From f75e35c337156b4b7d67756def954be424e59eb2 Mon Sep 17 00:00:00 2001 From: Boris Date: Sat, 8 Feb 2025 02:00:15 +0100 Subject: [PATCH] fix: custom model pipeline (#508) MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit ## Description ## DCO Affirmation I affirm that all code in every commit of this pull request conforms to the terms of the Topoteretes Developer Certificate of Origin ## Summary by CodeRabbit - **New Features** • Graph visualizations now allow exporting to a user-specified file path for more flexible output management. • The text embedding process has been enhanced with an additional tokenizer option for improved performance. • A new `ExtendableDataPoint` class has been introduced for future extensions. • New JSON files for companies and individuals have been added to facilitate testing and data processing. - **Improvements** • Search functionality now uses updated identifiers for more reliable content retrieval. • Metadata handling has been streamlined across various classes by removing unnecessary type specifications. • Enhanced serialization of properties in the Neo4j adapter for improved handling of complex structures. • The setup process for databases has been improved with a new asynchronous setup function. - **Chores** • Dependency and configuration updates improve overall stability and performance. --- .gitignore | 1 + cognee/api/v1/visualize/visualize.py | 12 +- .../databases/graph/neo4j_driver/adapter.py | 8 +- .../hybrid/falkordb/FalkorDBAdapter.py | 2 +- .../sqlalchemy/SqlAlchemyAdapter.py | 10 +- .../embeddings/LiteLLMEmbeddingEngine.py | 3 + .../vector/lancedb/LanceDBAdapter.py | 6 +- .../databases/vector/milvus/MilvusAdapter.py | 4 +- .../vector/pgvector/PGVectorAdapter.py | 2 +- .../databases/vector/qdrant/QDrantAdapter.py | 4 +- .../vector/weaviate_db/WeaviateAdapter.py | 2 +- cognee/infrastructure/engine/__init__.py | 1 + .../infrastructure/engine/models/DataPoint.py | 23 +- .../engine/models/ExtendableDataPoint.py | 5 + .../llm/generic_llm_api/adapter.py | 13 +- .../llm/tokenizer/HuggingFace/adapter.py | 2 +- .../llm/tokenizer/Mistral/__init__.py | 1 + .../llm/tokenizer/Mistral/adapter.py | 47 + cognee/low_level.py | 2 + cognee/modules/chunking/TextChunker.py | 6 +- .../modules/chunking/models/DocumentChunk.py | 4 +- .../processing/document_types/Document.py | 4 +- .../processing/document_types/TextDocument.py | 2 - cognee/modules/engine/models/Entity.py | 2 +- cognee/modules/engine/models/EntityType.py | 2 +- cognee/modules/engine/operations/setup.py | 11 + cognee/modules/graph/models/EdgeType.py | 4 +- .../graph/utils/convert_node_to_data_point.py | 2 +- .../graph/utils/get_graph_from_model.py | 7 +- .../retrieval/brute_force_triplet_search.py | 21 +- .../description_to_codepart_search.py | 7 +- cognee/modules/storage/utils/__init__.py | 2 +- .../cognee_network_visualization.py | 21 +- cognee/shared/CodeGraphEntities.py | 8 +- cognee/shared/SourceCodeGraph.py | 16 +- cognee/shared/utils.py | 4 +- cognee/tasks/chunks/query_chunks.py | 4 +- .../completion/graph_query_completion.py | 18 +- cognee/tasks/completion/query_completion.py | 2 +- cognee/tasks/graph/extract_graph_from_data.py | 9 +- cognee/tasks/graph/query_graph_connections.py | 4 +- cognee/tasks/storage/index_data_points.py | 14 +- cognee/tasks/storage/index_graph_edges.py | 4 +- cognee/tasks/summarization/models.py | 4 +- cognee/tasks/summarization/query_summaries.py | 2 +- .../temporal_awareness/graphiti_model.py | 4 +- .../index_graphiti_objects.py | 8 +- cognee/tests/low_level/companies.json | 38 + cognee/tests/low_level/people.json | 52 + cognee/tests/low_level/pipeline.py | 94 ++ cognee/tests/test_custom_model.py | 104 ++ cognee/tests/test_library.py | 2 +- cognee/tests/test_milvus.py | 2 +- cognee/tests/test_neo4j.py | 2 +- cognee/tests/test_pgvector.py | 13 +- cognee/tests/test_qdrant.py | 2 +- cognee/tests/test_weaviate.py | 2 +- .../graph/get_graph_from_huge_model_test.py | 6 +- .../graph/get_graph_from_model_test.py | 8 +- .../graph/get_graph_from_model_unit_test.py | 8 +- .../visualization/visualization_test.py | 4 +- evals/qa_context_provider_utils.py | 2 +- notebooks/cognee_demo.ipynb | 8 +- notebooks/hr_demo.ipynb | 4 +- poetry.lock | 1299 +++++++++-------- pyproject.toml | 2 + 66 files changed, 1248 insertions(+), 748 deletions(-) create mode 100644 cognee/infrastructure/engine/models/ExtendableDataPoint.py create mode 100644 cognee/infrastructure/llm/tokenizer/Mistral/__init__.py create mode 100644 cognee/infrastructure/llm/tokenizer/Mistral/adapter.py create mode 100644 cognee/low_level.py create mode 100644 cognee/modules/engine/operations/setup.py create mode 100644 cognee/tests/low_level/companies.json create mode 100644 cognee/tests/low_level/people.json create mode 100644 cognee/tests/low_level/pipeline.py create mode 100755 cognee/tests/test_custom_model.py diff --git a/.gitignore b/.gitignore index 5c28fbe0f..90a5d720a 100644 --- a/.gitignore +++ b/.gitignore @@ -179,6 +179,7 @@ cognee/cache/ # Default cognee system directory, used in development .cognee_system/ .data_storage/ +.artifacts/ .anon_id node_modules/ diff --git a/cognee/api/v1/visualize/visualize.py b/cognee/api/v1/visualize/visualize.py index a8cb70491..5776443d0 100644 --- a/cognee/api/v1/visualize/visualize.py +++ b/cognee/api/v1/visualize/visualize.py @@ -9,13 +9,19 @@ import asyncio from cognee.shared.utils import setup_logging -async def visualize_graph(): +async def visualize_graph(destination_file_path: str = None): graph_engine = await get_graph_engine() graph_data = await graph_engine.get_graph_data() logging.info(graph_data) - graph = await cognee_network_visualization(graph_data) - logging.info("The HTML file has been stored on your home directory! Navigate there with cd ~") + graph = await cognee_network_visualization(graph_data, destination_file_path) + + if destination_file_path: + logging.info(f"The HTML file has been stored at path: {destination_file_path}") + else: + logging.info( + "The HTML file has been stored on your home directory! Navigate there with cd ~" + ) return graph diff --git a/cognee/infrastructure/databases/graph/neo4j_driver/adapter.py b/cognee/infrastructure/databases/graph/neo4j_driver/adapter.py index 767b21142..0f294df8e 100644 --- a/cognee/infrastructure/databases/graph/neo4j_driver/adapter.py +++ b/cognee/infrastructure/databases/graph/neo4j_driver/adapter.py @@ -1,9 +1,10 @@ """Neo4j Adapter for Graph Database""" +import json import logging import asyncio from textwrap import dedent -from typing import Optional, Any, List, Dict, Union +from typing import Optional, Any, List, Dict from contextlib import asynccontextmanager from uuid import UUID from neo4j import AsyncSession @@ -11,6 +12,7 @@ from neo4j import AsyncGraphDatabase from neo4j.exceptions import Neo4jError from cognee.infrastructure.engine import DataPoint from cognee.infrastructure.databases.graph.graph_db_interface import GraphDBInterface +from cognee.modules.storage.utils import JSONEncoder logger = logging.getLogger("Neo4jAdapter") @@ -434,6 +436,10 @@ class Neo4jAdapter(GraphDBInterface): serialized_properties[property_key] = str(property_value) continue + if isinstance(property_value, dict): + serialized_properties[property_key] = json.dumps(property_value, cls=JSONEncoder) + continue + serialized_properties[property_key] = property_value return serialized_properties diff --git a/cognee/infrastructure/databases/hybrid/falkordb/FalkorDBAdapter.py b/cognee/infrastructure/databases/hybrid/falkordb/FalkorDBAdapter.py index dd8934c34..50304cd62 100644 --- a/cognee/infrastructure/databases/hybrid/falkordb/FalkorDBAdapter.py +++ b/cognee/infrastructure/databases/hybrid/falkordb/FalkorDBAdapter.py @@ -18,7 +18,7 @@ from cognee.infrastructure.engine import DataPoint class IndexSchema(DataPoint): text: str - _metadata: dict = {"index_fields": ["text"], "type": "IndexSchema"} + metadata: dict = {"index_fields": ["text"]} class FalkorDBAdapter(VectorDBInterface, GraphDBInterface): diff --git a/cognee/infrastructure/databases/relational/sqlalchemy/SqlAlchemyAdapter.py b/cognee/infrastructure/databases/relational/sqlalchemy/SqlAlchemyAdapter.py index f24a3edec..1b5c40e2e 100644 --- a/cognee/infrastructure/databases/relational/sqlalchemy/SqlAlchemyAdapter.py +++ b/cognee/infrastructure/databases/relational/sqlalchemy/SqlAlchemyAdapter.py @@ -61,7 +61,7 @@ class SQLAlchemyAdapter: await connection.execute(text(f"CREATE SCHEMA IF NOT EXISTS {schema_name};")) await connection.execute( text( - f"CREATE TABLE IF NOT EXISTS {schema_name}.{table_name} ({', '.join(fields_query_parts)});" + f'CREATE TABLE IF NOT EXISTS {schema_name}."