Code graph pipeline improvements and fixes

cognee/api/v1/cognify/code_graph_pipeline.py

@@ -71,7 +71,7 @@ async def run_code_graph_pipeline(repo_path, include_docs=True):
             Task(ingest_data_with_metadata, dataset_name="repo_docs", user=user),
             Task(get_data_list_for_user, dataset_name="repo_docs", user=user),
             Task(classify_documents),
-            Task(extract_chunks_from_documents),
+            Task(extract_chunks_from_documents, embedding_model=embedding_engine.model, max_tokens=8192),
             Task(extract_graph_from_data, graph_model=KnowledgeGraph, task_config={"batch_size": 50}),
             Task(
                 summarize_text,

cognee/modules/chunking/TextChunker.py

@@ -1,31 +1,45 @@
-from uuid import uuid5, NAMESPACE_OID
+from typing import Optional
+from uuid import NAMESPACE_OID, uuid5
 
-from .models.DocumentChunk import DocumentChunk
 from cognee.tasks.chunks import chunk_by_paragraph
 
+from .models.DocumentChunk import DocumentChunk
+
+
 class TextChunker():
     document = None
     max_chunk_size: int
 
     chunk_index = 0
     chunk_size = 0
+    token_count = 0
 
-    def __init__(self, document, get_text: callable, chunk_size: int = 1024):
+    def __init__(self, document, get_text: callable, embedding_model: Optional[str] = None, max_tokens: Optional[int] = None, chunk_size: int = 1024):
         self.document = document
         self.max_chunk_size = chunk_size
         self.get_text = get_text
+        self.max_tokens = max_tokens if max_tokens else float("inf")
+        self.embedding_model = embedding_model
+
+    def check_word_count_and_token_count(self, word_count_before, token_count_before, chunk_data):
+        word_count_fits = word_count_before + chunk_data["word_count"] <= self.max_chunk_size
+        token_count_fits = token_count_before + chunk_data["token_count"] <= self.max_tokens
+        return word_count_fits and token_count_fits
 
     def read(self):
         paragraph_chunks = []
         for content_text in self.get_text():
             for chunk_data in chunk_by_paragraph(
                 content_text,
+                self.embedding_model,
+                self.max_tokens,
                 self.max_chunk_size,
                 batch_paragraphs = True,
             ):
-                if self.chunk_size + chunk_data["word_count"] <= self.max_chunk_size:
+                if self.check_word_count_and_token_count(self.chunk_size, self.token_count, chunk_data):
                     paragraph_chunks.append(chunk_data)
                     self.chunk_size += chunk_data["word_count"]
+                    self.token_count += chunk_data["token_count"]
                 else:
                     if len(paragraph_chunks) == 0:
                         yield DocumentChunk(
@@ -63,6 +77,7 @@ def read(self):
                             print(e)
                         paragraph_chunks = [chunk_data]
                         self.chunk_size = chunk_data["word_count"]
+                        self.token_count = chunk_data["token_count"]
 
                     self.chunk_index += 1
 

cognee/modules/data/processing/document_types/AudioDocument.py

@@ -1,6 +1,10 @@
+from typing import Optional
+
 from cognee.infrastructure.llm.get_llm_client import get_llm_client
-from .Document import Document
+
 from .ChunkerMapping import ChunkerConfig
+from .Document import Document
+
 
 class AudioDocument(Document):
     type: str = "audio"
@@ -9,12 +13,12 @@ def create_transcript(self):
         result = get_llm_client().create_transcript(self.raw_data_location)
         return(result.text)
 
