Updated app with code for deduplication

app.py

@@ -26,13 +26,13 @@ def deduplicate(embedding_matrix: np.ndarray, threshold: float, batch_size: int
     """
     Deduplicate embeddings and return the deduplicated indices and a mapping of removed indices to their corresponding original indices.
     """
-    # Building the index
+    # Build the index
     reach = Reach(vectors=embedding_matrix, items=[str(i) for i in range(len(embedding_matrix))])
 
     deduplicated_indices = set(range(len(embedding_matrix)))
     duplicate_to_original_mapping = {}
 
-    # Finding nearest neighbors
+    # Find nearest neighbors
     results = reach.nearest_neighbor_threshold(
         embedding_matrix,
         threshold=threshold,
@@ -40,7 +40,7 @@ def deduplicate(embedding_matrix: np.ndarray, threshold: float, batch_size: int
         show_progressbar=True  # Allow internal progress bar
     )
 
-    # Processing duplicates
+    # Process duplicates
     for i, similar_items in enumerate(results):
         if i not in deduplicated_indices:
             continue
@@ -58,13 +58,13 @@ def deduplicate_across_datasets(embedding_matrix_1: np.ndarray, embedding_matrix
     """
     Deduplicate embeddings across two datasets and return the indices of duplicates between them.
     """
-    # Building the index from Dataset 1
+    # Build the index from Dataset 1
     reach = Reach(vectors=embedding_matrix_1, items=[str(i) for i in range(len(embedding_matrix_1))])
 
     duplicate_indices_in_test = []
     duplicate_to_original_mapping = {}
 
-    # Finding nearest neighbors between datasets
+    # Find nearest neighbors between datasets
     results = reach.nearest_neighbor_threshold(
         embedding_matrix_2,
         threshold=threshold,
@@ -72,7 +72,7 @@ def deduplicate_across_datasets(embedding_matrix_1: np.ndarray, embedding_matrix
         show_progressbar=True  # Allow internal progress bar
     )
 
-    # Processing duplicates
+    # Process duplicates
     for i, similar_items in enumerate(results):
         similar_indices = [int(item[0]) for item in similar_items if item[1] >= threshold]
 
@@ -97,17 +97,35 @@ def perform_deduplication(
     threshold=default_threshold,
     progress=gr.Progress(track_tqdm=True)
 ):
-    # Deep Monkey-Patching of tqdm
-    original_tqdm = tqdm.tqdm
+    # Custom tqdm class that wraps progress.tqdm and includes module-level attributes
+    class TqdmWrapper(tqdm.std.tqdm):
+        def __init__(self, *args, **kwargs):
+            super().__init__(*args, **kwargs)
+
+    # Copy module-level attributes from original tqdm module
+    TqdmWrapper.format_interval = staticmethod(tqdm.format_interval)
+    TqdmWrapper.format_num = staticmethod(tqdm.format_num)
+    TqdmWrapper.format_sizeof = staticmethod(tqdm.format_sizeof)
+
+    # Monkey-patch tqdm.tqdm with our wrapper
+    original_tqdm_tqdm = tqdm.tqdm
     tqdm.tqdm = progress.tqdm
-    for mod_name in list(sys.modules.keys()):
-        if 'tqdm' in mod_name:
-            sys.modules[mod_name].tqdm = progress.tqdm
+
+    # Monkey-patch model2vec's tqdm reference if needed
+    import model2vec.model
+    if hasattr(model2vec.model, 'tqdm'):
+        original_model2vec_tqdm = model2vec.model.tqdm
+        model2vec.model.tqdm = TqdmWrapper
+
+    # Monkey-patch reach's tqdm reference if needed
+    if hasattr(Reach, 'tqdm'):
+        original_reach_tqdm = Reach.tqdm
+        Reach.tqdm = TqdmWrapper
 
     try:
         # Convert threshold to float
         threshold = float(threshold)
-        
+
         # Initialize status message
         status = ""
 