{table_name}" ({", ".join(fields_query_parts)});' ) ) await connection.close() @@ -71,10 +71,10 @@ class SQLAlchemyAdapter: if self.engine.dialect.name == "sqlite": # SQLite doesn’t support schema namespaces and the CASCADE keyword. # However, foreign key constraint can be defined with ON DELETE CASCADE during table creation. - await connection.execute(text(f"DROP TABLE IF EXISTS {table_name};")) + await connection.execute(text(f'DROP TABLE IF EXISTS "{table_name}";')) else: await connection.execute( - text(f"DROP TABLE IF EXISTS {schema_name}.{table_name} CASCADE;") + text(f'DROP TABLE IF EXISTS {schema_name}."{table_name}" CASCADE;') ) async def insert_data( @@ -252,7 +252,7 @@ class SQLAlchemyAdapter: async def get_data(self, table_name: str, filters: dict = None): async with self.engine.begin() as connection: - query = f"SELECT * FROM {table_name}" + query = f'SELECT * FROM "{table_name}"' if filters: filter_conditions = " AND ".join( [ @@ -336,7 +336,7 @@ class SQLAlchemyAdapter: await connection.run_sync(metadata.reflect, schema=schema_name) for table in metadata.sorted_tables: drop_table_query = text( - f"DROP TABLE IF EXISTS {schema_name}.{table.name} CASCADE" + f'DROP TABLE IF EXISTS {schema_name}."{table.name}" CASCADE' ) await connection.execute(drop_table_query) metadata.clear() diff --git a/cognee/infrastructure/databases/vector/embeddings/LiteLLMEmbeddingEngine.py b/cognee/infrastructure/databases/vector/embeddings/LiteLLMEmbeddingEngine.py index 650fe5adb..d78b909de 100644 --- a/cognee/infrastructure/databases/vector/embeddings/LiteLLMEmbeddingEngine.py +++ b/cognee/infrastructure/databases/vector/embeddings/LiteLLMEmbeddingEngine.py @@ -8,6 +8,7 @@ from cognee.infrastructure.databases.vector.embeddings.EmbeddingEngine import Em from cognee.infrastructure.databases.exceptions.EmbeddingException import EmbeddingException from cognee.infrastructure.llm.tokenizer.Gemini import GeminiTokenizer from cognee.infrastructure.llm.tokenizer.HuggingFace import HuggingFaceTokenizer +from cognee.infrastructure.llm.tokenizer.Mistral import MistralTokenizer from cognee.infrastructure.llm.tokenizer.TikToken import TikTokenTokenizer litellm.set_verbose = False @@ -126,6 +127,8 @@ class LiteLLMEmbeddingEngine(EmbeddingEngine): tokenizer = TikTokenTokenizer(model=model, max_tokens=self.max_tokens) elif "gemini" in self.provider.lower(): tokenizer = GeminiTokenizer(model=model, max_tokens=self.max_tokens) + elif "mistral" in self.provider.lower(): + tokenizer = MistralTokenizer(model=model, max_tokens=self.max_tokens) else: tokenizer = HuggingFaceTokenizer(model=self.model, max_tokens=self.max_tokens) diff --git a/cognee/infrastructure/databases/vector/lancedb/LanceDBAdapter.py b/cognee/infrastructure/databases/vector/lancedb/LanceDBAdapter.py index 7dc59151f..d5d2aa865 100644 --- a/cognee/infrastructure/databases/vector/lancedb/LanceDBAdapter.py +++ b/cognee/infrastructure/databases/vector/lancedb/LanceDBAdapter.py @@ -21,7 +21,7 @@ class IndexSchema(DataPoint): id: str text: str - _metadata: dict = {"index_fields": ["text"], "type": "IndexSchema"} + metadata: dict = {"index_fields": ["text"]} class LanceDBAdapter(VectorDBInterface): @@ -245,7 +245,7 @@ class LanceDBAdapter(VectorDBInterface): [ IndexSchema( id=str(data_point.id), - text=getattr(data_point, data_point._metadata["index_fields"][0]), + text=getattr(data_point, data_point.metadata["index_fields"][0]), ) for data_point in data_points ], @@ -269,5 +269,5 @@ class LanceDBAdapter(VectorDBInterface): include_fields={ "id": (str, ...), }, - exclude_fields=["_metadata"], + exclude_fields=["metadata"], ) diff --git a/cognee/infrastructure/databases/vector/milvus/MilvusAdapter.py b/cognee/infrastructure/databases/vector/milvus/MilvusAdapter.py index aecd4650d..246be7e9a 100644 --- a/cognee/infrastructure/databases/vector/milvus/MilvusAdapter.py +++ b/cognee/infrastructure/databases/vector/milvus/MilvusAdapter.py @@ -17,7 +17,7 @@ logger = logging.getLogger("MilvusAdapter") class IndexSchema(DataPoint): text: str - _metadata: dict = {"index_fields": ["text"], "type": "IndexSchema"} + metadata: dict = {"index_fields": ["text"]} class MilvusAdapter(VectorDBInterface): @@ -133,7 +133,7 @@ class MilvusAdapter(VectorDBInterface): formatted_data_points = [ IndexSchema( id=data_point.id, - text=getattr(data_point, data_point._metadata["index_fields"][0]), + text=getattr(data_point, data_point.metadata["index_fields"][0]), ) for data_point in data_points ] diff --git a/cognee/infrastructure/databases/vector/pgvector/PGVectorAdapter.py b/cognee/infrastructure/databases/vector/pgvector/PGVectorAdapter.py index e6659d155..da8a398a0 100644 --- a/cognee/infrastructure/databases/vector/pgvector/PGVectorAdapter.py +++ b/cognee/infrastructure/databases/vector/pgvector/PGVectorAdapter.py @@ -22,7 +22,7 @@ from ..utils import normalize_distances class IndexSchema(DataPoint): text: str - _metadata: dict = {"index_fields": ["text"], "type": "IndexSchema"} + metadata: dict = {"index_fields": ["text"]} class PGVectorAdapter(SQLAlchemyAdapter, VectorDBInterface): diff --git a/cognee/infrastructure/databases/vector/qdrant/QDrantAdapter.py b/cognee/infrastructure/databases/vector/qdrant/QDrantAdapter.py index 64e64e269..c3644c98c 100644 --- a/cognee/infrastructure/databases/vector/qdrant/QDrantAdapter.py +++ b/cognee/infrastructure/databases/vector/qdrant/QDrantAdapter.py @@ -17,7 +17,7 @@ logger = logging.getLogger("QDrantAdapter") class IndexSchema(DataPoint): text: str - _metadata: dict = {"index_fields": ["text"], "type": "IndexSchema"} + metadata: dict = {"index_fields": ["text"]} # class CollectionConfig(BaseModel, extra = "forbid"): @@ -131,7 +131,7 @@ class QDrantAdapter(VectorDBInterface): [ IndexSchema( id=data_point.id, - text=getattr(data_point, data_point._metadata["index_fields"][0]), + text=getattr(data_point, data_point.metadata["index_fields"][0]), ) for data_point in data_points ], diff --git a/cognee/infrastructure/databases/vector/weaviate_db/WeaviateAdapter.py b/cognee/infrastructure/databases/vector/weaviate_db/WeaviateAdapter.py index 259370643..ac3a85cc7 100644 --- a/cognee/infrastructure/databases/vector/weaviate_db/WeaviateAdapter.py +++ b/cognee/infrastructure/databases/vector/weaviate_db/WeaviateAdapter.py @@ -16,7 +16,7 @@ logger = logging.getLogger("WeaviateAdapter") class IndexSchema(DataPoint): text: str - _metadata: dict = {"index_fields": ["text"], "type": "IndexSchema"} + metadata: dict = {"index_fields": ["text"]} class WeaviateAdapter(VectorDBInterface): diff --git a/cognee/infrastructure/engine/__init__.py b/cognee/infrastructure/engine/__init__.py index 26f567da9..cc084d142 100644 --- a/cognee/infrastructure/engine/__init__.py +++ b/cognee/infrastructure/engine/__init__.py @@ -1 +1,2 @@ from .models.DataPoint import DataPoint +from .models.ExtendableDataPoint import ExtendableDataPoint diff --git a/cognee/infrastructure/engine/models/DataPoint.py b/cognee/infrastructure/engine/models/DataPoint.py index 85697f891..9f123f4c0 100644 --- a/cognee/infrastructure/engine/models/DataPoint.py +++ b/cognee/infrastructure/engine/models/DataPoint.py @@ -9,6 +9,7 @@ import pickle # Define metadata type class MetaData(TypedDict): + type: str index_fields: list[str] @@ -24,35 +25,35 @@ class DataPoint(BaseModel): ) version: int = 1 # Default version topological_rank: Optional[int] = 0 - _metadata: Optional[MetaData] = {"index_fields": [], "type": "DataPoint"} + metadata: Optional[MetaData] = {"index_fields": []} @classmethod - def get_embeddable_data(self, data_point): + def get_embeddable_data(self, data_point: "DataPoint"): if ( - data_point._metadata - and len(data_point._metadata["index_fields"]) > 0 - and hasattr(data_point, data_point._metadata["index_fields"][0]) + data_point.metadata + and len(data_point.metadata["index_fields"]) > 0 + and hasattr(data_point, data_point.metadata["index_fields"][0]) ): - attribute = getattr(data_point, data_point._metadata["index_fields"][0]) + attribute = getattr(data_point, data_point.metadata["index_fields"][0]) if isinstance(attribute, str): return attribute.strip() return attribute @classmethod - def get_embeddable_properties(self, data_point): + def get_embeddable_properties(self, data_point: "DataPoint"): """Retrieve all embeddable properties.""" - if data_point._metadata and len(data_point._metadata["index_fields"]) > 0: + if data_point.metadata and len(data_point.metadata["index_fields"]) > 0: return [ - getattr(data_point, field, None) for field in data_point._metadata["index_fields"] + getattr(data_point, field, None) for field in data_point.metadata["index_fields"] ] return [] @classmethod - def get_embeddable_property_names(self, data_point): + def get_embeddable_property_names(self, data_point: "DataPoint"): """Retrieve names of embeddable properties.""" - return data_point._metadata["index_fields"] or [] + return data_point.metadata["index_fields"] or [] def update_version(self): """Update the version and updated_at timestamp.""" diff --git a/cognee/infrastructure/engine/models/ExtendableDataPoint.py b/cognee/infrastructure/engine/models/ExtendableDataPoint.py new file mode 100644 index 000000000..fb4483fa5 --- /dev/null +++ b/cognee/infrastructure/engine/models/ExtendableDataPoint.py @@ -0,0 +1,5 @@ +from .DataPoint import DataPoint + + +class ExtendableDataPoint(DataPoint): + pass diff --git a/cognee/infrastructure/llm/generic_llm_api/adapter.py b/cognee/infrastructure/llm/generic_llm_api/adapter.py index 98002b2cb..0a77b9946 100644 --- a/cognee/infrastructure/llm/generic_llm_api/adapter.py +++ b/cognee/infrastructure/llm/generic_llm_api/adapter.py @@ -1,7 +1,6 @@ """Adapter for Generic API LLM provider API""" -import asyncio -from typing import List, Type +from typing import Type from pydantic import BaseModel import instructor @@ -24,13 +23,9 @@ class GenericAPIAdapter(LLMInterface): self.endpoint = endpoint self.max_tokens = max_tokens - llm_config = get_llm_config() - - if llm_config.llm_provider == "ollama": - self.aclient = instructor.from_litellm(litellm.acompletion) - - else: - self.aclient = instructor.from_litellm(litellm.acompletion) + self.aclient = instructor.from_litellm( + litellm.acompletion, mode=instructor.Mode.JSON, api_key=api_key + ) async def acreate_structured_output( self, text_input: str, system_prompt: str, response_model: Type[BaseModel] diff --git a/cognee/infrastructure/llm/tokenizer/HuggingFace/adapter.py b/cognee/infrastructure/llm/tokenizer/HuggingFace/adapter.py index e26a5b1ca..29318458b 100644 --- a/cognee/infrastructure/llm/tokenizer/HuggingFace/adapter.py +++ b/cognee/infrastructure/llm/tokenizer/HuggingFace/adapter.py @@ -34,5 +34,5 @@ class HuggingFaceTokenizer(TokenizerInterface): return len(self.tokenizer.tokenize(text)) def decode_single_token(self, encoding: int): - # Gemini tokenizer doesn't have the option to decode tokens + # HuggingFace tokenizer doesn't have the option to decode tokens raise NotImplementedError diff --git a/cognee/infrastructure/llm/tokenizer/Mistral/__init__.py b/cognee/infrastructure/llm/tokenizer/Mistral/__init__.py new file mode 100644 index 000000000..81b3c2583 --- /dev/null +++ b/cognee/infrastructure/llm/tokenizer/Mistral/__init__.py @@ -0,0 +1 @@ +from .adapter import MistralTokenizer diff --git a/cognee/infrastructure/llm/tokenizer/Mistral/adapter.py b/cognee/infrastructure/llm/tokenizer/Mistral/adapter.py new file mode 100644 index 000000000..b88190c05 --- /dev/null +++ b/cognee/infrastructure/llm/tokenizer/Mistral/adapter.py @@ -0,0 +1,47 @@ +from typing import List, Any + +from ..tokenizer_interface import TokenizerInterface + + +class MistralTokenizer(TokenizerInterface): + def __init__( + self, + model: str, + max_tokens: int = 3072, + ): + self.model = model + self.max_tokens = max_tokens + + # Import here to make it an optional dependency + from mistral_common.tokens.tokenizers.mistral import MistralTokenizer + + self.tokenizer = MistralTokenizer.from_model(model) + + def extract_tokens(self, text: str) -> List[Any]: + from mistral_common.protocol.instruct.request import ChatCompletionRequest + from mistral_common.protocol.instruct.messages import UserMessage + from mistral_common.tokens.tokenizers.base import Tokenized + + encoding: Tokenized = self.tokenizer.encode_chat_completion( + ChatCompletionRequest( + messages=[UserMessage(role="user", content=text)], + model=self.model, + ) + ) + return encoding.tokens + + def count_tokens(self, text: str) -> int: + """ + Returns the number of tokens in the given text. + Args: + text: str + + Returns: + number of tokens in the given text + + """ + return len(self.extract_tokens(text)) + + def decode_single_token(self, encoding: int): + # Mistral tokenizer doesn't have the option to decode tokens + raise NotImplementedError diff --git a/cognee/low_level.py b/cognee/low_level.py new file mode 100644 index 000000000..d120f4230 --- /dev/null +++ b/cognee/low_level.py @@ -0,0 +1,2 @@ +from cognee.infrastructure.engine import ExtendableDataPoint as DataPoint +from cognee.modules.engine.operations.setup import setup diff --git a/cognee/modules/chunking/TextChunker.py b/cognee/modules/chunking/TextChunker.py index 29d9a5b64..84c0addd9 100644 --- a/cognee/modules/chunking/TextChunker.py +++ b/cognee/modules/chunking/TextChunker.py @@ -53,7 +53,7 @@ class TextChunker: chunk_index=self.chunk_index, cut_type=chunk_data["cut_type"], contains=[], - _metadata={ + metadata={ "index_fields": ["text"], }, ) @@ -73,7 +73,7 @@ class TextChunker: chunk_index=self.chunk_index, cut_type=paragraph_chunks[len(paragraph_chunks) - 1]["cut_type"], contains=[], - _metadata={ + metadata={ "index_fields": ["text"], }, ) @@ -97,7 +97,7 @@ class TextChunker: chunk_index=self.chunk_index, cut_type=paragraph_chunks[len(paragraph_chunks) - 1]["cut_type"], contains=[], - _metadata={"index_fields": ["text"]}, + metadata={"index_fields": ["text"]}, ) except Exception as e: logger.error(e) diff --git a/cognee/modules/chunking/models/DocumentChunk.py b/cognee/modules/chunking/models/DocumentChunk.py index 894a810d2..b7f473d36 100644 --- a/cognee/modules/chunking/models/DocumentChunk.py +++ b/cognee/modules/chunking/models/DocumentChunk.py @@ -1,4 +1,4 @@ -from typing import List, Optional +from typing import List from cognee.infrastructure.engine import DataPoint from cognee.modules.data.processing.document_types import Document @@ -16,4 +16,4 @@ class DocumentChunk(DataPoint): pydantic_type: str = "DocumentChunk" contains: List[Entity] = None - _metadata: dict = {"index_fields": ["text"], "type": "DocumentChunk"} + metadata: dict = {"index_fields": ["text"]} diff --git a/cognee/modules/data/processing/document_types/Document.py b/cognee/modules/data/processing/document_types/Document.py index 76ff1e045..b378abd44 100644 --- a/cognee/modules/data/processing/document_types/Document.py +++ b/cognee/modules/data/processing/document_types/Document.py @@ -1,6 +1,4 @@ from typing import Optional -from uuid import UUID - from cognee.infrastructure.engine import DataPoint @@ -9,7 +7,7 @@ class Document(DataPoint): raw_data_location: str external_metadata: Optional[str] mime_type: str - _metadata: dict = {"index_fields": ["name"], "type": "Document"} + metadata: dict = {"index_fields": ["name"]} def read(self, chunk_size: int, chunker=str, max_chunk_tokens: Optional[int] = None) -> str: pass diff --git a/cognee/modules/data/processing/document_types/TextDocument.py b/cognee/modules/data/processing/document_types/TextDocument.py index 6bef959de..2ab3d9185 100644 --- a/cognee/modules/data/processing/document_types/TextDocument.py +++ b/cognee/modules/data/processing/document_types/TextDocument.py @@ -1,5 +1,3 @@ -from typing import Optional - from .ChunkerMapping import ChunkerConfig from .Document import Document diff --git a/cognee/modules/engine/models/Entity.py b/cognee/modules/engine/models/Entity.py index 0e57d5dba..4aa771bd4 100644 --- a/cognee/modules/engine/models/Entity.py +++ b/cognee/modules/engine/models/Entity.py @@ -9,4 +9,4 @@ class Entity(DataPoint): description: str pydantic_type: str = "Entity" - _metadata: dict = {"index_fields": ["name"], "type": "Entity"} + metadata: dict = {"index_fields": ["name"]} diff --git a/cognee/modules/engine/models/EntityType.py b/cognee/modules/engine/models/EntityType.py index 10799bb33..1672034b3 100644 --- a/cognee/modules/engine/models/EntityType.py +++ b/cognee/modules/engine/models/EntityType.py @@ -7,4 +7,4 @@ class EntityType(DataPoint): description: str pydantic_type: str = "EntityType" - _metadata: dict = {"index_fields": ["name"], "type": "EntityType"} + metadata: dict = {"index_fields": ["name"]} diff --git a/cognee/modules/engine/operations/setup.py b/cognee/modules/engine/operations/setup.py new file mode 100644 index 000000000..e958642f7 --- /dev/null +++ b/cognee/modules/engine/operations/setup.py @@ -0,0 +1,11 @@ +from cognee.infrastructure.databases.relational import ( + create_db_and_tables as create_relational_db_and_tables, +) +from cognee.infrastructure.databases.vector.pgvector import ( + create_db_and_tables as create_pgvector_db_and_tables, +) + + +async def setup(): + await create_relational_db_and_tables() + await create_pgvector_db_and_tables() diff --git a/cognee/modules/graph/models/EdgeType.py