM Model with a span classification head on top for extractive question-answering tasks like SQuAD (a linear
layers on top of the hidden-states output to compute `span start logits` and `span end logits`).
""",
MARKUPLM_START_DOCSTRING,
)
class MarkupLMForQuestionAnswering(MarkupLMPreTrainedModel):
# Copied from transformers.models.bert.modeling_bert.BertForQuestionAnswering.__init__ with bert->markuplm, Bert->MarkupLM
def __init__(self, config):
super().__init__(config)
self.num_labels = config.num_labels
self.markuplm = MarkupLMModel(config, add_pooling_layer=False)
self.qa_outputs = nn.Linear(config.hidden_size, config.num_labels)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(MARKUPLM_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@replace_return_docstrings(output_type=QuestionAnsweringModelOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.Tensor] = None,
xpath_tags_seq: Optional[torch.Tensor] = None,
xpath_subs_seq: Optional[torch.Tensor] = None,
attention_mask: Optional[torch.Tensor] = None,
token_type_ids: Optional[torch.Tensor] = None,
position_ids: Optional[torch.Tensor] = None,
head_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.Tensor] = None,
start_positions: Optional[torch.Tensor] = None,
end_positions: Optional[torch.Tensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor], QuestionAnsweringModelOutput]:
r"""
start_positions (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for position (index) of the start of the labelled span for computing the token classification loss.
Positions are clamped to the length of the sequence (`sequence_length`). Position outside of the sequence
are not taken into account for computing the loss.
end_positions (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for position (index) of the end of the labelled span for computing the token classification loss.
Positions are clamped to the length of the sequence (`sequence_length`). Position outside of the sequence
are not taken into account for computing the loss.
Returns:
Examples:
```python
>>> from transformers import AutoProcessor, MarkupLMForQuestionAnswering
>>> import torch
>>> processor = AutoProcessor.from_pretrained("microsoft/markuplm-base-finetuned-websrc")
>>> model = MarkupLMForQuestionAnswering.from_pretrained("microsoft/markuplm-base-finetuned-websrc")
>>> html_string = "<html> <head> <title>My name is Niels</title> </head> </html>"
>>> question = "What's his name?"
>>> encoding = processor(html_string, questions=question, return_tensors="pt")
>>> with torch.no_grad():
... outputs = model(**encoding)
>>> answer_start_index = outputs.start_logits.argmax()
>>> answer_end_index = outputs.end_logits.argmax()
>>> predict_answer_tokens = encoding.input_ids[0, answer_start_index : answer_end_index + 1]
>>> processor.decode(predict_answer_tokens).strip()
'Niels'
```"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.markuplm(
input_ids,
xpath_tags_seq=xpath_tags_seq,
xpath_subs_seq=xpath_subs_seq,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
logits = self.qa_outputs(sequence_output)
start_logits, end_logits = logits.split(1, dim=-1)
start_logits = start_logits.squeeze(-1).contiguous()
end_logits = end_logits.squeeze(-1).contiguous()
total_loss = None
if start_positions is not None and end_positions is not None:
# If we are on multi-GPU, split add a dimension
if len(start_positions.size()) > 1:
start_positions = start_positions.squeeze(-1)
if len(end_positions.size()) > 1:
end_positions = end_positions.squeeze(-1)
# sometimes the start/end positions are outside our model inputs, we ignore these terms
ignored_index = start_logits.size(1)
start_positions.clamp_(0, ignored_index)
end_positions.clamp_(0, ignored_index)
loss_fct = CrossEntropyLoss(ignore_index=ignored_index)
start_loss = loss_fct(start_logits, start_positions)
end_loss = loss_fct(end_logits, end_positions)
total_loss = (start_loss + end_loss) / 2
if not return_dict:
output = (start_logits, end_logits) + outputs[2:]
return ((total_loss,) + output) if total_loss is not None else output
return QuestionAnsweringModelOutput(
loss=total_loss,
start_logits=start_logits,
end_logits=end_logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings("""MarkupLM Model with a `token_classification` head on top.""", MARKUPLM_START_DOCSTRING)
class MarkupLMForTokenClassification(MarkupLMPreTrainedModel):
# Copied from transformers.models.bert.modeling_bert.BertForTokenClassification.__init__ with bert->markuplm, Bert->MarkupLM
def __init__(self, config):
super().__init__(config)
self.num_labels = config.num_labels
self.markuplm = MarkupLMModel(config, add_pooling_layer=False)
classifier_dropout = (
config.classifier_dropout if config.classifier_dropout is not None else config.hidden_dropout_prob
)
self.dropout = nn.Dropout(classifier_dropout)
self.classifier = nn.Linear(config.hidden_size, config.num_labels)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(MARKUPLM_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@replace_return_docstrings(output_type=MaskedLMOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.Tensor] = None,
xpath_tags_seq: Optional[torch.Tensor] = None,
xpath_subs_seq: Optional[torch.Tensor] = None,
attention_mask: Optional[torch.Tensor] = None,
token_type_ids: Optional[torch.Tensor] = None,
position_ids: Optional[torch.Tensor] = None,
head_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.Tensor] = None,
labels: Optional[torch.Tensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor], MaskedLMOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the token classification loss. Indices should be in `[0, ..., config.num_labels - 1]`.
Returns:
Examples:
```python
>>> from transformers import AutoProcessor, AutoModelForTokenClassification
>>> import torch
>>> processor = AutoProcessor.from_pretrained("microsoft/markuplm-base")
>>> processor.parse_html = False
>>> model = AutoModelForTokenClassification.from_pretrained("microsoft/markuplm-base", num_labels=7)
>>> nodes = ["hello", "world"]
>>> xpaths = ["/html/body/div/li[1]/div/span", "/html/body/div/li[1]/div/span"]
>>> node_labels = [1, 2]
>>> encoding = processor(nodes=nodes, xpaths=xpaths, node_labels=node_labels, return_tensors="pt")
>>> with torch.no_grad():
... outputs = model(**encoding)
>>> loss = outputs.loss
>>> logits = outputs.logits
```"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.markuplm(
input_ids,
xpath_tags_seq=xpath_tags_seq,
xpath_subs_seq=xpath_subs_seq,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
prediction_scores = self.classifier(sequence_output) # (batch_size, seq_length, node_type_size)
loss = None
if labels is not None:
loss_fct = CrossEntropyLoss()
loss = loss_fct(
prediction_scores.view(-1, self.config.num_labels),
labels.view(-1),
)
if not return_dict:
output = (prediction_scores,) + outputs[2:]
return ((loss,) + output) if loss is not None else output
return TokenClassifierOutput(
loss=loss,
logits=prediction_scores,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings(
"""
MarkupLM Model transformer with a sequence classification/regression head on top (a linear layer on top of the
pooled output) e.g. for GLUE tasks.
""",
MARKUPLM_START_DOCSTRING,
)
class MarkupLMForSequenceClassification(MarkupLMPreTrainedModel):
# Copied from transformers.models.bert.modeling_bert.BertForSequenceClassification.__init__ with bert->markuplm, Bert->MarkupLM
def __init__(self, config):
super().__init__(config)
self.num_labels = config.num_labels
self.config = config
self.markuplm = MarkupLMModel(config)
classifier_dropout = (
config.classifier_dropout if config.classifier_dropout is not None else config.hidden_dropout_prob
)
self.dropout = nn.Dropout(classifier_dropout)
self.classifier = nn.Linear(config.hidden_size, config.num_labels)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(MARKUPLM_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@replace_return_docstrings(output_type=SequenceClassifierOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.Tensor] = None,
xpath_tags_seq: Optional[torch.Tensor] = None,
xpath_subs_seq: Optional[torch.Tensor] = None,
attention_mask: Optional[torch.Tensor] = None,
token_type_ids: Optional[torch.Tensor] = None,
position_ids: Optional[torch.Tensor] = None,
head_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.Tensor] = None,
labels: Optional[torch.Tensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor], SequenceClassifierOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for computing the sequence classification/regression loss. Indices should be in `[0, ...,
config.num_labels - 1]`. If `config.num_labels == 1` a regression loss is computed (Mean-Square loss), If
`config.num_labels > 1` a classification loss is computed (Cross-Entropy).
Returns:
Examples:
```python
>>> from transformers import AutoProcessor, AutoModelForSequenceClassification
>>> import torch
>>> processor = AutoProcessor.from_pretrained("microsoft/markuplm-base")
>>> model = AutoModelForSequenceClassification.from_pretrained("microsoft/markuplm-base", num_labels=7)
>>> html_string = "<html> <head> <title>Page Title</title> </head> </html>"
>>> encoding = processor(html_string, return_tensors="pt")
>>> with torch.no_grad():
... outputs = model(**encoding)
>>> loss = outputs.loss
>>> logits = outputs.logits
```"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.markuplm(
input_ids,
xpath_tags_seq=xpath_tags_seq,
xpath_subs_seq=xpath_subs_seq,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
pooled_output = outputs[1]
pooled_output = self.dropout(pooled_output)
logits = self.classifier(pooled_output)
loss = None
if labels is not None:
if self.config.problem_type is None:
if self.num_labels == 1:
self.config.problem_type = "regression"
elif self.num_labels > 1 and (labels.dtype == torch.long or labels.dtype == torch.int):
self.config.problem_type = "single_label_classification"
else:
self.config.problem_type = "multi_label_classification"
if self.config.problem_type == "regression":
loss_fct = MSELoss()
if self.num_labels == 1:
loss = loss_fct(logits.squeeze(), labels.squeeze())
else:
loss = loss_fct(logits, labels)
elif self.config.problem_type == "single_label_classification":
loss_fct = CrossEntropyLoss()
loss = loss_fct(logits.view(-1, self.num_labels), labels.view(-1))
elif self.config.problem_type == "multi_label_classification":
loss_fct = BCEWithLogitsLoss()
loss = loss_fct(logits, labels)
if not return_dict:
output = (logits,) + outputs[2:]
return ((loss,) + output) if loss is not None else output
return SequenceClassifierOutput(
loss=loss,
logits=logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
| transformers-main | src/transformers/models/markuplm/modeling_markuplm.py |
# coding=utf-8
# Copyright Microsoft Research and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Tokenization class for MarkupLM."""
import json
import os
from functools import lru_cache
from typing import Dict, List, Optional, Tuple, Union
import regex as re
from ...file_utils import PaddingStrategy, TensorType, add_end_docstrings
from ...tokenization_utils import AddedToken, PreTrainedTokenizer
from ...tokenization_utils_base import (
ENCODE_KWARGS_DOCSTRING,
BatchEncoding,
EncodedInput,
PreTokenizedInput,
TextInput,
TextInputPair,
TruncationStrategy,
)
from ...utils import logging
logger = logging.get_logger(__name__)
VOCAB_FILES_NAMES = {"vocab_file": "vocab.json", "merges_file": "merges.txt", "tokenizer_file": "tokenizer.json"}
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"microsoft/markuplm-base": "https://huggingface.co/microsoft/markuplm-base/resolve/main/vocab.json",
"microsoft/markuplm-large": "https://huggingface.co/microsoft/markuplm-large/resolve/main/vocab.json",
},
"merges_file": {
"microsoft/markuplm-base": "https://huggingface.co/microsoft/markuplm-base/resolve/main/merges.txt",
"microsoft/markuplm-large": "https://huggingface.co/microsoft/markuplm-large/resolve/main/merges.txt",
},
}
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {
"microsoft/markuplm-base": 512,
"microsoft/markuplm-large": 512,
}
MARKUPLM_ENCODE_PLUS_ADDITIONAL_KWARGS_DOCSTRING = r"""
add_special_tokens (`bool`, *optional*, defaults to `True`):
Whether or not to encode the sequences with the special tokens relative to their model.
padding (`bool`, `str` or [`~file_utils.PaddingStrategy`], *optional*, defaults to `False`):
Activates and controls padding. Accepts the following values:
- `True` or `'longest'`: Pad to the longest sequence in the batch (or no padding if only a single
sequence if provided).
- `'max_length'`: Pad to a maximum length specified with the argument `max_length` or to the maximum
acceptable input length for the model if that argument is not provided.
- `False` or `'do_not_pad'` (default): No padding (i.e., can output a batch with sequences of different
lengths).
truncation (`bool`, `str` or [`~tokenization_utils_base.TruncationStrategy`], *optional*, defaults to `False`):
Activates and controls truncation. Accepts the following values:
- `True` or `'longest_first'`: Truncate to a maximum length specified with the argument `max_length` or
to the maximum acceptable input length for the model if that argument is not provided. This will
truncate token by token, removing a token from the longest sequence in the pair if a pair of
sequences (or a batch of pairs) is provided.
- `'only_first'`: Truncate to a maximum length specified with the argument `max_length` or to the
maximum acceptable input length for the model if that argument is not provided. This will only
truncate the first sequence of a pair if a pair of sequences (or a batch of pairs) is provided.
- `'only_second'`: Truncate to a maximum length specified with the argument `max_length` or to the
maximum acceptable input length for the model if that argument is not provided. This will only
truncate the second sequence of a pair if a pair of sequences (or a batch of pairs) is provided.
- `False` or `'do_not_truncate'` (default): No truncation (i.e., can output batch with sequence lengths
greater than the model maximum admissible input size).
max_length (`int`, *optional*):
Controls the maximum length to use by one of the truncation/padding parameters. If left unset or set to
`None`, this will use the predefined model maximum length if a maximum length is required by one of the
truncation/padding parameters. If the model has no specific maximum input length (like XLNet)
truncation/padding to a maximum length will be deactivated.
stride (`int`, *optional*, defaults to 0):
If set to a number along with `max_length`, the overflowing tokens returned when
`return_overflowing_tokens=True` will contain some tokens from the end of the truncated sequence
returned to provide some overlap between truncated and overflowing sequences. The value of this
argument defines the number of overlapping tokens.
pad_to_multiple_of (`int`, *optional*):
If set will pad the sequence to a multiple of the provided value. This is especially useful to enable
the use of Tensor Cores on NVIDIA hardware with compute capability `>= 7.5` (Volta).
return_tensors (`str` or [`~file_utils.TensorType`], *optional*):
If set, will return tensors instead of list of python integers. Acceptable values are:
- `'tf'`: Return TensorFlow `tf.constant` objects.
- `'pt'`: Return PyTorch `torch.Tensor` objects.
- `'np'`: Return Numpy `np.ndarray` objects.
"""
@lru_cache()
def bytes_to_unicode():
"""
Returns list of utf-8 byte and a mapping to unicode strings. We specifically avoids mapping to whitespace/control
characters the bpe code barfs on. The reversible bpe codes work on unicode strings. This means you need a large #
of unicode characters in your vocab if you want to avoid UNKs. When you're at something like a 10B token dataset
you end up needing around 5K for decent coverage. This is a significant percentage of your normal, say, 32K bpe
vocab. To avoid that, we want lookup tables between utf-8 bytes and unicode strings.
"""
bs = (
list(range(ord("!"), ord("~") + 1)) + list(range(ord("¡"), ord("¬") + 1)) + list(range(ord("®"), ord("ÿ") + 1))
)
cs = bs[:]
n = 0
for b in range(2**8):
if b not in bs:
bs.append(b)
cs.append(2**8 + n)
n += 1
cs = [chr(n) for n in cs]
return dict(zip(bs, cs))
def get_pairs(word):
"""
Return set of symbol pairs in a word. Word is represented as tuple of symbols (symbols being variable-length
strings).
"""
pairs = set()
prev_char = word[0]
for char in word[1:]:
pairs.add((prev_char, char))
prev_char = char
return pairs
class MarkupLMTokenizer(PreTrainedTokenizer):
r"""
Construct a MarkupLM tokenizer. Based on byte-level Byte-Pair-Encoding (BPE). [`MarkupLMTokenizer`] can be used to
turn HTML strings into to token-level `input_ids`, `attention_mask`, `token_type_ids`, `xpath_tags_seq` and
`xpath_tags_seq`. This tokenizer inherits from [`PreTrainedTokenizer`] which contains most of the main methods.
Users should refer to this superclass for more information regarding those methods.
Args:
vocab_file (`str`):
Path to the vocabulary file.
merges_file (`str`):
Path to the merges file.
errors (`str`, *optional*, defaults to `"replace"`):
Paradigm to follow when decoding bytes to UTF-8. See
[bytes.decode](https://docs.python.org/3/library/stdtypes.html#bytes.decode) for more information.
bos_token (`str`, *optional*, defaults to `"<s>"`):
The beginning of sequence token that was used during pretraining. Can be used a sequence classifier token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the beginning of
sequence. The token used is the `cls_token`.
</Tip>
eos_token (`str`, *optional*, defaults to `"</s>"`):
The end of sequence token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the end of sequence.
The token used is the `sep_token`.
</Tip>
sep_token (`str`, *optional*, defaults to `"</s>"`):
The separator token, which is used when building a sequence from multiple sequences, e.g. two sequences for
sequence classification or for a text and a question for question answering. It is also used as the last
token of a sequence built with special tokens.
cls_token (`str`, *optional*, defaults to `"<s>"`):
The classifier token which is used when doing sequence classification (classification of the whole sequence
instead of per-token classification). It is the first token of the sequence when built with special tokens.
unk_token (`str`, *optional*, defaults to `"<unk>"`):
The unknown token. A token that is not in the vocabulary cannot be converted to an ID and is set to be this
token instead.
pad_token (`str`, *optional*, defaults to `"<pad>"`):
The token used for padding, for example when batching sequences of different lengths.
mask_token (`str`, *optional*, defaults to `"<mask>"`):
The token used for masking values. This is the token used when training this model with masked language
modeling. This is the token which the model will try to predict.
add_prefix_space (`bool`, *optional*, defaults to `False`):
Whether or not to add an initial space to the input. This allows to treat the leading word just as any
other word. (RoBERTa tokenizer detect beginning of words by the preceding space).
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
def __init__(
self,
vocab_file,
merges_file,
tags_dict,
errors="replace",
bos_token="<s>",
eos_token="</s>",
sep_token="</s>",
cls_token="<s>",
unk_token="<unk>",
pad_token="<pad>",
mask_token="<mask>",
add_prefix_space=False,
max_depth=50,
max_width=1000,
pad_width=1001,
pad_token_label=-100,
only_label_first_subword=True,
**kwargs,
):
bos_token = AddedToken(bos_token, lstrip=False, rstrip=False) if isinstance(bos_token, str) else bos_token
eos_token = AddedToken(eos_token, lstrip=False, rstrip=False) if isinstance(eos_token, str) else eos_token
sep_token = AddedToken(sep_token, lstrip=False, rstrip=False) if isinstance(sep_token, str) else sep_token
cls_token = AddedToken(cls_token, lstrip=False, rstrip=False) if isinstance(cls_token, str) else cls_token
unk_token = AddedToken(unk_token, lstrip=False, rstrip=False) if isinstance(unk_token, str) else unk_token
pad_token = AddedToken(pad_token, lstrip=False, rstrip=False) if isinstance(pad_token, str) else pad_token
# Mask token behave like a normal word, i.e. include the space before it
mask_token = AddedToken(mask_token, lstrip=True, rstrip=False) if isinstance(mask_token, str) else mask_token
super().__init__(
vocab_file=vocab_file,
merges_file=merges_file,
tags_dict=tags_dict,
errors=errors,
bos_token=bos_token,
eos_token=eos_token,
unk_token=unk_token,
sep_token=sep_token,
cls_token=cls_token,
pad_token=pad_token,
mask_token=mask_token,
add_prefix_space=add_prefix_space,
max_depth=max_depth,
max_width=max_width,
pad_width=pad_width,
pad_token_label=pad_token_label,
only_label_first_subword=only_label_first_subword,
**kwargs,
)
with open(vocab_file, encoding="utf-8") as vocab_handle:
self.encoder = json.load(vocab_handle)
self.tags_dict = tags_dict
self.decoder = {v: k for k, v in self.encoder.items()}
self.errors = errors # how to handle errors in decoding
self.byte_encoder = bytes_to_unicode()
self.byte_decoder = {v: k for k, v in self.byte_encoder.items()}
with open(merges_file, encoding="utf-8") as merges_handle:
bpe_merges = merges_handle.read().split("\n")[1:-1]
bpe_merges = [tuple(merge.split()) for merge in bpe_merges]
self.bpe_ranks = dict(zip(bpe_merges, range(len(bpe_merges))))
self.cache = {}
self.add_prefix_space = add_prefix_space
# Should have added re.IGNORECASE so BPE merges can happen for capitalized versions of contractions
self.pat = re.compile(r"""'s|'t|'re|'ve|'m|'ll|'d| ?\p{L}+| ?\p{N}+| ?[^\s\p{L}\p{N}]+|\s+(?!\S)|\s+""")
# additional properties
self.max_depth = max_depth
self.max_width = max_width
self.pad_width = pad_width
self.unk_tag_id = len(self.tags_dict)
self.pad_tag_id = self.unk_tag_id + 1
self.pad_xpath_tags_seq = [self.pad_tag_id] * self.max_depth
self.pad_xpath_subs_seq = [self.pad_width] * self.max_depth
self.pad_token_label = pad_token_label
self.only_label_first_subword = only_label_first_subword
def get_xpath_seq(self, xpath):
"""
Given the xpath expression of one particular node (like "/html/body/div/li[1]/div/span[2]"), return a list of
tag IDs and corresponding subscripts, taking into account max depth.
"""
xpath_tags_list = []
xpath_subs_list = []
xpath_units = xpath.split("/")
for unit in xpath_units:
if not unit.strip():
continue
name_subs = unit.strip().split("[")
tag_name = name_subs[0]
sub = 0 if len(name_subs) == 1 else int(name_subs[1][:-1])
xpath_tags_list.append(self.tags_dict.get(tag_name, self.unk_tag_id))
xpath_subs_list.append(min(self.max_width, sub))
xpath_tags_list = xpath_tags_list[: self.max_depth]
xpath_subs_list = xpath_subs_list[: self.max_depth]
xpath_tags_list += [self.pad_tag_id] * (self.max_depth - len(xpath_tags_list))
xpath_subs_list += [self.pad_width] * (self.max_depth - len(xpath_subs_list))
return xpath_tags_list, xpath_subs_list
@property
def vocab_size(self):
return len(self.encoder)
def get_vocab(self):
return dict(self.encoder, **self.added_tokens_encoder)
def bpe(self, token):
if token in self.cache:
return self.cache[token]
word = tuple(token)
pairs = get_pairs(word)
if not pairs:
return token
while True:
bigram = min(pairs, key=lambda pair: self.bpe_ranks.get(pair, float("inf")))
if bigram not in self.bpe_ranks:
break
first, second = bigram
new_word = []
i = 0
while i < len(word):
try:
j = word.index(first, i)
except ValueError:
new_word.extend(word[i:])
break
else:
new_word.extend(word[i:j])
i = j
if word[i] == first and i < len(word) - 1 and word[i + 1] == second:
new_word.append(first + second)
i += 2
else:
new_word.append(word[i])
i += 1
new_word = tuple(new_word)
word = new_word
if len(word) == 1:
break
else:
pairs = get_pairs(word)
word = " ".join(word)
self.cache[token] = word
return word
def _tokenize(self, text):
"""Tokenize a string."""
bpe_tokens = []
for token in re.findall(self.pat, text):
token = "".join(
self.byte_encoder[b] for b in token.encode("utf-8")
) # Maps all our bytes to unicode strings, avoiding control tokens of the BPE (spaces in our case)
bpe_tokens.extend(bpe_token for bpe_token in self.bpe(token).split(" "))
return bpe_tokens
def _convert_token_to_id(self, token):
"""Converts a token (str) in an id using the vocab."""
return self.encoder.get(token, self.encoder.get(self.unk_token))
def _convert_id_to_token(self, index):
"""Converts an index (integer) in a token (str) using the vocab."""
return self.decoder.get(index)
def convert_tokens_to_string(self, tokens):
"""Converts a sequence of tokens (string) in a single string."""
logger.warning(
"MarkupLM now does not support generative tasks, decoding is experimental and subject to change."
)
text = "".join(tokens)
text = bytearray([self.byte_decoder[c] for c in text]).decode("utf-8", errors=self.errors)
return text
def save_vocabulary(self, save_directory: str, filename_prefix: Optional[str] = None) -> Tuple[str]:
if not os.path.isdir(save_directory):
logger.error(f"Vocabulary path ({save_directory}) should be a directory")
return
vocab_file = os.path.join(
save_directory, (filename_prefix + "-" if filename_prefix else "") + VOCAB_FILES_NAMES["vocab_file"]
)
merge_file = os.path.join(
save_directory, (filename_prefix + "-" if filename_prefix else "") + VOCAB_FILES_NAMES["merges_file"]
)
# save vocab_file
with open(vocab_file, "w", encoding="utf-8") as f:
f.write(json.dumps(self.encoder, indent=2, sort_keys=True, ensure_ascii=False) + "\n")
# save merge_file
index = 0
with open(merge_file, "w", encoding="utf-8") as writer:
writer.write("#version: 0.2\n")
for bpe_tokens, token_index in sorted(self.bpe_ranks.items(), key=lambda kv: kv[1]):
if index != token_index:
logger.warning(
f"Saving vocabulary to {merge_file}: BPE merge indices are not consecutive."
" Please check that the tokenizer is not corrupted!"
)
index = token_index
writer.write(" ".join(bpe_tokens) + "\n")
index += 1
return vocab_file, merge_file
def prepare_for_tokenization(self, text, is_split_into_words=False, **kwargs):
add_prefix_space = kwargs.pop("add_prefix_space", self.add_prefix_space)
if (is_split_into_words or add_prefix_space) and (len(text) > 0 and not text[0].isspace()):
text = " " + text
return (text, kwargs)
def build_inputs_with_special_tokens(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Build model inputs from a sequence or a pair of sequence for sequence classification tasks by concatenating and
adding special tokens. A RoBERTa sequence has the following format:
- single sequence: `<s> X </s>`
- pair of sequences: `<s> A </s></s> B </s>`
Args:
token_ids_0 (`List[int]`):
List of IDs to which the special tokens will be added.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of [input IDs](../glossary#input-ids) with the appropriate special tokens.
"""
if token_ids_1 is None:
return [self.cls_token_id] + token_ids_0 + [self.sep_token_id]
cls = [self.cls_token_id]
sep = [self.sep_token_id]
return cls + token_ids_0 + sep + token_ids_1 + sep
def build_xpath_tags_with_special_tokens(
self, xpath_tags_0: List[int], xpath_tags_1: Optional[List[int]] = None
) -> List[int]:
pad = [self.pad_xpath_tags_seq]
if len(xpath_tags_1) == 0:
return pad + xpath_tags_0 + pad
return pad + xpath_tags_0 + pad + xpath_tags_1 + pad
def build_xpath_subs_with_special_tokens(
self, xpath_subs_0: List[int], xpath_subs_1: Optional[List[int]] = None
) -> List[int]:
pad = [self.pad_xpath_subs_seq]
if len(xpath_subs_1) == 0:
return pad + xpath_subs_0 + pad
return pad + xpath_subs_0 + pad + xpath_subs_1 + pad
def get_special_tokens_mask(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None, already_has_special_tokens: bool = False
) -> List[int]:
"""
Args:
Retrieve sequence ids from a token list that has no special tokens added. This method is called when adding
special tokens using the tokenizer `prepare_for_model` method.
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
already_has_special_tokens (`bool`, *optional*, defaults to `False`):
Whether or not the token list is already formatted with special tokens for the model.
Returns:
`List[int]`: A list of integers in the range [0, 1]: 1 for a special token, 0 for a sequence token.
"""
if already_has_special_tokens:
return super().get_special_tokens_mask(
token_ids_0=token_ids_0, token_ids_1=token_ids_1, already_has_special_tokens=True
)
if token_ids_1 is None:
return [1] + ([0] * len(token_ids_0)) + [1]
return [1] + ([0] * len(token_ids_0)) + [1, 1] + ([0] * len(token_ids_1)) + [1]
def create_token_type_ids_from_sequences(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Create a mask from the two sequences passed to be used in a sequence-pair classification task. RoBERTa does not
make use of token type ids, therefore a list of zeros is returned.
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of zeros.
"""
sep = [self.sep_token_id]
cls = [self.cls_token_id]
if token_ids_1 is None:
return len(cls + token_ids_0 + sep) * [0]
return len(cls + token_ids_0 + sep + token_ids_1 + sep) * [0]
@add_end_docstrings(ENCODE_KWARGS_DOCSTRING, MARKUPLM_ENCODE_PLUS_ADDITIONAL_KWARGS_DOCSTRING)
def __call__(
self,
text: Union[TextInput, PreTokenizedInput, List[TextInput], List[PreTokenizedInput]],
text_pair: Optional[Union[PreTokenizedInput, List[PreTokenizedInput]]] = None,
xpaths: Union[List[List[int]], List[List[List[int]]]] = None,
node_labels: Optional[Union[List[int], List[List[int]]]] = None,
add_special_tokens: bool = True,
padding: Union[bool, str, PaddingStrategy] = False,
truncation: Union[bool, str, TruncationStrategy] = None,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
**kwargs,
) -> BatchEncoding:
"""
Main method to tokenize and prepare for the model one or several sequence(s) or one or several pair(s) of
sequences with node-level xpaths and optional labels.
Args:
text (`str`, `List[str]`, `List[List[str]]`):
The sequence or batch of sequences to be encoded. Each sequence can be a string, a list of strings
(nodes of a single example or questions of a batch of examples) or a list of list of strings (batch of
nodes).
text_pair (`List[str]`, `List[List[str]]`):
The sequence or batch of sequences to be encoded. Each sequence should be a list of strings
(pretokenized string).
xpaths (`List[List[int]]`, `List[List[List[int]]]`):
Node-level xpaths.
node_labels (`List[int]`, `List[List[int]]`, *optional*):
Node-level integer labels (for token classification tasks).
"""
# Input type checking for clearer error
def _is_valid_text_input(t):
if isinstance(t, str):
# Strings are fine
return True
elif isinstance(t, (list, tuple)):
# List are fine as long as they are...
if len(t) == 0:
# ... empty
return True
elif isinstance(t[0], str):
# ... list of strings
return True
elif isinstance(t[0], (list, tuple)):
# ... list with an empty list or with a list of strings
return len(t[0]) == 0 or isinstance(t[0][0], str)
else:
return False
else:
return False
if text_pair is not None:
# in case text + text_pair are provided, text = questions, text_pair = nodes
if not _is_valid_text_input(text):
raise ValueError("text input must of type `str` (single example) or `List[str]` (batch of examples). ")
if not isinstance(text_pair, (list, tuple)):
raise ValueError(
"Nodes must be of type `List[str]` (single pretokenized example), "
"or `List[List[str]]` (batch of pretokenized examples)."
)
else:
# in case only text is provided => must be nodes
if not isinstance(text, (list, tuple)):
raise ValueError(
"Nodes must be of type `List[str]` (single pretokenized example), "
"or `List[List[str]]` (batch of pretokenized examples)."
)
if text_pair is not None:
is_batched = isinstance(text, (list, tuple))
else:
is_batched = isinstance(text, (list, tuple)) and text and isinstance(text[0], (list, tuple))
nodes = text if text_pair is None else text_pair
assert xpaths is not None, "You must provide corresponding xpaths"
if is_batched:
assert len(nodes) == len(xpaths), "You must provide nodes and xpaths for an equal amount of examples"
for nodes_example, xpaths_example in zip(nodes, xpaths):
assert len(nodes_example) == len(xpaths_example), "You must provide as many nodes as there are xpaths"
else:
assert len(nodes) == len(xpaths), "You must provide as many nodes as there are xpaths"
if is_batched:
if text_pair is not None and len(text) != len(text_pair):
raise ValueError(
f"batch length of `text`: {len(text)} does not match batch length of `text_pair`:"
f" {len(text_pair)}."
)
batch_text_or_text_pairs = list(zip(text, text_pair)) if text_pair is not None else text
is_pair = bool(text_pair is not None)
return self.batch_encode_plus(
batch_text_or_text_pairs=batch_text_or_text_pairs,
is_pair=is_pair,
xpaths=xpaths,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding=padding,
truncation=truncation,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_tensors=return_tensors,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_length=return_length,
verbose=verbose,
**kwargs,
)
else:
return self.encode_plus(
text=text,
text_pair=text_pair,
xpaths=xpaths,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding=padding,
truncation=truncation,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_tensors=return_tensors,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_length=return_length,
verbose=verbose,
**kwargs,
)
@add_end_docstrings(ENCODE_KWARGS_DOCSTRING, MARKUPLM_ENCODE_PLUS_ADDITIONAL_KWARGS_DOCSTRING)
def batch_encode_plus(
self,
batch_text_or_text_pairs: Union[
List[TextInput],
List[TextInputPair],
List[PreTokenizedInput],
],
is_pair: bool = None,
xpaths: Optional[List[List[List[int]]]] = None,
node_labels: Optional[Union[List[int], List[List[int]]]] = None,
add_special_tokens: bool = True,
padding: Union[bool, str, PaddingStrategy] = False,
truncation: Union[bool, str, TruncationStrategy] = None,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
**kwargs,
) -> BatchEncoding:
# Backward compatibility for 'truncation_strategy', 'pad_to_max_length'
padding_strategy, truncation_strategy, max_length, kwargs = self._get_padding_truncation_strategies(
padding=padding,
truncation=truncation,
max_length=max_length,
pad_to_multiple_of=pad_to_multiple_of,
verbose=verbose,
**kwargs,
)
return self._batch_encode_plus(
batch_text_or_text_pairs=batch_text_or_text_pairs,
is_pair=is_pair,
xpaths=xpaths,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding_strategy=padding_strategy,
truncation_strategy=truncation_strategy,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_tensors=return_tensors,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_length=return_length,
verbose=verbose,
**kwargs,
)
def _batch_encode_plus(
self,
batch_text_or_text_pairs: Union[
List[TextInput],
List[TextInputPair],
List[PreTokenizedInput],
],
is_pair: bool = None,
xpaths: Optional[List[List[List[int]]]] = None,
node_labels: Optional[List[List[int]]] = None,
add_special_tokens: bool = True,
padding_strategy: PaddingStrategy = PaddingStrategy.DO_NOT_PAD,
truncation_strategy: TruncationStrategy = TruncationStrategy.DO_NOT_TRUNCATE,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
**kwargs,
) -> BatchEncoding:
if return_offsets_mapping:
raise NotImplementedError(
"return_offset_mapping is not available when using Python tokenizers. "
"To use this feature, change your tokenizer to one deriving from "
"transformers.PreTrainedTokenizerFast."
)
batch_outputs = self._batch_prepare_for_model(
batch_text_or_text_pairs=batch_text_or_text_pairs,
is_pair=is_pair,
xpaths=xpaths,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding_strategy=padding_strategy,
truncation_strategy=truncation_strategy,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_attention_mask=return_attention_mask,
return_token_type_ids=return_token_type_ids,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_length=return_length,
return_tensors=return_tensors,
verbose=verbose,
)
return BatchEncoding(batch_outputs)
@add_end_docstrings(ENCODE_KWARGS_DOCSTRING, MARKUPLM_ENCODE_PLUS_ADDITIONAL_KWARGS_DOCSTRING)
def _batch_prepare_for_model(
self,
batch_text_or_text_pairs,
is_pair: bool = None,
xpaths: Optional[List[List[int]]] = None,
node_labels: Optional[List[List[int]]] = None,
add_special_tokens: bool = True,
padding_strategy: PaddingStrategy = PaddingStrategy.DO_NOT_PAD,
truncation_strategy: TruncationStrategy = TruncationStrategy.DO_NOT_TRUNCATE,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[str] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_length: bool = False,
verbose: bool = True,
) -> BatchEncoding:
"""
Prepares a sequence of input id, or a pair of sequences of inputs ids so that it can be used by the model. It
adds special tokens, truncates sequences if overflowing while taking into account the special tokens and
manages a moving window (with user defined stride) for overflowing tokens.
Args:
batch_ids_pairs: list of tokenized input ids or input ids pairs
"""
batch_outputs = {}
for idx, example in enumerate(zip(batch_text_or_text_pairs, xpaths)):
batch_text_or_text_pair, xpaths_example = example
outputs = self.prepare_for_model(
batch_text_or_text_pair[0] if is_pair else batch_text_or_text_pair,
batch_text_or_text_pair[1] if is_pair else None,
xpaths_example,
node_labels=node_labels[idx] if node_labels is not None else None,
add_special_tokens=add_special_tokens,
padding=PaddingStrategy.DO_NOT_PAD.value, # we pad in batch afterward
truncation=truncation_strategy.value,
max_length=max_length,
stride=stride,
pad_to_multiple_of=None, # we pad in batch afterward
return_attention_mask=False, # we pad in batch afterward
return_token_type_ids=return_token_type_ids,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_length=return_length,
return_tensors=None, # We convert the whole batch to tensors at the end
prepend_batch_axis=False,
verbose=verbose,
)
for key, value in outputs.items():
if key not in batch_outputs:
batch_outputs[key] = []
batch_outputs[key].append(value)
batch_outputs = self.pad(
batch_outputs,
padding=padding_strategy.value,
max_length=max_length,
pad_to_multiple_of=pad_to_multiple_of,
return_attention_mask=return_attention_mask,
)
batch_outputs = BatchEncoding(batch_outputs, tensor_type=return_tensors)
return batch_outputs
@add_end_docstrings(ENCODE_KWARGS_DOCSTRING)
def encode(
self,
text: Union[TextInput, PreTokenizedInput],
text_pair: Optional[PreTokenizedInput] = None,
xpaths: Optional[List[List[int]]] = None,
node_labels: Optional[List[int]] = None,
add_special_tokens: bool = True,
padding: Union[bool, str, PaddingStrategy] = False,
truncation: Union[bool, str, TruncationStrategy] = None,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
**kwargs,
) -> List[int]:
encoded_inputs = self.encode_plus(
text=text,
text_pair=text_pair,
xpaths=xpaths,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding=padding,
truncation=truncation,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_tensors=return_tensors,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_length=return_length,
verbose=verbose,
**kwargs,
)
return encoded_inputs["input_ids"]
@add_end_docstrings(ENCODE_KWARGS_DOCSTRING, MARKUPLM_ENCODE_PLUS_ADDITIONAL_KWARGS_DOCSTRING)
def encode_plus(
self,
text: Union[TextInput, PreTokenizedInput],
text_pair: Optional[PreTokenizedInput] = None,
xpaths: Optional[List[List[int]]] = None,
node_labels: Optional[List[int]] = None,
add_special_tokens: bool = True,
padding: Union[bool, str, PaddingStrategy] = False,
truncation: Union[bool, str, TruncationStrategy] = None,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
**kwargs,
) -> BatchEncoding:
"""
Tokenize and prepare for the model a sequence or a pair of sequences. .. warning:: This method is deprecated,
`__call__` should be used instead.
Args:
text (`str`, `List[str]`, `List[List[str]]`):
The first sequence to be encoded. This can be a string, a list of strings or a list of list of strings.
text_pair (`List[str]` or `List[int]`, *optional*):
Optional second sequence to be encoded. This can be a list of strings (nodes of a single example) or a
list of list of strings (nodes of a batch of examples).
"""
# Backward compatibility for 'truncation_strategy', 'pad_to_max_length'
padding_strategy, truncation_strategy, max_length, kwargs = self._get_padding_truncation_strategies(
padding=padding,
truncation=truncation,
max_length=max_length,
pad_to_multiple_of=pad_to_multiple_of,
verbose=verbose,
**kwargs,
)
return self._encode_plus(
text=text,
xpaths=xpaths,
text_pair=text_pair,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding_strategy=padding_strategy,
truncation_strategy=truncation_strategy,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_tensors=return_tensors,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_length=return_length,
verbose=verbose,
**kwargs,
)
def _encode_plus(
self,
text: Union[TextInput, PreTokenizedInput],
text_pair: Optional[PreTokenizedInput] = None,
xpaths: Optional[List[List[int]]] = None,
node_labels: Optional[List[int]] = None,
add_special_tokens: bool = True,
padding_strategy: PaddingStrategy = PaddingStrategy.DO_NOT_PAD,
truncation_strategy: TruncationStrategy = TruncationStrategy.DO_NOT_TRUNCATE,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
**kwargs,
) -> BatchEncoding:
if return_offsets_mapping:
raise NotImplementedError(
"return_offset_mapping is not available when using Python tokenizers. "
"To use this feature, change your tokenizer to one deriving from "
"transformers.PreTrainedTokenizerFast. "
"More information on available tokenizers at "
"https://github.com/huggingface/transformers/pull/2674"
)
return self.prepare_for_model(
text=text,
text_pair=text_pair,
xpaths=xpaths,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding=padding_strategy.value,
truncation=truncation_strategy.value,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_tensors=return_tensors,
prepend_batch_axis=True,
return_attention_mask=return_attention_mask,
return_token_type_ids=return_token_type_ids,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_length=return_length,
verbose=verbose,
)
@add_end_docstrings(ENCODE_KWARGS_DOCSTRING, MARKUPLM_ENCODE_PLUS_ADDITIONAL_KWARGS_DOCSTRING)
def prepare_for_model(
self,
text: Union[TextInput, PreTokenizedInput],
text_pair: Optional[PreTokenizedInput] = None,
xpaths: Optional[List[List[int]]] = None,
node_labels: Optional[List[int]] = None,
add_special_tokens: bool = True,
padding: Union[bool, str, PaddingStrategy] = False,
truncation: Union[bool, str, TruncationStrategy] = None,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
prepend_batch_axis: bool = False,
**kwargs,
) -> BatchEncoding:
"""
Prepares a sequence or a pair of sequences so that it can be used by the model. It adds special tokens,
truncates sequences if overflowing while taking into account the special tokens and manages a moving window
(with user defined stride) for overflowing tokens. Please Note, for *text_pair* different than `None` and
*truncation_strategy = longest_first* or `True`, it is not possible to return overflowing tokens. Such a
combination of arguments will raise an error.
Node-level `xpaths` are turned into token-level `xpath_tags_seq` and `xpath_subs_seq`. If provided, node-level
`node_labels` are turned into token-level `labels`. The node label is used for the first token of the node,
while remaining tokens are labeled with -100, such that they will be ignored by the loss function.
Args:
text (`str`, `List[str]`, `List[List[str]]`):
The first sequence to be encoded. This can be a string, a list of strings or a list of list of strings.
text_pair (`List[str]` or `List[int]`, *optional*):
Optional second sequence to be encoded. This can be a list of strings (nodes of a single example) or a
list of list of strings (nodes of a batch of examples).
"""
# Backward compatibility for 'truncation_strategy', 'pad_to_max_length'
padding_strategy, truncation_strategy, max_length, kwargs = self._get_padding_truncation_strategies(
padding=padding,
truncation=truncation,
max_length=max_length,
pad_to_multiple_of=pad_to_multiple_of,
verbose=verbose,
**kwargs,
)
tokens = []
pair_tokens = []
xpath_tags_seq = []
xpath_subs_seq = []
pair_xpath_tags_seq = []
pair_xpath_subs_seq = []
labels = []
if text_pair is None:
if node_labels is None:
# CASE 1: web page classification (training + inference) + CASE 2: token classification (inference)
for word, xpath in zip(text, xpaths):
if len(word) < 1: # skip empty nodes
continue
word_tokens = self.tokenize(word)
tokens.extend(word_tokens)
xpath_tags_list, xpath_subs_list = self.get_xpath_seq(xpath)
xpath_tags_seq.extend([xpath_tags_list] * len(word_tokens))
xpath_subs_seq.extend([xpath_subs_list] * len(word_tokens))
else:
# CASE 2: token classification (training)
for word, xpath, label in zip(text, xpaths, node_labels):
if len(word) < 1: # skip empty nodes
continue
word_tokens = self.tokenize(word)
tokens.extend(word_tokens)
xpath_tags_list, xpath_subs_list = self.get_xpath_seq(xpath)
xpath_tags_seq.extend([xpath_tags_list] * len(word_tokens))
xpath_subs_seq.extend([xpath_subs_list] * len(word_tokens))
if self.only_label_first_subword:
# Use the real label id for the first token of the word, and padding ids for the remaining tokens
labels.extend([label] + [self.pad_token_label] * (len(word_tokens) - 1))
else:
labels.extend([label] * len(word_tokens))
else:
# CASE 3: web page question answering (inference)
# text = question
# text_pair = nodes
tokens = self.tokenize(text)
xpath_tags_seq = [self.pad_xpath_tags_seq for _ in range(len(tokens))]
xpath_subs_seq = [self.pad_xpath_subs_seq for _ in range(len(tokens))]
for word, xpath in zip(text_pair, xpaths):
if len(word) < 1: # skip empty nodes
continue
word_tokens = self.tokenize(word)
pair_tokens.extend(word_tokens)
xpath_tags_list, xpath_subs_list = self.get_xpath_seq(xpath)
pair_xpath_tags_seq.extend([xpath_tags_list] * len(word_tokens))
pair_xpath_subs_seq.extend([xpath_subs_list] * len(word_tokens))
# Create ids + pair_ids
ids = self.convert_tokens_to_ids(tokens)
pair_ids = self.convert_tokens_to_ids(pair_tokens) if pair_tokens else None
if (
return_overflowing_tokens
and truncation_strategy == TruncationStrategy.LONGEST_FIRST
and pair_ids is not None
):
raise ValueError(
"Not possible to return overflowing tokens for pair of sequences with the "
"`longest_first`. Please select another truncation strategy than `longest_first`, "
"for instance `only_second` or `only_first`."
)
# Compute the total size of the returned encodings
pair = bool(pair_ids is not None)
len_ids = len(ids)
len_pair_ids = len(pair_ids) if pair else 0
total_len = len_ids + len_pair_ids + (self.num_special_tokens_to_add(pair=pair) if add_special_tokens else 0)
# Truncation: Handle max sequence length
overflowing_tokens = []
overflowing_xpath_tags_seq = []
overflowing_xpath_subs_seq = []
overflowing_labels = []
if truncation_strategy != TruncationStrategy.DO_NOT_TRUNCATE and max_length and total_len > max_length:
(
ids,
xpath_tags_seq,
xpath_subs_seq,
pair_ids,
pair_xpath_tags_seq,
pair_xpath_subs_seq,
labels,
overflowing_tokens,
overflowing_xpath_tags_seq,
overflowing_xpath_subs_seq,
overflowing_labels,
) = self.truncate_sequences(
ids,
xpath_tags_seq=xpath_tags_seq,
xpath_subs_seq=xpath_subs_seq,
pair_ids=pair_ids,
pair_xpath_tags_seq=pair_xpath_tags_seq,
pair_xpath_subs_seq=pair_xpath_subs_seq,
labels=labels,
num_tokens_to_remove=total_len - max_length,
truncation_strategy=truncation_strategy,
stride=stride,
)
if return_token_type_ids and not add_special_tokens:
raise ValueError(
"Asking to return token_type_ids while setting add_special_tokens to False "
"results in an undefined behavior. Please set add_special_tokens to True or "
"set return_token_type_ids to None."
)
# Load from model defaults
if return_token_type_ids is None:
return_token_type_ids = "token_type_ids" in self.model_input_names
if return_attention_mask is None:
return_attention_mask = "attention_mask" in self.model_input_names
encoded_inputs = {}
if return_overflowing_tokens:
encoded_inputs["overflowing_tokens"] = overflowing_tokens
encoded_inputs["overflowing_xpath_tags_seq"] = overflowing_xpath_tags_seq
encoded_inputs["overflowing_xpath_subs_seq"] = overflowing_xpath_subs_seq
encoded_inputs["overflowing_labels"] = overflowing_labels
encoded_inputs["num_truncated_tokens"] = total_len - max_length
# Add special tokens
if add_special_tokens:
sequence = self.build_inputs_with_special_tokens(ids, pair_ids)
token_type_ids = self.create_token_type_ids_from_sequences(ids, pair_ids)
xpath_tags_ids = self.build_xpath_tags_with_special_tokens(xpath_tags_seq, pair_xpath_tags_seq)
xpath_subs_ids = self.build_xpath_subs_with_special_tokens(xpath_subs_seq, pair_xpath_subs_seq)
if labels:
labels = [self.pad_token_label] + labels + [self.pad_token_label]
else:
sequence = ids + pair_ids if pair else ids
token_type_ids = [0] * len(ids) + ([0] * len(pair_ids) if pair else [])
xpath_tags_ids = xpath_tags_seq + pair_xpath_tags_seq if pair else xpath_tags_seq
xpath_subs_ids = xpath_subs_seq + pair_xpath_subs_seq if pair else xpath_subs_seq
# Build output dictionary
encoded_inputs["input_ids"] = sequence
encoded_inputs["xpath_tags_seq"] = xpath_tags_ids
encoded_inputs["xpath_subs_seq"] = xpath_subs_ids
if return_token_type_ids:
encoded_inputs["token_type_ids"] = token_type_ids
if return_special_tokens_mask:
if add_special_tokens:
encoded_inputs["special_tokens_mask"] = self.get_special_tokens_mask(ids, pair_ids)
else:
encoded_inputs["special_tokens_mask"] = [0] * len(sequence)
if labels:
encoded_inputs["labels"] = labels
# Check lengths
self._eventual_warn_about_too_long_sequence(encoded_inputs["input_ids"], max_length, verbose)
# Padding
if padding_strategy != PaddingStrategy.DO_NOT_PAD or return_attention_mask:
encoded_inputs = self.pad(
encoded_inputs,
max_length=max_length,
padding=padding_strategy.value,
pad_to_multiple_of=pad_to_multiple_of,
return_attention_mask=return_attention_mask,
)
if return_length:
encoded_inputs["length"] = len(encoded_inputs["input_ids"])
batch_outputs = BatchEncoding(
encoded_inputs, tensor_type=return_tensors, prepend_batch_axis=prepend_batch_axis
)
return batch_outputs
def truncate_sequences(
self,
ids: List[int],
xpath_tags_seq: List[List[int]],
xpath_subs_seq: List[List[int]],
pair_ids: Optional[List[int]] = None,
pair_xpath_tags_seq: Optional[List[List[int]]] = None,
pair_xpath_subs_seq: Optional[List[List[int]]] = None,
labels: Optional[List[int]] = None,
num_tokens_to_remove: int = 0,
truncation_strategy: Union[str, TruncationStrategy] = "longest_first",
stride: int = 0,
) -> Tuple[List[int], List[int], List[int]]:
"""
Args:
Truncates a sequence pair in-place following the strategy.
ids (`List[int]`):
Tokenized input ids of the first sequence. Can be obtained from a string by chaining the `tokenize` and
`convert_tokens_to_ids` methods.
xpath_tags_seq (`List[List[int]]`):
XPath tag IDs of the first sequence.
xpath_subs_seq (`List[List[int]]`):
XPath sub IDs of the first sequence.
pair_ids (`List[int]`, *optional*):
Tokenized input ids of the second sequence. Can be obtained from a string by chaining the `tokenize`
and `convert_tokens_to_ids` methods.
pair_xpath_tags_seq (`List[List[int]]`, *optional*):
XPath tag IDs of the second sequence.
pair_xpath_subs_seq (`List[List[int]]`, *optional*):
XPath sub IDs of the second sequence.
num_tokens_to_remove (`int`, *optional*, defaults to 0):
Number of tokens to remove using the truncation strategy.
truncation_strategy (`str` or [`~tokenization_utils_base.TruncationStrategy`], *optional*, defaults to
`False`):
The strategy to follow for truncation. Can be:
- `'longest_first'`: Truncate to a maximum length specified with the argument `max_length` or to the
maximum acceptable input length for the model if that argument is not provided. This will truncate
token by token, removing a token from the longest sequence in the pair if a pair of sequences (or a
batch of pairs) is provided.
- `'only_first'`: Truncate to a maximum length specified with the argument `max_length` or to the
maximum acceptable input length for the model if that argument is not provided. This will only
truncate the first sequence of a pair if a pair of sequences (or a batch of pairs) is provided.
- `'only_second'`: Truncate to a maximum length specified with the argument `max_length` or to the
maximum acceptable input length for the model if that argument is not provided. This will only
truncate the second sequence of a pair if a pair of sequences (or a batch of pairs) is provided.
- `'do_not_truncate'` (default): No truncation (i.e., can output batch with sequence lengths greater
than the model maximum admissible input size).
stride (`int`, *optional*, defaults to 0):
If set to a positive number, the overflowing tokens returned will contain some tokens from the main
sequence returned. The value of this argument defines the number of additional tokens.
Returns:
`Tuple[List[int], List[int], List[int]]`: The truncated `ids`, the truncated `pair_ids` and the list of
overflowing tokens. Note: The *longest_first* strategy returns empty list of overflowing tokens if a pair
of sequences (or a batch of pairs) is provided.
"""
if num_tokens_to_remove <= 0:
return ids, xpath_tags_seq, xpath_subs_seq, pair_ids, pair_xpath_tags_seq, pair_xpath_subs_seq, [], [], []
if not isinstance(truncation_strategy, TruncationStrategy):
truncation_strategy = TruncationStrategy(truncation_strategy)
overflowing_tokens = []
overflowing_xpath_tags_seq = []
overflowing_xpath_subs_seq = []
overflowing_labels = []
if truncation_strategy == TruncationStrategy.ONLY_FIRST or (
truncation_strategy == TruncationStrategy.LONGEST_FIRST and pair_ids is None
):
if len(ids) > num_tokens_to_remove:
window_len = min(len(ids), stride + num_tokens_to_remove)
overflowing_tokens = ids[-window_len:]
overflowing_xpath_tags_seq = xpath_tags_seq[-window_len:]
overflowing_xpath_subs_seq = xpath_subs_seq[-window_len:]
ids = ids[:-num_tokens_to_remove]
xpath_tags_seq = xpath_tags_seq[:-num_tokens_to_remove]
xpath_subs_seq = xpath_subs_seq[:-num_tokens_to_remove]
labels = labels[:-num_tokens_to_remove]
else:
error_msg = (
f"We need to remove {num_tokens_to_remove} to truncate the input "
f"but the first sequence has a length {len(ids)}. "
)
if truncation_strategy == TruncationStrategy.ONLY_FIRST:
error_msg = (
error_msg + "Please select another truncation strategy than "
f"{truncation_strategy}, for instance 'longest_first' or 'only_second'."
)
logger.error(error_msg)
elif truncation_strategy == TruncationStrategy.LONGEST_FIRST:
logger.warning(
"Be aware, overflowing tokens are not returned for the setting you have chosen,"
f" i.e. sequence pairs with the '{TruncationStrategy.LONGEST_FIRST.value}' "
"truncation strategy. So the returned list will always be empty even if some "
"tokens have been removed."
)
for _ in range(num_tokens_to_remove):
if pair_ids is None or len(ids) > len(pair_ids):
ids = ids[:-1]
xpath_tags_seq = xpath_tags_seq[:-1]
xpath_subs_seq = xpath_subs_seq[:-1]
labels = labels[:-1]
else:
pair_ids = pair_ids[:-1]
pair_xpath_tags_seq = pair_xpath_tags_seq[:-1]
pair_xpath_subs_seq = pair_xpath_subs_seq[:-1]
elif truncation_strategy == TruncationStrategy.ONLY_SECOND and pair_ids is not None:
if len(pair_ids) > num_tokens_to_remove:
window_len = min(len(pair_ids), stride + num_tokens_to_remove)
overflowing_tokens = pair_ids[-window_len:]
overflowing_xpath_tags_seq = pair_xpath_tags_seq[-window_len:]
overflowing_xpath_subs_seq = pair_xpath_subs_seq[-window_len:]
pair_ids = pair_ids[:-num_tokens_to_remove]
pair_xpath_tags_seq = pair_xpath_tags_seq[:-num_tokens_to_remove]
pair_xpath_subs_seq = pair_xpath_subs_seq[:-num_tokens_to_remove]
else:
logger.error(
f"We need to remove {num_tokens_to_remove} to truncate the input "
f"but the second sequence has a length {len(pair_ids)}. "
f"Please select another truncation strategy than {truncation_strategy}, "
"for instance 'longest_first' or 'only_first'."
)
return (
ids,
xpath_tags_seq,
xpath_subs_seq,
pair_ids,
pair_xpath_tags_seq,
pair_xpath_subs_seq,
labels,
overflowing_tokens,
overflowing_xpath_tags_seq,
overflowing_xpath_subs_seq,
overflowing_labels,
)
def _pad(
self,
encoded_inputs: Union[Dict[str, EncodedInput], BatchEncoding],
max_length: Optional[int] = None,
padding_strategy: PaddingStrategy = PaddingStrategy.DO_NOT_PAD,
pad_to_multiple_of: Optional[int] = None,
return_attention_mask: Optional[bool] = None,
) -> dict:
"""
Args:
Pad encoded inputs (on left/right and up to predefined length or max length in the batch)
encoded_inputs:
Dictionary of tokenized inputs (`List[int]`) or batch of tokenized inputs (`List[List[int]]`).
max_length: maximum length of the returned list and optionally padding length (see below).
Will truncate by taking into account the special tokens.
padding_strategy: PaddingStrategy to use for padding.
- PaddingStrategy.LONGEST Pad to the longest sequence in the batch
- PaddingStrategy.MAX_LENGTH: Pad to the max length (default)
- PaddingStrategy.DO_NOT_PAD: Do not pad
The tokenizer padding sides are defined in self.padding_side:
- 'left': pads on the left of the sequences
- 'right': pads on the right of the sequences
pad_to_multiple_of: (optional) Integer if set will pad the sequence to a multiple of the provided value.
This is especially useful to enable the use of Tensor Core on NVIDIA hardware with compute capability
`>= 7.5` (Volta).
return_attention_mask:
(optional) Set to False to avoid returning attention mask (default: set to model specifics)
"""
# Load from model defaults
if return_attention_mask is None:
return_attention_mask = "attention_mask" in self.model_input_names
required_input = encoded_inputs[self.model_input_names[0]]
if padding_strategy == PaddingStrategy.LONGEST:
max_length = len(required_input)
if max_length is not None and pad_to_multiple_of is not None and (max_length % pad_to_multiple_of != 0):
max_length = ((max_length // pad_to_multiple_of) + 1) * pad_to_multiple_of
needs_to_be_padded = padding_strategy != PaddingStrategy.DO_NOT_PAD and len(required_input) != max_length
# Initialize attention mask if not present.
if return_attention_mask and "attention_mask" not in encoded_inputs:
encoded_inputs["attention_mask"] = [1] * len(required_input)
if needs_to_be_padded:
difference = max_length - len(required_input)
if self.padding_side == "right":
if return_attention_mask:
encoded_inputs["attention_mask"] = encoded_inputs["attention_mask"] + [0] * difference
if "token_type_ids" in encoded_inputs:
encoded_inputs["token_type_ids"] = (
encoded_inputs["token_type_ids"] + [self.pad_token_type_id] * difference
)
if "xpath_tags_seq" in encoded_inputs:
encoded_inputs["xpath_tags_seq"] = (
encoded_inputs["xpath_tags_seq"] + [self.pad_xpath_tags_seq] * difference
)
if "xpath_subs_seq" in encoded_inputs:
encoded_inputs["xpath_subs_seq"] = (
encoded_inputs["xpath_subs_seq"] + [self.pad_xpath_subs_seq] * difference
)
if "labels" in encoded_inputs:
encoded_inputs["labels"] = encoded_inputs["labels"] + [self.pad_token_label] * difference
if "special_tokens_mask" in encoded_inputs:
encoded_inputs["special_tokens_mask"] = encoded_inputs["special_tokens_mask"] + [1] * difference
encoded_inputs[self.model_input_names[0]] = required_input + [self.pad_token_id] * difference
elif self.padding_side == "left":
if return_attention_mask:
encoded_inputs["attention_mask"] = [0] * difference + encoded_inputs["attention_mask"]
if "token_type_ids" in encoded_inputs:
encoded_inputs["token_type_ids"] = [self.pad_token_type_id] * difference + encoded_inputs[
"token_type_ids"
]
if "xpath_tags_seq" in encoded_inputs:
encoded_inputs["xpath_tags_seq"] = [self.pad_xpath_tags_seq] * difference + encoded_inputs[
"xpath_tags_seq"
]
if "xpath_subs_seq" in encoded_inputs:
encoded_inputs["xpath_subs_seq"] = [self.pad_xpath_subs_seq] * difference + encoded_inputs[
"xpath_subs_seq"
]
if "labels" in encoded_inputs:
encoded_inputs["labels"] = [self.pad_token_label] * difference + encoded_inputs["labels"]
if "special_tokens_mask" in encoded_inputs:
encoded_inputs["special_tokens_mask"] = [1] * difference + encoded_inputs["special_tokens_mask"]
encoded_inputs[self.model_input_names[0]] = [self.pad_token_id] * difference + required_input
else:
raise ValueError("Invalid padding strategy:" + str(self.padding_side))
return encoded_inputs
| transformers-main | src/transformers/models/markuplm/tokenization_markuplm.py |
# Copyright 2022 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import OptionalDependencyNotAvailable, _LazyModule, is_tokenizers_available, is_torch_available
_import_structure = {
"configuration_markuplm": ["MARKUPLM_PRETRAINED_CONFIG_ARCHIVE_MAP", "MarkupLMConfig"],
"feature_extraction_markuplm": ["MarkupLMFeatureExtractor"],
"processing_markuplm": ["MarkupLMProcessor"],
"tokenization_markuplm": ["MarkupLMTokenizer"],
}
try:
if not is_tokenizers_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["tokenization_markuplm_fast"] = ["MarkupLMTokenizerFast"]
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_markuplm"] = [
"MARKUPLM_PRETRAINED_MODEL_ARCHIVE_LIST",
"MarkupLMForQuestionAnswering",
"MarkupLMForSequenceClassification",
"MarkupLMForTokenClassification",
"MarkupLMModel",
"MarkupLMPreTrainedModel",
]
if TYPE_CHECKING:
from .configuration_markuplm import MARKUPLM_PRETRAINED_CONFIG_ARCHIVE_MAP, MarkupLMConfig
from .feature_extraction_markuplm import MarkupLMFeatureExtractor
from .processing_markuplm import MarkupLMProcessor
from .tokenization_markuplm import MarkupLMTokenizer
try:
if not is_tokenizers_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .tokenization_markuplm_fast import MarkupLMTokenizerFast
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_markuplm import (
MARKUPLM_PRETRAINED_MODEL_ARCHIVE_LIST,
MarkupLMForQuestionAnswering,
MarkupLMForSequenceClassification,
MarkupLMForTokenClassification,
MarkupLMModel,
MarkupLMPreTrainedModel,
)
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure)
| transformers-main | src/transformers/models/markuplm/__init__.py |
# coding=utf-8
# Copyright 2021, The Microsoft Research Asia MarkupLM Team authors
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" MarkupLM model configuration"""
from ...configuration_utils import PretrainedConfig
from ...utils import logging
logger = logging.get_logger(__name__)
MARKUPLM_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"microsoft/markuplm-base": "https://huggingface.co/microsoft/markuplm-base/resolve/main/config.json",
"microsoft/markuplm-large": "https://huggingface.co/microsoft/markuplm-large/resolve/main/config.json",
}
class MarkupLMConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`MarkupLMModel`]. It is used to instantiate a
MarkupLM model according to the specified arguments, defining the model architecture. Instantiating a configuration
with the defaults will yield a similar configuration to that of the MarkupLM
[microsoft/markuplm-base](https://huggingface.co/microsoft/markuplm-base) architecture.
Configuration objects inherit from [`BertConfig`] and can be used to control the model outputs. Read the
documentation from [`BertConfig`] for more information.
Args:
vocab_size (`int`, *optional*, defaults to 30522):
Vocabulary size of the MarkupLM model. Defines the different tokens that can be represented by the
*inputs_ids* passed to the forward method of [`MarkupLMModel`].
hidden_size (`int`, *optional*, defaults to 768):
Dimensionality of the encoder layers and the pooler layer.
num_hidden_layers (`int`, *optional*, defaults to 12):
Number of hidden layers in the Transformer encoder.
num_attention_heads (`int`, *optional*, defaults to 12):
Number of attention heads for each attention layer in the Transformer encoder.
intermediate_size (`int`, *optional*, defaults to 3072):
Dimensionality of the "intermediate" (i.e., feed-forward) layer in the Transformer encoder.
hidden_act (`str` or `function`, *optional*, defaults to `"gelu"`):
The non-linear activation function (function or string) in the encoder and pooler. If string, `"gelu"`,
`"relu"`, `"silu"` and `"gelu_new"` are supported.
hidden_dropout_prob (`float`, *optional*, defaults to 0.1):
The dropout probability for all fully connected layers in the embeddings, encoder, and pooler.
attention_probs_dropout_prob (`float`, *optional*, defaults to 0.1):
The dropout ratio for the attention probabilities.
max_position_embeddings (`int`, *optional*, defaults to 512):
The maximum sequence length that this model might ever be used with. Typically set this to something large
just in case (e.g., 512 or 1024 or 2048).
type_vocab_size (`int`, *optional*, defaults to 2):
The vocabulary size of the `token_type_ids` passed into [`MarkupLMModel`].
initializer_range (`float`, *optional*, defaults to 0.02):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
layer_norm_eps (`float`, *optional*, defaults to 1e-12):
The epsilon used by the layer normalization layers.
max_tree_id_unit_embeddings (`int`, *optional*, defaults to 1024):
The maximum value that the tree id unit embedding might ever use. Typically set this to something large
just in case (e.g., 1024).
max_xpath_tag_unit_embeddings (`int`, *optional*, defaults to 256):
The maximum value that the xpath tag unit embedding might ever use. Typically set this to something large
just in case (e.g., 256).
max_xpath_subs_unit_embeddings (`int`, *optional*, defaults to 1024):
The maximum value that the xpath subscript unit embedding might ever use. Typically set this to something
large just in case (e.g., 1024).
tag_pad_id (`int`, *optional*, defaults to 216):
The id of the padding token in the xpath tags.
subs_pad_id (`int`, *optional*, defaults to 1001):
The id of the padding token in the xpath subscripts.
xpath_tag_unit_hidden_size (`int`, *optional*, defaults to 32):
The hidden size of each tree id unit. One complete tree index will have
(50*xpath_tag_unit_hidden_size)-dim.
max_depth (`int`, *optional*, defaults to 50):
The maximum depth in xpath.
Examples:
```python
>>> from transformers import MarkupLMModel, MarkupLMConfig
>>> # Initializing a MarkupLM microsoft/markuplm-base style configuration
>>> configuration = MarkupLMConfig()
>>> # Initializing a model from the microsoft/markuplm-base style configuration
>>> model = MarkupLMModel(configuration)
>>> # Accessing the model configuration
>>> configuration = model.config
```"""
model_type = "markuplm"
def __init__(
self,
vocab_size=30522,
hidden_size=768,
num_hidden_layers=12,
num_attention_heads=12,
intermediate_size=3072,
hidden_act="gelu",
hidden_dropout_prob=0.1,
attention_probs_dropout_prob=0.1,
max_position_embeddings=512,
type_vocab_size=2,
initializer_range=0.02,
layer_norm_eps=1e-12,
pad_token_id=0,
bos_token_id=0,
eos_token_id=2,
max_xpath_tag_unit_embeddings=256,
max_xpath_subs_unit_embeddings=1024,
tag_pad_id=216,
subs_pad_id=1001,
xpath_unit_hidden_size=32,
max_depth=50,
position_embedding_type="absolute",
use_cache=True,
classifier_dropout=None,
**kwargs,
):
super().__init__(
pad_token_id=pad_token_id,
bos_token_id=bos_token_id,
eos_token_id=eos_token_id,
**kwargs,
)
self.vocab_size = vocab_size
self.hidden_size = hidden_size
self.num_hidden_layers = num_hidden_layers
self.num_attention_heads = num_attention_heads
self.hidden_act = hidden_act
self.intermediate_size = intermediate_size
self.hidden_dropout_prob = hidden_dropout_prob
self.attention_probs_dropout_prob = attention_probs_dropout_prob
self.max_position_embeddings = max_position_embeddings
self.type_vocab_size = type_vocab_size
self.initializer_range = initializer_range
self.layer_norm_eps = layer_norm_eps
self.position_embedding_type = position_embedding_type
self.use_cache = use_cache
self.classifier_dropout = classifier_dropout
# additional properties
self.max_depth = max_depth
self.max_xpath_tag_unit_embeddings = max_xpath_tag_unit_embeddings
self.max_xpath_subs_unit_embeddings = max_xpath_subs_unit_embeddings
self.tag_pad_id = tag_pad_id
self.subs_pad_id = subs_pad_id
self.xpath_unit_hidden_size = xpath_unit_hidden_size
| transformers-main | src/transformers/models/markuplm/configuration_markuplm.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""
Processor class for MarkupLM.
"""
from typing import Optional, Union
from ...file_utils import TensorType
from ...processing_utils import ProcessorMixin
from ...tokenization_utils_base import BatchEncoding, PaddingStrategy, TruncationStrategy
class MarkupLMProcessor(ProcessorMixin):
r"""
Constructs a MarkupLM processor which combines a MarkupLM feature extractor and a MarkupLM tokenizer into a single
processor.
[`MarkupLMProcessor`] offers all the functionalities you need to prepare data for the model.
It first uses [`MarkupLMFeatureExtractor`] to extract nodes and corresponding xpaths from one or more HTML strings.
Next, these are provided to [`MarkupLMTokenizer`] or [`MarkupLMTokenizerFast`], which turns them into token-level
`input_ids`, `attention_mask`, `token_type_ids`, `xpath_tags_seq` and `xpath_subs_seq`.
Args:
feature_extractor (`MarkupLMFeatureExtractor`):
An instance of [`MarkupLMFeatureExtractor`]. The feature extractor is a required input.
tokenizer (`MarkupLMTokenizer` or `MarkupLMTokenizerFast`):
An instance of [`MarkupLMTokenizer`] or [`MarkupLMTokenizerFast`]. The tokenizer is a required input.
parse_html (`bool`, *optional*, defaults to `True`):
Whether or not to use `MarkupLMFeatureExtractor` to parse HTML strings into nodes and corresponding xpaths.
"""
feature_extractor_class = "MarkupLMFeatureExtractor"
tokenizer_class = ("MarkupLMTokenizer", "MarkupLMTokenizerFast")
parse_html = True
def __call__(
self,
html_strings=None,
nodes=None,
xpaths=None,
node_labels=None,
questions=None,
add_special_tokens: bool = True,
padding: Union[bool, str, PaddingStrategy] = False,
truncation: Union[bool, str, TruncationStrategy] = None,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
return_tensors: Optional[Union[str, TensorType]] = None,
**kwargs,
) -> BatchEncoding:
"""
This method first forwards the `html_strings` argument to [`~MarkupLMFeatureExtractor.__call__`]. Next, it
passes the `nodes` and `xpaths` along with the additional arguments to [`~MarkupLMTokenizer.__call__`] and
returns the output.
Optionally, one can also provide a `text` argument which is passed along as first sequence.
Please refer to the docstring of the above two methods for more information.
"""
# first, create nodes and xpaths
if self.parse_html:
if html_strings is None:
raise ValueError("Make sure to pass HTML strings in case `parse_html` is set to `True`")
if nodes is not None or xpaths is not None or node_labels is not None:
raise ValueError(
"Please don't pass nodes, xpaths nor node labels in case `parse_html` is set to `True`"
)
features = self.feature_extractor(html_strings)
nodes = features["nodes"]
xpaths = features["xpaths"]
else:
if html_strings is not None:
raise ValueError("You have passed HTML strings but `parse_html` is set to `False`.")
if nodes is None or xpaths is None:
raise ValueError("Make sure to pass nodes and xpaths in case `parse_html` is set to `False`")
# # second, apply the tokenizer
if questions is not None and self.parse_html:
if isinstance(questions, str):
questions = [questions] # add batch dimension (as the feature extractor always adds a batch dimension)
encoded_inputs = self.tokenizer(
text=questions if questions is not None else nodes,
text_pair=nodes if questions is not None else None,
xpaths=xpaths,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding=padding,
truncation=truncation,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_length=return_length,
verbose=verbose,
return_tensors=return_tensors,
**kwargs,
)
return encoded_inputs
def batch_decode(self, *args, **kwargs):
"""
This method forwards all its arguments to TrOCRTokenizer's [`~PreTrainedTokenizer.batch_decode`]. Please refer
to the docstring of this method for more information.
"""
return self.tokenizer.batch_decode(*args, **kwargs)
def decode(self, *args, **kwargs):
"""
This method forwards all its arguments to TrOCRTokenizer's [`~PreTrainedTokenizer.decode`]. Please refer to the
docstring of this method for more information.
"""
return self.tokenizer.decode(*args, **kwargs)
@property
def model_input_names(self):
tokenizer_input_names = self.tokenizer.model_input_names
return tokenizer_input_names
| transformers-main | src/transformers/models/markuplm/processing_markuplm.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""
Feature extractor class for MarkupLM.
"""
import html
from ...feature_extraction_utils import BatchFeature, FeatureExtractionMixin
from ...utils import is_bs4_available, logging, requires_backends
if is_bs4_available():
import bs4
from bs4 import BeautifulSoup
logger = logging.get_logger(__name__)
class MarkupLMFeatureExtractor(FeatureExtractionMixin):
r"""
Constructs a MarkupLM feature extractor. This can be used to get a list of nodes and corresponding xpaths from HTML
strings.
This feature extractor inherits from [`~feature_extraction_utils.PreTrainedFeatureExtractor`] which contains most
of the main methods. Users should refer to this superclass for more information regarding those methods.
"""
def __init__(self, **kwargs):
requires_backends(self, ["bs4"])
super().__init__(**kwargs)
def xpath_soup(self, element):
xpath_tags = []
xpath_subscripts = []
child = element if element.name else element.parent
for parent in child.parents: # type: bs4.element.Tag
siblings = parent.find_all(child.name, recursive=False)
xpath_tags.append(child.name)
xpath_subscripts.append(
0 if 1 == len(siblings) else next(i for i, s in enumerate(siblings, 1) if s is child)
)
child = parent
xpath_tags.reverse()
xpath_subscripts.reverse()
return xpath_tags, xpath_subscripts
def get_three_from_single(self, html_string):
html_code = BeautifulSoup(html_string, "html.parser")
all_doc_strings = []
string2xtag_seq = []
string2xsubs_seq = []
for element in html_code.descendants:
if type(element) == bs4.element.NavigableString:
if type(element.parent) != bs4.element.Tag:
continue
text_in_this_tag = html.unescape(element).strip()
if not text_in_this_tag:
continue
all_doc_strings.append(text_in_this_tag)
xpath_tags, xpath_subscripts = self.xpath_soup(element)
string2xtag_seq.append(xpath_tags)
string2xsubs_seq.append(xpath_subscripts)
if len(all_doc_strings) != len(string2xtag_seq):
raise ValueError("Number of doc strings and xtags does not correspond")
if len(all_doc_strings) != len(string2xsubs_seq):
raise ValueError("Number of doc strings and xsubs does not correspond")
return all_doc_strings, string2xtag_seq, string2xsubs_seq
def construct_xpath(self, xpath_tags, xpath_subscripts):
xpath = ""
for tagname, subs in zip(xpath_tags, xpath_subscripts):
xpath += f"/{tagname}"
if subs != 0:
xpath += f"[{subs}]"
return xpath
def __call__(self, html_strings) -> BatchFeature:
"""
Main method to prepare for the model one or several HTML strings.
Args:
html_strings (`str`, `List[str]`):
The HTML string or batch of HTML strings from which to extract nodes and corresponding xpaths.
Returns:
[`BatchFeature`]: A [`BatchFeature`] with the following fields:
- **nodes** -- Nodes.
- **xpaths** -- Corresponding xpaths.
Examples:
```python
>>> from transformers import MarkupLMFeatureExtractor
>>> page_name_1 = "page1.html"
>>> page_name_2 = "page2.html"
>>> page_name_3 = "page3.html"
>>> with open(page_name_1) as f:
... single_html_string = f.read()
>>> feature_extractor = MarkupLMFeatureExtractor()
>>> # single example
>>> encoding = feature_extractor(single_html_string)
>>> print(encoding.keys())
>>> # dict_keys(['nodes', 'xpaths'])
>>> # batched example
>>> multi_html_strings = []
>>> with open(page_name_2) as f:
... multi_html_strings.append(f.read())
>>> with open(page_name_3) as f:
... multi_html_strings.append(f.read())
>>> encoding = feature_extractor(multi_html_strings)
>>> print(encoding.keys())
>>> # dict_keys(['nodes', 'xpaths'])
```"""
# Input type checking for clearer error
valid_strings = False
# Check that strings has a valid type
if isinstance(html_strings, str):
valid_strings = True
elif isinstance(html_strings, (list, tuple)):
if len(html_strings) == 0 or isinstance(html_strings[0], str):
valid_strings = True
if not valid_strings:
raise ValueError(
"HTML strings must of type `str`, `List[str]` (batch of examples), "
f"but is of type {type(html_strings)}."
)
is_batched = bool(isinstance(html_strings, (list, tuple)) and (isinstance(html_strings[0], str)))
if not is_batched:
html_strings = [html_strings]
# Get nodes + xpaths
nodes = []
xpaths = []
for html_string in html_strings:
all_doc_strings, string2xtag_seq, string2xsubs_seq = self.get_three_from_single(html_string)
nodes.append(all_doc_strings)
xpath_strings = []
for node, tag_list, sub_list in zip(all_doc_strings, string2xtag_seq, string2xsubs_seq):
xpath_string = self.construct_xpath(tag_list, sub_list)
xpath_strings.append(xpath_string)
xpaths.append(xpath_strings)
# return as Dict
data = {"nodes": nodes, "xpaths": xpaths}
encoded_inputs = BatchFeature(data=data, tensor_type=None)
return encoded_inputs
| transformers-main | src/transformers/models/markuplm/feature_extraction_markuplm.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""
Fast tokenization class for MarkupLM. It overwrites 2 methods of the slow tokenizer class, namely _batch_encode_plus
and _encode_plus, in which the Rust tokenizer is used.
"""
import json
from functools import lru_cache
from typing import Dict, List, Optional, Tuple, Union
from tokenizers import pre_tokenizers, processors
from ...file_utils import PaddingStrategy, TensorType, add_end_docstrings
from ...tokenization_utils_base import (
ENCODE_KWARGS_DOCSTRING,
BatchEncoding,
EncodedInput,
PreTokenizedInput,
TextInput,
TextInputPair,
TruncationStrategy,
)
from ...tokenization_utils_fast import PreTrainedTokenizerFast
from ...utils import logging
from .tokenization_markuplm import MARKUPLM_ENCODE_PLUS_ADDITIONAL_KWARGS_DOCSTRING, MarkupLMTokenizer
logger = logging.get_logger(__name__)
VOCAB_FILES_NAMES = {"vocab_file": "vocab.json", "merges_file": "merges.txt", "tokenizer_file": "tokenizer.json"}
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"microsoft/markuplm-base": "https://huggingface.co/microsoft/markuplm-base/resolve/main/vocab.json",
"microsoft/markuplm-large": "https://huggingface.co/microsoft/markuplm-large/resolve/main/vocab.json",
},
"merges_file": {
"microsoft/markuplm-base": "https://huggingface.co/microsoft/markuplm-base/resolve/main/merges.txt",
"microsoft/markuplm-large": "https://huggingface.co/microsoft/markuplm-large/resolve/main/merges.txt",
},
}
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {
"microsoft/markuplm-base": 512,
"microsoft/markuplm-large": 512,
}
@lru_cache()
def bytes_to_unicode():
"""
Returns list of utf-8 byte and a mapping to unicode strings. We specifically avoids mapping to whitespace/control
characters the bpe code barfs on. The reversible bpe codes work on unicode strings. This means you need a large #
of unicode characters in your vocab if you want to avoid UNKs. When you're at something like a 10B token dataset
you end up needing around 5K for decent coverage. This is a significant percentage of your normal, say, 32K bpe
vocab. To avoid that, we want lookup tables between utf-8 bytes and unicode strings.
"""
bs = (
list(range(ord("!"), ord("~") + 1)) + list(range(ord("¡"), ord("¬") + 1)) + list(range(ord("®"), ord("ÿ") + 1))
)
cs = bs[:]
n = 0
for b in range(2**8):
if b not in bs:
bs.append(b)
cs.append(2**8 + n)
n += 1
cs = [chr(n) for n in cs]
return dict(zip(bs, cs))
def get_pairs(word):
"""
Return set of symbol pairs in a word. Word is represented as tuple of symbols (symbols being variable-length
strings).
"""
pairs = set()
prev_char = word[0]
for char in word[1:]:
pairs.add((prev_char, char))
prev_char = char
return pairs
class MarkupLMTokenizerFast(PreTrainedTokenizerFast):
r"""
Construct a MarkupLM tokenizer. Based on byte-level Byte-Pair-Encoding (BPE).
[`MarkupLMTokenizerFast`] can be used to turn HTML strings into to token-level `input_ids`, `attention_mask`,
`token_type_ids`, `xpath_tags_seq` and `xpath_tags_seq`. This tokenizer inherits from [`PreTrainedTokenizer`] which
contains most of the main methods.
Users should refer to this superclass for more information regarding those methods.
Args:
vocab_file (`str`):
Path to the vocabulary file.
merges_file (`str`):
Path to the merges file.
errors (`str`, *optional*, defaults to `"replace"`):
Paradigm to follow when decoding bytes to UTF-8. See
[bytes.decode](https://docs.python.org/3/library/stdtypes.html#bytes.decode) for more information.
bos_token (`str`, *optional*, defaults to `"<s>"`):
The beginning of sequence token that was used during pretraining. Can be used a sequence classifier token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the beginning of
sequence. The token used is the `cls_token`.
</Tip>
eos_token (`str`, *optional*, defaults to `"</s>"`):
The end of sequence token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the end of sequence.
The token used is the `sep_token`.
</Tip>
sep_token (`str`, *optional*, defaults to `"</s>"`):
The separator token, which is used when building a sequence from multiple sequences, e.g. two sequences for
sequence classification or for a text and a question for question answering. It is also used as the last
token of a sequence built with special tokens.
cls_token (`str`, *optional*, defaults to `"<s>"`):
The classifier token which is used when doing sequence classification (classification of the whole sequence
instead of per-token classification). It is the first token of the sequence when built with special tokens.
unk_token (`str`, *optional*, defaults to `"<unk>"`):
The unknown token. A token that is not in the vocabulary cannot be converted to an ID and is set to be this
token instead.
pad_token (`str`, *optional*, defaults to `"<pad>"`):
The token used for padding, for example when batching sequences of different lengths.
mask_token (`str`, *optional*, defaults to `"<mask>"`):
The token used for masking values. This is the token used when training this model with masked language
modeling. This is the token which the model will try to predict.
add_prefix_space (`bool`, *optional*, defaults to `False`):
Whether or not to add an initial space to the input. This allows to treat the leading word just as any
other word. (RoBERTa tokenizer detect beginning of words by the preceding space).
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
slow_tokenizer_class = MarkupLMTokenizer
def __init__(
self,
vocab_file,
merges_file,
tags_dict,
tokenizer_file=None,
errors="replace",
bos_token="<s>",
eos_token="</s>",
sep_token="</s>",
cls_token="<s>",
unk_token="<unk>",
pad_token="<pad>",
mask_token="<mask>",
add_prefix_space=False,
max_depth=50,
max_width=1000,
pad_width=1001,
pad_token_label=-100,
only_label_first_subword=True,
trim_offsets=False,
**kwargs,
):
super().__init__(
vocab_file=vocab_file,
merges_file=merges_file,
tags_dict=tags_dict,
tokenizer_file=tokenizer_file,
errors=errors,
bos_token=bos_token,
eos_token=eos_token,
unk_token=unk_token,
sep_token=sep_token,
cls_token=cls_token,
pad_token=pad_token,
mask_token=mask_token,
add_prefix_space=add_prefix_space,
trim_offsets=trim_offsets,
max_depth=max_depth,
max_width=max_width,
pad_width=pad_width,
pad_token_label=pad_token_label,
only_label_first_subword=only_label_first_subword,
**kwargs,
)
if trim_offsets:
# Not implemented yet, because we need to chain two post processors which is not possible yet
# We need to wait for https://github.com/huggingface/tokenizers/pull/1005
# With `trim_offsets=False` we don't need to do add `processors.ByteLevel(trim_offsets=False)`
# because it's not doing anything
raise NotImplementedError(
"`trim_offsets=True` is not implemented for MarkupLMTokenizerFast. Please set it to False."
)
self.tags_dict = tags_dict
pre_tok_state = json.loads(self.backend_tokenizer.pre_tokenizer.__getstate__())
if pre_tok_state.get("add_prefix_space", add_prefix_space) != add_prefix_space:
pre_tok_class = getattr(pre_tokenizers, pre_tok_state.pop("type"))
pre_tok_state["add_prefix_space"] = add_prefix_space
self.backend_tokenizer.pre_tokenizer = pre_tok_class(**pre_tok_state)
self.add_prefix_space = add_prefix_space
tokenizer_component = "post_processor"
tokenizer_component_instance = getattr(self.backend_tokenizer, tokenizer_component, None)
if tokenizer_component_instance:
state = json.loads(tokenizer_component_instance.__getstate__())
# The lists 'sep' and 'cls' must be cased in tuples for the object `post_processor_class`
if "sep" in state:
state["sep"] = tuple(state["sep"])
if "cls" in state:
state["cls"] = tuple(state["cls"])
changes_to_apply = False
if state.get("add_prefix_space", add_prefix_space) != add_prefix_space:
state["add_prefix_space"] = add_prefix_space
changes_to_apply = True
if changes_to_apply:
component_class = getattr(processors, state.pop("type"))
new_value = component_class(**state)
setattr(self.backend_tokenizer, tokenizer_component, new_value)
# additional properties
self.max_depth = max_depth
self.max_width = max_width
self.pad_width = pad_width
self.unk_tag_id = len(self.tags_dict)
self.pad_tag_id = self.unk_tag_id + 1
self.pad_xpath_tags_seq = [self.pad_tag_id] * self.max_depth
self.pad_xpath_subs_seq = [self.pad_width] * self.max_depth
self.pad_token_label = pad_token_label
self.only_label_first_subword = only_label_first_subword
def get_xpath_seq(self, xpath):
"""
Given the xpath expression of one particular node (like "/html/body/div/li[1]/div/span[2]"), return a list of
tag IDs and corresponding subscripts, taking into account max depth.
"""
xpath_tags_list = []
xpath_subs_list = []
xpath_units = xpath.split("/")
for unit in xpath_units:
if not unit.strip():
continue
name_subs = unit.strip().split("[")
tag_name = name_subs[0]
sub = 0 if len(name_subs) == 1 else int(name_subs[1][:-1])
xpath_tags_list.append(self.tags_dict.get(tag_name, self.unk_tag_id))
xpath_subs_list.append(min(self.max_width, sub))
xpath_tags_list = xpath_tags_list[: self.max_depth]
xpath_subs_list = xpath_subs_list[: self.max_depth]
xpath_tags_list += [self.pad_tag_id] * (self.max_depth - len(xpath_tags_list))
xpath_subs_list += [self.pad_width] * (self.max_depth - len(xpath_subs_list))
return xpath_tags_list, xpath_subs_list
@add_end_docstrings(ENCODE_KWARGS_DOCSTRING, MARKUPLM_ENCODE_PLUS_ADDITIONAL_KWARGS_DOCSTRING)
def __call__(
self,
text: Union[TextInput, PreTokenizedInput, List[TextInput], List[PreTokenizedInput]],
text_pair: Optional[Union[PreTokenizedInput, List[PreTokenizedInput]]] = None,
xpaths: Union[List[List[int]], List[List[List[int]]]] = None,
node_labels: Optional[Union[List[int], List[List[int]]]] = None,
add_special_tokens: bool = True,
padding: Union[bool, str, PaddingStrategy] = False,
truncation: Union[bool, str, TruncationStrategy] = None,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
**kwargs,
) -> BatchEncoding:
"""
Main method to tokenize and prepare for the model one or several sequence(s) or one or several pair(s) of
sequences with nodes, xpaths and optional labels.
Args:
text (`str`, `List[str]`, `List[List[str]]`):
The sequence or batch of sequences to be encoded. Each sequence can be a string, a list of strings
(words of a single example or questions of a batch of examples) or a list of list of strings (batch of
words).
text_pair (`List[str]`, `List[List[str]]`):
The sequence or batch of sequences to be encoded. Each sequence should be a list of strings
(pretokenized string).
xpaths (`List[List[int]]`, `List[List[List[int]]]`):
Node-level xpaths. Each bounding box should be normalized to be on a 0-1000 scale.
node_labels (`List[int]`, `List[List[int]]`, *optional*):
Node-level integer labels (for token classification tasks).
"""
# Input type checking for clearer error
def _is_valid_text_input(t):
if isinstance(t, str):
# Strings are fine
return True
elif isinstance(t, (list, tuple)):
# List are fine as long as they are...
if len(t) == 0:
# ... empty
return True
elif isinstance(t[0], str):
# ... list of strings
return True
elif isinstance(t[0], (list, tuple)):
# ... list with an empty list or with a list of strings
return len(t[0]) == 0 or isinstance(t[0][0], str)
else:
return False
else:
return False
if text_pair is not None:
# in case text + text_pair are provided, text = questions, text_pair = nodes
if not _is_valid_text_input(text):
raise ValueError("text input must of type `str` (single example) or `List[str]` (batch of examples). ")
if not isinstance(text_pair, (list, tuple)):
raise ValueError(
"Nodes must be of type `List[str]` (single pretokenized example), "
"or `List[List[str]]` (batch of pretokenized examples)."
)
else:
# in case only text is provided => must be nodes
if not isinstance(text, (list, tuple)):
raise ValueError(
"Nodes must be of type `List[str]` (single pretokenized example), "
"or `List[List[str]]` (batch of pretokenized examples)."
)
if text_pair is not None:
is_batched = isinstance(text, (list, tuple))
else:
is_batched = isinstance(text, (list, tuple)) and text and isinstance(text[0], (list, tuple))
nodes = text if text_pair is None else text_pair
assert xpaths is not None, "You must provide corresponding xpaths"
if is_batched:
assert len(nodes) == len(xpaths), "You must provide nodes and xpaths for an equal amount of examples"
for nodes_example, xpaths_example in zip(nodes, xpaths):
assert len(nodes_example) == len(xpaths_example), "You must provide as many nodes as there are xpaths"
else:
assert len(nodes) == len(xpaths), "You must provide as many nodes as there are xpaths"
if is_batched:
if text_pair is not None and len(text) != len(text_pair):
raise ValueError(
f"batch length of `text`: {len(text)} does not match batch length of `text_pair`:"
f" {len(text_pair)}."
)
batch_text_or_text_pairs = list(zip(text, text_pair)) if text_pair is not None else text
is_pair = bool(text_pair is not None)
return self.batch_encode_plus(
batch_text_or_text_pairs=batch_text_or_text_pairs,
is_pair=is_pair,
xpaths=xpaths,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding=padding,
truncation=truncation,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_tensors=return_tensors,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_length=return_length,
verbose=verbose,
**kwargs,
)
else:
return self.encode_plus(
text=text,
text_pair=text_pair,
xpaths=xpaths,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding=padding,
truncation=truncation,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_tensors=return_tensors,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_length=return_length,
verbose=verbose,
**kwargs,
)
@add_end_docstrings(ENCODE_KWARGS_DOCSTRING, MARKUPLM_ENCODE_PLUS_ADDITIONAL_KWARGS_DOCSTRING)
def batch_encode_plus(
self,
batch_text_or_text_pairs: Union[
List[TextInput],
List[TextInputPair],
List[PreTokenizedInput],
],
is_pair: bool = None,
xpaths: Optional[List[List[List[int]]]] = None,
node_labels: Optional[Union[List[int], List[List[int]]]] = None,
add_special_tokens: bool = True,
padding: Union[bool, str, PaddingStrategy] = False,
truncation: Union[bool, str, TruncationStrategy] = None,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
**kwargs,
) -> BatchEncoding:
# Backward compatibility for 'truncation_strategy', 'pad_to_max_length'
padding_strategy, truncation_strategy, max_length, kwargs = self._get_padding_truncation_strategies(
padding=padding,
truncation=truncation,
max_length=max_length,
pad_to_multiple_of=pad_to_multiple_of,
verbose=verbose,
**kwargs,
)
return self._batch_encode_plus(
batch_text_or_text_pairs=batch_text_or_text_pairs,
is_pair=is_pair,
xpaths=xpaths,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding_strategy=padding_strategy,
truncation_strategy=truncation_strategy,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_tensors=return_tensors,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_length=return_length,
verbose=verbose,
**kwargs,
)
def tokenize(self, text: str, pair: Optional[str] = None, add_special_tokens: bool = False, **kwargs) -> List[str]:
batched_input = [(text, pair)] if pair else [text]
encodings = self._tokenizer.encode_batch(
batched_input, add_special_tokens=add_special_tokens, is_pretokenized=False, **kwargs
)
return encodings[0].tokens
@add_end_docstrings(ENCODE_KWARGS_DOCSTRING, MARKUPLM_ENCODE_PLUS_ADDITIONAL_KWARGS_DOCSTRING)
def encode_plus(
self,
text: Union[TextInput, PreTokenizedInput],
text_pair: Optional[PreTokenizedInput] = None,
xpaths: Optional[List[List[int]]] = None,
node_labels: Optional[List[int]] = None,
add_special_tokens: bool = True,
padding: Union[bool, str, PaddingStrategy] = False,
truncation: Union[bool, str, TruncationStrategy] = None,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[Union[str, TensorType]] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
**kwargs,
) -> BatchEncoding:
"""
Tokenize and prepare for the model a sequence or a pair of sequences. .. warning:: This method is deprecated,
`__call__` should be used instead.
Args:
text (`str`, `List[str]`, `List[List[str]]`):
The first sequence to be encoded. This can be a string, a list of strings or a list of list of strings.
text_pair (`List[str]` or `List[int]`, *optional*):
Optional second sequence to be encoded. This can be a list of strings (words of a single example) or a
list of list of strings (words of a batch of examples).
"""
# Backward compatibility for 'truncation_strategy', 'pad_to_max_length'
padding_strategy, truncation_strategy, max_length, kwargs = self._get_padding_truncation_strategies(
padding=padding,
truncation=truncation,
max_length=max_length,
pad_to_multiple_of=pad_to_multiple_of,
verbose=verbose,
**kwargs,
)
return self._encode_plus(
text=text,
xpaths=xpaths,
text_pair=text_pair,
node_labels=node_labels,
add_special_tokens=add_special_tokens,
padding_strategy=padding_strategy,
truncation_strategy=truncation_strategy,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_tensors=return_tensors,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_length=return_length,
verbose=verbose,
**kwargs,
)
def _batch_encode_plus(
self,
batch_text_or_text_pairs: Union[
List[TextInput],
List[TextInputPair],
List[PreTokenizedInput],
],
is_pair: bool = None,
xpaths: Optional[List[List[List[int]]]] = None,
node_labels: Optional[List[List[int]]] = None,
add_special_tokens: bool = True,
padding_strategy: PaddingStrategy = PaddingStrategy.DO_NOT_PAD,
truncation_strategy: TruncationStrategy = TruncationStrategy.DO_NOT_TRUNCATE,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[str] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
) -> BatchEncoding:
if not isinstance(batch_text_or_text_pairs, list):
raise TypeError(f"batch_text_or_text_pairs has to be a list (got {type(batch_text_or_text_pairs)})")
# Set the truncation and padding strategy and restore the initial configuration
self.set_truncation_and_padding(
padding_strategy=padding_strategy,
truncation_strategy=truncation_strategy,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
)
if is_pair:
batch_text_or_text_pairs = [([text], text_pair) for text, text_pair in batch_text_or_text_pairs]
encodings = self._tokenizer.encode_batch(
batch_text_or_text_pairs,
add_special_tokens=add_special_tokens,
is_pretokenized=True, # we set this to True as MarkupLM always expects pretokenized inputs
)
# Convert encoding to dict
# `Tokens` is a tuple of (List[Dict[str, List[List[int]]]] or List[Dict[str, 2D-Tensor]],
# List[EncodingFast]) with nested dimensions corresponding to batch, overflows, sequence length
tokens_and_encodings = [
self._convert_encoding(
encoding=encoding,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=True
if node_labels is not None
else return_offsets_mapping, # we use offsets to create the labels
return_length=return_length,
verbose=verbose,
)
for encoding in encodings
]
# Convert the output to have dict[list] from list[dict] and remove the additional overflows dimension
# From (variable) shape (batch, overflows, sequence length) to ~ (batch * overflows, sequence length)
# (we say ~ because the number of overflow varies with the example in the batch)
#
# To match each overflowing sample with the original sample in the batch
# we add an overflow_to_sample_mapping array (see below)
sanitized_tokens = {}
for key in tokens_and_encodings[0][0].keys():
stack = [e for item, _ in tokens_and_encodings for e in item[key]]
sanitized_tokens[key] = stack
sanitized_encodings = [e for _, item in tokens_and_encodings for e in item]
# If returning overflowing tokens, we need to return a mapping
# from the batch idx to the original sample
if return_overflowing_tokens:
overflow_to_sample_mapping = []
for i, (toks, _) in enumerate(tokens_and_encodings):
overflow_to_sample_mapping += [i] * len(toks["input_ids"])
sanitized_tokens["overflow_to_sample_mapping"] = overflow_to_sample_mapping
for input_ids in sanitized_tokens["input_ids"]:
self._eventual_warn_about_too_long_sequence(input_ids, max_length, verbose)
# create the token-level xpaths tags and subscripts
xpath_tags_seq = []
xpath_subs_seq = []
for batch_index in range(len(sanitized_tokens["input_ids"])):
if return_overflowing_tokens:
original_index = sanitized_tokens["overflow_to_sample_mapping"][batch_index]
else:
original_index = batch_index
xpath_tags_seq_example = []
xpath_subs_seq_example = []
for id, sequence_id, word_id in zip(
sanitized_tokens["input_ids"][batch_index],
sanitized_encodings[batch_index].sequence_ids,
sanitized_encodings[batch_index].word_ids,
):
if word_id is not None:
if is_pair and sequence_id == 0:
xpath_tags_seq_example.append(self.pad_xpath_tags_seq)
xpath_subs_seq_example.append(self.pad_xpath_subs_seq)
else:
xpath_tags_list, xpath_subs_list = self.get_xpath_seq(xpaths[original_index][word_id])
xpath_tags_seq_example.extend([xpath_tags_list])
xpath_subs_seq_example.extend([xpath_subs_list])
else:
if id in [self.cls_token_id, self.sep_token_id, self.pad_token_id]:
xpath_tags_seq_example.append(self.pad_xpath_tags_seq)
xpath_subs_seq_example.append(self.pad_xpath_subs_seq)
else:
raise ValueError("Id not recognized")
xpath_tags_seq.append(xpath_tags_seq_example)
xpath_subs_seq.append(xpath_subs_seq_example)
sanitized_tokens["xpath_tags_seq"] = xpath_tags_seq
sanitized_tokens["xpath_subs_seq"] = xpath_subs_seq
# optionally, create the labels
if node_labels is not None:
labels = []
for batch_index in range(len(sanitized_tokens["input_ids"])):
if return_overflowing_tokens:
original_index = sanitized_tokens["overflow_to_sample_mapping"][batch_index]
else:
original_index = batch_index
labels_example = []
for id, offset, word_id in zip(
sanitized_tokens["input_ids"][batch_index],
sanitized_tokens["offset_mapping"][batch_index],
sanitized_encodings[batch_index].word_ids,
):
if word_id is not None:
if self.only_label_first_subword:
if offset[0] == 0:
# Use the real label id for the first token of the word, and padding ids for the remaining tokens
labels_example.append(node_labels[original_index][word_id])
else:
labels_example.append(self.pad_token_label)
else:
labels_example.append(node_labels[original_index][word_id])
else:
labels_example.append(self.pad_token_label)
labels.append(labels_example)
sanitized_tokens["labels"] = labels
# finally, remove offsets if the user didn't want them
if not return_offsets_mapping:
del sanitized_tokens["offset_mapping"]
return BatchEncoding(sanitized_tokens, sanitized_encodings, tensor_type=return_tensors)
def _encode_plus(
self,
text: Union[TextInput, PreTokenizedInput],
text_pair: Optional[PreTokenizedInput] = None,
xpaths: Optional[List[List[int]]] = None,
node_labels: Optional[List[int]] = None,
add_special_tokens: bool = True,
padding_strategy: PaddingStrategy = PaddingStrategy.DO_NOT_PAD,
truncation_strategy: TruncationStrategy = TruncationStrategy.DO_NOT_TRUNCATE,
max_length: Optional[int] = None,
stride: int = 0,
pad_to_multiple_of: Optional[int] = None,
return_tensors: Optional[bool] = None,
return_token_type_ids: Optional[bool] = None,
return_attention_mask: Optional[bool] = None,
return_overflowing_tokens: bool = False,
return_special_tokens_mask: bool = False,
return_offsets_mapping: bool = False,
return_length: bool = False,
verbose: bool = True,
**kwargs,
) -> BatchEncoding:
# make it a batched input
# 2 options:
# 1) only text, in case text must be a list of str
# 2) text + text_pair, in which case text = str and text_pair a list of str
batched_input = [(text, text_pair)] if text_pair else [text]
batched_xpaths = [xpaths]
batched_node_labels = [node_labels] if node_labels is not None else None
batched_output = self._batch_encode_plus(
batched_input,
is_pair=bool(text_pair is not None),
xpaths=batched_xpaths,
node_labels=batched_node_labels,
add_special_tokens=add_special_tokens,
padding_strategy=padding_strategy,
truncation_strategy=truncation_strategy,
max_length=max_length,
stride=stride,
pad_to_multiple_of=pad_to_multiple_of,
return_tensors=return_tensors,
return_token_type_ids=return_token_type_ids,
return_attention_mask=return_attention_mask,
return_overflowing_tokens=return_overflowing_tokens,
return_special_tokens_mask=return_special_tokens_mask,
return_offsets_mapping=return_offsets_mapping,
return_length=return_length,
verbose=verbose,
**kwargs,
)
# Return tensor is None, then we can remove the leading batch axis
# Overflowing tokens are returned as a batch of output so we keep them in this case
if return_tensors is None and not return_overflowing_tokens:
batched_output = BatchEncoding(
{
key: value[0] if len(value) > 0 and isinstance(value[0], list) else value
for key, value in batched_output.items()
},
batched_output.encodings,
)
self._eventual_warn_about_too_long_sequence(batched_output["input_ids"], max_length, verbose)
return batched_output
def _pad(
self,
encoded_inputs: Union[Dict[str, EncodedInput], BatchEncoding],
max_length: Optional[int] = None,
padding_strategy: PaddingStrategy = PaddingStrategy.DO_NOT_PAD,
pad_to_multiple_of: Optional[int] = None,
return_attention_mask: Optional[bool] = None,
) -> dict:
"""
Args:
Pad encoded inputs (on left/right and up to predefined length or max length in the batch)
encoded_inputs:
Dictionary of tokenized inputs (`List[int]`) or batch of tokenized inputs (`List[List[int]]`).
max_length: maximum length of the returned list and optionally padding length (see below).
Will truncate by taking into account the special tokens.
padding_strategy: PaddingStrategy to use for padding.
- PaddingStrategy.LONGEST Pad to the longest sequence in the batch
- PaddingStrategy.MAX_LENGTH: Pad to the max length (default)
- PaddingStrategy.DO_NOT_PAD: Do not pad
The tokenizer padding sides are defined in self.padding_side:
- 'left': pads on the left of the sequences
- 'right': pads on the right of the sequences
pad_to_multiple_of: (optional) Integer if set will pad the sequence to a multiple of the provided value.
This is especially useful to enable the use of Tensor Core on NVIDIA hardware with compute capability
`>= 7.5` (Volta).
return_attention_mask:
(optional) Set to False to avoid returning attention mask (default: set to model specifics)
"""
# Load from model defaults
if return_attention_mask is None:
return_attention_mask = "attention_mask" in self.model_input_names
required_input = encoded_inputs[self.model_input_names[0]]
if padding_strategy == PaddingStrategy.LONGEST:
max_length = len(required_input)
if max_length is not None and pad_to_multiple_of is not None and (max_length % pad_to_multiple_of != 0):
max_length = ((max_length // pad_to_multiple_of) + 1) * pad_to_multiple_of
needs_to_be_padded = padding_strategy != PaddingStrategy.DO_NOT_PAD and len(required_input) != max_length
# Initialize attention mask if not present.
if return_attention_mask and "attention_mask" not in encoded_inputs:
encoded_inputs["attention_mask"] = [1] * len(required_input)
if needs_to_be_padded:
difference = max_length - len(required_input)
if self.padding_side == "right":
if return_attention_mask:
encoded_inputs["attention_mask"] = encoded_inputs["attention_mask"] + [0] * difference
if "token_type_ids" in encoded_inputs:
encoded_inputs["token_type_ids"] = (
encoded_inputs["token_type_ids"] + [self.pad_token_type_id] * difference
)
if "xpath_tags_seq" in encoded_inputs:
encoded_inputs["xpath_tags_seq"] = (
encoded_inputs["xpath_tags_seq"] + [self.pad_xpath_tags_seq] * difference
)
if "xpath_subs_seq" in encoded_inputs:
encoded_inputs["xpath_subs_seq"] = (
encoded_inputs["xpath_subs_seq"] + [self.pad_xpath_subs_seq] * difference
)
if "labels" in encoded_inputs:
encoded_inputs["labels"] = encoded_inputs["labels"] + [self.pad_token_label] * difference
if "special_tokens_mask" in encoded_inputs:
encoded_inputs["special_tokens_mask"] = encoded_inputs["special_tokens_mask"] + [1] * difference
encoded_inputs[self.model_input_names[0]] = required_input + [self.pad_token_id] * difference
elif self.padding_side == "left":
if return_attention_mask:
encoded_inputs["attention_mask"] = [0] * difference + encoded_inputs["attention_mask"]
if "token_type_ids" in encoded_inputs:
encoded_inputs["token_type_ids"] = [self.pad_token_type_id] * difference + encoded_inputs[
"token_type_ids"
]
if "xpath_tags_seq" in encoded_inputs:
encoded_inputs["xpath_tags_seq"] = [self.pad_xpath_tags_seq] * difference + encoded_inputs[
"xpath_tags_seq"
]
if "xpath_subs_seq" in encoded_inputs:
encoded_inputs["xpath_subs_seq"] = [self.pad_xpath_subs_seq] * difference + encoded_inputs[
"xpath_subs_seq"
]
if "labels" in encoded_inputs:
encoded_inputs["labels"] = [self.pad_token_label] * difference + encoded_inputs["labels"]
if "special_tokens_mask" in encoded_inputs:
encoded_inputs["special_tokens_mask"] = [1] * difference + encoded_inputs["special_tokens_mask"]
encoded_inputs[self.model_input_names[0]] = [self.pad_token_id] * difference + required_input
else:
raise ValueError("Invalid padding strategy:" + str(self.padding_side))
return encoded_inputs
def build_inputs_with_special_tokens(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Build model inputs from a sequence or a pair of sequence for sequence classification tasks by concatenating and
adding special tokens. A RoBERTa sequence has the following format:
- single sequence: `<s> X </s>`
- pair of sequences: `<s> A </s></s> B </s>`
Args:
token_ids_0 (`List[int]`):
List of IDs to which the special tokens will be added.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of [input IDs](../glossary#input-ids) with the appropriate special tokens.
"""
if token_ids_1 is None:
return [self.cls_token_id] + token_ids_0 + [self.sep_token_id]
cls = [self.cls_token_id]
sep = [self.sep_token_id]
return cls + token_ids_0 + sep + token_ids_1 + sep
def create_token_type_ids_from_sequences(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Create a mask from the two sequences passed to be used in a sequence-pair classification task. RoBERTa does not
make use of token type ids, therefore a list of zeros is returned.
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of zeros.
"""
sep = [self.sep_token_id]
cls = [self.cls_token_id]
if token_ids_1 is None:
return len(cls + token_ids_0 + sep) * [0]
return len(cls + token_ids_0 + sep + token_ids_1 + sep) * [0]
def save_vocabulary(self, save_directory: str, filename_prefix: Optional[str] = None) -> Tuple[str]:
files = self._tokenizer.model.save(save_directory, name=filename_prefix)
return tuple(files)
| transformers-main | src/transformers/models/markuplm/tokenization_markuplm_fast.py |
# Copyright 2020 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import OptionalDependencyNotAvailable, _LazyModule, is_sentencepiece_available, is_torch_available
_import_structure = {
"configuration_xlm_prophetnet": ["XLM_PROPHETNET_PRETRAINED_CONFIG_ARCHIVE_MAP", "XLMProphetNetConfig"],
}
try:
if not is_sentencepiece_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["tokenization_xlm_prophetnet"] = ["XLMProphetNetTokenizer"]
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_xlm_prophetnet"] = [
"XLM_PROPHETNET_PRETRAINED_MODEL_ARCHIVE_LIST",
"XLMProphetNetDecoder",
"XLMProphetNetEncoder",
"XLMProphetNetForCausalLM",
"XLMProphetNetForConditionalGeneration",
"XLMProphetNetModel",
"XLMProphetNetPreTrainedModel",
]
if TYPE_CHECKING:
from .configuration_xlm_prophetnet import XLM_PROPHETNET_PRETRAINED_CONFIG_ARCHIVE_MAP, XLMProphetNetConfig
try:
if not is_sentencepiece_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .tokenization_xlm_prophetnet import XLMProphetNetTokenizer
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_xlm_prophetnet import (
XLM_PROPHETNET_PRETRAINED_MODEL_ARCHIVE_LIST,
XLMProphetNetDecoder,
XLMProphetNetEncoder,
XLMProphetNetForCausalLM,
XLMProphetNetForConditionalGeneration,
XLMProphetNetModel,
XLMProphetNetPreTrainedModel,
)
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/xlm_prophetnet/__init__.py |
# coding=utf-8
# Copyright 2020 The Microsoft Authors and The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch XLM-ProphetNet model."""
import copy
import math
import warnings
from dataclasses import dataclass
from typing import Optional, Tuple, Union
import torch
import torch.utils.checkpoint
from torch import Tensor, nn
from torch.nn import LayerNorm
from ...activations import ACT2FN
from ...modeling_outputs import BaseModelOutput
from ...modeling_utils import PreTrainedModel
from ...utils import (
ModelOutput,
add_start_docstrings,
add_start_docstrings_to_model_forward,
logging,
replace_return_docstrings,
)
from .configuration_xlm_prophetnet import XLMProphetNetConfig
logger = logging.get_logger(__name__)
_CONFIG_FOR_DOC = "XLMProphetNetConfig"
XLM_PROPHETNET_PRETRAINED_MODEL_ARCHIVE_LIST = [
"microsoft/xprophetnet-large-wiki100-cased",
# See all XLMProphetNet models at https://huggingface.co/models?filter=xprophetnet
]
# Copied from src.transformers.models.prophetnet.modeling_prophetnet.PROPHETNET_START_DOCSTRING with ProphetNetConfig->XLMProphetNetConfig
XLM_PROPHETNET_START_DOCSTRING = r"""
This model inherits from [`PreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
Original ProphetNet code can be found [here](https://github.com/microsoft/ProphetNet). Checkpoints were converted
from original Fairseq checkpoints. For more information on the checkpoint conversion, please take a look at the
file `convert_prophetnet_original_pytorch_checkpoint_to_pytorch.py`.
This model is a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) sub-class. Use
it as a regular PyTorch Module and refer to the PyTorch documentation for all matters related to general usage and
behavior.
Parameters:
config ([`XLMProphetNetConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
# Copied from src.transformers.models.prophetnet.modeling_prophetnet.PROPHETNET_INPUTS_DOCSTRING with ProphetNet->XLMProphetNet
XLM_PROPHETNET_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you provide
it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
decoder_input_ids (`torch.LongTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Indices of decoder input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are decoder input IDs?](../glossary#decoder-input-ids)
XLMProphetNet uses the `eos_token_id` as the starting token for `decoder_input_ids` generation. If
`past_key_values` is used, optionally only the last `decoder_input_ids` have to be input (see
`past_key_values`).
decoder_attention_mask (`torch.BoolTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Default behavior: generate a tensor that ignores pad tokens in `decoder_input_ids`. Causal mask will also
be used by default.
head_mask (`torch.Tensor` of shape `(encoder_layers, encoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules in the encoder. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
decoder_head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules in the decoder. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
cross_attn_head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the cross-attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
encoder_outputs (`tuple(tuple(torch.FloatTensor)`, *optional*):
Tuple consists of (`last_hidden_state`, *optional*: `hidden_states`, *optional*: `attentions`)
`last_hidden_state` of shape `(batch_size, sequence_length, hidden_size)`, *optional*) is a sequence of
hidden-states at the output of the last layer of the encoder. Used in the cross-attention of the decoder.
past_key_values (`tuple(tuple(torch.FloatTensor))` of length `config.n_layers` with each tuple having 4 tensors of shape `(batch_size, num_heads, sequence_length - 1, embed_size_per_head)`):
Contains precomputed key and value hidden-states of the attention blocks. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
# Copied from src.transformers.models.prophetnet.modeling_prophetnet.PROPHETNET_STANDALONE_INPUTS_DOCSTRING with ProphetNet->XLMProphetNet
XLM_PROPHETNET_STANDALONE_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you provide
it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
head_mask (`torch.Tensor` of shape `(encoder_layers, encoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules in the encoder. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
# Copied from transformers.models.prophetnet.modeling_prophetnet.softmax
def softmax(hidden_state, dim, onnx_trace=False):
if onnx_trace:
return nn.functional.softmax(hidden_state.float(), dim=dim)
else:
return nn.functional.softmax(hidden_state, dim=dim, dtype=torch.float32)
# Copied from transformers.models.prophetnet.modeling_prophetnet.ngram_attention_bias
def ngram_attention_bias(sequence_length, ngram, device, dtype):
"""
This function computes the bias for the predict stream
"""
left_block = (
torch.ones((ngram, sequence_length, sequence_length), device=device, dtype=dtype) * torch.finfo(dtype).min
)
right_block = left_block.detach().clone()
# create bias
for stream_idx in range(ngram):
right_block[stream_idx].fill_diagonal_(0, wrap=False)
left_block[stream_idx].triu_(-stream_idx + 1)
left_block[:, :, 0] = 0
return torch.cat([left_block, right_block], dim=2)
# Copied from transformers.models.prophetnet.modeling_prophetnet.compute_relative_buckets
def compute_relative_buckets(num_buckets, max_distance, relative_positions, is_bidirectional=False):
"""
This function computes individual parts of the relative position buckets. For more detail, see paper.
"""
inv_relative_positions = -relative_positions
rel_positions_bucket = 0
if is_bidirectional:
num_buckets = num_buckets // 2
rel_positions_bucket = (
rel_positions_bucket
+ torch.lt(inv_relative_positions, torch.zeros_like(inv_relative_positions)).int() * num_buckets
)
inv_relative_positions = torch.abs(inv_relative_positions)
else:
inv_relative_positions = torch.max(inv_relative_positions, torch.zeros_like(inv_relative_positions))
max_exact = num_buckets // 2
is_small = torch.lt(inv_relative_positions, max_exact)
val_if_large = max_exact + torch.log(inv_relative_positions.float() / max_exact) / math.log(
max_distance / max_exact
) * (num_buckets - max_exact)
val_if_large = torch.min(val_if_large, torch.ones_like(val_if_large) * (num_buckets - 1)).int()
rel_positions_bucket = rel_positions_bucket + torch.where(is_small, inv_relative_positions.int(), val_if_large)
return rel_positions_bucket
# Copied from transformers.models.prophetnet.modeling_prophetnet.compute_all_stream_relative_buckets
def compute_all_stream_relative_buckets(num_buckets, max_distance, position_ids):
"""
This function computes both main and predict relative position buckets. For more detail, see paper.
"""
# main stream
main_stream_relative_positions = position_ids.unsqueeze(1).repeat(1, position_ids.size(-1), 1)
main_stream_relative_positions = main_stream_relative_positions - position_ids.unsqueeze(-1)
# predicting stream
predicting_stream_relative_positions = torch.cat((position_ids - 1, position_ids), dim=-1).unsqueeze(1)
predicting_stream_relative_positions = predicting_stream_relative_positions.repeat(1, position_ids.size(-1), 1)
predicting_stream_relative_positions = predicting_stream_relative_positions - position_ids.unsqueeze(-1)
# get both position buckets
main_relative_position_buckets = compute_relative_buckets(
num_buckets, max_distance, main_stream_relative_positions, is_bidirectional=False
)
predict_relative_position_buckets = compute_relative_buckets(
num_buckets, max_distance, predicting_stream_relative_positions, is_bidirectional=False
)
return main_relative_position_buckets, predict_relative_position_buckets
@dataclass
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetSeq2SeqLMOutput with ProphetNet->XLMProphetNet all-casing
class XLMProphetNetSeq2SeqLMOutput(ModelOutput):
"""
Base class for sequence-to-sequence language models outputs.
Args:
loss (`torch.FloatTensor` of shape `(1,)`, *optional*, returned when `labels` is provided):
Language modeling loss.
logits (`torch.FloatTensor` of shape `(batch_size, decoder_sequence_length, config.vocab_size)`):
Prediction scores of the main stream language modeling head (scores for each vocabulary token before
SoftMax).
logits_ngram (`torch.FloatTensor` of shape `(batch_size, ngram * decoder_sequence_length, config.vocab_size)`):
Prediction scores of the predict stream language modeling head (scores for each vocabulary token before
SoftMax).
past_key_values (`List[torch.FloatTensor]`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
List of `torch.FloatTensor` of length `config.n_layers`, with each tensor of shape `(2, batch_size,
num_attn_heads, decoder_sequence_length, embed_size_per_head)`).
Contains pre-computed hidden-states (key and values in the attention blocks) of the decoder that can be
used (see `past_key_values` input) to speed up sequential decoding.
decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, decoder_sequence_length, hidden_size)`.
Hidden-states of main stream of the decoder at the output of each layer plus the initial embedding outputs.
decoder_ngram_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, ngram * decoder_sequence_length, hidden_size)`.
Hidden-states of the predict stream of the decoder at the output of each layer plus the initial embedding
outputs.
decoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
decoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the decoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
decoder_ngram_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
decoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the predict stream of the decoder, after the attention softmax, used to compute the
weighted average in the self-attention heads.
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
encoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the cross-attention layer of the decoder, after the attention softmax, used to
compute the weighted average in the
encoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, encoder_sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder of the model.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, encoder_sequence_length, hidden_size)`.
Hidden-states of the encoder at the output of each layer plus the initial embedding outputs.
encoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
encoder_sequence_length, encoder_sequence_length)`. Attentions weights of the encoder, after the attention
softmax, used to compute the weighted average in the self-attention heads.
"""
loss: Optional[torch.FloatTensor] = None
logits: torch.FloatTensor = None
logits_ngram: Optional[torch.FloatTensor] = None
past_key_values: Optional[Tuple[torch.FloatTensor]] = None
decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
decoder_ngram_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
decoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
decoder_ngram_attentions: Optional[Tuple[torch.FloatTensor]] = None
cross_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_last_hidden_state: Optional[torch.FloatTensor] = None
encoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
encoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
@property
def decoder_cross_attentions(self):
warnings.warn(
"`decoder_cross_attentions` is deprecated and will be removed soon. Please use `cross_attentions`"
" instead.",
FutureWarning,
)
return self.cross_attentions
@dataclass
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetSeq2SeqModelOutput with ProphetNet->XLMProphetNet all-casing
class XLMProphetNetSeq2SeqModelOutput(ModelOutput):
"""
Base class for model encoder's outputs that also contains : pre-computed hidden states that can speed up sequential
decoding.
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, decoder_sequence_length, hidden_size)`):
Sequence of main stream hidden-states at the output of the last layer of the decoder of the model.
If `past_key_values` is used only the last hidden-state of the sequences of shape `(batch_size, 1,
hidden_size)` is output.
last_hidden_state_ngram (`torch.FloatTensor` of shape `(batch_size,ngram * decoder_sequence_length, config.vocab_size)`, *optional*):
Sequence of predict stream hidden-states at the output of the last layer of the decoder of the model.
past_key_values (`List[torch.FloatTensor]`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
List of `torch.FloatTensor` of length `config.n_layers`, with each tensor of shape `(2, batch_size,
num_attn_heads, decoder_sequence_length, embed_size_per_head)`).
Contains pre-computed hidden-states (key and values in the attention blocks) of the decoder that can be
used (see `past_key_values` input) to speed up sequential decoding.
decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, decoder_sequence_length, hidden_size)`.
Hidden-states of main stream of the decoder at the output of each layer plus the initial embedding outputs.
decoder_ngram_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, ngram * decoder_sequence_length, hidden_size)`.
Hidden-states of the predict stream of the decoder at the output of each layer plus the initial embedding
outputs.
decoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
decoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the decoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
decoder_ngram_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
decoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the predict stream of the decoder, after the attention softmax, used to compute the
weighted average in the
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
encoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the cross-attention layer of the decoder, after the attention softmax, used to
compute the weighted average in the
encoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, encoder_sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder of the model.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, encoder_sequence_length, hidden_size)`.
Hidden-states of the encoder at the output of each layer plus the initial embedding outputs.
encoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
encoder_sequence_length, encoder_sequence_length)`.
Attentions weights of the encoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
"""
last_hidden_state: torch.FloatTensor
last_hidden_state_ngram: Optional[torch.FloatTensor] = None
past_key_values: Optional[Tuple[torch.FloatTensor]] = None
decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
decoder_ngram_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
decoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
decoder_ngram_attentions: Optional[Tuple[torch.FloatTensor]] = None
cross_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_last_hidden_state: Optional[torch.FloatTensor] = None
encoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
encoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
@property
def decoder_cross_attentions(self):
warnings.warn(
"`decoder_cross_attentions` is deprecated and will be removed soon. Please use `cross_attentions`"
" instead.",
FutureWarning,
)
return self.cross_attentions
@dataclass
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetDecoderModelOutput with ProphetNet->XLMProphetNet all-casing
class XLMProphetNetDecoderModelOutput(ModelOutput):
"""
Base class for model's outputs that may also contain a past key/values (to speed up sequential decoding).
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, decoder_sequence_length, hidden_size)`):
Sequence of main stream hidden-states at the output of the last layer of the decoder of the model.
If `past_key_values` is used only the last hidden-state of the sequences of shape `(batch_size, 1,
hidden_size)` is output.
last_hidden_state_ngram (`torch.FloatTensor` of shape `(batch_size, ngram * decoder_sequence_length, config.vocab_size)`):
Sequence of predict stream hidden-states at the output of the last layer of the decoder of the model.
past_key_values (`List[torch.FloatTensor]`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
List of `torch.FloatTensor` of length `config.n_layers`, with each tensor of shape `(2, batch_size,
num_attn_heads, decoder_sequence_length, embed_size_per_head)`).
Contains pre-computed hidden-states (key and values in the attention blocks) of the decoder that can be
used (see `past_key_values` input) to speed up sequential decoding.
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, decoder_sequence_length, hidden_size)`.
Hidden-states of main stream of the decoder at the output of each layer plus the initial embedding outputs.
ngram_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, ngram * decoder_sequence_length, hidden_size)`.
Hidden-states of the predict stream of the decoder at the output of each layer plus the initial embedding
outputs.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
decoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the decoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
ngram_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
decoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the predict stream of the decoder, after the attention softmax, used to compute the
weighted average in the
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
encoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the cross-attention layer of the decoder, after the attention softmax, used to
compute the weighted average in the
"""
last_hidden_state: torch.FloatTensor
last_hidden_state_ngram: Optional[torch.FloatTensor] = None
past_key_values: Optional[Tuple[torch.FloatTensor]] = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
hidden_states_ngram: Optional[Tuple[torch.FloatTensor]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
ngram_attentions: Optional[Tuple[torch.FloatTensor]] = None
cross_attentions: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetDecoderLMOutput with ProphetNet->XLMProphetNet all-casing
class XLMProphetNetDecoderLMOutput(ModelOutput):
"""
Base class for model's outputs that may also contain a past key/values (to speed up sequential decoding).
Args:
loss (`torch.FloatTensor` of shape `(1,)`, *optional*, returned when `labels` is provided):
Language modeling loss.
logits (`torch.FloatTensor` of shape `(batch_size, decoder_sequence_length, config.vocab_size)`):
Prediction scores of the main stream language modeling head (scores for each vocabulary token before
SoftMax).
logits_ngram (`torch.FloatTensor` of shape `(batch_size, ngram * decoder_sequence_length, config.vocab_size)`):
Prediction scores of the predict stream language modeling head (scores for each vocabulary token before
SoftMax).
past_key_values (`List[torch.FloatTensor]`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
List of `torch.FloatTensor` of length `config.n_layers`, with each tensor of shape `(2, batch_size,
num_attn_heads, decoder_sequence_length, embed_size_per_head)`).
Contains pre-computed hidden-states (key and values in the attention blocks) of the decoder that can be
used (see `past_key_values` input) to speed up sequential decoding.
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, decoder_sequence_length, hidden_size)`.
Hidden-states of main stream of the decoder at the output of each layer plus the initial embedding outputs.
ngram_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, ngram * decoder_sequence_length, hidden_size)`.
Hidden-states of the predict stream of the decoder at the output of each layer plus the initial embedding
outputs.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
decoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the decoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
ngram_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
decoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the predict stream of the decoder, after the attention softmax, used to compute the
weighted average in the
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_attn_heads,
encoder_sequence_length, decoder_sequence_length)`.
Attentions weights of the cross-attention layer of the decoder, after the attention softmax, used to
compute the weighted average in the
"""
loss: Optional[torch.FloatTensor] = None
logits: torch.FloatTensor = None
logits_ngram: Optional[torch.FloatTensor] = None
past_key_values: Optional[Tuple[torch.FloatTensor]] = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
hidden_states_ngram: Optional[Tuple[torch.FloatTensor]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
ngram_attentions: Optional[Tuple[torch.FloatTensor]] = None
cross_attentions: Optional[Tuple[torch.FloatTensor]] = None
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetPreTrainedModel with ProphetNet->XLMProphetNet
class XLMProphetNetPreTrainedModel(PreTrainedModel):
config_class = XLMProphetNetConfig
base_model_prefix = "prophetnet"
supports_gradient_checkpointing = True
def _init_weights(self, module):
if isinstance(module, nn.Linear):
module.weight.data.normal_(mean=0.0, std=self.config.init_std)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=self.config.init_std)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, (XLMProphetNetDecoder, XLMProphetNetEncoder)):
module.gradient_checkpointing = value
def _shift_right(self, input_ids):
decoder_start_token_id = self.config.decoder_start_token_id
pad_token_id = self.config.pad_token_id
assert decoder_start_token_id is not None, (
"self.model.config.decoder_start_token_id has to be defined. In XLMProphetNet it is usually set to the"
" pad_token_id. See XLMProphetNet docs for more information"
)
# shift inputs to the right
shifted_input_ids = input_ids.new_zeros(input_ids.shape)
shifted_input_ids[..., 1:] = input_ids[..., :-1].clone()
shifted_input_ids[..., 0] = decoder_start_token_id
assert pad_token_id is not None, "self.model.config.pad_token_id has to be defined."
# replace possible -100 values in labels by `pad_token_id`
shifted_input_ids.masked_fill_(shifted_input_ids == -100, pad_token_id)
assert torch.all(shifted_input_ids >= 0).item(), "Verify that `shifted_input_ids` has only positive values"
return shifted_input_ids
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetPositionalEmbeddings with ProphetNet->XLMProphetNet
class XLMProphetNetPositionalEmbeddings(nn.Embedding):
"""
This module learns positional embeddings up to a fixed maximum size. Padding ids are ignored by either offsetting
based on padding_idx or by setting padding_idx to None and ensuring that the appropriate position ids are passed to
the forward function.
"""
def __init__(self, config: XLMProphetNetConfig) -> None:
self.max_length = config.max_position_embeddings
super().__init__(config.max_position_embeddings, config.hidden_size, config.pad_token_id)
def forward(self, inputs_shape, device, attention_mask=None, past_key_values=None, position_ids=None):
assert (position_ids is None) or (
self.padding_idx is None
), "If position_ids is pre-computed then padding_idx should not be set."
if position_ids is None:
if past_key_values is not None:
# position_ids is the same for every token when decoding a single step
# Without the int() cast, it doesn't work in some cases when exporting to ONNX
prev_num_input_ids = past_key_values[0][0].shape[2]
num_input_ids = inputs_shape[1] + prev_num_input_ids
position_ids = torch.ones((1, 1), dtype=torch.long, device=device) * (
int(self.padding_idx + num_input_ids)
)
else:
if attention_mask is None:
attention_mask = torch.ones(inputs_shape, dtype=torch.long, device=device)
# retrieve position_ids from input_ids / attention_mask
position_ids = (
torch.cumsum(attention_mask, dim=1).type_as(attention_mask) * attention_mask
).long() + self.padding_idx
# make sure position_ids are not bigger then max_length
position_ids = position_ids.clamp(0, self.max_length - 1)
return super().forward(position_ids), position_ids
def _forward(self, position_ids):
return super().forward(position_ids)
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetAttention with ProphetNet->XLMProphetNet
class XLMProphetNetAttention(nn.Module):
"""Multi-headed attention from 'Attention Is All You Need' paper"""
def __init__(
self,
config: XLMProphetNetConfig,
num_attn_heads: int,
):
super().__init__()
hidden_size = config.hidden_size
self.attention_dropout = config.attention_dropout
self.dropout = config.dropout
self.num_attn_heads = num_attn_heads
self.head_dim = hidden_size // num_attn_heads
assert self.head_dim * num_attn_heads == hidden_size, (
"`config.hidden_size` must be divisible by `config.num_encoder_attention_heads` and"
" `config.num_decoder_attention_heads`"
)
self.key_proj = nn.Linear(hidden_size, hidden_size)
self.value_proj = nn.Linear(hidden_size, hidden_size)
self.query_proj = nn.Linear(hidden_size, hidden_size)
self.out_proj = nn.Linear(hidden_size, hidden_size)
def _shape(self, tensor: torch.Tensor, seq_len: int, bsz: int):
return tensor.view(bsz, seq_len, self.num_attn_heads, self.head_dim).transpose(1, 2).contiguous()
def forward(
self,
hidden_states,
key_value_states: Optional[Tensor] = None,
attention_mask: Optional[Tensor] = None,
layer_head_mask: Optional[Tensor] = None,
past_key_value: Optional[Tuple[Tensor]] = None,
output_attentions: bool = False,
) -> Tuple[Tensor, Optional[Tensor]]:
batch_size, tgt_len, hidden_size = hidden_states.size()
# if key_value_states are provided this layer is used as a cross-attention layer
# for the decoder
is_cross_attention = key_value_states is not None
assert list(hidden_states.size()) == [
batch_size,
tgt_len,
hidden_size,
], f"Size of hidden states should be {batch_size, tgt_len, hidden_size}, but is {hidden_states.size()}"
# previous time steps are cached - no need to recompute key and value if they are static
query_states = self.query_proj(hidden_states) / (self.head_dim**0.5)
if is_cross_attention and past_key_value is not None:
# reuse k,v, cross_attentions
key_states = past_key_value[0]
value_states = past_key_value[1]
elif is_cross_attention:
# cross_attentions
key_states = self._shape(self.key_proj(key_value_states), -1, batch_size)
value_states = self._shape(self.value_proj(key_value_states), -1, batch_size)
else:
# self_attention
key_states = self._shape(self.key_proj(hidden_states), -1, batch_size)
value_states = self._shape(self.value_proj(hidden_states), -1, batch_size)
if is_cross_attention:
# if cross_attention save Tuple(torch.Tensor, torch.Tensor) of all cross attention key/value_states.
# Further calls to cross_attention layer can then reuse all cross-attention
# key/value_states (first "if" case)
# if encoder bi-directional self-attention `past_key_value` is always `None`
past_key_value = (key_states, value_states)
# project states into the correct shape
proj_shape = (batch_size, self.num_attn_heads, -1, self.head_dim)
query_states = self._shape(query_states, tgt_len, batch_size).view(*proj_shape)
key_states = key_states.view(*proj_shape)
value_states = value_states.view(*proj_shape)
src_len = key_states.size(2)
attn_weights = torch.einsum("bsij,bsjk->bsik", query_states, key_states.transpose(2, 3))
expected_shape = (batch_size, self.num_attn_heads, tgt_len, src_len)
if attn_weights.size() != expected_shape:
raise ValueError(f"Attention weights should have size {expected_shape}, but is {attn_weights.size()}")
# This is part of a workaround to get around fork/join parallelism not supporting Optional types.
if attention_mask is not None and attention_mask.dim() == 0:
attention_mask = None
expected_shape = (batch_size, self.num_attn_heads, 1, src_len)
if attention_mask is not None and attention_mask.size() != expected_shape:
raise ValueError(f"Attention mask should have size {expected_shape}, but is {attention_mask.size()}")
if attention_mask is not None: # don't attend to padding symbols
attn_weights = attn_weights + attention_mask
if output_attentions:
attn_weights_reshaped = attn_weights
else:
attn_weights_reshaped = None
attn_weights = nn.functional.softmax(attn_weights, dim=-1)
if layer_head_mask is not None:
assert layer_head_mask.size() == (self.num_attn_heads,), (
f"Head mask for a single layer should be of size {(self.num_attn_heads,)}, but is"
f" {layer_head_mask.size()}"
)
attn_weights = layer_head_mask.view(1, -1, 1, 1) * attn_weights.view(
batch_size, self.num_attn_heads, tgt_len, src_len
)
# apply head_mask also on attn_weights_reshaped which is used for n-gram attention inside the model
attn_weights_reshaped = layer_head_mask.view(1, -1, 1, 1) * attn_weights_reshaped
attn_probs = nn.functional.dropout(
attn_weights,
p=self.attention_dropout,
training=self.training,
)
attn_output = torch.einsum("bsij,bsjk->bsik", attn_probs, value_states)
expected_shape = (batch_size, self.num_attn_heads, tgt_len, self.head_dim)
if attn_output.size() != expected_shape:
raise ValueError(f"`attn_output` should have shape {expected_shape}, but is of shape {attn_output.size()}")
attn_output = attn_output.transpose(1, 2).reshape(batch_size, tgt_len, hidden_size)
attn_output = self.out_proj(attn_output)
attn_output = nn.functional.dropout(attn_output, p=self.dropout, training=self.training)
return attn_output, attn_weights_reshaped, past_key_value
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetFeedForward with ProphetNet->XLMProphetNet
class XLMProphetNetFeedForward(nn.Module):
"""
This is the residual two feed-forward layer block based on the original Transformer implementation.
"""
def __init__(self, config: XLMProphetNetConfig, ffn_dim: int):
super().__init__()
self.activation_fn = ACT2FN[config.activation_function]
self.intermediate = nn.Linear(config.hidden_size, ffn_dim)
self.output = nn.Linear(ffn_dim, config.hidden_size)
self.activation_dropout = config.activation_dropout
self.dropout = config.dropout
def forward(self, hidden_states):
hidden_states = self.intermediate(hidden_states)
hidden_states = self.activation_fn(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.activation_dropout, training=self.training)
hidden_states = self.output(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
return hidden_states
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetNgramSelfAttention with ProphetNet->XLMProphetNet
class XLMProphetNetNgramSelfAttention(nn.Module):
def __init__(self, config: XLMProphetNetConfig):
super().__init__()
self.hidden_size = config.hidden_size
self.num_buckets = config.num_buckets
self.relative_max_distance = config.relative_max_distance
self.num_attn_heads = config.num_decoder_attention_heads
self.dropout = config.dropout
self.attention_dropout = config.attention_dropout
self.head_dim = config.hidden_size // self.num_attn_heads
self.ngram = config.ngram
assert (
self.head_dim * self.num_attn_heads == config.hidden_size
), "config.hidden_size must be divisible by num_attn_heads"
# key, value, query projection
self.key_proj = nn.Linear(config.hidden_size, config.hidden_size)
self.value_proj = nn.Linear(config.hidden_size, config.hidden_size)
self.query_proj = nn.Linear(config.hidden_size, config.hidden_size)
# out projection
self.out_proj = nn.Linear(config.hidden_size, config.hidden_size)
# rel position embeddings
self.relative_pos_embeddings = nn.Linear(config.hidden_size, self.num_buckets * self.num_attn_heads)
# for onnx runtime
self.onnx_trace = False
def _shape(self, tensor, seq_len, batch_size):
return tensor.view(batch_size, seq_len, self.num_attn_heads, self.head_dim).transpose(1, 2).contiguous()
def prepare_for_onnx_export_(self):
self.onnx_trace = True
def forward(
self,
hidden_states,
past_key_value: Optional[Tuple[Tensor]] = None,
attention_mask=None,
layer_head_mask=None,
extended_predict_attention_mask=None,
main_relative_position_buckets=None,
predict_relative_position_buckets=None,
position_ids=None,
):
batch_size, ngram_sequence_length, hidden_size = hidden_states.size()
assert list(hidden_states.size()) == [batch_size, ngram_sequence_length, hidden_size], (
f"`hidden_states` should be of shape {batch_size, ngram_sequence_length, hidden_size}, but is of shape"
f" {hidden_states.shape}"
)
# project
query_states = self.query_proj(hidden_states)
key_states = self.key_proj(hidden_states)
value_states = self.value_proj(hidden_states)
# normalize
query_states = query_states / (self.head_dim**0.5)
# reshape
query_states = self._shape(query_states, ngram_sequence_length, batch_size)
key_states = self._shape(key_states, -1, batch_size)
value_states = self._shape(value_states, -1, batch_size)
proj_shape = (batch_size, self.num_attn_heads, -1, self.head_dim)
query_states = query_states.view(*proj_shape)
key_states = key_states.view(*proj_shape)
value_states = value_states.view(*proj_shape)
# chunk into main stream and predict stream
hidden_states_list = hidden_states.chunk(1 + self.ngram, dim=1)
query_states_list = query_states.chunk(1 + self.ngram, dim=2)
key_states_list = key_states.chunk(1 + self.ngram, dim=2)
value_states_list = value_states.chunk(1 + self.ngram, dim=2)
main_hidden_states, hidden_states_predict_list = hidden_states_list[0], hidden_states_list[1:]
main_query_states, predict_query_states_list = query_states_list[0], query_states_list[1:]
main_key_states, predict_key_states_list = key_states_list[0], key_states_list[1:]
main_value_states, predict_value_states_list = value_states_list[0], value_states_list[1:]
# saved states are stored with shape (batch_size, num_attn_heads, seq_len, head_dim)
if past_key_value is not None:
prev_main_key_states = past_key_value[0]
main_key_states = torch.cat((prev_main_key_states, main_key_states), dim=2)
prev_main_value_states = past_key_value[1]
main_value_states = torch.cat((prev_main_value_states, main_value_states), dim=2)
# Update cache
past_key_value = (main_key_states, main_value_states)
# get seq_length of main stream only
sequence_length = ngram_sequence_length // (1 + self.ngram)
# MAIN-STREAM
# main attn weights
# [batch_size, number_heads, sequence_length, head_dimesion]
# x [batch_size, number_heads, head_dimesion, sequence_length]
# -> [batch_size, number_heads, sequence_length, sequence_length]
main_attn_weights = torch.einsum("bntc,bncs->bnts", main_query_states, main_key_states.transpose(2, 3))
# retrieve relative position embeddings for each layer -> see paper for more details
main_relative_pos_embeddings = self.get_main_relative_pos_embeddings(
main_hidden_states, main_attn_weights, position_ids, main_relative_position_buckets
)
main_attn_weights = main_attn_weights + main_relative_pos_embeddings
if attention_mask is not None:
main_attn_weights = main_attn_weights + attention_mask
main_attn_probs = softmax(
main_attn_weights,
dim=-1,
onnx_trace=self.onnx_trace,
).type_as(main_attn_weights)
if layer_head_mask is not None:
assert layer_head_mask.size() == (self.num_attn_heads,), (
f"Head mask for a single layer should be of size {(self.num_attn_heads,)}, but is"
f" {layer_head_mask.size()}"
)
main_attn_probs = layer_head_mask.view(1, -1, 1, 1) * main_attn_probs.view(
batch_size, self.num_attn_heads, -1, sequence_length
)
main_attn_probs = nn.functional.dropout(main_attn_probs, p=self.attention_dropout, training=self.training)
# project to attn_output
# [batch_size, number_heads, sequence_length, sequence_length]
# x [batch_size, number_heads, sequence_length, head_dimesion]
# -> [batch_size, number_heads, sequence_length, head_dimesion]
main_attn_output = torch.einsum("bntc,bncs->bnts", main_attn_probs, main_value_states)
# reshape so that num_heads dim is merged into last `head_dim` axis
main_attn_output = main_attn_output.transpose(1, 2).reshape(batch_size, 1, sequence_length, hidden_size)
main_attn_output = self.out_proj(main_attn_output)
# PREDICT-STREAM
# [batch_size, ngram, number_heads, sequence_length, head_dimesion]
predict_query_states = torch.stack(predict_query_states_list, 1).view(
batch_size, self.ngram, self.num_attn_heads, sequence_length, self.head_dim
)
# [batch_size, ngram, number_heads, 2*sequence_length, head_dimesion]
predict_key_states = torch.stack([torch.cat([main_key_states, key], 2) for key in predict_key_states_list], 1)
# [batch_size, sequence_length, ngram, hidden_size]
predict_hidden_states = torch.stack(hidden_states_predict_list, dim=2)
# [batch_size, number_heads, ngram, 2*sequence_length, head_dimesion]
predict_value_states = torch.cat(
[torch.cat([main_value_states, v_p], 2).unsqueeze(2) for v_p in predict_value_states_list], 2
)
# [batch_size, ngram, number_heads, sequence_length, head_dimesion]
# x [batch_size, ngram, number_heads, 2*sequence_length, head_dimesion]
# -> [batch_size, ngram, number_heads, sequence_length, 2*sequence_length]
predict_attn_weights = torch.einsum("bnhtc,bnhsc->bnhts", (predict_query_states, predict_key_states))
# retrieve relative position embeddings for each layer -> see paper for more details
# [batch_size, ngram, number_heads, sequence_length, predict_relative_pos_embeddings]
predict_relative_pos_embeddings = self.get_predict_relative_pos_embeddings(
predict_hidden_states, predict_attn_weights, position_ids, predict_relative_position_buckets
)
# [batch_size, ngram, number_heads, sequence_length, 2*sequence_length]
predict_attn_weights = predict_attn_weights + predict_relative_pos_embeddings
if extended_predict_attention_mask is not None:
# Permuting Predict attention mask to [batch_size, ngram, number_heads, sequence_length, 2*sequence_length]
extended_predict_attention_mask = extended_predict_attention_mask.permute(0, 2, 1, 3, 4)
extended_predict_attention_mask = extended_predict_attention_mask.to(predict_attn_weights.dtype)
predict_attn_weights = predict_attn_weights + extended_predict_attention_mask
predict_attn_probs = softmax(
predict_attn_weights,
dim=-1,
onnx_trace=self.onnx_trace,
).type_as(predict_attn_weights)
if layer_head_mask is not None:
assert layer_head_mask.size() == (self.num_attn_heads,), (
f"Head mask for a single layer should be of size {(self.num_attn_heads,)}, but is"
f" {layer_head_mask.size()}"
)
predict_attn_probs = layer_head_mask.view(1, 1, -1, 1, 1) * predict_attn_probs
predict_attn_probs = nn.functional.dropout(
predict_attn_probs, p=self.attention_dropout, training=self.training
)
# project to attention output
# [batch_size, ngram, number_heads, sequence_length, 2*sequence_length]
# x [batch_size, ngram, number_heads, 2*sequence_length, head_dimesion]
# -> [batch_size, ngram, number_heads, sequence_length, head_dimesion]
predict_attn_output = torch.einsum(
"bnhts,bnhsc->bnhtc", (predict_attn_probs, predict_value_states.transpose(1, 2))
)
# reshape so that num_heads dim is merged into last `head_dim` axis
# [batch_size, ngram, number_heads, sequence_length, head_dimesion] -> [batch_size, ngram, sequence_length, hidden_size]
predict_attn_output = predict_attn_output.transpose(2, 3)
predict_attn_output = predict_attn_output.reshape(batch_size, self.ngram, sequence_length, hidden_size)
predict_attn_output = self.out_proj(predict_attn_output)
# concat to single attn output
# [batch_size, (1+ngram)*sequence_length, hidden_size]
attn_output = torch.cat([main_attn_output, predict_attn_output], 1).view(batch_size, -1, hidden_size)
# reshape into better form for `config.output_attentions`
main_attn_probs = main_attn_probs.view(batch_size, self.num_attn_heads, sequence_length, -1)
attn_output = nn.functional.dropout(attn_output, p=self.dropout, training=self.training)
return attn_output, main_attn_probs, predict_attn_probs, past_key_value
def get_main_relative_pos_embeddings(
self, hidden_states, attn_weights, position_ids, main_relative_position_buckets
):
# input hidden_states [batch_size, sequence_length, hidden_size]
# input attn_weights [batch_size, num_heads, sequence_length, sequence_length]
# input position_ids [batch_size, sequence_length] or [1,1]
batch_size, num_attn_heads, tgt_len, src_len = attn_weights.shape
attn_weights = attn_weights.view(batch_size, num_attn_heads, tgt_len, src_len)
if main_relative_position_buckets is None:
batch_size, sequence_length = hidden_states.shape[:2]
relative_positions = (
torch.arange(1, attn_weights.shape[-1] + 1)
.unsqueeze(0)
.unsqueeze(0)
.repeat(batch_size, sequence_length, 1)
.to(position_ids.device)
)
# [batch_size, sequence_length, sequence_length+1]
relative_positions = relative_positions - position_ids.unsqueeze(0).repeat(batch_size, sequence_length, 1)
main_relative_position_buckets = compute_relative_buckets(
self.num_buckets, self.relative_max_distance, relative_positions, False
)
# [batch_size, sequence_length, num_buckets * num_heads]
rel_pos_embeddings = self.relative_pos_embeddings(hidden_states)
rel_pos_embeddings = rel_pos_embeddings.view(
rel_pos_embeddings.shape[:2] + (self.num_buckets, self.num_attn_heads)
)
rel_pos_embeddings = rel_pos_embeddings.permute(0, 3, 1, 2)
# [batch_size, num_heads, sequence_length, num_buckets]
rel_pos_embeddings = rel_pos_embeddings.reshape(attn_weights.shape[:3] + (-1,))
main_relative_position_buckets = main_relative_position_buckets.repeat(1, self.num_attn_heads, 1)
# [batch_size * num_heads * sequence_length, sequence_length]
main_relative_position_buckets = main_relative_position_buckets.view(
-1, main_relative_position_buckets.shape[-1]
)
main_relative_position_buckets = main_relative_position_buckets.long()
# [batch_size * num_heads * sequence_length, sequence_length]
rel_pos_embeddings = rel_pos_embeddings.reshape(-1, rel_pos_embeddings.size(-1))
main_relative_pos_embeddings = torch.gather(rel_pos_embeddings, dim=1, index=main_relative_position_buckets)
main_relative_pos_embeddings = main_relative_pos_embeddings.view(batch_size, num_attn_heads, tgt_len, -1)
return main_relative_pos_embeddings
def get_predict_relative_pos_embeddings(
self, hidden_states, attn_weights, position_ids, predict_relative_position_buckets
):
# input hidden_states [batch_size, sequence_length, ngram, hidden_size]
# input attn_weights [batch_size, ngram, num_heads, sequence_length, 2*sequence_length]
# input position_ids [batch_size, sequence_length] or [1,1]
# input predict_relative_position_buckets [batch_size, sequence_length, 2*sequence_length] or None
batch_size, sequence_length = hidden_states.shape[0:2]
if predict_relative_position_buckets is None:
key_sequence_length = attn_weights.shape[-1]
assert (
position_ids[0][0] == key_sequence_length - 1
), "`position_ids` are incorrect. They should be of the format 1 2 3 4 5 ... (key_sequence_length - 1)"
relative_positions = (
torch.arange(0, key_sequence_length)
.unsqueeze(0)
.unsqueeze(0)
.repeat(batch_size, sequence_length, 1)
.to(position_ids.device)
)
relative_positions = relative_positions - position_ids.unsqueeze(0).repeat(batch_size, sequence_length, 1)
predict_relative_position_buckets = compute_relative_buckets(
self.num_buckets, self.relative_max_distance, relative_positions, False
)
# [batch_size, ngram, sequence_length, hidden_size]
hidden_states = hidden_states.transpose(1, 2)
rel_pos_embeddings = self.relative_pos_embeddings(hidden_states)
# [batch_size, ngram, sequence_length, num_buckets, num_heads]
rel_pos_embeddings = rel_pos_embeddings.view(
hidden_states.shape[:-1] + (self.num_buckets, self.num_attn_heads)
)
rel_pos_embeddings = rel_pos_embeddings.permute(0, 2, 1, 4, 3)
# [batch_size * ngram * sequence_length * num_heads, num_buckets]
rel_pos_embeddings = rel_pos_embeddings.reshape(-1, self.num_buckets)
# [ngram, batch_size, num_heads * sequence_length, -1]
predict_relative_position_buckets = predict_relative_position_buckets.unsqueeze(0)
predict_relative_position_buckets = predict_relative_position_buckets.repeat(
self.ngram, 1, self.num_attn_heads, 1
)
# [ngram * batch_size * num_heads * sequence_length, -1]
predict_relative_position_buckets = predict_relative_position_buckets.view(
-1, predict_relative_position_buckets.size(-1)
).long()
predict_relative_pos_embeddings = torch.gather(
rel_pos_embeddings, dim=1, index=predict_relative_position_buckets
)
# [batch_size, gram, num_heads, sequence_length, -1]
predict_relative_pos_embeddings = predict_relative_pos_embeddings.view(
batch_size, self.ngram, self.num_attn_heads, sequence_length, -1
)
return predict_relative_pos_embeddings
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetEncoderLayer with ProphetNet->XLMProphetNet, Prophetnet->XLMProphetnet
class XLMProphetNetEncoderLayer(nn.Module):
"""
Encoder block for XLMProphetnet
"""
def __init__(self, config: XLMProphetNetConfig):
super().__init__()
# 1st residual block
self.self_attn = XLMProphetNetAttention(config, config.num_encoder_attention_heads)
self.self_attn_layer_norm = LayerNorm(config.hidden_size)
# 2nd residual block
self.feed_forward = XLMProphetNetFeedForward(config, config.encoder_ffn_dim)
self.feed_forward_layer_norm = LayerNorm(config.hidden_size)
def forward(
self,
hidden_states,
attention_mask,
layer_head_mask,
output_attentions: bool = False,
):
# 1st residual block
attention_output, attn_weights, _ = self.self_attn(
hidden_states=hidden_states,
attention_mask=attention_mask,
layer_head_mask=layer_head_mask,
output_attentions=output_attentions,
)
hidden_states = self.self_attn_layer_norm(attention_output + hidden_states)
# 2nd residual block
feed_forward_output = self.feed_forward(hidden_states)
hidden_states = self.feed_forward_layer_norm(feed_forward_output + hidden_states)
outputs = (hidden_states,)
if output_attentions:
outputs += (attn_weights,)
return outputs
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetDecoderLayer with Prophetnet->XLMProphetnet, ProphetNet->XLMProphetNet
class XLMProphetNetDecoderLayer(nn.Module):
"""
Decoder block for XLMProphetnet
"""
def __init__(self, config: XLMProphetNetConfig):
super().__init__()
# 1st residual block
self.self_attn = XLMProphetNetNgramSelfAttention(config)
self.self_attn_layer_norm = LayerNorm(config.hidden_size)
# 2nd residual block
if config.add_cross_attention:
self.cross_attn = XLMProphetNetAttention(config, config.num_decoder_attention_heads)
self.cross_attn_layer_norm = LayerNorm(config.hidden_size)
# 3rd residual block
self.feed_forward = XLMProphetNetFeedForward(config, config.decoder_ffn_dim)
self.feed_forward_layer_norm = LayerNorm(config.hidden_size)
def forward(
self,
hidden_states,
attention_mask=None,
encoder_hidden_states=None,
encoder_attn_mask=None,
layer_head_mask=None,
cross_attn_layer_head_mask=None,
extended_predict_attention_mask=None,
main_relative_position_buckets=None,
predict_relative_position_buckets=None,
position_ids=None,
past_key_value=None,
use_cache: bool = True,
output_attentions: bool = False,
):
# 1st residual block
# decoder uni-directional self-attention cached key/values tuple is at positions 1,2
self_attn_past_key_value = past_key_value[:2] if past_key_value is not None else None
ngram_attention_output, self_attn_weights, self_attn_weights_ngram, present_key_value = self.self_attn(
hidden_states=hidden_states,
past_key_value=self_attn_past_key_value,
attention_mask=attention_mask,
layer_head_mask=layer_head_mask,
extended_predict_attention_mask=extended_predict_attention_mask,
main_relative_position_buckets=main_relative_position_buckets,
predict_relative_position_buckets=predict_relative_position_buckets,
position_ids=position_ids,
)
hidden_states = self.self_attn_layer_norm(hidden_states + ngram_attention_output)
# cross_attn cached key/values tuple is at positions 3,4 of present_key_value tuple
cross_attn_past_key_value = past_key_value[-2:] if past_key_value is not None else None
cross_attn_weights = None
if encoder_hidden_states is not None:
# 2nd residual block
attention_output, cross_attn_weights, cross_attn_present_key_value = self.cross_attn(
hidden_states=hidden_states,
key_value_states=encoder_hidden_states,
attention_mask=encoder_attn_mask,
layer_head_mask=cross_attn_layer_head_mask,
past_key_value=cross_attn_past_key_value,
output_attentions=output_attentions,
)
hidden_states = self.cross_attn_layer_norm(attention_output + hidden_states)
# add cross-attn to positions 3,4 of present_key_value tuple
present_key_value = present_key_value + cross_attn_present_key_value
# 3rd residual block
feed_forward_output = self.feed_forward(hidden_states)
hidden_states = self.feed_forward_layer_norm(feed_forward_output + hidden_states)
outputs = (hidden_states,)
if output_attentions:
outputs += (self_attn_weights, self_attn_weights_ngram, cross_attn_weights)
if use_cache:
outputs += (present_key_value,)
return outputs
@add_start_docstrings(
"The standalone encoder part of the XLMProphetNetModel.",
XLM_PROPHETNET_START_DOCSTRING,
)
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetEncoder with microsoft/prophetnet-large-uncased->patrickvonplaten/xprophetnet-large-uncased-standalone, ProphetNet->XLMProphetNet, PROPHETNET->XLM_PROPHETNET
class XLMProphetNetEncoder(XLMProphetNetPreTrainedModel):
r"""
word_embeddings (`torch.nn.Embeddings` of shape `(config.vocab_size, config.hidden_size)`, *optional*):
The word embedding parameters. This can be used to initialize [`XLMProphetNetEncoder`] with pre-defined word
embeddings instead of randomly initialized word embeddings.