@@ -119,33 +137,33 @@ def perform_deduplication(
                 ds = ds_default1
             else:
                 ds = load_dataset(dataset1_name, split=dataset1_split)
-            
+
             # Extract texts
             status = "Extracting texts from Dataset 1..."
             yield status, ""
             texts = [example[dataset1_text_column] for example in ds]
-            
+
             # Compute embeddings
             status = "Computing embeddings for Dataset 1..."
             yield status, ""
             embedding_matrix = model.encode(texts, show_progressbar=True)  # Enable internal progress bar
-            
+
             # Deduplicate
             status = "Deduplicating embeddings..."
             yield status, ""
             deduplicated_indices, duplicate_to_original_mapping = deduplicate(
                 embedding_matrix, threshold
             )
-            
+
             # Prepare the results
             num_duplicates = len(duplicate_to_original_mapping)
             num_total = len(texts)
             num_deduplicated = len(deduplicated_indices)
-            
+
             result_text = f"**Total documents:** {num_total}\n"
             result_text += f"**Number of duplicates found:** {num_duplicates}\n"
             result_text += f"**Number of unique documents after deduplication:** {num_deduplicated}\n\n"
-            
+
             # Show deduplicated examples
             if num_duplicates > 0:
                 result_text += "**Examples of duplicates found:**\n\n"
@@ -160,11 +178,11 @@ def perform_deduplication(
                     result_text += "-" * 50 + "\n\n"
             else:
                 result_text += "No duplicates found."
-            
+
             # Final status
             status = "Deduplication completed."
             yield status, result_text
-                
+
         elif deduplication_type == "Cross-dataset":
             # Load Dataset 1
             status = "Loading Dataset 1..."
@@ -173,7 +191,7 @@ def perform_deduplication(
                 ds1 = ds_default1
             else:
                 ds1 = load_dataset(dataset1_name, split=dataset1_split)
-            
+
             # Load Dataset 2
             status = "Loading Dataset 2..."
             yield status, ""
@@ -181,42 +199,42 @@ def perform_deduplication(
                 ds2 = ds_default2
             else:
                 ds2 = load_dataset(dataset2_name, split=dataset2_split)
-            
+
             # Extract texts from Dataset 1
             status = "Extracting texts from Dataset 1..."
             yield status, ""
             texts1 = [example[dataset1_text_column] for example in ds1]
-            
+
             # Extract texts from Dataset 2
             status = "Extracting texts from Dataset 2..."
             yield status, ""
             texts2 = [example[dataset2_text_column] for example in ds2]
-            
+
             # Compute embeddings for Dataset 1
             status = "Computing embeddings for Dataset 1..."
             yield status, ""
             embedding_matrix1 = model.encode(texts1, show_progressbar=True)
-            
+
             # Compute embeddings for Dataset 2
             status = "Computing embeddings for Dataset 2..."
             yield status, ""
             embedding_matrix2 = model.encode(texts2, show_progressbar=True)
-            
+
             # Deduplicate across datasets
             status = "Deduplicating embeddings across datasets..."
             yield status, ""
             duplicate_indices_in_ds2, duplicate_to_original_mapping = deduplicate_across_datasets(
                 embedding_matrix1, embedding_matrix2, threshold
             )
-            
+
             num_duplicates = len(duplicate_indices_in_ds2)
             num_total_ds2 = len(texts2)
             num_unique_ds2 = num_total_ds2 - num_duplicates
-            
+
             result_text = f"**Total documents in {dataset2_name}/{dataset2_split}:** {num_total_ds2}\n"
             result_text += f"**Number of duplicates found in {dataset2_name}/{dataset2_split}:** {num_duplicates}\n"
             result_text += f"**Number of unique documents in {dataset2_name}/{dataset2_split} after deduplication:** {num_unique_ds2}\n\n"
-            
+
             # Show deduplicated examples
             if num_duplicates > 0:
                 result_text += "**Examples of duplicates found in Dataset 2:**\n\n"
@@ -232,17 +250,18 @@ def perform_deduplication(
                     result_text += "-" * 50 + "\n\n"
             else:
                 result_text += "No duplicates found."
-            
+
             # Final status
             status = "Deduplication completed."
             yield status, result_text
 
     finally:
-        # Restore original tqdm
-        tqdm.tqdm = original_tqdm
-        for mod_name in list(sys.modules.keys()):
-            if 'tqdm' in mod_name:
-                sys.modules[mod_name].tqdm = original_tqdm
+        # Restore original tqdm functions
+        tqdm.tqdm = original_tqdm_tqdm
+        if hasattr(model2vec.model, 'tqdm'):
+            model2vec.model.tqdm = original_model2vec_tqdm
+        if hasattr(Reach, 'tqdm'):
+            Reach.tqdm = original_reach_tqdm
 
 with gr.Blocks() as demo:
     gr.Markdown("# Semantic Deduplication")
@@ -305,10 +324,321 @@ with gr.Blocks() as demo:
         ],
         outputs=[status_output, result_output]
     )
-        
+
 demo.launch()
 
