From 3e37f8a94630cd39a61239a185c9b3f1d1d1946e Mon Sep 17 00:00:00 2001 From: estelle Date: Fri, 29 Nov 2024 14:20:07 +0100 Subject: [PATCH 01/17] Make sure the created chunk ID are unique --- docs/source/types.rst | 6 + .../build_graph/simple_kg_builder_from_pdf.py | 2 +- .../components/extractors/custom_extractor.py | 2 +- .../components/loaders/custom_loader.py | 7 +- poetry.lock | 1469 +++++++++-------- pyproject.toml | 1 + .../components/entity_relation_extractor.py | 25 +- .../experimental/components/lexical_graph.py | 70 +- .../experimental/components/neo4j_reader.py | 19 +- .../experimental/components/pdf_loader.py | 13 +- .../experimental/components/types.py | 38 +- tests/e2e/test_neo4j_reader_component_e2e.py | 10 +- .../test_entity_relation_extractor.py | 8 +- .../components/test_lexical_graph_builder.py | 53 +- .../components/test_neo4j_reader.py | 8 +- .../test_fixed_size_splitter.py | 12 +- 16 files changed, 927 insertions(+), 816 deletions(-) diff --git a/docs/source/types.rst b/docs/source/types.rst index adf3c9b6..34ef03b4 100644 --- a/docs/source/types.rst +++ b/docs/source/types.rst @@ -39,6 +39,12 @@ RagResultModel .. autoclass:: neo4j_graphrag.generation.types.RagResultModel +DocumentInfo +============ + +.. autoclass:: neo4j_graphrag.experimental.components.types.DocumentInfo + + TextChunk ========= diff --git a/examples/build_graph/simple_kg_builder_from_pdf.py b/examples/build_graph/simple_kg_builder_from_pdf.py index fd79a1d6..05ac6989 100644 --- a/examples/build_graph/simple_kg_builder_from_pdf.py +++ b/examples/build_graph/simple_kg_builder_from_pdf.py @@ -23,7 +23,7 @@ DATABASE = "neo4j" -root_dir = Path(__file__).parents[4] +root_dir = Path(__file__).parents[1] file_path = root_dir / "data" / "Harry Potter and the Chamber of Secrets Summary.pdf" diff --git a/examples/customize/build_graph/components/extractors/custom_extractor.py b/examples/customize/build_graph/components/extractors/custom_extractor.py index 6c208086..dcc73d89 100644 --- a/examples/customize/build_graph/components/extractors/custom_extractor.py +++ b/examples/customize/build_graph/components/extractors/custom_extractor.py @@ -4,8 +4,8 @@ EntityRelationExtractor, OnError, ) -from neo4j_graphrag.experimental.components.pdf_loader import DocumentInfo from neo4j_graphrag.experimental.components.types import ( + DocumentInfo, LexicalGraphConfig, Neo4jGraph, TextChunks, diff --git a/examples/customize/build_graph/components/loaders/custom_loader.py b/examples/customize/build_graph/components/loaders/custom_loader.py index 35ebfd10..a8ca8142 100644 --- a/examples/customize/build_graph/components/loaders/custom_loader.py +++ b/examples/customize/build_graph/components/loaders/custom_loader.py @@ -3,11 +3,8 @@ from pathlib import Path from typing import Dict, Optional -from neo4j_graphrag.experimental.components.pdf_loader import ( - DataLoader, - DocumentInfo, - PdfDocument, -) +from neo4j_graphrag.experimental.components.pdf_loader import DataLoader +from neo4j_graphrag.experimental.components.types import DocumentInfo, PdfDocument class MyLoader(DataLoader): diff --git a/poetry.lock b/poetry.lock index 21f8bf66..9a577432 100644 --- a/poetry.lock +++ b/poetry.lock @@ -2,98 +2,98 @@ [[package]] name = "aiohappyeyeballs" -version = "2.4.4" +version = "2.4.3" description = "Happy Eyeballs for asyncio" optional = true python-versions = ">=3.8" 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-2.4.3-py3-none-any.whl", hash = "sha256:8a7a83727b2756f394ab2895ea0765a0a8c475e3c71e98d43d76f22b4b435572"}, + {file = "aiohappyeyeballs-2.4.3.tar.gz", hash = "sha256:75cf88a15106a5002a8eb1dab212525c00d1f4c0fa96e551c9fbe6f09a621586"}, 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018fa586..e65006bb 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -51,6 +51,7 @@ sentence-transformers = {version = "^3.0.0", optional = true } json-repair = "^0.30.2" types-pyyaml = "^6.0.12.20240917" ollama = {version = "^0.4.4", optional = true} +uuid = "^1.30" [tool.poetry.group.dev.dependencies] urllib3 = "<2" diff --git a/src/neo4j_graphrag/experimental/components/entity_relation_extractor.py b/src/neo4j_graphrag/experimental/components/entity_relation_extractor.py index d4070aea..5404570e 100644 --- a/src/neo4j_graphrag/experimental/components/entity_relation_extractor.py +++ b/src/neo4j_graphrag/experimental/components/entity_relation_extractor.py @@ -19,7 +19,7 @@ import enum import json import logging -from datetime import datetime +import re from typing import Any, List, Optional, Union, cast import json_repair @@ -27,9 +27,9 @@ from neo4j_graphrag.exceptions import LLMGenerationError from neo4j_graphrag.experimental.components.lexical_graph import LexicalGraphBuilder -from neo4j_graphrag.experimental.components.pdf_loader import DocumentInfo from neo4j_graphrag.experimental.components.schema import SchemaConfig from neo4j_graphrag.experimental.components.types import ( + DocumentInfo, LexicalGraphConfig, Neo4jGraph, TextChunk, @@ -141,17 +141,19 @@ async def run( pass def update_ids( - self, graph: Neo4jGraph, chunk_index: int, run_id: str + self, + graph: Neo4jGraph, + chunk: TextChunk, ) -> Neo4jGraph: - """Make node IDs unique across chunks and pipeline runs by - prefixing them with a custom prefix (set in the run method) - and chunk index.""" - prefix = f"{run_id}:{chunk_index}" + """Make node IDs unique across chunks, document and pipeline runs + by prefixing them with a unique prefix. + """ + prefix = f"{chunk.chunk_id}" for node in graph.nodes: node.id = f"{prefix}:{node.id}" if node.properties is None: node.properties = {} - node.properties.update({"chunk_index": chunk_index}) + node.properties.update({"chunk_index": chunk.index}) for rel in graph.relationships: rel.start_node_id = f"{prefix}:{rel.start_node_id}" rel.end_node_id = f"{prefix}:{rel.end_node_id}" @@ -241,14 +243,13 @@ async def post_process_chunk( self, chunk_graph: Neo4jGraph, chunk: TextChunk, - run_id: str, lexical_graph_builder: Optional[LexicalGraphBuilder] = None, ) -> None: """Perform post-processing after entity and relation extraction: - Update node IDs to make them unique across chunks - Build the lexical graph if requested """ - self.update_ids(chunk_graph, chunk.index, run_id) + self.update_ids(chunk_graph, chunk) if lexical_graph_builder: await lexical_graph_builder.process_chunk_extracted_entities( chunk_graph, @@ -271,7 +272,6 @@ def combine_chunk_graphs( async def run_for_chunk( self, sem: asyncio.Semaphore, - run_id: str, chunk: TextChunk, schema: SchemaConfig, examples: str, @@ -283,7 +283,6 @@ async def run_for_chunk( await self.post_process_chunk( chunk_graph, chunk, - run_id, lexical_graph_builder, ) return chunk_graph @@ -312,7 +311,6 @@ async def run( schema (SchemaConfig | None): Definition of the schema to guide the LLM in its extraction. Caution: at the moment, there is no guarantee that the extracted entities and relations will strictly obey the schema. examples (str): Examples for few-shot learning in the prompt. """ - run_id = str(int(datetime.now().timestamp())) lexical_graph_builder = None lexical_graph = None if self.create_lexical_graph: @@ -330,7 +328,6 @@ async def run( tasks = [ self.run_for_chunk( sem, - run_id, chunk, schema, examples, diff --git a/src/neo4j_graphrag/experimental/components/lexical_graph.py b/src/neo4j_graphrag/experimental/components/lexical_graph.py index ce96b9fd..90135a31 100644 --- a/src/neo4j_graphrag/experimental/components/lexical_graph.py +++ b/src/neo4j_graphrag/experimental/components/lexical_graph.py @@ -14,12 +14,14 @@ # limitations under the License. import asyncio import logging +from datetime import datetime +from itertools import zip_longest from typing import Any, Dict, Optional from pydantic import validate_call -from neo4j_graphrag.experimental.components.pdf_loader import DocumentInfo from neo4j_graphrag.experimental.components.types import ( + DocumentInfo, GraphResult, LexicalGraphConfig, Neo4jGraph, @@ -61,41 +63,43 @@ async def run( "because no document metadata is provided" ) graph = Neo4jGraph() - document_id = None if document_info: document_node = self.create_document_node(document_info) graph.nodes.append(document_node) - document_id = document_node.id - tasks = [ - self.process_chunk(graph, chunk, document_id) - for chunk in text_chunks.chunks - ] - await asyncio.gather(*tasks) + if len(text_chunks.chunks) > 0: + tasks = [ + self.process_chunk(graph, chunk, next_chunk, document_info) + for chunk, next_chunk in zip_longest( + text_chunks.chunks, text_chunks.chunks[1:] + ) + ] + await asyncio.gather(*tasks) return GraphResult( config=self.config, graph=graph, ) - def chunk_id(self, chunk_index: int) -> str: - return f"{self.config.id_prefix}:{chunk_index}" - async def process_chunk( self, graph: Neo4jGraph, chunk: TextChunk, - document_id: Optional[str] = None, + next_chunk: Optional[TextChunk], + document_info: Optional[DocumentInfo] = None, ) -> None: """Add chunks and relationships between them (NEXT_CHUNK) Updates `graph` in place. """ - if document_id: - chunk_to_doc_rel = self.create_chunk_to_document_rel(chunk, document_id) - graph.relationships.append(chunk_to_doc_rel) chunk_node = self.create_chunk_node(chunk) graph.nodes.append(chunk_node) - if chunk.index > 0: - next_chunk_rel = self.create_next_chunk_relationship(chunk) + if document_info: + chunk_to_doc_rel = self.create_chunk_to_document_rel( + chunk, + document_info, + ) + graph.relationships.append(chunk_to_doc_rel) + if next_chunk: + next_chunk_rel = self.create_next_chunk_relationship(chunk, next_chunk) graph.relationships.append(next_chunk_rel) def create_document_node(self, document_info: DocumentInfo) -> Neo4jNode: @@ -104,19 +108,23 @@ def create_document_node(self, document_info: DocumentInfo) -> Neo4jNode: """ document_metadata = document_info.metadata or {} return Neo4jNode( - id=document_info.path, + id=document_info.document_id, label=self.config.document_node_label, properties={ "path": document_info.path, + "createdAt": str(datetime.now()), **document_metadata, }, ) - def create_chunk_node(self, chunk: TextChunk) -> Neo4jNode: + def create_chunk_node( + self, + chunk: TextChunk, + ) -> Neo4jNode: """Create chunk node with properties 'text', 'index' and any 'metadata' added during the process. Special case for the potential chunk embedding property that gets added as an embedding_property""" - chunk_id = self.chunk_id(chunk.index) + chunk_id = chunk.chunk_id chunk_properties: Dict[str, Any] = { self.config.chunk_text_property: chunk.text, self.config.chunk_index_property: chunk.index, @@ -136,27 +144,27 @@ def create_chunk_node(self, chunk: TextChunk) -> Neo4jNode: ) def create_chunk_to_document_rel( - self, chunk: TextChunk, document_id: str + self, + chunk: TextChunk, + document_info: DocumentInfo, ) -> Neo4jRelationship: """Create the relationship between a chunk and the document it belongs to.""" - chunk_id = self.chunk_id(chunk.index) return Neo4jRelationship( - start_node_id=chunk_id, - end_node_id=document_id, + start_node_id=chunk.chunk_id, + end_node_id=document_info.document_id, type=self.config.chunk_to_document_relationship_type, ) def create_next_chunk_relationship( self, chunk: TextChunk, + next_chunk: TextChunk, ) -> Neo4jRelationship: """Create relationship between a chunk and the next one""" - chunk_id = self.chunk_id(chunk.index) - previous_chunk_id = self.chunk_id(chunk.index - 1) return Neo4jRelationship( type=self.config.next_chunk_relationship_type, - start_node_id=previous_chunk_id, - end_node_id=chunk_id, + start_node_id=chunk.chunk_id, + end_node_id=next_chunk.chunk_id, ) def create_node_to_chunk_rel( @@ -185,9 +193,5 @@ async def process_chunk_extracted_entities( self.config.document_node_label, ): continue - if chunk.metadata and (id := chunk.metadata.get("id")): - chunk_id = id - else: - chunk_id = self.chunk_id(chunk.index) - node_to_chunk_rel = self.create_node_to_chunk_rel(node, chunk_id) + node_to_chunk_rel = self.create_node_to_chunk_rel(node, chunk.chunk_id) chunk_graph.relationships.append(node_to_chunk_rel) diff --git a/src/neo4j_graphrag/experimental/components/neo4j_reader.py b/src/neo4j_graphrag/experimental/components/neo4j_reader.py index 1cb6ff4a..352ed1a6 100644 --- a/src/neo4j_graphrag/experimental/components/neo4j_reader.py +++ b/src/neo4j_graphrag/experimental/components/neo4j_reader.py @@ -102,13 +102,14 @@ async def run( chunks = [] for record in result: chunk = record.get("chunk") - text = chunk.pop(lexical_graph_config.chunk_text_property, "") - index = chunk.pop(lexical_graph_config.chunk_index_property, -1) - chunks.append( - TextChunk( - text=text, - index=index, - metadata=chunk, - ) - ) + input_data = { + "text": chunk.pop(lexical_graph_config.chunk_text_property, ""), + "index": chunk.pop(lexical_graph_config.chunk_index_property, -1), + } + if ( + uid := chunk.pop(lexical_graph_config.chunk_id_property, None) + ) is not None: + input_data["uid"] = uid + input_data["metadata"] = chunk + chunks.append(TextChunk(**input_data)) return TextChunks(chunks=chunks) diff --git a/src/neo4j_graphrag/experimental/components/pdf_loader.py b/src/neo4j_graphrag/experimental/components/pdf_loader.py index c925c677..979cdb66 100644 --- a/src/neo4j_graphrag/experimental/components/pdf_loader.py +++ b/src/neo4j_graphrag/experimental/components/pdf_loader.py @@ -25,17 +25,8 @@ from fsspec.implementations.local import LocalFileSystem from neo4j_graphrag.exceptions import PdfLoaderError -from neo4j_graphrag.experimental.pipeline.component import Component, DataModel - - -class DocumentInfo(DataModel): - path: str - metadata: Optional[Dict[str, str]] = None - - -class PdfDocument(DataModel): - text: str - document_info: DocumentInfo +from neo4j_graphrag.experimental.components.types import DocumentInfo, PdfDocument +from neo4j_graphrag.experimental.pipeline.component import Component class DataLoader(Component): diff --git a/src/neo4j_graphrag/experimental/components/types.py b/src/neo4j_graphrag/experimental/components/types.py index 093bb26d..43943571 100644 --- a/src/neo4j_graphrag/experimental/components/types.py +++ b/src/neo4j_graphrag/experimental/components/types.py @@ -14,25 +14,55 @@ # limitations under the License. from __future__ import annotations -from typing import Any, Optional +import uuid +from typing import Any, Dict, Optional -from pydantic import BaseModel, field_validator +from pydantic import BaseModel, Field, field_validator from neo4j_graphrag.experimental.pipeline.component import DataModel +class DocumentInfo(DataModel): + """A document loaded by a DataLoader. + + Attributes: + path (str): Document path. + metadata (Optional[dict[str, Any]]): Metadata associated with this document. + uid (str): Unique identifier for this document. + """ + + path: str + metadata: Optional[Dict[str, str]] = None + uid: str = Field(default_factory=lambda: str(uuid.uuid4())) + + @property + def document_id(self) -> str: + return self.uid + + +class PdfDocument(DataModel): + text: str + document_info: DocumentInfo + + class TextChunk(BaseModel): """A chunk of text split from a document by a text splitter. Attributes: text (str): The raw chunk text. index (int): The position of this chunk in the original document. - metadata (Optional[dict[str, Any]]): Metadata associated with this chunk such as the id of the next chunk in the original document. + metadata (Optional[dict[str, Any]]): Metadata associated with this chunk. + uid (str): Unique identifier for this chunk. """ text: str index: int metadata: Optional[dict[str, Any]] = None + uid: str = Field(default_factory=lambda: str(uuid.uuid4())) + + @property + def chunk_id(self) -> str: + return self.uid class TextChunks(DataModel): @@ -110,6 +140,7 @@ class ResolutionStats(DataModel): DEFAULT_CHUNK_TO_DOCUMENT_RELATIONSHIP_TYPE = "FROM_DOCUMENT" DEFAULT_NEXT_CHUNK_RELATIONSHIP_TYPE = "NEXT_CHUNK" DEFAULT_NODE_TO_CHUNK_RELATIONSHIP_TYPE = "FROM_CHUNK" +DEFAULT_CHUNK_ID_PROPERTY = "id" DEFAULT_CHUNK_INDEX_PROPERTY = "index" DEFAULT_CHUNK_TEXT_PROPERTY = "text" DEFAULT_CHUNK_EMBEDDING_PROPERTY = "embedding" @@ -126,6 +157,7 @@ class LexicalGraphConfig(BaseModel): ) next_chunk_relationship_type: str = DEFAULT_NEXT_CHUNK_RELATIONSHIP_TYPE node_to_chunk_relationship_type: str = DEFAULT_NODE_TO_CHUNK_RELATIONSHIP_TYPE + chunk_id_property: str = DEFAULT_CHUNK_ID_PROPERTY chunk_index_property: str = DEFAULT_CHUNK_INDEX_PROPERTY chunk_text_property: str = DEFAULT_CHUNK_TEXT_PROPERTY chunk_embedding_property: str = DEFAULT_CHUNK_EMBEDDING_PROPERTY diff --git a/tests/e2e/test_neo4j_reader_component_e2e.py b/tests/e2e/test_neo4j_reader_component_e2e.py index 8de9ec23..e33a5c0e 100644 --- a/tests/e2e/test_neo4j_reader_component_e2e.py +++ b/tests/e2e/test_neo4j_reader_component_e2e.py @@ -32,10 +32,16 @@ async def test_neo4j_reader(driver: neo4j.Driver) -> None: res = await reader.run() assert len(res.chunks) == 2 assert res.chunks[0] == TextChunk( - index=0, text="some text", metadata={"id": "0", "embedding": None} + index=0, + text="some text", + metadata={"embedding": None}, + uid="0", ) assert res.chunks[1] == TextChunk( - index=1, text="some longer text", metadata={"id": "1", "embedding": None} + index=1, + text="some longer text", + metadata={"embedding": None}, + uid="1", ) diff --git a/tests/unit/experimental/components/test_entity_relation_extractor.py b/tests/unit/experimental/components/test_entity_relation_extractor.py index 29ba6568..a1371ec2 100644 --- a/tests/unit/experimental/components/test_entity_relation_extractor.py +++ b/tests/unit/experimental/components/test_entity_relation_extractor.py @@ -25,8 +25,8 @@ balance_curly_braces, fix_invalid_json, ) -from neo4j_graphrag.experimental.components.pdf_loader import DocumentInfo from neo4j_graphrag.experimental.components.types import ( + DocumentInfo, Neo4jGraph, TextChunk, TextChunks, @@ -107,13 +107,13 @@ async def test_extractor_happy_path_non_empty_result() -> None: chunk_entity = result.nodes[1] assert chunk_entity.label == "Chunk" entity = result.nodes[2] - assert entity.id.endswith("0:0") + assert entity.id == f"{chunk_entity.id}:0" assert entity.label == "Person" assert entity.properties == {"chunk_index": 0} assert len(result.relationships) == 2 assert result.relationships[0].type == "FROM_DOCUMENT" - assert result.relationships[0].start_node_id.endswith(":0") - assert result.relationships[0].end_node_id == "path" + assert result.relationships[0].start_node_id == f"{chunk_entity.id}" + assert result.relationships[0].end_node_id == f"{doc.id}" assert result.relationships[1].type == "FROM_CHUNK" diff --git a/tests/unit/experimental/components/test_lexical_graph_builder.py b/tests/unit/experimental/components/test_lexical_graph_builder.py index 4cedae61..7c698bcd 100644 --- a/tests/unit/experimental/components/test_lexical_graph_builder.py +++ b/tests/unit/experimental/components/test_lexical_graph_builder.py @@ -14,14 +14,16 @@ # limitations under the License. from __future__ import annotations +import uuid + import pytest from neo4j_graphrag.experimental.components.lexical_graph import LexicalGraphBuilder -from neo4j_graphrag.experimental.components.pdf_loader import DocumentInfo from neo4j_graphrag.experimental.components.types import ( DEFAULT_CHUNK_NODE_LABEL, DEFAULT_CHUNK_TO_DOCUMENT_RELATIONSHIP_TYPE, DEFAULT_DOCUMENT_NODE_LABEL, DEFAULT_NEXT_CHUNK_RELATIONSHIP_TYPE, + DocumentInfo, GraphResult, LexicalGraphConfig, Neo4jNode, @@ -31,33 +33,27 @@ def test_lexical_graph_builder_create_chunk_node_no_metadata() -> None: - builder = LexicalGraphBuilder( - LexicalGraphConfig(id_prefix="test_create_chunk_node_no_metadata") - ) + builder = LexicalGraphBuilder() node = builder.create_chunk_node(chunk=TextChunk(text="text chunk", index=0)) assert isinstance(node, Neo4jNode) - assert node.id == "test_create_chunk_node_no_metadata:0" + assert node.id is not None assert node.properties == {"index": 0, "text": "text chunk"} assert node.embedding_properties == {} def test_lexical_graph_builder_create_chunk_node_metadata_no_embedding() -> None: - builder = LexicalGraphBuilder( - LexicalGraphConfig(id_prefix="test_create_chunk_node_metadata_no_embedding") - ) + builder = LexicalGraphBuilder() node = builder.create_chunk_node( chunk=TextChunk(text="text chunk", index=0, metadata={"status": "ok"}) ) assert isinstance(node, Neo4jNode) - assert node.id == "test_create_chunk_node_metadata_no_embedding:0" + assert node.id is not None assert node.properties == {"index": 0, "text": "text chunk", "status": "ok"} assert node.embedding_properties == {} def test_lexical_graph_builder_create_chunk_node_metadata_embedding() -> None: - builder = LexicalGraphBuilder( - LexicalGraphConfig(id_prefix="test_create_chunk_node_metadata_embedding") - ) + builder = LexicalGraphBuilder() node = builder.create_chunk_node( chunk=TextChunk( text="text chunk", @@ -66,16 +62,15 @@ def test_lexical_graph_builder_create_chunk_node_metadata_embedding() -> None: ), ) assert isinstance(node, Neo4jNode) - assert node.id == "test_create_chunk_node_metadata_embedding:0" + assert node.id is not None assert node.properties == {"index": 0, "text": "text chunk", "status": "ok"} assert node.embedding_properties == {"embedding": [1, 2, 3]} @pytest.mark.asyncio async def test_lexical_graph_builder_run_with_document() -> None: - lexical_graph_builder = LexicalGraphBuilder( - config=LexicalGraphConfig(id_prefix="test") - ) + lexical_graph_builder = LexicalGraphBuilder() + doc_uid = str(uuid.uuid4()) result = await lexical_graph_builder.run( text_chunks=TextChunks( chunks=[ @@ -83,14 +78,14 @@ async def test_lexical_graph_builder_run_with_document() -> None: TextChunk(text="text chunk 1", index=1), ] ), - document_info=DocumentInfo(path="test_lexical_graph"), + document_info=DocumentInfo(path="test_lexical_graph", uid=doc_uid), ) assert isinstance(result, GraphResult) graph = result.graph nodes = graph.nodes assert len(nodes) == 3 document = nodes[0] - assert document.id == "test_lexical_graph" + assert document.id == doc_uid assert document.label == DEFAULT_DOCUMENT_NODE_LABEL assert document.properties == {"path": "test_lexical_graph"} chunk1 = nodes[1] @@ -98,16 +93,14 @@ async def test_lexical_graph_builder_run_with_document() -> None: chunk2 = nodes[2] assert chunk2.label == DEFAULT_CHUNK_NODE_LABEL assert len(graph.relationships) == 3 - for relationship in graph.relationships[:2]: - assert relationship.type == DEFAULT_CHUNK_TO_DOCUMENT_RELATIONSHIP_TYPE - assert graph.relationships[2].type == DEFAULT_NEXT_CHUNK_RELATIONSHIP_TYPE + assert graph.relationships[0].type == DEFAULT_CHUNK_TO_DOCUMENT_RELATIONSHIP_TYPE + assert graph.relationships[1].type == DEFAULT_NEXT_CHUNK_RELATIONSHIP_TYPE + assert graph.relationships[2].type == DEFAULT_CHUNK_TO_DOCUMENT_RELATIONSHIP_TYPE @pytest.mark.asyncio async def test_lexical_graph_builder_run_no_document() -> None: - lexical_graph_builder = LexicalGraphBuilder( - config=LexicalGraphConfig(id_prefix="test") - ) + lexical_graph_builder = LexicalGraphBuilder() result = await lexical_graph_builder.run( text_chunks=TextChunks( chunks=[ @@ -132,13 +125,13 @@ async def test_lexical_graph_builder_run_no_document() -> None: async def test_lexical_graph_builder_run_custom_labels() -> None: lexical_graph_builder = LexicalGraphBuilder( config=LexicalGraphConfig( - id_prefix="test", document_node_label="Report", chunk_node_label="Page", chunk_to_document_relationship_type="IN_REPORT", next_chunk_relationship_type="NEXT_PAGE", ), ) + doc_uid = str(uuid.uuid4()) result = await lexical_graph_builder.run( text_chunks=TextChunks( chunks=[ @@ -146,14 +139,14 @@ async def test_lexical_graph_builder_run_custom_labels() -> None: TextChunk(text="text chunk 1", index=1), ] ), - document_info=DocumentInfo(path="test_lexical_graph"), + document_info=DocumentInfo(path="test_lexical_graph", uid=doc_uid), ) assert isinstance(result, GraphResult) graph = result.graph nodes = graph.nodes assert len(nodes) == 3 document = nodes[0] - assert document.id == "test_lexical_graph" + assert document.id == doc_uid assert document.label == "Report" assert document.properties == {"path": "test_lexical_graph"} chunk1 = nodes[1] @@ -161,6 +154,6 @@ async def test_lexical_graph_builder_run_custom_labels() -> None: chunk2 = nodes[2] assert chunk2.label == "Page" assert len(graph.relationships) == 3 - for relationship in graph.relationships[:2]: - assert relationship.type == "IN_REPORT" - assert graph.relationships[2].type == "NEXT_PAGE" + assert graph.relationships[0].type == "IN_REPORT" + assert graph.relationships[1].type == "NEXT_PAGE" + assert graph.relationships[2].type == "IN_REPORT" diff --git a/tests/unit/experimental/components/test_neo4j_reader.py