"""
def __init__(self, config: XLMProphetNetConfig, word_embeddings: nn.Embedding = None):
super().__init__(config)
self.word_embeddings = (
word_embeddings
if word_embeddings is not None
else nn.Embedding(config.vocab_size, config.hidden_size, padding_idx=config.pad_token_id)
)
self.position_embeddings = XLMProphetNetPositionalEmbeddings(config)
self.embeddings_layer_norm = LayerNorm(config.hidden_size)
self.layers = nn.ModuleList([XLMProphetNetEncoderLayer(config) for _ in range(config.num_encoder_layers)])
self.gradient_checkpointing = False
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.word_embeddings
def set_input_embeddings(self, value):
self.word_embeddings = value
@add_start_docstrings_to_model_forward(XLM_PROPHETNET_STANDALONE_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=BaseModelOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.Tensor] = None,
attention_mask: Optional[torch.Tensor] = None,
head_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.Tensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, BaseModelOutput]:
r"""
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, XLMProphetNetEncoder
>>> import torch
>>> tokenizer = AutoTokenizer.from_pretrained("patrickvonplaten/xprophetnet-large-uncased-standalone")
>>> model = XLMProphetNetEncoder.from_pretrained("patrickvonplaten/prophetnet-large-uncased-standalone")
>>> inputs = tokenizer("Hello, my dog is cute", return_tensors="pt")
>>> outputs = model(**inputs)
>>> last_hidden_states = outputs.last_hidden_state
```"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if input_ids is None and inputs_embeds is None:
raise ValueError("Either input_ids or inputs_embeds has to be passed.")
elif input_ids is not None and inputs_embeds is not None:
raise ValueError("Make sure to only pass input_ids or inputs_embeds.")
elif input_ids is not None and inputs_embeds is None:
inputs_embeds = self.word_embeddings(input_ids)
# prepare attention mask
if attention_mask is not None:
extended_attention_mask = (
1.0 - attention_mask[:, None, None, :].repeat(1, self.config.num_encoder_attention_heads, 1, 1)
) * torch.finfo(self.dtype).min
extended_attention_mask = extended_attention_mask.to(inputs_embeds.dtype)
else:
extended_attention_mask = None
position_embeddings, position_ids = self.position_embeddings(inputs_embeds.shape[:2], inputs_embeds.device)
hidden_states = inputs_embeds + position_embeddings
hidden_states = self.embeddings_layer_norm(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.config.dropout, training=self.training)
encoder_hidden_states = () if output_hidden_states else None
all_attentions = () if output_attentions else None
# check if head_mask has a correct number of layers specified if desired
if head_mask is not None:
assert head_mask.size()[0] == (
len(self.layers)
), f"The head_mask should be specified for {len(self.layers)} layers, but it is for {head_mask.size()[0]}."
for idx, encoder_layer in enumerate(self.layers):
if output_hidden_states:
encoder_hidden_states = encoder_hidden_states + (hidden_states,)
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(encoder_layer),
hidden_states,
extended_attention_mask,
(head_mask[idx] if head_mask is not None else None),
)
else:
layer_outputs = encoder_layer(
hidden_states,
attention_mask=extended_attention_mask,
layer_head_mask=(head_mask[idx] if head_mask is not None else None),
output_attentions=output_attentions,
)
hidden_states = layer_outputs[0]
if output_attentions:
all_attentions = all_attentions + (layer_outputs[1],)
if output_hidden_states:
encoder_hidden_states = encoder_hidden_states + (hidden_states,)
if not return_dict:
return tuple(v for v in [hidden_states, encoder_hidden_states, all_attentions] if v is not None)
return BaseModelOutput(
last_hidden_state=hidden_states, hidden_states=encoder_hidden_states, attentions=all_attentions
)
@add_start_docstrings(
"The standalone decoder part of the XLMProphetNetModel.",
XLM_PROPHETNET_START_DOCSTRING,
)
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetDecoder with microsoft/prophetnet-large-uncased->patrickvonplaten/xprophetnet-large-uncased-standalone, ProphetNet->XLMProphetNet, PROPHETNET->XLM_PROPHETNET,
class XLMProphetNetDecoder(XLMProphetNetPreTrainedModel):
r"""
word_embeddings (`torch.nn.Embeddings` of shape `(config.vocab_size, config.hidden_size)`, *optional*):
The word embedding parameters. This can be used to initialize [`XLMProphetNetEncoder`] with pre-defined word
embeddings instead of randomly initialized word embeddings.
"""
def __init__(self, config: XLMProphetNetConfig, word_embeddings: Optional[nn.Embedding] = None):
super().__init__(config)
self.ngram = config.ngram
self.num_buckets = config.num_buckets
self.relative_max_distance = config.relative_max_distance
self.dropout = config.dropout
self.max_target_positions = config.max_position_embeddings
self.word_embeddings = (
word_embeddings
if word_embeddings is not None
else nn.Embedding(config.vocab_size, config.hidden_size, padding_idx=config.pad_token_id)
)
self.position_embeddings = XLMProphetNetPositionalEmbeddings(config)
self.ngram_embeddings = nn.Embedding(self.ngram, config.hidden_size, None)
self.layers = nn.ModuleList([XLMProphetNetDecoderLayer(config) for _ in range(config.num_decoder_layers)])
self.embeddings_layer_norm = LayerNorm(config.hidden_size)
self.gradient_checkpointing = False
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.word_embeddings
def set_input_embeddings(self, value):
self.word_embeddings = value
@add_start_docstrings_to_model_forward(XLM_PROPHETNET_STANDALONE_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=XLMProphetNetDecoderModelOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.Tensor] = None,
attention_mask: Optional[torch.Tensor] = None,
encoder_hidden_states: Optional[torch.Tensor] = None,
encoder_attention_mask: Optional[torch.Tensor] = None,
head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.Tensor]]] = None,
inputs_embeds: Optional[torch.Tensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, XLMProphetNetDecoderModelOutput]:
r"""
encoder_hidden_states (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention if
the model is configured as a decoder.
encoder_attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on the padding token indices of the encoder input. This mask is used in
the cross-attention if the model is configured as a decoder. Mask values selected in `[0, 1]`:
cross_attn_head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the cross-attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
past_key_values (`tuple(tuple(torch.FloatTensor))` of length `config.n_layers` with each tuple having 4 tensors of shape `(batch_size, num_heads, sequence_length - 1, embed_size_per_head)`):
Contains precomputed key and value hidden-states of the attention blocks. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, XLMProphetNetDecoder
>>> import torch
>>> tokenizer = AutoTokenizer.from_pretrained("patrickvonplaten/xprophetnet-large-uncased-standalone")
>>> model = XLMProphetNetDecoder.from_pretrained(
... "patrickvonplaten/xprophetnet-large-uncased-standalone", add_cross_attention=False
... )
>>> inputs = tokenizer("Hello, my dog is cute", return_tensors="pt")
>>> outputs = model(**inputs)
>>> last_hidden_states = outputs.last_hidden_state
```"""
use_cache = use_cache if use_cache is not None else self.config.use_cache
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if input_ids is None and inputs_embeds is None:
raise ValueError("Either `decoder_input_ids` or `decoder_inputs_embeds` has to be passed.")
elif input_ids is not None and inputs_embeds is not None:
raise ValueError("Make sure to only pass `decoder_input_ids` or `decoder_inputs_embeds`.")
elif input_ids is not None and inputs_embeds is None:
inputs_embeds = self.word_embeddings(input_ids)
batch_size, sequence_length = inputs_embeds.shape[:2]
main_stream_pos_embed, position_ids = self.position_embeddings(
(batch_size, sequence_length),
device=inputs_embeds.device,
past_key_values=past_key_values,
)
if past_key_values is not None:
main_relative_position_buckets, predict_relative_position_buckets = None, None
else:
(
main_relative_position_buckets,
predict_relative_position_buckets,
) = self.compute_buffered_relative_buckets(position_ids)
predicting_stream_pos_embed = self.position_embeddings._forward(position_ids + 1)
# add position embeddings
hidden_states = inputs_embeds + main_stream_pos_embed
ngram_embeddings = self.ngram_embeddings.weight
# prepare attention mask
if past_key_values is not None:
assert (
hidden_states.size(1) == 1
), "At the moment `use_cache` is only supported for `decoder_input_ids` of length 1"
ngram_hidden_states = [
(ngram_embeddings[ngram - 1] + predicting_stream_pos_embed).repeat(batch_size, 1, 1)
for ngram in range(self.ngram)
]
extended_attention_mask = None
extended_predict_attention_mask = None
else:
ngram_hidden_states = [
(ngram_embeddings[ngram - 1] + predicting_stream_pos_embed) for ngram in range(self.ngram)
]
extended_attention_mask = self.prepare_attention_mask(hidden_states, attention_mask)
extended_predict_attention_mask = self.prepare_predict_attention_mask(hidden_states, attention_mask)
# prepare encoder attention mask
if encoder_attention_mask is not None:
extended_encoder_attention_mask = (
1.0 - encoder_attention_mask[:, None, None, :].repeat(1, self.config.num_decoder_attention_heads, 1, 1)
) * torch.finfo(self.dtype).min
extended_encoder_attention_mask = extended_encoder_attention_mask.to(inputs_embeds.dtype)
else:
extended_encoder_attention_mask = None
hidden_states = torch.cat([hidden_states] + ngram_hidden_states, 1)
if self.embeddings_layer_norm:
hidden_states = self.embeddings_layer_norm(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
# init attentions, hidden_states and cache with empty tuples
all_main_stream_hidden_states = () if output_hidden_states else None
all_ngram_stream_hidden_states = () if output_hidden_states and self.config.ngram > 0 else None
all_main_stream_attns = () if output_attentions else None
all_ngram_stream_attns = () if output_attentions else None
all_cross_attns = () if output_attentions and self.config.add_cross_attention else None
if self.gradient_checkpointing and self.training:
if use_cache:
logger.warning_once(
"`use_cache=True` is incompatible with gradient checkpointing. Setting `use_cache=False`..."
)
use_cache = False
present_key_values = () if use_cache else None
# check if head_mask/cross_attn_head_mask has a correct number of layers specified if desired
for attn_mask, mask_name in zip([head_mask, cross_attn_head_mask], ["head_mask", "cross_attn_head_mask"]):
if attn_mask is not None:
assert attn_mask.size()[0] == (len(self.layers)), (
f"The `{mask_name}` should be specified for {len(self.layers)} layers, but it is for"
f" {head_mask.size()[0]}."
)
for idx, decoder_layer in enumerate(self.layers):
if output_hidden_states:
# grad cannot be kept because tensor is sliced
all_main_stream_hidden_states += (hidden_states[:, :sequence_length],)
if self.config.ngram > 0:
all_ngram_stream_hidden_states += (hidden_states[:, sequence_length:],)
past_key_value = past_key_values[idx] if past_key_values is not None else None
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
# None for past_key_value
return module(*inputs, use_cache, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(decoder_layer),
hidden_states,
extended_attention_mask,
encoder_hidden_states,
extended_encoder_attention_mask,
(head_mask[idx] if head_mask is not None else None),
(cross_attn_head_mask[idx] if cross_attn_head_mask is not None else None),
extended_predict_attention_mask,
main_relative_position_buckets,
predict_relative_position_buckets,
position_ids,
None,
)
else:
layer_outputs = decoder_layer(
hidden_states,
attention_mask=extended_attention_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attn_mask=extended_encoder_attention_mask,
layer_head_mask=(head_mask[idx] if head_mask is not None else None),
cross_attn_layer_head_mask=(
cross_attn_head_mask[idx] if cross_attn_head_mask is not None else None
),
extended_predict_attention_mask=extended_predict_attention_mask,
main_relative_position_buckets=main_relative_position_buckets,
predict_relative_position_buckets=predict_relative_position_buckets,
position_ids=position_ids,
past_key_value=past_key_value,
use_cache=use_cache,
output_attentions=output_attentions,
)
hidden_states = layer_outputs[0]
if use_cache:
present_key_values += (layer_outputs[4 if output_attentions else 1],)
if output_attentions:
all_main_stream_attns += (layer_outputs[1],)
all_ngram_stream_attns += (layer_outputs[2],)
if self.config.add_cross_attention:
all_cross_attns += (layer_outputs[3],)
if output_hidden_states:
all_main_stream_hidden_states += (hidden_states[:, :sequence_length],)
if self.config.ngram > 0:
all_ngram_stream_hidden_states += (hidden_states[:, sequence_length:],)
# split last_hidden_state for return
last_hidden_state = hidden_states[:, :sequence_length]
last_hidden_state_ngram = hidden_states[:, sequence_length:] if self.config.ngram > 0 else None
if not return_dict:
return tuple(
v
for v in [
last_hidden_state,
last_hidden_state_ngram,
present_key_values,
all_main_stream_hidden_states,
all_ngram_stream_hidden_states,
all_main_stream_attns,
all_ngram_stream_attns,
all_cross_attns,
]
if v is not None
)
return XLMProphetNetDecoderModelOutput(
last_hidden_state=last_hidden_state,
last_hidden_state_ngram=last_hidden_state_ngram,
past_key_values=present_key_values,
hidden_states=all_main_stream_hidden_states,
hidden_states_ngram=all_ngram_stream_hidden_states,
attentions=all_main_stream_attns,
ngram_attentions=all_ngram_stream_attns,
cross_attentions=all_cross_attns,
)
def compute_buffered_relative_buckets(self, position_ids):
batch_size, sequence_length = position_ids.shape
position_ids = torch.arange(1, self.max_target_positions).to(position_ids.device).repeat(1, 1)
main_relative_buckets, predict_relative_buckets = compute_all_stream_relative_buckets(
self.num_buckets, self.relative_max_distance, position_ids
)
# buffer relative buckets
main_relative_buckets = main_relative_buckets[:, :sequence_length, :sequence_length].repeat(batch_size, 1, 1)
predict_relative_buckets = torch.cat(
[
predict_relative_buckets[:, :sequence_length, :sequence_length],
predict_relative_buckets[
:, :sequence_length, self.max_target_positions : self.max_target_positions + sequence_length
],
],
2,
).repeat(batch_size, 1, 1)
return main_relative_buckets, predict_relative_buckets
def prepare_attention_mask(self, hidden_states, attention_mask):
batch_size, seq_length = hidden_states.shape[:2]
# get causal mask
causal_mask = torch.full(
(seq_length, seq_length),
torch.finfo(hidden_states.dtype).min,
dtype=hidden_states.dtype,
device=hidden_states.device,
)
causal_mask = torch.triu(causal_mask, 1)
extended_causal_mask = causal_mask[:seq_length, :seq_length][None, None, :, :].expand(
(batch_size, self.config.num_decoder_attention_heads) + causal_mask.shape
)
# add usual attention mask
if attention_mask is not None:
extended_attention_mask = (1.0 - attention_mask[:, None, None, :]) * torch.finfo(self.dtype).min
extended_attention_mask = extended_causal_mask + extended_attention_mask
else:
extended_attention_mask = extended_causal_mask
return extended_attention_mask.to(hidden_states.dtype)
def prepare_predict_attention_mask(self, hidden_states, attention_mask):
batch_size, seq_length = hidden_states.shape[:2]
# get causal mask
predict_causal_mask = ngram_attention_bias(
self.max_target_positions, self.ngram, hidden_states.device, hidden_states.dtype
)
predict_causal_mask = torch.cat(
[
predict_causal_mask[:, :seq_length, :seq_length],
predict_causal_mask[
:, :seq_length, self.max_target_positions : self.max_target_positions + seq_length
],
],
dim=-1,
)
extended_predict_causal_mask = predict_causal_mask[None, None, :, :, :].expand(
(batch_size, self.config.num_decoder_attention_heads) + predict_causal_mask.shape
)
# add usual attention mask
if attention_mask is not None:
extended_attention_mask = (1.0 - attention_mask[:, None, None, None, :]) * torch.finfo(self.dtype).min
extended_attention_mask = extended_attention_mask.expand(
(batch_size, self.config.num_decoder_attention_heads, self.ngram, seq_length, seq_length)
)
# predicted stream attention_mask should always be 0
extended_attention_mask = torch.cat(
[extended_attention_mask, torch.zeros_like(extended_attention_mask)], dim=-1
)
extended_predict_attention_mask = extended_predict_causal_mask + extended_attention_mask
else:
extended_predict_attention_mask = extended_predict_causal_mask
return extended_predict_attention_mask.to(hidden_states.dtype)
@add_start_docstrings(
"The bare XLMProphetNet Model outputting raw hidden-states without any specific head on top.",
XLM_PROPHETNET_START_DOCSTRING,
)
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetModel with microsoft/prophetnet-large-uncased->patrickvonplaten/xprophetnet-large-uncased-standalone, ProphetNet->XLMProphetNet, PROPHETNET->XLM_PROPHETNET
class XLMProphetNetModel(XLMProphetNetPreTrainedModel):
_tied_weights_keys = ["encoder.word_embeddings.weight", "decoder.word_embeddings.weight"]
def __init__(self, config: XLMProphetNetConfig):
super().__init__(config)
self.word_embeddings = nn.Embedding(config.vocab_size, config.hidden_size, padding_idx=config.pad_token_id)
encoder_config = copy.deepcopy(config)
encoder_config.is_encoder_decoder = False
encoder_config.use_cache = False
self.encoder = XLMProphetNetEncoder(encoder_config, self.word_embeddings)
decoder_config = copy.deepcopy(config)
decoder_config.is_decoder = True
decoder_config.is_encoder_decoder = False
self.decoder = XLMProphetNetDecoder(decoder_config, self.word_embeddings)
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.word_embeddings
def set_input_embeddings(self, value):
self.word_embeddings = value
self.encoder.word_embeddings = self.word_embeddings
self.decoder.word_embeddings = self.word_embeddings
def get_encoder(self):
return self.encoder
def get_decoder(self):
return self.decoder
@add_start_docstrings_to_model_forward(XLM_PROPHETNET_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=XLMProphetNetSeq2SeqModelOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.Tensor] = None,
attention_mask: Optional[torch.Tensor] = None,
decoder_input_ids: Optional[torch.Tensor] = None,
decoder_attention_mask: Optional[torch.BoolTensor] = None,
head_mask: Optional[torch.Tensor] = None,
decoder_head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[Tuple] = None,
past_key_values: Optional[Tuple[Tuple[torch.Tensor]]] = None,
inputs_embeds: Optional[torch.Tensor] = None,
decoder_inputs_embeds: Optional[torch.Tensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, XLMProphetNetSeq2SeqModelOutput]:
r"""
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, XLMProphetNetModel
>>> tokenizer = AutoTokenizer.from_pretrained("patrickvonplaten/xprophetnet-large-uncased-standalone")
>>> model = XLMProphetNetModel.from_pretrained("patrickvonplaten/xprophetnet-large-uncased-standalone")
>>> input_ids = tokenizer(
... "Studies have been shown that owning a dog is good for you", return_tensors="pt"
... ).input_ids # Batch size 1
>>> decoder_input_ids = tokenizer("Studies show that", return_tensors="pt").input_ids # Batch size 1
>>> outputs = model(input_ids=input_ids, decoder_input_ids=decoder_input_ids)
>>> last_hidden_states = outputs.last_hidden_state # main stream hidden states
>>> last_hidden_states_ngram = outputs.last_hidden_state_ngram # predict hidden states
```"""
use_cache = use_cache if use_cache is not None else self.config.use_cache
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if encoder_outputs is None:
encoder_outputs = self.encoder(
input_ids=input_ids,
attention_mask=attention_mask,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
# decoder outputs consists of (dec_features, past_key_values, dec_hidden, dec_attn)
decoder_outputs = self.decoder(
input_ids=decoder_input_ids,
attention_mask=decoder_attention_mask,
encoder_hidden_states=encoder_outputs[0],
encoder_attention_mask=attention_mask,
head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
past_key_values=past_key_values,
inputs_embeds=decoder_inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
use_cache=use_cache,
return_dict=return_dict,
)
if not return_dict:
return decoder_outputs + encoder_outputs
return XLMProphetNetSeq2SeqModelOutput(
last_hidden_state=decoder_outputs.last_hidden_state,
last_hidden_state_ngram=decoder_outputs.last_hidden_state_ngram,
past_key_values=decoder_outputs.past_key_values,
decoder_hidden_states=decoder_outputs.hidden_states,
decoder_ngram_hidden_states=decoder_outputs.hidden_states_ngram,
decoder_attentions=decoder_outputs.attentions,
decoder_ngram_attentions=decoder_outputs.ngram_attentions,
cross_attentions=decoder_outputs.cross_attentions,
encoder_last_hidden_state=encoder_outputs.last_hidden_state,
encoder_hidden_states=encoder_outputs.hidden_states,
encoder_attentions=encoder_outputs.attentions,
)
@add_start_docstrings(
"The XLMProphetNet Model with a language modeling head. Can be used for sequence generation tasks.",
XLM_PROPHETNET_START_DOCSTRING,
)
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetForConditionalGeneration with microsoft/prophetnet-large-uncased->patrickvonplaten/xprophetnet-large-uncased-standalone, ProphetNet->XLMProphetNet, PROPHETNET->XLM_PROPHETNET
class XLMProphetNetForConditionalGeneration(XLMProphetNetPreTrainedModel):
_tied_weights_keys = ["encoder.word_embeddings.weight", "decoder.word_embeddings.weight", "lm_head.weight"]
def __init__(self, config: XLMProphetNetConfig):
super().__init__(config)
self.prophetnet = XLMProphetNetModel(config)
self.padding_idx = config.pad_token_id
self.disable_ngram_loss = config.disable_ngram_loss
self.lm_head = nn.Linear(config.hidden_size, config.vocab_size, bias=False)
# Initialize weights and apply final processing
self.post_init()
def get_output_embeddings(self):
return self.lm_head
def set_output_embeddings(self, new_embeddings):
self.lm_head = new_embeddings
def get_input_embeddings(self):
return self.prophetnet.word_embeddings
@add_start_docstrings_to_model_forward(XLM_PROPHETNET_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=XLMProphetNetSeq2SeqLMOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.Tensor] = None,
attention_mask: Optional[torch.Tensor] = None,
decoder_input_ids: Optional[torch.Tensor] = None,
decoder_attention_mask: Optional[torch.BoolTensor] = None,
head_mask: Optional[torch.Tensor] = None,
decoder_head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[torch.Tensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.Tensor]]] = None,
inputs_embeds: Optional[torch.Tensor] = None,
decoder_inputs_embeds: Optional[torch.Tensor] = None,
labels: Optional[torch.Tensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, XLMProphetNetSeq2SeqLMOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for computing the sequence classification/regression loss. Indices should be in `[-100, 0, ...,
config.vocab_size - 1]`. All labels set to `-100` are ignored (masked), the loss is only computed for
labels in `[0, ..., config.vocab_size]`
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, XLMProphetNetForConditionalGeneration
>>> tokenizer = AutoTokenizer.from_pretrained("patrickvonplaten/xprophetnet-large-uncased-standalone")
>>> model = XLMProphetNetForConditionalGeneration.from_pretrained(
... "patrickvonplaten/xprophetnet-large-uncased-standalone"
... )
>>> input_ids = tokenizer(
... "Studies have been shown that owning a dog is good for you", return_tensors="pt"
... ).input_ids # Batch size 1
>>> decoder_input_ids = tokenizer("Studies show that", return_tensors="pt").input_ids # Batch size 1
>>> outputs = model(input_ids=input_ids, decoder_input_ids=decoder_input_ids)
>>> logits_next_token = outputs.logits # logits to predict next token as usual
>>> logits_ngram_next_tokens = outputs.logits_ngram # logits to predict 2nd, 3rd, ... next tokens
```"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if labels is not None and decoder_input_ids is None and decoder_inputs_embeds is None:
# get decoder inputs from shifting lm labels to the right
decoder_input_ids = self._shift_right(labels)
outputs = self.prophetnet(
input_ids=input_ids,
attention_mask=attention_mask,
decoder_input_ids=decoder_input_ids,
decoder_attention_mask=decoder_attention_mask,
head_mask=head_mask,
decoder_head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
encoder_outputs=encoder_outputs,
past_key_values=past_key_values,
inputs_embeds=inputs_embeds,
decoder_inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
batch_size, sequence_length = (
decoder_input_ids.shape if decoder_input_ids is not None else decoder_inputs_embeds.shape[:2]
)
predicting_streams = outputs[1].view(batch_size, self.config.ngram, sequence_length, -1)
predict_logits = self.lm_head(predicting_streams)
logits = predict_logits[:, 0]
logits_ngram = predict_logits[:, 1:] if self.config.ngram > 1 else None
# To use .view in loss computation, make sure that logits is contiguous.
if not logits.is_contiguous():
logits = logits.contiguous()
loss = None
if labels is not None:
loss = self._compute_loss(predict_logits, labels)
if not return_dict:
all_logits = tuple(v for v in [logits, logits_ngram] if v is not None)
return (loss,) + all_logits + outputs[2:] if loss is not None else all_logits + outputs[2:]
else:
return XLMProphetNetSeq2SeqLMOutput(
loss=loss,
logits=logits,
logits_ngram=logits_ngram,
past_key_values=outputs.past_key_values,
decoder_hidden_states=outputs.decoder_hidden_states,
decoder_ngram_hidden_states=outputs.decoder_ngram_hidden_states,
decoder_attentions=outputs.decoder_attentions,
decoder_ngram_attentions=outputs.decoder_ngram_attentions,
cross_attentions=outputs.cross_attentions,
encoder_last_hidden_state=outputs.encoder_last_hidden_state,
encoder_hidden_states=outputs.encoder_hidden_states,
encoder_attentions=outputs.encoder_attentions,
)
def _compute_loss(self, logits, labels, ignore_index=-100):
expend_targets = labels.new_zeros(self.config.ngram, labels.size(0), labels.size(1)).fill_(ignore_index)
for i in range(self.config.ngram):
if i > 0 and self.disable_ngram_loss:
break
expend_targets[i, :, :] = labels
logits = logits.transpose(0, 1).contiguous()
lprobs = nn.functional.log_softmax(
logits.view(-1, logits.size(-1)),
dim=-1,
dtype=torch.float32,
)
loss = nn.functional.nll_loss(lprobs, expend_targets.view(-1), reduction="mean")
if self.config.eps > 0.0:
smooth_loss = -lprobs.sum(dim=-1, keepdim=True)
non_masked_tokens = expend_targets.ne(ignore_index).view(-1)
smooth_loss = smooth_loss[non_masked_tokens]
smooth_loss = smooth_loss.mean()
eps_i = self.config.eps / lprobs.size(-1)
loss = (1.0 - self.config.eps) * loss + eps_i * smooth_loss
return loss
def prepare_inputs_for_generation(
self,
decoder_input_ids,
past_key_values=None,
attention_mask=None,
head_mask=None,
decoder_head_mask=None,
cross_attn_head_mask=None,
use_cache=None,
encoder_outputs=None,
**kwargs,
):
assert encoder_outputs is not None, "`encoder_outputs` have to be passed for generation."
if past_key_values:
decoder_input_ids = decoder_input_ids[:, -1:]
# first step, decoder_cached_states are empty
return {
"input_ids": None, # encoder_outputs is defined. input_ids not needed
"encoder_outputs": encoder_outputs,
"past_key_values": past_key_values,
"decoder_input_ids": decoder_input_ids,
"attention_mask": attention_mask,
"head_mask": head_mask,
"decoder_head_mask": decoder_head_mask,
"cross_attn_head_mask": cross_attn_head_mask,
"use_cache": use_cache,
}
def prepare_decoder_input_ids_from_labels(self, labels: torch.Tensor):
return self._shift_right(labels)
@staticmethod
# Copied from transformers.models.bart.modeling_bart.BartForConditionalGeneration._reorder_cache
def _reorder_cache(past_key_values, beam_idx):
reordered_past = ()
for layer_past in past_key_values:
# cached cross_attention states don't have to be reordered -> they are always the same
reordered_past += (
tuple(past_state.index_select(0, beam_idx) for past_state in layer_past[:2]) + layer_past[2:],
)
return reordered_past
def get_encoder(self):
return self.prophetnet.encoder
def get_decoder(self):
return self.prophetnet.decoder
@add_start_docstrings(
"The standalone decoder part of the XLMProphetNetModel with a lm head on top. The model can be used for causal"
" language modeling.",
XLM_PROPHETNET_START_DOCSTRING,
)
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetForCausalLM with microsoft/prophetnet-large-uncased->patrickvonplaten/xprophetnet-large-uncased-standalone, ProphetNet->XLMProphetNet, PROPHETNET->XLM_PROPHETNET
class XLMProphetNetForCausalLM(XLMProphetNetPreTrainedModel):
_tied_weights_keys = ["lm_head.weight"]
def __init__(self, config: XLMProphetNetConfig):
# set config for CLM
config = copy.deepcopy(config)
config.is_decoder = True
config.is_encoder_decoder = False
super().__init__(config)
self.prophetnet = XLMProphetNetDecoderWrapper(config)
self.padding_idx = config.pad_token_id
self.disable_ngram_loss = config.disable_ngram_loss
self.lm_head = nn.Linear(config.hidden_size, config.vocab_size, bias=False)
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.prophetnet.decoder.word_embeddings
def set_input_embeddings(self, value):
self.prophetnet.decoder.word_embeddings = value
def get_output_embeddings(self):
return self.lm_head
def set_output_embeddings(self, new_embeddings):
self.lm_head = new_embeddings
def set_decoder(self, decoder):
self.prophetnet.decoder = decoder
def get_decoder(self):
return self.prophetnet.decoder
@add_start_docstrings_to_model_forward(XLM_PROPHETNET_STANDALONE_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=XLMProphetNetDecoderLMOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.Tensor] = None,
attention_mask: Optional[torch.Tensor] = None,
encoder_hidden_states: Optional[torch.Tensor] = None,
encoder_attention_mask: Optional[torch.Tensor] = None,
head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.Tensor]]] = None,
inputs_embeds: Optional[torch.Tensor] = None,
labels: Optional[torch.Tensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, XLMProphetNetDecoderLMOutput]:
r"""
encoder_hidden_states (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention if
the model is configured as a decoder.
encoder_attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on the padding token indices of the encoder input. This mask is used in
the cross-attention if the model is configured as a decoder. Mask values selected in `[0, 1]`:
cross_attn_head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the cross-attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
past_key_values (`tuple(tuple(torch.FloatTensor))` of length `config.n_layers` with each tuple having 4 tensors of shape `(batch_size, num_heads, sequence_length - 1, embed_size_per_head)`):
Contains precomputed key and value hidden-states of the attention blocks. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the left-to-right language modeling loss (next word prediction). Indices should be in
`[-100, 0, ..., config.vocab_size]` (see `input_ids` docstring) Tokens with indices set to `-100` are
ignored (masked), the loss is only computed for the tokens with labels n `[0, ..., config.vocab_size]`
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, XLMProphetNetForCausalLM
>>> import torch
>>> tokenizer = AutoTokenizer.from_pretrained("patrickvonplaten/xprophetnet-large-uncased-standalone")
>>> model = XLMProphetNetForCausalLM.from_pretrained("patrickvonplaten/xprophetnet-large-uncased-standalone")
>>> assert model.config.is_decoder, f"{model.__class__} has to be configured as a decoder."
>>> inputs = tokenizer("Hello, my dog is cute", return_tensors="pt")
>>> outputs = model(**inputs)
>>> logits = outputs.logits
>>> # Model can also be used with EncoderDecoder framework
>>> from transformers import BertTokenizer, EncoderDecoderModel, AutoTokenizer
>>> import torch
>>> tokenizer_enc = BertTokenizer.from_pretrained("bert-large-uncased")
>>> tokenizer_dec = AutoTokenizer.from_pretrained("patrickvonplaten/xprophetnet-large-uncased-standalone")
>>> model = EncoderDecoderModel.from_encoder_decoder_pretrained(
... "bert-large-uncased", "patrickvonplaten/xprophetnet-large-uncased-standalone"
... )
>>> ARTICLE = (
... "the us state department said wednesday it had received no "
... "formal word from bolivia that it was expelling the us ambassador there "
... "but said the charges made against him are `` baseless ."
... )
>>> input_ids = tokenizer_enc(ARTICLE, return_tensors="pt").input_ids
>>> labels = tokenizer_dec(
... "us rejects charges against its ambassador in bolivia", return_tensors="pt"
... ).input_ids
>>> outputs = model(input_ids=input_ids, decoder_input_ids=labels[:, :-1], labels=labels[:, 1:])
>>> loss = outputs.loss
```"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# decoder outputs consists of (dec_features, past_key_values, dec_hidden, dec_attn)
outputs = self.prophetnet.decoder(
input_ids=input_ids,
attention_mask=attention_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
head_mask=head_mask,
cross_attn_head_mask=cross_attn_head_mask,
past_key_values=past_key_values,
inputs_embeds=inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
batch_size, sequence_length = input_ids.shape if input_ids is not None else inputs_embeds.shape[:2]
predicting_streams = outputs[1].view(batch_size, self.config.ngram, sequence_length, -1)
predict_logits = self.lm_head(predicting_streams)
logits = predict_logits[:, 0]
logits_ngram = predict_logits[:, 1:] if self.config.ngram > 1 else None
loss = None
if labels is not None:
loss = self._compute_loss(predict_logits, labels)
if not return_dict:
all_logits = tuple(v for v in [logits, logits_ngram] if v is not None)
return (loss,) + all_logits + outputs[2:] if loss is not None else all_logits + outputs[2:]
else:
return XLMProphetNetDecoderLMOutput(
loss=loss,
logits=logits,
logits_ngram=logits_ngram,
past_key_values=outputs.past_key_values,
hidden_states=outputs.hidden_states,
hidden_states_ngram=outputs.hidden_states_ngram,
attentions=outputs.attentions,
ngram_attentions=outputs.ngram_attentions,
cross_attentions=outputs.cross_attentions,
)
def _compute_loss(self, logits, labels, ignore_index=-100):
expend_targets = labels.new_zeros(self.config.ngram, labels.size(0), labels.size(1)).fill_(ignore_index)
for i in range(self.config.ngram):
if i > 0 and self.disable_ngram_loss:
break
expend_targets[i, :, :] = labels
logits = logits.transpose(0, 1).contiguous()
lprobs = nn.functional.log_softmax(
logits.view(-1, logits.size(-1)),
dim=-1,
dtype=torch.float32,
)
loss = nn.functional.nll_loss(lprobs, expend_targets.view(-1), reduction="mean")
if self.config.eps > 0.0:
smooth_loss = -lprobs.sum(dim=-1, keepdim=True)
non_masked_tokens = expend_targets.ne(ignore_index).view(-1)
smooth_loss = smooth_loss[non_masked_tokens]
smooth_loss = smooth_loss.mean()
eps_i = self.config.eps / lprobs.size(-1)
loss = (1.0 - self.config.eps) * loss + eps_i * smooth_loss
return loss
def prepare_inputs_for_generation(
self,
input_ids,
past_key_values=None,
attention_mask=None,
head_mask=None,
use_cache=None,
**kwargs,
):
# if model is used as a decoder in encoder-decoder model, the decoder attention mask is created on the fly
if attention_mask is None:
attention_mask = input_ids.new_ones(input_ids.shape)
if past_key_values:
input_ids = input_ids[:, -1:]
# first step, decoder_cached_states are empty
return {
"input_ids": input_ids, # encoder_outputs is defined. input_ids not needed
"attention_mask": attention_mask,
"head_mask": head_mask,
"past_key_values": past_key_values,
"use_cache": use_cache,
}
@staticmethod
# Copied from transformers.models.bart.modeling_bart.BartForCausalLM._reorder_cache
def _reorder_cache(past_key_values, beam_idx):
reordered_past = ()
for layer_past in past_key_values:
reordered_past += (tuple(past_state.index_select(0, beam_idx) for past_state in layer_past),)
return reordered_past
# Copied from transformers.models.prophetnet.modeling_prophetnet.ProphetNetDecoderWrapper with ProphetNet->XLMProphetNet, prophetnet->XLMProphetNet
class XLMProphetNetDecoderWrapper(XLMProphetNetPreTrainedModel):
"""
This is a wrapper class, so that [`XLMProphetNetForCausalLM`] can correctly be loaded from pretrained XLMProphetNet
classes.
"""
def __init__(self, config: XLMProphetNetConfig):
super().__init__(config)
self.decoder = XLMProphetNetDecoder(config)
def forward(self, *args, **kwargs):
return self.decoder(*args, **kwargs)
| transformers-main | src/transformers/models/xlm_prophetnet/modeling_xlm_prophetnet.py |
# coding=utf-8
# Copyright 2020 The Microsoft Authors and The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
import collections
import os
from shutil import copyfile
from typing import Any, Dict, List, Optional, Tuple
from ...tokenization_utils import PreTrainedTokenizer
from ...utils import logging
logger = logging.get_logger(__name__)
SPIECE_UNDERLINE = "▁"
VOCAB_FILES_NAMES = {"vocab_file": "prophetnet.tokenizer"}
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"microsoft/xprophetnet-large-wiki100-cased": (
"https://huggingface.co/microsoft/xprophetnet-large-wiki100-cased/resolve/main/prophetnet.tokenizer"
),
}
}
PRETRAINED_INIT_CONFIGURATION = {
"microsoft/xprophetnet-large-wiki100-cased": {"do_lower_case": False},
}
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {
"microsoft/xprophetnet-large-wiki100-cased": 512,
}
def load_vocab(vocab_file):
"""Loads a vocabulary file into a dictionary."""
vocab = collections.OrderedDict()
with open(vocab_file, "r", encoding="utf-8") as reader:
tokens = reader.readlines()
for index, token in enumerate(tokens):
token = token.rstrip("\n")
vocab[token] = index
return vocab
class XLMProphetNetTokenizer(PreTrainedTokenizer):
"""
Adapted from [`RobertaTokenizer`] and [`XLNetTokenizer`]. Based on
[SentencePiece](https://github.com/google/sentencepiece).
This tokenizer inherits from [`PreTrainedTokenizer`] which contains most of the main methods. Users should refer to
this superclass for more information regarding those methods.
Args:
vocab_file (`str`):
Path to the vocabulary file.
bos_token (`str`, *optional*, defaults to `"<s>"`):
The beginning of sequence token that was used during pretraining. Can be used a sequence classifier token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the beginning of
sequence. The token used is the `cls_token`.
</Tip>
eos_token (`str`, *optional*, defaults to `"</s>"`):
The end of sequence token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the end of sequence.
The token used is the `sep_token`.
</Tip>
sep_token (`str`, *optional*, defaults to `"</s>"`):
The separator token, which is used when building a sequence from multiple sequences, e.g. two sequences for
sequence classification or for a text and a question for question answering. It is also used as the last
token of a sequence built with special tokens.
cls_token (`str`, *optional*, defaults to `"<s>"`):
The classifier token which is used when doing sequence classification (classification of the whole sequence
instead of per-token classification). It is the first token of the sequence when built with special tokens.
unk_token (`str`, *optional*, defaults to `"<unk>"`):
The unknown token. A token that is not in the vocabulary cannot be converted to an ID and is set to be this
token instead.
pad_token (`str`, *optional*, defaults to `"<pad>"`):
The token used for padding, for example when batching sequences of different lengths.
mask_token (`str`, *optional*, defaults to `"<mask>"`):
The token used for masking values. This is the token used when training this model with masked language
modeling. This is the token which the model will try to predict.
additional_special_tokens (`List[str]`, *optional*, defaults to `["<s>NOTUSED", "</s>NOTUSED"]`):
Additional special tokens used by the tokenizer.
sp_model_kwargs (`dict`, *optional*):
Will be passed to the `SentencePieceProcessor.__init__()` method. The [Python wrapper for
SentencePiece](https://github.com/google/sentencepiece/tree/master/python) can be used, among other things,
to set:
- `enable_sampling`: Enable subword regularization.
- `nbest_size`: Sampling parameters for unigram. Invalid for BPE-Dropout.
- `nbest_size = {0,1}`: No sampling is performed.
- `nbest_size > 1`: samples from the nbest_size results.
- `nbest_size < 0`: assuming that nbest_size is infinite and samples from the all hypothesis (lattice)
using forward-filtering-and-backward-sampling algorithm.
- `alpha`: Smoothing parameter for unigram sampling, and dropout probability of merge operations for
BPE-dropout.
Attributes:
sp_model (`SentencePieceProcessor`):
The *SentencePiece* processor that is used for every conversion (string, tokens and IDs).
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
model_input_names = ["input_ids", "attention_mask"]
def __init__(
self,
vocab_file,
bos_token="[SEP]",
eos_token="[SEP]",
sep_token="[SEP]",
unk_token="[UNK]",
pad_token="[PAD]",
cls_token="[CLS]",
mask_token="[MASK]",
sp_model_kwargs: Optional[Dict[str, Any]] = None,
**kwargs,
) -> None:
self.sp_model_kwargs = {} if sp_model_kwargs is None else sp_model_kwargs
super().__init__(
bos_token=bos_token,
eos_token=eos_token,
sep_token=sep_token,
unk_token=unk_token,
pad_token=pad_token,
cls_token=cls_token,
mask_token=mask_token,
sp_model_kwargs=self.sp_model_kwargs,
**kwargs,
)
try:
import sentencepiece as spm
except ImportError:
logger.warning(
"You need to install SentencePiece to use XLMRobertaTokenizer: https://github.com/google/sentencepiece"
" pip install sentencepiece"
)
raise
self.sp_model = spm.SentencePieceProcessor(**self.sp_model_kwargs)
self.sp_model.Load(str(vocab_file))
self.vocab_file = vocab_file
# Original fairseq vocab and spm vocab must be "aligned":
# Vocab | 0 | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9
# -------- | ------- | ------- | ------ | ------- | --- | --- | --- | ----- | ----- | ----
# fairseq | '<s>' | '<pad>' | '</s>' | '<unk>' | ',' | '.' | '▁' | 's' | '▁de' | '-'
# spm | '<unk>' | '<s>' | '</s>' | ',' | '.' | '▁' | 's' | '▁de' | '-' | '▁a'
# put special tokens and [unused] tokens into the vocab
self.fairseq_tokens_to_ids = {"[PAD]": 0, "[CLS]": 1, "[SEP]": 2, "[UNK]": 3, "[MASK]": 4}
for i in range(10):
tok = f"[unused{i}]"
self.fairseq_tokens_to_ids[tok] = 5 + i
# The first "real" token "," has position 15 in the embedding vocab and position 3 in the spm vocab
self.fairseq_offset = 12
self.fairseq_ids_to_tokens = {v: k for k, v in self.fairseq_tokens_to_ids.items()}
for k in self.fairseq_tokens_to_ids.keys():
self.unique_no_split_tokens.append(k)
def __getstate__(self):
state = self.__dict__.copy()
state["sp_model"] = None
return state
def __setstate__(self, d):
self.__dict__ = d
try:
import sentencepiece as spm
except ImportError:
logger.warning(
"You need to install SentencePiece to use XLMRobertaTokenizer: https://github.com/google/sentencepiece"
" pip install sentencepiece"
)
raise
# for backward compatibility
if not hasattr(self, "sp_model_kwargs"):
self.sp_model_kwargs = {}
self.sp_model = spm.SentencePieceProcessor(**self.sp_model_kwargs)
self.sp_model.Load(self.vocab_file)
def get_special_tokens_mask(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None, already_has_special_tokens: bool = False
) -> List[int]:
"""
Retrieve sequence ids from a token list that has no special tokens added. This method is called when adding
special tokens using the tokenizer `prepare_for_model` method.
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
already_has_special_tokens (`bool`, *optional*, defaults to `False`):
Whether or not the token list is already formatted with special tokens for the model.
Returns:
`List[int]`: A list of integers in the range [0, 1]: 1 for a special token, 0 for a sequence token.
"""
if already_has_special_tokens:
return super().get_special_tokens_mask(
token_ids_0=token_ids_0, token_ids_1=token_ids_1, already_has_special_tokens=True
)
if token_ids_1 is None:
return ([0] * len(token_ids_0)) + [1]
return ([0] * len(token_ids_0)) + [1] + ([0] * len(token_ids_1)) + [1]
def create_token_type_ids_from_sequences(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Create a mask from the two sequences passed to be used in a sequence-pair classification task. XLMProphetNet
does not make use of token type ids, therefore a list of zeros is returned.
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of zeros.
"""
sep = [self.sep_token_id]
if token_ids_1 is None:
return len(token_ids_0 + sep) * [0]
return len(token_ids_0 + sep + sep + token_ids_1 + sep) * [0]
@property
def vocab_size(self):
return len(self.sp_model) + self.fairseq_offset
def get_vocab(self):
vocab = {self.convert_ids_to_tokens(i): i for i in range(self.vocab_size)}
vocab.update(self.added_tokens_encoder)
return vocab
def _tokenize(self, text: str) -> str:
return self.sp_model.encode(text, out_type=str)
def _convert_token_to_id(self, token):
"""Converts a token (str) in an id using the vocab."""
if token in self.fairseq_tokens_to_ids:
return self.fairseq_tokens_to_ids[token]
spm_id = self.sp_model.PieceToId(token)
# Need to return unknown token if the SP model returned 0
return spm_id + self.fairseq_offset if spm_id else self.unk_token_id
def _convert_id_to_token(self, index):
"""Converts an index (integer) in a token (str) using the vocab."""
if index in self.fairseq_ids_to_tokens:
return self.fairseq_ids_to_tokens[index]
return self.sp_model.IdToPiece(index - self.fairseq_offset)
def convert_tokens_to_string(self, tokens):
"""Converts a sequence of tokens (strings for sub-words) in a single string."""
out_string = "".join(tokens).replace(SPIECE_UNDERLINE, " ").strip()
return out_string
def save_vocabulary(self, save_directory: str, filename_prefix: Optional[str] = None) -> Tuple[str]:
if not os.path.isdir(save_directory):
logger.error(f"Vocabulary path ({save_directory}) should be a directory")
return
out_vocab_file = os.path.join(
save_directory, (filename_prefix + "-" if filename_prefix else "") + VOCAB_FILES_NAMES["vocab_file"]
)
if os.path.abspath(self.vocab_file) != os.path.abspath(out_vocab_file) and os.path.isfile(self.vocab_file):
copyfile(self.vocab_file, out_vocab_file)
elif not os.path.isfile(self.vocab_file):
with open(out_vocab_file, "wb") as fi:
content_spiece_model = self.sp_model.serialized_model_proto()
fi.write(content_spiece_model)
return (out_vocab_file,)
def build_inputs_with_special_tokens(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Build model inputs from a sequence or a pair of sequence for sequence classification tasks by concatenating and
adding special tokens. A XLMProphetNet sequence has the following format:
- single sequence: `X [SEP]`
- pair of sequences: `A [SEP] B [SEP]`
Args:
token_ids_0 (`List[int]`):
List of IDs to which the special tokens will be added
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: list of [input IDs](../glossary#input-ids) with the appropriate special tokens.
"""
if token_ids_1 is None:
return token_ids_0 + [self.sep_token_id]
sep = [self.sep_token_id]
return token_ids_0 + sep + token_ids_1 + sep
| transformers-main | src/transformers/models/xlm_prophetnet/tokenization_xlm_prophetnet.py |
# coding=utf-8
# Copyright 2020 The Microsoft Authors and The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" XLM-ProphetNet model configuration"""
from typing import Callable, Optional, Union
from ...configuration_utils import PretrainedConfig
from ...utils import logging
logger = logging.get_logger(__name__)
XLM_PROPHETNET_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"microsoft/xprophetnet-large-wiki100-cased": (
"https://huggingface.co/microsoft/xprophetnet-large-wiki100-cased/resolve/main/config.json"
),
}
class XLMProphetNetConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`XLMProphetNetModel`]. It is used to instantiate a
XLMProphetNet model according to the specified arguments, defining the model architecture. Instantiating a
configuration with the defaults will yield a similar configuration to that of the XLMProphetNet
[microsoft/xprophetnet-large-wiki100-cased](https://huggingface.co/microsoft/xprophetnet-large-wiki100-cased)
architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
activation_dropout (`float`, *optional*, defaults to 0.1):
The dropout ratio for activations inside the fully connected layer.
activation_function (`str` or `function`, *optional*, defaults to `"gelu"`):
The non-linear activation function (function or string) in the encoder and pooler. If string, `"gelu"`,
`"relu"`, `"silu"` and `"gelu_new"` are supported.
vocab_size (`int`, *optional*, defaults to 30522):
Vocabulary size of the ProphetNET model. Defines the number of different tokens that can be represented by
the `inputs_ids` passed when calling [`XLMProphetNetModel`].
hidden_size (`int`, *optional*, defaults to 1024):
Dimensionality of the layers and the pooler layer.
encoder_ffn_dim (`int`, *optional*, defaults to 4096):
Dimensionality of the "intermediate" (often named feed-forward) layer in decoder.
num_encoder_layers (`int`, *optional*, defaults to 12):
Number of encoder layers.
num_encoder_attention_heads (`int`, *optional*, defaults to 16):
Number of attention heads for each attention layer in the Transformer encoder.
decoder_ffn_dim (`int`, *optional*, defaults to 4096):
Dimensionality of the `intermediate` (often named feed-forward) layer in decoder.
num_decoder_layers (`int`, *optional*, defaults to 12):
Number of decoder layers.
num_decoder_attention_heads (`int`, *optional*, defaults to 16):
Number of attention heads for each attention layer in the Transformer decoder.
attention_dropout (`float`, *optional*, defaults to 0.1):
The dropout ratio for the attention probabilities.
dropout (`float`, *optional*, defaults to 0.1):
The dropout probability for all fully connected layers in the embeddings, encoder, and pooler.
max_position_embeddings (`int`, *optional*, defaults to 512):
The maximum sequence length that this model might ever be used with. Typically set this to something large
just in case (e.g., 512 or 1024 or 2048).
init_std (`float`, *optional*, defaults to 0.02):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
add_cross_attention (`bool`, *optional*, defaults to `True`):
Whether cross-attention layers should be added to the model.
is_encoder_decoder (`bool`, *optional*, defaults to `True`):
Whether this is an encoder/decoder model.
pad_token_id (`int`, *optional*, defaults to 1)
Padding token id.
bos_token_id (`int`, *optional*, defaults to 0)
Beginning of stream token id.
eos_token_id (`int`, *optional*, defaults to 2)
End of stream token id.
ngram (`int`, *optional*, defaults to 2)
Number of future tokens to predict. Set to 1 to be same as traditional Language model to predict next first
token.
num_buckets (`int`, *optional*, defaults to 32)
The number of buckets to use for each attention layer. This is for relative position calculation. See the
[T5 paper](see https://arxiv.org/abs/1910.10683) for more details.
relative_max_distance (`int`, *optional*, defaults to 128)
Relative distances greater than this number will be put into the last same bucket. This is for relative
position calculation. See the [T5 paper](see https://arxiv.org/abs/1910.10683) for more details.
disable_ngram_loss (`bool`, *optional*, defaults to `False`):
Whether be trained predicting only the next first token.
eps (`float`, *optional*, defaults to 0.0):
Controls the `epsilon` parameter value for label smoothing in the loss calculation. If set to 0, no label
smoothing is performed.
use_cache (`bool`, *optional*, defaults to `True`):
Whether or not the model should return the last key/values attentions (not used by all models).
"""
model_type = "xlm-prophetnet"
keys_to_ignore_at_inference = ["past_key_values"]
attribute_map = {
"num_attention_heads": "num_encoder_attention_heads",
}
def __init__(
self,
activation_dropout: Optional[float] = 0.1,
activation_function: Optional[Union[str, Callable]] = "gelu",
vocab_size: Optional[int] = 30522,
hidden_size: Optional[int] = 1024,
encoder_ffn_dim: Optional[int] = 4096,
num_encoder_layers: Optional[int] = 12,
num_encoder_attention_heads: Optional[int] = 16,
decoder_ffn_dim: Optional[int] = 4096,
num_decoder_layers: Optional[int] = 12,
num_decoder_attention_heads: Optional[int] = 16,
attention_dropout: Optional[float] = 0.1,
dropout: Optional[float] = 0.1,
max_position_embeddings: Optional[int] = 512,
init_std: Optional[float] = 0.02,
is_encoder_decoder: Optional[bool] = True,
add_cross_attention: Optional[bool] = True,
decoder_start_token_id: Optional[int] = 0,
ngram: Optional[int] = 2,
num_buckets: Optional[int] = 32,
relative_max_distance: Optional[int] = 128,
disable_ngram_loss: Optional[bool] = False,
eps: Optional[float] = 0.0,
use_cache: Optional[bool] = True,
pad_token_id: Optional[int] = 0,
bos_token_id: Optional[int] = 1,
eos_token_id: Optional[int] = 2,
**kwargs,
):
self.vocab_size = vocab_size
self.hidden_size = hidden_size
self.encoder_ffn_dim = encoder_ffn_dim
self.num_encoder_layers = num_encoder_layers
self.num_encoder_attention_heads = num_encoder_attention_heads
self.decoder_ffn_dim = decoder_ffn_dim
self.num_decoder_layers = num_decoder_layers
self.num_decoder_attention_heads = num_decoder_attention_heads
self.max_position_embeddings = max_position_embeddings
self.init_std = init_std # Normal(0, this parameter)
self.activation_function = activation_function
# parameters for xlmprophetnet
self.ngram = ngram
self.num_buckets = num_buckets
self.relative_max_distance = relative_max_distance
self.disable_ngram_loss = disable_ngram_loss
self.eps = eps
# 3 Types of Dropout
self.attention_dropout = attention_dropout
self.activation_dropout = activation_dropout
self.dropout = dropout
self.use_cache = use_cache
super().__init__(
pad_token_id=pad_token_id,
bos_token_id=bos_token_id,
eos_token_id=eos_token_id,
is_encoder_decoder=is_encoder_decoder,
add_cross_attention=add_cross_attention,
decoder_start_token_id=decoder_start_token_id,
**kwargs,
)
@property
def num_hidden_layers(self) -> int:
return self.num_encoder_layers + self.num_decoder_layers
@num_hidden_layers.setter
def num_hidden_layers(self, value):
raise NotImplementedError(
"This model does not support the setting of `num_hidden_layers`. Please set `num_encoder_layers` and"
" `num_decoder_layers`."
)
| transformers-main | src/transformers/models/xlm_prophetnet/configuration_xlm_prophetnet.py |
# coding=utf-8
# Copyright 2022 The OpenBMB Team and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Tokenization classes for CPMAnt."""
import collections
import os
from typing import List, Optional, Tuple
from transformers.utils import is_jieba_available, requires_backends
if is_jieba_available():
import jieba
from ...tokenization_utils import PreTrainedTokenizer
from ...utils import logging
logger = logging.get_logger(__name__)
VOCAB_FILES_NAMES = {"vocab_file": "vocab.txt"}
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"openbmb/cpm-ant-10b": "https://huggingface.co/openbmb/cpm-ant-10b/blob/main/vocab.txt",
},
}
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {
"openbmb/cpm-ant-10b": 1024,
}
def load_vocab(vocab_file):
"""Loads a vocabulary file into a dictionary."""
vocab = collections.OrderedDict()
with open(vocab_file, "r", encoding="utf-8") as reader:
tokens = reader.readlines()
for index, token in enumerate(tokens):
token = token.rstrip("\n")
vocab[token] = index
return vocab
class WordpieceTokenizer(object):
def __init__(self, vocab, unk_token="<unk>", max_input_chars_per_word=200):
self.vocab = vocab
self.unk_token = unk_token
self.max_input_chars_per_word = max_input_chars_per_word
def tokenize(self, token):
chars = list(token)
if len(chars) > self.max_input_chars_per_word:
return [self.unk_token]
start = 0
sub_tokens = []
while start < len(chars):
end = len(chars)
cur_substr = None
while start < end:
substr = "".join(chars[start:end])
if substr in self.vocab:
cur_substr = substr
break
end -= 1
if cur_substr is None:
sub_tokens.append(self.unk_token)
start += 1
else:
sub_tokens.append(cur_substr)
start = end
return sub_tokens
class CpmAntTokenizer(PreTrainedTokenizer):
"""
Construct a CPMAnt tokenizer. Based on byte-level Byte-Pair-Encoding.
Args:
vocab_file (`str`):
Path to the vocabulary file.
bod_token (`str`, *optional*, defaults to `"<d>"`):
The beginning of document token.
eod_token (`str`, *optional*, defaults to `"</d>"`):
The end of document token.
bos_token (`str`, *optional*, defaults to `"<s>"`):
The beginning of sequence token.
eos_token (`str`, *optional*, defaults to `"</s>"`):
The end of sequence token.
pad_token (`str`, *optional*, defaults to `"<pad>"`):
The token used for padding.
unk_token (`str`, *optional*, defaults to `"<unk>"`):
The unknown token.
line_token (`str`, *optional*, defaults to `"</n>"`):
The line token.
space_token (`str`, *optional*, defaults to `"</_>"`):
The space token.
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
model_input_names = ["input_ids", "attention_mask"]
add_prefix_space = False
def __init__(
self,
vocab_file,
bod_token="<d>",
eod_token="</d>",
bos_token="<s>",
eos_token="</s>",
pad_token="<pad>",
unk_token="<unk>",
line_token="</n>",
space_token="</_>",
padding_side="left",
**kwargs,
):
requires_backends(self, ["jieba"])
super().__init__(
bod_token=bod_token,
eod_token=eod_token,
bos_token=bos_token,
eos_token=eos_token,
pad_token=pad_token,
unk_token=unk_token,
line_token=line_token,
space_token=space_token,
padding_side=padding_side,
**kwargs,
)
self.bod_token = bod_token
self.eod_token = eod_token
self.encoder = load_vocab(vocab_file)
self.encoder[" "] = self.encoder[space_token]
self.encoder["\n"] = self.encoder[line_token]
del self.encoder[space_token]
del self.encoder[line_token]
self.encoder = collections.OrderedDict(sorted(self.encoder.items(), key=lambda x: x[1]))
self.decoder = {v: k for k, v in self.encoder.items()}
self.wordpiece_tokenizer = WordpieceTokenizer(vocab=self.encoder, unk_token=self.unk_token)
@property
def bod_token_id(self):
return self.encoder[self.bod_token]
@property
def eod_token_id(self):
return self.encoder[self.eod_token]
@property
def newline_id(self):
return self.encoder["\n"]
@property
def vocab_size(self) -> int:
return len(self.encoder)
def get_vocab(self):
return dict(self.encoder, **self.added_tokens_encoder)
def _tokenize(self, text):
"""Tokenize a string."""
output_tokens = []
for x in jieba.cut(text, cut_all=False):
output_tokens.extend(self.wordpiece_tokenizer.tokenize(x))
return output_tokens
def _decode(self, token_ids, **kwargs):
"""Decode ids into a string."""
token_ids = [i for i in token_ids if i >= 0]
token_ids = [
x for x in token_ids if x != self.pad_token_id and x != self.eos_token_id and x != self.bos_token_id
]
return super()._decode(token_ids, **kwargs)
def check(self, token):
return token in self.encoder
def convert_tokens_to_string(self, tokens: List[str]) -> str:
return "".join(tokens)
def _convert_token_to_id(self, token):
"""Converts a token (str) in an id using the vocab."""
return self.encoder.get(token, self.encoder.get(self.unk_token))
def _convert_id_to_token(self, index):
"""Converts an index (integer) in a token (str) using the vocab."""
return self.decoder.get(index, self.unk_token)
def save_vocabulary(self, save_directory: str, filename_prefix: Optional[str] = None) -> Tuple[str]:
if os.path.isdir(save_directory):
vocab_file = os.path.join(
save_directory, (filename_prefix + "-" if filename_prefix else "") + VOCAB_FILES_NAMES["vocab_file"]
)
else:
vocab_file = (filename_prefix + "-" if filename_prefix else "") + save_directory
index = 0
if " " in self.encoder:
self.encoder["</_>"] = self.encoder[" "]
del self.encoder[" "]
if "\n" in self.encoder:
self.encoder["</n>"] = self.encoder["\n"]
del self.encoder["\n"]
self.encoder = collections.OrderedDict(sorted(self.encoder.items(), key=lambda x: x[1]))
with open(vocab_file, "w", encoding="utf-8") as writer:
for token, token_index in self.encoder.items():
if index != token_index:
logger.warning(
f"Saving vocabulary to {vocab_file}: vocabulary indices are not consecutive."
" Please check that the vocabulary is not corrupted!"
)
index = token_index
writer.write(token + "\n")
index += 1
return (vocab_file,)
def build_inputs_with_special_tokens(self, token_ids_0: List[int], token_ids_1: List[int] = None) -> List[int]:
"""
Build model inputs from a sequence or a pair of sequence for sequence classification tasks by concatenating and
adding special tokens. A CPMAnt sequence has the following format:
- single sequence: `[BOS] Sequence`.
Args:
token_ids_0 (`List[int]`): The first tokenized sequence that special tokens will be added.
token_ids_1 (`List[int]`): The optional second tokenized sequence that special tokens will be added.
Returns:
`List[int]`: The model input with special tokens.
"""
if token_ids_1 is None:
return [self.bos_token_id] + token_ids_0
return [self.bos_token_id] + token_ids_0 + [self.bos_token_id] + token_ids_1
def get_special_tokens_mask(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None, already_has_special_tokens: bool = False
) -> List[int]:
"""
Retrieve sequence ids from a token list that has no special tokens added. This method is called when adding
special tokens using the tokenizer `prepare_for_model` method.
Args:
token_ids_0 (`List[int]`): List of IDs.
token_ids_1 (`List[int]`, *optional*): Optional second list of IDs for sequence pairs.
already_has_special_tokens (`bool`, *optional*, defaults to `False`):
Whether or not the token list is already formatted with special tokens for the model.
Returns:
`List[int]`: A list of integers in the range [0, 1]: 1 for a special token, 0 for a sequence token.
"""
if already_has_special_tokens:
return super().get_special_tokens_mask(
token_ids_0=token_ids_0, token_ids_1=token_ids_1, already_has_special_tokens=True
)
if token_ids_1 is not None:
return [1] + ([0] * len(token_ids_0)) + [1] + ([0] * len(token_ids_1))
return [1] + ([0] * len(token_ids_0))
| transformers-main | src/transformers/models/cpmant/tokenization_cpmant.py |
# flake8: noqa
# There's no way to ignore "F401 '...' imported but unused" warnings in this
# module, but to preserve other warnings. So, don't check this module at all.
# Copyright 2022 The HuggingFace Team and The OpenBMB Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
# rely on isort to merge the imports
from ...utils import OptionalDependencyNotAvailable, _LazyModule, is_tokenizers_available, is_torch_available
_import_structure = {
"configuration_cpmant": ["CPMANT_PRETRAINED_CONFIG_ARCHIVE_MAP", "CpmAntConfig"],
"tokenization_cpmant": ["CpmAntTokenizer"],
}
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_cpmant"] = [
"CPMANT_PRETRAINED_MODEL_ARCHIVE_LIST",
"CpmAntForCausalLM",
"CpmAntModel",
"CpmAntPreTrainedModel",
]
if TYPE_CHECKING:
from .configuration_cpmant import CPMANT_PRETRAINED_CONFIG_ARCHIVE_MAP, CpmAntConfig
from .tokenization_cpmant import CpmAntTokenizer
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_cpmant import (
CPMANT_PRETRAINED_MODEL_ARCHIVE_LIST,
CpmAntForCausalLM,
CpmAntModel,
CpmAntPreTrainedModel,
)
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/cpmant/__init__.py |
# coding=utf-8
# Copyright 2022 The OpenBMB Team and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" CPMAnt model configuration"""
from ...configuration_utils import PretrainedConfig
from ...utils import logging
logger = logging.get_logger(__name__)
CPMANT_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"openbmb/cpm-ant-10b": "https://huggingface.co/openbmb/cpm-ant-10b/blob/main/config.json"
# See all CPMAnt models at https://huggingface.co/models?filter=cpmant
}
class CpmAntConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`CpmAntModel`]. It is used to instantiate an
CPMAnt model according to the specified arguments, defining the model architecture. Instantiating a configuration
with the defaults will yield a similar configuration to that of the CPMAnt
[openbmb/cpm-ant-10b](https://huggingface.co/openbmb/cpm-ant-10b) architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
vocab_size (`int`, *optional*, defaults to 30720):
Vocabulary size of the CPMAnt model. Defines the number of different tokens that can be represented by the
`input` passed when calling [`CpmAntModel`].
hidden_size (`int`, *optional*, defaults to 4096):
Dimension of the encoder layers.
num_attention_heads (`int`, *optional*, defaults to 32):
Number of attention heads in the Transformer encoder.
dim_head (`int`, *optional*, defaults to 128):
Dimension of attention heads for each attention layer in the Transformer encoder.
dim_ff (`int`, *optional*, defaults to 10240):
Dimension of the "intermediate" (i.e., feed-forward) layer in the Transformer encoder.
num_hidden_layers (`int`, *optional*, defaults to 48):
Number of layers of the Transformer encoder.
dropout_p (`float`, *optional*, defaults to 0.1):
The dropout probabilitiy for all fully connected layers in the embeddings, encoder.
position_bias_num_buckets (`int`, *optional*, defaults to 512):
The number of position_bias buckets.
position_bias_max_distance (`int`, *optional*, defaults to 2048):
The maximum sequence length that this model might ever be used with. Typically set this to something large
just in case (e.g., 512 or 1024 or 2048).
eps (`float`, *optional*, defaults to 1e-6):
The epsilon used by the layer normalization layers.
prompt_types (`int`, *optional*, defaults to 32):
The type of prompt.
prompt_length (`int`, *optional*, defaults to 32):
The length of prompt.
segment_types (`int`, *optional*, defaults to 32):
The type of segment.
use_cache (`bool`, *optional*, defaults to `True`):
Whether to use cache.
init_std (`float`, *optional*, defaults to 1.0):
Initialize parameters with std = init_std.
Example:
```python
>>> from transformers import CpmAntModel, CpmAntConfig
>>> # Initializing a CPMAnt cpm-ant-10b style configuration
>>> configuration = CpmAntConfig()
>>> # Initializing a model from the cpm-ant-10b style configuration
>>> model = CpmAntModel(configuration)
>>> # Accessing the model configuration
>>> configuration = model.config
```"""
model_type = "cpmant"
def __init__(
self,
vocab_size: int = 30720,
hidden_size: int = 4096,
num_attention_heads: int = 32,
dim_head: int = 128,
dim_ff: int = 10240,
num_hidden_layers: int = 48,
dropout_p: int = 0.0,
position_bias_num_buckets: int = 512,
position_bias_max_distance: int = 2048,
eps: int = 1e-6,
init_std: float = 1.0,
prompt_types: int = 32,
prompt_length: int = 32,
segment_types: int = 32,
use_cache: bool = True,
**kwargs,
):
super().__init__(**kwargs)
self.prompt_types = prompt_types
self.prompt_length = prompt_length
self.segment_types = segment_types
self.hidden_size = hidden_size
self.num_attention_heads = num_attention_heads
self.dim_head = dim_head
self.dim_ff = dim_ff
self.num_hidden_layers = num_hidden_layers
self.position_bias_num_buckets = position_bias_num_buckets
self.position_bias_max_distance = position_bias_max_distance
self.dropout_p = dropout_p
self.eps = eps
self.use_cache = use_cache
self.vocab_size = vocab_size
self.init_std = init_std
| transformers-main | src/transformers/models/cpmant/configuration_cpmant.py |
# coding=utf-8
# Copyright 2022 The OpenBMB Team and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch CPMAnt"""
import math
from typing import List, Optional, Tuple, Union
import torch
import torch.nn.functional as F
import torch.utils.checkpoint
from torch import nn
from torch.nn import CrossEntropyLoss
from ...activations import ACT2FN
from ...modeling_outputs import BaseModelOutputWithPast, CausalLMOutputWithPast
from ...modeling_utils import PreTrainedModel
from ...utils import add_code_sample_docstrings, add_start_docstrings, add_start_docstrings_to_model_forward, logging
from .configuration_cpmant import CpmAntConfig
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "openbmb/cpm-ant-10b"
_CONFIG_FOR_DOC = "CpmAntConfig"
CPMANT_PRETRAINED_MODEL_ARCHIVE_LIST = [
"openbmb/cpm-ant-10b",
# See all CPMAnt models at https://huggingface.co/models?filter=cpmant
]
class CpmAntLayerNorm(nn.Module):
"""
We use Root Mean Square (RMS) Layer Normalization, please see https://arxiv.org/abs/1910.07467 for details."
"""
def __init__(self, config: CpmAntConfig):
super().__init__()
self.eps = config.eps
self.dim_norm = config.hidden_size
self.weight = nn.Parameter(torch.empty(config.hidden_size))
def forward(self, hidden_states: torch.Tensor):
"""
Args:
hidden_states (`torch.Tensor` of shape `(batch, seq_len, dim_in)`)
"""
if hidden_states.size(-1) != self.dim_norm:
raise AssertionError("hidden_states.size(-1) != self.dim_norm")
old_dtype = hidden_states.dtype
variance = hidden_states.to(torch.float32).pow(2).mean(dim=-1, keepdim=True)
hidden_states = (hidden_states * torch.rsqrt(variance + self.eps)).to(old_dtype) * self.weight
return hidden_states
class CpmAntAttention(nn.Module):
def __init__(self, config: CpmAntConfig):
super().__init__()
self.dim_model = config.hidden_size
self.num_heads = config.num_attention_heads
self.dim_head = config.dim_head
self.project_q = nn.Linear(self.dim_model, self.num_heads * self.dim_head, bias=False)
self.project_k = nn.Linear(self.dim_model, self.num_heads * self.dim_head, bias=False)
self.project_v = nn.Linear(self.dim_model, self.num_heads * self.dim_head, bias=False)
self.attention_out = nn.Linear(self.num_heads * self.dim_head, self.dim_model, bias=False)
self.softmax = torch.nn.Softmax(dim=-1)
if config.dropout_p is not None:
self.dropout = torch.nn.Dropout(p=config.dropout_p)
else:
self.dropout = None
def forward(
self,
hidden_q: torch.Tensor,
hidden_kv: torch.Tensor,
attention_mask: torch.BoolTensor,
position_bias: torch.Tensor,
output_attentions: Optional[bool] = False,
past_key_values: Optional[Tuple[torch.Tensor, torch.Tensor]] = None,
use_cache: Optional[bool] = None,
):
"""
Args:
hidden_q (`torch.Tensor`):
Input of transformer block(self-attention block). It can be the raw embedding of a batch of sequences.
hidden_kv (`torch.Tensor` of shape `(batch, len_k, dim_model)`)):
Tensor *key_value* and *query* of shape `(batch, len_k, dim_model)`
attention_mask (`torch.Tensor` of shape `(batch, len_seq, len_seq)`):
Avoid invalid areas to participate in the calculation of self-attention.
position_bias (`torch.Tensor` of shape `(batch, len_seq, len_seq)`):
Provide positional information to self-attention block.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers.
past_key_values (`Tuple[torch.Tensor, torch.Tensor]`, *optional*):
Cached past key and value projection states.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding
(see `past_key_values`).
"""
batch_size = hidden_q.size(0)
len_q = hidden_q.size(1)
len_k = hidden_kv.size(1)
query = self.project_q(hidden_q)
key = self.project_k(hidden_kv)
value = self.project_v(hidden_kv)
query = query.view(batch_size, len_q, self.num_heads, self.dim_head).permute(0, 2, 1, 3)
key = key.view(batch_size, len_k, self.num_heads, self.dim_head).permute(0, 2, 1, 3)
value = value.view(batch_size, len_k, self.num_heads, self.dim_head).permute(0, 2, 1, 3)
if past_key_values is not None:
key = torch.cat([past_key_values[0], key], dim=-2)
value = torch.cat([past_key_values[1], value], dim=-2)
len_k = key.size(-2)
# (batch_size, num_heads, len_q, dim_head) @ (batch_size, num_heads, dim_head, len_k) -> (batch_size, num_heads, len_q, len_k)
score = torch.matmul(query, key.transpose(-1, -2)) / math.sqrt(self.dim_head)
score = score + position_bias
score = torch.masked_fill(
score,
attention_mask.view(batch_size, 1, len_q, len_k) == torch.tensor(False),
torch.scalar_tensor(float("-inf"), device=score.device, dtype=score.dtype),
)
score = self.softmax(score)
score = torch.masked_fill(
score,
attention_mask.view(batch_size, 1, len_q, len_k) == torch.tensor(False),
torch.scalar_tensor(0, device=score.device, dtype=score.dtype),
)
if output_attentions:
attn_weights = score
else:
attn_weights = None
if self.dropout is not None:
score = self.dropout(score)
# (batch_size, num_heads, len_q, len_k) @ (batch_size, num_heads, len_k, dim_head) -> (batch_size, num_heads, len_q, dim_head)
score = torch.matmul(score, value)
score = score.view(batch_size, self.num_heads, len_q, self.dim_head).permute(0, 2, 1, 3)
score = score.contiguous().view(batch_size, len_q, self.num_heads * self.dim_head)
score = self.attention_out(score)
past_key_values = None
if use_cache:
past_key_values = (key, value)
return score, attn_weights, past_key_values
class CpmAntSelfAttentionBlock(nn.Module):
def __init__(self, config: CpmAntConfig):
super().__init__()
self.layernorm_before_attention = CpmAntLayerNorm(config)
self.self_attention = CpmAntAttention(config)
if config.dropout_p:
self.dropout = torch.nn.Dropout(config.dropout_p)
else:
self.dropout = None
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: torch.Tensor,
position_bias: Optional[torch.Tensor] = None,
output_attentions: Optional[bool] = False,
past_key_values: Optional[Tuple[torch.Tensor, torch.Tensor]] = None,
use_cache: Optional[bool] = None,
):
"""
Args:
hidden_states (`torch.Tensor` of shape `(batch, len_seq, dim_model)`):
Input of transformer block(self-attention block). It can be the raw embedding of a batch of sequences.
attention_mask (`torch.Tensor` of shape `(batch, len_seq, len_seq)`):
Avoid invalid areas to participate in the calculation of self-attention.
position_bias (`torch.Tensor` of shape `(batch, len_seq, len_seq)`):
Provide positional information to self-attention block.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers.
past_key_values (`Tuple(torch.FloatTensor)`, *optional*):
Cached past key and value projection states.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding
(see `past_key_values`).
"""
outputs = self.layernorm_before_attention(hidden_states)
outputs = self.self_attention(
outputs, outputs, attention_mask, position_bias, output_attentions, past_key_values, use_cache
)
outputs, attn_weights, current_key_value = outputs
if self.dropout is not None:
outputs = self.dropout(outputs)
hidden_states = hidden_states + outputs
return hidden_states, attn_weights, current_key_value
class CpmAntDenseGatedACT(nn.Module):
def __init__(self, config: CpmAntConfig):
super().__init__()
self.w_0 = nn.Linear(config.hidden_size, config.dim_ff, bias=False)
self.w_1 = nn.Linear(config.hidden_size, config.dim_ff, bias=False)
self.act = torch.nn.GELU()
def forward(self, hidden_states: torch.Tensor):
"""Transform an input tensor from one feature space to another via a nonlinear operation
Args:
hidden_states (`torch.Tensor` of shape `(batch, seq_len, dim_in)`)
"""
gate_score = self.act(self.w_0(hidden_states))
hidden_states = self.w_1(hidden_states)
hidden_states = gate_score * hidden_states
return hidden_states
class CpmAntFeedForward(nn.Module):
def __init__(self, config: CpmAntConfig):
super().__init__()
self.w_in = CpmAntDenseGatedACT(config)
if config.dropout_p is not None:
self.dropout = torch.nn.Dropout(config.dropout_p)
else:
self.dropout = None
self.w_out = nn.Linear(config.dim_ff, config.hidden_size, bias=False)
def forward(self, hidden_states: torch.Tensor):
"""
Args:
hidden_states (`torch.Tensor` of shape `(batch, seq_len, dim_in)`)
"""
hidden_states = self.w_in(hidden_states)
if self.dropout is not None:
hidden_states = self.dropout(hidden_states)
hidden_states = self.w_out(hidden_states)
return hidden_states
class CpmAntFFNBlock(nn.Module):
def __init__(self, config: CpmAntConfig):
super().__init__()
self.layernorm_before_ffn = CpmAntLayerNorm(config)
self.ffn = CpmAntFeedForward(config)
if config.dropout_p:
self.dropout = torch.nn.Dropout(config.dropout_p)
else:
self.dropout = None
def forward(
self,
hidden_states: torch.Tensor,
):
"""
Args:
hidden_states (`torch.Tensor` of shape `(batch, len_seq, dim_model)`):
Hidden states before feed forward layer.
"""
ln_outputs = self.layernorm_before_ffn(hidden_states)
outputs = self.ffn(ln_outputs)
if self.dropout is not None:
outputs = self.dropout(outputs)
hidden_states = hidden_states + outputs
return hidden_states
class CpmAntTransformerBlock(nn.Module):
def __init__(self, config: CpmAntConfig):
super().__init__()
self.self_att = CpmAntSelfAttentionBlock(config)
self.ffn = CpmAntFFNBlock(config)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: torch.Tensor,
position_bias: Optional[torch.Tensor] = None,
output_attentions: Optional[bool] = False,
past_key_values: Optional[Tuple[torch.Tensor, torch.Tensor]] = None,
use_cache: Optional[bool] = None,
):
"""
Args:
hidden_states (`torch.Tensor`):
Input to the layer of shape `(batch, seq_len, dim_model)`
attention_mask (`torch.Tensor`):
Avoid invalid areas to participate in the calculation of shape `(batch, seq_len, seq_len)`
position_bias (`torch.Tensor`):
Provides position information to attention mechanism of shape `(num_heads, seq_len, seq_len)`
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers.
past_key_values (`Tuple[torch.Tensor, torch.Tensor])`, *optional*):
Cached past key and value projection states
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding
(see `past_key_values`).
"""
hidden_states = self.self_att(
hidden_states,
attention_mask=attention_mask,
position_bias=position_bias,
output_attentions=output_attentions,
past_key_values=past_key_values,
use_cache=use_cache,
)
hidden_states, attn_weights, current_key_value = hidden_states
hidden_states = self.ffn(hidden_states)
return hidden_states, attn_weights, current_key_value
class CpmAntEncoder(nn.Module):
def __init__(self, config: CpmAntConfig):
super().__init__()
self.num_layers = config.num_hidden_layers
self.layers = nn.ModuleList([CpmAntTransformerBlock(config) for ith in range(self.num_layers)])
self.output_layernorm = CpmAntLayerNorm(config)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: torch.Tensor,
position_bias: torch.Tensor,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
past_key_values: Optional[Tuple[torch.Tensor, torch.Tensor]] = None,
use_cache: Optional[bool] = None,
):
"""
Args:
hidden_states (`torch.Tensor`):
Input to the layer of shape `(batch, seq_len, dim_model)`
attention_mask (`torch.Tensor`):
Avoid invalid areas to participate in the calculation of shape `(batch, seq_len, seq_len)`
position_bias (`torch.Tensor`):
Provides position information to attention mechanism of shape `(num_heads, seq_len, seq_len)`
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers.
past_key_values (`Tuple[torch.Tensor, torch.Tensor])`, *optional*):
Cached past key and value projection states
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding
(see `past_key_values`).
"""
all_hidden_states = () if output_hidden_states else None
all_self_attns = () if output_attentions else None
current_key_values = () if use_cache else None
for i, layer in enumerate(self.layers):
if output_hidden_states:
all_hidden_states += (hidden_states,)
layer_outputs = layer(
hidden_states,
attention_mask,
position_bias,
output_attentions=output_attentions,
past_key_values=past_key_values[i] if past_key_values else None,
use_cache=use_cache,
)
hidden_states, attn_weights, current_key_value = layer_outputs
if output_attentions:
all_self_attns += (attn_weights,)
if current_key_value is not None:
current_key_values = current_key_values + (current_key_value,)
hidden_states = self.output_layernorm(hidden_states)
if output_hidden_states:
all_hidden_states += (hidden_states,)
return hidden_states, current_key_values, all_hidden_states, all_self_attns
# Copied from transformers.models.bert.modeling_bert.BertIntermediate with Bert->CPMAnt
class CpmAntIntermediate(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.intermediate_size)
if isinstance(config.hidden_act, str):
self.intermediate_act_fn = ACT2FN[config.hidden_act]
else:
self.intermediate_act_fn = config.hidden_act
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.intermediate_act_fn(hidden_states)
return hidden_states
class CpmAntSegmentPositionEmbedding(nn.Module):
def __init__(self, config: CpmAntConfig):
super().__init__()
self.num_heads = config.num_attention_heads
self.num_buckets = config.position_bias_num_buckets
self.max_distance = config.position_bias_max_distance
self.num_segments = config.segment_types
self.relative_attention_bias = nn.Parameter(
torch.empty(
config.segment_types * config.segment_types + config.position_bias_num_buckets,
config.num_attention_heads,
)
)
def forward(
self,
key_pos: torch.Tensor,
query_pos: torch.Tensor,
key_segment: torch.Tensor,
query_segment: torch.Tensor,
):
with torch.no_grad():
batch = key_pos.size(0)
keylen = key_pos.size(1)
querylen = query_pos.size(1)
if key_pos.size(0) != query_pos.size(0):
raise AssertionError(
f"key_pos.size(0) should be equal to query_pos.size(0), but got {key_pos.size(0)} and {query_pos.size(0)}!"
)
if keylen != key_segment.size(1) or querylen != query_segment.size(1):
raise AssertionError(
f"keylen should be equal to key_segment.size(1), but got {keylen} and {key_segment.size(1)}!"
)
if querylen != query_segment.size(1):
raise AssertionError(
f"querylen should be equal to query_segment.size(1), but got {querylen} and {query_segment.szie(1)}!"
)
key_pos = key_pos.view(batch, -1, keylen)
query_pos = query_pos.view(batch, querylen, -1)
key_segment = key_segment.view(batch, -1, keylen)
query_segment = query_segment.view(batch, querylen, -1)
relative_position_bucket = self._segment_relative_position_bucket(query_segment, key_segment)
relative_position_bucket = relative_position_bucket + self.num_buckets
# (batch, len_q, len_k)
absolute_position_bucket = self._position_bucket(
torch.arange(keylen, dtype=torch.int32, device=relative_position_bucket.device)[None, :]
- torch.arange(querylen, dtype=torch.int32, device=relative_position_bucket.device)[:, None],
num_buckets=self.num_buckets,
max_distance=self.max_distance,
)
relative_position_bucket = torch.where(
(key_segment == query_segment),
absolute_position_bucket[None, :, :],
relative_position_bucket,
)
# (batch, len_q, len_k, num_heads)
embeds = F.embedding(relative_position_bucket, self.relative_attention_bias)
# (batch, num_heads, len_q, len_k)
embeds = embeds.permute(0, 3, 1, 2).contiguous()
return embeds
def _segment_relative_position_bucket(self, query_segment, key_segment):
return query_segment * self.num_segments + key_segment
def _position_bucket(self, relative_position, num_buckets=32, max_distance=128):
relative_buckets = 0
# always bidirectional in CPMAnt
num_buckets //= 2
relative_buckets = (relative_position > 0).to(torch.int32) * num_buckets
relative_position = torch.abs(relative_position)
max_exact = num_buckets // 2
is_small = relative_position < max_exact
relative_postion_if_large = max_exact + (
torch.log(relative_position.float() / max_exact)
/ math.log(max_distance / max_exact)
* (num_buckets - max_exact)
).to(torch.int32)
relative_postion_if_large = torch.min(
relative_postion_if_large,
torch.full_like(relative_postion_if_large, num_buckets - 1),
)
relative_buckets += torch.where(is_small, relative_position.to(torch.int32), relative_postion_if_large)
return relative_buckets
# Copied from transformers.models.bert.modeling_bert.BertOutput with Bert->CPMAnt
class CpmAntOutput(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.intermediate_size, config.hidden_size)
self.LayerNorm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
def forward(self, hidden_states: torch.Tensor, input_tensor: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states)
hidden_states = self.LayerNorm(hidden_states + input_tensor)
return hidden_states
class CpmAntPreTrainedModel(PreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
config_class = CpmAntConfig
base_model_prefix = "cpmant"
supports_gradient_checkpointing = True
def _init_weights(self, module):
"""Initialize the weights"""
if isinstance(module, nn.Linear):
module.weight.data.normal_(mean=0.0, std=self.config.init_std)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=self.config.init_std)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
elif isinstance(module, nn.LayerNorm):
module.bias.data.zero_()
module.weight.data.fill_(1.0)
elif isinstance(module, CpmAntLayerNorm):
module.weight.data.fill_(1.0)
elif isinstance(module, CpmAntSegmentPositionEmbedding):
module.relative_attention_bias.data.normal_(mean=0.0, std=self.config.init_std)
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, CpmAntEncoder):
module.gradient_checkpointing = value
CPMANT_START_DOCSTRING = r"""
This model is a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) sub-class. Use
it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage and
behavior.
Parameters
config ([`~CpmAntConfig`]): Model configuration class with all the parameters of the
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
CPMANT_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.Tensor` of shape `(batch_size, seq_len)`):
Indices of input sequence tokens in the vocabulary.
Indices can be obtained using [`CPMAntTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
past_key_values (`tuple(tuple(torch.FloatTensor))`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
Contains pre-computed hidden-states (key and values in the self-attention blocks and in the cross-attention
blocks) that can be used (see `past_key_values` input) to speed up sequential decoding.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
@add_start_docstrings(
"The bare CPMAnt Model outputting raw hidden-states without any specific head on top.",
CPMANT_START_DOCSTRING,
)
class CpmAntModel(CpmAntPreTrainedModel):
def __init__(self, config: CpmAntConfig):
super().__init__(config)
self.encoder = CpmAntEncoder(config)
self.segment_embedding = nn.Embedding(config.segment_types, config.hidden_size)
self.input_embedding = nn.Embedding(
config.vocab_size + config.prompt_types * config.prompt_length, config.hidden_size
)
self.position_bias = CpmAntSegmentPositionEmbedding(config)
self.prompt_length = config.prompt_length
self.vocab_size = config.vocab_size
self.post_init()
def get_input_embeddings(self):
return self.input_embedding
def set_input_embeddings(self, embeddings, **kwargs):
self.input_embedding = embeddings
def _prepare_attention_mask(self, input_ids, span, context, length):
batch = input_ids.size(0)
seqlen = input_ids.size(1)
device = input_ids.device
directional_mask_2d = torch.arange(seqlen, device=device) <= torch.arange(seqlen, device=device).view(-1, 1)
attention_mask = context[:, None, :] | (
context[:, :, None].logical_not() & directional_mask_2d.view(1, seqlen, seqlen)
)
attention_mask = attention_mask & (span[:, None, :] == span[:, :, None])
# mask for left padding
mask_1d = (
torch.tensor(list(range(seqlen - self.prompt_length))[::-1], device=device)[None, :].repeat(batch, 1)
< length[:, None]
)
mask_1d = torch.cat((torch.ones(batch, self.prompt_length, device=device).bool(), mask_1d), dim=1)
attention_mask = mask_1d.view(batch, seqlen, 1) & mask_1d.view(batch, 1, seqlen) & attention_mask
return attention_mask
@add_start_docstrings_to_model_forward(CPMANT_INPUTS_DOCSTRING)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=BaseModelOutputWithPast,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.Tensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
past_key_values: Optional[Tuple[Tuple[torch.Tensor]]] = None,
use_cache: Optional[bool] = None,
return_dict: Optional[bool] = None,
**kwargs,
):
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
use_cache = use_cache if use_cache is not None else self.config.use_cache
# add prompts ahead
if input_ids.dtype != torch.int32:
input_ids = input_ids.to(torch.int32)
dtype, device = input_ids.dtype, input_ids.device
segment = torch.where(input_ids != 0, 2, 0).to(dtype=dtype, device=device)
length = (segment != 0).sum(-1).to(dtype=dtype, device=device)
input_ids = torch.cat(
(
torch.arange(
self.prompt_length * 2 + self.vocab_size,
self.prompt_length * 3 + self.vocab_size,
dtype=dtype,
device=device,
).repeat(input_ids.size(0), 1),
input_ids,
),
dim=1,
)
batch, seq_length = input_ids.size()
segment = torch.cat((torch.zeros(batch, self.prompt_length, dtype=dtype, device=device), segment), dim=1)
context = torch.full((batch, seq_length), 1, dtype=dtype, device=device)
position = torch.arange(seq_length, dtype=dtype, device=device).repeat(batch, 1)
span = torch.full((batch, seq_length), 0, dtype=dtype, device=device)
if past_key_values is None:
past_length = 0
past_key_values = tuple([None] * self.encoder.num_layers)
input_ids = input_ids.contiguous()
hidden_states = self.input_embedding(input_ids)
segment_states = self.segment_embedding(segment)
hidden_states = hidden_states + segment_states
else:
past_length = past_key_values[0][0].size(-2)
segment_states = self.segment_embedding(segment)
hidden_states = self.input_embedding(input_ids) + segment_states[:, -1:, :]
attention_mask = self._prepare_attention_mask(input_ids, span, context, length)
position_bias = self.position_bias(position, position, segment, segment)
attention_mask = attention_mask[:, past_length:, :]
position_bias = position_bias[:, :, past_length:, :]
hidden_states = hidden_states[:, past_length:, :]
hidden_states, present_key_values, all_hidden_states, all_attentions = self.encoder(
hidden_states,
attention_mask,
position_bias,
output_attentions,
output_hidden_states,
past_key_values,
use_cache,
)
if past_length == 0:
hidden_states = hidden_states[:, self.prompt_length :, :]
# drop the prompt
if all_attentions is not None:
new_attentions = ()
for attention in all_attentions:
new_attentions += (attention[:, :, self.prompt_length :, self.prompt_length :],)
all_attentions = new_attentions
if all_hidden_states is not None:
new_hidden_states = ()
for hidden_state in all_hidden_states:
new_hidden_states += (hidden_state[:, self.prompt_length :, :],)
all_hidden_states = new_hidden_states
if not return_dict:
return tuple(
v for v in [hidden_states, present_key_values, all_hidden_states, all_attentions] if v is not None
)
return BaseModelOutputWithPast(
last_hidden_state=hidden_states,
past_key_values=present_key_values,
hidden_states=all_hidden_states,
attentions=all_attentions,
)
@add_start_docstrings(
"""
The CPMAnt Model with a language modeling head on top (linear layer with weights tied to the input embeddings).
""",
CPMANT_START_DOCSTRING,
)
class CpmAntForCausalLM(CpmAntPreTrainedModel):
_tied_weights_keys = ["lm_head.weight"]
def __init__(self, config: CpmAntConfig):
super().__init__(config)
self.cpmant = CpmAntModel(config)
# lm_head.weight is tied to cpmant.input_embedding.weight
self.lm_head = nn.Linear(
config.hidden_size, config.vocab_size + config.prompt_types * config.prompt_length, bias=False
)
self.post_init()
@add_start_docstrings_to_model_forward(CPMANT_INPUTS_DOCSTRING)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=CausalLMOutputWithPast,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.Tensor] = None,
past_key_values: Optional[List[Tuple[torch.Tensor, torch.Tensor]]] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
labels: Optional[torch.Tensor] = None,
return_dict: Optional[bool] = None,
attention_mask: Optional[torch.Tensor] = None, # dummy parameter for text-generation pipeline
**kwargs,
) -> Union[Tuple, CausalLMOutputWithPast]:
r"""
Args:
input_ids (`torch.Tensor` of shape `(batch_size, seq_len)`):
Indices of input sequence tokens in the vocabulary.
Indices can be obtained using [`CPMAntTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
past_key_values (`tuple(tuple(torch.FloatTensor))`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
Contains pre-computed hidden-states (key and values in the self-attention blocks and in the
cross-attention blocks) that can be used (see `past_key_values` input) to speed up sequential decoding.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding
(see `past_key_values`).
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers.
labels (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the masked language modeling loss.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
CPMAnt will process attention mask automatically, this parameter is a dummy parameter for
text-generation pipeline.
Example:
Text Generation with CpmAntForCausalLM.
```python
>>> from transformers import CPMAntTokenizer, CpmAntForCausalLM
>>> texts = "今天天气不错，"
>>> model = CpmAntForCausalLM.from_pretrained("openbmb/cpm-ant-10b")
>>> tokenizer = CPMAntTokenizer.from_pretrained("openbmb/cpm-ant-10b")
>>> input_ids = tokenizer(texts, return_tensors="pt")
>>> outputs = model.generate(**input_ids)
>>> output_texts = tokenizer.batch_decode(outputs)
>>> print(output_texts)
['今天天气不错，阳光明媚，我和妈妈一起去超市买东西。\n在超市里，我看到了一个很好玩的玩具，它的名字叫“机器人”。它有一个圆圆的脑袋，两只圆圆的眼睛，还有一个圆圆的']
```
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
model_output = self.cpmant(
input_ids, output_attentions, output_hidden_states, past_key_values, use_cache, return_dict
)
hidden_states = model_output.last_hidden_state if return_dict else model_output[0]
logits = self.lm_head(hidden_states)
loss = None
if labels is not None:
loss_func = CrossEntropyLoss()
loss = loss_func(logits.view(-1, logits.size(-1)), labels.view(-1))
if not return_dict:
output = (logits,) + model_output[1:]
return ((loss,) + output) if loss is not None else output
return CausalLMOutputWithPast(
loss=loss,
logits=logits,
past_key_values=model_output.past_key_values,
hidden_states=model_output.hidden_states,
attentions=model_output.attentions,
)
def get_input_embeddings(self):
return self.cpmant.input_embedding
def set_input_embeddings(self, embeddings):
self.cpmant.input_embedding = embeddings
def get_output_embeddings(self):
return self.lm_head
def set_output_embeddings(self, new_embeddings):
self.lm_head = new_embeddings
def prepare_inputs_for_generation(self, input_ids, **kwargs):
input_ids = input_ids.int()
# save the memory usage of dummy attention mask
if "attention_mask" in kwargs:
kwargs["attention_mask"] = torch.zeros(1, 1)
return {
"input_ids": input_ids,
"use_cache": kwargs["use_cache"],
"past_key_values": kwargs.get("past_key_values", None),
}
def _reorder_cache(self, past_key_values, beam_idx):
past_key_values = [list(each) if each is not None else each for each in past_key_values]
for key_value_layer in past_key_values:
key_value_layer[0] = key_value_layer[0][beam_idx]
key_value_layer[1] = key_value_layer[1][beam_idx]
return past_key_values
| transformers-main | src/transformers/models/cpmant/modeling_cpmant.py |
# coding=utf-8
# Copyright 2021 Iz Beltagy, Matthew E. Peters, Arman Cohan and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" TF 2.0 LED model."""
from __future__ import annotations
import random
from dataclasses import dataclass
from typing import List, Optional, Tuple, Union
import numpy as np
import tensorflow as tf
from ...activations_tf import get_tf_activation
from ...modeling_tf_outputs import TFBaseModelOutputWithPastAndCrossAttentions
# Public API
from ...modeling_tf_utils import (
TFModelInputType,
TFPreTrainedModel,
get_initializer,
keras_serializable,
unpack_inputs,
)
from ...tf_utils import check_embeddings_within_bounds, shape_list, stable_softmax
from ...utils import (
ContextManagers,
ModelOutput,
add_code_sample_docstrings,
add_start_docstrings,
add_start_docstrings_to_model_forward,
logging,
replace_return_docstrings,
)
from .configuration_led import LEDConfig
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "allenai/led-base-16384"
_CONFIG_FOR_DOC = "LEDConfig"
LARGE_NEGATIVE = -1e8
# Copied from transformers.models.bart.modeling_tf_bart.shift_tokens_right
def shift_tokens_right(input_ids: tf.Tensor, pad_token_id: int, decoder_start_token_id: int):
pad_token_id = tf.cast(pad_token_id, input_ids.dtype)
decoder_start_token_id = tf.cast(decoder_start_token_id, input_ids.dtype)
start_tokens = tf.fill(
(shape_list(input_ids)[0], 1), tf.convert_to_tensor(decoder_start_token_id, input_ids.dtype)
)
shifted_input_ids = tf.concat([start_tokens, input_ids[:, :-1]], -1)
# replace possible -100 values in labels by `pad_token_id`
shifted_input_ids = tf.where(
shifted_input_ids == -100,
tf.fill(shape_list(shifted_input_ids), tf.convert_to_tensor(pad_token_id, input_ids.dtype)),
shifted_input_ids,
)
# "Verify that `labels` has only positive values and -100"
assert_gte0 = tf.debugging.assert_greater_equal(shifted_input_ids, tf.constant(0, dtype=input_ids.dtype))
# Make sure the assertion op is called by wrapping the result in an identity no-op
with tf.control_dependencies([assert_gte0]):
shifted_input_ids = tf.identity(shifted_input_ids)
return shifted_input_ids
# Copied from transformers.models.bart.modeling_tf_bart._make_causal_mask
def _make_causal_mask(input_ids_shape: tf.TensorShape, past_key_values_length: int = 0):
"""
Make causal mask used for bi-directional self-attention.
"""
bsz = input_ids_shape[0]
tgt_len = input_ids_shape[1]
mask = tf.ones((tgt_len, tgt_len)) * LARGE_NEGATIVE
mask_cond = tf.range(shape_list(mask)[-1])
mask = tf.where(mask_cond < tf.reshape(mask_cond + 1, (shape_list(mask)[-1], 1)), 0.0, mask)
if past_key_values_length > 0:
mask = tf.concat([tf.zeros((tgt_len, past_key_values_length)), mask], axis=-1)
return tf.tile(mask[None, None, :, :], (bsz, 1, 1, 1))
# Copied from transformers.models.bart.modeling_tf_bart._expand_mask
def _expand_mask(mask: tf.Tensor, tgt_len: Optional[int] = None):
"""
Expands attention_mask from `[bsz, seq_len]` to `[bsz, 1, tgt_seq_len, src_seq_len]`.
"""
src_len = shape_list(mask)[1]
tgt_len = tgt_len if tgt_len is not None else src_len
one_cst = tf.constant(1.0)
mask = tf.cast(mask, dtype=one_cst.dtype)
expanded_mask = tf.tile(mask[:, None, None, :], (1, 1, tgt_len, 1))
return (one_cst - expanded_mask) * LARGE_NEGATIVE
class TFLEDLearnedPositionalEmbedding(tf.keras.layers.Embedding):
"""
This module learns positional embeddings up to a fixed maximum size.
"""
def __init__(self, num_embeddings: int, embedding_dim: int, **kwargs):
super().__init__(num_embeddings, embedding_dim, **kwargs)
def call(self, input_shape: tf.TensorShape, past_key_values_length: int = 0):
"""Input is expected to be of size [bsz x seqlen]."""
seq_len = input_shape[1]
position_ids = tf.range(seq_len, delta=1, name="range")
position_ids += past_key_values_length
return super().call(tf.cast(position_ids, dtype=tf.int32))
# Copied from transformers.models.longformer.modeling_tf_longformer.TFLongformerSelfAttention with TFLongformer->TFLEDEncoder
class TFLEDEncoderSelfAttention(tf.keras.layers.Layer):
def __init__(self, config, layer_id, **kwargs):
super().__init__(**kwargs)
self.config = config
if config.hidden_size % config.num_attention_heads != 0:
raise ValueError(
f"The hidden size ({config.hidden_size}) is not a multiple of the number of attention "
f"heads ({config.num_attention_heads}"
)
self.num_heads = config.num_attention_heads
self.head_dim = int(config.hidden_size / config.num_attention_heads)
self.embed_dim = config.hidden_size
self.query = tf.keras.layers.Dense(
self.embed_dim,
kernel_initializer=get_initializer(config.initializer_range),
name="query",
)
self.key = tf.keras.layers.Dense(
self.embed_dim,
kernel_initializer=get_initializer(config.initializer_range),
name="key",
)
self.value = tf.keras.layers.Dense(
self.embed_dim,
kernel_initializer=get_initializer(config.initializer_range),
name="value",
)
# separate projection layers for tokens with global attention
self.query_global = tf.keras.layers.Dense(
self.embed_dim,
kernel_initializer=get_initializer(config.initializer_range),
name="query_global",
)
self.key_global = tf.keras.layers.Dense(
self.embed_dim,
kernel_initializer=get_initializer(config.initializer_range),
name="key_global",
)
self.value_global = tf.keras.layers.Dense(
self.embed_dim,
kernel_initializer=get_initializer(config.initializer_range),
name="value_global",
)
self.dropout = tf.keras.layers.Dropout(config.attention_probs_dropout_prob)
self.global_dropout = tf.keras.layers.Dropout(config.attention_probs_dropout_prob)
self.layer_id = layer_id
attention_window = config.attention_window[self.layer_id]
assert (
attention_window % 2 == 0
), f"`attention_window` for layer {self.layer_id} has to be an even value. Given {attention_window}"
assert (
attention_window > 0
), f"`attention_window` for layer {self.layer_id} has to be positive. Given {attention_window}"
self.one_sided_attn_window_size = attention_window // 2
def build(self, input_shape=None):
if not self.built:
with tf.name_scope("query_global"):
self.query_global.build((self.config.hidden_size,))
with tf.name_scope("key_global"):
self.key_global.build((self.config.hidden_size,))
with tf.name_scope("value_global"):
self.value_global.build((self.config.hidden_size,))
super().build(input_shape)
def call(
self,
inputs,
training=False,
):
"""
LongformerSelfAttention expects *len(hidden_states)* to be multiple of *attention_window*. Padding to
*attention_window* happens in LongformerModel.forward to avoid redoing the padding on each layer.
The *attention_mask* is changed in [`LongformerModel.forward`] from 0, 1, 2 to:
- -10000: no attention
- 0: local attention
- +10000: global attention
"""
# retrieve input args
(
hidden_states,
attention_mask,
layer_head_mask,
is_index_masked,
is_index_global_attn,
is_global_attn,
) = inputs
# project hidden states
query_vectors = self.query(hidden_states)
key_vectors = self.key(hidden_states)
value_vectors = self.value(hidden_states)
batch_size, seq_len, embed_dim = shape_list(hidden_states)
tf.debugging.assert_equal(
embed_dim,
self.embed_dim,
message=f"hidden_states should have embed_dim = {self.embed_dim}, but has {embed_dim}",
)
# normalize query
query_vectors /= tf.math.sqrt(tf.cast(self.head_dim, dtype=query_vectors.dtype))
query_vectors = tf.reshape(query_vectors, (batch_size, seq_len, self.num_heads, self.head_dim))
key_vectors = tf.reshape(key_vectors, (batch_size, seq_len, self.num_heads, self.head_dim))
# attn_probs = (batch_size, seq_len, num_heads, window*2+1)
attn_scores = self._sliding_chunks_query_key_matmul(
query_vectors, key_vectors, self.one_sided_attn_window_size
)
# values to pad for attention probs
remove_from_windowed_attention_mask = attention_mask != 0
# cast to fp32/fp16 then replace 1's with -inf
float_mask = tf.cast(remove_from_windowed_attention_mask, dtype=query_vectors.dtype) * LARGE_NEGATIVE
# diagonal mask with zeros everywhere and -inf inplace of padding
diagonal_mask = self._sliding_chunks_query_key_matmul(
tf.ones(shape_list(attention_mask)),
float_mask,
self.one_sided_attn_window_size,
)
# pad local attention probs
attn_scores += diagonal_mask
tf.debugging.assert_equal(
shape_list(attn_scores),
[batch_size, seq_len, self.num_heads, self.one_sided_attn_window_size * 2 + 1],
message=(
f"attn_probs should be of size ({batch_size}, {seq_len}, {self.num_heads},"
f" {self.one_sided_attn_window_size * 2 + 1}), but is of size {shape_list(attn_scores)}"
),
)
# compute global attn indices required through out forward fn
(
max_num_global_attn_indices,
is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero,
) = self._get_global_attn_indices(is_index_global_attn)
# this function is only relevant for global attention
if is_global_attn:
attn_scores = self._concat_with_global_key_attn_probs(
attn_scores=attn_scores,
query_vectors=query_vectors,
key_vectors=key_vectors,
max_num_global_attn_indices=max_num_global_attn_indices,
is_index_global_attn_nonzero=is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero=is_local_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero=is_local_index_no_global_attn_nonzero,
)
attn_probs = stable_softmax(attn_scores, axis=-1)
# softmax sometimes inserts NaN if all positions are masked, replace them with 0
# Make sure to create a mask with the proper shape:
# if is_global_attn==True => [batch_size, seq_len, self.num_heads, self.one_sided_attn_window_size * 2 + max_num_global_attn_indices + 1]
# if is_global_attn==False => [batch_size, seq_len, self.num_heads, self.one_sided_attn_window_size * 2 + 1]
if is_global_attn:
masked_index = tf.tile(
is_index_masked[:, :, None, None],
(1, 1, self.num_heads, self.one_sided_attn_window_size * 2 + max_num_global_attn_indices + 1),
)
else:
masked_index = tf.tile(
is_index_masked[:, :, None, None],
(1, 1, self.num_heads, self.one_sided_attn_window_size * 2 + 1),
)
attn_probs = tf.where(
masked_index,
tf.zeros(shape_list(masked_index), dtype=attn_probs.dtype),
attn_probs,
)
if layer_head_mask is not None:
tf.debugging.assert_equal(
shape_list(layer_head_mask),
[self.num_heads],
message=(
f"Head mask for a single layer should be of size {(self.num_heads)}, but is"
f" {shape_list(layer_head_mask)}"
),
)
attn_probs = tf.reshape(layer_head_mask, (1, 1, -1, 1)) * attn_probs
# apply dropout
attn_probs = self.dropout(attn_probs, training=training)
value_vectors = tf.reshape(value_vectors, (batch_size, seq_len, self.num_heads, self.head_dim))
# if global attention, compute sum of global and local attn
if is_global_attn:
attn_output = self._compute_attn_output_with_global_indices(
value_vectors=value_vectors,
attn_probs=attn_probs,
max_num_global_attn_indices=max_num_global_attn_indices,
is_index_global_attn_nonzero=is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero=is_local_index_global_attn_nonzero,
)
else:
attn_output = self._sliding_chunks_matmul_attn_probs_value(
attn_probs, value_vectors, self.one_sided_attn_window_size
)
tf.debugging.assert_equal(
shape_list(attn_output), [batch_size, seq_len, self.num_heads, self.head_dim], message="Unexpected size"
)
attn_output = tf.reshape(attn_output, (batch_size, seq_len, embed_dim))
# compute value for global attention and overwrite to attention output
if is_global_attn:
attn_output, global_attn_probs = self._compute_global_attn_output_from_hidden(
attn_output=attn_output,
hidden_states=hidden_states,
max_num_global_attn_indices=max_num_global_attn_indices,
layer_head_mask=layer_head_mask,
is_local_index_global_attn_nonzero=is_local_index_global_attn_nonzero,
is_index_global_attn_nonzero=is_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero=is_local_index_no_global_attn_nonzero,
is_index_masked=is_index_masked,
training=training,
)
else:
# Leave attn_output unchanged
global_attn_probs = tf.zeros((batch_size, self.num_heads, max_num_global_attn_indices, seq_len))
# make sure that local attention probabilities are set to 0 for indices of global attn
# Make sure to create a mask with the proper shape:
# if is_global_attn==True => [batch_size, seq_len, self.num_heads, self.one_sided_attn_window_size * 2 + max_num_global_attn_indices + 1]
# if is_global_attn==False => [batch_size, seq_len, self.num_heads, self.one_sided_attn_window_size * 2 + 1]
if is_global_attn:
masked_global_attn_index = tf.tile(
is_index_global_attn[:, :, None, None],
(1, 1, self.num_heads, self.one_sided_attn_window_size * 2 + max_num_global_attn_indices + 1),
)
else:
masked_global_attn_index = tf.tile(
is_index_global_attn[:, :, None, None],
(1, 1, self.num_heads, self.one_sided_attn_window_size * 2 + 1),
)
attn_probs = tf.where(
masked_global_attn_index,
tf.zeros(shape_list(masked_global_attn_index), dtype=attn_probs.dtype),
attn_probs,
)
outputs = (attn_output, attn_probs, global_attn_probs)
return outputs
def _sliding_chunks_query_key_matmul(self, query, key, window_overlap):
"""
Matrix multiplication of query and key tensors using with a sliding window attention pattern. This
implementation splits the input into overlapping chunks of size 2w (e.g. 512 for pretrained Longformer) with an
overlap of size window_overlap
"""
batch_size, seq_len, num_heads, head_dim = shape_list(query)
tf.debugging.assert_equal(
seq_len % (window_overlap * 2),
0,
message=f"Sequence length should be multiple of {window_overlap * 2}. Given {seq_len}",
)
tf.debugging.assert_equal(
shape_list(query),
shape_list(key),
message=(
f"Shape of query and key should be equal, but got query: {shape_list(query)} and key:"
f" {shape_list(key)}"
),
)
chunks_count = seq_len // window_overlap - 1
# group batch_size and num_heads dimensions into one, then chunk seq_len into chunks of size window_overlap * 2
query = tf.reshape(
tf.transpose(query, (0, 2, 1, 3)),
(batch_size * num_heads, seq_len, head_dim),
)
key = tf.reshape(tf.transpose(key, (0, 2, 1, 3)), (batch_size * num_heads, seq_len, head_dim))
chunked_query = self._chunk(query, window_overlap)
chunked_key = self._chunk(key, window_overlap)
# matrix multiplication
# bcxd: batch_size * num_heads x chunks x 2window_overlap x head_dim
# bcyd: batch_size * num_heads x chunks x 2window_overlap x head_dim
# bcxy: batch_size * num_heads x chunks x 2window_overlap x 2window_overlap
chunked_query = tf.cast(chunked_query, dtype=chunked_key.dtype)
chunked_attention_scores = tf.einsum("bcxd,bcyd->bcxy", chunked_query, chunked_key) # multiply
# convert diagonals into columns
paddings = tf.convert_to_tensor([[0, 0], [0, 0], [0, 1], [0, 0]])
diagonal_chunked_attention_scores = self._pad_and_transpose_last_two_dims(chunked_attention_scores, paddings)
# allocate space for the overall attention matrix where the chunks are combined. The last dimension
# has (window_overlap * 2 + 1) columns. The first (window_overlap) columns are the window_overlap lower triangles (attention from a word to
# window_overlap previous words). The following column is attention score from each word to itself, then
# followed by window_overlap columns for the upper triangle.
# copy parts from diagonal_chunked_attention_scores into the combined matrix of attentions
# - copying the main diagonal and the upper triangle
# TODO: This code is most likely not very efficient and should be improved
diagonal_attn_scores_up_triang = tf.concat(
[
diagonal_chunked_attention_scores[:, :, :window_overlap, : window_overlap + 1],
diagonal_chunked_attention_scores[:, -1:, window_overlap:, : window_overlap + 1],
],
axis=1,
)
# - copying the lower triangle
diagonal_attn_scores_low_triang = tf.concat(
[
tf.zeros(
(batch_size * num_heads, 1, window_overlap, window_overlap),
dtype=diagonal_chunked_attention_scores.dtype,
),
diagonal_chunked_attention_scores[:, :, -(window_overlap + 1) : -1, window_overlap + 1 :],
],
axis=1,
)
diagonal_attn_scores_first_chunk = tf.concat(
[
tf.roll(
diagonal_chunked_attention_scores,
shift=[1, window_overlap],
axis=[2, 3],
)[:, :, :window_overlap, :window_overlap],
tf.zeros(
(batch_size * num_heads, 1, window_overlap, window_overlap),
dtype=diagonal_chunked_attention_scores.dtype,
),
],
axis=1,
)
first_chunk_mask = (
tf.tile(
tf.range(chunks_count + 1, dtype=tf.int64)[None, :, None, None],
(batch_size * num_heads, 1, window_overlap, window_overlap),
)
< 1
)
diagonal_attn_scores_low_triang = tf.where(
first_chunk_mask,
diagonal_attn_scores_first_chunk,
diagonal_attn_scores_low_triang,
)
# merging upper and lower triangle
diagonal_attention_scores = tf.concat(
[diagonal_attn_scores_low_triang, diagonal_attn_scores_up_triang], axis=-1
)
# separate batch_size and num_heads dimensions again
diagonal_attention_scores = tf.transpose(
tf.reshape(
diagonal_attention_scores,
(batch_size, num_heads, seq_len, 2 * window_overlap + 1),
),
(0, 2, 1, 3),
)
diagonal_attention_scores = self._mask_invalid_locations(diagonal_attention_scores, window_overlap)
return diagonal_attention_scores
@staticmethod
def _mask_invalid_locations(input_tensor, window_overlap):
# create correct upper triangle bool mask
mask_2d_upper = tf.reverse(
tf.linalg.band_part(tf.ones(shape=(window_overlap, window_overlap + 1)), -1, 0),
axis=[0],
)
# pad to full matrix
padding = tf.convert_to_tensor(
[[0, shape_list(input_tensor)[1] - window_overlap], [0, shape_list(input_tensor)[3] - window_overlap - 1]]
)
# create lower mask
mask_2d = tf.pad(mask_2d_upper, padding)
# combine with upper mask
mask_2d = mask_2d + tf.reverse(mask_2d, axis=[0, 1])
# broadcast to full matrix
mask_4d = tf.tile(mask_2d[None, :, None, :], (shape_list(input_tensor)[0], 1, 1, 1))
# inf tensor used for masking
inf_tensor = -float("inf") * tf.ones_like(input_tensor)
# mask
input_tensor = tf.where(tf.math.greater(mask_4d, 0), inf_tensor, input_tensor)
return input_tensor
def _sliding_chunks_matmul_attn_probs_value(self, attn_probs, value, window_overlap):
"""
Same as _sliding_chunks_query_key_matmul but for attn_probs and value tensors. Returned tensor will be of the
same shape as `attn_probs`
"""
batch_size, seq_len, num_heads, head_dim = shape_list(value)
tf.debugging.assert_equal(
seq_len % (window_overlap * 2), 0, message="Seq_len has to be multiple of 2 * window_overlap"
)
tf.debugging.assert_equal(
shape_list(attn_probs)[:3],
shape_list(value)[:3],
message="value and attn_probs must have same dims (except head_dim)",
)
tf.debugging.assert_equal(
shape_list(attn_probs)[3],
2 * window_overlap + 1,
message="attn_probs last dim has to be 2 * window_overlap + 1",
)
chunks_count = seq_len // window_overlap - 1
# group batch_size and num_heads dimensions into one, then chunk seq_len into chunks of size 2 window overlap
chunked_attn_probs = tf.reshape(
tf.transpose(attn_probs, (0, 2, 1, 3)),
(
batch_size * num_heads,
seq_len // window_overlap,
window_overlap,
2 * window_overlap + 1,
),
)
# group batch_size and num_heads dimensions into one
value = tf.reshape(
tf.transpose(value, (0, 2, 1, 3)),
(batch_size * num_heads, seq_len, head_dim),
)
# pad seq_len with w at the beginning of the sequence and another window overlap at the end
paddings = tf.convert_to_tensor([[0, 0], [window_overlap, window_overlap], [0, 0]])
padded_value = tf.pad(value, paddings, constant_values=-1)
# chunk padded_value into chunks of size 3 window overlap and an overlap of size window overlap
frame_size = 3 * window_overlap * head_dim
frame_hop_size = (shape_list(padded_value)[1] * head_dim - frame_size) // chunks_count
chunked_value = tf.signal.frame(
tf.reshape(padded_value, (batch_size * num_heads, -1)),
frame_size,
frame_hop_size,
)
chunked_value = tf.reshape(
chunked_value,
(batch_size * num_heads, chunks_count + 1, 3 * window_overlap, head_dim),
)
tf.debugging.assert_equal(
shape_list(chunked_value),
[batch_size * num_heads, chunks_count + 1, 3 * window_overlap, head_dim],
message="Chunked value has the wrong shape",
)
chunked_attn_probs = self._pad_and_diagonalize(chunked_attn_probs)
context = tf.einsum("bcwd,bcdh->bcwh", chunked_attn_probs, chunked_value)
context = tf.transpose(
tf.reshape(context, (batch_size, num_heads, seq_len, head_dim)),
(0, 2, 1, 3),
)
return context
@staticmethod
def _pad_and_transpose_last_two_dims(hidden_states_padded, paddings):
"""pads rows and then flips rows and columns"""
hidden_states_padded = tf.pad(
hidden_states_padded, paddings
) # padding value is not important because it will be overwritten
batch_size, chunk_size, seq_length, hidden_dim = shape_list(hidden_states_padded)
hidden_states_padded = tf.reshape(hidden_states_padded, (batch_size, chunk_size, hidden_dim, seq_length))
return hidden_states_padded
@staticmethod
def _pad_and_diagonalize(chunked_hidden_states):
"""
shift every row 1 step right, converting columns into diagonals.
Example:
```python
chunked_hidden_states: [
0.4983,
2.6918,
-0.0071,
1.0492,
-1.8348,
0.7672,
0.2986,
0.0285,
-0.7584,
0.4206,
-0.0405,
0.1599,
2.0514,
-1.1600,
0.5372,
0.2629,
]
window_overlap = num_rows = 4
```
(pad & diagonalize) => [ 0.4983, 2.6918, -0.0071, 1.0492, 0.0000, 0.0000, 0.0000
0.0000, -1.8348, 0.7672, 0.2986, 0.0285, 0.0000, 0.0000 0.0000, 0.0000, -0.7584, 0.4206,
-0.0405, 0.1599, 0.0000 0.0000, 0.0000, 0.0000, 2.0514, -1.1600, 0.5372, 0.2629 ]
"""
total_num_heads, num_chunks, window_overlap, hidden_dim = shape_list(chunked_hidden_states)
paddings = tf.convert_to_tensor([[0, 0], [0, 0], [0, 0], [0, window_overlap + 1]])
chunked_hidden_states = tf.pad(
chunked_hidden_states, paddings
) # total_num_heads x num_chunks x window_overlap x (hidden_dim+window_overlap+1). Padding value is not important because it'll be overwritten
chunked_hidden_states = tf.reshape(
chunked_hidden_states, (total_num_heads, num_chunks, -1)
) # total_num_heads x num_chunks x window_overlapL+window_overlapwindow_overlap+window_overlap
chunked_hidden_states = chunked_hidden_states[
:, :, :-window_overlap
] # total_num_heads x num_chunks x window_overlapL+window_overlapwindow_overlap
chunked_hidden_states = tf.reshape(
chunked_hidden_states,
(total_num_heads, num_chunks, window_overlap, window_overlap + hidden_dim),
) # total_num_heads x num_chunks, window_overlap x hidden_dim+window_overlap
chunked_hidden_states = chunked_hidden_states[:, :, :, :-1]
return chunked_hidden_states
@staticmethod
def _chunk(hidden_states, window_overlap):
"""convert into overlapping chunks. Chunk size = 2w, overlap size = w"""
batch_size, seq_length, hidden_dim = shape_list(hidden_states)
num_output_chunks = 2 * (seq_length // (2 * window_overlap)) - 1
# define frame size and frame stride (similar to convolution)
frame_hop_size = window_overlap * hidden_dim
frame_size = 2 * frame_hop_size
hidden_states = tf.reshape(hidden_states, (batch_size, seq_length * hidden_dim))
# chunk with overlap
chunked_hidden_states = tf.signal.frame(hidden_states, frame_size, frame_hop_size)
tf.debugging.assert_equal(
shape_list(chunked_hidden_states),
[batch_size, num_output_chunks, frame_size],
message=(
"Make sure chunking is correctly applied. `Chunked hidden states should have output dimension"
f" {[batch_size, frame_size, num_output_chunks]}, but got {shape_list(chunked_hidden_states)}."
),
)
chunked_hidden_states = tf.reshape(
chunked_hidden_states,
(batch_size, num_output_chunks, 2 * window_overlap, hidden_dim),
)
return chunked_hidden_states
@staticmethod
def _get_global_attn_indices(is_index_global_attn):
"""compute global attn indices required throughout forward pass"""
# helper variable
num_global_attn_indices = tf.math.count_nonzero(is_index_global_attn, axis=1)
num_global_attn_indices = tf.cast(num_global_attn_indices, dtype=tf.constant(1).dtype)
# max number of global attn indices in batch
max_num_global_attn_indices = tf.reduce_max(num_global_attn_indices)
# indices of global attn
is_index_global_attn_nonzero = tf.where(is_index_global_attn)
# helper variable
is_local_index_global_attn = tf.range(max_num_global_attn_indices) < tf.expand_dims(
num_global_attn_indices, axis=-1
)
# location of the non-padding values within global attention indices
is_local_index_global_attn_nonzero = tf.where(is_local_index_global_attn)
# location of the padding values within global attention indices
is_local_index_no_global_attn_nonzero = tf.where(tf.math.logical_not(is_local_index_global_attn))
return (
max_num_global_attn_indices,
is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero,
)
def _concat_with_global_key_attn_probs(
self,
attn_scores,
key_vectors,
query_vectors,
max_num_global_attn_indices,
is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero,
):
batch_size = shape_list(key_vectors)[0]
# select global key vectors
global_key_vectors = tf.gather_nd(key_vectors, is_index_global_attn_nonzero)
# create only global key vectors
key_vectors_only_global = tf.scatter_nd(
is_local_index_global_attn_nonzero,
global_key_vectors,
shape=(
batch_size,
max_num_global_attn_indices,
self.num_heads,
self.head_dim,
),
)
# (batch_size, seq_len, num_heads, max_num_global_attn_indices)
attn_probs_from_global_key = tf.einsum("blhd,bshd->blhs", query_vectors, key_vectors_only_global)
# (batch_size, max_num_global_attn_indices, seq_len, num_heads)
attn_probs_from_global_key_trans = tf.transpose(attn_probs_from_global_key, (0, 3, 1, 2))
mask_shape = (shape_list(is_local_index_no_global_attn_nonzero)[0],) + tuple(
shape_list(attn_probs_from_global_key_trans)[-2:]
)
mask = tf.ones(mask_shape) * -10000.0
mask = tf.cast(mask, dtype=attn_probs_from_global_key_trans.dtype)
# scatter mask
attn_probs_from_global_key_trans = tf.tensor_scatter_nd_update(
attn_probs_from_global_key_trans,
is_local_index_no_global_attn_nonzero,
mask,
)
# (batch_size, seq_len, num_heads, max_num_global_attn_indices)
attn_probs_from_global_key = tf.transpose(attn_probs_from_global_key_trans, (0, 2, 3, 1))
# concat to attn_probs
# (batch_size, seq_len, num_heads, extra attention count + 2*window+1)
attn_scores = tf.concat((attn_probs_from_global_key, attn_scores), axis=-1)
return attn_scores
def _compute_attn_output_with_global_indices(
self,
value_vectors,
attn_probs,
max_num_global_attn_indices,
is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero,
):
batch_size = shape_list(attn_probs)[0]
# cut local attn probs to global only
attn_probs_only_global = attn_probs[:, :, :, :max_num_global_attn_indices]
# select global value vectors
global_value_vectors = tf.gather_nd(value_vectors, is_index_global_attn_nonzero)
# create only global value vectors
value_vectors_only_global = tf.scatter_nd(
is_local_index_global_attn_nonzero,
global_value_vectors,
shape=(
batch_size,
max_num_global_attn_indices,
self.num_heads,
self.head_dim,
),
)
# compute attn output only global
attn_output_only_global = tf.einsum("blhs,bshd->blhd", attn_probs_only_global, value_vectors_only_global)
# reshape attn probs
attn_probs_without_global = attn_probs[:, :, :, max_num_global_attn_indices:]
# compute attn output with global
attn_output_without_global = self._sliding_chunks_matmul_attn_probs_value(
attn_probs_without_global, value_vectors, self.one_sided_attn_window_size
)
return attn_output_only_global + attn_output_without_global
def _compute_global_attn_output_from_hidden(
self,
attn_output,
hidden_states,
max_num_global_attn_indices,
layer_head_mask,
is_local_index_global_attn_nonzero,
is_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero,
is_index_masked,
training,
):
batch_size, seq_len = shape_list(hidden_states)[:2]
# prepare global hidden states
global_attn_hidden_states = tf.gather_nd(hidden_states, is_index_global_attn_nonzero)
global_attn_hidden_states = tf.scatter_nd(
is_local_index_global_attn_nonzero,
global_attn_hidden_states,
shape=(batch_size, max_num_global_attn_indices, self.embed_dim),
)
# global key, query, value
global_query_vectors_only_global = self.query_global(global_attn_hidden_states)
global_key_vectors = self.key_global(hidden_states)
global_value_vectors = self.value_global(hidden_states)
# normalize
global_query_vectors_only_global /= tf.math.sqrt(
tf.cast(self.head_dim, dtype=global_query_vectors_only_global.dtype)
)
global_query_vectors_only_global = self.reshape_and_transpose(global_query_vectors_only_global, batch_size)
global_key_vectors = self.reshape_and_transpose(global_key_vectors, batch_size)
global_value_vectors = self.reshape_and_transpose(global_value_vectors, batch_size)
# compute attn scores
global_attn_scores = tf.matmul(global_query_vectors_only_global, global_key_vectors, transpose_b=True)
tf.debugging.assert_equal(
shape_list(global_attn_scores),
[batch_size * self.num_heads, max_num_global_attn_indices, seq_len],
message=(
"global_attn_scores have the wrong size. Size should be"
f" {(batch_size * self.num_heads, max_num_global_attn_indices, seq_len)}, but is"
f" {shape_list(global_attn_scores)}."
),
)
global_attn_scores = tf.reshape(
global_attn_scores,
(batch_size, self.num_heads, max_num_global_attn_indices, seq_len),
)
global_attn_scores_trans = tf.transpose(global_attn_scores, (0, 2, 1, 3))
mask_shape = (shape_list(is_local_index_no_global_attn_nonzero)[0],) + tuple(
shape_list(global_attn_scores_trans)[-2:]
)
global_attn_mask = tf.ones(mask_shape) * -10000.0
global_attn_mask = tf.cast(global_attn_mask, dtype=global_attn_scores_trans.dtype)
# scatter mask
global_attn_scores_trans = tf.tensor_scatter_nd_update(
global_attn_scores_trans,
is_local_index_no_global_attn_nonzero,
global_attn_mask,
)
global_attn_scores = tf.transpose(global_attn_scores_trans, (0, 2, 1, 3))
# mask global attn scores
attn_mask = tf.tile(is_index_masked[:, None, None, :], (1, shape_list(global_attn_scores)[1], 1, 1))
global_attn_scores = tf.where(attn_mask, -10000.0, global_attn_scores)
global_attn_scores = tf.reshape(
global_attn_scores,
(batch_size * self.num_heads, max_num_global_attn_indices, seq_len),
)
# compute global attn probs
global_attn_probs_float = stable_softmax(global_attn_scores, axis=-1)
# apply layer head masking
if layer_head_mask is not None:
tf.debugging.assert_equal(
shape_list(layer_head_mask),
[self.num_heads],
message=(
f"Head mask for a single layer should be of size {(self.num_heads)}, but is"
f" {shape_list(layer_head_mask)}"
),
)
global_attn_probs_float = tf.reshape(layer_head_mask, (1, -1, 1, 1)) * tf.reshape(
global_attn_probs_float, (batch_size, self.num_heads, max_num_global_attn_indices, seq_len)
)
global_attn_probs_float = tf.reshape(
global_attn_probs_float, (batch_size * self.num_heads, max_num_global_attn_indices, seq_len)
)
# dropout
global_attn_probs = self.global_dropout(global_attn_probs_float, training=training)
# global attn output
global_attn_output = tf.matmul(global_attn_probs, global_value_vectors)
tf.debugging.assert_equal(
shape_list(global_attn_output),
[batch_size * self.num_heads, max_num_global_attn_indices, self.head_dim],
message=(
"global_attn_output tensor has the wrong size. Size should be"
f" {(batch_size * self.num_heads, max_num_global_attn_indices, self.head_dim)}, but is"
f" {shape_list(global_attn_output)}."
),
)
global_attn_output = tf.reshape(
global_attn_output,
(batch_size, self.num_heads, max_num_global_attn_indices, self.head_dim),
)
# get only non zero global attn output
nonzero_global_attn_output = tf.gather_nd(
tf.transpose(global_attn_output, (0, 2, 1, 3)),
is_local_index_global_attn_nonzero,
)
nonzero_global_attn_output = tf.reshape(
nonzero_global_attn_output,
(shape_list(is_local_index_global_attn_nonzero)[0], -1),
)
# overwrite values with global attention
attn_output = tf.tensor_scatter_nd_update(
attn_output, is_index_global_attn_nonzero, nonzero_global_attn_output
)
global_attn_probs = tf.reshape(
global_attn_probs, (batch_size, self.num_heads, max_num_global_attn_indices, seq_len)
)
return attn_output, global_attn_probs
def reshape_and_transpose(self, vector, batch_size):
return tf.reshape(
tf.transpose(
tf.reshape(vector, (batch_size, -1, self.num_heads, self.head_dim)),
(0, 2, 1, 3),
),
(batch_size * self.num_heads, -1, self.head_dim),
)
class TFLEDEncoderAttention(tf.keras.layers.Layer):
def __init__(self, config, layer_id, **kwargs):
super().__init__(**kwargs)
self.longformer_self_attn = TFLEDEncoderSelfAttention(config, layer_id=layer_id, name="longformer_self_attn")
self.output_dense = tf.keras.layers.Dense(config.d_model, use_bias=True, name="output")
def call(self, inputs, training=False):
(
hidden_states,
attention_mask,
layer_head_mask,
is_index_masked,
is_index_global_attn,
is_global_attn,
) = inputs
self_outputs = self.longformer_self_attn(
[hidden_states, attention_mask, layer_head_mask, is_index_masked, is_index_global_attn, is_global_attn],
training=training,
)
attention_output = self.output_dense(self_outputs[0], training=training)
outputs = (attention_output,) + self_outputs[1:]
return outputs
class TFLEDDecoderAttention(tf.keras.layers.Layer):
"""Multi-headed attention from "Attention Is All You Need"""
def __init__(
self,
embed_dim: int,
num_heads: int,
dropout: float = 0.0,
is_decoder: bool = False,
bias: bool = True,
**kwargs,
):
super().__init__(**kwargs)
self.embed_dim = embed_dim
self.num_heads = num_heads
self.dropout = tf.keras.layers.Dropout(dropout)
self.head_dim = embed_dim // num_heads
assert self.head_dim * num_heads == self.embed_dim, "embed_dim must be divisible by num_heads"
self.scaling = self.head_dim**-0.5
self.is_decoder = is_decoder
self.k_proj = tf.keras.layers.Dense(embed_dim, use_bias=bias, name="k_proj")
self.q_proj = tf.keras.layers.Dense(embed_dim, use_bias=bias, name="q_proj")
self.v_proj = tf.keras.layers.Dense(embed_dim, use_bias=bias, name="v_proj")
self.out_proj = tf.keras.layers.Dense(embed_dim, use_bias=bias, name="out_proj")
def _shape(self, tensor: tf.Tensor, seq_len: int, bsz: int):
return tf.transpose(tf.reshape(tensor, (bsz, seq_len, self.num_heads, self.head_dim)), (0, 2, 1, 3))
def call(
self,
hidden_states: tf.Tensor,
key_value_states: tf.Tensor | None = None,
past_key_value: Tuple[Tuple[tf.Tensor]] | None = None,
attention_mask: tf.Tensor | None = None,
layer_head_mask: tf.Tensor | None = None,
training=False,
) -> Tuple[tf.Tensor, tf.Tensor | None]:
"""Input shape: Batch x Time x Channel"""
# if key_value_states are provided this layer is used as a cross-attention layer
# for the decoder
is_cross_attention = key_value_states is not None
bsz, tgt_len, embed_dim = shape_list(hidden_states)
# get query proj
query_states = self.q_proj(hidden_states) * self.scaling
# get key, value proj
if is_cross_attention and past_key_value is not None:
# reuse k,v, cross_attentions
key_states = past_key_value[0]
value_states = past_key_value[1]
elif is_cross_attention:
# cross_attentions
key_states = self._shape(self.k_proj(key_value_states), -1, bsz)
value_states = self._shape(self.v_proj(key_value_states), -1, bsz)
elif past_key_value is not None:
# reuse k, v, self_attention
key_states = self._shape(self.k_proj(hidden_states), -1, bsz)
value_states = self._shape(self.v_proj(hidden_states), -1, bsz)
key_states = tf.concat([past_key_value[0], key_states], axis=2)
value_states = tf.concat([past_key_value[1], value_states], axis=2)
else:
# self_attention
key_states = self._shape(self.k_proj(hidden_states), -1, bsz)
value_states = self._shape(self.v_proj(hidden_states), -1, bsz)
if self.is_decoder:
# if cross_attention save Tuple(tf.Tensor, tf.Tensor) of all cross attention key/value_states.
# Further calls to cross_attention layer can then reuse all cross-attention
# key/value_states (first "if" case)
# if uni-directional self-attention (decoder) save Tuple(tf.Tensor, tf.Tensor) of
# all previous decoder key/value_states. Further calls to uni-directional self-attention
# can concat previous decoder key/value_states to current projected key/value_states (third "elif" case)
# if encoder bi-directional self-attention `past_key_value` is always `None`
past_key_value = (key_states, value_states)
proj_shape = (bsz * self.num_heads, -1, self.head_dim)
query_states = tf.reshape(self._shape(query_states, tgt_len, bsz), proj_shape)
key_states = tf.reshape(key_states, proj_shape)
value_states = tf.reshape(value_states, proj_shape)
src_len = shape_list(key_states)[1]
attn_weights = tf.matmul(query_states, key_states, transpose_b=True)
tf.debugging.assert_equal(
shape_list(attn_weights),
[bsz * self.num_heads, tgt_len, src_len],
message=(
f"Attention weights should be of size {(bsz * self.num_heads, tgt_len, src_len)}, but is"
f" {shape_list(attn_weights)}"
),
)
if attention_mask is not None:
tf.debugging.assert_equal(
shape_list(attention_mask),
[bsz, 1, tgt_len, src_len],
message=(
f"Attention mask should be of size {(bsz, 1, tgt_len, src_len)}, but is"
f" {shape_list(attention_mask)}"
),
)
attn_weights = tf.reshape(attn_weights, (bsz, self.num_heads, tgt_len, src_len)) + tf.cast(
attention_mask, dtype=attn_weights.dtype
)
attn_weights = tf.reshape(attn_weights, (bsz * self.num_heads, tgt_len, src_len))
attn_weights = stable_softmax(attn_weights, axis=-1)
if layer_head_mask is not None:
tf.debugging.assert_equal(
shape_list(layer_head_mask),
[self.num_heads],
message=(
f"Head mask for a single layer should be of size {(self.num_heads)}, but is"
f" {shape_list(layer_head_mask)}"
),
)
attn_weights = tf.reshape(layer_head_mask, (1, -1, 1, 1)) * tf.reshape(
attn_weights, (bsz, self.num_heads, tgt_len, src_len)
)
attn_weights = tf.reshape(attn_weights, (bsz * self.num_heads, tgt_len, src_len))
attn_probs = self.dropout(attn_weights, training=training)
attn_output = tf.matmul(attn_probs, value_states)
tf.debugging.assert_equal(
shape_list(attn_output),
[bsz * self.num_heads, tgt_len, self.head_dim],
message=(
f"`attn_output` should be of size {(bsz, self.num_heads, tgt_len, self.head_dim)}, but is"
f" {shape_list(attn_output)}"
),
)
attn_output = tf.transpose(
tf.reshape(attn_output, (bsz, self.num_heads, tgt_len, self.head_dim)), (0, 2, 1, 3)
)
attn_output = tf.reshape(attn_output, (bsz, tgt_len, embed_dim))
attn_output = self.out_proj(attn_output)
attn_weights: tf.Tensor = tf.reshape(attn_weights, (bsz, self.num_heads, tgt_len, src_len))
return attn_output, attn_weights, past_key_value
class TFLEDEncoderLayer(tf.keras.layers.Layer):
def __init__(self, config: LEDConfig, layer_id: int, **kwargs):
super().__init__(**kwargs)
self.embed_dim = config.d_model
self.self_attn = TFLEDEncoderAttention(config, layer_id, name="self_attn")
self.self_attn_layer_norm = tf.keras.layers.LayerNormalization(epsilon=1e-5, name="self_attn_layer_norm")
self.dropout = tf.keras.layers.Dropout(config.dropout)
self.activation_fn = get_tf_activation(config.activation_function)
self.activation_dropout = tf.keras.layers.Dropout(config.activation_dropout)
self.fc1 = tf.keras.layers.Dense(config.encoder_ffn_dim, name="fc1")
self.fc2 = tf.keras.layers.Dense(self.embed_dim, name="fc2")
self.final_layer_norm = tf.keras.layers.LayerNormalization(epsilon=1e-5, name="final_layer_norm")
def call(
self,
hidden_states: tf.Tensor,
attention_mask: tf.Tensor,
layer_head_mask: tf.Tensor,
is_index_masked: tf.Tensor,
is_index_global_attn: tf.Tensor,
is_global_attn: bool,
training=False,
):
"""
Args:
hidden_states (`tf.Tensor`): input to the layer of shape *(batch, seq_len, embed_dim)*
attention_mask (`tf.Tensor`): attention mask of size
*(batch, 1, tgt_len, src_len)* where padding elements are indicated by very large negative values.
layer_head_mask (`tf.Tensor`): mask for attention heads in a given layer of size
*(config.encoder_attention_heads,)*.
"""
residual = hidden_states
layer_outputs = self.self_attn(
[hidden_states, attention_mask, layer_head_mask, is_index_masked, is_index_global_attn, is_global_attn],
training=training,
)
hidden_states = layer_outputs[0]
tf.debugging.assert_equal(
shape_list(hidden_states),
shape_list(residual),
message=f"Self attn modified the shape of query {shape_list(residual)} to {shape_list(hidden_states)}",
)
hidden_states = self.dropout(hidden_states, training=training)
hidden_states = residual + hidden_states
hidden_states = self.self_attn_layer_norm(hidden_states)
residual = hidden_states
hidden_states = self.activation_fn(self.fc1(hidden_states))
hidden_states = self.activation_dropout(hidden_states, training=training)
hidden_states = self.fc2(hidden_states)
hidden_states = self.dropout(hidden_states, training=training)
hidden_states = residual + hidden_states
hidden_states = self.final_layer_norm(hidden_states)
return (hidden_states,) + layer_outputs[1:]
class TFLEDDecoderLayer(tf.keras.layers.Layer):
def __init__(self, config: LEDConfig, **kwargs):
super().__init__(**kwargs)
self.embed_dim = config.d_model
self.self_attn = TFLEDDecoderAttention(
embed_dim=self.embed_dim,
num_heads=config.decoder_attention_heads,
dropout=config.attention_dropout,
name="self_attn",
is_decoder=True,
)
self.dropout = tf.keras.layers.Dropout(config.dropout)
self.activation_fn = get_tf_activation(config.activation_function)
self.activation_dropout = tf.keras.layers.Dropout(config.activation_dropout)
self.self_attn_layer_norm = tf.keras.layers.LayerNormalization(epsilon=1e-5, name="self_attn_layer_norm")
self.encoder_attn = TFLEDDecoderAttention(
self.embed_dim,
config.decoder_attention_heads,
dropout=config.attention_dropout,
name="encoder_attn",
is_decoder=True,
)
self.encoder_attn_layer_norm = tf.keras.layers.LayerNormalization(epsilon=1e-5, name="encoder_attn_layer_norm")
self.fc1 = tf.keras.layers.Dense(config.decoder_ffn_dim, name="fc1")
self.fc2 = tf.keras.layers.Dense(self.embed_dim, name="fc2")
self.final_layer_norm = tf.keras.layers.LayerNormalization(epsilon=1e-5, name="final_layer_norm")
def call(
self,
hidden_states,
attention_mask: tf.Tensor | None = None,
encoder_hidden_states: tf.Tensor | None = None,
encoder_attention_mask: tf.Tensor | None = None,
layer_head_mask: tf.Tensor | None = None,
encoder_layer_head_mask: tf.Tensor | None = None,
past_key_value: Tuple[tf.Tensor] | None = None,
training=False,
) -> Tuple[tf.Tensor, tf.Tensor, tf.Tensor, Tuple[Tuple[tf.Tensor]]]:
"""
Args:
hidden_states (`tf.Tensor`): input to the layer of shape *(batch, seq_len, embed_dim)*
attention_mask (`tf.Tensor`): attention mask of size
*(batch, 1, tgt_len, src_len)* where padding elements are indicated by very large negative values.
encoder_hidden_states (`tf.Tensor`):
cross attention input to the layer of shape *(batch, seq_len, embed_dim)*
encoder_attention_mask (`tf.Tensor`): encoder attention mask of size
*(batch, 1, tgt_len, src_len)* where padding elements are indicated by very large negative values.
layer_head_mask (`tf.Tensor`): mask for attention heads in a given layer of size
*(config.encoder_attention_heads,)*.
encoder_layer_head_mask (`tf.Tensor`): mask for encoder attention heads in a given layer of
size *(config.encoder_attention_heads,)*.
past_key_value (`Tuple(tf.Tensor)`): cached past key and value projection states
"""
residual = hidden_states
# Self-Attention
# decoder uni-directional self-attention cached key/values tuple is at positions 1,2
self_attn_past_key_value = past_key_value[:2] if past_key_value is not None else None
# add present self-attn cache to positions 1,2 of present_key_value tuple
hidden_states, self_attn_weights, present_key_value = self.self_attn(
hidden_states=hidden_states,
past_key_value=self_attn_past_key_value,
attention_mask=attention_mask,
layer_head_mask=layer_head_mask,
)
hidden_states = self.dropout(hidden_states, training=training)
hidden_states = residual + hidden_states
hidden_states = self.self_attn_layer_norm(hidden_states)
# Cross-Attention Block
cross_attn_present_key_value = None
cross_attn_weights = None
if encoder_hidden_states is not None:
residual = hidden_states
# cross_attn cached key/values tuple is at positions 3,4 of present_key_value tuple
cross_attn_past_key_value = past_key_value[-2:] if past_key_value is not None else None
hidden_states, cross_attn_weights, cross_attn_present_key_value = self.encoder_attn(
hidden_states=hidden_states,
key_value_states=encoder_hidden_states,
attention_mask=encoder_attention_mask,
layer_head_mask=encoder_layer_head_mask,
past_key_value=cross_attn_past_key_value,
)
hidden_states = self.dropout(hidden_states, training=training)
hidden_states = residual + hidden_states
hidden_states = self.encoder_attn_layer_norm(hidden_states)
# add cross-attn to positions 3,4 of present_key_value tuple
present_key_value = present_key_value + cross_attn_present_key_value
# Fully Connected
residual = hidden_states
hidden_states = self.activation_fn(self.fc1(hidden_states))
hidden_states = self.activation_dropout(hidden_states, training=training)
hidden_states = self.fc2(hidden_states)
hidden_states = self.dropout(hidden_states, training=training)
hidden_states = residual + hidden_states
hidden_states = self.final_layer_norm(hidden_states)
return (
hidden_states,
self_attn_weights,
cross_attn_weights,
present_key_value,
)
class TFLEDPreTrainedModel(TFPreTrainedModel):
config_class = LEDConfig
base_model_prefix = "led"
@property
def input_signature(self):
sig = super().input_signature
sig["global_attention_mask"] = tf.TensorSpec((None, None), tf.int32, name="global_attention_mask")
return sig
@dataclass
# Copied from transformers.models.longformer.modeling_tf_longformer.TFLongformerBaseModelOutput with TFLongformer->TFLEDEncoder
class TFLEDEncoderBaseModelOutput(ModelOutput):
"""
Base class for Longformer's outputs, with potential hidden states, local and global attentions.