 
+# import gradio as gr
+# from datasets import load_dataset
+# import numpy as np
+# from model2vec import StaticModel
+# from reach import Reach
+# from difflib import ndiff
+# import sys
+# import tqdm
+
+# # Load the model at startup
+# model = StaticModel.from_pretrained("minishlab/M2V_base_output")
+
+# # Update default dataset to 'sst2' and set default threshold to 0.9
+# default_dataset1_name = "sst2"
+# default_dataset1_split = "train"
+# default_dataset2_name = "sst2"
+# default_dataset2_split = "validation"
+# default_text_column = "sentence"
+# default_threshold = 0.9
+
+# # Load the default datasets at startup
+# ds_default1 = load_dataset(default_dataset1_name, split=default_dataset1_split)
+# ds_default2 = load_dataset(default_dataset2_name, split=default_dataset2_split)
+
+# def deduplicate(embedding_matrix: np.ndarray, threshold: float, batch_size: int = 1024) -> tuple[np.ndarray, dict[int, int]]:
+#     """
+#     Deduplicate embeddings and return the deduplicated indices and a mapping of removed indices to their corresponding original indices.
+#     """
+#     # Building the index
+#     reach = Reach(vectors=embedding_matrix, items=[str(i) for i in range(len(embedding_matrix))])
+
+#     deduplicated_indices = set(range(len(embedding_matrix)))
+#     duplicate_to_original_mapping = {}
+
+#     # Finding nearest neighbors
+#     results = reach.nearest_neighbor_threshold(
+#         embedding_matrix,
+#         threshold=threshold,
+#         batch_size=batch_size,
+#         show_progressbar=True  # Allow internal progress bar
+#     )
+
+#     # Processing duplicates
+#     for i, similar_items in enumerate(results):
+#         if i not in deduplicated_indices:
+#             continue
+
+#         similar_indices = [int(item[0]) for item in similar_items if int(item[0]) != i]
+
+#         for sim_idx in similar_indices:
+#             if sim_idx in deduplicated_indices:
+#                 deduplicated_indices.remove(sim_idx)
+#                 duplicate_to_original_mapping[sim_idx] = i
+
+#     return np.array(list(deduplicated_indices)), duplicate_to_original_mapping
+
+# def deduplicate_across_datasets(embedding_matrix_1: np.ndarray, embedding_matrix_2: np.ndarray, threshold: float, batch_size: int = 1024) -> tuple[list[int], dict[int, int]]:
+#     """
+#     Deduplicate embeddings across two datasets and return the indices of duplicates between them.
+#     """
+#     # Building the index from Dataset 1
+#     reach = Reach(vectors=embedding_matrix_1, items=[str(i) for i in range(len(embedding_matrix_1))])
+
+#     duplicate_indices_in_test = []
+#     duplicate_to_original_mapping = {}
+
+#     # Finding nearest neighbors between datasets
+#     results = reach.nearest_neighbor_threshold(
+#         embedding_matrix_2,
+#         threshold=threshold,
+#         batch_size=batch_size,
+#         show_progressbar=True  # Allow internal progress bar
+#     )
+
+#     # Processing duplicates
+#     for i, similar_items in enumerate(results):
+#         similar_indices = [int(item[0]) for item in similar_items if item[1] >= threshold]
+
+#         if similar_indices:
+#             duplicate_indices_in_test.append(i)
+#             duplicate_to_original_mapping[i] = similar_indices[0]
+
+#     return duplicate_indices_in_test, duplicate_to_original_mapping
+
+# def display_word_differences(x: str, y: str) -> str:
+#     diff = ndiff(x.split(), y.split())
+#     return " ".join([word for word in diff if word.startswith(('+', '-'))])
+
+# def perform_deduplication(
+#     deduplication_type,
+#     dataset1_name,
+#     dataset1_split,
+#     dataset1_text_column,
+#     dataset2_name="",
+#     dataset2_split="",
+#     dataset2_text_column="",
+#     threshold=default_threshold,
+#     progress=gr.Progress(track_tqdm=True)
+# ):
+#     # Deep Monkey-Patching of tqdm
+#     original_tqdm = tqdm.tqdm
+#     tqdm.tqdm = progress.tqdm
+#     for mod_name in list(sys.modules.keys()):
+#         if 'tqdm' in mod_name:
+#             sys.modules[mod_name].tqdm = progress.tqdm
+
+#     try:
+#         # Convert threshold to float
+#         threshold = float(threshold)
+        
+#         # Initialize status message
+#         status = ""
+
+#         if deduplication_type == "Single dataset":
+#             # Load Dataset 1
+#             status = "Loading Dataset 1..."
+#             yield status, ""