-    def read(self, chunk_size: int, chunker: str):
+    def read(self, chunk_size: int, chunker: str, embedding_model:Optional[str], max_tokens: Optional[int]):
         # Transcribe the audio file
 
         text = self.create_transcript()
 
         chunker_func = ChunkerConfig.get_chunker(chunker)
-        chunker = chunker_func(self, chunk_size = chunk_size, get_text = lambda: [text])
+        chunker = chunker_func(self, chunk_size = chunk_size, get_text = lambda: [text], embedding_model=embedding_model, max_tokens=max_tokens)
 
         yield from chunker.read()

cognee/modules/data/processing/document_types/Document.py

@@ -1,3 +1,4 @@
+from typing import Optional
 from uuid import UUID
 
 from cognee.infrastructure.engine import DataPoint
@@ -13,5 +14,5 @@ class Document(DataPoint):
         "type": "Document"
     }
 
-    def read(self, chunk_size: int, chunker = str) -> str:
+    def read(self, chunk_size: int, embedding_model: Optional[str], max_tokens: Optional[int], chunker = str) -> str:
         pass

cognee/modules/data/processing/document_types/ImageDocument.py

@@ -1,6 +1,10 @@
+from typing import Optional
+
 from cognee.infrastructure.llm.get_llm_client import get_llm_client
-from .Document import Document
+
 from .ChunkerMapping import ChunkerConfig
+from .Document import Document
+
 
 class ImageDocument(Document):
     type: str = "image"
@@ -10,11 +14,11 @@ def transcribe_image(self):
         result = get_llm_client().transcribe_image(self.raw_data_location)
         return(result.choices[0].message.content)
 
-    def read(self, chunk_size: int, chunker: str):
+    def read(self, chunk_size: int, chunker: str, embedding_model:Optional[str], max_tokens: Optional[int]):
         # Transcribe the image file
         text = self.transcribe_image()
 
         chunker_func = ChunkerConfig.get_chunker(chunker)
-        chunker = chunker_func(self, chunk_size = chunk_size, get_text = lambda: [text])
+        chunker = chunker_func(self, chunk_size = chunk_size, get_text = lambda: [text], embedding_model=embedding_model, max_tokens=max_tokens)
 
         yield from chunker.read()

cognee/modules/data/processing/document_types/PdfDocument.py

@@ -1,11 +1,15 @@
+from typing import Optional
+
 from pypdf import PdfReader
-from .Document import Document
+
 from .ChunkerMapping import ChunkerConfig
+from .Document import Document
+
 
 class PdfDocument(Document):
     type: str = "pdf"
 
-    def read(self, chunk_size: int, chunker: str):
+    def read(self, chunk_size: int, chunker: str, embedding_model:Optional[str], max_tokens: Optional[int]):
         file = PdfReader(self.raw_data_location)
 
         def get_text():
@@ -14,7 +18,7 @@ def get_text():
                 yield page_text
 
         chunker_func = ChunkerConfig.get_chunker(chunker)
-        chunker = chunker_func(self, chunk_size = chunk_size, get_text = get_text)
+        chunker = chunker_func(self, chunk_size = chunk_size, get_text = get_text, embedding_model=embedding_model, max_tokens=max_tokens)
 
         yield from chunker.read()
 

cognee/modules/data/processing/document_types/TextDocument.py

@@ -1,10 +1,13 @@
-from .Document import Document
+from typing import Optional
+
 from .ChunkerMapping import ChunkerConfig
+from .Document import Document
+
 
 class TextDocument(Document):
     type: str = "text"
 
-    def read(self, chunk_size: int, chunker: str):
+    def read(self, chunk_size: int, chunker: str, embedding_model:Optional[str], max_tokens: Optional[int]):
         def get_text():
             with open(self.raw_data_location, mode = "r", encoding = "utf-8") as file:
                 while True:
@@ -17,6 +20,6 @@ def get_text():
 
         chunker_func = ChunkerConfig.get_chunker(chunker)
 