Args:
last_hidden_state (`tf.Tensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the model.
hidden_states (`tuple(tf.Tensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `tf.Tensor` (one for the output of the embeddings + one for the output of each layer) of shape
`(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs.
attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length, x +
attention_window + 1)`, where `x` is the number of tokens with global attention mask.
Local attentions weights after the attention softmax, used to compute the weighted average in the
self-attention heads. Those are the attention weights from every token in the sequence to every token with
global attention (first `x` values) and to every token in the attention window (remaining `attention_window
+ 1` values). Note that the first `x` values refer to tokens with fixed positions in the text, but the
remaining `attention_window + 1` values refer to tokens with relative positions: the attention weight of a
token to itself is located at index `x + attention_window / 2` and the `attention_window / 2` preceding
(succeeding) values are the attention weights to the `attention_window / 2` preceding (succeeding) tokens.
If the attention window contains a token with global attention, the attention weight at the corresponding
index is set to 0; the value should be accessed from the first `x` attention weights. If a token has global
attention, the attention weights to all other tokens in `attentions` is set to 0, the values should be
accessed from `global_attentions`.
global_attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length, x)`, where `x`
is the number of tokens with global attention mask.
Global attentions weights after the attention softmax, used to compute the weighted average in the
self-attention heads. Those are the attention weights from every token with global attention to every token
in the sequence.
"""
last_hidden_state: tf.Tensor = None
hidden_states: Tuple[tf.Tensor] | None = None
attentions: Tuple[tf.Tensor] | None = None
global_attentions: Tuple[tf.Tensor] | None = None
@dataclass
class TFLEDSeq2SeqModelOutput(ModelOutput):
"""
Base class for model encoder's outputs that also contains : pre-computed hidden states that can speed up sequential
decoding.
Args:
last_hidden_state (`tf.Tensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the decoder of the model.
If `past_key_values` is used only the last hidden-state of the sequences of shape `(batch_size, 1,
hidden_size)` is output.
past_key_values (`List[tf.Tensor]`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
List of `tf.Tensor` of length `config.n_layers`, with each tensor of shape `(2, batch_size, num_heads,
sequence_length, embed_size_per_head)`).
Contains pre-computed hidden-states (key and values in the attention blocks) of the decoder that can be
used (see `past_key_values` input) to speed up sequential decoding.
decoder_hidden_states (`tuple(tf.Tensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `tf.Tensor` (one for the output of the embeddings + one for the output of each layer) of shape
`(batch_size, sequence_length, hidden_size)`.
Hidden-states of the decoder at the output of each layer plus the initial embedding outputs.
decoder_attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
cross_attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder's cross-attention layer, after the attention softmax, used to compute the
weighted average in the cross-attention heads.
encoder_last_hidden_state (`tf.Tensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder of the model.
encoder_hidden_states (`tuple(tf.Tensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `tf.Tensor` (one for the output of the embeddings + one for the output of each layer) of shape
`(batch_size, sequence_length, hidden_size)`.
Hidden-states of the encoder at the output of each layer plus the initial embedding outputs.
encoder_attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the encoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
encoder_global_attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length, x)`, where `x`
is the number of tokens with global attention mask.
Global attentions weights after the attention softmax, used to compute the weighted average in the
self-attention heads. Those are the attention weights from every token with global attention to every token
in the sequence.
"""
last_hidden_state: tf.Tensor = None
past_key_values: List[tf.Tensor] | None = None
decoder_hidden_states: Tuple[tf.Tensor] | None = None
decoder_attentions: Tuple[tf.Tensor] | None = None
cross_attentions: Tuple[tf.Tensor] | None = None
encoder_last_hidden_state: tf.Tensor | None = None
encoder_hidden_states: Tuple[tf.Tensor] | None = None
encoder_attentions: Tuple[tf.Tensor] | None = None
encoder_global_attentions: Tuple[tf.Tensor] | None = None
@dataclass
class TFLEDSeq2SeqLMOutput(ModelOutput):
"""
Base class for sequence-to-sequence language models outputs.
Args:
loss (`tf.Tensor` of shape `(1,)`, *optional*, returned when `labels` is provided):
Language modeling loss.
logits (`tf.Tensor` of shape `(batch_size, sequence_length, config.vocab_size)`):
Prediction scores of the language modeling head (scores for each vocabulary token before SoftMax).
past_key_values (`List[tf.Tensor]`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
List of `tf.Tensor` of length `config.n_layers`, with each tensor of shape `(2, batch_size, num_heads,
sequence_length, embed_size_per_head)`).
Contains pre-computed hidden-states (key and values in the attention blocks) of the decoder that can be
used (see `past_key_values` input) to speed up sequential decoding.
decoder_hidden_states (`tuple(tf.Tensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `tf.Tensor` (one for the output of the embeddings + one for the output of each layer) of shape
`(batch_size, sequence_length, hidden_size)`.
Hidden-states of the decoder at the output of each layer plus the initial embedding outputs.
decoder_attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
cross_attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder's cross-attention layer, after the attention softmax, used to compute the
weighted average in the cross-attention heads.
encoder_last_hidden_state (`tf.Tensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder of the model.
encoder_hidden_states (`tuple(tf.Tensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `tf.Tensor` (one for the output of the embeddings + one for the output of each layer) of shape
`(batch_size, sequence_length, hidden_size)`.
Hidden-states of the encoder at the output of each layer plus the initial embedding outputs.
encoder_attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the encoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
encoder_global_attentions (`tuple(tf.Tensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `tf.Tensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length, x)`, where `x`
is the number of tokens with global attention mask.
Global attentions weights after the attention softmax, used to compute the weighted average in the
self-attention heads. Those are the attention weights from every token with global attention to every token
in the sequence.
"""
loss: tf.Tensor | None = None
logits: tf.Tensor = None
past_key_values: List[tf.Tensor] | None = None
decoder_hidden_states: Tuple[tf.Tensor] | None = None
decoder_attentions: Tuple[tf.Tensor] | None = None
cross_attentions: Tuple[tf.Tensor] | None = None
encoder_last_hidden_state: tf.Tensor | None = None
encoder_hidden_states: Tuple[tf.Tensor] | None = None
encoder_attentions: Tuple[tf.Tensor] | None = None
encoder_global_attentions: Tuple[tf.Tensor] | None = None
LED_START_DOCSTRING = r"""
This model inherits from [`TFPreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a [tf.keras.Model](https://www.tensorflow.org/api_docs/python/tf/keras/Model) subclass. Use it
as a regular TF 2.0 Keras Model and refer to the TF 2.0 documentation for all matter related to general usage and
behavior.
<Tip>
TensorFlow models and layers in `transformers` accept two formats as input:
- having all inputs as keyword arguments (like PyTorch models), or
- having all inputs as a list, tuple or dict in the first positional argument.
The reason the second format is supported is that Keras methods prefer this format when passing inputs to models
and layers. Because of this support, when using methods like `model.fit()` things should "just work" for you - just
pass your inputs and labels in any format that `model.fit()` supports! If, however, you want to use the second
format outside of Keras methods like `fit()` and `predict()`, such as when creating your own layers or models with
the Keras `Functional` API, there are three possibilities you can use to gather all the input Tensors in the first
positional argument:
- a single Tensor with `input_ids` only and nothing else: `model(input_ids)`
- a list of varying length with one or several input Tensors IN THE ORDER given in the docstring:
`model([input_ids, attention_mask])` or `model([input_ids, attention_mask, token_type_ids])`
- a dictionary with one or several input Tensors associated to the input names given in the docstring:
`model({"input_ids": input_ids, "token_type_ids": token_type_ids})`
Note that when creating models and layers with
[subclassing](https://keras.io/guides/making_new_layers_and_models_via_subclassing/) then you don't need to worry
about any of this, as you can just pass inputs like you would to any other Python function!
</Tip>
Args:
config ([`LEDConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~TFPreTrainedModel.from_pretrained`] method to load the model weights.
"""
LED_INPUTS_DOCSTRING = r"""
Args:
input_ids (`tf.Tensor` of shape `({0})`):
Indices of input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`tf.Tensor` of shape `({0})`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
decoder_input_ids (`tf.LongTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Indices of decoder input sequence tokens in the vocabulary.
Indices can be obtained using [`LedTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
LED uses the `eos_token_id` as the starting token for `decoder_input_ids` generation. If `past_key_values`
is used, optionally only the last `decoder_input_ids` have to be input (see `past_key_values`).
decoder_attention_mask (`tf.Tensor` of shape `(batch_size, target_sequence_length)`, *optional*):
will be made by default and ignore pad tokens. It is not recommended to set this for most use cases.
head_mask (`tf.Tensor` of shape `(encoder_layers, encoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules in the encoder. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
decoder_head_mask (`tf.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules in the decoder. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
encoder_outputs (`tf.FloatTensor`, *optional*):
hidden states at the output of the last layer of the encoder. Used in the cross-attention of the decoder.
of shape `(batch_size, sequence_length, hidden_size)` is a sequence of
past_key_values (`Tuple[Tuple[tf.Tensor]]` of length `config.n_layers`)
contains precomputed key and value hidden states of the attention blocks. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
use_cache (`bool`, *optional*, defaults to `True`):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`). Set to `False` during training, `True` during generation
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail. This argument can be used only in eager mode, in graph mode the value in the
config will be used instead.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail. This argument can be used only in eager mode, in graph mode the value in the config will be
used instead.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple. This argument can be used in
eager mode, in graph mode the value will always be set to True.
training (`bool`, *optional*, defaults to `False`):
Whether or not to use the model in training mode (some modules like dropout modules have different
behaviors between training and evaluation).
"""
@keras_serializable
class TFLEDEncoder(tf.keras.layers.Layer):
config_class = LEDConfig
"""
Transformer encoder consisting of *config.encoder_layers* self-attention layers. Each layer is a
[`TFLEDEncoderLayer`].
Args:
config: LEDConfig
"""
def __init__(self, config: LEDConfig, embed_tokens: Optional[tf.keras.layers.Embedding] = None, **kwargs):
super().__init__(**kwargs)
self.config = config
self.dropout = tf.keras.layers.Dropout(config.dropout)
if config.encoder_layerdrop > 0:
logger.warning("Layerdrop is currently disabled in TFLED models.")
self.layerdrop = 0.0
self.padding_idx = config.pad_token_id
if isinstance(config.attention_window, int):
assert config.attention_window % 2 == 0, "`config.attention_window` has to be an even value"
assert config.attention_window > 0, "`config.attention_window` has to be positive"
config.attention_window = [config.attention_window] * config.num_hidden_layers # one value per layer
else:
assert len(config.attention_window) == config.num_hidden_layers, (
"`len(config.attention_window)` should equal `config.num_hidden_layers`. "
f"Expected {config.num_hidden_layers}, given {len(config.attention_window)}"
)
self.attention_window = config.attention_window
self.embed_tokens = embed_tokens
self.embed_positions = TFLEDLearnedPositionalEmbedding(
config.max_encoder_position_embeddings,
config.d_model,
name="embed_positions",
)
self.layers = [TFLEDEncoderLayer(config, i, name=f"layers.{i}") for i in range(config.encoder_layers)]
self.layernorm_embedding = tf.keras.layers.LayerNormalization(epsilon=1e-5, name="layernorm_embedding")
def get_embed_tokens(self):
return self.embed_tokens
def set_embed_tokens(self, embed_tokens):
self.embed_tokens = embed_tokens
@unpack_inputs
def call(
self,
input_ids=None,
inputs_embeds=None,
attention_mask=None,
global_attention_mask=None,
head_mask=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
training=False,
):
"""
Args:
input_ids (`tf.Tensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you
provide it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`tf.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
head_mask (`tf.Tensor` of shape `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
inputs_embeds (`tf.Tensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation.
This is useful if you want more control over how to convert `input_ids` indices into associated vectors
than the model's internal embedding lookup matrix.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors
for more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both input_ids and inputs_embeds at the same time")
elif input_ids is not None:
input_shape = shape_list(input_ids)
# if `self.embed_tokens.load_weight_prefix` is set, runs the embedding operation with the correct name
# scope, so that its weights are registered with the desired name for loading/storing. When `tf.name_scope`
# is used with a name ending in `/`, that name replaces the current name scope.
# (embeddings with tf.name_scope: self.embed_tokens.load_weight_prefix/self.embed_tokens.name/embeddings:0)
context = []
if hasattr(self.embed_tokens, "load_weight_prefix"):
context.append(tf.name_scope(self.embed_tokens.load_weight_prefix + "/"))
with ContextManagers(context):
check_embeddings_within_bounds(input_ids, self.embed_tokens.input_dim)
inputs_embeds = self.embed_tokens(input_ids)
elif inputs_embeds is not None:
input_shape = shape_list(inputs_embeds)[:-1]
else:
raise ValueError("You have to specify either input_ids or inputs_embeds")
if attention_mask is None:
attention_mask = tf.fill(input_shape, 1)
# merge `global_attention_mask` and `attention_mask`
if global_attention_mask is not None:
attention_mask = attention_mask * tf.cast((global_attention_mask + 1), dtype=attention_mask.dtype)
padding_len, input_ids, attention_mask, inputs_embeds = self._pad_to_window_size(
input_ids=input_ids,
attention_mask=attention_mask,
inputs_embeds=inputs_embeds,
pad_token_id=self.padding_idx,
)
input_shape = shape_list(attention_mask)
# is index masked or global attention
is_index_masked = tf.math.less(tf.cast(attention_mask, tf.int8), 1)
is_index_global_attn = tf.math.greater(tf.cast(attention_mask, tf.int8), 1)
is_global_attn = tf.math.reduce_any(is_index_global_attn)
embed_pos = self.embed_positions(input_shape)
hidden_states = inputs_embeds + embed_pos
hidden_states = self.layernorm_embedding(hidden_states)
hidden_states = self.dropout(hidden_states, training=training)
# check attention mask and invert
if attention_mask is not None:
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
attention_mask = _expand_mask(attention_mask)[:, 0, 0, :]
attention_mask = attention_mask[:, :, None, None]
encoder_states = () if output_hidden_states else None
all_attentions = all_global_attentions = () if output_attentions else None
# check if head_mask has a correct number of layers specified if desired
if head_mask is not None:
tf.debugging.assert_equal(
shape_list(head_mask)[0],
len(self.layers),
message=(
f"The head_mask should be specified for {len(self.layers)} layers, but it is for"
f" {shape_list(head_mask)[0]}."
),
)
# encoder layers
for idx, encoder_layer in enumerate(self.layers):
if output_hidden_states:
hidden_states_to_add = self.compute_hidden_states(hidden_states, padding_len)
encoder_states = encoder_states + (hidden_states_to_add,)
# add LayerDrop (see https://arxiv.org/abs/1909.11556 for description)
dropout_probability = random.uniform(0, 1)
if training and (dropout_probability < self.layerdrop): # skip the layer
continue
layer_outputs = encoder_layer(
hidden_states=hidden_states,
attention_mask=attention_mask,
layer_head_mask=head_mask[idx] if head_mask is not None else None,
is_index_masked=is_index_masked,
is_index_global_attn=is_index_global_attn,
is_global_attn=is_global_attn,
)
hidden_states = layer_outputs[0]
if output_attentions:
# bzs x seq_len x num_attn_heads x (num_global_attn + attention_window_len + 1) => bzs x num_attn_heads x seq_len x (num_global_attn + attention_window_len + 1)
all_attentions = all_attentions + (tf.transpose(layer_outputs[1], (0, 2, 1, 3)),)
# bzs x num_attn_heads x num_global_attn x seq_len => bzs x num_attn_heads x seq_len x num_global_attn
all_global_attentions = all_global_attentions + (tf.transpose(layer_outputs[2], (0, 1, 3, 2)),)
# undo padding
# unpad `hidden_states` because the calling function is expecting a length == input_ids.size(1)
hidden_states = self.compute_hidden_states(hidden_states, padding_len)
# undo padding
if output_attentions:
all_attentions = (
tuple([state[:, :, :-padding_len, :] for state in all_attentions])
if padding_len > 0
else all_attentions
)
if output_hidden_states:
encoder_states = encoder_states + (hidden_states,)
if not return_dict:
return tuple(v for v in [hidden_states, encoder_states, all_attentions] if v is not None)
return TFLEDEncoderBaseModelOutput(
last_hidden_state=hidden_states,
hidden_states=encoder_states,
attentions=all_attentions,
global_attentions=all_global_attentions,
)
@tf.function
def compute_hidden_states(self, hidden_states, padding_len):
return hidden_states[:, :-padding_len] if padding_len > 0 else hidden_states
def _pad_to_window_size(
self,
input_ids,
attention_mask,
inputs_embeds,
pad_token_id,
):
"""A helper function to pad tokens and mask to work with implementation of Longformer selfattention."""
# padding
attention_window = (
self.attention_window if isinstance(self.attention_window, int) else max(self.attention_window)
)
assert attention_window % 2 == 0, f"`attention_window` should be an even value. Given {attention_window}"
input_shape = shape_list(input_ids) if input_ids is not None else shape_list(inputs_embeds)
batch_size, seq_len = input_shape[:2]
padding_len = (attention_window - seq_len % attention_window) % attention_window
if padding_len > 0:
logger.info(
f"Input ids are automatically padded from {seq_len} to {seq_len + padding_len} to be a multiple of "
f"`config.attention_window`: {attention_window}"
)
paddings = tf.convert_to_tensor([[0, 0], [0, padding_len]])
if input_ids is not None:
input_ids = tf.pad(input_ids, paddings, constant_values=pad_token_id)
if inputs_embeds is not None:
if padding_len > 0:
input_ids_padding = tf.fill((batch_size, padding_len), pad_token_id)
inputs_embeds_padding = self.embed_tokens(input_ids_padding)
inputs_embeds = tf.concat([inputs_embeds, inputs_embeds_padding], axis=-2)
attention_mask = tf.pad(attention_mask, paddings, constant_values=False) # no attention on the padding tokens
return (
padding_len,
input_ids,
attention_mask,
inputs_embeds,
)
@keras_serializable
class TFLEDDecoder(tf.keras.layers.Layer):
config_class = LEDConfig
"""
Transformer decoder consisting of *config.decoder_layers* layers. Each layer is a [`TFLEDDecoderLayer`]
Args:
config: LEDConfig
embed_tokens: output embedding
"""
def __init__(self, config: LEDConfig, embed_tokens: Optional[tf.keras.layers.Embedding] = None, **kwargs):
super().__init__(**kwargs)
self.config = config
self.padding_idx = config.pad_token_id
self.embed_tokens = embed_tokens
if config.decoder_layerdrop > 0:
logger.warning("Layerdrop is currently disabled in TFLED models.")
self.layerdrop = 0.0
self.embed_positions = TFLEDLearnedPositionalEmbedding(
config.max_decoder_position_embeddings,
config.d_model,
name="embed_positions",
)
self.layers = [TFLEDDecoderLayer(config, name=f"layers.{i}") for i in range(config.decoder_layers)]
self.layernorm_embedding = tf.keras.layers.LayerNormalization(epsilon=1e-5, name="layernorm_embedding")
self.dropout = tf.keras.layers.Dropout(config.dropout)
def set_embed_tokens(self, embed_tokens):
self.embed_tokens = embed_tokens
@unpack_inputs
def call(
self,
input_ids=None,
inputs_embeds=None,
attention_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
head_mask=None,
encoder_head_mask=None,
past_key_values=None,
use_cache=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
training=False,
):
r"""
Args:
input_ids (`tf.Tensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you
provide it. Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details. [What are input IDs?](../glossary#input-ids)
attention_mask (`tf.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
encoder_hidden_states (`tf.Tensor` of shape `(batch_size, encoder_sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention
of the decoder.
encoder_attention_mask (`tf.Tensor` of shape `(batch_size, encoder_sequence_length)`, *optional*):
Mask to avoid performing cross-attention on padding tokens indices of encoder input_ids. Mask values
selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
head_mask (`tf.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
encoder_head_mask (`tf.Tensor` of shape `(encoder_layers, encoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules in encoder to avoid performing cross-attention
on hidden heads. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
past_key_values (`Tuple[Tuple[tf.Tensor]]` of length `config.n_layers` with each tuple having 2 tuples each of which has 2 tensors of shape `(batch_size, num_heads, sequence_length - 1, embed_size_per_head)`):
Contains precomputed key and value hidden-states of the attention blocks. Can be used to speed up
decoding. If `past_key_values` are used, the user can optionally input only the last
`decoder_input_ids` (those that don't have their past key value states given to this model) of shape
`(batch_size, 1)` instead of all `decoder_input_ids` of shape `(batch_size, sequence_length)`.
inputs_embeds (`tf.Tensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation.
This is useful if you want more control over how to convert `input_ids` indices into associated vectors
than the model's internal embedding lookup matrix.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors
for more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both decoder_input_ids and decoder_inputs_embeds at the same time")
elif input_ids is not None:
input_shape = shape_list(input_ids)
elif inputs_embeds is not None:
input_shape = shape_list(inputs_embeds)[:-1]
else:
raise ValueError("You have to specify either decoder_input_ids or decoder_inputs_embeds")
past_key_values_length = shape_list(past_key_values[0][0])[2] if past_key_values is not None else 0
# embed positions
positions = self.embed_positions(input_shape, past_key_values_length)
if inputs_embeds is None:
# if `self.embed_tokens.load_weight_prefix` is set, runs the embedding operation with the correct name
# scope, so that its weights are registered with the desired name for loading/storing. When `tf.name_scope`
# is used with a name ending in `/`, that name replaces the current name scope.
# (embeddings with tf.name_scope: self.embed_tokens.load_weight_prefix/self.embed_tokens.name/embeddings:0)
context = []
if hasattr(self.embed_tokens, "load_weight_prefix"):
context.append(tf.name_scope(self.embed_tokens.load_weight_prefix + "/"))
with ContextManagers(context):
check_embeddings_within_bounds(input_ids, self.embed_tokens.input_dim)
inputs_embeds = self.embed_tokens(input_ids)
hidden_states = inputs_embeds
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
if input_shape[-1] > 1:
combined_attention_mask = _make_causal_mask(input_shape, past_key_values_length=past_key_values_length)
else:
combined_attention_mask = _expand_mask(
tf.ones((input_shape[0], input_shape[1] + past_key_values_length)), tgt_len=input_shape[-1]
)
if attention_mask is not None and input_shape[-1] > 1:
combined_attention_mask = combined_attention_mask + _expand_mask(attention_mask, tgt_len=input_shape[-1])
if encoder_hidden_states is not None and encoder_attention_mask is not None:
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
encoder_attention_mask = _expand_mask(encoder_attention_mask, tgt_len=input_shape[-1])
hidden_states = self.layernorm_embedding(hidden_states + positions)
hidden_states = self.dropout(hidden_states, training=training)
# decoder layers
all_hidden_states = ()
all_self_attns = ()
all_cross_attentions = ()
present_key_values = ()
# check if head_mask has a correct number of layers specified if desired
if head_mask is not None:
tf.debugging.assert_equal(
shape_list(head_mask)[0],
len(self.layers),
message=(
f"The head_mask should be specified for {len(self.layers)} layers, but it is for"
f" {shape_list(head_mask)[0]}."
),
)
for idx, decoder_layer in enumerate(self.layers):
# add LayerDrop (see https://arxiv.org/abs/1909.11556 for description)
if output_hidden_states:
all_hidden_states += (hidden_states,)
dropout_probability = random.uniform(0, 1)
if training and (dropout_probability < self.layerdrop):
continue
past_key_value = past_key_values[idx] if past_key_values is not None else None
hidden_states, layer_self_attn, layer_cross_attn, present_key_value = decoder_layer(
hidden_states,
attention_mask=combined_attention_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
layer_head_mask=head_mask[idx] if head_mask is not None else None,
encoder_layer_head_mask=encoder_head_mask[idx] if encoder_head_mask is not None else None,
past_key_value=past_key_value,
)
if use_cache:
present_key_values += (present_key_value,)
if output_attentions:
all_self_attns += (layer_self_attn,)
all_cross_attentions += (layer_cross_attn,)
if output_hidden_states:
all_hidden_states += (hidden_states,)
else:
all_hidden_states = None
all_self_attns = all_self_attns if output_attentions else None
all_cross_attentions = all_cross_attentions if output_attentions else None
present_key_values = present_key_values if use_cache else None
if not return_dict:
return tuple(
v
for v in [hidden_states, present_key_values, all_hidden_states, all_self_attns, all_cross_attentions]
if v is not None
)
else:
return TFBaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
past_key_values=present_key_values,
hidden_states=all_hidden_states,
attentions=all_self_attns,
cross_attentions=all_cross_attentions,
)
@keras_serializable
class TFLEDMainLayer(tf.keras.layers.Layer):
config_class = LEDConfig
def __init__(self, config: LEDConfig, **kwargs):
super().__init__(**kwargs)
self.config = config
self.shared = tf.keras.layers.Embedding(
input_dim=config.vocab_size,
output_dim=config.d_model,
embeddings_initializer=tf.keras.initializers.TruncatedNormal(stddev=self.config.init_std),
name="led.shared",
)
# Additional attribute to specify the expected name scope of the layer (for loading/storing weights)
self.shared.load_weight_prefix = "led.shared"
self.encoder = TFLEDEncoder(config, self.shared, name="encoder")
self.decoder = TFLEDDecoder(config, self.shared, name="decoder")
def get_input_embeddings(self):
return self.shared
def set_input_embeddings(self, new_embeddings):
self.shared = new_embeddings
self.encoder.embed_tokens = self.shared
self.decoder.embed_tokens = self.shared
@unpack_inputs
def call(
self,
input_ids=None,
attention_mask=None,
decoder_input_ids=None,
decoder_attention_mask=None,
head_mask=None,
decoder_head_mask=None,
encoder_outputs: Optional[Union[Tuple, TFLEDEncoderBaseModelOutput]] = None,
global_attention_mask=None,
past_key_values=None,
inputs_embeds=None,
decoder_inputs_embeds=None,
use_cache=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
training=False,
**kwargs,
):
if decoder_input_ids is None and decoder_inputs_embeds is None:
use_cache = False
if encoder_outputs is None:
encoder_outputs = self.encoder(
input_ids=input_ids,
attention_mask=attention_mask,
global_attention_mask=global_attention_mask,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
training=training,
)
# If the user passed a tuple for encoder_outputs, we wrap it in a TFLEDEncoderBaseModelOutput when return_dict=True
elif return_dict and not isinstance(encoder_outputs, TFLEDEncoderBaseModelOutput):
encoder_outputs = TFLEDEncoderBaseModelOutput(
last_hidden_state=encoder_outputs[0],
hidden_states=encoder_outputs[1] if len(encoder_outputs) > 1 else None,
attentions=encoder_outputs[2] if len(encoder_outputs) > 2 else None,
)
# If the user passed a TFLEDEncoderBaseModelOutput for encoder_outputs, we wrap it in a tuple when return_dict=False
elif not return_dict and not isinstance(encoder_outputs, tuple):
encoder_outputs = encoder_outputs.to_tuple()
decoder_outputs = self.decoder(
decoder_input_ids,
attention_mask=decoder_attention_mask,
encoder_hidden_states=encoder_outputs[0],
encoder_attention_mask=attention_mask,
head_mask=decoder_head_mask,
encoder_head_mask=head_mask,
past_key_values=past_key_values,
inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
training=training,
)
if not return_dict:
return decoder_outputs + encoder_outputs
return TFLEDSeq2SeqModelOutput(
last_hidden_state=decoder_outputs.last_hidden_state,
past_key_values=decoder_outputs.past_key_values,
decoder_hidden_states=decoder_outputs.hidden_states,
decoder_attentions=decoder_outputs.attentions,
cross_attentions=decoder_outputs.cross_attentions,
encoder_last_hidden_state=encoder_outputs.last_hidden_state,
encoder_hidden_states=encoder_outputs.hidden_states,
encoder_attentions=encoder_outputs.attentions,
encoder_global_attentions=encoder_outputs.global_attentions,
)
@add_start_docstrings(
"The bare LED Model outputting raw hidden-states without any specific head on top.",
LED_START_DOCSTRING,
)
class TFLEDModel(TFLEDPreTrainedModel):
def __init__(self, config, *inputs, **kwargs):
super().__init__(config, *inputs, **kwargs)
self.led = TFLEDMainLayer(config, name="led")
def get_encoder(self):
return self.led.encoder
def get_decoder(self):
return self.led.decoder
@unpack_inputs
@add_start_docstrings_to_model_forward(LED_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=TFLEDSeq2SeqModelOutput,
config_class=_CONFIG_FOR_DOC,
)
def call(
self,
input_ids=None,
attention_mask=None,
decoder_input_ids=None,
decoder_attention_mask=None,
head_mask=None,
decoder_head_mask=None,
encoder_outputs: Optional[Union[Tuple, TFLEDEncoderBaseModelOutput]] = None,
global_attention_mask=None,
past_key_values=None,
inputs_embeds=None,
decoder_inputs_embeds=None,
use_cache=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
training=False,
**kwargs,
):
outputs = self.led(
input_ids=input_ids,
attention_mask=attention_mask,
decoder_input_ids=decoder_input_ids,
decoder_attention_mask=decoder_attention_mask,
encoder_outputs=encoder_outputs,
global_attention_mask=global_attention_mask,
head_mask=head_mask,
decoder_head_mask=decoder_head_mask,
past_key_values=past_key_values,
inputs_embeds=inputs_embeds,
decoder_inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
training=training,
)
return outputs
def serving_output(self, output):
pkv = tf.tuple(output.past_key_values)[1] if self.config.use_cache else None
dec_hs = tf.convert_to_tensor(output.decoder_hidden_states) if self.config.output_hidden_states else None
dec_attns = tf.convert_to_tensor(output.decoder_attentions) if self.config.output_attentions else None
cross_attns = tf.convert_to_tensor(output.cross_attentions) if self.config.output_attentions else None
enc_hs = tf.convert_to_tensor(output.encoder_hidden_states) if self.config.output_hidden_states else None
enc_attns = tf.convert_to_tensor(output.encoder_attentions) if self.config.output_attentions else None
enc_g_attns = tf.convert_to_tensor(output.encoder_global_attentions) if self.config.output_attentions else None
return TFLEDSeq2SeqModelOutput(
last_hidden_state=output.last_hidden_state,
past_key_values=pkv,
decoder_hidden_states=dec_hs,
decoder_attentions=dec_attns,
cross_attentions=cross_attns,
encoder_last_hidden_state=output.encoder_last_hidden_state,
encoder_hidden_states=enc_hs,
encoder_attentions=enc_attns,
encoder_global_attentions=enc_g_attns,
)
# Copied from transformers.models.bart.modeling_tf_bart.BiasLayer
class BiasLayer(tf.keras.layers.Layer):
"""
Bias as a layer. It is used for serialization purposes: `tf.keras.Model.save_weights` stores on a per-layer basis,
so all weights have to be registered in a layer.
"""
def __init__(self, shape, initializer, trainable, name, **kwargs):
super().__init__(name=name, **kwargs)
# Note: the name of this variable will NOT be scoped when serialized, i.e. it will not be in the format of
# "outer_layer/inner_layer/.../name:0". Instead, it will be "name:0". For further details, see:
# https://github.com/huggingface/transformers/pull/18833#issuecomment-1233090214
self.bias = self.add_weight(name=name, shape=shape, initializer=initializer, trainable=trainable)
def call(self, x):
return x + self.bias
@add_start_docstrings(
"The LED Model with a language modeling head. Can be used for summarization.",
LED_START_DOCSTRING,
)
class TFLEDForConditionalGeneration(TFLEDPreTrainedModel):
_keys_to_ignore_on_load_unexpected = [
r"led.encoder.embed_tokens.weight",
r"led.decoder.embed_tokens.weight",
]
def __init__(self, config, *inputs, **kwargs):
super().__init__(config, *inputs, **kwargs)
self.led = TFLEDMainLayer(config, name="led")
self.use_cache = config.use_cache
# final_bias_logits is registered as a buffer in pytorch, so not trainable for the sake of consistency.
self.bias_layer = BiasLayer(
name="final_logits_bias", shape=[1, config.vocab_size], initializer="zeros", trainable=False
)
# TODO (Joao): investigate why LED has numerical issues in XLA generate
self.supports_xla_generation = False
def get_decoder(self):
return self.led.decoder
def get_encoder(self):
return self.led.encoder
def get_bias(self):
return {"final_logits_bias": self.bias_layer.bias}
def set_bias(self, value):
# Replaces the existing layers containing bias for correct (de)serialization.
vocab_size = value["final_logits_bias"].shape[-1]
self.bias_layer = BiasLayer(
name="final_logits_bias", shape=[1, vocab_size], initializer="zeros", trainable=False
)
self.bias_layer.bias.assign(value["final_logits_bias"])
def get_output_embeddings(self):
return self.get_input_embeddings()
def set_output_embeddings(self, value):
self.set_input_embeddings(value)
@unpack_inputs
@add_start_docstrings_to_model_forward(LED_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=TFLEDSeq2SeqLMOutput, config_class=_CONFIG_FOR_DOC)
def call(
self,
input_ids: TFModelInputType | None = None,
attention_mask: np.ndarray | tf.Tensor | None = None,
decoder_input_ids: np.ndarray | tf.Tensor | None = None,
decoder_attention_mask: np.ndarray | tf.Tensor | None = None,
head_mask: np.ndarray | tf.Tensor | None = None,
decoder_head_mask: np.ndarray | tf.Tensor | None = None,
encoder_outputs: Optional[TFLEDEncoderBaseModelOutput] = None,
global_attention_mask: np.ndarray | tf.Tensor | None = None,
past_key_values: Optional[Tuple[Tuple[Union[np.ndarray, tf.Tensor]]]] = None,
inputs_embeds: np.ndarray | tf.Tensor | None = None,
decoder_inputs_embeds: np.ndarray | tf.Tensor | None = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
labels: tf.Tensor | None = None,
training: bool = False,
):
"""
Returns:
Examples:
```python
>>> from transformers import AutoTokenizer, TFLEDForConditionalGeneration
>>> import tensorflow as tf
>>> mname = "allenai/led-base-16384"
>>> tokenizer = AutoTokenizer.from_pretrained(mname)
>>> TXT = "My friends are <mask> but they eat too many carbs."
>>> model = TFLEDForConditionalGeneration.from_pretrained(mname)
>>> batch = tokenizer([TXT], return_tensors="tf")
>>> logits = model(inputs=batch.input_ids).logits
>>> probs = tf.nn.softmax(logits[0])
>>> # probs[5] is associated with the mask token
```"""
if labels is not None:
use_cache = False
if decoder_input_ids is None and decoder_inputs_embeds is None:
decoder_input_ids = shift_tokens_right(
labels, self.config.pad_token_id, self.config.decoder_start_token_id
)
outputs = self.led(
input_ids,
attention_mask=attention_mask,
decoder_input_ids=decoder_input_ids,
decoder_attention_mask=decoder_attention_mask,
encoder_outputs=encoder_outputs,
global_attention_mask=global_attention_mask,
head_mask=head_mask,
decoder_head_mask=decoder_head_mask,
past_key_values=past_key_values,
inputs_embeds=inputs_embeds,
decoder_inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
training=training,
)
lm_logits = tf.matmul(outputs[0], self.led.shared.weights, transpose_b=True)
lm_logits = self.bias_layer(lm_logits)
masked_lm_loss = None if labels is None else self.hf_compute_loss(labels, lm_logits)
if not return_dict:
output = (lm_logits,) + outputs[1:]
return ((masked_lm_loss,) + output) if masked_lm_loss is not None else output
return TFLEDSeq2SeqLMOutput(
loss=masked_lm_loss,
logits=lm_logits,
past_key_values=outputs.past_key_values, # index 1 of d outputs
decoder_hidden_states=outputs.decoder_hidden_states, # index 2 of d outputs
decoder_attentions=outputs.decoder_attentions, # index 3 of d outputs
cross_attentions=outputs.cross_attentions, # index 4 of d outputs
encoder_last_hidden_state=outputs.encoder_last_hidden_state, # index 0 of encoder outputs
encoder_hidden_states=outputs.encoder_hidden_states, # 1 of e out
encoder_attentions=outputs.encoder_attentions, # 2 of e out
encoder_global_attentions=outputs.encoder_global_attentions,
)
def serving_output(self, output):
pkv = tf.tuple(output.past_key_values)[1] if self.config.use_cache else None
dec_hs = tf.convert_to_tensor(output.decoder_hidden_states) if self.config.output_hidden_states else None
dec_attns = tf.convert_to_tensor(output.decoder_attentions) if self.config.output_attentions else None
cross_attns = tf.convert_to_tensor(output.cross_attentions) if self.config.output_attentions else None
enc_hs = tf.convert_to_tensor(output.encoder_hidden_states) if self.config.output_hidden_states else None
enc_attns = tf.convert_to_tensor(output.encoder_attentions) if self.config.output_attentions else None
enc_g_attns = tf.convert_to_tensor(output.encoder_global_attentions) if self.config.output_attentions else None
return TFLEDSeq2SeqLMOutput(
logits=output.logits,
past_key_values=pkv,
decoder_hidden_states=dec_hs,
decoder_attentions=dec_attns,
cross_attentions=cross_attns,
encoder_last_hidden_state=output.encoder_last_hidden_state,
encoder_hidden_states=enc_hs,
encoder_attentions=enc_attns,
encoder_global_attentions=enc_g_attns,
)
def prepare_inputs_for_generation(
self,
decoder_input_ids,
past_key_values=None,
attention_mask=None,
head_mask=None,
decoder_head_mask=None,
use_cache=None,
encoder_outputs=None,
**kwargs,
):
# cut decoder_input_ids if past is used
if past_key_values is not None:
decoder_input_ids = decoder_input_ids[:, -1:]
return {
"input_ids": None, # encoder_outputs is defined. input_ids not needed
"encoder_outputs": encoder_outputs,
"past_key_values": past_key_values,
"decoder_input_ids": decoder_input_ids,
"attention_mask": attention_mask,
"head_mask": head_mask,
"decoder_head_mask": decoder_head_mask,
"use_cache": use_cache, # change this to avoid caching (presumably for debugging)
}
def prepare_decoder_input_ids_from_labels(self, labels: tf.Tensor):
return shift_tokens_right(labels, self.config.pad_token_id, self.config.decoder_start_token_id)
def hf_compute_loss(self, labels, logits):
"""CrossEntropyLoss that ignores pad tokens"""
loss_fn = tf.keras.losses.SparseCategoricalCrossentropy(
from_logits=True, reduction=tf.keras.losses.Reduction.NONE
)
if self.config.tf_legacy_loss:
melted_labels = tf.reshape(labels, (-1,))
active_loss = tf.not_equal(melted_labels, self.config.pad_token_id)
reduced_logits = tf.boolean_mask(tf.reshape(logits, (-1, shape_list(logits)[2])), active_loss)
labels = tf.boolean_mask(melted_labels, active_loss)
return loss_fn(labels, reduced_logits)
# Clip negative labels to zero here to avoid NaNs and errors - those positions will get masked later anyway
unmasked_loss = loss_fn(tf.nn.relu(labels), logits)
# make sure only non-padding labels affect the loss
loss_mask = tf.cast(labels != self.config.pad_token_id, dtype=unmasked_loss.dtype)
masked_loss = unmasked_loss * loss_mask
reduced_masked_loss = tf.reduce_sum(masked_loss) / tf.reduce_sum(loss_mask)
return tf.reshape(reduced_masked_loss, (1,))
| transformers-main | src/transformers/models/led/modeling_tf_led.py |
# coding=utf-8
# Copyright 2021 Iz Beltagy, Matthew E. Peters, Arman Cohan and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" LED model configuration"""
from typing import List, Union
from ...configuration_utils import PretrainedConfig
from ...utils import logging
logger = logging.get_logger(__name__)
LED_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"allenai/led-base-16384": "https://huggingface.co/allenai/led-base-16384/resolve/main/config.json",
# See all LED models at https://huggingface.co/models?filter=led
}
class LEDConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`LEDModel`]. It is used to instantiate an LED
model according to the specified arguments, defining the model architecture. Instantiating a configuration with the
defaults will yield a similar configuration to that of the LED
[allenai/led-base-16384](https://huggingface.co/allenai/led-base-16384) architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
vocab_size (`int`, *optional*, defaults to 50265):
Vocabulary size of the LED model. Defines the number of different tokens that can be represented by the
`inputs_ids` passed when calling [`LEDModel`] or [`TFLEDModel`].
d_model (`int`, *optional*, defaults to 1024):
Dimensionality of the layers and the pooler layer.
encoder_layers (`int`, *optional*, defaults to 12):
Number of encoder layers.
decoder_layers (`int`, *optional*, defaults to 12):
Number of decoder layers.
encoder_attention_heads (`int`, *optional*, defaults to 16):
Number of attention heads for each attention layer in the Transformer encoder.
decoder_attention_heads (`int`, *optional*, defaults to 16):
Number of attention heads for each attention layer in the Transformer decoder.
decoder_ffn_dim (`int`, *optional*, defaults to 4096):
Dimensionality of the "intermediate" (often named feed-forward) layer in decoder.
encoder_ffn_dim (`int`, *optional*, defaults to 4096):
Dimensionality of the "intermediate" (often named feed-forward) layer in decoder.
activation_function (`str` or `function`, *optional*, defaults to `"gelu"`):
The non-linear activation function (function or string) in the encoder and pooler. If string, `"gelu"`,
`"relu"`, `"silu"` and `"gelu_new"` are supported.
dropout (`float`, *optional*, defaults to 0.1):
The dropout probability for all fully connected layers in the embeddings, encoder, and pooler.
attention_dropout (`float`, *optional*, defaults to 0.0):
The dropout ratio for the attention probabilities.
activation_dropout (`float`, *optional*, defaults to 0.0):
The dropout ratio for activations inside the fully connected layer.
classifier_dropout (`float`, *optional*, defaults to 0.0):
The dropout ratio for classifier.
max_encoder_position_embeddings (`int`, *optional*, defaults to 16384):
The maximum sequence length that the encoder might ever be used with.
max_decoder_position_embeddings (`int`, *optional*, defaults to 16384):
The maximum sequence length that the decoder might ever be used with.
init_std (`float`, *optional*, defaults to 0.02):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
encoder_layerdrop (`float`, *optional*, defaults to 0.0):
The LayerDrop probability for the encoder. See the [LayerDrop paper](see https://arxiv.org/abs/1909.11556)
for more details.
decoder_layerdrop (`float`, *optional*, defaults to 0.0):
The LayerDrop probability for the decoder. See the [LayerDrop paper](see https://arxiv.org/abs/1909.11556)
for more details.
use_cache (`bool`, *optional*, defaults to `True`):
Whether or not the model should return the last key/values attentions (not used by all models)
Example:
```python
>>> from transformers import LEDModel, LEDConfig
>>> # Initializing a LED allenai/led-base-16384 style configuration
>>> configuration = LEDConfig()
>>> # Initializing a model from the allenai/led-base-16384 style configuration
>>> model = LEDModel(configuration)
>>> # Accessing the model configuration
>>> configuration = model.config
```"""
model_type = "led"
attribute_map = {
"num_attention_heads": "encoder_attention_heads",
"hidden_size": "d_model",
"attention_probs_dropout_prob": "attention_dropout",
"initializer_range": "init_std",
}
def __init__(
self,
vocab_size=50265,
max_encoder_position_embeddings=16384,
max_decoder_position_embeddings=1024,
encoder_layers=12,
encoder_ffn_dim=4096,
encoder_attention_heads=16,
decoder_layers=12,
decoder_ffn_dim=4096,
decoder_attention_heads=16,
encoder_layerdrop=0.0,
decoder_layerdrop=0.0,
use_cache=True,
is_encoder_decoder=True,
activation_function="gelu",
d_model=1024,
dropout=0.1,
attention_dropout=0.0,
activation_dropout=0.0,
init_std=0.02,
decoder_start_token_id=2,
classifier_dropout=0.0,
pad_token_id=1,
bos_token_id=0,
eos_token_id=2,
attention_window: Union[List[int], int] = 512,
**kwargs,
):
self.vocab_size = vocab_size
self.max_encoder_position_embeddings = max_encoder_position_embeddings
self.max_decoder_position_embeddings = max_decoder_position_embeddings
self.d_model = d_model
self.encoder_ffn_dim = encoder_ffn_dim
self.encoder_layers = encoder_layers
self.encoder_attention_heads = encoder_attention_heads
self.decoder_ffn_dim = decoder_ffn_dim
self.decoder_layers = decoder_layers
self.decoder_attention_heads = decoder_attention_heads
self.dropout = dropout
self.attention_dropout = attention_dropout
self.activation_dropout = activation_dropout
self.activation_function = activation_function
self.init_std = init_std
self.encoder_layerdrop = encoder_layerdrop
self.decoder_layerdrop = decoder_layerdrop
self.classifier_dropout = classifier_dropout
self.use_cache = use_cache
self.num_hidden_layers = encoder_layers
self.attention_window = attention_window
super().__init__(
pad_token_id=pad_token_id,
bos_token_id=bos_token_id,
eos_token_id=eos_token_id,
is_encoder_decoder=is_encoder_decoder,
decoder_start_token_id=decoder_start_token_id,
**kwargs,
)
| transformers-main | src/transformers/models/led/configuration_led.py |
# coding=utf-8
# Copyright 2021 Iz Beltagy, Matthew E. Peters, Arman Cohan and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Tokenization classes for LED."""
import json
from typing import Dict, List, Optional, Tuple, Union
from tokenizers import pre_tokenizers, processors
from ...tokenization_utils_base import AddedToken, BatchEncoding, EncodedInput
from ...tokenization_utils_fast import PreTrainedTokenizerFast
from ...utils import PaddingStrategy, logging
from .tokenization_led import LEDTokenizer
logger = logging.get_logger(__name__)
VOCAB_FILES_NAMES = {"vocab_file": "vocab.json", "merges_file": "merges.txt", "tokenizer_file": "tokenizer.json"}
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"allenai/led-base-16384": "https://huggingface.co/allenai/led-base-16384/resolve/main/vocab.json",
},
"merges_file": {
"allenai/led-base-16384": "https://huggingface.co/allenai/led-base-16384/resolve/main/merges.txt",
},
"tokenizer_file": {
"allenai/led-base-16384": "https://huggingface.co/allenai/led-base-16384/resolve/main/tokenizer.json",
},
}
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {
"allenai/led-base-16384": 16384,
}
class LEDTokenizerFast(PreTrainedTokenizerFast):
r"""
Construct a "fast" LED tokenizer (backed by HuggingFace's *tokenizers* library), derived from the GPT-2 tokenizer,
using byte-level Byte-Pair-Encoding.
This tokenizer has been trained to treat spaces like parts of the tokens (a bit like sentencepiece) so a word will
be encoded differently whether it is at the beginning of the sentence (without space) or not:
```python
>>> from transformers import LEDTokenizerFast
>>> tokenizer = LEDTokenizerFast.from_pretrained("allenai/led-base-16384")
>>> tokenizer("Hello world")["input_ids"]
[0, 31414, 232, 2]
>>> tokenizer(" Hello world")["input_ids"]
[0, 20920, 232, 2]
```
You can get around that behavior by passing `add_prefix_space=True` when instantiating this tokenizer or when you
call it on some text, but since the model was not pretrained this way, it might yield a decrease in performance.
<Tip>
When used with `is_split_into_words=True`, this tokenizer needs to be instantiated with `add_prefix_space=True`.
</Tip>
This tokenizer inherits from [`PreTrainedTokenizerFast`] which contains most of the main methods. Users should
refer to this superclass for more information regarding those methods.
Args:
vocab_file (`str`):
Path to the vocabulary file.
merges_file (`str`):
Path to the merges file.
errors (`str`, *optional*, defaults to `"replace"`):
Paradigm to follow when decoding bytes to UTF-8. See
[bytes.decode](https://docs.python.org/3/library/stdtypes.html#bytes.decode) for more information.
bos_token (`str`, *optional*, defaults to `"<s>"`):
The beginning of sequence token that was used during pretraining. Can be used a sequence classifier token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the beginning of
sequence. The token used is the `cls_token`.
</Tip>
eos_token (`str`, *optional*, defaults to `"</s>"`):
The end of sequence token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the end of sequence.
The token used is the `sep_token`.
</Tip>
sep_token (`str`, *optional*, defaults to `"</s>"`):
The separator token, which is used when building a sequence from multiple sequences, e.g. two sequences for
sequence classification or for a text and a question for question answering. It is also used as the last
token of a sequence built with special tokens.
cls_token (`str`, *optional*, defaults to `"<s>"`):
The classifier token which is used when doing sequence classification (classification of the whole sequence
instead of per-token classification). It is the first token of the sequence when built with special tokens.
unk_token (`str`, *optional*, defaults to `"<unk>"`):
The unknown token. A token that is not in the vocabulary cannot be converted to an ID and is set to be this
token instead.
pad_token (`str`, *optional*, defaults to `"<pad>"`):
The token used for padding, for example when batching sequences of different lengths.
mask_token (`str`, *optional*, defaults to `"<mask>"`):
The token used for masking values. This is the token used when training this model with masked language
modeling. This is the token which the model will try to predict.
add_prefix_space (`bool`, *optional*, defaults to `False`):
Whether or not to add an initial space to the input. This allows to treat the leading word just as any
other word. (LED tokenizer detect beginning of words by the preceding space).
trim_offsets (`bool`, *optional*, defaults to `True`):
Whether the post processing step should trim offsets to avoid including whitespaces.
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
slow_tokenizer_class = LEDTokenizer
model_input_names = ["input_ids", "attention_mask"]
# Copied from transformers.models.bart.tokenization_bart_fast.BartTokenizerFast.__init__
def __init__(
self,
vocab_file=None,
merges_file=None,
tokenizer_file=None,
errors="replace",
bos_token="<s>",
eos_token="</s>",
sep_token="</s>",
cls_token="<s>",
unk_token="<unk>",
pad_token="<pad>",
mask_token="<mask>",
add_prefix_space=False,
trim_offsets=True,
**kwargs,
):
super().__init__(
vocab_file,
merges_file,
tokenizer_file=tokenizer_file,
errors=errors,
bos_token=bos_token,
eos_token=eos_token,
sep_token=sep_token,
cls_token=cls_token,
unk_token=unk_token,
pad_token=pad_token,
mask_token=mask_token,
add_prefix_space=add_prefix_space,
trim_offsets=trim_offsets,
**kwargs,
)
pre_tok_state = json.loads(self.backend_tokenizer.pre_tokenizer.__getstate__())
if pre_tok_state.get("add_prefix_space", add_prefix_space) != add_prefix_space:
pre_tok_class = getattr(pre_tokenizers, pre_tok_state.pop("type"))
pre_tok_state["add_prefix_space"] = add_prefix_space
self.backend_tokenizer.pre_tokenizer = pre_tok_class(**pre_tok_state)
self.add_prefix_space = add_prefix_space
# the pre_tokenizer is already updated in the GPT2TokenizerFast `__init__`
tokenizer_component = "post_processor"
tokenizer_component_instance = getattr(self.backend_tokenizer, tokenizer_component, None)
if tokenizer_component_instance:
state = json.loads(tokenizer_component_instance.__getstate__())
# The lists 'sep' and 'cls' must be cased in tuples for the object `post_processor_class`
if "sep" in state:
state["sep"] = tuple(state["sep"])
if "cls" in state:
state["cls"] = tuple(state["cls"])
changes_to_apply = False
if state.get("add_prefix_space", add_prefix_space) != add_prefix_space:
state["add_prefix_space"] = add_prefix_space
changes_to_apply = True
if state.get("trim_offsets", trim_offsets) != trim_offsets:
state["trim_offsets"] = trim_offsets
changes_to_apply = True
if changes_to_apply:
component_class = getattr(processors, state.pop("type"))
new_value = component_class(**state)
setattr(self.backend_tokenizer, tokenizer_component, new_value)
@property
# Copied from transformers.models.bart.tokenization_bart_fast.BartTokenizerFast.mask_token with BART->LED
def mask_token(self) -> str:
"""
`str`: Mask token, to use when training a model with masked-language modeling. Log an error if used while not
having been set.
LED tokenizer has a special mask token to be usable in the fill-mask pipeline. The mask token will greedily
comprise the space before the *<mask>*.
"""
if self._mask_token is None:
if self.verbose:
logger.error("Using mask_token, but it is not set yet.")
return None
return str(self._mask_token)
@mask_token.setter
def mask_token(self, value):
"""
Overriding the default behavior of the mask token to have it eat the space before it.
This is needed to preserve backward compatibility with all the previously used models based on LED.
"""
# Mask token behave like a normal word, i.e. include the space before it
# So we set lstrip to True
value = AddedToken(value, lstrip=True, rstrip=False) if isinstance(value, str) else value
self._mask_token = value
# Copied from transformers.models.bart.tokenization_bart_fast.BartTokenizerFast._batch_encode_plus
def _batch_encode_plus(self, *args, **kwargs) -> BatchEncoding:
is_split_into_words = kwargs.get("is_split_into_words", False)
if is_split_into_words and not self.add_prefix_space:
raise ValueError(
f"You need to instantiate {self.__class__.__name__} with add_prefix_space=True "
"to use it with pretokenized inputs."
)
return super()._batch_encode_plus(*args, **kwargs)
# Copied from transformers.models.bart.tokenization_bart_fast.BartTokenizerFast._encode_plus
def _encode_plus(self, *args, **kwargs) -> BatchEncoding:
is_split_into_words = kwargs.get("is_split_into_words", False)
if is_split_into_words and not self.add_prefix_space:
raise ValueError(
f"You need to instantiate {self.__class__.__name__} with add_prefix_space=True "
"to use it with pretokenized inputs."
)
return super()._encode_plus(*args, **kwargs)
# Copied from transformers.models.bart.tokenization_bart_fast.BartTokenizerFast.save_vocabulary
def save_vocabulary(self, save_directory: str, filename_prefix: Optional[str] = None) -> Tuple[str]:
files = self._tokenizer.model.save(save_directory, name=filename_prefix)
return tuple(files)
# Copied from transformers.models.bart.tokenization_bart_fast.BartTokenizerFast.build_inputs_with_special_tokens
def build_inputs_with_special_tokens(self, token_ids_0, token_ids_1=None):
output = [self.bos_token_id] + token_ids_0 + [self.eos_token_id]
if token_ids_1 is None:
return output
return output + [self.eos_token_id] + token_ids_1 + [self.eos_token_id]
# Copied from transformers.models.bart.tokenization_bart_fast.BartTokenizerFast.create_token_type_ids_from_sequences with BART->LED
def create_token_type_ids_from_sequences(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Create a mask from the two sequences passed to be used in a sequence-pair classification task. LED does not
make use of token type ids, therefore a list of zeros is returned.
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of zeros.
"""
sep = [self.sep_token_id]
cls = [self.cls_token_id]
if token_ids_1 is None:
return len(cls + token_ids_0 + sep) * [0]
return len(cls + token_ids_0 + sep + sep + token_ids_1 + sep) * [0]
# Copied from transformers.models.led.tokenization_led.LEDTokenizer._pad
def _pad(
self,
encoded_inputs: Union[Dict[str, EncodedInput], BatchEncoding],
max_length: Optional[int] = None,
padding_strategy: PaddingStrategy = PaddingStrategy.DO_NOT_PAD,
pad_to_multiple_of: Optional[int] = None,
return_attention_mask: Optional[bool] = None,
) -> dict:
encoded_inputs = super()._pad(
encoded_inputs=encoded_inputs,
max_length=max_length,
padding_strategy=padding_strategy,
pad_to_multiple_of=pad_to_multiple_of,
return_attention_mask=return_attention_mask,
)
# Load from model defaults
if return_attention_mask is None:
return_attention_mask = "attention_mask" in self.model_input_names
if return_attention_mask and "global_attention_mask" in encoded_inputs:
required_input = encoded_inputs[self.model_input_names[0]]
# `global_attention_mask` need to have the same length as other (sequential) inputs.
needs_to_be_padded = len(encoded_inputs["global_attention_mask"]) != len(required_input)
if needs_to_be_padded:
difference = len(required_input) - len(encoded_inputs["global_attention_mask"])
if self.padding_side == "right":
# Use `-1` since `0` in `global_attention_mask` means `local attention` instead of `not to attend`
encoded_inputs["global_attention_mask"] = (
encoded_inputs["global_attention_mask"] + [-1] * difference
)
elif self.padding_side == "left":
encoded_inputs["global_attention_mask"] = [-1] * difference + encoded_inputs[
"global_attention_mask"
]
else:
raise ValueError("Invalid padding strategy:" + str(self.padding_side))
return encoded_inputs
| transformers-main | src/transformers/models/led/tokenization_led_fast.py |
# coding=utf-8
# Copyright 2021 Iz Beltagy, Matthew E. Peters, Arman Cohan and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Tokenization classes for LED."""
import json
import os
from functools import lru_cache
from typing import Dict, List, Optional, Tuple, Union
import regex as re
from ...tokenization_utils import AddedToken, PreTrainedTokenizer
from ...tokenization_utils_base import BatchEncoding, EncodedInput
from ...utils import PaddingStrategy, logging
logger = logging.get_logger(__name__)
VOCAB_FILES_NAMES = {"vocab_file": "vocab.json", "merges_file": "merges.txt"}
# See all LED models at https://huggingface.co/models?filter=LED
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"allenai/led-base-16384": "https://huggingface.co/allenai/led-base-16384/resolve/main/vocab.json",
},
"merges_file": {
"allenai/led-base-16384": "https://huggingface.co/allenai/led-base-16384/resolve/main/merges.txt",
},
"tokenizer_file": {
"allenai/led-base-16384": "https://huggingface.co/allenai/led-base-16384/resolve/main/tokenizer.json",
},
}
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {
"allenai/led-base-16384": 16384,
}
@lru_cache()
# Copied from transformers.models.bart.tokenization_bart.bytes_to_unicode
def bytes_to_unicode():
"""
Returns list of utf-8 byte and a mapping to unicode strings. We specifically avoids mapping to whitespace/control
characters the bpe code barfs on.
The reversible bpe codes work on unicode strings. This means you need a large # of unicode characters in your vocab
if you want to avoid UNKs. When you're at something like a 10B token dataset you end up needing around 5K for
decent coverage. This is a significant percentage of your normal, say, 32K bpe vocab. To avoid that, we want lookup
tables between utf-8 bytes and unicode strings.
"""
bs = (
list(range(ord("!"), ord("~") + 1)) + list(range(ord("¡"), ord("¬") + 1)) + list(range(ord("®"), ord("ÿ") + 1))
)
cs = bs[:]
n = 0
for b in range(2**8):
if b not in bs:
bs.append(b)
cs.append(2**8 + n)
n += 1
cs = [chr(n) for n in cs]
return dict(zip(bs, cs))
# Copied from transformers.models.bart.tokenization_bart.get_pairs
def get_pairs(word):
"""
Return set of symbol pairs in a word.
Word is represented as tuple of symbols (symbols being variable-length strings).
"""
pairs = set()
prev_char = word[0]
for char in word[1:]:
pairs.add((prev_char, char))
prev_char = char
return pairs
class LEDTokenizer(PreTrainedTokenizer):
"""
Constructs a LED tokenizer, which is smilar to the ROBERTa tokenizer, using byte-level Byte-Pair-Encoding.
This tokenizer has been trained to treat spaces like parts of the tokens (a bit like sentencepiece) so a word will
be encoded differently whether it is at the beginning of the sentence (without space) or not:
```python
>>> from transformers import LEDTokenizer
>>> tokenizer = LEDTokenizer.from_pretrained("allenai/led-base-16384")
>>> tokenizer("Hello world")["input_ids"]
[0, 31414, 232, 2]
>>> tokenizer(" Hello world")["input_ids"]
[0, 20920, 232, 2]
```
You can get around that behavior by passing `add_prefix_space=True` when instantiating this tokenizer or when you
call it on some text, but since the model was not pretrained this way, it might yield a decrease in performance.
<Tip>
When used with `is_split_into_words=True`, this tokenizer will add a space before each word (even the first one).
</Tip>
This tokenizer inherits from [`PreTrainedTokenizer`] which contains most of the main methods. Users should refer to
this superclass for more information regarding those methods.
Args:
vocab_file (`str`):
Path to the vocabulary file.
merges_file (`str`):
Path to the merges file.
errors (`str`, *optional*, defaults to `"replace"`):
Paradigm to follow when decoding bytes to UTF-8. See
[bytes.decode](https://docs.python.org/3/library/stdtypes.html#bytes.decode) for more information.
bos_token (`str`, *optional*, defaults to `"<s>"`):
The beginning of sequence token that was used during pretraining. Can be used a sequence classifier token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the beginning of
sequence. The token used is the `cls_token`.
</Tip>
eos_token (`str`, *optional*, defaults to `"</s>"`):
The end of sequence token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the end of sequence.
The token used is the `sep_token`.
</Tip>
sep_token (`str`, *optional*, defaults to `"</s>"`):
The separator token, which is used when building a sequence from multiple sequences, e.g. two sequences for
sequence classification or for a text and a question for question answering. It is also used as the last
token of a sequence built with special tokens.
cls_token (`str`, *optional*, defaults to `"<s>"`):
The classifier token which is used when doing sequence classification (classification of the whole sequence
instead of per-token classification). It is the first token of the sequence when built with special tokens.
unk_token (`str`, *optional*, defaults to `"<unk>"`):
The unknown token. A token that is not in the vocabulary cannot be converted to an ID and is set to be this
token instead.
pad_token (`str`, *optional*, defaults to `"<pad>"`):
The token used for padding, for example when batching sequences of different lengths.
mask_token (`str`, *optional*, defaults to `"<mask>"`):
The token used for masking values. This is the token used when training this model with masked language
modeling. This is the token which the model will try to predict.
add_prefix_space (`bool`, *optional*, defaults to `False`):
Whether or not to add an initial space to the input. This allows to treat the leading word just as any
other word. (BART tokenizer detect beginning of words by the preceding space).
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
model_input_names = ["input_ids", "attention_mask"]
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer.__init__
def __init__(
self,
vocab_file,
merges_file,
errors="replace",
bos_token="<s>",
eos_token="</s>",
sep_token="</s>",
cls_token="<s>",
unk_token="<unk>",
pad_token="<pad>",
mask_token="<mask>",
add_prefix_space=False,
**kwargs,
):
bos_token = AddedToken(bos_token, lstrip=False, rstrip=False) if isinstance(bos_token, str) else bos_token
eos_token = AddedToken(eos_token, lstrip=False, rstrip=False) if isinstance(eos_token, str) else eos_token
sep_token = AddedToken(sep_token, lstrip=False, rstrip=False) if isinstance(sep_token, str) else sep_token
cls_token = AddedToken(cls_token, lstrip=False, rstrip=False) if isinstance(cls_token, str) else cls_token
unk_token = AddedToken(unk_token, lstrip=False, rstrip=False) if isinstance(unk_token, str) else unk_token
pad_token = AddedToken(pad_token, lstrip=False, rstrip=False) if isinstance(pad_token, str) else pad_token
# Mask token behave like a normal word, i.e. include the space before it
mask_token = AddedToken(mask_token, lstrip=True, rstrip=False) if isinstance(mask_token, str) else mask_token
super().__init__(
errors=errors,
bos_token=bos_token,
eos_token=eos_token,
unk_token=unk_token,
sep_token=sep_token,
cls_token=cls_token,
pad_token=pad_token,
mask_token=mask_token,
add_prefix_space=add_prefix_space,
**kwargs,
)
with open(vocab_file, encoding="utf-8") as vocab_handle:
self.encoder = json.load(vocab_handle)
self.decoder = {v: k for k, v in self.encoder.items()}
self.errors = errors # how to handle errors in decoding
self.byte_encoder = bytes_to_unicode()
self.byte_decoder = {v: k for k, v in self.byte_encoder.items()}
with open(merges_file, encoding="utf-8") as merges_handle:
bpe_merges = merges_handle.read().split("\n")[1:-1]
bpe_merges = [tuple(merge.split()) for merge in bpe_merges]
self.bpe_ranks = dict(zip(bpe_merges, range(len(bpe_merges))))
self.cache = {}
self.add_prefix_space = add_prefix_space
# Should have added re.IGNORECASE so BPE merges can happen for capitalized versions of contractions
self.pat = re.compile(r"""'s|'t|'re|'ve|'m|'ll|'d| ?\p{L}+| ?\p{N}+| ?[^\s\p{L}\p{N}]+|\s+(?!\S)|\s+""")
@property
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer.vocab_size
def vocab_size(self):
return len(self.encoder)
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer.get_vocab
def get_vocab(self):
return dict(self.encoder, **self.added_tokens_encoder)
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer.bpe
def bpe(self, token):
if token in self.cache:
return self.cache[token]
word = tuple(token)
pairs = get_pairs(word)
if not pairs:
return token
while True:
bigram = min(pairs, key=lambda pair: self.bpe_ranks.get(pair, float("inf")))
if bigram not in self.bpe_ranks:
break
first, second = bigram
new_word = []
i = 0
while i < len(word):
try:
j = word.index(first, i)
except ValueError:
new_word.extend(word[i:])
break
else:
new_word.extend(word[i:j])
i = j
if word[i] == first and i < len(word) - 1 and word[i + 1] == second:
new_word.append(first + second)
i += 2
else:
new_word.append(word[i])
i += 1
new_word = tuple(new_word)
word = new_word
if len(word) == 1:
break
else:
pairs = get_pairs(word)
word = " ".join(word)
self.cache[token] = word
return word
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer._tokenize
def _tokenize(self, text):
"""Tokenize a string."""
bpe_tokens = []
for token in re.findall(self.pat, text):
token = "".join(
self.byte_encoder[b] for b in token.encode("utf-8")
) # Maps all our bytes to unicode strings, avoiding control tokens of the BPE (spaces in our case)
bpe_tokens.extend(bpe_token for bpe_token in self.bpe(token).split(" "))
return bpe_tokens
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer._convert_token_to_id
def _convert_token_to_id(self, token):
"""Converts a token (str) in an id using the vocab."""
return self.encoder.get(token, self.encoder.get(self.unk_token))
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer._convert_id_to_token
def _convert_id_to_token(self, index):
"""Converts an index (integer) in a token (str) using the vocab."""
return self.decoder.get(index)
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer.convert_tokens_to_string
def convert_tokens_to_string(self, tokens):
"""Converts a sequence of tokens (string) in a single string."""
text = "".join(tokens)
text = bytearray([self.byte_decoder[c] for c in text]).decode("utf-8", errors=self.errors)
return text
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer.save_vocabulary
def save_vocabulary(self, save_directory: str, filename_prefix: Optional[str] = None) -> Tuple[str]:
if not os.path.isdir(save_directory):
logger.error(f"Vocabulary path ({save_directory}) should be a directory")
return
vocab_file = os.path.join(
save_directory, (filename_prefix + "-" if filename_prefix else "") + VOCAB_FILES_NAMES["vocab_file"]
)
merge_file = os.path.join(
save_directory, (filename_prefix + "-" if filename_prefix else "") + VOCAB_FILES_NAMES["merges_file"]
)
with open(vocab_file, "w", encoding="utf-8") as f:
f.write(json.dumps(self.encoder, indent=2, sort_keys=True, ensure_ascii=False) + "\n")
index = 0
with open(merge_file, "w", encoding="utf-8") as writer:
writer.write("#version: 0.2\n")
for bpe_tokens, token_index in sorted(self.bpe_ranks.items(), key=lambda kv: kv[1]):
if index != token_index:
logger.warning(
f"Saving vocabulary to {merge_file}: BPE merge indices are not consecutive."
" Please check that the tokenizer is not corrupted!"
)
index = token_index
writer.write(" ".join(bpe_tokens) + "\n")
index += 1
return vocab_file, merge_file
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer.build_inputs_with_special_tokens with BART->LED
def build_inputs_with_special_tokens(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Build model inputs from a sequence or a pair of sequence for sequence classification tasks by concatenating and
adding special tokens. A LED sequence has the following format:
- single sequence: `<s> X </s>`
- pair of sequences: `<s> A </s></s> B </s>`
Args:
token_ids_0 (`List[int]`):
List of IDs to which the special tokens will be added.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of [input IDs](../glossary#input-ids) with the appropriate special tokens.
"""
if token_ids_1 is None:
return [self.cls_token_id] + token_ids_0 + [self.sep_token_id]
cls = [self.cls_token_id]
sep = [self.sep_token_id]
return cls + token_ids_0 + sep + sep + token_ids_1 + sep
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer.get_special_tokens_mask
def get_special_tokens_mask(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None, already_has_special_tokens: bool = False
) -> List[int]:
"""
Retrieve sequence ids from a token list that has no special tokens added. This method is called when adding
special tokens using the tokenizer `prepare_for_model` method.
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
already_has_special_tokens (`bool`, *optional*, defaults to `False`):
Whether or not the token list is already formatted with special tokens for the model.
Returns:
`List[int]`: A list of integers in the range [0, 1]: 1 for a special token, 0 for a sequence token.
"""
if already_has_special_tokens:
return super().get_special_tokens_mask(
token_ids_0=token_ids_0, token_ids_1=token_ids_1, already_has_special_tokens=True
)
if token_ids_1 is None:
return [1] + ([0] * len(token_ids_0)) + [1]
return [1] + ([0] * len(token_ids_0)) + [1, 1] + ([0] * len(token_ids_1)) + [1]
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer.create_token_type_ids_from_sequences with BART->LED
def create_token_type_ids_from_sequences(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Create a mask from the two sequences passed to be used in a sequence-pair classification task. LED does not
make use of token type ids, therefore a list of zeros is returned.
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of zeros.
"""
sep = [self.sep_token_id]
cls = [self.cls_token_id]
if token_ids_1 is None:
return len(cls + token_ids_0 + sep) * [0]
return len(cls + token_ids_0 + sep + sep + token_ids_1 + sep) * [0]
# Copied from transformers.models.bart.tokenization_bart.BartTokenizer.prepare_for_tokenization
def prepare_for_tokenization(self, text, is_split_into_words=False, **kwargs):
add_prefix_space = kwargs.pop("add_prefix_space", self.add_prefix_space)
if (is_split_into_words or add_prefix_space) and (len(text) > 0 and not text[0].isspace()):
text = " " + text
return (text, kwargs)
def _pad(
self,
encoded_inputs: Union[Dict[str, EncodedInput], BatchEncoding],
max_length: Optional[int] = None,
padding_strategy: PaddingStrategy = PaddingStrategy.DO_NOT_PAD,
pad_to_multiple_of: Optional[int] = None,
return_attention_mask: Optional[bool] = None,
) -> dict:
encoded_inputs = super()._pad(
encoded_inputs=encoded_inputs,
max_length=max_length,
padding_strategy=padding_strategy,
pad_to_multiple_of=pad_to_multiple_of,
return_attention_mask=return_attention_mask,
)
# Load from model defaults
if return_attention_mask is None:
return_attention_mask = "attention_mask" in self.model_input_names
if return_attention_mask and "global_attention_mask" in encoded_inputs:
required_input = encoded_inputs[self.model_input_names[0]]
# `global_attention_mask` need to have the same length as other (sequential) inputs.
needs_to_be_padded = len(encoded_inputs["global_attention_mask"]) != len(required_input)
if needs_to_be_padded:
difference = len(required_input) - len(encoded_inputs["global_attention_mask"])
if self.padding_side == "right":
# Use `-1` since `0` in `global_attention_mask` means `local attention` instead of `not to attend`
encoded_inputs["global_attention_mask"] = (
encoded_inputs["global_attention_mask"] + [-1] * difference
)
elif self.padding_side == "left":
encoded_inputs["global_attention_mask"] = [-1] * difference + encoded_inputs[
"global_attention_mask"
]
else:
raise ValueError("Invalid padding strategy:" + str(self.padding_side))
return encoded_inputs
| transformers-main | src/transformers/models/led/tokenization_led.py |
# Copyright 2021 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import (
OptionalDependencyNotAvailable,
_LazyModule,
is_tf_available,
is_tokenizers_available,
is_torch_available,
)
_import_structure = {
"configuration_led": ["LED_PRETRAINED_CONFIG_ARCHIVE_MAP", "LEDConfig"],
"tokenization_led": ["LEDTokenizer"],
}
try:
if not is_tokenizers_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["tokenization_led_fast"] = ["LEDTokenizerFast"]
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_led"] = [
"LED_PRETRAINED_MODEL_ARCHIVE_LIST",
"LEDForConditionalGeneration",
"LEDForQuestionAnswering",
"LEDForSequenceClassification",
"LEDModel",
"LEDPreTrainedModel",
]
try:
if not is_tf_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_tf_led"] = ["TFLEDForConditionalGeneration", "TFLEDModel", "TFLEDPreTrainedModel"]
if TYPE_CHECKING:
from .configuration_led import LED_PRETRAINED_CONFIG_ARCHIVE_MAP, LEDConfig
from .tokenization_led import LEDTokenizer
try:
if not is_tokenizers_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .tokenization_led_fast import LEDTokenizerFast
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_led import (
LED_PRETRAINED_MODEL_ARCHIVE_LIST,
LEDForConditionalGeneration,
LEDForQuestionAnswering,
LEDForSequenceClassification,
LEDModel,
LEDPreTrainedModel,
)
try:
if not is_tf_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_tf_led import TFLEDForConditionalGeneration, TFLEDModel, TFLEDPreTrainedModel
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/led/__init__.py |
# coding=utf-8
# Copyright 2021 Iz Beltagy, Matthew E. Peters, Arman Cohan and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch LED model."""
import math
import warnings
from dataclasses import dataclass
from typing import List, Optional, Tuple, Union
import torch
import torch.utils.checkpoint
from torch import nn
from torch.nn import BCEWithLogitsLoss, CrossEntropyLoss, MSELoss
from ...activations import ACT2FN
from ...modeling_outputs import (
BaseModelOutputWithPastAndCrossAttentions,
Seq2SeqLMOutput,
Seq2SeqModelOutput,
Seq2SeqQuestionAnsweringModelOutput,
Seq2SeqSequenceClassifierOutput,
)
from ...modeling_utils import PreTrainedModel
from ...utils import (
ModelOutput,
add_code_sample_docstrings,
add_end_docstrings,
add_start_docstrings,
add_start_docstrings_to_model_forward,
logging,
replace_return_docstrings,
)
from .configuration_led import LEDConfig
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "allenai/led-base-16384"
_CONFIG_FOR_DOC = "LEDConfig"
LED_PRETRAINED_MODEL_ARCHIVE_LIST = [
"allenai/led-base-16384",
# See all LED models at https://huggingface.co/models?filter=led
]
def shift_tokens_right(input_ids: torch.Tensor, pad_token_id: int, decoder_start_token_id: int):
"""
Shift input ids one token to the right.
"""
shifted_input_ids = input_ids.new_zeros(input_ids.shape)
shifted_input_ids[:, 1:] = input_ids[:, :-1].clone()
shifted_input_ids[:, 0] = decoder_start_token_id
if pad_token_id is None:
raise ValueError("config.pad_token_id has to be defined.")
# replace possible -100 values in labels by `pad_token_id`
shifted_input_ids.masked_fill_(shifted_input_ids == -100, pad_token_id)
return shifted_input_ids
def _make_causal_mask(input_ids_shape: torch.Size, dtype: torch.dtype, past_key_values_length: int = 0):
"""
Make causal mask used for bi-directional self-attention.
"""
bsz, tgt_len = input_ids_shape
mask = torch.full((tgt_len, tgt_len), torch.finfo(dtype).min)
mask_cond = torch.arange(mask.size(-1))
mask.masked_fill_(mask_cond < (mask_cond + 1).view(mask.size(-1), 1), 0)
mask = mask.to(dtype)
if past_key_values_length > 0:
mask = torch.cat([torch.zeros(tgt_len, past_key_values_length, dtype=dtype), mask], dim=-1)
return mask[None, None, :, :].expand(bsz, 1, tgt_len, tgt_len + past_key_values_length)
def _expand_mask(mask: torch.Tensor, dtype: torch.dtype, tgt_len: Optional[int] = None):
"""
Expands attention_mask from `[bsz, seq_len]` to `[bsz, 1, tgt_seq_len, src_seq_len]`.
"""
bsz, src_len = mask.size()
tgt_len = tgt_len if tgt_len is not None else src_len
expanded_mask = mask[:, None, None, :].expand(bsz, 1, tgt_len, src_len).to(dtype)
inverted_mask = 1.0 - expanded_mask
expanded_attention_mask = inverted_mask.masked_fill(inverted_mask.bool(), torch.finfo(dtype).min)
# make sure that global_attn_mask is positive
expanded_attention_mask = expanded_attention_mask * inverted_mask
return expanded_attention_mask
class LEDLearnedPositionalEmbedding(nn.Embedding):
"""
This module learns positional embeddings up to a fixed maximum size.
"""
def __init__(self, num_embeddings: int, embedding_dim: int):
super().__init__(num_embeddings, embedding_dim)
def forward(self, input_ids_shape: torch.Size, past_key_values_length: int = 0):
"""`input_ids_shape` is expected to be [bsz x seqlen]."""
bsz, seq_len = input_ids_shape[:2]
positions = torch.arange(
past_key_values_length, past_key_values_length + seq_len, dtype=torch.long, device=self.weight.device
)
return super().forward(positions)
# Copied from transformers.models.longformer.modeling_longformer.LongformerSelfAttention with Longformer->LEDEncoder
class LEDEncoderSelfAttention(nn.Module):
def __init__(self, config, layer_id):
super().__init__()
if config.hidden_size % config.num_attention_heads != 0:
raise ValueError(
f"The hidden size ({config.hidden_size}) is not a multiple of the number of attention "
f"heads ({config.num_attention_heads})"
)
self.num_heads = config.num_attention_heads
self.head_dim = int(config.hidden_size / config.num_attention_heads)
self.embed_dim = config.hidden_size
self.query = nn.Linear(config.hidden_size, self.embed_dim)
self.key = nn.Linear(config.hidden_size, self.embed_dim)
self.value = nn.Linear(config.hidden_size, self.embed_dim)
# separate projection layers for tokens with global attention
self.query_global = nn.Linear(config.hidden_size, self.embed_dim)
self.key_global = nn.Linear(config.hidden_size, self.embed_dim)
self.value_global = nn.Linear(config.hidden_size, self.embed_dim)
self.dropout = config.attention_probs_dropout_prob
self.layer_id = layer_id
attention_window = config.attention_window[self.layer_id]
assert (
attention_window % 2 == 0
), f"`attention_window` for layer {self.layer_id} has to be an even value. Given {attention_window}"
assert (
attention_window > 0
), f"`attention_window` for layer {self.layer_id} has to be positive. Given {attention_window}"
self.one_sided_attn_window_size = attention_window // 2
self.config = config
def forward(
self,
hidden_states,
attention_mask=None,
layer_head_mask=None,
is_index_masked=None,
is_index_global_attn=None,
is_global_attn=None,
output_attentions=False,
):
"""
[`LEDEncoderSelfAttention`] expects *len(hidden_states)* to be multiple of *attention_window*. Padding to
*attention_window* happens in [`LEDEncoderModel.forward`] to avoid redoing the padding on each layer.
The *attention_mask* is changed in [`LEDEncoderModel.forward`] from 0, 1, 2 to:
- -10000: no attention
- 0: local attention
- +10000: global attention
"""
hidden_states = hidden_states.transpose(0, 1)
# project hidden states
query_vectors = self.query(hidden_states)
key_vectors = self.key(hidden_states)
value_vectors = self.value(hidden_states)
seq_len, batch_size, embed_dim = hidden_states.size()
assert (
embed_dim == self.embed_dim
), f"hidden_states should have embed_dim = {self.embed_dim}, but has {embed_dim}"
# normalize query
query_vectors /= math.sqrt(self.head_dim)
query_vectors = query_vectors.view(seq_len, batch_size, self.num_heads, self.head_dim).transpose(0, 1)
key_vectors = key_vectors.view(seq_len, batch_size, self.num_heads, self.head_dim).transpose(0, 1)
attn_scores = self._sliding_chunks_query_key_matmul(
query_vectors, key_vectors, self.one_sided_attn_window_size
)
# values to pad for attention probs
remove_from_windowed_attention_mask = (attention_mask != 0)[:, :, None, None]
# cast to fp32/fp16 then replace 1's with -inf
float_mask = remove_from_windowed_attention_mask.type_as(query_vectors).masked_fill(
remove_from_windowed_attention_mask, torch.finfo(query_vectors.dtype).min
)
# diagonal mask with zeros everywhere and -inf inplace of padding
diagonal_mask = self._sliding_chunks_query_key_matmul(
float_mask.new_ones(size=float_mask.size()), float_mask, self.one_sided_attn_window_size
)
# pad local attention probs
attn_scores += diagonal_mask
assert list(attn_scores.size()) == [
batch_size,
seq_len,
self.num_heads,
self.one_sided_attn_window_size * 2 + 1,
], (
f"local_attn_probs should be of size ({batch_size}, {seq_len}, {self.num_heads},"
f" {self.one_sided_attn_window_size * 2 + 1}), but is of size {attn_scores.size()}"
)
# compute local attention probs from global attention keys and contact over window dim
if is_global_attn:
# compute global attn indices required through out forward fn
(
max_num_global_attn_indices,
is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero,
) = self._get_global_attn_indices(is_index_global_attn)
# calculate global attn probs from global key
global_key_attn_scores = self._concat_with_global_key_attn_probs(
query_vectors=query_vectors,
key_vectors=key_vectors,
max_num_global_attn_indices=max_num_global_attn_indices,
is_index_global_attn_nonzero=is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero=is_local_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero=is_local_index_no_global_attn_nonzero,
)
# concat to local_attn_probs
# (batch_size, seq_len, num_heads, extra attention count + 2*window+1)
attn_scores = torch.cat((global_key_attn_scores, attn_scores), dim=-1)
# free memory
del global_key_attn_scores
attn_probs = nn.functional.softmax(
attn_scores, dim=-1, dtype=torch.float32
) # use fp32 for numerical stability
if layer_head_mask is not None:
assert layer_head_mask.size() == (
self.num_heads,
), f"Head mask for a single layer should be of size {(self.num_heads,)}, but is {layer_head_mask.size()}"
attn_probs = layer_head_mask.view(1, 1, -1, 1) * attn_probs
# softmax sometimes inserts NaN if all positions are masked, replace them with 0
attn_probs = torch.masked_fill(attn_probs, is_index_masked[:, :, None, None], 0.0)
attn_probs = attn_probs.type_as(attn_scores)
# free memory
del attn_scores
# apply dropout
attn_probs = nn.functional.dropout(attn_probs, p=self.dropout, training=self.training)
value_vectors = value_vectors.view(seq_len, batch_size, self.num_heads, self.head_dim).transpose(0, 1)
# compute local attention output with global attention value and add
if is_global_attn:
# compute sum of global and local attn
attn_output = self._compute_attn_output_with_global_indices(
value_vectors=value_vectors,
attn_probs=attn_probs,
max_num_global_attn_indices=max_num_global_attn_indices,
is_index_global_attn_nonzero=is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero=is_local_index_global_attn_nonzero,
)
else:
# compute local attn only
attn_output = self._sliding_chunks_matmul_attn_probs_value(
attn_probs, value_vectors, self.one_sided_attn_window_size
)
assert attn_output.size() == (batch_size, seq_len, self.num_heads, self.head_dim), "Unexpected size"
attn_output = attn_output.transpose(0, 1).reshape(seq_len, batch_size, embed_dim).contiguous()
# compute value for global attention and overwrite to attention output
# TODO: remove the redundant computation
if is_global_attn:
global_attn_output, global_attn_probs = self._compute_global_attn_output_from_hidden(
hidden_states=hidden_states,
max_num_global_attn_indices=max_num_global_attn_indices,
layer_head_mask=layer_head_mask,
is_local_index_global_attn_nonzero=is_local_index_global_attn_nonzero,
is_index_global_attn_nonzero=is_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero=is_local_index_no_global_attn_nonzero,
is_index_masked=is_index_masked,
)
# get only non zero global attn output
nonzero_global_attn_output = global_attn_output[
is_local_index_global_attn_nonzero[0], :, is_local_index_global_attn_nonzero[1]
]
# overwrite values with global attention
attn_output[is_index_global_attn_nonzero[::-1]] = nonzero_global_attn_output.view(
len(is_local_index_global_attn_nonzero[0]), -1
)
# The attention weights for tokens with global attention are
# just filler values, they were never used to compute the output.
# Fill with 0 now, the correct values are in 'global_attn_probs'.
attn_probs[is_index_global_attn_nonzero] = 0
outputs = (attn_output.transpose(0, 1),)
if output_attentions:
outputs += (attn_probs,)
return outputs + (global_attn_probs,) if (is_global_attn and output_attentions) else outputs
@staticmethod
def _pad_and_transpose_last_two_dims(hidden_states_padded, padding):
"""pads rows and then flips rows and columns"""
hidden_states_padded = nn.functional.pad(
hidden_states_padded, padding
) # padding value is not important because it will be overwritten
hidden_states_padded = hidden_states_padded.view(
*hidden_states_padded.size()[:-2], hidden_states_padded.size(-1), hidden_states_padded.size(-2)
)
return hidden_states_padded
@staticmethod
def _pad_and_diagonalize(chunked_hidden_states):
"""
shift every row 1 step right, converting columns into diagonals.
Example:
```python
chunked_hidden_states: [
0.4983,
2.6918,
-0.0071,
1.0492,
-1.8348,
0.7672,
0.2986,
0.0285,
-0.7584,
0.4206,
-0.0405,
0.1599,
2.0514,
-1.1600,
0.5372,
0.2629,
]
window_overlap = num_rows = 4
```
(pad & diagonalize) => [ 0.4983, 2.6918, -0.0071, 1.0492, 0.0000, 0.0000, 0.0000
0.0000, -1.8348, 0.7672, 0.2986, 0.0285, 0.0000, 0.0000 0.0000, 0.0000, -0.7584, 0.4206,
-0.0405, 0.1599, 0.0000 0.0000, 0.0000, 0.0000, 2.0514, -1.1600, 0.5372, 0.2629 ]
"""
total_num_heads, num_chunks, window_overlap, hidden_dim = chunked_hidden_states.size()
chunked_hidden_states = nn.functional.pad(
chunked_hidden_states, (0, window_overlap + 1)
) # total_num_heads x num_chunks x window_overlap x (hidden_dim+window_overlap+1). Padding value is not important because it'll be overwritten
chunked_hidden_states = chunked_hidden_states.view(
total_num_heads, num_chunks, -1
) # total_num_heads x num_chunks x window_overlap*window_overlap+window_overlap
chunked_hidden_states = chunked_hidden_states[
:, :, :-window_overlap
] # total_num_heads x num_chunks x window_overlap*window_overlap
chunked_hidden_states = chunked_hidden_states.view(
total_num_heads, num_chunks, window_overlap, window_overlap + hidden_dim
)
chunked_hidden_states = chunked_hidden_states[:, :, :, :-1]
return chunked_hidden_states
@staticmethod
def _chunk(hidden_states, window_overlap, onnx_export: bool = False):
"""convert into overlapping chunks. Chunk size = 2w, overlap size = w"""
if not onnx_export:
# non-overlapping chunks of size = 2w
hidden_states = hidden_states.view(
hidden_states.size(0),
torch.div(hidden_states.size(1), (window_overlap * 2), rounding_mode="trunc"),
window_overlap * 2,
hidden_states.size(2),
)
# use `as_strided` to make the chunks overlap with an overlap size = window_overlap
chunk_size = list(hidden_states.size())
chunk_size[1] = chunk_size[1] * 2 - 1
chunk_stride = list(hidden_states.stride())
chunk_stride[1] = chunk_stride[1] // 2
return hidden_states.as_strided(size=chunk_size, stride=chunk_stride)
# When exporting to ONNX, use this separate logic
# have to use slow implementation since as_strided, unfold and 2d-tensor indexing aren't supported (yet) in ONNX export
# TODO replace this with
# > return hidden_states.unfold(dimension=1, size=window_overlap * 2, step=window_overlap).transpose(2, 3)
# once `unfold` is supported
# the case hidden_states.size(1) == window_overlap * 2 can also simply return hidden_states.unsqueeze(1), but that's control flow
chunk_size = [
hidden_states.size(0),
torch.div(hidden_states.size(1), window_overlap, rounding_mode="trunc") - 1,
window_overlap * 2,
hidden_states.size(2),
]
overlapping_chunks = torch.empty(chunk_size, device=hidden_states.device)
for chunk in range(chunk_size[1]):
overlapping_chunks[:, chunk, :, :] = hidden_states[
:, chunk * window_overlap : chunk * window_overlap + 2 * window_overlap, :
]
return overlapping_chunks
@staticmethod
def _mask_invalid_locations(input_tensor, affected_seq_len) -> torch.Tensor:
beginning_mask_2d = input_tensor.new_ones(affected_seq_len, affected_seq_len + 1).tril().flip(dims=[0])
beginning_mask = beginning_mask_2d[None, :, None, :]
ending_mask = beginning_mask.flip(dims=(1, 3))
beginning_input = input_tensor[:, :affected_seq_len, :, : affected_seq_len + 1]
beginning_mask = beginning_mask.expand(beginning_input.size())
input_tensor[:, :affected_seq_len, :, : affected_seq_len + 1] = torch.full_like(
beginning_input, -float("inf")
).where(beginning_mask.bool(), beginning_input)
ending_input = input_tensor[:, -affected_seq_len:, :, -(affected_seq_len + 1) :]
ending_mask = ending_mask.expand(ending_input.size())
input_tensor[:, -affected_seq_len:, :, -(affected_seq_len + 1) :] = torch.full_like(
ending_input, -float("inf")
).where(ending_mask.bool(), ending_input)
def _sliding_chunks_query_key_matmul(self, query: torch.Tensor, key: torch.Tensor, window_overlap: int):
"""
Matrix multiplication of query and key tensors using with a sliding window attention pattern. This
implementation splits the input into overlapping chunks of size 2w (e.g. 512 for pretrained LEDEncoder) with an
overlap of size window_overlap
"""
batch_size, seq_len, num_heads, head_dim = query.size()
assert (
seq_len % (window_overlap * 2) == 0
), f"Sequence length should be multiple of {window_overlap * 2}. Given {seq_len}"
assert query.size() == key.size()
chunks_count = torch.div(seq_len, window_overlap, rounding_mode="trunc") - 1
# group batch_size and num_heads dimensions into one, then chunk seq_len into chunks of size window_overlap * 2
query = query.transpose(1, 2).reshape(batch_size * num_heads, seq_len, head_dim)
key = key.transpose(1, 2).reshape(batch_size * num_heads, seq_len, head_dim)
query = self._chunk(query, window_overlap, getattr(self.config, "onnx_export", False))
key = self._chunk(key, window_overlap, getattr(self.config, "onnx_export", False))
# matrix multiplication
# bcxd: batch_size * num_heads x chunks x 2window_overlap x head_dim
# bcyd: batch_size * num_heads x chunks x 2window_overlap x head_dim
# bcxy: batch_size * num_heads x chunks x 2window_overlap x 2window_overlap
diagonal_chunked_attention_scores = torch.einsum("bcxd,bcyd->bcxy", (query, key)) # multiply
# convert diagonals into columns
diagonal_chunked_attention_scores = self._pad_and_transpose_last_two_dims(
diagonal_chunked_attention_scores, padding=(0, 0, 0, 1)
)
# allocate space for the overall attention matrix where the chunks are combined. The last dimension
# has (window_overlap * 2 + 1) columns. The first (window_overlap) columns are the window_overlap lower triangles (attention from a word to
# window_overlap previous words). The following column is attention score from each word to itself, then
# followed by window_overlap columns for the upper triangle.
diagonal_attention_scores = diagonal_chunked_attention_scores.new_zeros(
(batch_size * num_heads, chunks_count + 1, window_overlap, window_overlap * 2 + 1)
)
# copy parts from diagonal_chunked_attention_scores into the combined matrix of attentions
# - copying the main diagonal and the upper triangle
diagonal_attention_scores[:, :-1, :, window_overlap:] = diagonal_chunked_attention_scores[
:, :, :window_overlap, : window_overlap + 1
]
diagonal_attention_scores[:, -1, :, window_overlap:] = diagonal_chunked_attention_scores[
:, -1, window_overlap:, : window_overlap + 1
]
# - copying the lower triangle
diagonal_attention_scores[:, 1:, :, :window_overlap] = diagonal_chunked_attention_scores[
:, :, -(window_overlap + 1) : -1, window_overlap + 1 :
]
diagonal_attention_scores[:, 0, 1:window_overlap, 1:window_overlap] = diagonal_chunked_attention_scores[
:, 0, : window_overlap - 1, 1 - window_overlap :
]
# separate batch_size and num_heads dimensions again
diagonal_attention_scores = diagonal_attention_scores.view(
batch_size, num_heads, seq_len, 2 * window_overlap + 1
).transpose(2, 1)
self._mask_invalid_locations(diagonal_attention_scores, window_overlap)
return diagonal_attention_scores
def _sliding_chunks_matmul_attn_probs_value(
self, attn_probs: torch.Tensor, value: torch.Tensor, window_overlap: int
):
"""
Same as _sliding_chunks_query_key_matmul but for attn_probs and value tensors. Returned tensor will be of the
same shape as `attn_probs`
"""
batch_size, seq_len, num_heads, head_dim = value.size()
assert seq_len % (window_overlap * 2) == 0
assert attn_probs.size()[:3] == value.size()[:3]
assert attn_probs.size(3) == 2 * window_overlap + 1
chunks_count = torch.div(seq_len, window_overlap, rounding_mode="trunc") - 1
# group batch_size and num_heads dimensions into one, then chunk seq_len into chunks of size 2 window overlap
chunked_attn_probs = attn_probs.transpose(1, 2).reshape(
batch_size * num_heads,
torch.div(seq_len, window_overlap, rounding_mode="trunc"),
window_overlap,
2 * window_overlap + 1,
)
# group batch_size and num_heads dimensions into one
value = value.transpose(1, 2).reshape(batch_size * num_heads, seq_len, head_dim)
# pad seq_len with w at the beginning of the sequence and another window overlap at the end
padded_value = nn.functional.pad(value, (0, 0, window_overlap, window_overlap), value=-1)
# chunk padded_value into chunks of size 3 window overlap and an overlap of size window overlap
chunked_value_size = (batch_size * num_heads, chunks_count + 1, 3 * window_overlap, head_dim)
chunked_value_stride = padded_value.stride()
chunked_value_stride = (
chunked_value_stride[0],
window_overlap * chunked_value_stride[1],
chunked_value_stride[1],
chunked_value_stride[2],
)
chunked_value = padded_value.as_strided(size=chunked_value_size, stride=chunked_value_stride)
chunked_attn_probs = self._pad_and_diagonalize(chunked_attn_probs)
context = torch.einsum("bcwd,bcdh->bcwh", (chunked_attn_probs, chunked_value))
return context.view(batch_size, num_heads, seq_len, head_dim).transpose(1, 2)
@staticmethod
def _get_global_attn_indices(is_index_global_attn):
"""compute global attn indices required throughout forward pass"""
# helper variable
num_global_attn_indices = is_index_global_attn.long().sum(dim=1)
# max number of global attn indices in batch
max_num_global_attn_indices = num_global_attn_indices.max()
# indices of global attn
is_index_global_attn_nonzero = is_index_global_attn.nonzero(as_tuple=True)
# helper variable
is_local_index_global_attn = torch.arange(
max_num_global_attn_indices, device=is_index_global_attn.device
) < num_global_attn_indices.unsqueeze(dim=-1)
# location of the non-padding values within global attention indices
is_local_index_global_attn_nonzero = is_local_index_global_attn.nonzero(as_tuple=True)
# location of the padding values within global attention indices
is_local_index_no_global_attn_nonzero = (is_local_index_global_attn == 0).nonzero(as_tuple=True)
return (
max_num_global_attn_indices,
is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero,
)
def _concat_with_global_key_attn_probs(
self,
key_vectors,
query_vectors,
max_num_global_attn_indices,
is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero,
):
batch_size = key_vectors.shape[0]
# create only global key vectors
key_vectors_only_global = key_vectors.new_zeros(
batch_size, max_num_global_attn_indices, self.num_heads, self.head_dim
)
key_vectors_only_global[is_local_index_global_attn_nonzero] = key_vectors[is_index_global_attn_nonzero]
# (batch_size, seq_len, num_heads, max_num_global_attn_indices)
attn_probs_from_global_key = torch.einsum("blhd,bshd->blhs", (query_vectors, key_vectors_only_global))
# need to transpose since ONNX export only supports consecutive indexing: https://pytorch.org/docs/stable/onnx.html#writes-sets
attn_probs_from_global_key = attn_probs_from_global_key.transpose(1, 3)
attn_probs_from_global_key[
is_local_index_no_global_attn_nonzero[0], is_local_index_no_global_attn_nonzero[1], :, :
] = torch.finfo(attn_probs_from_global_key.dtype).min
attn_probs_from_global_key = attn_probs_from_global_key.transpose(1, 3)
return attn_probs_from_global_key
def _compute_attn_output_with_global_indices(
self,
value_vectors,
attn_probs,
max_num_global_attn_indices,
is_index_global_attn_nonzero,
is_local_index_global_attn_nonzero,
):
batch_size = attn_probs.shape[0]
# cut local attn probs to global only
attn_probs_only_global = attn_probs.narrow(-1, 0, max_num_global_attn_indices)
# get value vectors for global only
value_vectors_only_global = value_vectors.new_zeros(
batch_size, max_num_global_attn_indices, self.num_heads, self.head_dim
)
value_vectors_only_global[is_local_index_global_attn_nonzero] = value_vectors[is_index_global_attn_nonzero]
# use `matmul` because `einsum` crashes sometimes with fp16
# attn = torch.einsum('blhs,bshd->blhd', (selected_attn_probs, selected_v))
# compute attn output only global
attn_output_only_global = torch.matmul(
attn_probs_only_global.transpose(1, 2).clone(), value_vectors_only_global.transpose(1, 2).clone()
).transpose(1, 2)
# reshape attn probs
attn_probs_without_global = attn_probs.narrow(
-1, max_num_global_attn_indices, attn_probs.size(-1) - max_num_global_attn_indices
).contiguous()
# compute attn output with global
attn_output_without_global = self._sliding_chunks_matmul_attn_probs_value(
attn_probs_without_global, value_vectors, self.one_sided_attn_window_size
)
return attn_output_only_global + attn_output_without_global
def _compute_global_attn_output_from_hidden(
self,
hidden_states,
max_num_global_attn_indices,
layer_head_mask,
is_local_index_global_attn_nonzero,
is_index_global_attn_nonzero,
is_local_index_no_global_attn_nonzero,
is_index_masked,
):
seq_len, batch_size = hidden_states.shape[:2]
# prepare global hidden states
global_attn_hidden_states = hidden_states.new_zeros(max_num_global_attn_indices, batch_size, self.embed_dim)
global_attn_hidden_states[is_local_index_global_attn_nonzero[::-1]] = hidden_states[
is_index_global_attn_nonzero[::-1]
]
# global key, query, value
global_query_vectors_only_global = self.query_global(global_attn_hidden_states)
global_key_vectors = self.key_global(hidden_states)
global_value_vectors = self.value_global(hidden_states)
# normalize
global_query_vectors_only_global /= math.sqrt(self.head_dim)
# reshape
global_query_vectors_only_global = (
global_query_vectors_only_global.contiguous()
.view(max_num_global_attn_indices, batch_size * self.num_heads, self.head_dim)
.transpose(0, 1)
) # (batch_size * self.num_heads, max_num_global_attn_indices, head_dim)
global_key_vectors = (
global_key_vectors.contiguous().view(-1, batch_size * self.num_heads, self.head_dim).transpose(0, 1)
) # batch_size * self.num_heads, seq_len, head_dim)
global_value_vectors = (
global_value_vectors.contiguous().view(-1, batch_size * self.num_heads, self.head_dim).transpose(0, 1)
) # batch_size * self.num_heads, seq_len, head_dim)
# compute attn scores
global_attn_scores = torch.bmm(global_query_vectors_only_global, global_key_vectors.transpose(1, 2))
assert list(global_attn_scores.size()) == [
batch_size * self.num_heads,
max_num_global_attn_indices,
seq_len,
], (
"global_attn_scores have the wrong size. Size should be"
f" {(batch_size * self.num_heads, max_num_global_attn_indices, seq_len)}, but is"
f" {global_attn_scores.size()}."
)
global_attn_scores = global_attn_scores.view(batch_size, self.num_heads, max_num_global_attn_indices, seq_len)
# need to transpose since ONNX export only supports consecutive indexing: https://pytorch.org/docs/stable/onnx.html#writes-sets
global_attn_scores = global_attn_scores.transpose(1, 2)
global_attn_scores[
is_local_index_no_global_attn_nonzero[0], is_local_index_no_global_attn_nonzero[1], :, :
] = torch.finfo(global_attn_scores.dtype).min
global_attn_scores = global_attn_scores.transpose(1, 2)
global_attn_scores = global_attn_scores.masked_fill(
is_index_masked[:, None, None, :],
torch.finfo(global_attn_scores.dtype).min,
)
global_attn_scores = global_attn_scores.view(batch_size * self.num_heads, max_num_global_attn_indices, seq_len)
# compute global attn probs
global_attn_probs_float = nn.functional.softmax(
global_attn_scores, dim=-1, dtype=torch.float32
) # use fp32 for numerical stability
# apply layer head masking
if layer_head_mask is not None:
assert layer_head_mask.size() == (
self.num_heads,
), f"Head mask for a single layer should be of size {(self.num_heads,)}, but is {layer_head_mask.size()}"
global_attn_probs_float = layer_head_mask.view(1, -1, 1, 1) * global_attn_probs_float.view(
batch_size, self.num_heads, max_num_global_attn_indices, seq_len
)
global_attn_probs_float = global_attn_probs_float.view(
batch_size * self.num_heads, max_num_global_attn_indices, seq_len
)
global_attn_probs = nn.functional.dropout(
global_attn_probs_float.type_as(global_attn_scores), p=self.dropout, training=self.training
)
# global attn output
global_attn_output = torch.bmm(global_attn_probs, global_value_vectors)
assert list(global_attn_output.size()) == [
batch_size * self.num_heads,
max_num_global_attn_indices,
self.head_dim,
], (
"global_attn_output tensor has the wrong size. Size should be"
f" {(batch_size * self.num_heads, max_num_global_attn_indices, self.head_dim)}, but is"
f" {global_attn_output.size()}."
)
global_attn_probs = global_attn_probs.view(batch_size, self.num_heads, max_num_global_attn_indices, seq_len)
global_attn_output = global_attn_output.view(
batch_size, self.num_heads, max_num_global_attn_indices, self.head_dim
)
return global_attn_output, global_attn_probs
class LEDEncoderAttention(nn.Module):
def __init__(self, config, layer_id):
super().__init__()
self.longformer_self_attn = LEDEncoderSelfAttention(config, layer_id=layer_id)
self.output = nn.Linear(config.d_model, config.d_model)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.Tensor] = None,
layer_head_mask: Optional[torch.Tensor] = None,
is_index_masked: Optional[torch.Tensor] = None,
is_index_global_attn: Optional[torch.Tensor] = None,
is_global_attn: Optional[bool] = None,
output_attentions: bool = False,
) -> Tuple[torch.Tensor, Optional[torch.Tensor], Optional[Tuple[torch.Tensor]]]:
"""Input shape: Batch x Time x Channel"""
self_outputs = self.longformer_self_attn(
hidden_states=hidden_states,
attention_mask=attention_mask,
layer_head_mask=layer_head_mask,
is_index_masked=is_index_masked,
is_index_global_attn=is_index_global_attn,
is_global_attn=is_global_attn,
output_attentions=output_attentions,
)
attn_output = self.output(self_outputs[0])
outputs = (attn_output,) + self_outputs[1:]
return outputs
class LEDDecoderAttention(nn.Module):
"""Multi-headed attention from 'Attention Is All You Need' paper"""
def __init__(
self,
embed_dim: int,
num_heads: int,
dropout: float = 0.0,
is_decoder: bool = False,
bias: bool = True,
):
super().__init__()
self.embed_dim = embed_dim
self.num_heads = num_heads
self.dropout = dropout
self.head_dim = embed_dim // num_heads
if self.head_dim * num_heads != self.embed_dim:
raise ValueError(
f"embed_dim must be divisible by num_heads (got `embed_dim`: {self.embed_dim} and `num_heads`:"
f" {num_heads})."
)
self.scaling = self.head_dim**-0.5
self.is_decoder = is_decoder
self.k_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.v_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.q_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
self.out_proj = nn.Linear(embed_dim, embed_dim, bias=bias)
def _shape(self, tensor: torch.Tensor, seq_len: int, bsz: int):
return tensor.view(bsz, seq_len, self.num_heads, self.head_dim).transpose(1, 2).contiguous()
def forward(
self,
hidden_states: torch.Tensor,
key_value_states: Optional[torch.Tensor] = None,
past_key_value: Optional[Tuple[torch.Tensor]] = None,
attention_mask: Optional[torch.Tensor] = None,
layer_head_mask: Optional[torch.Tensor] = None,
output_attentions: bool = False,
) -> Tuple[torch.Tensor, Optional[torch.Tensor], Optional[Tuple[torch.Tensor]]]:
"""Input shape: Batch x Time x Channel"""
# if key_value_states are provided this layer is used as a cross-attention layer
# for the decoder
is_cross_attention = key_value_states is not None
bsz, tgt_len, embed_dim = hidden_states.size()
# get query proj
query_states = self.q_proj(hidden_states) * self.scaling
# get key, value proj
if is_cross_attention and past_key_value is not None:
# reuse k,v, cross_attentions
key_states = past_key_value[0]
value_states = past_key_value[1]
elif is_cross_attention:
# cross_attentions
key_states = self._shape(self.k_proj(key_value_states), -1, bsz)
value_states = self._shape(self.v_proj(key_value_states), -1, bsz)
elif past_key_value is not None:
# reuse k, v, self_attention
key_states = self._shape(self.k_proj(hidden_states), -1, bsz)
value_states = self._shape(self.v_proj(hidden_states), -1, bsz)
key_states = torch.cat([past_key_value[0], key_states], dim=2)
value_states = torch.cat([past_key_value[1], value_states], dim=2)
else:
# self_attention
key_states = self._shape(self.k_proj(hidden_states), -1, bsz)
value_states = self._shape(self.v_proj(hidden_states), -1, bsz)
if self.is_decoder:
# if cross_attention save Tuple(torch.Tensor, torch.Tensor) of all cross attention key/value_states.
# Further calls to cross_attention layer can then reuse all cross-attention
# key/value_states (first "if" case)
# if uni-directional self-attention (decoder) save Tuple(torch.Tensor, torch.Tensor) of
# all previous decoder key/value_states. Further calls to uni-directional self-attention
# can concat previous decoder key/value_states to current projected key/value_states (third "elif" case)
# if encoder bi-directional self-attention `past_key_value` is always `None`
past_key_value = (key_states, value_states)
proj_shape = (bsz * self.num_heads, -1, self.head_dim)
query_states = self._shape(query_states, tgt_len, bsz).view(*proj_shape)
key_states = key_states.view(*proj_shape)
value_states = value_states.view(*proj_shape)
src_len = key_states.size(1)
attn_weights = torch.bmm(query_states, key_states.transpose(1, 2))
if attn_weights.size() != (bsz * self.num_heads, tgt_len, src_len):
raise ValueError(
f"Attention weights should be of size {(bsz * self.num_heads, tgt_len, src_len)}, but is"
f" {attn_weights.size()}"
)
if attention_mask is not None:
if attention_mask.size() != (bsz, 1, tgt_len, src_len):
raise ValueError(
f"Attention mask should be of size {(bsz, 1, tgt_len, src_len)}, but is {attention_mask.size()}"
)
attn_weights = attn_weights.view(bsz, self.num_heads, tgt_len, src_len) + attention_mask
attn_weights = attn_weights.view(bsz * self.num_heads, tgt_len, src_len)
attn_weights = nn.functional.softmax(attn_weights, dim=-1)
if layer_head_mask is not None:
if layer_head_mask.size() != (self.num_heads,):
raise ValueError(
f"Head mask for a single layer should be of size {(self.num_heads,)}, but is"
f" {layer_head_mask.size()}"
)
attn_weights = layer_head_mask.view(1, -1, 1, 1) * attn_weights.view(bsz, self.num_heads, tgt_len, src_len)
attn_weights = attn_weights.view(bsz * self.num_heads, tgt_len, src_len)
if output_attentions:
# this operation is a bit awkward, but it's required to
# make sure that attn_weights keeps its gradient.
# In order to do so, attn_weights have to be reshaped
# twice and have to be reused in the following
attn_weights_reshaped = attn_weights.view(bsz, self.num_heads, tgt_len, src_len)
attn_weights = attn_weights_reshaped.view(bsz * self.num_heads, tgt_len, src_len)
else:
attn_weights_reshaped = None
attn_probs = nn.functional.dropout(attn_weights, p=self.dropout, training=self.training)
attn_output = torch.bmm(attn_probs, value_states)
if attn_output.size() != (bsz * self.num_heads, tgt_len, self.head_dim):
raise ValueError(
f"`attn_output` should be of size {(bsz, self.num_heads, tgt_len, self.head_dim)}, but is"
f" {attn_output.size()}"
)
attn_output = (
attn_output.view(bsz, self.num_heads, tgt_len, self.head_dim)
.transpose(1, 2)
.reshape(bsz, tgt_len, embed_dim)
)
attn_output = self.out_proj(attn_output)
return attn_output, attn_weights_reshaped, past_key_value
class LEDEncoderLayer(nn.Module):
def __init__(self, config: LEDConfig, layer_id: int):
super().__init__()
self.embed_dim = config.d_model
self.self_attn = LEDEncoderAttention(config, layer_id)
self.self_attn_layer_norm = nn.LayerNorm(self.embed_dim)
self.dropout = config.dropout
self.activation_fn = ACT2FN[config.activation_function]
self.activation_dropout = config.activation_dropout
self.fc1 = nn.Linear(self.embed_dim, config.encoder_ffn_dim)
self.fc2 = nn.Linear(config.encoder_ffn_dim, self.embed_dim)
self.final_layer_norm = nn.LayerNorm(self.embed_dim)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: torch.Tensor,
layer_head_mask: torch.Tensor,
is_index_masked=None,
is_index_global_attn=None,
is_global_attn=None,
output_attentions=False,
):
"""
Args:
hidden_states (`torch.FloatTensor`): input to the layer of shape *(batch, seq_len, embed_dim)*
attention_mask (`torch.FloatTensor`): attention mask of size
*(batch, 1, tgt_len, src_len)* where padding elements are indicated by very large negative values.
layer_head_mask (`torch.FloatTensor`): mask for attention heads in a given layer of size
*(encoder_attention_heads,)*.
"""
residual = hidden_states
attn_outputs = self.self_attn(
hidden_states=hidden_states,
attention_mask=attention_mask,
layer_head_mask=layer_head_mask,
is_index_masked=is_index_masked,
is_index_global_attn=is_index_global_attn,
is_global_attn=is_global_attn,
output_attentions=output_attentions,
)
hidden_states = attn_outputs[0]
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.self_attn_layer_norm(hidden_states)
residual = hidden_states
hidden_states = self.activation_fn(self.fc1(hidden_states))
hidden_states = nn.functional.dropout(hidden_states, p=self.activation_dropout, training=self.training)
hidden_states = self.fc2(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.final_layer_norm(hidden_states)
if hidden_states.dtype == torch.float16 and (
torch.isinf(hidden_states).any() or torch.isnan(hidden_states).any()
):
clamp_value = torch.finfo(hidden_states.dtype).max - 1000
hidden_states = torch.clamp(hidden_states, min=-clamp_value, max=clamp_value)
return (hidden_states,) + attn_outputs[1:]
class LEDDecoderLayer(nn.Module):
def __init__(self, config: LEDConfig):
super().__init__()
self.embed_dim = config.d_model
self.self_attn = LEDDecoderAttention(
embed_dim=self.embed_dim,
num_heads=config.decoder_attention_heads,
dropout=config.attention_dropout,
is_decoder=True,
)
self.dropout = config.dropout
self.activation_fn = ACT2FN[config.activation_function]
self.activation_dropout = config.activation_dropout
self.self_attn_layer_norm = nn.LayerNorm(self.embed_dim)
self.encoder_attn = LEDDecoderAttention(
self.embed_dim,
config.decoder_attention_heads,
dropout=config.attention_dropout,
is_decoder=True,
)
self.encoder_attn_layer_norm = nn.LayerNorm(self.embed_dim)
self.fc1 = nn.Linear(self.embed_dim, config.decoder_ffn_dim)
self.fc2 = nn.Linear(config.decoder_ffn_dim, self.embed_dim)
self.final_layer_norm = nn.LayerNorm(self.embed_dim)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.Tensor] = None,
encoder_hidden_states: Optional[torch.Tensor] = None,
encoder_attention_mask: Optional[torch.Tensor] = None,
layer_head_mask: Optional[torch.Tensor] = None,
cross_attn_layer_head_mask: Optional[torch.Tensor] = None,
past_key_value: Optional[Tuple[torch.Tensor]] = None,
output_attentions: Optional[bool] = False,
use_cache: Optional[bool] = True,
):
"""
Args:
hidden_states (`torch.FloatTensor`): input to the layer of shape *(batch, seq_len, embed_dim)*
attention_mask (`torch.FloatTensor`): attention mask of size
*(batch, 1, tgt_len, src_len)* where padding elements are indicated by very large negative values.
encoder_hidden_states (`torch.FloatTensor`):
cross attention input to the layer of shape *(batch, seq_len, embed_dim)*
encoder_attention_mask (`torch.FloatTensor`): encoder attention mask of size
*(batch, 1, tgt_len, src_len)* where padding elements are indicated by very large negative values.
layer_head_mask (`torch.FloatTensor`): mask for attention heads in a given layer of size
*(decoder_attention_heads,)*.
cross_attn_layer_head_mask (`torch.FloatTensor`): mask for encoder attention heads in a given layer of
size *(decoder_attention_heads,)*.
past_key_value (`Tuple(torch.FloatTensor)`): cached past key and value projection states
output_attentions (`bool`): Whether the base model outputs attentions.
This requires the attentions tensor to be reshaped in this function.
"""
residual = hidden_states
# Self-Attention
# decoder uni-directional self-attention cached key/values tuple is at positions 1,2
self_attn_past_key_value = past_key_value[:2] if past_key_value is not None else None
# add present self-attn cache to positions 1,2 of present_key_value tuple
hidden_states, self_attn_weights, present_key_value = self.self_attn(
hidden_states=hidden_states,
past_key_value=self_attn_past_key_value,
attention_mask=attention_mask,
layer_head_mask=layer_head_mask,
output_attentions=output_attentions,
)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.self_attn_layer_norm(hidden_states)
# Cross-Attention Block
cross_attn_present_key_value = None
cross_attn_weights = None
if encoder_hidden_states is not None:
residual = hidden_states
# cross_attn cached key/values tuple is at positions 3,4 of present_key_value tuple
cross_attn_past_key_value = past_key_value[-2:] if past_key_value is not None else None
hidden_states, cross_attn_weights, cross_attn_present_key_value = self.encoder_attn(
hidden_states=hidden_states,
key_value_states=encoder_hidden_states,
attention_mask=encoder_attention_mask,
layer_head_mask=cross_attn_layer_head_mask,
past_key_value=cross_attn_past_key_value,
output_attentions=output_attentions,
)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.encoder_attn_layer_norm(hidden_states)
# add cross-attn to positions 3,4 of present_key_value tuple
present_key_value = present_key_value + cross_attn_present_key_value
# Fully Connected
residual = hidden_states
hidden_states = self.activation_fn(self.fc1(hidden_states))
hidden_states = nn.functional.dropout(hidden_states, p=self.activation_dropout, training=self.training)
hidden_states = self.fc2(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
hidden_states = residual + hidden_states
hidden_states = self.final_layer_norm(hidden_states)
outputs = (hidden_states,)
if output_attentions:
outputs += (self_attn_weights, cross_attn_weights)
if use_cache:
outputs += (present_key_value,)
return outputs
class LEDClassificationHead(nn.Module):
"""Head for sentence-level classification tasks."""
def __init__(
self,
input_dim: int,
inner_dim: int,
num_classes: int,
pooler_dropout: float,
):
super().__init__()
self.dense = nn.Linear(input_dim, inner_dim)
self.dropout = nn.Dropout(p=pooler_dropout)
self.out_proj = nn.Linear(inner_dim, num_classes)
def forward(self, hidden_states: torch.Tensor):
hidden_states = self.dropout(hidden_states)
hidden_states = self.dense(hidden_states)
hidden_states = torch.tanh(hidden_states)
hidden_states = self.dropout(hidden_states)
hidden_states = self.out_proj(hidden_states)
return hidden_states
class LEDPreTrainedModel(PreTrainedModel):
config_class = LEDConfig
base_model_prefix = "led"
supports_gradient_checkpointing = True
def _init_weights(self, module):
std = self.config.init_std
if isinstance(module, nn.Linear):
module.weight.data.normal_(mean=0.0, std=std)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=std)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, (LEDDecoder, LEDEncoder)):
module.gradient_checkpointing = value
@property
def dummy_inputs(self):
pad_token = self.config.pad_token_id
input_ids = torch.tensor([[0, 6, 10, 4, 2], [0, 8, 12, 2, pad_token]], device=self.device)
dummy_inputs = {
"attention_mask": input_ids.ne(pad_token),
"input_ids": input_ids,
}
return dummy_inputs
@dataclass
# Copied from transformers.models.longformer.modeling_longformer.LongformerBaseModelOutput with Longformer->LEDEncoder
class LEDEncoderBaseModelOutput(ModelOutput):
"""
Base class for LEDEncoder's outputs, with potential hidden states, local and global attentions.
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the model.
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length, x +
attention_window + 1)`, where `x` is the number of tokens with global attention mask.
Local attentions weights after the attention softmax, used to compute the weighted average in the
self-attention heads. Those are the attention weights from every token in the sequence to every token with
global attention (first `x` values) and to every token in the attention window (remaining `attention_window
+ 1` values). Note that the first `x` values refer to tokens with fixed positions in the text, but the
remaining `attention_window + 1` values refer to tokens with relative positions: the attention weight of a
token to itself is located at index `x + attention_window / 2` and the `attention_window / 2` preceding
(succeeding) values are the attention weights to the `attention_window / 2` preceding (succeeding) tokens.
If the attention window contains a token with global attention, the attention weight at the corresponding
index is set to 0; the value should be accessed from the first `x` attention weights. If a token has global
attention, the attention weights to all other tokens in `attentions` is set to 0, the values should be
accessed from `global_attentions`.
global_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length, x)`,
where `x` is the number of tokens with global attention mask.
Global attentions weights after the attention softmax, used to compute the weighted average in the
self-attention heads. Those are the attention weights from every token with global attention to every token
in the sequence.
"""
last_hidden_state: torch.FloatTensor
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
global_attentions: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
class LEDSeq2SeqModelOutput(ModelOutput):
"""
Base class for model encoder's outputs that also contains : pre-computed hidden states that can speed up sequential
decoding.
Args:
last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`):
Sequence of hidden-states at the output of the last layer of the decoder of the model.
If `past_key_values` is used only the last hidden-state of the sequences of shape `(batch_size, 1,
hidden_size)` is output.
past_key_values (`List[torch.FloatTensor]`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
List of `torch.FloatTensor` of length `config.n_layers`, with each tensor of shape `(2, batch_size,
num_heads, sequence_length, embed_size_per_head)`).
Contains pre-computed hidden-states (key and values in the attention blocks) of the decoder that can be
used (see `past_key_values` input) to speed up sequential decoding.
decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the decoder at the output of each layer plus the initial embedding outputs.
decoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder's cross-attention layer, after the attention softmax, used to compute the
weighted average in the cross-attention heads.
encoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder of the model.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the encoder at the output of each layer plus the initial embedding outputs.
encoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the encoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
encoder_global_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length, x)`,
where `x` is the number of tokens with global attention mask.
Global attentions weights after the attention softmax, used to compute the weighted average in the
self-attention heads. Those are the attention weights from every token with global attention to every token
in the sequence.
"""
last_hidden_state: torch.FloatTensor = None
past_key_values: Optional[List[torch.FloatTensor]] = None
decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
decoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
cross_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_last_hidden_state: Optional[torch.FloatTensor] = None
encoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
encoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_global_attentions: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
class LEDSeq2SeqLMOutput(ModelOutput):
"""
Base class for sequence-to-sequence language models outputs.
Args:
loss (`torch.FloatTensor` of shape `(1,)`, *optional*, returned when `labels` is provided):
Language modeling loss.
logits (`torch.FloatTensor` of shape `(batch_size, sequence_length, config.vocab_size)`):
Prediction scores of the language modeling head (scores for each vocabulary token before SoftMax).
past_key_values (`List[torch.FloatTensor]`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
List of `torch.FloatTensor` of length `config.n_layers`, with each tensor of shape `(2, batch_size,
num_heads, sequence_length, embed_size_per_head)`).
Contains pre-computed hidden-states (key and values in the attention blocks) of the decoder that can be
used (see `past_key_values` input) to speed up sequential decoding.
decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the decoder at the output of each layer plus the initial embedding outputs.
decoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder's cross-attention layer, after the attention softmax, used to compute the
weighted average in the cross-attention heads.
encoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder of the model.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the encoder at the output of each layer plus the initial embedding outputs.
encoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the encoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
encoder_global_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length, x)`,
where `x` is the number of tokens with global attention mask.
Global attentions weights after the attention softmax, used to compute the weighted average in the
self-attention heads. Those are the attention weights from every token with global attention to every token
in the sequence.
"""
loss: Optional[torch.FloatTensor] = None
logits: torch.FloatTensor = None
past_key_values: Optional[List[torch.FloatTensor]] = None
decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
decoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
cross_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_last_hidden_state: Optional[torch.FloatTensor] = None
encoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
encoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_global_attentions: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
class LEDSeq2SeqSequenceClassifierOutput(ModelOutput):
"""
Base class for outputs of sequence-to-sequence sentence classification models.
Args:
loss (`torch.FloatTensor` of shape `(1,)`, *optional*, returned when `label` is provided):
Classification (or regression if config.num_labels==1) loss.
logits (`torch.FloatTensor` of shape `(batch_size, config.num_labels)`):
Classification (or regression if config.num_labels==1) scores (before SoftMax).
past_key_values (`List[torch.FloatTensor]`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
List of `torch.FloatTensor` of length `config.n_layers`, with each tensor of shape `(2, batch_size,
num_heads, sequence_length, embed_size_per_head)`).
Contains pre-computed hidden-states (key and values in the attention blocks) of the decoder that can be
used (see `past_key_values` input) to speed up sequential decoding.
decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the decoder at the output of each layer plus the initial embedding outputs.
decoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder's cross-attention layer, after the attention softmax, used to compute the
weighted average in the cross-attention heads.
encoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder of the model.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the encoder at the output of each layer plus the initial embedding outputs.
encoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the encoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
encoder_global_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length, x)`,
where `x` is the number of tokens with global attention mask.
Global attentions weights after the attention softmax, used to compute the weighted average in the
self-attention heads. Those are the attention weights from every token with global attention to every token
in the sequence.
"""
loss: Optional[torch.FloatTensor] = None
logits: torch.FloatTensor = None
past_key_values: Optional[List[torch.FloatTensor]] = None
decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
decoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
cross_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_last_hidden_state: Optional[torch.FloatTensor] = None
encoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
encoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_global_attentions: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
class LEDSeq2SeqQuestionAnsweringModelOutput(ModelOutput):
"""
Base class for outputs of sequence-to-sequence question answering models.
Args:
loss (`torch.FloatTensor` of shape `(1,)`, *optional*, returned when `labels` is provided):
Total span extraction loss is the sum of a Cross-Entropy for the start and end positions.
start_logits (`torch.FloatTensor` of shape `(batch_size, sequence_length)`):
Span-start scores (before SoftMax).
end_logits (`torch.FloatTensor` of shape `(batch_size, sequence_length)`):
Span-end scores (before SoftMax).
past_key_values (`List[torch.FloatTensor]`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
List of `torch.FloatTensor` of length `config.n_layers`, with each tensor of shape `(2, batch_size,
num_heads, sequence_length, embed_size_per_head)`).
Contains pre-computed hidden-states (key and values in the attention blocks) of the decoder that can be
used (see `past_key_values` input) to speed up sequential decoding.
decoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the decoder at the output of each layer plus the initial embedding outputs.
decoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
cross_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the decoder's cross-attention layer, after the attention softmax, used to compute the
weighted average in the cross-attention heads.
encoder_last_hidden_state (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder of the model.
encoder_hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the encoder at the output of each layer plus the initial embedding outputs.
encoder_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights of the encoder, after the attention softmax, used to compute the weighted average in the
self-attention heads.
encoder_global_attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length, x)`,
where `x` is the number of tokens with global attention mask.
Global attentions weights after the attention softmax, used to compute the weighted average in the
self-attention heads. Those are the attention weights from every token with global attention to every token
in the sequence.
"""
loss: Optional[torch.FloatTensor] = None
start_logits: torch.FloatTensor = None
end_logits: torch.FloatTensor = None
past_key_values: Optional[List[torch.FloatTensor]] = None
decoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
decoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
cross_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_last_hidden_state: Optional[torch.FloatTensor] = None
encoder_hidden_states: Optional[Tuple[torch.FloatTensor]] = None
encoder_attentions: Optional[Tuple[torch.FloatTensor]] = None
encoder_global_attentions: Optional[Tuple[torch.FloatTensor]] = None
LED_START_DOCSTRING = r"""
This model inherits from [`PreTrainedModel`]. See the superclass documentation for the generic methods the library
implements for all its models (such as downloading or saving, resizing the input embeddings, pruning heads etc.)
This model is also a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) subclass.
Use it as a regular PyTorch Module and refer to the PyTorch documentation for general usage and behavior.
Parameters:
config ([`LEDConfig`]):
Model configuration class with all the parameters of the model. Initializing with a config file does not
load the weights associated with the model, only the configuration. Check out the
[`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
LED_GENERATION_EXAMPLE = r"""
Summarization example:
```python
>>> import torch
>>> from transformers import AutoTokenizer, LEDForConditionalGeneration
>>> model = LEDForConditionalGeneration.from_pretrained("allenai/led-large-16384-arxiv")
>>> tokenizer = AutoTokenizer.from_pretrained("allenai/led-large-16384-arxiv")
>>> ARTICLE_TO_SUMMARIZE = '''Transformers (Vaswani et al., 2017) have achieved state-of-the-art
... results in a wide range of natural language tasks including generative language modeling
... (Dai et al., 2019; Radford et al., 2019) and discriminative ... language understanding (Devlin et al., 2019).
... This success is partly due to the self-attention component which enables the network to capture contextual
... information from the entire sequence. While powerful, the memory and computational requirements of
... self-attention grow quadratically with sequence length, making it infeasible (or very expensive) to
... process long sequences. To address this limitation, we present Longformer, a modified Transformer
... architecture with a self-attention operation that scales linearly with the sequence length, making it
... versatile for processing long documents (Fig 1). This is an advantage for natural language tasks such as
... long document classification, question answering (QA), and coreference resolution, where existing approaches
... partition or shorten the long context into smaller sequences that fall within the typical 512 token limit
... of BERT-style pretrained models. Such partitioning could potentially result in loss of important
... cross-partition information, and to mitigate this problem, existing methods often rely on complex
... architectures to address such interactions. On the other hand, our proposed Longformer is able to build
... contextual representations of the entire context using multiple layers of attention, reducing the need for
... task-specific architectures.'''
>>> inputs = tokenizer.encode(ARTICLE_TO_SUMMARIZE, return_tensors="pt")
>>> # Global attention on the first token (cf. Beltagy et al. 2020)
>>> global_attention_mask = torch.zeros_like(inputs)
>>> global_attention_mask[:, 0] = 1
>>> # Generate Summary
>>> summary_ids = model.generate(inputs, global_attention_mask=global_attention_mask, num_beams=3, max_length=32)
>>> print(tokenizer.decode(summary_ids[0], skip_special_tokens=True, clean_up_tokenization_spaces=True))
```
"""
LED_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you provide
it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
decoder_input_ids (`torch.LongTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Indices of decoder input sequence tokens in the vocabulary.
Indices can be obtained using [`LedTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
LED uses the `eos_token_id` as the starting token for `decoder_input_ids` generation. If `past_key_values`
is used, optionally only the last `decoder_input_ids` have to be input (see `past_key_values`).
decoder_attention_mask (`torch.LongTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Default behavior: generate a tensor that ignores pad tokens in `decoder_input_ids`. Causal mask will also
be used by default.
If you want to change padding behavior, you should read [`modeling_led._prepare_decoder_inputs`] and modify
to your needs. See diagram 1 in [the paper](https://arxiv.org/abs/1910.13461) for more information on the
default strategy.
global_attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to decide the attention given on each token, local attention or global attention for the encoder.
Tokens with global attention attends to all other tokens, and all other tokens attend to them. This is
important for task-specific finetuning because it makes the model more flexible at representing the task.
For example, for classification, the <s> token should be given global attention. For QA, all question
tokens should also have global attention. Please refer to the [Longformer
paper](https://arxiv.org/abs/2004.05150) for more details. Mask values selected in `[0, 1]`:
- 0 for local attention (a sliding window attention),
- 1 for global attention (tokens that attend to all other tokens, and all other tokens attend to them).
head_mask (`torch.Tensor` of shape `(encoder_layers, encoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules in the encoder. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
decoder_head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules in the decoder. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
cross_attn_head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the cross-attention modules in the decoder. Mask values selected in `[0,
1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
encoder_outputs (`tuple(tuple(torch.FloatTensor)`, *optional*):
Tuple consists of (`last_hidden_state`, *optional*: `hidden_states`, *optional*: `attentions`)
`last_hidden_state` of shape `(batch_size, sequence_length, hidden_size)`, *optional*) is a sequence of
hidden-states at the output of the last layer of the encoder. Used in the cross-attention of the decoder.
past_key_values (`tuple(tuple(torch.FloatTensor))`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
Tuple of `tuple(torch.FloatTensor)` of length `config.n_layers`, with each tuple having 2 tensors of shape
`(batch_size, num_heads, sequence_length, embed_size_per_head)`) and 2 additional tensors of shape
`(batch_size, num_heads, encoder_sequence_length, embed_size_per_head)`.
Contains pre-computed hidden-states (key and values in the self-attention blocks and in the cross-attention
blocks) that can be used (see `past_key_values` input) to speed up sequential decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation. This
is useful if you want more control over how to convert `input_ids` indices into associated vectors than the
model's internal embedding lookup matrix.
decoder_inputs_embeds (`torch.FloatTensor` of shape `(batch_size, target_sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `decoder_input_ids` you can choose to directly pass an embedded
representation. If `past_key_values` is used, optionally only the last `decoder_inputs_embeds` have to be
input (see `past_key_values`). This is useful if you want more control over how to convert
`decoder_input_ids` indices into associated vectors than the model's internal embedding lookup matrix.
If `decoder_input_ids` and `decoder_inputs_embeds` are both unset, `decoder_inputs_embeds` takes the value
of `inputs_embeds`.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
class LEDEncoder(LEDPreTrainedModel):
"""
Transformer encoder consisting of *config.encoder_layers* self-attention layers. Each layer is a
[`LEDEncoderLayer`].
Args:
config: LEDConfig
embed_tokens (nn.Embedding): output embedding
"""
def __init__(self, config: LEDConfig, embed_tokens: Optional[nn.Embedding] = None):
super().__init__(config)
self.dropout = config.dropout
self.layerdrop = config.encoder_layerdrop
embed_dim = config.d_model
self.padding_idx = config.pad_token_id
self.max_source_positions = config.max_encoder_position_embeddings
if isinstance(config.attention_window, int):
if config.attention_window % 2 != 0:
raise ValueError("`config.attention_window` has to be an even value")
if config.attention_window <= 0:
raise ValueError("`config.attention_window` has to be positive")
config.attention_window = [config.attention_window] * config.num_hidden_layers # one value per layer
else:
if len(config.attention_window) != config.num_hidden_layers:
raise ValueError(
"`len(config.attention_window)` should equal `config.num_hidden_layers`. "
f"Expected {config.num_hidden_layers}, given {len(config.attention_window)}"
)
if embed_tokens is not None:
self.embed_tokens = embed_tokens
else:
self.embed_tokens = nn.Embedding(config.vocab_size, embed_dim, self.padding_idx)
self.embed_positions = LEDLearnedPositionalEmbedding(
self.max_source_positions,
embed_dim,
)
self.layers = nn.ModuleList([LEDEncoderLayer(config, i) for i in range(config.encoder_layers)])
self.layernorm_embedding = nn.LayerNorm(embed_dim)
self.gradient_checkpointing = False
# Initialize weights and apply final processing
self.post_init()
def _merge_to_attention_mask(self, attention_mask: torch.Tensor, global_attention_mask: torch.Tensor):
# longformer self-attention expects attention mask to have 0 (no attn), 1 (local attn), 2 (global attn)
# (global_attention_mask + 1) => 1 for local attention, 2 for global attention
# => final attention_mask => 0 for no attention, 1 for local attention 2 for global attention
if attention_mask is not None:
attention_mask = attention_mask * (global_attention_mask + 1)
else:
# simply use `global_attention_mask` as `attention_mask`
# if no `attention_mask` is given
attention_mask = global_attention_mask + 1
return attention_mask
def _pad_to_window_size(
self,
input_ids: torch.Tensor,
attention_mask: torch.Tensor,
inputs_embeds: torch.Tensor,
pad_token_id: int,
):
"""A helper function to pad tokens and mask to work with implementation of Longformer self-attention."""
# padding
attention_window = (
self.config.attention_window
if isinstance(self.config.attention_window, int)
else max(self.config.attention_window)
)
if attention_window % 2 != 0:
raise ValueError(f"`attention_window` should be an even value. Given {attention_window}")
input_shape = input_ids.shape if input_ids is not None else inputs_embeds.shape
batch_size, seq_len = input_shape[:2]
padding_len = (attention_window - seq_len % attention_window) % attention_window
if padding_len > 0:
logger.info(
f"Input ids are automatically padded from {seq_len} to {seq_len + padding_len} to be a multiple of "
f"`config.attention_window`: {attention_window}"
)
if input_ids is not None:
input_ids = nn.functional.pad(input_ids, (0, padding_len), value=pad_token_id)
if inputs_embeds is not None:
input_ids_padding = inputs_embeds.new_full(
(batch_size, padding_len),
self.config.pad_token_id,
dtype=torch.long,
)
inputs_embeds_padding = self.embed_tokens(input_ids_padding)
inputs_embeds = torch.cat([inputs_embeds, inputs_embeds_padding], dim=-2)
attention_mask = nn.functional.pad(
attention_mask, (0, padding_len), value=False
) # no attention on the padding tokens
return padding_len, input_ids, attention_mask, inputs_embeds
def forward(
self,
input_ids=None,
attention_mask=None,
global_attention_mask=None,
head_mask=None,
inputs_embeds=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you
provide it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
global_attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to decide the attention given on each token, local attention or global attention for the encoder.
Tokens with global attention attends to all other tokens, and all other tokens attend to them. This is
important for task-specific finetuning because it makes the model more flexible at representing the
task. For example, for classification, the <s> token should be given global attention. For QA, all
question tokens should also have global attention. Please refer to the [Longformer
paper](https://arxiv.org/abs/2004.05150) for more details. Mask values selected in `[0, 1]`:
- 0 for local attention (a sliding window attention),
- 1 for global attention (tokens that attend to all other tokens, and all other tokens attend to them).
head_mask (`torch.Tensor` of shape `(encoder_layers, encoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation.
This is useful if you want more control over how to convert `input_ids` indices into associated vectors
than the model's internal embedding lookup matrix.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors
for more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# check input_ids and inputs_embeds
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both input_ids and inputs_embeds at the same time")
elif input_ids is None and inputs_embeds is None:
raise ValueError("You have to specify either input_ids or inputs_embeds")
if inputs_embeds is None:
inputs_embeds = self.embed_tokens(input_ids)
# create default attention_mask
if attention_mask is None:
attention_mask = torch.ones(inputs_embeds.size()[:-1], device=inputs_embeds.device, dtype=torch.long)
# merge `global_attention_mask` and `attention_mask`
if global_attention_mask is not None:
attention_mask = self._merge_to_attention_mask(attention_mask, global_attention_mask)
# pad input if necessary
padding_len, input_ids, attention_mask, inputs_embeds = self._pad_to_window_size(
input_ids=input_ids,
attention_mask=attention_mask,
inputs_embeds=inputs_embeds,
pad_token_id=self.config.pad_token_id,
)
# retrieve input_shape
if input_ids is not None:
input_shape = input_ids.size()
input_ids = input_ids.view(-1, input_shape[-1])
elif inputs_embeds is not None:
input_shape = inputs_embeds.size()[:-1]
# convert attention_mask to float
if attention_mask is not None:
# [bsz, seq_len] -> [bsz, seq_len]; 1 -> 0.0; 0 -> "-inf"
attention_mask = _expand_mask(attention_mask, inputs_embeds.dtype)[:, 0, 0, :]
# get masking tensors
is_index_masked = attention_mask < 0
is_index_global_attn = attention_mask > 0
is_global_attn = is_index_global_attn.flatten().any().item()
embed_pos = self.embed_positions(input_shape)
hidden_states = inputs_embeds + embed_pos
hidden_states = self.layernorm_embedding(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
encoder_states = () if output_hidden_states else None
all_attentions = () if output_attentions else None
all_global_attentions = () if (output_attentions and is_global_attn) else None
# check if head_mask has a correct number of layers specified if desired
if head_mask is not None:
if head_mask.size()[0] != len(self.layers):
raise ValueError(
f"The head_mask should be specified for {len(self.layers)} layers, but it is for"
f" {head_mask.size()[0]}."
)
for idx, encoder_layer in enumerate(self.layers):
if output_hidden_states:
encoder_states = encoder_states + (hidden_states,)
# add LayerDrop (see https://arxiv.org/abs/1909.11556 for description)
dropout_probability = torch.rand([])
if self.training and (dropout_probability < self.layerdrop): # skip the layer
layer_outputs = (None, None, None)
else:
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, is_global_attn, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(encoder_layer),
hidden_states,
attention_mask,
head_mask[idx] if head_mask is not None else None,
is_index_masked,
is_index_global_attn,
)
else:
layer_outputs = encoder_layer(
hidden_states,
attention_mask=attention_mask,
layer_head_mask=(head_mask[idx] if head_mask is not None else None),
is_index_masked=is_index_masked,
is_index_global_attn=is_index_global_attn,
is_global_attn=is_global_attn,
output_attentions=output_attentions,
)
hidden_states = layer_outputs[0]
if output_attentions:
# bzs x seq_len x num_attn_heads x (num_global_attn + attention_window_len + 1) => bzs x num_attn_heads x seq_len x (num_global_attn + attention_window_len + 1)
all_attentions = all_attentions + (layer_outputs[1].transpose(1, 2),)
if is_global_attn:
# bzs x num_attn_heads x num_global_attn x seq_len => bzs x num_attn_heads x seq_len x num_global_attn
all_global_attentions = all_global_attentions + (layer_outputs[2].transpose(2, 3),)
if output_hidden_states:
encoder_states = encoder_states + (hidden_states,)
# undo padding
if padding_len > 0:
# unpad `hidden_states` because the calling function is expecting a length == input_ids.size(1)
hidden_states = hidden_states[:, :-padding_len]
if output_hidden_states:
encoder_states = tuple([state[:, :-padding_len] for state in encoder_states])
if output_attentions:
all_attentions = tuple([state[:, :, :-padding_len, :] for state in all_attentions])
if not return_dict:
return tuple(
v for v in [hidden_states, encoder_states, all_attentions, all_global_attentions] if v is not None
)
return LEDEncoderBaseModelOutput(
last_hidden_state=hidden_states,
hidden_states=encoder_states,
attentions=all_attentions,
global_attentions=all_global_attentions,
)
class LEDDecoder(LEDPreTrainedModel):
"""
Transformer decoder consisting of *config.decoder_layers* layers. Each layer is a [`LEDDecoderLayer`]
Args:
config: LEDConfig
embed_tokens (nn.Embedding): output embedding
"""
def __init__(self, config: LEDConfig, embed_tokens: Optional[nn.Embedding] = None):
super().__init__(config)
self.dropout = config.dropout
self.layerdrop = config.decoder_layerdrop
self.padding_idx = config.pad_token_id
self.max_target_positions = config.max_decoder_position_embeddings
if embed_tokens is not None:
self.embed_tokens = embed_tokens
else:
self.embed_tokens = nn.Embedding(config.vocab_size, config.d_model, self.padding_idx)
self.embed_positions = LEDLearnedPositionalEmbedding(
self.max_target_positions,
config.d_model,
)
self.layers = nn.ModuleList([LEDDecoderLayer(config) for _ in range(config.decoder_layers)])
self.layernorm_embedding = nn.LayerNorm(config.d_model)
self.gradient_checkpointing = False
# Initialize weights and apply final processing
self.post_init()
def forward(
self,
input_ids=None,
attention_mask=None,
global_attention_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
head_mask=None,
cross_attn_head_mask=None,
past_key_values=None,
inputs_embeds=None,
use_cache=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. Padding will be ignored by default should you
provide it.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
global_attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to decide the attention given on each token, local attention or global attention. Tokens with
global attention attends to all other tokens, and all other tokens attend to them. This is important
for task-specific finetuning because it makes the model more flexible at representing the task. For
example, for classification, the <s> token should be given global attention. For QA, all question
tokens should also have global attention. Please refer to the [Longformer
paper](https://arxiv.org/abs/2004.05150) for more details. Mask values selected in `[0, 1]`:
- 0 for local attention (a sliding window attention),
- 1 for global attention (tokens that attend to all other tokens, and all other tokens attend to them).
encoder_hidden_states (`torch.FloatTensor` of shape `(batch_size, encoder_sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention
of the decoder.
encoder_attention_mask (`torch.LongTensor` of shape `(batch_size, encoder_sequence_length)`, *optional*):
Mask to avoid performing cross-attention on padding tokens indices of encoder input_ids. Mask values
selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
cross_attn_head_mask (`torch.Tensor` of shape `(decoder_layers, decoder_attention_heads)`, *optional*):
Mask to nullify selected heads of the cross-attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
past_key_values (`tuple(tuple(torch.FloatTensor))`, *optional*, returned when `use_cache=True` is passed or when `config.use_cache=True`):
Tuple of `tuple(torch.FloatTensor)` of length `config.n_layers`, with each tuple having 2 tensors of
shape `(batch_size, num_heads, sequence_length, embed_size_per_head)`) and 2 additional tensors of
shape `(batch_size, num_heads, encoder_sequence_length, embed_size_per_head)`.
Contains pre-computed hidden-states (key and values in the self-attention blocks and in the
cross-attention blocks) that can be used (see `past_key_values` input) to speed up sequential decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those
that don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of
all `decoder_input_ids` of shape `(batch_size, sequence_length)`. inputs_embeds (`torch.FloatTensor` of
shape `(batch_size, sequence_length, hidden_size)`, *optional*): Optionally, instead of passing
`input_ids` you can choose to directly pass an embedded representation. This is useful if you want more
control over how to convert `input_ids` indices into associated vectors than the model's internal
embedding lookup matrix.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under
returned tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors
for more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
use_cache = use_cache if use_cache is not None else self.config.use_cache
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# retrieve input_ids and inputs_embeds
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both decoder_input_ids and decoder_inputs_embeds at the same time")
elif input_ids is not None:
input_shape = input_ids.size()
input_ids = input_ids.view(-1, input_shape[-1])
elif inputs_embeds is not None:
input_shape = inputs_embeds.size()[:-1]
else:
raise ValueError("You have to specify either decoder_input_ids or decoder_inputs_embeds")
# past_key_values_length
past_key_values_length = past_key_values[0][0].shape[2] if past_key_values is not None else 0
if inputs_embeds is None:
inputs_embeds = self.embed_tokens(input_ids)
# create causal mask
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
combined_attention_mask = None
if input_shape[-1] > 1:
combined_attention_mask = _make_causal_mask(
input_shape, inputs_embeds.dtype, past_key_values_length=past_key_values_length
).to(self.device)
if attention_mask is not None and combined_attention_mask is not None:
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
combined_attention_mask = combined_attention_mask + _expand_mask(
attention_mask, inputs_embeds.dtype, tgt_len=input_shape[-1]
)
# expand encoder attention mask
if encoder_hidden_states is not None and encoder_attention_mask is not None:
# [bsz, seq_len] -> [bsz, 1, tgt_seq_len, src_seq_len]
encoder_attention_mask = _expand_mask(encoder_attention_mask, inputs_embeds.dtype, tgt_len=input_shape[-1])
# embed positions
positions = self.embed_positions(input_shape, past_key_values_length)
hidden_states = inputs_embeds + positions
hidden_states = self.layernorm_embedding(hidden_states)
hidden_states = nn.functional.dropout(hidden_states, p=self.dropout, training=self.training)
if self.gradient_checkpointing and self.training:
if use_cache:
logger.warning_once(
"`use_cache=True` is incompatible with gradient checkpointing. Setting `use_cache=False`..."
)
use_cache = False
# decoder layers
all_hidden_states = () if output_hidden_states else None
all_self_attns = () if output_attentions else None
all_cross_attentions = () if output_attentions else None
next_decoder_cache = () if use_cache else None
# check if head_mask/cross_attn_head_mask has a correct number of layers specified if desired
for attn_mask, mask_name in zip([head_mask, cross_attn_head_mask], ["head_mask", "cross_attn_head_mask"]):
if attn_mask is not None:
if attn_mask.size()[0] != len(self.layers):
raise ValueError(
f"The `{mask_name}` should be specified for {len(self.layers)} layers, but it is for"
f" {head_mask.size()[0]}."