+#             if dataset1_name == default_dataset1_name and dataset1_split == default_dataset1_split:
+#                 ds = ds_default1
+#             else:
+#                 ds = load_dataset(dataset1_name, split=dataset1_split)
+            
+#             # Extract texts
+#             status = "Extracting texts from Dataset 1..."
+#             yield status, ""
+#             texts = [example[dataset1_text_column] for example in ds]
+            
+#             # Compute embeddings
+#             status = "Computing embeddings for Dataset 1..."
+#             yield status, ""
+#             embedding_matrix = model.encode(texts, show_progressbar=True)  # Enable internal progress bar
+            
+#             # Deduplicate
+#             status = "Deduplicating embeddings..."
+#             yield status, ""
+#             deduplicated_indices, duplicate_to_original_mapping = deduplicate(
+#                 embedding_matrix, threshold
+#             )
+            
+#             # Prepare the results
+#             num_duplicates = len(duplicate_to_original_mapping)
+#             num_total = len(texts)
+#             num_deduplicated = len(deduplicated_indices)
+            
+#             result_text = f"**Total documents:** {num_total}\n"
+#             result_text += f"**Number of duplicates found:** {num_duplicates}\n"
+#             result_text += f"**Number of unique documents after deduplication:** {num_deduplicated}\n\n"
+            
+#             # Show deduplicated examples
+#             if num_duplicates > 0:
+#                 result_text += "**Examples of duplicates found:**\n\n"
+#                 num_examples = min(5, num_duplicates)
+#                 for duplicate_idx, original_idx in list(duplicate_to_original_mapping.items())[:num_examples]:
+#                     original_text = texts[original_idx]
+#                     duplicate_text = texts[duplicate_idx]
+#                     differences = display_word_differences(original_text, duplicate_text)
+#                     result_text += f"**Original text:**\n{original_text}\n\n"
+#                     result_text += f"**Duplicate text:**\n{duplicate_text}\n\n"
+#                     result_text += f"**Differences:**\n{differences}\n"
+#                     result_text += "-" * 50 + "\n\n"
+#             else:
+#                 result_text += "No duplicates found."
+            
+#             # Final status
+#             status = "Deduplication completed."
+#             yield status, result_text
+                
+#         elif deduplication_type == "Cross-dataset":
+#             # Load Dataset 1
+#             status = "Loading Dataset 1..."
+#             yield status, ""
+#             if dataset1_name == default_dataset1_name and dataset1_split == default_dataset1_split:
+#                 ds1 = ds_default1
+#             else:
+#                 ds1 = load_dataset(dataset1_name, split=dataset1_split)
+            
+#             # Load Dataset 2
+#             status = "Loading Dataset 2..."
+#             yield status, ""
+#             if dataset2_name == default_dataset2_name and dataset2_split == default_dataset2_split:
+#                 ds2 = ds_default2
+#             else:
+#                 ds2 = load_dataset(dataset2_name, split=dataset2_split)
+            
+#             # Extract texts from Dataset 1
+#             status = "Extracting texts from Dataset 1..."
+#             yield status, ""
+#             texts1 = [example[dataset1_text_column] for example in ds1]
+            
+#             # Extract texts from Dataset 2
+#             status = "Extracting texts from Dataset 2..."
+#             yield status, ""
+#             texts2 = [example[dataset2_text_column] for example in ds2]
+            
+#             # Compute embeddings for Dataset 1
+#             status = "Computing embeddings for Dataset 1..."
+#             yield status, ""
+#             embedding_matrix1 = model.encode(texts1, show_progressbar=True)
+            
+#             # Compute embeddings for Dataset 2
+#             status = "Computing embeddings for Dataset 2..."
+#             yield status, ""
+#             embedding_matrix2 = model.encode(texts2, show_progressbar=True)
+            
+#             # Deduplicate across datasets
+#             status = "Deduplicating embeddings across datasets..."
+#             yield status, ""