b/tests/unit/experimental/components/test_neo4j_reader.py index d80bc9a8..331d8073 100644 --- a/tests/unit/experimental/components/test_neo4j_reader.py +++ b/tests/unit/experimental/components/test_neo4j_reader.py @@ -41,9 +41,10 @@ async def test_neo4j_chunk_reader(driver: Mock) -> None: assert isinstance(res, TextChunks) assert len(res.chunks) == 1 chunk = res.chunks[0] + assert chunk.uid == "azerty" assert chunk.text == "some text" assert chunk.index == 0 - assert chunk.metadata == {"id": "azerty"} + assert chunk.metadata == {} @pytest.mark.asyncio @@ -82,9 +83,10 @@ async def test_neo4j_chunk_reader_custom_lg_config(driver: Mock) -> None: assert isinstance(res, TextChunks) assert len(res.chunks) == 1 chunk = res.chunks[0] + assert chunk.uid == "azerty" assert chunk.text == "some text" assert chunk.index == 0 - assert chunk.metadata == {"id": "azerty", "other": "property"} + assert chunk.metadata == {"other": "property"} @pytest.mark.asyncio @@ -118,10 +120,10 @@ async def test_neo4j_chunk_reader_fetch_embedding(driver: Mock) -> None: assert isinstance(res, TextChunks) assert len(res.chunks) == 1 chunk = res.chunks[0] + assert chunk.uid == "azerty" assert chunk.text == "some text" assert chunk.index == 0 assert chunk.metadata == { "other": "property", - "id": "azerty", "embedding": [1.0, 2.0, 3.0], } diff --git a/tests/unit/experimental/components/text_splitters/test_fixed_size_splitter.py b/tests/unit/experimental/components/text_splitters/test_fixed_size_splitter.py index 9c559874..0467201f 100644 --- a/tests/unit/experimental/components/text_splitters/test_fixed_size_splitter.py +++ b/tests/unit/experimental/components/text_splitters/test_fixed_size_splitter.py @@ -12,6 +12,8 @@ # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. # See the License for the specific language governing permissions and # limitations under the License. +from itertools import zip_longest + import pytest from neo4j_graphrag.experimental.components.text_splitters.fixed_size_splitter import ( FixedSizeSplitter, @@ -34,7 +36,10 @@ async def test_split_text_no_overlap() -> None: TextChunk(text="nd sh", index=4), TextChunk(text="atter", index=5), ] - assert chunks.chunks == expected_chunks + for actual, expected in zip_longest(chunks.chunks, expected_chunks): + assert actual.text == expected.text + assert actual.index == expected.index + assert expected.uid is not None @pytest.mark.asyncio @@ -50,7 +55,10 @@ async def test_split_text_with_overlap() -> None: TextChunk(text="ip and sha", index=2), TextChunk(text="hatter", index=3), ] - assert chunks.chunks == expected_chunks + for actual, expected in zip_longest(chunks.chunks, expected_chunks): + assert actual.text == expected.text + assert actual.index == expected.index + assert expected.uid is not None @pytest.mark.asyncio From b43c480e6fa664bfa2dd939d5179c0a4099ec80e Mon Sep 17 00:00:00 2001 From: estelle Date: Fri, 29 Nov 2024 14:40:15 +0100 Subject: [PATCH 02/17] Remove unused id_prefix --- docs/source/user_guide_kg_builder.rst | 37 +++++--- .../lexical_graph_builder.py | 1 - .../lexical_graph_builder_from_text.py | 1 - ...l_graph_to_entity_graph_single_pipeline.py | 1 - ...cal_graph_to_entity_graph_two_pipelines.py | 1 - ...est_lexical_graph_builder_component_e2e.py | 87 ------------------- 6 files changed, 26 insertions(+), 102 deletions(-) diff --git a/docs/source/user_guide_kg_builder.rst b/docs/source/user_guide_kg_builder.rst index 87ce2f42..ac0534ee 100644 --- a/docs/source/user_guide_kg_builder.rst +++ b/docs/source/user_guide_kg_builder.rst @@ -998,7 +998,7 @@ without making assumptions about entity similarity. The Entity Resolver is responsible for refining the created knowledge graph by merging entity nodes that represent the same real-world object. -In practice, this package implements a single resolver that merges nodes +In practice, this package implements a simple resolver that merges nodes with the same label and identical "name" property. .. warning:: @@ -1018,15 +1018,30 @@ It can be used like this: .. warning:: - By default, all nodes with the __Entity__ label will be resolved. - To exclude specific nodes, a filter_query can be added to the query. - For example, if a `:Resolved` label has been applied to already resolved entities - in the graph, these entities can be excluded with the following approach: + By default, all nodes with the `__Entity__` label will be resolved. + This behavior can be controled using the `filter_query` parameter described below. - .. code:: python +Filter Query Parameter +---------------------- - from neo4j_graphrag.experimental.components.resolver import ( - SinglePropertyExactMatchResolver, - ) - resolver = SinglePropertyExactMatchResolver(driver, filter_query="WHERE not entity:Resolved") - res = await resolver.run() +To exclude specific nodes from the resolution, a `filter_query` can be added to the query. +For example, if a `:Resolved` label has been applied to already resolved entities +in the graph, these entities can be excluded with the following approach: + +.. code:: python + + from neo4j_graphrag.experimental.components.resolver import ( + SinglePropertyExactMatchResolver, + ) + filter_query = "WHERE NOT entity:Resolved" + resolver = SinglePropertyExactMatchResolver(driver, filter_query=filter_query) + res = await resolver.run() + + +Similar approach can be used to exclude entities created from a previous pipeline +run on the same document, assuming a label `OldDocument` has been assigned to the +previously created document node: + +.. code:: python + + filter_query = "WHERE NOT EXISTS((entity)-[:FROM_DOCUMENT]->(:OldDocument))" diff --git a/examples/customize/build_graph/components/lexical_graph_builder/lexical_graph_builder.py b/examples/customize/build_graph/components/lexical_graph_builder/lexical_graph_builder.py index fd7feab7..63c5846d 100644 --- a/examples/customize/build_graph/components/lexical_graph_builder/lexical_graph_builder.py +++ b/examples/customize/build_graph/components/lexical_graph_builder/lexical_graph_builder.py @@ -13,7 +13,6 @@ async def main() -> GraphResult: # optionally, define a LexicalGraphConfig object # shown below with default values config = LexicalGraphConfig( - id_prefix="", # used to prefix the chunk and document IDs chunk_node_label="Chunk", document_node_label="Document", chunk_to_document_relationship_type="PART_OF_DOCUMENT", diff --git a/examples/customize/build_graph/pipeline/lexical_graph_builder_from_text.py b/examples/customize/build_graph/pipeline/lexical_graph_builder_from_text.py index b862dcc4..4c332802 100644 --- a/examples/customize/build_graph/pipeline/lexical_graph_builder_from_text.py +++ b/examples/customize/build_graph/pipeline/lexical_graph_builder_from_text.py @@ -33,7 +33,6 @@ async def main(neo4j_driver: neo4j.Driver) -> PipelineResult: pipe.add_component(TextChunkEmbedder(embedder=OpenAIEmbeddings()), "chunk_embedder") # optional: define some custom node labels for the lexical graph: lexical_graph_config = LexicalGraphConfig( - id_prefix="example", chunk_node_label="TextPart", ) pipe.add_component( diff --git a/examples/customize/build_graph/pipeline/text_to_lexical_graph_to_entity_graph_single_pipeline.py b/examples/customize/build_graph/pipeline/text_to_lexical_graph_to_entity_graph_single_pipeline.py index c0cb5a5e..b7ba60e1 100644 --- a/examples/customize/build_graph/pipeline/text_to_lexical_graph_to_entity_graph_single_pipeline.py +++ b/examples/customize/build_graph/pipeline/text_to_lexical_graph_to_entity_graph_single_pipeline.py @@ -164,7 +164,6 @@ async def define_and_run_pipeline( async def main(driver: neo4j.Driver) -> PipelineResult: # optional: define some custom node labels for the lexical graph: lexical_graph_config = LexicalGraphConfig( - id_prefix="example", chunk_node_label="TextPart", document_node_label="Text", ) diff --git a/examples/customize/build_graph/pipeline/text_to_lexical_graph_to_entity_graph_two_pipelines.py b/examples/customize/build_graph/pipeline/text_to_lexical_graph_to_entity_graph_two_pipelines.py index dcb720d8..7cfa4cbb 100644 --- a/examples/customize/build_graph/pipeline/text_to_lexical_graph_to_entity_graph_two_pipelines.py +++ b/examples/customize/build_graph/pipeline/text_to_lexical_graph_to_entity_graph_two_pipelines.py @@ -184,7 +184,6 @@ async def read_chunk_and_perform_entity_extraction( async def main(driver: neo4j.Driver) -> PipelineResult: # optional: define some custom node labels for the lexical graph: lexical_graph_config = LexicalGraphConfig( - id_prefix="example", document_node_label="Book", # default: "Document" chunk_node_label="Chapter", # default "Chunk" chunk_text_property="content", # default: "text" diff --git a/tests/e2e/test_lexical_graph_builder_component_e2e.py b/tests/e2e/test_lexical_graph_builder_component_e2e.py index c27d120f..f7d37e7f 100644 --- a/tests/e2e/test_lexical_graph_builder_component_e2e.py +++ b/tests/e2e/test_lexical_graph_builder_component_e2e.py @@ -64,90 +64,3 @@ async def test_lexical_graph_component_alone_default_config( assert len(created_chunks.records) == 0 created_rels = driver.execute_query("MATCH ()-[r]->() RETURN r") assert len(created_rels.records) == 0 - - -@pytest.mark.asyncio -@pytest.mark.usefixtures("setup_neo4j_for_kg_construction") -async def test_lexical_graph_before_extractor_custom_prefix( - driver: neo4j.Driver, llm: MagicMock -) -> None: - driver.execute_query("MATCH (n) DETACH DELETE n") - llm.ainvoke.side_effect = [ - LLMResponse( - content="""{ - "nodes": [ - { - "id": "0", - "label": "Person", - "properties": { - "name": "Harry Potter" - } - }, - { - "id": "1", - "label": "Person", - "properties": { - "name": "Alastor Mad-Eye Moody" - } - }, - ], - "relationships": [ - { - "type": "KNOWS", - "start_node_id": "0", - "end_node_id": "1" - }, - ] - }""" - ), - ] - pipe = Pipeline() - pipe.add_component( - LexicalGraphBuilder(config=LexicalGraphConfig(id_prefix="myPrefix")), - "lexical_graph", - ) - pipe.add_component( - LLMEntityRelationExtractor(llm, create_lexical_graph=False), "extractor" - ) - pipe.add_component(Neo4jWriter(driver), "lg_writer") # lexical graph writer - pipe.add_component(Neo4jWriter(driver), "eg_writer") # entity graph writer - chunks = TextChunks(chunks=[TextChunk(text="my text", index=0)]) - pipe.connect("lexical_graph", "lg_writer", {"graph": "lexical_graph.graph"}) - pipe.connect( - "lexical_graph", "extractor", {"lexical_graph_config": "lexical_graph.config"} - ) - pipe.connect("extractor", "eg_writer", {"graph": "extractor"}) - - result = await pipe.run( - {"lexical_graph": {"text_chunks": chunks}, "extractor": {"chunks": chunks}} - ) - assert result.result == { - "eg_writer": { - "status": "SUCCESS", - "metadata": {"node_count": 2, "relationship_count": 3}, - }, - "lg_writer": { - "status": "SUCCESS", - "metadata": {"node_count": 1, "relationship_count": 0}, - }, - } - - # check the lexical graph has been created - default_config = LexicalGraphConfig() - created_chunks = driver.execute_query( - f"MATCH (n:{default_config.chunk_node_label}) RETURN n" - ) - assert len(created_chunks.records) == 1 - created_documents = driver.execute_query( - f"MATCH (n:{default_config.document_node_label}) RETURN n" - ) - assert len(created_documents.records) == 0 - - # check the entity graph has been created - created_persons = driver.execute_query("MATCH (n:Person) RETURN n") - assert len(created_persons.records) == 2 - - created_entity_to_chunk_rels = driver.execute_query( - f"MATCH ()-[r:{default_config.node_to_chunk_relationship_type}]->() RETURN r" - ) - assert len(created_entity_to_chunk_rels.records) == 2 From ad448944da050ad5bb0613b2408ce25566cda8c7 Mon Sep 17 00:00:00 2001 From: estelle Date: Fri, 29 Nov 2024 14:47:09 +0100 Subject: [PATCH 03/17] Rm unused imports --- tests/e2e/test_lexical_graph_builder_component_e2e.py | 6 ------ 1 file changed, 6 deletions(-) diff --git a/tests/e2e/test_lexical_graph_builder_component_e2e.py b/tests/e2e/test_lexical_graph_builder_component_e2e.py index f7d37e7f..de083179 100644 --- a/tests/e2e/test_lexical_graph_builder_component_e2e.py +++ b/tests/e2e/test_lexical_graph_builder_component_e2e.py @@ -12,13 +12,8 @@ # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. # See the License for the specific language governing permissions and # limitations under the License. -from unittest.mock import MagicMock - import neo4j import pytest -from neo4j_graphrag.experimental.components.entity_relation_extractor import ( - LLMEntityRelationExtractor, -) from neo4j_graphrag.experimental.components.kg_writer import Neo4jWriter from neo4j_graphrag.experimental.components.lexical_graph import LexicalGraphBuilder from neo4j_graphrag.experimental.components.types import ( @@ -27,7 +22,6 @@ TextChunks, ) from neo4j_graphrag.experimental.pipeline import Pipeline -from neo4j_graphrag.llm import LLMResponse @pytest.mark.asyncio From 82257801b70371581f8e5db24545a3d99a1d3112 Mon Sep 17 00:00:00 2001 From: estelle Date: Fri, 29 Nov 2024 14:54:24 +0100 Subject: [PATCH 04/17] Changelog + deprecate field --- CHANGELOG.md | 5 +++++ src/neo4j_graphrag/experimental/components/types.py | 2 +- 2 files changed, 6 insertions(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 816f8a00..18c2fe2b 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -9,6 +9,11 @@ ### Changed - Updated LLM implementations to handle message history consistently across providers. +- The `id_prefix` parameter in the `LexicalGraphConfig` is deprecated. + +### Fixed +- IDs for the Document and Chunk nodes in the lexical graph are now randomly generated and unique across multiple runs, fixing issues in the lexical graph where relationships where created between chunks that were created by different pipeline runs. + ## 1.3.0 diff --git a/src/neo4j_graphrag/experimental/components/types.py b/src/neo4j_graphrag/experimental/components/types.py index 43943571..b6a138a6 100644 --- a/src/neo4j_graphrag/experimental/components/types.py +++ b/src/neo4j_graphrag/experimental/components/types.py @@ -149,7 +149,7 @@ class ResolutionStats(DataModel): class LexicalGraphConfig(BaseModel): """Configure all labels and property names in the lexical graph.""" - id_prefix: str = "" + id_prefix: str = Field(deprecated=True) document_node_label: str = DEFAULT_DOCUMENT_NODE_LABEL chunk_node_label: str = DEFAULT_CHUNK_NODE_LABEL chunk_to_document_relationship_type: str = ( From 28625f6a04482e4355a3dda4235fc3e56bbdcf70 Mon Sep 17 00:00:00 2001 From: estelle Date: Fri, 29 Nov 2024 14:59:44 +0100 Subject: [PATCH 05/17] Fix mypy and UR --- src/neo4j_graphrag/experimental/components/types.py | 2 +- .../experimental/components/test_lexical_graph_builder.py | 5 +++-- 2 files changed, 4 insertions(+), 3 deletions(-) diff --git a/src/neo4j_graphrag/experimental/components/types.py b/src/neo4j_graphrag/experimental/components/types.py index b6a138a6..689e6b6c 100644 --- a/src/neo4j_graphrag/experimental/components/types.py +++ b/src/neo4j_graphrag/experimental/components/types.py @@ -149,7 +149,7 @@ class ResolutionStats(DataModel): class LexicalGraphConfig(BaseModel): """Configure all labels and property names in the lexical graph.""" - id_prefix: str = Field(deprecated=True) + id_prefix: str = Field(deprecated=True, default="") document_node_label: str = DEFAULT_DOCUMENT_NODE_LABEL chunk_node_label: str = DEFAULT_CHUNK_NODE_LABEL chunk_to_document_relationship_type: str = ( diff --git a/tests/unit/experimental/components/test_lexical_graph_builder.py b/tests/unit/experimental/components/test_lexical_graph_builder.py index 7c698bcd..4621c77e 100644 --- a/tests/unit/experimental/components/test_lexical_graph_builder.py +++ b/tests/unit/experimental/components/test_lexical_graph_builder.py @@ -87,7 +87,8 @@ async def test_lexical_graph_builder_run_with_document() -> None: document = nodes[0] assert document.id == doc_uid assert document.label == DEFAULT_DOCUMENT_NODE_LABEL - assert document.properties == {"path": "test_lexical_graph"} + assert document.properties["path"] == "test_lexical_graph" + assert document.properties["createdAt"] is not None chunk1 = nodes[1] assert chunk1.label == DEFAULT_CHUNK_NODE_LABEL chunk2 = nodes[2] @@ -148,7 +149,7 @@ async def test_lexical_graph_builder_run_custom_labels() -> None: document = nodes[0] assert document.id == doc_uid assert document.label == "Report" - assert document.properties == {"path": "test_lexical_graph"} + assert document.properties["path"] == "test_lexical_graph" chunk1 = nodes[1] assert chunk1.label == "Page" chunk2 = nodes[2] From 6ea967c8d308057d69e4309d5704b69d2ae0522a Mon Sep 17 00:00:00 2001 From: estelle Date: Tue, 3 Dec 2024 11:32:19 +0100 Subject: [PATCH 06/17] Do not change chunk UID after embeddings --- src/neo4j_graphrag/experimental/components/embedder.py | 5 ++++- 1 file changed, 4 insertions(+), 1 deletion(-) diff --git a/src/neo4j_graphrag/experimental/components/embedder.py b/src/neo4j_graphrag/experimental/components/embedder.py index adf9c46a..f113ecde 100644 --- a/src/neo4j_graphrag/experimental/components/embedder.py +++ b/src/neo4j_graphrag/experimental/components/embedder.py @@ -57,7 +57,10 @@ def _embed_chunk(self, text_chunk: TextChunk) -> TextChunk: metadata = text_chunk.metadata if text_chunk.metadata else {} metadata["embedding"] = embedding return TextChunk( - text=text_chunk.text, index=text_chunk.index, metadata=metadata + text=text_chunk.text, + index=text_chunk.index, + metadata=metadata, + uid=text_chunk.uid, ) @validate_call From 5b2f52f7a77bb82624f3df4ef0b371f27e0a208d Mon Sep 17 00:00:00 2001 From: estelle Date: Wed, 4 Dec 2024 09:56:03 +0100 Subject: [PATCH 07/17] Address comments --- CHANGELOG.md | 2 +- src/neo4j_graphrag/experimental/components/lexical_graph.py | 4 ++-- 2 files changed, 3 insertions(+), 3 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 18c2fe2b..a248cb53 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -12,7 +12,7 @@ - The `id_prefix` parameter in the `LexicalGraphConfig` is deprecated. ### Fixed -- IDs for the Document and Chunk nodes in the lexical graph are now randomly generated and unique across multiple runs, fixing issues in the lexical graph where relationships where created between chunks that were created by different pipeline runs. +- IDs for the Document and Chunk nodes in the lexical graph are now randomly generated and unique across multiple runs, fixing issues in the lexical graph where relationships were created between chunks that were created by different pipeline runs. ## 1.3.0 diff --git a/src/neo4j_graphrag/experimental/components/lexical_graph.py b/src/neo4j_graphrag/experimental/components/lexical_graph.py index 90135a31..bbe99b80 100644 --- a/src/neo4j_graphrag/experimental/components/lexical_graph.py +++ b/src/neo4j_graphrag/experimental/components/lexical_graph.py @@ -13,8 +13,8 @@ # See the License for the specific language governing permissions and # limitations under the License. import asyncio +import datetime import logging -from datetime import datetime from itertools import zip_longest from typing import Any, Dict, Optional @@ -112,7 +112,7 @@ def create_document_node(self, document_info: DocumentInfo) -> Neo4jNode: label=self.config.document_node_label, properties={ "path": document_info.path, - "createdAt": str(datetime.now()), + "createdAt": datetime.datetime.now(datetime.timezone.utc).isoformat(), **document_metadata, }, ) From 3fb119c1cbebb825aaa9b9067e3a75e0c45beb7b Mon Sep 17 00:00:00 2001 From: estelle Date: Wed, 11 Dec 2024 09:34:38 +0100 Subject: [PATCH 08/17] Update lock file --- poetry.lock | 1407 ++++++++++++++++++++++++--------------------------- 1 file changed, 658 insertions(+), 749 deletions(-) diff --git a/poetry.lock b/poetry.lock index 9a577432..1b22e617 100644 --- a/poetry.lock +++ b/poetry.lock @@ -2,98 +2,98 @@ [[package]] name = "aiohappyeyeballs" -version = "2.4.3" +version = "2.4.4" description = "Happy Eyeballs for asyncio" optional = true python-versions = ">=3.8" files = [ - {file = "aiohappyeyeballs-2.4.3-py3-none-any.whl", hash = "sha256:8a7a83727b2756f394ab2895ea0765a0a8c475e3c71e98d43d76f22b4b435572"}, - {file = "aiohappyeyeballs-2.4.3.tar.gz", hash = "sha256:75cf88a15106a5002a8eb1dab212525c00d1f4c0fa96e551c9fbe6f09a621586"}, + {file = "aiohappyeyeballs-2.4.4-py3-none-any.whl", hash = "sha256:a980909d50efcd44795c4afeca523296716d50cd756ddca6af8c65b996e27de8"}, + {file = "aiohappyeyeballs-2.4.4.tar.gz", hash = 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python-versions = ">=3.9.0" files = [ - {file = "transformers-4.47.0-py3-none-any.whl", hash = "sha256:a8e1bafdaae69abdda3cad638fe392e37c86d2ce0ecfcae11d60abb8f949ff4d"}, - {file = "transformers-4.47.0.tar.gz", hash = "sha256:f8ead7a5a4f6937bb507e66508e5e002dc5930f7b6122a9259c37b099d0f3b19"}, + {file = "transformers-4.47.1-py3-none-any.whl", hash = "sha256:d2f5d19bb6283cd66c893ec7e6d931d6370bbf1cc93633326ff1f41a40046c9c"}, + {file = "transformers-4.47.1.tar.gz", hash = "sha256:6c29c05a5f595e278481166539202bf8641281536df1c42357ee58a45d0a564a"}, ] [package.dependencies] @@ -5080,13 +5081,13 @@ test = ["covdefaults (>=2.3)", "coverage (>=7.2.7)", "coverage-enable-subprocess [[package]] name = "weaviate-client" -version = "4.10.1" +version = "4.10.2" description = "A python native Weaviate client" optional = true python-versions = ">=3.9" files = [ - {file = "weaviate_client-4.10.1-py3-none-any.whl", hash = "sha256:eedd693b2bbd02279109f9a37d2c33492bb460e480f4c5a4297530d4ad78469e"}, - {file 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"2.0" python-versions = "^3.9.0" -content-hash = "e7c42a84eefc50ce165d6603f7b90788e33108651ca01351a4ed33cfb29ab20d" +content-hash = "b05fbd4ce521d080d3dc2b7d2fa6a8e66cdc88b60f635b627aa7e7cd81ea65d4" diff --git a/pyproject.toml b/pyproject.toml index e65006bb..9b9c6415 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -52,6 +52,7 @@ json-repair = "^0.30.2" types-pyyaml = "^6.0.12.20240917" ollama = {version = "^0.4.4", optional = true} uuid = "^1.30" +weaviate = "^0.1.2" [tool.poetry.group.dev.dependencies] urllib3 = "<2" diff --git a/tests/e2e/conftest.py b/tests/e2e/conftest.py index 42c21cf8..a48a70ea 100644 --- a/tests/e2e/conftest.py +++ b/tests/e2e/conftest.py @@ -46,6 +46,12 @@ def driver() -> Generator[Any, Any, Any]: driver.close() +@pytest.fixture(scope="function", autouse=True) +def clear_db(driver: Driver) -> Any: + driver.execute_query("MATCH (n) DETACH DELETE n") + yield + + @pytest.fixture(scope="function") def llm() -> MagicMock: return MagicMock(spec=LLMInterface) diff --git a/tests/e2e/experimental/pipeline/config/test_pipeline_runner_e2e.py b/tests/e2e/experimental/pipeline/config/test_pipeline_runner_e2e.py index 9122a935..a0ba328a 100644 --- a/tests/e2e/experimental/pipeline/config/test_pipeline_runner_e2e.py +++ b/tests/e2e/experimental/pipeline/config/test_pipeline_runner_e2e.py @@ -9,12 +9,6 @@ from neo4j_graphrag.llm import LLMResponse -@pytest.fixture(scope="function", autouse=True) -def clear_db(driver: neo4j.Driver) -> Any: - driver.execute_query("MATCH (n) DETACH DELETE n") - yield - - @pytest.mark.asyncio async def test_pipeline_from_json_config(harry_potter_text: str, driver: Mock) -> None: os.environ["NEO4J_URI"] = "neo4j://localhost:7687" diff --git a/tests/e2e/test_simplekgpipeline_e2e.py b/tests/e2e/test_simplekgpipeline_e2e.py index 4d3059c7..6b5ec04f 100644 --- a/tests/e2e/test_simplekgpipeline_e2e.py +++ b/tests/e2e/test_simplekgpipeline_e2e.py @@ -108,5 +108,148 @@ async def test_pipeline_builder_happy_path( ) # Run the knowledge graph building process with text input - text_input = "John Doe lives in New York City." - await kg_builder_text.run_async(text=text_input) + await kg_builder_text.run_async(text=harry_potter_text) + + + +@pytest.mark.asyncio +@pytest.mark.usefixtures("setup_neo4j_for_kg_construction") +async def test_pipeline_builder_two_documents( + harry_potter_text_part1: str, + harry_potter_text_part2: str, + llm: MagicMock, + embedder: MagicMock, + driver: neo4j.Driver, +) -> None: + """When everything works as expected, extracted entities, relations and text + chunks must be in the DB + """ + driver.execute_query("MATCH (n) DETACH DELETE n") + embedder.embed_query.return_value = [1, 2, 3] + llm.ainvoke.side_effect = [ + # first document + # first chunk + LLMResponse( + content="""{ + "nodes": [ + { + "id": "0", + "label": "Person", + "properties": { + "name": "Harry Potter" + } + }, + ], + "relationships": [] + }""" + ), + # second chunk + LLMResponse(content='{"nodes": [], "relationships": []}'), + # second document + # first chunk + LLMResponse( + content="""{ + "nodes": [ + { + "id": "0", + "label": "Person", + "properties": { + "name": "Hermione Granger" + } + }, + ], + "relationships": [] + }""" + ), + # second chunk + LLMResponse(content='{"nodes": [], "relationships": []}'), + ] + + # Create an instance of the SimpleKGPipeline + kg_builder_text = SimpleKGPipeline( + llm=llm, + driver=driver, + embedder=embedder, + from_pdf=False, + ) + + # Run the knowledge graph building process with text input + await kg_builder_text.run_async(text=harry_potter_text_part1) + await kg_builder_text.run_async(text=harry_potter_text_part2) + + # check graph content + records, _, _ = driver.execute_query("MATCH (n) RETURN n") + print(records) + + assert False + + +@pytest.mark.asyncio +@pytest.mark.usefixtures("setup_neo4j_for_kg_construction") +async def test_pipeline_builder_same_document_two_runs( + harry_potter_text_part1: str, + llm: MagicMock, + embedder: MagicMock, + driver: neo4j.Driver, +) -> None: + """When everything works as expected, extracted entities, relations and text + chunks must be in the DB + """ + driver.execute_query("MATCH (n) DETACH DELETE n") + embedder.embed_query.return_value = [1, 2, 3] + llm.ainvoke.side_effect = [ + # first run + # first chunk + LLMResponse( + content="""{ + "nodes": [ + { + "id": "0", + "label": "Person", + "properties": { + "name": "Harry Potter" + } + }, + ], + "relationships": [] + }""" + ), + # second chunk + LLMResponse(content='{"nodes": [], "relationships": []}'), + # second run + # first chunk + LLMResponse( + content="""{ + "nodes": [ + { + "id": "0", + "label": "Person", + "properties": { + "name": "Harry Potter" + } + }, + ], + "relationships": [] + }""" + ), + # second chunk + LLMResponse(content='{"nodes": [], "relationships": []}'), + ] + + # Create an instance of the SimpleKGPipeline + kg_builder_text = SimpleKGPipeline( + llm=llm, + driver=driver, + embedder=embedder, + from_pdf=False, + ) + + # Run the knowledge graph building process with text input + await kg_builder_text.run_async(text=harry_potter_text_part1) + await kg_builder_text.run_async(text=harry_potter_text_part1) + + # check graph content + records, _, _ = driver.execute_query("MATCH (n) RETURN n") + print(records) + + assert False From 4f1f7fd5eb03ff1c9f7bd583585447007294f88d Mon Sep 17 00:00:00 2001 From: estelle Date: Mon, 30 Dec 2024 10:17:56 +0100 Subject: [PATCH 13/17] Fix CI --- poetry.lock | 742 +++++++++--------- .../components/entity_relation_extractor.py | 1 - .../config/test_pipeline_runner_e2e.py | 16 +- 3 files changed, 390 insertions(+), 369 deletions(-) diff --git a/poetry.lock b/poetry.lock index ddbea133..7221efad 100644 --- a/poetry.lock +++ b/poetry.lock @@ -385,127 +385,114 @@ files = [ [[package]] name = "charset-normalizer" -version = "3.4.0" +version = "3.4.1" description = "The Real First Universal Charset Detector. 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index a0ba328a..c1e8df7d 100644 --- a/tests/e2e/experimental/pipeline/config/test_pipeline_runner_e2e.py +++ b/tests/e2e/experimental/pipeline/config/test_pipeline_runner_e2e.py @@ -1,8 +1,20 @@ +# Copyright (c) "Neo4j" +# Neo4j Sweden AB [https://neo4j.com] +# # +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at +# # +# https://www.apache.org/licenses/LICENSE-2.0 +# # +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import os -from typing import Any from unittest.mock import AsyncMock, Mock, patch -import neo4j import pytest from neo4j_graphrag.experimental.pipeline.config.runner import PipelineRunner from neo4j_graphrag.experimental.pipeline.pipeline import PipelineResult From 0b06bdb0b478a5b0a00230e376db2f035b78ea11 Mon Sep 17 00:00:00 2001 From: estelle Date: Mon, 30 Dec 2024 10:22:21 +0100 Subject: [PATCH 14/17] Ruff (why on so many files?) --- src/neo4j_graphrag/llm/anthropic_llm.py | 2 +- src/neo4j_graphrag/llm/cohere_llm.py | 1 + src/neo4j_graphrag/llm/mistralai_llm.py | 3 ++- src/neo4j_graphrag/llm/ollama_llm.py | 5 +++-- src/neo4j_graphrag/llm/openai_llm.py | 2 +- src/neo4j_graphrag/llm/types.py | 3 ++- src/neo4j_graphrag/llm/vertexai_llm.py | 4 ++-- tests/e2e/test_simplekgpipeline_e2e.py | 1 - tests/unit/llm/test_anthropic_llm.py | 1 - 9 files changed, 12 insertions(+), 10 deletions(-) diff --git a/src/neo4j_graphrag/llm/anthropic_llm.py b/src/neo4j_graphrag/llm/anthropic_llm.py index 04d6555e..614c5b9c 100644 --- a/src/neo4j_graphrag/llm/anthropic_llm.py +++ b/src/neo4j_graphrag/llm/anthropic_llm.py @@ -13,7 +13,7 @@ # limitations under the License. from __future__ import annotations -from typing import Any, Iterable, Optional, TYPE_CHECKING, cast +from typing import TYPE_CHECKING, Any, Iterable, Optional, cast from pydantic import ValidationError diff --git a/src/neo4j_graphrag/llm/cohere_llm.py b/src/neo4j_graphrag/llm/cohere_llm.py index 63e54aaa..024d578a 100644 --- a/src/neo4j_graphrag/llm/cohere_llm.py +++ b/src/neo4j_graphrag/llm/cohere_llm.py @@ -15,6 +15,7 @@ from __future__ import annotations from typing import TYPE_CHECKING, Any, Iterable, Optional, cast + from pydantic import ValidationError from neo4j_graphrag.exceptions import LLMGenerationError diff --git a/src/neo4j_graphrag/llm/mistralai_llm.py b/src/neo4j_graphrag/llm/mistralai_llm.py index a3c84759..761b9a62 100644 --- a/src/neo4j_graphrag/llm/mistralai_llm.py +++ b/src/neo4j_graphrag/llm/mistralai_llm.py @@ -16,6 +16,7 @@ import os from typing import Any, Iterable, Optional, cast + from pydantic import ValidationError from neo4j_graphrag.exceptions import LLMGenerationError @@ -30,7 +31,7 @@ ) try: - from mistralai import Mistral, Messages + from mistralai import Messages, Mistral from mistralai.models.sdkerror import SDKError except ImportError: Mistral = None # type: ignore diff --git a/src/neo4j_graphrag/llm/ollama_llm.py b/src/neo4j_graphrag/llm/ollama_llm.py index a36d34f9..08dfa655 100644 --- a/src/neo4j_graphrag/llm/ollama_llm.py +++ b/src/neo4j_graphrag/llm/ollama_llm.py @@ -13,7 +13,8 @@ # See the License for the specific language governing permissions and # limitations under the License. from __future__ import annotations -from typing import Any, Iterable, Optional, Sequence, TYPE_CHECKING, cast + +from typing import TYPE_CHECKING, Any, Iterable, Optional, Sequence, cast from pydantic import ValidationError @@ -24,9 +25,9 @@ BaseMessage, LLMMessage, LLMResponse, + MessageList, SystemMessage, UserMessage, - MessageList, ) if TYPE_CHECKING: diff --git a/src/neo4j_graphrag/llm/openai_llm.py b/src/neo4j_graphrag/llm/openai_llm.py index b3d99411..353dd19d 100644 --- a/src/neo4j_graphrag/llm/openai_llm.py +++ b/src/neo4j_graphrag/llm/openai_llm.py @@ -25,9 +25,9 @@ BaseMessage, LLMMessage, LLMResponse, + MessageList, SystemMessage, UserMessage, - MessageList, ) if TYPE_CHECKING: diff --git a/src/neo4j_graphrag/llm/types.py b/src/neo4j_graphrag/llm/types.py index 77e89aef..2d293e93 100644 --- a/src/neo4j_graphrag/llm/types.py +++ b/src/neo4j_graphrag/llm/types.py @@ -1,6 +1,7 @@ -from pydantic import BaseModel from typing import Literal, TypedDict +from pydantic import BaseModel + class LLMResponse(BaseModel): content: str diff --git a/src/neo4j_graphrag/llm/vertexai_llm.py b/src/neo4j_graphrag/llm/vertexai_llm.py index 48acfc9f..f2cbe26a 100644 --- a/src/neo4j_graphrag/llm/vertexai_llm.py +++ b/src/neo4j_graphrag/llm/vertexai_llm.py @@ -23,10 +23,10 @@ try: from vertexai.generative_models import ( + Content, GenerativeModel, - ResponseValidationError, Part, - Content, + ResponseValidationError, ) except ImportError: GenerativeModel = None diff --git a/tests/e2e/test_simplekgpipeline_e2e.py b/tests/e2e/test_simplekgpipeline_e2e.py index 6b5ec04f..fad595b0 100644 --- a/tests/e2e/test_simplekgpipeline_e2e.py +++ b/tests/e2e/test_simplekgpipeline_e2e.py @@ -111,7 +111,6 @@ async def test_pipeline_builder_happy_path( await kg_builder_text.run_async(text=harry_potter_text) - @pytest.mark.asyncio @pytest.mark.usefixtures("setup_neo4j_for_kg_construction") async def test_pipeline_builder_two_documents( diff --git a/tests/unit/llm/test_anthropic_llm.py b/tests/unit/llm/test_anthropic_llm.py index fc8d2756..b1d583f6 100644 --- a/tests/unit/llm/test_anthropic_llm.py +++ b/tests/unit/llm/test_anthropic_llm.py @@ -18,7 +18,6 @@ from unittest.mock import AsyncMock, MagicMock, Mock, patch import anthropic - import pytest from neo4j_graphrag.exceptions import LLMGenerationError from neo4j_graphrag.llm.anthropic_llm import AnthropicLLM