)
for idx, decoder_layer in enumerate(self.layers):
# add LayerDrop (see https://arxiv.org/abs/1909.11556 for description)
if output_hidden_states:
all_hidden_states += (hidden_states,)
if self.training:
dropout_probability = torch.rand([])
if dropout_probability < self.layerdrop:
continue
past_key_value = past_key_values[idx] if past_key_values is not None else None
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
# None for past_key_value
return module(*inputs, output_attentions, use_cache)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(decoder_layer),
hidden_states,
combined_attention_mask,
encoder_hidden_states,
encoder_attention_mask,
head_mask[idx] if head_mask is not None else None,
cross_attn_head_mask[idx] if cross_attn_head_mask is not None else None,
None,
)
else:
layer_outputs = decoder_layer(
hidden_states,
attention_mask=combined_attention_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
layer_head_mask=(head_mask[idx] if head_mask is not None else None),
cross_attn_layer_head_mask=(
cross_attn_head_mask[idx] if cross_attn_head_mask is not None else None
),
past_key_value=past_key_value,
output_attentions=output_attentions,
use_cache=use_cache,
)
hidden_states = layer_outputs[0]
if use_cache:
next_decoder_cache += (layer_outputs[3 if output_attentions else 1],)
if output_attentions:
all_self_attns += (layer_outputs[1],)
all_cross_attentions += (layer_outputs[2],)
# add hidden states from the last decoder layer
if output_hidden_states:
all_hidden_states += (hidden_states,)
next_cache = next_decoder_cache if use_cache else None
if not return_dict:
return tuple(
v
for v in [hidden_states, next_cache, all_hidden_states, all_self_attns, all_cross_attentions]
if v is not None
)
return BaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
past_key_values=next_cache,
hidden_states=all_hidden_states,
attentions=all_self_attns,
cross_attentions=all_cross_attentions,
)
@add_start_docstrings(
"The bare LED Model outputting raw hidden-states without any specific head on top.",
LED_START_DOCSTRING,
)
class LEDModel(LEDPreTrainedModel):
_tied_weights_keys = ["decoder.embed_tokens.weight", "encoder.embed_tokens.weight"]
def __init__(self, config: LEDConfig):
super().__init__(config)
padding_idx, vocab_size = config.pad_token_id, config.vocab_size
self.shared = nn.Embedding(vocab_size, config.d_model, padding_idx)
self.encoder = LEDEncoder(config, self.shared)
self.decoder = LEDDecoder(config, self.shared)
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.shared
def set_input_embeddings(self, value):
self.shared = value
self.encoder.embed_tokens = self.shared
self.decoder.embed_tokens = self.shared
def get_encoder(self):
return self.encoder
def get_decoder(self):
return self.decoder
@add_start_docstrings_to_model_forward(LED_INPUTS_DOCSTRING)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=Seq2SeqModelOutput,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.Tensor] = None,
decoder_input_ids: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
decoder_head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
global_attention_mask: Optional[torch.FloatTensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor], LEDSeq2SeqModelOutput]:
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
use_cache = use_cache if use_cache is not None else self.config.use_cache
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# Using this like Bart, as LED is derived from it. So far
# No checkpoint on the hub exists that uses that in practice.
# https://github.com/huggingface/transformers/blob/ac3cb660cad283163f7c73cad511124e845ca388/src/transformers/models/bart/modeling_bart.py#L1153
if decoder_input_ids is None and decoder_inputs_embeds is None:
decoder_input_ids = shift_tokens_right(
input_ids, self.config.pad_token_id, self.config.decoder_start_token_id
)
if encoder_outputs is None:
encoder_outputs = self.encoder(
input_ids=input_ids,
attention_mask=attention_mask,
global_attention_mask=global_attention_mask,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
# If the user passed a tuple for encoder_outputs, we wrap it in a LEDEncoderBaseModelOutput when return_dict=False
elif return_dict and not isinstance(encoder_outputs, LEDEncoderBaseModelOutput):
encoder_outputs = LEDEncoderBaseModelOutput(
last_hidden_state=encoder_outputs[0],
hidden_states=encoder_outputs[1] if len(encoder_outputs) > 1 else None,
attentions=encoder_outputs[2] if len(encoder_outputs) > 2 else None,
global_attentions=encoder_outputs[3] if len(encoder_outputs) > 3 else None,
)
# decoder outputs consists of (dec_features, past_key_value, dec_hidden, dec_attn)
decoder_outputs = self.decoder(
input_ids=decoder_input_ids,
attention_mask=decoder_attention_mask,
encoder_hidden_states=encoder_outputs[0],
encoder_attention_mask=attention_mask,
head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
past_key_values=past_key_values,
inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
if not return_dict:
return decoder_outputs + encoder_outputs
return LEDSeq2SeqModelOutput(
last_hidden_state=decoder_outputs.last_hidden_state,
past_key_values=decoder_outputs.past_key_values,
decoder_hidden_states=decoder_outputs.hidden_states,
decoder_attentions=decoder_outputs.attentions,
cross_attentions=decoder_outputs.cross_attentions,
encoder_last_hidden_state=encoder_outputs.last_hidden_state,
encoder_hidden_states=encoder_outputs.hidden_states,
encoder_attentions=encoder_outputs.attentions,
encoder_global_attentions=encoder_outputs.global_attentions,
)
@add_start_docstrings(
"The LED Model with a language modeling head. Can be used for summarization.", LED_START_DOCSTRING
)
class LEDForConditionalGeneration(LEDPreTrainedModel):
base_model_prefix = "led"
_keys_to_ignore_on_load_missing = ["final_logits_bias"]
_tied_weights_keys = ["decoder.embed_tokens.weight", "encoder.embed_tokens.weight", "lm_head.weight"]
def __init__(self, config: LEDConfig):
super().__init__(config)
self.led = LEDModel(config)
self.register_buffer("final_logits_bias", torch.zeros((1, self.led.shared.num_embeddings)))
self.lm_head = nn.Linear(config.d_model, self.led.shared.num_embeddings, bias=False)
# Initialize weights and apply final processing
self.post_init()
def get_encoder(self):
return self.led.get_encoder()
def get_decoder(self):
return self.led.get_decoder()
def resize_token_embeddings(self, new_num_tokens: int) -> nn.Embedding:
new_embeddings = super().resize_token_embeddings(new_num_tokens)
self._resize_final_logits_bias(new_num_tokens)
return new_embeddings
def _resize_final_logits_bias(self, new_num_tokens: int) -> None:
old_num_tokens = self.final_logits_bias.shape[-1]
if new_num_tokens <= old_num_tokens:
new_bias = self.final_logits_bias[:, :new_num_tokens]
else:
extra_bias = torch.zeros((1, new_num_tokens - old_num_tokens), device=self.final_logits_bias.device)
new_bias = torch.cat([self.final_logits_bias, extra_bias], dim=1)
self.register_buffer("final_logits_bias", new_bias)
def get_output_embeddings(self):
return self.lm_head
def set_output_embeddings(self, new_embeddings):
self.lm_head = new_embeddings
@add_start_docstrings_to_model_forward(LED_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=Seq2SeqLMOutput, config_class=_CONFIG_FOR_DOC)
@add_end_docstrings(LED_GENERATION_EXAMPLE)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.Tensor] = None,
decoder_input_ids: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
decoder_head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
global_attention_mask: Optional[torch.FloatTensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor], LEDSeq2SeqLMOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the masked language modeling loss. Indices should either be in `[0, ...,
config.vocab_size]` or -100 (see `input_ids` docstring). Tokens with indices set to `-100` are ignored
(masked), the loss is only computed for the tokens with labels in `[0, ..., config.vocab_size]`.
Returns:
Conditional generation example:
```python
>>> from transformers import AutoTokenizer, LEDForConditionalGeneration
>>> tokenizer = AutoTokenizer.from_pretrained("allenai/led-base-16384")
>>> TXT = "My friends are <mask> but they eat too many carbs."
>>> model = LEDForConditionalGeneration.from_pretrained("allenai/led-base-16384")
>>> input_ids = tokenizer([TXT], return_tensors="pt")["input_ids"]
>>> prediction = model.generate(input_ids)[0]
>>> print(tokenizer.decode(prediction, skip_special_tokens=True))
```"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if labels is not None:
if use_cache:
logger.warning("The `use_cache` argument is changed to `False` since `labels` is provided.")
use_cache = False
if decoder_input_ids is None and decoder_inputs_embeds is None:
decoder_input_ids = shift_tokens_right(
labels, self.config.pad_token_id, self.config.decoder_start_token_id
)
outputs = self.led(
input_ids,
attention_mask=attention_mask,
decoder_input_ids=decoder_input_ids,
decoder_attention_mask=decoder_attention_mask,
encoder_outputs=encoder_outputs,
global_attention_mask=global_attention_mask,
head_mask=head_mask,
decoder_head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
past_key_values=past_key_values,
inputs_embeds=inputs_embeds,
decoder_inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
lm_logits = self.lm_head(outputs[0]) + self.final_logits_bias
masked_lm_loss = None
if labels is not None:
loss_fct = CrossEntropyLoss()
masked_lm_loss = loss_fct(lm_logits.view(-1, self.config.vocab_size), labels.view(-1))
if not return_dict:
output = (lm_logits,) + outputs[1:]
return ((masked_lm_loss,) + output) if masked_lm_loss is not None else output
return LEDSeq2SeqLMOutput(
loss=masked_lm_loss,
logits=lm_logits,
past_key_values=outputs.past_key_values,
decoder_hidden_states=outputs.decoder_hidden_states,
decoder_attentions=outputs.decoder_attentions,
cross_attentions=outputs.cross_attentions,
encoder_last_hidden_state=outputs.encoder_last_hidden_state,
encoder_hidden_states=outputs.encoder_hidden_states,
encoder_attentions=outputs.encoder_attentions,
encoder_global_attentions=outputs.encoder_global_attentions,
)
def prepare_inputs_for_generation(
self,
decoder_input_ids,
past_key_values=None,
attention_mask=None,
global_attention_mask=None,
head_mask=None,
decoder_head_mask=None,
cross_attn_head_mask=None,
use_cache=None,
encoder_outputs=None,
**kwargs,
):
# cut decoder_input_ids if past is used
if past_key_values is not None:
decoder_input_ids = decoder_input_ids[:, -1:]
return {
"input_ids": None, # encoder_outputs is defined. input_ids not needed
"encoder_outputs": encoder_outputs,
"past_key_values": past_key_values,
"decoder_input_ids": decoder_input_ids,
"attention_mask": attention_mask,
"global_attention_mask": global_attention_mask,
"head_mask": head_mask,
"decoder_head_mask": decoder_head_mask,
"cross_attn_head_mask": cross_attn_head_mask,
"use_cache": use_cache, # change this to avoid caching (presumably for debugging)
}
def prepare_decoder_input_ids_from_labels(self, labels: torch.Tensor):
return shift_tokens_right(labels, self.config.pad_token_id, self.config.decoder_start_token_id)
@staticmethod
def _reorder_cache(past_key_values, beam_idx):
reordered_past = ()
for layer_past in past_key_values:
# cached cross_attention states don't have to be reordered -> they are always the same
reordered_past += (
tuple(past_state.index_select(0, beam_idx) for past_state in layer_past[:2]) + layer_past[2:],
)
return reordered_past
@add_start_docstrings(
"""
LED model with a sequence classification/head on top (a linear layer on top of the pooled output) e.g. for GLUE
tasks.
""",
LED_START_DOCSTRING,
)
class LEDForSequenceClassification(LEDPreTrainedModel):
_tied_weights_keys = ["decoder.embed_tokens.weight", "encoder.embed_tokens.weight"]
def __init__(self, config: LEDConfig, **kwargs):
warnings.warn(
"The `transformers.LEDForSequenceClassification` class is deprecated and will be removed in version 5 of"
" Transformers. No actual method were provided in the original paper on how to perfom"
" sequence classification.",
FutureWarning,
)
super().__init__(config, **kwargs)
self.led = LEDModel(config)
self.classification_head = LEDClassificationHead(
config.d_model,
config.d_model,
config.num_labels,
config.classifier_dropout,
)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(LED_INPUTS_DOCSTRING)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=Seq2SeqSequenceClassifierOutput,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.Tensor] = None,
decoder_input_ids: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
decoder_head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
global_attention_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor], LEDSeq2SeqSequenceClassifierOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for computing the sequence classification/regression loss. Indices should be in `[0, ...,
config.num_labels - 1]`. If `config.num_labels > 1` a classification loss is computed (Cross-Entropy).
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if labels is not None:
use_cache = False
if input_ids is None and inputs_embeds is not None:
raise NotImplementedError(
f"Passing input embeddings is currently not supported for {self.__class__.__name__}"
)
outputs = self.led(
input_ids,
attention_mask=attention_mask,
decoder_input_ids=decoder_input_ids,
decoder_attention_mask=decoder_attention_mask,
global_attention_mask=global_attention_mask,
head_mask=head_mask,
decoder_head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
encoder_outputs=encoder_outputs,
inputs_embeds=inputs_embeds,
decoder_inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
hidden_states = outputs[0] # last hidden state
eos_mask = input_ids.eq(self.config.eos_token_id).to(hidden_states.device)
if len(torch.unique_consecutive(eos_mask.sum(1))) > 1:
raise ValueError("All examples must have the same number of <eos> tokens.")
sentence_representation = hidden_states[eos_mask, :].view(hidden_states.size(0), -1, hidden_states.size(-1))[
:, -1, :
]
logits = self.classification_head(sentence_representation)
loss = None
if labels is not None:
if self.config.problem_type is None:
if self.config.num_labels == 1:
self.config.problem_type = "regression"
elif self.config.num_labels > 1 and (labels.dtype == torch.long or labels.dtype == torch.int):
self.config.problem_type = "single_label_classification"
else:
self.config.problem_type = "multi_label_classification"
if self.config.problem_type == "regression":
loss_fct = MSELoss()
if self.config.num_labels == 1:
loss = loss_fct(logits.squeeze(), labels.squeeze())
else:
loss = loss_fct(logits, labels)
elif self.config.problem_type == "single_label_classification":
loss_fct = CrossEntropyLoss()
loss = loss_fct(logits.view(-1, self.config.num_labels), labels.view(-1))
elif self.config.problem_type == "multi_label_classification":
loss_fct = BCEWithLogitsLoss()
loss = loss_fct(logits, labels)
if not return_dict:
output = (logits,) + outputs[1:]
return ((loss,) + output) if loss is not None else output
return LEDSeq2SeqSequenceClassifierOutput(
loss=loss,
logits=logits,
past_key_values=outputs.past_key_values,
decoder_hidden_states=outputs.decoder_hidden_states,
decoder_attentions=outputs.decoder_attentions,
cross_attentions=outputs.cross_attentions,
encoder_last_hidden_state=outputs.encoder_last_hidden_state,
encoder_hidden_states=outputs.encoder_hidden_states,
encoder_attentions=outputs.encoder_attentions,
encoder_global_attentions=outputs.encoder_global_attentions,
)
@add_start_docstrings(
"""
LED Model with a span classification head on top for extractive question-answering tasks like SQuAD (a linear layer
on top of the hidden-states output to compute `span start logits` and `span end logits`).
""",
LED_START_DOCSTRING,
)
class LEDForQuestionAnswering(LEDPreTrainedModel):
_tied_weights_keys = ["decoder.embed_tokens.weight", "encoder.embed_tokens.weight"]
def __init__(self, config):
super().__init__(config)
config.num_labels = 2
self.num_labels = config.num_labels
self.led = LEDModel(config)
self.qa_outputs = nn.Linear(config.hidden_size, config.num_labels)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(LED_INPUTS_DOCSTRING)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=Seq2SeqQuestionAnsweringModelOutput,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.Tensor] = None,
decoder_input_ids: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
decoder_head_mask: Optional[torch.Tensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
global_attention_mask: Optional[torch.FloatTensor] = None,
start_positions: Optional[torch.LongTensor] = None,
end_positions: Optional[torch.LongTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor], LEDSeq2SeqQuestionAnsweringModelOutput]:
r"""
start_positions (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for position (index) of the start of the labelled span for computing the token classification loss.
Positions are clamped to the length of the sequence (*sequence_length*). Position outside of the sequence
are not taken into account for computing the loss.
end_positions (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for position (index) of the end of the labelled span for computing the token classification loss.
Positions are clamped to the length of the sequence (*sequence_length*). Position outside of the sequence
are not taken into account for computing the loss.
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if start_positions is not None and end_positions is not None:
use_cache = False
outputs = self.led(
input_ids,
attention_mask=attention_mask,
decoder_input_ids=decoder_input_ids,
decoder_attention_mask=decoder_attention_mask,
global_attention_mask=global_attention_mask,
head_mask=head_mask,
decoder_head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
encoder_outputs=encoder_outputs,
inputs_embeds=inputs_embeds,
decoder_inputs_embeds=decoder_inputs_embeds,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
logits = self.qa_outputs(sequence_output)
start_logits, end_logits = logits.split(1, dim=-1)
start_logits = start_logits.squeeze(-1).contiguous()
end_logits = end_logits.squeeze(-1).contiguous()
total_loss = None
if start_positions is not None and end_positions is not None:
# If we are on multi-GPU, split add a dimension
if len(start_positions.size()) > 1:
start_positions = start_positions.squeeze(-1)
if len(end_positions.size()) > 1:
end_positions = end_positions.squeeze(-1)
# sometimes the start/end positions are outside our model inputs, we ignore these terms
ignored_index = start_logits.size(1)
start_positions = start_positions.clamp(0, ignored_index)
end_positions = end_positions.clamp(0, ignored_index)
loss_fct = CrossEntropyLoss(ignore_index=ignored_index)
start_loss = loss_fct(start_logits, start_positions)
end_loss = loss_fct(end_logits, end_positions)
total_loss = (start_loss + end_loss) / 2
if not return_dict:
output = (
start_logits,
end_logits,
) + outputs[1:]
return ((total_loss,) + output) if total_loss is not None else output
return LEDSeq2SeqQuestionAnsweringModelOutput(
loss=total_loss,
start_logits=start_logits,
end_logits=end_logits,
past_key_values=outputs.past_key_values,
decoder_hidden_states=outputs.decoder_hidden_states,
decoder_attentions=outputs.decoder_attentions,
cross_attentions=outputs.cross_attentions,
encoder_last_hidden_state=outputs.encoder_last_hidden_state,
encoder_hidden_states=outputs.encoder_hidden_states,
encoder_attentions=outputs.encoder_attentions,
encoder_global_attentions=outputs.encoder_global_attentions,
)
| transformers-main | src/transformers/models/led/modeling_led.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Convert T5/LongT5X checkpoints from the original repository to JAX/FLAX model. This script is an extension of
'src/transformers/models/t5/convert_t5x_checkpoint_to_flax.
"""
import argparse
from t5x import checkpoints
from transformers import AutoConfig, FlaxAutoModelForSeq2SeqLM
def convert_t5x_checkpoint_to_flax(t5x_checkpoint_path, config_name, flax_dump_folder_path):
config = AutoConfig.from_pretrained(config_name)
flax_model = FlaxAutoModelForSeq2SeqLM.from_config(config=config)
t5x_model = checkpoints.load_t5x_checkpoint(t5x_checkpoint_path)
split_mlp_wi = "wi_0" in t5x_model["target"]["encoder"]["layers_0"]["mlp"]
if config.model_type == "t5":
encoder_attn_name = "SelfAttention"
if config.model_type == "longt5" and config.encoder_attention_type == "local":
encoder_attn_name = "LocalSelfAttention"
elif config.model_type == "longt5" and config.encoder_attention_type == "transient-global":
encoder_attn_name = "TransientGlobalSelfAttention"
else:
raise ValueError(
"Given config is expected to have `model_type='t5'`, or `model_type='longt5` with `encoder_attention_type`"
" attribute with a value from ['local', 'transient-global]."
)
# Encoder
for layer_index in range(config.num_layers):
layer_name = f"layers_{str(layer_index)}"
# Self-Attention
t5x_attention_key = t5x_model["target"]["encoder"][layer_name]["attention"]["key"]["kernel"]
t5x_attention_out = t5x_model["target"]["encoder"][layer_name]["attention"]["out"]["kernel"]
t5x_attention_query = t5x_model["target"]["encoder"][layer_name]["attention"]["query"]["kernel"]
t5x_attention_value = t5x_model["target"]["encoder"][layer_name]["attention"]["value"]["kernel"]
# Global input layer norm
if config.model_type == "longt5" and config.encoder_attention_type == "transient-global":
t5x_global_layer_norm = t5x_model["target"]["encoder"][layer_name]["attention"]["T5LayerNorm_0"]["scale"]
# Layer Normalization
t5x_attention_layer_norm = t5x_model["target"]["encoder"][layer_name]["pre_attention_layer_norm"]["scale"]
if split_mlp_wi:
t5x_mlp_wi_0 = t5x_model["target"]["encoder"][layer_name]["mlp"]["wi_0"]["kernel"]
t5x_mlp_wi_1 = t5x_model["target"]["encoder"][layer_name]["mlp"]["wi_1"]["kernel"]
else:
t5x_mlp_wi = t5x_model["target"]["encoder"][layer_name]["mlp"]["wi"]["kernel"]
t5x_mlp_wo = t5x_model["target"]["encoder"][layer_name]["mlp"]["wo"]["kernel"]
# Layer Normalization
t5x_mlp_layer_norm = t5x_model["target"]["encoder"][layer_name]["pre_mlp_layer_norm"]["scale"]
# Assigning
flax_model_encoder_layer_block = flax_model.params["encoder"]["block"][str(layer_index)]["layer"]
flax_model_encoder_layer_block["0"][encoder_attn_name]["k"]["kernel"] = t5x_attention_key
flax_model_encoder_layer_block["0"][encoder_attn_name]["o"]["kernel"] = t5x_attention_out
flax_model_encoder_layer_block["0"][encoder_attn_name]["q"]["kernel"] = t5x_attention_query
flax_model_encoder_layer_block["0"][encoder_attn_name]["v"]["kernel"] = t5x_attention_value
flax_model_encoder_layer_block["0"]["layer_norm"]["weight"] = t5x_attention_layer_norm
# Global input layer norm
if config.model_type == "longt5" and config.encoder_attention_type == "transient-global":
flax_model_encoder_layer_block["0"][encoder_attn_name]["global_input_layer_norm"][
"weight"
] = t5x_global_layer_norm
if split_mlp_wi:
flax_model_encoder_layer_block["1"]["DenseReluDense"]["wi_0"]["kernel"] = t5x_mlp_wi_0
flax_model_encoder_layer_block["1"]["DenseReluDense"]["wi_1"]["kernel"] = t5x_mlp_wi_1
else:
flax_model_encoder_layer_block["1"]["DenseReluDense"]["wi"]["kernel"] = t5x_mlp_wi
flax_model_encoder_layer_block["1"]["DenseReluDense"]["wo"]["kernel"] = t5x_mlp_wo
flax_model_encoder_layer_block["1"]["layer_norm"]["weight"] = t5x_mlp_layer_norm
flax_model.params["encoder"]["block"][str(layer_index)]["layer"] = flax_model_encoder_layer_block
# Only for layer 0:
t5x_encoder_rel_embedding = t5x_model["target"]["encoder"]["relpos_bias"]["rel_embedding"].T
flax_model.params["encoder"]["block"]["0"]["layer"]["0"][encoder_attn_name]["relative_attention_bias"][
"embedding"
] = t5x_encoder_rel_embedding
# Side/global relative position_bias + layer norm
if config.model_type == "longt5" and config.encoder_attention_type == "transient-global":
t5x_encoder_global_rel_embedding = t5x_model["target"]["encoder"]["side_relpos_bias"]["rel_embedding"].T
flax_model.params["encoder"]["block"]["0"]["layer"]["0"][encoder_attn_name]["global_relative_attention_bias"][
"embedding"
] = t5x_encoder_global_rel_embedding
# Assigning
t5x_encoder_norm = t5x_model["target"]["encoder"]["encoder_norm"]["scale"]
flax_model.params["encoder"]["final_layer_norm"]["weight"] = t5x_encoder_norm
# Decoder
for layer_index in range(config.num_layers):
layer_name = f"layers_{str(layer_index)}"
# Self-Attention
t5x_attention_key = t5x_model["target"]["decoder"][layer_name]["self_attention"]["key"]["kernel"]
t5x_attention_out = t5x_model["target"]["decoder"][layer_name]["self_attention"]["out"]["kernel"]
t5x_attention_query = t5x_model["target"]["decoder"][layer_name]["self_attention"]["query"]["kernel"]
t5x_attention_value = t5x_model["target"]["decoder"][layer_name]["self_attention"]["value"]["kernel"]
# Layer Normalization
t5x_pre_attention_layer_norm = t5x_model["target"]["decoder"][layer_name]["pre_self_attention_layer_norm"][
"scale"
]
# Encoder-Decoder-Attention
t5x_enc_dec_attention_module = t5x_model["target"]["decoder"][layer_name]["encoder_decoder_attention"]
t5x_enc_dec_attention_key = t5x_enc_dec_attention_module["key"]["kernel"]
t5x_enc_dec_attention_out = t5x_enc_dec_attention_module["out"]["kernel"]
t5x_enc_dec_attention_query = t5x_enc_dec_attention_module["query"]["kernel"]
t5x_enc_dec_attention_value = t5x_enc_dec_attention_module["value"]["kernel"]
# Layer Normalization
t5x_cross_layer_norm = t5x_model["target"]["decoder"][layer_name]["pre_cross_attention_layer_norm"]["scale"]
# MLP
if split_mlp_wi:
t5x_mlp_wi_0 = t5x_model["target"]["decoder"][layer_name]["mlp"]["wi_0"]["kernel"]
t5x_mlp_wi_1 = t5x_model["target"]["decoder"][layer_name]["mlp"]["wi_1"]["kernel"]
else:
t5x_mlp_wi = t5x_model["target"]["decoder"][layer_name]["mlp"]["wi"]["kernel"]
t5x_mlp_wo = t5x_model["target"]["decoder"][layer_name]["mlp"]["wo"]["kernel"]
# Layer Normalization
tx5_mlp_layer_norm = t5x_model["target"]["decoder"][layer_name]["pre_mlp_layer_norm"]["scale"]
# Assigning
flax_model_decoder_layer_block = flax_model.params["decoder"]["block"][str(layer_index)]["layer"]
flax_model_decoder_layer_block["0"]["SelfAttention"]["k"]["kernel"] = t5x_attention_key
flax_model_decoder_layer_block["0"]["SelfAttention"]["o"]["kernel"] = t5x_attention_out
flax_model_decoder_layer_block["0"]["SelfAttention"]["q"]["kernel"] = t5x_attention_query
flax_model_decoder_layer_block["0"]["SelfAttention"]["v"]["kernel"] = t5x_attention_value
flax_model_decoder_layer_block["0"]["layer_norm"]["weight"] = t5x_pre_attention_layer_norm
flax_model_decoder_layer_block["1"]["EncDecAttention"]["k"]["kernel"] = t5x_enc_dec_attention_key
flax_model_decoder_layer_block["1"]["EncDecAttention"]["o"]["kernel"] = t5x_enc_dec_attention_out
flax_model_decoder_layer_block["1"]["EncDecAttention"]["q"]["kernel"] = t5x_enc_dec_attention_query
flax_model_decoder_layer_block["1"]["EncDecAttention"]["v"]["kernel"] = t5x_enc_dec_attention_value
flax_model_decoder_layer_block["1"]["layer_norm"]["weight"] = t5x_cross_layer_norm
if split_mlp_wi:
flax_model_decoder_layer_block["2"]["DenseReluDense"]["wi_0"]["kernel"] = t5x_mlp_wi_0
flax_model_decoder_layer_block["2"]["DenseReluDense"]["wi_1"]["kernel"] = t5x_mlp_wi_1
else:
flax_model_decoder_layer_block["2"]["DenseReluDense"]["wi"]["kernel"] = t5x_mlp_wi
flax_model_decoder_layer_block["2"]["DenseReluDense"]["wo"]["kernel"] = t5x_mlp_wo
flax_model_decoder_layer_block["2"]["layer_norm"]["weight"] = tx5_mlp_layer_norm
flax_model.params["decoder"]["block"][str(layer_index)]["layer"] = flax_model_decoder_layer_block
# Decoder Normalization
tx5_decoder_norm = t5x_model["target"]["decoder"]["decoder_norm"]["scale"]
flax_model.params["decoder"]["final_layer_norm"]["weight"] = tx5_decoder_norm
# Only for layer 0:
t5x_decoder_rel_embedding = t5x_model["target"]["decoder"]["relpos_bias"]["rel_embedding"].T
flax_model.params["decoder"]["block"]["0"]["layer"]["0"]["SelfAttention"]["relative_attention_bias"][
"embedding"
] = t5x_decoder_rel_embedding
# Token Embeddings
tx5_token_embeddings = t5x_model["target"]["token_embedder"]["embedding"]
flax_model.params["shared"]["embedding"] = tx5_token_embeddings
# LM Head (only in v1.1 and LongT5 checkpoints)
if "logits_dense" in t5x_model["target"]["decoder"]:
flax_model.params["lm_head"]["kernel"] = t5x_model["target"]["decoder"]["logits_dense"]["kernel"]
flax_model.save_pretrained(flax_dump_folder_path)
print("T5X Model was sucessfully converted!")
if __name__ == "__main__":
parser = argparse.ArgumentParser()
# Required parameters
parser.add_argument(
"--t5x_checkpoint_path", default=None, type=str, required=True, help="Path the T5X checkpoint."
)
parser.add_argument("--config_name", default=None, type=str, required=True, help="Config name of LongT5/T5 model.")
parser.add_argument(
"--flax_dump_folder_path", default=None, type=str, required=True, help="Path to the output FLAX model."
)
args = parser.parse_args()
convert_t5x_checkpoint_to_flax(args.t5x_checkpoint_path, args.config_name, args.flax_dump_folder_path)
| transformers-main | src/transformers/models/longt5/convert_longt5x_checkpoint_to_flax.py |
# coding=utf-8
# Copyright 2022, The LongT5 Authors and HuggingFace Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" LongT5 model configuration"""
from typing import Mapping
from ...configuration_utils import PretrainedConfig
from ...onnx import OnnxSeq2SeqConfigWithPast
from ...utils import logging
logger = logging.get_logger(__name__)
LONGT5_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"google/long-t5-local-base": "https://huggingface.co/google/long-t5-local-base/blob/main/config.json",
"google/long-t5-local-large": "https://huggingface.co/google/long-t5-local-large/blob/main/config.json",
"google/long-t5-tglobal-base": "https://huggingface.co/google/long-t5-tglobal-base/blob/main/config.json",
"google/long-t5-tglobal-large": "https://huggingface.co/google/long-t5-tglobal-large/blob/main/config.json",
}
class LongT5Config(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`LongT5Model`] or a [`FlaxLongT5Model`]. It is
used to instantiate a LongT5 model according to the specified arguments, defining the model architecture.
Instantiating a configuration with the defaults will yield a similar configuration to that of the LongT5
[google/long-t5-local-base](https://huggingface.co/google/long-t5-local-base) architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Arguments:
vocab_size (`int`, *optional*, defaults to 32128):
Vocabulary size of the LongT5 model. Defines the number of different tokens that can be represented by the
`inputs_ids` passed when calling [`LongT5Model`].
d_model (`int`, *optional*, defaults to 512):
Size of the encoder layers and the pooler layer.
d_kv (`int`, *optional*, defaults to 64):
Size of the key, query, value projections per attention head. `d_kv` has to be equal to `d_model //
num_heads`.
d_ff (`int`, *optional*, defaults to 2048):
Size of the intermediate feed forward layer in each `LongT5Block`.
num_layers (`int`, *optional*, defaults to 6):
Number of hidden layers in the Transformer encoder.
num_decoder_layers (`int`, *optional*):
Number of hidden layers in the Transformer decoder. Will use the same value as `num_layers` if not set.
num_heads (`int`, *optional*, defaults to 8):
Number of attention heads for each attention layer in the Transformer encoder.
local_radius (`int`, *optional*, defaults to 127)
Number of tokens to the left/right for each token to locally self-attend in a local attention mechanism.
global_block_size (`int`, *optional*, defaults to 16)
Lenght of blocks an input sequence is divided into for a global token representation. Used only for
`encoder_attention_type = "transient-global"`.
relative_attention_num_buckets (`int`, *optional*, defaults to 32):
The number of buckets to use for each attention layer.
relative_attention_max_distance (`int`, *optional*, defaults to 128):
The maximum distance of the longer sequences for the bucket separation.
dropout_rate (`float`, *optional*, defaults to 0.1):
The ratio for all dropout layers.
layer_norm_eps (`float`, *optional*, defaults to 1e-6):
The epsilon used by the layer normalization layers.
initializer_factor (`float`, *optional*, defaults to 1):
A factor for initializing all weight matrices (should be kept to 1, used internally for initialization
testing).
feed_forward_proj (`string`, *optional*, defaults to `"relu"`):
Type of feed forward layer to be used. Should be one of `"relu"` or `"gated-gelu"`. LongT5v1.1 uses the
`"gated-gelu"` feed forward projection. Original LongT5 implementation uses `"gated-gelu"`.
encoder_attention_type (`string`, *optional*, defaults to `"local"`):
Type of encoder attention to be used. Should be one of `"local"` or `"transient-global"`, which are
supported by LongT5 implementation.
use_cache (`bool`, *optional*, defaults to `True`):
Whether or not the model should return the last key/values attentions (not used by all models).
"""
model_type = "longt5"
keys_to_ignore_at_inference = ["past_key_values"]
attribute_map = {"hidden_size": "d_model", "num_attention_heads": "num_heads", "num_hidden_layers": "num_layers"}
def __init__(
self,
vocab_size=32128,
d_model=512,
d_kv=64,
d_ff=2048,
num_layers=6,
num_decoder_layers=None,
num_heads=8,
local_radius=127,
global_block_size=16,
relative_attention_num_buckets=32,
relative_attention_max_distance=128,
dropout_rate=0.1,
layer_norm_epsilon=1e-6,
initializer_factor=1.0,
feed_forward_proj="relu",
is_encoder_decoder=True,
encoder_attention_type="local",
use_cache=True,
pad_token_id=0,
eos_token_id=1,
**kwargs,
):
self.vocab_size = vocab_size
self.d_model = d_model
self.d_kv = d_kv
self.d_ff = d_ff
self.num_layers = num_layers
# default = symmetry
self.num_decoder_layers = num_decoder_layers if num_decoder_layers is not None else self.num_layers
self.num_heads = num_heads
self.local_radius = local_radius
self.global_block_size = global_block_size
self.relative_attention_num_buckets = relative_attention_num_buckets
self.relative_attention_max_distance = relative_attention_max_distance
self.dropout_rate = dropout_rate
self.layer_norm_epsilon = layer_norm_epsilon
self.initializer_factor = initializer_factor
self.feed_forward_proj = feed_forward_proj
self.encoder_attention_type = encoder_attention_type
self.use_cache = use_cache
act_info = self.feed_forward_proj.split("-")
self.dense_act_fn = act_info[-1]
self.is_gated_act = act_info[0] == "gated"
if len(act_info) > 1 and act_info[0] != "gated" or len(act_info) > 2:
raise ValueError(
f"`feed_forward_proj`: {feed_forward_proj} is not a valid activation function of the dense layer."
"Please make sure `feed_forward_proj` is of the format `gated-{ACT_FN}` or `{ACT_FN}`, e.g. "
"'gated-gelu' or 'relu'"
)
# for backwards compatibility
if feed_forward_proj == "gated-gelu":
self.dense_act_fn = "gelu_new"
super().__init__(
pad_token_id=pad_token_id,
eos_token_id=eos_token_id,
is_encoder_decoder=is_encoder_decoder,
**kwargs,
)
class LongT5OnnxConfig(OnnxSeq2SeqConfigWithPast):
@property
def inputs(self) -> Mapping[str, Mapping[int, str]]:
common_inputs = {
"input_ids": {0: "batch", 1: "encoder_sequence"},
"attention_mask": {0: "batch", 1: "encoder_sequence"},
}
if self.use_past:
common_inputs["attention_mask"][1] = "past_encoder_sequence + sequence"
common_inputs["decoder_input_ids"] = {0: "batch"}
common_inputs["decoder_attention_mask"] = {0: "batch", 1: "past_decoder_sequence + sequence"}
else:
common_inputs["decoder_input_ids"] = {0: "batch", 1: "decoder_sequence"}
common_inputs["decoder_attention_mask"] = {0: "batch", 1: "decoder_sequence"}
if self.use_past:
self.fill_with_past_key_values_(common_inputs, direction="inputs")
return common_inputs
@property
def default_onnx_opset(self) -> int:
return 13
| transformers-main | src/transformers/models/longt5/configuration_longt5.py |
# Copyright 2022 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import OptionalDependencyNotAvailable, _LazyModule, is_flax_available, is_torch_available
_import_structure = {
"configuration_longt5": ["LONGT5_PRETRAINED_CONFIG_ARCHIVE_MAP", "LongT5Config", "LongT5OnnxConfig"],
}
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_longt5"] = [
"LONGT5_PRETRAINED_MODEL_ARCHIVE_LIST",
"LongT5EncoderModel",
"LongT5ForConditionalGeneration",
"LongT5Model",
"LongT5PreTrainedModel",
]
try:
if not is_flax_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_flax_longt5"] = [
"FlaxLongT5ForConditionalGeneration",
"FlaxLongT5Model",
"FlaxLongT5PreTrainedModel",
]
if TYPE_CHECKING:
from .configuration_longt5 import LONGT5_PRETRAINED_CONFIG_ARCHIVE_MAP, LongT5Config, LongT5OnnxConfig
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_longt5 import (
LONGT5_PRETRAINED_MODEL_ARCHIVE_LIST,
LongT5EncoderModel,
LongT5ForConditionalGeneration,
LongT5Model,
LongT5PreTrainedModel,
)
try:
if not is_flax_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_flax_longt5 import (
FlaxLongT5ForConditionalGeneration,
FlaxLongT5Model,
FlaxLongT5PreTrainedModel,
)
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/longt5/__init__.py |
# coding=utf-8
# Copyright 2022 Google LLC., LongT5 Authors and HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch LongT5 model."""
import copy
import math
import warnings
from typing import Any, List, Optional, Tuple, Union
import torch
from torch import nn
from torch.nn import CrossEntropyLoss
from torch.utils.checkpoint import checkpoint
from ...activations import ACT2FN
from ...modeling_outputs import (
BaseModelOutput,
BaseModelOutputWithPastAndCrossAttentions,
Seq2SeqLMOutput,
Seq2SeqModelOutput,
)
from ...modeling_utils import PreTrainedModel
from ...pytorch_utils import ALL_LAYERNORM_LAYERS, find_pruneable_heads_and_indices, prune_linear_layer
from ...utils import (
DUMMY_INPUTS,
DUMMY_MASK,
add_start_docstrings,
add_start_docstrings_to_model_forward,
is_torch_fx_proxy,
logging,
replace_return_docstrings,
)
from .configuration_longt5 import LongT5Config
logger = logging.get_logger(__name__)
_CONFIG_FOR_DOC = "LongT5Config"
_CHECKPOINT_FOR_DOC = "google/long-t5-local-base"
# TODO: Update before the merge
LONGT5_PRETRAINED_MODEL_ARCHIVE_LIST = [
"google/long-t5-local-base",
"google/long-t5-local-large",
"google/long-t5-tglobal-base",
"google/long-t5-tglobal-large",
]
def _pad_to_multiple(x: torch.Tensor, block_len: int, dim: int, pad_value: int = 0) -> torch.Tensor:
"""Pad a tensor so that a sequence length will be a multiple of `block_len`"""
pad_len = -x.shape[dim] % block_len
# Handle cases when an empty input sequence is given
if not all(x.shape):
new_shape = list(x.shape)
new_shape[dim] += pad_len
return torch.zeros(new_shape, dtype=x.dtype)
pad = [(0, 0)] * x.ndim
pad[dim] = (0, pad_len)
pad = sum(pad[::-1], ())
x = nn.functional.pad(x, pad=pad, mode="constant", value=pad_value)
return x
def _split_into_blocks(x: torch.Tensor, block_len: int, dim: int) -> torch.Tensor:
"""Split an input tensor into blocks of a given `block_len` along the given `dim`. If the dimension length
is not a multiple of `block_len`, it will be padded first with selected `pad_value`.
"""
# pad tensor to multiple of block_len
if x.shape[dim] % block_len != 0:
x = _pad_to_multiple(x, block_len, dim, pad_value=0)
num_blocks = x.shape[dim] // block_len
output_shape = x.shape[:dim] + (num_blocks, block_len) + x.shape[(dim + 1) :]
# If 0 is in output_shape, we cannot apply reshape because of incompatibility with ONNX conversion
if 0 in output_shape:
return torch.empty(output_shape, dtype=x.dtype, device=x.device)
return x.reshape(output_shape)
def _concatenate_3_blocks(x: torch.Tensor, block_dim: int, sequence_dim: int, pad_value: int = 0) -> torch.Tensor:
"""Concatenate three consecutive blocks for each input block for local attentiont.
For more information, see: https://arxiv.org/pdf/2112.07916.pdf.
"""
num_blocks = x.shape[block_dim]
pad = [(0, 0)] * x.ndim
pad[block_dim] = (1, 1)
pad = sum(pad[::-1], ())
# [batch_size, num_blocks, block_len] -> [batch_size, num_blocks + 2, block_len]
x = nn.functional.pad(x, pad=pad, mode="constant", value=pad_value)
blocks_list: List[torch.Tensor] = []
for i in range(3):
# We use indexing approach here:
# https://numpy.org/doc/stable/user/basics.indexing.html#dealing-with-variable-numbers-of-indices-within-programs
indices = [slice(0, None)] * x.ndim
indices[block_dim] = slice(i, i + num_blocks)
indices = tuple(indices)
blocks_list.append(x[indices])
# [batch_size, num_blocks, 3 * block_len, ...]
return torch.cat(blocks_list, dim=sequence_dim)
def _make_3block_relative_position_ids(block_len: int) -> torch.Tensor:
"""Makes 3-blocked relative position ids for local attention."""
position_ids = torch.arange(3 * block_len, dtype=torch.int32)
center_position_ids = position_ids[block_len:-block_len]
# [block_len, 3 * block_len]
relative_position_ids = position_ids.unsqueeze(0) - center_position_ids.unsqueeze(1)
return relative_position_ids
def _mask_local_attention_mask(local_attention_mask: torch.Tensor, block_len: int) -> torch.Tensor:
"""Mask local attention mask to enforce that tokens are not allowed to attend tokens farther than ``local_radius."""
relative_position_ids = _make_3block_relative_position_ids(block_len)
locality_mask = torch.abs(relative_position_ids) < block_len
locality_mask = locality_mask[None, None, :, :]
locality_mask = locality_mask.to(local_attention_mask.device)
return torch.logical_and(local_attention_mask, locality_mask)
def _get_local_attention_mask(attention_mask: torch.Tensor, block_len: int, device: torch.device) -> torch.Tensor:
"""Prepare attention mask to be applied for a local attention."""
# [batch_size, num_blocks, block_len]
_blocked_attention_mask = _split_into_blocks(attention_mask, block_len, dim=1)
# [batch_size, num_block, 3 * block_len]
_3blocked_attention_mask = _concatenate_3_blocks(_blocked_attention_mask, block_dim=1, sequence_dim=2)
_blocked_attention_mask = _blocked_attention_mask.unsqueeze(-1)
_3blocked_attention_mask = _3blocked_attention_mask.unsqueeze(-2)
# [batch_size, num_block, block_len, 3 * block_len]
local_attention_mask = torch.logical_and(_blocked_attention_mask, _3blocked_attention_mask)
local_attention_mask = _mask_local_attention_mask(local_attention_mask, block_len)
# [batch_size, 1, num_block, block_len, 3 * block_len]
return local_attention_mask.unsqueeze(1).to(device)
def _make_global_fixed_block_ids(
attention_mask: torch.Tensor, global_block_size: int
) -> Tuple[torch.Tensor, torch.Tensor]:
"""Obtain the "fixed block" global id corresponding to each input token.
This implementation is a simlified version of the original Flaxformr implementation adopted from:
https://github.com/google/flaxformer/blob/main/flaxformer/architectures/longt5/long_attention.py.
In our scenario, as we use this strategy only for a decoder, orphan tokens, i.e. those tokens which do not make for
the whole fixed block, are assigned to the preceding block.
Padding tokens from the original sequence are represented by -1.
"""
batch_size, seq_len = attention_mask.shape[:2]
def handle_orphan_tokens(block_ids: torch.Tensor) -> torch.Tensor:
block_ends = (torch.arange(seq_len) % global_block_size) == global_block_size - 1
block_ends = block_ends.to(block_ids.device)
true_block_ends = torch.logical_and(block_ends, block_ids >= 0)
full_blocks = true_block_ends.sum(-1).unsqueeze(-1).type(block_ids.dtype) - 1
block_ids = torch.where(block_ids < full_blocks, block_ids, full_blocks)
return block_ids
fixed_block_mask = torch.ones_like(attention_mask, device=attention_mask.device) / global_block_size
fixed_block_mask = torch.cumsum(fixed_block_mask, axis=1) - fixed_block_mask
mask = torch.where(attention_mask != 0.0, 1.0, -1000.0).type(attention_mask.dtype)
global_block_ids = torch.floor(mask + fixed_block_mask - 1.0).type(attention_mask.dtype)
_global_block_ids_lower_bound = torch.tensor(-1, dtype=global_block_ids.dtype, device=global_block_ids.device)
global_block_ids = torch.where(
global_block_ids > _global_block_ids_lower_bound, global_block_ids, _global_block_ids_lower_bound
)
# set padding tokens to -1
global_block_ids = (global_block_ids * attention_mask) + (attention_mask - 1)
# [batch_size, seq_len]
global_block_ids = handle_orphan_tokens(global_block_ids)
num_globals = seq_len // global_block_size
# [batch_size, seq_len // global_block_size]
if num_globals > 0:
_sequence_block_ids_max = torch.max(global_block_ids, dim=-1).values.repeat(num_globals, 1).transpose(0, 1)
else:
_sequence_block_ids_max = torch.zeros(
batch_size, 0, dtype=global_block_ids.dtype, device=global_block_ids.device
)
global_segment_ids = torch.cumsum(torch.ones(batch_size, num_globals), dim=-1) - 1
global_segment_ids = global_segment_ids.to(attention_mask.device)
global_segment_ids = torch.where(global_segment_ids <= _sequence_block_ids_max, 1, 0)
return global_block_ids.type(torch.int), global_segment_ids.type(torch.int)
def _make_side_relative_position_ids(attention_mask: torch.Tensor, global_block_size: int) -> torch.Tensor:
"""Create the relative position tensor for local -> global attention."""
block_ids, global_segment_ids = _make_global_fixed_block_ids(attention_mask, global_block_size)
global_seq_len = global_segment_ids.shape[-1]
global_positions = torch.arange(global_seq_len, device=block_ids.device)
side_relative_position = global_positions - block_ids[..., None]
return side_relative_position.type(torch.int64)
def _create_global_aggregates(
hidden_states: torch.Tensor, block_ids: torch.Tensor, global_seq_len: int
) -> torch.Tensor:
"""Compute individual block aggregates by summing over individual blocks."""
# (batch..., seq_len, global_seq_len))
block_ids = block_ids.where(
block_ids >= 0, torch.tensor(global_seq_len, dtype=block_ids.dtype, device=block_ids.device)
)
one_hot_block_ids = nn.functional.one_hot(block_ids.type(torch.int64), global_seq_len + 1)[:, :, :-1]
return torch.einsum("...nd,...ng->...gd", hidden_states, one_hot_block_ids.type(hidden_states.dtype))
# Copied from transformers.models.t5.modeling_t5.T5LayerNorm with T5->LongT5
class LongT5LayerNorm(nn.Module):
def __init__(self, hidden_size, eps=1e-6):
"""
Construct a layernorm module in the LongT5 style. No bias and no subtraction of mean.
"""
super().__init__()
self.weight = nn.Parameter(torch.ones(hidden_size))
self.variance_epsilon = eps
def forward(self, hidden_states):
# LongT5 uses a layer_norm which only scales and doesn't shift, which is also known as Root Mean
# Square Layer Normalization https://arxiv.org/abs/1910.07467 thus varience is calculated
# w/o mean and there is no bias. Additionally we want to make sure that the accumulation for
# half-precision inputs is done in fp32
variance = hidden_states.to(torch.float32).pow(2).mean(-1, keepdim=True)
hidden_states = hidden_states * torch.rsqrt(variance + self.variance_epsilon)
# convert into half-precision if necessary
if self.weight.dtype in [torch.float16, torch.bfloat16]:
hidden_states = hidden_states.to(self.weight.dtype)
return self.weight * hidden_states
try:
from apex.normalization import FusedRMSNorm
LongT5LayerNorm = FusedRMSNorm # noqa
logger.info("Discovered apex.normalization.FusedRMSNorm - will use it instead of LongT5LayerNorm")
except ImportError:
# using the normal LongT5LayerNorm
pass
except Exception:
logger.warning("discovered apex but it failed to load, falling back to LongT5LayerNorm")
pass
ALL_LAYERNORM_LAYERS.append(LongT5LayerNorm)
# Copied from transformers.models.t5.modeling_t5.T5DenseActDense with T5->LongT5
class LongT5DenseActDense(nn.Module):
def __init__(self, config: LongT5Config):
super().__init__()
self.wi = nn.Linear(config.d_model, config.d_ff, bias=False)
self.wo = nn.Linear(config.d_ff, config.d_model, bias=False)
self.dropout = nn.Dropout(config.dropout_rate)
self.act = ACT2FN[config.dense_act_fn]
def forward(self, hidden_states):
hidden_states = self.wi(hidden_states)
hidden_states = self.act(hidden_states)
hidden_states = self.dropout(hidden_states)
if (
isinstance(self.wo.weight, torch.Tensor)
and hidden_states.dtype != self.wo.weight.dtype
and self.wo.weight.dtype != torch.int8
):
hidden_states = hidden_states.to(self.wo.weight.dtype)
hidden_states = self.wo(hidden_states)
return hidden_states
class LongT5DenseGatedActDense(nn.Module):
def __init__(self, config: LongT5Config):
super().__init__()
self.wi_0 = nn.Linear(config.d_model, config.d_ff, bias=False)
self.wi_1 = nn.Linear(config.d_model, config.d_ff, bias=False)
self.wo = nn.Linear(config.d_ff, config.d_model, bias=False)
self.dropout = nn.Dropout(config.dropout_rate)
self.act = ACT2FN[config.dense_act_fn]
def forward(self, hidden_states):
hidden_gelu = self.act(self.wi_0(hidden_states))
hidden_linear = self.wi_1(hidden_states)
hidden_states = hidden_gelu * hidden_linear
hidden_states = self.dropout(hidden_states)
hidden_states = self.wo(hidden_states)
return hidden_states
# Copied from transformers.models.t5.modeling_t5.T5LayerFF with T5->LongT5
class LongT5LayerFF(nn.Module):
def __init__(self, config: LongT5Config):
super().__init__()
if config.is_gated_act:
self.DenseReluDense = LongT5DenseGatedActDense(config)
else:
self.DenseReluDense = LongT5DenseActDense(config)
self.layer_norm = LongT5LayerNorm(config.d_model, eps=config.layer_norm_epsilon)
self.dropout = nn.Dropout(config.dropout_rate)
def forward(self, hidden_states):
forwarded_states = self.layer_norm(hidden_states)
forwarded_states = self.DenseReluDense(forwarded_states)
hidden_states = hidden_states + self.dropout(forwarded_states)
return hidden_states
# Copied from transformers.models.t5.modeling_t5.T5Attention with T5->LongT5
class LongT5Attention(nn.Module):
def __init__(self, config: LongT5Config, has_relative_attention_bias=False):
super().__init__()
self.is_decoder = config.is_decoder
self.has_relative_attention_bias = has_relative_attention_bias
self.relative_attention_num_buckets = config.relative_attention_num_buckets
self.relative_attention_max_distance = config.relative_attention_max_distance
self.d_model = config.d_model
self.key_value_proj_dim = config.d_kv
self.n_heads = config.num_heads
self.dropout = config.dropout_rate
self.inner_dim = self.n_heads * self.key_value_proj_dim
# Mesh TensorFlow initialization to avoid scaling before softmax
self.q = nn.Linear(self.d_model, self.inner_dim, bias=False)
self.k = nn.Linear(self.d_model, self.inner_dim, bias=False)
self.v = nn.Linear(self.d_model, self.inner_dim, bias=False)
self.o = nn.Linear(self.inner_dim, self.d_model, bias=False)
if self.has_relative_attention_bias:
self.relative_attention_bias = nn.Embedding(self.relative_attention_num_buckets, self.n_heads)
self.pruned_heads = set()
self.gradient_checkpointing = False
def prune_heads(self, heads):
if len(heads) == 0:
return
heads, index = find_pruneable_heads_and_indices(
heads, self.n_heads, self.key_value_proj_dim, self.pruned_heads
)
# Prune linear layers
self.q = prune_linear_layer(self.q, index)
self.k = prune_linear_layer(self.k, index)
self.v = prune_linear_layer(self.v, index)
self.o = prune_linear_layer(self.o, index, dim=1)
# Update hyper params
self.n_heads = self.n_heads - len(heads)
self.inner_dim = self.key_value_proj_dim * self.n_heads
self.pruned_heads = self.pruned_heads.union(heads)
@staticmethod
def _relative_position_bucket(relative_position, bidirectional=True, num_buckets=32, max_distance=128):
"""
Adapted from Mesh Tensorflow:
https://github.com/tensorflow/mesh/blob/0cb87fe07da627bf0b7e60475d59f95ed6b5be3d/mesh_tensorflow/transformer/transformer_layers.py#L593
Translate relative position to a bucket number for relative attention. The relative position is defined as
memory_position - query_position, i.e. the distance in tokens from the attending position to the attended-to
position. If bidirectional=False, then positive relative positions are invalid. We use smaller buckets for
small absolute relative_position and larger buckets for larger absolute relative_positions. All relative
positions >=max_distance map to the same bucket. All relative positions <=-max_distance map to the same bucket.
This should allow for more graceful generalization to longer sequences than the model has been trained on
Args:
relative_position: an int32 Tensor
bidirectional: a boolean - whether the attention is bidirectional
num_buckets: an integer
max_distance: an integer
Returns:
a Tensor with the same shape as relative_position, containing int32 values in the range [0, num_buckets)
"""
relative_buckets = 0
if bidirectional:
num_buckets //= 2
relative_buckets += (relative_position > 0).to(torch.long) * num_buckets
relative_position = torch.abs(relative_position)
else:
relative_position = -torch.min(relative_position, torch.zeros_like(relative_position))
# now relative_position is in the range [0, inf)
# half of the buckets are for exact increments in positions
max_exact = num_buckets // 2
is_small = relative_position < max_exact
# The other half of the buckets are for logarithmically bigger bins in positions up to max_distance
relative_position_if_large = max_exact + (
torch.log(relative_position.float() / max_exact)
/ math.log(max_distance / max_exact)
* (num_buckets - max_exact)
).to(torch.long)
relative_position_if_large = torch.min(
relative_position_if_large, torch.full_like(relative_position_if_large, num_buckets - 1)
)
relative_buckets += torch.where(is_small, relative_position, relative_position_if_large)
return relative_buckets
def compute_bias(self, query_length, key_length, device=None):
"""Compute binned relative position bias"""
if device is None:
device = self.relative_attention_bias.weight.device
context_position = torch.arange(query_length, dtype=torch.long, device=device)[:, None]
memory_position = torch.arange(key_length, dtype=torch.long, device=device)[None, :]
relative_position = memory_position - context_position # shape (query_length, key_length)
relative_position_bucket = self._relative_position_bucket(
relative_position, # shape (query_length, key_length)
bidirectional=(not self.is_decoder),
num_buckets=self.relative_attention_num_buckets,
max_distance=self.relative_attention_max_distance,
)
values = self.relative_attention_bias(relative_position_bucket) # shape (query_length, key_length, num_heads)
values = values.permute([2, 0, 1]).unsqueeze(0) # shape (1, num_heads, query_length, key_length)
return values
def forward(
self,
hidden_states,
mask=None,
key_value_states=None,
position_bias=None,
past_key_value=None,
layer_head_mask=None,
query_length=None,
use_cache=False,
output_attentions=False,
):
"""
Self-attention (if key_value_states is None) or attention over source sentence (provided by key_value_states).
"""
# Input is (batch_size, seq_length, dim)
# Mask is (batch_size, key_length) (non-causal) or (batch_size, key_length, key_length)
# past_key_value[0] is (batch_size, n_heads, q_len - 1, dim_per_head)
batch_size, seq_length = hidden_states.shape[:2]
real_seq_length = seq_length
if past_key_value is not None:
if len(past_key_value) != 2:
raise ValueError(
f"past_key_value should have 2 past states: keys and values. Got { len(past_key_value)} past states"
)
real_seq_length += past_key_value[0].shape[2] if query_length is None else query_length
key_length = real_seq_length if key_value_states is None else key_value_states.shape[1]
def shape(states):
"""projection"""
return states.view(batch_size, -1, self.n_heads, self.key_value_proj_dim).transpose(1, 2)
def unshape(states):
"""reshape"""
return states.transpose(1, 2).contiguous().view(batch_size, -1, self.inner_dim)
def project(hidden_states, proj_layer, key_value_states, past_key_value):
"""projects hidden states correctly to key/query states"""
if key_value_states is None:
# self-attn
# (batch_size, n_heads, seq_length, dim_per_head)
hidden_states = shape(proj_layer(hidden_states))
elif past_key_value is None:
# cross-attn
# (batch_size, n_heads, seq_length, dim_per_head)
hidden_states = shape(proj_layer(key_value_states))
if past_key_value is not None:
if key_value_states is None:
# self-attn
# (batch_size, n_heads, key_length, dim_per_head)
hidden_states = torch.cat([past_key_value, hidden_states], dim=2)
elif past_key_value.shape[2] != key_value_states.shape[1]:
# checking that the `sequence_length` of the `past_key_value` is the same as
# the provided `key_value_states` to support prefix tuning
# cross-attn
# (batch_size, n_heads, seq_length, dim_per_head)
hidden_states = shape(proj_layer(key_value_states))
else:
# cross-attn
hidden_states = past_key_value
return hidden_states
# get query states
query_states = shape(self.q(hidden_states)) # (batch_size, n_heads, seq_length, dim_per_head)
# get key/value states
key_states = project(
hidden_states, self.k, key_value_states, past_key_value[0] if past_key_value is not None else None
)
value_states = project(
hidden_states, self.v, key_value_states, past_key_value[1] if past_key_value is not None else None
)
# compute scores
scores = torch.matmul(
query_states, key_states.transpose(3, 2)
) # equivalent of torch.einsum("bnqd,bnkd->bnqk", query_states, key_states), compatible with onnx op>9
if position_bias is None:
if not self.has_relative_attention_bias:
position_bias = torch.zeros(
(1, self.n_heads, real_seq_length, key_length), device=scores.device, dtype=scores.dtype
)
if self.gradient_checkpointing and self.training:
position_bias.requires_grad = True
else:
position_bias = self.compute_bias(real_seq_length, key_length, device=scores.device)
# if key and values are already calculated
# we want only the last query position bias
if past_key_value is not None:
position_bias = position_bias[:, :, -hidden_states.size(1) :, :]
if mask is not None:
position_bias = position_bias + mask # (batch_size, n_heads, seq_length, key_length)
if self.pruned_heads:
mask = torch.ones(position_bias.shape[1])
mask[list(self.pruned_heads)] = 0
position_bias_masked = position_bias[:, mask.bool()]
else:
position_bias_masked = position_bias
scores += position_bias_masked
attn_weights = nn.functional.softmax(scores.float(), dim=-1).type_as(
scores
) # (batch_size, n_heads, seq_length, key_length)
attn_weights = nn.functional.dropout(
attn_weights, p=self.dropout, training=self.training
) # (batch_size, n_heads, seq_length, key_length)
# Mask heads if we want to
if layer_head_mask is not None:
attn_weights = attn_weights * layer_head_mask
attn_output = unshape(torch.matmul(attn_weights, value_states)) # (batch_size, seq_length, dim)
attn_output = self.o(attn_output)
present_key_value_state = (key_states, value_states) if (self.is_decoder and use_cache) else None
outputs = (attn_output,) + (present_key_value_state,) + (position_bias,)
if output_attentions:
outputs = outputs + (attn_weights,)
return outputs
class LongT5LocalAttention(nn.Module):
def __init__(self, config: LongT5Config, has_relative_attention_bias: bool = False) -> None:
super().__init__()
self.is_decoder = config.is_decoder
self.has_relative_attention_bias = has_relative_attention_bias
self.relative_attention_num_buckets = config.relative_attention_num_buckets
self.relative_attention_max_distance = config.relative_attention_max_distance
self.d_model = config.d_model
self.key_value_proj_dim = config.d_kv
self.n_heads = config.num_heads
self.local_radius = config.local_radius
self.block_len = self.local_radius + 1
self.dropout = config.dropout_rate
self.inner_dim = self.n_heads * self.key_value_proj_dim
# Mesh TensorFlow initialization to avoid scaling before softmax
self.q = nn.Linear(self.d_model, self.inner_dim, bias=False)
self.k = nn.Linear(self.d_model, self.inner_dim, bias=False)
self.v = nn.Linear(self.d_model, self.inner_dim, bias=False)
self.o = nn.Linear(self.inner_dim, self.d_model, bias=False)
if self.has_relative_attention_bias:
self.relative_attention_bias = nn.Embedding(self.relative_attention_num_buckets, self.n_heads)
self.pruned_heads = set()
self.gradient_checkpointing = False
# Copied from transformers.models.t5.modeling_t5.T5Attention.prune_heads
def prune_heads(self, heads):
if len(heads) == 0:
return
heads, index = find_pruneable_heads_and_indices(
heads, self.n_heads, self.key_value_proj_dim, self.pruned_heads
)
# Prune linear layers
self.q = prune_linear_layer(self.q, index)
self.k = prune_linear_layer(self.k, index)
self.v = prune_linear_layer(self.v, index)
self.o = prune_linear_layer(self.o, index, dim=1)
# Update hyper params
self.n_heads = self.n_heads - len(heads)
self.inner_dim = self.key_value_proj_dim * self.n_heads
self.pruned_heads = self.pruned_heads.union(heads)
@staticmethod
# Copied from transformers.models.t5.modeling_t5.T5Attention._relative_position_bucket
def _relative_position_bucket(relative_position, bidirectional=True, num_buckets=32, max_distance=128):
"""
Adapted from Mesh Tensorflow:
https://github.com/tensorflow/mesh/blob/0cb87fe07da627bf0b7e60475d59f95ed6b5be3d/mesh_tensorflow/transformer/transformer_layers.py#L593
Translate relative position to a bucket number for relative attention. The relative position is defined as
memory_position - query_position, i.e. the distance in tokens from the attending position to the attended-to
position. If bidirectional=False, then positive relative positions are invalid. We use smaller buckets for
small absolute relative_position and larger buckets for larger absolute relative_positions. All relative
positions >=max_distance map to the same bucket. All relative positions <=-max_distance map to the same bucket.
This should allow for more graceful generalization to longer sequences than the model has been trained on
Args:
relative_position: an int32 Tensor
bidirectional: a boolean - whether the attention is bidirectional
num_buckets: an integer
max_distance: an integer
Returns:
a Tensor with the same shape as relative_position, containing int32 values in the range [0, num_buckets)
"""
relative_buckets = 0
if bidirectional:
num_buckets //= 2
relative_buckets += (relative_position > 0).to(torch.long) * num_buckets
relative_position = torch.abs(relative_position)
else:
relative_position = -torch.min(relative_position, torch.zeros_like(relative_position))
# now relative_position is in the range [0, inf)
# half of the buckets are for exact increments in positions
max_exact = num_buckets // 2
is_small = relative_position < max_exact
# The other half of the buckets are for logarithmically bigger bins in positions up to max_distance
relative_position_if_large = max_exact + (
torch.log(relative_position.float() / max_exact)
/ math.log(max_distance / max_exact)
* (num_buckets - max_exact)
).to(torch.long)
relative_position_if_large = torch.min(
relative_position_if_large, torch.full_like(relative_position_if_large, num_buckets - 1)
)
relative_buckets += torch.where(is_small, relative_position, relative_position_if_large)
return relative_buckets
def compute_bias(self, block_length: int):
"""Compute binned relative position bias"""
target_device = (
self.relative_attention_bias.weight.device
if self.relative_attention_bias.weight.device.type != "meta"
else None
)
memory_position = torch.arange(3 * block_length, dtype=torch.long, device=target_device)
context_position = memory_position[block_length:-block_length]
# (block_length, 3 * block_length)
relative_position = memory_position[None, :] - context_position[:, None]
relative_position_bucket = self._relative_position_bucket(
relative_position, # (block_length, 3 * block_length)
bidirectional=(not self.is_decoder),
num_buckets=self.relative_attention_num_buckets,
max_distance=self.relative_attention_max_distance,
)
# (block_length, 3 * block_length, num_heads)
values = self.relative_attention_bias(relative_position_bucket)
# (1, 1, num_heads, block_length, 3 * block_length)
values = values.permute([2, 0, 1]).unsqueeze(0).unsqueeze(0)
return values
def forward(
self,
hidden_states,
mask=None,
position_bias=None,
layer_head_mask=None,
output_attentions=False,
):
batch_size, seq_length = hidden_states.shape[:2]
def shape(states):
"""projection"""
return states.view(batch_size, -1, self.n_heads, self.key_value_proj_dim)
def unshape(states):
"""reshape"""
return states.contiguous().view(batch_size, -1, self.inner_dim)
# get query/key/value states -> (batch_size, seq_length, n_heads, dim_per_head)
query_states = shape(self.q(hidden_states))
key_states = shape(self.k(hidden_states))
value_states = shape(self.v(hidden_states))
# Split into blocks -> (batch_size, num_blocks, block_len, n_heads, dim_per_head)
query_states = _split_into_blocks(query_states, self.block_len, dim=1)
key_states = _split_into_blocks(key_states, self.block_len, dim=1)
value_states = _split_into_blocks(value_states, self.block_len, dim=1)
# Concatenate 3 blocks for keys and values -> (batch_size, num_blocks, 3 * block_len, n_heads, dim_per_head)
key_states = _concatenate_3_blocks(key_states, block_dim=1, sequence_dim=2)
value_states = _concatenate_3_blocks(value_states, block_dim=1, sequence_dim=2)
# Compute scores
scores = torch.einsum(
"...qhd,...khd->...hqk", query_states, key_states
) # (batch_size, num_block, n_heads, block_len, 3 * block_len)
if position_bias is None:
# position_bias shape: # (1, 1, n_heads, block_len, 3 * block_len)
if not self.has_relative_attention_bias:
position_bias = torch.zeros(
(1, 1, self.n_heads, self.block_len, 3 * self.block_len), device=scores.device, dtype=scores.dtype
)
if self.gradient_checkpointing and self.training:
position_bias.requires_grad = True
else:
position_bias = self.compute_bias(self.block_len)
if mask is not None:
# Replace masked positions with -1e10 (according to the original implementation)
mask = torch.where(mask > 0, 0.0, -1e10)
# We need to adjust position bias shape to be sum with mask
position_bias = position_bias + mask.transpose(1, 2)
scores += position_bias
# (batch_size, num_blocks, n_heads, block_len, 3 * block_len)
attn_weights = nn.functional.softmax(scores.float(), dim=-1).type_as(scores)
# (batch_size, num_blocks, n_heads, block_len, 3 * block_len)
attn_weights = nn.functional.dropout(attn_weights, p=self.dropout, training=self.training)
# Mask heads if we want to
if layer_head_mask is not None:
attn_weights = attn_weights * layer_head_mask
attn_weights = attn_weights.type(value_states.dtype)
attn_output = unshape(torch.einsum("...hqk,...khd->...qhd", attn_weights, value_states))
attn_output = attn_output[:, :seq_length, :]
attn_output = self.o(attn_output)
present_key_value_state = None
outputs = (attn_output,) + (present_key_value_state,) + (position_bias,)
if output_attentions:
outputs = outputs + (attn_weights,)
return outputs
class LongT5TransientGlobalAttention(nn.Module):
def __init__(self, config: LongT5Config, has_relative_attention_bias: bool = False) -> None:
super().__init__()
self.is_decoder = config.is_decoder
self.has_relative_attention_bias = has_relative_attention_bias
self.relative_attention_num_buckets = config.relative_attention_num_buckets
self.relative_attention_max_distance = config.relative_attention_max_distance
self.d_model = config.d_model
self.key_value_proj_dim = config.d_kv
self.n_heads = config.num_heads
self.local_radius = config.local_radius
self.block_len = self.local_radius + 1
self.global_block_size = config.global_block_size
self.dropout = config.dropout_rate
self.inner_dim = self.n_heads * self.key_value_proj_dim
# Mesh TensorFlow initialization to avoid scaling before softmax
self.q = nn.Linear(self.d_model, self.inner_dim, bias=False)
self.k = nn.Linear(self.d_model, self.inner_dim, bias=False)
self.v = nn.Linear(self.d_model, self.inner_dim, bias=False)
self.o = nn.Linear(self.inner_dim, self.d_model, bias=False)
if self.has_relative_attention_bias:
self.relative_attention_bias = nn.Embedding(self.relative_attention_num_buckets, self.n_heads)
self.pruned_heads = set()
self.gradient_checkpointing = False
# Relativen attention bias & Layer norm for global attention
if self.has_relative_attention_bias:
self.global_relative_attention_bias = nn.Embedding(self.relative_attention_num_buckets, self.n_heads)
self.global_input_layer_norm = LongT5LayerNorm(config.d_model, eps=config.layer_norm_epsilon)
# Copied from transformers.models.t5.modeling_t5.T5Attention.prune_heads
def prune_heads(self, heads):
if len(heads) == 0:
return
heads, index = find_pruneable_heads_and_indices(
heads, self.n_heads, self.key_value_proj_dim, self.pruned_heads
)
# Prune linear layers
self.q = prune_linear_layer(self.q, index)
self.k = prune_linear_layer(self.k, index)
self.v = prune_linear_layer(self.v, index)
self.o = prune_linear_layer(self.o, index, dim=1)
# Update hyper params
self.n_heads = self.n_heads - len(heads)
self.inner_dim = self.key_value_proj_dim * self.n_heads
self.pruned_heads = self.pruned_heads.union(heads)
@staticmethod
# Copied from transformers.models.t5.modeling_t5.T5Attention._relative_position_bucket
def _relative_position_bucket(relative_position, bidirectional=True, num_buckets=32, max_distance=128):
"""
Adapted from Mesh Tensorflow:
https://github.com/tensorflow/mesh/blob/0cb87fe07da627bf0b7e60475d59f95ed6b5be3d/mesh_tensorflow/transformer/transformer_layers.py#L593
Translate relative position to a bucket number for relative attention. The relative position is defined as
memory_position - query_position, i.e. the distance in tokens from the attending position to the attended-to
position. If bidirectional=False, then positive relative positions are invalid. We use smaller buckets for
small absolute relative_position and larger buckets for larger absolute relative_positions. All relative
positions >=max_distance map to the same bucket. All relative positions <=-max_distance map to the same bucket.
This should allow for more graceful generalization to longer sequences than the model has been trained on
Args:
relative_position: an int32 Tensor
bidirectional: a boolean - whether the attention is bidirectional
num_buckets: an integer
max_distance: an integer
Returns:
a Tensor with the same shape as relative_position, containing int32 values in the range [0, num_buckets)
"""
relative_buckets = 0
if bidirectional:
num_buckets //= 2
relative_buckets += (relative_position > 0).to(torch.long) * num_buckets
relative_position = torch.abs(relative_position)
else:
relative_position = -torch.min(relative_position, torch.zeros_like(relative_position))
# now relative_position is in the range [0, inf)
# half of the buckets are for exact increments in positions
max_exact = num_buckets // 2
is_small = relative_position < max_exact
# The other half of the buckets are for logarithmically bigger bins in positions up to max_distance
relative_position_if_large = max_exact + (
torch.log(relative_position.float() / max_exact)
/ math.log(max_distance / max_exact)
* (num_buckets - max_exact)
).to(torch.long)
relative_position_if_large = torch.min(
relative_position_if_large, torch.full_like(relative_position_if_large, num_buckets - 1)
)
relative_buckets += torch.where(is_small, relative_position, relative_position_if_large)
return relative_buckets
def compute_bias(self, block_length: int):
"""Compute binned relative position bias"""
target_device = (
self.relative_attention_bias.weight.device
if self.relative_attention_bias.weight.device.type != "meta"
else None
)
memory_position = torch.arange(3 * block_length, dtype=torch.long, device=target_device)
context_position = memory_position[block_length:-block_length]
# (block_length, 3 * block_length)
relative_position = memory_position[None, :] - context_position[:, None]
relative_position_bucket = self._relative_position_bucket(
relative_position, # (block_length, 3 * block_length)
bidirectional=(not self.is_decoder),
num_buckets=self.relative_attention_num_buckets,
max_distance=self.relative_attention_max_distance,
)
# (block_length, 3 * block_length, num_heads)
values = self.relative_attention_bias(relative_position_bucket)
# (1, 1, num_heads, block_length, 3 * block_length)
values = values.permute([2, 0, 1]).unsqueeze(0).unsqueeze(0)
return values
def compute_side_bias(self, mask: torch.Tensor, global_segment_ids: torch.Tensor) -> torch.Tensor:
# (batch_size, 1, seq_len, global_seq_len)
side_attention_mask = torch.eq(mask[..., None], global_segment_ids[:, None, :])[:, None, ...]
attention_side_bias = torch.where(side_attention_mask > 0, 0.0, -1e10)
# (batch_size, seq_len, global_seq_len)
side_relative_position = _make_side_relative_position_ids(mask, self.global_block_size)
side_relative_position_bucket = self._relative_position_bucket(
side_relative_position,
bidirectional=(not self.is_decoder),
num_buckets=self.relative_attention_num_buckets,
max_distance=self.relative_attention_max_distance,
)
# (batch_size, seq_len, global_seq_len, num_heads)
side_bias = self.global_relative_attention_bias(side_relative_position_bucket)
# (batch_size, num_heads, seq_len, global_seq_len)
side_bias = side_bias.permute([0, 3, 1, 2])
# (batch_size, num_heads, seq_len, global_seq_len)
attention_side_bias = attention_side_bias + side_bias
return attention_side_bias
def forward(
self,
hidden_states,
mask=None,
position_bias=None,
layer_head_mask=None,
output_attentions=False,
):
batch_size, seq_length = hidden_states.shape[:2]
def shape(states):
"""projection"""
return states.view(batch_size, -1, self.n_heads, self.key_value_proj_dim)
def unshape(states):
"""reshape"""
return states.contiguous().view(batch_size, -1, self.inner_dim)
# Prepare components for transient-global attention
# Obtain block_ids and global_segment_ids
# global_seq_len := seq_len // self.global_block_size
# shapes: (batch_size, seq_len) & (batch_size, global_seq_len)
block_ids, global_segment_ids = _make_global_fixed_block_ids(
mask if mask is not None else torch.ones(hidden_states.shape[:-1]),
self.global_block_size,
)
# Create global inputs
_global_seq_len = global_segment_ids.shape[-1]
global_inputs = _create_global_aggregates(hidden_states, block_ids, _global_seq_len)
global_inputs = self.global_input_layer_norm(global_inputs)
# get query states -> (batch_size, seq_length, n_heads, dim_per_head)
query_states = shape(self.q(hidden_states))
key_states = shape(self.k(hidden_states))
value_states = shape(self.v(hidden_states))
# Get global/side key/value states shape: (batch_size, global_seq_len, n_heads, dim_per_head)
side_key_states = shape(self.k(global_inputs))
side_value_states = shape(self.v(global_inputs))
# Split into blocks -> (batch_size, num_blocks, block_len, n_heads, dim_per_head)
query_states = _split_into_blocks(query_states, self.block_len, dim=1)
key_states = _split_into_blocks(key_states, self.block_len, dim=1)
value_states = _split_into_blocks(value_states, self.block_len, dim=1)
# Concatenate 3 blocks for keys and values -> (batch_size, num_blocks, 3 * block_len, n_heads, dim_per_head)
key_states = _concatenate_3_blocks(key_states, block_dim=1, sequence_dim=2)
value_states = _concatenate_3_blocks(value_states, block_dim=1, sequence_dim=2)
# Tile side inputs across local key/value blocks
# New shape: (batch_size, num_blocks, global_seq_len, n_heads, dim_per_head)
reps = [1] * (side_key_states.ndim + 1)
reps[1] = key_states.shape[1]
side_key_states = side_key_states.unsqueeze(1).repeat(reps)
side_value_states = side_value_states.unsqueeze(1).repeat(reps)
# Concatenate "local" and "side"/"global" key/value states to allow each token to attend global aggregated ones
# New shape: (batch_size, num_blocks, 3 * block_len + global_seq_len, n_heads, dim_per_head)
key_states = torch.cat([key_states, side_key_states], dim=2)
value_states = torch.cat([value_states, side_value_states], dim=2)
# Compute scores -> (batch_size, num_block, n_heads, block_len, 3 * block_len + global_seq_len)
scores = torch.einsum("...qhd,...khd->...hqk", query_states, key_states)
if mask is not None:
# We need to adjust position bias shape to be sum with mask
local_attention_mask = _get_local_attention_mask(mask, self.block_len, hidden_states.device)
# Replace masked positions with -10_000 (according to the original implementation)
local_attention_mask = torch.where(local_attention_mask > 0, 0.0, -1e10)
else:
local_attention_mask = None
if position_bias is None:
# position_bias shape: # (1, 1, n_heads, block_len, 3 * block_len)
if not self.has_relative_attention_bias:
position_bias = torch.zeros(
(1, 1, self.n_heads, self.block_len, 3 * self.block_len),
device=scores.device,
dtype=scores.dtype,
)
if self.gradient_checkpointing and self.training:
position_bias.requires_grad = True
else:
position_bias = self.compute_bias(self.block_len)
if local_attention_mask is not None:
# (batch_size, 1, n_heads, block_len, 3 * block_len)
position_bias = position_bias + local_attention_mask.transpose(1, 2)
position_bias = position_bias.type(scores.dtype)
# Calculate global/side bias - shape: # (batch_size, num_heads, seq_len, global_seq_len)
if mask is None:
mask = torch.ones(batch_size, seq_length)
# (batch_size, num_heads, seq_len, global_seq_len)
side_position_bias = self.compute_side_bias(mask, global_segment_ids)
# (batch_size, num_blocks, num_heads, block_len, global_seq_len)
side_position_bias = _split_into_blocks(side_position_bias, self.block_len, dim=-2).transpose(1, 2)
side_position_bias = side_position_bias.type(scores.dtype).to(scores.device)
# (batch_size, num_blocks, num_heads, block_len, 3 * block_len + global_seq_len)
position_bias = torch.cat([position_bias, side_position_bias], dim=-1)
scores += position_bias
# (batch_size, num_blocks, n_heads, block_len, 3 * block_len + global_seq_len)
attn_weights = nn.functional.softmax(scores.float(), dim=-1).type_as(scores)
attn_weights = nn.functional.dropout(attn_weights, p=self.dropout, training=self.training)
# Mask heads if we want to
if layer_head_mask is not None:
attn_weights = attn_weights * layer_head_mask
attn_weights = attn_weights.type(value_states.dtype)
attn_output = unshape(torch.einsum("...hqk,...khd->...qhd", attn_weights, value_states))
attn_output = attn_output[:, :seq_length, :]
attn_output = self.o(attn_output)
present_key_value_state = None
outputs = (attn_output,) + (present_key_value_state,) + (position_bias,)
if output_attentions:
outputs = outputs + (attn_weights,)
return outputs
# Copied from transformers.models.t5.modeling_t5.T5LayerSelfAttention with T5->LongT5
class LongT5LayerSelfAttention(nn.Module):
def __init__(self, config, has_relative_attention_bias=False):
super().__init__()
self.SelfAttention = LongT5Attention(config, has_relative_attention_bias=has_relative_attention_bias)
self.layer_norm = LongT5LayerNorm(config.d_model, eps=config.layer_norm_epsilon)
self.dropout = nn.Dropout(config.dropout_rate)
def forward(
self,
hidden_states,
attention_mask=None,
position_bias=None,
layer_head_mask=None,
past_key_value=None,
use_cache=False,
output_attentions=False,
):
normed_hidden_states = self.layer_norm(hidden_states)
attention_output = self.SelfAttention(
normed_hidden_states,
mask=attention_mask,
position_bias=position_bias,
layer_head_mask=layer_head_mask,
past_key_value=past_key_value,
use_cache=use_cache,
output_attentions=output_attentions,
)
hidden_states = hidden_states + self.dropout(attention_output[0])
outputs = (hidden_states,) + attention_output[1:] # add attentions if we output them
return outputs
class LongT5LayerLocalSelfAttention(nn.Module):
"""Local self attention used in encoder"""
def __init__(self, config, has_relative_attention_bias=False):
super().__init__()
self.LocalSelfAttention = LongT5LocalAttention(config, has_relative_attention_bias=has_relative_attention_bias)
self.layer_norm = LongT5LayerNorm(config.d_model, eps=config.layer_norm_epsilon)
self.dropout = nn.Dropout(config.dropout_rate)
def forward(
self,
hidden_states,
attention_mask=None,
position_bias=None,
layer_head_mask=None,
output_attentions=False,
**kwargs: Any, # to accept past_key_value and use_cache kwargs
):
normed_hidden_states = self.layer_norm(hidden_states)
attention_output = self.LocalSelfAttention(
normed_hidden_states,
mask=attention_mask,
position_bias=position_bias,
layer_head_mask=layer_head_mask,
output_attentions=output_attentions,
)
hidden_states = hidden_states + self.dropout(attention_output[0])
outputs = (hidden_states,) + attention_output[1:] # add attentions if we output them
return outputs
class LongT5LayerTransientGlobalSelfAttention(nn.Module):
"""Transient-Global self attention used in encoder"""
def __init__(self, config, has_relative_attention_bias=False):
super().__init__()
self.TransientGlobalSelfAttention = LongT5TransientGlobalAttention(
config, has_relative_attention_bias=has_relative_attention_bias
)
self.layer_norm = LongT5LayerNorm(config.d_model, eps=config.layer_norm_epsilon)
self.dropout = nn.Dropout(config.dropout_rate)
def forward(
self,
hidden_states,
attention_mask=None,
position_bias=None,
layer_head_mask=None,
output_attentions=False,
**kwargs: Any, # to accept past_key_value and use_cache kwargs
):
normed_hidden_states = self.layer_norm(hidden_states)
attention_output = self.TransientGlobalSelfAttention(
normed_hidden_states,
mask=attention_mask,
position_bias=position_bias,
layer_head_mask=layer_head_mask,
output_attentions=output_attentions,
)
hidden_states = hidden_states + self.dropout(attention_output[0])
outputs = (hidden_states,) + attention_output[1:] # add attentions if we output them
return outputs
# Copied from transformers.models.t5.modeling_t5.T5LayerCrossAttention with T5->LongT5
class LongT5LayerCrossAttention(nn.Module):
def __init__(self, config):
super().__init__()
self.EncDecAttention = LongT5Attention(config, has_relative_attention_bias=False)
self.layer_norm = LongT5LayerNorm(config.d_model, eps=config.layer_norm_epsilon)
self.dropout = nn.Dropout(config.dropout_rate)
def forward(
self,
hidden_states,
key_value_states,
attention_mask=None,
position_bias=None,
layer_head_mask=None,
past_key_value=None,
use_cache=False,
query_length=None,
output_attentions=False,
):
normed_hidden_states = self.layer_norm(hidden_states)
attention_output = self.EncDecAttention(
normed_hidden_states,
mask=attention_mask,
key_value_states=key_value_states,
position_bias=position_bias,
layer_head_mask=layer_head_mask,
past_key_value=past_key_value,
use_cache=use_cache,
query_length=query_length,
output_attentions=output_attentions,
)
layer_output = hidden_states + self.dropout(attention_output[0])
outputs = (layer_output,) + attention_output[1:] # add attentions if we output them
return outputs
class LongT5Block(nn.Module):
def __init__(self, config, has_relative_attention_bias=False):
super().__init__()
self.is_decoder = config.is_decoder
if config.is_decoder:
attention_layer = LongT5LayerSelfAttention
elif config.encoder_attention_type == "local":
attention_layer = LongT5LayerLocalSelfAttention
elif config.encoder_attention_type == "transient-global":
attention_layer = LongT5LayerTransientGlobalSelfAttention
else:
raise ValueError(
"For encoder attention mechanism, either `local` or `transient-global` attention type is expected, "
f"but got {config.encoder_attention_type}."
)
self.layer = nn.ModuleList()
self.layer.append(attention_layer(config, has_relative_attention_bias=has_relative_attention_bias))
if self.is_decoder:
self.layer.append(LongT5LayerCrossAttention(config))
self.layer.append(LongT5LayerFF(config))
def forward(
self,
hidden_states,
attention_mask=None,
position_bias=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
encoder_decoder_position_bias=None,
layer_head_mask=None,
cross_attn_layer_head_mask=None,
past_key_value=None,
use_cache=False,
output_attentions=False,
return_dict=True,
):
if past_key_value is not None:
if not self.is_decoder:
logger.warning("`past_key_values` is passed to the encoder. Please make sure this is intended.")
expected_num_past_key_values = 2 if encoder_hidden_states is None else 4
if len(past_key_value) != expected_num_past_key_values:
raise ValueError(
f"There should be {expected_num_past_key_values} past states. "
f"{'2 (past / key) for cross attention. ' if expected_num_past_key_values == 4 else ''}"
f"Got {len(past_key_value)} past key / value states"
)
self_attn_past_key_value = past_key_value[:2]
cross_attn_past_key_value = past_key_value[2:]
else:
self_attn_past_key_value, cross_attn_past_key_value = None, None
self_attention_outputs = self.layer[0](
hidden_states,
attention_mask=attention_mask,
position_bias=position_bias,
layer_head_mask=layer_head_mask,
past_key_value=self_attn_past_key_value,
use_cache=use_cache,
output_attentions=output_attentions,
)
hidden_states, present_key_value_state = self_attention_outputs[:2]
attention_outputs = self_attention_outputs[2:] # Keep self-attention outputs and relative position weights
# clamp inf values to enable fp16 inference - check https://github.com/huggingface/transformers/pull/19229/
if hidden_states.dtype == torch.float16 and torch.isinf(hidden_states).any():
clamp_value = torch.finfo(hidden_states.dtype).max - 1000
hidden_states = torch.clamp(hidden_states, min=-clamp_value, max=clamp_value)
do_cross_attention = self.is_decoder and encoder_hidden_states is not None
if do_cross_attention:
# the actual query length is unknown for cross attention
# if using past key value states. Need to inject it here
if present_key_value_state is not None:
query_length = present_key_value_state[0].shape[2]
else:
query_length = None
cross_attention_outputs = self.layer[1](
hidden_states,
key_value_states=encoder_hidden_states,
attention_mask=encoder_attention_mask,
position_bias=encoder_decoder_position_bias,
layer_head_mask=cross_attn_layer_head_mask,
past_key_value=cross_attn_past_key_value,
query_length=query_length,
use_cache=use_cache,
output_attentions=output_attentions,
)
hidden_states = cross_attention_outputs[0]
# clamp inf values to enable fp16 inference - check https://github.com/huggingface/transformers/pull/19229/
if hidden_states.dtype == torch.float16 and torch.isinf(hidden_states).any():
clamp_value = torch.finfo(hidden_states.dtype).max - 1000
hidden_states = torch.clamp(hidden_states, min=-clamp_value, max=clamp_value)
# Combine self attn and cross attn key value states
if present_key_value_state is not None:
present_key_value_state = present_key_value_state + cross_attention_outputs[1]
# Keep cross-attention outputs and relative position weights
attention_outputs = attention_outputs + cross_attention_outputs[2:]
# Apply Feed Forward layer
hidden_states = self.layer[-1](hidden_states)
# clamp inf values to enable fp16 inference - check https://github.com/huggingface/transformers/pull/19229/
if hidden_states.dtype == torch.float16 and torch.isinf(hidden_states).any():
clamp_value = torch.finfo(hidden_states.dtype).max - 1000
hidden_states = torch.clamp(hidden_states, min=-clamp_value, max=clamp_value)
outputs = (hidden_states,)
if use_cache:
outputs = outputs + (present_key_value_state,) + attention_outputs
else:
outputs = outputs + attention_outputs
return outputs # hidden-states, present_key_value_states, (self-attention position bias), (self-attention weights), (cross-attention position bias), (cross-attention weights)
class LongT5PreTrainedModel(PreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
config_class = LongT5Config
base_model_prefix = "transformer"
supports_gradient_checkpointing = True
_no_split_modules = ["LongT5Block"]
@property
# Copied from transformers.models.t5.modeling_t5.T5PreTrainedModel.dummy_inputs
def dummy_inputs(self):
input_ids = torch.tensor(DUMMY_INPUTS)
input_mask = torch.tensor(DUMMY_MASK)
dummy_inputs = {
"decoder_input_ids": input_ids,
"input_ids": input_ids,
"decoder_attention_mask": input_mask,
}
return dummy_inputs
def _init_weights(self, module):
"""Initialize the weights"""
factor = self.config.initializer_factor # Used for testing weights initialization
if isinstance(module, LongT5LayerNorm):
module.weight.data.fill_(factor * 1.0)
elif isinstance(module, (LongT5Model, LongT5ForConditionalGeneration, LongT5EncoderModel)):
# Mesh TensorFlow embeddings initialization
# See https://github.com/tensorflow/mesh/blob/fa19d69eafc9a482aff0b59ddd96b025c0cb207d/mesh_tensorflow/layers.py#L1624
module.shared.weight.data.normal_(mean=0.0, std=factor * 1.0)
elif isinstance(module, LongT5DenseActDense):
# Mesh TensorFlow FF initialization
# See https://github.com/tensorflow/mesh/blob/master/mesh_tensorflow/transformer/transformer_layers.py#L56
# and https://github.com/tensorflow/mesh/blob/fa19d69eafc9a482aff0b59ddd96b025c0cb207d/mesh_tensorflow/layers.py#L89
module.wi.weight.data.normal_(mean=0.0, std=factor * ((self.config.d_model) ** -0.5))
if hasattr(module.wi, "bias") and module.wi.bias is not None:
module.wi.bias.data.zero_()
module.wo.weight.data.normal_(mean=0.0, std=factor * ((self.config.d_ff) ** -0.5))
if hasattr(module.wo, "bias") and module.wo.bias is not None:
module.wo.bias.data.zero_()
elif isinstance(module, LongT5DenseGatedActDense):
module.wi_0.weight.data.normal_(mean=0.0, std=factor * ((self.config.d_model) ** -0.5))
if hasattr(module.wi_0, "bias") and module.wi_0.bias is not None:
module.wi_0.bias.data.zero_()
module.wi_1.weight.data.normal_(mean=0.0, std=factor * ((self.config.d_model) ** -0.5))
if hasattr(module.wi_1, "bias") and module.wi_1.bias is not None:
module.wi_1.bias.data.zero_()
module.wo.weight.data.normal_(mean=0.0, std=factor * ((self.config.d_ff) ** -0.5))
if hasattr(module.wo, "bias") and module.wo.bias is not None:
module.wo.bias.data.zero_()
elif isinstance(module, (LongT5Attention, LongT5LocalAttention, LongT5TransientGlobalAttention)):
# Mesh TensorFlow attention initialization to avoid scaling before softmax
# See https://github.com/tensorflow/mesh/blob/fa19d69eafc9a482aff0b59ddd96b025c0cb207d/mesh_tensorflow/transformer/attention.py#L136
d_model = self.config.d_model
key_value_proj_dim = self.config.d_kv
n_heads = self.config.num_heads
module.q.weight.data.normal_(mean=0.0, std=factor * ((d_model * key_value_proj_dim) ** -0.5))
module.k.weight.data.normal_(mean=0.0, std=factor * (d_model**-0.5))
module.v.weight.data.normal_(mean=0.0, std=factor * (d_model**-0.5))
module.o.weight.data.normal_(mean=0.0, std=factor * ((n_heads * key_value_proj_dim) ** -0.5))
if module.has_relative_attention_bias:
module.relative_attention_bias.weight.data.normal_(mean=0.0, std=factor * ((d_model) ** -0.5))
if isinstance(module, LongT5TransientGlobalAttention):
module.global_relative_attention_bias.weight.data.normal_(
mean=0.0, std=factor * ((d_model) ** -0.5)
)
# Copied from transformers.models.t5.modeling_t5.T5PreTrainedModel._set_gradient_checkpointing with T5->LongT5
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, (LongT5Attention, LongT5Stack)):
module.gradient_checkpointing = value
# Copied from transformers.models.t5.modeling_t5.T5PreTrainedModel._shift_right with T5->LongT5
def _shift_right(self, input_ids):
decoder_start_token_id = self.config.decoder_start_token_id
pad_token_id = self.config.pad_token_id
if decoder_start_token_id is None:
raise ValueError(
"self.model.config.decoder_start_token_id has to be defined. In LongT5 it is usually set to the pad_token_id."
"See LongT5 docs for more information."
)
# shift inputs to the right
if is_torch_fx_proxy(input_ids):
# Item assignment is not supported natively for proxies.
shifted_input_ids = torch.full(input_ids.shape[:-1] + (1,), decoder_start_token_id)
shifted_input_ids = torch.cat([shifted_input_ids, input_ids[..., :-1]], dim=-1)
else:
shifted_input_ids = input_ids.new_zeros(input_ids.shape)
shifted_input_ids[..., 1:] = input_ids[..., :-1].clone()
shifted_input_ids[..., 0] = decoder_start_token_id
if pad_token_id is None:
raise ValueError("self.model.config.pad_token_id has to be defined.")
# replace possible -100 values in labels by `pad_token_id`
shifted_input_ids.masked_fill_(shifted_input_ids == -100, pad_token_id)
return shifted_input_ids
class LongT5Stack(LongT5PreTrainedModel):
def __init__(self, config, embed_tokens=None):
super().__init__(config)
self.embed_tokens = nn.Embedding(config.vocab_size, config.d_model)
if embed_tokens is not None:
self.embed_tokens.weight = embed_tokens.weight
self.is_decoder = config.is_decoder
self.local_radius = config.local_radius
self.block_len = self.local_radius + 1
self.block = nn.ModuleList(
[LongT5Block(config, has_relative_attention_bias=bool(i == 0)) for i in range(config.num_layers)]
)
self.final_layer_norm = LongT5LayerNorm(config.d_model, eps=config.layer_norm_epsilon)
self.dropout = nn.Dropout(config.dropout_rate)
# Initialize weights and apply final processing
self.post_init()
self.gradient_checkpointing = False
# Copied from transformers.models.t5.modeling_t5.T5Stack.get_input_embeddings
def get_input_embeddings(self):
return self.embed_tokens
# Copied from transformers.models.t5.modeling_t5.T5Stack.set_input_embeddings
def set_input_embeddings(self, new_embeddings):
self.embed_tokens = new_embeddings
def forward(
self,
input_ids=None,
attention_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
inputs_embeds=None,
head_mask=None,
cross_attn_head_mask=None,
past_key_values=None,
use_cache=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
):
use_cache = use_cache if use_cache is not None else self.config.use_cache
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if input_ids is not None and inputs_embeds is not None:
err_msg_prefix = "decoder_" if self.is_decoder else ""
raise ValueError(
f"You cannot specify both {err_msg_prefix}input_ids and {err_msg_prefix}inputs_embeds at the same time"
)
elif input_ids is not None:
input_shape = input_ids.size()
input_ids = input_ids.view(-1, input_shape[-1])
elif inputs_embeds is not None:
input_shape = inputs_embeds.size()[:-1]
else:
err_msg_prefix = "decoder_" if self.is_decoder else ""
raise ValueError(f"You have to specify either {err_msg_prefix}input_ids or {err_msg_prefix}inputs_embeds")
if inputs_embeds is None:
assert self.embed_tokens is not None, "You have to initialize the model with valid token embeddings"
inputs_embeds = self.embed_tokens(input_ids)
batch_size, seq_length = input_shape
# required mask seq length can be calculated via length of past
mask_seq_length = past_key_values[0][0].shape[2] + seq_length if past_key_values is not None else seq_length
if use_cache is True:
assert self.is_decoder, f"`use_cache` can only be set to `True` if {self} is used as a decoder"
if attention_mask is None:
attention_mask = torch.ones(batch_size, mask_seq_length, device=inputs_embeds.device)
# initialize past_key_values with `None` if past does not exist
if past_key_values is None:
past_key_values = [None] * len(self.block)
# We can provide a self-attention mask of dimensions [batch_size, from_seq_length, to_seq_length]
# ourselves in which case we just need to make it broadcastable to all heads.
# We use local attention in encoder self-attention, otherwise standard self & cross attentions are used
if self.is_decoder:
extended_attention_mask = self.get_extended_attention_mask(
attention_mask, input_shape, inputs_embeds.device
)
elif self.config.encoder_attention_type == "local":
extended_attention_mask = _get_local_attention_mask(attention_mask, self.block_len, inputs_embeds.device)
else: # we need to use both local attention mask and standard extended mask for transient-global attention
extended_attention_mask = attention_mask
# If a 2D or 3D attention mask is provided for the cross-attention
# we need to make broadcastable to [batch_size, num_heads, seq_length, seq_length]
if self.is_decoder and encoder_hidden_states is not None:
encoder_batch_size, encoder_sequence_length, _ = encoder_hidden_states.size()
encoder_hidden_shape = (encoder_batch_size, encoder_sequence_length)
if encoder_attention_mask is None:
encoder_attention_mask = torch.ones(encoder_hidden_shape, device=inputs_embeds.device)
encoder_extended_attention_mask = self.invert_attention_mask(encoder_attention_mask)
else:
encoder_extended_attention_mask = None
if self.gradient_checkpointing and self.training:
if use_cache:
logger.warning_once(
"`use_cache=True` is incompatible with gradient checkpointing. Setting `use_cache=False`..."
)
use_cache = False
# Prepare head mask if needed
head_mask = self.get_head_mask(head_mask, self.config.num_layers)
cross_attn_head_mask = self.get_head_mask(cross_attn_head_mask, self.config.num_layers)
present_key_value_states = () if use_cache else None
all_hidden_states = () if output_hidden_states else None
all_attentions = () if output_attentions else None
all_cross_attentions = () if (output_attentions and self.is_decoder) else None
position_bias = None
encoder_decoder_position_bias = None
hidden_states = self.dropout(inputs_embeds)
for i, (layer_module, past_key_value) in enumerate(zip(self.block, past_key_values)):
layer_head_mask = head_mask[i]
cross_attn_layer_head_mask = cross_attn_head_mask[i]
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return tuple(module(*inputs, use_cache, output_attentions))
return custom_forward
layer_outputs = checkpoint(
create_custom_forward(layer_module),
hidden_states,
extended_attention_mask,
position_bias,
encoder_hidden_states,
encoder_extended_attention_mask,
encoder_decoder_position_bias,
layer_head_mask,
cross_attn_layer_head_mask,
None, # past_key_value is always None with gradient checkpointing
)
else:
layer_outputs = layer_module(
hidden_states,
attention_mask=extended_attention_mask,
position_bias=position_bias,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_extended_attention_mask,
encoder_decoder_position_bias=encoder_decoder_position_bias,
layer_head_mask=layer_head_mask,
cross_attn_layer_head_mask=cross_attn_layer_head_mask,
past_key_value=past_key_value,
use_cache=use_cache,
output_attentions=output_attentions,
)
# layer_outputs is a tuple with:
# hidden-states, key-value-states, (self-attention position bias), (self-attention weights), (cross-attention position bias), (cross-attention weights)
if use_cache is False:
layer_outputs = layer_outputs[:1] + (None,) + layer_outputs[1:]
hidden_states, present_key_value_state = layer_outputs[:2]
# We share the position biases between the layers - the first layer store them
# layer_outputs = hidden-states, key-value-states (self-attention position bias), (self-attention weights),
# (cross-attention position bias), (cross-attention weights)
position_bias = layer_outputs[2]
if self.is_decoder and encoder_hidden_states is not None:
encoder_decoder_position_bias = layer_outputs[4 if output_attentions else 3]
# append next layer key value states
if use_cache:
present_key_value_states = present_key_value_states + (present_key_value_state,)
if output_attentions:
all_attentions = all_attentions + (layer_outputs[3],)
if self.is_decoder:
all_cross_attentions = all_cross_attentions + (layer_outputs[5],)
hidden_states = self.final_layer_norm(hidden_states)
hidden_states = self.dropout(hidden_states)
# Add last layer
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
if not return_dict:
return tuple(
v
for v in [
hidden_states,
present_key_value_states,
all_hidden_states,
all_attentions,
all_cross_attentions,
]
if v is not None
)
return BaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
past_key_values=present_key_value_states,
hidden_states=all_hidden_states,
attentions=all_attentions,
cross_attentions=all_cross_attentions,
)
LONGT5_START_DOCSTRING = r"""
The LongT5 model was proposed in [LongT5: Efficient Text-To-Text Transformer for Long
Sequences](https://arxiv.org/abs/2112.07916) by Mandy Guo, Joshua Ainslie, David Uthus, Santiago Ontanon, Jianmo
Ni, Yun-Hsuan Sung and Yinfei Yang. It's an encoder-decoder transformer pre-trained in a text-to-text denoising
generative setting. LongT5 model is an extension of T5 model, and it enables using one of the two different
efficient attention mechanisms - (1) Local attention, or (2) Transient-Global attention.
This model inherits from [`PreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) subclass.
Use it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage
and behavior.
Parameters:
config ([`LongT5Config`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
LONGT5_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. LongT5 is a model with relative position embeddings so
you should be able to pad the inputs on both the right and the left.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for detail.
[What are input IDs?](../glossary#input-ids)
To know more on how to prepare `input_ids` for pretraining take a look a [LONGT5
Training](./longt5#training).
attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
decoder_input_ids (`torch.LongTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Indices of decoder input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are decoder input IDs?](../glossary#decoder-input-ids)
LONGT5 uses the `pad_token_id` as the starting token for `decoder_input_ids` generation. If
`past_key_values` is used, optionally only the last `decoder_input_ids` have to be input (see
`past_key_values`).
To know more on how to prepare `decoder_input_ids` for pretraining take a look at [LONGT5
Training](./longt5#training).
decoder_attention_mask (`torch.BoolTensor` of shape `(batch_size, target_sequence_length)`, *optional*):
Default behavior: generate a tensor that ignores pad tokens in `decoder_input_ids`. Causal mask will also
be used by default.
head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules in the encoder. Mask values selected in `[0,
1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
decoder_head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules in the decoder. Mask values selected in `[0,
1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
cross_attn_head_mask (`torch.Tensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the cross-attention modules in the decoder. Mask values selected in
`[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
encoder_outputs (`tuple(tuple(torch.FloatTensor)`, *optional*):
Tuple consists of (`last_hidden_state`, `optional`: *hidden_states*, `optional`: *attentions*)
`last_hidden_state` of shape `(batch_size, sequence_length, hidden_size)` is a sequence of hidden states at
the output of the last layer of the encoder. Used in the cross-attention of the decoder.
past_key_values (`tuple(tuple(torch.FloatTensor))` of length `config.n_layers` with each tuple having 4 tensors of shape `(batch_size, num_heads, sequence_length - 1, embed_size_per_head)`):
Contains precomputed key and value hidden states of the attention blocks. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation. This
is useful if you want more control over how to convert `input_ids` indices into associated vectors than the
model's internal embedding lookup matrix.
decoder_inputs_embeds (`torch.FloatTensor` of shape `(batch_size, target_sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `decoder_input_ids` you can choose to directly pass an embedded
representation. If `past_key_values` is used, optionally only the last `decoder_inputs_embeds` have to be
input (see `past_key_values`). This is useful if you want more control over how to convert
`decoder_input_ids` indices into associated vectors than the model's internal embedding lookup matrix.
If `decoder_input_ids` and `decoder_inputs_embeds` are both unset, `decoder_inputs_embeds` takes the value
of `inputs_embeds`.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
LONGT5_ENCODER_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. LongT5 is a model with relative position embeddings so
you should be able to pad the inputs on both the right and the left.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for detail.
To know more on how to prepare `input_ids` for pretraining take a look a [LONGT5
Training](./longt5#training).
attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
inputs_embeds (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation. This
is useful if you want more control over how to convert `input_ids` indices into associated vectors than the
model's internal embedding lookup matrix.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
# Warning message for FutureWarning: head_mask was separated into two input args - head_mask, decoder_head_mask
__HEAD_MASK_WARNING_MSG = """
The input argument `head_mask` was split into two arguments `head_mask` and `decoder_head_mask`. Currently,
`decoder_head_mask` is set to copy `head_mask`, but this feature is deprecated and will be removed in future versions.
If you do not want to use any `decoder_head_mask` now, please set `decoder_head_mask = torch.ones(num_layers,
num_heads)`.
"""
@add_start_docstrings(
"The bare LONGT5 Model transformer outputting raw hidden-states without any specific head on top.",
LONGT5_START_DOCSTRING,
)
class LongT5Model(LongT5PreTrainedModel):
_keys_to_ignore_on_load_unexpected = [
r"decoder.block.0.layer.1.EncDecAttention.relative_attention_bias.weight",
]
_tied_weights_keys = ["encoder.embed_tokens.weight", "decoder.embed_tokens.weight"]
def __init__(self, config: LongT5Config):
super().__init__(config)
self.shared = nn.Embedding(config.vocab_size, config.d_model)
encoder_config = copy.deepcopy(config)
encoder_config.is_decoder = False
encoder_config.use_cache = False
encoder_config.is_encoder_decoder = False
self.encoder = LongT5Stack(encoder_config, self.shared)
decoder_config = copy.deepcopy(config)
decoder_config.is_decoder = True
decoder_config.is_encoder_decoder = False
decoder_config.num_layers = config.num_decoder_layers
self.decoder = LongT5Stack(decoder_config, self.shared)
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.shared
def set_input_embeddings(self, new_embeddings):
self.shared = new_embeddings
self.encoder.set_input_embeddings(new_embeddings)
self.decoder.set_input_embeddings(new_embeddings)
def get_encoder(self):
return self.encoder
def get_decoder(self):
return self.decoder
def _prune_heads(self, heads_to_prune):
"""
Prunes heads of the model. heads_to_prune: dict of {layer_num: list of heads to prune in this layer} See base
class PreTrainedModel
"""
for layer, heads in heads_to_prune.items():
self.encoder.layer[layer].attention.prune_heads(heads)
@add_start_docstrings_to_model_forward(LONGT5_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=Seq2SeqModelOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.FloatTensor] = None,
decoder_input_ids: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.BoolTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
decoder_head_mask: Optional[torch.FloatTensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
past_key_values: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
inputs_embeds: Optional[torch.Tensor] = None,
decoder_inputs_embeds: Optional[torch.Tensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.FloatTensor], Seq2SeqModelOutput]:
r"""
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, LongT5Model
>>> tokenizer = AutoTokenizer.from_pretrained("google/long-t5-local-base")
>>> model = LongT5Model.from_pretrained("google/long-t5-local-base")
>>> # Let's try a very long encoder input.
>>> input_ids = tokenizer(
... 100 * "Studies have been shown that owning a dog is good for you", return_tensors="pt"
... ).input_ids # Batch size 1
>>> decoder_input_ids = tokenizer("Studies show that", return_tensors="pt").input_ids # Batch size 1
>>> # forward pass
>>> outputs = model(input_ids=input_ids, decoder_input_ids=decoder_input_ids)
>>> last_hidden_states = outputs.last_hidden_state
```"""
use_cache = use_cache if use_cache is not None else self.config.use_cache
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# FutureWarning: head_mask was separated into two input args - head_mask, decoder_head_mask
if head_mask is not None and decoder_head_mask is None:
if self.config.num_layers == self.config.num_decoder_layers:
warnings.warn(__HEAD_MASK_WARNING_MSG, FutureWarning)
decoder_head_mask = head_mask
# Encode if needed (training, first prediction pass)
if encoder_outputs is None:
encoder_outputs = self.encoder(
input_ids=input_ids,
attention_mask=attention_mask,
inputs_embeds=inputs_embeds,
head_mask=head_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
elif return_dict and not isinstance(encoder_outputs, BaseModelOutput):
encoder_outputs = BaseModelOutput(
last_hidden_state=encoder_outputs[0],
hidden_states=encoder_outputs[1] if len(encoder_outputs) > 1 else None,
attentions=encoder_outputs[2] if len(encoder_outputs) > 2 else None,
)
hidden_states = encoder_outputs[0]
# Decode
decoder_outputs = self.decoder(
input_ids=decoder_input_ids,
attention_mask=decoder_attention_mask,
inputs_embeds=decoder_inputs_embeds,
past_key_values=past_key_values,
encoder_hidden_states=hidden_states,
encoder_attention_mask=attention_mask,
head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
if not return_dict:
return decoder_outputs + encoder_outputs
return Seq2SeqModelOutput(
last_hidden_state=decoder_outputs.last_hidden_state,
past_key_values=decoder_outputs.past_key_values,
decoder_hidden_states=decoder_outputs.hidden_states,
decoder_attentions=decoder_outputs.attentions,
cross_attentions=decoder_outputs.cross_attentions,
encoder_last_hidden_state=encoder_outputs.last_hidden_state,
encoder_hidden_states=encoder_outputs.hidden_states,
encoder_attentions=encoder_outputs.attentions,
)
@add_start_docstrings("""LONGT5 Model with a `language modeling` head on top.""", LONGT5_START_DOCSTRING)
class LongT5ForConditionalGeneration(LongT5PreTrainedModel):
_keys_to_ignore_on_load_unexpected = [
r"decoder.block.0.layer.1.EncDecAttention.relative_attention_bias.weight",
]
_tied_weights_keys = ["encoder.embed_tokens.weight", "decoder.embed_tokens.weight", "lm_head.weight"]
def __init__(self, config: LongT5Config):
super().__init__(config)
self.model_dim = config.d_model
self.shared = nn.Embedding(config.vocab_size, config.d_model)
encoder_config = copy.deepcopy(config)
encoder_config.is_decoder = False
encoder_config.use_cache = False
encoder_config.is_encoder_decoder = False
self.encoder = LongT5Stack(encoder_config, self.shared)
decoder_config = copy.deepcopy(config)
decoder_config.is_decoder = True
decoder_config.is_encoder_decoder = False
decoder_config.num_layers = config.num_decoder_layers
self.decoder = LongT5Stack(decoder_config, self.shared)
self.lm_head = nn.Linear(config.d_model, config.vocab_size, bias=False)
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.shared
def set_input_embeddings(self, new_embeddings):
self.shared = new_embeddings
self.encoder.set_input_embeddings(new_embeddings)
self.decoder.set_input_embeddings(new_embeddings)
def set_output_embeddings(self, new_embeddings):
self.lm_head = new_embeddings
def get_output_embeddings(self):
return self.lm_head
def get_encoder(self):
return self.encoder
def get_decoder(self):
return self.decoder
@add_start_docstrings_to_model_forward(LONGT5_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=Seq2SeqLMOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.FloatTensor] = None,
decoder_input_ids: Optional[torch.LongTensor] = None,
decoder_attention_mask: Optional[torch.BoolTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
decoder_head_mask: Optional[torch.FloatTensor] = None,
cross_attn_head_mask: Optional[torch.Tensor] = None,
encoder_outputs: Optional[Tuple[Tuple[torch.Tensor]]] = None,
past_key_values: Optional[Tuple[Tuple[torch.Tensor]]] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
decoder_inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.FloatTensor], Seq2SeqLMOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for computing the sequence classification/regression loss. Indices should be in `[-100, 0, ...,
config.vocab_size - 1]`. All labels set to `-100` are ignored (masked), the loss is only computed for
labels in `[0, ..., config.vocab_size]`
Returns:
Examples:
```python
>>> from transformers import AutoTokenizer, LongT5ForConditionalGeneration
>>> tokenizer = AutoTokenizer.from_pretrained("Stancld/longt5-tglobal-large-16384-pubmed-3k_steps")
>>> model = LongT5ForConditionalGeneration.from_pretrained(
... "Stancld/longt5-tglobal-large-16384-pubmed-3k_steps"
... )
>>> # Let's try a very long input.
>>> inputs = tokenizer(100 * "studies have shown that owning a dog is good for you ", return_tensors="pt")
>>> input_ids = inputs.input_ids
>>> outputs = model.generate(input_ids)
>>> print(tokenizer.decode(outputs[0], skip_special_tokens=True))
abstractthe aim of this article is to provide an overview of the literature on the role of dog
```"""
use_cache = use_cache if use_cache is not None else self.config.use_cache
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# FutureWarning: head_mask was separated into two input args - head_mask, decoder_head_mask
if head_mask is not None and decoder_head_mask is None:
if self.config.num_layers == self.config.num_decoder_layers:
warnings.warn(__HEAD_MASK_WARNING_MSG, FutureWarning)
decoder_head_mask = head_mask
# Encode if needed (training, first prediction pass)
if encoder_outputs is None:
# Convert encoder inputs in embeddings if needed
encoder_outputs = self.encoder(
input_ids=input_ids,
attention_mask=attention_mask,
inputs_embeds=inputs_embeds,
head_mask=head_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
elif return_dict and not isinstance(encoder_outputs, BaseModelOutput):
encoder_outputs = BaseModelOutput(
last_hidden_state=encoder_outputs[0],
hidden_states=encoder_outputs[1] if len(encoder_outputs) > 1 else None,
attentions=encoder_outputs[2] if len(encoder_outputs) > 2 else None,
)
hidden_states = encoder_outputs[0]
if labels is not None and decoder_input_ids is None and decoder_inputs_embeds is None:
# get decoder inputs from shifting lm labels to the right
decoder_input_ids = self._shift_right(labels)
# Decode
decoder_outputs = self.decoder(
input_ids=decoder_input_ids,
attention_mask=decoder_attention_mask,
inputs_embeds=decoder_inputs_embeds,
past_key_values=past_key_values,
encoder_hidden_states=hidden_states,
encoder_attention_mask=attention_mask,
head_mask=decoder_head_mask,
cross_attn_head_mask=cross_attn_head_mask,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = decoder_outputs[0]
if self.config.tie_word_embeddings:
# Rescale output before projecting on vocab
# See https://github.com/tensorflow/mesh/blob/fa19d69eafc9a482aff0b59ddd96b025c0cb207d/mesh_tensorflow/transformer/transformer.py#L586
sequence_output = sequence_output * (self.model_dim**-0.5)
lm_logits = self.lm_head(sequence_output)
loss = None
if labels is not None:
loss_fct = CrossEntropyLoss(ignore_index=-100)
labels = labels.to(lm_logits.device)
loss = loss_fct(lm_logits.view(-1, lm_logits.size(-1)), labels.view(-1))
# TODO(thom): Add z_loss https://github.com/tensorflow/mesh/blob/fa19d69eafc9a482aff0b59ddd96b025c0cb207d/mesh_tensorflow/layers.py#L666
if not return_dict:
output = (lm_logits,) + decoder_outputs[1:] + encoder_outputs
return ((loss,) + output) if loss is not None else output
return Seq2SeqLMOutput(
loss=loss,
logits=lm_logits,
past_key_values=decoder_outputs.past_key_values,
decoder_hidden_states=decoder_outputs.hidden_states,
decoder_attentions=decoder_outputs.attentions,
cross_attentions=decoder_outputs.cross_attentions,
encoder_last_hidden_state=encoder_outputs.last_hidden_state,
encoder_hidden_states=encoder_outputs.hidden_states,
encoder_attentions=encoder_outputs.attentions,
)
def prepare_inputs_for_generation(
self,
input_ids,
past_key_values=None,
attention_mask=None,
head_mask=None,
decoder_head_mask=None,
cross_attn_head_mask=None,
use_cache=None,
encoder_outputs=None,
**kwargs,
):
# cut decoder_input_ids if past is used
if past_key_values is not None:
input_ids = input_ids[:, -1:]
return {
"decoder_input_ids": input_ids,
"past_key_values": past_key_values,
"encoder_outputs": encoder_outputs,
"attention_mask": attention_mask,
"head_mask": head_mask,
"decoder_head_mask": decoder_head_mask,
"cross_attn_head_mask": cross_attn_head_mask,
"use_cache": use_cache,
}
def prepare_decoder_input_ids_from_labels(self, labels: torch.Tensor):
return self._shift_right(labels)
def _reorder_cache(self, past_key_values, beam_idx):
# if decoder past is not included in output
# speedy decoding is disabled and no need to reorder
if past_key_values is None:
logger.warning("You might want to consider setting `use_cache=True` to speed up decoding")
return past_key_values
reordered_decoder_past = ()
for layer_past_states in past_key_values:
# get the correct batch idx from layer past batch dim
# batch dim of `past` is at 2nd position
reordered_layer_past_states = ()
for layer_past_state in layer_past_states:
# need to set correct `past` for each of the four key / value states
reordered_layer_past_states = reordered_layer_past_states + (
layer_past_state.index_select(0, beam_idx.to(layer_past_state.device)),
)
assert reordered_layer_past_states[0].shape == layer_past_states[0].shape
assert len(reordered_layer_past_states) == len(layer_past_states)
reordered_decoder_past = reordered_decoder_past + (reordered_layer_past_states,)
return reordered_decoder_past
@add_start_docstrings(
"The bare LONGT5 Model transformer outputting encoder's raw hidden-states without any specific head on top.",
LONGT5_START_DOCSTRING,
)
class LongT5EncoderModel(LongT5PreTrainedModel):
_tied_weights_keys = ["encoder.embed_tokens.weight"]
def __init__(self, config: LongT5Config):
super().__init__(config)
self.shared = nn.Embedding(config.vocab_size, config.d_model)
encoder_config = copy.deepcopy(config)
encoder_config.use_cache = False
encoder_config.is_encoder_decoder = False
self.encoder = LongT5Stack(encoder_config, self.shared)
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.shared
def set_input_embeddings(self, new_embeddings):
self.shared = new_embeddings
self.encoder.set_input_embeddings(new_embeddings)
def get_encoder(self):
return self.encoder
def _prune_heads(self, heads_to_prune):
"""
Prunes heads of the model. heads_to_prune: dict of {layer_num: list of heads to prune in this layer} See base
class PreTrainedModel
"""
for layer, heads in heads_to_prune.items():
self.encoder.layer[layer].attention.prune_heads(heads)
@add_start_docstrings_to_model_forward(LONGT5_ENCODER_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=BaseModelOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.FloatTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.FloatTensor], BaseModelOutput]:
r"""
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, LongT5ForConditionalGeneration
>>> tokenizer = AutoTokenizer.from_pretrained("google/long-t5-local-base")
>>> model = LongT5EncoderModel.from_pretrained("google/long-t5-local-base")
>>> input_ids = tokenizer(
... 100 * "Studies have been shown that owning a dog is good for you ", return_tensors="pt"
... ).input_ids # Batch size 1
>>> outputs = model(input_ids=input_ids)
>>> last_hidden_states = outputs.last_hidden_state
```"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
encoder_outputs = self.encoder(
input_ids=input_ids,
attention_mask=attention_mask,
inputs_embeds=inputs_embeds,
head_mask=head_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
return encoder_outputs
| transformers-main | src/transformers/models/longt5/modeling_longt5.py |
# coding=utf-8
# Copyright 2022 LongT5 Authors and HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" Flax LongT5 model."""
import copy
from typing import Any, Callable, List, Optional, Tuple
import flax.linen as nn
import jax
import jax.numpy as jnp
import numpy as np
from flax.core.frozen_dict import FrozenDict, freeze, unfreeze
from flax.linen import combine_masks, make_causal_mask
from flax.linen import partitioning as nn_partitioning
from flax.linen.attention import dot_product_attention_weights
from flax.traverse_util import flatten_dict, unflatten_dict
from jax.random import PRNGKey
from ...modeling_flax_outputs import (
FlaxBaseModelOutput,
FlaxBaseModelOutputWithPastAndCrossAttentions,
FlaxCausalLMOutputWithCrossAttentions,
FlaxSeq2SeqLMOutput,
FlaxSeq2SeqModelOutput,
)
from ...modeling_flax_utils import (
ACT2FN,
FlaxPreTrainedModel,
append_call_sample_docstring,
append_replace_return_docstrings,
overwrite_call_docstring,
)
from ...utils import add_start_docstrings, add_start_docstrings_to_model_forward, logging, replace_return_docstrings
from .configuration_longt5 import LongT5Config
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "google/long-t5-local-base"
_CONFIG_FOR_DOC = "LongT5Config"
remat = nn_partitioning.remat
# Copied from transformers.models.bart.modeling_flax_bart.shift_tokens_right
def shift_tokens_right(input_ids: jnp.array, pad_token_id: int, decoder_start_token_id: int) -> jnp.ndarray:
"""
Shift input ids one token to the right.
"""
shifted_input_ids = jnp.zeros_like(input_ids)
shifted_input_ids = shifted_input_ids.at[:, 1:].set(input_ids[:, :-1])
shifted_input_ids = shifted_input_ids.at[:, 0].set(decoder_start_token_id)
shifted_input_ids = jnp.where(shifted_input_ids == -100, pad_token_id, shifted_input_ids)
return shifted_input_ids
def _pad_to_multiple(x: jnp.ndarray, block_len: int, axis: int, pad_value: int = 0) -> jnp.ndarray:
"""Pad an array so that a sequence length will be a multiple of `block_len`"""
pad_len = -x.shape[axis] % block_len
pad = [(0, 0)] * x.ndim
pad[axis] = (0, pad_len)
x = jnp.pad(x, pad_width=pad, mode="constant", constant_values=pad_value)
return x
def _split_into_blocks(x: jnp.ndarray, block_len: int, axis: int) -> jnp.ndarray:
"""Split an input array into blocks of a given `block_len` along the given `axis`. If the dimension length
is not a multiple of `block_len`, it will be padded first with selected `pad_value`.
"""
# pad tensor to multiple of block_len
if x.shape[axis] % block_len != 0:
x = _pad_to_multiple(x, block_len, axis, pad_value=0)
num_blocks = x.shape[axis] // block_len
output_shape = x.shape[:axis] + (num_blocks, block_len) + x.shape[(axis + 1) :]
return x.reshape(output_shape)
def _concatenate_3_blocks(x: jnp.ndarray, block_axis: int, sequence_axis: int, pad_value: int = 0) -> jnp.ndarray:
"""Concatenate three consecutive blocks for each input block for local attentiont.
For more information, see: https://arxiv.org/pdf/2112.07916.pdf.
"""
num_blocks = x.shape[block_axis]
pad = [(0, 0)] * x.ndim
pad[block_axis] = (1, 1)
# [batch_size, num_blocks, block_len] -> [batch_size, num_blocks + 2, block_len]
x = jnp.pad(x, pad_width=pad, mode="constant", constant_values=pad_value)
blocks_list: List[np.array] = []
for i in range(3):
# We use indexing approach here:
# https://numpy.org/doc/stable/user/basics.indexing.html#dealing-with-variable-numbers-of-indices-within-programs
indices = [slice(0, None)] * x.ndim
indices[block_axis] = slice(i, i + num_blocks)
indices = tuple(indices)
blocks_list.append(x[indices])
return jnp.concatenate(blocks_list, axis=sequence_axis) # [batch_size, num_blocks, 3 * block_len, ...]
def _make_3block_relative_position_ids(block_len: int) -> jnp.ndarray:
"""Makes 3-blocked relative position ids for local attention."""
position_ids = jnp.arange(3 * block_len, dtype=jnp.int32)
center_position_ids = position_ids[block_len:-block_len]
relative_position_ids = position_ids[None, :] - center_position_ids[:, None] # [block_len, 3 * block_len]
return relative_position_ids
def _mask_local_attention_mask(local_attention_mask: np.ndarray, block_len: int) -> jnp.ndarray:
"""Mask local attention mask to enforce that tokens are not allowed to attend tokens farther than ``local_radius."""
relative_position_ids = _make_3block_relative_position_ids(block_len)
locality_mask = jnp.abs(relative_position_ids) < block_len
locality_mask = locality_mask[None, None, :, :]
return jnp.logical_and(local_attention_mask, locality_mask)
def _get_local_attention_mask(attention_mask: np.ndarray, block_len: int) -> jnp.ndarray:
"""Prepare attention mask to be applied for a local attention."""
# [batch_size, num_blocks, block_len]
_blocked_attention_mask = _split_into_blocks(attention_mask, block_len, axis=1)
# [batch_size, num_block, 3 * block_len]
_3blocked_attention_mask = _concatenate_3_blocks(_blocked_attention_mask, block_axis=1, sequence_axis=2)
_blocked_attention_mask = _blocked_attention_mask[..., None]
_3blocked_attention_mask = _3blocked_attention_mask[..., None, :]
# [batch_size, num_block, block_len, 3 * block_len]
local_attention_mask = jnp.logical_and(_blocked_attention_mask, _3blocked_attention_mask)
local_attention_mask = _mask_local_attention_mask(local_attention_mask, block_len)
# [batch_size, 1, num_block, block_len, 3 * block_len]
return local_attention_mask[:, None, ...]
def _make_global_fixed_block_ids(attention_mask: np.ndarray, global_block_size: int) -> Tuple[jnp.ndarray, np.ndarray]:
"""Obtain the "fixed block" global id corresponding to each input token.
This implementation is a simlified version of the original Flaxformr implementation adopted from:
https://github.com/google/flaxformer/blob/main/flaxformer/architectures/longt5/long_attention.py.
In our scenario, as we use this strategy only for a decoder, orphan tokens, i.e. those tokens which do not make for
the whole fixed block, are assigned to the preceding block.
Padding tokens from the original sequence are represented by -1.
"""
batch_size, seq_len = attention_mask.shape[:2]
def handle_orphan_tokens(block_ids: np.ndarray) -> jnp.ndarray:
block_ends = (jnp.arange(seq_len) % global_block_size) == global_block_size - 1
true_block_ends = jnp.logical_and(block_ends, block_ids >= 0)
full_blocks = true_block_ends.sum(-1)[..., None]
block_ids = jnp.minimum(block_ids, full_blocks - 1)
return block_ids
fixed_block_mask = jnp.ones_like(attention_mask) / global_block_size
fixed_block_mask = jnp.cumsum(fixed_block_mask, axis=1) - fixed_block_mask
mask = jnp.where(attention_mask != 0.0, 1.0, -1000.0)
global_block_ids = jnp.maximum(
jnp.floor(mask + fixed_block_mask - 1.0), jnp.array(-1.0, dtype=attention_mask.dtype)
)
# set padding tokens to -1
global_block_ids = (global_block_ids * attention_mask) + (attention_mask - 1)
# [batch_size, seq_len]
global_block_ids = handle_orphan_tokens(global_block_ids)
num_globals = seq_len // global_block_size
# [batch_size, seq_len // global_block_size]
if num_globals > 0:
_sequence_block_ids_max = jnp.repeat(global_block_ids.max(axis=-1)[:, None], repeats=num_globals, axis=1)
else:
_sequence_block_ids_max = jnp.zeros((batch_size, 0), dtype=global_block_ids.dtype)
global_segment_ids = jnp.cumsum(jnp.ones((batch_size, num_globals)), axis=-1) - 1
global_segment_ids = jnp.where(global_segment_ids <= _sequence_block_ids_max, 1, 0)
return global_block_ids, global_segment_ids
def _make_side_relative_position_ids(attention_mask: np.ndarray, global_block_size: int) -> np.ndarray:
"""Create the relative position tensor for local -> global attention."""
block_ids, global_segment_ids = _make_global_fixed_block_ids(attention_mask, global_block_size)
global_seq_len = global_segment_ids.shape[-1]
global_positions = jnp.arange(global_seq_len)
side_relative_position = global_positions - block_ids[..., None]
return side_relative_position
def _create_global_aggregates(hidden_states: np.ndarray, block_ids: np.ndarray, global_seq_len: int) -> np.ndarray:
"""Compute individual block aggregates by summing over individual blocks."""
# (batch..., seq_len, global_seq_len))
one_hot_block_ids = jax.nn.one_hot(block_ids, global_seq_len)
return jnp.einsum("...nd,...ng->...gd", hidden_states, one_hot_block_ids)
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5LayerNorm with T5->LongT5
class FlaxLongT5LayerNorm(nn.Module):
hidden_size: int
dtype: jnp.dtype = jnp.float32
eps: float = 1e-6
weight_init: Callable[..., np.ndarray] = jax.nn.initializers.ones
def setup(self):
self.weight = self.param("weight", self.weight_init, (self.hidden_size,))
def __call__(self, hidden_states):
"""
Construct a layernorm module in the LongT5 style; No bias and no subtraction of mean.
"""
# layer norm should always be calculated in float32
variance = jnp.power(hidden_states.astype("f4"), 2).mean(axis=-1, keepdims=True)
hidden_states = hidden_states / jnp.sqrt(variance + self.eps)
return self.weight * hidden_states
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5DenseActDense with T5->LongT5
class FlaxLongT5DenseActDense(nn.Module):
config: LongT5Config
dtype: jnp.dtype = jnp.float32
def setup(self):
wi_init_std = self.config.initializer_factor * (self.config.d_model**-0.5)
wo_init_std = self.config.initializer_factor * (self.config.d_ff**-0.5)
self.wi = nn.Dense(
self.config.d_ff,
use_bias=False,
kernel_init=jax.nn.initializers.normal(wi_init_std),
dtype=self.dtype,
)
self.wo = nn.Dense(
self.config.d_model,
use_bias=False,
kernel_init=jax.nn.initializers.normal(wo_init_std),
dtype=self.dtype,
)
self.dropout = nn.Dropout(self.config.dropout_rate)
self.act = ACT2FN[self.config.dense_act_fn]
def __call__(self, hidden_states, deterministic=True):
hidden_states = self.wi(hidden_states)
hidden_states = self.act(hidden_states)
hidden_states = self.dropout(hidden_states, deterministic=deterministic)
hidden_states = self.wo(hidden_states)
return hidden_states
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5DenseGatedActDense with T5->LongT5
class FlaxLongT5DenseGatedActDense(nn.Module):
config: LongT5Config
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
wi_init_std = self.config.initializer_factor * (self.config.d_model**-0.5)
wo_init_std = self.config.initializer_factor * (self.config.d_ff**-0.5)
self.wi_0 = nn.Dense(
self.config.d_ff,
use_bias=False,
kernel_init=jax.nn.initializers.normal(wi_init_std),
dtype=self.dtype,
)
self.wi_1 = nn.Dense(
self.config.d_ff,
use_bias=False,
kernel_init=jax.nn.initializers.normal(wi_init_std),
dtype=self.dtype,
)
self.wo = nn.Dense(
self.config.d_model,
use_bias=False,
kernel_init=jax.nn.initializers.normal(wo_init_std),
dtype=self.dtype,
)
self.dropout = nn.Dropout(self.config.dropout_rate)
self.act = ACT2FN[self.config.dense_act_fn]
def __call__(self, hidden_states, deterministic):
hidden_gelu = self.act(self.wi_0(hidden_states))
hidden_linear = self.wi_1(hidden_states)
hidden_states = hidden_gelu * hidden_linear
hidden_states = self.dropout(hidden_states, deterministic=deterministic)
hidden_states = self.wo(hidden_states)
return hidden_states
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5LayerFF with T5->LongT5
class FlaxLongT5LayerFF(nn.Module):
config: LongT5Config
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
if self.config.is_gated_act:
self.DenseReluDense = FlaxLongT5DenseGatedActDense(self.config, dtype=self.dtype)
else:
self.DenseReluDense = FlaxLongT5DenseActDense(self.config, dtype=self.dtype)
self.layer_norm = FlaxLongT5LayerNorm(
self.config.d_model, eps=self.config.layer_norm_epsilon, dtype=self.dtype
)
self.dropout = nn.Dropout(self.config.dropout_rate)
def __call__(self, hidden_states, deterministic=True):
forwarded_states = self.layer_norm(hidden_states)
forwarded_states = self.DenseReluDense(forwarded_states, deterministic=deterministic)
hidden_states = hidden_states + self.dropout(forwarded_states, deterministic=deterministic)
return hidden_states
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5Attention with T5->LongT5
class FlaxLongT5Attention(nn.Module):
config: LongT5Config
has_relative_attention_bias: bool = False
causal: bool = False
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.relative_attention_num_buckets = self.config.relative_attention_num_buckets
self.relative_attention_max_distance = self.config.relative_attention_max_distance
self.d_model = self.config.d_model
self.key_value_proj_dim = self.config.d_kv
self.n_heads = self.config.num_heads
self.dropout = self.config.dropout_rate
self.inner_dim = self.n_heads * self.key_value_proj_dim
q_init_std = self.config.initializer_factor * ((self.inner_dim * self.key_value_proj_dim) ** -0.5)
kv_init_std = self.config.initializer_factor * (self.inner_dim**-0.5)
o_init_std = self.config.initializer_factor * (self.inner_dim**-0.5)
self.q = nn.Dense(
self.inner_dim,
use_bias=False,
kernel_init=jax.nn.initializers.normal(q_init_std),
dtype=self.dtype,
)
self.k = nn.Dense(
self.inner_dim,
use_bias=False,
kernel_init=jax.nn.initializers.normal(kv_init_std),
dtype=self.dtype,
)
self.v = nn.Dense(
self.inner_dim,
use_bias=False,
kernel_init=jax.nn.initializers.normal(kv_init_std),
dtype=self.dtype,
)
self.o = nn.Dense(
self.d_model,
use_bias=False,
kernel_init=jax.nn.initializers.normal(o_init_std),
dtype=self.dtype,
)
if self.has_relative_attention_bias:
self.relative_attention_bias = nn.Embed(
self.relative_attention_num_buckets,
self.n_heads,
embedding_init=jax.nn.initializers.normal(kv_init_std),
dtype=self.dtype,
)
@staticmethod
def _relative_position_bucket(relative_position, bidirectional=True, num_buckets=32, max_distance=128):
"""
Adapted from Mesh Tensorflow:
https://github.com/tensorflow/mesh/blob/0cb87fe07da627bf0b7e60475d59f95ed6b5be3d/mesh_tensorflow/transformer/transformer_layers.py#L593
Translate relative position to a bucket number for relative attention. The relative position is defined as
memory_position - query_position, i.e. the distance in tokens from the attending position to the attended-to
position. If bidirectional=False, then positive relative positions are invalid. We use smaller buckets for
small absolute relative_position and larger buckets for larger absolute relative_positions. All relative
positions >=max_distance map to the same bucket. All relative positions <=-max_distance map to the same bucket.
This should allow for more graceful generalization to longer sequences than the model has been trained on
"""
relative_buckets = 0
if bidirectional:
num_buckets //= 2
relative_buckets += (relative_position > 0) * num_buckets
relative_position = jnp.abs(relative_position)
else:
relative_position = -jnp.clip(relative_position, a_max=0)
# now relative_position is in the range [0, inf)
# half of the buckets are for exact increments in positions
max_exact = num_buckets // 2
is_small = relative_position < max_exact
# The other half of the buckets are for logarithmically bigger bins in positions up to max_distance
relative_position_if_large = max_exact + (
jnp.log(relative_position / max_exact) / jnp.log(max_distance / max_exact) * (num_buckets - max_exact)
)
relative_position_if_large = jnp.clip(relative_position_if_large, a_max=num_buckets - 1)
relative_buckets += jnp.where(is_small, relative_position, relative_position_if_large)
return relative_buckets.astype("i4")
def compute_bias(self, query_length, key_length):
"""Compute binned relative position bias"""
context_position = jnp.arange(query_length, dtype="i4")[:, None]
memory_position = jnp.arange(key_length, dtype="i4")[None, :]
relative_position = memory_position - context_position
relative_position_bucket = self._relative_position_bucket(
relative_position,
bidirectional=(not self.causal),
num_buckets=self.relative_attention_num_buckets,
max_distance=self.relative_attention_max_distance,
)
values = self.relative_attention_bias(relative_position_bucket)
values = values.transpose((2, 0, 1))[None, :, :, :]
return values
def _split_heads(self, hidden_states):
return hidden_states.reshape(hidden_states.shape[:2] + (self.n_heads, self.key_value_proj_dim))
def _merge_heads(self, hidden_states):
return hidden_states.reshape(hidden_states.shape[:2] + (self.inner_dim,))
@nn.compact
def _concatenate_to_cache(self, key, value, query, attention_mask):
"""
This function takes projected key, value states from a single input token and concatenates the states to cached
states from previous steps. This function is slighly adapted from the official Flax repository:
https://github.com/google/flax/blob/491ce18759622506588784b4fca0e4bf05f8c8cd/flax/linen/attention.py#L252
"""
# detect if we're initializing by absence of existing cache data.
is_initialized = self.has_variable("cache", "cached_key")
cached_key = self.variable("cache", "cached_key", jnp.zeros, key.shape, key.dtype)
cached_value = self.variable("cache", "cached_value", jnp.zeros, value.shape, value.dtype)
cache_index = self.variable("cache", "cache_index", lambda: jnp.array(0, dtype=jnp.int32))
if is_initialized:
*batch_dims, max_length, num_heads, depth_per_head = cached_key.value.shape
# update key, value caches with our new 1d spatial slices
cur_index = cache_index.value
indices = (0,) * len(batch_dims) + (cur_index, 0, 0)
key = jax.lax.dynamic_update_slice(cached_key.value, key, indices)
value = jax.lax.dynamic_update_slice(cached_value.value, value, indices)
cached_key.value = key
cached_value.value = value
num_updated_cache_vectors = query.shape[1]
cache_index.value = cache_index.value + num_updated_cache_vectors
# causal mask for cached decoder self-attention: our single query position should only attend to those key positions
# that have already been generated and cached, not the remaining zero elements.
pad_mask = jnp.broadcast_to(
jnp.arange(max_length) < cur_index + num_updated_cache_vectors,
tuple(batch_dims) + (1, num_updated_cache_vectors, max_length),
)
attention_mask = combine_masks(pad_mask, attention_mask)
return key, value, attention_mask
def _create_position_bias(
self, key_states, query_states, attention_mask, init_cache, seq_length, causal_attention_mask_shift
):
cache_is_filled = self.causal and self.has_variable("cache", "cached_key") and (not init_cache)
key_length = key_states.shape[1]
query_length = key_length if cache_is_filled else query_states.shape[1]
if self.has_relative_attention_bias:
position_bias = self.compute_bias(query_length, key_length)
elif attention_mask is not None:
position_bias = jnp.zeros_like(attention_mask)
else:
position_bias = jnp.zeros((1, self.n_heads, query_length, key_length), dtype=self.dtype)
# if key and values are already calculated, only the last query position bias should be taken
if cache_is_filled:
max_decoder_length = self.variables["cache"]["cached_key"].shape[1]
position_bias = jax.lax.dynamic_slice(
position_bias,
(0, 0, causal_attention_mask_shift, 0),
(1, self.n_heads, seq_length, max_decoder_length),
)
return position_bias
def __call__(
self,
hidden_states,
attention_mask=None,
key_value_states=None,
position_bias=None,
use_cache=False,
output_attentions=False,
deterministic=True,
init_cache=False,
):
"""
Self-attention (if key_value_states is None) or attention over source sentence (provided by key_value_states).
"""
batch_size, seq_length = hidden_states.shape[:2]
# q, k, v projections
query_states = self.q(hidden_states) # (batch_size, n_heads, seq_length, dim_per_head)
key_states = self.k(hidden_states) if key_value_states is None else self.k(key_value_states)
value_states = self.v(hidden_states) if key_value_states is None else self.v(key_value_states)
# reshape to (batch_size, seq_length, n_heads, head_dim)
query_states = self._split_heads(query_states)
key_states = self._split_heads(key_states)
value_states = self._split_heads(value_states)
# counter-act scaling in dot_product_attention_weights function
query_states *= jnp.sqrt(query_states.shape[-1])
# for fast decoding causal attention mask should be shifted
causal_attention_mask_shift = (
self.variables["cache"]["cache_index"] if (self.has_variable("cache", "cached_key") and self.causal) else 0
)
# create causal attention_mask; attention_mask has to be defined when model is causal
if self.causal:
causal_attention_mask = make_causal_mask(attention_mask, dtype="bool")
# fast decoding for generate requires special attention_mask
if self.has_variable("cache", "cached_key"):
max_decoder_length = self.variables["cache"]["cached_key"].shape[1]
causal_attention_mask = jax.lax.dynamic_slice(
causal_attention_mask,
(0, 0, causal_attention_mask_shift, 0),
(1, 1, seq_length, max_decoder_length),
)
# broadcast causal attention mask & attention mask to fit for merge
causal_attention_mask = jnp.broadcast_to(
causal_attention_mask, (batch_size,) + causal_attention_mask.shape[1:]
)
attention_mask = jnp.broadcast_to(
jnp.expand_dims(attention_mask, axis=(-3, -2)), causal_attention_mask.shape
)
attention_mask = combine_masks(attention_mask, causal_attention_mask)
elif attention_mask is not None:
attention_mask = jnp.expand_dims(attention_mask, axis=(-3, -2))
# During fast autoregressive decoding, we feed one position at a time,
# and cache the keys and values step by step.
if self.causal and (self.has_variable("cache", "cached_key") or init_cache):
key_states, value_states, attention_attention_mask = self._concatenate_to_cache(
key_states, value_states, query_states, attention_mask
)
# replace masked positions with -10_000
if attention_mask is not None:
mask_value = jnp.finfo(self.dtype).min
attention_mask = jax.lax.select(
attention_mask > 0,
jnp.full(attention_mask.shape, 0.0).astype(self.dtype),
jnp.full(attention_mask.shape, mask_value).astype(self.dtype),
)
if position_bias is None:
# compute position bias (only for first layer)
position_bias = self._create_position_bias(
key_states, query_states, attention_mask, init_cache, seq_length, causal_attention_mask_shift
)
if attention_mask is not None:
position_bias = position_bias + attention_mask
# create dropout rng
dropout_rng = None
if not deterministic and self.dropout > 0.0:
dropout_rng = self.make_rng("dropout")
# Softmax(QK^T)
attn_weights = dot_product_attention_weights(
query_states,
key_states,
bias=position_bias,
dropout_rng=dropout_rng,
dropout_rate=self.dropout,
broadcast_dropout=True,
deterministic=deterministic,
dtype=self.dtype,
)
# multiply with value states
attn_output = jnp.einsum("...hqk,...khd->...qhd", attn_weights, value_states)
# bring back to (batch_size, seq_length, d_model)
attn_output = self._merge_heads(attn_output)
# apply output matrix
attn_output = self.o(attn_output)
outputs = (attn_output, position_bias)
if output_attentions:
outputs = outputs + (attn_weights,)
return outputs
class FlaxLongT5LocalAttention(nn.Module):
config: LongT5Config
has_relative_attention_bias: bool = False
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.relative_attention_num_buckets = self.config.relative_attention_num_buckets
self.relative_attention_max_distance = self.config.relative_attention_max_distance
self.d_model = self.config.d_model
self.key_value_proj_dim = self.config.d_kv
self.n_heads = self.config.num_heads
self.local_radius = self.config.local_radius
self.block_len = self.local_radius + 1
self.dropout = self.config.dropout_rate
self.inner_dim = self.n_heads * self.key_value_proj_dim
q_init_std = self.config.initializer_factor * ((self.inner_dim * self.key_value_proj_dim) ** -0.5)
kv_init_std = self.config.initializer_factor * (self.inner_dim**-0.5)
o_init_std = self.config.initializer_factor * (self.inner_dim**-0.5)
self.q = nn.Dense(
self.inner_dim,
use_bias=False,
kernel_init=jax.nn.initializers.normal(q_init_std),
dtype=self.dtype,
)
self.k = nn.Dense(
self.inner_dim,
use_bias=False,
kernel_init=jax.nn.initializers.normal(kv_init_std),
dtype=self.dtype,
)
self.v = nn.Dense(
self.inner_dim,
use_bias=False,
kernel_init=jax.nn.initializers.normal(kv_init_std),
dtype=self.dtype,
)
self.o = nn.Dense(
self.d_model,
use_bias=False,
kernel_init=jax.nn.initializers.normal(o_init_std),
dtype=self.dtype,
)
if self.has_relative_attention_bias:
self.relative_attention_bias = nn.Embed(
self.relative_attention_num_buckets,
self.n_heads,
embedding_init=jax.nn.initializers.normal(kv_init_std),
)
@staticmethod
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5Attention._relative_position_bucket
def _relative_position_bucket(relative_position, bidirectional=True, num_buckets=32, max_distance=128):
"""
Adapted from Mesh Tensorflow:
https://github.com/tensorflow/mesh/blob/0cb87fe07da627bf0b7e60475d59f95ed6b5be3d/mesh_tensorflow/transformer/transformer_layers.py#L593
Translate relative position to a bucket number for relative attention. The relative position is defined as
memory_position - query_position, i.e. the distance in tokens from the attending position to the attended-to
position. If bidirectional=False, then positive relative positions are invalid. We use smaller buckets for
small absolute relative_position and larger buckets for larger absolute relative_positions. All relative
positions >=max_distance map to the same bucket. All relative positions <=-max_distance map to the same bucket.
This should allow for more graceful generalization to longer sequences than the model has been trained on
"""
relative_buckets = 0
if bidirectional:
num_buckets //= 2
relative_buckets += (relative_position > 0) * num_buckets
relative_position = jnp.abs(relative_position)
else:
relative_position = -jnp.clip(relative_position, a_max=0)
# now relative_position is in the range [0, inf)
# half of the buckets are for exact increments in positions
max_exact = num_buckets // 2
is_small = relative_position < max_exact
# The other half of the buckets are for logarithmically bigger bins in positions up to max_distance
relative_position_if_large = max_exact + (
jnp.log(relative_position / max_exact) / jnp.log(max_distance / max_exact) * (num_buckets - max_exact)
)
relative_position_if_large = jnp.clip(relative_position_if_large, a_max=num_buckets - 1)
relative_buckets += jnp.where(is_small, relative_position, relative_position_if_large)
return relative_buckets.astype("i4")
def compute_bias(self, block_length: int):
"""Compute binned relative position bias"""
memory_position = jnp.arange(3 * block_length, dtype="i4")
context_position = memory_position[block_length:-block_length]
relative_position = memory_position[None, :] - context_position[:, None]
relative_position_bucket = self._relative_position_bucket(
relative_position,
bidirectional=True,
num_buckets=self.relative_attention_num_buckets,
max_distance=self.relative_attention_max_distance,
)
values = self.relative_attention_bias(relative_position_bucket)
values = values.transpose((2, 0, 1))[None, None, :, :, :]
return values
def _split_heads(self, hidden_states):
return hidden_states.reshape(hidden_states.shape[:2] + (self.n_heads, self.key_value_proj_dim))
def _merge_heads(self, hidden_states):
return hidden_states.reshape(hidden_states.shape[0], -1, self.inner_dim)
def _create_position_bias(self, block_len: int, attention_mask: Optional[np.ndarray]) -> np.ndarray:
# position_bias shape: # (1, 1, n_heads, block_len, 3 * block_len)
if self.has_relative_attention_bias:
position_bias = self.compute_bias(block_len)
elif attention_mask is not None:
position_bias = jnp.zeros_like(attention_mask)
else:
position_bias = jnp.zeros((1, 1, self.n_heads, block_len, 3 * block_len), dtype=self.dtype)
return position_bias
def __call__(
self,
hidden_states,
attention_mask=None,
key_value_states=None,
position_bias=None,
output_attentions=False,
deterministic=True,
):
"""
Self-attention (if key_value_states is None) or attention over source sentence (provided by key_value_states).
"""
batch_size, seq_length = hidden_states.shape[:2]
# q, k, v projections
query_states = self.q(hidden_states) # (batch_size, n_heads, seq_length, dim_per_head)
key_states = self.k(hidden_states) if key_value_states is None else self.k(key_value_states)
value_states = self.v(hidden_states) if key_value_states is None else self.v(key_value_states)
# reshape to (batch_size, seq_length, n_heads, head_dim)
query_states = self._split_heads(query_states)
key_states = self._split_heads(key_states)
value_states = self._split_heads(value_states)
# Split into blocks -> (batch_size, num_blocks, block_len, n_heads, head_dim)
query_states = _split_into_blocks(query_states, self.block_len, axis=1)
key_states = _split_into_blocks(key_states, self.block_len, axis=1)
value_states = _split_into_blocks(value_states, self.block_len, axis=1)
# Concatenate 3 blocks for keys and values -> (batch_size, num_blocks, 3 * block_len, n_heads, dim_per_head)
key_states = _concatenate_3_blocks(key_states, block_axis=1, sequence_axis=2)
value_states = _concatenate_3_blocks(value_states, block_axis=1, sequence_axis=2)
# counter-act scaling in dot_product_attention_weights function
query_states *= jnp.sqrt(query_states.shape[-1])
if attention_mask is not None:
attention_mask = _get_local_attention_mask(attention_mask, self.block_len)
# replace masked positions with -10_000
attention_mask = jax.lax.select(
attention_mask > 0,
jnp.full(attention_mask.shape, 0.0).astype(self.dtype),
jnp.full(attention_mask.shape, -1e10).astype(self.dtype),
)
if position_bias is None:
# compute position bias (only for first layer)
position_bias = self._create_position_bias(self.block_len, attention_mask)
if attention_mask is not None:
position_bias = position_bias + attention_mask.swapaxes(1, 2)
# create dropout rng
dropout_rng = None
if not deterministic and self.dropout > 0.0:
dropout_rng = self.make_rng("dropout")
# Softmax(QK^T)
attn_weights = dot_product_attention_weights(
query_states,
key_states,
bias=position_bias,
dropout_rng=dropout_rng,
dropout_rate=self.dropout,
broadcast_dropout=True,
deterministic=deterministic,
dtype=self.dtype,
)
# multiply with value states
attn_output = jnp.einsum("...hqk,...khd->...qhd", attn_weights, value_states)
# bring back to (batch_size, seq_length, d_model)
attn_output = self._merge_heads(attn_output)
attn_output = attn_output[:, :seq_length, :]
# apply output matrix
attn_output = self.o(attn_output)
outputs = (attn_output, position_bias)
if output_attentions:
outputs = outputs + (attn_weights,)
return outputs
class FlaxLongT5TransientGlobalAttention(nn.Module):
config: LongT5Config
has_relative_attention_bias: bool = False
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.relative_attention_num_buckets = self.config.relative_attention_num_buckets
self.relative_attention_max_distance = self.config.relative_attention_max_distance
self.d_model = self.config.d_model
self.key_value_proj_dim = self.config.d_kv
self.n_heads = self.config.num_heads
self.local_radius = self.config.local_radius
self.block_len = self.local_radius + 1
self.global_block_size = self.config.global_block_size
self.dropout = self.config.dropout_rate
self.inner_dim = self.n_heads * self.key_value_proj_dim
q_init_std = self.config.initializer_factor * ((self.inner_dim * self.key_value_proj_dim) ** -0.5)
kv_init_std = self.config.initializer_factor * (self.inner_dim**-0.5)
o_init_std = self.config.initializer_factor * (self.inner_dim**-0.5)
self.q = nn.Dense(
self.inner_dim,
use_bias=False,
kernel_init=jax.nn.initializers.normal(q_init_std),
dtype=self.dtype,
)
self.k = nn.Dense(
self.inner_dim,
use_bias=False,
kernel_init=jax.nn.initializers.normal(kv_init_std),
dtype=self.dtype,
)
self.v = nn.Dense(
self.inner_dim,
use_bias=False,
kernel_init=jax.nn.initializers.normal(kv_init_std),
dtype=self.dtype,
)
self.o = nn.Dense(
self.d_model,
use_bias=False,
kernel_init=jax.nn.initializers.normal(o_init_std),
dtype=self.dtype,
)
if self.has_relative_attention_bias:
self.relative_attention_bias = nn.Embed(
self.relative_attention_num_buckets,
self.n_heads,
embedding_init=jax.nn.initializers.normal(kv_init_std),
)
# Relativen attention bias & Layer norm for global attention
if self.has_relative_attention_bias:
self.global_relative_attention_bias = nn.Embed(
self.relative_attention_num_buckets,
self.n_heads,
embedding_init=jax.nn.initializers.normal(kv_init_std),
)
self.global_input_layer_norm = FlaxLongT5LayerNorm(
self.config.d_model, eps=self.config.layer_norm_epsilon, dtype=self.dtype
)
@staticmethod
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5Attention._relative_position_bucket
def _relative_position_bucket(relative_position, bidirectional=True, num_buckets=32, max_distance=128):
"""
Adapted from Mesh Tensorflow:
https://github.com/tensorflow/mesh/blob/0cb87fe07da627bf0b7e60475d59f95ed6b5be3d/mesh_tensorflow/transformer/transformer_layers.py#L593
Translate relative position to a bucket number for relative attention. The relative position is defined as
memory_position - query_position, i.e. the distance in tokens from the attending position to the attended-to
position. If bidirectional=False, then positive relative positions are invalid. We use smaller buckets for
small absolute relative_position and larger buckets for larger absolute relative_positions. All relative
positions >=max_distance map to the same bucket. All relative positions <=-max_distance map to the same bucket.