+#             duplicate_indices_in_ds2, duplicate_to_original_mapping = deduplicate_across_datasets(
+#                 embedding_matrix1, embedding_matrix2, threshold
+#             )
+            
+#             num_duplicates = len(duplicate_indices_in_ds2)
+#             num_total_ds2 = len(texts2)
+#             num_unique_ds2 = num_total_ds2 - num_duplicates
+            
+#             result_text = f"**Total documents in {dataset2_name}/{dataset2_split}:** {num_total_ds2}\n"
+#             result_text += f"**Number of duplicates found in {dataset2_name}/{dataset2_split}:** {num_duplicates}\n"
+#             result_text += f"**Number of unique documents in {dataset2_name}/{dataset2_split} after deduplication:** {num_unique_ds2}\n\n"
+            
+#             # Show deduplicated examples
+#             if num_duplicates > 0:
+#                 result_text += "**Examples of duplicates found in Dataset 2:**\n\n"
+#                 num_examples = min(5, num_duplicates)
+#                 for duplicate_idx in duplicate_indices_in_ds2[:num_examples]:
+#                     original_idx = duplicate_to_original_mapping[duplicate_idx]
+#                     original_text = texts1[original_idx]
+#                     duplicate_text = texts2[duplicate_idx]
+#                     differences = display_word_differences(original_text, duplicate_text)
+#                     result_text += f"**Original text (Dataset 1):**\n{original_text}\n\n"
+#                     result_text += f"**Duplicate text (Dataset 2):**\n{duplicate_text}\n\n"
+#                     result_text += f"**Differences:**\n{differences}\n"
+#                     result_text += "-" * 50 + "\n\n"
+#             else:
+#                 result_text += "No duplicates found."
+            
+#             # Final status
+#             status = "Deduplication completed."
+#             yield status, result_text
+
+#     finally:
+#         # Restore original tqdm
+#         tqdm.tqdm = original_tqdm
+#         for mod_name in list(sys.modules.keys()):
+#             if 'tqdm' in mod_name:
+#                 sys.modules[mod_name].tqdm = original_tqdm
+
+# with gr.Blocks() as demo:
+#     gr.Markdown("# Semantic Deduplication")
+
+#     deduplication_type = gr.Radio(
+#         choices=["Single dataset", "Cross-dataset"],
+#         label="Deduplication Type",
+#         value="Single dataset"
+#     )
+
+#     with gr.Row():
+#         dataset1_name = gr.Textbox(value=default_dataset1_name, label="Dataset 1 Name")
+#         dataset1_split = gr.Textbox(value=default_dataset1_split, label="Dataset 1 Split")
+#         dataset1_text_column = gr.Textbox(value=default_text_column, label="Text Column Name")
+
+#     dataset2_inputs = gr.Column(visible=False)
+#     with dataset2_inputs:
+#         gr.Markdown("### Dataset 2")
+#         with gr.Row():
+#             dataset2_name = gr.Textbox(value=default_dataset2_name, label="Dataset 2 Name")
+#             dataset2_split = gr.Textbox(value=default_dataset2_split, label="Dataset 2 Split")
+#             dataset2_text_column = gr.Textbox(value=default_text_column, label="Text Column Name")
+
+#     threshold = gr.Slider(
+#         minimum=0.0,
+#         maximum=1.0,
+#         value=default_threshold,
+#         label="Similarity Threshold"
+#     )
+
+#     compute_button = gr.Button("Compute")
+
+#     status_output = gr.Markdown()
+#     result_output = gr.Markdown()
+
+#     # Function to update the visibility of dataset2_inputs
+#     def update_visibility(deduplication_type_value):
+#         if deduplication_type_value == "Cross-dataset":
+#             return gr.update(visible=True)
+#         else:
+#             return gr.update(visible=False)
+
+#     deduplication_type.change(
+#         update_visibility,
+#         inputs=deduplication_type,
+#         outputs=dataset2_inputs
+#     )
+
+#     compute_button.click(
+#         fn=perform_deduplication,
+#         inputs=[
+#             deduplication_type, 
+#             dataset1_name, 
+#             dataset1_split, 
+#             dataset1_text_column,
+#             dataset2_name, 
+#             dataset2_split, 
+#             dataset2_text_column,
+#             threshold
+#         ],
+#         outputs=[status_output, result_output]
+#     )
+        
+# demo.launch()
+
+
 # import gradio as gr
 # from datasets import load_dataset
 # import numpy as np