b/cognee/modules/graph/models/EdgeType.py index 36aec2e7c..e42310c3c 100644 --- a/cognee/modules/graph/models/EdgeType.py +++ b/cognee/modules/graph/models/EdgeType.py @@ -1,5 +1,3 @@ -from typing import Optional - from cognee.infrastructure.engine import DataPoint @@ -8,4 +6,4 @@ class EdgeType(DataPoint): relationship_name: str number_of_edges: int - _metadata: dict = {"index_fields": ["relationship_name"], "type": "EdgeType"} + metadata: dict = {"index_fields": ["relationship_name"]} diff --git a/cognee/modules/graph/utils/convert_node_to_data_point.py b/cognee/modules/graph/utils/convert_node_to_data_point.py index b89e50db9..fcae0cca1 100644 --- a/cognee/modules/graph/utils/convert_node_to_data_point.py +++ b/cognee/modules/graph/utils/convert_node_to_data_point.py @@ -2,7 +2,7 @@ from cognee.infrastructure.engine import DataPoint def convert_node_to_data_point(node_data: dict) -> DataPoint: - subclass = find_subclass_by_name(DataPoint, node_data._metadata["type"]) + subclass = find_subclass_by_name(DataPoint, node_data["type"]) return subclass(**node_data) diff --git a/cognee/modules/graph/utils/get_graph_from_model.py b/cognee/modules/graph/utils/get_graph_from_model.py index 2798b48b6..c1b9787fb 100644 --- a/cognee/modules/graph/utils/get_graph_from_model.py +++ b/cognee/modules/graph/utils/get_graph_from_model.py @@ -17,12 +17,14 @@ async def get_graph_from_model( edges = [] visited_properties = visited_properties or {} - data_point_properties = {} + data_point_properties = { + "type": type(data_point).__name__, + } excluded_properties = set() properties_to_visit = set() for field_name, field_value in data_point: - if field_name == "_metadata": + if field_name == "metadata": continue if isinstance(field_value, DataPoint): @@ -60,7 +62,6 @@ async def get_graph_from_model( SimpleDataPointModel = copy_model( type(data_point), include_fields={ - "_metadata": (dict, data_point._metadata), "__tablename__": (str, data_point.__tablename__), }, exclude_fields=list(excluded_properties), diff --git a/cognee/modules/retrieval/brute_force_triplet_search.py b/cognee/modules/retrieval/brute_force_triplet_search.py index c27e90766..f244eaed6 100644 --- a/cognee/modules/retrieval/brute_force_triplet_search.py +++ b/cognee/modules/retrieval/brute_force_triplet_search.py @@ -84,10 +84,10 @@ async def brute_force_search( if collections is None: collections = [ - "entity_name", - "text_summary_text", - "entity_type_name", - "document_chunk_text", + "Entity_name", + "TextSummary_text", + "EntityType_name", + "DocumentChunk_text", ] try: @@ -127,9 +127,14 @@ async def brute_force_search( return results - except Exception as e: + except Exception as error: logging.error( - "Error during brute force search for user: %s, query: %s. Error: %s", user.id, query, e + "Error during brute force search for user: %s, query: %s. Error: %s", + user.id, + query, + error, ) - send_telemetry("cognee.brute_force_triplet_search EXECUTION FAILED", user.id) - raise RuntimeError("An error occurred during brute force search") from e + send_telemetry( + "cognee.brute_force_triplet_search EXECUTION FAILED", user.id, {"error": str(error)} + ) + raise RuntimeError("An error occurred during brute force search") from error diff --git a/cognee/modules/retrieval/description_to_codepart_search.py b/cognee/modules/retrieval/description_to_codepart_search.py index dd5dbf90e..84c86e4da 100644 --- a/cognee/modules/retrieval/description_to_codepart_search.py +++ b/cognee/modules/retrieval/description_to_codepart_search.py @@ -101,7 +101,6 @@ async def code_description_to_code_part( "text", "file_path", "source_code", - "pydantic_type", ], edge_properties_to_project=["relationship_name"], ) @@ -117,13 +116,13 @@ async def code_description_to_code_part( continue for code_file in node_to_search_from.get_skeleton_neighbours(): - if code_file.get_attribute("pydantic_type") == "SourceCodeChunk": + if code_file.get_attribute("type") == "SourceCodeChunk": for code_file_edge in code_file.get_skeleton_edges(): if code_file_edge.get_attribute("relationship_name") == "code_chunk_of": code_pieces_to_return.add(code_file_edge.get_destination_node()) - elif code_file.get_attribute("pydantic_type") == "CodePart": + elif code_file.get_attribute("type") == "CodePart": code_pieces_to_return.add(code_file) - elif code_file.get_attribute("pydantic_type") == "CodeFile": + elif code_file.get_attribute("type") == "CodeFile": for code_file_edge in code_file.get_skeleton_edges(): if code_file_edge.get_attribute("relationship_name") == "contains": code_pieces_to_return.add(code_file_edge.get_destination_node()) diff --git a/cognee/modules/storage/utils/__init__.py b/cognee/modules/storage/utils/__init__.py index a877826db..119ccec49 100644 --- a/cognee/modules/storage/utils/__init__.py +++ b/cognee/modules/storage/utils/__init__.py @@ -36,7 +36,7 @@ def get_own_properties(data_point: DataPoint): for field_name, field_value in data_point: if ( - field_name == "_metadata" + field_name == "metadata" or isinstance(field_value, dict) or isinstance(field_value, DataPoint) or (isinstance(field_value, list) and isinstance(field_value[0], DataPoint)) diff --git a/cognee/modules/visualization/cognee_network_visualization.py b/cognee/modules/visualization/cognee_network_visualization.py index e92f7783f..24c8e1f66 100644 --- a/cognee/modules/visualization/cognee_network_visualization.py +++ b/cognee/modules/visualization/cognee_network_visualization.py @@ -1,9 +1,15 @@ +import logging import networkx as nx import json import os +from cognee.infrastructure.files.storage import LocalStorage -async def cognee_network_visualization(graph_data): + +logger = logging.getLogger(__name__) + + +async def cognee_network_visualization(graph_data, destination_file_path: str = None): nodes_data, edges_data = graph_data G = nx.DiGraph() @@ -19,7 +25,7 @@ async def cognee_network_visualization(graph_data): for node_id, node_info in nodes_data: node_info = node_info.copy() node_info["id"] = str(node_id) - node_info["color"] = color_map.get(node_info.get("pydantic_type", "default"), "#D3D3D3") + node_info["color"] = color_map.get(node_info.get("type", "default"), "#D3D3D3") node_info["name"] = node_info.get("name", str(node_id)) try: @@ -178,12 +184,15 @@ async def cognee_network_visualization(graph_data): html_content = html_template.replace("{nodes}", json.dumps(nodes_list)) html_content = html_content.replace("{links}", json.dumps(links_list)) - home_dir = os.path.expanduser("~") - output_file = os.path.join(home_dir, "graph_visualization.html") + if not destination_file_path: + home_dir = os.path.expanduser("~") + destination_file_path = os.path.join(home_dir, "graph_visualization.html") - with open(output_file, "w") as f: + LocalStorage.ensure_directory_exists(os.path.dirname(destination_file_path)) + + with open(destination_file_path, "w") as f: f.write(html_content) - print(f"Graph visualization saved as {output_file}") + logger.info(f"Graph visualization saved as {destination_file_path}") return html_content diff --git a/cognee/shared/CodeGraphEntities.py b/cognee/shared/CodeGraphEntities.py index 5c5f65b07..2d05c56f0 100644 --- a/cognee/shared/CodeGraphEntities.py +++ b/cognee/shared/CodeGraphEntities.py @@ -6,7 +6,7 @@ class Repository(DataPoint): __tablename__ = "Repository" path: str pydantic_type: str = "Repository" - _metadata: dict = {"index_fields": [], "type": "Repository"} + metadata: dict = {"index_fields": []} class CodeFile(DataPoint): @@ -18,7 +18,7 @@ class CodeFile(DataPoint): depends_on: Optional[List["CodeFile"]] = None depends_directly_on: Optional[List["CodeFile"]] = None contains: Optional[List["CodePart"]] = None - _metadata: dict = {"index_fields": [], "type": "CodeFile"} + metadata: dict = {"index_fields": []} class CodePart(DataPoint): @@ -27,7 +27,7 @@ class CodePart(DataPoint): # part_of: Optional[CodeFile] = None pydantic_type: str = "CodePart" source_code: Optional[str] = None - _metadata: dict = {"index_fields": [], "type": "CodePart"} + metadata: dict = {"index_fields": []} class SourceCodeChunk(DataPoint): @@ -37,7 +37,7 @@ class SourceCodeChunk(DataPoint): pydantic_type: str = "SourceCodeChunk" previous_chunk: Optional["SourceCodeChunk"] = None - _metadata: dict = {"index_fields": ["source_code"], "type": "SourceCodeChunk"} + metadata: dict = {"index_fields": ["source_code"]} CodeFile.model_rebuild() diff --git a/cognee/shared/SourceCodeGraph.py b/cognee/shared/SourceCodeGraph.py index 6c8cea3e9..82638e4ec 100644 --- a/cognee/shared/SourceCodeGraph.py +++ b/cognee/shared/SourceCodeGraph.py @@ -11,7 +11,7 @@ class Variable(DataPoint): default_value: Optional[str] = None data_type: str - _metadata = {"index_fields": ["name"], "type": "Variable"} + metadata: dict = {"index_fields": ["name"]} class Operator(DataPoint): @@ -19,7 +19,7 @@ class Operator(DataPoint): name: str description: str return_type: str - _metadata = {"index_fields": ["name"], "type": "Operator"} + metadata: dict = {"index_fields": ["name"]} class Class(DataPoint): @@ -30,7 +30,7 @@ class Class(DataPoint): extended_from_class: Optional["Class"] = None has_methods: List["Function"] - _metadata = {"index_fields": ["name"], "type": "Class"} + metadata: dict = {"index_fields": ["name"]} class ClassInstance(DataPoint): @@ -41,7 +41,7 @@ class ClassInstance(DataPoint): instantiated_by: Union["Function"] instantiation_arguments: List[Variable] - _metadata = {"index_fields": ["name"], "type": "ClassInstance"} + metadata: dict = {"index_fields": ["name"]} class Function(DataPoint): @@ -52,7 +52,7 @@ class Function(DataPoint): return_type: str is_static: Optional[bool] = False - _metadata = {"index_fields": ["name"], "type": "Function"} + metadata: dict = {"index_fields": ["name"]} class FunctionCall(DataPoint): @@ -60,7 +60,7 @@ class FunctionCall(DataPoint): called_by: Union[Function, Literal["main"]] function_called: Function function_arguments: List[Any] - _metadata = {"index_fields": [], "type": "FunctionCall"} + metadata: dict = {"index_fields": []} class Expression(DataPoint): @@ -69,7 +69,7 @@ class Expression(DataPoint): description: str expression: str members: List[Union[Variable, Function, Operator, "Expression"]] - _metadata = {"index_fields": ["name"], "type": "Expression"} + metadata: dict = {"index_fields": ["name"]} class SourceCodeGraph(DataPoint): @@ -88,7 +88,7 @@ class SourceCodeGraph(DataPoint): Expression, ] ] - _metadata = {"index_fields": ["name"], "type": "SourceCodeGraph"} + metadata: dict = {"index_fields": ["name"]} Class.model_rebuild() diff --git a/cognee/shared/utils.py b/cognee/shared/utils.py index c8064efdf..31246d147 100644 --- a/cognee/shared/utils.py +++ b/cognee/shared/utils.py @@ -13,7 +13,6 @@ import matplotlib.pyplot as plt import logging import sys -import json from cognee.base_config import get_base_config from cognee.infrastructure.databases.graph import get_graph_engine @@ -164,6 +163,7 @@ def prepare_nodes(graph, include_size=False): continue node_data = { + **node_info, "id": str(node), "name": node_info["name"] if "name" in node_info else str(node), } @@ -183,7 +183,7 @@ def prepare_nodes(graph, include_size=False): async def render_graph( - graph, include_nodes=False, include_color=False, include_size=False, include_labels=False + graph=None, include_nodes=True, include_color=False, include_size=False, include_labels=True ): await register_graphistry() diff --git a/cognee/tasks/chunks/query_chunks.py b/cognee/tasks/chunks/query_chunks.py index c0023dbbd..6263b519b 100644 --- a/cognee/tasks/chunks/query_chunks.py +++ b/cognee/tasks/chunks/query_chunks.py @@ -15,11 +15,11 @@ async def query_chunks(query: str) -> list[dict]: Notes: - The function uses the `search` method of the vector engine to find matches. - Limits the results to the top 5 matching chunks to balance performance and relevance. - - Ensure that the vector database is properly initialized and contains the "document_chunk_text" collection. + - Ensure that the vector database is properly initialized and contains the "DocumentChunk_text" collection. """ vector_engine = get_vector_engine() - found_chunks = await vector_engine.search("document_chunk_text", query, limit=5) + found_chunks = await vector_engine.search("DocumentChunk_text", query, limit=5) chunks = [result.payload for result in found_chunks] diff --git a/cognee/tasks/completion/graph_query_completion.py b/cognee/tasks/completion/graph_query_completion.py index 16d27c721..6503a04e4 100644 --- a/cognee/tasks/completion/graph_query_completion.py +++ b/cognee/tasks/completion/graph_query_completion.py @@ -1,4 +1,5 @@ -from cognee.infrastructure.databases.vector import get_vector_engine +from cognee.infrastructure.engine import ExtendableDataPoint +from cognee.modules.graph.utils.convert_node_to_data_point import get_all_subclasses from cognee.tasks.completion.exceptions import NoRelevantDataFound from cognee.infrastructure.llm.get_llm_client import get_llm_client from cognee.infrastructure.llm.prompts import read_query_prompt, render_prompt @@ -34,9 +35,20 @@ async def graph_query_completion(query: str) -> list: - The `brute_force_triplet_search` is used to retrieve relevant graph data. - Prompts are dynamically rendered and provided to the LLM for contextual understanding. - Ensure that the LLM client and graph database are properly configured and accessible. - """ - found_triplets = await brute_force_triplet_search(query, top_k=5) + + subclasses = get_all_subclasses(ExtendableDataPoint) + + vector_index_collections = [] + + for subclass in subclasses: + index_fields = subclass.model_fields["metadata"].default.get("index_fields", []) + for field_name in index_fields: + vector_index_collections.append(f"{subclass.__name__}_{field_name}") + + found_triplets = await brute_force_triplet_search( + query, top_k=5, collections=vector_index_collections or None + ) if len(found_triplets) == 0: raise NoRelevantDataFound diff --git a/cognee/tasks/completion/query_completion.py b/cognee/tasks/completion/query_completion.py index 51599ad9c..5209bff67 100644 --- a/cognee/tasks/completion/query_completion.py +++ b/cognee/tasks/completion/query_completion.py @@ -23,7 +23,7 @@ async def query_completion(query: str) -> list: """ vector_engine = get_vector_engine() - found_chunks = await vector_engine.search("document_chunk_text", query, limit=1) + found_chunks = await vector_engine.search("DocumentChunk_text", query, limit=1) if len(found_chunks) == 0: raise NoRelevantDataFound diff --git a/cognee/tasks/graph/extract_graph_from_data.py b/cognee/tasks/graph/extract_graph_from_data.py index 4f025a914..4e1cda5c5 100644 --- a/cognee/tasks/graph/extract_graph_from_data.py +++ b/cognee/tasks/graph/extract_graph_from_data.py @@ -10,6 +10,7 @@ from cognee.modules.graph.utils import ( expand_with_nodes_and_edges, retrieve_existing_edges, ) +from cognee.shared.data_models import KnowledgeGraph from cognee.tasks.storage import add_data_points @@ -18,7 +19,6 @@ async def extract_graph_from_data( ) -> List[DocumentChunk]: """ Extracts and integrates a knowledge graph from the text content of document chunks using a specified graph model. - """ chunk_graphs = await asyncio.gather( @@ -26,6 +26,13 @@ async def extract_graph_from_data( ) graph_engine = await get_graph_engine() + if graph_model is not KnowledgeGraph: + for chunk_index, chunk_graph in enumerate(chunk_graphs): + data_chunks[chunk_index].contains = chunk_graph + + await add_data_points(chunk_graphs) + return data_chunks + existing_edges_map = await retrieve_existing_edges( data_chunks, chunk_graphs, diff --git a/cognee/tasks/graph/query_graph_connections.py b/cognee/tasks/graph/query_graph_connections.py index faec94546..1bc7f9d69 100644 --- a/cognee/tasks/graph/query_graph_connections.py +++ b/cognee/tasks/graph/query_graph_connections.py @@ -28,8 +28,8 @@ async def query_graph_connections(query: str, exploration_levels=1) -> list[(str else: vector_engine = get_vector_engine() results = await asyncio.gather( - vector_engine.search("entity_name", query_text=query, limit=5), - vector_engine.search("entity_type_name", query_text=query, limit=5), + vector_engine.search("Entity_name", query_text=query, limit=5), + vector_engine.search("EntityType_name", query_text=query, limit=5), ) results = [*results[0], *results[1]] relevant_results = [result for result in results if result.score < 0.5][:5] diff --git a/cognee/tasks/storage/index_data_points.py b/cognee/tasks/storage/index_data_points.py index 65f516bac..7368fb43c 100644 --- a/cognee/tasks/storage/index_data_points.py +++ b/cognee/tasks/storage/index_data_points.py @@ -16,25 +16,25 @@ async def index_data_points(data_points: list[DataPoint]): for data_point in data_points: data_point_type = type(data_point) - for field_name in data_point._metadata["index_fields"]: + for field_name in data_point.metadata["index_fields"]: if getattr(data_point, field_name, None) is None: continue - index_name = f"{data_point_type.__tablename__}.{field_name}" + index_name = f"{data_point_type.__name__}_{field_name}" if index_name not in created_indexes: - await vector_engine.create_vector_index(data_point_type.__tablename__, field_name) + await vector_engine.create_vector_index(data_point_type.