From 287427a24075a5d6197daed8ada7e139f00d52e2 Mon Sep 17 00:00:00 2001 From: Leon Luithlen Date: Mon, 4 Nov 2024 15:45:06 +0100 Subject: [PATCH 1/6] Update litellm and openai version, bump pydantic --- cognee/api/client.py | 4 +- cognee/modules/pipelines/Pipeline.py | 2 +- .../pipelines/operations/run_parallel.py | 4 +- cognee/shared/SourceCodeGraph.py | 10 +- cognee/tests/test_library.py | 2 +- cognee/tests/test_neo4j.py | 2 +- cognee/tests/test_qdrant.py | 2 +- cognee/tests/test_weaviate.py | 2 +- log.txt | 0 poetry.lock | 845 +++++++++--------- pyproject.toml | 4 +- 11 files changed, 441 insertions(+), 436 deletions(-) create mode 100644 log.txt diff --git a/cognee/api/client.py b/cognee/api/client.py index 4b41f0572..7c9a5c644 100644 --- a/cognee/api/client.py +++ b/cognee/api/client.py @@ -146,7 +146,7 @@ class DatasetDTO(OutDTO): id: UUID name: str created_at: datetime - updated_at: Optional[datetime] + updated_at: Optional[datetime] = None owner_id: UUID @app.get("/api/v1/datasets", response_model = list[DatasetDTO]) @@ -200,7 +200,7 @@ class DataDTO(OutDTO): id: UUID name: str created_at: datetime - updated_at: Optional[datetime] + updated_at: Optional[datetime] = None extension: str mime_type: str raw_data_location: str diff --git a/cognee/modules/pipelines/Pipeline.py b/cognee/modules/pipelines/Pipeline.py index 13807d9ed..610394174 100644 --- a/cognee/modules/pipelines/Pipeline.py +++ b/cognee/modules/pipelines/Pipeline.py @@ -5,7 +5,7 @@ from .models.Task import Task class PipelineConfig(BaseModel): batch_count: int = 10 - description: Optional[str] + description: Optional[str] = None class Pipeline(): id: UUID = uuid4() diff --git a/cognee/modules/pipelines/operations/run_parallel.py b/cognee/modules/pipelines/operations/run_parallel.py index 045b8dec3..ab78b8300 100644 --- a/cognee/modules/pipelines/operations/run_parallel.py +++ b/cognee/modules/pipelines/operations/run_parallel.py @@ -1,8 +1,8 @@ -from typing import Any, Callable, Generator +from typing import Any, Callable, Generator, List import asyncio from ..tasks.Task import Task -def run_tasks_parallel(tasks: [Task]) -> Callable[[Any], Generator[Any, Any, Any]]: +def run_tasks_parallel(tasks: List[Task]) -> Callable[[Any], Generator[Any, Any, Any]]: async def parallel_run(*args, **kwargs): parallel_tasks = [asyncio.create_task(task.run(*args, **kwargs)) for task in tasks] diff --git a/cognee/shared/SourceCodeGraph.py b/cognee/shared/SourceCodeGraph.py index 279eb6870..51b90f296 100644 --- a/cognee/shared/SourceCodeGraph.py +++ b/cognee/shared/SourceCodeGraph.py @@ -6,15 +6,15 @@ class BaseClass(BaseModel): name: str type: Literal["Class"] = "Class" description: str - constructor_parameters: Optional[List[str]] + constructor_parameters: Optional[List[str]] = None class Class(BaseModel): id: str name: str type: Literal["Class"] = "Class" description: str - constructor_parameters: Optional[List[str]] - from_class: Optional[BaseClass] + constructor_parameters: Optional[List[str]] = None + from_class: Optional[BaseClass] = None class ClassInstance(BaseModel): id: str @@ -28,7 +28,7 @@ class Function(BaseModel): name: str type: Literal["Function"] = "Function" description: str - parameters: Optional[List[str]] + parameters: Optional[List[str]] = None return_type: str is_static: Optional[bool] = False @@ -38,7 +38,7 @@ class Variable(BaseModel): type: Literal["Variable"] = "Variable" description: str is_static: Optional[bool] = False - default_value: Optional[str] + default_value: Optional[str] = None class Operator(BaseModel): id: str diff --git a/cognee/tests/test_library.py b/cognee/tests/test_library.py index 495339391..16f1ead7f 100755 --- a/cognee/tests/test_library.py +++ b/cognee/tests/test_library.py @@ -49,7 +49,7 @@ async def main(): search_results = await cognee.search(SearchType.SUMMARIES, query = random_node_name) assert len(search_results) != 0, "Query related summaries don't exist." - print("\n\Extracted summaries are:\n") + print("\nExtracted summaries are:\n") for result in search_results: print(f"{result}\n") diff --git a/cognee/tests/test_neo4j.py b/cognee/tests/test_neo4j.py index feff647c7..dece90ad0 100644 --- a/cognee/tests/test_neo4j.py +++ b/cognee/tests/test_neo4j.py @@ -53,7 +53,7 @@ async def main(): search_results = await cognee.search(SearchType.SUMMARIES, query = random_node_name) assert len(search_results) != 0, "Query related summaries don't exist." - print("\n\Extracted summaries are:\n") + print("\nExtracted summaries are:\n") for result in search_results: print(f"{result}\n") diff --git a/cognee/tests/test_qdrant.py b/cognee/tests/test_qdrant.py index 2ea011eb5..9c2383166 100644 --- a/cognee/tests/test_qdrant.py +++ b/cognee/tests/test_qdrant.py @@ -54,7 +54,7 @@ async def main(): search_results = await cognee.search(SearchType.SUMMARIES, query = random_node_name) assert len(search_results) != 0, "Query related summaries don't exist." - print("\n\Extracted summaries are:\n") + print("\nExtracted summaries are:\n") for result in search_results: print(f"{result}\n") diff --git a/cognee/tests/test_weaviate.py b/cognee/tests/test_weaviate.py index 7ad29a9af..056dd0dcc 100644 --- a/cognee/tests/test_weaviate.py +++ b/cognee/tests/test_weaviate.py @@ -52,7 +52,7 @@ async def main(): search_results = await cognee.search(SearchType.SUMMARIES, query = random_node_name) assert len(search_results) != 0, "Query related summaries don't exist." - print("\n\Extracted summaries are:\n") + print("\nExtracted summaries are:\n") for result in search_results: print(f"{result}\n") diff --git a/log.txt b/log.txt new file mode 100644 index 000000000..e69de29bb diff --git a/poetry.lock b/poetry.lock index 612e44b34..4a5476797 100644 --- a/poetry.lock +++ b/poetry.lock @@ -580,35 +580,34 @@ lxml = ["lxml"] [[package]] name = "bleach" -version = "6.1.0" +version = "6.2.0" description = "An easy safelist-based HTML-sanitizing tool." optional = false 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469653757..1c9d40508 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -19,7 +19,7 @@ classifiers = [ [tool.poetry.dependencies] python = ">=3.9.0,<3.12" -openai = "1.27.0" +openai = "1.52.0" pydantic = "2.8.2" python-dotenv = "1.0.1" fastapi = "^0.109.2" @@ -55,7 +55,7 @@ structlog = "^24.1.0" tiktoken = "0.7.0" posthog = "^3.5.0" lancedb = "0.8.0" -litellm = "1.38.10" +litellm = "1.51.3" groq = "0.8.0" tantivy = "^0.22.0" tokenizers ="0.15.2" From 79642cfca1e712ed0a8c678609ee8f2dbf196078 Mon Sep 17 00:00:00 2001 From: Leon Luithlen Date: Mon, 4 Nov 2024 15:53:40 +0100 Subject: [PATCH 2/6] Replace update_forward_refs with model_rebuild calls --- cognee/shared/GithubTopology.py | 2 +- cognee/tasks/infer_data_ontology/models/models.py | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/cognee/shared/GithubTopology.py b/cognee/shared/GithubTopology.py index a84aa5983..3315c72e4 100644 --- a/cognee/shared/GithubTopology.py +++ b/cognee/shared/GithubTopology.py @@ -18,7 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.../embeddings/FastembedEmbeddingEngine.py | 25 - cognee/modules/cognify/evaluate.py | 1 - cognee/modules/cognify/train.py | 1 - poetry.lock | 1757 +++++++++-------- pyproject.toml | 37 +- 5 files changed, 949 insertions(+), 872 deletions(-) delete mode 100644 cognee/infrastructure/databases/vector/embeddings/FastembedEmbeddingEngine.py diff --git a/cognee/infrastructure/databases/vector/embeddings/FastembedEmbeddingEngine.py b/cognee/infrastructure/databases/vector/embeddings/FastembedEmbeddingEngine.py deleted file mode 100644 index 3645ae28d..000000000 --- a/cognee/infrastructure/databases/vector/embeddings/FastembedEmbeddingEngine.py +++ /dev/null @@ -1,25 +0,0 @@ -from typing import List, Optional -from fastembed import TextEmbedding -from cognee.root_dir import get_absolute_path -from cognee.infrastructure.databases.vector.embeddings.EmbeddingEngine import EmbeddingEngine - -class FastembedEmbeddingEngine(EmbeddingEngine): - embedding_model: str - embedding_dimensions: int - - 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+tweepy = "4.14.0" [tool.poetry.group.docs.dependencies] mkdocs-material = "^9.5.42" From cb205069bc6266f26d86be40baaf7be5ef3a2066 Mon Sep 17 00:00:00 2001 From: Leon Luithlen Date: Mon, 4 Nov 2024 17:20:01 +0100 Subject: [PATCH 4/6] Replace parse_obj with model_validate --- .../chunk_naive_llm_classifier/chunk_naive_llm_classifier.py | 4 ++-- cognee/tasks/infer_data_ontology/infer_data_ontology.py | 2 +- cognee/tasks/save_chunks_to_store/save_chunks_to_store.py | 2 +- 3 files changed, 4 insertions(+), 4 deletions(-) diff --git a/cognee/tasks/chunk_naive_llm_classifier/chunk_naive_llm_classifier.py b/cognee/tasks/chunk_naive_llm_classifier/chunk_naive_llm_classifier.py index b4bcb9467..4a0c8af96 100644 --- a/cognee/tasks/chunk_naive_llm_classifier/chunk_naive_llm_classifier.py +++ b/cognee/tasks/chunk_naive_llm_classifier/chunk_naive_llm_classifier.py @@ -59,7 +59,7 @@ async def chunk_naive_llm_classifier(data_chunks: list[DocumentChunk], classific data_points.append( DataPoint[Keyword]( id=str(classification_type_id), - payload=Keyword.parse_obj({ + payload=Keyword.model_validate({ "uuid": str(classification_type_id), "text": classification_type_label, "chunk_id": str(data_chunk.chunk_id), @@ -98,7 +98,7 @@ async def chunk_naive_llm_classifier(data_chunks: list[DocumentChunk], classific data_points.append( DataPoint[Keyword]( id=str(classification_subtype_id), - payload=Keyword.parse_obj({ + payload=Keyword.model_validate({ "uuid": str(classification_subtype_id), "text": classification_subtype_label, "chunk_id": str(data_chunk.chunk_id), diff --git a/cognee/tasks/infer_data_ontology/infer_data_ontology.py b/cognee/tasks/infer_data_ontology/infer_data_ontology.py index 6415eb005..b9e2acd12 100644 --- a/cognee/tasks/infer_data_ontology/infer_data_ontology.py +++ b/cognee/tasks/infer_data_ontology/infer_data_ontology.py @@ -56,7 +56,7 @@ class OntologyEngine: for item in items: flat_list.extend(await self.recursive_flatten(item, parent_id)) elif isinstance(items, dict): - model = NodeModel.parse_obj(items) + model = NodeModel.model_validate(items) flat_list.append(await self.flatten_model(model, parent_id)) for child in model.children: flat_list.extend(await self.recursive_flatten(child, model.node_id)) diff --git a/cognee/tasks/save_chunks_to_store/save_chunks_to_store.py b/cognee/tasks/save_chunks_to_store/save_chunks_to_store.py index 435fd0208..90286cf94 100644 --- a/cognee/tasks/save_chunks_to_store/save_chunks_to_store.py +++ b/cognee/tasks/save_chunks_to_store/save_chunks_to_store.py @@ -11,7 +11,7 @@ async def save_chunks_to_store(data_chunks: list[DocumentChunk], collection_name # Remove and unlink existing chunks if await vector_engine.has_collection(collection_name): - existing_chunks = [DocumentChunk.parse_obj(chunk.payload) for chunk in (await vector_engine.retrieve( + existing_chunks = [DocumentChunk.model_validate(chunk.payload) for chunk in (await vector_engine.retrieve( collection_name, [str(chunk.chunk_id) for chunk in data_chunks], ))] From 5b07a0a3d2fdaeae3523f5f5a1d95cc19357de5e Mon Sep 17 00:00:00 2001 From: Leon Luithlen Date: Mon, 4 Nov 2024 17:24:46 +0100 Subject: [PATCH 5/6] Add type hint in extract_text_from_file --- cognee/infrastructure/files/utils/extract_text_from_file.py | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/cognee/infrastructure/files/utils/extract_text_from_file.py b/cognee/infrastructure/files/utils/extract_text_from_file.py index 564704bec..171128b2e 100644 --- a/cognee/infrastructure/files/utils/extract_text_from_file.py +++ b/cognee/infrastructure/files/utils/extract_text_from_file.py @@ -1,7 +1,8 @@ from typing import BinaryIO from pypdf import PdfReader +import filetype -def extract_text_from_file(file: BinaryIO, file_type) -> str: +def extract_text_from_file(file: BinaryIO, file_type: filetype.Type) -> str: """Extract text from a file""" if file_type.extension == "pdf": reader = PdfReader(stream = file) From 67f5d07919efd928da9e907abbf8d801f77d40c0 Mon Sep 17 00:00:00 2001 From: Leon Luithlen Date: Mon, 4 Nov 2024 17:24:56 +0100 Subject: [PATCH 6/6] Delete get_file_size --- cognee/infrastructure/files/utils/get_file_size.py | 5 ----- 1 file changed, 5 deletions(-) delete mode 100644 cognee/infrastructure/files/utils/get_file_size.py diff --git a/cognee/infrastructure/files/utils/get_file_size.py b/cognee/infrastructure/files/utils/get_file_size.py deleted file mode 100644 index 6619deb31..000000000 --- a/cognee/infrastructure/files/utils/get_file_size.py +++ /dev/null @@ -1,5 +0,0 @@ -import os - -def get_file_size(file_path: str): - """Get the size of a file""" - return os.path.getsize(file_path)