This should allow for more graceful generalization to longer sequences than the model has been trained on
"""
relative_buckets = 0
if bidirectional:
num_buckets //= 2
relative_buckets += (relative_position > 0) * num_buckets
relative_position = jnp.abs(relative_position)
else:
relative_position = -jnp.clip(relative_position, a_max=0)
# now relative_position is in the range [0, inf)
# half of the buckets are for exact increments in positions
max_exact = num_buckets // 2
is_small = relative_position < max_exact
# The other half of the buckets are for logarithmically bigger bins in positions up to max_distance
relative_position_if_large = max_exact + (
jnp.log(relative_position / max_exact) / jnp.log(max_distance / max_exact) * (num_buckets - max_exact)
)
relative_position_if_large = jnp.clip(relative_position_if_large, a_max=num_buckets - 1)
relative_buckets += jnp.where(is_small, relative_position, relative_position_if_large)
return relative_buckets.astype("i4")
def compute_bias(self, block_length: int):
"""Compute binned relative position bias"""
memory_position = jnp.arange(3 * block_length, dtype="i4")
context_position = memory_position[block_length:-block_length]
relative_position = memory_position[None, :] - context_position[:, None]
relative_position_bucket = self._relative_position_bucket(
relative_position,
bidirectional=True,
num_buckets=self.relative_attention_num_buckets,
max_distance=self.relative_attention_max_distance,
)
values = self.relative_attention_bias(relative_position_bucket)
values = values.transpose((2, 0, 1))[None, None, :, :, :]
return values
def compute_side_bias(self, attention_mask: np.ndarray, global_segment_ids: np.ndarray) -> np.ndarray:
# (batch_size, 1, 1, seq_len, global_seq_len)
side_attention_mask = jnp.equal(attention_mask[..., None], global_segment_ids[:, None, :])[:, None, ...]
attention_side_bias = jax.lax.select(
side_attention_mask > 0,
jnp.full(side_attention_mask.shape, 0.0).astype(self.dtype),
jnp.full(side_attention_mask.shape, -1e10).astype(self.dtype),
)
# (batch_size, seq_len, global_seq_len)
side_relative_position = _make_side_relative_position_ids(attention_mask, self.global_block_size)
side_relative_position_bucket = self._relative_position_bucket(
side_relative_position,
bidirectional=True,
num_buckets=self.relative_attention_num_buckets,
max_distance=self.relative_attention_max_distance,
)
# (batch_size, seq_len, global_seq_len, num_heads)
side_bias = self.global_relative_attention_bias(side_relative_position_bucket)
# (batch_size, 1, num_heads, seq_len, global_seq_len)
side_bias = jnp.transpose(side_bias, (0, 3, 1, 2))
# (batch_size, num_heads, seq_len, global_seq_len)
attention_side_bias = attention_side_bias + side_bias
return attention_side_bias
def _split_heads(self, hidden_states):
return hidden_states.reshape(hidden_states.shape[:2] + (self.n_heads, self.key_value_proj_dim))
def _merge_heads(self, hidden_states):
return hidden_states.reshape(hidden_states.shape[0], -1, self.inner_dim)
def _create_position_bias(self, block_len: int, attention_mask: Optional[np.ndarray]) -> np.ndarray:
# position_bias shape: # (1, 1, n_heads, block_len, 3 * block_len)
if self.has_relative_attention_bias:
position_bias = self.compute_bias(block_len)
elif attention_mask is not None:
position_bias = jnp.zeros_like(attention_mask)
else:
position_bias = jnp.zeros((1, 1, self.n_heads, block_len, 3 * block_len), dtype=self.dtype)
return position_bias
def __call__(
self,
hidden_states,
attention_mask=None,
key_value_states=None,
position_bias=None,
output_attentions=False,
deterministic=True,
):
"""
Self-attention (if key_value_states is None) or attention over source sentence (provided by key_value_states).
"""
batch_size, seq_length = hidden_states.shape[:2]
# Prepare components for transient-global attention
# Obtain block_ids and global_segment_ids
# global_seq_len := seq_len // self.global_block_size
# shapes: (batch_size, seq_len) & (batch_size, global_seq_len)
block_ids, global_segment_ids = _make_global_fixed_block_ids(
attention_mask if attention_mask is not None else jnp.ones((batch_size, seq_length)),
self.global_block_size,
)
# Create global inputs
_global_seq_len = global_segment_ids.shape[-1]
global_inputs = _create_global_aggregates(hidden_states, block_ids, _global_seq_len)
global_inputs = self.global_input_layer_norm(global_inputs)
# q, k, v projections
query_states = self.q(hidden_states) # (batch_size, n_heads, seq_length, dim_per_head)
key_states = self.k(hidden_states) if key_value_states is None else self.k(key_value_states)
value_states = self.v(hidden_states) if key_value_states is None else self.v(key_value_states)
# reshape to (batch_size, seq_length, n_heads, head_dim)
query_states = self._split_heads(query_states)
key_states = self._split_heads(key_states)
value_states = self._split_heads(value_states)
# Get global/side key/value_states
side_key_states = self.k(global_inputs)
side_value_states = self.v(global_inputs)
# reshape to (batch_size, global_seq_len, n_heads, head_dim)
side_key_states = self._split_heads(side_key_states)
side_value_states = self._split_heads(side_value_states)
# Split into blocks -> (batch_size, num_blocks, block_len, n_heads, head_dim)
query_states = _split_into_blocks(query_states, self.block_len, axis=1)
key_states = _split_into_blocks(key_states, self.block_len, axis=1)
value_states = _split_into_blocks(value_states, self.block_len, axis=1)
# Concatenate 3 blocks for keys and values -> (batch_size, num_blocks, 3 * block_len, n_heads, dim_per_head)
key_states = _concatenate_3_blocks(key_states, block_axis=1, sequence_axis=2)
value_states = _concatenate_3_blocks(value_states, block_axis=1, sequence_axis=2)
# Tile side inputs across local key/value blocks
# New shape: (batch_size, num_blocks, global_seq_len, n_heads, dim_per_head)
reps = [1] * (side_key_states.ndim + 1)
reps[1] = key_states.shape[1]
side_key_states = jnp.tile(side_key_states[:, None, ...], reps)
side_value_states = jnp.tile(side_value_states[:, None, ...], reps)
# Concatenate "local" and "side"/"global" key/value states to allow each token to attend global aggregated ones
# New shape: (batch_size, num_blocks, 3 * block_len + global_seq_len, n_heads, dim_per_head)
key_states = jnp.concatenate((key_states, side_key_states), axis=2)
value_states = jnp.concatenate((value_states, side_value_states), axis=2)
# counter-act scaling in dot_product_attention_weights function
query_states *= jnp.sqrt(query_states.shape[-1])
if attention_mask is not None:
local_attention_mask = _get_local_attention_mask(attention_mask, self.block_len)
local_attention_mask = jax.lax.select(
local_attention_mask > 0,
jnp.full(local_attention_mask.shape, 0.0).astype(self.dtype),
jnp.full(local_attention_mask.shape, -1e10).astype(self.dtype),
)
else:
local_attention_mask = None
if position_bias is None:
# compute position bias (only for first layer)
position_bias = self._create_position_bias(self.block_len, attention_mask)
if local_attention_mask is not None:
position_bias = position_bias + local_attention_mask.swapaxes(1, 2)
# Calculate global/side bias - shape: # (batch_size, num_heads, seq_len, global_seq_len)
if attention_mask is None:
attention_mask = jnp.ones((batch_size, seq_length))
side_position_bias = self.compute_side_bias(attention_mask, global_segment_ids)
side_position_bias = _split_into_blocks(side_position_bias, self.block_len, axis=-2)
side_position_bias = jnp.swapaxes(side_position_bias, 1, 2)
position_bias = jnp.concatenate((position_bias, side_position_bias), axis=-1)
# create dropout rng
dropout_rng = None
if not deterministic and self.dropout > 0.0:
dropout_rng = self.make_rng("dropout")
# Softmax(QK^T)
attn_weights = dot_product_attention_weights(
query_states,
key_states,
bias=position_bias,
dropout_rng=dropout_rng,
dropout_rate=self.dropout,
broadcast_dropout=True,
deterministic=deterministic,
dtype=self.dtype,
)
# multiply with value states
attn_output = jnp.einsum("...hqk,...khd->...qhd", attn_weights, value_states)
# bring back to (batch_size, seq_length, d_model)
attn_output = self._merge_heads(attn_output)
attn_output = attn_output[:, :seq_length, :]
# apply output matrix
attn_output = self.o(attn_output)
outputs = (attn_output, position_bias)
if output_attentions:
outputs = outputs + (attn_weights,)
return outputs
class FlaxLongT5LayerLocalSelfAttention(nn.Module):
"""Local self attention used in encoder"""
config: LongT5Config
has_relative_attention_bias: bool = False
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.LocalSelfAttention = FlaxLongT5LocalAttention(
self.config, has_relative_attention_bias=self.has_relative_attention_bias, dtype=self.dtype
)
self.layer_norm = FlaxLongT5LayerNorm(
self.config.d_model, eps=self.config.layer_norm_epsilon, dtype=self.dtype
)
self.dropout = nn.Dropout(self.config.dropout_rate)
def __call__(
self,
hidden_states,
attention_mask=None,
position_bias=None,
output_attentions=False,
deterministic=True,
**kwargs: Any, # to accept init_cache kwargs
):
normed_hidden_states = self.layer_norm(hidden_states)
attention_output = self.LocalSelfAttention(
normed_hidden_states,
attention_mask=attention_mask,
position_bias=position_bias,
output_attentions=output_attentions,
deterministic=deterministic,
)
hidden_states = hidden_states + self.dropout(attention_output[0], deterministic=deterministic)
outputs = (hidden_states,) + attention_output[1:] # add attentions if we output them
return outputs
class FlaxLongT5LayerTransientGlobalSelfAttention(nn.Module):
"""Transient-Global self attention used in encoder"""
config: LongT5Config
has_relative_attention_bias: bool = False
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.TransientGlobalSelfAttention = FlaxLongT5TransientGlobalAttention(
self.config, has_relative_attention_bias=self.has_relative_attention_bias, dtype=self.dtype
)
self.layer_norm = FlaxLongT5LayerNorm(
self.config.d_model, eps=self.config.layer_norm_epsilon, dtype=self.dtype
)
self.dropout = nn.Dropout(self.config.dropout_rate)
def __call__(
self,
hidden_states,
attention_mask=None,
position_bias=None,
output_attentions=False,
deterministic=True,
**kwargs: Any, # to accept init_cache kwargs
):
normed_hidden_states = self.layer_norm(hidden_states)
attention_output = self.TransientGlobalSelfAttention(
normed_hidden_states,
attention_mask=attention_mask,
position_bias=position_bias,
output_attentions=output_attentions,
deterministic=deterministic,
)
hidden_states = hidden_states + self.dropout(attention_output[0], deterministic=deterministic)
outputs = (hidden_states,) + attention_output[1:] # add attentions if we output them
return outputs
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5LayerSelfAttention with T5->LongT5
class FlaxLongT5LayerSelfAttention(nn.Module):
config: LongT5Config
has_relative_attention_bias: bool = False
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.SelfAttention = FlaxLongT5Attention(
self.config,
has_relative_attention_bias=self.has_relative_attention_bias,
causal=self.config.causal,
dtype=self.dtype,
)
self.layer_norm = FlaxLongT5LayerNorm(
self.config.d_model, eps=self.config.layer_norm_epsilon, dtype=self.dtype
)
self.dropout = nn.Dropout(self.config.dropout_rate)
def __call__(
self,
hidden_states,
attention_mask=None,
position_bias=None,
output_attentions=False,
deterministic=True,
init_cache=False,
):
normed_hidden_states = self.layer_norm(hidden_states)
attention_output = self.SelfAttention(
normed_hidden_states,
attention_mask=attention_mask,
position_bias=position_bias,
output_attentions=output_attentions,
deterministic=deterministic,
init_cache=init_cache,
)
hidden_states = hidden_states + self.dropout(attention_output[0], deterministic=deterministic)
outputs = (hidden_states,) + attention_output[1:] # add attentions if we output them
return outputs
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5LayerCrossAttention with T5->LongT5
class FlaxLongT5LayerCrossAttention(nn.Module):
config: LongT5Config
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.EncDecAttention = FlaxLongT5Attention(
self.config, has_relative_attention_bias=False, causal=False, dtype=self.dtype
)
self.layer_norm = FlaxLongT5LayerNorm(
self.config.d_model, eps=self.config.layer_norm_epsilon, dtype=self.dtype
)
self.dropout = nn.Dropout(self.config.dropout_rate)
def __call__(
self,
hidden_states,
key_value_states,
attention_mask=None,
position_bias=None,
output_attentions=False,
deterministic=True,
):
normed_hidden_states = self.layer_norm(hidden_states)
attention_output = self.EncDecAttention(
normed_hidden_states,
attention_mask=attention_mask,
key_value_states=key_value_states,
position_bias=position_bias,
output_attentions=output_attentions,
)
hidden_states = hidden_states + self.dropout(attention_output[0], deterministic=deterministic)
outputs = (hidden_states,) + attention_output[1:] # add attentions if we output them
return outputs
class FlaxLongT5Block(nn.Module):
config: LongT5Config
has_relative_attention_bias: bool = False
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.causal = self.config.causal
if self.causal:
attention_layer = FlaxLongT5LayerSelfAttention
elif self.config.encoder_attention_type == "local":
attention_layer = FlaxLongT5LayerLocalSelfAttention
elif self.config.encoder_attention_type == "transient-global":
attention_layer = FlaxLongT5LayerTransientGlobalSelfAttention
else:
raise ValueError(
"For encoder attention mechanism, either `local` or `transient-global` attention type is expected, "
f"but got {self.config.encoder_attention_type}."
)
self.layer = (
attention_layer(
self.config,
has_relative_attention_bias=self.has_relative_attention_bias,
name=str(0),
dtype=self.dtype,
),
)
feed_forward_index = 1
if self.causal:
self.layer += (FlaxLongT5LayerCrossAttention(self.config, name=str(1), dtype=self.dtype),)
feed_forward_index += 1
self.layer += (FlaxLongT5LayerFF(self.config, name=str(feed_forward_index), dtype=self.dtype),)
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5Block.__call__ with T5->LongT5
def __call__(
self,
hidden_states,
attention_mask=None,
position_bias=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
encoder_decoder_position_bias=None,
output_attentions=False,
return_dict=True,
deterministic=True,
init_cache=False,
):
self_attention_outputs = self.layer[0](
hidden_states,
attention_mask=attention_mask,
position_bias=position_bias,
output_attentions=output_attentions,
deterministic=deterministic,
init_cache=init_cache,
)
hidden_states = self_attention_outputs[0]
attention_outputs = self_attention_outputs[1:] # Keep self-attention outputs and relative position weights
do_cross_attention = self.causal and encoder_hidden_states is not None
if do_cross_attention:
cross_attention_outputs = self.layer[1](
hidden_states,
key_value_states=encoder_hidden_states,
attention_mask=encoder_attention_mask,
position_bias=encoder_decoder_position_bias,
output_attentions=output_attentions,
deterministic=deterministic,
)
hidden_states = cross_attention_outputs[0]
# Keep cross-attention outputs and relative position weights
attention_outputs = attention_outputs + cross_attention_outputs[1:]
# Apply Feed Forward layer
hidden_states = self.layer[-1](hidden_states, deterministic=deterministic)
outputs = (hidden_states,)
outputs = outputs + attention_outputs
# returns hidden-states, present_key_value_states, (self-attention position bias), (self-attention weights),
# (cross-attention position bias), (cross-attention weights)
return outputs
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5LayerCollection with T5->LongT5
class FlaxLongT5LayerCollection(nn.Module):
config: LongT5Config
has_relative_attention_bias: bool
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.layer = FlaxLongT5Block(
self.config, has_relative_attention_bias=self.has_relative_attention_bias, dtype=self.dtype
)
def __call__(
self,
hidden_states,
attention_mask=None,
position_bias=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
encoder_decoder_position_bias=None,
output_attentions=False,
deterministic=True,
init_cache=False,
):
return self.layer(
hidden_states,
attention_mask=attention_mask,
position_bias=position_bias,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
encoder_decoder_position_bias=encoder_decoder_position_bias,
output_attentions=output_attentions,
deterministic=deterministic,
init_cache=init_cache,
)
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5BlockCollection with T5->LongT5
class FlaxLongT5BlockCollection(nn.Module):
config: LongT5Config
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
gradient_checkpointing: bool = False
def setup(self):
self.causal = self.config.causal
if self.gradient_checkpointing:
FlaxLongT5CheckpointLayer = remat(FlaxLongT5LayerCollection, static_argnums=(6, 7, 8))
self.blocks = [
FlaxLongT5CheckpointLayer(
self.config,
has_relative_attention_bias=(i == 0),
dtype=self.dtype,
name=str(i),
)
for i in range(self.config.num_layers)
]
else:
self.blocks = [
FlaxLongT5LayerCollection(
self.config,
has_relative_attention_bias=(i == 0),
dtype=self.dtype,
name=str(i),
)
for i in range(self.config.num_layers)
]
def __call__(
self,
hidden_states=None,
attention_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
output_attentions: bool = False,
output_hidden_states: bool = False,
deterministic: bool = True,
init_cache: bool = False,
):
# Prepare head mask if needed
all_hidden_states = () if output_hidden_states else None
all_attentions = () if output_attentions else None
all_cross_attentions = () if (output_attentions and self.causal) else None
position_bias = None
encoder_decoder_position_bias = None
for i, layer_module in enumerate(self.blocks):
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
layer_outputs = layer_module(
hidden_states,
attention_mask,
position_bias,
encoder_hidden_states,
encoder_attention_mask,
encoder_decoder_position_bias,
output_attentions,
deterministic,
init_cache,
)
hidden_states = layer_outputs[0]
# We share the position biases between the layers - the first layer store them
# layer_outputs = hidden-states, key-value-states (self-attention position bias), (self-attention weights),
# (cross-attention position bias), (cross-attention weights)
position_bias = layer_outputs[1]
if self.causal and encoder_hidden_states is not None:
encoder_decoder_position_bias = layer_outputs[3 if output_attentions else 2]
if output_attentions:
all_attentions = all_attentions + (layer_outputs[2],)
if self.causal:
all_cross_attentions = all_cross_attentions + (layer_outputs[4],)
return FlaxBaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
hidden_states=all_hidden_states,
attentions=all_attentions,
cross_attentions=all_cross_attentions,
)
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5Stack with T5->LongT5
class FlaxLongT5Stack(nn.Module):
config: LongT5Config
embed_tokens: nn.Embed
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
gradient_checkpointing: bool = False
def setup(self):
self.causal = self.config.causal
self.block = FlaxLongT5BlockCollection(
self.config, dtype=self.dtype, gradient_checkpointing=self.gradient_checkpointing
)
self.final_layer_norm = FlaxLongT5LayerNorm(
self.config.d_model, eps=self.config.layer_norm_epsilon, dtype=self.dtype
)
self.dropout = nn.Dropout(self.config.dropout_rate)
def __call__(
self,
input_ids=None,
attention_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
deterministic: bool = True,
init_cache: bool = False,
):
hidden_states = self.embed_tokens(input_ids)
hidden_states = self.dropout(hidden_states, deterministic=deterministic)
outputs = self.block(
hidden_states,
attention_mask=attention_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
deterministic=deterministic,
init_cache=init_cache,
)
hidden_states = outputs[0]
hidden_states = self.final_layer_norm(hidden_states)
hidden_states = self.dropout(hidden_states, deterministic=deterministic)
# Add last layer
all_hidden_states = None
if output_hidden_states:
all_hidden_states = outputs.hidden_states
all_hidden_states = all_hidden_states + (hidden_states,)
if not return_dict:
if output_hidden_states:
return (
hidden_states,
all_hidden_states,
) + outputs[2:]
return (hidden_states,) + outputs[1:]
return FlaxBaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
hidden_states=all_hidden_states,
attentions=outputs.attentions,
cross_attentions=outputs.cross_attentions,
)
LONGT5_ENCODE_INPUTS_DOCSTRING = r"""
Args:
input_ids (`jnp.ndarray` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. LongT5 is a model with relative position embeddings so
you should be able to pad the inputs on both the right and the left.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for detail.
To know more on how to prepare `input_ids` for pretraining take a look a [LONGT5
Training](./longt5#training).
attention_mask (`jnp.ndarray` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
LONGT5_DECODE_INPUTS_DOCSTRING = r"""
Args:
decoder_input_ids (`jnp.ndarray` of shape `(batch_size, target_sequence_length)`):
Indices of decoder input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are decoder input IDs?](../glossary#decoder-input-ids)
For training, `decoder_input_ids` should be provided.
encoder_outputs (`tuple(tuple(jnp.ndarray)`):
Tuple consists of (`last_hidden_state`, *optional*: `hidden_states`, *optional*: `attentions`)
`last_hidden_state` of shape `(batch_size, sequence_length, hidden_size)`, *optional*) is a sequence of
hidden-states at the output of the last layer of the encoder. Used in the cross-attention of the decoder.
encoder_attention_mask (`jnp.ndarray` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
decoder_attention_mask (`jnp.ndarray` of shape `(batch_size, target_sequence_length)`, *optional*):
Default behavior: generate a tensor that ignores pad tokens in `decoder_input_ids`. Causal mask will also
be used by default.
If you want to change padding behavior, you should modify to your needs. See diagram 1 in [the
paper](https://arxiv.org/abs/1910.13461) for more information on the default strategy.
past_key_values (`Dict[str, np.ndarray]`, *optional*, returned by `init_cache` or when passing previous `past_key_values`):
Dictionary of pre-computed hidden-states (key and values in the attention blocks) that can be used for fast
auto-regressive decoding. Pre-computed key and value hidden-states are of shape *[batch_size, max_length]*.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
LONGT5_INPUTS_DOCSTRING = r"""
Args:
input_ids (`jnp.ndarray` of shape `(batch_size, sequence_length)`):
Indices of input sequence tokens in the vocabulary. LongT5 is a model with relative position embeddings so
you should be able to pad the inputs on both the right and the left.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for detail.
[What are input IDs?](../glossary#input-ids)
To know more on how to prepare `input_ids` for pretraining take a look a [LONGT5
Training](./longt5#training).
attention_mask (`jnp.ndarray` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
decoder_input_ids (`jnp.ndarray` of shape `(batch_size, target_sequence_length)`, *optional*):
Indices of decoder input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are decoder input IDs?](../glossary#decoder-input-ids)
LONGT5 uses the `pad_token_id` as the starting token for `decoder_input_ids` generation. If
`past_key_values` is used, optionally only the last `decoder_input_ids` have to be input (see
`past_key_values`).
To know more on how to prepare `decoder_input_ids` for pretraining take a look at [LONGT5
Training](./longt5#training).
decoder_attention_mask (`jnp.ndarray` of shape `(batch_size, target_sequence_length)`, *optional*):
Default behavior: generate a tensor that ignores pad tokens in `decoder_input_ids`. Causal mask will also
be used by default.
encoder_outputs (`tuple(tuple(jnp.ndarray)`, *optional*):
Tuple consists of (`last_hidden_state`, `optional`: *hidden_states*, `optional`: *attentions*)
`last_hidden_state` of shape `(batch_size, sequence_length, hidden_size)` is a sequence of hidden states at
the output of the last layer of the encoder. Used in the cross-attention of the decoder.
past_key_values (`tuple(tuple(jnp.ndarray))` of length `config.n_layers` with each tuple having 4 tensors of shape `(batch_size, num_heads, sequence_length - 1, embed_size_per_head)`):
Contains precomputed key and value hidden states of the attention blocks. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
class FlaxLongT5PreTrainedModel(FlaxPreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
config_class = LongT5Config
base_model_prefix = "transformer"
module_class: nn.Module = None
def __init__(
self,
config: LongT5Config,
input_shape: Tuple[int] = (1, 1),
seed: int = 0,
dtype: jnp.dtype = jnp.float32,
_do_init: bool = True,
**kwargs,
):
module = self.module_class(config=config, dtype=dtype, **kwargs)
super().__init__(config, module, input_shape=input_shape, seed=seed, dtype=dtype, _do_init=_do_init)
def enable_gradient_checkpointing(self):
self._module = self.module_class(
config=self.config,
dtype=self.dtype,
gradient_checkpointing=True,
)
def init_weights(self, rng: jax.random.PRNGKey, input_shape: Tuple, params: FrozenDict = None) -> FrozenDict:
# init input tensors
input_ids = jnp.zeros(input_shape, dtype="i4")
attention_mask = jnp.ones_like(input_ids)
decoder_input_ids = jnp.ones_like(input_ids)
decoder_attention_mask = jnp.ones_like(input_ids)
params_rng, dropout_rng = jax.random.split(rng)
rngs = {"params": params_rng, "dropout": dropout_rng}
random_params = self.module.init(
rngs,
input_ids,
attention_mask,
decoder_input_ids,
decoder_attention_mask,
)["params"]
if params is not None:
random_params = flatten_dict(unfreeze(random_params))
params = flatten_dict(unfreeze(params))
for missing_key in self._missing_keys:
params[missing_key] = random_params[missing_key]
self._missing_keys = set()
return freeze(unflatten_dict(params))
else:
return random_params
@add_start_docstrings_to_model_forward(LONGT5_INPUTS_DOCSTRING)
def __call__(
self,
input_ids: jnp.ndarray,
attention_mask: Optional[jnp.ndarray] = None,
decoder_input_ids: jnp.ndarray = None,
decoder_attention_mask: Optional[jnp.ndarray] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
train: bool = False,
params: dict = None,
dropout_rng: PRNGKey = None,
):
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.return_dict
if decoder_input_ids is None:
raise ValueError(
"Make sure to provide both `input_ids` and `decoder_input_ids`. `decoder_input_ids` is not passed"
" here."
)
# prepare encoder inputs
if attention_mask is None:
attention_mask = jnp.ones_like(input_ids)
# prepare decoder inputs
if decoder_attention_mask is None:
decoder_attention_mask = jnp.ones_like(decoder_input_ids)
# Handle any PRNG if needed
rngs = {"dropout": dropout_rng} if dropout_rng is not None else {}
return self.module.apply(
{"params": params or self.params},
input_ids=jnp.array(input_ids, dtype="i4"),
attention_mask=jnp.array(attention_mask, dtype="i4"),
decoder_input_ids=jnp.array(decoder_input_ids, dtype="i4"),
decoder_attention_mask=jnp.array(decoder_attention_mask, dtype="i4"),
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
deterministic=not train,
rngs=rngs,
)
def init_cache(self, batch_size, max_length, encoder_outputs):
r"""
Args:
batch_size (`int`):
batch_size used for fast auto-regressive decoding. Defines the batch size of the initialized cache.
max_length (`int`):
maximum possible length for auto-regressive decoding. Defines the sequence length of the initialized
cache.
encoder_outputs (`Union[FlaxBaseModelOutput, tuple(tuple(jnp.ndarray)]`):
`encoder_outputs` consists of (`last_hidden_state`, *optional*: `hidden_states`, *optional*:
`attentions`). `last_hidden_state` of shape `(batch_size, sequence_length, hidden_size)`, *optional*)
is a sequence of hidden-states at the output of the last layer of the encoder. Used in the
cross-attention of the decoder.
"""
# init input variables to retrieve cache
decoder_input_ids = jnp.ones((batch_size, max_length), dtype="i4")
decoder_attention_mask = jnp.ones_like(decoder_input_ids)
def _decoder_forward(module, decoder_input_ids, decoder_attention_mask, **kwargs):
decoder_module = module._get_decoder_module()
return decoder_module(
decoder_input_ids,
decoder_attention_mask,
**kwargs,
)
init_variables = self.module.init(
jax.random.PRNGKey(0),
decoder_input_ids=decoder_input_ids,
decoder_attention_mask=decoder_attention_mask,
encoder_hidden_states=encoder_outputs[0],
init_cache=True,
method=_decoder_forward, # we only need to call the decoder to init the cache
)
return unfreeze(init_variables["cache"])
@add_start_docstrings(LONGT5_ENCODE_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=FlaxBaseModelOutput, config_class=LongT5Config)
def encode(
self,
input_ids: jnp.ndarray,
attention_mask: Optional[jnp.ndarray] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
train: bool = False,
params: dict = None,
dropout_rng: PRNGKey = None,
):
r"""
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, FlaxLongT5ForConditionalGeneration
>>> tokenizer = AutoTokenizer.from_pretrained("t5-base")
>>> model = FlaxLongT5ForConditionalGeneration.from_pretrained("google/long-t5-local-base")
>>> text = "My friends are cool but they eat too many carbs."
>>> inputs = tokenizer(text, return_tensors="np")
>>> encoder_outputs = model.encode(**inputs)
```"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.return_dict
if attention_mask is None:
attention_mask = jnp.ones_like(input_ids)
# Handle any PRNG if needed
rngs = {}
if dropout_rng is not None:
rngs["dropout"] = dropout_rng
def _encoder_forward(module, input_ids, attention_mask, **kwargs):
encode_module = module._get_encoder_module()
return encode_module(input_ids, attention_mask, **kwargs)
return self.module.apply(
{"params": params or self.params},
input_ids=jnp.array(input_ids, dtype="i4"),
attention_mask=jnp.array(attention_mask, dtype="i4"),
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
deterministic=not train,
rngs=rngs,
method=_encoder_forward,
)
@add_start_docstrings(LONGT5_DECODE_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=FlaxBaseModelOutputWithPastAndCrossAttentions, config_class=LongT5Config)
def decode(
self,
decoder_input_ids,
encoder_outputs,
encoder_attention_mask: Optional[jnp.ndarray] = None,
decoder_attention_mask: Optional[jnp.ndarray] = None,
past_key_values: dict = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
train: bool = False,
params: dict = None,
dropout_rng: PRNGKey = None,
):
r"""
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, FlaxLongT5ForConditionalGeneration
>>> import jax.numpy as jnp
>>> tokenizer = AutoTokenizer.from_pretrained("t5-base")
>>> model = FlaxLongT5ForConditionalGeneration.from_pretrained("google/long-t5-local-base")
>>> text = "My friends are cool but they eat too many carbs."
>>> inputs = tokenizer(text, return_tensors="np")
>>> encoder_outputs = model.encode(**inputs)
>>> decoder_start_token_id = model.config.decoder_start_token_id
>>> decoder_input_ids = jnp.ones((inputs.input_ids.shape[0], 1), dtype="i4") * decoder_start_token_id
>>> outputs = model.decode(decoder_input_ids, encoder_outputs)
>>> logits = outputs.logits
```"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.return_dict
encoder_hidden_states = encoder_outputs[0]
if encoder_attention_mask is None:
batch_size, sequence_length = encoder_hidden_states.shape[:2]
encoder_attention_mask = jnp.ones((batch_size, sequence_length))
batch_size, sequence_length = decoder_input_ids.shape
if decoder_attention_mask is None:
decoder_attention_mask = jnp.ones((batch_size, sequence_length))
# Handle any PRNG if needed
rngs = {}
if dropout_rng is not None:
rngs["dropout"] = dropout_rng
inputs = {"params": params or self.params}
# if past_key_values are passed then cache is already initialized a private flag init_cache has to be
# passed down to ensure cache is used. It has to be made sure that cache is marked as mutable so that
# it can be changed by FlaxLongT5Attention module
if past_key_values:
inputs["cache"] = past_key_values
mutable = ["cache"]
else:
mutable = False
def _decoder_forward(module, decoder_input_ids, decoder_attention_mask, **kwargs):
decoder_module = module._get_decoder_module()
return decoder_module(
decoder_input_ids,
decoder_attention_mask,
**kwargs,
)
outputs = self.module.apply(
inputs,
decoder_input_ids=jnp.array(decoder_input_ids, dtype="i4"),
decoder_attention_mask=jnp.array(decoder_attention_mask, dtype="i4"),
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=jnp.array(encoder_attention_mask, dtype="i4"),
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
deterministic=not train,
rngs=rngs,
mutable=mutable,
method=_decoder_forward,
)
# add updated cache to model output
if past_key_values is not None and return_dict:
outputs, past = outputs
outputs["past_key_values"] = unfreeze(past["cache"])
return outputs
elif past_key_values is not None and not return_dict:
outputs, past = outputs
outputs = outputs[:1] + (unfreeze(past["cache"]),) + outputs[1:]
return outputs
LONGT5_START_DOCSTRING = r"""
The LongT5 model was proposed in [LongT5: Efficient Text-To-Text Transformer for Long
Sequences](https://arxiv.org/abs/2112.07916) by Mandy Guo, Joshua Ainslie, David Uthus, Santiago Ontanon, Jianmo
Ni, Yun-Hsuan Sung and Yinfei Yang. It's an encoder-decoder transformer pre-trained in a text-to-text denoising
generative setting. LongT5 model is an extension of T5 model, and it enables using one of the two different
efficient attention mechanisms - (1) Local attention, or (2) Transient-Global attention.
This model inherits from [`FlaxPreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a Flax Linen
[flax.nn.Module](https://flax.readthedocs.io/en/latest/_autosummary/flax.nn.module.html) subclass. Use it as a
regular Flax Module and refer to the Flax documentation for all matter related to general usage and behavior.
Finally, this model supports inherent JAX features such as:
- [Just-In-Time (JIT) compilation](https://jax.readthedocs.io/en/latest/jax.html#just-in-time-compilation-jit)
- [Automatic Differentiation](https://jax.readthedocs.io/en/latest/jax.html#automatic-differentiation)
- [Vectorization](https://jax.readthedocs.io/en/latest/jax.html#vectorization-vmap)
- [Parallelization](https://jax.readthedocs.io/en/latest/jax.html#parallelization-pmap)
Parameters:
config ([`LongT5Config`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~FlaxPreTrainedModel.from_pretrained`] method to load the model weights.
dtype (`jax.numpy.dtype`, *optional*, defaults to `jax.numpy.float32`):
The data type of the computation. Can be one of `jax.numpy.float32`, `jax.numpy.float16` (on GPUs) and
`jax.numpy.bfloat16` (on TPUs).
This can be used to enable mixed-precision training or half-precision inference on GPUs or TPUs. If
specified all the computation will be performed with the given `dtype`.
**Note that this only specifies the dtype of the computation and does not influence the dtype of model
parameters.**
If you wish to change the dtype of the model parameters, see [`~FlaxPreTrainedModel.to_fp16`] and
[`~FlaxPreTrainedModel.to_bf16`].
"""
@add_start_docstrings(
"The bare LONGT5 Model transformer outputting raw hidden-stateswithout any specific head on top.",
LONGT5_START_DOCSTRING,
)
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5Module with T5->LongT5
class FlaxLongT5Module(nn.Module):
config: LongT5Config
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
gradient_checkpointing: bool = False
def _get_encoder_module(self):
return self.encoder
def _get_decoder_module(self):
return self.decoder
def setup(self):
self.shared = nn.Embed(
self.config.vocab_size,
self.config.d_model,
embedding_init=jax.nn.initializers.normal(self.config.initializer_factor * 1.0),
dtype=self.dtype,
)
encoder_config = copy.deepcopy(self.config)
encoder_config.causal = False
self.encoder = FlaxLongT5Stack(
encoder_config,
embed_tokens=self.shared,
dtype=self.dtype,
gradient_checkpointing=self.gradient_checkpointing,
)
decoder_config = copy.deepcopy(self.config)
decoder_config.causal = True
decoder_config.num_layers = self.config.num_decoder_layers
self.decoder = FlaxLongT5Stack(
decoder_config,
embed_tokens=self.shared,
dtype=self.dtype,
gradient_checkpointing=self.gradient_checkpointing,
)
def __call__(
self,
input_ids=None,
attention_mask=None,
decoder_input_ids=None,
decoder_attention_mask=None,
encoder_outputs=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
deterministic: bool = True,
):
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# Encode if needed (training, first prediction pass)
encoder_outputs = self.encoder(
input_ids=input_ids,
attention_mask=attention_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
deterministic=deterministic,
)
# Decode
decoder_outputs = self.decoder(
input_ids=decoder_input_ids,
attention_mask=decoder_attention_mask,
encoder_hidden_states=encoder_outputs[0],
encoder_attention_mask=attention_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
deterministic=deterministic,
)
if not return_dict:
return decoder_outputs + encoder_outputs
return FlaxSeq2SeqModelOutput(
last_hidden_state=decoder_outputs.last_hidden_state,
past_key_values=decoder_outputs.past_key_values,
decoder_hidden_states=decoder_outputs.hidden_states,
decoder_attentions=decoder_outputs.attentions,
cross_attentions=decoder_outputs.cross_attentions,
encoder_last_hidden_state=encoder_outputs.last_hidden_state,
encoder_hidden_states=encoder_outputs.hidden_states,
encoder_attentions=encoder_outputs.attentions,
)
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5Model with T5->LongT5
class FlaxLongT5Model(FlaxLongT5PreTrainedModel):
module_class = FlaxLongT5Module
append_call_sample_docstring(FlaxLongT5Model, _CHECKPOINT_FOR_DOC, FlaxSeq2SeqModelOutput, _CONFIG_FOR_DOC)
FLAX_LONGT5_MODEL_DOCSTRING = """
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, FlaxLongT5Model
>>> tokenizer = AutoTokenizer.from_pretrained("t5-base")
>>> model = FlaxLongT5Model.from_pretrained("google/long-t5-local-base")
>>> input_ids = tokenizer(
... "Studies have been shown that owning a dog is good for you", return_tensors="np"
... ).input_ids
>>> decoder_input_ids = tokenizer("Studies show that", return_tensors="np").input_ids
>>> # forward pass
>>> outputs = model(input_ids=input_ids, decoder_input_ids=decoder_input_ids)
>>> last_hidden_states = outputs.last_hidden_state
```
"""
overwrite_call_docstring(FlaxLongT5Model, LONGT5_INPUTS_DOCSTRING + FLAX_LONGT5_MODEL_DOCSTRING)
append_replace_return_docstrings(FlaxLongT5Model, output_type=FlaxSeq2SeqLMOutput, config_class=_CONFIG_FOR_DOC)
@add_start_docstrings("""LONGT5 Model with a `language modeling` head on top.""", LONGT5_START_DOCSTRING)
# Copied from transformers.models.t5.modeling_flax_t5.FlaxT5ForConditionalGenerationModule with T5->LongT5
class FlaxLongT5ForConditionalGenerationModule(nn.Module):
config: LongT5Config
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
gradient_checkpointing: bool = False
def _get_encoder_module(self):
return self.encoder
def _get_decoder_module(self):
return self.decoder
def setup(self):
self.model_dim = self.config.d_model
self.shared = nn.Embed(
self.config.vocab_size,
self.config.d_model,
embedding_init=jax.nn.initializers.normal(self.config.initializer_factor),
dtype=self.dtype,
)
encoder_config = copy.deepcopy(self.config)
encoder_config.causal = False
encoder_config.use_cache = False
encoder_config.is_encoder_decoder = False
self.encoder = FlaxLongT5Stack(
encoder_config, self.shared, dtype=self.dtype, gradient_checkpointing=self.gradient_checkpointing
)
decoder_config = copy.deepcopy(self.config)
decoder_config.causal = True
decoder_config.is_encoder_decoder = False
decoder_config.num_layers = self.config.num_decoder_layers
self.decoder = FlaxLongT5Stack(
decoder_config, self.shared, dtype=self.dtype, gradient_checkpointing=self.gradient_checkpointing
)
self.lm_head = nn.Dense(
self.config.vocab_size,
use_bias=False,
kernel_init=jax.nn.initializers.normal(self.config.initializer_factor),
dtype=self.dtype,
)
def __call__(
self,
input_ids=None,
attention_mask=None,
decoder_input_ids=None,
decoder_attention_mask=None,
encoder_outputs=None,
output_attentions=None,
output_hidden_states=None,
return_dict=None,
deterministic: bool = True,
):
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
# Encode
encoder_outputs = self.encoder(
input_ids=input_ids,
attention_mask=attention_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
deterministic=deterministic,
)
hidden_states = encoder_outputs[0]
# Decode
decoder_outputs = self.decoder(
input_ids=decoder_input_ids,
attention_mask=decoder_attention_mask,
encoder_hidden_states=hidden_states,
encoder_attention_mask=attention_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
deterministic=deterministic,
)
sequence_output = decoder_outputs[0]
if self.config.tie_word_embeddings:
# Rescale output before projecting on vocab
# See https://github.com/tensorflow/mesh/blob/fa19d69eafc9a482aff0b59ddd96b025c0cb207d/mesh_tensorflow/transformer/transformer.py#L586
sequence_output = sequence_output * (self.model_dim**-0.5)
if self.config.tie_word_embeddings:
shared_embedding = self.shared.variables["params"]["embedding"]
lm_logits = self.lm_head.apply({"params": {"kernel": shared_embedding.T}}, sequence_output)
else:
lm_logits = self.lm_head(sequence_output)
if not return_dict:
return (lm_logits,) + decoder_outputs[1:] + encoder_outputs
return FlaxSeq2SeqLMOutput(
logits=lm_logits,
past_key_values=decoder_outputs.past_key_values,
decoder_hidden_states=decoder_outputs.hidden_states,
decoder_attentions=decoder_outputs.attentions,
cross_attentions=decoder_outputs.cross_attentions,
encoder_last_hidden_state=encoder_outputs.last_hidden_state,
encoder_hidden_states=encoder_outputs.hidden_states,
encoder_attentions=encoder_outputs.attentions,
)
class FlaxLongT5ForConditionalGeneration(FlaxLongT5PreTrainedModel):
module_class = FlaxLongT5ForConditionalGenerationModule
@add_start_docstrings(LONGT5_DECODE_INPUTS_DOCSTRING)
@replace_return_docstrings(output_type=FlaxCausalLMOutputWithCrossAttentions, config_class=LongT5Config)
def decode(
self,
decoder_input_ids,
encoder_outputs,
encoder_attention_mask: Optional[jnp.ndarray] = None,
decoder_attention_mask: Optional[jnp.ndarray] = None,
past_key_values: dict = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
train: bool = False,
params: dict = None,
dropout_rng: PRNGKey = None,
):
r"""
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, FlaxLongT5ForConditionalGeneration
>>> import jax.numpy as jnp
>>> tokenizer = AutoTokenizer.from_pretrained("t5-base")
>>> model = FlaxLongT5ForConditionalGeneration.from_pretrained("google/long-t5-local-base")
>>> text = "summarize: My friends are cool but they eat too many carbs."
>>> inputs = tokenizer(text, return_tensors="np")
>>> encoder_outputs = model.encode(**inputs)
>>> decoder_start_token_id = model.config.decoder_start_token_id
>>> decoder_input_ids = jnp.ones((inputs.input_ids.shape[0], 1), dtype="i4") * decoder_start_token_id
>>> outputs = model.decode(decoder_input_ids, encoder_outputs)
>>> logits = outputs.logits
```"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.return_dict
encoder_hidden_states = encoder_outputs[0]
if encoder_attention_mask is None:
batch_size, sequence_length = encoder_hidden_states.shape[:2]
encoder_attention_mask = jnp.ones((batch_size, sequence_length))
batch_size, sequence_length = decoder_input_ids.shape
if decoder_attention_mask is None:
decoder_attention_mask = jnp.ones((batch_size, sequence_length))
# Handle any PRNG if needed
rngs = {}
if dropout_rng is not None:
rngs["dropout"] = dropout_rng
inputs = {"params": params or self.params}
# if past_key_values are passed then cache is already initialized a private flag init_cache has to be
# passed down to ensure cache is used. It has to be made sure that cache is marked as mutable so that
# it can be changed by FlaxLongT5Attention module
if past_key_values:
inputs["cache"] = past_key_values
mutable = ["cache"]
else:
mutable = False
def _decoder_forward(module, decoder_input_ids, decoder_attention_mask, **kwargs):
decoder_module = module._get_decoder_module()
decoder_outputs = decoder_module(
decoder_input_ids,
decoder_attention_mask,
**kwargs,
)
sequence_output = decoder_outputs[0]
if self.config.tie_word_embeddings:
# Rescale output before projecting on vocab
# See https://github.com/tensorflow/mesh/blob/fa19d69eafc9a482aff0b59ddd96b025c0cb207d/mesh_tensorflow/transformer/transformer.py#L586
sequence_output = sequence_output * (self.config.d_model**-0.5)
if self.config.tie_word_embeddings:
shared_embedding = module.shared.variables["params"]["embedding"]
lm_logits = module.lm_head.apply({"params": {"kernel": shared_embedding.T}}, sequence_output)
else:
lm_logits = module.lm_head(sequence_output)
return lm_logits, decoder_outputs
outputs = self.module.apply(
inputs,
decoder_input_ids=jnp.array(decoder_input_ids, dtype="i4"),
decoder_attention_mask=jnp.array(decoder_attention_mask, dtype="i4"),
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=jnp.array(encoder_attention_mask, dtype="i4"),
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
deterministic=not train,
rngs=rngs,
mutable=mutable,
method=_decoder_forward,
)
if past_key_values is None:
lm_logits, decoder_outputs = outputs
else:
(lm_logits, decoder_outputs), past = outputs
if return_dict:
outputs = FlaxCausalLMOutputWithCrossAttentions(
logits=lm_logits,
hidden_states=decoder_outputs.hidden_states,
attentions=decoder_outputs.attentions,
cross_attentions=decoder_outputs.cross_attentions,
)
else:
outputs = (lm_logits,) + decoder_outputs[1:]
# add updated cache to model output
if past_key_values is not None and return_dict:
outputs["past_key_values"] = unfreeze(past["cache"])
return outputs
elif past_key_values is not None and not return_dict:
outputs = outputs[:1] + (unfreeze(past["cache"]),) + outputs[1:]
return outputs
def prepare_inputs_for_generation(
self,
decoder_input_ids,
max_length,
attention_mask: Optional[jax.Array] = None,
decoder_attention_mask: Optional[jax.Array] = None,
encoder_outputs=None,
**kwargs,
):
# initializing the cache
batch_size, seq_length = decoder_input_ids.shape
past_key_values = self.init_cache(batch_size, max_length, encoder_outputs)
# Note that usually one would have to put 0's in the attention_mask for x > input_ids.shape[-1] and x < cache_length.
# But since the decoder uses a causal mask, those positions are masked anyways.
# Thus we can create a single static attention_mask here, which is more efficient for compilation
extended_attention_mask = jnp.ones((batch_size, max_length), dtype="i4")
if decoder_attention_mask is not None:
extended_attention_mask = jax.lax.dynamic_update_slice(
extended_attention_mask, decoder_attention_mask, (0, 0)
)
return {
"past_key_values": past_key_values,
"encoder_outputs": encoder_outputs,
"encoder_attention_mask": attention_mask,
"decoder_attention_mask": extended_attention_mask,
}
def update_inputs_for_generation(self, model_outputs, model_kwargs):
model_kwargs["past_key_values"] = model_outputs.past_key_values
return model_kwargs
FLAX_LONGT5_CONDITIONAL_GENERATION_DOCSTRING = """
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, FlaxLongT5ForConditionalGeneration
>>> tokenizer = AutoTokenizer.from_pretrained("t5-base")
>>> model = FlaxLongT5ForConditionalGeneration.from_pretrained("google/long-t5-local-base")
>>> ARTICLE_TO_SUMMARIZE = "summarize: My friends are cool but they eat too many carbs."
>>> inputs = tokenizer([ARTICLE_TO_SUMMARIZE], return_tensors="np")
>>> # Generate Summary
>>> summary_ids = model.generate(inputs["input_ids"]).sequences
>>> print(tokenizer.decode(summary_ids[0], skip_special_tokens=True, clean_up_tokenization_spaces=False))
```
"""
overwrite_call_docstring(
FlaxLongT5ForConditionalGeneration, LONGT5_INPUTS_DOCSTRING + FLAX_LONGT5_CONDITIONAL_GENERATION_DOCSTRING
)
append_replace_return_docstrings(
FlaxLongT5ForConditionalGeneration, output_type=FlaxSeq2SeqLMOutput, config_class=_CONFIG_FOR_DOC
)
| transformers-main | src/transformers/models/longt5/modeling_flax_longt5.py |
# coding=utf-8
# Copyright 2022 Meta and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch ESM model."""
from __future__ import annotations
import os
from typing import Optional, Tuple, Union
import numpy as np
import tensorflow as tf
from tensorflow.keras.activations import gelu
from tensorflow.keras.layers import Dense, Dropout, Embedding, Layer, LayerNormalization
from ...file_utils import add_code_sample_docstrings, add_start_docstrings, add_start_docstrings_to_model_forward
from ...modeling_tf_outputs import (
TFBaseModelOutputWithPastAndCrossAttentions,
TFBaseModelOutputWithPoolingAndCrossAttentions,
TFMaskedLMOutput,
TFSequenceClassifierOutput,
TFTokenClassifierOutput,
)
from ...modeling_tf_utils import (
TFMaskedLanguageModelingLoss,
TFModelInputType,
TFPreTrainedModel,
TFSequenceClassificationLoss,
TFTokenClassificationLoss,
get_initializer,
shape_list,
unpack_inputs,
)
from ...tf_utils import check_embeddings_within_bounds, stable_softmax
from ...utils import logging
from .configuration_esm import EsmConfig
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "facebook/esm2_t6_8M_UR50D"
_CONFIG_FOR_DOC = "EsmConfig"
TF_ESM_PRETRAINED_MODEL_ARCHIVE_LIST = [
"facebook/esm2_t6_8M_UR50D",
"facebook/esm2_t12_35M_UR50D",
# This is not a complete list of all ESM models!
# See all ESM models at https://huggingface.co/models?filter=esm
]
def rotate_half(x):
x1, x2 = tf.split(x, 2, axis=-1)
return tf.concat((-x2, x1), axis=-1)
def apply_rotary_pos_emb(x, cos, sin):
cos = cos[:, :, : tf.shape(x)[-2], :]
sin = sin[:, :, : tf.shape(x)[-2], :]
return (x * cos) + (rotate_half(x) * sin)
def symmetrize(x):
"Make layer symmetric in final two dimensions, used for contact prediction."
return x + tf.linalg.matrix_transpose(x) # Transposes last two dimensions only
def average_product_correct(x):
"Perform average product correct, used for contact prediction."
a1 = tf.reduce_sum(x, -1, keepdims=True)
a2 = tf.reduce_sum(x, -2, keepdims=True)
a12 = tf.reduce_sum(x, (-1, -2), keepdims=True)
avg = a1 * a2
avg = avg / a12
normalized = x - avg
return normalized
class TFRotaryEmbedding(Layer):
"""
Rotary position embeddings based on those in
[RoFormer](https://huggingface.co/docs/transformers/model_doc/roformer). Query and keys are transformed by rotation
matrices which depend on their relative positions.
"""
def __init__(self, dim: int, name=None):
super().__init__(name=name)
# Matt: The PyTorch version of this layer does a lot of work to cache values, but we just rely on TF compilation
# and/or XLA to sort out constants like that. It actually may not seem like this layer needs to be stateful at
# all when we benefit from TF compilation, but it does. The reason is that self.inv_freq is a buffer in the
# original implementation, but all the shared ESM checkpoints were trained with fp16 params. This means that
# the inv_freq tensor was stored as a float16, and we need to replicate those lower-precision values or our
# models give different outputs from the original.
self.dim = dim
def build(self, input_shape):
super().build(input_shape)
self.inv_freq = self.add_weight(
"inv_freq", shape=(self.dim // 2,), dtype=tf.float32, initializer=get_initializer(1.0), trainable=False
)
self.inv_freq.assign(
1.0 / (10000 ** (tf.range(start=0, limit=self.dim, delta=2, dtype=tf.float32) / self.dim))
)
def _compute_cos_sin(self, x, seq_dimension=2):
seq_len = tf.shape(x)[seq_dimension]
t = tf.range(seq_len, dtype=self.inv_freq.dtype)
freqs = tf.einsum("i, j -> ij", t, self.inv_freq) # Outer multiplication
emb = tf.concat((freqs, freqs), axis=-1)[None, None, :, :]
return tf.cos(emb), tf.sin(emb)
def call(self, q: tf.Tensor, k: tf.Tensor) -> Tuple[tf.Tensor, tf.Tensor]:
cos_emb, sin_emb = self._compute_cos_sin(k, seq_dimension=-2)
return (
apply_rotary_pos_emb(q, cos_emb, sin_emb),
apply_rotary_pos_emb(k, cos_emb, sin_emb),
)
class TFEsmContactPredictionHead(Layer):
"""Performs symmetrization, apc, and computes a logistic regression on the output features"""
def __init__(
self,
in_features: int,
bias=True,
eos_idx: int = 2,
name=None,
):
super().__init__(name=name)
self.eos_idx = eos_idx
self.in_features = in_features
self.regression = Dense(1, use_bias=bias, activation="sigmoid", name="regression")
def build(self, input_shape):
super().build(input_shape)
with tf.name_scope("regression"):
self.regression.build((None, self.in_features))
def call(self, tokens, attentions):
# remove eos token attentions
eos_mask = tf.cast(tokens != self.eos_idx, attentions.dtype)
eos_mask = tf.expand_dims(eos_mask, 1) * tf.expand_dims(eos_mask, 2)
attentions = attentions * eos_mask[:, None, None, :, :]
attentions = attentions[..., :-1, :-1]
# remove cls token attentions
attentions = attentions[..., 1:, 1:]
batch_size, layers, heads, seqlen, _ = shape_list(attentions)
attentions = tf.reshape(attentions, (batch_size, layers * heads, seqlen, seqlen))
# features: batch x channels x tokens x tokens (symmetric)
attentions = average_product_correct(symmetrize(attentions))
attentions = tf.transpose(attentions, perm=(0, 2, 3, 1))
return tf.squeeze(self.regression(attentions), 3)
class TFEsmEmbeddings(Layer):
"""
Same as BertEmbeddings with a tiny tweak for positional embeddings indexing.
"""
def __init__(self, config, name=None):
super().__init__(name=name)
self.word_embeddings = Embedding(
config.vocab_size,
config.hidden_size,
embeddings_initializer=get_initializer(config.initializer_range),
name="word_embeddings",
)
self.position_embeddings = Embedding(
config.max_position_embeddings,
config.hidden_size,
embeddings_initializer=get_initializer(config.initializer_range),
name="position_embeddings",
)
if config.emb_layer_norm_before:
self.layer_norm = LayerNormalization(epsilon=config.layer_norm_eps, name="layer_norm")
else:
self.layer_norm = None
# Matt: I think this line was copied incorrectly from BERT, disabling for now
# self.dropout = Dropout(config.hidden_dropout_prob)
self.position_embedding_type = getattr(config, "position_embedding_type", "absolute")
self.position_ids = tf.range(config.max_position_embeddings)[None, :]
self.padding_idx = config.pad_token_id
self.token_dropout = config.token_dropout
self.mask_token_id = config.mask_token_id
self.config = config
def call(
self, input_ids=None, attention_mask=None, position_ids=None, inputs_embeds=None, past_key_values_length=0
):
if position_ids is None:
if input_ids is not None:
# Create the position ids from the input token ids. Any padded tokens remain padded.
position_ids = create_position_ids_from_input_ids(input_ids, self.padding_idx, past_key_values_length)
else:
position_ids = self.create_position_ids_from_inputs_embeds(inputs_embeds)
if inputs_embeds is None:
check_embeddings_within_bounds(input_ids, self.config.vocab_size)
inputs_embeds = self.word_embeddings(input_ids)
# Note that if we want to support ESM-1 (not 1b!) in future then we need to support an
# embedding_scale factor here.
embeddings = inputs_embeds
# Matt: ESM has the option to handle masking in MLM in a slightly unusual way. If the token_dropout
# flag is False then it is handled in the same was as BERT/RoBERTa. If it is set to True, however,
# masked tokens are treated as if they were selected for input dropout and zeroed out.
# This "mask-dropout" is compensated for when masked tokens are not present, by scaling embeddings by
# a factor of (fraction of unmasked tokens during training) / (fraction of unmasked tokens in sample).
# This is analogous to the way that dropout layers scale down outputs during evaluation when not
# actually dropping out values (or, equivalently, scale up their un-dropped outputs in training).
if self.token_dropout:
embeddings = tf.where((input_ids == self.mask_token_id)[:, :, None], 0.0, embeddings)
mask_ratio_train = 0.15 * 0.8 # Hardcoded as the ratio used in all ESM model training runs
src_lengths = tf.cast(tf.reduce_sum(attention_mask, axis=-1), tf.float32)
masked_tokens = input_ids == self.mask_token_id
mask_ratio_observed = tf.math.count_nonzero(masked_tokens, dtype=tf.float32, axis=-1) / src_lengths
embeddings = embeddings * (1 - mask_ratio_train) / (1 - mask_ratio_observed)[:, None, None]
if self.position_embedding_type == "absolute":
position_embeddings = self.position_embeddings(position_ids)
embeddings += position_embeddings
if self.layer_norm is not None:
embeddings = self.layer_norm(embeddings)
if attention_mask is not None:
embeddings = embeddings * tf.cast(tf.expand_dims(attention_mask, -1), embeddings.dtype)
# Matt: I think this line was copied incorrectly from BERT, disabling it for now.
# embeddings = self.dropout(embeddings)
return embeddings
def create_position_ids_from_inputs_embeds(self, inputs_embeds):
"""
We are provided embeddings directly. We cannot infer which are padded so just generate sequential position ids.
Args:
inputs_embeds: tf.Tensor
Returns: tf.Tensor
"""
input_shape = shape_list(inputs_embeds)[:-1]
sequence_length = input_shape[1]
position_ids = tf.range(
start=self.padding_idx + 1, limit=sequence_length + self.padding_idx + 1, dtype=tf.int64
)
return tf.broadcast_to(tf.expand_dims(position_ids, 0), input_shape)
class TFEsmSelfAttention(Layer):
def __init__(self, config, position_embedding_type=None, name=None):
super().__init__(name=name)
if config.hidden_size % config.num_attention_heads != 0 and not hasattr(config, "embedding_size"):
raise ValueError(
f"The hidden size ({config.hidden_size}) is not a multiple of the number of attention "
f"heads ({config.num_attention_heads})"
)
self.num_attention_heads = config.num_attention_heads
self.attention_head_size = int(config.hidden_size / config.num_attention_heads)
self.all_head_size = self.num_attention_heads * self.attention_head_size
self.query = Dense(
self.all_head_size, kernel_initializer=get_initializer(config.initializer_range), name="query"
)
self.key = Dense(self.all_head_size, kernel_initializer=get_initializer(config.initializer_range), name="key")
self.value = Dense(
self.all_head_size, kernel_initializer=get_initializer(config.initializer_range), name="value"
)
self.dropout = Dropout(config.attention_probs_dropout_prob)
self.position_embedding_type = position_embedding_type or getattr(
config, "position_embedding_type", "absolute"
)
self.rotary_embeddings = None
if self.position_embedding_type == "relative_key" or self.position_embedding_type == "relative_key_query":
self.max_position_embeddings = config.max_position_embeddings
self.distance_embedding = Embedding(
2 * config.max_position_embeddings - 1,
self.attention_head_size,
embeddings_initializer=get_initializer(config.initializer_range),
)
elif self.position_embedding_type == "rotary":
self.rotary_embeddings = TFRotaryEmbedding(dim=self.attention_head_size, name="rotary_embeddings")
self.is_decoder = config.is_decoder
def transpose_for_scores(self, x: tf.Tensor) -> tf.Tensor:
new_x_shape = shape_list(x)[:-1] + [self.num_attention_heads, self.attention_head_size]
x = tf.reshape(x, new_x_shape)
return tf.transpose(x, perm=(0, 2, 1, 3))
def call(
self,
hidden_states: tf.Tensor,
attention_mask: tf.Tensor | None = None,
head_mask: tf.Tensor | None = None,
encoder_hidden_states: tf.Tensor | None = None,
encoder_attention_mask: tf.Tensor | None = None,
past_key_value: Tuple[Tuple[tf.Tensor]] | None = None,
output_attentions: Optional[bool] = False,
training: bool = False,
) -> Tuple[tf.Tensor]:
mixed_query_layer = self.query(hidden_states)
# If this is instantiated as a cross-attention module, the keys
# and values come from an encoder; the attention mask needs to be
# such that the encoder's padding tokens are not attended to.
is_cross_attention = encoder_hidden_states is not None
if is_cross_attention and past_key_value is not None:
# reuse k,v, cross_attentions
key_layer = past_key_value[0]
value_layer = past_key_value[1]
attention_mask = encoder_attention_mask
elif is_cross_attention:
key_layer = self.transpose_for_scores(self.key(encoder_hidden_states))
value_layer = self.transpose_for_scores(self.value(encoder_hidden_states))
attention_mask = encoder_attention_mask
elif past_key_value is not None:
key_layer = self.transpose_for_scores(self.key(hidden_states))
value_layer = self.transpose_for_scores(self.value(hidden_states))
key_layer = tf.concat([past_key_value[0], key_layer], axis=2)
value_layer = tf.concat([past_key_value[1], value_layer], axis=2)
else:
key_layer = self.transpose_for_scores(self.key(hidden_states))
value_layer = self.transpose_for_scores(self.value(hidden_states))
query_layer = self.transpose_for_scores(mixed_query_layer)
# Matt: Our BERT model (which this code was derived from) scales attention logits down by sqrt(head_dim).
# ESM scales the query down by the same factor instead. Modulo numerical stability these are equivalent,
# but not when rotary embeddings get involved. Therefore, we scale the query here to match the original
# ESM code and fix rotary embeddings.
query_layer = query_layer * self.attention_head_size**-0.5
if self.is_decoder:
# if cross_attention save Tuple(tf.Tensor, tf.Tensor) of all cross attention key/value_states.
# Further calls to cross_attention layer can then reuse all cross-attention
# key/value_states (first "if" case)
# if uni-directional self-attention (decoder) save Tuple(tf.Tensor, tf.Tensor) of
# all previous decoder key/value_states. Further calls to uni-directional self-attention
# can concat previous decoder key/value_states to current projected key/value_states (third "elif" case)
# if encoder bi-directional self-attention `past_key_value` is always `None`
past_key_value = (key_layer, value_layer)
if self.position_embedding_type == "rotary":
query_layer, key_layer = self.rotary_embeddings(query_layer, key_layer)
# Take the dot product between "query" and "key" to get the raw attention scores.
attention_scores = tf.matmul(query_layer, key_layer, transpose_b=True)
if self.position_embedding_type == "relative_key" or self.position_embedding_type == "relative_key_query":
seq_length = shape_list(hidden_states)[1]
position_ids_l = tf.expand_dims(tf.range(seq_length, dtype=tf.int64), -1)
position_ids_r = tf.expand_dims(tf.range(seq_length, dtype=tf.int64), 0)
distance = position_ids_l - position_ids_r
positional_embedding = self.distance_embedding(distance + self.max_position_embeddings - 1)
positional_embedding = tf.cast(positional_embedding, query_layer.dtype) # fp16 compatibility
if self.position_embedding_type == "relative_key":
relative_position_scores = tf.einsum("bhld,lrd->bhlr", query_layer, positional_embedding)
attention_scores = attention_scores + relative_position_scores
elif self.position_embedding_type == "relative_key_query":
relative_position_scores_query = tf.einsum("bhld,lrd->bhlr", query_layer, positional_embedding)
relative_position_scores_key = tf.einsum("bhrd,lrd->bhlr", key_layer, positional_embedding)
attention_scores = attention_scores + relative_position_scores_query + relative_position_scores_key
if attention_mask is not None:
# Apply the attention mask is (precomputed for all layers in EsmModel forward() function)
attention_scores = attention_scores + attention_mask
# Normalize the attention scores to probabilities.
attention_probs = stable_softmax(attention_scores, axis=-1)
# This is actually dropping out entire tokens to attend to, which might
# seem a bit unusual, but is taken from the original Transformer paper.
attention_probs = self.dropout(attention_probs, training=training)
# Mask heads if we want to
if head_mask is not None:
attention_probs = attention_probs * head_mask
context_layer = attention_probs @ value_layer
context_layer = tf.transpose(context_layer, perm=(0, 2, 1, 3))
new_context_layer_shape = shape_list(context_layer)[:-2] + [self.all_head_size]
context_layer = tf.reshape(context_layer, new_context_layer_shape)
outputs = (context_layer, attention_probs) if output_attentions else (context_layer,)
if self.is_decoder:
outputs = outputs + (past_key_value,)
return outputs
class TFEsmSelfOutput(Layer):
def __init__(self, config, name=None):
super().__init__(name=name)
self.dense = Dense(
config.hidden_size, kernel_initializer=get_initializer(config.initializer_range), name="dense"
)
self.dropout = Dropout(config.hidden_dropout_prob)
def call(self, hidden_states, input_tensor, training=False):
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states, training=training)
hidden_states += input_tensor
return hidden_states
class TFEsmAttention(Layer):
def __init__(self, config, name=None):
super().__init__(name=name)
self.self = TFEsmSelfAttention(config, name="self")
self.output_layer = TFEsmSelfOutput(config, name="output")
self.pruned_heads = set()
self.LayerNorm = LayerNormalization(epsilon=config.layer_norm_eps, name="LayerNorm")
def prune_heads(self, heads):
raise NotImplementedError
def call(
self,
hidden_states,
attention_mask=None,
head_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
past_key_value=None,
output_attentions=False,
training=False,
):
hidden_states_ln = self.LayerNorm(hidden_states)
self_outputs = self.self(
hidden_states_ln,
attention_mask,
head_mask,
encoder_hidden_states,
encoder_attention_mask,
past_key_value,
output_attentions,
training,
)
attention_output = self.output_layer(self_outputs[0], hidden_states)
outputs = (attention_output,) + self_outputs[1:] # add attentions if we output them
return outputs
class TFEsmIntermediate(tf.keras.layers.Layer):
def __init__(self, config: EsmConfig, **kwargs):
super().__init__(**kwargs)
self.dense = tf.keras.layers.Dense(
units=config.intermediate_size,
kernel_initializer=get_initializer(config.initializer_range),
name="dense",
)
def call(self, hidden_states: tf.Tensor) -> tf.Tensor:
hidden_states = self.dense(inputs=hidden_states)
hidden_states = tf.nn.gelu(hidden_states)
return hidden_states
class TFEsmOutput(Layer):
def __init__(self, config, name=None):
super().__init__(name=name)
self.dense = Dense(
config.hidden_size, kernel_initializer=get_initializer(config.initializer_range), name="dense"
)
self.dropout = Dropout(config.hidden_dropout_prob)
def call(self, hidden_states, input_tensor, training=False):
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states, training=training)
hidden_states += input_tensor
return hidden_states
class TFEsmLayer(Layer):
def __init__(self, config, name=None):
super().__init__(name=name)
self.chunk_size_feed_forward = config.chunk_size_feed_forward
self.seq_len_dim = 1
self.attention = TFEsmAttention(config, name="attention")
self.is_decoder = config.is_decoder
self.add_cross_attention = config.add_cross_attention
if self.add_cross_attention:
if not self.is_decoder:
raise RuntimeError(f"{self} should be used as a decoder model if cross attention is added")
self.crossattention = TFEsmAttention(config)
self.intermediate = TFEsmIntermediate(config, name="intermediate")
self.output_layer = TFEsmOutput(config, name="output")
self.LayerNorm = LayerNormalization(epsilon=config.layer_norm_eps, name="LayerNorm")
def call(
self,
hidden_states,
attention_mask=None,
head_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
past_key_value=None,
output_attentions=False,
training=False,
):
# decoder uni-directional self-attention cached key/values tuple is at positions 1,2
self_attn_past_key_value = past_key_value[:2] if past_key_value is not None else None
self_attention_outputs = self.attention(
hidden_states,
attention_mask,
head_mask,
output_attentions=output_attentions,
past_key_value=self_attn_past_key_value,
training=training,
)
attention_output = self_attention_outputs[0]
# if decoder, the last output is tuple of self-attn cache
if self.is_decoder:
outputs = self_attention_outputs[1:-1]
present_key_value = self_attention_outputs[-1]
else:
outputs = self_attention_outputs[1:] # add self attentions if we output attention weights
cross_attn_present_key_value = None
if self.is_decoder and encoder_hidden_states is not None:
if not hasattr(self, "crossattention"):
raise AttributeError(
f"If `encoder_hidden_states` are passed, {self} has to be instantiated"
" with cross-attention layers by setting `config.add_cross_attention=True`"
)
# cross_attn cached key/values tuple is at positions 3,4 of past_key_value tuple
cross_attn_past_key_value = past_key_value[-2:] if past_key_value is not None else None
cross_attention_outputs = self.crossattention(
attention_output,
attention_mask,
head_mask,
encoder_hidden_states,
encoder_attention_mask,
cross_attn_past_key_value,
output_attentions,
training=training,
)
attention_output = cross_attention_outputs[0]
outputs = outputs + cross_attention_outputs[1:-1] # add cross attentions if we output attention weights
# add cross-attn cache to positions 3,4 of present_key_value tuple
cross_attn_present_key_value = cross_attention_outputs[-1]
present_key_value = present_key_value + cross_attn_present_key_value
layernorm_output = self.LayerNorm(attention_output)
intermediate_output = self.intermediate(hidden_states=layernorm_output)
layer_output = self.output_layer(
hidden_states=intermediate_output, input_tensor=attention_output, training=training
)
outputs = (layer_output,) + outputs # add attentions if we output them
# if decoder, return the attn key/values as the last output
if self.is_decoder:
outputs = outputs + (present_key_value,)
return outputs
class TFEsmEncoder(Layer):
def __init__(self, config, name=None):
super().__init__(name=name)
self.config = config
self.layer = [TFEsmLayer(config, name=f"layer_._{i}") for i in range(config.num_hidden_layers)]
self.emb_layer_norm_after = LayerNormalization(epsilon=config.layer_norm_eps, name="emb_layer_norm_after")
def call(
self,
hidden_states,
attention_mask=None,
head_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
past_key_values=None,
use_cache=None,
output_attentions=False,
output_hidden_states=False,
return_dict=True,
training=False,
):
all_hidden_states = () if output_hidden_states else None
all_self_attentions = () if output_attentions else None
all_cross_attentions = () if output_attentions and self.config.add_cross_attention else None
next_decoder_cache = () if use_cache else None
for i, layer_module in enumerate(self.layer):
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
layer_head_mask = head_mask[i] if head_mask is not None else None
past_key_value = past_key_values[i] if past_key_values is not None else None
layer_outputs = layer_module(
hidden_states,
attention_mask,
layer_head_mask,
encoder_hidden_states,
encoder_attention_mask,
past_key_value,
output_attentions,
training,
)
hidden_states = layer_outputs[0]
if use_cache:
next_decoder_cache += (layer_outputs[-1],)
if output_attentions:
all_self_attentions = all_self_attentions + (layer_outputs[1],)
if self.config.add_cross_attention:
all_cross_attentions = all_cross_attentions + (layer_outputs[2],)
if self.emb_layer_norm_after:
hidden_states = self.emb_layer_norm_after(hidden_states)
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
if not return_dict:
return tuple(
v
for v in [
hidden_states,
next_decoder_cache,
all_hidden_states,
all_self_attentions,
all_cross_attentions,
]
if v is not None
)
return TFBaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
past_key_values=next_decoder_cache,
hidden_states=all_hidden_states,
attentions=all_self_attentions,
cross_attentions=all_cross_attentions,
)
# Copied from transformers.models.bert.modeling_tf_bert.TFBertPooler with Bert->Esm
class TFEsmPooler(tf.keras.layers.Layer):
def __init__(self, config: EsmConfig, **kwargs):
super().__init__(**kwargs)
self.dense = tf.keras.layers.Dense(
units=config.hidden_size,
kernel_initializer=get_initializer(config.initializer_range),
activation="tanh",
name="dense",
)
def call(self, hidden_states: tf.Tensor) -> tf.Tensor:
# We "pool" the model by simply taking the hidden state corresponding
# to the first token.
first_token_tensor = hidden_states[:, 0]
pooled_output = self.dense(inputs=first_token_tensor)
return pooled_output
class TFEsmPreTrainedModel(TFPreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
config_class = EsmConfig
base_model_prefix = "esm"
ESM_START_DOCSTRING = r"""
This model inherits from [`TFPreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a Keras [Model](https://www.tensorflow.org/api_docs/python/tf/keras/Model) subclass. Use it as a
regular Keras model and refer to the TF/Keras documentation for all matters related to general usage and behavior.
Parameters:
config ([`EsmConfig`]): Model configuration class with all the parameters of the
model. Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~TFPreTrainedModel.from_pretrained`] method to load the model weights.
"""
ESM_INPUTS_DOCSTRING = r"""
Args:
input_ids (`tf.Tensor` of shape `({0})`):
Indices of input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`tf.Tensor` of shape `({0})`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
position_ids (`tf.Tensor` of shape `({0})`, *optional*):
Indices of positions of each input sequence tokens in the position embeddings. Selected in the range `[0,
config.max_position_embeddings - 1]`.
[What are position IDs?](../glossary#position-ids)
head_mask (`tf.Tensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
inputs_embeds (`tf.Tensor` of shape `({0}, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation. This
is useful if you want more control over how to convert `input_ids` indices into associated vectors than the
model's internal embedding lookup matrix.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~file_utils.ModelOutput`] instead of a plain tuple.
"""
@add_start_docstrings(
"The bare ESM Model transformer outputting raw hidden-states without any specific head on top.",
ESM_START_DOCSTRING,
)
class TFEsmMainLayer(Layer):
"""
The model can behave as an encoder (with only self-attention) as well as a decoder, in which case a layer of
cross-attention is added between the self-attention layers, following the architecture described in [Attention is
all you need](https://arxiv.org/abs/1706.03762) by Ashish Vaswani, Noam Shazeer, Niki Parmar, Jakob Uszkoreit,
Llion Jones, Aidan N. Gomez, Lukasz Kaiser and Illia Polosukhin.
To behave as an decoder the model needs to be initialized with the `is_decoder` argument of the configuration set
to `True`. To be used in a Seq2Seq model, the model needs to initialized with both `is_decoder` argument and
`add_cross_attention` set to `True`; an `encoder_hidden_states` is then expected as an input to the forward pass.
"""
_keys_to_ignore_on_load_missing = [r"position_ids"]
def __init__(self, config, add_pooling_layer=True, name=None, **kwargs):
super().__init__(name=name, **kwargs)
self.config = config
self.is_decoder = config.is_decoder
self.embeddings = TFEsmEmbeddings(config, name="embeddings")
self.encoder = TFEsmEncoder(config, name="encoder")
self.pooler = TFEsmPooler(config, name="pooler") if add_pooling_layer else None
self.contact_head = TFEsmContactPredictionHead(
in_features=self.config.num_hidden_layers * self.config.num_attention_heads, bias=True, name="contact_head"
)
def build(self, input_shape):
super().build(input_shape)
with tf.name_scope("contact_head"):
self.contact_head.build(input_shape)
def get_input_embeddings(self):
return self.embeddings.word_embeddings
def set_input_embeddings(self, value: tf.Variable):
self.embeddings.word_embeddings.weight = value
self.embeddings.vocab_size = shape_list(value)[0]
def _prune_heads(self, heads_to_prune):
raise NotImplementedError
def call(
self,
input_ids: TFModelInputType | None = None,
attention_mask: np.ndarray | tf.Tensor | None = None,
position_ids: np.ndarray | tf.Tensor | None = None,
head_mask: np.ndarray | tf.Tensor | None = None,
inputs_embeds: np.ndarray | tf.Tensor | None = None,
encoder_hidden_states: np.ndarray | tf.Tensor | None = None,
encoder_attention_mask: np.ndarray | tf.Tensor | None = None,
past_key_values: Optional[Tuple[Tuple[Union[np.ndarray, tf.Tensor]]]] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
training: bool = False,
) -> Union[TFBaseModelOutputWithPoolingAndCrossAttentions, Tuple[tf.Tensor]]:
if not self.config.is_decoder:
use_cache = False
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both input_ids and inputs_embeds at the same time")
elif input_ids is not None:
input_shape = shape_list(input_ids)
elif inputs_embeds is not None:
input_shape = shape_list(inputs_embeds)[:-1]
else:
raise ValueError("You have to specify either input_ids or inputs_embeds")
batch_size, seq_length = input_shape
if past_key_values is None:
past_key_values_length = 0
past_key_values = [None] * len(self.encoder.layer)
else:
past_key_values_length = shape_list(past_key_values[0][0])[-2]
if attention_mask is None:
attention_mask = tf.fill(dims=(batch_size, seq_length + past_key_values_length), value=1)
embedding_output = self.embeddings(
input_ids=input_ids,
attention_mask=attention_mask,
position_ids=position_ids,
inputs_embeds=inputs_embeds,
past_key_values_length=past_key_values_length,
training=training,
)
# We create a 3D attention mask from a 2D tensor mask.
# Sizes are [batch_size, 1, 1, to_seq_length]
# So we can broadcast to [batch_size, num_heads, from_seq_length, to_seq_length]
# this attention mask is more simple than the triangular masking of causal attention
# used in OpenAI GPT, we just need to prepare the broadcast dimension here.
attention_mask_shape = shape_list(attention_mask)
mask_seq_length = seq_length + past_key_values_length
# Copied from `modeling_tf_t5.py`
# Provided a padding mask of dimensions [batch_size, mask_seq_length]
# - if the model is a decoder, apply a causal mask in addition to the padding mask
# - if the model is an encoder, make the mask broadcastable to [batch_size, num_heads, mask_seq_length, mask_seq_length]
if self.is_decoder:
seq_ids = tf.range(mask_seq_length)
causal_mask = tf.less_equal(
tf.tile(seq_ids[None, None, :], (batch_size, mask_seq_length, 1)),
seq_ids[None, :, None],
)
causal_mask = tf.cast(causal_mask, dtype=attention_mask.dtype)
extended_attention_mask = causal_mask * attention_mask[:, None, :]
attention_mask_shape = shape_list(extended_attention_mask)
extended_attention_mask = tf.reshape(
extended_attention_mask, (attention_mask_shape[0], 1, attention_mask_shape[1], attention_mask_shape[2])
)
if past_key_values[0] is not None:
# attention_mask needs to be sliced to the shape `[batch_size, 1, from_seq_length - cached_seq_length, to_seq_length]
extended_attention_mask = extended_attention_mask[:, :, -seq_length:, :]
else:
extended_attention_mask = tf.reshape(
attention_mask, (attention_mask_shape[0], 1, 1, attention_mask_shape[1])
)
# Since attention_mask is 1.0 for positions we want to attend and 0.0 for
# masked positions, this operation will create a tensor which is 0.0 for
# positions we want to attend and -10000.0 for masked positions.
# Since we are adding it to the raw scores before the softmax, this is
# effectively the same as removing these entirely.
extended_attention_mask = tf.cast(extended_attention_mask, dtype=embedding_output.dtype)
one_cst = tf.constant(1.0, dtype=embedding_output.dtype)
ten_thousand_cst = tf.constant(-10000.0, dtype=embedding_output.dtype)
extended_attention_mask = tf.multiply(tf.subtract(one_cst, extended_attention_mask), ten_thousand_cst)
# Copied from `modeling_tf_t5.py` with -1e9 -> -10000
if self.is_decoder and encoder_attention_mask is not None:
# If a 2D ou 3D attention mask is provided for the cross-attention
# we need to make broadcastable to [batch_size, num_heads, mask_seq_length, mask_seq_length]
# we need to make broadcastable to [batch_size, num_heads, seq_length, seq_length]
encoder_attention_mask = tf.cast(encoder_attention_mask, dtype=extended_attention_mask.dtype)
num_dims_encoder_attention_mask = len(shape_list(encoder_attention_mask))
if num_dims_encoder_attention_mask == 3:
encoder_extended_attention_mask = encoder_attention_mask[:, None, :, :]
if num_dims_encoder_attention_mask == 2:
encoder_extended_attention_mask = encoder_attention_mask[:, None, None, :]
# T5 has a mask that can compare sequence ids, we can simulate this here with this transposition
# Cf. https://github.com/tensorflow/mesh/blob/8d2465e9bc93129b913b5ccc6a59aa97abd96ec6/mesh_tensorflow/transformer/transformer_layers.py#L270
# encoder_extended_attention_mask = tf.math.equal(encoder_extended_attention_mask,
# tf.transpose(encoder_extended_attention_mask, perm=(-1, -2)))
encoder_extended_attention_mask = (1.0 - encoder_extended_attention_mask) * -10000.0
else:
encoder_extended_attention_mask = None
# Prepare head mask if needed
# 1.0 in head_mask indicate we keep the head
# attention_probs has shape bsz x n_heads x N x N
# input head_mask has shape [num_heads] or [num_hidden_layers x num_heads]
# and head_mask is converted to shape [num_hidden_layers x batch x num_heads x seq_length x seq_length]
if head_mask is not None:
raise NotImplementedError
else:
head_mask = [None] * self.config.num_hidden_layers
encoder_outputs = self.encoder(
hidden_states=embedding_output,
attention_mask=extended_attention_mask,
head_mask=head_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_extended_attention_mask,
past_key_values=past_key_values,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
training=training,
)
sequence_output = encoder_outputs[0]
pooled_output = self.pooler(hidden_states=sequence_output) if self.pooler is not None else None
if not return_dict:
return (
sequence_output,
pooled_output,
) + encoder_outputs[1:]
return TFBaseModelOutputWithPoolingAndCrossAttentions(
last_hidden_state=sequence_output,
pooler_output=pooled_output,
past_key_values=encoder_outputs.past_key_values,
hidden_states=encoder_outputs.hidden_states,
attentions=encoder_outputs.attentions,
cross_attentions=encoder_outputs.cross_attentions,
)
def predict_contacts(self, tokens, attention_mask):
attns = self(tokens, attention_mask=attention_mask, return_dict=True, output_attentions=True).attentions
attns = tf.stack(attns, axis=1) # Matches the original model layout
# In the original model, attentions for padding tokens are completely zeroed out.
# This makes no difference most of the time because the other tokens won't attend to them,
# but it does for the contact prediction task, which takes attentions as input,
# so we have to mimic that here.
attention_mask = tf.cast(attention_mask, attns.dtype)
attns *= attention_mask[:, None, None, None]
attns *= attention_mask[:, None, None, :, None]
return self.contact_head(tokens, attns)
@add_start_docstrings(
"The bare ESM Model transformer outputting raw hidden-states without any specific head on top.",
ESM_START_DOCSTRING,
)
class TFEsmModel(TFEsmPreTrainedModel):
def __init__(self, config: EsmConfig, add_pooling_layer=True, *inputs, **kwargs):
super().__init__(config, *inputs, **kwargs)
self.esm = TFEsmMainLayer(config, add_pooling_layer=add_pooling_layer, name="esm")
@unpack_inputs
@add_start_docstrings_to_model_forward(ESM_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=TFBaseModelOutputWithPoolingAndCrossAttentions,
config_class=_CONFIG_FOR_DOC,
)
def call(
self,
input_ids: TFModelInputType | None = None,
attention_mask: np.ndarray | tf.Tensor | None = None,
position_ids: np.ndarray | tf.Tensor | None = None,
head_mask: np.ndarray | tf.Tensor | None = None,
inputs_embeds: np.ndarray | tf.Tensor | None = None,
encoder_hidden_states: np.ndarray | tf.Tensor | None = None,
encoder_attention_mask: np.ndarray | tf.Tensor | None = None,
past_key_values: Optional[Tuple[Tuple[Union[np.ndarray, tf.Tensor]]]] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
training: Optional[bool] = False,
) -> Union[TFBaseModelOutputWithPoolingAndCrossAttentions, Tuple[tf.Tensor]]:
r"""
encoder_hidden_states (`tf.Tensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention if
the model is configured as a decoder.
encoder_attention_mask (`tf.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on the padding token indices of the encoder input. This mask is used in
the cross-attention if the model is configured as a decoder. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
past_key_values (`Tuple[Tuple[tf.Tensor]]` of length `config.n_layers`)
contains precomputed key and value hidden states of the attention blocks. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
use_cache (`bool`, *optional*, defaults to `True`):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`). Set to `False` during training, `True` during generation
"""
outputs = self.esm(
input_ids=input_ids,
attention_mask=attention_mask,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
past_key_values=past_key_values,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
training=training,
)
return outputs
def predict_contacts(self, tokens, attention_mask):
return self.esm.predict_contacts(tokens, attention_mask)
@add_start_docstrings("""ESM Model with a `language modeling` head on top.""", ESM_START_DOCSTRING)
class TFEsmForMaskedLM(TFEsmPreTrainedModel, TFMaskedLanguageModelingLoss):
_keys_to_ignore_on_load_missing = [r"position_ids"]
_keys_to_ignore_on_load_unexpected = [r"pooler"]
def __init__(self, config):
super().__init__(config)
if config.is_decoder:
logger.warning(
"If you want to use `EsmForMaskedLM` make sure `config.is_decoder=False` for "
"bi-directional self-attention."
)
self.esm = TFEsmMainLayer(config, add_pooling_layer=False, name="esm")
self.lm_head = TFEsmLMHead(config, name="lm_head")
if config.tie_word_embeddings:
# Ensure word embeddings are built so that we actually have something to tie
with tf.name_scope(os.path.join(self._name_scope(), "esm", "embeddings", "word_embeddings")):
self.esm.embeddings.word_embeddings.build((None, None))
self.lm_head.decoder = self.esm.embeddings.word_embeddings.weights[0]
def get_output_embeddings(self):
return self.lm_head.decoder
def set_output_embeddings(self, new_embeddings):
self.lm_head.decoder = new_embeddings
def get_lm_head(self):
return self.lm_head
@unpack_inputs
@add_start_docstrings_to_model_forward(ESM_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=TFMaskedLMOutput,
config_class=_CONFIG_FOR_DOC,
mask="<mask>",
)
def call(
self,
input_ids: TFModelInputType | None = None,
attention_mask: np.ndarray | tf.Tensor | None = None,
position_ids: np.ndarray | tf.Tensor | None = None,
head_mask: np.ndarray | tf.Tensor | None = None,
inputs_embeds: np.ndarray | tf.Tensor | None = None,
encoder_hidden_states: np.ndarray | tf.Tensor | None = None,
encoder_attention_mask: np.ndarray | tf.Tensor | None = None,
labels: np.ndarray | tf.Tensor | None = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
training: bool = False,
) -> Union[TFMaskedLMOutput, Tuple[tf.Tensor]]:
r"""
labels (`tf.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the masked language modeling loss. Indices should be in `[-100, 0, ...,
config.vocab_size]` (see `input_ids` docstring) Tokens with indices set to `-100` are ignored (masked), the
loss is only computed for the tokens with labels in `[0, ..., config.vocab_size]`
kwargs (`Dict[str, any]`, optional, defaults to *{}*):
Used to hide legacy arguments that have been deprecated.
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.esm(
input_ids,
attention_mask=attention_mask,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
training=training,
)
sequence_output = outputs[0]
prediction_scores = self.lm_head(sequence_output)
masked_lm_loss = None
if labels is not None:
masked_lm_loss = self.hf_compute_loss(labels=labels, logits=prediction_scores)
if not return_dict:
output = (prediction_scores,) + outputs[2:]
return ((masked_lm_loss,) + output) if masked_lm_loss is not None else output
return TFMaskedLMOutput(
loss=masked_lm_loss,
logits=prediction_scores,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
def predict_contacts(self, tokens, attention_mask):
return self.esm.predict_contacts(tokens, attention_mask)
class TFEsmLMHead(Layer):
"""ESM Head for masked language modeling."""
def __init__(self, config, name=None):
super().__init__(name=name)
self.dense = Dense(
config.hidden_size, kernel_initializer=get_initializer(config.initializer_range), name="dense"
)
self.layer_norm = LayerNormalization(epsilon=config.layer_norm_eps, name="layer_norm")
if config.tie_word_embeddings:
self.decoder = None
else:
self.decoder = Dense(
config.vocab_size,
kernel_initializer=get_initializer(config.initializer_range),
name="decoder",
use_bias=False,
)
self.config = config
def build(self, input_shape):
super().build(input_shape)
# Separate bias to match the PT model and allow weight cross-loading to work
# Put it in the build so it gets the right name when adding it as a weight
self.bias = self.add_weight("bias", shape=(self.config.vocab_size,), initializer="zeros", trainable=True)
def get_bias(self):
return {"bias": self.bias}
def call(self, features):
x = self.dense(features)
x = gelu(x)
x = self.layer_norm(x)
# project back to size of vocabulary with bias
if self.config.tie_word_embeddings:
x = tf.matmul(x, self.decoder, transpose_b=True) + self.bias
else:
x = self.decoder(x) + self.bias
return x
@add_start_docstrings(
"""
ESM Model transformer with a sequence classification/regression head on top (a linear layer on top of the pooled
output) e.g. for GLUE tasks.
""",
ESM_START_DOCSTRING,
)
class TFEsmForSequenceClassification(TFEsmPreTrainedModel, TFSequenceClassificationLoss):
_keys_to_ignore_on_load_missing = [r"position_ids"]
def __init__(self, config):
super().__init__(config)
self.num_labels = config.num_labels
self.config = config
self.esm = TFEsmMainLayer(config, add_pooling_layer=False, name="esm")
self.classifier = TFEsmClassificationHead(config, name="classifier")
@unpack_inputs
@add_start_docstrings_to_model_forward(ESM_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=TFSequenceClassifierOutput,
config_class=_CONFIG_FOR_DOC,
)
def call(
self,
input_ids: TFModelInputType | None = None,
attention_mask: np.ndarray | tf.Tensor | None = None,
position_ids: np.ndarray | tf.Tensor | None = None,
head_mask: np.ndarray | tf.Tensor | None = None,
inputs_embeds: np.ndarray | tf.Tensor | None = None,
labels: np.ndarray | tf.Tensor | None = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
training: bool = False,
) -> Union[TFSequenceClassifierOutput, Tuple[tf.Tensor]]:
r"""
labels (`tf.Tensor` of shape `(batch_size,)`, *optional*):
Labels for computing the sequence classification/regression loss. Indices should be in `[0, ...,
config.num_labels - 1]`. If `config.num_labels == 1` a regression loss is computed (Mean-Square loss), If
`config.num_labels > 1` a classification loss is computed (Cross-Entropy).
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.esm(
input_ids,
attention_mask=attention_mask,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
training=training,
)
sequence_output = outputs[0]
logits = self.classifier(sequence_output)
loss = None if labels is None else self.hf_compute_loss(labels, logits)
if not return_dict:
output = (logits,) + outputs[2:]
return ((loss,) + output) if loss is not None else output
return TFSequenceClassifierOutput(
loss=loss,
logits=logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings(
"""
ESM Model with a token classification head on top (a linear layer on top of the hidden-states output) e.g. for
Named-Entity-Recognition (NER) tasks.
""",
ESM_START_DOCSTRING,
)
class TFEsmForTokenClassification(TFEsmPreTrainedModel, TFTokenClassificationLoss):
_keys_to_ignore_on_load_unexpected = [r"pooler"]
_keys_to_ignore_on_load_missing = [r"position_ids"]
def __init__(self, config):
super().__init__(config)
self.num_labels = config.num_labels
self.esm = TFEsmMainLayer(config, add_pooling_layer=False, name="esm")
self.dropout = Dropout(config.hidden_dropout_prob)
self.classifier = Dense(config.num_labels, name="classifier")
@unpack_inputs
@add_start_docstrings_to_model_forward(ESM_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=TFTokenClassifierOutput,
config_class=_CONFIG_FOR_DOC,
)
def call(
self,
input_ids: TFModelInputType | None = None,
attention_mask: np.ndarray | tf.Tensor | None = None,
position_ids: np.ndarray | tf.Tensor | None = None,
head_mask: np.ndarray | tf.Tensor | None = None,
inputs_embeds: np.ndarray | tf.Tensor | None = None,
labels: np.ndarray | tf.Tensor | None = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
training: bool = False,
) -> Union[TFTokenClassifierOutput, Tuple[tf.Tensor]]:
r"""
labels (`tf.Tensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the token classification loss. Indices should be in `[0, ..., config.num_labels - 1]`.
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.esm(
input_ids,
attention_mask=attention_mask,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
training=training,
)
sequence_output = outputs[0]
sequence_output = self.dropout(sequence_output, training=training)
logits = self.classifier(sequence_output)
loss = None if labels is None else self.hf_compute_loss(labels, logits)
if not return_dict:
output = (logits,) + outputs[2:]
return ((loss,) + output) if loss is not None else output
return TFTokenClassifierOutput(
loss=loss,
logits=logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
class TFEsmClassificationHead(Layer):
"""Head for sentence-level classification tasks."""
def __init__(self, config, name=None):
super().__init__(name=name)
self.dense = Dense(
config.hidden_size,
kernel_initializer=get_initializer(config.initializer_range),
activation="tanh",
name="dense",
)
self.dropout = Dropout(config.hidden_dropout_prob)
self.out_proj = Dense(
config.num_labels,
kernel_initializer=get_initializer(config.initializer_range),
activation="linear",
name="out_proj",
)
def call(self, features, training=False):
x = features[:, 0, :] # take <s> token (equiv. to [CLS])
x = self.dropout(x, training=training)
x = self.dense(x)
x = self.dropout(x, training=training)
x = self.out_proj(x)
return x
def create_position_ids_from_input_ids(input_ids, padding_idx, past_key_values_length=0):
"""
Replace non-padding symbols with their position numbers. Position numbers begin at padding_idx+1. Padding symbols
are ignored. This is modified from fairseq's `utils.make_positions`.
Args:
x: tf.Tensor x:
Returns: tf.Tensor
"""
# The series of casts and type-conversions here are carefully balanced to both work with ONNX export and XLA.
mask = tf.cast(input_ids != padding_idx, tf.int64)
incremental_indices = (tf.cumsum(mask, axis=1) + past_key_values_length) * mask
return incremental_indices + padding_idx
| transformers-main | src/transformers/models/esm/modeling_tf_esm.py |
# coding=utf-8
# Copyright 2022 Meta and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" ESM model configuration"""
from dataclasses import asdict, dataclass
from typing import Optional
from ...configuration_utils import PretrainedConfig
from ...utils import logging
logger = logging.get_logger(__name__)
# TODO Update this
ESM_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"facebook/esm-1b": "https://huggingface.co/facebook/esm-1b/resolve/main/config.json",
# See all ESM models at https://huggingface.co/models?filter=esm
}
class EsmConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`ESMModel`]. It is used to instantiate a ESM model
according to the specified arguments, defining the model architecture. Instantiating a configuration with the
defaults will yield a similar configuration to that of the ESM
[facebook/esm-1b](https://huggingface.co/facebook/esm-1b) architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
vocab_size (`int`, *optional*):
Vocabulary size of the ESM model. Defines the number of different tokens that can be represented by the
`inputs_ids` passed when calling [`ESMModel`].
mask_token_id (`int`, *optional*):
The index of the mask token in the vocabulary. This must be included in the config because of the
"mask-dropout" scaling trick, which will scale the inputs depending on the number of masked tokens.
pad_token_id (`int`, *optional*):
The index of the padding token in the vocabulary. This must be included in the config because certain parts
of the ESM code use this instead of the attention mask.
hidden_size (`int`, *optional*, defaults to 768):
Dimensionality of the encoder layers and the pooler layer.
num_hidden_layers (`int`, *optional*, defaults to 12):
Number of hidden layers in the Transformer encoder.
num_attention_heads (`int`, *optional*, defaults to 12):
Number of attention heads for each attention layer in the Transformer encoder.
intermediate_size (`int`, *optional*, defaults to 3072):
Dimensionality of the "intermediate" (often named feed-forward) layer in the Transformer encoder.
hidden_dropout_prob (`float`, *optional*, defaults to 0.1):
The dropout probability for all fully connected layers in the embeddings, encoder, and pooler.
attention_probs_dropout_prob (`float`, *optional*, defaults to 0.1):
The dropout ratio for the attention probabilities.
max_position_embeddings (`int`, *optional*, defaults to 1026):
The maximum sequence length that this model might ever be used with. Typically set this to something large
just in case (e.g., 512 or 1024 or 2048).
initializer_range (`float`, *optional*, defaults to 0.02):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
layer_norm_eps (`float`, *optional*, defaults to 1e-12):
The epsilon used by the layer normalization layers.
position_embedding_type (`str`, *optional*, defaults to `"absolute"`):
Type of position embedding. Choose one of `"absolute"`, `"relative_key"`, `"relative_key_query", "rotary"`.
For positional embeddings use `"absolute"`. For more information on `"relative_key"`, please refer to
[Self-Attention with Relative Position Representations (Shaw et al.)](https://arxiv.org/abs/1803.02155).
For more information on `"relative_key_query"`, please refer to *Method 4* in [Improve Transformer Models
with Better Relative Position Embeddings (Huang et al.)](https://arxiv.org/abs/2009.13658).
is_decoder (`bool`, *optional*, defaults to `False`):
Whether the model is used as a decoder or not. If `False`, the model is used as an encoder.
use_cache (`bool`, *optional*, defaults to `True`):
Whether or not the model should return the last key/values attentions (not used by all models). Only
relevant if `config.is_decoder=True`.
emb_layer_norm_before (`bool`, *optional*):
Whether to apply layer normalization after embeddings but before the main stem of the network.
token_dropout (`bool`, defaults to `False`):
When this is enabled, masked tokens are treated as if they had been dropped out by input dropout.
Examples:
```python
>>> from transformers import EsmModel, EsmConfig
>>> # Initializing a ESM facebook/esm-1b style configuration >>> configuration = EsmConfig()
>>> # Initializing a model from the configuration >>> model = ESMModel(configuration)
>>> # Accessing the model configuration >>> configuration = model.config
```"""
model_type = "esm"
def __init__(
self,
vocab_size=None,
mask_token_id=None,
pad_token_id=None,
hidden_size=768,
num_hidden_layers=12,
num_attention_heads=12,
intermediate_size=3072,
hidden_dropout_prob=0.1,
attention_probs_dropout_prob=0.1,
max_position_embeddings=1026,
initializer_range=0.02,
layer_norm_eps=1e-12,
position_embedding_type="absolute",
use_cache=True,
emb_layer_norm_before=None,
token_dropout=False,
is_folding_model=False,
esmfold_config=None,
vocab_list=None,
**kwargs,
):
super().__init__(pad_token_id=pad_token_id, mask_token_id=mask_token_id, **kwargs)
self.vocab_size = vocab_size
self.hidden_size = hidden_size
self.num_hidden_layers = num_hidden_layers
self.num_attention_heads = num_attention_heads
self.intermediate_size = intermediate_size
self.hidden_dropout_prob = hidden_dropout_prob
self.attention_probs_dropout_prob = attention_probs_dropout_prob
self.max_position_embeddings = max_position_embeddings
self.initializer_range = initializer_range
self.layer_norm_eps = layer_norm_eps
self.position_embedding_type = position_embedding_type
self.use_cache = use_cache
self.emb_layer_norm_before = emb_layer_norm_before
self.token_dropout = token_dropout
self.is_folding_model = is_folding_model
if is_folding_model:
if esmfold_config is None:
logger.info("No esmfold_config supplied for folding model, using default values.")
esmfold_config = EsmFoldConfig()
elif isinstance(esmfold_config, dict):
esmfold_config = EsmFoldConfig(**esmfold_config)
self.esmfold_config = esmfold_config
if vocab_list is None:
logger.warning("No vocab_list supplied for folding model, assuming the ESM-2 vocabulary!")
self.vocab_list = get_default_vocab_list()
else:
self.vocab_list = vocab_list
else:
self.esmfold_config = None
self.vocab_list = None
if self.esmfold_config is not None and getattr(self.esmfold_config, "use_esm_attn_map", False):
raise ValueError("The HuggingFace port of ESMFold does not support use_esm_attn_map at this time!")
def to_dict(self):
"""
Serializes this instance to a Python dictionary. Override the default [`~PretrainedConfig.to_dict`].
Returns:
`Dict[str, any]`: Dictionary of all the attributes that make up this configuration instance,
"""
output = super().to_dict()
if isinstance(self.esmfold_config, EsmFoldConfig):
output["esmfold_config"] = self.esmfold_config.to_dict()
return output
@dataclass
class EsmFoldConfig:
esm_type: str = None
fp16_esm: bool = True
use_esm_attn_map: bool = False
esm_ablate_pairwise: bool = False
esm_ablate_sequence: bool = False
esm_input_dropout: float = 0
embed_aa: bool = True
bypass_lm: bool = False
lddt_head_hid_dim: int = 128
trunk: "TrunkConfig" = None
def __post_init__(self):
if self.trunk is None:
self.trunk = TrunkConfig()
elif isinstance(self.trunk, dict):
self.trunk = TrunkConfig(**self.trunk)
def to_dict(self):
"""
Serializes this instance to a Python dictionary. Override the default [`~PretrainedConfig.to_dict`].
Returns:
`Dict[str, any]`: Dictionary of all the attributes that make up this configuration instance,
"""
output = asdict(self)
output["trunk"] = self.trunk.to_dict()
return output
@dataclass
class TrunkConfig:
num_blocks: int = 48
sequence_state_dim: int = 1024
pairwise_state_dim: int = 128
sequence_head_width: int = 32
pairwise_head_width: int = 32
position_bins: int = 32
dropout: float = 0
layer_drop: float = 0
cpu_grad_checkpoint: bool = False
max_recycles: int = 4
chunk_size: Optional[int] = 128
structure_module: "StructureModuleConfig" = None
def __post_init__(self):
if self.structure_module is None:
self.structure_module = StructureModuleConfig()
elif isinstance(self.structure_module, dict):
self.structure_module = StructureModuleConfig(**self.structure_module)
if self.max_recycles <= 0:
raise ValueError(f"`max_recycles` should be positive, got {self.max_recycles}.")
if self.sequence_state_dim % self.sequence_state_dim != 0:
raise ValueError(
"`sequence_state_dim` should be a round multiple of `sequence_state_dim`, got"
f" {self.sequence_state_dim} and {self.sequence_state_dim}."
)
if self.pairwise_state_dim % self.pairwise_state_dim != 0:
raise ValueError(
"`pairwise_state_dim` should be a round multiple of `pairwise_state_dim`, got"
f" {self.pairwise_state_dim} and {self.pairwise_state_dim}."
)
sequence_num_heads = self.sequence_state_dim // self.sequence_head_width
pairwise_num_heads = self.pairwise_state_dim // self.pairwise_head_width
if self.sequence_state_dim != sequence_num_heads * self.sequence_head_width:
raise ValueError(
"`sequence_state_dim` should be equal to `sequence_num_heads * sequence_head_width, got"
f" {self.sequence_state_dim} != {sequence_num_heads} * {self.sequence_head_width}."
)
if self.pairwise_state_dim != pairwise_num_heads * self.pairwise_head_width:
raise ValueError(
"`pairwise_state_dim` should be equal to `pairwise_num_heads * pairwise_head_width, got"
f" {self.pairwise_state_dim} != {pairwise_num_heads} * {self.pairwise_head_width}."
)
if self.pairwise_state_dim % 2 != 0:
raise ValueError(f"`pairwise_state_dim` should be even, got {self.pairwise_state_dim}.")
if self.dropout >= 0.4:
raise ValueError(f"`dropout` should not be greater than 0.4, got {self.dropout}.")
def to_dict(self):
"""
Serializes this instance to a Python dictionary. Override the default [`~PretrainedConfig.to_dict`].
Returns:
`Dict[str, any]`: Dictionary of all the attributes that make up this configuration instance,
"""
output = asdict(self)
output["structure_module"] = self.structure_module.to_dict()
return output
@dataclass
class StructureModuleConfig:
"""
Args:
sequence_dim:
Single representation channel dimension
pairwise_dim:
Pair representation channel dimension
ipa_dim:
IPA hidden channel dimension
resnet_dim:
Angle resnet (Alg. 23 lines 11-14) hidden channel dimension
num_heads_ipa:
Number of IPA heads
num_qk_points:
Number of query/key points to generate during IPA
num_v_points:
Number of value points to generate during IPA
dropout_rate:
Dropout rate used throughout the layer
num_blocks:
Number of structure module blocks
num_transition_layers:
Number of layers in the single representation transition (Alg. 23 lines 8-9)
num_resnet_blocks:
Number of blocks in the angle resnet
num_angles:
Number of angles to generate in the angle resnet
trans_scale_factor:
Scale of single representation transition hidden dimension
epsilon:
Small number used in angle resnet normalization
inf:
Large number used for attention masking
"""
sequence_dim: int = 384
pairwise_dim: int = 128
ipa_dim: int = 16
resnet_dim: int = 128
num_heads_ipa: int = 12
num_qk_points: int = 4
num_v_points: int = 8
dropout_rate: float = 0.1
num_blocks: int = 8
num_transition_layers: int = 1
num_resnet_blocks: int = 2
num_angles: int = 7
trans_scale_factor: int = 10
epsilon: float = 1e-8
inf: float = 1e5
def to_dict(self):
return asdict(self)
def get_default_vocab_list():
return (
"<cls>",
"<pad>",
"<eos>",
"<unk>",
"L",
"A",
"G",
"V",
"S",
"E",
"R",
"T",
"I",
"D",
"P",
"K",
"Q",
"N",
"F",
"Y",
"M",
"H",
"W",
"C",
"X",
"B",
"U",
"Z",
"O",
".",
"-",
"<null_1>",
"<mask>",
)
| transformers-main | src/transformers/models/esm/configuration_esm.py |
# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Convert ESM checkpoint."""
import argparse
import pathlib
from pathlib import Path
from tempfile import TemporaryDirectory
import esm as esm_module
import torch
from esm.esmfold.v1.misc import batch_encode_sequences as esmfold_encode_sequences
from esm.esmfold.v1.pretrained import esmfold_v1
from transformers.models.esm.configuration_esm import EsmConfig, EsmFoldConfig
from transformers.models.esm.modeling_esm import (
EsmForMaskedLM,
EsmForSequenceClassification,
EsmIntermediate,
EsmLayer,
EsmOutput,
EsmSelfAttention,
EsmSelfOutput,
)
from transformers.models.esm.modeling_esmfold import EsmForProteinFolding
from transformers.models.esm.tokenization_esm import EsmTokenizer
from transformers.utils import logging
logging.set_verbosity_info()
logger = logging.get_logger(__name__)
SAMPLE_DATA = [
(
"protein1",
"MNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA",
),
("protein2", "MKTVRQERLKSIVRILERSKEPVSGAQLAEELSVSRQVIVQDIAYLRSLGYNIVATPRGYVLA"),
("protein3", "MKTVRQERLKSI<mask>RILERSKEPVSGAQLAEELS<mask>SRQVIVQDIAYLRSLGYN<mask>VATPRGYVLAGG"),
("protein4", "MKTVRQERLKSI<mask>RILERSKEPVSGAQLAEELS<mask>SRQVIVQDIAYLRSLGYN<mask>VATPRGYVLA"),
]
MODEL_MAPPING = {
"esm1b_t33_650M_UR50S": esm_module.pretrained.esm1b_t33_650M_UR50S,
"esm1v_t33_650M_UR90S_1": esm_module.pretrained.esm1v_t33_650M_UR90S_1,
"esm1v_t33_650M_UR90S_2": esm_module.pretrained.esm1v_t33_650M_UR90S_2,
"esm1v_t33_650M_UR90S_3": esm_module.pretrained.esm1v_t33_650M_UR90S_3,
"esm1v_t33_650M_UR90S_4": esm_module.pretrained.esm1v_t33_650M_UR90S_4,
"esm1v_t33_650M_UR90S_5": esm_module.pretrained.esm1v_t33_650M_UR90S_5,
"esm2_t48_15B_UR50D": esm_module.pretrained.esm2_t48_15B_UR50D,
"esm2_t36_3B_UR50D": esm_module.pretrained.esm2_t36_3B_UR50D,
"esm2_t33_650M_UR50D": esm_module.pretrained.esm2_t33_650M_UR50D,
"esm2_t30_150M_UR50D": esm_module.pretrained.esm2_t30_150M_UR50D,
"esm2_t12_35M_UR50D": esm_module.pretrained.esm2_t12_35M_UR50D,
"esm2_t6_8M_UR50D": esm_module.pretrained.esm2_t6_8M_UR50D,
"esmfold_v1": esmfold_v1,
}
restypes = list("ARNDCQEGHILKMFPSTWYV")
restypes_with_x = restypes + ["X"]
restypes_with_extras = restypes_with_x + ["<pad>", "<mask>", "<cls>", "<sep>", "<eos>"]
def get_esmfold_tokenizer():
with TemporaryDirectory() as tempdir:
vocab = "\n".join(restypes_with_extras)
vocab_file = Path(tempdir) / "vocab.txt"
vocab_file.write_text(vocab)
hf_tokenizer = EsmTokenizer(vocab_file=str(vocab_file))
hf_tokenizer.pad_token_id = 0 # Overlaps with 'A' but that seems to be what they want
return hf_tokenizer
def transfer_and_check_weights(original_module, our_module):
status = our_module.load_state_dict(original_module.state_dict())
if status.missing_keys:
raise ValueError(f"Missing keys: {status.missing_keys}")
if status.unexpected_keys:
raise ValueError(f"Unexpected keys: {status.unexpected_keys}")
def convert_esm_checkpoint_to_pytorch(
model: str, pytorch_dump_folder_path: str, classification_head: bool, push_to_repo: str, auth_token: str
):
"""
Copy/paste/tweak esm's weights to our BERT structure.
"""
if model.startswith("esmfold"):
esm = MODEL_MAPPING[model]()
else:
esm, alphabet = MODEL_MAPPING[model]()
esm.eval() # disable dropout
if model.startswith("esmfold"):
embed_dim = esm.esm.embed_dim
num_layers = esm.esm.num_layers
num_attention_heads = esm.esm.attention_heads
intermediate_size = 4 * embed_dim
token_dropout = esm.esm.token_dropout
emb_layer_norm_before = False # This code path does not exist in ESM-2
position_embedding_type = "rotary"
is_folding_model = True
esmfold_config = EsmFoldConfig()
for key, val in esm.cfg.items():
if hasattr(esmfold_config, key) and key != "trunk":
setattr(esmfold_config, key, val)
for key, val in esm.cfg.trunk.items():
if hasattr(esmfold_config.trunk, key) and key != "structure_module":
setattr(esmfold_config.trunk, key, val)
for key, val in esm.cfg.trunk.structure_module.items():
if hasattr(esmfold_config.trunk.structure_module, key):
setattr(esmfold_config.trunk.structure_module, key, val)
elif hasattr(esm, "args"):
# Indicates an ESM-1b or ESM-1v model
embed_dim = esm.args.embed_dim
num_layers = esm.args.layers
num_attention_heads = esm.args.attention_heads
intermediate_size = esm.args.ffn_embed_dim
token_dropout = esm.args.token_dropout
emb_layer_norm_before = True if esm.emb_layer_norm_before else False
position_embedding_type = "absolute"
is_folding_model = False
esmfold_config = None
else:
# Indicates an ESM-2 model
embed_dim = esm.embed_dim
num_layers = esm.num_layers
num_attention_heads = esm.attention_heads
intermediate_size = 4 * embed_dim # This is hardcoded in ESM-2
token_dropout = esm.token_dropout
emb_layer_norm_before = False # This code path does not exist in ESM-2
position_embedding_type = "rotary"
is_folding_model = False
esmfold_config = None
if is_folding_model:
alphabet = esm.esm.alphabet
vocab_list = tuple(alphabet.all_toks)
mask_token_id = alphabet.mask_idx
pad_token_id = alphabet.padding_idx
if is_folding_model:
original_esm_model = esm.esm
else:
original_esm_model = esm
config = EsmConfig(
vocab_size=original_esm_model.embed_tokens.num_embeddings,
mask_token_id=mask_token_id,
hidden_size=embed_dim,
num_hidden_layers=num_layers,
num_attention_heads=num_attention_heads,
intermediate_size=intermediate_size,
max_position_embeddings=1026,
layer_norm_eps=1e-5, # PyTorch default used in fairseq
attention_probs_dropout_prob=0.0,
hidden_dropout_prob=0.0,
pad_token_id=pad_token_id,
emb_layer_norm_before=emb_layer_norm_before,
token_dropout=token_dropout,
position_embedding_type=position_embedding_type,
is_folding_model=is_folding_model,
esmfold_config=esmfold_config,
vocab_list=vocab_list,
)
if classification_head:
config.num_labels = esm.classification_heads["mnli"].out_proj.weight.shape[0]
print("Our ESM config:", config)
if model.startswith("esmfold"):
model_class = EsmForProteinFolding
elif classification_head:
model_class = EsmForSequenceClassification
else:
model_class = EsmForMaskedLM
model = model_class(config)
model.eval()
# Now let's copy all the weights.
# Embeddings
model.esm.embeddings.word_embeddings.weight = original_esm_model.embed_tokens.weight
if position_embedding_type == "absolute":
model.esm.embeddings.position_embeddings.weight = original_esm_model.embed_positions.weight
if config.emb_layer_norm_before:
model.esm.embeddings.layer_norm.weight = original_esm_model.emb_layer_norm_before.weight
model.esm.embeddings.layer_norm.bias = original_esm_model.emb_layer_norm_before.bias
model.esm.encoder.emb_layer_norm_after.weight = original_esm_model.emb_layer_norm_after.weight
model.esm.encoder.emb_layer_norm_after.bias = original_esm_model.emb_layer_norm_after.bias
for i in range(config.num_hidden_layers):
# Encoder: start of layer
layer: EsmLayer = model.esm.encoder.layer[i]
# esm_layer: TransformerSentenceEncoderLayer = original_esm_model.layers[i]
esm_layer = original_esm_model.layers[i]
# self attention
self_attn: EsmSelfAttention = layer.attention.self
assert (
esm_layer.self_attn.k_proj.weight.data.shape
== esm_layer.self_attn.q_proj.weight.data.shape
== esm_layer.self_attn.v_proj.weight.data.shape
== torch.Size((config.hidden_size, config.hidden_size))
)
self_attn.query.weight.data = esm_layer.self_attn.q_proj.weight
self_attn.query.bias.data = esm_layer.self_attn.q_proj.bias
self_attn.key.weight.data = esm_layer.self_attn.k_proj.weight
self_attn.key.bias.data = esm_layer.self_attn.k_proj.bias
self_attn.value.weight.data = esm_layer.self_attn.v_proj.weight
self_attn.value.bias.data = esm_layer.self_attn.v_proj.bias
if getattr(esm_layer.self_attn, "rot_emb", None) is not None:
# Matt: Although inv_freq is not a trainable weight, it is computed at model init and cached.
# During the training of ESM-2 the model was converted to float16 precision, which also converts
# the inv_freq tensor, and the loss of precision remains even if the model is loaded later as float32.
# If we recompute inv_freq without this loss of precision then we will get subtly different rotary
# embeddings, which are enough to cause significant discrepancies in model outputs. To avoid this,
# we make sure the new model copies the data from the old inv_freq.
self_attn.rotary_embeddings.inv_freq.data = esm_layer.self_attn.rot_emb.inv_freq
# LayerNorm changes for pre-activation
layer.attention.LayerNorm.weight = esm_layer.self_attn_layer_norm.weight
layer.attention.LayerNorm.bias = esm_layer.self_attn_layer_norm.bias
layer.LayerNorm.weight = esm_layer.final_layer_norm.weight
layer.LayerNorm.bias = esm_layer.final_layer_norm.bias
# self-attention output
self_output: EsmSelfOutput = layer.attention.output
assert self_output.dense.weight.shape == esm_layer.self_attn.out_proj.weight.shape
self_output.dense.weight = esm_layer.self_attn.out_proj.weight
self_output.dense.bias = esm_layer.self_attn.out_proj.bias
# intermediate
intermediate: EsmIntermediate = layer.intermediate
assert intermediate.dense.weight.shape == esm_layer.fc1.weight.shape
intermediate.dense.weight = esm_layer.fc1.weight
intermediate.dense.bias = esm_layer.fc1.bias
# output
bert_output: EsmOutput = layer.output
assert bert_output.dense.weight.shape == esm_layer.fc2.weight.shape
bert_output.dense.weight = esm_layer.fc2.weight
bert_output.dense.bias = esm_layer.fc2.bias
# end of layer
if is_folding_model:
model.esm_s_combine.data = esm.esm_s_combine.data
model.af2_to_esm.data = esm.af2_to_esm.data
transfer_and_check_weights(esm.embedding, model.embedding)
transfer_and_check_weights(esm.esm_s_mlp, model.esm_s_mlp)
transfer_and_check_weights(esm.trunk, model.trunk)
transfer_and_check_weights(esm.distogram_head, model.distogram_head)
transfer_and_check_weights(esm.ptm_head, model.ptm_head)
transfer_and_check_weights(esm.lm_head, model.lm_head)
transfer_and_check_weights(esm.lddt_head, model.lddt_head)
elif classification_head:
model.classifier.dense.weight = esm.esm.classification_heads["mnli"].dense.weight
model.classifier.dense.bias = esm.classification_heads["mnli"].dense.bias
model.classifier.out_proj.weight = esm.classification_heads["mnli"].out_proj.weight
model.classifier.out_proj.bias = esm.classification_heads["mnli"].out_proj.bias
else:
# LM Head
model.lm_head.dense.weight = esm.lm_head.dense.weight
model.lm_head.dense.bias = esm.lm_head.dense.bias
model.lm_head.layer_norm.weight = esm.lm_head.layer_norm.weight
model.lm_head.layer_norm.bias = esm.lm_head.layer_norm.bias
model.lm_head.decoder.weight = esm.lm_head.weight
model.lm_head.bias = esm.lm_head.bias
# Contact prediction head
transfer_and_check_weights(esm.contact_head, model.esm.contact_head)
# Prepare data (first 2 sequences from ESMStructuralSplitDataset superfamily / 4)
if is_folding_model:
# Folding models aren't trained on masked inputs and don't like mask tokens.
sample_data = SAMPLE_DATA[:2]
else:
sample_data = SAMPLE_DATA
if is_folding_model:
hf_tokenizer = get_esmfold_tokenizer()
hf_tokens = hf_tokenizer(
[row[1] for row in sample_data], return_tensors="pt", padding=True, add_special_tokens=False
)
esmfold_aas, esmfold_mask, _, _, _ = esmfold_encode_sequences([row[1] for row in sample_data])
success = torch.all(hf_tokens["input_ids"] == esmfold_aas) and torch.all(
hf_tokens["attention_mask"] == esmfold_mask
)
else:
# Let's check that we get the same results.
batch_converter = alphabet.get_batch_converter()
batch_labels, batch_strs, batch_tokens = batch_converter(sample_data)
# Prepare tokenizer and make sure it matches
with TemporaryDirectory() as tempdir:
vocab = "\n".join(alphabet.all_toks)
vocab_file = Path(tempdir) / "vocab.txt"
vocab_file.write_text(vocab)
hf_tokenizer = EsmTokenizer(vocab_file=str(vocab_file))
hf_tokens = hf_tokenizer([row[1] for row in sample_data], return_tensors="pt", padding=True)
success = torch.all(hf_tokens["input_ids"] == batch_tokens)
print("Do both models tokenizers output the same tokens?", "🔥" if success else "💩")
if not success:
raise Exception("Tokenization does not match!")
with torch.no_grad():
if is_folding_model:
# Let's test the model in parts
# ESMFold always converts the ESM stem to float16, which requires float16 ops
# that don't exist on CPU. Therefore, to test it we need to run it on GPU. However,
# ESMFold is what we in the community call a "big boy" and so we desperately avoid putting both the
# original and the converted model on the GPU at the same time.
their_output = esm.cuda().infer([row[1] for row in sample_data])
our_output = model.cuda()(
input_ids=hf_tokens["input_ids"].cuda(), attention_mask=hf_tokens["attention_mask"].cuda()
)
else:
our_output = model(**hf_tokens, output_hidden_states=True)
our_output = our_output["logits"]
if classification_head:
their_output = esm.model.classification_heads["mnli"](esm.extract_features(batch_tokens))
else:
their_output = esm(hf_tokens["input_ids"], repr_layers=list(range(999)))
their_output = their_output["logits"]
if is_folding_model:
max_absolute_diff = torch.max(torch.abs(our_output["positions"] - their_output["positions"])).item()
success = torch.allclose(our_output["positions"], their_output["positions"], atol=1e-5)
else:
max_absolute_diff = torch.max(torch.abs(our_output - their_output)).item()
success = torch.allclose(our_output, their_output, atol=1e-5)
print(f"max_absolute_diff = {max_absolute_diff}") # ~ 1e-5
print("Do both models output the same tensors?", "🔥" if success else "💩")
if not success:
raise Exception("Something went wRoNg")
if not is_folding_model:
# Let's check contact prediction too
our_output = model.predict_contacts(hf_tokens["input_ids"], hf_tokens["attention_mask"])
their_output = esm.predict_contacts(hf_tokens["input_ids"])
max_absolute_diff = torch.max(torch.abs(our_output - their_output)).item()
success = torch.allclose(our_output, their_output, atol=1e-5)
print("Contact prediction testing:")
print(f"max_absolute_diff = {max_absolute_diff}") # ~ 1e-5
print("Do both models output the same tensors?", "🔥" if success else "💩")
if not success:
raise Exception("Something went wRoNg")
pathlib.Path(pytorch_dump_folder_path).mkdir(parents=True, exist_ok=True)
print(f"Saving model to {pytorch_dump_folder_path}")
model.save_pretrained(pytorch_dump_folder_path)
del esm # Free up some memory before continuing
print(f"Saving tokenizer to {pytorch_dump_folder_path}")
hf_tokenizer.save_pretrained(pytorch_dump_folder_path)
if push_to_repo:
model.push_to_hub(repo_id=push_to_repo, token_token=auth_token)
hf_tokenizer.push_to_hub(repo_id=push_to_repo, token_token=auth_token)
if __name__ == "__main__":
parser = argparse.ArgumentParser()
# Required parameters
parser.add_argument(
"--pytorch_dump_folder_path", type=str, required=True, help="Path to the output PyTorch model."
)
parser.add_argument(
"--classification_head", action="store_true", help="Whether to convert a final classification head."
)
parser.add_argument("--model", default=None, type=str, required=True, help="Name of model to convert.")
parser.add_argument("--push_to_repo", type=str, help="Repo to upload to (including username!).")
parser.add_argument("--auth_token", type=str, help="HuggingFace auth token.")
args = parser.parse_args()
convert_esm_checkpoint_to_pytorch(
args.model, args.pytorch_dump_folder_path, args.classification_head, args.push_to_repo, args.auth_token
)
| transformers-main | src/transformers/models/esm/convert_esm.py |
# Copyright 2022 Facebook and The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import OptionalDependencyNotAvailable, _LazyModule, is_tf_available, is_torch_available
_import_structure = {
"configuration_esm": ["ESM_PRETRAINED_CONFIG_ARCHIVE_MAP", "EsmConfig"],
"tokenization_esm": ["EsmTokenizer"],
}
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_esm"] = [
"ESM_PRETRAINED_MODEL_ARCHIVE_LIST",
"EsmForMaskedLM",
"EsmForSequenceClassification",
"EsmForTokenClassification",
"EsmModel",
"EsmPreTrainedModel",
]
_import_structure["modeling_esmfold"] = ["EsmForProteinFolding", "EsmFoldPreTrainedModel"]
try:
if not is_tf_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_tf_esm"] = [
"TF_ESM_PRETRAINED_MODEL_ARCHIVE_LIST",
"TFEsmForMaskedLM",
"TFEsmForSequenceClassification",
"TFEsmForTokenClassification",
"TFEsmModel",
"TFEsmPreTrainedModel",
]
if TYPE_CHECKING:
from .configuration_esm import ESM_PRETRAINED_CONFIG_ARCHIVE_MAP, EsmConfig
from .tokenization_esm import EsmTokenizer
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_esm import (
ESM_PRETRAINED_MODEL_ARCHIVE_LIST,
EsmForMaskedLM,
EsmForSequenceClassification,
EsmForTokenClassification,
EsmModel,
EsmPreTrainedModel,
)
from .modeling_esmfold import EsmFoldPreTrainedModel, EsmForProteinFolding
try:
if not is_tf_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_tf_esm import (
TF_ESM_PRETRAINED_MODEL_ARCHIVE_LIST,
TFEsmForMaskedLM,
TFEsmForSequenceClassification,
TFEsmForTokenClassification,
TFEsmModel,
TFEsmPreTrainedModel,
)
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure)
| transformers-main | src/transformers/models/esm/__init__.py |
# coding=utf-8
# Copyright 2022 Meta and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Tokenization classes for ESM."""
import os
from typing import List, Optional, Union
from ...tokenization_utils import PreTrainedTokenizer
from ...tokenization_utils_base import AddedToken
from ...utils import logging
logger = logging.get_logger(__name__)
VOCAB_FILES_NAMES = {"vocab_file": "vocab.txt"}
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"facebook/esm2_t6_8M_UR50D": "https://huggingface.co/facebook/esm2_t6_8M_UR50D/resolve/main/vocab.txt",
"facebook/esm2_t12_35M_UR50D": "https://huggingface.co/facebook/esm2_t12_35M_UR50D/resolve/main/vocab.txt",
},
}
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {
"facebook/esm2_t6_8M_UR50D": 1024,
"facebook/esm2_t12_35M_UR50D": 1024,
}
def load_vocab_file(vocab_file):
with open(vocab_file, "r") as f:
lines = f.read().splitlines()
return [l.strip() for l in lines]
class EsmTokenizer(PreTrainedTokenizer):
"""
Constructs an ESM tokenizer.
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
model_input_names = ["input_ids", "attention_mask"]
def __init__(
self,
vocab_file,
unk_token="<unk>",
cls_token="<cls>",
pad_token="<pad>",
mask_token="<mask>",
eos_token="<eos>",
**kwargs,
):
super().__init__(**kwargs)
self.all_tokens = load_vocab_file(vocab_file)
self._id_to_token = dict(enumerate(self.all_tokens))
self._token_to_id = {tok: ind for ind, tok in enumerate(self.all_tokens)}
self.unk_token = unk_token
self.cls_token = cls_token
self.pad_token = pad_token
self.mask_token = mask_token
self.eos_token = eos_token
self.unique_no_split_tokens = self.all_tokens
self._create_trie(self.unique_no_split_tokens)
def _convert_id_to_token(self, index: int) -> str:
return self._id_to_token.get(index, self.unk_token)
def _convert_token_to_id(self, token: str) -> int:
return self._token_to_id.get(token, self._token_to_id.get(self.unk_token))
def _tokenize(self, text, **kwargs):
return text.split()
def get_vocab_size(self, with_added_tokens=False):
return len(self._id_to_token)
def get_vocab(self):
return {token: i for i, token in enumerate(self.all_tokens)}
def token_to_id(self, token: str) -> int:
return self._token_to_id.get(token, self._token_to_id.get(self.unk_token))
def id_to_token(self, index: int) -> str:
return self._id_to_token.get(index, self.unk_token)
def build_inputs_with_special_tokens(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
cls = [self.cls_token_id]
sep = [self.eos_token_id] # No sep token in ESM vocabulary
if token_ids_1 is None:
if self.eos_token_id is None:
return cls + token_ids_0
else:
return cls + token_ids_0 + sep
elif self.eos_token_id is None:
raise ValueError("Cannot tokenize multiple sequences when EOS token is not set!")
return cls + token_ids_0 + sep + token_ids_1 + sep # Multiple inputs always have an EOS token
def get_special_tokens_mask(
self, token_ids_0: List, token_ids_1: Optional[List] = None, already_has_special_tokens: bool = False
) -> List[int]:
"""
Retrieves sequence ids from a token list that has no special tokens added. This method is called when adding
special tokens using the tokenizer `prepare_for_model` or `encode_plus` methods.
Args:
token_ids_0 (`List[int]`):
List of ids of the first sequence.
token_ids_1 (`List[int]`, *optional*):
List of ids of the second sequence.
already_has_special_tokens (`bool`, *optional*, defaults to `False`):
Whether or not the token list is already formatted with special tokens for the model.
Returns:
A list of integers in the range [0, 1]: 1 for a special token, 0 for a sequence token.
"""
if already_has_special_tokens:
if token_ids_1 is not None:
raise ValueError(
"You should not supply a second sequence if the provided sequence of "
"ids is already formatted with special tokens for the model."
)
return [1 if token in self.all_special_ids else 0 for token in token_ids_0]
mask = [1] + ([0] * len(token_ids_0)) + [1]
if token_ids_1 is not None:
mask += [0] * len(token_ids_1) + [1]
return mask
def save_vocabulary(self, save_directory, filename_prefix):
vocab_file = os.path.join(save_directory, (filename_prefix + "-" if filename_prefix else "") + "vocab.txt")
with open(vocab_file, "w") as f:
f.write("\n".join(self.all_tokens))
return (vocab_file,)
@property
def vocab_size(self) -> int:
return self.get_vocab_size(with_added_tokens=False)
def _add_tokens(self, new_tokens: Union[List[str], List[AddedToken]], special_tokens: bool = False) -> int:
return super()._add_tokens(new_tokens, special_tokens=True)
| transformers-main | src/transformers/models/esm/tokenization_esm.py |
# coding=utf-8
# Copyright 2022 Meta and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch ESM model."""
import math
from typing import List, Optional, Tuple, Union
import torch
import torch.utils.checkpoint
from torch import nn
from torch.nn import BCEWithLogitsLoss, CrossEntropyLoss, MSELoss
from ...file_utils import add_code_sample_docstrings, add_start_docstrings, add_start_docstrings_to_model_forward
from ...modeling_outputs import (
BaseModelOutputWithPastAndCrossAttentions,
BaseModelOutputWithPoolingAndCrossAttentions,
MaskedLMOutput,
SequenceClassifierOutput,
TokenClassifierOutput,
)
from ...modeling_utils import PreTrainedModel, find_pruneable_heads_and_indices, prune_linear_layer
from ...utils import logging
from .configuration_esm import EsmConfig
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "facebook/esm2_t6_8M_UR50D"
_CONFIG_FOR_DOC = "EsmConfig"
ESM_PRETRAINED_MODEL_ARCHIVE_LIST = [
"facebook/esm2_t6_8M_UR50D",
"facebook/esm2_t12_35M_UR50D",
# This is not a complete list of all ESM models!
# See all ESM models at https://huggingface.co/models?filter=esm
]
def rotate_half(x):
x1, x2 = x.chunk(2, dim=-1)
return torch.cat((-x2, x1), dim=-1)
def apply_rotary_pos_emb(x, cos, sin):
cos = cos[:, :, : x.shape[-2], :]
sin = sin[:, :, : x.shape[-2], :]
return (x * cos) + (rotate_half(x) * sin)
def gelu(x):
"""
This is the gelu implementation from the original ESM repo. Using F.gelu yields subtly wrong results.
"""
return x * 0.5 * (1.0 + torch.erf(x / math.sqrt(2.0)))
def symmetrize(x):
"Make layer symmetric in final two dimensions, used for contact prediction."
return x + x.transpose(-1, -2)
def average_product_correct(x):
"Perform average product correct, used for contact prediction."
a1 = x.sum(-1, keepdims=True)
a2 = x.sum(-2, keepdims=True)
a12 = x.sum((-1, -2), keepdims=True)
avg = a1 * a2
avg.div_(a12) # in-place to reduce memory
normalized = x - avg
return normalized
class RotaryEmbedding(torch.nn.Module):
"""
Rotary position embeddings based on those in
[RoFormer](https://huggingface.co/docs/transformers/model_doc/roformer). Query and keys are transformed by rotation
matrices which depend on their relative positions.
"""
def __init__(self, dim: int):
super().__init__()
# Generate and save the inverse frequency buffer (non trainable)
inv_freq = 1.0 / (10000 ** (torch.arange(0, dim, 2).float() / dim))
inv_freq = inv_freq
self.register_buffer("inv_freq", inv_freq)
self._seq_len_cached = None
self._cos_cached = None
self._sin_cached = None
def _update_cos_sin_tables(self, x, seq_dimension=2):
seq_len = x.shape[seq_dimension]
# Reset the tables if the sequence length has changed,
# or if we're on a new device (possibly due to tracing for instance)
if seq_len != self._seq_len_cached or self._cos_cached.device != x.device:
self._seq_len_cached = seq_len
t = torch.arange(x.shape[seq_dimension], device=x.device).type_as(self.inv_freq)
freqs = torch.outer(t, self.inv_freq)
emb = torch.cat((freqs, freqs), dim=-1).to(x.device)
self._cos_cached = emb.cos()[None, None, :, :]
self._sin_cached = emb.sin()[None, None, :, :]
return self._cos_cached, self._sin_cached
def forward(self, q: torch.Tensor, k: torch.Tensor) -> Tuple[torch.Tensor, torch.Tensor]:
self._cos_cached, self._sin_cached = self._update_cos_sin_tables(k, seq_dimension=-2)
return (
apply_rotary_pos_emb(q, self._cos_cached, self._sin_cached),
apply_rotary_pos_emb(k, self._cos_cached, self._sin_cached),
)
class EsmContactPredictionHead(nn.Module):
"""Performs symmetrization, apc, and computes a logistic regression on the output features"""
def __init__(
self,
in_features: int,
bias=True,
eos_idx: int = 2,
):
super().__init__()
self.in_features = in_features
self.eos_idx = eos_idx
self.regression = nn.Linear(in_features, 1, bias)
self.activation = nn.Sigmoid()
def forward(self, tokens, attentions):
# remove eos token attentions
eos_mask = tokens.ne(self.eos_idx).to(attentions)
eos_mask = eos_mask.unsqueeze(1) * eos_mask.unsqueeze(2)
attentions = attentions * eos_mask[:, None, None, :, :]
attentions = attentions[..., :-1, :-1]
# remove cls token attentions
attentions = attentions[..., 1:, 1:]
batch_size, layers, heads, seqlen, _ = attentions.size()
attentions = attentions.view(batch_size, layers * heads, seqlen, seqlen)
# features: batch x channels x tokens x tokens (symmetric)
attentions = attentions.to(
self.regression.weight.device
) # attentions always float32, may need to convert to float16
attentions = average_product_correct(symmetrize(attentions))
attentions = attentions.permute(0, 2, 3, 1)
return self.activation(self.regression(attentions).squeeze(3))
class EsmEmbeddings(nn.Module):
"""
Same as BertEmbeddings with a tiny tweak for positional embeddings indexing.
"""
def __init__(self, config):
super().__init__()
self.word_embeddings = nn.Embedding(config.vocab_size, config.hidden_size, padding_idx=config.pad_token_id)
if config.emb_layer_norm_before:
self.layer_norm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
else:
self.layer_norm = None
self.dropout = nn.Dropout(config.hidden_dropout_prob)
# position_ids (1, len position emb) is contiguous in memory and exported when serialized
self.position_embedding_type = getattr(config, "position_embedding_type", "absolute")
self.register_buffer(
"position_ids", torch.arange(config.max_position_embeddings).expand((1, -1)), persistent=False
)
self.padding_idx = config.pad_token_id
self.position_embeddings = nn.Embedding(
config.max_position_embeddings, config.hidden_size, padding_idx=self.padding_idx
)
self.token_dropout = config.token_dropout
self.mask_token_id = config.mask_token_id
def forward(
self, input_ids=None, attention_mask=None, position_ids=None, inputs_embeds=None, past_key_values_length=0
):
if position_ids is None:
if input_ids is not None:
# Create the position ids from the input token ids. Any padded tokens remain padded.
position_ids = create_position_ids_from_input_ids(input_ids, self.padding_idx, past_key_values_length)
else:
position_ids = self.create_position_ids_from_inputs_embeds(inputs_embeds)
if inputs_embeds is None:
inputs_embeds = self.word_embeddings(input_ids)
# Note that if we want to support ESM-1 (not 1b!) in future then we need to support an
# embedding_scale factor here.
embeddings = inputs_embeds
# Matt: ESM has the option to handle masking in MLM in a slightly unusual way. If the token_dropout
# flag is False then it is handled in the same was as BERT/RoBERTa. If it is set to True, however,
# masked tokens are treated as if they were selected for input dropout and zeroed out.
# This "mask-dropout" is compensated for when masked tokens are not present, by scaling embeddings by
# a factor of (fraction of unmasked tokens during training) / (fraction of unmasked tokens in sample).
# This is analogous to the way that dropout layers scale down outputs during evaluation when not
# actually dropping out values (or, equivalently, scale up their un-dropped outputs in training).
if self.token_dropout:
embeddings.masked_fill_((input_ids == self.mask_token_id).unsqueeze(-1), 0.0)
mask_ratio_train = 0.15 * 0.8 # Hardcoded as the ratio used in all ESM model training runs
src_lengths = attention_mask.sum(-1)
mask_ratio_observed = (input_ids == self.mask_token_id).sum(-1).float() / src_lengths
embeddings = (embeddings * (1 - mask_ratio_train) / (1 - mask_ratio_observed)[:, None, None]).to(
embeddings.dtype
)
if self.position_embedding_type == "absolute":
position_embeddings = self.position_embeddings(position_ids)
embeddings += position_embeddings
if self.layer_norm is not None:
embeddings = self.layer_norm(embeddings)
if attention_mask is not None:
embeddings = (embeddings * attention_mask.unsqueeze(-1)).to(embeddings.dtype)
# Matt: I think this line was copied incorrectly from BERT, disabling it for now.
# embeddings = self.dropout(embeddings)
return embeddings
def create_position_ids_from_inputs_embeds(self, inputs_embeds):
"""
We are provided embeddings directly. We cannot infer which are padded so just generate sequential position ids.
Args:
inputs_embeds: torch.Tensor
Returns: torch.Tensor
"""
input_shape = inputs_embeds.size()[:-1]
sequence_length = input_shape[1]
position_ids = torch.arange(
self.padding_idx + 1, sequence_length + self.padding_idx + 1, dtype=torch.long, device=inputs_embeds.device
)
return position_ids.unsqueeze(0).expand(input_shape)
class EsmSelfAttention(nn.Module):
def __init__(self, config, position_embedding_type=None):
super().__init__()
if config.hidden_size % config.num_attention_heads != 0 and not hasattr(config, "embedding_size"):
raise ValueError(
f"The hidden size ({config.hidden_size}) is not a multiple of the number of attention "
f"heads ({config.num_attention_heads})"
)
self.num_attention_heads = config.num_attention_heads
self.attention_head_size = int(config.hidden_size / config.num_attention_heads)
self.all_head_size = self.num_attention_heads * self.attention_head_size
self.query = nn.Linear(config.hidden_size, self.all_head_size)
self.key = nn.Linear(config.hidden_size, self.all_head_size)
self.value = nn.Linear(config.hidden_size, self.all_head_size)
self.dropout = nn.Dropout(config.attention_probs_dropout_prob)
self.position_embedding_type = position_embedding_type or getattr(
config, "position_embedding_type", "absolute"
)
self.rotary_embeddings = None
if self.position_embedding_type == "relative_key" or self.position_embedding_type == "relative_key_query":
self.max_position_embeddings = config.max_position_embeddings
self.distance_embedding = nn.Embedding(2 * config.max_position_embeddings - 1, self.attention_head_size)
elif self.position_embedding_type == "rotary":
self.rotary_embeddings = RotaryEmbedding(dim=self.attention_head_size)
self.is_decoder = config.is_decoder
def transpose_for_scores(self, x: torch.Tensor) -> torch.Tensor:
new_x_shape = x.size()[:-1] + (self.num_attention_heads, self.attention_head_size)
x = x.view(new_x_shape)
return x.permute(0, 2, 1, 3)
def forward(
self,
hidden_states: torch.Tensor,
attention_mask: Optional[torch.FloatTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
encoder_hidden_states: Optional[torch.FloatTensor] = None,
encoder_attention_mask: Optional[torch.FloatTensor] = None,
past_key_value: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
output_attentions: Optional[bool] = False,
) -> Tuple[torch.Tensor]:
mixed_query_layer = self.query(hidden_states)
# If this is instantiated as a cross-attention module, the keys
# and values come from an encoder; the attention mask needs to be
# such that the encoder's padding tokens are not attended to.
is_cross_attention = encoder_hidden_states is not None
if is_cross_attention and past_key_value is not None:
# reuse k,v, cross_attentions
key_layer = past_key_value[0]
value_layer = past_key_value[1]
attention_mask = encoder_attention_mask
elif is_cross_attention:
key_layer = self.transpose_for_scores(self.key(encoder_hidden_states))
value_layer = self.transpose_for_scores(self.value(encoder_hidden_states))
attention_mask = encoder_attention_mask
elif past_key_value is not None:
key_layer = self.transpose_for_scores(self.key(hidden_states))
value_layer = self.transpose_for_scores(self.value(hidden_states))
key_layer = torch.cat([past_key_value[0], key_layer], dim=2)
value_layer = torch.cat([past_key_value[1], value_layer], dim=2)
else:
key_layer = self.transpose_for_scores(self.key(hidden_states))
value_layer = self.transpose_for_scores(self.value(hidden_states))
query_layer = self.transpose_for_scores(mixed_query_layer)
# Matt: Our BERT model (which this code was derived from) scales attention logits down by sqrt(head_dim).
# ESM scales the query down by the same factor instead. Modulo numerical stability these are equivalent,
# but not when rotary embeddings get involved. Therefore, we scale the query here to match the original
# ESM code and fix rotary embeddings.
query_layer = query_layer * self.attention_head_size**-0.5
if self.is_decoder:
# if cross_attention save Tuple(torch.Tensor, torch.Tensor) of all cross attention key/value_states.
# Further calls to cross_attention layer can then reuse all cross-attention
# key/value_states (first "if" case)
# if uni-directional self-attention (decoder) save Tuple(torch.Tensor, torch.Tensor) of
# all previous decoder key/value_states. Further calls to uni-directional self-attention
# can concat previous decoder key/value_states to current projected key/value_states (third "elif" case)
# if encoder bi-directional self-attention `past_key_value` is always `None`
past_key_value = (key_layer, value_layer)
if self.position_embedding_type == "rotary":
query_layer, key_layer = self.rotary_embeddings(query_layer, key_layer)
# Take the dot product between "query" and "key" to get the raw attention scores.
attention_scores = torch.matmul(query_layer, key_layer.transpose(-1, -2))
if self.position_embedding_type == "relative_key" or self.position_embedding_type == "relative_key_query":
seq_length = hidden_states.size()[1]
position_ids_l = torch.arange(seq_length, dtype=torch.long, device=hidden_states.device).view(-1, 1)
position_ids_r = torch.arange(seq_length, dtype=torch.long, device=hidden_states.device).view(1, -1)
distance = position_ids_l - position_ids_r
positional_embedding = self.distance_embedding(distance + self.max_position_embeddings - 1)
positional_embedding = positional_embedding.to(dtype=query_layer.dtype) # fp16 compatibility
if self.position_embedding_type == "relative_key":
relative_position_scores = torch.einsum("bhld,lrd->bhlr", query_layer, positional_embedding)
attention_scores = attention_scores + relative_position_scores
elif self.position_embedding_type == "relative_key_query":
relative_position_scores_query = torch.einsum("bhld,lrd->bhlr", query_layer, positional_embedding)
relative_position_scores_key = torch.einsum("bhrd,lrd->bhlr", key_layer, positional_embedding)
attention_scores = attention_scores + relative_position_scores_query + relative_position_scores_key
if attention_mask is not None:
# Apply the attention mask is (precomputed for all layers in EsmModel forward() function)
attention_scores = attention_scores + attention_mask
# Normalize the attention scores to probabilities.
attention_probs = nn.functional.softmax(attention_scores, dim=-1)
# This is actually dropping out entire tokens to attend to, which might
# seem a bit unusual, but is taken from the original Transformer paper.
attention_probs = self.dropout(attention_probs)
# Mask heads if we want to
if head_mask is not None:
attention_probs = attention_probs * head_mask
context_layer = torch.matmul(attention_probs, value_layer)
context_layer = context_layer.permute(0, 2, 1, 3).contiguous()
new_context_layer_shape = context_layer.size()[:-2] + (self.all_head_size,)
context_layer = context_layer.view(new_context_layer_shape)
outputs = (context_layer, attention_probs) if output_attentions else (context_layer,)
if self.is_decoder:
outputs = outputs + (past_key_value,)
return outputs
class EsmSelfOutput(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.hidden_size)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
def forward(self, hidden_states, input_tensor):
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states)
hidden_states += input_tensor
return hidden_states
class EsmAttention(nn.Module):
def __init__(self, config):
super().__init__()
self.self = EsmSelfAttention(config)
self.output = EsmSelfOutput(config)
self.pruned_heads = set()
self.LayerNorm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
def prune_heads(self, heads):
if len(heads) == 0:
return
heads, index = find_pruneable_heads_and_indices(
heads, self.self.num_attention_heads, self.self.attention_head_size, self.pruned_heads
)
# Prune linear layers
self.self.query = prune_linear_layer(self.self.query, index)
self.self.key = prune_linear_layer(self.self.key, index)
self.self.value = prune_linear_layer(self.self.value, index)
self.output.dense = prune_linear_layer(self.output.dense, index, dim=1)
# Update hyper params and store pruned heads
self.self.num_attention_heads = self.self.num_attention_heads - len(heads)
self.self.all_head_size = self.self.attention_head_size * self.self.num_attention_heads
self.pruned_heads = self.pruned_heads.union(heads)
def forward(
self,
hidden_states,
attention_mask=None,
head_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
past_key_value=None,
output_attentions=False,
):
hidden_states_ln = self.LayerNorm(hidden_states)
self_outputs = self.self(
hidden_states_ln,
attention_mask,
head_mask,
encoder_hidden_states,
encoder_attention_mask,
past_key_value,
output_attentions,
)
attention_output = self.output(self_outputs[0], hidden_states)
outputs = (attention_output,) + self_outputs[1:] # add attentions if we output them
return outputs
class EsmIntermediate(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.intermediate_size)
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = gelu(hidden_states)
return hidden_states
class EsmOutput(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.intermediate_size, config.hidden_size)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
def forward(self, hidden_states, input_tensor):
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states)
hidden_states += input_tensor
return hidden_states
class EsmLayer(nn.Module):
def __init__(self, config):
super().__init__()
self.chunk_size_feed_forward = config.chunk_size_feed_forward
self.seq_len_dim = 1
self.attention = EsmAttention(config)
self.is_decoder = config.is_decoder
self.add_cross_attention = config.add_cross_attention
if self.add_cross_attention:
if not self.is_decoder:
raise RuntimeError(f"{self} should be used as a decoder model if cross attention is added")
self.crossattention = EsmAttention(config)
self.intermediate = EsmIntermediate(config)
self.output = EsmOutput(config)
self.LayerNorm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
def forward(
self,
hidden_states,
attention_mask=None,
head_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
past_key_value=None,
output_attentions=False,
):
# decoder uni-directional self-attention cached key/values tuple is at positions 1,2
self_attn_past_key_value = past_key_value[:2] if past_key_value is not None else None
self_attention_outputs = self.attention(
hidden_states,
attention_mask,
head_mask,
output_attentions=output_attentions,
past_key_value=self_attn_past_key_value,
)
attention_output = self_attention_outputs[0]
# if decoder, the last output is tuple of self-attn cache
if self.is_decoder:
outputs = self_attention_outputs[1:-1]
present_key_value = self_attention_outputs[-1]
else:
outputs = self_attention_outputs[1:] # add self attentions if we output attention weights
cross_attn_present_key_value = None
if self.is_decoder and encoder_hidden_states is not None:
if not hasattr(self, "crossattention"):
raise AttributeError(
f"If `encoder_hidden_states` are passed, {self} has to be instantiated"
" with cross-attention layers by setting `config.add_cross_attention=True`"
)
# cross_attn cached key/values tuple is at positions 3,4 of past_key_value tuple
cross_attn_past_key_value = past_key_value[-2:] if past_key_value is not None else None
cross_attention_outputs = self.crossattention(
attention_output,
attention_mask,
head_mask,
encoder_hidden_states,
encoder_attention_mask,
cross_attn_past_key_value,
output_attentions,
)
attention_output = cross_attention_outputs[0]
outputs = outputs + cross_attention_outputs[1:-1] # add cross attentions if we output attention weights
# add cross-attn cache to positions 3,4 of present_key_value tuple
cross_attn_present_key_value = cross_attention_outputs[-1]
present_key_value = present_key_value + cross_attn_present_key_value
layer_output = self.feed_forward_chunk(attention_output)
outputs = (layer_output,) + outputs
# if decoder, return the attn key/values as the last output
if self.is_decoder:
outputs = outputs + (present_key_value,)
return outputs
def feed_forward_chunk(self, attention_output):
attention_output_ln = self.LayerNorm(attention_output)
intermediate_output = self.intermediate(attention_output_ln)
layer_output = self.output(intermediate_output, attention_output)
return layer_output
class EsmEncoder(nn.Module):
def __init__(self, config):
super().__init__()
self.config = config
self.layer = nn.ModuleList([EsmLayer(config) for _ in range(config.num_hidden_layers)])
self.emb_layer_norm_after = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.gradient_checkpointing = False
def forward(
self,
hidden_states,
attention_mask=None,
head_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
past_key_values=None,
use_cache=None,
output_attentions=False,
output_hidden_states=False,
return_dict=True,
):
if self.gradient_checkpointing and self.training:
if use_cache:
logger.warning_once(
"`use_cache=True` is incompatible with `config.gradient_checkpointing=True`. Setting "
"`use_cache=False`..."