-        chunker = chunker_func(self, chunk_size = chunk_size, get_text = get_text)
+        chunker = chunker_func(self, chunk_size = chunk_size, get_text = get_text, embedding_model=embedding_model, max_tokens=max_tokens)
 
         yield from chunker.read()

cognee/modules/data/processing/document_types/UnstructuredDocument.py

@@ -1,14 +1,16 @@
 from io import StringIO
+from typing import Optional
 
 from cognee.modules.chunking.TextChunker import TextChunker
-from .Document import Document
 from cognee.modules.data.exceptions import UnstructuredLibraryImportError
 
+from .Document import Document
+
 
 class UnstructuredDocument(Document):
     type: str = "unstructured"
 
-    def read(self, chunk_size: int):
+    def read(self, chunk_size: int, chunker: str, embedding_model:Optional[str], max_tokens: Optional[int]) -> str:
         def get_text():
             try:
                 from unstructured.partition.auto import partition
@@ -27,6 +29,6 @@ def get_text():
 
                 yield text
 
-        chunker = TextChunker(self, chunk_size = chunk_size, get_text = get_text)
+        chunker = TextChunker(self, chunk_size = chunk_size, get_text = get_text, embedding_model=embedding_model, max_tokens=max_tokens)
 
         yield from chunker.read()

cognee/tasks/chunks/chunk_by_paragraph.py

@@ -1,8 +1,18 @@
-from uuid import uuid5, NAMESPACE_OID
-from typing import Dict, Any, Iterator
+from typing import Any, Dict, Iterator, Optional, Union
+from uuid import NAMESPACE_OID, uuid5
+
+import tiktoken
+
 from .chunk_by_sentence import chunk_by_sentence
 
-def chunk_by_paragraph(data: str, paragraph_length: int = 1024, batch_paragraphs: bool = True) -> Iterator[Dict[str, Any]]:
+
+def chunk_by_paragraph(
+        data: str, 
+        embedding_model: Optional[str], 
+        max_tokens: Optional[Union[int, float]], 
+        paragraph_length: int = 1024, 
+        batch_paragraphs: bool = True
+    ) -> Iterator[Dict[str, Any]]:
     """
     Chunks text by paragraph while preserving exact text reconstruction capability.
     When chunks are joined with empty string "", they reproduce the original text exactly.
@@ -12,14 +22,26 @@ def chunk_by_paragraph(data: str, paragraph_length: int = 1024, batch_paragraphs
     chunk_index = 0
     paragraph_ids = []
     last_cut_type = None
+    current_token_count = 0
+    if not max_tokens:
+        max_tokens = float("inf")
 
     for paragraph_id, sentence, word_count, end_type in chunk_by_sentence(data, maximum_length=paragraph_length):
         # Check if this sentence would exceed length limit
-        if current_word_count > 0 and current_word_count + word_count > paragraph_length:
+        if embedding_model:
+            if embedding_model.startswith("azure/"):
+                embedding_model = embedding_model.split("/")[-1]
+            tokenizer = tiktoken.encoding_for_model(embedding_model)
+            token_count = len(tokenizer.encode(sentence))
+        else:
+            token_count = 0
+
+        if current_word_count > 0 and (current_word_count + word_count > paragraph_length or current_token_count + token_count > max_tokens):
             # Yield current chunk
             chunk_dict = {
                 "text": current_chunk,
                 "word_count": current_word_count,
+                "token_count": current_token_count,
                 "chunk_id": uuid5(NAMESPACE_OID, current_chunk),
                 "paragraph_ids": paragraph_ids,
                 "chunk_index": chunk_index,
@@ -32,18 +54,21 @@ def chunk_by_paragraph(data: str, paragraph_length: int = 1024, batch_paragraphs
             paragraph_ids = []
             current_chunk = ""
             current_word_count = 0
+            current_token_count = 0
             chunk_index += 1
 
         paragraph_ids.append(paragraph_id)
         current_chunk += sentence
         current_word_count += word_count
+        current_token_count += token_count
 