__name__, field_name) created_indexes[index_name] = True if index_name not in index_points: index_points[index_name] = [] indexed_data_point = data_point.model_copy() - indexed_data_point._metadata["index_fields"] = [field_name] + indexed_data_point.metadata["index_fields"] = [field_name] index_points[index_name].append(indexed_data_point) for index_name, indexable_points in index_points.items(): - index_name, field_name = index_name.split(".") + index_name, field_name = index_name.split("_") try: await vector_engine.index_data_points(index_name, field_name, indexable_points) except EmbeddingException as e: @@ -101,13 +101,13 @@ if __name__ == "__main__": class Car(DataPoint): model: str color: str - _metadata = {"index_fields": ["name"], "type": "Car"} + metadata: dict = {"index_fields": ["name"]} class Person(DataPoint): name: str age: int owns_car: list[Car] - _metadata = {"index_fields": ["name"], "type": "Person"} + metadata: dict = {"index_fields": ["name"]} car1 = Car(model="Tesla Model S", color="Blue") car2 = Car(model="Toyota Camry", color="Red") diff --git a/cognee/tasks/storage/index_graph_edges.py b/cognee/tasks/storage/index_graph_edges.py index 2aeb2bef2..50d4bb54c 100644 --- a/cognee/tasks/storage/index_graph_edges.py +++ b/cognee/tasks/storage/index_graph_edges.py @@ -50,7 +50,7 @@ async def index_graph_edges(): edge = EdgeType(relationship_name=text, number_of_edges=count) data_point_type = type(edge) - for field_name in edge._metadata["index_fields"]: + for field_name in edge.metadata["index_fields"]: index_name = f"{data_point_type.__tablename__}.{field_name}" if index_name not in created_indexes: @@ -61,7 +61,7 @@ async def index_graph_edges(): index_points[index_name] = [] indexed_data_point = edge.model_copy() - indexed_data_point._metadata["index_fields"] = [field_name] + indexed_data_point.metadata["index_fields"] = [field_name] index_points[index_name].append(indexed_data_point) for index_name, indexable_points in index_points.items(): diff --git a/cognee/tasks/summarization/models.py b/cognee/tasks/summarization/models.py index bc7b4886d..54932d320 100644 --- a/cognee/tasks/summarization/models.py +++ b/cognee/tasks/summarization/models.py @@ -10,7 +10,7 @@ class TextSummary(DataPoint): text: str made_from: DocumentChunk - _metadata: dict = {"index_fields": ["text"], "type": "TextSummary"} + metadata: dict = {"index_fields": ["text"]} class CodeSummary(DataPoint): @@ -19,4 +19,4 @@ class CodeSummary(DataPoint): summarizes: Union[CodeFile, CodePart, SourceCodeChunk] pydantic_type: str = "CodeSummary" - _metadata: dict = {"index_fields": ["text"], "type": "CodeSummary"} + metadata: dict = {"index_fields": ["text"]} diff --git a/cognee/tasks/summarization/query_summaries.py b/cognee/tasks/summarization/query_summaries.py index 5f04e3eb4..342322d3b 100644 --- a/cognee/tasks/summarization/query_summaries.py +++ b/cognee/tasks/summarization/query_summaries.py @@ -11,7 +11,7 @@ async def query_summaries(query: str) -> list: """ vector_engine = get_vector_engine() - summaries_results = await vector_engine.search("text_summary_text", query, limit=5) + summaries_results = await vector_engine.search("TextSummary_text", query, limit=5) summaries = [summary.payload for summary in summaries_results] diff --git a/cognee/tasks/temporal_awareness/graphiti_model.py b/cognee/tasks/temporal_awareness/graphiti_model.py index fa255b542..904904091 100644 --- a/cognee/tasks/temporal_awareness/graphiti_model.py +++ b/cognee/tasks/temporal_awareness/graphiti_model.py @@ -1,5 +1,5 @@ from cognee.infrastructure.engine import DataPoint -from typing import ClassVar, Optional +from typing import Optional class GraphitiNode(DataPoint): @@ -9,4 +9,4 @@ class GraphitiNode(DataPoint): summary: Optional[str] = None pydantic_type: str = "GraphitiNode" - _metadata: dict = {"index_fields": ["name", "summary", "content"], "type": "GraphitiNode"} + metadata: dict = {"index_fields": ["name", "summary", "content"]} diff --git a/cognee/tasks/temporal_awareness/index_graphiti_objects.py b/cognee/tasks/temporal_awareness/index_graphiti_objects.py index 1fbc1f41a..0b0cc10bb 100644 --- a/cognee/tasks/temporal_awareness/index_graphiti_objects.py +++ b/cognee/tasks/temporal_awareness/index_graphiti_objects.py @@ -36,7 +36,7 @@ async def index_and_transform_graphiti_nodes_and_edges(): data_point_type = type(graphiti_node) - for field_name in graphiti_node._metadata["index_fields"]: + for field_name in graphiti_node.metadata["index_fields"]: index_name = f"{data_point_type.__tablename__}.{field_name}" if index_name not in created_indexes: @@ -48,7 +48,7 @@ async def index_and_transform_graphiti_nodes_and_edges(): if getattr(graphiti_node, field_name, None) is not None: indexed_data_point = graphiti_node.model_copy() - indexed_data_point._metadata["index_fields"] = [field_name] + indexed_data_point.metadata["index_fields"] = [field_name] index_points[index_name].append(indexed_data_point) for index_name, indexable_points in index_points.items(): @@ -65,7 +65,7 @@ async def index_and_transform_graphiti_nodes_and_edges(): edge = EdgeType(relationship_name=text, number_of_edges=count) data_point_type = type(edge) - for field_name in edge._metadata["index_fields"]: + for field_name in edge.metadata["index_fields"]: index_name = f"{data_point_type.__tablename__}.{field_name}" if index_name not in created_indexes: @@ -76,7 +76,7 @@ async def index_and_transform_graphiti_nodes_and_edges(): index_points[index_name] = [] indexed_data_point = edge.model_copy() - indexed_data_point._metadata["index_fields"] = [field_name] + indexed_data_point.metadata["index_fields"] = [field_name] index_points[index_name].append(indexed_data_point) for index_name, indexable_points in index_points.items(): diff --git a/cognee/tests/low_level/companies.json b/cognee/tests/low_level/companies.json new file mode 100644 index 000000000..c402ec802 --- /dev/null +++ b/cognee/tests/low_level/companies.json @@ -0,0 +1,38 @@ +[ + { + "name": "TechNova Inc.", + "departments": [ + "Engineering", + "Marketing" + ] + }, + { + "name": "GreenFuture Solutions", + "departments": [ + "Research & Development", + "Sales", + "Customer Support" + ] + }, + { + "name": "Skyline Financials", + "departments": [ + "Accounting" + ] + }, + { + "name": "MediCare Plus", + "departments": [ + "Healthcare", + "Administration" + ] + }, + { + "name": "NextGen Robotics", + "departments": [ + "AI Development", + "Manufacturing", + "HR" + ] + } +] diff --git a/cognee/tests/low_level/people.json b/cognee/tests/low_level/people.json new file mode 100644 index 000000000..3474d8794 --- /dev/null +++ b/cognee/tests/low_level/people.json @@ -0,0 +1,52 @@ +[ + { + "name": "John Doe", + "company": "TechNova Inc.", + "department": "Engineering" + }, + { + "name": "Jane Smith", + "company": "TechNova Inc.", + "department": "Marketing" + }, + { + "name": "Alice Johnson", + "company": "GreenFuture Solutions", + "department": "Sales" + }, + { + "name": "Bob Williams", + "company": "GreenFuture Solutions", + "department": "Customer Support" + }, + { + "name": "Michael Brown", + "company": "Skyline Financials", + "department": "Accounting" + }, + { + "name": "Emily Davis", + "company": "MediCare Plus", + "department": "Healthcare" + }, + { + "name": "David Wilson", + "company": "MediCare Plus", + "department": "Administration" + }, + { + "name": "Emma Thompson", + "company": "NextGen Robotics", + "department": "AI Development" + }, + { + "name": "Chris Martin", + "company": "NextGen Robotics", + "department": "Manufacturing" + }, + { + "name": "Sophia White", + "company": "NextGen Robotics", + "department": "HR" + } +] diff --git a/cognee/tests/low_level/pipeline.py b/cognee/tests/low_level/pipeline.py new file mode 100644 index 000000000..a8077e932 --- /dev/null +++ b/cognee/tests/low_level/pipeline.py @@ -0,0 +1,94 @@ +import os +import json +import asyncio +from cognee import prune +from cognee import visualize_graph +from cognee.low_level import setup, DataPoint +from cognee.pipelines import run_tasks, Task +from cognee.tasks.storage import add_data_points +from cognee.shared.utils import render_graph + + +class Person(DataPoint): + name: str + + +class Department(DataPoint): + name: str + employees: list[Person] + + +class CompanyType(DataPoint): + name: str = "Company" + + +class Company(DataPoint): + name: str + departments: list[Department] + is_type: CompanyType + + +def ingest_files(): + companies_file_path = os.path.join(os.path.dirname(__file__), "companies.json") + companies = json.loads(open(companies_file_path, "r").read()) + + people_file_path = os.path.join(os.path.dirname(__file__), "people.json") + people = json.loads(open(people_file_path, "r").read()) + + people_data_points = {} + departments_data_points = {} + + for person in people: + new_person = Person(name=person["name"]) + people_data_points[person["name"]] = new_person + + if person["department"] not in departments_data_points: + departments_data_points[person["department"]] = Department( + name=person["department"], employees=[new_person] + ) + else: + departments_data_points[person["department"]].employees.append(new_person) + + companies_data_points = {} + + # Create a single CompanyType node, so we connect all companies to it. + companyType = CompanyType() + + for company in companies: + new_company = Company(name=company["name"], departments=[], is_type=companyType) + companies_data_points[company["name"]] = new_company + + for department_name in company["departments"]: + if department_name not in departments_data_points: + departments_data_points[department_name] = Department( + name=department_name, employees=[] + ) + + new_company.departments.append(departments_data_points[department_name]) + + return companies_data_points.values() + + +async def main(): + await prune.prune_data() + await prune.prune_system(metadata=True) + + await setup() + + pipeline = run_tasks([Task(ingest_files), Task(add_data_points)]) + + async for status in pipeline: + print(status) + + # Get a graphistry url (Register for a free account at https://www.graphistry.com) + await render_graph() + + # Or use our simple graph preview + graph_file_path = str( + os.path.join(os.path.dirname(__file__), ".artifacts/graph_visualization.html") + ) + await visualize_graph(graph_file_path) + + +if __name__ == "__main__": + asyncio.run(main()) diff --git a/cognee/tests/test_custom_model.py b/cognee/tests/test_custom_model.py new file mode 100755 index 000000000..47875aa30 --- /dev/null +++ b/cognee/tests/test_custom_model.py @@ -0,0 +1,104 @@ +import os +import logging +import pathlib +import cognee +from cognee.modules.search.types import SearchType +from cognee.shared.utils import render_graph +from cognee.low_level import DataPoint + +logging.basicConfig(level=logging.DEBUG) + + +async def main(): + data_directory_path = str( + pathlib.Path( + os.path.join(pathlib.Path(__file__).parent, ".data_storage/test_custom_model") + ).resolve() + ) + cognee.config.data_root_directory(data_directory_path) + cognee_directory_path = str( + pathlib.Path( + os.path.join(pathlib.Path(__file__).parent, ".cognee_system/test_custom_model") + ).resolve() + ) + cognee.config.system_root_directory(cognee_directory_path) + + await cognee.prune.prune_data() + await cognee.prune.prune_system(metadata=True) + + # Define a custom graph model for programming languages. + class FieldType(DataPoint): + name: str = "Field" + metadata: dict = {"index_fields": ["name"]} + + class Field(DataPoint): + name: str + is_type: FieldType + metadata: dict = {"index_fields": ["name"]} + + class ProgrammingLanguageType(DataPoint): + name: str = "Programming Language" + metadata: dict = {"index_fields": ["name"]} + + class ProgrammingLanguage(DataPoint): + name: str + used_in: list[Field] = [] + is_type: ProgrammingLanguageType + metadata: dict = {"index_fields": ["name"]} + + text = ( + "Python is an interpreted, high-level, general-purpose programming language. It was created by Guido van Rossum and first released in 1991. " + + "Python is widely used in data analysis, web development, and machine learning." + ) + + await cognee.add(text) + + await cognee.cognify(graph_model=ProgrammingLanguage) + + url = await render_graph() + print(f"Graphistry URL: {url}") + + graph_file_path = str( + pathlib.Path( + os.path.join( + pathlib.Path(__file__).parent, + ".artifacts/test_custom_model/graph_visualization.html", + ) + ).resolve() + ) + await cognee.visualize_graph(graph_file_path) + + # Completion query that uses graph data to form context. + completion = await cognee.search(SearchType.GRAPH_COMPLETION, "What is python?") + assert len(completion) != 0, "Graph completion search didn't return any result." + print("Graph completion result is:") + print(completion) + + # Completion query that uses document chunks to form context. + completion = await cognee.search(SearchType.COMPLETION, "What is Python?") + assert len(completion) != 0, "Completion search didn't return any result." + print("Completion result is:") + print(completion) + + # Query all summaries related to query. + summaries = await cognee.search(SearchType.SUMMARIES, "Python") + assert len(summaries) != 0, "Summaries search didn't return any results." + print("Summary results are:") + for summary in summaries: + print(summary) + + chunks = await cognee.search(SearchType.CHUNKS, query_text="Python") + assert len(chunks) != 0, "Chunks search didn't return any results." + print("Chunk results are:") + for chunk in chunks: + print(chunk) + + history = await cognee.get_search_history() + + assert len(history) == 8, "Search history is not correct." + + +if __name__ == "__main__": + import asyncio + + asyncio.run(main(), debug=True) diff --git a/cognee/tests/test_library.py b/cognee/tests/test_library.py index e444c4563..5be0ba3eb 100755 --- a/cognee/tests/test_library.py +++ b/cognee/tests/test_library.py @@ -44,7 +44,7 @@ async def main(): from cognee.infrastructure.databases.vector import get_vector_engine vector_engine = get_vector_engine() - random_node = (await vector_engine.search("entity_name", "AI"))[0] + random_node = (await vector_engine.search("Entity_name", "AI"))[0] random_node_name = random_node.payload["text"] search_results = await cognee.search( diff --git a/cognee/tests/test_milvus.py b/cognee/tests/test_milvus.py index 37a98f621..0117c5611 100644 --- a/cognee/tests/test_milvus.py +++ b/cognee/tests/test_milvus.py @@ -55,7 +55,7 @@ async def main(): from cognee.infrastructure.databases.vector import get_vector_engine vector_engine = get_vector_engine() - random_node = (await vector_engine.search("entity_name", "Quantum computer"))[0] + random_node = (await vector_engine.search("Entity_name", "Quantum computer"))[0] random_node_name = random_node.payload["text"] search_results = await cognee.search( diff --git a/cognee/tests/test_neo4j.py b/cognee/tests/test_neo4j.py index 854873ad7..124526314 100644 --- a/cognee/tests/test_neo4j.py +++ b/cognee/tests/test_neo4j.py @@ -48,7 +48,7 @@ async def main(): from cognee.infrastructure.databases.vector import get_vector_engine vector_engine = get_vector_engine() - random_node = (await vector_engine.search("entity_name", "Quantum computer"))[0] + random_node = (await vector_engine.search("Entity_name", "Quantum computer"))[0] random_node_name = random_node.payload["text"] search_results = await cognee.search( diff --git a/cognee/tests/test_pgvector.py b/cognee/tests/test_pgvector.py index 78e70c71c..9048702ee 100644 --- a/cognee/tests/test_pgvector.py +++ b/cognee/tests/test_pgvector.py @@ -123,7 +123,7 @@ async def main(): await test_getting_of_documents(dataset_name_1) vector_engine = get_vector_engine() - random_node = (await vector_engine.search("entity_name", "Quantum computer"))[0] + random_node = (await vector_engine.search("Entity_name", "Quantum computer"))[0] random_node_name = random_node.payload["text"] search_results = await cognee.search( @@ -142,6 +142,15 @@ async def main(): for result in search_results: print(f"{result}\n") + graph_completion = await cognee.search( + query_type=SearchType.GRAPH_COMPLETION, + query_text=random_node_name, + datasets=[dataset_name_2], + ) + assert len(graph_completion) != 0, "Completion result is empty." + print("Completion result is:") + print(graph_completion) + search_results = await cognee.search( query_type=SearchType.SUMMARIES, query_text=random_node_name ) @@ -151,7 +160,7 @@ async def main(): print(f"{result}\n") history = await cognee.get_search_history() - assert len(history) == 6, "Search history is not correct." + assert len(history) == 8, "Search history is not correct." results = await brute_force_triplet_search("What is a quantum computer?") assert len(results) > 0 diff --git a/cognee/tests/test_qdrant.py b/cognee/tests/test_qdrant.py index f1ba995ab..a4bb298d5 100644 --- a/cognee/tests/test_qdrant.py +++ b/cognee/tests/test_qdrant.py @@ -48,7 +48,7 @@ async def main(): from cognee.infrastructure.databases.vector import get_vector_engine vector_engine = get_vector_engine() - random_node = (await vector_engine.search("entity_name", "Quantum computer"))[0] + random_node = (await vector_engine.search("Entity_name", "Quantum computer"))[0] random_node_name = random_node.payload["text"] search_results = await cognee.search( diff --git a/cognee/tests/test_weaviate.py