)
use_cache = False
all_hidden_states = () if output_hidden_states else None
all_self_attentions = () if output_attentions else None
all_cross_attentions = () if output_attentions and self.config.add_cross_attention else None
next_decoder_cache = () if use_cache else None
for i, layer_module in enumerate(self.layer):
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
layer_head_mask = head_mask[i] if head_mask is not None else None
past_key_value = past_key_values[i] if past_key_values is not None else None
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, past_key_value, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(layer_module),
hidden_states,
attention_mask,
layer_head_mask,
encoder_hidden_states,
encoder_attention_mask,
)
else:
layer_outputs = layer_module(
hidden_states,
attention_mask,
layer_head_mask,
encoder_hidden_states,
encoder_attention_mask,
past_key_value,
output_attentions,
)
hidden_states = layer_outputs[0]
if use_cache:
next_decoder_cache += (layer_outputs[-1],)
if output_attentions:
all_self_attentions = all_self_attentions + (layer_outputs[1],)
if self.config.add_cross_attention:
all_cross_attentions = all_cross_attentions + (layer_outputs[2],)
if self.emb_layer_norm_after:
hidden_states = self.emb_layer_norm_after(hidden_states)
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
if not return_dict:
return tuple(
v
for v in [
hidden_states,
next_decoder_cache,
all_hidden_states,
all_self_attentions,
all_cross_attentions,
]
if v is not None
)
return BaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
past_key_values=next_decoder_cache,
hidden_states=all_hidden_states,
attentions=all_self_attentions,
cross_attentions=all_cross_attentions,
)
# Copied from transformers.models.bert.modeling_bert.BertPooler
class EsmPooler(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.hidden_size)
self.activation = nn.Tanh()
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
# We "pool" the model by simply taking the hidden state corresponding
# to the first token.
first_token_tensor = hidden_states[:, 0]
pooled_output = self.dense(first_token_tensor)
pooled_output = self.activation(pooled_output)
return pooled_output
class EsmPreTrainedModel(PreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
config_class = EsmConfig
base_model_prefix = "esm"
_no_split_modules = ["EsmLayer", "EsmFoldTriangularSelfAttentionBlock", "EsmEmbeddings"]
# Copied from transformers.models.bert.modeling_bert.BertPreTrainedModel._init_weights
def _init_weights(self, module):
"""Initialize the weights"""
if isinstance(module, nn.Linear):
# Slightly different from the TF version which uses truncated_normal for initialization
# cf https://github.com/pytorch/pytorch/pull/5617
module.weight.data.normal_(mean=0.0, std=self.config.initializer_range)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=self.config.initializer_range)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
elif isinstance(module, nn.LayerNorm):
module.bias.data.zero_()
module.weight.data.fill_(1.0)
ESM_START_DOCSTRING = r"""
This model inherits from [`PreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading or saving, resizing the input embeddings, pruning heads
etc.)
This model is also a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) subclass.
Use it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage
and behavior.
Parameters:
config ([`EsmConfig`]): Model configuration class with all the parameters of the
model. Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
ESM_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `({0})`):
Indices of input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.FloatTensor` of shape `({0})`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
position_ids (`torch.LongTensor` of shape `({0})`, *optional*):
Indices of positions of each input sequence tokens in the position embeddings. Selected in the range `[0,
config.max_position_embeddings - 1]`.
[What are position IDs?](../glossary#position-ids)
head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
inputs_embeds (`torch.FloatTensor` of shape `({0}, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation. This
is useful if you want more control over how to convert `input_ids` indices into associated vectors than the
model's internal embedding lookup matrix.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~file_utils.ModelOutput`] instead of a plain tuple.
"""
@add_start_docstrings(
"The bare ESM Model transformer outputting raw hidden-states without any specific head on top.",
ESM_START_DOCSTRING,
)
class EsmModel(EsmPreTrainedModel):
"""
The model can behave as an encoder (with only self-attention) as well as a decoder, in which case a layer of
cross-attention is added between the self-attention layers, following the architecture described in [Attention is
all you need](https://arxiv.org/abs/1706.03762) by Ashish Vaswani, Noam Shazeer, Niki Parmar, Jakob Uszkoreit,
Llion Jones, Aidan N. Gomez, Lukasz Kaiser and Illia Polosukhin.
To behave as an decoder the model needs to be initialized with the `is_decoder` argument of the configuration set
to `True`. To be used in a Seq2Seq model, the model needs to initialized with both `is_decoder` argument and
`add_cross_attention` set to `True`; an `encoder_hidden_states` is then expected as an input to the forward pass.
"""
supports_gradient_checkpointing = False
def __init__(self, config, add_pooling_layer=True):
super().__init__(config)
self.config = config
self.embeddings = EsmEmbeddings(config)
self.encoder = EsmEncoder(config)
self.pooler = EsmPooler(config) if add_pooling_layer else None
self.contact_head = EsmContactPredictionHead(
in_features=config.num_hidden_layers * config.num_attention_heads, bias=True
)
# Initialize weights and apply final processing
self.post_init()
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, EsmEncoder):
module.gradient_checkpointing = value
def get_input_embeddings(self):
return self.embeddings.word_embeddings
def set_input_embeddings(self, value):
self.embeddings.word_embeddings = value
def _prune_heads(self, heads_to_prune):
"""
Prunes heads of the model. heads_to_prune: dict of {layer_num: list of heads to prune in this layer} See base
class PreTrainedModel
"""
for layer, heads in heads_to_prune.items():
self.encoder.layer[layer].attention.prune_heads(heads)
@add_start_docstrings_to_model_forward(ESM_INPUTS_DOCSTRING.format("(batch_size, sequence_length)"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=BaseModelOutputWithPoolingAndCrossAttentions,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.Tensor] = None,
attention_mask: Optional[torch.Tensor] = None,
position_ids: Optional[torch.Tensor] = None,
head_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.Tensor] = None,
encoder_hidden_states: Optional[torch.Tensor] = None,
encoder_attention_mask: Optional[torch.Tensor] = None,
past_key_values: Optional[List[torch.FloatTensor]] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple[torch.Tensor], BaseModelOutputWithPoolingAndCrossAttentions]:
r"""
encoder_hidden_states (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention if
the model is configured as a decoder.
encoder_attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on the padding token indices of the encoder input. This mask is used in
the cross-attention if the model is configured as a decoder. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
past_key_values (`tuple(tuple(torch.FloatTensor))` of length `config.n_layers` with each tuple having 4 tensors of shape `(batch_size, num_heads, sequence_length - 1, embed_size_per_head)`):
Contains precomputed key and value hidden states of the attention blocks. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if self.config.is_decoder:
use_cache = use_cache if use_cache is not None else self.config.use_cache
else:
use_cache = False
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both input_ids and inputs_embeds at the same time")
elif input_ids is not None:
self.warn_if_padding_and_no_attention_mask(input_ids, attention_mask)
input_shape = input_ids.size()
elif inputs_embeds is not None:
input_shape = inputs_embeds.size()[:-1]
else:
raise ValueError("You have to specify either input_ids or inputs_embeds")
batch_size, seq_length = input_shape
device = input_ids.device if input_ids is not None else inputs_embeds.device
# past_key_values_length
past_key_values_length = past_key_values[0][0].shape[2] if past_key_values is not None else 0
if attention_mask is None:
attention_mask = torch.ones(((batch_size, seq_length + past_key_values_length)), device=device)
# We can provide a self-attention mask of dimensions [batch_size, from_seq_length, to_seq_length]
# ourselves in which case we just need to make it broadcastable to all heads.
extended_attention_mask: torch.Tensor = self.get_extended_attention_mask(attention_mask, input_shape)
# If a 2D or 3D attention mask is provided for the cross-attention
# we need to make broadcastable to [batch_size, num_heads, seq_length, seq_length]
if self.config.is_decoder and encoder_hidden_states is not None:
encoder_batch_size, encoder_sequence_length, _ = encoder_hidden_states.size()
encoder_hidden_shape = (encoder_batch_size, encoder_sequence_length)
if encoder_attention_mask is None:
encoder_attention_mask = torch.ones(encoder_hidden_shape, device=device)
encoder_extended_attention_mask = self.invert_attention_mask(encoder_attention_mask)
else:
encoder_extended_attention_mask = None
# Prepare head mask if needed
# 1.0 in head_mask indicate we keep the head
# attention_probs has shape bsz x n_heads x N x N
# input head_mask has shape [num_heads] or [num_hidden_layers x num_heads]
# and head_mask is converted to shape [num_hidden_layers x batch x num_heads x seq_length x seq_length]
head_mask = self.get_head_mask(head_mask, self.config.num_hidden_layers)
embedding_output = self.embeddings(
input_ids=input_ids,
position_ids=position_ids,
attention_mask=attention_mask,
inputs_embeds=inputs_embeds,
past_key_values_length=past_key_values_length,
)
encoder_outputs = self.encoder(
embedding_output,
attention_mask=extended_attention_mask,
head_mask=head_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_extended_attention_mask,
past_key_values=past_key_values,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = encoder_outputs[0]
pooled_output = self.pooler(sequence_output) if self.pooler is not None else None
if not return_dict:
return (sequence_output, pooled_output) + encoder_outputs[1:]
return BaseModelOutputWithPoolingAndCrossAttentions(
last_hidden_state=sequence_output,
pooler_output=pooled_output,
past_key_values=encoder_outputs.past_key_values,
hidden_states=encoder_outputs.hidden_states,
attentions=encoder_outputs.attentions,
cross_attentions=encoder_outputs.cross_attentions,
)
def predict_contacts(self, tokens, attention_mask):
attns = self(tokens, attention_mask=attention_mask, return_dict=True, output_attentions=True).attentions
attns = torch.stack(attns, dim=1) # Matches the original model layout
# In the original model, attentions for padding tokens are completely zeroed out.
# This makes no difference most of the time because the other tokens won't attend to them,
# but it does for the contact prediction task, which takes attentions as input,
# so we have to mimic that here.
attns *= attention_mask.unsqueeze(1).unsqueeze(2).unsqueeze(3)
attns *= attention_mask.unsqueeze(1).unsqueeze(2).unsqueeze(4)
return self.contact_head(tokens, attns)
@add_start_docstrings("""ESM Model with a `language modeling` head on top.""", ESM_START_DOCSTRING)
class EsmForMaskedLM(EsmPreTrainedModel):
_tied_weights_keys = ["lm_head.decoder.weight"]
def __init__(self, config):
super().__init__(config)
if config.is_decoder:
logger.warning(
"If you want to use `EsmForMaskedLM` make sure `config.is_decoder=False` for "
"bi-directional self-attention."
)
self.esm = EsmModel(config, add_pooling_layer=False)
self.lm_head = EsmLMHead(config)
self.init_weights()
def get_output_embeddings(self):
return self.lm_head.decoder
def set_output_embeddings(self, new_embeddings):
self.lm_head.decoder = new_embeddings
@add_start_docstrings_to_model_forward(ESM_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=MaskedLMOutput,
config_class=_CONFIG_FOR_DOC,
mask="<mask>",
)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.Tensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
encoder_hidden_states: Optional[torch.FloatTensor] = None,
encoder_attention_mask: Optional[torch.Tensor] = None,
labels: Optional[torch.LongTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, MaskedLMOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the masked language modeling loss. Indices should be in `[-100, 0, ...,
config.vocab_size]` (see `input_ids` docstring) Tokens with indices set to `-100` are ignored (masked), the
loss is only computed for the tokens with labels in `[0, ..., config.vocab_size]`
kwargs (`Dict[str, any]`, optional, defaults to *{}*):
Used to hide legacy arguments that have been deprecated.
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.esm(
input_ids,
attention_mask=attention_mask,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
prediction_scores = self.lm_head(sequence_output)
masked_lm_loss = None
if labels is not None:
loss_fct = CrossEntropyLoss()
labels = labels.to(prediction_scores.device)
masked_lm_loss = loss_fct(prediction_scores.view(-1, self.config.vocab_size), labels.view(-1))
if not return_dict:
output = (prediction_scores,) + outputs[2:]
return ((masked_lm_loss,) + output) if masked_lm_loss is not None else output
return MaskedLMOutput(
loss=masked_lm_loss,
logits=prediction_scores,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
def predict_contacts(self, tokens, attention_mask):
return self.esm.predict_contacts(tokens, attention_mask=attention_mask)
class EsmLMHead(nn.Module):
"""ESM Head for masked language modeling."""
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.hidden_size)
self.layer_norm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.decoder = nn.Linear(config.hidden_size, config.vocab_size, bias=False)
self.bias = nn.Parameter(torch.zeros(config.vocab_size))
def forward(self, features, **kwargs):
x = self.dense(features)
x = gelu(x)
x = self.layer_norm(x)
# project back to size of vocabulary with bias
x = self.decoder(x) + self.bias
return x
@add_start_docstrings(
"""
ESM Model transformer with a sequence classification/regression head on top (a linear layer on top of the pooled
output) e.g. for GLUE tasks.
""",
ESM_START_DOCSTRING,
)
class EsmForSequenceClassification(EsmPreTrainedModel):
def __init__(self, config):
super().__init__(config)
self.num_labels = config.num_labels
self.config = config
self.esm = EsmModel(config, add_pooling_layer=False)
self.classifier = EsmClassificationHead(config)
self.init_weights()
@add_start_docstrings_to_model_forward(ESM_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=SequenceClassifierOutput,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.Tensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, SequenceClassifierOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for computing the sequence classification/regression loss. Indices should be in `[0, ...,
config.num_labels - 1]`. If `config.num_labels == 1` a regression loss is computed (Mean-Square loss), If
`config.num_labels > 1` a classification loss is computed (Cross-Entropy).
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.esm(
input_ids,
attention_mask=attention_mask,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
logits = self.classifier(sequence_output)
loss = None
if labels is not None:
labels = labels.to(logits.device)
if self.config.problem_type is None:
if self.num_labels == 1:
self.config.problem_type = "regression"
elif self.num_labels > 1 and (labels.dtype == torch.long or labels.dtype == torch.int):
self.config.problem_type = "single_label_classification"
else:
self.config.problem_type = "multi_label_classification"
if self.config.problem_type == "regression":
loss_fct = MSELoss()
if self.num_labels == 1:
loss = loss_fct(logits.squeeze(), labels.squeeze())
else:
loss = loss_fct(logits, labels)
elif self.config.problem_type == "single_label_classification":
loss_fct = CrossEntropyLoss()
loss = loss_fct(logits.view(-1, self.num_labels), labels.view(-1))
elif self.config.problem_type == "multi_label_classification":
loss_fct = BCEWithLogitsLoss()
loss = loss_fct(logits, labels)
if not return_dict:
output = (logits,) + outputs[2:]
return ((loss,) + output) if loss is not None else output
return SequenceClassifierOutput(
loss=loss,
logits=logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings(
"""
ESM Model with a token classification head on top (a linear layer on top of the hidden-states output) e.g. for
Named-Entity-Recognition (NER) tasks.
""",
ESM_START_DOCSTRING,
)
class EsmForTokenClassification(EsmPreTrainedModel):
def __init__(self, config):
super().__init__(config)
self.num_labels = config.num_labels
self.esm = EsmModel(config, add_pooling_layer=False)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
self.classifier = nn.Linear(config.hidden_size, config.num_labels)
self.init_weights()
@add_start_docstrings_to_model_forward(ESM_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=TokenClassifierOutput,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.Tensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.Tensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[Tuple, TokenClassifierOutput]:
r"""
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the token classification loss. Indices should be in `[0, ..., config.num_labels - 1]`.
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.esm(
input_ids,
attention_mask=attention_mask,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
sequence_output = self.dropout(sequence_output)
logits = self.classifier(sequence_output)
loss = None
if labels is not None:
loss_fct = CrossEntropyLoss()
labels = labels.to(logits.device)
loss = loss_fct(logits.view(-1, self.num_labels), labels.view(-1))
if not return_dict:
output = (logits,) + outputs[2:]
return ((loss,) + output) if loss is not None else output
return TokenClassifierOutput(
loss=loss,
logits=logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
class EsmClassificationHead(nn.Module):
"""Head for sentence-level classification tasks."""
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.hidden_size)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
self.out_proj = nn.Linear(config.hidden_size, config.num_labels)
def forward(self, features, **kwargs):
x = features[:, 0, :] # take <s> token (equiv. to [CLS])
x = self.dropout(x)
x = self.dense(x)
x = torch.tanh(x)
x = self.dropout(x)
x = self.out_proj(x)
return x
def create_position_ids_from_input_ids(input_ids, padding_idx, past_key_values_length=0):
"""
Replace non-padding symbols with their position numbers. Position numbers begin at padding_idx+1. Padding symbols
are ignored. This is modified from fairseq's `utils.make_positions`.
Args:
x: torch.Tensor x:
Returns: torch.Tensor
"""
# The series of casts and type-conversions here are carefully balanced to both work with ONNX export and XLA.
mask = input_ids.ne(padding_idx).int()
incremental_indices = (torch.cumsum(mask, dim=1).type_as(mask) + past_key_values_length) * mask
return incremental_indices.long() + padding_idx
| transformers-main | src/transformers/models/esm/modeling_esm.py |
# coding=utf-8
# Copyright 2022 Meta and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
import math
import sys
from dataclasses import dataclass
from functools import partial
from typing import Callable, Dict, List, Optional, Sequence, Tuple, Union
import numpy as np
import torch
import torch.nn as nn
from torch.nn import LayerNorm
from ...deepspeed import is_deepspeed_available
from ...modeling_outputs import ModelOutput
from ...utils import (
ContextManagers,
add_start_docstrings,
add_start_docstrings_to_model_forward,
is_scipy_available,
logging,
replace_return_docstrings,
)
from .configuration_esm import EsmConfig
from .modeling_esm import ESM_START_DOCSTRING, EsmModel, EsmPreTrainedModel
from .openfold_utils import (
OFProtein,
Rigid,
Rotation,
atom14_to_atom37,
chunk_layer,
compute_predicted_aligned_error,
compute_tm,
frames_and_literature_positions_to_atom14_pos,
make_atom14_masks,
residue_constants,
to_pdb,
torsion_angles_to_frames,
)
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "facebook/esmfold_v1"
_CONFIG_FOR_DOC = "EsmConfig"
@dataclass
class EsmForProteinFoldingOutput(ModelOutput):
"""
Output type of [`EsmForProteinFoldingOutput`].
Args:
frames (`torch.FloatTensor`):
Output frames.
sidechain_frames (`torch.FloatTensor`):
Output sidechain frames.
unnormalized_angles (`torch.FloatTensor`):
Predicted unnormalized backbone and side chain torsion angles.
angles (`torch.FloatTensor`):
Predicted backbone and side chain torsion angles.
positions (`torch.FloatTensor`):
Predicted positions of the backbone and side chain atoms.
states (`torch.FloatTensor`):
Hidden states from the protein folding trunk.
s_s (`torch.FloatTensor`):
Per-residue embeddings derived by concatenating the hidden states of each layer of the ESM-2 LM stem.
s_z (`torch.FloatTensor`):
Pairwise residue embeddings.
distogram_logits (`torch.FloatTensor`):
Input logits to the distogram used to compute residue distances.
lm_logits (`torch.FloatTensor`):
Logits output by the ESM-2 protein language model stem.
aatype (`torch.FloatTensor`):
Input amino acids (AlphaFold2 indices).
atom14_atom_exists (`torch.FloatTensor`):
Whether each atom exists in the atom14 representation.
residx_atom14_to_atom37 (`torch.FloatTensor`):
Mapping between atoms in the atom14 and atom37 representations.
residx_atom37_to_atom14 (`torch.FloatTensor`):
Mapping between atoms in the atom37 and atom14 representations.
atom37_atom_exists (`torch.FloatTensor`):
Whether each atom exists in the atom37 representation.
residue_index (`torch.FloatTensor`):
The index of each residue in the protein chain. Unless internal padding tokens are used, this will just be
a sequence of integers from 0 to `sequence_length`.
lddt_head (`torch.FloatTensor`):
Raw outputs from the lddt head used to compute plddt.
plddt (`torch.FloatTensor`):
Per-residue confidence scores. Regions of low confidence may indicate areas where the model's prediction is
uncertain, or where the protein structure is disordered.
ptm_logits (`torch.FloatTensor`):
Raw logits used for computing ptm.
ptm (`torch.FloatTensor`):
TM-score output representing the model's high-level confidence in the overall structure.
aligned_confidence_probs (`torch.FloatTensor`):
Per-residue confidence scores for the aligned structure.
predicted_aligned_error (`torch.FloatTensor`):
Predicted error between the model's prediction and the ground truth.
max_predicted_aligned_error (`torch.FloatTensor`):
Per-sample maximum predicted error.
"""
frames: torch.FloatTensor = None
sidechain_frames: torch.FloatTensor = None
unnormalized_angles: torch.FloatTensor = None
angles: torch.FloatTensor = None
positions: torch.FloatTensor = None
states: torch.FloatTensor = None
s_s: torch.FloatTensor = None
s_z: torch.FloatTensor = None
distogram_logits: torch.FloatTensor = None
lm_logits: torch.FloatTensor = None
aatype: torch.FloatTensor = None
atom14_atom_exists: torch.FloatTensor = None
residx_atom14_to_atom37: torch.FloatTensor = None
residx_atom37_to_atom14: torch.FloatTensor = None
atom37_atom_exists: torch.FloatTensor = None
residue_index: torch.FloatTensor = None
lddt_head: torch.FloatTensor = None
plddt: torch.FloatTensor = None
ptm_logits: torch.FloatTensor = None
ptm: torch.FloatTensor = None
aligned_confidence_probs: torch.FloatTensor = None
predicted_aligned_error: torch.FloatTensor = None
max_predicted_aligned_error: torch.FloatTensor = None
ESMFOLD_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `({0})`):
Indices of input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.FloatTensor` of shape `({0})`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
position_ids (`torch.LongTensor` of shape `({0})`, *optional*):
Indices of positions of each input sequence tokens in the position embeddings. Selected in the range `[0,
config.max_position_embeddings - 1]`.
[What are position IDs?](../glossary#position-ids)
masking_pattern (`torch.LongTensor` of shape `({0})`, *optional*):
Locations of tokens to mask during training as a form of regularization. Mask values selected in `[0, 1]`.
num_recycles (`int`, *optional*, defaults to `None`):
Number of times to recycle the input sequence. If `None`, defaults to `config.num_recycles`. "Recycling"
consists of passing the output of the folding trunk back in as input to the trunk. During training, the
number of recycles should vary with each batch, to ensure that the model learns to output valid predictions
after each recycle. During inference, num_recycles should be set to the highest value that the model was
trained with for maximum accuracy. Accordingly, when this value is set to `None`, config.max_recycles is
used.
"""
def is_fp16_enabled():
# Autocast world
fp16_enabled = torch.get_autocast_gpu_dtype() == torch.float16
fp16_enabled = fp16_enabled and torch.is_autocast_enabled()
return fp16_enabled
def is_deepspeed_initialized():
if is_deepspeed_available():
return False
else:
try:
import deepspeed
# This is not available in all DeepSpeed versions.
return deepspeed.utils.is_initialized()
except Exception:
return False
def collate_dense_tensors(samples: List[torch.Tensor], pad_v: float = 0) -> torch.Tensor:
"""
Takes a list of tensors with the following dimensions:
[(d_11, ..., d_1K),
(d_21, ..., d_2K), ..., (d_N1, ..., d_NK)]
and stack + pads them into a single tensor of:
(N, max_i=1,N { d_i1 }, ..., max_i=1,N {diK})
"""
if len(samples) == 0:
return torch.Tensor()
if len({x.dim() for x in samples}) != 1:
raise RuntimeError(f"Samples has varying dimensions: {[x.dim() for x in samples]}")
(device,) = tuple({x.device for x in samples}) # assumes all on same device
max_shape = [max(lst) for lst in zip(*[x.shape for x in samples])]
result = torch.empty(len(samples), *max_shape, dtype=samples[0].dtype, device=device)
result.fill_(pad_v)
for i in range(len(samples)):
result_i = result[i]
t = samples[i]
result_i[tuple(slice(0, k) for k in t.shape)] = t
return result
def flatten_final_dims(t: torch.Tensor, no_dims: int):
return t.reshape(t.shape[:-no_dims] + (-1,))
def permute_final_dims(tensor: torch.Tensor, inds: List[int]):
zero_index = -1 * len(inds)
first_inds = list(range(len(tensor.shape[:zero_index])))
return tensor.permute(first_inds + [zero_index + i for i in inds])
def dict_multimap(fn, dicts):
first = dicts[0]
new_dict = {}
for k, v in first.items():
all_v = [d[k] for d in dicts]
if type(v) is dict:
new_dict[k] = dict_multimap(fn, all_v)
else:
new_dict[k] = fn(all_v)
return new_dict
def trunc_normal_init_(weights, scale=1.0, fan="fan_in"):
shape = weights.shape
scale = scale / max(1, shape[1])
if not is_scipy_available():
logger.warning(
"This init requires scipy, but scipy was not found, default to an approximation that might not be"
" equivalent."
)
std = math.sqrt(scale)
torch.nn.init.normal_(weights, std=std).clamp(min=0.0, max=2.0 * std)
else:
from scipy.stats import truncnorm
std = math.sqrt(scale) / truncnorm.std(a=-2, b=2, loc=0, scale=1)
samples = truncnorm.rvs(a=-2, b=2, loc=0, scale=std, size=weights.numel())
samples = np.reshape(samples, shape)
weights.copy_(torch.tensor(samples, device=weights.device))
def ipa_point_weights_init_(weights):
with torch.no_grad():
softplus_inverse_1 = 0.541324854612918
weights.fill_(softplus_inverse_1)
class EsmFoldLinear(nn.Linear):
"""
A Linear layer with built-in nonstandard initializations. Called just like torch.nn.Linear.
Implements the initializers in 1.11.4, plus some additional ones found in the code.
"""
def __init__(
self,
in_dim: int,
out_dim: int,
bias: bool = True,
init: str = "default",
init_fn: Optional[Callable[[torch.Tensor, torch.Tensor], None]] = None,
):
"""
Args:
in_dim:
The final dimension of inputs to the layer
out_dim:
The final dimension of layer outputs
bias:
Whether to learn an additive bias. True by default
init:
The initializer to use. Choose from:
"default": LeCun fan-in truncated normal initialization "relu": He initialization w/ truncated normal
distribution "glorot": Fan-average Glorot uniform initialization "gating": Weights=0, Bias=1 "normal":
Normal initialization with std=1/sqrt(fan_in) "final": Weights=0, Bias=0
Overridden by init_fn if the latter is not None.
init_fn:
A custom initializer taking weight and bias as inputs. Overrides init if not None.
"""
super().__init__(in_dim, out_dim, bias=bias)
if bias:
with torch.no_grad():
self.bias.fill_(0)
self.init = init
self.init_fn = init_fn
if init not in ["default", "relu", "glorot", "gating", "normal", "final"]:
raise ValueError("Invalid init string.")
class EsmFoldLayerNorm(nn.Module):
def __init__(self, c_in, eps=1e-5):
super().__init__()
self.c_in = (c_in,)
self.eps = eps
self.weight = nn.Parameter(torch.ones(c_in))
self.bias = nn.Parameter(torch.zeros(c_in))
def forward(self, x):
d = x.dtype
if d is torch.bfloat16 and not is_deepspeed_initialized():
with torch.cuda.amp.autocast(enabled=False):
out = nn.functional.layer_norm(x, self.c_in, self.weight.to(dtype=d), self.bias.to(dtype=d), self.eps)
else:
out = nn.functional.layer_norm(x, self.c_in, self.weight, self.bias, self.eps)
return out
@torch.jit.ignore
def softmax_no_cast(t: torch.Tensor, dim: int = -1) -> torch.Tensor:
"""
Softmax, but without automatic casting to fp32 when the input is of type bfloat16
"""
d = t.dtype
if d is torch.bfloat16 and not is_deepspeed_initialized():
with torch.cuda.amp.autocast(enabled=False):
s = torch.nn.functional.softmax(t, dim=dim)
else:
s = torch.nn.functional.softmax(t, dim=dim)
return s
class EsmFoldAttention(nn.Module):
"""
Standard multi-head attention using AlphaFold's default layer initialization. Allows multiple bias vectors.
"""
def __init__(
self,
c_q: int,
c_k: int,
c_v: int,
c_hidden: int,
no_heads: int,
gating: bool = True,
):
"""
Args:
c_q:
Input dimension of query data
c_k:
Input dimension of key data
c_v:
Input dimension of value data
c_hidden:
Per-head hidden dimension
no_heads:
Number of attention heads
gating:
Whether the output should be gated using query data
"""
super().__init__()
self.c_q = c_q
self.c_k = c_k
self.c_v = c_v
self.c_hidden = c_hidden
self.no_heads = no_heads
self.gating = gating
# DISCREPANCY: c_hidden is not the per-head channel dimension, as
# stated in the supplement, but the overall channel dimension.
self.linear_q = EsmFoldLinear(self.c_q, self.c_hidden * self.no_heads, bias=False, init="glorot")
self.linear_k = EsmFoldLinear(self.c_k, self.c_hidden * self.no_heads, bias=False, init="glorot")
self.linear_v = EsmFoldLinear(self.c_v, self.c_hidden * self.no_heads, bias=False, init="glorot")
self.linear_o = EsmFoldLinear(self.c_hidden * self.no_heads, self.c_q, init="final")
self.linear_g = None
if self.gating:
self.linear_g = EsmFoldLinear(self.c_q, self.c_hidden * self.no_heads, init="gating")
self.sigmoid = nn.Sigmoid()
def _prep_qkv(self, q_x: torch.Tensor, kv_x: torch.Tensor) -> Tuple[torch.Tensor, torch.Tensor, torch.Tensor]:
# [*, Q/K/V, H * C_hidden]
q = self.linear_q(q_x)
k = self.linear_k(kv_x)
v = self.linear_v(kv_x)
# [*, Q/K, H, C_hidden]
q = q.view(q.shape[:-1] + (self.no_heads, -1))
k = k.view(k.shape[:-1] + (self.no_heads, -1))
v = v.view(v.shape[:-1] + (self.no_heads, -1))
# [*, H, Q/K, C_hidden]
q = q.transpose(-2, -3)
k = k.transpose(-2, -3)
v = v.transpose(-2, -3)
q /= math.sqrt(self.c_hidden)
return q, k, v
def _wrap_up(self, o: torch.Tensor, q_x: torch.Tensor) -> torch.Tensor:
if self.linear_g is not None:
g = self.sigmoid(self.linear_g(q_x))
# [*, Q, H, C_hidden]
g = g.view(g.shape[:-1] + (self.no_heads, -1))
o = o * g
# [*, Q, H * C_hidden]
o = flatten_final_dims(o, 2)
# [*, Q, C_q]
o = self.linear_o(o)
return o
def forward(
self,
q_x: torch.Tensor,
kv_x: torch.Tensor,
biases: Optional[List[torch.Tensor]] = None,
use_memory_efficient_kernel: bool = False,
use_lma: bool = False,
lma_q_chunk_size: int = 1024,
lma_kv_chunk_size: int = 4096,
use_flash: bool = False,
flash_mask: Optional[torch.Tensor] = None,
) -> torch.Tensor:
"""
Args:
q_x:
[*, Q, C_q] query data
kv_x:
[*, K, C_k] key data
biases:
List of biases that broadcast to [*, H, Q, K]
use_memory_efficient_kernel:
Whether to use a custom memory-efficient attention kernel. This should be the default choice for most.
If none of the "use_<...>" flags are True, a stock PyTorch implementation is used instead
use_lma:
Whether to use low-memory attention (Staats & Rabe 2021). If none of the "use_<...>" flags are True, a
stock PyTorch implementation is used instead
lma_q_chunk_size:
Query chunk size (for LMA)
lma_kv_chunk_size:
Key/Value chunk size (for LMA)
Returns
[*, Q, C_q] attention update
"""
if use_lma and (lma_q_chunk_size is None or lma_kv_chunk_size is None):
raise ValueError("If use_lma is specified, lma_q_chunk_size and lma_kv_chunk_size must be provided")
if use_flash and biases is not None:
raise ValueError("use_flash is incompatible with the bias option. For masking, use flash_mask instead")
attn_options = [use_memory_efficient_kernel, use_lma, use_flash]
if sum(attn_options) > 1:
raise ValueError("Choose at most one alternative attention algorithm")
if biases is None:
biases = []
# [*, H, Q/K, C_hidden]
query, key, value = self._prep_qkv(q_x, kv_x)
key = permute_final_dims(key, (1, 0))
# [*, H, Q, K]
output = torch.matmul(query, key)
for b in biases:
output += b
output = softmax_no_cast(output, -1)
# [*, H, Q, C_hidden]
output = torch.matmul(output, value)
output = output.transpose(-2, -3)
output = self._wrap_up(output, q_x)
return output
class EsmFoldTriangleAttention(nn.Module):
def __init__(self, c_in, c_hidden, no_heads, starting=True, inf=1e9):
"""
Args:
c_in:
Input channel dimension
c_hidden:
Overall hidden channel dimension (not per-head)
no_heads:
Number of attention heads
"""
super().__init__()
self.c_in = c_in
self.c_hidden = c_hidden
self.no_heads = no_heads
self.starting = starting
self.inf = inf
self.layer_norm = LayerNorm(self.c_in)
self.linear = EsmFoldLinear(c_in, self.no_heads, bias=False, init="normal")
self.mha = EsmFoldAttention(self.c_in, self.c_in, self.c_in, self.c_hidden, self.no_heads)
@torch.jit.ignore
def _chunk(
self,
x: torch.Tensor,
biases: List[torch.Tensor],
chunk_size: int,
use_memory_efficient_kernel: bool = False,
use_lma: bool = False,
inplace_safe: bool = False,
) -> torch.Tensor:
"triangle! triangle!"
mha_inputs = {
"q_x": x,
"kv_x": x,
"biases": biases,
}
return chunk_layer(
partial(self.mha, use_memory_efficient_kernel=use_memory_efficient_kernel, use_lma=use_lma),
mha_inputs,
chunk_size=chunk_size,
no_batch_dims=len(x.shape[:-2]),
_out=x if inplace_safe else None,
)
def forward(
self,
x: torch.Tensor,
mask: Optional[torch.Tensor] = None,
chunk_size: Optional[int] = None,
use_memory_efficient_kernel: bool = False,
use_lma: bool = False,
inplace_safe: bool = False,
) -> torch.Tensor:
"""
Args:
x:
[*, I, J, C_in] input tensor (e.g. the pair representation)
Returns:
[*, I, J, C_in] output tensor
"""
if mask is None:
# [*, I, J]
mask = x.new_ones(
x.shape[:-1],
)
if not self.starting:
x = x.transpose(-2, -3)
mask = mask.transpose(-1, -2)
# [*, I, J, C_in]
x = self.layer_norm(x)
# [*, I, 1, 1, J]
mask_bias = (self.inf * (mask - 1))[..., :, None, None, :]
# [*, H, I, J]
triangle_bias = permute_final_dims(self.linear(x), (2, 0, 1))
# [*, 1, H, I, J]
triangle_bias = triangle_bias.unsqueeze(-4)
biases = [mask_bias, triangle_bias]
if chunk_size is not None:
x = self._chunk(
x,
biases,
chunk_size,
use_memory_efficient_kernel=use_memory_efficient_kernel,
use_lma=use_lma,
inplace_safe=inplace_safe,
)
else:
x = self.mha(
q_x=x, kv_x=x, biases=biases, use_memory_efficient_kernel=use_memory_efficient_kernel, use_lma=use_lma
)
if not self.starting:
x = x.transpose(-2, -3)
return x
class EsmFoldTriangleMultiplicativeUpdate(nn.Module):
"""
Implements Algorithms 11 and 12.
"""
def __init__(self, config, _outgoing=True):
super().__init__()
c_hidden = config.pairwise_state_dim
self._outgoing = _outgoing
self.linear_a_p = EsmFoldLinear(c_hidden, c_hidden)
self.linear_a_g = EsmFoldLinear(c_hidden, c_hidden, init="gating")
self.linear_b_p = EsmFoldLinear(c_hidden, c_hidden)
self.linear_b_g = EsmFoldLinear(c_hidden, c_hidden, init="gating")
self.linear_g = EsmFoldLinear(c_hidden, c_hidden, init="gating")
self.linear_z = EsmFoldLinear(c_hidden, c_hidden, init="final")
self.layer_norm_in = LayerNorm(c_hidden)
self.layer_norm_out = LayerNorm(c_hidden)
self.sigmoid = nn.Sigmoid()
def _combine_projections(
self, a: torch.Tensor, b: torch.Tensor, _inplace_chunk_size: Optional[int] = None
) -> torch.Tensor:
if self._outgoing:
a = permute_final_dims(a, (2, 0, 1))
b = permute_final_dims(b, (2, 1, 0))
else:
a = permute_final_dims(a, (2, 1, 0))
b = permute_final_dims(b, (2, 0, 1))
if _inplace_chunk_size is not None:
# To be replaced by torch vmap
for i in range(0, a.shape[-3], _inplace_chunk_size):
a_chunk = a[..., i : i + _inplace_chunk_size, :, :]
b_chunk = b[..., i : i + _inplace_chunk_size, :, :]
a[..., i : i + _inplace_chunk_size, :, :] = torch.matmul(
a_chunk,
b_chunk,
)
p = a
else:
p = torch.matmul(a, b)
return permute_final_dims(p, (1, 2, 0))
def _inference_forward(
self,
z: torch.Tensor,
mask: Optional[torch.Tensor] = None,
inplace_chunk_size: Optional[int] = None,
with_add: bool = True,
):
"""
Args:
z:
A [*, N, N, C_z] pair representation
mask:
A [*, N, N] pair mask
inplace_chunk_size:
Size of chunks used in the main computation. Increase to trade memory for speed.
with_add:
If True, z is overwritten with (z + update). Otherwise, it is overwritten with (update).
Returns:
A reference to the overwritten z
More memory-efficient, inference-only version of the forward function. Uses in-place operations, fusion of the
addition that happens after this module in the Evoformer, a smidge of recomputation, and a cache of overwritten
values to lower peak memory consumption of this module from 5x the size of the input tensor z to 2.5x its size.
Useful for inference on extremely long sequences.
It works as follows. We will make reference to variables used in the default forward implementation below.
Naively, triangle multiplication attention requires the manifestation of 5 tensors the size of z: 1) z, the
"square" input tensor, 2) a, the first projection of z, 3) b, the second projection of b, 4) g, a z-sized mask,
and 5) a z-sized tensor for intermediate computations. For large N, this is prohibitively expensive; for
N=4000, for example, z is more than 8GB alone. To avoid this problem, we compute b, g, and all intermediate
tensors in small chunks, noting that the chunks required to compute a chunk of the output depend only on the
tensor a and corresponding vertical and horizontal chunks of z. This suggests an algorithm that loops over
pairs of chunks of z: hereafter "columns" and "rows" of z, even though each "column" and "row" in fact contains
inplace_chunk_size contiguous true columns and rows of z. Writing output chunks to a new tensor would bring
total memory consumption down to 3x the size of z. However, more memory can be saved by writing output chunks
directly to z in-place. WLOG, we choose to write output chunks vertically, overwriting the ith "column" of z at
the end of the ith iteration of the main loop. Despite this overwriting, the ith column is always one column
ahead of previously overwritten columns and can be recovered directly from z. After the first iteration,
however, the ith row of z is always at least partially overwritten. For this reason, we introduce the z-cache,
a tensor one-half the size of z. The z-cache initially contains the left half (2nd and 3rd quadrants) of z. For
0 < i < N/2, the missing left part of the ith row of z is recovered from this cache at the beginning of the ith
iteration. Once i exceeds n/2, the cache is "reoriented" to encompass the 3rd and 4th quadrants of z instead.
Though the 3rd quadrant of the original z is entirely overwritten at this point, it can be recovered from the
z-cache itself. Thereafter, the ith row of z can be recovered in its entirety from the reoriented z-cache.
After the final iteration, z has been completely overwritten and contains the triangular multiplicative update.
If with_add is True, it instead contains the sum of z and the triangular multiplicative update. In either case,
peak memory consumption is just 2.5x the size of z, disregarding memory used for chunks and other small
variables.
"""
if mask is None:
mask = z.new_ones(z.shape[:-1])
mask = mask.unsqueeze(-1)
def compute_projection_helper(pair, mask, a=True):
if a:
linear_g = self.linear_a_g
linear_p = self.linear_a_p
else:
linear_g = self.linear_b_g
linear_p = self.linear_b_p
pair = self.layer_norm_in(pair)
p = linear_g(pair)
p.sigmoid_()
p *= linear_p(pair)
p *= mask
p = permute_final_dims(p, (2, 0, 1))
return p
def compute_projection(pair, mask, a=True, chunked=True):
need_transpose = self._outgoing ^ a
if not chunked:
p = compute_projection_helper(pair, mask, a)
if need_transpose:
p = p.transpose(-1, -2)
else:
# This computation is chunked so as not to exceed our 2.5x
# budget with a large intermediate tensor
linear_g = self.linear_a_g if a else self.linear_b_g
c = linear_g.bias.shape[-1]
out_shape = pair.shape[:-3] + (c,) + pair.shape[-3:-1]
p = pair.new_zeros(out_shape)
for i in range(0, pair.shape[-3], inplace_chunk_size):
pair_chunk = pair[..., i : i + inplace_chunk_size, :, :]
pair_chunk = compute_projection_helper(
pair[..., i : i + inplace_chunk_size, :, :],
mask[..., i : i + inplace_chunk_size, :, :],
a,
)
if need_transpose:
pair_chunk = pair_chunk.transpose(-1, -2)
p[..., i : i + inplace_chunk_size] = pair_chunk
else:
p[..., i : i + inplace_chunk_size, :] = pair_chunk
del pair_chunk
return p
# We start by fully manifesting a. In addition to the input, this
# brings total memory consumption to 2x z (disregarding size of chunks)
# [*, N, N, c]
a = compute_projection(z, mask, True, chunked=True)
if inplace_chunk_size is not None:
n = a.shape[-1]
half_n = n // 2 + n % 2
row_dim = -3
col_dim = -2
b_chunk_dim = row_dim if self._outgoing else col_dim
def empty_slicer(t):
return [slice(None) for _ in t.shape]
def slice_tensor(t, start, end, dim):
# Slices start:end from the dim dimension of t
s = empty_slicer(t)
s[dim] = slice(start, end)
return t[s]
def flip_z_cache_(z_cache, z):
# "Reorient" the z_cache (see below), filling it with quadrants
# 3---recovered from the z_cache---and 4---recovered from z---
# of the input tensor z.
quadrant_3 = slice_tensor(z_cache, half_n, None, row_dim)
z_cache = z_cache.transpose(row_dim, col_dim)
# If n is odd, we need to shrink the z_cache by one row
z_cache = z_cache[..., : (n // 2), :, :]
# Move the 3rd quadrant of z into the
first_half_slicer = empty_slicer(z_cache)
first_half_slicer[col_dim] = slice(0, half_n)
z_cache[first_half_slicer] = quadrant_3
# Get the fourth quadrant of z
quadrant_4 = slice_tensor(z, half_n, None, row_dim)
quadrant_4 = slice_tensor(quadrant_4, half_n, None, col_dim)
# Insert said quadrant into the rotated z-cache
quadrant_3_slicer = empty_slicer(z_cache)
quadrant_3_slicer[col_dim] = slice(half_n, None)
z_cache[quadrant_3_slicer] = quadrant_4
return z_cache
# Initialize the z cache to the left half of z.
z_cache_shape = list(z.shape)
z_cache_shape[col_dim] = half_n
z_cache = z.new_zeros(z_cache_shape)
z_cache_slicer = empty_slicer(z_cache)
z_cache_slicer[col_dim] = slice(0, half_n)
z_cache.copy_(z[z_cache_slicer])
z_cache_rotated = False
# We need to reorient the z-cache at the halfway point, and we
# don't want a single chunk to straddle that point. We contract one
# of the chunks in the middle to address that problem.
i_range = list(range(0, half_n, inplace_chunk_size))
initial_offsets = [i_2 - i_1 for i_1, i_2 in zip(i_range, i_range[1:] + [half_n])]
after_half = list(range(half_n, n, inplace_chunk_size))
after_half_offsets = [inplace_chunk_size for _ in after_half]
combined_range_with_offsets = zip(i_range + after_half, initial_offsets + after_half_offsets)
for i, offset in combined_range_with_offsets:
if not z_cache_rotated and i >= half_n:
z_cache = flip_z_cache_(z_cache, z)
z_cache_rotated = True
z_chunk_b = slice_tensor(z, i, i + offset, b_chunk_dim)
mask_chunk = slice_tensor(mask, i, i + offset, b_chunk_dim)
z_chunk_b = z_chunk_b.clone()
if b_chunk_dim == col_dim:
z_chunk_b = slice_tensor(z, i, i + offset, col_dim)
else: # b_chunk_dim == row_dim
# In this case, the b-dimension (b_chunk_dim) is partially
# overwritten at the end of each iteration. We need to
# restore the missing component from the z-cache.
if not z_cache_rotated:
z_chunk_slicer = empty_slicer(z_chunk_b)
z_chunk_slicer[col_dim] = slice(0, half_n)
z_chunk_b[z_chunk_slicer] = slice_tensor(z_cache, i, i + offset, row_dim)
else:
z_cache_offset = i - half_n
z_chunk_b = slice_tensor(z_cache, z_cache_offset, z_cache_offset + offset, row_dim)
b_chunk = compute_projection(z_chunk_b, mask_chunk, a=False, chunked=False)
del z_chunk_b
x_chunk = torch.matmul(a, b_chunk)
x_chunk = permute_final_dims(x_chunk, (1, 2, 0))
x_chunk = self.layer_norm_out(x_chunk)
x_chunk = self.linear_z(x_chunk)
# The g dimension (col_dim) is parallel to and ahead of the
# overwrites in z. We can extract the g chunk normally.
z_chunk_g = slice_tensor(z, i, i + offset, col_dim)
g_chunk = self.linear_g(self.layer_norm_in(z_chunk_g))
g_chunk.sigmoid_()
del z_chunk_g
x_chunk *= g_chunk
# Write the columns into z in-place
z_slicer = empty_slicer(z)
z_slicer[col_dim] = slice(i, i + offset)
if with_add:
z[z_slicer] += x_chunk
else:
z[z_slicer] = x_chunk
else:
b = compute_projection(z, mask, False, False)
x = torch.matmul(a, b)
x = self.layer_norm_out(x)
x = self.linear_z(x)
g = self.linear_g(z)
g.sigmoid_()
x *= g
if with_add:
z += x
else:
z = x
return z
def forward(
self,
z: torch.Tensor,
mask: Optional[torch.Tensor] = None,
inplace_safe: bool = False,
_add_with_inplace: bool = False,
_inplace_chunk_size: Optional[int] = 256,
) -> torch.Tensor:
"""
Args:
x:
[*, N_res, N_res, C_z] input tensor
mask:
[*, N_res, N_res] input mask
Returns:
[*, N_res, N_res, C_z] output tensor
"""
if inplace_safe:
x = self._inference_forward(
z,
mask,
inplace_chunk_size=_inplace_chunk_size,
with_add=_add_with_inplace,
)
return x
if mask is None:
mask = z.new_ones(z.shape[:-1])
mask = mask.unsqueeze(-1)
z = self.layer_norm_in(z)
a = mask
a = a * self.sigmoid(self.linear_a_g(z))
a = a * self.linear_a_p(z)
b = mask
b = b * self.sigmoid(self.linear_b_g(z))
b = b * self.linear_b_p(z)
if is_fp16_enabled():
with torch.cuda.amp.autocast(enabled=False):
x = self._combine_projections(a.float(), b.float())
else:
x = self._combine_projections(a, b)
del a, b
x = self.layer_norm_out(x)
x = self.linear_z(x)
g = self.sigmoid(self.linear_g(z))
x = x * g
return x
class EsmFoldPreTrainedModel(EsmPreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
# Subclass `EsMPreTrainedModel` to deal with special init
def _init_weights(self, module):
"""Initialize the weights"""
if isinstance(module, EsmFoldLinear):
with torch.no_grad():
if module.init_fn is not None:
module.init_fn(module.weight, module.bias)
elif module.init == "default":
trunc_normal_init_(module.weight, scale=1.0)
elif module.init == "relu":
trunc_normal_init_(module.weight, scale=2.0)
elif module.init == "glorot":
nn.init.xavier_uniform_(module.weight, gain=1)
elif module.init == "gating":
module.weight.fill_(0.0)
if module.bias:
module.bias.fill_(1.0)
elif module.init == "normal":
torch.nn.init.kaiming_normal_(module.weight, nonlinearity="linear")
elif module.init == "final":
module.weight.fill_(0.0)
elif isinstance(module, EsmFoldInvariantPointAttention):
ipa_point_weights_init_(module.head_weights)
elif isinstance(module, EsmFoldTriangularSelfAttentionBlock):
torch.nn.init.zeros_(module.tri_mul_in.linear_z.weight)
torch.nn.init.zeros_(module.tri_mul_in.linear_z.bias)
torch.nn.init.zeros_(module.tri_mul_out.linear_z.weight)
torch.nn.init.zeros_(module.tri_mul_out.linear_z.bias)
torch.nn.init.zeros_(module.tri_att_start.mha.linear_o.weight)
torch.nn.init.zeros_(module.tri_att_start.mha.linear_o.bias)
torch.nn.init.zeros_(module.tri_att_end.mha.linear_o.weight)
torch.nn.init.zeros_(module.tri_att_end.mha.linear_o.bias)
torch.nn.init.zeros_(module.sequence_to_pair.o_proj.weight)
torch.nn.init.zeros_(module.sequence_to_pair.o_proj.bias)
torch.nn.init.zeros_(module.pair_to_sequence.linear.weight)
torch.nn.init.zeros_(module.seq_attention.o_proj.weight)
torch.nn.init.zeros_(module.seq_attention.o_proj.bias)
torch.nn.init.zeros_(module.mlp_seq.mlp[-2].weight)
torch.nn.init.zeros_(module.mlp_seq.mlp[-2].bias)
torch.nn.init.zeros_(module.mlp_pair.mlp[-2].weight)
torch.nn.init.zeros_(module.mlp_pair.mlp[-2].bias)
else:
super()._init_weights(module)
class EsmFoldSelfAttention(nn.Module):
def __init__(self, embed_dim, num_heads, head_width, gated=False):
super().__init__()
assert embed_dim == num_heads * head_width
self.embed_dim = embed_dim
self.num_heads = num_heads
self.head_width = head_width
self.proj = nn.Linear(embed_dim, embed_dim * 3, bias=False)
self.o_proj = nn.Linear(embed_dim, embed_dim, bias=True)
self.gated = gated
if gated:
self.g_proj = nn.Linear(embed_dim, embed_dim)
torch.nn.init.zeros_(self.g_proj.weight)
torch.nn.init.ones_(self.g_proj.bias)
self.rescale_factor = self.head_width**-0.5
torch.nn.init.zeros_(self.o_proj.bias)
def forward(self, x, mask=None, bias=None, indices=None):
"""
Basic self attention with optional mask and external pairwise bias. To handle sequences of different lengths,
use mask.
Inputs:
x: batch of input sequneces (.. x L x C) mask: batch of boolean masks where 1=valid, 0=padding position (..
x L_k) bias: batch of scalar pairwise attention biases (.. x Lq x Lk x num_heads)
Outputs:
sequence projection (B x L x embed_dim), attention maps (B x L x L x num_heads)
"""
t = self.proj(x).view(*x.shape[:2], self.num_heads, -1)
t = t.permute(0, 2, 1, 3)
q, k, v = t.chunk(3, dim=-1)
q = self.rescale_factor * q
a = torch.einsum("...qc,...kc->...qk", q, k)
# Add external attention bias.
if bias is not None:
a = a + bias.permute(0, 3, 1, 2)
# Do not attend to padding tokens.
if mask is not None:
mask = mask[:, None, None]
a = a.masked_fill(mask == False, -np.inf) # noqa: E712
a = nn.functional.softmax(a, dim=-1)
y = torch.einsum("...hqk,...hkc->...qhc", a, v)
y = y.reshape(*y.shape[:2], -1)
if self.gated:
y = self.g_proj(x).sigmoid() * y
y = self.o_proj(y)
return y, a.permute(0, 3, 1, 2)
class EsmFoldDropout(nn.Module):
"""
Implementation of dropout with the ability to share the dropout mask along a particular dimension.
"""
def __init__(self, r: float, batch_dim: Union[int, List[int]]):
super().__init__()
self.r = r
if type(batch_dim) == int:
batch_dim = [batch_dim]
self.batch_dim = batch_dim
self.dropout = nn.Dropout(self.r)
def forward(self, x: torch.Tensor) -> torch.Tensor:
shape = list(x.shape)
if self.batch_dim is not None:
for bd in self.batch_dim:
shape[bd] = 1
return x * self.dropout(x.new_ones(shape))
class EsmFoldSequenceToPair(nn.Module):
def __init__(self, sequence_state_dim, inner_dim, pairwise_state_dim):
super().__init__()
self.layernorm = nn.LayerNorm(sequence_state_dim)
self.proj = nn.Linear(sequence_state_dim, inner_dim * 2, bias=True)
self.o_proj = nn.Linear(2 * inner_dim, pairwise_state_dim, bias=True)
torch.nn.init.zeros_(self.proj.bias)
torch.nn.init.zeros_(self.o_proj.bias)
def forward(self, sequence_state):
"""
Inputs:
sequence_state: B x L x sequence_state_dim
Output:
pairwise_state: B x L x L x pairwise_state_dim
Intermediate state:
B x L x L x 2*inner_dim
"""
assert len(sequence_state.shape) == 3
s = self.layernorm(sequence_state)
s = self.proj(s)
q, k = s.chunk(2, dim=-1)
prod = q[:, None, :, :] * k[:, :, None, :]
diff = q[:, None, :, :] - k[:, :, None, :]
x = torch.cat([prod, diff], dim=-1)
x = self.o_proj(x)
return x
class EsmFoldPairToSequence(nn.Module):
def __init__(self, pairwise_state_dim, num_heads):
super().__init__()
self.layernorm = nn.LayerNorm(pairwise_state_dim)
self.linear = nn.Linear(pairwise_state_dim, num_heads, bias=False)
def forward(self, pairwise_state):
"""
Inputs:
pairwise_state: B x L x L x pairwise_state_dim
Output:
pairwise_bias: B x L x L x num_heads
"""
assert len(pairwise_state.shape) == 4
z = self.layernorm(pairwise_state)
pairwise_bias = self.linear(z)
return pairwise_bias
class EsmFoldResidueMLP(nn.Module):
def __init__(self, embed_dim, inner_dim, dropout=0):
super().__init__()
self.mlp = nn.Sequential(
nn.LayerNorm(embed_dim),
nn.Linear(embed_dim, inner_dim),
nn.ReLU(),
nn.Linear(inner_dim, embed_dim),
nn.Dropout(dropout),
)
def forward(self, x):
return x + self.mlp(x)
class EsmFoldTriangularSelfAttentionBlock(nn.Module):
def __init__(self, config):
super().__init__()
self.config = config
sequence_state_dim = config.sequence_state_dim
pairwise_state_dim = config.pairwise_state_dim
sequence_num_heads = sequence_state_dim // config.sequence_head_width
pairwise_num_heads = pairwise_state_dim // config.pairwise_head_width
self.layernorm_1 = nn.LayerNorm(sequence_state_dim)
self.sequence_to_pair = EsmFoldSequenceToPair(sequence_state_dim, pairwise_state_dim // 2, pairwise_state_dim)
self.pair_to_sequence = EsmFoldPairToSequence(pairwise_state_dim, sequence_num_heads)
self.seq_attention = EsmFoldSelfAttention(
sequence_state_dim, sequence_num_heads, config.sequence_head_width, gated=True
)
self.tri_mul_out = EsmFoldTriangleMultiplicativeUpdate(config, _outgoing=True)
self.tri_mul_in = EsmFoldTriangleMultiplicativeUpdate(config, _outgoing=False)
self.tri_att_start = EsmFoldTriangleAttention(
pairwise_state_dim, config.pairwise_head_width, pairwise_num_heads, inf=1e9, starting=True
)
self.tri_att_end = EsmFoldTriangleAttention(
pairwise_state_dim, config.pairwise_head_width, pairwise_num_heads, inf=1e9, starting=False
)
self.mlp_seq = EsmFoldResidueMLP(sequence_state_dim, 4 * sequence_state_dim, dropout=config.dropout)
self.mlp_pair = EsmFoldResidueMLP(pairwise_state_dim, 4 * pairwise_state_dim, dropout=config.dropout)
self.drop = nn.Dropout(config.dropout)
self.row_drop = EsmFoldDropout(config.dropout * 2, 2)
self.col_drop = EsmFoldDropout(config.dropout * 2, 1)
def forward(self, sequence_state, pairwise_state, mask=None, chunk_size=None, **__kwargs):
"""
Inputs:
sequence_state: B x L x sequence_state_dim pairwise_state: B x L x L x pairwise_state_dim mask: B x L boolean
tensor of valid positions
Output:
sequence_state: B x L x sequence_state_dim pairwise_state: B x L x L x pairwise_state_dim
"""
if len(sequence_state.shape) != 3:
raise ValueError(f"`sequence_state` should be a 3d-tensor, got {len(sequence_state.shape)} dims.")
if len(pairwise_state.shape) != 4:
raise ValueError(f"`pairwise_state` should be a 4d-tensor, got {len(pairwise_state.shape)} dims.")
if mask is not None and len(mask.shape) != 2:
raise ValueError(f"`mask` should be a 2d-tensor, got {len(mask.shape)} dims.")
batch_dim, seq_dim, sequence_state_dim = sequence_state.shape
pairwise_state_dim = pairwise_state.shape[3]
if sequence_state_dim != self.config.sequence_state_dim:
raise ValueError(
"`sequence_state` last dimension should be equal to `self.sequence_state_dim`. Got"
f"{sequence_state_dim} != {self.config.sequence_state_dim}."
)
if pairwise_state_dim != self.config.pairwise_state_dim:
raise ValueError(
"`pairwise_state` last dimension should be equal to `self.pairwise_state_dim`. Got "
f"{pairwise_state_dim} != {self.config.pairwise_state_dim}."
)
if batch_dim != pairwise_state.shape[0]:
raise ValueError(
f"`sequence_state` and `pairwise_state` have inconsistent batch size: {batch_dim} != "
f"{pairwise_state.shape[0]}."
)
if seq_dim != pairwise_state.shape[1] or seq_dim != pairwise_state.shape[2]:
raise ValueError(
f"`sequence_state` and `pairwise_state` have inconsistent sequence length: {seq_dim} != "
f"{pairwise_state.shape[1]} or {pairwise_state.shape[2]}."
)
# Update sequence state
bias = self.pair_to_sequence(pairwise_state)
# Self attention with bias + mlp.
y = self.layernorm_1(sequence_state)
y, _ = self.seq_attention(y, mask=mask, bias=bias)
sequence_state = sequence_state + self.drop(y)
sequence_state = self.mlp_seq(sequence_state)
# Update pairwise state
pairwise_state = pairwise_state + self.sequence_to_pair(sequence_state)
# Axial attention with triangular bias.
tri_mask = mask.unsqueeze(2) * mask.unsqueeze(1) if mask is not None else None
pairwise_state = pairwise_state + self.row_drop(self.tri_mul_out(pairwise_state, mask=tri_mask))
pairwise_state = pairwise_state + self.col_drop(self.tri_mul_in(pairwise_state, mask=tri_mask))
pairwise_state = pairwise_state + self.row_drop(
self.tri_att_start(pairwise_state, mask=tri_mask, chunk_size=chunk_size)
)
pairwise_state = pairwise_state + self.col_drop(
self.tri_att_end(pairwise_state, mask=tri_mask, chunk_size=chunk_size)
)
# MLP over pairs.
pairwise_state = self.mlp_pair(pairwise_state)
return sequence_state, pairwise_state
class EsmCategoricalMixture:
def __init__(self, param, bins=50, start=0, end=1):
# All tensors are of shape ..., bins.
self.logits = param
bins = torch.linspace(start, end, bins + 1, device=self.logits.device, dtype=self.logits.dtype)
self.v_bins = (bins[:-1] + bins[1:]) / 2
def log_prob(self, true):
# Shapes are:
# self.probs: ... x bins
# true : ...
true_index = (true.unsqueeze(-1) - self.v_bins[[None] * true.ndim]).abs().argmin(-1)
nll = self.logits.log_softmax(-1)
return torch.take_along_dim(nll, true_index.unsqueeze(-1), dim=-1).squeeze(-1)
def mean(self):
return (self.logits.softmax(-1) @ self.v_bins.unsqueeze(1)).squeeze(-1)
def categorical_lddt(logits, bins=50):
# Logits are ..., 37, bins.
return EsmCategoricalMixture(logits, bins=bins).mean()
def get_axial_mask(mask):
"""
Helper to convert B x L mask of valid positions to axial mask used in row column attentions.
Input:
mask: B x L tensor of booleans
Output:
mask: B x L x L tensor of booleans
"""
if mask is None:
return None
if len(mask.shape) != 2:
raise ValueError(f"`mask` should be a 2d-tensor, got {len(mask.shape)} dims.")
batch_dim, seq_dim = mask.shape
m = mask.unsqueeze(1).expand(batch_dim, seq_dim, seq_dim)
m = m.reshape(batch_dim * seq_dim, seq_dim)
return m
class EsmFoldRelativePosition(nn.Module):
def __init__(self, config):
super().__init__()
self.bins = config.position_bins
# Note an additional offset is used so that the 0th position
# is reserved for masked pairs.
self.embedding = torch.nn.Embedding(2 * self.bins + 2, config.pairwise_state_dim)
def forward(self, residue_index, mask=None):
"""
Input:
residue_index: B x L tensor of indices (dytpe=torch.long) mask: B x L tensor of booleans
Output:
pairwise_state: B x L x L x pairwise_state_dim tensor of embeddings
"""
if residue_index.dtype != torch.long:
raise ValueError(f"`residue_index` has dtype {residue_index.dtype}, it should be `torch.long`.")
if mask is not None and residue_index.shape != mask.shape:
raise ValueError(
f"`residue_index` and `mask` have inconsistent shapes: {residue_index.shape} != {mask.shape}."
)
diff = residue_index[:, None, :] - residue_index[:, :, None]
diff = diff.clamp(-self.bins, self.bins)
diff = diff + self.bins + 1 # Add 1 to adjust for padding index.
if mask is not None:
mask = mask[:, None, :] * mask[:, :, None]
diff[mask == False] = 0 # noqa: E712
output = self.embedding(diff)
return output
class EsmFoldAngleResnetBlock(nn.Module):
def __init__(self, config):
super().__init__()
self.linear_1 = EsmFoldLinear(config.resnet_dim, config.resnet_dim, init="relu")
self.linear_2 = EsmFoldLinear(config.resnet_dim, config.resnet_dim, init="final")
self.relu = nn.ReLU()
def forward(self, a: torch.Tensor) -> torch.Tensor:
s_initial = a
a = self.relu(a)
a = self.linear_1(a)
a = self.relu(a)
a = self.linear_2(a)
return a + s_initial
class EsmFoldAngleResnet(nn.Module):
"""
Implements Algorithm 20, lines 11-14
"""
def __init__(self, config):
super().__init__()
self.config = config
self.linear_in = EsmFoldLinear(config.sequence_dim, config.resnet_dim)
self.linear_initial = EsmFoldLinear(config.sequence_dim, config.resnet_dim)
self.layers = nn.ModuleList()
for _ in range(config.num_resnet_blocks):
layer = EsmFoldAngleResnetBlock(config)
self.layers.append(layer)
self.linear_out = EsmFoldLinear(config.resnet_dim, config.num_angles * 2)
self.relu = nn.ReLU()
def forward(self, s: torch.Tensor, s_initial: torch.Tensor) -> Tuple[torch.Tensor, torch.Tensor]:
"""
Args:
s:
[*, C_hidden] single embedding
s_initial:
[*, C_hidden] single embedding as of the start of the StructureModule
Returns:
[*, no_angles, 2] predicted angles
"""
# NOTE: The ReLU's applied to the inputs are absent from the supplement
# pseudocode but present in the source. For maximal compatibility with
# the pretrained weights, I'm going with the source.
# [*, C_hidden]
s_initial = self.relu(s_initial)
s_initial = self.linear_initial(s_initial)
s = self.relu(s)
s = self.linear_in(s)
s = s + s_initial
for l in self.layers:
s = l(s)
s = self.relu(s)
# [*, no_angles * 2]
s = self.linear_out(s)
# [*, no_angles, 2]
s = s.view(s.shape[:-1] + (-1, 2))
unnormalized_s = s
norm_denom = torch.sqrt(
torch.clamp(
torch.sum(s**2, dim=-1, keepdim=True),
min=self.config.epsilon,
)
)
s = s / norm_denom
return unnormalized_s, s
class EsmFoldInvariantPointAttention(nn.Module):
"""
Implements Algorithm 22.
"""
def __init__(self, config):
super().__init__()
self.config = config
c_s = config.sequence_dim
c_z = config.pairwise_dim
self.hidden_dim = config.ipa_dim
self.num_heads = config.num_heads_ipa
self.num_qk_points = config.num_qk_points
self.num_v_points = config.num_v_points
# These linear layers differ from their specifications in the
# supplement. There, they lack bias and use Glorot initialization.
# Here as in the official source, they have bias and use the default
# Lecun initialization.
hc = config.ipa_dim * config.num_heads_ipa
self.linear_q = EsmFoldLinear(c_s, hc)
self.linear_kv = EsmFoldLinear(c_s, 2 * hc)
hpq = config.num_heads_ipa * config.num_qk_points * 3
self.linear_q_points = EsmFoldLinear(c_s, hpq)
hpkv = config.num_heads_ipa * (config.num_qk_points + config.num_v_points) * 3
self.linear_kv_points = EsmFoldLinear(c_s, hpkv)
self.linear_b = EsmFoldLinear(c_z, config.num_heads_ipa)
self.head_weights = nn.Parameter(torch.zeros((config.num_heads_ipa)))
concat_out_dim = config.num_heads_ipa * (c_z + config.ipa_dim + config.num_v_points * 4)
self.linear_out = EsmFoldLinear(concat_out_dim, c_s, init="final")
self.softmax = nn.Softmax(dim=-1)
self.softplus = nn.Softplus()
def forward(
self,
s: torch.Tensor,
z: Optional[torch.Tensor],
r: Rigid,
mask: torch.Tensor,
_offload_inference: bool = False,
_z_reference_list: Optional[Sequence[torch.Tensor]] = None,
) -> torch.Tensor:
"""
Args:
s:
[*, N_res, C_s] single representation
z:
[*, N_res, N_res, C_z] pair representation
r:
[*, N_res] transformation object
mask:
[*, N_res] mask
Returns:
[*, N_res, C_s] single representation update
"""
z = [z]
#######################################
# Generate scalar and point activations
#######################################
# [*, N_res, H * C_hidden]
q = self.linear_q(s)
kv = self.linear_kv(s)
# [*, N_res, H, C_hidden]
q = q.view(q.shape[:-1] + (self.num_heads, -1))
# [*, N_res, H, 2 * C_hidden]
kv = kv.view(kv.shape[:-1] + (self.num_heads, -1))
# [*, N_res, H, C_hidden]
k, v = torch.split(kv, self.hidden_dim, dim=-1)
# [*, N_res, H * P_q * 3]
q_pts = self.linear_q_points(s)
# This is kind of clunky, but it's how the original does it
# [*, N_res, H * P_q, 3]
q_pts = torch.split(q_pts, q_pts.shape[-1] // 3, dim=-1)
q_pts = torch.stack(q_pts, dim=-1)
q_pts = r[..., None].apply(q_pts)
# [*, N_res, H, P_q, 3]
q_pts = q_pts.view(q_pts.shape[:-2] + (self.num_heads, self.num_qk_points, 3))
# [*, N_res, H * (P_q + P_v) * 3]
kv_pts = self.linear_kv_points(s)
# [*, N_res, H * (P_q + P_v), 3]
kv_pts = torch.split(kv_pts, kv_pts.shape[-1] // 3, dim=-1)
kv_pts = torch.stack(kv_pts, dim=-1)
kv_pts = r[..., None].apply(kv_pts)
# [*, N_res, H, (P_q + P_v), 3]
kv_pts = kv_pts.view(kv_pts.shape[:-2] + (self.num_heads, -1, 3))
# [*, N_res, H, P_q/P_v, 3]
k_pts, v_pts = torch.split(kv_pts, [self.num_qk_points, self.num_v_points], dim=-2)
##########################
# Compute attention scores
##########################
# [*, N_res, N_res, H]
b = self.linear_b(z[0])
if _offload_inference:
assert sys.getrefcount(z[0]) == 2
z[0] = z[0].cpu()
# [*, H, N_res, N_res]
if is_fp16_enabled():
with torch.cuda.amp.autocast(enabled=False):
a = torch.matmul(
permute_final_dims(q.float(), (1, 0, 2)), # [*, H, N_res, C_hidden]
permute_final_dims(k.float(), (1, 2, 0)), # [*, H, C_hidden, N_res]
)
else:
a = torch.matmul(
permute_final_dims(q, (1, 0, 2)), # [*, H, N_res, C_hidden]
permute_final_dims(k, (1, 2, 0)), # [*, H, C_hidden, N_res]
)
a *= math.sqrt(1.0 / (3 * self.hidden_dim))
a += math.sqrt(1.0 / 3) * permute_final_dims(b, (2, 0, 1))
# [*, N_res, N_res, H, P_q, 3]
pt_att = q_pts.unsqueeze(-4) - k_pts.unsqueeze(-5)
pt_att = pt_att**2
# [*, N_res, N_res, H, P_q]
pt_att = sum(torch.unbind(pt_att, dim=-1))
head_weights = self.softplus(self.head_weights).view(*((1,) * len(pt_att.shape[:-2]) + (-1, 1)))
head_weights = head_weights * math.sqrt(1.0 / (3 * (self.num_qk_points * 9.0 / 2)))
pt_att = pt_att * head_weights
# [*, N_res, N_res, H]
pt_att = torch.sum(pt_att, dim=-1) * (-0.5)
# [*, N_res, N_res]
square_mask = mask.unsqueeze(-1) * mask.unsqueeze(-2)
square_mask = self.config.inf * (square_mask - 1)
# [*, H, N_res, N_res]
pt_att = permute_final_dims(pt_att, (2, 0, 1))
a = a + pt_att
a = a + square_mask.unsqueeze(-3)
a = self.softmax(a)
################
# Compute output
################
# [*, N_res, H, C_hidden]
o = torch.matmul(a, v.transpose(-2, -3).to(dtype=a.dtype)).transpose(-2, -3)
# [*, N_res, H * C_hidden]
o = flatten_final_dims(o, 2)
# [*, H, 3, N_res, P_v]
o_pt = torch.sum(
(a[..., None, :, :, None] * permute_final_dims(v_pts, (1, 3, 0, 2))[..., None, :, :]),
dim=-2,
)
# [*, N_res, H, P_v, 3]
o_pt = permute_final_dims(o_pt, (2, 0, 3, 1))
o_pt = r[..., None, None].invert_apply(o_pt)
# [*, N_res, H * P_v]
o_pt_norm = flatten_final_dims(torch.sqrt(torch.sum(o_pt**2, dim=-1) + self.config.epsilon), 2)
# [*, N_res, H * P_v, 3]
o_pt = o_pt.reshape(*o_pt.shape[:-3], -1, 3)
if _offload_inference:
z[0] = z[0].to(o_pt.device)
# [*, N_res, H, C_z]
o_pair = torch.matmul(a.transpose(-2, -3), z[0].to(dtype=a.dtype))
# [*, N_res, H * C_z]
o_pair = flatten_final_dims(o_pair, 2)
# [*, N_res, C_s]
s = self.linear_out(
torch.cat((o, *torch.unbind(o_pt, dim=-1), o_pt_norm, o_pair), dim=-1).to(dtype=z[0].dtype)
)
return s
class EsmFoldBackboneUpdate(nn.Module):
"""
Implements part of Algorithm 23.
"""
def __init__(self, config):
super().__init__()
self.linear = EsmFoldLinear(config.sequence_dim, 6, init="final")
def forward(self, s: torch.Tensor) -> Tuple[torch.Tensor, torch.Tensor]:
"""
Args:
[*, N_res, C_s] single representation
Returns:
[*, N_res, 6] update vector
"""
# [*, 6]
update = self.linear(s)
return update
class EsmFoldStructureModuleTransitionLayer(nn.Module):
def __init__(self, config):
super().__init__()
self.linear_1 = EsmFoldLinear(config.sequence_dim, config.sequence_dim, init="relu")
self.linear_2 = EsmFoldLinear(config.sequence_dim, config.sequence_dim, init="relu")
self.linear_3 = EsmFoldLinear(config.sequence_dim, config.sequence_dim, init="final")
self.relu = nn.ReLU()
def forward(self, s):
s_initial = s
s = self.linear_1(s)
s = self.relu(s)
s = self.linear_2(s)
s = self.relu(s)
s = self.linear_3(s)
s = s + s_initial
return s
class EsmFoldStructureModuleTransition(nn.Module):
def __init__(self, config):
super().__init__()
self.config = config
self.layers = nn.ModuleList()
for _ in range(config.num_transition_layers):
l = EsmFoldStructureModuleTransitionLayer(config)
self.layers.append(l)
self.dropout = nn.Dropout(config.dropout_rate)
self.layer_norm = LayerNorm(config.sequence_dim)
def forward(self, s):
for l in self.layers:
s = l(s)
s = self.dropout(s)
s = self.layer_norm(s)
return s
class EsmFoldStructureModule(nn.Module):
def __init__(self, config):
super().__init__()
self.config = config
# Buffers to be lazily initialized later
# self.default_frames
# self.group_idx
# self.atom_mask
# self.lit_positions
self.layer_norm_s = LayerNorm(config.sequence_dim)
self.layer_norm_z = LayerNorm(config.pairwise_dim)
self.linear_in = EsmFoldLinear(config.sequence_dim, config.sequence_dim)
self.ipa = EsmFoldInvariantPointAttention(config)
self.ipa_dropout = nn.Dropout(config.dropout_rate)
self.layer_norm_ipa = LayerNorm(config.sequence_dim)
self.transition = EsmFoldStructureModuleTransition(config)
self.bb_update = EsmFoldBackboneUpdate(config)
self.angle_resnet = EsmFoldAngleResnet(config)
def forward(
self,
evoformer_output_dict,
aatype,
mask=None,
_offload_inference=False,
):
"""
Args:
evoformer_output_dict:
Dictionary containing:
"single":
[*, N_res, C_s] single representation
"pair":
[*, N_res, N_res, C_z] pair representation
aatype:
[*, N_res] amino acid indices
mask:
Optional [*, N_res] sequence mask
Returns:
A dictionary of outputs
"""
s = evoformer_output_dict["single"]
if mask is None:
# [*, N]
mask = s.new_ones(s.shape[:-1])
# [*, N, C_s]
s = self.layer_norm_s(s)
# [*, N, N, C_z]
z = self.layer_norm_z(evoformer_output_dict["pair"])
z_reference_list = None
if _offload_inference:
assert sys.getrefcount(evoformer_output_dict["pair"]) == 2
evoformer_output_dict["pair"] = evoformer_output_dict["pair"].cpu()
z_reference_list = [z]
z = None
# [*, N, C_s]
s_initial = s
s = self.linear_in(s)
# [*, N]
rigids = Rigid.identity(
s.shape[:-1],
s.dtype,
s.device,
self.training,
fmt="quat",
)
outputs = []
for i in range(self.config.num_blocks):
# [*, N, C_s]
s = s + self.ipa(
s,
z,
rigids,
mask,
_offload_inference=_offload_inference,
_z_reference_list=z_reference_list,
)
s = self.ipa_dropout(s)
s = self.layer_norm_ipa(s)
s = self.transition(s)
# [*, N]
rigids = rigids.compose_q_update_vec(self.bb_update(s))
# To hew as closely as possible to AlphaFold, we convert our
# quaternion-based transformations to rotation-matrix ones
# here
backb_to_global = Rigid(
Rotation(rot_mats=rigids.get_rots().get_rot_mats(), quats=None),
rigids.get_trans(),
)
backb_to_global = backb_to_global.scale_translation(self.config.trans_scale_factor)
# [*, N, 7, 2]
unnormalized_angles, angles = self.angle_resnet(s, s_initial)
all_frames_to_global = self.torsion_angles_to_frames(backb_to_global, angles, aatype)
pred_xyz = self.frames_and_literature_positions_to_atom14_pos(all_frames_to_global, aatype)
scaled_rigids = rigids.scale_translation(self.config.trans_scale_factor)
preds = {
"frames": scaled_rigids.to_tensor_7(),
"sidechain_frames": all_frames_to_global.to_tensor_4x4(),
"unnormalized_angles": unnormalized_angles,
"angles": angles,
"positions": pred_xyz,
"states": s,
}
outputs.append(preds)
rigids = rigids.stop_rot_gradient()
del z, z_reference_list
if _offload_inference:
evoformer_output_dict["pair"] = evoformer_output_dict["pair"].to(s.device)
outputs = dict_multimap(torch.stack, outputs)
outputs["single"] = s
return outputs
def _init_residue_constants(self, float_dtype, device):
if not hasattr(self, "default_frames"):
self.register_buffer(
"default_frames",
torch.tensor(
residue_constants.restype_rigid_group_default_frame,
dtype=float_dtype,
device=device,
requires_grad=False,
),
persistent=False,
)
if not hasattr(self, "group_idx"):
self.register_buffer(
"group_idx",
torch.tensor(
residue_constants.restype_atom14_to_rigid_group,
device=device,
requires_grad=False,
),
persistent=False,
)
if not hasattr(self, "atom_mask"):
self.register_buffer(
"atom_mask",
torch.tensor(
residue_constants.restype_atom14_mask,
dtype=float_dtype,
device=device,
requires_grad=False,
),
persistent=False,
)
if not hasattr(self, "lit_positions"):
self.register_buffer(
"lit_positions",
torch.tensor(
residue_constants.restype_atom14_rigid_group_positions,
dtype=float_dtype,
device=device,
requires_grad=False,
),
persistent=False,
)
def torsion_angles_to_frames(self, r, alpha, f):
# Lazily initialize the residue constants on the correct device
self._init_residue_constants(alpha.dtype, alpha.device)
# Separated purely to make testing less annoying
return torsion_angles_to_frames(r, alpha, f, self.default_frames)
def frames_and_literature_positions_to_atom14_pos(self, r, f): # [*, N, 8] # [*, N]
# Lazily initialize the residue constants on the correct device
self._init_residue_constants(r.get_rots().dtype, r.get_rots().device)
return frames_and_literature_positions_to_atom14_pos(
r,
f,
self.default_frames,
self.group_idx,
self.atom_mask,
self.lit_positions,
)
class EsmFoldingTrunk(nn.Module):
def __init__(self, config):
super().__init__()
self.config = config
c_s = config.sequence_state_dim
c_z = config.pairwise_state_dim
self.pairwise_positional_embedding = EsmFoldRelativePosition(config)
self.blocks = nn.ModuleList([EsmFoldTriangularSelfAttentionBlock(config) for _ in range(config.num_blocks)])
self.recycle_bins = 15
self.recycle_s_norm = nn.LayerNorm(c_s)
self.recycle_z_norm = nn.LayerNorm(c_z)
self.recycle_disto = nn.Embedding(self.recycle_bins, c_z)
self.recycle_disto.weight[0].detach().zero_()
self.structure_module = EsmFoldStructureModule(config.structure_module)
self.trunk2sm_s = nn.Linear(c_s, config.structure_module.sequence_dim)
self.trunk2sm_z = nn.Linear(c_z, config.structure_module.pairwise_dim)
self.chunk_size = config.chunk_size
def set_chunk_size(self, chunk_size):
# This parameter means the axial attention will be computed
# in a chunked manner. This should make the memory used more or less O(L) instead of O(L^2).
# It's equivalent to running a for loop over chunks of the dimension we're iterative over,
# where the chunk_size is the size of the chunks, so 128 would mean to parse 128-lengthed chunks.
self.chunk_size = chunk_size
def forward(self, seq_feats, pair_feats, true_aa, residx, mask, no_recycles):
"""
Inputs:
seq_feats: B x L x C tensor of sequence features pair_feats: B x L x L x C tensor of pair features residx: B
x L long tensor giving the position in the sequence mask: B x L boolean tensor indicating valid residues
Output:
predicted_structure: B x L x (num_atoms_per_residue * 3) tensor wrapped in a Coordinates object
"""
device = seq_feats.device
s_s_0 = seq_feats
s_z_0 = pair_feats
if no_recycles is None:
no_recycles = self.config.max_recycles
else:
if no_recycles < 0:
raise ValueError("Number of recycles must not be negative.")
no_recycles += 1 # First 'recycle' is just the standard forward pass through the model.
def trunk_iter(s, z, residx, mask):
z = z + self.pairwise_positional_embedding(residx, mask=mask)
for block in self.blocks:
s, z = block(s, z, mask=mask, residue_index=residx, chunk_size=self.chunk_size)
return s, z
s_s = s_s_0
s_z = s_z_0
recycle_s = torch.zeros_like(s_s)
recycle_z = torch.zeros_like(s_z)
recycle_bins = torch.zeros(*s_z.shape[:-1], device=device, dtype=torch.int64)
for recycle_idx in range(no_recycles):
with ContextManagers([] if recycle_idx == no_recycles - 1 else [torch.no_grad()]):
# === Recycling ===
recycle_s = self.recycle_s_norm(recycle_s.detach()).to(device)
recycle_z = self.recycle_z_norm(recycle_z.detach()).to(device)
recycle_z += self.recycle_disto(recycle_bins.detach()).to(device)
s_s, s_z = trunk_iter(s_s_0 + recycle_s, s_z_0 + recycle_z, residx, mask)
# === Structure module ===
structure = self.structure_module(
{"single": self.trunk2sm_s(s_s), "pair": self.trunk2sm_z(s_z)},
true_aa,
mask.float(),
)
recycle_s = s_s
recycle_z = s_z
# Distogram needs the N, CA, C coordinates, and bin constants same as alphafold.
recycle_bins = EsmFoldingTrunk.distogram(
structure["positions"][-1][:, :, :3],
3.375,
21.375,
self.recycle_bins,
)
structure["s_s"] = s_s
structure["s_z"] = s_z
return structure
@staticmethod
def distogram(coords, min_bin, max_bin, num_bins):
# Coords are [... L x 3 x 3], where it's [N, CA, C] x 3 coordinates.
boundaries = torch.linspace(
min_bin,
max_bin,
num_bins - 1,
device=coords.device,
)
boundaries = boundaries**2
N, CA, C = [x.squeeze(-2) for x in coords.chunk(3, dim=-2)]
# Infer CB coordinates.
b = CA - N
c = C - CA
a = b.cross(c, dim=-1)
CB = -0.58273431 * a + 0.56802827 * b - 0.54067466 * c + CA
dists = (CB[..., None, :, :] - CB[..., :, None, :]).pow(2).sum(dim=-1, keepdims=True)
bins = torch.sum(dists > boundaries, dim=-1) # [..., L, L]
return bins
# TODO Add information to the docstring about any methods that convert to PDB format, or otherwise prepare
# the outputs for downstream use.
@add_start_docstrings(
"""
ESMForProteinFolding is the HuggingFace port of the original ESMFold model. It consists of an ESM-2 "stem" followed
by a protein folding "head", although unlike most other output heads, this "head" is similar in size and runtime to
the rest of the model combined! It outputs a dictionary containing predicted structural information about the input
protein(s).
""",
ESM_START_DOCSTRING,
)
class EsmForProteinFolding(EsmPreTrainedModel):
_no_split_modules = ["EsmFoldStructureModule", "EsmFoldTriangularSelfAttentionBlock"]
def __init__(self, config):
super().__init__(config)
self.config = config
self.distogram_bins = 64
self.esm = EsmModel(config, add_pooling_layer=False)
self.esm.requires_grad_(False)
if self.config.esmfold_config.fp16_esm:
self.esm.half()
self.esm_feats = self.config.hidden_size
self.esm_attns = self.config.num_hidden_layers * self.config.num_attention_heads
self.esm_layers = self.config.num_hidden_layers
self.register_buffer("af2_to_esm", self._af2_to_esm_from_vocab_list(config.vocab_list))
self.esm_s_combine = nn.Parameter(torch.zeros(self.esm_layers + 1))
trunk_config = self.config.esmfold_config.trunk
c_s = trunk_config.sequence_state_dim
c_z = trunk_config.pairwise_state_dim
self.esm_s_mlp = nn.Sequential(
LayerNorm(self.esm_feats),
nn.Linear(self.esm_feats, c_s),
nn.ReLU(),
nn.Linear(c_s, c_s),
)
# 0 is padding, N is unknown residues, N + 1 is mask.
self.n_tokens_embed = residue_constants.restype_num + 3
self.pad_idx = 0
self.unk_idx = self.n_tokens_embed - 2
self.mask_idx = self.n_tokens_embed - 1
self.esm_dict_cls_idx = self.config.vocab_list.index("<cls>")
self.esm_dict_mask_idx = self.config.vocab_list.index("<mask>")
self.esm_dict_eos_idx = self.config.vocab_list.index("<eos>")
self.esm_dict_padding_idx = self.config.vocab_list.index("<pad>")
if self.config.esmfold_config.embed_aa:
self.embedding = nn.Embedding(self.n_tokens_embed, c_s, padding_idx=0)
self.trunk = EsmFoldingTrunk(trunk_config)
self.distogram_head = nn.Linear(c_z, self.distogram_bins)
self.ptm_head = nn.Linear(c_z, self.distogram_bins)
self.lm_head = nn.Linear(c_s, self.n_tokens_embed)
self.lddt_bins = 50
structure_module_config = trunk_config.structure_module
self.lddt_head = nn.Sequential(
nn.LayerNorm(structure_module_config.sequence_dim),
nn.Linear(structure_module_config.sequence_dim, self.config.esmfold_config.lddt_head_hid_dim),
nn.Linear(self.config.esmfold_config.lddt_head_hid_dim, self.config.esmfold_config.lddt_head_hid_dim),
nn.Linear(self.config.esmfold_config.lddt_head_hid_dim, 37 * self.lddt_bins),
)
@staticmethod
def _af2_to_esm_from_vocab_list(vocab_list: List[str]) -> torch.Tensor:
# Remember that t is shifted from residue_constants by 1 (0 is padding).
esm_reorder = [vocab_list.index("<pad>")] + [vocab_list.index(v) for v in residue_constants.restypes_with_x]
return torch.tensor(esm_reorder)
@add_start_docstrings_to_model_forward(ESMFOLD_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@replace_return_docstrings(output_type=EsmForProteinFoldingOutput, config_class=EsmConfig)
def forward(
self,
input_ids: torch.Tensor,
attention_mask: torch.Tensor = None,
position_ids: Optional[torch.Tensor] = None,
masking_pattern: Optional[torch.Tensor] = None,
num_recycles: Optional[int] = None,
):
r"""
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, EsmForProteinFolding
>>> model = EsmForProteinFolding.from_pretrained("facebook/esmfold_v1")
>>> tokenizer = AutoTokenizer.from_pretrained("facebook/esmfold_v1")
>>> inputs = tokenizer(["MLKNVQVQLV"], return_tensors="pt", add_special_tokens=False) # A tiny random peptide
>>> outputs = model(**inputs)
>>> folded_positions = outputs.positions
```
"""
cfg = self.config.esmfold_config
aa = input_ids # B x L
B = aa.shape[0]
L = aa.shape[1]
device = input_ids.device
if attention_mask is None:
attention_mask = torch.ones_like(aa, device=device)
if position_ids is None:
position_ids = torch.arange(L, device=device).expand_as(input_ids)
# === ESM ===
esmaa = self.af2_idx_to_esm_idx(aa, attention_mask)
if masking_pattern is not None:
masked_aa, esmaa, mlm_targets = self.bert_mask(aa, esmaa, attention_mask, masking_pattern)
else:
masked_aa = aa
mlm_targets = None
# We get sequence and pair representations from whatever version of ESM /
# configuration we are using. The sequence representation esm_s is always
# present. The pair embedding esm_z may be present depending on the
# configuration of the model. If esm_z is not used by the model then it
# is returned as None here.
esm_s = self.compute_language_model_representations(esmaa)
# Convert esm_s and esm_z, if present, to the precision used by the trunk and
# the structure module. These tensors may be a lower precision if, for example,
# we're running the language model in fp16 precision.
esm_s = esm_s.to(self.esm_s_combine.dtype)
if cfg.esm_ablate_sequence:
esm_s = esm_s * 0
esm_s = esm_s.detach()
# === preprocessing ===
esm_s = (self.esm_s_combine.softmax(0).unsqueeze(0) @ esm_s).squeeze(2)
s_s_0 = self.esm_s_mlp(esm_s)
s_z_0 = s_s_0.new_zeros(B, L, L, cfg.trunk.pairwise_state_dim)
if self.config.esmfold_config.embed_aa:
s_s_0 += self.embedding(masked_aa)
structure: dict = self.trunk(s_s_0, s_z_0, aa, position_ids, attention_mask, no_recycles=num_recycles)
# Documenting what we expect:
structure = {
k: v
for k, v in structure.items()
if k
in [
"s_z",
"s_s",
"frames",
"sidechain_frames",
"unnormalized_angles",
"angles",
"positions",
"states",
]
}
# Add BERT mask for the loss to use, if available.
if mlm_targets:
structure["mlm_targets"] = mlm_targets
disto_logits = self.distogram_head(structure["s_z"])
disto_logits = (disto_logits + disto_logits.transpose(1, 2)) / 2
structure["distogram_logits"] = disto_logits
lm_logits = self.lm_head(structure["s_s"])
structure["lm_logits"] = lm_logits
structure["aatype"] = aa
make_atom14_masks(structure)
# Of course, this doesn't respect the true mask because it doesn't know about it...
# We're not going to properly mask change of index tensors:
# "residx_atom14_to_atom37",
# "residx_atom37_to_atom14",
for k in [
"atom14_atom_exists",
"atom37_atom_exists",
]:
structure[k] *= attention_mask.unsqueeze(-1)
structure["residue_index"] = position_ids
lddt_head = self.lddt_head(structure["states"]).reshape(structure["states"].shape[0], B, L, -1, self.lddt_bins)
structure["lddt_head"] = lddt_head
plddt = categorical_lddt(lddt_head[-1], bins=self.lddt_bins)
structure["plddt"] = plddt
ptm_logits = self.ptm_head(structure["s_z"])
structure["ptm_logits"] = ptm_logits
structure["ptm"] = compute_tm(ptm_logits, max_bin=31, no_bins=self.distogram_bins)
structure.update(compute_predicted_aligned_error(ptm_logits, max_bin=31, no_bins=self.distogram_bins))
return EsmForProteinFoldingOutput(**structure)
def af2_idx_to_esm_idx(self, aa, mask):
# avoid indexing on different devices
if self.af2_to_esm.device != aa.device:
self.af2_to_esm = self.af2_to_esm.to(aa.device)
aa = (aa + 1).masked_fill(mask != 1, 0)
return self.af2_to_esm[aa]
def compute_language_model_representations(self, esmaa: torch.Tensor) -> torch.Tensor:
device = next(self.parameters()).device
B, L = esmaa.shape # B = batch size, L = sequence length.
if self.config.esmfold_config.bypass_lm:
esm_s = torch.zeros(B, L, self.esm_s_combine.size[0], -1, self.esm_feats, device=device)
return esm_s
bosi, eosi = self.esm_dict_cls_idx, self.esm_dict_eos_idx
bos = esmaa.new_full((B, 1), bosi)
eos = esmaa.new_full((B, 1), self.esm_dict_padding_idx)
esmaa = torch.cat([bos, esmaa, eos], dim=1)
# Use the first padding index as eos during inference.
esmaa[range(B), (esmaa != 1).sum(1)] = eosi
# _, esm_z, esm_s = self.esm(esmaa, return_pairs=self.config.esmfold_config.use_esm_attn_map)
# Because we do not support use_esm_attn_map in the HF port as it is not used in any public models,
# esm_z is always None
esm_hidden_states = self.esm(esmaa, attention_mask=esmaa != 1, output_hidden_states=True)["hidden_states"]
esm_s = torch.stack(esm_hidden_states, dim=2)
esm_s = esm_s[:, 1:-1] # B, L, nLayers, C
return esm_s
def bert_mask(self, aa, esmaa, mask, pattern):
new_aa = aa.clone()
target = aa.clone()
new_esmaa = esmaa.clone()
new_aa[pattern == 1] = self.mask_idx
target[pattern != 1] = 0
new_esmaa[pattern == 1] = self.esm_dict_mask_idx
return new_aa, new_esmaa, target
@torch.no_grad()
def infer(
self,
seqs: Union[str, List[str]],
position_ids=None,
):
if type(seqs) is str:
lst = [seqs]
else:
lst = seqs
# Returns the raw outputs of the model given an input sequence.
device = next(self.parameters()).device
aatype = collate_dense_tensors(
[
torch.from_numpy(
residue_constants.sequence_to_onehot(
sequence=seq,
mapping=residue_constants.restype_order_with_x,
map_unknown_to_x=True,
)
)
.to(device)
.argmax(dim=1)
for seq in lst
]
) # B=1 x L
mask = collate_dense_tensors([aatype.new_ones(len(seq)) for seq in lst])
position_ids = (
torch.arange(aatype.shape[1], device=device).expand(len(lst), -1)
if position_ids is None
else position_ids.to(device)
)
if position_ids.ndim == 1:
position_ids = position_ids.unsqueeze(0)
return self.forward(
aatype,
mask,
position_ids=position_ids,
)
@staticmethod
def output_to_pdb(output: Dict) -> List[str]:
"""Returns the pbd (file) string from the model given the model output."""
output = {k: v.to("cpu").numpy() for k, v in output.items()}
pdbs = []
final_atom_positions = atom14_to_atom37(output["positions"][-1], output)
final_atom_mask = output["atom37_atom_exists"]
for i in range(output["aatype"].shape[0]):
aa = output["aatype"][i]
pred_pos = final_atom_positions[i]
mask = final_atom_mask[i]
resid = output["residue_index"][i] + 1
pred = OFProtein(
aatype=aa,
atom_positions=pred_pos,
atom_mask=mask,
residue_index=resid,
b_factors=output["plddt"][i],
)
pdbs.append(to_pdb(pred))
return pdbs
def infer_pdb(self, seqs, *args, **kwargs) -> str:
"""Returns the pdb (file) string from the model given an input sequence."""
assert type(seqs) is str
output = self.infer(seqs, *args, **kwargs)
return self.output_to_pdb(output)[0]
def infer_pdbs(self, seqs: List[str], *args, **kwargs) -> List[str]:
"""Returns the pdb (file) string from the model given an input sequence."""
output = self.infer(seqs, *args, **kwargs)
return self.output_to_pdb(output)
| transformers-main | src/transformers/models/esm/modeling_esmfold.py |
# Copyright 2021 AlQuraishi Laboratory
# Copyright 2021 DeepMind Technologies Limited
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from __future__ import annotations
from functools import lru_cache
from typing import Any, Callable, Dict, List, Optional, Sequence, Tuple
import numpy as np
import torch
def rot_matmul(a: torch.Tensor, b: torch.Tensor) -> torch.Tensor:
"""
Performs matrix multiplication of two rotation matrix tensors. Written out by hand to avoid AMP downcasting.
Args:
a: [*, 3, 3] left multiplicand
b: [*, 3, 3] right multiplicand
Returns:
The product ab
"""
def row_mul(i: int) -> torch.Tensor:
return torch.stack(
[
a[..., i, 0] * b[..., 0, 0] + a[..., i, 1] * b[..., 1, 0] + a[..., i, 2] * b[..., 2, 0],
a[..., i, 0] * b[..., 0, 1] + a[..., i, 1] * b[..., 1, 1] + a[..., i, 2] * b[..., 2, 1],
a[..., i, 0] * b[..., 0, 2] + a[..., i, 1] * b[..., 1, 2] + a[..., i, 2] * b[..., 2, 2],
],
dim=-1,
)
return torch.stack(
[
row_mul(0),
row_mul(1),
row_mul(2),
],
dim=-2,
)
def rot_vec_mul(r: torch.Tensor, t: torch.Tensor) -> torch.Tensor:
"""
Applies a rotation to a vector. Written out by hand to avoid transfer to avoid AMP downcasting.
Args:
r: [*, 3, 3] rotation matrices
t: [*, 3] coordinate tensors
Returns:
[*, 3] rotated coordinates
"""
x, y, z = torch.unbind(t, dim=-1)
return torch.stack(
[
r[..., 0, 0] * x + r[..., 0, 1] * y + r[..., 0, 2] * z,
r[..., 1, 0] * x + r[..., 1, 1] * y + r[..., 1, 2] * z,
r[..., 2, 0] * x + r[..., 2, 1] * y + r[..., 2, 2] * z,
],
dim=-1,
)
@lru_cache(maxsize=None)
def identity_rot_mats(
batch_dims: Tuple[int, ...],
dtype: Optional[torch.dtype] = None,
device: Optional[torch.device] = None,
requires_grad: bool = True,
) -> torch.Tensor:
rots = torch.eye(3, dtype=dtype, device=device, requires_grad=requires_grad)
rots = rots.view(*((1,) * len(batch_dims)), 3, 3)
rots = rots.expand(*batch_dims, -1, -1)
rots = rots.contiguous()
return rots
@lru_cache(maxsize=None)
def identity_trans(
batch_dims: Tuple[int, ...],
dtype: Optional[torch.dtype] = None,
device: Optional[torch.device] = None,
requires_grad: bool = True,
) -> torch.Tensor:
trans = torch.zeros((*batch_dims, 3), dtype=dtype, device=device, requires_grad=requires_grad)
return trans
@lru_cache(maxsize=None)
def identity_quats(
batch_dims: Tuple[int, ...],
dtype: Optional[torch.dtype] = None,
device: Optional[torch.device] = None,
requires_grad: bool = True,
) -> torch.Tensor:
quat = torch.zeros((*batch_dims, 4), dtype=dtype, device=device, requires_grad=requires_grad)
with torch.no_grad():
quat[..., 0] = 1
return quat
_quat_elements: List[str] = ["a", "b", "c", "d"]
_qtr_keys: List[str] = [l1 + l2 for l1 in _quat_elements for l2 in _quat_elements]
_qtr_ind_dict: Dict[str, int] = {key: ind for ind, key in enumerate(_qtr_keys)}
def _to_mat(pairs: List[Tuple[str, int]]) -> np.ndarray:
mat = np.zeros((4, 4))
for key, value in pairs:
ind = _qtr_ind_dict[key]
mat[ind // 4][ind % 4] = value
return mat
_QTR_MAT = np.zeros((4, 4, 3, 3))
_QTR_MAT[..., 0, 0] = _to_mat([("aa", 1), ("bb", 1), ("cc", -1), ("dd", -1)])
_QTR_MAT[..., 0, 1] = _to_mat([("bc", 2), ("ad", -2)])
_QTR_MAT[..., 0, 2] = _to_mat([("bd", 2), ("ac", 2)])
_QTR_MAT[..., 1, 0] = _to_mat([("bc", 2), ("ad", 2)])
_QTR_MAT[..., 1, 1] = _to_mat([("aa", 1), ("bb", -1), ("cc", 1), ("dd", -1)])
_QTR_MAT[..., 1, 2] = _to_mat([("cd", 2), ("ab", -2)])
_QTR_MAT[..., 2, 0] = _to_mat([("bd", 2), ("ac", -2)])
_QTR_MAT[..., 2, 1] = _to_mat([("cd", 2), ("ab", 2)])
_QTR_MAT[..., 2, 2] = _to_mat([("aa", 1), ("bb", -1), ("cc", -1), ("dd", 1)])
def quat_to_rot(quat: torch.Tensor) -> torch.Tensor:
"""
Converts a quaternion to a rotation matrix.
Args:
quat: [*, 4] quaternions
Returns:
[*, 3, 3] rotation matrices
"""
# [*, 4, 4]
quat = quat[..., None] * quat[..., None, :]
# [4, 4, 3, 3]
mat = _get_quat("_QTR_MAT", dtype=quat.dtype, device=quat.device)
# [*, 4, 4, 3, 3]
shaped_qtr_mat = mat.view((1,) * len(quat.shape[:-2]) + mat.shape)
quat = quat[..., None, None] * shaped_qtr_mat
# [*, 3, 3]
return torch.sum(quat, dim=(-3, -4))
def rot_to_quat(rot: torch.Tensor) -> torch.Tensor:
if rot.shape[-2:] != (3, 3):
raise ValueError("Input rotation is incorrectly shaped")
[[xx, xy, xz], [yx, yy, yz], [zx, zy, zz]] = [[rot[..., i, j] for j in range(3)] for i in range(3)]
k = [
[
xx + yy + zz,
zy - yz,
xz - zx,
yx - xy,
],
[
zy - yz,
xx - yy - zz,
xy + yx,
xz + zx,
],
[
xz - zx,
xy + yx,
yy - xx - zz,
yz + zy,
],
[
yx - xy,
xz + zx,
yz + zy,
zz - xx - yy,
],
]
_, vectors = torch.linalg.eigh((1.0 / 3.0) * torch.stack([torch.stack(t, dim=-1) for t in k], dim=-2))
return vectors[..., -1]
_QUAT_MULTIPLY = np.zeros((4, 4, 4))
_QUAT_MULTIPLY[:, :, 0] = [[1, 0, 0, 0], [0, -1, 0, 0], [0, 0, -1, 0], [0, 0, 0, -1]]
_QUAT_MULTIPLY[:, :, 1] = [[0, 1, 0, 0], [1, 0, 0, 0], [0, 0, 0, 1], [0, 0, -1, 0]]
_QUAT_MULTIPLY[:, :, 2] = [[0, 0, 1, 0], [0, 0, 0, -1], [1, 0, 0, 0], [0, 1, 0, 0]]
_QUAT_MULTIPLY[:, :, 3] = [[0, 0, 0, 1], [0, 0, 1, 0], [0, -1, 0, 0], [1, 0, 0, 0]]
_QUAT_MULTIPLY_BY_VEC = _QUAT_MULTIPLY[:, 1:, :]
_CACHED_QUATS: Dict[str, np.ndarray] = {
"_QTR_MAT": _QTR_MAT,
"_QUAT_MULTIPLY": _QUAT_MULTIPLY,
"_QUAT_MULTIPLY_BY_VEC": _QUAT_MULTIPLY_BY_VEC,
}
@lru_cache(maxsize=None)
def _get_quat(quat_key: str, dtype: torch.dtype, device: torch.device) -> torch.Tensor:
return torch.tensor(_CACHED_QUATS[quat_key], dtype=dtype, device=device)
def quat_multiply(quat1: torch.Tensor, quat2: torch.Tensor) -> torch.Tensor:
"""Multiply a quaternion by another quaternion."""
mat = _get_quat("_QUAT_MULTIPLY", dtype=quat1.dtype, device=quat1.device)
reshaped_mat = mat.view((1,) * len(quat1.shape[:-1]) + mat.shape)
return torch.sum(reshaped_mat * quat1[..., :, None, None] * quat2[..., None, :, None], dim=(-3, -2))
def quat_multiply_by_vec(quat: torch.Tensor, vec: torch.Tensor) -> torch.Tensor:
"""Multiply a quaternion by a pure-vector quaternion."""
mat = _get_quat("_QUAT_MULTIPLY_BY_VEC", dtype=quat.dtype, device=quat.device)
reshaped_mat = mat.view((1,) * len(quat.shape[:-1]) + mat.shape)
return torch.sum(reshaped_mat * quat[..., :, None, None] * vec[..., None, :, None], dim=(-3, -2))
def invert_rot_mat(rot_mat: torch.Tensor) -> torch.Tensor:
return rot_mat.transpose(-1, -2)
def invert_quat(quat: torch.Tensor) -> torch.Tensor:
quat_prime = quat.clone()
quat_prime[..., 1:] *= -1
inv = quat_prime / torch.sum(quat**2, dim=-1, keepdim=True)
return inv
class Rotation:
"""
A 3D rotation. Depending on how the object is initialized, the rotation is represented by either a rotation matrix
or a quaternion, though both formats are made available by helper functions. To simplify gradient computation, the
underlying format of the rotation cannot be changed in-place. Like Rigid, the class is designed to mimic the
behavior of a torch Tensor, almost as if each Rotation object were a tensor of rotations, in one format or another.
"""
def __init__(
self,
rot_mats: Optional[torch.Tensor] = None,
quats: Optional[torch.Tensor] = None,
normalize_quats: bool = True,
):
"""
Args:
rot_mats:
A [*, 3, 3] rotation matrix tensor. Mutually exclusive with quats
quats:
A [*, 4] quaternion. Mutually exclusive with rot_mats. If normalize_quats is not True, must be a unit
quaternion
normalize_quats:
If quats is specified, whether to normalize quats
"""
if (rot_mats is None and quats is None) or (rot_mats is not None and quats is not None):
raise ValueError("Exactly one input argument must be specified")
if (rot_mats is not None and rot_mats.shape[-2:] != (3, 3)) or (quats is not None and quats.shape[-1] != 4):
raise ValueError("Incorrectly shaped rotation matrix or quaternion")
# Force full-precision
if quats is not None:
quats = quats.to(dtype=torch.float32)
if rot_mats is not None:
rot_mats = rot_mats.to(dtype=torch.float32)
if quats is not None and normalize_quats:
quats = quats / torch.linalg.norm(quats, dim=-1, keepdim=True)
self._rot_mats = rot_mats
self._quats = quats
@staticmethod
def identity(
shape,
dtype: Optional[torch.dtype] = None,
device: Optional[torch.device] = None,
requires_grad: bool = True,
fmt: str = "quat",
) -> Rotation:
"""
Returns an identity Rotation.
Args:
shape:
The "shape" of the resulting Rotation object. See documentation for the shape property
dtype:
The torch dtype for the rotation
device:
The torch device for the new rotation
requires_grad:
Whether the underlying tensors in the new rotation object should require gradient computation
fmt:
One of "quat" or "rot_mat". Determines the underlying format of the new object's rotation
Returns:
A new identity rotation
"""
if fmt == "rot_mat":
rot_mats = identity_rot_mats(
shape,
dtype,
device,
requires_grad,
)
return Rotation(rot_mats=rot_mats, quats=None)
elif fmt == "quat":
quats = identity_quats(shape, dtype, device, requires_grad)
return Rotation(rot_mats=None, quats=quats, normalize_quats=False)
else:
raise ValueError(f"Invalid format: f{fmt}")
# Magic methods
def __getitem__(self, index: Any) -> Rotation:
"""
Allows torch-style indexing over the virtual shape of the rotation object. See documentation for the shape
property.
Args:
index:
A torch index. E.g. (1, 3, 2), or (slice(None,))
Returns:
The indexed rotation
"""
if type(index) != tuple:
index = (index,)
if self._rot_mats is not None:
rot_mats = self._rot_mats[index + (slice(None), slice(None))]
return Rotation(rot_mats=rot_mats)
elif self._quats is not None:
quats = self._quats[index + (slice(None),)]
return Rotation(quats=quats, normalize_quats=False)
else:
raise ValueError("Both rotations are None")
def __mul__(self, right: torch.Tensor) -> Rotation:
"""
Pointwise left multiplication of the rotation with a tensor. Can be used to e.g. mask the Rotation.
Args:
right:
The tensor multiplicand
Returns:
The product
"""
if not (isinstance(right, torch.Tensor)):
raise TypeError("The other multiplicand must be a Tensor")
if self._rot_mats is not None:
rot_mats = self._rot_mats * right[..., None, None]
return Rotation(rot_mats=rot_mats, quats=None)
elif self._quats is not None:
quats = self._quats * right[..., None]
return Rotation(rot_mats=None, quats=quats, normalize_quats=False)
else:
raise ValueError("Both rotations are None")
def __rmul__(self, left: torch.Tensor) -> Rotation:
"""
Reverse pointwise multiplication of the rotation with a tensor.
Args:
left:
The left multiplicand
Returns:
The product
"""
return self.__mul__(left)
# Properties
@property
def shape(self) -> torch.Size:
"""
Returns the virtual shape of the rotation object. This shape is defined as the batch dimensions of the
underlying rotation matrix or quaternion. If the Rotation was initialized with a [10, 3, 3] rotation matrix
tensor, for example, the resulting shape would be [10].
Returns:
The virtual shape of the rotation object
"""
if self._rot_mats is not None:
return self._rot_mats.shape[:-2]
elif self._quats is not None:
return self._quats.shape[:-1]
else:
raise ValueError("Both rotations are None")
@property
def dtype(self) -> torch.dtype:
"""
Returns the dtype of the underlying rotation.
Returns:
The dtype of the underlying rotation
"""
if self._rot_mats is not None:
return self._rot_mats.dtype
elif self._quats is not None:
return self._quats.dtype
else:
raise ValueError("Both rotations are None")
@property
def device(self) -> torch.device:
"""
The device of the underlying rotation
Returns:
The device of the underlying rotation
"""
if self._rot_mats is not None:
return self._rot_mats.device
elif self._quats is not None:
return self._quats.device
else:
raise ValueError("Both rotations are None")
@property
def requires_grad(self) -> bool:
"""
Returns the requires_grad property of the underlying rotation
Returns:
The requires_grad property of the underlying tensor
"""
if self._rot_mats is not None:
return self._rot_mats.requires_grad
elif self._quats is not None:
return self._quats.requires_grad
else:
raise ValueError("Both rotations are None")
def get_rot_mats(self) -> torch.Tensor:
"""
Returns the underlying rotation as a rotation matrix tensor.
Returns:
The rotation as a rotation matrix tensor
"""
if self._rot_mats is not None:
return self._rot_mats
elif self._quats is not None:
return quat_to_rot(self._quats)
else:
raise ValueError("Both rotations are None")
def get_quats(self) -> torch.Tensor:
"""
Returns the underlying rotation as a quaternion tensor.
Depending on whether the Rotation was initialized with a quaternion, this function may call torch.linalg.eigh.
Returns:
The rotation as a quaternion tensor.
"""
if self._rot_mats is not None:
return rot_to_quat(self._rot_mats)
elif self._quats is not None:
return self._quats
else:
raise ValueError("Both rotations are None")
def get_cur_rot(self) -> torch.Tensor:
"""
Return the underlying rotation in its current form
Returns:
The stored rotation
"""
if self._rot_mats is not None:
return self._rot_mats
elif self._quats is not None:
return self._quats
else:
raise ValueError("Both rotations are None")
# Rotation functions
def compose_q_update_vec(self, q_update_vec: torch.Tensor, normalize_quats: bool = True) -> Rotation:
"""
Returns a new quaternion Rotation after updating the current object's underlying rotation with a quaternion
update, formatted as a [*, 3] tensor whose final three columns represent x, y, z such that (1, x, y, z) is the
desired (not necessarily unit) quaternion update.
Args:
q_update_vec:
A [*, 3] quaternion update tensor
normalize_quats:
Whether to normalize the output quaternion
Returns:
An updated Rotation
"""
quats = self.get_quats()
new_quats = quats + quat_multiply_by_vec(quats, q_update_vec)
return Rotation(
rot_mats=None,
quats=new_quats,
normalize_quats=normalize_quats,
)
def compose_r(self, r: Rotation) -> Rotation:
"""
Compose the rotation matrices of the current Rotation object with those of another.
Args:
r:
An update rotation object
Returns:
An updated rotation object
"""
r1 = self.get_rot_mats()
r2 = r.get_rot_mats()
new_rot_mats = rot_matmul(r1, r2)
return Rotation(rot_mats=new_rot_mats, quats=None)
def compose_q(self, r: Rotation, normalize_quats: bool = True) -> Rotation:
"""
Compose the quaternions of the current Rotation object with those of another.
Depending on whether either Rotation was initialized with quaternions, this function may call
torch.linalg.eigh.
Args:
r:
An update rotation object
Returns:
An updated rotation object
"""
q1 = self.get_quats()
q2 = r.get_quats()
new_quats = quat_multiply(q1, q2)
return Rotation(rot_mats=None, quats=new_quats, normalize_quats=normalize_quats)
def apply(self, pts: torch.Tensor) -> torch.Tensor:
"""
Apply the current Rotation as a rotation matrix to a set of 3D coordinates.
Args:
pts:
A [*, 3] set of points
Returns:
[*, 3] rotated points
"""
rot_mats = self.get_rot_mats()
return rot_vec_mul(rot_mats, pts)
def invert_apply(self, pts: torch.Tensor) -> torch.Tensor:
"""
The inverse of the apply() method.
Args:
pts:
A [*, 3] set of points
Returns:
[*, 3] inverse-rotated points
"""
rot_mats = self.get_rot_mats()
inv_rot_mats = invert_rot_mat(rot_mats)
return rot_vec_mul(inv_rot_mats, pts)
def invert(self) -> Rotation:
"""
Returns the inverse of the current Rotation.
Returns:
The inverse of the current Rotation
"""
if self._rot_mats is not None:
return Rotation(rot_mats=invert_rot_mat(self._rot_mats), quats=None)
elif self._quats is not None:
return Rotation(
rot_mats=None,
quats=invert_quat(self._quats),
normalize_quats=False,
)
else:
raise ValueError("Both rotations are None")
# "Tensor" stuff
def unsqueeze(self, dim: int) -> Rotation:
"""
Analogous to torch.unsqueeze. The dimension is relative to the shape of the Rotation object.
Args:
dim: A positive or negative dimension index.
Returns:
The unsqueezed Rotation.
"""
if dim >= len(self.shape):
raise ValueError("Invalid dimension")
if self._rot_mats is not None:
rot_mats = self._rot_mats.unsqueeze(dim if dim >= 0 else dim - 2)
return Rotation(rot_mats=rot_mats, quats=None)
elif self._quats is not None:
quats = self._quats.unsqueeze(dim if dim >= 0 else dim - 1)
return Rotation(rot_mats=None, quats=quats, normalize_quats=False)
else:
raise ValueError("Both rotations are None")
@staticmethod
def cat(rs: Sequence[Rotation], dim: int) -> Rotation:
"""
Concatenates rotations along one of the batch dimensions. Analogous to torch.cat().
Note that the output of this operation is always a rotation matrix, regardless of the format of input
rotations.
Args:
rs:
A list of rotation objects
dim:
The dimension along which the rotations should be concatenated
Returns:
A concatenated Rotation object in rotation matrix format
"""
rot_mats = torch.cat(
[r.get_rot_mats() for r in rs],
dim=dim if dim >= 0 else dim - 2,
)
return Rotation(rot_mats=rot_mats, quats=None)
def map_tensor_fn(self, fn: Callable[[torch.Tensor], torch.Tensor]) -> Rotation:
"""
Apply a Tensor -> Tensor function to underlying rotation tensors, mapping over the rotation dimension(s). Can
be used e.g. to sum out a one-hot batch dimension.
Args:
fn:
A Tensor -> Tensor function to be mapped over the Rotation
Returns:
The transformed Rotation object
"""
if self._rot_mats is not None:
rot_mats = self._rot_mats.view(self._rot_mats.shape[:-2] + (9,))
rot_mats = torch.stack(list(map(fn, torch.unbind(rot_mats, dim=-1))), dim=-1)
rot_mats = rot_mats.view(rot_mats.shape[:-1] + (3, 3))
return Rotation(rot_mats=rot_mats, quats=None)
elif self._quats is not None:
quats = torch.stack(list(map(fn, torch.unbind(self._quats, dim=-1))), dim=-1)
return Rotation(rot_mats=None, quats=quats, normalize_quats=False)
else:
raise ValueError("Both rotations are None")
def cuda(self) -> Rotation:
"""
Analogous to the cuda() method of torch Tensors
Returns:
A copy of the Rotation in CUDA memory
"""
if self._rot_mats is not None:
return Rotation(rot_mats=self._rot_mats.cuda(), quats=None)
elif self._quats is not None:
return Rotation(rot_mats=None, quats=self._quats.cuda(), normalize_quats=False)
else:
raise ValueError("Both rotations are None")
def to(self, device: Optional[torch.device], dtype: Optional[torch.dtype]) -> Rotation:
"""
Analogous to the to() method of torch Tensors
Args:
device:
A torch device
dtype:
A torch dtype
Returns:
A copy of the Rotation using the new device and dtype
"""
if self._rot_mats is not None:
return Rotation(
rot_mats=self._rot_mats.to(device=device, dtype=dtype),
quats=None,
)
elif self._quats is not None:
return Rotation(
rot_mats=None,
quats=self._quats.to(device=device, dtype=dtype),
normalize_quats=False,
)
else:
raise ValueError("Both rotations are None")
def detach(self) -> Rotation:
"""
Returns a copy of the Rotation whose underlying Tensor has been detached from its torch graph.
Returns:
A copy of the Rotation whose underlying Tensor has been detached from its torch graph
"""
if self._rot_mats is not None:
return Rotation(rot_mats=self._rot_mats.detach(), quats=None)
elif self._quats is not None:
return Rotation(
rot_mats=None,
quats=self._quats.detach(),
normalize_quats=False,
)
else:
raise ValueError("Both rotations are None")
class Rigid:
"""
A class representing a rigid transformation. Little more than a wrapper around two objects: a Rotation object and a
[*, 3] translation Designed to behave approximately like a single torch tensor with the shape of the shared batch
dimensions of its component parts.
"""
def __init__(self, rots: Optional[Rotation], trans: Optional[torch.Tensor]):
"""
Args:
rots: A [*, 3, 3] rotation tensor
trans: A corresponding [*, 3] translation tensor
"""
# (we need device, dtype, etc. from at least one input)
batch_dims, dtype, device, requires_grad = None, None, None, None
if trans is not None:
batch_dims = trans.shape[:-1]
dtype = trans.dtype
device = trans.device
requires_grad = trans.requires_grad
elif rots is not None:
batch_dims = rots.shape
dtype = rots.dtype
device = rots.device
requires_grad = rots.requires_grad
else:
raise ValueError("At least one input argument must be specified")
if rots is None:
rots = Rotation.identity(
batch_dims,
dtype,
device,
requires_grad,
)
elif trans is None:
trans = identity_trans(
batch_dims,
dtype,
device,
requires_grad,
)
assert rots is not None
assert trans is not None
if (rots.shape != trans.shape[:-1]) or (rots.device != trans.device):
raise ValueError("Rots and trans incompatible")
# Force full precision. Happens to the rotations automatically.
trans = trans.to(dtype=torch.float32)
self._rots = rots
self._trans = trans
@staticmethod
def identity(
shape: Tuple[int, ...],
dtype: Optional[torch.dtype] = None,
device: Optional[torch.device] = None,
requires_grad: bool = True,
fmt: str = "quat",
) -> Rigid:
"""
Constructs an identity transformation.
Args:
shape:
The desired shape
dtype:
The dtype of both internal tensors
device:
The device of both internal tensors
requires_grad:
Whether grad should be enabled for the internal tensors
Returns:
The identity transformation
"""
return Rigid(
Rotation.identity(shape, dtype, device, requires_grad, fmt=fmt),
identity_trans(shape, dtype, device, requires_grad),
)
def __getitem__(self, index: Any) -> Rigid:
"""
Indexes the affine transformation with PyTorch-style indices. The index is applied to the shared dimensions of
both the rotation and the translation.
E.g.::
r = Rotation(rot_mats=torch.rand(10, 10, 3, 3), quats=None) t = Rigid(r, torch.rand(10, 10, 3)) indexed =
t[3, 4:6] assert(indexed.shape == (2,)) assert(indexed.get_rots().shape == (2,))
assert(indexed.get_trans().shape == (2, 3))
Args:
index: A standard torch tensor index. E.g. 8, (10, None, 3),
or (3, slice(0, 1, None))
Returns:
The indexed tensor
"""
if type(index) != tuple:
index = (index,)
return Rigid(
self._rots[index],
self._trans[index + (slice(None),)],
)
def __mul__(self, right: torch.Tensor) -> Rigid:
"""
Pointwise left multiplication of the transformation with a tensor. Can be used to e.g. mask the Rigid.
Args:
right:
The tensor multiplicand
Returns:
The product
"""
if not (isinstance(right, torch.Tensor)):
raise TypeError("The other multiplicand must be a Tensor")
new_rots = self._rots * right
new_trans = self._trans * right[..., None]
return Rigid(new_rots, new_trans)
def __rmul__(self, left: torch.Tensor) -> Rigid:
"""
Reverse pointwise multiplication of the transformation with a tensor.
Args:
left:
The left multiplicand
Returns:
The product
"""
return self.__mul__(left)
@property
def shape(self) -> torch.Size:
"""
Returns the shape of the shared dimensions of the rotation and the translation.
Returns:
The shape of the transformation
"""
return self._trans.shape[:-1]
@property
def device(self) -> torch.device:
"""
Returns the device on which the Rigid's tensors are located.
Returns:
The device on which the Rigid's tensors are located
"""
return self._trans.device
def get_rots(self) -> Rotation:
"""
Getter for the rotation.
Returns:
The rotation object
"""
return self._rots
def get_trans(self) -> torch.Tensor:
"""
Getter for the translation.
Returns:
The stored translation
"""
return self._trans
def compose_q_update_vec(self, q_update_vec: torch.Tensor) -> Rigid:
"""
Composes the transformation with a quaternion update vector of shape [*, 6], where the final 6 columns
represent the x, y, and z values of a quaternion of form (1, x, y, z) followed by a 3D translation.
Args:
q_vec: The quaternion update vector.
Returns:
The composed transformation.
"""
q_vec, t_vec = q_update_vec[..., :3], q_update_vec[..., 3:]
new_rots = self._rots.compose_q_update_vec(q_vec)
trans_update = self._rots.apply(t_vec)
new_translation = self._trans + trans_update
return Rigid(new_rots, new_translation)
def compose(self, r: Rigid) -> Rigid:
"""
Composes the current rigid object with another.
Args:
r:
Another Rigid object
Returns:
The composition of the two transformations
"""
new_rot = self._rots.compose_r(r._rots)
new_trans = self._rots.apply(r._trans) + self._trans
return Rigid(new_rot, new_trans)
def apply(self, pts: torch.Tensor) -> torch.Tensor:
"""
Applies the transformation to a coordinate tensor.
Args:
pts: A [*, 3] coordinate tensor.
Returns:
The transformed points.
"""
rotated = self._rots.apply(pts)
return rotated + self._trans
def invert_apply(self, pts: torch.Tensor) -> torch.Tensor:
"""
Applies the inverse of the transformation to a coordinate tensor.
Args:
pts: A [*, 3] coordinate tensor
Returns:
The transformed points.
"""
pts = pts - self._trans
return self._rots.invert_apply(pts)
def invert(self) -> Rigid:
"""
Inverts the transformation.
Returns:
The inverse transformation.
"""
rot_inv = self._rots.invert()
trn_inv = rot_inv.apply(self._trans)
return Rigid(rot_inv, -1 * trn_inv)
def map_tensor_fn(self, fn: Callable[[torch.Tensor], torch.Tensor]) -> Rigid:
"""
Apply a Tensor -> Tensor function to underlying translation and rotation tensors, mapping over the
translation/rotation dimensions respectively.
Args:
fn:
A Tensor -> Tensor function to be mapped over the Rigid
Returns:
The transformed Rigid object
"""
new_rots = self._rots.map_tensor_fn(fn)
new_trans = torch.stack(list(map(fn, torch.unbind(self._trans, dim=-1))), dim=-1)
return Rigid(new_rots, new_trans)
def to_tensor_4x4(self) -> torch.Tensor:
"""
Converts a transformation to a homogenous transformation tensor.
Returns:
A [*, 4, 4] homogenous transformation tensor
"""
tensor = self._trans.new_zeros((*self.shape, 4, 4))
tensor[..., :3, :3] = self._rots.get_rot_mats()
tensor[..., :3, 3] = self._trans
tensor[..., 3, 3] = 1
return tensor
@staticmethod
def from_tensor_4x4(t: torch.Tensor) -> Rigid:
"""
Constructs a transformation from a homogenous transformation tensor.
Args:
t: [*, 4, 4] homogenous transformation tensor
Returns:
T object with shape [*]
"""
if t.shape[-2:] != (4, 4):
raise ValueError("Incorrectly shaped input tensor")
rots = Rotation(rot_mats=t[..., :3, :3], quats=None)
trans = t[..., :3, 3]
return Rigid(rots, trans)
def to_tensor_7(self) -> torch.Tensor:
"""
Converts a transformation to a tensor with 7 final columns, four for the quaternion followed by three for the
translation.
Returns:
A [*, 7] tensor representation of the transformation
"""
tensor = self._trans.new_zeros((*self.shape, 7))
tensor[..., :4] = self._rots.get_quats()
tensor[..., 4:] = self._trans
return tensor
@staticmethod
def from_tensor_7(t: torch.Tensor, normalize_quats: bool = False) -> Rigid:
if t.shape[-1] != 7:
raise ValueError("Incorrectly shaped input tensor")
quats, trans = t[..., :4], t[..., 4:]
rots = Rotation(rot_mats=None, quats=quats, normalize_quats=normalize_quats)
return Rigid(rots, trans)
@staticmethod
def from_3_points(
p_neg_x_axis: torch.Tensor, origin: torch.Tensor, p_xy_plane: torch.Tensor, eps: float = 1e-8
) -> Rigid:
"""
Implements algorithm 21. Constructs transformations from sets of 3 points using the Gram-Schmidt algorithm.
Args:
p_neg_x_axis: [*, 3] coordinates
origin: [*, 3] coordinates used as frame origins
p_xy_plane: [*, 3] coordinates
eps: Small epsilon value
Returns:
A transformation object of shape [*]
"""
p_neg_x_axis_unbound = torch.unbind(p_neg_x_axis, dim=-1)
origin_unbound = torch.unbind(origin, dim=-1)
p_xy_plane_unbound = torch.unbind(p_xy_plane, dim=-1)
e0 = [c1 - c2 for c1, c2 in zip(origin_unbound, p_neg_x_axis_unbound)]
e1 = [c1 - c2 for c1, c2 in zip(p_xy_plane_unbound, origin_unbound)]
denom = torch.sqrt(sum(c * c for c in e0) + eps * torch.ones_like(e0[0]))
e0 = [c / denom for c in e0]
dot = sum((c1 * c2 for c1, c2 in zip(e0, e1)))
e1 = [c2 - c1 * dot for c1, c2 in zip(e0, e1)]
denom = torch.sqrt(sum((c * c for c in e1)) + eps * torch.ones_like(e1[0]))
e1 = [c / denom for c in e1]
e2 = [
e0[1] * e1[2] - e0[2] * e1[1],
e0[2] * e1[0] - e0[0] * e1[2],
e0[0] * e1[1] - e0[1] * e1[0],
]
rots = torch.stack([c for tup in zip(e0, e1, e2) for c in tup], dim=-1)
rots = rots.reshape(rots.shape[:-1] + (3, 3))
rot_obj = Rotation(rot_mats=rots, quats=None)
return Rigid(rot_obj, torch.stack(origin_unbound, dim=-1))
def unsqueeze(self, dim: int) -> Rigid:
"""
Analogous to torch.unsqueeze. The dimension is relative to the shared dimensions of the rotation/translation.
Args:
dim: A positive or negative dimension index.
Returns:
The unsqueezed transformation.
"""
if dim >= len(self.shape):
raise ValueError("Invalid dimension")
rots = self._rots.unsqueeze(dim)
trans = self._trans.unsqueeze(dim if dim >= 0 else dim - 1)
return Rigid(rots, trans)
@staticmethod
def cat(ts: Sequence[Rigid], dim: int) -> Rigid:
"""
Concatenates transformations along a new dimension.
Args:
ts:
A list of T objects
dim:
The dimension along which the transformations should be concatenated
Returns:
A concatenated transformation object
"""
rots = Rotation.cat([t._rots for t in ts], dim)
trans = torch.cat([t._trans for t in ts], dim=dim if dim >= 0 else dim - 1)
return Rigid(rots, trans)
def apply_rot_fn(self, fn: Callable[[Rotation], Rotation]) -> Rigid:
"""
Applies a Rotation -> Rotation function to the stored rotation object.
Args:
fn: A function of type Rotation -> Rotation
Returns:
A transformation object with a transformed rotation.
"""
return Rigid(fn(self._rots), self._trans)
def apply_trans_fn(self, fn: Callable[[torch.Tensor], torch.Tensor]) -> Rigid:
"""
Applies a Tensor -> Tensor function to the stored translation.
Args:
fn:
A function of type Tensor -> Tensor to be applied to the translation
Returns:
A transformation object with a transformed translation.
"""
return Rigid(self._rots, fn(self._trans))
def scale_translation(self, trans_scale_factor: float) -> Rigid:
"""
Scales the translation by a constant factor.
Args:
trans_scale_factor:
The constant factor
Returns:
A transformation object with a scaled translation.
"""
return self.apply_trans_fn(lambda t: t * trans_scale_factor)
def stop_rot_gradient(self) -> Rigid:
"""
Detaches the underlying rotation object
Returns:
A transformation object with detached rotations
"""
return self.apply_rot_fn(lambda r: r.detach())
@staticmethod
def make_transform_from_reference(
n_xyz: torch.Tensor, ca_xyz: torch.Tensor, c_xyz: torch.Tensor, eps: float = 1e-20
) -> Rigid:
"""
Returns a transformation object from reference coordinates.
Note that this method does not take care of symmetries. If you provide the atom positions in the non-standard
way, the N atom will end up not at [-0.527250, 1.359329, 0.0] but instead at [-0.527250, -1.359329, 0.0]. You
need to take care of such cases in your code.
Args:
n_xyz: A [*, 3] tensor of nitrogen xyz coordinates.
ca_xyz: A [*, 3] tensor of carbon alpha xyz coordinates.
c_xyz: A [*, 3] tensor of carbon xyz coordinates.
Returns:
A transformation object. After applying the translation and rotation to the reference backbone, the
coordinates will approximately equal to the input coordinates.
"""
translation = -1 * ca_xyz
n_xyz = n_xyz + translation
c_xyz = c_xyz + translation
c_x, c_y, c_z = [c_xyz[..., i] for i in range(3)]
norm = torch.sqrt(eps + c_x**2 + c_y**2)
sin_c1 = -c_y / norm
cos_c1 = c_x / norm
c1_rots = sin_c1.new_zeros((*sin_c1.shape, 3, 3))
c1_rots[..., 0, 0] = cos_c1
c1_rots[..., 0, 1] = -1 * sin_c1
c1_rots[..., 1, 0] = sin_c1
c1_rots[..., 1, 1] = cos_c1
c1_rots[..., 2, 2] = 1
norm = torch.sqrt(eps + c_x**2 + c_y**2 + c_z**2)
sin_c2 = c_z / norm
cos_c2 = torch.sqrt(c_x**2 + c_y**2) / norm
c2_rots = sin_c2.new_zeros((*sin_c2.shape, 3, 3))
c2_rots[..., 0, 0] = cos_c2
c2_rots[..., 0, 2] = sin_c2
c2_rots[..., 1, 1] = 1
c2_rots[..., 2, 0] = -1 * sin_c2
c2_rots[..., 2, 2] = cos_c2
c_rots = rot_matmul(c2_rots, c1_rots)
n_xyz = rot_vec_mul(c_rots, n_xyz)
_, n_y, n_z = [n_xyz[..., i] for i in range(3)]
norm = torch.sqrt(eps + n_y**2 + n_z**2)
sin_n = -n_z / norm
cos_n = n_y / norm
n_rots = sin_c2.new_zeros((*sin_c2.shape, 3, 3))
n_rots[..., 0, 0] = 1
n_rots[..., 1, 1] = cos_n
n_rots[..., 1, 2] = -1 * sin_n
n_rots[..., 2, 1] = sin_n
n_rots[..., 2, 2] = cos_n
rots = rot_matmul(n_rots, c_rots)
rots = rots.transpose(-1, -2)
translation = -1 * translation
rot_obj = Rotation(rot_mats=rots, quats=None)
return Rigid(rot_obj, translation)
def cuda(self) -> Rigid:
"""
Moves the transformation object to GPU memory
Returns:
A version of the transformation on GPU
"""
return Rigid(self._rots.cuda(), self._trans.cuda())
| transformers-main | src/transformers/models/esm/openfold_utils/rigid_utils.py |
# Copyright 2021 AlQuraishi Laboratory
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
import logging
import math
from functools import partial
from typing import Any, Callable, Dict, Iterable, List, Optional, Sequence, Tuple, Union
import torch
from .tensor_utils import tensor_tree_map, tree_map
def _fetch_dims(tree: Union[dict, list, tuple, torch.Tensor]) -> List[Tuple[int, ...]]:
shapes = []
if isinstance(tree, dict):
for v in tree.values():
shapes.extend(_fetch_dims(v))
elif isinstance(tree, (list, tuple)):
for t in tree:
shapes.extend(_fetch_dims(t))
elif isinstance(tree, torch.Tensor):
shapes.append(tree.shape)
else:
raise ValueError("Not supported")
return shapes
@torch.jit.ignore
def _flat_idx_to_idx(flat_idx: int, dims: Tuple[int, ...]) -> Tuple[int, ...]:
idx = []
for d in reversed(dims):
idx.append(flat_idx % d)
flat_idx = flat_idx // d
return tuple(reversed(idx))
@torch.jit.ignore
def _get_minimal_slice_set(
start: Sequence[int],
end: Sequence[int],
dims: Sequence[int],
start_edges: Optional[Sequence[bool]] = None,
end_edges: Optional[Sequence[bool]] = None,
) -> List[Tuple[slice, ...]]:
"""
Produces an ordered sequence of tensor slices that, when used in sequence on a tensor with shape dims, yields
tensors that contain every leaf in the contiguous range [start, end]. Care is taken to yield a short sequence of
slices, and perhaps even the shortest possible (I'm pretty sure it's the latter).
end is INCLUSIVE.
"""
# start_edges and end_edges both indicate whether, starting from any given
# dimension, the start/end index is at the top/bottom edge of the
# corresponding tensor, modeled as a tree
def reduce_edge_list(l: List[bool]) -> None:
tally = True
for i in range(len(l)):
reversed_idx = -1 * (i + 1)
l[reversed_idx] &= tally
tally = l[reversed_idx]
if start_edges is None:
start_edges = [s == 0 for s in start]
reduce_edge_list(start_edges)
if end_edges is None:
end_edges = [e == (d - 1) for e, d in zip(end, dims)]
reduce_edge_list(end_edges)
# Base cases. Either start/end are empty and we're done, or the final,
# one-dimensional tensor can be simply sliced
if len(start) == 0:
return [()]
elif len(start) == 1:
return [(slice(start[0], end[0] + 1),)]
slices: List[Tuple[slice, ...]] = []
path_list: List[slice] = []
# Dimensions common to start and end can be selected directly
for s, e in zip(start, end):
if s == e:
path_list.append(slice(s, s + 1))
else:
break
path: Tuple[slice, ...] = tuple(path_list)
divergence_idx = len(path)
# start == end, and we're done
if divergence_idx == len(dims):
return [path]
def upper() -> Tuple[Tuple[slice, ...], ...]:
assert start_edges is not None
assert end_edges is not None
sdi = start[divergence_idx]
return tuple(
path + (slice(sdi, sdi + 1),) + s
for s in _get_minimal_slice_set(
start[divergence_idx + 1 :],
[d - 1 for d in dims[divergence_idx + 1 :]],
dims[divergence_idx + 1 :],
start_edges=start_edges[divergence_idx + 1 :],
end_edges=[True for _ in end_edges[divergence_idx + 1 :]],
)
)
def lower() -> Tuple[Tuple[slice, ...], ...]:
assert start_edges is not None
assert end_edges is not None
edi = end[divergence_idx]
return tuple(
path + (slice(edi, edi + 1),) + s
for s in _get_minimal_slice_set(
[0 for _ in start[divergence_idx + 1 :]],
end[divergence_idx + 1 :],
dims[divergence_idx + 1 :],
start_edges=[True for _ in start_edges[divergence_idx + 1 :]],
end_edges=end_edges[divergence_idx + 1 :],
)
)
# If both start and end are at the edges of the subtree rooted at
# divergence_idx, we can just select the whole subtree at once
if start_edges[divergence_idx] and end_edges[divergence_idx]:
slices.append(path + (slice(start[divergence_idx], end[divergence_idx] + 1),))
# If just start is at the edge, we can grab almost all of the subtree,
# treating only the ragged bottom edge as an edge case
elif start_edges[divergence_idx]:
slices.append(path + (slice(start[divergence_idx], end[divergence_idx]),))
slices.extend(lower())
# Analogous to the previous case, but the top is ragged this time
elif end_edges[divergence_idx]:
slices.extend(upper())
slices.append(path + (slice(start[divergence_idx] + 1, end[divergence_idx] + 1),))
# If both sides of the range are ragged, we need to handle both sides
# separately. If there's contiguous meat in between them, we can index it
# in one big chunk
else:
slices.extend(upper())
middle_ground = end[divergence_idx] - start[divergence_idx]
if middle_ground > 1:
slices.append(path + (slice(start[divergence_idx] + 1, end[divergence_idx]),))
slices.extend(lower())
return slices
@torch.jit.ignore
def _chunk_slice(t: torch.Tensor, flat_start: int, flat_end: int, no_batch_dims: int) -> torch.Tensor:
"""
Equivalent to
t.reshape((-1,) + t.shape[no_batch_dims:])[flat_start:flat_end]
but without the need for the initial reshape call, which can be memory-intensive in certain situations. The only
reshape operations in this function are performed on sub-tensors that scale with (flat_end - flat_start), the chunk
size.
"""
batch_dims = t.shape[:no_batch_dims]
start_idx = list(_flat_idx_to_idx(flat_start, batch_dims))
# _get_minimal_slice_set is inclusive
end_idx = list(_flat_idx_to_idx(flat_end - 1, batch_dims))
# Get an ordered list of slices to perform
slices = _get_minimal_slice_set(
start_idx,
end_idx,
batch_dims,
)
sliced_tensors = [t[s] for s in slices]
return torch.cat([s.view((-1,) + t.shape[no_batch_dims:]) for s in sliced_tensors])
def chunk_layer(
layer: Callable,
inputs: Dict[str, Any],
chunk_size: int,
no_batch_dims: int,
low_mem: bool = False,
_out: Any = None,
_add_into_out: bool = False,
) -> Any:
"""
Implements the "chunking" procedure described in section 1.11.8.
Layer outputs and inputs are assumed to be simple "pytrees," consisting only of (arbitrarily nested) lists, tuples,
and dicts with torch.Tensor leaves.
Args:
layer:
The layer to be applied chunk-wise
inputs:
A (non-nested) dictionary of keyworded inputs. All leaves must be tensors and must share the same batch
dimensions.
chunk_size:
The number of sub-batches per chunk. If multiple batch dimensions are specified, a "sub-batch" is defined
as a single indexing of all batch dimensions simultaneously (s.t. the number of sub-batches is the product
of the batch dimensions).
no_batch_dims:
How many of the initial dimensions of each input tensor can be considered batch dimensions.
low_mem:
Avoids flattening potentially large input tensors. Unnecessary in most cases, and is ever so slightly
slower than the default setting.
Returns:
The reassembled output of the layer on the inputs.
"""
if not (len(inputs) > 0):
raise ValueError("Must provide at least one input")
initial_dims = [shape[:no_batch_dims] for shape in _fetch_dims(inputs)]
orig_batch_dims = tuple([max(s) for s in zip(*initial_dims)])
def _prep_inputs(t: torch.Tensor) -> torch.Tensor:
if not low_mem:
if not sum(t.shape[:no_batch_dims]) == no_batch_dims:
t = t.expand(orig_batch_dims + t.shape[no_batch_dims:])
t = t.reshape(-1, *t.shape[no_batch_dims:])
else:
t = t.expand(orig_batch_dims + t.shape[no_batch_dims:])
return t
prepped_inputs: Dict[str, Any] = tensor_tree_map(_prep_inputs, inputs)
prepped_outputs = None
if _out is not None:
prepped_outputs = tensor_tree_map(lambda t: t.view([-1] + list(t.shape[no_batch_dims:])), _out)
flat_batch_dim = 1
for d in orig_batch_dims:
flat_batch_dim *= d
no_chunks = flat_batch_dim // chunk_size + (flat_batch_dim % chunk_size != 0)
def _select_chunk(t: torch.Tensor) -> torch.Tensor:
return t[i : i + chunk_size] if t.shape[0] != 1 else t
i = 0
out = prepped_outputs
for _ in range(no_chunks):
# Chunk the input
if not low_mem:
select_chunk = _select_chunk
else:
select_chunk = partial(
_chunk_slice,
flat_start=i,
flat_end=min(flat_batch_dim, i + chunk_size),
no_batch_dims=len(orig_batch_dims),
)
chunks: Dict[str, Any] = tensor_tree_map(select_chunk, prepped_inputs)
# Run the layer on the chunk
output_chunk = layer(**chunks)
# Allocate space for the output
if out is None:
out = tensor_tree_map(lambda t: t.new_zeros((flat_batch_dim,) + t.shape[1:]), output_chunk)
# Put the chunk in its pre-allocated space
if isinstance(output_chunk, dict):
def assign(d1: dict, d2: dict) -> None:
for k, v in d1.items():
if isinstance(v, dict):
assign(v, d2[k])
else:
if _add_into_out:
v[i : i + chunk_size] += d2[k]
else:
v[i : i + chunk_size] = d2[k]
assign(out, output_chunk)
elif isinstance(output_chunk, tuple):
for x1, x2 in zip(out, output_chunk):
if _add_into_out:
x1[i : i + chunk_size] += x2
else:
x1[i : i + chunk_size] = x2
elif isinstance(output_chunk, torch.Tensor):
if _add_into_out:
out[i : i + chunk_size] += output_chunk
else:
out[i : i + chunk_size] = output_chunk
else:
raise ValueError("Not supported")
i += chunk_size
out = tensor_tree_map(lambda t: t.view(orig_batch_dims + t.shape[1:]), out)
return out
class ChunkSizeTuner:
def __init__(
self,
# Heuristically, runtimes for most of the modules in the network
# plateau earlier than this on all GPUs I've run the model on.
max_chunk_size: int = 512,
):
self.max_chunk_size = max_chunk_size
self.cached_chunk_size: Optional[int] = None
self.cached_arg_data: Optional[tuple] = None
def _determine_favorable_chunk_size(self, fn: Callable, args: tuple, min_chunk_size: int) -> int:
logging.info("Tuning chunk size...")
if min_chunk_size >= self.max_chunk_size:
return min_chunk_size
candidates: List[int] = [2**l for l in range(int(math.log(self.max_chunk_size, 2)) + 1)]
candidates = [c for c in candidates if c > min_chunk_size]
candidates = [min_chunk_size] + candidates
candidates[-1] += 4
def test_chunk_size(chunk_size: int) -> bool:
try:
with torch.no_grad():
fn(*args, chunk_size=chunk_size)
return True
except RuntimeError:
return False
min_viable_chunk_size_index = 0
i = len(candidates) - 1
while i > min_viable_chunk_size_index:
viable = test_chunk_size(candidates[i])
if not viable:
i = (min_viable_chunk_size_index + i) // 2
else:
min_viable_chunk_size_index = i
i = (i + len(candidates) - 1) // 2
return candidates[min_viable_chunk_size_index]
def _compare_arg_caches(self, ac1: Iterable, ac2: Iterable) -> bool:
consistent = True
for a1, a2 in zip(ac1, ac2):
assert type(ac1) == type(ac2)
if isinstance(ac1, (list, tuple)):
consistent &= self._compare_arg_caches(a1, a2)
elif isinstance(ac1, dict):
a1_items = [v for _, v in sorted(a1.items(), key=lambda x: x[0])]
a2_items = [v for _, v in sorted(a2.items(), key=lambda x: x[0])]
consistent &= self._compare_arg_caches(a1_items, a2_items)
else:
consistent &= a1 == a2
return consistent
def tune_chunk_size(
self,
representative_fn: Callable,
args: tuple,
min_chunk_size: int,
) -> int:
consistent = True
arg_data: tuple = tree_map(lambda a: a.shape if isinstance(a, torch.Tensor) else a, args, object)
if self.cached_arg_data is not None:
# If args have changed shape/value, we need to re-tune
assert len(self.cached_arg_data) == len(arg_data)
consistent = self._compare_arg_caches(self.cached_arg_data, arg_data)
else:
# Otherwise, we can reuse the precomputed value
consistent = False
if not consistent:
self.cached_chunk_size = self._determine_favorable_chunk_size(
representative_fn,
args,
min_chunk_size,
)
self.cached_arg_data = arg_data
assert self.cached_chunk_size is not None
return self.cached_chunk_size
| transformers-main | src/transformers/models/esm/openfold_utils/chunk_utils.py |
from .chunk_utils import chunk_layer
from .data_transforms import make_atom14_masks
from .feats import atom14_to_atom37, frames_and_literature_positions_to_atom14_pos, torsion_angles_to_frames
from .loss import compute_predicted_aligned_error, compute_tm
from .protein import Protein as OFProtein
from .protein import to_pdb
from .rigid_utils import Rigid, Rotation
from .tensor_utils import dict_multimap, flatten_final_dims, permute_final_dims
| transformers-main | src/transformers/models/esm/openfold_utils/__init__.py |
# Copyright 2021 AlQuraishi Laboratory
# Copyright 2021 DeepMind Technologies Limited
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import Dict
import numpy as np
import torch
from . import residue_constants as rc
from .tensor_utils import tensor_tree_map, tree_map
def make_atom14_masks(protein: Dict[str, torch.Tensor]) -> Dict[str, torch.Tensor]:
"""Construct denser atom positions (14 dimensions instead of 37)."""
restype_atom14_to_atom37_list = []
restype_atom37_to_atom14_list = []
restype_atom14_mask_list = []
for rt in rc.restypes:
atom_names = rc.restype_name_to_atom14_names[rc.restype_1to3[rt]]
restype_atom14_to_atom37_list.append([(rc.atom_order[name] if name else 0) for name in atom_names])
atom_name_to_idx14 = {name: i for i, name in enumerate(atom_names)}
restype_atom37_to_atom14_list.append(
[(atom_name_to_idx14[name] if name in atom_name_to_idx14 else 0) for name in rc.atom_types]
)
restype_atom14_mask_list.append([(1.0 if name else 0.0) for name in atom_names])
# Add dummy mapping for restype 'UNK'
restype_atom14_to_atom37_list.append([0] * 14)
restype_atom37_to_atom14_list.append([0] * 37)
restype_atom14_mask_list.append([0.0] * 14)
restype_atom14_to_atom37 = torch.tensor(
restype_atom14_to_atom37_list,
dtype=torch.int32,
device=protein["aatype"].device,
)
restype_atom37_to_atom14 = torch.tensor(
restype_atom37_to_atom14_list,
dtype=torch.int32,
device=protein["aatype"].device,
)
restype_atom14_mask = torch.tensor(
restype_atom14_mask_list,
dtype=torch.float32,
device=protein["aatype"].device,
)
protein_aatype = protein["aatype"].to(torch.long)
# create the mapping for (residx, atom14) --> atom37, i.e. an array
# with shape (num_res, 14) containing the atom37 indices for this protein
residx_atom14_to_atom37 = restype_atom14_to_atom37[protein_aatype]
residx_atom14_mask = restype_atom14_mask[protein_aatype]
protein["atom14_atom_exists"] = residx_atom14_mask
protein["residx_atom14_to_atom37"] = residx_atom14_to_atom37.long()
# create the gather indices for mapping back
residx_atom37_to_atom14 = restype_atom37_to_atom14[protein_aatype]
protein["residx_atom37_to_atom14"] = residx_atom37_to_atom14.long()
# create the corresponding mask
restype_atom37_mask = torch.zeros([21, 37], dtype=torch.float32, device=protein["aatype"].device)
for restype, restype_letter in enumerate(rc.restypes):
restype_name = rc.restype_1to3[restype_letter]
atom_names = rc.residue_atoms[restype_name]
for atom_name in atom_names:
atom_type = rc.atom_order[atom_name]
restype_atom37_mask[restype, atom_type] = 1
residx_atom37_mask = restype_atom37_mask[protein_aatype]
protein["atom37_atom_exists"] = residx_atom37_mask
return protein
def make_atom14_masks_np(batch: Dict[str, torch.Tensor]) -> Dict[str, np.ndarray]:
batch = tree_map(lambda n: torch.tensor(n, device=batch["aatype"].device), batch, np.ndarray)
out = tensor_tree_map(lambda t: np.array(t), make_atom14_masks(batch))
return out
| transformers-main | src/transformers/models/esm/openfold_utils/data_transforms.py |
# Copyright 2021 AlQuraishi Laboratory
# Copyright 2021 DeepMind Technologies Limited
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import Dict, Optional, Tuple
import torch
def _calculate_bin_centers(boundaries: torch.Tensor) -> torch.Tensor:
step = boundaries[1] - boundaries[0]
bin_centers = boundaries + step / 2
bin_centers = torch.cat([bin_centers, (bin_centers[-1] + step).unsqueeze(-1)], dim=0)
return bin_centers
def _calculate_expected_aligned_error(
alignment_confidence_breaks: torch.Tensor,
aligned_distance_error_probs: torch.Tensor,
) -> Tuple[torch.Tensor, torch.Tensor]:
bin_centers = _calculate_bin_centers(alignment_confidence_breaks)
return (
torch.sum(aligned_distance_error_probs * bin_centers, dim=-1),
bin_centers[-1],
)
def compute_predicted_aligned_error(
logits: torch.Tensor,
max_bin: int = 31,
no_bins: int = 64,
**kwargs,
) -> Dict[str, torch.Tensor]:
"""Computes aligned confidence metrics from logits.