         # Handle end of paragraph
         if end_type in ("paragraph_end", "sentence_cut") and not batch_paragraphs:
             # For non-batch mode, yield each paragraph separately
             chunk_dict = {
                 "text": current_chunk,
                 "word_count": current_word_count,
+                "token_count": current_token_count,
                 "paragraph_ids": paragraph_ids,
                 "chunk_id": uuid5(NAMESPACE_OID, current_chunk),
                 "chunk_index": chunk_index,
@@ -53,6 +78,7 @@ def chunk_by_paragraph(data: str, paragraph_length: int = 1024, batch_paragraphs
             paragraph_ids = []
             current_chunk = ""
             current_word_count = 0
+            current_token_count = 0
             chunk_index += 1
 
         last_cut_type = end_type
@@ -62,6 +88,7 @@ def chunk_by_paragraph(data: str, paragraph_length: int = 1024, batch_paragraphs
         chunk_dict = {
             "text": current_chunk,
             "word_count": current_word_count,
+            "token_count": current_token_count,
             "chunk_id": uuid5(NAMESPACE_OID, current_chunk),
             "paragraph_ids": paragraph_ids,
             "chunk_index": chunk_index,

cognee/tasks/documents/extract_chunks_from_documents.py

@@ -1,7 +1,15 @@
+from typing import Optional
+
 from cognee.modules.data.processing.document_types.Document import Document
 
 
-async def extract_chunks_from_documents(documents: list[Document], chunk_size: int = 1024, chunker = 'text_chunker'):
+async def extract_chunks_from_documents(
+        documents: list[Document], 
+        chunk_size: int = 1024, 
+        chunker='text_chunker', 
+        embedding_model: Optional[str] = None, 
+        max_tokens: Optional[int] = None,
+        ):
     for document in documents:
-        for document_chunk in document.read(chunk_size = chunk_size, chunker = chunker):
+        for document_chunk in document.read(chunk_size=chunk_size, chunker=chunker, embedding_model=embedding_model, max_tokens=max_tokens):
             yield document_chunk

cognee/tasks/repo_processor/get_non_code_files.py

@@ -25,8 +25,27 @@ async def get_non_py_files(repo_path):
         'node_modules', '*.egg-info'
     }
 
+    ALLOWED_EXTENSIONS = {
+        '.txt', '.md', '.csv', '.json', '.xml', '.yaml', '.yml', '.html', 
+        '.css', '.js', '.ts', '.jsx', '.tsx', '.sql', '.log', '.ini', 
+        '.toml', '.properties', '.sh', '.bash', '.dockerfile', '.gitignore', 
+        '.gitattributes', '.makefile', '.pyproject', '.requirements', 
+        '.env', '.pdf', '.doc', '.docx', '.dot', '.dotx', '.rtf', 
+        '.wps', '.wpd', '.odt', '.ott', '.ottx', '.txt', '.wp', 
+        '.sdw', '.sdx', '.docm', '.dotm', 
+        # Additional extensions for other programming languages
+        '.java', '.c', '.cpp', '.h', '.cs', '.go', '.php', '.rb', 
+        '.swift', '.pl', '.lua', '.rs', '.scala', '.kt', '.sh', 
+        '.sql', '.v', '.asm', '.pas', '.d', '.ml', '.clj', '.cljs', 
+        '.erl', '.ex', '.exs', '.f', '.fs', '.r', '.pyi', 
+        '.pdb', '.ipynb', '.rmd', '.cabal', '.hs', '.nim', 
+        '.vhdl', '.verilog', '.svelte', '.html', '.css', '.scss', 
+        '.less', '.json5', '.yaml', '.yml'
+    }
+
     def should_process(path):
-        return not any(pattern in path for pattern in IGNORED_PATTERNS)
+        _, ext = os.path.splitext(path)
+        return ext in ALLOWED_EXTENSIONS and not any(pattern in path for pattern in IGNORED_PATTERNS)
 
     non_py_files_paths = [
         os.path.join(root, file)