b/cognee/tests/test_weaviate.py index 6af6a73a3..04ad893e8 100644 --- a/cognee/tests/test_weaviate.py +++ b/cognee/tests/test_weaviate.py @@ -48,7 +48,7 @@ async def main(): from cognee.infrastructure.databases.vector import get_vector_engine vector_engine = get_vector_engine() - random_node = (await vector_engine.search("entity_name", "Quantum computer"))[0] + random_node = (await vector_engine.search("Entity_name", "Quantum computer"))[0] random_node_name = random_node.payload["text"] search_results = await cognee.search( diff --git a/cognee/tests/unit/interfaces/graph/get_graph_from_huge_model_test.py b/cognee/tests/unit/interfaces/graph/get_graph_from_huge_model_test.py index 9900670f2..29ab5ded9 100644 --- a/cognee/tests/unit/interfaces/graph/get_graph_from_huge_model_test.py +++ b/cognee/tests/unit/interfaces/graph/get_graph_from_huge_model_test.py @@ -12,7 +12,7 @@ random.seed(1500) class Repository(DataPoint): path: str - _metadata = {"index_fields": [], "type": "Repository"} + metadata: dict = {"index_fields": []} class CodeFile(DataPoint): @@ -20,13 +20,13 @@ class CodeFile(DataPoint): contains: List["CodePart"] = [] depends_on: List["CodeFile"] = [] source_code: str - _metadata = {"index_fields": [], "type": "CodeFile"} + metadata: dict = {"index_fields": []} class CodePart(DataPoint): part_of: CodeFile source_code: str - _metadata = {"index_fields": [], "type": "CodePart"} + metadata: dict = {"index_fields": []} CodeFile.model_rebuild() diff --git a/cognee/tests/unit/interfaces/graph/get_graph_from_model_test.py b/cognee/tests/unit/interfaces/graph/get_graph_from_model_test.py index 36fa71c25..135849c9b 100644 --- a/cognee/tests/unit/interfaces/graph/get_graph_from_model_test.py +++ b/cognee/tests/unit/interfaces/graph/get_graph_from_model_test.py @@ -9,25 +9,25 @@ from cognee.modules.graph.utils import get_graph_from_model class Document(DataPoint): path: str - _metadata = {"index_fields": [], "type": "Document"} + metadata: dict = {"index_fields": []} class DocumentChunk(DataPoint): part_of: Document text: str contains: List["Entity"] = None - _metadata = {"index_fields": ["text"], "type": "DocumentChunk"} + metadata: dict = {"index_fields": ["text"]} class EntityType(DataPoint): name: str - _metadata = {"index_fields": ["name"], "type": "EntityType"} + metadata: dict = {"index_fields": ["name"]} class Entity(DataPoint): name: str is_type: EntityType - _metadata = {"index_fields": ["name"], "type": "Entity"} + metadata: dict = {"index_fields": ["name"]} DocumentChunk.model_rebuild() diff --git a/cognee/tests/unit/interfaces/graph/get_graph_from_model_unit_test.py b/cognee/tests/unit/interfaces/graph/get_graph_from_model_unit_test.py index 70d1f348e..d45819d39 100644 --- a/cognee/tests/unit/interfaces/graph/get_graph_from_model_unit_test.py +++ b/cognee/tests/unit/interfaces/graph/get_graph_from_model_unit_test.py @@ -7,25 +7,25 @@ from cognee.modules.graph.utils import get_graph_from_model class Document(DataPoint): path: str - _metadata = {"index_fields": [], "type": "Document"} + metadata: dict = {"index_fields": []} class DocumentChunk(DataPoint): part_of: Document text: str contains: List["Entity"] = None - _metadata = {"index_fields": ["text"], "type": "DocumentChunk"} + metadata: dict = {"index_fields": ["text"]} class EntityType(DataPoint): name: str - _metadata = {"index_fields": ["name"], "type": "EntityType"} + metadata: dict = {"index_fields": ["name"]} class Entity(DataPoint): name: str is_type: EntityType - _metadata = {"index_fields": ["name"], "type": "Entity"} + metadata: dict = {"index_fields": ["name"]} DocumentChunk.model_rebuild() diff --git a/cognee/tests/unit/modules/visualization/visualization_test.py b/cognee/tests/unit/modules/visualization/visualization_test.py index 06efb6234..887cb8327 100644 --- a/cognee/tests/unit/modules/visualization/visualization_test.py +++ b/cognee/tests/unit/modules/visualization/visualization_test.py @@ -7,11 +7,11 @@ from cognee.modules.visualization.cognee_network_visualization import ( @pytest.mark.asyncio async def test_create_cognee_style_network_with_logo(): nodes_data = [ - (1, {"pydantic_type": "Entity", "name": "Node1", "updated_at": 123, "created_at": 123}), + (1, {"type": "Entity", "name": "Node1", "updated_at": 123, "created_at": 123}), ( 2, { - "pydantic_type": "DocumentChunk", + "type": "DocumentChunk", "name": "Node2", "updated_at": 123, "created_at": 123, diff --git a/evals/qa_context_provider_utils.py b/evals/qa_context_provider_utils.py index 6a0314278..c7e5ba15d 100644 --- a/evals/qa_context_provider_utils.py +++ b/evals/qa_context_provider_utils.py @@ -110,7 +110,7 @@ async def get_context_with_simple_rag(instance: dict) -> str: await cognify_instance(instance) vector_engine = get_vector_engine() - found_chunks = await vector_engine.search("document_chunk_text", instance["question"], limit=5) + found_chunks = await vector_engine.search("DocumentChunk_text", instance["question"], limit=5) search_results_str = "\n".join([context_item.payload["text"] for context_item in found_chunks]) diff --git a/notebooks/cognee_demo.ipynb b/notebooks/cognee_demo.ipynb index 9ee3670a1..607caed97 100644 --- a/notebooks/cognee_demo.ipynb +++ b/notebooks/cognee_demo.ipynb @@ -797,7 +797,7 @@ "from cognee.infrastructure.databases.vector import get_vector_engine\n", "\n", "vector_engine = get_vector_engine()\n", - "results = await search(vector_engine, \"entity_name\", \"sarah.nguyen@example.com\")\n", + "results = await search(vector_engine, \"Entity_name\", \"sarah.nguyen@example.com\")\n", "for result in results:\n", " print(result)" ] @@ -827,7 +827,7 @@ "source": [ "from cognee.api.v1.search import SearchType\n", "\n", - "node = (await vector_engine.search(\"entity_name\", \"sarah.nguyen@example.com\"))[0]\n", + "node = (await vector_engine.search(\"Entity_name\", \"sarah.nguyen@example.com\"))[0]\n", "node_name = node.payload[\"text\"]\n", "\n", "search_results = await cognee.search(query_type=SearchType.SUMMARIES, query_text = node_name)\n", @@ -1237,7 +1237,7 @@ ], "metadata": { "kernelspec": { - "display_name": "cognee-c83GrcRT-py3.11", + "display_name": ".venv", "language": "python", "name": "python3" }, @@ -1251,7 +1251,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.11.10" + "version": "3.11.8" } }, "nbformat": 4, diff --git a/notebooks/hr_demo.ipynb b/notebooks/hr_demo.ipynb index f186c6f3d..e864ec994 100644 --- a/notebooks/hr_demo.ipynb +++ b/notebooks/hr_demo.ipynb @@ -533,7 +533,7 @@ "from cognee.infrastructure.databases.vector import get_vector_engine\n", "\n", "vector_engine = get_vector_engine()\n", - "results = await search(vector_engine, \"entity_name\", \"sarah.nguyen@example.com\")\n", + "results = await search(vector_engine, \"Entity_name\", \"sarah.nguyen@example.com\")\n", "for result in results:\n", " print(result)" ] @@ -563,7 +563,7 @@ "source": [ "from cognee.api.v1.search import SearchType\n", "\n", - "node = (await vector_engine.search(\"entity_name\", \"sarah.nguyen@example.com\"))[0]\n", + "node = (await vector_engine.search(\"Entity_name\", \"sarah.nguyen@example.com\"))[0]\n", "node_name = node.payload[\"text\"]\n", "\n", "search_results = await cognee.search(query_type=SearchType.SUMMARIES, query_text=node_name)\n", diff --git a/poetry.lock b/poetry.lock index b12dbd9b3..28c751af7 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,4 +1,4 @@ -# This file is automatically @generated by Poetry 1.8.5 and should not be changed by hand. +# This file is automatically @generated by Poetry 1.8.4 and should not be changed by hand. [[package]] name = "aiofiles" @@ -13,13 +13,13 @@ files = [ [[package]] name = "aiohappyeyeballs" -version = "2.4.4" +version = "2.4.6" description = "Happy Eyeballs for asyncio" optional = false -python-versions = ">=3.8" +python-versions = ">=3.9" files = [ - {file = "aiohappyeyeballs-2.4.4-py3-none-any.whl", hash = "sha256:a980909d50efcd44795c4afeca523296716d50cd756ddca6af8c65b996e27de8"}, - {file = "aiohappyeyeballs-2.4.4.tar.gz", hash = "sha256:5fdd7d87889c63183afc18ce9271f9b0a7d32c2303e394468dd45d514a757745"}, + {file = "aiohappyeyeballs-2.4.6-py3-none-any.whl", hash = "sha256:147ec992cf873d74f5062644332c539fcd42956dc69453fe5204195e560517e1"}, + {file = "aiohappyeyeballs-2.4.6.tar.gz", hash = "sha256:9b05052f9042985d32ecbe4b59a77ae19c006a78f1344d7fdad69d28ded3d0b0"}, ] [[package]] @@ -485,17 +485,17 @@ cryptography = "*" [[package]] name = "babel" -version = "2.16.0" +version = "2.17.0" description = "Internationalization utilities" optional = false python-versions = ">=3.8" files = [ - 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