Args:
logits: [*, num_res, num_res, num_bins] the logits output from
PredictedAlignedErrorHead.
max_bin: Maximum bin value
no_bins: Number of bins
Returns:
aligned_confidence_probs: [*, num_res, num_res, num_bins] the predicted
aligned error probabilities over bins for each residue pair.
predicted_aligned_error: [*, num_res, num_res] the expected aligned distance
error for each pair of residues.
max_predicted_aligned_error: [*] the maximum predicted error possible.
"""
boundaries = torch.linspace(0, max_bin, steps=(no_bins - 1), device=logits.device)
aligned_confidence_probs = torch.nn.functional.softmax(logits, dim=-1)
predicted_aligned_error, max_predicted_aligned_error = _calculate_expected_aligned_error(
alignment_confidence_breaks=boundaries,
aligned_distance_error_probs=aligned_confidence_probs,
)
return {
"aligned_confidence_probs": aligned_confidence_probs,
"predicted_aligned_error": predicted_aligned_error,
"max_predicted_aligned_error": max_predicted_aligned_error,
}
def compute_tm(
logits: torch.Tensor,
residue_weights: Optional[torch.Tensor] = None,
max_bin: int = 31,
no_bins: int = 64,
eps: float = 1e-8,
**kwargs,
) -> torch.Tensor:
if residue_weights is None:
residue_weights = logits.new_ones(logits.shape[-2])
boundaries = torch.linspace(0, max_bin, steps=(no_bins - 1), device=logits.device)
bin_centers = _calculate_bin_centers(boundaries)
torch.sum(residue_weights)
n = logits.shape[-2]
clipped_n = max(n, 19)
d0 = 1.24 * (clipped_n - 15) ** (1.0 / 3) - 1.8
probs = torch.nn.functional.softmax(logits, dim=-1)
tm_per_bin = 1.0 / (1 + (bin_centers**2) / (d0**2))
predicted_tm_term = torch.sum(probs * tm_per_bin, dim=-1)
normed_residue_mask = residue_weights / (eps + residue_weights.sum())
per_alignment = torch.sum(predicted_tm_term * normed_residue_mask, dim=-1)
weighted = per_alignment * residue_weights
argmax = (weighted == torch.max(weighted)).nonzero()[0]
return per_alignment[tuple(argmax)]
| transformers-main | src/transformers/models/esm/openfold_utils/loss.py |
# Copyright 2021 AlQuraishi Laboratory
# Copyright 2021 DeepMind Technologies Limited
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from functools import partial
from typing import Any, Callable, Dict, List, Type, TypeVar, Union, overload
import torch
import torch.nn as nn
import torch.types
def add(m1: torch.Tensor, m2: torch.Tensor, inplace: bool) -> torch.Tensor:
# The first operation in a checkpoint can't be in-place, but it's
# nice to have in-place addition during inference. Thus...
if not inplace:
m1 = m1 + m2
else:
m1 += m2
return m1
def permute_final_dims(tensor: torch.Tensor, inds: List[int]) -> torch.Tensor:
zero_index = -1 * len(inds)
first_inds = list(range(len(tensor.shape[:zero_index])))
return tensor.permute(first_inds + [zero_index + i for i in inds])
def flatten_final_dims(t: torch.Tensor, no_dims: int) -> torch.Tensor:
return t.reshape(t.shape[:-no_dims] + (-1,))
def masked_mean(mask: torch.Tensor, value: torch.Tensor, dim: int, eps: float = 1e-4) -> torch.Tensor:
mask = mask.expand(*value.shape)
return torch.sum(mask * value, dim=dim) / (eps + torch.sum(mask, dim=dim))
def pts_to_distogram(
pts: torch.Tensor, min_bin: torch.types.Number = 2.3125, max_bin: torch.types.Number = 21.6875, no_bins: int = 64
) -> torch.Tensor:
boundaries = torch.linspace(min_bin, max_bin, no_bins - 1, device=pts.device)
dists = torch.sqrt(torch.sum((pts.unsqueeze(-2) - pts.unsqueeze(-3)) ** 2, dim=-1))
return torch.bucketize(dists, boundaries)
def dict_multimap(fn: Callable[[list], Any], dicts: List[dict]) -> dict:
first = dicts[0]
new_dict = {}
for k, v in first.items():
all_v = [d[k] for d in dicts]
if isinstance(v, dict):
new_dict[k] = dict_multimap(fn, all_v)
else:
new_dict[k] = fn(all_v)
return new_dict
def one_hot(x: torch.Tensor, v_bins: torch.Tensor) -> torch.Tensor:
reshaped_bins = v_bins.view(((1,) * len(x.shape)) + (len(v_bins),))
diffs = x[..., None] - reshaped_bins
am = torch.argmin(torch.abs(diffs), dim=-1)
return nn.functional.one_hot(am, num_classes=len(v_bins)).float()
def batched_gather(data: torch.Tensor, inds: torch.Tensor, dim: int = 0, no_batch_dims: int = 0) -> torch.Tensor:
ranges: List[Union[slice, torch.Tensor]] = []
for i, s in enumerate(data.shape[:no_batch_dims]):
r = torch.arange(s)
r = r.view(*(*((1,) * i), -1, *((1,) * (len(inds.shape) - i - 1))))
ranges.append(r)
remaining_dims: List[Union[slice, torch.Tensor]] = [slice(None) for _ in range(len(data.shape) - no_batch_dims)]
remaining_dims[dim - no_batch_dims if dim >= 0 else dim] = inds
ranges.extend(remaining_dims)
# Matt note: Editing this to get around the behaviour of using a list as an array index changing
# in recent Numpy versions
return data[tuple(ranges)]
T = TypeVar("T")
# With tree_map, a poor man's JAX tree_map
def dict_map(
fn: Callable[[T], Any], dic: Dict[Any, Union[dict, list, tuple, T]], leaf_type: Type[T]
) -> Dict[Any, Union[dict, list, tuple, Any]]:
new_dict: Dict[Any, Union[dict, list, tuple, Any]] = {}
for k, v in dic.items():
if isinstance(v, dict):
new_dict[k] = dict_map(fn, v, leaf_type)
else:
new_dict[k] = tree_map(fn, v, leaf_type)
return new_dict
@overload
def tree_map(fn: Callable[[T], Any], tree: T, leaf_type: Type[T]) -> Any:
...
@overload
def tree_map(fn: Callable[[T], Any], tree: dict, leaf_type: Type[T]) -> dict:
...
@overload
def tree_map(fn: Callable[[T], Any], tree: list, leaf_type: Type[T]) -> list:
...
@overload
def tree_map(fn: Callable[[T], Any], tree: tuple, leaf_type: Type[T]) -> tuple:
...
def tree_map(fn, tree, leaf_type):
if isinstance(tree, dict):
return dict_map(fn, tree, leaf_type)
elif isinstance(tree, list):
return [tree_map(fn, x, leaf_type) for x in tree]
elif isinstance(tree, tuple):
return tuple(tree_map(fn, x, leaf_type) for x in tree)
elif isinstance(tree, leaf_type):
return fn(tree)
else:
print(type(tree))
raise ValueError("Not supported")
tensor_tree_map = partial(tree_map, leaf_type=torch.Tensor)
| transformers-main | src/transformers/models/esm/openfold_utils/tensor_utils.py |
# Copyright 2021 AlQuraishi Laboratory
# Copyright 2021 DeepMind Technologies Limited
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Protein data type."""
import dataclasses
import re
import string
from typing import Any, Dict, Iterator, List, Mapping, Optional, Sequence, Tuple
import numpy as np
from . import residue_constants
FeatureDict = Mapping[str, np.ndarray]
ModelOutput = Mapping[str, Any] # Is a nested dict.
PICO_TO_ANGSTROM = 0.01
@dataclasses.dataclass(frozen=True)
class Protein:
"""Protein structure representation."""
# Cartesian coordinates of atoms in angstroms. The atom types correspond to
# residue_constants.atom_types, i.e. the first three are N, CA, CB.
atom_positions: np.ndarray # [num_res, num_atom_type, 3]
# Amino-acid type for each residue represented as an integer between 0 and
# 20, where 20 is 'X'.
aatype: np.ndarray # [num_res]
# Binary float mask to indicate presence of a particular atom. 1.0 if an atom
# is present and 0.0 if not. This should be used for loss masking.
atom_mask: np.ndarray # [num_res, num_atom_type]
# Residue index as used in PDB. It is not necessarily continuous or 0-indexed.
residue_index: np.ndarray # [num_res]
# B-factors, or temperature factors, of each residue (in sq. angstroms units),
# representing the displacement of the residue from its ground truth mean
# value.
b_factors: np.ndarray # [num_res, num_atom_type]
# Chain indices for multi-chain predictions
chain_index: Optional[np.ndarray] = None
# Optional remark about the protein. Included as a comment in output PDB
# files
remark: Optional[str] = None
# Templates used to generate this protein (prediction-only)
parents: Optional[Sequence[str]] = None
# Chain corresponding to each parent
parents_chain_index: Optional[Sequence[int]] = None
def from_proteinnet_string(proteinnet_str: str) -> Protein:
tag_re = r"(\[[A-Z]+\]\n)"
tags: List[str] = [tag.strip() for tag in re.split(tag_re, proteinnet_str) if len(tag) > 0]
groups: Iterator[Tuple[str, List[str]]] = zip(tags[0::2], [l.split("\n") for l in tags[1::2]])
atoms: List[str] = ["N", "CA", "C"]
aatype = None
atom_positions = None
atom_mask = None
for g in groups:
if "[PRIMARY]" == g[0]:
seq = g[1][0].strip()
for i in range(len(seq)):
if seq[i] not in residue_constants.restypes:
seq[i] = "X" # FIXME: strings are immutable
aatype = np.array(
[residue_constants.restype_order.get(res_symbol, residue_constants.restype_num) for res_symbol in seq]
)
elif "[TERTIARY]" == g[0]:
tertiary: List[List[float]] = []
for axis in range(3):
tertiary.append(list(map(float, g[1][axis].split())))
tertiary_np = np.array(tertiary)
atom_positions = np.zeros((len(tertiary[0]) // 3, residue_constants.atom_type_num, 3)).astype(np.float32)
for i, atom in enumerate(atoms):
atom_positions[:, residue_constants.atom_order[atom], :] = np.transpose(tertiary_np[:, i::3])
atom_positions *= PICO_TO_ANGSTROM
elif "[MASK]" == g[0]:
mask = np.array(list(map({"-": 0, "+": 1}.get, g[1][0].strip())))
atom_mask = np.zeros(
(
len(mask),
residue_constants.atom_type_num,
)
).astype(np.float32)
for i, atom in enumerate(atoms):
atom_mask[:, residue_constants.atom_order[atom]] = 1
atom_mask *= mask[..., None]
assert aatype is not None
return Protein(
atom_positions=atom_positions,
atom_mask=atom_mask,
aatype=aatype,
residue_index=np.arange(len(aatype)),
b_factors=None,
)
def get_pdb_headers(prot: Protein, chain_id: int = 0) -> List[str]:
pdb_headers: List[str] = []
remark = prot.remark
if remark is not None:
pdb_headers.append(f"REMARK {remark}")
parents = prot.parents
parents_chain_index = prot.parents_chain_index
if parents is not None and parents_chain_index is not None:
parents = [p for i, p in zip(parents_chain_index, parents) if i == chain_id]
if parents is None or len(parents) == 0:
parents = ["N/A"]
pdb_headers.append(f"PARENT {' '.join(parents)}")
return pdb_headers
def add_pdb_headers(prot: Protein, pdb_str: str) -> str:
"""Add pdb headers to an existing PDB string. Useful during multi-chain
recycling
"""
out_pdb_lines: List[str] = []
lines = pdb_str.split("\n")
remark = prot.remark
if remark is not None:
out_pdb_lines.append(f"REMARK {remark}")
parents_per_chain: List[List[str]]
if prot.parents is not None and len(prot.parents) > 0:
parents_per_chain = []
if prot.parents_chain_index is not None:
parent_dict: Dict[str, List[str]] = {}
for p, i in zip(prot.parents, prot.parents_chain_index):
parent_dict.setdefault(str(i), [])
parent_dict[str(i)].append(p)
max_idx = max([int(chain_idx) for chain_idx in parent_dict])
for i in range(max_idx + 1):
chain_parents = parent_dict.get(str(i), ["N/A"])
parents_per_chain.append(chain_parents)
else:
parents_per_chain.append(list(prot.parents))
else:
parents_per_chain = [["N/A"]]
def make_parent_line(p: Sequence[str]) -> str:
return f"PARENT {' '.join(p)}"
out_pdb_lines.append(make_parent_line(parents_per_chain[0]))
chain_counter = 0
for i, l in enumerate(lines):
if "PARENT" not in l and "REMARK" not in l:
out_pdb_lines.append(l)
if "TER" in l and "END" not in lines[i + 1]:
chain_counter += 1
if not chain_counter >= len(parents_per_chain):
chain_parents = parents_per_chain[chain_counter]
else:
chain_parents = ["N/A"]
out_pdb_lines.append(make_parent_line(chain_parents))
return "\n".join(out_pdb_lines)
def to_pdb(prot: Protein) -> str:
"""Converts a `Protein` instance to a PDB string.
Args:
prot: The protein to convert to PDB.
Returns:
PDB string.
"""
restypes = residue_constants.restypes + ["X"]
def res_1to3(r: int) -> str:
return residue_constants.restype_1to3.get(restypes[r], "UNK")
atom_types = residue_constants.atom_types
pdb_lines: List[str] = []
atom_mask = prot.atom_mask
aatype = prot.aatype
atom_positions = prot.atom_positions
residue_index = prot.residue_index.astype(np.int32)
b_factors = prot.b_factors
chain_index = prot.chain_index
if np.any(aatype > residue_constants.restype_num):
raise ValueError("Invalid aatypes.")
headers = get_pdb_headers(prot)
if len(headers) > 0:
pdb_lines.extend(headers)
n = aatype.shape[0]
atom_index = 1
prev_chain_index = 0
chain_tags = string.ascii_uppercase
chain_tag = None
# Add all atom sites.
for i in range(n):
res_name_3 = res_1to3(aatype[i])
for atom_name, pos, mask, b_factor in zip(atom_types, atom_positions[i], atom_mask[i], b_factors[i]):
if mask < 0.5:
continue
record_type = "ATOM"
name = atom_name if len(atom_name) == 4 else f" {atom_name}"
alt_loc = ""
insertion_code = ""
occupancy = 1.00
element = atom_name[0] # Protein supports only C, N, O, S, this works.
charge = ""
chain_tag = "A"
if chain_index is not None:
chain_tag = chain_tags[chain_index[i]]
# PDB is a columnar format, every space matters here!
atom_line = (
f"{record_type:<6}{atom_index:>5} {name:<4}{alt_loc:>1}"
f"{res_name_3:>3} {chain_tag:>1}"
f"{residue_index[i]:>4}{insertion_code:>1} "
f"{pos[0]:>8.3f}{pos[1]:>8.3f}{pos[2]:>8.3f}"
f"{occupancy:>6.2f}{b_factor:>6.2f} "
f"{element:>2}{charge:>2}"
)
pdb_lines.append(atom_line)
atom_index += 1
should_terminate = i == n - 1
if chain_index is not None:
if i != n - 1 and chain_index[i + 1] != prev_chain_index:
should_terminate = True
prev_chain_index = chain_index[i + 1]
if should_terminate:
# Close the chain.
chain_end = "TER"
chain_termination_line = (
f"{chain_end:<6}{atom_index:>5} {res_1to3(aatype[i]):>3} {chain_tag:>1}{residue_index[i]:>4}"
)
pdb_lines.append(chain_termination_line)
atom_index += 1
if i != n - 1:
# "prev" is a misnomer here. This happens at the beginning of
# each new chain.
pdb_lines.extend(get_pdb_headers(prot, prev_chain_index))
pdb_lines.append("END")
pdb_lines.append("")
return "\n".join(pdb_lines)
def ideal_atom_mask(prot: Protein) -> np.ndarray:
"""Computes an ideal atom mask.
`Protein.atom_mask` typically is defined according to the atoms that are reported in the PDB. This function
computes a mask according to heavy atoms that should be present in the given sequence of amino acids.
Args:
prot: `Protein` whose fields are `numpy.ndarray` objects.
Returns:
An ideal atom mask.
"""
return residue_constants.STANDARD_ATOM_MASK[prot.aatype]
def from_prediction(
features: FeatureDict,
result: ModelOutput,
b_factors: Optional[np.ndarray] = None,
chain_index: Optional[np.ndarray] = None,
remark: Optional[str] = None,
parents: Optional[Sequence[str]] = None,
parents_chain_index: Optional[Sequence[int]] = None,
) -> Protein:
"""Assembles a protein from a prediction.
Args:
features: Dictionary holding model inputs.
result: Dictionary holding model outputs.
b_factors: (Optional) B-factors to use for the protein.
chain_index: (Optional) Chain indices for multi-chain predictions
remark: (Optional) Remark about the prediction
parents: (Optional) List of template names
Returns:
A protein instance.
"""
return Protein(
aatype=features["aatype"],
atom_positions=result["final_atom_positions"],
atom_mask=result["final_atom_mask"],
residue_index=features["residue_index"] + 1,
b_factors=b_factors if b_factors is not None else np.zeros_like(result["final_atom_mask"]),
chain_index=chain_index,
remark=remark,
parents=parents,
parents_chain_index=parents_chain_index,
)
| transformers-main | src/transformers/models/esm/openfold_utils/protein.py |
# Copyright 2021 AlQuraishi Laboratory
# Copyright 2021 DeepMind Technologies Limited
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Constants used in AlphaFold."""
import collections
import copy
import functools
from importlib import resources
from typing import Dict, List, Mapping, Sequence, Tuple
import numpy as np
# Internal import (35fd).
# Distance from one CA to next CA [trans configuration: omega = 180].
ca_ca = 3.80209737096
# Format: The list for each AA type contains chi1, chi2, chi3, chi4 in
# this order (or a relevant subset from chi1 onwards). ALA and GLY don't have
# chi angles so their chi angle lists are empty.
chi_angles_atoms: Dict[str, List[List[str]]] = {
"ALA": [],
# Chi5 in arginine is always 0 +- 5 degrees, so ignore it.
"ARG": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "CD"], ["CB", "CG", "CD", "NE"], ["CG", "CD", "NE", "CZ"]],
"ASN": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "OD1"]],
"ASP": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "OD1"]],
"CYS": [["N", "CA", "CB", "SG"]],
"GLN": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "CD"], ["CB", "CG", "CD", "OE1"]],
"GLU": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "CD"], ["CB", "CG", "CD", "OE1"]],
"GLY": [],
"HIS": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "ND1"]],
"ILE": [["N", "CA", "CB", "CG1"], ["CA", "CB", "CG1", "CD1"]],
"LEU": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "CD1"]],
"LYS": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "CD"], ["CB", "CG", "CD", "CE"], ["CG", "CD", "CE", "NZ"]],
"MET": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "SD"], ["CB", "CG", "SD", "CE"]],
"PHE": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "CD1"]],
"PRO": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "CD"]],
"SER": [["N", "CA", "CB", "OG"]],
"THR": [["N", "CA", "CB", "OG1"]],
"TRP": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "CD1"]],
"TYR": [["N", "CA", "CB", "CG"], ["CA", "CB", "CG", "CD1"]],
"VAL": [["N", "CA", "CB", "CG1"]],
}
# If chi angles given in fixed-length array, this matrix determines how to mask
# them for each AA type. The order is as per restype_order (see below).
chi_angles_mask: List[List[float]] = [
[0.0, 0.0, 0.0, 0.0], # ALA
[1.0, 1.0, 1.0, 1.0], # ARG
[1.0, 1.0, 0.0, 0.0], # ASN
[1.0, 1.0, 0.0, 0.0], # ASP
[1.0, 0.0, 0.0, 0.0], # CYS
[1.0, 1.0, 1.0, 0.0], # GLN
[1.0, 1.0, 1.0, 0.0], # GLU
[0.0, 0.0, 0.0, 0.0], # GLY
[1.0, 1.0, 0.0, 0.0], # HIS
[1.0, 1.0, 0.0, 0.0], # ILE
[1.0, 1.0, 0.0, 0.0], # LEU
[1.0, 1.0, 1.0, 1.0], # LYS
[1.0, 1.0, 1.0, 0.0], # MET
[1.0, 1.0, 0.0, 0.0], # PHE
[1.0, 1.0, 0.0, 0.0], # PRO
[1.0, 0.0, 0.0, 0.0], # SER
[1.0, 0.0, 0.0, 0.0], # THR
[1.0, 1.0, 0.0, 0.0], # TRP
[1.0, 1.0, 0.0, 0.0], # TYR
[1.0, 0.0, 0.0, 0.0], # VAL
]
# The following chi angles are pi periodic: they can be rotated by a multiple
# of pi without affecting the structure.
chi_pi_periodic: List[List[float]] = [
[0.0, 0.0, 0.0, 0.0], # ALA
[0.0, 0.0, 0.0, 0.0], # ARG
[0.0, 0.0, 0.0, 0.0], # ASN
[0.0, 1.0, 0.0, 0.0], # ASP
[0.0, 0.0, 0.0, 0.0], # CYS
[0.0, 0.0, 0.0, 0.0], # GLN
[0.0, 0.0, 1.0, 0.0], # GLU
[0.0, 0.0, 0.0, 0.0], # GLY
[0.0, 0.0, 0.0, 0.0], # HIS
[0.0, 0.0, 0.0, 0.0], # ILE
[0.0, 0.0, 0.0, 0.0], # LEU
[0.0, 0.0, 0.0, 0.0], # LYS
[0.0, 0.0, 0.0, 0.0], # MET
[0.0, 1.0, 0.0, 0.0], # PHE
[0.0, 0.0, 0.0, 0.0], # PRO
[0.0, 0.0, 0.0, 0.0], # SER
[0.0, 0.0, 0.0, 0.0], # THR
[0.0, 0.0, 0.0, 0.0], # TRP
[0.0, 1.0, 0.0, 0.0], # TYR
[0.0, 0.0, 0.0, 0.0], # VAL
[0.0, 0.0, 0.0, 0.0], # UNK
]
# Atoms positions relative to the 8 rigid groups, defined by the pre-omega, phi,
# psi and chi angles:
# 0: 'backbone group',
# 1: 'pre-omega-group', (empty)
# 2: 'phi-group', (currently empty, because it defines only hydrogens)
# 3: 'psi-group',
# 4,5,6,7: 'chi1,2,3,4-group'
# The atom positions are relative to the axis-end-atom of the corresponding
# rotation axis. The x-axis is in direction of the rotation axis, and the y-axis
# is defined such that the dihedral-angle-definiting atom (the last entry in
# chi_angles_atoms above) is in the xy-plane (with a positive y-coordinate).
# format: [atomname, group_idx, rel_position]
rigid_group_atom_positions: Dict[str, List[Tuple[str, int, Tuple[float, float, float]]]] = {
"ALA": [
("N", 0, (-0.525, 1.363, 0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.526, -0.000, -0.000)),
("CB", 0, (-0.529, -0.774, -1.205)),
("O", 3, (0.627, 1.062, 0.000)),
],
"ARG": [
("N", 0, (-0.524, 1.362, -0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.525, -0.000, -0.000)),
("CB", 0, (-0.524, -0.778, -1.209)),
("O", 3, (0.626, 1.062, 0.000)),
("CG", 4, (0.616, 1.390, -0.000)),
("CD", 5, (0.564, 1.414, 0.000)),
("NE", 6, (0.539, 1.357, -0.000)),
("NH1", 7, (0.206, 2.301, 0.000)),
("NH2", 7, (2.078, 0.978, -0.000)),
("CZ", 7, (0.758, 1.093, -0.000)),
],
"ASN": [
("N", 0, (-0.536, 1.357, 0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.526, -0.000, -0.000)),
("CB", 0, (-0.531, -0.787, -1.200)),
("O", 3, (0.625, 1.062, 0.000)),
("CG", 4, (0.584, 1.399, 0.000)),
("ND2", 5, (0.593, -1.188, 0.001)),
("OD1", 5, (0.633, 1.059, 0.000)),
],
"ASP": [
("N", 0, (-0.525, 1.362, -0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.527, 0.000, -0.000)),
("CB", 0, (-0.526, -0.778, -1.208)),
("O", 3, (0.626, 1.062, -0.000)),
("CG", 4, (0.593, 1.398, -0.000)),
("OD1", 5, (0.610, 1.091, 0.000)),
("OD2", 5, (0.592, -1.101, -0.003)),
],
"CYS": [
("N", 0, (-0.522, 1.362, -0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.524, 0.000, 0.000)),
("CB", 0, (-0.519, -0.773, -1.212)),
("O", 3, (0.625, 1.062, -0.000)),
("SG", 4, (0.728, 1.653, 0.000)),
],
"GLN": [
("N", 0, (-0.526, 1.361, -0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.526, 0.000, 0.000)),
("CB", 0, (-0.525, -0.779, -1.207)),
("O", 3, (0.626, 1.062, -0.000)),
("CG", 4, (0.615, 1.393, 0.000)),
("CD", 5, (0.587, 1.399, -0.000)),
("NE2", 6, (0.593, -1.189, -0.001)),
("OE1", 6, (0.634, 1.060, 0.000)),
],
"GLU": [
("N", 0, (-0.528, 1.361, 0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.526, -0.000, -0.000)),
("CB", 0, (-0.526, -0.781, -1.207)),
("O", 3, (0.626, 1.062, 0.000)),
("CG", 4, (0.615, 1.392, 0.000)),
("CD", 5, (0.600, 1.397, 0.000)),
("OE1", 6, (0.607, 1.095, -0.000)),
("OE2", 6, (0.589, -1.104, -0.001)),
],
"GLY": [
("N", 0, (-0.572, 1.337, 0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.517, -0.000, -0.000)),
("O", 3, (0.626, 1.062, -0.000)),
],
"HIS": [
("N", 0, (-0.527, 1.360, 0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.525, 0.000, 0.000)),
("CB", 0, (-0.525, -0.778, -1.208)),
("O", 3, (0.625, 1.063, 0.000)),
("CG", 4, (0.600, 1.370, -0.000)),
("CD2", 5, (0.889, -1.021, 0.003)),
("ND1", 5, (0.744, 1.160, -0.000)),
("CE1", 5, (2.030, 0.851, 0.002)),
("NE2", 5, (2.145, -0.466, 0.004)),
],
"ILE": [
("N", 0, (-0.493, 1.373, -0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.527, -0.000, -0.000)),
("CB", 0, (-0.536, -0.793, -1.213)),
("O", 3, (0.627, 1.062, -0.000)),
("CG1", 4, (0.534, 1.437, -0.000)),
("CG2", 4, (0.540, -0.785, -1.199)),
("CD1", 5, (0.619, 1.391, 0.000)),
],
"LEU": [
("N", 0, (-0.520, 1.363, 0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.525, -0.000, -0.000)),
("CB", 0, (-0.522, -0.773, -1.214)),
("O", 3, (0.625, 1.063, -0.000)),
("CG", 4, (0.678, 1.371, 0.000)),
("CD1", 5, (0.530, 1.430, -0.000)),
("CD2", 5, (0.535, -0.774, 1.200)),
],
"LYS": [
("N", 0, (-0.526, 1.362, -0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.526, 0.000, 0.000)),
("CB", 0, (-0.524, -0.778, -1.208)),
("O", 3, (0.626, 1.062, -0.000)),
("CG", 4, (0.619, 1.390, 0.000)),
("CD", 5, (0.559, 1.417, 0.000)),
("CE", 6, (0.560, 1.416, 0.000)),
("NZ", 7, (0.554, 1.387, 0.000)),
],
"MET": [
("N", 0, (-0.521, 1.364, -0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.525, 0.000, 0.000)),
("CB", 0, (-0.523, -0.776, -1.210)),
("O", 3, (0.625, 1.062, -0.000)),
("CG", 4, (0.613, 1.391, -0.000)),
("SD", 5, (0.703, 1.695, 0.000)),
("CE", 6, (0.320, 1.786, -0.000)),
],
"PHE": [
("N", 0, (-0.518, 1.363, 0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.524, 0.000, -0.000)),
("CB", 0, (-0.525, -0.776, -1.212)),
("O", 3, (0.626, 1.062, -0.000)),
("CG", 4, (0.607, 1.377, 0.000)),
("CD1", 5, (0.709, 1.195, -0.000)),
("CD2", 5, (0.706, -1.196, 0.000)),
("CE1", 5, (2.102, 1.198, -0.000)),
("CE2", 5, (2.098, -1.201, -0.000)),
("CZ", 5, (2.794, -0.003, -0.001)),
],
"PRO": [
("N", 0, (-0.566, 1.351, -0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.527, -0.000, 0.000)),
("CB", 0, (-0.546, -0.611, -1.293)),
("O", 3, (0.621, 1.066, 0.000)),
("CG", 4, (0.382, 1.445, 0.0)),
# ('CD', 5, (0.427, 1.440, 0.0)),
("CD", 5, (0.477, 1.424, 0.0)), # manually made angle 2 degrees larger
],
"SER": [
("N", 0, (-0.529, 1.360, -0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.525, -0.000, -0.000)),
("CB", 0, (-0.518, -0.777, -1.211)),
("O", 3, (0.626, 1.062, -0.000)),
("OG", 4, (0.503, 1.325, 0.000)),
],
"THR": [
("N", 0, (-0.517, 1.364, 0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.526, 0.000, -0.000)),
("CB", 0, (-0.516, -0.793, -1.215)),
("O", 3, (0.626, 1.062, 0.000)),
("CG2", 4, (0.550, -0.718, -1.228)),
("OG1", 4, (0.472, 1.353, 0.000)),
],
"TRP": [
("N", 0, (-0.521, 1.363, 0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.525, -0.000, 0.000)),
("CB", 0, (-0.523, -0.776, -1.212)),
("O", 3, (0.627, 1.062, 0.000)),
("CG", 4, (0.609, 1.370, -0.000)),
("CD1", 5, (0.824, 1.091, 0.000)),
("CD2", 5, (0.854, -1.148, -0.005)),
("CE2", 5, (2.186, -0.678, -0.007)),
("CE3", 5, (0.622, -2.530, -0.007)),
("NE1", 5, (2.140, 0.690, -0.004)),
("CH2", 5, (3.028, -2.890, -0.013)),
("CZ2", 5, (3.283, -1.543, -0.011)),
("CZ3", 5, (1.715, -3.389, -0.011)),
],
"TYR": [
("N", 0, (-0.522, 1.362, 0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.524, -0.000, -0.000)),
("CB", 0, (-0.522, -0.776, -1.213)),
("O", 3, (0.627, 1.062, -0.000)),
("CG", 4, (0.607, 1.382, -0.000)),
("CD1", 5, (0.716, 1.195, -0.000)),
("CD2", 5, (0.713, -1.194, -0.001)),
("CE1", 5, (2.107, 1.200, -0.002)),
("CE2", 5, (2.104, -1.201, -0.003)),
("OH", 5, (4.168, -0.002, -0.005)),
("CZ", 5, (2.791, -0.001, -0.003)),
],
"VAL": [
("N", 0, (-0.494, 1.373, -0.000)),
("CA", 0, (0.000, 0.000, 0.000)),
("C", 0, (1.527, -0.000, -0.000)),
("CB", 0, (-0.533, -0.795, -1.213)),
("O", 3, (0.627, 1.062, -0.000)),
("CG1", 4, (0.540, 1.429, -0.000)),
("CG2", 4, (0.533, -0.776, 1.203)),
],
}
# A list of atoms (excluding hydrogen) for each AA type. PDB naming convention.
residue_atoms: Dict[str, List[str]] = {
"ALA": ["C", "CA", "CB", "N", "O"],
"ARG": ["C", "CA", "CB", "CG", "CD", "CZ", "N", "NE", "O", "NH1", "NH2"],
"ASP": ["C", "CA", "CB", "CG", "N", "O", "OD1", "OD2"],
"ASN": ["C", "CA", "CB", "CG", "N", "ND2", "O", "OD1"],
"CYS": ["C", "CA", "CB", "N", "O", "SG"],
"GLU": ["C", "CA", "CB", "CG", "CD", "N", "O", "OE1", "OE2"],
"GLN": ["C", "CA", "CB", "CG", "CD", "N", "NE2", "O", "OE1"],
"GLY": ["C", "CA", "N", "O"],
"HIS": ["C", "CA", "CB", "CG", "CD2", "CE1", "N", "ND1", "NE2", "O"],
"ILE": ["C", "CA", "CB", "CG1", "CG2", "CD1", "N", "O"],
"LEU": ["C", "CA", "CB", "CG", "CD1", "CD2", "N", "O"],
"LYS": ["C", "CA", "CB", "CG", "CD", "CE", "N", "NZ", "O"],
"MET": ["C", "CA", "CB", "CG", "CE", "N", "O", "SD"],
"PHE": ["C", "CA", "CB", "CG", "CD1", "CD2", "CE1", "CE2", "CZ", "N", "O"],
"PRO": ["C", "CA", "CB", "CG", "CD", "N", "O"],
"SER": ["C", "CA", "CB", "N", "O", "OG"],
"THR": ["C", "CA", "CB", "CG2", "N", "O", "OG1"],
"TRP": ["C", "CA", "CB", "CG", "CD1", "CD2", "CE2", "CE3", "CZ2", "CZ3", "CH2", "N", "NE1", "O"],
"TYR": ["C", "CA", "CB", "CG", "CD1", "CD2", "CE1", "CE2", "CZ", "N", "O", "OH"],
"VAL": ["C", "CA", "CB", "CG1", "CG2", "N", "O"],
}
# Naming swaps for ambiguous atom names.
# Due to symmetries in the amino acids the naming of atoms is ambiguous in
# 4 of the 20 amino acids.
# (The LDDT paper lists 7 amino acids as ambiguous, but the naming ambiguities
# in LEU, VAL and ARG can be resolved by using the 3d constellations of
# the 'ambiguous' atoms and their neighbours)
# TODO: ^ interpret this
residue_atom_renaming_swaps: Dict[str, Dict[str, str]] = {
"ASP": {"OD1": "OD2"},
"GLU": {"OE1": "OE2"},
"PHE": {"CD1": "CD2", "CE1": "CE2"},
"TYR": {"CD1": "CD2", "CE1": "CE2"},
}
# Van der Waals radii [Angstroem] of the atoms (from Wikipedia)
van_der_waals_radius: Dict[str, float] = {
"C": 1.7,
"N": 1.55,
"O": 1.52,
"S": 1.8,
}
Bond = collections.namedtuple("Bond", ["atom1_name", "atom2_name", "length", "stddev"])
BondAngle = collections.namedtuple(
"BondAngle",
["atom1_name", "atom2_name", "atom3name", "angle_rad", "stddev"],
)
def map_structure_with_atom_order(in_list: list, first_call: bool = True) -> list:
# Maps strings in a nested list structure to their corresponding index in atom_order
if first_call:
in_list = copy.deepcopy(in_list)
for i in range(len(in_list)):
if isinstance(in_list[i], list):
in_list[i] = map_structure_with_atom_order(in_list[i], first_call=False)
elif isinstance(in_list[i], str):
in_list[i] = atom_order[in_list[i]]
else:
raise ValueError("Unexpected type when mapping nested lists!")
return in_list
@functools.lru_cache(maxsize=None)
def load_stereo_chemical_props() -> (
Tuple[
Mapping[str, List[Bond]],
Mapping[str, List[Bond]],
Mapping[str, List[BondAngle]],
]
):
"""Load stereo_chemical_props.txt into a nice structure.
Load literature values for bond lengths and bond angles and translate bond angles into the length of the opposite
edge of the triangle ("residue_virtual_bonds").
Returns:
residue_bonds: dict that maps resname --> list of Bond tuples residue_virtual_bonds: dict that maps resname -->
list of Bond tuples residue_bond_angles: dict that maps resname --> list of BondAngle tuples
"""
# TODO: this file should be downloaded in a setup script
stereo_chemical_props = resources.read_text("openfold.resources", "stereo_chemical_props.txt")
lines_iter = iter(stereo_chemical_props.splitlines())
# Load bond lengths.
residue_bonds: Dict[str, List[Bond]] = {}
next(lines_iter) # Skip header line.
for line in lines_iter:
if line.strip() == "-":
break
bond, resname, bond_length, stddev = line.split()
atom1, atom2 = bond.split("-")
if resname not in residue_bonds:
residue_bonds[resname] = []
residue_bonds[resname].append(Bond(atom1, atom2, float(bond_length), float(stddev)))
residue_bonds["UNK"] = []
# Load bond angles.
residue_bond_angles: Dict[str, List[BondAngle]] = {}
next(lines_iter) # Skip empty line.
next(lines_iter) # Skip header line.
for line in lines_iter:
if line.strip() == "-":
break
bond, resname, angle_degree, stddev_degree = line.split()
atom1, atom2, atom3 = bond.split("-")
if resname not in residue_bond_angles:
residue_bond_angles[resname] = []
residue_bond_angles[resname].append(
BondAngle(
atom1,
atom2,
atom3,
float(angle_degree) / 180.0 * np.pi,
float(stddev_degree) / 180.0 * np.pi,
)
)
residue_bond_angles["UNK"] = []
def make_bond_key(atom1_name: str, atom2_name: str) -> str:
"""Unique key to lookup bonds."""
return "-".join(sorted([atom1_name, atom2_name]))
# Translate bond angles into distances ("virtual bonds").
residue_virtual_bonds: Dict[str, List[Bond]] = {}
for resname, bond_angles in residue_bond_angles.items():
# Create a fast lookup dict for bond lengths.
bond_cache: Dict[str, Bond] = {}
for b in residue_bonds[resname]:
bond_cache[make_bond_key(b.atom1_name, b.atom2_name)] = b
residue_virtual_bonds[resname] = []
for ba in bond_angles:
bond1 = bond_cache[make_bond_key(ba.atom1_name, ba.atom2_name)]
bond2 = bond_cache[make_bond_key(ba.atom2_name, ba.atom3name)]
# Compute distance between atom1 and atom3 using the law of cosines
# c^2 = a^2 + b^2 - 2ab*cos(gamma).
gamma = ba.angle_rad
length = np.sqrt(bond1.length**2 + bond2.length**2 - 2 * bond1.length * bond2.length * np.cos(gamma))
# Propagation of uncertainty assuming uncorrelated errors.
dl_outer = 0.5 / length
dl_dgamma = (2 * bond1.length * bond2.length * np.sin(gamma)) * dl_outer
dl_db1 = (2 * bond1.length - 2 * bond2.length * np.cos(gamma)) * dl_outer
dl_db2 = (2 * bond2.length - 2 * bond1.length * np.cos(gamma)) * dl_outer
stddev = np.sqrt(
(dl_dgamma * ba.stddev) ** 2 + (dl_db1 * bond1.stddev) ** 2 + (dl_db2 * bond2.stddev) ** 2
)
residue_virtual_bonds[resname].append(Bond(ba.atom1_name, ba.atom3name, length, stddev))
return (residue_bonds, residue_virtual_bonds, residue_bond_angles)
# Between-residue bond lengths for general bonds (first element) and for Proline
# (second element).
between_res_bond_length_c_n: Tuple[float, float] = (1.329, 1.341)
between_res_bond_length_stddev_c_n: Tuple[float, float] = (0.014, 0.016)
# Between-residue cos_angles.
between_res_cos_angles_c_n_ca: Tuple[float, float] = (-0.5203, 0.0353) # degrees: 121.352 +- 2.315
between_res_cos_angles_ca_c_n: Tuple[float, float] = (-0.4473, 0.0311) # degrees: 116.568 +- 1.995
# This mapping is used when we need to store atom data in a format that requires
# fixed atom data size for every residue (e.g. a numpy array).
atom_types: List[str] = [
"N",
"CA",
"C",
"CB",
"O",
"CG",
"CG1",
"CG2",
"OG",
"OG1",
"SG",
"CD",
"CD1",
"CD2",
"ND1",
"ND2",
"OD1",
"OD2",
"SD",
"CE",
"CE1",
"CE2",
"CE3",
"NE",
"NE1",
"NE2",
"OE1",
"OE2",
"CH2",
"NH1",
"NH2",
"OH",
"CZ",
"CZ2",
"CZ3",
"NZ",
"OXT",
]
atom_order: Dict[str, int] = {atom_type: i for i, atom_type in enumerate(atom_types)}
atom_type_num = len(atom_types) # := 37.
# A compact atom encoding with 14 columns
# pylint: disable=line-too-long
# pylint: disable=bad-whitespace
restype_name_to_atom14_names: Dict[str, List[str]] = {
"ALA": ["N", "CA", "C", "O", "CB", "", "", "", "", "", "", "", "", ""],
"ARG": ["N", "CA", "C", "O", "CB", "CG", "CD", "NE", "CZ", "NH1", "NH2", "", "", ""],
"ASN": ["N", "CA", "C", "O", "CB", "CG", "OD1", "ND2", "", "", "", "", "", ""],
"ASP": ["N", "CA", "C", "O", "CB", "CG", "OD1", "OD2", "", "", "", "", "", ""],
"CYS": ["N", "CA", "C", "O", "CB", "SG", "", "", "", "", "", "", "", ""],
"GLN": ["N", "CA", "C", "O", "CB", "CG", "CD", "OE1", "NE2", "", "", "", "", ""],
"GLU": ["N", "CA", "C", "O", "CB", "CG", "CD", "OE1", "OE2", "", "", "", "", ""],
"GLY": ["N", "CA", "C", "O", "", "", "", "", "", "", "", "", "", ""],
"HIS": ["N", "CA", "C", "O", "CB", "CG", "ND1", "CD2", "CE1", "NE2", "", "", "", ""],
"ILE": ["N", "CA", "C", "O", "CB", "CG1", "CG2", "CD1", "", "", "", "", "", ""],
"LEU": ["N", "CA", "C", "O", "CB", "CG", "CD1", "CD2", "", "", "", "", "", ""],
"LYS": ["N", "CA", "C", "O", "CB", "CG", "CD", "CE", "NZ", "", "", "", "", ""],
"MET": ["N", "CA", "C", "O", "CB", "CG", "SD", "CE", "", "", "", "", "", ""],
"PHE": ["N", "CA", "C", "O", "CB", "CG", "CD1", "CD2", "CE1", "CE2", "CZ", "", "", ""],
"PRO": ["N", "CA", "C", "O", "CB", "CG", "CD", "", "", "", "", "", "", ""],
"SER": ["N", "CA", "C", "O", "CB", "OG", "", "", "", "", "", "", "", ""],
"THR": ["N", "CA", "C", "O", "CB", "OG1", "CG2", "", "", "", "", "", "", ""],
"TRP": ["N", "CA", "C", "O", "CB", "CG", "CD1", "CD2", "NE1", "CE2", "CE3", "CZ2", "CZ3", "CH2"],
"TYR": ["N", "CA", "C", "O", "CB", "CG", "CD1", "CD2", "CE1", "CE2", "CZ", "OH", "", ""],
"VAL": ["N", "CA", "C", "O", "CB", "CG1", "CG2", "", "", "", "", "", "", ""],
"UNK": ["", "", "", "", "", "", "", "", "", "", "", "", "", ""],
}
# pylint: enable=line-too-long
# pylint: enable=bad-whitespace
# This is the standard residue order when coding AA type as a number.
# Reproduce it by taking 3-letter AA codes and sorting them alphabetically.
restypes: List[str] = [
"A",
"R",
"N",
"D",
"C",
"Q",
"E",
"G",
"H",
"I",
"L",
"K",
"M",
"F",
"P",
"S",
"T",
"W",
"Y",
"V",
]
restype_order: Dict[str, int] = {restype: i for i, restype in enumerate(restypes)}
restype_num = len(restypes) # := 20.
unk_restype_index = restype_num # Catch-all index for unknown restypes.
restypes_with_x: List[str] = restypes + ["X"]
restype_order_with_x: Dict[str, int] = {restype: i for i, restype in enumerate(restypes_with_x)}
def sequence_to_onehot(sequence: str, mapping: Mapping[str, int], map_unknown_to_x: bool = False) -> np.ndarray:
"""Maps the given sequence into a one-hot encoded matrix.
Args:
sequence: An amino acid sequence.
mapping: A dictionary mapping amino acids to integers.
map_unknown_to_x: If True, any amino acid that is not in the mapping will be
mapped to the unknown amino acid 'X'. If the mapping doesn't contain amino acid 'X', an error will be thrown.
If False, any amino acid not in the mapping will throw an error.
Returns:
A numpy array of shape (seq_len, num_unique_aas) with one-hot encoding of the sequence.
Raises:
ValueError: If the mapping doesn't contain values from 0 to
num_unique_aas - 1 without any gaps.
"""
num_entries = max(mapping.values()) + 1
if sorted(set(mapping.values())) != list(range(num_entries)):
raise ValueError(
"The mapping must have values from 0 to num_unique_aas-1 without any gaps. Got: %s"
% sorted(mapping.values())
)
one_hot_arr = np.zeros((len(sequence), num_entries), dtype=np.int32)
for aa_index, aa_type in enumerate(sequence):
if map_unknown_to_x:
if aa_type.isalpha() and aa_type.isupper():
aa_id = mapping.get(aa_type, mapping["X"])
else:
raise ValueError(f"Invalid character in the sequence: {aa_type}")
else:
aa_id = mapping[aa_type]
one_hot_arr[aa_index, aa_id] = 1
return one_hot_arr
restype_1to3: Dict[str, str] = {
"A": "ALA",
"R": "ARG",
"N": "ASN",
"D": "ASP",
"C": "CYS",
"Q": "GLN",
"E": "GLU",
"G": "GLY",
"H": "HIS",
"I": "ILE",
"L": "LEU",
"K": "LYS",
"M": "MET",
"F": "PHE",
"P": "PRO",
"S": "SER",
"T": "THR",
"W": "TRP",
"Y": "TYR",
"V": "VAL",
}
# NB: restype_3to1 differs from Bio.PDB.protein_letters_3to1 by being a simple
# 1-to-1 mapping of 3 letter names to one letter names. The latter contains
# many more, and less common, three letter names as keys and maps many of these
# to the same one letter name (including 'X' and 'U' which we don't use here).
restype_3to1: Dict[str, str] = {v: k for k, v in restype_1to3.items()}
# Define a restype name for all unknown residues.
unk_restype = "UNK"
resnames: List[str] = [restype_1to3[r] for r in restypes] + [unk_restype]
resname_to_idx: Dict[str, int] = {resname: i for i, resname in enumerate(resnames)}
# The mapping here uses hhblits convention, so that B is mapped to D, J and O
# are mapped to X, U is mapped to C, and Z is mapped to E. Other than that the
# remaining 20 amino acids are kept in alphabetical order.
# There are 2 non-amino acid codes, X (representing any amino acid) and
# "-" representing a missing amino acid in an alignment. The id for these
# codes is put at the end (20 and 21) so that they can easily be ignored if
# desired.
HHBLITS_AA_TO_ID: Dict[str, int] = {
"A": 0,
"B": 2,
"C": 1,
"D": 2,
"E": 3,
"F": 4,
"G": 5,
"H": 6,
"I": 7,
"J": 20,
"K": 8,
"L": 9,
"M": 10,
"N": 11,
"O": 20,
"P": 12,
"Q": 13,
"R": 14,
"S": 15,
"T": 16,
"U": 1,
"V": 17,
"W": 18,
"X": 20,
"Y": 19,
"Z": 3,
"-": 21,
}
# Partial inversion of HHBLITS_AA_TO_ID.
ID_TO_HHBLITS_AA: Dict[int, str] = {
0: "A",
1: "C", # Also U.
2: "D", # Also B.
3: "E", # Also Z.
4: "F",
5: "G",
6: "H",
7: "I",
8: "K",
9: "L",
10: "M",
11: "N",
12: "P",
13: "Q",
14: "R",
15: "S",
16: "T",
17: "V",
18: "W",
19: "Y",
20: "X", # Includes J and O.
21: "-",
}
restypes_with_x_and_gap: List[str] = restypes + ["X", "-"]
MAP_HHBLITS_AATYPE_TO_OUR_AATYPE: Tuple[int, ...] = tuple(
restypes_with_x_and_gap.index(ID_TO_HHBLITS_AA[i]) for i in range(len(restypes_with_x_and_gap))
)
def _make_standard_atom_mask() -> np.ndarray:
"""Returns [num_res_types, num_atom_types] mask array."""
# +1 to account for unknown (all 0s).
mask = np.zeros([restype_num + 1, atom_type_num], dtype=np.int32)
for restype, restype_letter in enumerate(restypes):
restype_name = restype_1to3[restype_letter]
atom_names = residue_atoms[restype_name]
for atom_name in atom_names:
atom_type = atom_order[atom_name]
mask[restype, atom_type] = 1
return mask
STANDARD_ATOM_MASK = _make_standard_atom_mask()
# A one hot representation for the first and second atoms defining the axis
# of rotation for each chi-angle in each residue.
def chi_angle_atom(atom_index: int) -> np.ndarray:
"""Define chi-angle rigid groups via one-hot representations."""
chi_angles_index = {}
one_hots = []
for k, v in chi_angles_atoms.items():
indices = [atom_types.index(s[atom_index]) for s in v]
indices.extend([-1] * (4 - len(indices)))
chi_angles_index[k] = indices
for r in restypes:
res3 = restype_1to3[r]
one_hot = np.eye(atom_type_num)[chi_angles_index[res3]]
one_hots.append(one_hot)
one_hots.append(np.zeros([4, atom_type_num])) # Add zeros for residue `X`.
one_hot = np.stack(one_hots, axis=0)
one_hot = np.transpose(one_hot, [0, 2, 1])
return one_hot
chi_atom_1_one_hot = chi_angle_atom(1)
chi_atom_2_one_hot = chi_angle_atom(2)
# An array like chi_angles_atoms but using indices rather than names.
chi_angles_atom_indices_list: List[List[List[str]]] = [chi_angles_atoms[restype_1to3[r]] for r in restypes]
chi_angles_atom_indices_ours: list = map_structure_with_atom_order(chi_angles_atom_indices_list)
chi_angles_atom_indices = np.array(
[chi_atoms + ([[0, 0, 0, 0]] * (4 - len(chi_atoms))) for chi_atoms in chi_angles_atom_indices_list]
)
# Mapping from (res_name, atom_name) pairs to the atom's chi group index
# and atom index within that group.
chi_groups_for_atom: Dict[Tuple[str, str], List[Tuple[int, int]]] = collections.defaultdict(list)
for res_name, chi_angle_atoms_for_res in chi_angles_atoms.items():
for chi_group_i, chi_group in enumerate(chi_angle_atoms_for_res):
for atom_i, atom in enumerate(chi_group):
chi_groups_for_atom[(res_name, atom)].append((chi_group_i, atom_i))
chi_groups_for_atom = dict(chi_groups_for_atom)
def _make_rigid_transformation_4x4(ex: np.ndarray, ey: np.ndarray, translation: np.ndarray) -> np.ndarray:
"""Create a rigid 4x4 transformation matrix from two axes and transl."""
# Normalize ex.
ex_normalized = ex / np.linalg.norm(ex)
# make ey perpendicular to ex
ey_normalized = ey - np.dot(ey, ex_normalized) * ex_normalized
ey_normalized /= np.linalg.norm(ey_normalized)
# compute ez as cross product
eznorm = np.cross(ex_normalized, ey_normalized)
m = np.stack([ex_normalized, ey_normalized, eznorm, translation]).transpose()
m = np.concatenate([m, [[0.0, 0.0, 0.0, 1.0]]], axis=0)
return m
# create an array with (restype, atomtype) --> rigid_group_idx
# and an array with (restype, atomtype, coord) for the atom positions
# and compute affine transformation matrices (4,4) from one rigid group to the
# previous group
restype_atom37_to_rigid_group = np.zeros([21, 37], dtype=int)
restype_atom37_mask = np.zeros([21, 37], dtype=np.float32)
restype_atom37_rigid_group_positions = np.zeros([21, 37, 3], dtype=np.float32)
restype_atom14_to_rigid_group = np.zeros([21, 14], dtype=int)
restype_atom14_mask = np.zeros([21, 14], dtype=np.float32)
restype_atom14_rigid_group_positions = np.zeros([21, 14, 3], dtype=np.float32)
restype_rigid_group_default_frame = np.zeros([21, 8, 4, 4], dtype=np.float32)
def _make_rigid_group_constants() -> None:
"""Fill the arrays above."""
for restype, restype_letter in enumerate(restypes):
resname = restype_1to3[restype_letter]
for atomname, group_idx, atom_position in rigid_group_atom_positions[resname]:
atomtype = atom_order[atomname]
restype_atom37_to_rigid_group[restype, atomtype] = group_idx
restype_atom37_mask[restype, atomtype] = 1
restype_atom37_rigid_group_positions[restype, atomtype, :] = atom_position
atom14idx = restype_name_to_atom14_names[resname].index(atomname)
restype_atom14_to_rigid_group[restype, atom14idx] = group_idx
restype_atom14_mask[restype, atom14idx] = 1
restype_atom14_rigid_group_positions[restype, atom14idx, :] = atom_position
for restype, restype_letter in enumerate(restypes):
resname = restype_1to3[restype_letter]
atom_positions: Dict[str, np.ndarray] = {
name: np.array(pos) for name, _, pos in rigid_group_atom_positions[resname]
}
# backbone to backbone is the identity transform
restype_rigid_group_default_frame[restype, 0, :, :] = np.eye(4)
# pre-omega-frame to backbone (currently dummy identity matrix)
restype_rigid_group_default_frame[restype, 1, :, :] = np.eye(4)
# phi-frame to backbone
mat = _make_rigid_transformation_4x4(
ex=atom_positions["N"] - atom_positions["CA"],
ey=np.array([1.0, 0.0, 0.0]),
translation=atom_positions["N"],
)
restype_rigid_group_default_frame[restype, 2, :, :] = mat
# psi-frame to backbone
mat = _make_rigid_transformation_4x4(
ex=atom_positions["C"] - atom_positions["CA"],
ey=atom_positions["CA"] - atom_positions["N"],
translation=atom_positions["C"],
)
restype_rigid_group_default_frame[restype, 3, :, :] = mat
# chi1-frame to backbone
if chi_angles_mask[restype][0]:
base_atom_names = chi_angles_atoms[resname][0]
base_atom_positions = [atom_positions[name] for name in base_atom_names]
mat = _make_rigid_transformation_4x4(
ex=base_atom_positions[2] - base_atom_positions[1],
ey=base_atom_positions[0] - base_atom_positions[1],
translation=base_atom_positions[2],
)
restype_rigid_group_default_frame[restype, 4, :, :] = mat
# chi2-frame to chi1-frame
# chi3-frame to chi2-frame
# chi4-frame to chi3-frame
# luckily all rotation axes for the next frame start at (0,0,0) of the
# previous frame
for chi_idx in range(1, 4):
if chi_angles_mask[restype][chi_idx]:
axis_end_atom_name = chi_angles_atoms[resname][chi_idx][2]
axis_end_atom_position = atom_positions[axis_end_atom_name]
mat = _make_rigid_transformation_4x4(
ex=axis_end_atom_position,
ey=np.array([-1.0, 0.0, 0.0]),
translation=axis_end_atom_position,
)
restype_rigid_group_default_frame[restype, 4 + chi_idx, :, :] = mat
_make_rigid_group_constants()
def make_atom14_dists_bounds(
overlap_tolerance: float = 1.5,
bond_length_tolerance_factor: int = 15,
) -> Dict[str, np.ndarray]:
"""compute upper and lower bounds for bonds to assess violations."""
restype_atom14_bond_lower_bound = np.zeros([21, 14, 14], np.float32)
restype_atom14_bond_upper_bound = np.zeros([21, 14, 14], np.float32)
restype_atom14_bond_stddev = np.zeros([21, 14, 14], np.float32)
residue_bonds, residue_virtual_bonds, _ = load_stereo_chemical_props()
for restype, restype_letter in enumerate(restypes):
resname = restype_1to3[restype_letter]
atom_list = restype_name_to_atom14_names[resname]
# create lower and upper bounds for clashes
for atom1_idx, atom1_name in enumerate(atom_list):
if not atom1_name:
continue
atom1_radius = van_der_waals_radius[atom1_name[0]]
for atom2_idx, atom2_name in enumerate(atom_list):
if (not atom2_name) or atom1_idx == atom2_idx:
continue
atom2_radius = van_der_waals_radius[atom2_name[0]]
lower = atom1_radius + atom2_radius - overlap_tolerance
upper = 1e10
restype_atom14_bond_lower_bound[restype, atom1_idx, atom2_idx] = lower
restype_atom14_bond_lower_bound[restype, atom2_idx, atom1_idx] = lower
restype_atom14_bond_upper_bound[restype, atom1_idx, atom2_idx] = upper
restype_atom14_bond_upper_bound[restype, atom2_idx, atom1_idx] = upper
# overwrite lower and upper bounds for bonds and angles
for b in residue_bonds[resname] + residue_virtual_bonds[resname]:
atom1_idx = atom_list.index(b.atom1_name)
atom2_idx = atom_list.index(b.atom2_name)
lower = b.length - bond_length_tolerance_factor * b.stddev
upper = b.length + bond_length_tolerance_factor * b.stddev
restype_atom14_bond_lower_bound[restype, atom1_idx, atom2_idx] = lower
restype_atom14_bond_lower_bound[restype, atom2_idx, atom1_idx] = lower
restype_atom14_bond_upper_bound[restype, atom1_idx, atom2_idx] = upper
restype_atom14_bond_upper_bound[restype, atom2_idx, atom1_idx] = upper
restype_atom14_bond_stddev[restype, atom1_idx, atom2_idx] = b.stddev
restype_atom14_bond_stddev[restype, atom2_idx, atom1_idx] = b.stddev
return {
"lower_bound": restype_atom14_bond_lower_bound, # shape (21,14,14)
"upper_bound": restype_atom14_bond_upper_bound, # shape (21,14,14)
"stddev": restype_atom14_bond_stddev, # shape (21,14,14)
}
restype_atom14_ambiguous_atoms = np.zeros((21, 14), dtype=np.float32)
restype_atom14_ambiguous_atoms_swap_idx: np.ndarray = np.tile(np.arange(14, dtype=int), (21, 1))
def _make_atom14_ambiguity_feats() -> None:
for res, pairs in residue_atom_renaming_swaps.items():
res_idx = restype_order[restype_3to1[res]]
for atom1, atom2 in pairs.items():
atom1_idx = restype_name_to_atom14_names[res].index(atom1)
atom2_idx = restype_name_to_atom14_names[res].index(atom2)
restype_atom14_ambiguous_atoms[res_idx, atom1_idx] = 1
restype_atom14_ambiguous_atoms[res_idx, atom2_idx] = 1
restype_atom14_ambiguous_atoms_swap_idx[res_idx, atom1_idx] = atom2_idx
restype_atom14_ambiguous_atoms_swap_idx[res_idx, atom2_idx] = atom1_idx
_make_atom14_ambiguity_feats()
def aatype_to_str_sequence(aatype: Sequence[int]) -> str:
return "".join([restypes_with_x[aatype[i]] for i in range(len(aatype))])
| transformers-main | src/transformers/models/esm/openfold_utils/residue_constants.py |
# Copyright 2021 AlQuraishi Laboratory
# Copyright 2021 DeepMind Technologies Limited
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import Dict, Tuple, overload
import torch
import torch.types
from torch import nn
from . import residue_constants as rc
from .rigid_utils import Rigid, Rotation
from .tensor_utils import batched_gather
@overload
def pseudo_beta_fn(aatype: torch.Tensor, all_atom_positions: torch.Tensor, all_atom_masks: None) -> torch.Tensor:
...
@overload
def pseudo_beta_fn(
aatype: torch.Tensor, all_atom_positions: torch.Tensor, all_atom_masks: torch.Tensor
) -> Tuple[torch.Tensor, torch.Tensor]:
...
def pseudo_beta_fn(aatype, all_atom_positions, all_atom_masks):
is_gly = aatype == rc.restype_order["G"]
ca_idx = rc.atom_order["CA"]
cb_idx = rc.atom_order["CB"]
pseudo_beta = torch.where(
is_gly[..., None].expand(*((-1,) * len(is_gly.shape)), 3),
all_atom_positions[..., ca_idx, :],
all_atom_positions[..., cb_idx, :],
)
if all_atom_masks is not None:
pseudo_beta_mask = torch.where(
is_gly,
all_atom_masks[..., ca_idx],
all_atom_masks[..., cb_idx],
)
return pseudo_beta, pseudo_beta_mask
else:
return pseudo_beta
def atom14_to_atom37(atom14: torch.Tensor, batch: Dict[str, torch.Tensor]) -> torch.Tensor:
atom37_data = batched_gather(
atom14,
batch["residx_atom37_to_atom14"],
dim=-2,
no_batch_dims=len(atom14.shape[:-2]),
)
atom37_data = atom37_data * batch["atom37_atom_exists"][..., None]
return atom37_data
def build_template_angle_feat(template_feats: Dict[str, torch.Tensor]) -> torch.Tensor:
template_aatype = template_feats["template_aatype"]
torsion_angles_sin_cos = template_feats["template_torsion_angles_sin_cos"]
alt_torsion_angles_sin_cos = template_feats["template_alt_torsion_angles_sin_cos"]
torsion_angles_mask = template_feats["template_torsion_angles_mask"]
template_angle_feat = torch.cat(
[
nn.functional.one_hot(template_aatype, 22),
torsion_angles_sin_cos.reshape(*torsion_angles_sin_cos.shape[:-2], 14),
alt_torsion_angles_sin_cos.reshape(*alt_torsion_angles_sin_cos.shape[:-2], 14),
torsion_angles_mask,
],
dim=-1,
)
return template_angle_feat
def build_template_pair_feat(
batch: Dict[str, torch.Tensor],
min_bin: torch.types.Number,
max_bin: torch.types.Number,
no_bins: int,
use_unit_vector: bool = False,
eps: float = 1e-20,
inf: float = 1e8,
) -> torch.Tensor:
template_mask = batch["template_pseudo_beta_mask"]
template_mask_2d = template_mask[..., None] * template_mask[..., None, :]
# Compute distogram (this seems to differ slightly from Alg. 5)
tpb = batch["template_pseudo_beta"]
dgram = torch.sum((tpb[..., None, :] - tpb[..., None, :, :]) ** 2, dim=-1, keepdim=True)
lower = torch.linspace(min_bin, max_bin, no_bins, device=tpb.device) ** 2
upper = torch.cat([lower[1:], lower.new_tensor([inf])], dim=-1)
dgram = ((dgram > lower) * (dgram < upper)).type(dgram.dtype)
to_concat = [dgram, template_mask_2d[..., None]]
aatype_one_hot: torch.LongTensor = nn.functional.one_hot(
batch["template_aatype"],
rc.restype_num + 2,
)
n_res = batch["template_aatype"].shape[-1]
to_concat.append(aatype_one_hot[..., None, :, :].expand(*aatype_one_hot.shape[:-2], n_res, -1, -1))
to_concat.append(aatype_one_hot[..., None, :].expand(*aatype_one_hot.shape[:-2], -1, n_res, -1))
n, ca, c = [rc.atom_order[a] for a in ["N", "CA", "C"]]
rigids = Rigid.make_transform_from_reference(
n_xyz=batch["template_all_atom_positions"][..., n, :],
ca_xyz=batch["template_all_atom_positions"][..., ca, :],
c_xyz=batch["template_all_atom_positions"][..., c, :],
eps=eps,
)
points = rigids.get_trans()[..., None, :, :]
rigid_vec = rigids[..., None].invert_apply(points)
inv_distance_scalar = torch.rsqrt(eps + torch.sum(rigid_vec**2, dim=-1))
t_aa_masks = batch["template_all_atom_mask"]
template_mask = t_aa_masks[..., n] * t_aa_masks[..., ca] * t_aa_masks[..., c]
template_mask_2d = template_mask[..., None] * template_mask[..., None, :]
inv_distance_scalar = inv_distance_scalar * template_mask_2d
unit_vector = rigid_vec * inv_distance_scalar[..., None]
if not use_unit_vector:
unit_vector = unit_vector * 0.0
to_concat.extend(torch.unbind(unit_vector[..., None, :], dim=-1))
to_concat.append(template_mask_2d[..., None])
act = torch.cat(to_concat, dim=-1)
act = act * template_mask_2d[..., None]
return act
def build_extra_msa_feat(batch: Dict[str, torch.Tensor]) -> torch.Tensor:
msa_1hot: torch.LongTensor = nn.functional.one_hot(batch["extra_msa"], 23)
msa_feat = [
msa_1hot,
batch["extra_has_deletion"].unsqueeze(-1),
batch["extra_deletion_value"].unsqueeze(-1),
]
return torch.cat(msa_feat, dim=-1)
def torsion_angles_to_frames(
r: Rigid,
alpha: torch.Tensor,
aatype: torch.Tensor,
rrgdf: torch.Tensor,
) -> Rigid:
# [*, N, 8, 4, 4]
default_4x4 = rrgdf[aatype, ...]
# [*, N, 8] transformations, i.e.
# One [*, N, 8, 3, 3] rotation matrix and
# One [*, N, 8, 3] translation matrix
default_r = r.from_tensor_4x4(default_4x4)
bb_rot = alpha.new_zeros((*((1,) * len(alpha.shape[:-1])), 2))
bb_rot[..., 1] = 1
# [*, N, 8, 2]
alpha = torch.cat([bb_rot.expand(*alpha.shape[:-2], -1, -1), alpha], dim=-2)
# [*, N, 8, 3, 3]
# Produces rotation matrices of the form:
# [
# [1, 0 , 0 ],
# [0, a_2,-a_1],
# [0, a_1, a_2]
# ]
# This follows the original code rather than the supplement, which uses
# different indices.
all_rots = alpha.new_zeros(default_r.get_rots().get_rot_mats().shape)
all_rots[..., 0, 0] = 1
all_rots[..., 1, 1] = alpha[..., 1]
all_rots[..., 1, 2] = -alpha[..., 0]
all_rots[..., 2, 1:] = alpha
all_frames = default_r.compose(Rigid(Rotation(rot_mats=all_rots), None))
chi2_frame_to_frame = all_frames[..., 5]
chi3_frame_to_frame = all_frames[..., 6]
chi4_frame_to_frame = all_frames[..., 7]
chi1_frame_to_bb = all_frames[..., 4]
chi2_frame_to_bb = chi1_frame_to_bb.compose(chi2_frame_to_frame)
chi3_frame_to_bb = chi2_frame_to_bb.compose(chi3_frame_to_frame)
chi4_frame_to_bb = chi3_frame_to_bb.compose(chi4_frame_to_frame)
all_frames_to_bb = Rigid.cat(
[
all_frames[..., :5],
chi2_frame_to_bb.unsqueeze(-1),
chi3_frame_to_bb.unsqueeze(-1),
chi4_frame_to_bb.unsqueeze(-1),
],
dim=-1,
)
all_frames_to_global = r[..., None].compose(all_frames_to_bb)
return all_frames_to_global
def frames_and_literature_positions_to_atom14_pos(
r: Rigid,
aatype: torch.Tensor,
default_frames: torch.Tensor,
group_idx: torch.Tensor,
atom_mask: torch.Tensor,
lit_positions: torch.Tensor,
) -> torch.Tensor:
# [*, N, 14]
group_mask = group_idx[aatype, ...]
# [*, N, 14, 8]
group_mask_one_hot: torch.LongTensor = nn.functional.one_hot(
group_mask,
num_classes=default_frames.shape[-3],
)
# [*, N, 14, 8]
t_atoms_to_global = r[..., None, :] * group_mask_one_hot
# [*, N, 14]
t_atoms_to_global = t_atoms_to_global.map_tensor_fn(lambda x: torch.sum(x, dim=-1))
# [*, N, 14, 1]
atom_mask = atom_mask[aatype, ...].unsqueeze(-1)
# [*, N, 14, 3]
lit_positions = lit_positions[aatype, ...]
pred_positions = t_atoms_to_global.apply(lit_positions)
pred_positions = pred_positions * atom_mask
return pred_positions
| transformers-main | src/transformers/models/esm/openfold_utils/feats.py |
# Copyright 2021 The HuggingFace Team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import TYPE_CHECKING
from ...utils import (
OptionalDependencyNotAvailable,
_LazyModule,
is_flax_available,
is_sentencepiece_available,
is_tf_available,
is_tokenizers_available,
is_torch_available,
)
_import_structure = {
"configuration_big_bird": ["BIG_BIRD_PRETRAINED_CONFIG_ARCHIVE_MAP", "BigBirdConfig", "BigBirdOnnxConfig"],
}
try:
if not is_sentencepiece_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["tokenization_big_bird"] = ["BigBirdTokenizer"]
try:
if not is_tokenizers_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["tokenization_big_bird_fast"] = ["BigBirdTokenizerFast"]
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_big_bird"] = [
"BIG_BIRD_PRETRAINED_MODEL_ARCHIVE_LIST",
"BigBirdForCausalLM",
"BigBirdForMaskedLM",
"BigBirdForMultipleChoice",
"BigBirdForPreTraining",
"BigBirdForQuestionAnswering",
"BigBirdForSequenceClassification",
"BigBirdForTokenClassification",
"BigBirdLayer",
"BigBirdModel",
"BigBirdPreTrainedModel",
"load_tf_weights_in_big_bird",
]
try:
if not is_flax_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
_import_structure["modeling_flax_big_bird"] = [
"FlaxBigBirdForCausalLM",
"FlaxBigBirdForMaskedLM",
"FlaxBigBirdForMultipleChoice",
"FlaxBigBirdForPreTraining",
"FlaxBigBirdForQuestionAnswering",
"FlaxBigBirdForSequenceClassification",
"FlaxBigBirdForTokenClassification",
"FlaxBigBirdModel",
"FlaxBigBirdPreTrainedModel",
]
if TYPE_CHECKING:
from .configuration_big_bird import BIG_BIRD_PRETRAINED_CONFIG_ARCHIVE_MAP, BigBirdConfig, BigBirdOnnxConfig
try:
if not is_sentencepiece_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .tokenization_big_bird import BigBirdTokenizer
try:
if not is_tokenizers_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .tokenization_big_bird_fast import BigBirdTokenizerFast
try:
if not is_torch_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_big_bird import (
BIG_BIRD_PRETRAINED_MODEL_ARCHIVE_LIST,
BigBirdForCausalLM,
BigBirdForMaskedLM,
BigBirdForMultipleChoice,
BigBirdForPreTraining,
BigBirdForQuestionAnswering,
BigBirdForSequenceClassification,
BigBirdForTokenClassification,
BigBirdLayer,
BigBirdModel,
BigBirdPreTrainedModel,
load_tf_weights_in_big_bird,
)
try:
if not is_flax_available():
raise OptionalDependencyNotAvailable()
except OptionalDependencyNotAvailable:
pass
else:
from .modeling_flax_big_bird import (
FlaxBigBirdForCausalLM,
FlaxBigBirdForMaskedLM,
FlaxBigBirdForMultipleChoice,
FlaxBigBirdForPreTraining,
FlaxBigBirdForQuestionAnswering,
FlaxBigBirdForSequenceClassification,
FlaxBigBirdForTokenClassification,
FlaxBigBirdModel,
FlaxBigBirdPreTrainedModel,
)
else:
import sys
sys.modules[__name__] = _LazyModule(__name__, globals()["__file__"], _import_structure, module_spec=__spec__)
| transformers-main | src/transformers/models/big_bird/__init__.py |
# coding=utf-8
# Copyright 2021 The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Convert BigBird checkpoint."""
import argparse
from transformers import BigBirdConfig, BigBirdForPreTraining, BigBirdForQuestionAnswering, load_tf_weights_in_big_bird
from transformers.utils import logging
logging.set_verbosity_info()
def convert_tf_checkpoint_to_pytorch(tf_checkpoint_path, big_bird_config_file, pytorch_dump_path, is_trivia_qa):
# Initialise PyTorch model
config = BigBirdConfig.from_json_file(big_bird_config_file)
print(f"Building PyTorch model from configuration: {config}")
if is_trivia_qa:
model = BigBirdForQuestionAnswering(config)
else:
model = BigBirdForPreTraining(config)
# Load weights from tf checkpoint
load_tf_weights_in_big_bird(model, tf_checkpoint_path, is_trivia_qa=is_trivia_qa)
# Save pytorch-model
print(f"Save PyTorch model to {pytorch_dump_path}")
model.save_pretrained(pytorch_dump_path)
if __name__ == "__main__":
parser = argparse.ArgumentParser()
# Required parameters
parser.add_argument(
"--tf_checkpoint_path", default=None, type=str, required=True, help="Path to the TensorFlow checkpoint path."
)
parser.add_argument(
"--big_bird_config_file",
default=None,
type=str,
required=True,
help=(
"The config json file corresponding to the pre-trained BERT model. \n"
"This specifies the model architecture."
),
)
parser.add_argument(
"--pytorch_dump_path", default=None, type=str, required=True, help="Path to the output PyTorch model."
)
parser.add_argument(
"--is_trivia_qa", action="store_true", help="Whether to convert a model with a trivia_qa head."
)
args = parser.parse_args()
convert_tf_checkpoint_to_pytorch(
args.tf_checkpoint_path, args.big_bird_config_file, args.pytorch_dump_path, args.is_trivia_qa
)
| transformers-main | src/transformers/models/big_bird/convert_bigbird_original_tf_checkpoint_to_pytorch.py |
# coding=utf-8
# Copyright 2021 Google Research and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Tokenization classes for BigBird."""
import os
import re
from shutil import copyfile
from typing import Any, Dict, List, Optional, Tuple
import sentencepiece as spm
from ...tokenization_utils import AddedToken, PreTrainedTokenizer
from ...utils import logging
logger = logging.get_logger(__name__)
VOCAB_FILES_NAMES = {"vocab_file": "spiece.model"}
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"google/bigbird-roberta-base": "https://huggingface.co/google/bigbird-roberta-base/resolve/main/spiece.model",
"google/bigbird-roberta-large": (
"https://huggingface.co/google/bigbird-roberta-large/resolve/main/spiece.model"
),
"google/bigbird-base-trivia-itc": (
"https://huggingface.co/google/bigbird-base-trivia-itc/resolve/main/spiece.model"
),
}
}
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {
"google/bigbird-roberta-base": 4096,
"google/bigbird-roberta-large": 4096,
"google/bigbird-base-trivia-itc": 4096,
}
class BigBirdTokenizer(PreTrainedTokenizer):
"""
Construct a BigBird tokenizer. Based on [SentencePiece](https://github.com/google/sentencepiece).
This tokenizer inherits from [`PreTrainedTokenizer`] which contains most of the main methods. Users should refer to
this superclass for more information regarding those methods.
Args:
vocab_file (`str`):
[SentencePiece](https://github.com/google/sentencepiece) file (generally has a *.spm* extension) that
contains the vocabulary necessary to instantiate a tokenizer.
eos_token (`str`, *optional*, defaults to `"</s>"`):
The end of sequence token.
bos_token (`str`, *optional*, defaults to `"<s>"`):
The begin of sequence token.
unk_token (`str`, *optional*, defaults to `"<unk>"`):
The unknown token. A token that is not in the vocabulary cannot be converted to an ID and is set to be this
token instead.
pad_token (`str`, *optional*, defaults to `"<pad>"`):
The token used for padding, for example when batching sequences of different lengths.
sep_token (`str`, *optional*, defaults to `"[SEP]"`):
The separator token, which is used when building a sequence from multiple sequences, e.g. two sequences for
sequence classification or for a text and a question for question answering. It is also used as the last
token of a sequence built with special tokens.
cls_token (`str`, *optional*, defaults to `"[CLS]"`):
The classifier token which is used when doing sequence classification (classification of the whole sequence
instead of per-token classification). It is the first token of the sequence when built with special tokens.
mask_token (`str`, *optional*, defaults to `"[MASK]"`):
The token used for masking values. This is the token used when training this model with masked language
modeling. This is the token which the model will try to predict.
sp_model_kwargs (`dict`, *optional*):
Will be passed to the `SentencePieceProcessor.__init__()` method. The [Python wrapper for
SentencePiece](https://github.com/google/sentencepiece/tree/master/python) can be used, among other things,
to set:
- `enable_sampling`: Enable subword regularization.
- `nbest_size`: Sampling parameters for unigram. Invalid for BPE-Dropout.
- `nbest_size = {0,1}`: No sampling is performed.
- `nbest_size > 1`: samples from the nbest_size results.
- `nbest_size < 0`: assuming that nbest_size is infinite and samples from the all hypothesis (lattice)
using forward-filtering-and-backward-sampling algorithm.
- `alpha`: Smoothing parameter for unigram sampling, and dropout probability of merge operations for
BPE-dropout.
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
model_input_names = ["input_ids", "attention_mask"]
prefix_tokens: List[int] = []
def __init__(
self,
vocab_file,
unk_token="<unk>",
bos_token="<s>",
eos_token="</s>",
pad_token="<pad>",
sep_token="[SEP]",
mask_token="[MASK]",
cls_token="[CLS]",
sp_model_kwargs: Optional[Dict[str, Any]] = None,
**kwargs,
) -> None:
bos_token = AddedToken(bos_token, lstrip=False, rstrip=False) if isinstance(bos_token, str) else bos_token
eos_token = AddedToken(eos_token, lstrip=False, rstrip=False) if isinstance(eos_token, str) else eos_token
unk_token = AddedToken(unk_token, lstrip=False, rstrip=False) if isinstance(unk_token, str) else unk_token
pad_token = AddedToken(pad_token, lstrip=False, rstrip=False) if isinstance(pad_token, str) else pad_token
cls_token = AddedToken(cls_token, lstrip=False, rstrip=False) if isinstance(cls_token, str) else cls_token
sep_token = AddedToken(sep_token, lstrip=False, rstrip=False) if isinstance(sep_token, str) else sep_token
# Mask token behave like a normal word, i.e. include the space before it
mask_token = AddedToken(mask_token, lstrip=True, rstrip=False) if isinstance(mask_token, str) else mask_token
self.sp_model_kwargs = {} if sp_model_kwargs is None else sp_model_kwargs
super().__init__(
bos_token=bos_token,
eos_token=eos_token,
unk_token=unk_token,
pad_token=pad_token,
sep_token=sep_token,
mask_token=mask_token,
cls_token=cls_token,
sp_model_kwargs=self.sp_model_kwargs,
**kwargs,
)
self.vocab_file = vocab_file
self.sp_model = spm.SentencePieceProcessor(**self.sp_model_kwargs)
self.sp_model.Load(vocab_file)
@property
def vocab_size(self):
return self.sp_model.get_piece_size()
def get_vocab(self):
vocab = {self.convert_ids_to_tokens(i): i for i in range(self.vocab_size)}
vocab.update(self.added_tokens_encoder)
return vocab
def __getstate__(self):
state = self.__dict__.copy()
state["sp_model"] = None
return state
def __setstate__(self, d):
self.__dict__ = d
# for backward compatibility
if not hasattr(self, "sp_model_kwargs"):
self.sp_model_kwargs = {}
self.sp_model = spm.SentencePieceProcessor(**self.sp_model_kwargs)
self.sp_model.Load(self.vocab_file)
def _tokenize(self, text: str) -> List[str]:
"""Take as input a string and return a list of strings (tokens) for words/sub-words"""
return self.sp_model.encode(text, out_type=str)
def _convert_token_to_id(self, token):
"""Converts a token (str) in an id using the vocab."""
return self.sp_model.piece_to_id(token)
def _convert_id_to_token(self, index):
"""Converts an index (integer) in a token (str) using the vocab."""
token = self.sp_model.IdToPiece(index)
return token
def convert_tokens_to_string(self, tokens):
"""Converts a sequence of tokens (string) in a single string."""
current_sub_tokens = []
out_string = ""
prev_is_special = False
for token in tokens:
# make sure that special tokens are not decoded using sentencepiece model
if token in self.all_special_tokens:
if not prev_is_special:
out_string += " "
out_string += self.sp_model.decode(current_sub_tokens) + token
prev_is_special = True
current_sub_tokens = []
else:
current_sub_tokens.append(token)
prev_is_special = False
out_string += self.sp_model.decode(current_sub_tokens)
return out_string.strip()
def _decode(
self,
token_ids: List[int],
skip_special_tokens: bool = False,
clean_up_tokenization_spaces: bool = None,
spaces_between_special_tokens: bool = True,
**kwargs,
) -> str:
self._decode_use_source_tokenizer = kwargs.pop("use_source_tokenizer", False)
filtered_tokens = self.convert_ids_to_tokens(token_ids, skip_special_tokens=skip_special_tokens)
# To avoid mixing byte-level and unicode for byte-level BPT
# we need to build string separately for added tokens and byte-level tokens
# cf. https://github.com/huggingface/transformers/issues/1133
sub_texts = []
current_sub_text = []
for token in filtered_tokens:
if skip_special_tokens and token in self.all_special_ids:
continue
if token in self.added_tokens_encoder:
if current_sub_text:
sub_texts.append(self.convert_tokens_to_string(current_sub_text))
current_sub_text = []
sub_texts.append(token)
else:
current_sub_text.append(token)
if current_sub_text:
sub_texts.append(self.convert_tokens_to_string(current_sub_text))
# Mimic the behavior of the Rust tokenizer:
# No space before [MASK] and [SEP]
if spaces_between_special_tokens:
text = re.sub(r" (\[(MASK|SEP)\])", r"\1", " ".join(sub_texts))
else:
text = "".join(sub_texts)
clean_up_tokenization_spaces = (
clean_up_tokenization_spaces
if clean_up_tokenization_spaces is not None
else self.clean_up_tokenization_spaces
)
if clean_up_tokenization_spaces:
clean_text = self.clean_up_tokenization(text)
return clean_text
else:
return text
def save_vocabulary(self, save_directory: str, filename_prefix: Optional[str] = None) -> Tuple[str]:
if not os.path.isdir(save_directory):
logger.error(f"Vocabulary path ({save_directory}) should be a directory")
return
out_vocab_file = os.path.join(
save_directory, (filename_prefix + "-" if filename_prefix else "") + VOCAB_FILES_NAMES["vocab_file"]
)
if os.path.abspath(self.vocab_file) != os.path.abspath(out_vocab_file) and os.path.isfile(self.vocab_file):
copyfile(self.vocab_file, out_vocab_file)
elif not os.path.isfile(self.vocab_file):
with open(out_vocab_file, "wb") as fi:
content_spiece_model = self.sp_model.serialized_model_proto()
fi.write(content_spiece_model)
return (out_vocab_file,)
def build_inputs_with_special_tokens(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Build model inputs from a sequence or a pair of sequence for sequence classification tasks by concatenating and
adding special tokens. A Big Bird sequence has the following format:
- single sequence: `[CLS] X [SEP]`
- pair of sequences: `[CLS] A [SEP] B [SEP]`
Args:
token_ids_0 (`List[int]`):
List of IDs to which the special tokens will be added.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of [input IDs](../glossary#input-ids) with the appropriate special tokens.
"""
if token_ids_1 is None:
return [self.cls_token_id] + token_ids_0 + [self.sep_token_id]
cls = [self.cls_token_id]
sep = [self.sep_token_id]
return cls + token_ids_0 + sep + token_ids_1 + sep
def get_special_tokens_mask(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None, already_has_special_tokens: bool = False
) -> List[int]:
"""
Retrieve sequence ids from a token list that has no special tokens added. This method is called when adding
special tokens using the tokenizer `prepare_for_model` method.
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
already_has_special_tokens (`bool`, *optional*, defaults to `False`):
Whether or not the token list is already formatted with special tokens for the model.
Returns:
`List[int]`: A list of integers in the range [0, 1]: 1 for a special token, 0 for a sequence token.
"""
if already_has_special_tokens:
return super().get_special_tokens_mask(
token_ids_0=token_ids_0, token_ids_1=token_ids_1, already_has_special_tokens=True
)
if token_ids_1 is None:
return [1] + ([0] * len(token_ids_0)) + [1]
return [1] + ([0] * len(token_ids_0)) + [1] + ([0] * len(token_ids_1)) + [1]
def create_token_type_ids_from_sequences(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Create a mask from the two sequences passed to be used in a sequence-pair classification task. A BERT sequence
pair mask has the following format: :: 0 0 0 0 0 0 0 0 0 0 0 1 1 1 1 1 1 1 1 1 | first sequence | second
sequence | If `token_ids_1` is `None`, this method only returns the first portion of the mask (0s).
Args:
token_ids_0 (`List[int]`):
List of IDs.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of [token type IDs](../glossary#token-type-ids) according to the given sequence(s).
"""
sep = [self.sep_token_id]
cls = [self.cls_token_id]
if token_ids_1 is None:
return len(cls + token_ids_0 + sep) * [0]
return len(cls + token_ids_0 + sep) * [0] + len(token_ids_1 + sep) * [1]
| transformers-main | src/transformers/models/big_bird/tokenization_big_bird.py |
# coding=utf-8
# Copyright 2021 Google Research and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" BigBird model configuration"""
from collections import OrderedDict
from typing import Mapping
from ...configuration_utils import PretrainedConfig
from ...onnx import OnnxConfig
from ...utils import logging
logger = logging.get_logger(__name__)
BIG_BIRD_PRETRAINED_CONFIG_ARCHIVE_MAP = {
"google/bigbird-roberta-base": "https://huggingface.co/google/bigbird-roberta-base/resolve/main/config.json",
"google/bigbird-roberta-large": "https://huggingface.co/google/bigbird-roberta-large/resolve/main/config.json",
"google/bigbird-base-trivia-itc": "https://huggingface.co/google/bigbird-base-trivia-itc/resolve/main/config.json",
# See all BigBird models at https://huggingface.co/models?filter=big_bird
}
class BigBirdConfig(PretrainedConfig):
r"""
This is the configuration class to store the configuration of a [`BigBirdModel`]. It is used to instantiate an
BigBird model according to the specified arguments, defining the model architecture. Instantiating a configuration
with the defaults will yield a similar configuration to that of the BigBird
[google/bigbird-roberta-base](https://huggingface.co/google/bigbird-roberta-base) architecture.
Configuration objects inherit from [`PretrainedConfig`] and can be used to control the model outputs. Read the
documentation from [`PretrainedConfig`] for more information.
Args:
vocab_size (`int`, *optional*, defaults to 50358):
Vocabulary size of the BigBird model. Defines the number of different tokens that can be represented by the
`inputs_ids` passed when calling [`BigBirdModel`].
hidden_size (`int`, *optional*, defaults to 768):
Dimension of the encoder layers and the pooler layer.
num_hidden_layers (`int`, *optional*, defaults to 12):
Number of hidden layers in the Transformer encoder.
num_attention_heads (`int`, *optional*, defaults to 12):
Number of attention heads for each attention layer in the Transformer encoder.
intermediate_size (`int`, *optional*, defaults to 3072):
Dimension of the "intermediate" (i.e., feed-forward) layer in the Transformer encoder.
hidden_act (`str` or `function`, *optional*, defaults to `"gelu_new"`):
The non-linear activation function (function or string) in the encoder and pooler. If string, `"gelu"`,
`"relu"`, `"selu"` and `"gelu_new"` are supported.
hidden_dropout_prob (`float`, *optional*, defaults to 0.1):
The dropout probabilitiy for all fully connected layers in the embeddings, encoder, and pooler.
attention_probs_dropout_prob (`float`, *optional*, defaults to 0.1):
The dropout ratio for the attention probabilities.
max_position_embeddings (`int`, *optional*, defaults to 4096):
The maximum sequence length that this model might ever be used with. Typically set this to something large
just in case (e.g., 1024 or 2048 or 4096).
type_vocab_size (`int`, *optional*, defaults to 2):
The vocabulary size of the `token_type_ids` passed when calling [`BigBirdModel`].
initializer_range (`float`, *optional*, defaults to 0.02):
The standard deviation of the truncated_normal_initializer for initializing all weight matrices.
layer_norm_eps (`float`, *optional*, defaults to 1e-12):
The epsilon used by the layer normalization layers.
is_decoder (`bool`, *optional*, defaults to `False`):
Whether the model is used as a decoder or not. If `False`, the model is used as an encoder.
use_cache (`bool`, *optional*, defaults to `True`):
Whether or not the model should return the last key/values attentions (not used by all models). Only
relevant if `config.is_decoder=True`.
attention_type (`str`, *optional*, defaults to `"block_sparse"`)
Whether to use block sparse attention (with n complexity) as introduced in paper or original attention
layer (with n^2 complexity). Possible values are `"original_full"` and `"block_sparse"`.
use_bias (`bool`, *optional*, defaults to `True`)
Whether to use bias in query, key, value.
rescale_embeddings (`bool`, *optional*, defaults to `False`)
Whether to rescale embeddings with (hidden_size ** 0.5).
block_size (`int`, *optional*, defaults to 64)
Size of each block. Useful only when `attention_type == "block_sparse"`.
num_random_blocks (`int`, *optional*, defaults to 3)
Each query is going to attend these many number of random blocks. Useful only when `attention_type ==
"block_sparse"`.
classifier_dropout (`float`, *optional*):
The dropout ratio for the classification head.
Example:
```python
>>> from transformers import BigBirdConfig, BigBirdModel
>>> # Initializing a BigBird google/bigbird-roberta-base style configuration
>>> configuration = BigBirdConfig()
>>> # Initializing a model (with random weights) from the google/bigbird-roberta-base style configuration
>>> model = BigBirdModel(configuration)
>>> # Accessing the model configuration
>>> configuration = model.config
```"""
model_type = "big_bird"
def __init__(
self,
vocab_size=50358,
hidden_size=768,
num_hidden_layers=12,
num_attention_heads=12,
intermediate_size=3072,
hidden_act="gelu_new",
hidden_dropout_prob=0.1,
attention_probs_dropout_prob=0.1,
max_position_embeddings=4096,
type_vocab_size=2,
initializer_range=0.02,
layer_norm_eps=1e-12,
use_cache=True,
pad_token_id=0,
bos_token_id=1,
eos_token_id=2,
sep_token_id=66,
attention_type="block_sparse",
use_bias=True,
rescale_embeddings=False,
block_size=64,
num_random_blocks=3,
classifier_dropout=None,
**kwargs,
):
super().__init__(
pad_token_id=pad_token_id,
bos_token_id=bos_token_id,
eos_token_id=eos_token_id,
sep_token_id=sep_token_id,
**kwargs,
)
self.vocab_size = vocab_size
self.max_position_embeddings = max_position_embeddings
self.hidden_size = hidden_size
self.num_hidden_layers = num_hidden_layers
self.num_attention_heads = num_attention_heads
self.intermediate_size = intermediate_size
self.hidden_act = hidden_act
self.hidden_dropout_prob = hidden_dropout_prob
self.attention_probs_dropout_prob = attention_probs_dropout_prob
self.initializer_range = initializer_range
self.type_vocab_size = type_vocab_size
self.layer_norm_eps = layer_norm_eps
self.use_cache = use_cache
self.rescale_embeddings = rescale_embeddings
self.attention_type = attention_type
self.use_bias = use_bias
self.block_size = block_size
self.num_random_blocks = num_random_blocks
self.classifier_dropout = classifier_dropout
class BigBirdOnnxConfig(OnnxConfig):
@property
def inputs(self) -> Mapping[str, Mapping[int, str]]:
if self.task == "multiple-choice":
dynamic_axis = {0: "batch", 1: "choice", 2: "sequence"}
else:
dynamic_axis = {0: "batch", 1: "sequence"}
return OrderedDict(
[
("input_ids", dynamic_axis),
("attention_mask", dynamic_axis),
]
)
| transformers-main | src/transformers/models/big_bird/configuration_big_bird.py |
# coding=utf-8
# Copyright 2018 Google AI, Google Brain and the HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" Tokenization classes for Big Bird model."""
import os
from shutil import copyfile
from typing import List, Optional, Tuple
from ...tokenization_utils import AddedToken
from ...tokenization_utils_fast import PreTrainedTokenizerFast
from ...utils import is_sentencepiece_available, logging
if is_sentencepiece_available():
from .tokenization_big_bird import BigBirdTokenizer
else:
BigBirdTokenizer = None
logger = logging.get_logger(__name__)
VOCAB_FILES_NAMES = {"vocab_file": "spiece.model", "tokenizer_file": "tokenizer.json"}
PRETRAINED_VOCAB_FILES_MAP = {
"vocab_file": {
"google/bigbird-roberta-base": "https://huggingface.co/google/bigbird-roberta-base/resolve/main/spiece.model",
"google/bigbird-roberta-large": (
"https://huggingface.co/google/bigbird-roberta-large/resolve/main/spiece.model"
),
"google/bigbird-base-trivia-itc": (
"https://huggingface.co/google/bigbird-base-trivia-itc/resolve/main/spiece.model"
),
},
"tokenizer_file": {
"google/bigbird-roberta-base": (
"https://huggingface.co/google/bigbird-roberta-base/resolve/main/tokenizer.json"
),
"google/bigbird-roberta-large": (
"https://huggingface.co/google/bigbird-roberta-large/resolve/main/tokenizer.json"
),
"google/bigbird-base-trivia-itc": (
"https://huggingface.co/google/bigbird-base-trivia-itc/resolve/main/tokenizer.json"
),
},
}
PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES = {
"google/bigbird-roberta-base": 4096,
"google/bigbird-roberta-large": 4096,
"google/bigbird-base-trivia-itc": 4096,
}
SPIECE_UNDERLINE = "▁"
class BigBirdTokenizerFast(PreTrainedTokenizerFast):
"""
Construct a "fast" BigBird tokenizer (backed by HuggingFace's *tokenizers* library). Based on
[Unigram](https://huggingface.co/docs/tokenizers/python/latest/components.html?highlight=unigram#models). This
tokenizer inherits from [`PreTrainedTokenizerFast`] which contains most of the main methods. Users should refer to
this superclass for more information regarding those methods
Args:
vocab_file (`str`):
[SentencePiece](https://github.com/google/sentencepiece) file (generally has a *.spm* extension) that
contains the vocabulary necessary to instantiate a tokenizer.
bos_token (`str`, *optional*, defaults to `"<s>"`):
The beginning of sequence token that was used during pretraining. Can be used a sequence classifier token.
<Tip>
When building a sequence using special tokens, this is not the token that is used for the beginning of
sequence. The token used is the `cls_token`.
</Tip>
eos_token (`str`, *optional*, defaults to `"</s>"`):
The end of sequence token. .. note:: When building a sequence using special tokens, this is not the token
that is used for the end of sequence. The token used is the `sep_token`.
unk_token (`str`, *optional*, defaults to `"<unk>"`):
The unknown token. A token that is not in the vocabulary cannot be converted to an ID and is set to be this
token instead.
sep_token (`str`, *optional*, defaults to `"[SEP]"`):
The separator token, which is used when building a sequence from multiple sequences, e.g. two sequences for
sequence classification or for a text and a question for question answering. It is also used as the last
token of a sequence built with special tokens.
pad_token (`str`, *optional*, defaults to `"<pad>"`):
The token used for padding, for example when batching sequences of different lengths.
cls_token (`str`, *optional*, defaults to `"[CLS]"`):
The classifier token which is used when doing sequence classification (classification of the whole sequence
instead of per-token classification). It is the first token of the sequence when built with special tokens.
mask_token (`str`, *optional*, defaults to `"[MASK]"`):
The token used for masking values. This is the token used when training this model with masked language
modeling. This is the token which the model will try to predict.
"""
vocab_files_names = VOCAB_FILES_NAMES
pretrained_vocab_files_map = PRETRAINED_VOCAB_FILES_MAP
max_model_input_sizes = PRETRAINED_POSITIONAL_EMBEDDINGS_SIZES
slow_tokenizer_class = BigBirdTokenizer
model_input_names = ["input_ids", "attention_mask"]
prefix_tokens: List[int] = []
def __init__(
self,
vocab_file=None,
tokenizer_file=None,
unk_token="<unk>",
bos_token="<s>",
eos_token="</s>",
pad_token="<pad>",
sep_token="[SEP]",
mask_token="[MASK]",
cls_token="[CLS]",
**kwargs,
):
bos_token = AddedToken(bos_token, lstrip=False, rstrip=False) if isinstance(bos_token, str) else bos_token
eos_token = AddedToken(eos_token, lstrip=False, rstrip=False) if isinstance(eos_token, str) else eos_token
unk_token = AddedToken(unk_token, lstrip=False, rstrip=False) if isinstance(unk_token, str) else unk_token
pad_token = AddedToken(pad_token, lstrip=False, rstrip=False) if isinstance(pad_token, str) else pad_token
cls_token = AddedToken(cls_token, lstrip=False, rstrip=False) if isinstance(cls_token, str) else cls_token
sep_token = AddedToken(sep_token, lstrip=False, rstrip=False) if isinstance(sep_token, str) else sep_token
# Mask token behave like a normal word, i.e. include the space before it
mask_token = AddedToken(mask_token, lstrip=True, rstrip=False) if isinstance(mask_token, str) else mask_token
super().__init__(
vocab_file,
tokenizer_file=tokenizer_file,
bos_token=bos_token,
eos_token=eos_token,
unk_token=unk_token,
sep_token=sep_token,
pad_token=pad_token,
cls_token=cls_token,
mask_token=mask_token,
**kwargs,
)
self.vocab_file = vocab_file
self.can_save_slow_tokenizer = False if not self.vocab_file else True
def build_inputs_with_special_tokens(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Build model inputs from a sequence or a pair of sequence for sequence classification tasks by concatenating and
adding special tokens. An BigBird sequence has the following format:
- single sequence: `[CLS] X [SEP]`
- pair of sequences: `[CLS] A [SEP] B [SEP]`
Args:
token_ids_0 (`List[int]`):
List of IDs to which the special tokens will be added
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: list of [input IDs](../glossary#input-ids) with the appropriate special tokens.
"""
sep = [self.sep_token_id]
cls = [self.cls_token_id]
if token_ids_1 is None:
return cls + token_ids_0 + sep
return cls + token_ids_0 + sep + token_ids_1 + sep
def get_special_tokens_mask(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None, already_has_special_tokens: bool = False
) -> List[int]:
"""
Retrieves sequence ids from a token list that has no special tokens added. This method is called when adding
special tokens using the tokenizer `prepare_for_model` method.
Args:
token_ids_0 (`List[int]`):
List of ids.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
already_has_special_tokens (`bool`, *optional*, defaults to `False`):
Set to True if the token list is already formatted with special tokens for the model
Returns:
`List[int]`: A list of integers in the range [0, 1]: 1 for a special token, 0 for a sequence token.
"""
if already_has_special_tokens:
if token_ids_1 is not None:
raise ValueError(
"You should not supply a second sequence if the provided sequence of "
"ids is already formatted with special tokens for the model."
)
return [1 if x in [self.sep_token_id, self.cls_token_id] else 0 for x in token_ids_0]
if token_ids_1 is None:
return [1] + ([0] * len(token_ids_0)) + [1]
return [1] + ([0] * len(token_ids_0)) + [1] + ([0] * len(token_ids_1)) + [1]
def create_token_type_ids_from_sequences(
self, token_ids_0: List[int], token_ids_1: Optional[List[int]] = None
) -> List[int]:
"""
Creates a mask from the two sequences passed to be used in a sequence-pair classification task. An ALBERT
sequence pair mask has the following format:
```
0 0 0 0 0 0 0 0 0 0 0 1 1 1 1 1 1 1 1 1
| first sequence | second sequence |
```
if token_ids_1 is None, only returns the first portion of the mask (0s).
Args:
token_ids_0 (`List[int]`):
List of ids.
token_ids_1 (`List[int]`, *optional*):
Optional second list of IDs for sequence pairs.
Returns:
`List[int]`: List of [token type IDs](../glossary#token-type-ids) according to the given sequence(s).
"""
sep = [self.sep_token_id]
cls = [self.cls_token_id]
if token_ids_1 is None:
return len(cls + token_ids_0 + sep) * [0]
return len(cls + token_ids_0 + sep) * [0] + len(token_ids_1 + sep) * [1]
def save_vocabulary(self, save_directory: str, filename_prefix: Optional[str] = None) -> Tuple[str]:
if not self.can_save_slow_tokenizer:
raise ValueError(
"Your fast tokenizer does not have the necessary information to save the vocabulary for a slow "
"tokenizer."
)
if not os.path.isdir(save_directory):
logger.error(f"Vocabulary path ({save_directory}) should be a directory")
return
out_vocab_file = os.path.join(
save_directory, (filename_prefix + "-" if filename_prefix else "") + VOCAB_FILES_NAMES["vocab_file"]
)
if os.path.abspath(self.vocab_file) != os.path.abspath(out_vocab_file):
copyfile(self.vocab_file, out_vocab_file)
return (out_vocab_file,)
| transformers-main | src/transformers/models/big_bird/tokenization_big_bird_fast.py |
# coding=utf-8
# Copyright 2021 The Google Flax Team Authors and The HuggingFace Inc. team.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from typing import Callable, Optional, Tuple
import flax
import flax.linen as nn
import jax
import jax.numpy as jnp
from flax.core.frozen_dict import FrozenDict, freeze, unfreeze
from flax.linen import combine_masks, make_causal_mask
from flax.linen import partitioning as nn_partitioning
from flax.linen.attention import dot_product_attention_weights
from flax.traverse_util import flatten_dict, unflatten_dict
from jax import lax
from ...modeling_flax_outputs import (
FlaxBaseModelOutputWithPastAndCrossAttentions,
FlaxBaseModelOutputWithPooling,
FlaxBaseModelOutputWithPoolingAndCrossAttentions,
FlaxCausalLMOutputWithCrossAttentions,
FlaxMaskedLMOutput,
FlaxMultipleChoiceModelOutput,
FlaxSequenceClassifierOutput,
FlaxTokenClassifierOutput,
)
from ...modeling_flax_utils import (
ACT2FN,
FlaxPreTrainedModel,
append_call_sample_docstring,
append_replace_return_docstrings,
overwrite_call_docstring,
)
from ...utils import ModelOutput, add_start_docstrings, add_start_docstrings_to_model_forward, logging
from .configuration_big_bird import BigBirdConfig
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "google/bigbird-roberta-base"
_CONFIG_FOR_DOC = "BigBirdConfig"
remat = nn_partitioning.remat
@flax.struct.dataclass
class FlaxBigBirdForPreTrainingOutput(ModelOutput):
"""
Output type of [`BigBirdForPreTraining`].
Args:
prediction_logits (`jnp.ndarray` of shape `(batch_size, sequence_length, config.vocab_size)`):
Prediction scores of the language modeling head (scores for each vocabulary token before SoftMax).
seq_relationship_logits (`jnp.ndarray` of shape `(batch_size, 2)`):
Prediction scores of the next sequence prediction (classification) head (scores of True/False continuation
before SoftMax).
hidden_states (`tuple(jnp.ndarray)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `jnp.ndarray` (one for the output of the embeddings + one for the output of each layer) of shape
`(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs.
attentions (`tuple(jnp.ndarray)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `jnp.ndarray` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
"""
prediction_logits: jnp.ndarray = None
seq_relationship_logits: jnp.ndarray = None
hidden_states: Optional[Tuple[jnp.ndarray]] = None
attentions: Optional[Tuple[jnp.ndarray]] = None
@flax.struct.dataclass
class FlaxBigBirdForQuestionAnsweringModelOutput(ModelOutput):
"""
Base class for outputs of question answering models.
Args:
start_logits (`jnp.ndarray` of shape `(batch_size, sequence_length)`):
Span-start scores (before SoftMax).
end_logits (`jnp.ndarray` of shape `(batch_size, sequence_length)`):
Span-end scores (before SoftMax).
pooled_output (`jnp.ndarray` of shape `(batch_size, hidden_size)`):
pooled_output returned by FlaxBigBirdModel.
hidden_states (`tuple(jnp.ndarray)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `jnp.ndarray` (one for the output of the embeddings + one for the output of each layer) of shape
`(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs.
attentions (`tuple(jnp.ndarray)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `jnp.ndarray` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
"""
start_logits: jnp.ndarray = None
end_logits: jnp.ndarray = None
pooled_output: jnp.ndarray = None
hidden_states: Optional[Tuple[jnp.ndarray]] = None
attentions: Optional[Tuple[jnp.ndarray]] = None
BIG_BIRD_START_DOCSTRING = r"""
This model inherits from [`FlaxPreTrainedModel`]. Check the superclass documentation for the generic methods the
library implements for all its model (such as downloading, saving and converting weights from PyTorch models)
This model is also a Flax Linen [flax.linen.Module](https://flax.readthedocs.io/en/latest/flax.linen.html#module)
subclass. Use it as a regular Flax linen Module and refer to the Flax documentation for all matter related to
general usage and behavior.
Finally, this model supports inherent JAX features such as:
- [Just-In-Time (JIT) compilation](https://jax.readthedocs.io/en/latest/jax.html#just-in-time-compilation-jit)
- [Automatic Differentiation](https://jax.readthedocs.io/en/latest/jax.html#automatic-differentiation)
- [Vectorization](https://jax.readthedocs.io/en/latest/jax.html#vectorization-vmap)
- [Parallelization](https://jax.readthedocs.io/en/latest/jax.html#parallelization-pmap)
Parameters:
config ([`BigBirdConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~FlaxPreTrainedModel.from_pretrained`] method to load the model weights.
dtype (`jax.numpy.dtype`, *optional*, defaults to `jax.numpy.float32`):
The data type of the computation. Can be one of `jax.numpy.float32`, `jax.numpy.float16` (on GPUs) and
`jax.numpy.bfloat16` (on TPUs).
This can be used to enable mixed-precision training or half-precision inference on GPUs or TPUs. If
specified all the computation will be performed with the given `dtype`.
**Note that this only specifies the dtype of the computation and does not influence the dtype of model
parameters.**
If you wish to change the dtype of the model parameters, see [`~FlaxPreTrainedModel.to_fp16`] and
[`~FlaxPreTrainedModel.to_bf16`].
"""
BIG_BIRD_INPUTS_DOCSTRING = r"""
Args:
input_ids (`numpy.ndarray` of shape `({0})`):
Indices of input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`numpy.ndarray` of shape `({0})`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
token_type_ids (`numpy.ndarray` of shape `({0})`, *optional*):
Segment token indices to indicate first and second portions of the inputs. Indices are selected in `[0,
1]`:
- 0 corresponds to a *sentence A* token,
- 1 corresponds to a *sentence B* token.
[What are token type IDs?](../glossary#token-type-ids)
position_ids (`numpy.ndarray` of shape `({0})`, *optional*):
Indices of positions of each input sequence tokens in the position embeddings. Selected in the range `[0,
config.max_position_embeddings - 1]`.
head_mask (`numpy.ndarray` of shape `({0})`, `optional):
Mask to nullify selected heads of the attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
class FlaxBigBirdEmbeddings(nn.Module):
"""Construct the embeddings from word, position and token_type embeddings."""
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertEmbeddings.setup
def setup(self):
self.word_embeddings = nn.Embed(
self.config.vocab_size,
self.config.hidden_size,
embedding_init=jax.nn.initializers.normal(stddev=self.config.initializer_range),
dtype=self.dtype,
)
self.position_embeddings = nn.Embed(
self.config.max_position_embeddings,
self.config.hidden_size,
embedding_init=jax.nn.initializers.normal(stddev=self.config.initializer_range),
dtype=self.dtype,
)
self.token_type_embeddings = nn.Embed(
self.config.type_vocab_size,
self.config.hidden_size,
embedding_init=jax.nn.initializers.normal(stddev=self.config.initializer_range),
dtype=self.dtype,
)
self.LayerNorm = nn.LayerNorm(epsilon=self.config.layer_norm_eps, dtype=self.dtype)
self.dropout = nn.Dropout(rate=self.config.hidden_dropout_prob)
def __call__(self, input_ids, token_type_ids, position_ids, attention_mask, deterministic: bool = True):
# Embed
inputs_embeds = self.word_embeddings(input_ids.astype("i4"))
position_embeds = self.position_embeddings(position_ids.astype("i4"))
token_type_embeddings = self.token_type_embeddings(token_type_ids.astype("i4"))
if self.config.rescale_embeddings:
inputs_embeds *= self.config.hidden_size**0.5
# Sum all embeddings
hidden_states = inputs_embeds + token_type_embeddings + position_embeds
# Layer Norm
hidden_states = self.dropout(hidden_states, deterministic=deterministic)
hidden_states = self.LayerNorm(hidden_states)
return hidden_states
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertSelfAttention with Bert->BigBird
class FlaxBigBirdSelfAttention(nn.Module):
config: BigBirdConfig
causal: bool = False
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.head_dim = self.config.hidden_size // self.config.num_attention_heads
if self.config.hidden_size % self.config.num_attention_heads != 0:
raise ValueError(
"`config.hidden_size`: {self.config.hidden_size} has to be a multiple of `config.num_attention_heads` "
" : {self.config.num_attention_heads}"
)
self.query = nn.Dense(
self.config.hidden_size,
dtype=self.dtype,
kernel_init=jax.nn.initializers.normal(self.config.initializer_range),
)
self.key = nn.Dense(
self.config.hidden_size,
dtype=self.dtype,
kernel_init=jax.nn.initializers.normal(self.config.initializer_range),
)
self.value = nn.Dense(
self.config.hidden_size,
dtype=self.dtype,
kernel_init=jax.nn.initializers.normal(self.config.initializer_range),
)
if self.causal:
self.causal_mask = make_causal_mask(
jnp.ones((1, self.config.max_position_embeddings), dtype="bool"), dtype="bool"
)
def _split_heads(self, hidden_states):
return hidden_states.reshape(hidden_states.shape[:2] + (self.config.num_attention_heads, self.head_dim))
def _merge_heads(self, hidden_states):
return hidden_states.reshape(hidden_states.shape[:2] + (self.config.hidden_size,))
@nn.compact
# Copied from transformers.models.bart.modeling_flax_bart.FlaxBartAttention._concatenate_to_cache
def _concatenate_to_cache(self, key, value, query, attention_mask):
"""
This function takes projected key, value states from a single input token and concatenates the states to cached
states from previous steps. This function is slighly adapted from the official Flax repository:
https://github.com/google/flax/blob/491ce18759622506588784b4fca0e4bf05f8c8cd/flax/linen/attention.py#L252
"""
# detect if we're initializing by absence of existing cache data.
is_initialized = self.has_variable("cache", "cached_key")
cached_key = self.variable("cache", "cached_key", jnp.zeros, key.shape, key.dtype)
cached_value = self.variable("cache", "cached_value", jnp.zeros, value.shape, value.dtype)
cache_index = self.variable("cache", "cache_index", lambda: jnp.array(0, dtype=jnp.int32))
if is_initialized:
*batch_dims, max_length, num_heads, depth_per_head = cached_key.value.shape
# update key, value caches with our new 1d spatial slices
cur_index = cache_index.value
indices = (0,) * len(batch_dims) + (cur_index, 0, 0)
key = lax.dynamic_update_slice(cached_key.value, key, indices)
value = lax.dynamic_update_slice(cached_value.value, value, indices)
cached_key.value = key
cached_value.value = value
num_updated_cache_vectors = query.shape[1]
cache_index.value = cache_index.value + num_updated_cache_vectors
# causal mask for cached decoder self-attention: our single query position should only attend to those key positions that have already been generated and cached, not the remaining zero elements.
pad_mask = jnp.broadcast_to(
jnp.arange(max_length) < cur_index + num_updated_cache_vectors,
tuple(batch_dims) + (1, num_updated_cache_vectors, max_length),
)
attention_mask = combine_masks(pad_mask, attention_mask)
return key, value, attention_mask
def __call__(
self,
hidden_states,
attention_mask,
layer_head_mask,
key_value_states: Optional[jnp.array] = None,
init_cache: bool = False,
deterministic=True,
output_attentions: bool = False,
):
# if key_value_states are provided this layer is used as a cross-attention layer
# for the decoder
is_cross_attention = key_value_states is not None
batch_size = hidden_states.shape[0]
# get query proj
query_states = self.query(hidden_states)
# get key, value proj
if is_cross_attention:
# cross_attentions
key_states = self.key(key_value_states)
value_states = self.value(key_value_states)
else:
# self_attention
key_states = self.key(hidden_states)
value_states = self.value(hidden_states)
query_states = self._split_heads(query_states)
key_states = self._split_heads(key_states)
value_states = self._split_heads(value_states)
# handle cache prepare causal attention mask
if self.causal:
query_length, key_length = query_states.shape[1], key_states.shape[1]
if self.has_variable("cache", "cached_key"):
mask_shift = self.variables["cache"]["cache_index"]
max_decoder_length = self.variables["cache"]["cached_key"].shape[1]
causal_mask = lax.dynamic_slice(
self.causal_mask, (0, 0, mask_shift, 0), (1, 1, query_length, max_decoder_length)
)
else:
causal_mask = self.causal_mask[:, :, :query_length, :key_length]
causal_mask = jnp.broadcast_to(causal_mask, (batch_size,) + causal_mask.shape[1:])
# combine masks if needed
if attention_mask is not None and self.causal:
attention_mask = jnp.broadcast_to(jnp.expand_dims(attention_mask, axis=(-3, -2)), causal_mask.shape)
attention_mask = combine_masks(attention_mask, causal_mask)
elif self.causal:
attention_mask = causal_mask
elif attention_mask is not None:
attention_mask = jnp.expand_dims(attention_mask, axis=(-3, -2))
# During fast autoregressive decoding, we feed one position at a time,
# and cache the keys and values step by step.
if self.causal and (self.has_variable("cache", "cached_key") or init_cache):
key_states, value_states, attention_mask = self._concatenate_to_cache(
key_states, value_states, query_states, attention_mask
)
# Convert the boolean attention mask to an attention bias.
if attention_mask is not None:
# attention mask in the form of attention bias
attention_bias = lax.select(
attention_mask > 0,
jnp.full(attention_mask.shape, 0.0).astype(self.dtype),
jnp.full(attention_mask.shape, jnp.finfo(self.dtype).min).astype(self.dtype),
)
else:
attention_bias = None
dropout_rng = None
if not deterministic and self.config.attention_probs_dropout_prob > 0.0:
dropout_rng = self.make_rng("dropout")
attn_weights = dot_product_attention_weights(
query_states,
key_states,
bias=attention_bias,
dropout_rng=dropout_rng,
dropout_rate=self.config.attention_probs_dropout_prob,
broadcast_dropout=True,
deterministic=deterministic,
dtype=self.dtype,
precision=None,
)
# Mask heads if we want to
if layer_head_mask is not None:
attn_weights = jnp.einsum("...hqk,h->...hqk", attn_weights, layer_head_mask)
attn_output = jnp.einsum("...hqk,...khd->...qhd", attn_weights, value_states)
attn_output = attn_output.reshape(attn_output.shape[:2] + (-1,))
outputs = (attn_output, attn_weights) if output_attentions else (attn_output,)
return outputs
class FlaxBigBirdBlockSparseAttention(nn.Module):
config: BigBirdConfig
block_sparse_seed: int = None
dtype: jnp.dtype = jnp.float32
def setup(self):
self.query = nn.Dense(
self.config.hidden_size,
dtype=self.dtype,
use_bias=self.config.use_bias,
kernel_init=jax.nn.initializers.normal(self.config.initializer_range),
)
self.key = nn.Dense(
self.config.hidden_size,
dtype=self.dtype,
use_bias=self.config.use_bias,
kernel_init=jax.nn.initializers.normal(self.config.initializer_range),
)
self.value = nn.Dense(
self.config.hidden_size,
dtype=self.dtype,
use_bias=self.config.use_bias,
kernel_init=jax.nn.initializers.normal(self.config.initializer_range),
)
@staticmethod
def transpose_for_scores(x, n_heads, head_size):
new_x_shape = x.shape[:-1] + (n_heads, head_size)
x = x.reshape(*new_x_shape)
return jnp.transpose(x, axes=(0, 2, 1, 3))
def __call__(
self,
hidden_states,
attention_mask,
deterministic=True,
output_attentions=False,
):
n_heads = self.config.num_attention_heads
head_size = self.config.hidden_size // n_heads
blocked_encoder_mask, band_mask, from_mask, to_mask = self.create_masks_for_block_sparse_attn(
attention_mask, self.config.block_size
)
query_layer = self.transpose_for_scores(self.query(hidden_states), n_heads, head_size)
key_layer = self.transpose_for_scores(self.key(hidden_states), n_heads, head_size)
value_layer = self.transpose_for_scores(self.value(hidden_states), n_heads, head_size)
indices_prng_key = None
if not deterministic:
indices_prng_key = self.make_rng("indices")
attn_output, attn_weights = self.bigbird_block_sparse_attention(
query_layer,
key_layer,
value_layer,
band_mask,
from_mask,
to_mask,
blocked_encoder_mask,
blocked_encoder_mask,
n_heads,
head_size,
indices_prng_key=indices_prng_key,
deterministic=deterministic,
plan_from_length=None,
plan_num_rand_blocks=None,
output_attentions=output_attentions,
)
outputs = (attn_output, attn_weights) if output_attentions else (attn_output,)
return outputs
@staticmethod
def create_masks_for_block_sparse_attn(attention_mask, block_size: int):
batch_size, seq_length = attention_mask.shape
if seq_length % block_size != 0:
raise ValueError(
f"Sequence length must be multiple of block size, but sequence length is {seq_length}, while block"
f" size is {block_size}."
)
def create_band_mask_from_inputs(from_blocked_mask, to_blocked_mask):
"""
Create 3D attention mask from a 2D tensor mask.
Args:
from_blocked_mask: 2D Tensor of shape [batch_size,
from_seq_length//from_block_size, from_block_size].
to_blocked_mask: int32 Tensor of shape [batch_size,
to_seq_length//to_block_size, to_block_size].
Returns:
float Tensor of shape [batch_size, 1, from_seq_length//from_block_size-4, from_block_size,
3*to_block_size].
"""
exp_blocked_to_pad = jnp.concatenate(
[to_blocked_mask[:, 1:-3], to_blocked_mask[:, 2:-2], to_blocked_mask[:, 3:-1]], axis=2
)
band_mask = jnp.einsum("blq,blk->blqk", from_blocked_mask[:, 2:-2], exp_blocked_to_pad)
band_mask = jnp.expand_dims(band_mask, 1)
return band_mask
blocked_encoder_mask = attention_mask.reshape(batch_size, seq_length // block_size, block_size)
band_mask = create_band_mask_from_inputs(blocked_encoder_mask, blocked_encoder_mask)
from_mask = attention_mask.reshape(batch_size, 1, seq_length, 1)
to_mask = attention_mask.reshape(batch_size, 1, 1, seq_length)
return blocked_encoder_mask, band_mask, from_mask, to_mask
def bigbird_block_sparse_attention(
self,
query_layer,
key_layer,
value_layer,
band_mask,
from_mask,
to_mask,
from_blocked_mask,
to_blocked_mask,
n_heads,
head_size,
indices_prng_key: Optional[jax.random.PRNGKey] = None,
deterministic: Optional[bool] = True,
plan_from_length=None,
plan_num_rand_blocks=None,
output_attentions=None,
):
# BigBird block-sparse attention as suggested in paper
# ITC:
# global tokens: 2 x block_size
# window tokens: 3 x block_size
# random tokens: num_rand_tokens x block_size
# ETC:
# global tokens: extra_globals_tokens + 2 x block_size
# window tokens: 3 x block_size
# random tokens: num_rand_tokens x block_size
# Note:
# 1) Currently, ETC is not supported.
# 2) Window size is fixed to 3 blocks & it can be changed only by
# changing `block_size`.
# 3) Number of global blocks are fixed (2 blocks here) & global tokens can be
# controlled only by `block_size`.
# attention is calculated separately for q[0], q[1], q[2:-2], q[-2], q[-1] in order to use special trick of
# shifting tokens (for calculating sliding attention). hence following code can be divided into 5 parts.
bsz, _, from_seq_len, _ = query_layer.shape
to_seq_len = key_layer.shape[2]
from_block_size = to_block_size = self.config.block_size
if from_seq_len % from_block_size != 0:
raise ValueError("Query sided sequence length must be multiple of block size")
if to_seq_len % to_block_size != 0:
raise ValueError("Key/Value sided sequence length must be multiple of block size")
if from_seq_len // from_block_size != to_seq_len // to_block_size:
raise ValueError("Error the number of blocks needs to be same!")
n_rand_blocks = self.config.num_random_blocks
rsqrt_d = 1 / jnp.sqrt(head_size)
attn_mask_penalty = -10000.0
if from_seq_len in [1024, 3072, 4096]: # old plans used in paper
max_seqlen = self.config.max_position_embeddings
rand_attn = [
self._bigbird_block_rand_mask(
max_seqlen,
max_seqlen,
from_block_size,
to_block_size,
n_rand_blocks,
indices_prng_key=indices_prng_key,
deterministic=deterministic,
last_idx=1024,
)[: (from_seq_len // from_block_size - 2)]
for _ in range(n_heads)
]
else:
if plan_from_length is None:
plan_from_length, plan_num_rand_blocks = self._get_rand_attn_plan(
from_seq_len, from_block_size, n_rand_blocks
)
rand_attn = self._bigbird_block_rand_mask_with_head(
from_seq_length=from_seq_len,
to_seq_length=to_seq_len,
from_block_size=from_block_size,
to_block_size=to_block_size,
num_heads=n_heads,
plan_from_length=plan_from_length,
plan_num_rand_blocks=plan_num_rand_blocks,
indices_prng_key=indices_prng_key,
)
rand_attn = jnp.stack(rand_attn, axis=0)
rand_attn = jnp.broadcast_to(rand_attn, (bsz,) + rand_attn.shape)
rand_mask = self._create_rand_mask_from_inputs(
from_blocked_mask, to_blocked_mask, rand_attn, n_heads, n_rand_blocks, bsz, from_seq_len, from_block_size
)
blocked_query_matrix = query_layer.reshape(bsz, n_heads, from_seq_len // from_block_size, from_block_size, -1)
blocked_key_matrix = key_layer.reshape(bsz, n_heads, to_seq_len // to_block_size, to_block_size, -1)
blocked_value_matrix = value_layer.reshape(bsz, n_heads, to_seq_len // to_block_size, to_block_size, -1)
shape = (bsz, n_heads, to_seq_len // to_block_size - 2, n_rand_blocks * to_block_size, -1)
gathered_key = self.jax_gather(blocked_key_matrix, rand_attn, batch_dims=2).reshape(*shape)
gathered_value = self.jax_gather(blocked_value_matrix, rand_attn, batch_dims=2).reshape(*shape)
# 1st PART
# 1st block (global block) attention scores
# q[0] x (k[0], k[1], k[2], k[3], k[4] .... )
# [bsz, n_heads, from_block_size, -1] x [bsz, n_heads, to_seq_len, -1] ==> [bsz, n_heads, from_block_size, to_seq_len]
first_product = jnp.einsum("bhqd,bhkd->bhqk", blocked_query_matrix[:, :, 0], key_layer)
first_product = first_product * rsqrt_d
first_product += (1.0 - to_mask) * attn_mask_penalty
first_attn_weights = jax.nn.softmax(first_product, axis=-1) # [bsz, n_heads, from_block_size, to_seq_len]
# [bsz, n_heads, from_block_size, to_seq_len] x [bsz, n_heads, to_seq_len, -1] ==> [bsz, n_heads, from_block_size, -1]
first_context_layer = jnp.einsum("bhqk,bhkd->bhqd", first_attn_weights, value_layer)
first_context_layer = jnp.expand_dims(first_context_layer, 2)
# 2nd PART
# 2nd block attention scores
# q[1] x (sliding_keys, random_keys, global_keys)
# sliding key blocks -> 2nd, 3rd blocks
# global key blocks -> 1st block
second_key_mat = jnp.concatenate(
[
blocked_key_matrix[:, :, 0],
blocked_key_matrix[:, :, 1],
blocked_key_matrix[:, :, 2],
blocked_key_matrix[:, :, -1],
gathered_key[:, :, 0],
],
axis=2,
) # [bsz, n_heads, (4+n_rand_blocks)*to_block_size, -1]
second_value_mat = jnp.concatenate(
[
blocked_value_matrix[:, :, 0],
blocked_value_matrix[:, :, 1],
blocked_value_matrix[:, :, 2],
blocked_value_matrix[:, :, -1],
gathered_value[:, :, 0],
],
axis=2,
) # [bsz, n_heads, (4+n_rand_blocks)*to_block_size, -1]
# [bsz, n_heads, from_block_size, -1] x [bsz, n_heads, (4+n_rand_blocks)*to_block_size, -1]
# ==> [bsz, n_heads, from_block_size, (4+n_rand_blocks)*to_block_size]
second_product = jnp.einsum("bhqd,bhkd->bhqk", blocked_query_matrix[:, :, 1], second_key_mat)
second_seq_pad = jnp.concatenate(
[
to_mask[:, :, :, : 3 * to_block_size],
to_mask[:, :, :, -to_block_size:],
jnp.ones([bsz, 1, 1, n_rand_blocks * to_block_size], dtype=to_mask.dtype),
],
axis=3,
)
second_rand_pad = jnp.concatenate(
[
jnp.ones([bsz, n_heads, from_block_size, 4 * to_block_size], dtype=rand_mask.dtype),
rand_mask[:, :, 0],
],
axis=3,
)
second_product = second_product * rsqrt_d
second_product += (1.0 - jnp.minimum(second_seq_pad, second_rand_pad)) * attn_mask_penalty
second_attn_weights = jax.nn.softmax(
second_product, axis=-1
) # [bsz, n_heads, from_block_size, (4+n_rand_blocks)*to_block_size]
# [bsz, n_heads, from_block_size, (4+r)*to_block_size] x [bsz, n_heads, (4+r)*to_block_size, -1]
# ==> [bsz, n_heads, from_block_size, -1]
second_context_layer = jnp.einsum("bhqk,bhkd->bhqd", second_attn_weights, second_value_mat)
second_context_layer = jnp.expand_dims(second_context_layer, 2)
# 3rd PART
# Middle blocks attention scores
# q[-2:2] x (sliding_keys, random_keys, global_keys)
# sliding attn is calculated using special trick of shifting tokens as discussed in paper
# random keys are generated by taking random indices as per `rand_attn`
# global keys -> 1st & last block
exp_blocked_key_matrix = jnp.concatenate(
[blocked_key_matrix[:, :, 1:-3], blocked_key_matrix[:, :, 2:-2], blocked_key_matrix[:, :, 3:-1]], axis=3
) # [bsz, n_heads, from_seq_len//from_block_size-4, 3*to_block_size, -1]
exp_blocked_value_matrix = jnp.concatenate(
[blocked_value_matrix[:, :, 1:-3], blocked_value_matrix[:, :, 2:-2], blocked_value_matrix[:, :, 3:-1]],
axis=3,
) # [bsz, n_heads, from_seq_len//from_block_size-4, 3*to_block_size, -1]
middle_query_matrix = blocked_query_matrix[:, :, 2:-2]
# sliding attention scores for q[-2:2]
# [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1] x [b, n_heads, from_seq_len//from_block_size-4, 3*to_block_size, -1]
inner_band_product = jnp.einsum("bhlqd,bhlkd->bhlqk", middle_query_matrix, exp_blocked_key_matrix)
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, 3*to_block_size]
inner_band_product = inner_band_product * rsqrt_d
# randn attention scores for q[-2:2]
# [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1]
# x [bsz, n_heads, from_seq_len//from_block_size-4, n_rand_blocks*to_block_size, -1]
rand_band_product = jnp.einsum("bhlqd,bhlkd->bhlqk", middle_query_matrix, gathered_key[:, :, 1:-1])
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, n_rand_blocks*to_block_size]
rand_band_product = rand_band_product * rsqrt_d
# Including 1st block (since it's global)
# [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1] x [bsz, n_heads, to_block_size, -1]
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, to_block_size]
first_band_product = jnp.einsum("bhlqd,bhkd->bhlqk", middle_query_matrix, blocked_key_matrix[:, :, 0])
first_band_product = first_band_product * rsqrt_d
# Including last block (since it's global)
# [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1] x [bsz, n_heads, to_block_size, -1]
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, to_block_size]
last_band_product = jnp.einsum("bhlqd,bhkd->bhlqk", middle_query_matrix, blocked_key_matrix[:, :, -1])
last_band_product = last_band_product * rsqrt_d
# masking padded tokens
inner_band_product += (1.0 - band_mask) * attn_mask_penalty
first_band_product += (1.0 - jnp.expand_dims(to_mask[:, :, :, :to_block_size], 3)) * attn_mask_penalty
last_band_product += (1.0 - jnp.expand_dims(to_mask[:, :, :, -to_block_size:], 3)) * attn_mask_penalty
rand_band_product += (1.0 - rand_mask[:, :, 1:-1]) * attn_mask_penalty
# completing attention scores matrix for all q[-2:2]
band_product = jnp.concatenate(
[first_band_product, inner_band_product, rand_band_product, last_band_product], axis=-1
) # [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, (5+n_rand_blocks)*to_block_size]
# safely doing softmax since attention matrix is completed
attn_weights = jax.nn.softmax(
band_product, axis=-1
) # [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, (5+n_rand_blocks)*to_block_size]
# contribution of sliding keys
# [bsz, n_heads, m//from_block_size-4, from_block_size, 3*to_block_size]
# x [bsz, n_heads, from_seq_len//from_block_size-4, 3*to_block_size, -1]
context_layer = jnp.einsum(
"bhlqk,bhlkd->bhlqd", attn_weights[:, :, :, :, to_block_size : 4 * to_block_size], exp_blocked_value_matrix
)
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1]
# adding contribution of random keys
# [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, n_rand_blocks*to_block_size]
# x [bsz, n_heads, from_seq_len//from_block_size-4, n_rand_blocks*to_block_size, -1]
context_layer += jnp.einsum(
"bhlqk,bhlkd->bhlqd",
attn_weights[:, :, :, :, 4 * to_block_size : -to_block_size],
gathered_value[:, :, 1:-1],
)
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1]
# adding contribution of global keys
# [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, to_block_size] x [bsz, n_heads, to_block_size, -1]
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1]
context_layer += jnp.einsum(
"bhlqk,bhkd->bhlqd", attn_weights[:, :, :, :, :to_block_size], blocked_value_matrix[:, :, 0]
)
# [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, to_block_size] x [bsz, n_heads, to_block_size, -1]
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1]
context_layer += jnp.einsum(
"bhlqk,bhkd->bhlqd", attn_weights[:, :, :, :, -to_block_size:], blocked_value_matrix[:, :, -1]
)
# 4th PART
# last 2nd token attention scores
# q[-2] x (sliding_keys, random_keys, global_keys)
# sliding key blocks -> last 3 blocks
# global key block -> 1st block
# random key block -> based on indices stored in `randn_attn`
second_last_key_mat = jnp.concatenate(
[
blocked_key_matrix[:, :, 0],
blocked_key_matrix[:, :, -3],
blocked_key_matrix[:, :, -2],
blocked_key_matrix[:, :, -1],
gathered_key[:, :, -1],
],
axis=2,
) # [bsz, n_heads, (4+n_random_blocks)*to_block_size, -1]
second_last_value_mat = jnp.concatenate(
[
blocked_value_matrix[:, :, 0],
blocked_value_matrix[:, :, -3],
blocked_value_matrix[:, :, -2],
blocked_value_matrix[:, :, -1],
gathered_value[:, :, -1],
],
axis=2,
) # [bsz, n_heads, (4+r)*to_block_size, -1]
# [bsz, n_heads, from_block_size, -1] x [bsz, n_heads, (4+n_rand_blocks)*to_block_size, -1]
# ==> [bsz, n_heads, from_block_size, (4+n_rand_blocks)*to_block_size]
second_last_product = jnp.einsum("bhqd,bhkd->bhqk", blocked_query_matrix[:, :, -2], second_last_key_mat)
second_last_seq_pad = jnp.concatenate(
[
to_mask[:, :, :, :to_block_size],
to_mask[:, :, :, -3 * to_block_size :],
jnp.ones([bsz, 1, 1, n_rand_blocks * to_block_size], dtype=to_mask.dtype),
],
axis=3,
)
second_last_rand_pad = jnp.concatenate(
[
jnp.ones([bsz, n_heads, from_block_size, 4 * to_block_size], dtype=rand_mask.dtype),
rand_mask[:, :, -1],
],
axis=3,
)
second_last_product = second_last_product * rsqrt_d
second_last_product += (1.0 - jnp.minimum(second_last_seq_pad, second_last_rand_pad)) * attn_mask_penalty
second_last_attn_weights = jax.nn.softmax(
second_last_product, axis=-1
) # [bsz, n_heads, from_block_size, (4+n_rand_blocks)*to_block_size]
# [bsz, n_heads, from_block_size, (4+n_rand_blocks)*to_block_size] x [bsz, n_heads, (4+n_rand_blocks)*to_block_size, -1]
# ==> [bsz, n_heads, from_block_size, -1]
second_last_context_layer = jnp.einsum("bhqk,bhkd->bhqd", second_last_attn_weights, second_last_value_mat)
second_last_context_layer = jnp.expand_dims(second_last_context_layer, 2)
# 5th PART
# last block (global) attention scores
# q[-1] x (k[0], k[1], k[2], k[3], .... )
# [bsz, n_heads, from_block_size, -1] x [bsz, n_heads, to_seq_len, -1] ==> [bsz, n_heads, from_block_size, to_seq_len]
last_product = jnp.einsum("bhqd,bhkd->bhqk", blocked_query_matrix[:, :, -1], key_layer)
last_product = last_product * rsqrt_d
last_product += (1.0 - to_mask) * attn_mask_penalty
last_attn_weights = jax.nn.softmax(last_product, axis=-1) # [bsz, n_heads, from_block_size, n]
# [bsz, n_heads, from_block_size, to_seq_len] x [bsz, n_heads, to_seq_len, -1] ==> [bsz, n_heads, from_block_size, -1]
last_context_layer = jnp.einsum("bhqk,bhkd->bhqd", last_attn_weights, value_layer)
last_context_layer = jnp.expand_dims(last_context_layer, 2)
# combining representations of all tokens
context_layer = jnp.concatenate(
[first_context_layer, second_context_layer, context_layer, second_last_context_layer, last_context_layer],
axis=2,
)
context_layer = context_layer.reshape(bsz, n_heads, from_seq_len, -1) * from_mask
context_layer = jnp.transpose(context_layer, axes=(0, 2, 1, 3)).reshape(bsz, from_seq_len, -1)
attention_probs = None
return context_layer, attention_probs
@staticmethod
def jax_gather(params, indices, batch_dims=2):
"""
Gather the indices from params correctly (equivalent to tf.gather but with modifications)
Args:
params: (bsz, n_heads, num_blocks, block_size, head_dim)
indices: (<num_blocks, 1)
"""
def _jax_gather(params, indices):
return params[indices]
for _ in range(batch_dims):
_jax_gather = jax.vmap(_jax_gather, in_axes=(0, 0))
return _jax_gather(params, indices) # params.shape[:batch_dims] + indices.shape + params.shape[batch_dims+1:]
def _create_rand_mask_from_inputs(
self,
from_blocked_mask,
to_blocked_mask,
broadcasted_rand_attn,
num_attention_heads,
num_random_blocks,
batch_size,
from_seq_length,
from_block_size,
):
"""
Create 3D attention mask from a 2D tensor mask.
Args:
from_blocked_mask: 2D Tensor of shape [batch_size, from_seq_length//from_block_size, from_block_size].
to_blocked_mask: int32 Tensor of shape [batch_size, to_seq_length//to_block_size, to_block_size].
broadcasted_rand_attn:
[batch_size, num_attention_heads, from_seq_length//from_block_size-2, num_rand_blocks]
num_attention_heads: int. Number of attention heads.
num_random_blocks: int. Number of random chunks per row.
batch_size: int. Batch size for computation.
from_seq_length: int. length of from sequence.
from_block_size: int. size of block in from sequence.
Returns:
float Tensor of shape [batch_size, num_attention_heads, from_seq_length//from_block_size-2,
from_block_size, num_rand_blocks*to_block_size].
"""
num_windows = from_seq_length // from_block_size - 2
rand_mask = self.jax_gather(to_blocked_mask, broadcasted_rand_attn, batch_dims=1)
rand_mask = rand_mask.reshape(
batch_size, num_attention_heads, num_windows, num_random_blocks * from_block_size
)
rand_mask = jnp.einsum("blq,bhlk->bhlqk", from_blocked_mask[:, 1:-1], rand_mask)
return rand_mask
@staticmethod
def _get_rand_attn_plan(from_seq_length, from_block_size, num_rand_blocks):
"""
Gives the plan of where to put random attention.
Args:
from_seq_length: int. length of from sequence.
from_block_size: int. size of block in from sequence.
num_rand_blocks: int. Number of random chunks per row.
Returns:
plan_from_length: ending location of from block plan_num_rand_blocks: number of random ending location for
each block
"""
plan_from_length = []
plan_num_rand_blocks = []
if (2 * num_rand_blocks + 5) < (from_seq_length // from_block_size):
plan_from_length.append(int((2 * num_rand_blocks + 5) * from_block_size))
plan_num_rand_blocks.append(num_rand_blocks)
plan_from_length.append(from_seq_length)
plan_num_rand_blocks.append(0)
elif (num_rand_blocks + 5) < (from_seq_length // from_block_size):
plan_from_length.append(int((num_rand_blocks + 5) * from_block_size))
plan_num_rand_blocks.append(num_rand_blocks // 2)
plan_from_length.append(from_seq_length)
plan_num_rand_blocks.append(num_rand_blocks - (num_rand_blocks // 2))
else:
plan_from_length.append(from_seq_length)
plan_num_rand_blocks.append(num_rand_blocks)
return plan_from_length, plan_num_rand_blocks
@staticmethod
def _bigbird_block_rand_mask(
from_seq_length,
to_seq_length,
from_block_size,
to_block_size,
num_rand_blocks,
indices_prng_key: Optional[jax.random.PRNGKey] = None,
deterministic: Optional[bool] = True,
last_idx: Optional[int] = -1,
):
"""
Create adjacency list of random attention.
Args:
from_seq_length: int. length of from sequence.
to_seq_length: int. length of to sequence.
from_block_size: int. size of block in from sequence.
to_block_size: int. size of block in to sequence.
num_rand_blocks: int. Number of random chunks per row.
indices_prng_key: jax.random.PRNGKey. PRNG key that is used to perform random jax operations.
deterministic: bool. When False random attention will be used.
last_idx: if -1 then num_rand_blocks blocks chosen anywhere in to sequence,
if positive then num_rand_blocks blocks chosen only up to last_idx.
Returns:
adjacency list of size from_seq_length//from_block_size-2 by num_rand_blocks
"""
# using this method when from_seq_length in [1024, 3072, 4096]
if from_seq_length // from_block_size != to_seq_length // to_block_size:
raise ValueError("Error the number of blocks needs to be same!")
rand_attn = jnp.zeros((from_seq_length // from_block_size - 2, num_rand_blocks), dtype=jnp.int32)
# deterministic nor randomness
if deterministic:
return rand_attn
middle_seq = jnp.arange(1, to_seq_length // to_block_size - 1, dtype=jnp.int32)
last = to_seq_length // to_block_size - 1
if last_idx > (2 * to_block_size):
last = (last_idx // to_block_size) - 1
r = num_rand_blocks # shorthand
for i in range(1, from_seq_length // from_block_size - 1):
start = i - 2
end = i
if i == 1:
seq_values = jax.random.permutation(indices_prng_key, middle_seq[2:last])[:r]
rand_attn = rand_attn.at[i - 1].set(seq_values)
elif i == 2:
seq_values = jax.random.permutation(indices_prng_key, middle_seq[3:last])[:r]
rand_attn = rand_attn.at[i - 1].set(seq_values)
elif i == from_seq_length // from_block_size - 3:
seq_values = jax.random.permutation(indices_prng_key, middle_seq[:last])[:r]
rand_attn = rand_attn.at[i - 1].set(seq_values)
# Missing -3: should have been sliced till last-3
elif i == from_seq_length // from_block_size - 2:
seq_values = jax.random.permutation(indices_prng_key, middle_seq[:last])[:r]
rand_attn = rand_attn.at[i - 1].set(seq_values)
# Missing -4: should have been sliced till last-4
else:
if start > last:
start = last
seq_values = jax.random.permutation(indices_prng_key, middle_seq[:start])[:r]
rand_attn = rand_attn.at[i - 1].set(seq_values)
elif (end + 1) == last:
seq_values = jax.random.permutation(indices_prng_key, middle_seq[:start])[:r]
rand_attn = rand_attn.at[i - 1].set(seq_values)
else:
concat_values = jnp.concatenate((middle_seq[:start], middle_seq[end + 1 : last]))
seq_values = jax.random.permutation(indices_prng_key, concat_values)[:r]
rand_attn = rand_attn.at[i - 1].set(seq_values)
return rand_attn
def _bigbird_block_rand_mask_with_head(
self,
from_seq_length,
to_seq_length,
from_block_size,
to_block_size,
num_heads,
plan_from_length,
plan_num_rand_blocks,
indices_prng_key: Optional[jax.random.PRNGKey] = None,
deterministic: Optional[bool] = True,
window_block_left=1,
window_block_right=1,
global_block_top=1,
global_block_bottom=1,
global_block_left=1,
global_block_right=1,
):
"""
Create adjacency list of random attention.
Args:
from_seq_length: int. length of from sequence.
to_seq_length: int. length of to sequence.
from_block_size: int. size of block in from sequence.
to_block_size: int. size of block in to sequence.
num_heads: int. total number of heads.
plan_from_length: list. plan from length where num_random_blocks are choosen from.
plan_num_rand_blocks: list. number of rand blocks within the plan.
indices_prng_key: jax.random.PRNGKey. PRNG key that is used to perform random jax operations.
deterministic: bool. When False random attention will be used.
window_block_left: int. number of blocks of window to left of a block.
window_block_right: int. number of blocks of window to right of a block.
global_block_top: int. number of blocks at the top.
global_block_bottom: int. number of blocks at the bottom.
global_block_left: int. Number of blocks globally used to the left.
global_block_right: int. Number of blocks globally used to the right.
Returns:
adjacency list of size num_head where each element is of size from_seq_length//from_block_size-2 by
num_rand_blocks
"""
# using this method when from_seq_length not in [1024, 3072, 4096]
if from_seq_length // from_block_size != to_seq_length // to_block_size:
raise ValueError("Error the number of blocks needs to be same!")
if from_seq_length not in plan_from_length:
raise ValueError("Error from sequence length not in plan!")
# Total number of blocks in the mmask
num_blocks = from_seq_length // from_block_size
# Number of blocks per plan
plan_block_length = jnp.array(plan_from_length) // from_block_size
# till when to follow plan
max_plan_idx = plan_from_length.index(from_seq_length)
# Random Attention adjacency list
rand_attn = [
jnp.zeros((num_blocks, sum(plan_num_rand_blocks[: max_plan_idx + 1])), dtype=jnp.int32)
for i in range(num_heads)
]
# deterministic
if deterministic:
for nh in range(num_heads):
rand_attn[nh] = rand_attn[nh][global_block_top : num_blocks - global_block_bottom, :]
return rand_attn
# We will go iteratively over the plan blocks and pick random number of
# Attention blocks from the legally allowed blocks
for plan_idx in range(max_plan_idx + 1):
rnd_r_cnt = 0
if plan_idx > 0:
# set the row for all from_blocks starting from 0 to
# plan_block_length[plan_idx-1]
# column indx start fromm plan_block_length[plan_idx-1] and ends at
# plan_block_length[plan_idx]
if plan_num_rand_blocks[plan_idx] > 0:
rnd_r_cnt = int(sum(plan_num_rand_blocks[:plan_idx]))
curr_r_cnt = int(sum(plan_num_rand_blocks[: plan_idx + 1]))
for blk_rw_idx in range(global_block_top, plan_block_length[plan_idx - 1]):
for h in range(num_heads):
single_block_row_attention = self._get_single_block_row_attention(
block_id=blk_rw_idx,
to_start_block_id=plan_block_length[plan_idx - 1],
to_end_block_id=plan_block_length[plan_idx],
num_rand_blocks=plan_num_rand_blocks[plan_idx],
window_block_left=window_block_left,
window_block_right=window_block_right,
global_block_left=global_block_left,
global_block_right=global_block_right,
indices_prng_key=indices_prng_key,
)
rand_attn[h] = (
rand_attn[h].at[blk_rw_idx, rnd_r_cnt:curr_r_cnt].set(single_block_row_attention)
)
for pl_id in range(plan_idx):
if plan_num_rand_blocks[pl_id] == 0:
continue
for blk_rw_idx in range(plan_block_length[plan_idx - 1], plan_block_length[plan_idx]):
rnd_r_cnt = 0
to_start_block_id = 0
if pl_id > 0:
rnd_r_cnt = int(sum(plan_num_rand_blocks[:pl_id]))
to_start_block_id = plan_block_length[pl_id - 1]
curr_r_cnt = int(sum(plan_num_rand_blocks[: pl_id + 1]))
for h in range(num_heads):
single_block_row_attention = self._get_single_block_row_attention(
block_id=blk_rw_idx,
to_start_block_id=to_start_block_id,
to_end_block_id=plan_block_length[pl_id],
num_rand_blocks=plan_num_rand_blocks[pl_id],
window_block_left=window_block_left,
window_block_right=window_block_right,
global_block_left=global_block_left,
global_block_right=global_block_right,
indices_prng_key=indices_prng_key,
)
rand_attn[h] = (
rand_attn[h].at[blk_rw_idx, rnd_r_cnt:curr_r_cnt].set(single_block_row_attention)
)
if plan_num_rand_blocks[plan_idx] == 0:
continue
curr_r_cnt = int(sum(plan_num_rand_blocks[: plan_idx + 1]))
from_start_block_id = global_block_top
to_start_block_id = 0
if plan_idx > 0:
rnd_r_cnt = int(sum(plan_num_rand_blocks[:plan_idx]))
from_start_block_id = plan_block_length[plan_idx - 1]
to_start_block_id = plan_block_length[plan_idx - 1]
for blk_rw_idx in range(from_start_block_id, plan_block_length[plan_idx]):
for h in range(num_heads):
single_block_row_attention = self._get_single_block_row_attention(
block_id=blk_rw_idx,
to_start_block_id=to_start_block_id,
to_end_block_id=plan_block_length[plan_idx],
num_rand_blocks=plan_num_rand_blocks[plan_idx],
window_block_left=window_block_left,
window_block_right=window_block_right,
global_block_left=global_block_left,
global_block_right=global_block_right,
indices_prng_key=indices_prng_key,
)
rand_attn[h] = rand_attn[h].at[blk_rw_idx, rnd_r_cnt:curr_r_cnt].set(single_block_row_attention)
for nh in range(num_heads):
rand_attn[nh] = rand_attn[nh][global_block_top : num_blocks - global_block_bottom, :]
return rand_attn
@staticmethod
def _get_single_block_row_attention(
block_id,
to_start_block_id,
to_end_block_id,
num_rand_blocks,
indices_prng_key: Optional[jax.random.PRNGKey] = None,
window_block_left=1,
window_block_right=1,
global_block_left=1,
global_block_right=1,
):
"""
For a single row block get random row attention.
