peacock-data-public-datasets-idc-cronscript
/
venv
/lib
/python3.10
/site-packages
/joblib
/numpy_pickle_compat.py
"""Numpy pickle compatibility functions.""" | |
import pickle | |
import os | |
import zlib | |
import inspect | |
from io import BytesIO | |
from .numpy_pickle_utils import _ZFILE_PREFIX | |
from .numpy_pickle_utils import Unpickler | |
from .numpy_pickle_utils import _ensure_native_byte_order | |
def hex_str(an_int): | |
"""Convert an int to an hexadecimal string.""" | |
return '{:#x}'.format(an_int) | |
def asbytes(s): | |
if isinstance(s, bytes): | |
return s | |
return s.encode('latin1') | |
_MAX_LEN = len(hex_str(2 ** 64)) | |
_CHUNK_SIZE = 64 * 1024 | |
def read_zfile(file_handle): | |
"""Read the z-file and return the content as a string. | |
Z-files are raw data compressed with zlib used internally by joblib | |
for persistence. Backward compatibility is not guaranteed. Do not | |
use for external purposes. | |
""" | |
file_handle.seek(0) | |
header_length = len(_ZFILE_PREFIX) + _MAX_LEN | |
length = file_handle.read(header_length) | |
length = length[len(_ZFILE_PREFIX):] | |
length = int(length, 16) | |
# With python2 and joblib version <= 0.8.4 compressed pickle header is one | |
# character wider so we need to ignore an additional space if present. | |
# Note: the first byte of the zlib data is guaranteed not to be a | |
# space according to | |
# https://tools.ietf.org/html/rfc6713#section-2.1 | |
next_byte = file_handle.read(1) | |
if next_byte != b' ': | |
# The zlib compressed data has started and we need to go back | |
# one byte | |
file_handle.seek(header_length) | |
# We use the known length of the data to tell Zlib the size of the | |
# buffer to allocate. | |
data = zlib.decompress(file_handle.read(), 15, length) | |
assert len(data) == length, ( | |
"Incorrect data length while decompressing %s." | |
"The file could be corrupted." % file_handle) | |
return data | |
def write_zfile(file_handle, data, compress=1): | |
"""Write the data in the given file as a Z-file. | |
Z-files are raw data compressed with zlib used internally by joblib | |
for persistence. Backward compatibility is not guaranteed. Do not | |
use for external purposes. | |
""" | |
file_handle.write(_ZFILE_PREFIX) | |
length = hex_str(len(data)) | |
# Store the length of the data | |
file_handle.write(asbytes(length.ljust(_MAX_LEN))) | |
file_handle.write(zlib.compress(asbytes(data), compress)) | |
############################################################################### | |
# Utility objects for persistence. | |
class NDArrayWrapper(object): | |
"""An object to be persisted instead of numpy arrays. | |
The only thing this object does, is to carry the filename in which | |
the array has been persisted, and the array subclass. | |
""" | |
def __init__(self, filename, subclass, allow_mmap=True): | |
"""Constructor. Store the useful information for later.""" | |
self.filename = filename | |
self.subclass = subclass | |
self.allow_mmap = allow_mmap | |
def read(self, unpickler): | |
"""Reconstruct the array.""" | |
filename = os.path.join(unpickler._dirname, self.filename) | |
# Load the array from the disk | |
# use getattr instead of self.allow_mmap to ensure backward compat | |
# with NDArrayWrapper instances pickled with joblib < 0.9.0 | |
allow_mmap = getattr(self, 'allow_mmap', True) | |
kwargs = {} | |
if allow_mmap: | |
kwargs['mmap_mode'] = unpickler.mmap_mode | |
if "allow_pickle" in inspect.signature(unpickler.np.load).parameters: | |
# Required in numpy 1.16.3 and later to aknowledge the security | |
# risk. | |
kwargs["allow_pickle"] = True | |
array = unpickler.np.load(filename, **kwargs) | |
# Detect byte order mismatch and swap as needed. | |
array = _ensure_native_byte_order(array) | |
# Reconstruct subclasses. This does not work with old | |
# versions of numpy | |
if (hasattr(array, '__array_prepare__') and | |
self.subclass not in (unpickler.np.ndarray, | |
unpickler.np.memmap)): | |
# We need to reconstruct another subclass | |
new_array = unpickler.np.core.multiarray._reconstruct( | |