From 569131217e5e481ff2e6576a2be9b8d8403eff52 Mon Sep 17 00:00:00 2001 From: estelle Date: Mon, 30 Dec 2024 15:29:44 +0100 Subject: [PATCH 15/17] Fix doc --- docs/source/user_guide_kg_builder.rst | 3 +-- src/neo4j_graphrag/experimental/components/types.py | 2 +- 2 files changed, 2 insertions(+), 3 deletions(-) diff --git a/docs/source/user_guide_kg_builder.rst b/docs/source/user_guide_kg_builder.rst index ac0534ee..c4559072 100644 --- a/docs/source/user_guide_kg_builder.rst +++ b/docs/source/user_guide_kg_builder.rst @@ -672,7 +672,7 @@ Example usage: from neo4j_graphrag.experimental.pipeline.components.lexical_graph_builder import LexicalGraphBuilder from neo4j_graphrag.experimental.pipeline.components.types import LexicalGraphConfig - lexical_graph_builder = LexicalGraphBuilder(config=LexicalGraphConfig(id_prefix="example")) + lexical_graph_builder = LexicalGraphBuilder(config=LexicalGraphConfig()) graph = await lexical_graph_builder.run( text_chunks=TextChunks(chunks=[ TextChunk(text="some text", index=0), @@ -713,7 +713,6 @@ Optionally, the document and chunk node labels can be configured using a `Lexica # optionally, define a LexicalGraphConfig object # shown below with the default values config = LexicalGraphConfig( - id_prefix="", # used to prefix the chunk and document IDs chunk_node_label="Chunk", document_node_label="Document", chunk_to_document_relationship_type="PART_OF_DOCUMENT", diff --git a/src/neo4j_graphrag/experimental/components/types.py b/src/neo4j_graphrag/experimental/components/types.py index b6a138a6..689e6b6c 100644 --- a/src/neo4j_graphrag/experimental/components/types.py +++ b/src/neo4j_graphrag/experimental/components/types.py @@ -149,7 +149,7 @@ class ResolutionStats(DataModel): class LexicalGraphConfig(BaseModel): """Configure all labels and property names in the lexical graph.""" - id_prefix: str = Field(deprecated=True) + id_prefix: str = Field(deprecated=True, default="") document_node_label: str = DEFAULT_DOCUMENT_NODE_LABEL chunk_node_label: str = DEFAULT_CHUNK_NODE_LABEL chunk_to_document_relationship_type: str = ( From 6537e794df879d278604b184420976c7ff30d90a Mon Sep 17 00:00:00 2001 From: estelle Date: Mon, 30 Dec 2024 15:52:08 +0100 Subject: [PATCH 16/17] Undo change to conftest.py --- tests/e2e/conftest.py | 6 ------ .../pipeline/config/test_pipeline_runner_e2e.py | 8 ++++++++ tests/e2e/test_simplekgpipeline_e2e.py | 8 ++++++++ 3 files changed, 16 insertions(+), 6 deletions(-) diff --git a/tests/e2e/conftest.py b/tests/e2e/conftest.py index a48a70ea..42c21cf8 100644 --- a/tests/e2e/conftest.py +++ b/tests/e2e/conftest.py @@ -46,12 +46,6 @@ def driver() -> Generator[Any, Any, Any]: driver.close() -@pytest.fixture(scope="function", autouse=True) -def clear_db(driver: Driver) -> Any: - driver.execute_query("MATCH (n) DETACH DELETE n") - yield - - @pytest.fixture(scope="function") def llm() -> MagicMock: return MagicMock(spec=LLMInterface) diff --git a/tests/e2e/experimental/pipeline/config/test_pipeline_runner_e2e.py b/tests/e2e/experimental/pipeline/config/test_pipeline_runner_e2e.py index c1e8df7d..77f8cb8f 100644 --- a/tests/e2e/experimental/pipeline/config/test_pipeline_runner_e2e.py +++ b/tests/e2e/experimental/pipeline/config/test_pipeline_runner_e2e.py @@ -13,14 +13,22 @@ # See the License for the specific language governing permissions and # limitations under the License. import os +from typing import Any from unittest.mock import AsyncMock, Mock, patch import pytest +from neo4j import Driver from neo4j_graphrag.experimental.pipeline.config.runner import PipelineRunner from neo4j_graphrag.experimental.pipeline.pipeline import PipelineResult from neo4j_graphrag.llm import LLMResponse +@pytest.fixture(scope="function", autouse=True) +def clear_db(driver: Driver) -> Any: + driver.execute_query("MATCH (n) DETACH DELETE n") + yield + + @pytest.mark.asyncio async def test_pipeline_from_json_config(harry_potter_text: str, driver: Mock) -> None: os.environ["NEO4J_URI"] = "neo4j://localhost:7687" diff --git a/tests/e2e/test_simplekgpipeline_e2e.py b/tests/e2e/test_simplekgpipeline_e2e.py index fad595b0..25f61721 100644 --- a/tests/e2e/test_simplekgpipeline_e2e.py +++ b/tests/e2e/test_simplekgpipeline_e2e.py @@ -14,15 +14,23 @@ # limitations under the License. from __future__ import annotations +from typing import Any from unittest.mock import MagicMock import neo4j import pytest +from neo4j import Driver from neo4j_graphrag.experimental.components.types import LexicalGraphConfig from neo4j_graphrag.experimental.pipeline.kg_builder import SimpleKGPipeline from neo4j_graphrag.llm import LLMResponse +@pytest.fixture(scope="function", autouse=True) +def clear_db(driver: Driver) -> Any: + driver.execute_query("MATCH (n) DETACH DELETE n") + yield + + @pytest.mark.asyncio @pytest.mark.usefixtures("setup_neo4j_for_kg_construction") async def test_pipeline_builder_happy_path( From 164b875b7c4b7725b6e093b3d5b0f6782b9a100b Mon Sep 17 00:00:00 2001 From: estelle Date: Thu, 2 Jan 2025 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b/tests/e2e/conftest.py index 42c21cf8..9932f12e 100644 --- a/tests/e2e/conftest.py +++ b/tests/e2e/conftest.py @@ -212,8 +212,10 @@ def setup_neo4j_for_kg_construction(driver: Driver) -> None: @pytest.fixture(scope="module") -@pytest.mark.usefixtures("setup_neo4j_for_kg_construction") -def setup_neo4j_for_kg_construction_with_chunks(driver: Driver) -> None: +def setup_neo4j_for_kg_construction_with_chunks( + driver: Driver, + setup_neo4j_for_kg_construction: Any, +) -> None: driver.execute_query("MATCH (n) DETACH DELETE n") driver.execute_query('CREATE (:Chunk {id: "0", index: 0, text: "some text"})') driver.execute_query( diff --git a/tests/e2e/test_simplekgpipeline_e2e.py b/tests/e2e/test_simplekgpipeline_e2e.py index 25f61721..65eb9e59 100644 --- a/tests/e2e/test_simplekgpipeline_e2e.py +++ b/tests/e2e/test_simplekgpipeline_e2e.py @@ -20,6 +20,10 @@ import neo4j import pytest from neo4j import Driver + +from neo4j_graphrag.experimental.components.text_splitters.fixed_size_splitter import ( + FixedSizeSplitter, +) from neo4j_graphrag.experimental.components.types import LexicalGraphConfig from neo4j_graphrag.experimental.pipeline.kg_builder import SimpleKGPipeline from neo4j_graphrag.llm import LLMResponse @@ -178,6 +182,8 @@ async def test_pipeline_builder_two_documents( driver=driver, embedder=embedder, from_pdf=False, + # in order to have 2 chunks: + text_splitter=FixedSizeSplitter(chunk_size=400, chunk_overlap=5), ) # Run the knowledge graph building process with text input @@ -185,10 +191,17 @@ async def test_pipeline_builder_two_documents( await kg_builder_text.run_async(text=harry_potter_text_part2) # check graph content - records, _, _ = driver.execute_query("MATCH (n) RETURN n") - print(records) + # check lexical graph content + records, _, _ = driver.execute_query( + "MATCH (start:Chunk)-[rel:NEXT_CHUNK]->(end:Chunk) RETURN start, rel, end" + ) + assert len(records) == 2 # one for each run - assert False + # check entity -> chunk relationships + records, _, _ = driver.execute_query( + "MATCH (chunk:Chunk)<-[rel:FROM_CHUNK]-(entity:__Entity__) RETURN chunk, rel, entity" + ) + assert len(records) == 2 # two entities according to mocked LLMResponse @pytest.mark.asyncio @@ -249,14 +262,22 @@ async def test_pipeline_builder_same_document_two_runs( driver=driver, embedder=embedder, from_pdf=False, + # in order to have 2 chunks: + text_splitter=FixedSizeSplitter(chunk_size=400, chunk_overlap=5), ) # Run the knowledge graph building process with text input await kg_builder_text.run_async(text=harry_potter_text_part1) await kg_builder_text.run_async(text=harry_potter_text_part1) - # check graph content - records, _, _ = driver.execute_query("MATCH (n) RETURN n") - print(records) + # check lexical graph content + records, _, _ = driver.execute_query( + "MATCH (start:Chunk)-[rel:NEXT_CHUNK]->(end:Chunk) RETURN start, rel, end" + ) + assert len(records) == 2 # one for each run - assert False + # check entity -> chunk relationships + records, _, _ = driver.execute_query( + "MATCH (chunk:Chunk)<-[rel:FROM_CHUNK]-(entity:__Entity__) RETURN chunk, rel, entity" + ) + assert len(records) == 2 # two entities according to mocked LLMResponse