Args:
block_id: int. block id of row.
to_start_block_id: int. random attention column start id.
to_end_block_id: int. random attention column end id.
num_rand_blocks: int. number of random blocks to be selected.
indices_prng_key: jax.random.PRNGKey. PRNG key that is used to perform random jax operations
window_block_left: int. number of blocks of window to left of a block.
window_block_right: int. number of blocks of window to right of a block.
global_block_left: int. Number of blocks globally used to the left.
global_block_right: int. Number of blocks globally used to the right.
Returns:
row containing the random attention vector of size num_rand_blocks.
"""
# list of to_blocks from which to choose random attention
to_block_list = jnp.arange(to_start_block_id, to_end_block_id, dtype=jnp.int32)
# permute the blocks
perm_block = jax.random.permutation(indices_prng_key, to_block_list)
# illegal blocks for the current block id, using window
illegal_blocks = list(range(block_id - window_block_left, block_id + window_block_right + 1))
# Add blocks at the start and at the end
illegal_blocks.extend(list(range(global_block_left)))
illegal_blocks.extend(list(range(to_end_block_id - global_block_right, to_end_block_id)))
# The second from_block cannot choose random attention on second last to_block
if block_id == 1:
illegal_blocks.append(to_end_block_id - 2)
# The second last from_block cannot choose random attention on second to_block
if block_id == to_end_block_id - 2:
illegal_blocks.append(1)
selected_random_blocks = []
for i in range(to_end_block_id - to_start_block_id):
if perm_block[i] not in illegal_blocks:
selected_random_blocks.append(perm_block[i])
if len(selected_random_blocks) == num_rand_blocks:
break
return jnp.array(selected_random_blocks, dtype=jnp.int32)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertSelfOutput with Bert->BigBird
class FlaxBigBirdSelfOutput(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.dense = nn.Dense(
self.config.hidden_size,
kernel_init=jax.nn.initializers.normal(self.config.initializer_range),
dtype=self.dtype,
)
self.LayerNorm = nn.LayerNorm(epsilon=self.config.layer_norm_eps, dtype=self.dtype)
self.dropout = nn.Dropout(rate=self.config.hidden_dropout_prob)
def __call__(self, hidden_states, input_tensor, deterministic: bool = True):
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states, deterministic=deterministic)
hidden_states = self.LayerNorm(hidden_states + input_tensor)
return hidden_states
class FlaxBigBirdAttention(nn.Module):
config: BigBirdConfig
layer_id: int = None
causal: bool = False
dtype: jnp.dtype = jnp.float32
def setup(self):
if self.config.attention_type == "original_full":
self.self = FlaxBigBirdSelfAttention(self.config, causal=self.causal, dtype=self.dtype)
elif self.config.attention_type == "block_sparse":
self.self = FlaxBigBirdBlockSparseAttention(self.config, block_sparse_seed=self.layer_id, dtype=self.dtype)
else:
raise ValueError(
f"Your `config.attention_type` is {self.config.attention_type} but it can either be `original_full` or"
" `block_sparse`"
)
self.output = FlaxBigBirdSelfOutput(self.config, dtype=self.dtype)
def __call__(
self,
hidden_states,
attention_mask,
layer_head_mask,
key_value_states=None,
init_cache=False,
deterministic=True,
output_attentions: bool = False,
):
# Attention mask comes in as attention_mask.shape == (*batch_sizes, kv_length)
# FLAX expects: attention_mask.shape == (*batch_sizes, 1, 1, kv_length) such that it is broadcastable
# with attn_weights.shape == (*batch_sizes, num_heads, q_length, kv_length)
if self.config.attention_type == "original_full":
attn_outputs = self.self(
hidden_states,
attention_mask,
layer_head_mask=layer_head_mask,
key_value_states=key_value_states,
init_cache=init_cache,
deterministic=deterministic,
output_attentions=output_attentions,
)
else:
attn_outputs = self.self(
hidden_states,
attention_mask,
deterministic=deterministic,
output_attentions=output_attentions,
)
attn_output = attn_outputs[0]
hidden_states = self.output(attn_output, hidden_states, deterministic=deterministic)
outputs = (hidden_states,)
if output_attentions:
outputs += (attn_outputs[1],)
return outputs
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertIntermediate with Bert->BigBird
class FlaxBigBirdIntermediate(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.dense = nn.Dense(
self.config.intermediate_size,
kernel_init=jax.nn.initializers.normal(self.config.initializer_range),
dtype=self.dtype,
)
self.activation = ACT2FN[self.config.hidden_act]
def __call__(self, hidden_states):
hidden_states = self.dense(hidden_states)
hidden_states = self.activation(hidden_states)
return hidden_states
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertOutput with Bert->BigBird
class FlaxBigBirdOutput(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.dense = nn.Dense(
self.config.hidden_size,
kernel_init=jax.nn.initializers.normal(self.config.initializer_range),
dtype=self.dtype,
)
self.dropout = nn.Dropout(rate=self.config.hidden_dropout_prob)
self.LayerNorm = nn.LayerNorm(epsilon=self.config.layer_norm_eps, dtype=self.dtype)
def __call__(self, hidden_states, attention_output, deterministic: bool = True):
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states, deterministic=deterministic)
hidden_states = self.LayerNorm(hidden_states + attention_output)
return hidden_states
class FlaxBigBirdLayer(nn.Module):
config: BigBirdConfig
layer_id: int = None
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
def setup(self):
self.attention = FlaxBigBirdAttention(
self.config, layer_id=self.layer_id, causal=self.config.is_decoder, dtype=self.dtype
)
self.intermediate = FlaxBigBirdIntermediate(self.config, dtype=self.dtype)
self.output = FlaxBigBirdOutput(self.config, dtype=self.dtype)
if self.config.add_cross_attention:
self.crossattention = FlaxBigBirdAttention(self.config, causal=False, dtype=self.dtype)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertLayer.__call__ with Bert->BigBird
def __call__(
self,
hidden_states,
attention_mask,
layer_head_mask,
encoder_hidden_states: Optional[jnp.ndarray] = None,
encoder_attention_mask: Optional[jnp.ndarray] = None,
init_cache: bool = False,
deterministic: bool = True,
output_attentions: bool = False,
):
# Self Attention
attention_outputs = self.attention(
hidden_states,
attention_mask,
layer_head_mask=layer_head_mask,
init_cache=init_cache,
deterministic=deterministic,
output_attentions=output_attentions,
)
attention_output = attention_outputs[0]
# Cross-Attention Block
if encoder_hidden_states is not None:
cross_attention_outputs = self.crossattention(
attention_output,
attention_mask=encoder_attention_mask,
layer_head_mask=layer_head_mask,
key_value_states=encoder_hidden_states,
deterministic=deterministic,
output_attentions=output_attentions,
)
attention_output = cross_attention_outputs[0]
hidden_states = self.intermediate(attention_output)
hidden_states = self.output(hidden_states, attention_output, deterministic=deterministic)
outputs = (hidden_states,)
if output_attentions:
outputs += (attention_outputs[1],)
if encoder_hidden_states is not None:
outputs += (cross_attention_outputs[1],)
return outputs
class FlaxBigBirdLayerCollection(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
gradient_checkpointing: bool = False
def setup(self):
if self.gradient_checkpointing:
FlaxBigBirdCheckpointLayer = remat(FlaxBigBirdLayer, static_argnums=(5, 6, 7))
self.layers = [
FlaxBigBirdCheckpointLayer(self.config, layer_id=i, name=str(i), dtype=self.dtype)
for i in range(self.config.num_hidden_layers)
]
else:
self.layers = [
FlaxBigBirdLayer(self.config, layer_id=i, name=str(i), dtype=self.dtype)
for i in range(self.config.num_hidden_layers)
]
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertLayerCollection.__call__ with Bert->BigBird
def __call__(
self,
hidden_states,
attention_mask,
head_mask,
encoder_hidden_states: Optional[jnp.ndarray] = None,
encoder_attention_mask: Optional[jnp.ndarray] = None,
init_cache: bool = False,
deterministic: bool = True,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
):
all_attentions = () if output_attentions else None
all_hidden_states = () if output_hidden_states else None
all_cross_attentions = () if (output_attentions and encoder_hidden_states is not None) else None
# Check if head_mask has a correct number of layers specified if desired
if head_mask is not None:
if head_mask.shape[0] != (len(self.layers)):
raise ValueError(
f"The head_mask should be specified for {len(self.layers)} layers, but it is for "
f" {head_mask.shape[0]}."
)
for i, layer in enumerate(self.layers):
if output_hidden_states:
all_hidden_states += (hidden_states,)
layer_outputs = layer(
hidden_states,
attention_mask,
head_mask[i] if head_mask is not None else None,
encoder_hidden_states,
encoder_attention_mask,
init_cache,
deterministic,
output_attentions,
)
hidden_states = layer_outputs[0]
if output_attentions:
all_attentions += (layer_outputs[1],)
if encoder_hidden_states is not None:
all_cross_attentions += (layer_outputs[2],)
if output_hidden_states:
all_hidden_states += (hidden_states,)
outputs = (hidden_states, all_hidden_states, all_attentions, all_cross_attentions)
if not return_dict:
return tuple(v for v in outputs if v is not None)
return FlaxBaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
hidden_states=all_hidden_states,
attentions=all_attentions,
cross_attentions=all_cross_attentions,
)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertEncoder with Bert->BigBird
class FlaxBigBirdEncoder(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
gradient_checkpointing: bool = False
def setup(self):
self.layer = FlaxBigBirdLayerCollection(
self.config,
dtype=self.dtype,
gradient_checkpointing=self.gradient_checkpointing,
)
def __call__(
self,
hidden_states,
attention_mask,
head_mask,
encoder_hidden_states: Optional[jnp.ndarray] = None,
encoder_attention_mask: Optional[jnp.ndarray] = None,
init_cache: bool = False,
deterministic: bool = True,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
):
return self.layer(
hidden_states,
attention_mask,
head_mask=head_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
init_cache=init_cache,
deterministic=deterministic,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertPredictionHeadTransform with Bert->BigBird
class FlaxBigBirdPredictionHeadTransform(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
def setup(self):
self.dense = nn.Dense(self.config.hidden_size, dtype=self.dtype)
self.activation = ACT2FN[self.config.hidden_act]
self.LayerNorm = nn.LayerNorm(epsilon=self.config.layer_norm_eps, dtype=self.dtype)
def __call__(self, hidden_states):
hidden_states = self.dense(hidden_states)
hidden_states = self.activation(hidden_states)
return self.LayerNorm(hidden_states)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertLMPredictionHead with Bert->BigBird, np.ndarray->jnp.ndarray
class FlaxBigBirdLMPredictionHead(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
bias_init: Callable[..., jnp.ndarray] = jax.nn.initializers.zeros
def setup(self):
self.transform = FlaxBigBirdPredictionHeadTransform(self.config, dtype=self.dtype)
self.decoder = nn.Dense(self.config.vocab_size, dtype=self.dtype, use_bias=False)
self.bias = self.param("bias", self.bias_init, (self.config.vocab_size,))
def __call__(self, hidden_states, shared_embedding=None):
hidden_states = self.transform(hidden_states)
if shared_embedding is not None:
hidden_states = self.decoder.apply({"params": {"kernel": shared_embedding.T}}, hidden_states)
else:
hidden_states = self.decoder(hidden_states)
bias = jnp.asarray(self.bias, self.dtype)
hidden_states += bias
return hidden_states
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertOnlyMLMHead with Bert->BigBird
class FlaxBigBirdOnlyMLMHead(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
def setup(self):
self.predictions = FlaxBigBirdLMPredictionHead(self.config, dtype=self.dtype)
def __call__(self, hidden_states, shared_embedding=None):
hidden_states = self.predictions(hidden_states, shared_embedding=shared_embedding)
return hidden_states
class FlaxBigBirdPreTrainingHeads(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
def setup(self):
self.predictions = FlaxBigBirdLMPredictionHead(self.config, dtype=self.dtype)
self.seq_relationship = nn.Dense(2, dtype=self.dtype)
def __call__(self, hidden_states, pooled_output, shared_embedding=None):
prediction_scores = self.predictions(hidden_states, shared_embedding=shared_embedding)
seq_relationship_score = self.seq_relationship(pooled_output)
return prediction_scores, seq_relationship_score
class FlaxBigBirdPreTrainedModel(FlaxPreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
config_class = BigBirdConfig
base_model_prefix = "bert"
module_class: nn.Module = None
def __init__(
self,
config: BigBirdConfig,
input_shape: Optional[tuple] = None,
seed: int = 0,
dtype: jnp.dtype = jnp.float32,
_do_init: bool = True,
gradient_checkpointing: bool = False,
**kwargs,
):
module = self.module_class(config=config, dtype=dtype, gradient_checkpointing=gradient_checkpointing, **kwargs)
if config.attention_type == "block_sparse" and input_shape is None:
input_shape = (1, 12 * config.block_size)
elif input_shape is None:
input_shape = (1, 1)
super().__init__(config, module, input_shape=input_shape, seed=seed, dtype=dtype, _do_init=_do_init)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertPreTrainedModel.enable_gradient_checkpointing
def enable_gradient_checkpointing(self):
self._module = self.module_class(
config=self.config,
dtype=self.dtype,
gradient_checkpointing=True,
)
def init_weights(self, rng: jax.random.PRNGKey, input_shape: Tuple, params: FrozenDict = None) -> FrozenDict:
# init input tensors
input_ids = jnp.zeros(input_shape, dtype="i4")
token_type_ids = jnp.zeros_like(input_ids)
position_ids = jnp.broadcast_to(jnp.arange(jnp.atleast_2d(input_ids).shape[-1]), input_shape)
attention_mask = jnp.ones_like(input_ids)
head_mask = jnp.ones((self.config.num_hidden_layers, self.config.num_attention_heads))
params_rng, dropout_rng, indices_rng = jax.random.split(rng, num=3)
rngs = {"params": params_rng, "dropout": dropout_rng, "indices": indices_rng}
if self.config.add_cross_attention:
encoder_hidden_states = jnp.zeros(input_shape + (self.config.hidden_size,))
encoder_attention_mask = attention_mask
module_init_outputs = self.module.init(
rngs,
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
encoder_hidden_states,
encoder_attention_mask,
return_dict=False,
)
else:
module_init_outputs = self.module.init(
rngs,
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
return_dict=False,
)
random_params = module_init_outputs["params"]
if params is not None:
random_params = flatten_dict(unfreeze(random_params))
params = flatten_dict(unfreeze(params))
for missing_key in self._missing_keys:
params[missing_key] = random_params[missing_key]
self._missing_keys = set()
return freeze(unflatten_dict(params))
else:
return random_params
# Copied from transformers.models.bart.modeling_flax_bart.FlaxBartDecoderPreTrainedModel.init_cache
def init_cache(self, batch_size, max_length):
r"""
Args:
batch_size (`int`):
batch_size used for fast auto-regressive decoding. Defines the batch size of the initialized cache.
max_length (`int`):
maximum possible length for auto-regressive decoding. Defines the sequence length of the initialized
cache.
"""
# init input variables to retrieve cache
input_ids = jnp.ones((batch_size, max_length), dtype="i4")
attention_mask = jnp.ones_like(input_ids, dtype="i4")
position_ids = jnp.broadcast_to(jnp.arange(jnp.atleast_2d(input_ids).shape[-1]), input_ids.shape)
init_variables = self.module.init(
jax.random.PRNGKey(0), input_ids, attention_mask, position_ids, return_dict=False, init_cache=True
)
return unfreeze(init_variables["cache"])
@add_start_docstrings_to_model_forward(BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
def __call__(
self,
input_ids,
attention_mask=None,
token_type_ids=None,
position_ids=None,
head_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
params: dict = None,
dropout_rng: Optional[jax.random.PRNGKey] = None,
indices_rng: Optional[jax.random.PRNGKey] = None,
train: bool = False,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
past_key_values: dict = None,
):
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.return_dict
# init input tensors if not passed
if token_type_ids is None:
token_type_ids = jnp.zeros_like(input_ids)
if position_ids is None:
position_ids = jnp.broadcast_to(jnp.arange(jnp.atleast_2d(input_ids).shape[-1]), input_ids.shape)
if attention_mask is None:
attention_mask = jnp.ones_like(input_ids)
if head_mask is None:
head_mask = jnp.ones((self.config.num_hidden_layers, self.config.num_attention_heads))
# Handle any PRNG if needed
rngs = {}
if indices_rng is not None:
rngs["indices"] = indices_rng
if dropout_rng is not None:
rngs["dropout"] = dropout_rng
inputs = {"params": params or self.params}
if self.config.add_cross_attention:
# if past_key_values are passed then cache is already initialized a private flag init_cache has to be passed
# down to ensure cache is used. It has to be made sure that cache is marked as mutable so that it can be
# changed by FlaxBigBirdAttention module
if past_key_values:
inputs["cache"] = past_key_values
mutable = ["cache"]
else:
mutable = False
outputs = self.module.apply(
inputs,
jnp.array(input_ids, dtype="i4"),
jnp.array(attention_mask, dtype="i4"),
token_type_ids=jnp.array(token_type_ids, dtype="i4"),
position_ids=jnp.array(position_ids, dtype="i4"),
head_mask=jnp.array(head_mask, dtype="i4"),
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
deterministic=not train,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
rngs=rngs,
mutable=mutable,
)
# add updated cache to model output
if past_key_values is not None and return_dict:
outputs, past_key_values = outputs
outputs["past_key_values"] = unfreeze(past_key_values["cache"])
return outputs
elif past_key_values is not None and not return_dict:
outputs, past_key_values = outputs
outputs = outputs[:1] + (unfreeze(past_key_values["cache"]),) + outputs[1:]
else:
outputs = self.module.apply(
inputs,
jnp.array(input_ids, dtype="i4"),
jnp.array(attention_mask, dtype="i4"),
token_type_ids=jnp.array(token_type_ids, dtype="i4"),
position_ids=jnp.array(position_ids, dtype="i4"),
head_mask=jnp.array(head_mask, dtype="i4"),
deterministic=not train,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
rngs=rngs,
)
return outputs
class FlaxBigBirdModule(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32 # the dtype of the computation
add_pooling_layer: bool = True
gradient_checkpointing: bool = False
def setup(self):
self.embeddings = FlaxBigBirdEmbeddings(self.config, dtype=self.dtype)
self.encoder = FlaxBigBirdEncoder(
self.config, dtype=self.dtype, gradient_checkpointing=self.gradient_checkpointing
)
self.pooler = nn.Dense(
self.config.hidden_size,
kernel_init=jax.nn.initializers.normal(self.config.initializer_range),
dtype=self.dtype,
)
def __call__(
self,
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
encoder_hidden_states: Optional[jnp.ndarray] = None,
encoder_attention_mask: Optional[jnp.ndarray] = None,
init_cache: bool = False,
deterministic: bool = True,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
):
hidden_states = self.embeddings(
input_ids, token_type_ids, position_ids, attention_mask, deterministic=deterministic
)
outputs = self.encoder(
hidden_states,
attention_mask,
head_mask=head_mask,
deterministic=deterministic,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
init_cache=init_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
hidden_states = outputs[0]
pooled = nn.tanh(self.pooler(hidden_states[:, 0, :])) if self.add_pooling_layer else None
if not return_dict:
# if pooled is None, don't return it
if pooled is None:
return (hidden_states,) + outputs[1:]
return (hidden_states, pooled) + outputs[1:]
return FlaxBaseModelOutputWithPoolingAndCrossAttentions(
last_hidden_state=hidden_states,
pooler_output=pooled,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
cross_attentions=outputs.cross_attentions,
)
@add_start_docstrings(
"The bare BigBird Model transformer outputting raw hidden-states without any specific head on top.",
BIG_BIRD_START_DOCSTRING,
)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertModel with Bert->BigBird
class FlaxBigBirdModel(FlaxBigBirdPreTrainedModel):
module_class = FlaxBigBirdModule
append_call_sample_docstring(FlaxBigBirdModel, _CHECKPOINT_FOR_DOC, FlaxBaseModelOutputWithPooling, _CONFIG_FOR_DOC)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertForPreTrainingModule with Bert->BigBird
class FlaxBigBirdForPreTrainingModule(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
gradient_checkpointing: bool = False
def setup(self):
self.bert = FlaxBigBirdModule(
config=self.config,
dtype=self.dtype,
gradient_checkpointing=self.gradient_checkpointing,
)
self.cls = FlaxBigBirdPreTrainingHeads(config=self.config, dtype=self.dtype)
def __call__(
self,
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
deterministic: bool = True,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
):
# Model
outputs = self.bert(
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
deterministic=deterministic,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
if self.config.tie_word_embeddings:
shared_embedding = self.bert.variables["params"]["embeddings"]["word_embeddings"]["embedding"]
else:
shared_embedding = None
hidden_states = outputs[0]
pooled_output = outputs[1]
prediction_scores, seq_relationship_score = self.cls(
hidden_states, pooled_output, shared_embedding=shared_embedding
)
if not return_dict:
return (prediction_scores, seq_relationship_score) + outputs[2:]
return FlaxBigBirdForPreTrainingOutput(
prediction_logits=prediction_scores,
seq_relationship_logits=seq_relationship_score,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings(
"""
BigBird Model with two heads on top as done during the pretraining: a `masked language modeling` head and a `next
sentence prediction (classification)` head.
""",
BIG_BIRD_START_DOCSTRING,
)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertForPreTraining with Bert->BigBird
class FlaxBigBirdForPreTraining(FlaxBigBirdPreTrainedModel):
module_class = FlaxBigBirdForPreTrainingModule
FLAX_BIG_BIRD_FOR_PRETRAINING_DOCSTRING = """
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, FlaxBigBirdForPreTraining
>>> tokenizer = AutoTokenizer.from_pretrained("google/bigbird-roberta-base")
>>> model = FlaxBigBirdForPreTraining.from_pretrained("google/bigbird-roberta-base")
>>> inputs = tokenizer("Hello, my dog is cute", return_tensors="np")
>>> outputs = model(**inputs)
>>> prediction_logits = outputs.prediction_logits
>>> seq_relationship_logits = outputs.seq_relationship_logits
```
"""
overwrite_call_docstring(
FlaxBigBirdForPreTraining,
BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, sequence_length") + FLAX_BIG_BIRD_FOR_PRETRAINING_DOCSTRING,
)
append_replace_return_docstrings(
FlaxBigBirdForPreTraining, output_type=FlaxBigBirdForPreTrainingOutput, config_class=_CONFIG_FOR_DOC
)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertForMaskedLMModule with Bert->BigBird
class FlaxBigBirdForMaskedLMModule(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
gradient_checkpointing: bool = False
def setup(self):
self.bert = FlaxBigBirdModule(
config=self.config,
add_pooling_layer=False,
dtype=self.dtype,
gradient_checkpointing=self.gradient_checkpointing,
)
self.cls = FlaxBigBirdOnlyMLMHead(config=self.config, dtype=self.dtype)
def __call__(
self,
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
deterministic: bool = True,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
):
# Model
outputs = self.bert(
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
deterministic=deterministic,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
hidden_states = outputs[0]
if self.config.tie_word_embeddings:
shared_embedding = self.bert.variables["params"]["embeddings"]["word_embeddings"]["embedding"]
else:
shared_embedding = None
# Compute the prediction scores
logits = self.cls(hidden_states, shared_embedding=shared_embedding)
if not return_dict:
return (logits,) + outputs[1:]
return FlaxMaskedLMOutput(
logits=logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings("""BigBird Model with a `language modeling` head on top.""", BIG_BIRD_START_DOCSTRING)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertForMaskedLM with Bert->BigBird
class FlaxBigBirdForMaskedLM(FlaxBigBirdPreTrainedModel):
module_class = FlaxBigBirdForMaskedLMModule
append_call_sample_docstring(FlaxBigBirdForMaskedLM, _CHECKPOINT_FOR_DOC, FlaxMaskedLMOutput, _CONFIG_FOR_DOC)
class FlaxBigBirdClassificationHead(nn.Module):
"""Head for sentence-level classification tasks."""
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
def setup(self):
self.dense = nn.Dense(self.config.hidden_size, dtype=self.dtype)
classifier_dropout = (
self.config.classifier_dropout
if self.config.classifier_dropout is not None
else self.config.hidden_dropout_prob
)
self.dropout = nn.Dropout(classifier_dropout)
self.out_proj = nn.Dense(self.config.num_labels, dtype=self.dtype)
def __call__(self, features, deterministic=True):
x = features[:, 0, :] # take <s> token (equiv. to [CLS])
x = self.dropout(x, deterministic=deterministic)
x = self.dense(x)
x = ACT2FN[self.config.hidden_act](x)
x = self.dropout(x, deterministic=deterministic)
x = self.out_proj(x)
return x
class FlaxBigBirdForSequenceClassificationModule(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
gradient_checkpointing: bool = False
def setup(self):
self.bert = FlaxBigBirdModule(
config=self.config, dtype=self.dtype, gradient_checkpointing=self.gradient_checkpointing
)
self.classifier = FlaxBigBirdClassificationHead(self.config, dtype=self.dtype)
def __call__(
self,
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
deterministic: bool = True,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
):
# Model
outputs = self.bert(
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
deterministic=deterministic,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
logits = self.classifier(sequence_output, deterministic=deterministic)
if not return_dict:
return (logits,) + outputs[2:]
return FlaxSequenceClassifierOutput(
logits=logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings(
"""
BigBird Model transformer with a sequence classification/regression head on top (a linear layer on top of the
pooled output) e.g. for GLUE tasks.
""",
BIG_BIRD_START_DOCSTRING,
)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertForSequenceClassification with Bert->BigBird
class FlaxBigBirdForSequenceClassification(FlaxBigBirdPreTrainedModel):
module_class = FlaxBigBirdForSequenceClassificationModule
append_call_sample_docstring(
FlaxBigBirdForSequenceClassification,
_CHECKPOINT_FOR_DOC,
FlaxSequenceClassifierOutput,
_CONFIG_FOR_DOC,
)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertForMultipleChoiceModule with Bert->BigBird
class FlaxBigBirdForMultipleChoiceModule(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
gradient_checkpointing: bool = False
def setup(self):
self.bert = FlaxBigBirdModule(
config=self.config,
dtype=self.dtype,
gradient_checkpointing=self.gradient_checkpointing,
)
self.dropout = nn.Dropout(rate=self.config.hidden_dropout_prob)
self.classifier = nn.Dense(1, dtype=self.dtype)
def __call__(
self,
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
deterministic: bool = True,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
):
num_choices = input_ids.shape[1]
input_ids = input_ids.reshape(-1, input_ids.shape[-1]) if input_ids is not None else None
attention_mask = attention_mask.reshape(-1, attention_mask.shape[-1]) if attention_mask is not None else None
token_type_ids = token_type_ids.reshape(-1, token_type_ids.shape[-1]) if token_type_ids is not None else None
position_ids = position_ids.reshape(-1, position_ids.shape[-1]) if position_ids is not None else None
# Model
outputs = self.bert(
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
deterministic=deterministic,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
pooled_output = outputs[1]
pooled_output = self.dropout(pooled_output, deterministic=deterministic)
logits = self.classifier(pooled_output)
reshaped_logits = logits.reshape(-1, num_choices)
if not return_dict:
return (reshaped_logits,) + outputs[2:]
return FlaxMultipleChoiceModelOutput(
logits=reshaped_logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings(
"""
BigBird Model with a multiple choice classification head on top (a linear layer on top of the pooled output and a
softmax) e.g. for RocStories/SWAG tasks.
""",
BIG_BIRD_START_DOCSTRING,
)
class FlaxBigBirdForMultipleChoice(FlaxBigBirdPreTrainedModel):
module_class = FlaxBigBirdForMultipleChoiceModule
def __init__(
self,
config: BigBirdConfig,
input_shape: Optional[tuple] = None,
seed: int = 0,
dtype: jnp.dtype = jnp.float32,
_do_init: bool = True,
**kwargs,
):
if config.attention_type == "block_sparse" and input_shape is None:
input_shape = (1, 1, 12 * config.block_size)
elif input_shape is None:
input_shape = (1, 1)
super().__init__(config, input_shape=input_shape, seed=seed, dtype=dtype, _do_init=_do_init)
overwrite_call_docstring(
FlaxBigBirdForMultipleChoice, BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, num_choices, sequence_length")
)
append_call_sample_docstring(
FlaxBigBirdForMultipleChoice,
_CHECKPOINT_FOR_DOC,
FlaxMultipleChoiceModelOutput,
_CONFIG_FOR_DOC,
)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertForTokenClassificationModule with Bert->BigBird
class FlaxBigBirdForTokenClassificationModule(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
gradient_checkpointing: bool = False
def setup(self):
self.bert = FlaxBigBirdModule(
config=self.config,
dtype=self.dtype,
add_pooling_layer=False,
gradient_checkpointing=self.gradient_checkpointing,
)
classifier_dropout = (
self.config.classifier_dropout
if self.config.classifier_dropout is not None
else self.config.hidden_dropout_prob
)
self.dropout = nn.Dropout(rate=classifier_dropout)
self.classifier = nn.Dense(self.config.num_labels, dtype=self.dtype)
def __call__(
self,
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
deterministic: bool = True,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
):
# Model
outputs = self.bert(
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
deterministic=deterministic,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
hidden_states = outputs[0]
hidden_states = self.dropout(hidden_states, deterministic=deterministic)
logits = self.classifier(hidden_states)
if not return_dict:
return (logits,) + outputs[1:]
return FlaxTokenClassifierOutput(
logits=logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings(
"""
BigBird Model with a token classification head on top (a linear layer on top of the hidden-states output) e.g. for
Named-Entity-Recognition (NER) tasks.
""",
BIG_BIRD_START_DOCSTRING,
)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertForTokenClassification with Bert->BigBird
class FlaxBigBirdForTokenClassification(FlaxBigBirdPreTrainedModel):
module_class = FlaxBigBirdForTokenClassificationModule
append_call_sample_docstring(
FlaxBigBirdForTokenClassification,
_CHECKPOINT_FOR_DOC,
FlaxTokenClassifierOutput,
_CONFIG_FOR_DOC,
)
class FlaxBigBirdForQuestionAnsweringHead(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
def setup(self):
self.dropout = nn.Dropout(rate=self.config.hidden_dropout_prob)
self.intermediate = FlaxBigBirdIntermediate(self.config, dtype=self.dtype)
self.output = FlaxBigBirdOutput(self.config, dtype=self.dtype)
self.qa_outputs = nn.Dense(self.config.num_labels, dtype=self.dtype)
def __call__(self, encoder_output, deterministic=True):
hidden_states = self.dropout(encoder_output, deterministic=deterministic)
hidden_states = self.intermediate(hidden_states)
hidden_states = self.output(hidden_states, encoder_output)
hidden_states = self.qa_outputs(hidden_states)
return hidden_states
class FlaxBigBirdForQuestionAnsweringModule(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
add_pooling_layer: bool = False
gradient_checkpointing: bool = False
def setup(self):
self.config.num_labels = 2
self.bert = FlaxBigBirdModule(
self.config,
dtype=self.dtype,
add_pooling_layer=self.add_pooling_layer,
gradient_checkpointing=self.gradient_checkpointing,
)
self.qa_classifier = FlaxBigBirdForQuestionAnsweringHead(self.config, dtype=self.dtype)
def __call__(
self,
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
logits_mask=None,
deterministic: bool = True,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
):
# Model
outputs = self.bert(
input_ids,
attention_mask,
token_type_ids,
position_ids,
head_mask,
deterministic=deterministic,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
hidden_states = outputs[0]
pooled_output = outputs[1] if self.add_pooling_layer else None
logits = self.qa_classifier(hidden_states, deterministic=deterministic)
if logits_mask is not None:
# removing question tokens from the competition
logits = logits - logits_mask * 1e6
start_logits, end_logits = logits.split(self.config.num_labels, axis=-1)
start_logits = start_logits.squeeze(-1)
end_logits = end_logits.squeeze(-1)
if not return_dict:
return (start_logits, end_logits) + outputs[1:]
return FlaxBigBirdForQuestionAnsweringModelOutput(
start_logits=start_logits,
end_logits=end_logits,
pooled_output=pooled_output,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings(
"""
BigBird Model with a span classification head on top for extractive question-answering tasks like SQuAD (a linear
layers on top of the hidden-states output to compute `span start logits` and `span end logits`).
""",
BIG_BIRD_START_DOCSTRING,
)
class FlaxBigBirdForQuestionAnswering(FlaxBigBirdPreTrainedModel):
module_class = FlaxBigBirdForQuestionAnsweringModule
@add_start_docstrings_to_model_forward(BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
def __call__(
self,
input_ids,
attention_mask=None,
token_type_ids=None,
position_ids=None,
head_mask=None,
question_lengths=None,
params: dict = None,
dropout_rng: Optional[jax.random.PRNGKey] = None,
indices_rng: Optional[jax.random.PRNGKey] = None,
train: bool = False,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
):
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.return_dict
if position_ids is None:
position_ids = jnp.broadcast_to(jnp.arange(jnp.atleast_2d(input_ids).shape[-1]), input_ids.shape)
if attention_mask is None:
attention_mask = jnp.ones_like(input_ids)
if head_mask is None:
head_mask = jnp.ones((self.config.num_hidden_layers, self.config.num_attention_heads))
if question_lengths is None and input_ids is not None:
# assuming input_ids format: <cls> <question> <sep> context <sep>
question_lengths = jnp.argmax((input_ids == self.config.sep_token_id).astype("i4"), axis=-1) + 1
question_lengths = jnp.expand_dims(question_lengths, axis=1)
seqlen = input_ids.shape[1]
logits_mask = None
if question_lengths is not None:
# setting lengths logits to `-inf`
logits_mask = self.prepare_question_mask(question_lengths, seqlen)
if token_type_ids is None:
token_type_ids = (~logits_mask).astype("i4")
logits_mask = jnp.expand_dims(logits_mask, axis=2)
logits_mask = logits_mask.at[:, 0].set(False)
# init input tensors if not passed
if token_type_ids is None:
token_type_ids = jnp.zeros_like(input_ids)
# Handle any PRNG if needed
rngs = {}
if dropout_rng is not None:
rngs["dropout"] = dropout_rng
if indices_rng is not None:
rngs["indices"] = indices_rng
return self.module.apply(
{"params": params or self.params},
jnp.array(input_ids, dtype="i4"),
jnp.array(attention_mask, dtype="i4"),
token_type_ids,
jnp.array(position_ids, dtype="i4"),
jnp.array(head_mask, dtype="i4"),
logits_mask,
not train,
output_attentions,
output_hidden_states,
return_dict,
rngs=rngs,
)
@staticmethod
def prepare_question_mask(q_lengths, maxlen: int):
# q_lengths -> (bz, 1)
mask = jnp.arange(0, maxlen)
mask = jnp.expand_dims(mask, axis=0) < q_lengths
return mask
append_call_sample_docstring(
FlaxBigBirdForQuestionAnswering,
_CHECKPOINT_FOR_DOC,
FlaxBigBirdForQuestionAnsweringModelOutput,
_CONFIG_FOR_DOC,
)
class FlaxBigBirdForCausalLMModule(nn.Module):
config: BigBirdConfig
dtype: jnp.dtype = jnp.float32
gradient_checkpointing: bool = False
def setup(self):
self.bert = FlaxBigBirdModule(
config=self.config,
add_pooling_layer=False,
dtype=self.dtype,
gradient_checkpointing=self.gradient_checkpointing,
)
self.cls = FlaxBigBirdOnlyMLMHead(config=self.config, dtype=self.dtype)
def __call__(
self,
input_ids,
attention_mask,
position_ids,
token_type_ids: Optional[jnp.ndarray] = None,
head_mask: Optional[jnp.ndarray] = None,
encoder_hidden_states: Optional[jnp.ndarray] = None,
encoder_attention_mask: Optional[jnp.ndarray] = None,
init_cache: bool = False,
deterministic: bool = True,
output_attentions: bool = False,
output_hidden_states: bool = False,
return_dict: bool = True,
):
# Model
outputs = self.bert(
input_ids=input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
head_mask=head_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
init_cache=init_cache,
deterministic=deterministic,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
hidden_states = outputs[0]
if self.config.tie_word_embeddings:
shared_embedding = self.bert.variables["params"]["embeddings"]["word_embeddings"]["embedding"]
else:
shared_embedding = None
# Compute the prediction scores
logits = self.cls(hidden_states, shared_embedding=shared_embedding)
if not return_dict:
return (logits,) + outputs[1:]
return FlaxCausalLMOutputWithCrossAttentions(
logits=logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
cross_attentions=outputs.cross_attentions,
)
@add_start_docstrings(
"""
BigBird Model with a language modeling head on top (a linear layer on top of the hidden-states output) e.g for
autoregressive tasks.
""",
BIG_BIRD_START_DOCSTRING,
)
# Copied from transformers.models.bert.modeling_flax_bert.FlaxBertForCausalLM with Bert->BigBird
class FlaxBigBirdForCausalLM(FlaxBigBirdPreTrainedModel):
module_class = FlaxBigBirdForCausalLMModule
def prepare_inputs_for_generation(self, input_ids, max_length, attention_mask: Optional[jax.Array] = None):
# initializing the cache
batch_size, seq_length = input_ids.shape
past_key_values = self.init_cache(batch_size, max_length)
# Note that usually one would have to put 0's in the attention_mask for x > input_ids.shape[-1] and x < cache_length.
# But since the decoder uses a causal mask, those positions are masked anyway.
# Thus, we can create a single static attention_mask here, which is more efficient for compilation
extended_attention_mask = jnp.ones((batch_size, max_length), dtype="i4")
if attention_mask is not None:
position_ids = attention_mask.cumsum(axis=-1) - 1
extended_attention_mask = lax.dynamic_update_slice(extended_attention_mask, attention_mask, (0, 0))
else:
position_ids = jnp.broadcast_to(jnp.arange(seq_length, dtype="i4")[None, :], (batch_size, seq_length))
return {
"past_key_values": past_key_values,
"attention_mask": extended_attention_mask,
"position_ids": position_ids,
}
def update_inputs_for_generation(self, model_outputs, model_kwargs):
model_kwargs["past_key_values"] = model_outputs.past_key_values
model_kwargs["position_ids"] = model_kwargs["position_ids"][:, -1:] + 1
return model_kwargs
append_call_sample_docstring(
FlaxBigBirdForCausalLM,
_CHECKPOINT_FOR_DOC,
FlaxCausalLMOutputWithCrossAttentions,
_CONFIG_FOR_DOC,
)
| transformers-main | src/transformers/models/big_bird/modeling_flax_big_bird.py |
# coding=utf-8
# Copyright 2021 Google Research and The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" PyTorch BigBird model."""
import math
import os
from dataclasses import dataclass
from typing import Optional, Tuple, Union
import numpy as np
import torch
import torch.utils.checkpoint
from torch import nn
from torch.nn import BCEWithLogitsLoss, CrossEntropyLoss, MSELoss
from ...activations import ACT2FN
from ...modeling_outputs import (
BaseModelOutputWithPastAndCrossAttentions,
BaseModelOutputWithPoolingAndCrossAttentions,
CausalLMOutputWithCrossAttentions,
MaskedLMOutput,
MultipleChoiceModelOutput,
SequenceClassifierOutput,
TokenClassifierOutput,
)
from ...modeling_utils import PreTrainedModel
from ...pytorch_utils import apply_chunking_to_forward
from ...utils import (
ModelOutput,
add_code_sample_docstrings,
add_start_docstrings,
add_start_docstrings_to_model_forward,
logging,
replace_return_docstrings,
)
from .configuration_big_bird import BigBirdConfig
logger = logging.get_logger(__name__)
_CHECKPOINT_FOR_DOC = "google/bigbird-roberta-base"
_CONFIG_FOR_DOC = "BigBirdConfig"
BIG_BIRD_PRETRAINED_MODEL_ARCHIVE_LIST = [
"google/bigbird-roberta-base",
"google/bigbird-roberta-large",
"google/bigbird-base-trivia-itc",
# See all BigBird models at https://huggingface.co/models?filter=big_bird
]
_TRIVIA_QA_MAPPING = {
"big_bird_attention": "attention/self",
"output_layer_norm": "output/LayerNorm",
"attention_output": "attention/output/dense",
"output": "output/dense",
"self_attention_layer_norm": "attention/output/LayerNorm",
"intermediate": "intermediate/dense",
"word_embeddings": "bert/embeddings/word_embeddings",
"position_embedding": "bert/embeddings/position_embeddings",
"type_embeddings": "bert/embeddings/token_type_embeddings",
"embeddings": "bert/embeddings",
"layer_normalization": "output/LayerNorm",
"layer_norm": "LayerNorm",
"trivia_qa_head": "qa_classifier",
"dense": "intermediate/dense",
"dense_1": "qa_outputs",
}
def load_tf_weights_in_big_bird(model, tf_checkpoint_path, is_trivia_qa=False):
"""Load tf checkpoints in a pytorch model."""
def load_tf_weights_bert(init_vars, tf_path):
names = []
tf_weights = {}
for name, shape in init_vars:
array = tf.train.load_variable(tf_path, name)
name = name.replace("bert/encoder/LayerNorm", "bert/embeddings/LayerNorm")
logger.info(f"Loading TF weight {name} with shape {shape}")
names.append(name)
tf_weights[name] = array
return names, tf_weights
def load_tf_weights_trivia_qa(init_vars):
names = []
tf_weights = {}
for i, var in enumerate(init_vars):
name_items = var.name.split("/")
if "transformer_scaffold" in name_items[0]:
layer_name_items = name_items[0].split("_")
if len(layer_name_items) < 3:
layer_name_items += [0]
name_items[0] = f"bert/encoder/layer_{layer_name_items[2]}"
name = "/".join([_TRIVIA_QA_MAPPING[x] if x in _TRIVIA_QA_MAPPING else x for x in name_items])[
:-2
] # remove last :0 in variable
if "self/attention/output" in name:
name = name.replace("self/attention/output", "output")
if i >= len(init_vars) - 2:
name = name.replace("intermediate", "output")
logger.info(f"Loading TF weight {name} with shape {var.shape}")
array = var.value().numpy()
names.append(name)
tf_weights[name] = array
return names, tf_weights
try:
import re
import numpy as np
import tensorflow as tf
except ImportError:
logger.error(
"Loading a TensorFlow model in PyTorch, requires TensorFlow to be installed. Please see "
"https://www.tensorflow.org/install/ for installation instructions."
)
raise
tf_path = os.path.abspath(tf_checkpoint_path)
logger.info(f"Converting TensorFlow checkpoint from {tf_path}")
# Load weights from TF model
init_vars = tf.saved_model.load(tf_path).variables if is_trivia_qa else tf.train.list_variables(tf_path)
if len(init_vars) <= 0:
raise ValueError("Loaded trained variables cannot be empty.")
pt_names = list(model.state_dict().keys())
if is_trivia_qa:
names, tf_weights = load_tf_weights_trivia_qa(init_vars)
else:
names, tf_weights = load_tf_weights_bert(init_vars, tf_path)
for txt_name in names:
array = tf_weights[txt_name]
name = txt_name.split("/")
# adam_v and adam_m are variables used in AdamWeightDecayOptimizer to calculated m and v
# which are not required for using pretrained model
if any(
n in ["adam_v", "adam_m", "AdamWeightDecayOptimizer", "AdamWeightDecayOptimizer_1", "global_step"]
for n in name
):
logger.info(f"Skipping {'/'.join(name)}")
continue
pointer = model
pt_name = []
for m_name in name:
if re.fullmatch(r"[A-Za-z]+_\d+", m_name):
scope_names = re.split(r"_(\d+)", m_name)
else:
scope_names = [m_name]
if scope_names[0] == "kernel" or scope_names[0] == "gamma":
pointer = getattr(pointer, "weight")
pt_name.append("weight")
elif scope_names[0] == "output_bias" or scope_names[0] == "beta":
pointer = getattr(pointer, "bias")
pt_name.append("bias")
elif scope_names[0] == "output_weights":
pointer = getattr(pointer, "weight")
pt_name.append("weight")
elif scope_names[0] == "squad":
pointer = getattr(pointer, "classifier")
pt_name.append("classifier")
elif scope_names[0] == "transform":
pointer = getattr(pointer, "transform")
pt_name.append("transform")
if ("bias" in name) or ("kernel" in name):
pointer = getattr(pointer, "dense")
pt_name.append("dense")
elif ("beta" in name) or ("gamma" in name):
pointer = getattr(pointer, "LayerNorm")
pt_name.append("LayerNorm")
else:
try:
pointer = getattr(pointer, scope_names[0])
pt_name.append(f"{scope_names[0]}")
except AttributeError:
logger.info(f"Skipping {m_name}")
continue
if len(scope_names) >= 2:
num = int(scope_names[1])
pointer = pointer[num]
pt_name.append(f"{num}")
if m_name[-11:] == "_embeddings" or m_name == "embeddings":
pointer = getattr(pointer, "weight")
pt_name.append("weight")
elif m_name == "kernel":
array = np.transpose(array)
try:
if len(array.shape) > len(pointer.shape) and math.prod(array.shape) == math.prod(pointer.shape):
# print(txt_name, array.shape)
if (
txt_name.endswith("attention/self/key/kernel")
or txt_name.endswith("attention/self/query/kernel")
or txt_name.endswith("attention/self/value/kernel")
):
array = array.transpose(1, 0, 2).reshape(pointer.shape)
elif txt_name.endswith("attention/output/dense/kernel"):
array = array.transpose(0, 2, 1).reshape(pointer.shape)
else:
array = array.reshape(pointer.shape)
if pointer.shape != array.shape:
raise ValueError(
f"Pointer shape {pointer.shape} and array shape {array.shape} mismatched of {txt_name}."
)
except ValueError as e:
e.args += (pointer.shape, array.shape)
raise
pt_weight_name = ".".join(pt_name)
logger.info(f"Initialize PyTorch weight {pt_weight_name} from {txt_name}.")
pointer.data = torch.from_numpy(array)
tf_weights.pop(txt_name, None)
pt_names.remove(pt_weight_name)
logger.info(f"Weights not copied to PyTorch model: {', '.join(tf_weights.keys())}.")
logger.info(f"Weights not initialized in PyTorch model: {', '.join(pt_names)}.")
return model
class BigBirdEmbeddings(nn.Module):
"""Construct the embeddings from word, position and token_type embeddings."""
# Copied from transformers.models.bert.modeling_bert.BertEmbeddings.__init__
def __init__(self, config):
super().__init__()
self.word_embeddings = nn.Embedding(config.vocab_size, config.hidden_size, padding_idx=config.pad_token_id)
self.position_embeddings = nn.Embedding(config.max_position_embeddings, config.hidden_size)
self.token_type_embeddings = nn.Embedding(config.type_vocab_size, config.hidden_size)
# self.LayerNorm is not snake-cased to stick with TensorFlow model variable name and be able to load
# any TensorFlow checkpoint file
self.LayerNorm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
# position_ids (1, len position emb) is contiguous in memory and exported when serialized
self.position_embedding_type = getattr(config, "position_embedding_type", "absolute")
self.register_buffer(
"position_ids", torch.arange(config.max_position_embeddings).expand((1, -1)), persistent=False
)
self.register_buffer(
"token_type_ids", torch.zeros(self.position_ids.size(), dtype=torch.long), persistent=False
)
# End copy
self.rescale_embeddings = config.rescale_embeddings
self.hidden_size = config.hidden_size
def forward(
self, input_ids=None, token_type_ids=None, position_ids=None, inputs_embeds=None, past_key_values_length=0
):
if input_ids is not None:
input_shape = input_ids.size()
else:
input_shape = inputs_embeds.size()[:-1]
seq_length = input_shape[1]
if position_ids is None:
position_ids = self.position_ids[:, past_key_values_length : seq_length + past_key_values_length]
# Setting the token_type_ids to the registered buffer in constructor where it is all zeros, which usually occurs
# when its auto-generated, registered buffer helps users when tracing the model without passing token_type_ids, solves
# issue #5664
if token_type_ids is None:
if hasattr(self, "token_type_ids"):
buffered_token_type_ids = self.token_type_ids[:, :seq_length]
buffered_token_type_ids_expanded = buffered_token_type_ids.expand(input_shape[0], seq_length)
token_type_ids = buffered_token_type_ids_expanded
else:
token_type_ids = torch.zeros(input_shape, dtype=torch.long, device=self.position_ids.device)
if inputs_embeds is None:
inputs_embeds = self.word_embeddings(input_ids)
if self.rescale_embeddings:
inputs_embeds = inputs_embeds * (self.hidden_size**0.5)
token_type_embeddings = self.token_type_embeddings(token_type_ids)
embeddings = inputs_embeds + token_type_embeddings
position_embeddings = self.position_embeddings(position_ids)
embeddings += position_embeddings
embeddings = self.dropout(embeddings)
embeddings = self.LayerNorm(embeddings)
return embeddings
class BigBirdSelfAttention(nn.Module):
def __init__(self, config):
super().__init__()
if config.hidden_size % config.num_attention_heads != 0 and not hasattr(config, "embedding_size"):
raise ValueError(
f"The hidden size ({config.hidden_size}) is not a multiple of the number of attention "
f"heads ({config.num_attention_heads})"
)
self.num_attention_heads = config.num_attention_heads
self.attention_head_size = int(config.hidden_size / config.num_attention_heads)
self.all_head_size = self.num_attention_heads * self.attention_head_size
self.query = nn.Linear(config.hidden_size, self.all_head_size, bias=config.use_bias)
self.key = nn.Linear(config.hidden_size, self.all_head_size, bias=config.use_bias)
self.value = nn.Linear(config.hidden_size, self.all_head_size, bias=config.use_bias)
self.dropout = nn.Dropout(config.attention_probs_dropout_prob)
self.is_decoder = config.is_decoder
def transpose_for_scores(self, x):
new_x_shape = x.size()[:-1] + (self.num_attention_heads, self.attention_head_size)
x = x.view(*new_x_shape)
return x.permute(0, 2, 1, 3)
def forward(
self,
hidden_states,
attention_mask=None,
head_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
past_key_value=None,
output_attentions=False,
):
mixed_query_layer = self.query(hidden_states)
# If this is instantiated as a cross-attention module, the keys
# and values come from an encoder; the attention mask needs to be
# such that the encoder's padding tokens are not attended to.
is_cross_attention = encoder_hidden_states is not None
if is_cross_attention and past_key_value is not None:
# reuse k,v, cross_attentions
key_layer = past_key_value[0]
value_layer = past_key_value[1]
attention_mask = encoder_attention_mask
elif is_cross_attention:
key_layer = self.transpose_for_scores(self.key(encoder_hidden_states))
value_layer = self.transpose_for_scores(self.value(encoder_hidden_states))
attention_mask = encoder_attention_mask
elif past_key_value is not None:
key_layer = self.transpose_for_scores(self.key(hidden_states))
value_layer = self.transpose_for_scores(self.value(hidden_states))
key_layer = torch.cat([past_key_value[0], key_layer], dim=2)
value_layer = torch.cat([past_key_value[1], value_layer], dim=2)
else:
key_layer = self.transpose_for_scores(self.key(hidden_states))
value_layer = self.transpose_for_scores(self.value(hidden_states))
query_layer = self.transpose_for_scores(mixed_query_layer)
if self.is_decoder:
# if cross_attention save Tuple(torch.Tensor, torch.Tensor) of all cross attention key/value_states.
# Further calls to cross_attention layer can then reuse all cross-attention
# key/value_states (first "if" case)
# if uni-directional self-attention (decoder) save Tuple(torch.Tensor, torch.Tensor) of
# all previous decoder key/value_states. Further calls to uni-directional self-attention
# can concat previous decoder key/value_states to current projected key/value_states (third "elif" case)
# if encoder bi-directional self-attention `past_key_value` is always `None`
past_key_value = (key_layer, value_layer)
# Take the dot product between "query" and "key" to get the raw attention scores.
attention_scores = torch.matmul(query_layer, key_layer.transpose(-1, -2))
attention_scores = attention_scores / math.sqrt(self.attention_head_size)
if attention_mask is not None:
# Apply the attention mask is (precomputed for all layers in BigBirdModel forward() function)
attention_scores = attention_scores + attention_mask
# Normalize the attention scores to probabilities.
attention_probs = nn.functional.softmax(attention_scores, dim=-1)
# This is actually dropping out entire tokens to attend to, which might
# seem a bit unusual, but is taken from the original Transformer paper.
attention_probs = self.dropout(attention_probs)
# Mask heads if we want to
if head_mask is not None:
attention_probs = attention_probs * head_mask
context_layer = torch.matmul(attention_probs, value_layer)
context_layer = context_layer.permute(0, 2, 1, 3).contiguous()
new_context_layer_shape = context_layer.size()[:-2] + (self.all_head_size,)
context_layer = context_layer.view(*new_context_layer_shape)
outputs = (context_layer, attention_probs) if output_attentions else (context_layer,)
if self.is_decoder:
outputs = outputs + (past_key_value,)
return outputs
class BigBirdBlockSparseAttention(nn.Module):
def __init__(self, config, seed=None):
super().__init__()
self.max_seqlen = config.max_position_embeddings
self.seed = seed
if config.hidden_size % config.num_attention_heads != 0:
raise ValueError(
f"The hidden size {config.hidden_size} is not a multiple of the number of attention "
f"heads {config.num_attention_heads}."
)
self.num_attention_heads = config.num_attention_heads
self.num_random_blocks = config.num_random_blocks
self.block_size = config.block_size
self.attention_head_size = int(config.hidden_size / config.num_attention_heads)
self.all_head_size = self.num_attention_heads * self.attention_head_size
self.query = nn.Linear(config.hidden_size, self.all_head_size, bias=config.use_bias)
self.key = nn.Linear(config.hidden_size, self.all_head_size, bias=config.use_bias)
self.value = nn.Linear(config.hidden_size, self.all_head_size, bias=config.use_bias)
def transpose_for_scores(self, x):
new_x_shape = x.size()[:-1] + (self.num_attention_heads, self.attention_head_size)
x = x.view(*new_x_shape)
return x.permute(0, 2, 1, 3)
def forward(
self,
hidden_states,
band_mask=None,
from_mask=None,
to_mask=None,
from_blocked_mask=None,
to_blocked_mask=None,
output_attentions=None,
):
# Currently this `class` can't be used in decoder.
batch_size, seqlen, _ = hidden_states.size()
to_seq_length = from_seq_length = seqlen
from_block_size = to_block_size = self.block_size
if from_seq_length % from_block_size != 0:
raise ValueError("Query sided sequence length must be multiple of block size")
if to_seq_length % to_block_size != 0:
raise ValueError("Key/Value sided sequence length must be multiple of block size")
query_layer = self.transpose_for_scores(self.query(hidden_states))
key_layer = self.transpose_for_scores(self.key(hidden_states))
value_layer = self.transpose_for_scores(self.value(hidden_states))
context_layer, attention_probs = self.bigbird_block_sparse_attention(
query_layer,
key_layer,
value_layer,
band_mask,
from_mask,
to_mask,
from_blocked_mask,
to_blocked_mask,
self.num_attention_heads,
self.num_random_blocks,
self.attention_head_size,
from_block_size,
to_block_size,
batch_size,
from_seq_length,
to_seq_length,
seed=self.seed,
plan_from_length=None,
plan_num_rand_blocks=None,
output_attentions=output_attentions,
)
context_layer = context_layer.contiguous().view(batch_size, from_seq_length, -1)
outputs = (context_layer, attention_probs) if output_attentions else (context_layer,)
return outputs
@staticmethod
def torch_bmm_nd(inp_1, inp_2, ndim=None):
"""Fast nd matrix multiplication"""
# faster replacement of torch.einsum ("bhqk,bhkd->bhqd")
return torch.bmm(inp_1.reshape((-1,) + inp_1.shape[-2:]), inp_2.reshape((-1,) + inp_2.shape[-2:])).view(
inp_1.shape[: ndim - 2] + (inp_1.shape[ndim - 2], inp_2.shape[ndim - 1])
)
@staticmethod
def torch_bmm_nd_transpose(inp_1, inp_2, ndim=None):
"""Fast nd matrix multiplication with transpose"""
# faster replacement of torch.einsum (bhqd,bhkd->bhqk)
return torch.bmm(
inp_1.reshape((-1,) + inp_1.shape[-2:]), inp_2.reshape((-1,) + inp_2.shape[-2:]).transpose(1, 2)
).view(inp_1.shape[: ndim - 2] + (inp_1.shape[ndim - 2], inp_2.shape[ndim - 2]))
def bigbird_block_sparse_attention(
self,
query_layer,
key_layer,
value_layer,
band_mask,
from_mask,
to_mask,
from_blocked_mask,
to_blocked_mask,
n_heads,
n_rand_blocks,
attention_head_size,
from_block_size,
to_block_size,
batch_size,
from_seq_len,
to_seq_len,
seed,
plan_from_length,
plan_num_rand_blocks,
output_attentions,
):
# BigBird block-sparse attention as suggested in paper
# ITC:
# global tokens: 2 x block_size
# window tokens: 3 x block_size
# random tokens: num_rand_tokens x block_size
# ETC:
# global tokens: extra_globals_tokens + 2 x block_size
# window tokens: 3 x block_size
# random tokens: num_rand_tokens x block_size
# Note:
# 1) Currently, ETC is not supported.
# 2) Window size is fixed to 3 blocks & it can be changed only by
# changing `block_size`.
# 3) Number of global blocks are fixed (2 blocks here) & global tokens can be
# controlled only by `block_size`.
# attention is calculated separately for q[0], q[1], q[2:-2], q[-2], q[-1] in order to use special trick of shifting tokens (for calculating sliding attention)
# hence following code can be divided into 5 parts.
if from_seq_len // from_block_size != to_seq_len // to_block_size:
raise ValueError("Error the number of blocks needs to be same!")
rsqrt_d = 1 / math.sqrt(attention_head_size)
bsz = batch_size
attn_mask_penalty = -10000.0
# generate random attention and corresponding masks
np.random.seed(seed)
if from_seq_len in [1024, 3072, 4096]: # old plans used in paper
rand_attn = [
self._bigbird_block_rand_mask(
self.max_seqlen, self.max_seqlen, from_block_size, to_block_size, n_rand_blocks, last_idx=1024
)[: (from_seq_len // from_block_size - 2)]
for _ in range(n_heads)
]
else:
if plan_from_length is None:
plan_from_length, plan_num_rand_blocks = self._get_rand_attn_plan(
from_seq_len, from_block_size, n_rand_blocks
)
rand_attn = self._bigbird_block_rand_mask_with_head(
from_seq_length=from_seq_len,
to_seq_length=to_seq_len,
from_block_size=from_block_size,
to_block_size=to_block_size,
num_heads=n_heads,
plan_from_length=plan_from_length,
plan_num_rand_blocks=plan_num_rand_blocks,
)
rand_attn = np.stack(rand_attn, axis=0)
rand_attn = torch.tensor(rand_attn, device=query_layer.device, dtype=torch.long)
rand_attn.unsqueeze_(0)
rand_attn = torch.cat([rand_attn for _ in range(batch_size)], dim=0)
rand_mask = self._create_rand_mask_from_inputs(
from_blocked_mask, to_blocked_mask, rand_attn, n_heads, n_rand_blocks, bsz, from_seq_len, from_block_size
)
blocked_query_matrix = query_layer.view(bsz, n_heads, from_seq_len // from_block_size, from_block_size, -1)
blocked_key_matrix = key_layer.view(bsz, n_heads, to_seq_len // to_block_size, to_block_size, -1)
blocked_value_matrix = value_layer.view(bsz, n_heads, to_seq_len // to_block_size, to_block_size, -1)
# preparing block for randn attn
gathered_key = self.torch_gather_b2(blocked_key_matrix, rand_attn)
gathered_key = gathered_key.view(
bsz, n_heads, to_seq_len // to_block_size - 2, n_rand_blocks * to_block_size, -1
) # [bsz, n_heads, to_seq_len//to_block_size-2, n_rand_blocks, to_block_size, -1]
gathered_value = self.torch_gather_b2(blocked_value_matrix, rand_attn)
gathered_value = gathered_value.view(
bsz, n_heads, to_seq_len // to_block_size - 2, n_rand_blocks * to_block_size, -1
) # [bsz, n_heads, to_seq_len//to_block_size-2, n_rand_blocks, to_block_size, -1]
# 1st PART
# 1st block (global block) attention scores
# q[0] x (k[0], k[1], k[2], k[3], k[4] .... )
# [bsz, n_heads, from_block_size, -1] x [bsz, n_heads, to_seq_len, -1] ==> [bsz, n_heads, from_block_size, to_seq_len]
first_product = self.torch_bmm_nd_transpose(blocked_query_matrix[:, :, 0], key_layer, ndim=4)
first_product = first_product * rsqrt_d
first_product += (1.0 - to_mask) * attn_mask_penalty
first_attn_weights = nn.functional.softmax(
first_product, dim=-1
) # [bsz, n_heads, from_block_size, to_seq_len]
# [bsz, n_heads, from_block_size, to_seq_len] x [bsz, n_heads, to_seq_len, -1] ==> [bsz, n_heads, from_block_size, -1]
first_context_layer = self.torch_bmm_nd(first_attn_weights, value_layer, ndim=4)
first_context_layer.unsqueeze_(2)
# 2nd PART
# 2nd block attention scores
# q[1] x (sliding_keys, random_keys, global_keys)
# sliding key blocks -> 2nd, 3rd blocks
# global key blocks -> 1st block
second_key_mat = torch.cat(
[
blocked_key_matrix[:, :, 0],
blocked_key_matrix[:, :, 1],
blocked_key_matrix[:, :, 2],
blocked_key_matrix[:, :, -1],
gathered_key[:, :, 0],
],
dim=2,
) # [bsz, n_heads, (4+n_rand_blocks)*to_block_size, -1]
second_value_mat = torch.cat(
[
blocked_value_matrix[:, :, 0],
blocked_value_matrix[:, :, 1],
blocked_value_matrix[:, :, 2],
blocked_value_matrix[:, :, -1],
gathered_value[:, :, 0],
],
dim=2,
) # [bsz, n_heads, (4+n_rand_blocks)*to_block_size, -1]
# [bsz, n_heads, from_block_size, -1] x [bsz, n_heads, (4+n_rand_blocks)*to_block_size, -1] ==> [bsz, n_heads, from_block_size, (4+n_rand_blocks)*to_block_size]
second_product = self.torch_bmm_nd_transpose(blocked_query_matrix[:, :, 1], second_key_mat, ndim=4)
second_seq_pad = torch.cat(
[
to_mask[:, :, :, : 3 * to_block_size],
to_mask[:, :, :, -to_block_size:],
to_mask.new_ones([bsz, 1, 1, n_rand_blocks * to_block_size]),
],
dim=3,
)
second_rand_pad = torch.cat(
[
rand_mask.new_ones([bsz, n_heads, from_block_size, 4 * to_block_size]),
rand_mask[:, :, 0],
],
dim=3,
)
second_product = second_product * rsqrt_d
second_product += (1.0 - torch.minimum(second_seq_pad, second_rand_pad)) * attn_mask_penalty
second_attn_weights = nn.functional.softmax(
second_product, dim=-1
) # [bsz, n_heads, from_block_size, (4+n_rand_blocks)*to_block_size]
# [bsz, n_heads, from_block_size, (4+n_rand_blocks)*to_block_size] x [bsz, n_heads, (4+n_rand_blocks)*to_block_size, -1] ==> [bsz, n_heads, from_block_size, -1]
second_context_layer = self.torch_bmm_nd(second_attn_weights, second_value_mat, ndim=4)
second_context_layer.unsqueeze_(2)
# 3rd PART
# Middle blocks attention scores
# q[-2:2] x (sliding_keys, random_keys, global_keys)
# sliding attn is calculated using special trick of shifting tokens as discussed in paper
# random keys are generated by taking random indices as per `rand_attn`
# global keys -> 1st & last block
exp_blocked_key_matrix = torch.cat(
[blocked_key_matrix[:, :, 1:-3], blocked_key_matrix[:, :, 2:-2], blocked_key_matrix[:, :, 3:-1]], dim=3
) # [bsz, n_heads, from_seq_len//from_block_size-4, 3*to_block_size, -1]
exp_blocked_value_matrix = torch.cat(
[blocked_value_matrix[:, :, 1:-3], blocked_value_matrix[:, :, 2:-2], blocked_value_matrix[:, :, 3:-1]],
dim=3,
) # [bsz, n_heads, from_seq_len//from_block_size-4, 3*to_block_size, -1]
middle_query_matrix = blocked_query_matrix[:, :, 2:-2]
# sliding attention scores for q[-2:2]
# [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1] x [b, n_heads, from_seq_len//from_block_size-4, 3*to_block_size, -1]
inner_band_product = self.torch_bmm_nd_transpose(middle_query_matrix, exp_blocked_key_matrix, ndim=5)
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, 3*to_block_size]
inner_band_product = inner_band_product * rsqrt_d
# randn attention scores for q[-2:2]
# [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1] x [bsz, n_heads, from_seq_len//from_block_size-4, n_rand_blocks*to_block_size, -1]
rand_band_product = self.torch_bmm_nd_transpose(middle_query_matrix, gathered_key[:, :, 1:-1], ndim=5)
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, n_rand_blocks*to_block_size]
rand_band_product = rand_band_product * rsqrt_d
# Including 1st block (since it's global)
first_band_product = torch.einsum(
"bhlqd,bhkd->bhlqk", middle_query_matrix, blocked_key_matrix[:, :, 0]
) # [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1] x [bsz, n_heads, to_block_size, -1] ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, to_block_size]
first_band_product = first_band_product * rsqrt_d
# Including last block (since it's global)
last_band_product = torch.einsum(
"bhlqd,bhkd->bhlqk", middle_query_matrix, blocked_key_matrix[:, :, -1]
) # [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1] x [bsz, n_heads, to_block_size, -1] ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, to_block_size]
last_band_product = last_band_product * rsqrt_d
# masking padded tokens
inner_band_product += (1.0 - band_mask) * attn_mask_penalty
first_band_product += (1.0 - to_mask[:, :, :, :to_block_size].unsqueeze(3)) * attn_mask_penalty
last_band_product += (1.0 - to_mask[:, :, :, -to_block_size:].unsqueeze(3)) * attn_mask_penalty
rand_band_product += (1.0 - rand_mask[:, :, 1:-1]) * attn_mask_penalty
# completing attention scores matrix for all q[-2:2]
band_product = torch.cat(
[first_band_product, inner_band_product, rand_band_product, last_band_product], dim=-1
) # [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, (5+n_rand_blocks)*to_block_size]
# safely doing softmax since attention matrix is completed
attn_weights = nn.functional.softmax(
band_product, dim=-1
) # [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, (5+n_rand_blocks)*to_block_size]
# contribution of sliding keys
# [bsz, n_heads, m//from_block_size-4, from_block_size, 3*to_block_size] x [bsz, n_heads, from_seq_len//from_block_size-4, 3*to_block_size, -1]
context_layer = self.torch_bmm_nd(
attn_weights[:, :, :, :, to_block_size : 4 * to_block_size], exp_blocked_value_matrix, ndim=5
)
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1]
# adding contribution of random keys
# [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, n_rand_blocks*to_block_size] x [bsz, n_heads, from_seq_len//from_block_size-4, n_rand_blocks*to_block_size, -1]
context_layer += self.torch_bmm_nd(
attn_weights[:, :, :, :, 4 * to_block_size : -to_block_size], gathered_value[:, :, 1:-1], ndim=5
)
# ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1]
# adding contribution of global keys
context_layer += torch.einsum(
"bhlqk,bhkd->bhlqd", attn_weights[:, :, :, :, :to_block_size], blocked_value_matrix[:, :, 0]
) # [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, to_block_size] x [bsz, n_heads, to_block_size, -1] ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1]
context_layer += torch.einsum(
"bhlqk,bhkd->bhlqd", attn_weights[:, :, :, :, -to_block_size:], blocked_value_matrix[:, :, -1]
) # [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, to_block_size] x [bsz, n_heads, to_block_size, -1] ==> [bsz, n_heads, from_seq_len//from_block_size-4, from_block_size, -1]
# 4th PART
# last 2nd token attention scores
# q[-2] x (sliding_keys, random_keys, global_keys)
# sliding key blocks -> last 3 blocks
# global key block -> 1st block
# random key block -> based on indices stored in `randn_attn`
second_last_key_mat = torch.cat(
[
blocked_key_matrix[:, :, 0],
blocked_key_matrix[:, :, -3],
blocked_key_matrix[:, :, -2],
blocked_key_matrix[:, :, -1],
gathered_key[:, :, -1],
],
dim=2,
) # [bsz, n_heads, (4+n_random_blocks)*to_block_size, -1]
second_last_value_mat = torch.cat(
[
blocked_value_matrix[:, :, 0],
blocked_value_matrix[:, :, -3],
blocked_value_matrix[:, :, -2],
blocked_value_matrix[:, :, -1],
gathered_value[:, :, -1],
],
dim=2,
) # [bsz, n_heads, (4+r)*to_block_size, -1]
# [bsz, n_heads, from_block_size, -1] x [bsz, n_heads, (4+n_rand_blocks)*to_block_size, -1] ==> [bsz, n_heads, from_block_size, (4+n_rand_blocks)*to_block_size]
second_last_product = self.torch_bmm_nd_transpose(blocked_query_matrix[:, :, -2], second_last_key_mat, ndim=4)
second_last_seq_pad = torch.cat(
[
to_mask[:, :, :, :to_block_size],
to_mask[:, :, :, -3 * to_block_size :],
to_mask.new_ones([bsz, 1, 1, n_rand_blocks * to_block_size]),
],
dim=3,
)
second_last_rand_pad = torch.cat(
[
rand_mask.new_ones([bsz, n_heads, from_block_size, 4 * to_block_size]),
rand_mask[:, :, -1],
],
dim=3,
)
second_last_product = second_last_product * rsqrt_d
second_last_product += (1.0 - torch.minimum(second_last_seq_pad, second_last_rand_pad)) * attn_mask_penalty
second_last_attn_weights = nn.functional.softmax(
second_last_product, dim=-1
) # [bsz, n_heads, from_block_size, (4+n_rand_blocks)*to_block_size]
# [bsz, n_heads, from_block_size, (4+n_rand_blocks)*to_block_size] x [bsz, n_heads, (4+n_rand_blocks)*to_block_size, -1] ==> [bsz, n_heads, from_block_size, -1]
second_last_context_layer = self.torch_bmm_nd(second_last_attn_weights, second_last_value_mat, ndim=4)
second_last_context_layer.unsqueeze_(2)
# 5th PART
# last block (global) attention scores
# q[-1] x (k[0], k[1], k[2], k[3], .... )
# [bsz, n_heads, from_block_size, -1] x [bsz, n_heads, to_seq_len, -1] ==> [bsz, n_heads, from_block_size, to_seq_len]
last_product = self.torch_bmm_nd_transpose(blocked_query_matrix[:, :, -1], key_layer, ndim=4)
last_product = last_product * rsqrt_d
last_product += (1.0 - to_mask) * attn_mask_penalty
last_attn_weights = nn.functional.softmax(last_product, dim=-1) # [bsz, n_heads, from_block_size, n]
# [bsz, n_heads, from_block_size, to_seq_len] x [bsz, n_heads, to_seq_len, -1] ==> [bsz, n_heads, from_block_size, -1]
last_context_layer = self.torch_bmm_nd(last_attn_weights, value_layer, ndim=4)
last_context_layer.unsqueeze_(2)
# combining representations of all tokens
context_layer = torch.cat(
[first_context_layer, second_context_layer, context_layer, second_last_context_layer, last_context_layer],
dim=2,
)
context_layer = context_layer.view((bsz, n_heads, from_seq_len, -1)) * from_mask
context_layer = torch.transpose(context_layer, 1, 2)
# this is just for visualizing; forward pass doesn't depend on following code
if output_attentions:
# TODO(PVP): need to verify if below code is correct
attention_probs = torch.zeros(
bsz, n_heads, from_seq_len, to_seq_len, dtype=torch.float, device=context_layer.device
)
# 1st query block
# corresponding to `first_context_layer`
attention_probs[:, :, :from_block_size, :] = first_attn_weights # all keys global
# 2nd query block
# corresponding to `second_context_layer`
attention_probs[:, :, from_block_size : 2 * from_block_size, : 3 * to_block_size] = second_attn_weights[
:, :, :, : 3 * to_block_size
] # 1st three key blocks (global + sliding)
attention_probs[:, :, from_block_size : 2 * from_block_size, -to_block_size:] = second_attn_weights[
:, :, :, 3 * to_block_size : 4 * to_block_size
] # last key block (global)
# random keys
for p1, i1, w1 in zip(range(bsz), rand_attn, second_attn_weights):
# p1, i1, w1 corresponds to batch_dim i.e. following operation is done for each sequence in batch
for p2, i2, w2 in zip(range(n_heads), i1, w1):
# p2, i2, w2 corresponds to head_dim i.e. following operation is done for each heads
attn_probs_view = attention_probs.view(
bsz,
n_heads,
from_seq_len // from_block_size,
from_block_size,
to_seq_len // to_block_size,
to_block_size,
)
right_slice = w2[:, 4 * to_block_size :]
attn_probs_view[p1, p2, 1, :, i2[0]] = right_slice.view(
from_block_size, n_rand_blocks, to_block_size
)
# Middle query blocks
# corresponding to `context_layer`
# sliding keys
for q_idx in range(from_seq_len // from_block_size - 4):
attn_probs_view = attention_probs.view(
bsz,
n_heads,
from_seq_len // from_block_size,
from_block_size,
to_seq_len // to_block_size,
to_block_size,
)[:, :, 2:-2, :, 1:-1, :]
right_slice = attn_weights[:, :, q_idx, :, to_block_size : 4 * to_block_size]
attn_probs_view[:, :, q_idx, :, q_idx : q_idx + 3, :] = right_slice.view(
bsz, n_heads, from_block_size, 3, to_block_size
) # inner_band_product
# global keys (corresponding to 1st key block)
attention_probs[:, :, 2 * from_block_size : -2 * from_block_size, :to_block_size] = attn_weights[
:, :, :, :, :to_block_size
].view(
bsz, n_heads, -1, to_block_size
) # first_band_product
# global keys (corresponding to last key block)
attention_probs[:, :, 2 * from_block_size : -2 * from_block_size, -to_block_size:] = attn_weights[
:, :, :, :, -to_block_size:
].view(
bsz, n_heads, -1, to_block_size
) # last_band_product
# random keys
for p1, i1, w1 in zip(range(bsz), rand_attn, attn_weights):
# p1, i1, w1 corresponds to batch_dim i.e. following operation is done for each sequence in batch
for p2, i2, w2 in zip(range(n_heads), i1, w1):
# p2, i2, w2 corresponds to head_dim i.e. following operation is done for each heads
for q_idx in range(1, len(i2) - 1):
attn_probs_view = attention_probs.view(
bsz,
n_heads,
from_seq_len // from_block_size,
from_block_size,
to_seq_len // to_block_size,
to_block_size,
)
right_slice = w2[q_idx - 1, :, 4 * to_block_size : -to_block_size]
attn_probs_view[p1, p2, q_idx + 1, :, i2[q_idx]] = right_slice.view(
from_block_size, n_rand_blocks, to_block_size
)
# Second-last query block
# corresponding to `second_last_context_layer`
attention_probs[:, :, -2 * from_block_size : -from_block_size, :to_block_size] = second_last_attn_weights[
:, :, :, :to_block_size
] # 1st key block (global)
attention_probs[
:, :, -2 * from_block_size : -from_block_size, -3 * to_block_size :
] = second_last_attn_weights[
:, :, :, to_block_size : 4 * to_block_size
] # last three blocks (global + sliding)
# random keys
for p1, i1, w1 in zip(range(bsz), rand_attn, second_last_attn_weights):
# p1, i1, w1 corresponds to batch_dim i.e. following operation is done for each sequence in batch
for p2, i2, w2 in zip(range(n_heads), i1, w1):
# p2, i2, w2 corresponds to head_dim i.e. following operation is done for each heads
attn_probs_view = attention_probs.view(
bsz,
n_heads,
from_seq_len // from_block_size,
from_block_size,
to_seq_len // to_block_size,
to_block_size,
)
right_slice = w2[:, 4 * to_block_size :]
attn_probs_view[p1, p2, -2, :, i2[-1]] = right_slice.view(
from_block_size, n_rand_blocks, to_block_size
)
# last query block
# corresponding to `last_context_layer`
attention_probs[:, :, -from_block_size:, :] = last_attn_weights # all keys global
else:
attention_probs = None
return context_layer, attention_probs
@staticmethod
def torch_gather_b2(params, indices):
# this operation is equivalent to tf.gather when batch_dims=2
if params.shape[:2] != indices.shape[:2]:
raise ValueError(
"Make sure that the first two dimensions of params and indices are identical, but"
f" they are params: {params.shape[:2]} vs. indices: {indices.shape[:2]}"
)
num_indices_to_gather = indices.shape[-2] * indices.shape[-1]
num_indices_to_pick_from = params.shape[2]
shift = torch.arange(indices.shape[0] * indices.shape[1] * num_indices_to_gather, device=indices.device)
indices_shift = torch.div(shift, num_indices_to_gather, rounding_mode="floor") * num_indices_to_pick_from
flattened_indices = indices.view(-1) + indices_shift
flattened_params = params.reshape(-1, params.shape[-2], params.shape[-1])
out_flattened = flattened_params.index_select(0, flattened_indices)
out = out_flattened.reshape(params.shape[:2] + (num_indices_to_gather,) + params.shape[3:])
return out
@staticmethod
def _create_rand_mask_from_inputs(
from_blocked_mask,
to_blocked_mask,
rand_attn,
num_attention_heads,
num_rand_blocks,
batch_size,
from_seq_length,
from_block_size,
):
"""
Create 3D attention mask from a 2D tensor mask.
Args:
from_blocked_mask: 2D Tensor of shape [batch_size,
from_seq_length//from_block_size, from_block_size].
to_blocked_mask: int32 Tensor of shape [batch_size,
to_seq_length//to_block_size, to_block_size].
rand_attn: [batch_size, num_attention_heads,
from_seq_length//from_block_size-2, num_rand_blocks]
num_attention_heads: int. Number of attention heads.
num_rand_blocks: int. Number of random chunks per row.
batch_size: int. Batch size for computation.
from_seq_length: int. length of from sequence.
from_block_size: int. size of block in from sequence.
Returns:
float Tensor of shape [batch_size, num_attention_heads, from_seq_length//from_block_size-2,
from_block_size, num_rand_blocks*to_block_size].
"""
num_windows = from_seq_length // from_block_size - 2
rand_mask = torch.stack([p1[i1.flatten()] for p1, i1 in zip(to_blocked_mask, rand_attn)])
rand_mask = rand_mask.view(batch_size, num_attention_heads, num_windows, num_rand_blocks * from_block_size)
rand_mask = torch.einsum("blq,bhlk->bhlqk", from_blocked_mask[:, 1:-1], rand_mask)
return rand_mask
@staticmethod
def _get_rand_attn_plan(from_seq_length, from_block_size, num_rand_blocks):
"""
Gives the plan of where to put random attention.
Args:
from_seq_length: int. length of from sequence.
from_block_size: int. size of block in from sequence.
num_rand_blocks: int. Number of random chunks per row.
Returns:
plan_from_length: ending location of from block plan_num_rand_blocks: number of random ending location for
each block
"""
plan_from_length = []
plan_num_rand_blocks = []
if (2 * num_rand_blocks + 5) < (from_seq_length // from_block_size):
plan_from_length.append(int((2 * num_rand_blocks + 5) * from_block_size))
plan_num_rand_blocks.append(num_rand_blocks)
plan_from_length.append(from_seq_length)
plan_num_rand_blocks.append(0)
elif (num_rand_blocks + 5) < (from_seq_length // from_block_size):
plan_from_length.append(int((num_rand_blocks + 5) * from_block_size))
plan_num_rand_blocks.append(num_rand_blocks // 2)
plan_from_length.append(from_seq_length)
plan_num_rand_blocks.append(num_rand_blocks - (num_rand_blocks // 2))
else:
plan_from_length.append(from_seq_length)
plan_num_rand_blocks.append(num_rand_blocks)
return plan_from_length, plan_num_rand_blocks
def _bigbird_block_rand_mask(
self, from_seq_length, to_seq_length, from_block_size, to_block_size, num_rand_blocks, last_idx=-1
):
"""
Create adjacency list of random attention.
Args:
from_seq_length: int. length of from sequence.
to_seq_length: int. length of to sequence.
from_block_size: int. size of block in from sequence.
to_block_size: int. size of block in to sequence.
num_rand_blocks: int. Number of random chunks per row.
last_idx: if -1 then num_rand_blocks blocks chosen anywhere in to sequence,
if positive then num_rand_blocks blocks chosen only up to last_idx.
Returns:
adjacency list of size from_seq_length//from_block_size-2 by num_rand_blocks
"""
# using this method when from_seq_length in [1024, 3072, 4096]
if from_seq_length // from_block_size != to_seq_length // to_block_size:
raise ValueError("Error the number of blocks needs to be same!")
rand_attn = np.zeros((from_seq_length // from_block_size - 2, num_rand_blocks), dtype=np.int32)
# During inference (eval) no randomness
if not self.training:
return rand_attn
middle_seq = np.arange(1, to_seq_length // to_block_size - 1, dtype=np.int32)
last = to_seq_length // to_block_size - 1
if last_idx > (2 * to_block_size):
last = (last_idx // to_block_size) - 1
r = num_rand_blocks # shorthand
for i in range(1, from_seq_length // from_block_size - 1):
start = i - 2
end = i
if i == 1:
rand_attn[i - 1, :] = np.random.permutation(middle_seq[2:last])[:r]
elif i == 2:
rand_attn[i - 1, :] = np.random.permutation(middle_seq[3:last])[:r]
elif i == from_seq_length // from_block_size - 3:
rand_attn[i - 1, :] = np.random.permutation(middle_seq[:last])[:r]
# Missing -3: should have been sliced till last-3
elif i == from_seq_length // from_block_size - 2:
rand_attn[i - 1, :] = np.random.permutation(middle_seq[:last])[:r]
# Missing -4: should have been sliced till last-4
else:
if start > last:
start = last
rand_attn[i - 1, :] = np.random.permutation(middle_seq[:start])[:r]
elif (end + 1) == last:
rand_attn[i - 1, :] = np.random.permutation(middle_seq[:start])[:r]
else:
rand_attn[i - 1, :] = np.random.permutation(
np.concatenate((middle_seq[:start], middle_seq[end + 1 : last]))
)[:r]
return rand_attn
def _bigbird_block_rand_mask_with_head(
self,
from_seq_length,
to_seq_length,
from_block_size,
to_block_size,
num_heads,
plan_from_length,
plan_num_rand_blocks,
window_block_left=1,
window_block_right=1,
global_block_top=1,
global_block_bottom=1,
global_block_left=1,
global_block_right=1,
):
"""
Create adjacency list of random attention.
Args:
from_seq_length: int. length of from sequence.
to_seq_length: int. length of to sequence.
from_block_size: int. size of block in from sequence.
to_block_size: int. size of block in to sequence.
num_heads: int. total number of heads.
plan_from_length: list. plan from length where num_random_blocks are chosen from.
plan_num_rand_blocks: list. number of rand blocks within the plan.
window_block_left: int. number of blocks of window to left of a block.
window_block_right: int. number of blocks of window to right of a block.
global_block_top: int. number of blocks at the top.
global_block_bottom: int. number of blocks at the bottom.
global_block_left: int. Number of blocks globally used to the left.
global_block_right: int. Number of blocks globally used to the right.
Returns:
adjacency list of size num_head where each element is of size from_seq_length//from_block_size-2 by
num_rand_blocks
"""
# using this method when from_seq_length not in [1024, 3072, 4096]
if from_seq_length // from_block_size != to_seq_length // to_block_size:
raise ValueError("Error the number of blocks needs to be same!")
if from_seq_length not in plan_from_length:
raise ValueError("Error from sequence length not in plan!")
# Total number of blocks in the mmask
num_blocks = from_seq_length // from_block_size
# Number of blocks per plan
plan_block_length = np.array(plan_from_length) // from_block_size
# till when to follow plan
max_plan_idx = plan_from_length.index(from_seq_length)
# Random Attention adjacency list
rand_attn = [
np.zeros((num_blocks, np.sum(plan_num_rand_blocks[: max_plan_idx + 1])), dtype=np.int32)
for i in range(num_heads)
]
# During inference (eval) no randomness
if not self.training:
for nh in range(num_heads):
rand_attn[nh] = rand_attn[nh][global_block_top : num_blocks - global_block_bottom, :]
return rand_attn
# We will go iteratively over the plan blocks and pick random number of
# Attention blocks from the legally allowed blocks
for plan_idx in range(max_plan_idx + 1):
rnd_r_cnt = 0
if plan_idx > 0:
# set the row for all from_blocks starting from 0 to
# plan_block_length[plan_idx-1]
# column indx start fromm plan_block_length[plan_idx-1] and ends at
# plan_block_length[plan_idx]
if plan_num_rand_blocks[plan_idx] > 0:
rnd_r_cnt = int(np.sum(plan_num_rand_blocks[:plan_idx]))
curr_r_cnt = int(np.sum(plan_num_rand_blocks[: plan_idx + 1]))
for blk_rw_idx in range(global_block_top, plan_block_length[plan_idx - 1]):
for h in range(num_heads):
rand_attn[h][blk_rw_idx, rnd_r_cnt:curr_r_cnt] = self._get_single_block_row_attention(
block_id=blk_rw_idx,
to_start_block_id=plan_block_length[plan_idx - 1],
to_end_block_id=plan_block_length[plan_idx],
num_rand_blocks=plan_num_rand_blocks[plan_idx],
window_block_left=window_block_left,
window_block_right=window_block_right,
global_block_left=global_block_left,
global_block_right=global_block_right,
)
for pl_id in range(plan_idx):
if plan_num_rand_blocks[pl_id] == 0:
continue
for blk_rw_idx in range(plan_block_length[plan_idx - 1], plan_block_length[plan_idx]):
rnd_r_cnt = 0
to_start_block_id = 0
if pl_id > 0:
rnd_r_cnt = int(np.sum(plan_num_rand_blocks[:pl_id]))
to_start_block_id = plan_block_length[pl_id - 1]
curr_r_cnt = int(np.sum(plan_num_rand_blocks[: pl_id + 1]))
for h in range(num_heads):
rand_attn[h][blk_rw_idx, rnd_r_cnt:curr_r_cnt] = self._get_single_block_row_attention(
block_id=blk_rw_idx,
to_start_block_id=to_start_block_id,
to_end_block_id=plan_block_length[pl_id],
num_rand_blocks=plan_num_rand_blocks[pl_id],
window_block_left=window_block_left,
window_block_right=window_block_right,
global_block_left=global_block_left,
global_block_right=global_block_right,
)
if plan_num_rand_blocks[plan_idx] == 0:
continue
curr_r_cnt = int(np.sum(plan_num_rand_blocks[: plan_idx + 1]))
from_start_block_id = global_block_top
to_start_block_id = 0
if plan_idx > 0:
rnd_r_cnt = int(np.sum(plan_num_rand_blocks[:plan_idx]))
from_start_block_id = plan_block_length[plan_idx - 1]
to_start_block_id = plan_block_length[plan_idx - 1]
for blk_rw_idx in range(from_start_block_id, plan_block_length[plan_idx]):
for h in range(num_heads):
rand_attn[h][blk_rw_idx, rnd_r_cnt:curr_r_cnt] = self._get_single_block_row_attention(
block_id=blk_rw_idx,
to_start_block_id=to_start_block_id,
to_end_block_id=plan_block_length[plan_idx],
num_rand_blocks=plan_num_rand_blocks[plan_idx],
window_block_left=window_block_left,
window_block_right=window_block_right,
global_block_left=global_block_left,
global_block_right=global_block_right,
)
for nh in range(num_heads):
rand_attn[nh] = rand_attn[nh][global_block_top : num_blocks - global_block_bottom, :]
return rand_attn
@staticmethod
def _get_single_block_row_attention(
block_id,
to_start_block_id,
to_end_block_id,
num_rand_blocks,
window_block_left=1,
window_block_right=1,
global_block_left=1,
global_block_right=1,
):
"""
For a single row block get random row attention.
Args:
block_id: int. block id of row.
to_start_block_id: int. random attention column start id.
to_end_block_id: int. random attention column end id.
num_rand_blocks: int. number of random blocks to be selected.
window_block_left: int. number of blocks of window to left of a block.
window_block_right: int. number of blocks of window to right of a block.
global_block_left: int. Number of blocks globally used to the left.
global_block_right: int. Number of blocks globally used to the right.
Returns:
row containing the random attention vector of size num_rand_blocks.
"""
# list of to_blocks from which to choose random attention
to_block_list = np.arange(to_start_block_id, to_end_block_id, dtype=np.int32)
# permute the blocks
perm_block = np.random.permutation(to_block_list)
# illegal blocks for the current block id, using window
illegal_blocks = list(range(block_id - window_block_left, block_id + window_block_right + 1))
# Add blocks at the start and at the end
illegal_blocks.extend(list(range(global_block_left)))
illegal_blocks.extend(list(range(to_end_block_id - global_block_right, to_end_block_id)))
# The second from_block cannot choose random attention on second last to_block
if block_id == 1:
illegal_blocks.append(to_end_block_id - 2)
# The second last from_block cannot choose random attention on second to_block
if block_id == to_end_block_id - 2:
illegal_blocks.append(1)
selected_random_blokcs = []
for i in range(to_end_block_id - to_start_block_id):
if perm_block[i] not in illegal_blocks:
selected_random_blokcs.append(perm_block[i])
if len(selected_random_blokcs) == num_rand_blocks:
break
return np.array(selected_random_blokcs, dtype=np.int32)
# Copied from transformers.models.bert.modeling_bert.BertSelfOutput with Bert->BigBird
class BigBirdSelfOutput(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.hidden_size)
self.LayerNorm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
def forward(self, hidden_states: torch.Tensor, input_tensor: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states)
hidden_states = self.LayerNorm(hidden_states + input_tensor)
return hidden_states
class BigBirdAttention(nn.Module):
def __init__(self, config, seed=None):
super().__init__()
self.attention_type = config.attention_type
self.config = config
self.seed = seed
if self.config.attention_type == "original_full":
self.self = BigBirdSelfAttention(config)
elif self.config.attention_type == "block_sparse":
self.self = BigBirdBlockSparseAttention(config, seed)
else:
raise ValueError(
f"attention_type can either be original_full or block_sparse, but is {self.config.attention_type}"
)
self.output = BigBirdSelfOutput(config)
def set_attention_type(self, value: str):
if value not in ["original_full", "block_sparse"]:
raise ValueError(
f"attention_type can only be set to either 'original_full' or 'block_sparse', but is {value}"
)
# attention type is already correctly set
if value == self.attention_type:
return
self.attention_type = value
if value == "original_full":
# copy all weights to new full attention class
attn_weights = BigBirdSelfAttention(self.config)
else:
# copy all weights to new sparse attention class
attn_weights = BigBirdBlockSparseAttention(self.config, self.seed)
attn_weights.query = self.self.query
attn_weights.value = self.self.value
attn_weights.key = self.self.key
self.self = attn_weights
self.attention_type = value
if not self.training:
self.self.eval()
def forward(
self,
hidden_states,
attention_mask=None,
head_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
past_key_value=None,
output_attentions=False,
# block_sparse config
band_mask=None,
from_mask=None,
to_mask=None,
from_blocked_mask=None,
to_blocked_mask=None,
):
# fp16 compatibility
if band_mask is not None:
band_mask = band_mask.to(hidden_states.dtype)
if from_mask is not None:
from_mask = from_mask.to(hidden_states.dtype)
if to_mask is not None:
to_mask = to_mask.to(hidden_states.dtype)
if self.attention_type == "original_full":
self_outputs = self.self(
hidden_states,
attention_mask,
head_mask,
encoder_hidden_states,
encoder_attention_mask,
past_key_value,
output_attentions,
)
else:
if encoder_hidden_states is not None:
raise ValueError("BigBird cannot be used as a decoder when config.attention_type != 'original_full'")
self_outputs = self.self(
hidden_states, band_mask, from_mask, to_mask, from_blocked_mask, to_blocked_mask, output_attentions
)
attention_output = self.output(self_outputs[0], hidden_states)
outputs = (attention_output,) + self_outputs[1:] # add attentions if we output them
return outputs
# Copied from transformers.models.bert.modeling_bert.BertIntermediate with Bert->BigBird
class BigBirdIntermediate(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.intermediate_size)
if isinstance(config.hidden_act, str):
self.intermediate_act_fn = ACT2FN[config.hidden_act]
else:
self.intermediate_act_fn = config.hidden_act
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.intermediate_act_fn(hidden_states)
return hidden_states
# Copied from transformers.models.bert.modeling_bert.BertOutput with Bert->BigBird
class BigBirdOutput(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.intermediate_size, config.hidden_size)
self.LayerNorm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
def forward(self, hidden_states: torch.Tensor, input_tensor: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.dropout(hidden_states)
hidden_states = self.LayerNorm(hidden_states + input_tensor)
return hidden_states
class BigBirdLayer(nn.Module):
def __init__(self, config, seed=None):
super().__init__()
self.config = config
self.attention_type = config.attention_type
self.chunk_size_feed_forward = config.chunk_size_feed_forward
self.seq_len_dim = 1
self.attention = BigBirdAttention(config, seed=seed)
self.is_decoder = config.is_decoder
self.add_cross_attention = config.add_cross_attention
if self.add_cross_attention:
if not self.is_decoder:
raise TypeError(f"{self} should be used as a decoder model if cross attention is added")
self.crossattention = BigBirdAttention(config)
self.intermediate = BigBirdIntermediate(config)
self.output = BigBirdOutput(config)
def set_attention_type(self, value: str):
if value not in ["original_full", "block_sparse"]:
raise ValueError(
f"attention_type can only be set to either 'original_full' or 'block_sparse', but is {value}"
)
# attention type is already correctly set
if value == self.attention_type:
return
self.attention_type = value
self.attention.set_attention_type(value)
if self.add_cross_attention:
self.crossattention.set_attention_type(value)
def forward(
self,
hidden_states,
attention_mask=None,
head_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
band_mask=None,
from_mask=None,
to_mask=None,
blocked_encoder_mask=None,
past_key_value=None,
output_attentions=False,
):
# decoder uni-directional self-attention cached key/values tuple is at positions 1,2
self_attn_past_key_value = past_key_value[:2] if past_key_value is not None else None
self_attention_outputs = self.attention(
hidden_states,
attention_mask,
head_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
past_key_value=self_attn_past_key_value,
output_attentions=output_attentions,
band_mask=band_mask,
from_mask=from_mask,
to_mask=to_mask,
from_blocked_mask=blocked_encoder_mask,
to_blocked_mask=blocked_encoder_mask,
)
attention_output = self_attention_outputs[0]
# if decoder, the last output is tuple of self-attn cache
if self.is_decoder:
outputs = self_attention_outputs[1:-1]
present_key_value = self_attention_outputs[-1]
else:
outputs = self_attention_outputs[1:] # add self attentions if we output attention weights
cross_attn_present_key_value = None
if self.is_decoder and encoder_hidden_states is not None:
if not hasattr(self, "crossattention"):
raise ValueError(
f"If `encoder_hidden_states` are passed, {self} has to be instantiated with "
" cross-attention layers by setting `config.add_cross_attention=True`"
)
# cross_attn cached key/values tuple is at positions 3,4 of past_key_value tuple
cross_attn_past_key_value = past_key_value[-2:] if past_key_value is not None else None
cross_attention_outputs = self.crossattention(
attention_output,
attention_mask,
head_mask,
encoder_hidden_states,
encoder_attention_mask,
cross_attn_past_key_value,
output_attentions,
)
attention_output = cross_attention_outputs[0]
outputs = outputs + cross_attention_outputs[1:-1] # add cross attentions if we output attention weights
# add cross-attn cache to positions 3,4 of present_key_value tuple
cross_attn_present_key_value = cross_attention_outputs[-1]
present_key_value = present_key_value + cross_attn_present_key_value
layer_output = apply_chunking_to_forward(
self.feed_forward_chunk, self.chunk_size_feed_forward, self.seq_len_dim, attention_output
)
outputs = (layer_output,) + outputs
# if decoder, return the attn key/values as the last output
if self.is_decoder:
outputs = outputs + (present_key_value,)
return outputs
def feed_forward_chunk(self, attention_output):
intermediate_output = self.intermediate(attention_output)
layer_output = self.output(intermediate_output, attention_output)
return layer_output
class BigBirdEncoder(nn.Module):
def __init__(self, config):
super().__init__()
self.config = config
self.attention_type = config.attention_type
self.layer = nn.ModuleList(
[BigBirdLayer(config, seed=layer_idx) for layer_idx in range(config.num_hidden_layers)]
)
self.gradient_checkpointing = False
def set_attention_type(self, value: str):
if value not in ["original_full", "block_sparse"]:
raise ValueError(
f"attention_type can only be set to either 'original_full' or 'block_sparse', but is {value}"
)
# attention type is already correctly set
if value == self.attention_type:
return
self.attention_type = value
for layer in self.layer:
layer.set_attention_type(value)
def forward(
self,
hidden_states,
attention_mask=None,
head_mask=None,
encoder_hidden_states=None,
encoder_attention_mask=None,
past_key_values=None,
use_cache=None,
output_attentions=False,
output_hidden_states=False,
band_mask=None,
from_mask=None,
to_mask=None,
blocked_encoder_mask=None,
return_dict=True,
) -> Union[BaseModelOutputWithPastAndCrossAttentions, Tuple]:
all_hidden_states = () if output_hidden_states else None
all_self_attentions = () if output_attentions else None
all_cross_attentions = () if output_attentions and self.config.add_cross_attention else None
if self.gradient_checkpointing and self.training:
if use_cache:
logger.warning_once(
"`use_cache=True` is incompatible with gradient checkpointing. Setting `use_cache=False`..."
)
use_cache = False
next_decoder_cache = () if use_cache else None
for i, layer_module in enumerate(self.layer):
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
layer_head_mask = head_mask[i] if head_mask is not None else None
past_key_value = past_key_values[i] if past_key_values is not None else None
if self.gradient_checkpointing and self.training:
def create_custom_forward(module):
def custom_forward(*inputs):
return module(*inputs, past_key_value, output_attentions)
return custom_forward
layer_outputs = torch.utils.checkpoint.checkpoint(
create_custom_forward(layer_module),
hidden_states,
attention_mask,
layer_head_mask,
encoder_hidden_states,
encoder_attention_mask,
band_mask,
from_mask,
to_mask,
blocked_encoder_mask,
)
else:
layer_outputs = layer_module(
hidden_states,
attention_mask,
layer_head_mask,
encoder_hidden_states,
encoder_attention_mask,
band_mask,
from_mask,
to_mask,
blocked_encoder_mask,
past_key_value,
output_attentions,
)
hidden_states = layer_outputs[0]
if use_cache:
next_decoder_cache += (layer_outputs[-1],)
if output_attentions:
all_self_attentions = all_self_attentions + (layer_outputs[1],)
if self.config.add_cross_attention:
all_cross_attentions = all_cross_attentions + (layer_outputs[2],)
if output_hidden_states:
all_hidden_states = all_hidden_states + (hidden_states,)
if not return_dict:
return tuple(
v
for v in [
hidden_states,
next_decoder_cache,
all_hidden_states,
all_self_attentions,
all_cross_attentions,
]
if v is not None
)
return BaseModelOutputWithPastAndCrossAttentions(
last_hidden_state=hidden_states,
past_key_values=next_decoder_cache,
hidden_states=all_hidden_states,
attentions=all_self_attentions,
cross_attentions=all_cross_attentions,
)
# Copied from transformers.models.bert.modeling_bert.BertPredictionHeadTransform with Bert->BigBird
class BigBirdPredictionHeadTransform(nn.Module):
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.hidden_size)
if isinstance(config.hidden_act, str):
self.transform_act_fn = ACT2FN[config.hidden_act]
else:
self.transform_act_fn = config.hidden_act
self.LayerNorm = nn.LayerNorm(config.hidden_size, eps=config.layer_norm_eps)
def forward(self, hidden_states: torch.Tensor) -> torch.Tensor:
hidden_states = self.dense(hidden_states)
hidden_states = self.transform_act_fn(hidden_states)
hidden_states = self.LayerNorm(hidden_states)
return hidden_states
# Copied from transformers.models.bert.modeling_bert.BertLMPredictionHead with Bert->BigBird
class BigBirdLMPredictionHead(nn.Module):
def __init__(self, config):
super().__init__()
self.transform = BigBirdPredictionHeadTransform(config)
# The output weights are the same as the input embeddings, but there is
# an output-only bias for each token.
self.decoder = nn.Linear(config.hidden_size, config.vocab_size, bias=False)
self.bias = nn.Parameter(torch.zeros(config.vocab_size))
# Need a link between the two variables so that the bias is correctly resized with `resize_token_embeddings`
self.decoder.bias = self.bias
def forward(self, hidden_states):
hidden_states = self.transform(hidden_states)
hidden_states = self.decoder(hidden_states)
return hidden_states
# Copied from transformers.models.bert.modeling_bert.BertOnlyMLMHead with Bert->BigBird
class BigBirdOnlyMLMHead(nn.Module):
def __init__(self, config):
super().__init__()
self.predictions = BigBirdLMPredictionHead(config)
def forward(self, sequence_output: torch.Tensor) -> torch.Tensor:
prediction_scores = self.predictions(sequence_output)
return prediction_scores
# Copied from transformers.models.bert.modeling_bert.BertOnlyNSPHead with Bert->BigBird
class BigBirdOnlyNSPHead(nn.Module):
def __init__(self, config):
super().__init__()
self.seq_relationship = nn.Linear(config.hidden_size, 2)
def forward(self, pooled_output):
seq_relationship_score = self.seq_relationship(pooled_output)
return seq_relationship_score
# Copied from transformers.models.bert.modeling_bert.BertPreTrainingHeads with Bert->BigBird
class BigBirdPreTrainingHeads(nn.Module):
def __init__(self, config):
super().__init__()
self.predictions = BigBirdLMPredictionHead(config)
self.seq_relationship = nn.Linear(config.hidden_size, 2)
def forward(self, sequence_output, pooled_output):
prediction_scores = self.predictions(sequence_output)
seq_relationship_score = self.seq_relationship(pooled_output)
return prediction_scores, seq_relationship_score
class BigBirdPreTrainedModel(PreTrainedModel):
"""
An abstract class to handle weights initialization and a simple interface for downloading and loading pretrained
models.
"""
config_class = BigBirdConfig
load_tf_weights = load_tf_weights_in_big_bird
base_model_prefix = "bert"
supports_gradient_checkpointing = True
def _init_weights(self, module):
"""Initialize the weights"""
if isinstance(module, nn.Linear):
# Slightly different from the TF version which uses truncated_normal for initialization
# cf https://github.com/pytorch/pytorch/pull/5617
module.weight.data.normal_(mean=0.0, std=self.config.initializer_range)
if module.bias is not None:
module.bias.data.zero_()
elif isinstance(module, nn.Embedding):
module.weight.data.normal_(mean=0.0, std=self.config.initializer_range)
if module.padding_idx is not None:
module.weight.data[module.padding_idx].zero_()
elif isinstance(module, nn.LayerNorm):
module.bias.data.zero_()
module.weight.data.fill_(1.0)
def _set_gradient_checkpointing(self, module, value=False):
if isinstance(module, BigBirdEncoder):
module.gradient_checkpointing = value
BIG_BIRD_START_DOCSTRING = r"""
This model is a PyTorch [torch.nn.Module](https://pytorch.org/docs/stable/nn.html#torch.nn.Module) sub-class. Use
it as a regular PyTorch Module and refer to the PyTorch documentation for all matter related to general usage and
behavior.
Parameters:
config ([`BigBirdConfig`]): Model configuration class with all the parameters of the model.
Initializing with a config file does not load the weights associated with the model, only the
configuration. Check out the [`~PreTrainedModel.from_pretrained`] method to load the model weights.
"""
BIG_BIRD_INPUTS_DOCSTRING = r"""
Args:
input_ids (`torch.LongTensor` of shape `({0})`):
Indices of input sequence tokens in the vocabulary.
Indices can be obtained using [`AutoTokenizer`]. See [`PreTrainedTokenizer.encode`] and
[`PreTrainedTokenizer.__call__`] for details.
[What are input IDs?](../glossary#input-ids)
attention_mask (`torch.FloatTensor` of shape `({0})`, *optional*):
Mask to avoid performing attention on padding token indices. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
[What are attention masks?](../glossary#attention-mask)
token_type_ids (`torch.LongTensor` of shape `({0})`, *optional*):
Segment token indices to indicate first and second portions of the inputs. Indices are selected in `[0,
1]`:
- 0 corresponds to a *sentence A* token,
- 1 corresponds to a *sentence B* token.
[What are token type IDs?](../glossary#token-type-ids)
position_ids (`torch.LongTensor` of shape `({0})`, *optional*):
Indices of positions of each input sequence tokens in the position embeddings. Selected in the range `[0,
config.max_position_embeddings - 1]`.
[What are position IDs?](../glossary#position-ids)
head_mask (`torch.FloatTensor` of shape `(num_heads,)` or `(num_layers, num_heads)`, *optional*):
Mask to nullify selected heads of the self-attention modules. Mask values selected in `[0, 1]`:
- 1 indicates the head is **not masked**,
- 0 indicates the head is **masked**.
inputs_embeds (`torch.FloatTensor` of shape `({0}, hidden_size)`, *optional*):
Optionally, instead of passing `input_ids` you can choose to directly pass an embedded representation. This
is useful if you want more control over how to convert *input_ids* indices into associated vectors than the
model's internal embedding lookup matrix.
output_attentions (`bool`, *optional*):
Whether or not to return the attentions tensors of all attention layers. See `attentions` under returned
tensors for more detail.
output_hidden_states (`bool`, *optional*):
Whether or not to return the hidden states of all layers. See `hidden_states` under returned tensors for
more detail.
return_dict (`bool`, *optional*):
Whether or not to return a [`~utils.ModelOutput`] instead of a plain tuple.
"""
@dataclass
class BigBirdForPreTrainingOutput(ModelOutput):
"""
Output type of [`BigBirdForPreTraining`].
Args:
loss (*optional*, returned when `labels` is provided, `torch.FloatTensor` of shape `(1,)`):
Total loss as the sum of the masked language modeling loss and the next sequence prediction
(classification) loss.
prediction_logits (`torch.FloatTensor` of shape `(batch_size, sequence_length, config.vocab_size)`):
Prediction scores of the language modeling head (scores for each vocabulary token before SoftMax).
seq_relationship_logits (`torch.FloatTensor` of shape `(batch_size, 2)`):
Prediction scores of the next sequence prediction (classification) head (scores of True/False continuation
before SoftMax).
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
"""
loss: Optional[torch.FloatTensor] = None
prediction_logits: torch.FloatTensor = None
seq_relationship_logits: torch.FloatTensor = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
@dataclass
class BigBirdForQuestionAnsweringModelOutput(ModelOutput):
"""
Base class for outputs of question answering models.
Args:
loss (`torch.FloatTensor` of shape `(1,)`, *optional*, returned when `labels` is provided):
Total span extraction loss is the sum of a Cross-Entropy for the start and end positions.
start_logits (`torch.FloatTensor` of shape `(batch_size, sequence_length)`):
Span-start scores (before SoftMax).
end_logits (`torch.FloatTensor` of shape `(batch_size, sequence_length)`):
Span-end scores (before SoftMax).
pooler_output (`torch.FloatTensor` of shape `(batch_size, 1)`):
pooler output from BigBigModel
hidden_states (`tuple(torch.FloatTensor)`, *optional*, returned when `output_hidden_states=True` is passed or when `config.output_hidden_states=True`):
Tuple of `torch.FloatTensor` (one for the output of the embeddings + one for the output of each layer) of
shape `(batch_size, sequence_length, hidden_size)`.
Hidden-states of the model at the output of each layer plus the initial embedding outputs.
attentions (`tuple(torch.FloatTensor)`, *optional*, returned when `output_attentions=True` is passed or when `config.output_attentions=True`):
Tuple of `torch.FloatTensor` (one for each layer) of shape `(batch_size, num_heads, sequence_length,
sequence_length)`.
Attentions weights after the attention softmax, used to compute the weighted average in the self-attention
heads.
"""
loss: Optional[torch.FloatTensor] = None
start_logits: torch.FloatTensor = None
end_logits: torch.FloatTensor = None
pooler_output: torch.FloatTensor = None
hidden_states: Optional[Tuple[torch.FloatTensor]] = None
attentions: Optional[Tuple[torch.FloatTensor]] = None
@add_start_docstrings(
"The bare BigBird Model transformer outputting raw hidden-states without any specific head on top.",
BIG_BIRD_START_DOCSTRING,
)
class BigBirdModel(BigBirdPreTrainedModel):
"""
The model can behave as an encoder (with only self-attention) as well as a decoder, in which case a layer of
cross-attention is added between the self-attention layers, following the architecture described in [Attention is
all you need](https://arxiv.org/abs/1706.03762) by Ashish Vaswani, Noam Shazeer, Niki Parmar, Jakob Uszkoreit,
Llion Jones, Aidan N. Gomez, Lukasz Kaiser and Illia Polosukhin.
To behave as an decoder the model needs to be initialized with the `is_decoder` argument of the configuration set
to `True`. To be used in a Seq2Seq model, the model needs to initialized with both `is_decoder` argument and
`add_cross_attention` set to `True`; an `encoder_hidden_states` is then expected as an input to the forward pass.
"""
def __init__(self, config, add_pooling_layer=True):
super().__init__(config)
self.attention_type = self.config.attention_type
self.config = config
self.block_size = self.config.block_size
self.embeddings = BigBirdEmbeddings(config)
self.encoder = BigBirdEncoder(config)
if add_pooling_layer:
self.pooler = nn.Linear(config.hidden_size, config.hidden_size)
self.activation = nn.Tanh()
else:
self.pooler = None
self.activation = None
if self.attention_type != "original_full" and config.add_cross_attention:
logger.warning(
"When using `BigBirdForCausalLM` as decoder, then `attention_type` must be `original_full`. Setting"
" `attention_type=original_full`"
)
self.set_attention_type("original_full")
# Initialize weights and apply final processing
self.post_init()
def get_input_embeddings(self):
return self.embeddings.word_embeddings
def set_input_embeddings(self, value):
self.embeddings.word_embeddings = value
def set_attention_type(self, value: str):
if value not in ["original_full", "block_sparse"]:
raise ValueError(
f"attention_type can only be set to either 'original_full' or 'block_sparse', but is {value}"
)
# attention type is already correctly set
if value == self.attention_type:
return
self.attention_type = value
self.encoder.set_attention_type(value)
@add_start_docstrings_to_model_forward(BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=BaseModelOutputWithPoolingAndCrossAttentions,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.FloatTensor] = None,
token_type_ids: Optional[torch.LongTensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
encoder_hidden_states: Optional[torch.FloatTensor] = None,
encoder_attention_mask: Optional[torch.FloatTensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[BaseModelOutputWithPoolingAndCrossAttentions, Tuple[torch.FloatTensor]]:
r"""
encoder_hidden_states (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention if
the model is configured as a decoder.
encoder_attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on the padding token indices of the encoder input. This mask is used in
the cross-attention if the model is configured as a decoder. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
past_key_values (`tuple(tuple(torch.FloatTensor))` of length `config.n_layers` with each tuple having 4 tensors of shape `(batch_size, num_heads, sequence_length - 1, embed_size_per_head)`):
Contains precomputed key and value hidden states of the attention blocks. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
"""
output_attentions = output_attentions if output_attentions is not None else self.config.output_attentions
output_hidden_states = (
output_hidden_states if output_hidden_states is not None else self.config.output_hidden_states
)
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
if self.config.is_decoder:
use_cache = use_cache if use_cache is not None else self.config.use_cache
else:
use_cache = False
if input_ids is not None and inputs_embeds is not None:
raise ValueError("You cannot specify both input_ids and inputs_embeds at the same time")
elif input_ids is not None:
self.warn_if_padding_and_no_attention_mask(input_ids, attention_mask)
input_shape = input_ids.size()
elif inputs_embeds is not None:
input_shape = inputs_embeds.size()[:-1]
else:
raise ValueError("You have to specify either input_ids or inputs_embeds")
batch_size, seq_length = input_shape
device = input_ids.device if input_ids is not None else inputs_embeds.device
# past_key_values_length
past_key_values_length = past_key_values[0][0].shape[2] if past_key_values is not None else 0
if attention_mask is None:
attention_mask = torch.ones(((batch_size, seq_length + past_key_values_length)), device=device)
if token_type_ids is None:
if hasattr(self.embeddings, "token_type_ids"):
buffered_token_type_ids = self.embeddings.token_type_ids[:, :seq_length]
buffered_token_type_ids_expanded = buffered_token_type_ids.expand(batch_size, seq_length)
token_type_ids = buffered_token_type_ids_expanded
else:
token_type_ids = torch.zeros(input_shape, dtype=torch.long, device=device)
# in order to use block_sparse attention, sequence_length has to be at least
# bigger than all global attentions: 2 * block_size
# + sliding tokens: 3 * block_size
# + random tokens: 2 * num_random_blocks * block_size
max_tokens_to_attend = (5 + 2 * self.config.num_random_blocks) * self.config.block_size
if self.attention_type == "block_sparse" and seq_length <= max_tokens_to_attend:
# change attention_type from block_sparse to original_full
sequence_length = input_ids.size(1) if input_ids is not None else inputs_embeds.size(1)
logger.warning(
"Attention type 'block_sparse' is not possible if sequence_length: "
f"{sequence_length} <= num global tokens: 2 * config.block_size "
"+ min. num sliding tokens: 3 * config.block_size "
"+ config.num_random_blocks * config.block_size "
"+ additional buffer: config.num_random_blocks * config.block_size "
f"= {max_tokens_to_attend} with config.block_size "
f"= {self.config.block_size}, config.num_random_blocks "
f"= {self.config.num_random_blocks}. "
"Changing attention type to 'original_full'..."
)
self.set_attention_type("original_full")
if self.attention_type == "block_sparse":
(
padding_len,
input_ids,
attention_mask,
token_type_ids,
position_ids,
inputs_embeds,
) = self._pad_to_block_size(
input_ids=input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
inputs_embeds=inputs_embeds,
pad_token_id=self.config.pad_token_id,
)
else:
padding_len = 0
if self.attention_type == "block_sparse":
blocked_encoder_mask, band_mask, from_mask, to_mask = self.create_masks_for_block_sparse_attn(
attention_mask, self.block_size
)
extended_attention_mask = None
elif self.attention_type == "original_full":
blocked_encoder_mask = None
band_mask = None
from_mask = None
to_mask = None
# We can provide a self-attention mask of dimensions [batch_size, from_seq_length, to_seq_length]
# ourselves in which case we just need to make it broadcastable to all heads.
extended_attention_mask: torch.Tensor = self.get_extended_attention_mask(attention_mask, input_shape)
else:
raise ValueError(
f"attention_type can either be original_full or block_sparse, but is {self.attention_type}"
)
# If a 2D or 3D attention mask is provided for the cross-attention
# we need to make broadcastable to [batch_size, num_heads, seq_length, seq_length]
if self.config.is_decoder and encoder_hidden_states is not None:
encoder_batch_size, encoder_sequence_length, _ = encoder_hidden_states.size()
encoder_hidden_shape = (encoder_batch_size, encoder_sequence_length)
if encoder_attention_mask is None:
encoder_attention_mask = torch.ones(encoder_hidden_shape, device=device)
encoder_extended_attention_mask = self.invert_attention_mask(encoder_attention_mask)
else:
encoder_extended_attention_mask = None
# Prepare head mask if needed
# 1.0 in head_mask indicate we keep the head
# attention_probs has shape bsz x n_heads x N x N
# input head_mask has shape [num_heads] or [num_hidden_layers x num_heads]
# and head_mask is converted to shape [num_hidden_layers x batch x num_heads x seq_length x seq_length]
head_mask = self.get_head_mask(head_mask, self.config.num_hidden_layers)
embedding_output = self.embeddings(
input_ids=input_ids,
position_ids=position_ids,
token_type_ids=token_type_ids,
inputs_embeds=inputs_embeds,
past_key_values_length=past_key_values_length,
)
encoder_outputs = self.encoder(
embedding_output,
attention_mask=extended_attention_mask,
head_mask=head_mask,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_extended_attention_mask,
past_key_values=past_key_values,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
band_mask=band_mask,
from_mask=from_mask,
to_mask=to_mask,
blocked_encoder_mask=blocked_encoder_mask,
return_dict=return_dict,
)
sequence_output = encoder_outputs[0]
pooler_output = self.activation(self.pooler(sequence_output[:, 0, :])) if (self.pooler is not None) else None
# undo padding
if padding_len > 0:
# unpad `sequence_output` because the calling function is expecting a length == input_ids.size(1)
sequence_output = sequence_output[:, :-padding_len]
if not return_dict:
return (sequence_output, pooler_output) + encoder_outputs[1:]
return BaseModelOutputWithPoolingAndCrossAttentions(
last_hidden_state=sequence_output,
pooler_output=pooler_output,
past_key_values=encoder_outputs.past_key_values,
hidden_states=encoder_outputs.hidden_states,
attentions=encoder_outputs.attentions,
cross_attentions=encoder_outputs.cross_attentions,
)
@staticmethod
def create_masks_for_block_sparse_attn(attention_mask: torch.Tensor, block_size: int):
batch_size, seq_length = attention_mask.size()
if seq_length % block_size != 0:
raise ValueError(
f"Sequence length must be multiple of block size, but sequence length is {seq_length}, while block"
f" size is {block_size}."
)
def create_band_mask_from_inputs(from_blocked_mask, to_blocked_mask):
"""
Create 3D attention mask from a 2D tensor mask.
Args:
from_blocked_mask: 2D Tensor of shape [batch_size,
from_seq_length//from_block_size, from_block_size].
to_blocked_mask: int32 Tensor of shape [batch_size,
to_seq_length//to_block_size, to_block_size].
Returns:
float Tensor of shape [batch_size, 1, from_seq_length//from_block_size-4, from_block_size,
3*to_block_size].
"""
exp_blocked_to_pad = torch.cat(
[to_blocked_mask[:, 1:-3], to_blocked_mask[:, 2:-2], to_blocked_mask[:, 3:-1]], dim=2
)
band_mask = torch.einsum("blq,blk->blqk", from_blocked_mask[:, 2:-2], exp_blocked_to_pad)
band_mask.unsqueeze_(1)
return band_mask
blocked_encoder_mask = attention_mask.view(batch_size, seq_length // block_size, block_size)
band_mask = create_band_mask_from_inputs(blocked_encoder_mask, blocked_encoder_mask)
from_mask = attention_mask.view(batch_size, 1, seq_length, 1)
to_mask = attention_mask.view(batch_size, 1, 1, seq_length)
return blocked_encoder_mask, band_mask, from_mask, to_mask
def _pad_to_block_size(
self,
input_ids: torch.Tensor,
attention_mask: torch.Tensor,
token_type_ids: torch.Tensor,
position_ids: torch.Tensor,
inputs_embeds: torch.Tensor,
pad_token_id: int,
):
"""A helper function to pad tokens and mask to work with implementation of BigBird block-sparse attention."""
# padding
block_size = self.config.block_size
input_shape = input_ids.shape if input_ids is not None else inputs_embeds.shape
batch_size, seq_len = input_shape[:2]
padding_len = (block_size - seq_len % block_size) % block_size
if padding_len > 0:
logger.info(
f"Input ids are automatically padded from {seq_len} to {seq_len + padding_len} to be a multiple of "
f"`config.block_size`: {block_size}"
)
if input_ids is not None:
input_ids = nn.functional.pad(input_ids, (0, padding_len), value=pad_token_id)
if position_ids is not None:
# pad with position_id = pad_token_id as in modeling_bigbird.BigBirdEmbeddings
position_ids = nn.functional.pad(position_ids, (0, padding_len), value=pad_token_id)
if inputs_embeds is not None:
input_ids_padding = inputs_embeds.new_full(
(batch_size, padding_len),
self.config.pad_token_id,
dtype=torch.long,
)
inputs_embeds_padding = self.embeddings(input_ids_padding)
inputs_embeds = torch.cat([inputs_embeds, inputs_embeds_padding], dim=-2)
attention_mask = nn.functional.pad(
attention_mask, (0, padding_len), value=False
) # no attention on the padding tokens
token_type_ids = nn.functional.pad(token_type_ids, (0, padding_len), value=0) # pad with token_type_id = 0
return padding_len, input_ids, attention_mask, token_type_ids, position_ids, inputs_embeds
class BigBirdForPreTraining(BigBirdPreTrainedModel):
_tied_weights_keys = ["cls.predictions.decoder.weight", "cls.predictions.decoder.bias"]
def __init__(self, config):
super().__init__(config)
self.bert = BigBirdModel(config, add_pooling_layer=True)
self.cls = BigBirdPreTrainingHeads(config)
# Initialize weights and apply final processing
self.post_init()
def get_output_embeddings(self):
return self.cls.predictions.decoder
def set_output_embeddings(self, new_embeddings):
self.cls.predictions.decoder = new_embeddings
@add_start_docstrings_to_model_forward(BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@replace_return_docstrings(output_type=BigBirdForPreTrainingOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.FloatTensor] = None,
token_type_ids: Optional[torch.LongTensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.FloatTensor] = None,
next_sentence_label: Optional[torch.LongTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[BigBirdForPreTrainingOutput, Tuple[torch.FloatTensor]]:
r"""
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the masked language modeling loss. Indices should be in `[-100, 0, ...,
config.vocab_size]` (see `input_ids` docstring) Tokens with indices set to `-100` are ignored (masked), the
loss is only computed for the tokens with labels in `[0, ..., config.vocab_size]`
next_sentence_label (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for computing the next sequence prediction (classification) loss. If specified, nsp loss will be
added to masked_lm loss. Input should be a sequence pair (see `input_ids` docstring) Indices should be in
`[0, 1]`:
- 0 indicates sequence B is a continuation of sequence A,
- 1 indicates sequence B is a random sequence.
kwargs (`Dict[str, any]`, optional, defaults to *{}*):
Used to hide legacy arguments that have been deprecated.
Returns:
Example:
```python
>>> from transformers import AutoTokenizer, BigBirdForPreTraining
>>> import torch
>>> tokenizer = AutoTokenizer.from_pretrained("google/bigbird-roberta-base")
>>> model = BigBirdForPreTraining.from_pretrained("google/bigbird-roberta-base")
>>> inputs = tokenizer("Hello, my dog is cute", return_tensors="pt")
>>> outputs = model(**inputs)
>>> prediction_logits = outputs.prediction_logits
>>> seq_relationship_logits = outputs.seq_relationship_logits
```"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.bert(
input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output, pooled_output = outputs[:2]
prediction_scores, seq_relationship_score = self.cls(sequence_output, pooled_output)
total_loss = None
if labels is not None:
loss_fct = CrossEntropyLoss()
total_loss = loss_fct(prediction_scores.view(-1, self.config.vocab_size), labels.view(-1))
if next_sentence_label is not None and total_loss is not None:
next_sentence_loss = loss_fct(seq_relationship_score.view(-1, 2), next_sentence_label.view(-1))
total_loss = total_loss + next_sentence_loss
if not return_dict:
output = (prediction_scores, seq_relationship_score) + outputs[2:]
return ((total_loss,) + output) if total_loss is not None else output
return BigBirdForPreTrainingOutput(
loss=total_loss,
prediction_logits=prediction_scores,
seq_relationship_logits=seq_relationship_score,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings("""BigBird Model with a `language modeling` head on top.""", BIG_BIRD_START_DOCSTRING)
class BigBirdForMaskedLM(BigBirdPreTrainedModel):
_tied_weights_keys = ["cls.predictions.decoder.weight", "cls.predictions.decoder.bias"]
def __init__(self, config):
super().__init__(config)
if config.is_decoder:
logger.warning(
"If you want to use `BigBirdForMaskedLM` make sure `config.is_decoder=False` for "
"bi-directional self-attention."
)
self.bert = BigBirdModel(config)
self.cls = BigBirdOnlyMLMHead(config)
# Initialize weights and apply final processing
self.post_init()
def get_output_embeddings(self):
return self.cls.predictions.decoder
def set_output_embeddings(self, new_embeddings):
self.cls.predictions.decoder = new_embeddings
@add_start_docstrings_to_model_forward(BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@replace_return_docstrings(output_type=MaskedLMOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.FloatTensor] = None,
token_type_ids: Optional[torch.LongTensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
encoder_hidden_states: Optional[torch.FloatTensor] = None,
encoder_attention_mask: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[MaskedLMOutput, Tuple[torch.FloatTensor]]:
r"""
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the masked language modeling loss. Indices should be in `[-100, 0, ...,
config.vocab_size]` (see `input_ids` docstring) Tokens with indices set to `-100` are ignored (masked), the
loss is only computed for the tokens with labels in `[0, ..., config.vocab_size]`.
Returns:
Example:
```python
>>> import torch
>>> from transformers import AutoTokenizer, BigBirdForMaskedLM
>>> from datasets import load_dataset
>>> tokenizer = AutoTokenizer.from_pretrained("google/bigbird-roberta-base")
>>> model = BigBirdForMaskedLM.from_pretrained("google/bigbird-roberta-base")
>>> squad_ds = load_dataset("squad_v2", split="train") # doctest: +IGNORE_RESULT
>>> # select random long article
>>> LONG_ARTICLE_TARGET = squad_ds[81514]["context"]
>>> # select random sentence
>>> LONG_ARTICLE_TARGET[332:398]
'the highest values are very close to the theoretical maximum value'
>>> # add mask_token
>>> LONG_ARTICLE_TO_MASK = LONG_ARTICLE_TARGET.replace("maximum", "[MASK]")
>>> inputs = tokenizer(LONG_ARTICLE_TO_MASK, return_tensors="pt")
>>> # long article input
>>> list(inputs["input_ids"].shape)
[1, 919]
>>> with torch.no_grad():
... logits = model(**inputs).logits
>>> # retrieve index of [MASK]
>>> mask_token_index = (inputs.input_ids == tokenizer.mask_token_id)[0].nonzero(as_tuple=True)[0]
>>> predicted_token_id = logits[0, mask_token_index].argmax(axis=-1)
>>> tokenizer.decode(predicted_token_id)
'maximum'
```
```python
>>> labels = tokenizer(LONG_ARTICLE_TARGET, return_tensors="pt")["input_ids"]
>>> labels = torch.where(inputs.input_ids == tokenizer.mask_token_id, labels, -100)
>>> outputs = model(**inputs, labels=labels)
>>> round(outputs.loss.item(), 2)
1.99
```
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.bert(
input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
prediction_scores = self.cls(sequence_output)
masked_lm_loss = None
if labels is not None:
loss_fct = CrossEntropyLoss() # -100 index = padding token
masked_lm_loss = loss_fct(prediction_scores.view(-1, self.config.vocab_size), labels.view(-1))
if not return_dict:
output = (prediction_scores,) + outputs[2:]
return ((masked_lm_loss,) + output) if masked_lm_loss is not None else output
return MaskedLMOutput(
loss=masked_lm_loss,
logits=prediction_scores,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
def prepare_inputs_for_generation(self, input_ids, attention_mask=None, **model_kwargs):
input_shape = input_ids.shape
effective_batch_size = input_shape[0]
# add a dummy token
if self.config.pad_token_id is None:
raise ValueError("The PAD token should be defined for generation")
attention_mask = torch.cat([attention_mask, attention_mask.new_zeros((attention_mask.shape[0], 1))], dim=-1)
dummy_token = torch.full(
(effective_batch_size, 1), self.config.pad_token_id, dtype=torch.long, device=input_ids.device
)
input_ids = torch.cat([input_ids, dummy_token], dim=1)
return {"input_ids": input_ids, "attention_mask": attention_mask}
@add_start_docstrings(
"""BigBird Model with a `language modeling` head on top for CLM fine-tuning.""", BIG_BIRD_START_DOCSTRING
)
class BigBirdForCausalLM(BigBirdPreTrainedModel):
_tied_weights_keys = ["cls.predictions.decoder.weight", "cls.predictions.decoder.bias"]
def __init__(self, config):
super().__init__(config)
if not config.is_decoder:
logger.warning("If you want to use `BigBirdForCausalLM` as a standalone, add `is_decoder=True.`")
self.bert = BigBirdModel(config)
self.cls = BigBirdOnlyMLMHead(config)
# Initialize weights and apply final processing
self.post_init()
def get_output_embeddings(self):
return self.cls.predictions.decoder
def set_output_embeddings(self, new_embeddings):
self.cls.predictions.decoder = new_embeddings
@add_start_docstrings_to_model_forward(BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=CausalLMOutputWithCrossAttentions,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.FloatTensor] = None,
token_type_ids: Optional[torch.LongTensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
encoder_hidden_states: Optional[torch.FloatTensor] = None,
encoder_attention_mask: Optional[torch.FloatTensor] = None,
past_key_values: Optional[Tuple[Tuple[torch.FloatTensor]]] = None,
labels: Optional[torch.LongTensor] = None,
use_cache: Optional[bool] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[CausalLMOutputWithCrossAttentions, Tuple[torch.FloatTensor]]:
r"""
encoder_hidden_states (`torch.FloatTensor` of shape `(batch_size, sequence_length, hidden_size)`, *optional*):
Sequence of hidden-states at the output of the last layer of the encoder. Used in the cross-attention if
the model is configured as a decoder.
encoder_attention_mask (`torch.FloatTensor` of shape `(batch_size, sequence_length)`, *optional*):
Mask to avoid performing attention on the padding token indices of the encoder input. This mask is used in
the cross-attention if the model is configured as a decoder. Mask values selected in `[0, 1]`:
- 1 for tokens that are **not masked**,
- 0 for tokens that are **masked**.
past_key_values (`tuple(tuple(torch.FloatTensor))` of length `config.n_layers` with each tuple having 4 tensors of shape `(batch_size, num_heads, sequence_length - 1, embed_size_per_head)`):
Contains precomputed key and value hidden states of the attention blocks. Can be used to speed up decoding.
If `past_key_values` are used, the user can optionally input only the last `decoder_input_ids` (those that
don't have their past key value states given to this model) of shape `(batch_size, 1)` instead of all
`decoder_input_ids` of shape `(batch_size, sequence_length)`.
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the left-to-right language modeling loss (next word prediction). Indices should be in
`[-100, 0, ..., config.vocab_size]` (see `input_ids` docstring) Tokens with indices set to `-100` are
ignored (masked), the loss is only computed for the tokens with labels n `[0, ..., config.vocab_size]`.
use_cache (`bool`, *optional*):
If set to `True`, `past_key_values` key value states are returned and can be used to speed up decoding (see
`past_key_values`).
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.bert(
input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
encoder_hidden_states=encoder_hidden_states,
encoder_attention_mask=encoder_attention_mask,
past_key_values=past_key_values,
use_cache=use_cache,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
prediction_scores = self.cls(sequence_output)
lm_loss = None
if labels is not None:
# we are doing next-token prediction; shift prediction scores and input ids by one
shifted_prediction_scores = prediction_scores[:, :-1, :].contiguous()
labels = labels[:, 1:].contiguous()
loss_fct = CrossEntropyLoss()
lm_loss = loss_fct(shifted_prediction_scores.view(-1, self.config.vocab_size), labels.view(-1))
if not return_dict:
output = (prediction_scores,) + outputs[2:]
return ((lm_loss,) + output) if lm_loss is not None else output
return CausalLMOutputWithCrossAttentions(
loss=lm_loss,
logits=prediction_scores,
past_key_values=outputs.past_key_values,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
cross_attentions=outputs.cross_attentions,
)
def prepare_inputs_for_generation(self, input_ids, past_key_values=None, attention_mask=None, **model_kwargs):
input_shape = input_ids.shape
# if model is used as a decoder in encoder-decoder model, the decoder attention mask is created on the fly
if attention_mask is None:
attention_mask = input_ids.new_ones(input_shape)
# cut decoder_input_ids if past is used
if past_key_values is not None:
input_ids = input_ids[:, -1:]
return {"input_ids": input_ids, "attention_mask": attention_mask, "past_key_values": past_key_values}
def _reorder_cache(self, past_key_values, beam_idx):
reordered_past = ()
for layer_past in past_key_values:
reordered_past += (
tuple(past_state.index_select(0, beam_idx) for past_state in layer_past[:2]) + layer_past[2:],
)
return reordered_past
class BigBirdClassificationHead(nn.Module):
"""Head for sentence-level classification tasks."""
def __init__(self, config):
super().__init__()
self.dense = nn.Linear(config.hidden_size, config.hidden_size)
classifier_dropout = (
config.classifier_dropout if config.classifier_dropout is not None else config.hidden_dropout_prob
)
self.dropout = nn.Dropout(classifier_dropout)
self.out_proj = nn.Linear(config.hidden_size, config.num_labels)
self.config = config
def forward(self, features, **kwargs):
x = features[:, 0, :] # take <s> token (equiv. to [CLS])
x = self.dropout(x)
x = self.dense(x)
x = ACT2FN[self.config.hidden_act](x)
x = self.dropout(x)
x = self.out_proj(x)
return x
@add_start_docstrings(
"""
BigBird Model transformer with a sequence classification/regression head on top (a linear layer on top of the
pooled output) e.g. for GLUE tasks.
""",
BIG_BIRD_START_DOCSTRING,
)
class BigBirdForSequenceClassification(BigBirdPreTrainedModel):
def __init__(self, config):
super().__init__(config)
self.num_labels = config.num_labels
self.config = config
self.bert = BigBirdModel(config)
self.classifier = BigBirdClassificationHead(config)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@replace_return_docstrings(output_type=SequenceClassifierOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.FloatTensor] = None,
token_type_ids: Optional[torch.LongTensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[SequenceClassifierOutput, Tuple[torch.FloatTensor]]:
r"""
labels (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for computing the sequence classification/regression loss. Indices should be in `[0, ...,
config.num_labels - 1]`. If `config.num_labels == 1` a regression loss is computed (Mean-Square loss), If
`config.num_labels > 1` a classification loss is computed (Cross-Entropy).
Returns:
Example:
```python
>>> import torch
>>> from transformers import AutoTokenizer, BigBirdForSequenceClassification
>>> from datasets import load_dataset
>>> tokenizer = AutoTokenizer.from_pretrained("l-yohai/bigbird-roberta-base-mnli")
>>> model = BigBirdForSequenceClassification.from_pretrained("l-yohai/bigbird-roberta-base-mnli")
>>> squad_ds = load_dataset("squad_v2", split="train") # doctest: +IGNORE_RESULT
>>> LONG_ARTICLE = squad_ds[81514]["context"]
>>> inputs = tokenizer(LONG_ARTICLE, return_tensors="pt")
>>> # long input article
>>> list(inputs["input_ids"].shape)
[1, 919]
>>> with torch.no_grad():
... logits = model(**inputs).logits
>>> predicted_class_id = logits.argmax().item()
>>> model.config.id2label[predicted_class_id]
'LABEL_0'
```
```python
>>> num_labels = len(model.config.id2label)
>>> model = BigBirdForSequenceClassification.from_pretrained(
... "l-yohai/bigbird-roberta-base-mnli", num_labels=num_labels
... )
>>> labels = torch.tensor(1)
>>> loss = model(**inputs, labels=labels).loss
>>> round(loss.item(), 2)
1.13
```
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.bert(
input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
logits = self.classifier(sequence_output)
loss = None
if labels is not None:
if self.config.problem_type is None:
if self.num_labels == 1:
self.config.problem_type = "regression"
elif self.num_labels > 1 and (labels.dtype == torch.long or labels.dtype == torch.int):
self.config.problem_type = "single_label_classification"
else:
self.config.problem_type = "multi_label_classification"
if self.config.problem_type == "regression":
loss_fct = MSELoss()
if self.num_labels == 1:
loss = loss_fct(logits.squeeze(), labels.squeeze())
else:
loss = loss_fct(logits, labels)
elif self.config.problem_type == "single_label_classification":
loss_fct = CrossEntropyLoss()
loss = loss_fct(logits.view(-1, self.num_labels), labels.view(-1))
elif self.config.problem_type == "multi_label_classification":
loss_fct = BCEWithLogitsLoss()
loss = loss_fct(logits, labels)
if not return_dict:
output = (logits,) + outputs[2:]
return ((loss,) + output) if loss is not None else output
return SequenceClassifierOutput(
loss=loss,
logits=logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings(
"""
BigBird Model with a multiple choice classification head on top (a linear layer on top of the pooled output and a
softmax) e.g. for RocStories/SWAG tasks.
""",
BIG_BIRD_START_DOCSTRING,
)
class BigBirdForMultipleChoice(BigBirdPreTrainedModel):
def __init__(self, config):
super().__init__(config)
self.bert = BigBirdModel(config)
self.dropout = nn.Dropout(config.hidden_dropout_prob)
self.classifier = nn.Linear(config.hidden_size, 1)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(
BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, num_choices, sequence_length")
)
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=MultipleChoiceModelOutput,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.FloatTensor] = None,
token_type_ids: Optional[torch.LongTensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[MultipleChoiceModelOutput, Tuple[torch.FloatTensor]]:
r"""
labels (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for computing the multiple choice classification loss. Indices should be in `[0, ...,
num_choices-1]` where `num_choices` is the size of the second dimension of the input tensors. (See
`input_ids` above)
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
num_choices = input_ids.shape[1] if input_ids is not None else inputs_embeds.shape[1]
input_ids = input_ids.view(-1, input_ids.size(-1)) if input_ids is not None else None
attention_mask = attention_mask.view(-1, attention_mask.size(-1)) if attention_mask is not None else None
token_type_ids = token_type_ids.view(-1, token_type_ids.size(-1)) if token_type_ids is not None else None
position_ids = position_ids.view(-1, position_ids.size(-1)) if position_ids is not None else None
inputs_embeds = (
inputs_embeds.view(-1, inputs_embeds.size(-2), inputs_embeds.size(-1))
if inputs_embeds is not None
else None
)
outputs = self.bert(
input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
pooled_output = outputs[1]
pooled_output = self.dropout(pooled_output)
logits = self.classifier(pooled_output)
reshaped_logits = logits.view(-1, num_choices)
loss = None
if labels is not None:
loss_fct = CrossEntropyLoss()
loss = loss_fct(reshaped_logits, labels)
if not return_dict:
output = (reshaped_logits,) + outputs[2:]
return ((loss,) + output) if loss is not None else output
return MultipleChoiceModelOutput(
loss=loss,
logits=reshaped_logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@add_start_docstrings(
"""
BigBird Model with a token classification head on top (a linear layer on top of the hidden-states output) e.g. for
Named-Entity-Recognition (NER) tasks.
""",
BIG_BIRD_START_DOCSTRING,
)
class BigBirdForTokenClassification(BigBirdPreTrainedModel):
def __init__(self, config):
super().__init__(config)
self.num_labels = config.num_labels
self.bert = BigBirdModel(config)
classifier_dropout = (
config.classifier_dropout if config.classifier_dropout is not None else config.hidden_dropout_prob
)
self.dropout = nn.Dropout(classifier_dropout)
self.classifier = nn.Linear(config.hidden_size, config.num_labels)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@add_code_sample_docstrings(
checkpoint=_CHECKPOINT_FOR_DOC,
output_type=TokenClassifierOutput,
config_class=_CONFIG_FOR_DOC,
)
def forward(
self,
input_ids: torch.LongTensor = None,
attention_mask: Optional[torch.FloatTensor] = None,
token_type_ids: Optional[torch.LongTensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
labels: Optional[torch.LongTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[TokenClassifierOutput, Tuple[torch.FloatTensor]]:
r"""
labels (`torch.LongTensor` of shape `(batch_size, sequence_length)`, *optional*):
Labels for computing the token classification loss. Indices should be in `[0, ..., config.num_labels - 1]`.
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
outputs = self.bert(
input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
sequence_output = self.dropout(sequence_output)
logits = self.classifier(sequence_output)
loss = None
if labels is not None:
loss_fct = CrossEntropyLoss()
loss = loss_fct(logits.view(-1, self.num_labels), labels.view(-1))
if not return_dict:
output = (logits,) + outputs[2:]
return ((loss,) + output) if loss is not None else output
return TokenClassifierOutput(
loss=loss,
logits=logits,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
class BigBirdForQuestionAnsweringHead(nn.Module):
"""Head for question answering tasks."""
def __init__(self, config):
super().__init__()
self.dropout = nn.Dropout(config.hidden_dropout_prob)
self.intermediate = BigBirdIntermediate(config)
self.output = BigBirdOutput(config)
self.qa_outputs = nn.Linear(config.hidden_size, config.num_labels)
def forward(self, encoder_output):
hidden_states = self.dropout(encoder_output)
hidden_states = self.intermediate(hidden_states)
hidden_states = self.output(hidden_states, encoder_output)
hidden_states = self.qa_outputs(hidden_states)
return hidden_states
@add_start_docstrings(
"""
BigBird Model with a span classification head on top for extractive question-answering tasks like SQuAD (a linear
layers on top of the hidden-states output to compute `span start logits` and `span end logits`).
""",
BIG_BIRD_START_DOCSTRING,
)
class BigBirdForQuestionAnswering(BigBirdPreTrainedModel):
def __init__(self, config, add_pooling_layer=False):
super().__init__(config)
config.num_labels = 2
self.num_labels = config.num_labels
self.sep_token_id = config.sep_token_id
self.bert = BigBirdModel(config, add_pooling_layer=add_pooling_layer)
self.qa_classifier = BigBirdForQuestionAnsweringHead(config)
# Initialize weights and apply final processing
self.post_init()
@add_start_docstrings_to_model_forward(BIG_BIRD_INPUTS_DOCSTRING.format("batch_size, sequence_length"))
@replace_return_docstrings(output_type=BigBirdForQuestionAnsweringModelOutput, config_class=_CONFIG_FOR_DOC)
def forward(
self,
input_ids: Optional[torch.LongTensor] = None,
attention_mask: Optional[torch.FloatTensor] = None,
question_lengths: Optional[torch.Tensor] = None,
token_type_ids: Optional[torch.LongTensor] = None,
position_ids: Optional[torch.LongTensor] = None,
head_mask: Optional[torch.FloatTensor] = None,
inputs_embeds: Optional[torch.FloatTensor] = None,
start_positions: Optional[torch.LongTensor] = None,
end_positions: Optional[torch.LongTensor] = None,
output_attentions: Optional[bool] = None,
output_hidden_states: Optional[bool] = None,
return_dict: Optional[bool] = None,
) -> Union[BigBirdForQuestionAnsweringModelOutput, Tuple[torch.FloatTensor]]:
r"""
start_positions (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for position (index) of the start of the labelled span for computing the token classification loss.
Positions are clamped to the length of the sequence (`sequence_length`). Position outside of the sequence
are not taken into account for computing the loss.
end_positions (`torch.LongTensor` of shape `(batch_size,)`, *optional*):
Labels for position (index) of the end of the labelled span for computing the token classification loss.
Positions are clamped to the length of the sequence (`sequence_length`). Position outside of the sequence
are not taken into account for computing the loss.
Returns:
Example:
```python
>>> import torch
>>> from transformers import AutoTokenizer, BigBirdForQuestionAnswering
>>> from datasets import load_dataset
>>> tokenizer = AutoTokenizer.from_pretrained("google/bigbird-roberta-base")
>>> model = BigBirdForQuestionAnswering.from_pretrained("google/bigbird-roberta-base")
>>> squad_ds = load_dataset("squad_v2", split="train") # doctest: +IGNORE_RESULT
>>> # select random article and question
>>> LONG_ARTICLE = squad_ds[81514]["context"]
>>> QUESTION = squad_ds[81514]["question"]
>>> QUESTION
'During daytime how high can the temperatures reach?'
>>> inputs = tokenizer(QUESTION, LONG_ARTICLE, return_tensors="pt")
>>> # long article and question input
>>> list(inputs["input_ids"].shape)
[1, 929]
>>> with torch.no_grad():
... outputs = model(**inputs)
>>> answer_start_index = outputs.start_logits.argmax()
>>> answer_end_index = outputs.end_logits.argmax()
>>> predict_answer_token_ids = inputs.input_ids[0, answer_start_index : answer_end_index + 1]
>>> predict_answer_token = tokenizer.decode(predict_answer_token_ids)
```
```python
>>> target_start_index, target_end_index = torch.tensor([130]), torch.tensor([132])
>>> outputs = model(**inputs, start_positions=target_start_index, end_positions=target_end_index)
>>> loss = outputs.loss
```
"""
return_dict = return_dict if return_dict is not None else self.config.use_return_dict
seqlen = input_ids.size(1) if input_ids is not None else inputs_embeds.size(1)
if question_lengths is None and input_ids is not None:
# assuming input_ids format: <cls> <question> <sep> context <sep>
question_lengths = torch.argmax(input_ids.eq(self.sep_token_id).int(), dim=-1) + 1
question_lengths.unsqueeze_(1)
logits_mask = None
if question_lengths is not None:
# setting lengths logits to `-inf`
logits_mask = self.prepare_question_mask(question_lengths, seqlen)
if token_type_ids is None:
token_type_ids = torch.ones(logits_mask.size(), dtype=int, device=logits_mask.device) - logits_mask
logits_mask = logits_mask
logits_mask[:, 0] = False
logits_mask.unsqueeze_(2)
outputs = self.bert(
input_ids,
attention_mask=attention_mask,
token_type_ids=token_type_ids,
position_ids=position_ids,
head_mask=head_mask,
inputs_embeds=inputs_embeds,
output_attentions=output_attentions,
output_hidden_states=output_hidden_states,
return_dict=return_dict,
)
sequence_output = outputs[0]
logits = self.qa_classifier(sequence_output)
if logits_mask is not None:
# removing question tokens from the competition
logits = logits - logits_mask * 1e6
start_logits, end_logits = logits.split(1, dim=-1)
start_logits = start_logits.squeeze(-1).contiguous()
end_logits = end_logits.squeeze(-1).contiguous()
total_loss = None
if start_positions is not None and end_positions is not None:
# If we are on multi-GPU, split add a dimension
if len(start_positions.size()) > 1:
start_positions = start_positions.squeeze(-1)
if len(end_positions.size()) > 1:
end_positions = end_positions.squeeze(-1)
# sometimes the start/end positions are outside our model inputs, we ignore these terms
ignored_index = start_logits.size(1)
start_positions = start_positions.clamp(0, ignored_index)
end_positions = end_positions.clamp(0, ignored_index)
loss_fct = CrossEntropyLoss(ignore_index=ignored_index)
start_loss = loss_fct(start_logits, start_positions)
end_loss = loss_fct(end_logits, end_positions)
total_loss = (start_loss + end_loss) / 2
if not return_dict:
output = (start_logits, end_logits) + outputs[2:]
return ((total_loss,) + output) if total_loss is not None else output
return BigBirdForQuestionAnsweringModelOutput(
loss=total_loss,
start_logits=start_logits,
end_logits=end_logits,
pooler_output=outputs.pooler_output,
hidden_states=outputs.hidden_states,
attentions=outputs.attentions,
)
@staticmethod
def prepare_question_mask(q_lengths: torch.Tensor, maxlen: int):
# q_lengths -> (bz, 1)
mask = torch.arange(0, maxlen).to(q_lengths.device)
mask.unsqueeze_(0) # -> (1, maxlen)
mask = torch.where(mask < q_lengths, 1, 0)
return mask
| transformers-main | src/transformers/models/big_bird/modeling_big_bird.py |
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