self.subclass, (0,), 'b') | |
return new_array.__array_prepare__(array) | |
else: | |
return array | |
class ZNDArrayWrapper(NDArrayWrapper): | |
"""An object to be persisted instead of numpy arrays. | |
This object store the Zfile filename in which | |
the data array has been persisted, and the meta information to | |
retrieve it. | |
The reason that we store the raw buffer data of the array and | |
the meta information, rather than array representation routine | |
(tobytes) is that it enables us to use completely the strided | |
model to avoid memory copies (a and a.T store as fast). In | |
addition saving the heavy information separately can avoid | |
creating large temporary buffers when unpickling data with | |
large arrays. | |
""" | |
def __init__(self, filename, init_args, state): | |
"""Constructor. Store the useful information for later.""" | |
self.filename = filename | |
self.state = state | |
self.init_args = init_args | |
def read(self, unpickler): | |
"""Reconstruct the array from the meta-information and the z-file.""" | |
# Here we a simply reproducing the unpickling mechanism for numpy | |
# arrays | |
filename = os.path.join(unpickler._dirname, self.filename) | |
array = unpickler.np.core.multiarray._reconstruct(*self.init_args) | |
with open(filename, 'rb') as f: | |
data = read_zfile(f) | |
state = self.state + (data,) | |
array.__setstate__(state) | |
return array | |
class ZipNumpyUnpickler(Unpickler): | |
"""A subclass of the Unpickler to unpickle our numpy pickles.""" | |
dispatch = Unpickler.dispatch.copy() | |
def __init__(self, filename, file_handle, mmap_mode=None): | |
"""Constructor.""" | |
self._filename = os.path.basename(filename) | |
self._dirname = os.path.dirname(filename) | |
self.mmap_mode = mmap_mode | |
self.file_handle = self._open_pickle(file_handle) | |
Unpickler.__init__(self, self.file_handle) | |
try: | |
import numpy as np | |
except ImportError: | |
np = None | |
self.np = np | |
def _open_pickle(self, file_handle): | |
return BytesIO(read_zfile(file_handle)) | |
def load_build(self): | |
"""Set the state of a newly created object. | |
We capture it to replace our place-holder objects, | |
NDArrayWrapper, by the array we are interested in. We | |
replace them directly in the stack of pickler. | |
""" | |
Unpickler.load_build(self) | |
if isinstance(self.stack[-1], NDArrayWrapper): | |
if self.np is None: | |
raise ImportError("Trying to unpickle an ndarray, " | |
"but numpy didn't import correctly") | |
nd_array_wrapper = self.stack.pop() | |
array = nd_array_wrapper.read(self) | |
self.stack.append(array) | |
dispatch[pickle.BUILD[0]] = load_build | |
def load_compatibility(filename): | |
"""Reconstruct a Python object from a file persisted with joblib.dump. | |
This function ensures the compatibility with joblib old persistence format | |
(<= 0.9.3). | |
Parameters | |
---------- | |
filename: string | |
The name of the file from which to load the object | |
Returns | |
------- | |
result: any Python object | |
The object stored in the file. | |
See Also | |
-------- | |
joblib.dump : function to save an object | |
Notes | |
----- | |
This function can load numpy array files saved separately during the | |
dump. | |
""" | |
with open(filename, 'rb') as file_handle: | |
# We are careful to open the file handle early and keep it open to | |
# avoid race-conditions on renames. That said, if data is stored in | |
# companion files, moving the directory will create a race when | |
# joblib tries to access the companion files. | |
unpickler = ZipNumpyUnpickler(filename, file_handle=file_handle) | |
try: | |
obj = unpickler.load() | |
except UnicodeDecodeError as exc: | |
# More user-friendly error message | |
new_exc = ValueError( | |
'You may be trying to read with ' | |
'python 3 a joblib pickle generated with python 2. ' | |
'This feature is not supported by joblib.') | |
new_exc.__cause__ = exc | |
raise new_exc | |
finally: | |
if hasattr(unpickler, 'file_handle'): | |
unpickler.file_handle.close() | |
return obj | |