haiku.rag 0.10.2__py3-none-any.whl → 0.19.3__py3-none-any.whl

haiku/rag/store/repositories/chunk.py

@@ -1,424 +0,0 @@
-import asyncio
-import inspect
-import json
-import logging
-from uuid import uuid4
-
-from docling_core.types.doc.document import DoclingDocument
-from lancedb.rerankers import RRFReranker
-
-from haiku.rag.chunker import chunker
-from haiku.rag.config import Config
-from haiku.rag.embeddings import get_embedder
-from haiku.rag.store.engine import DocumentRecord, Store
-from haiku.rag.store.models.chunk import Chunk
-from haiku.rag.utils import load_callable, text_to_docling_document
-
-logger = logging.getLogger(__name__)
-
-
-class ChunkRepository:
-    """Repository for Chunk operations."""
-
-    def __init__(self, store: Store) -> None:
-        self.store = store
-        self.embedder = get_embedder()
-        self._optimize_lock = asyncio.Lock()
-
-    def _ensure_fts_index(self) -> None:
-        """Ensure FTS index exists on the content column."""
-        try:
-            self.store.chunks_table.create_fts_index(
-                "content", replace=True, with_position=True, remove_stop_words=False
-            )
-        except Exception as e:
-            # Log the error but don't fail - FTS might already exist
-            logger.debug(f"FTS index creation skipped: {e}")
-
-    async def _optimize(self) -> None:
-        """Optimize the chunks table to refresh indexes."""
-        # Skip optimization for LanceDB Cloud as it handles this automatically
-        if Config.LANCEDB_URI and Config.LANCEDB_URI.startswith("db://"):
-            return
-
-        async with self._optimize_lock:
-            try:
-                self.store.chunks_table.optimize()
-            except (RuntimeError, OSError) as e:
-                # Handle "too many open files" and other resource errors gracefully
-                logger.debug(
-                    f"Table optimization skipped due to resource constraints: {e}"
-                )
-
-    async def create(self, entity: Chunk) -> Chunk:
-        """Create a chunk in the database."""
-        assert entity.document_id, "Chunk must have a document_id to be created"
-
-        chunk_id = str(uuid4())
-
-        # Generate embedding if not provided
-        if entity.embedding is not None:
-            embedding = entity.embedding
-        else:
-            embedding = await self.embedder.embed(entity.content)
-        order_val = int(entity.order)
-
-        chunk_record = self.store.ChunkRecord(
-            id=chunk_id,
-            document_id=entity.document_id,
-            content=entity.content,
-            metadata=json.dumps(
-                {k: v for k, v in entity.metadata.items() if k != "order"}
-            ),
-            order=order_val,
-            vector=embedding,
-        )
-
-        self.store.chunks_table.add([chunk_record])
-
-        entity.id = chunk_id
-
-        # Try to optimize if not currently locked (non-blocking)
-        if not self._optimize_lock.locked():
-            asyncio.create_task(self._optimize())
-
-        return entity
-
-    async def get_by_id(self, entity_id: str) -> Chunk | None:
-        """Get a chunk by its ID."""
-        results = list(
-            self.store.chunks_table.search()
-            .where(f"id = '{entity_id}'")
-            .limit(1)
-            .to_pydantic(self.store.ChunkRecord)
-        )
-
-        if not results:
-            return None
-
-        chunk_record = results[0]
-        md = json.loads(chunk_record.metadata)
-        return Chunk(
-            id=chunk_record.id,
-            document_id=chunk_record.document_id,
-            content=chunk_record.content,
-            metadata=md,
-            order=chunk_record.order,
-        )
-
-    async def update(self, entity: Chunk) -> Chunk:
-        """Update an existing chunk."""
-        assert entity.id, "Chunk ID is required for update"
-
-        embedding = await self.embedder.embed(entity.content)
-        order_val = int(entity.order)
-
-        self.store.chunks_table.update(
-            where=f"id = '{entity.id}'",
-            values={
-                "document_id": entity.document_id,
-                "content": entity.content,
-                "metadata": json.dumps(
-                    {k: v for k, v in entity.metadata.items() if k != "order"}
-                ),
-                "order": order_val,
-                "vector": embedding,
-            },
-        )
-        # Try to optimize if not currently locked (non-blocking)
-        if not self._optimize_lock.locked():
-            asyncio.create_task(self._optimize())
-
-        return entity
-
-    async def delete(self, entity_id: str) -> bool:
-        """Delete a chunk by its ID."""
-        chunk = await self.get_by_id(entity_id)
-        if chunk is None:
-            return False
-
-        self.store.chunks_table.delete(f"id = '{entity_id}'")
-        return True
-
-    async def list_all(
-        self, limit: int | None = None, offset: int | None = None
-    ) -> list[Chunk]:
-        """List all chunks with optional pagination."""
-        query = self.store.chunks_table.search()
-
-        if offset is not None:
-            query = query.offset(offset)
-        if limit is not None:
-            query = query.limit(limit)
-
-        results = list(query.to_pydantic(self.store.ChunkRecord))
-
-        chunks: list[Chunk] = []
-        for rec in results:
-            md = json.loads(rec.metadata)
-            chunks.append(
-                Chunk(
-                    id=rec.id,
-                    document_id=rec.document_id,
-                    content=rec.content,
-                    metadata=md,
-                    order=rec.order,
-                )
-            )
-        return chunks
-
-    async def create_chunks_for_document(
-        self, document_id: str, document: DoclingDocument
-    ) -> list[Chunk]:
-        """Create chunks and embeddings for a document from DoclingDocument."""
-        # Optionally preprocess markdown before chunking
-        processed_document = document
-        preprocessor_path = Config.MARKDOWN_PREPROCESSOR
-        if preprocessor_path:
-            try:
-                pre_fn = load_callable(preprocessor_path)
-                markdown = document.export_to_markdown()
-                result = pre_fn(markdown)
-                if inspect.isawaitable(result):
-                    result = await result  # type: ignore[assignment]
-                processed_markdown = result
-                if not isinstance(processed_markdown, str):
-                    raise ValueError("Preprocessor must return a markdown string")
-                processed_document = text_to_docling_document(
-                    processed_markdown, name="content.md"
-                )
-            except Exception as e:
-                logger.error(
-                    f"Failed to apply MARKDOWN_PREPROCESSOR '{preprocessor_path}': {e}. Proceeding without preprocessing."
-                )
-                raise e
-
-        chunk_texts = await chunker.chunk(processed_document)
-
-        embeddings = await self.embedder.embed(chunk_texts)
-
-        # Prepare all chunk records for batch insertion
-        chunk_records = []
-        created_chunks = []
-
-        for order, (chunk_text, embedding) in enumerate(zip(chunk_texts, embeddings)):
-            chunk_id = str(uuid4())
-
-            chunk_record = self.store.ChunkRecord(
-                id=chunk_id,
-                document_id=document_id,
-                content=chunk_text,
-                metadata=json.dumps({}),
-                order=order,
-                vector=embedding,
-            )
-            chunk_records.append(chunk_record)
-
-            chunk = Chunk(
-                id=chunk_id,
-                document_id=document_id,
-                content=chunk_text,
-                metadata={},
-                order=order,
-            )
-            created_chunks.append(chunk)
-
-        # Batch insert all chunks at once
-        if chunk_records:
-            self.store.chunks_table.add(chunk_records)
-
-        # Force optimization once at the end for bulk operations
-        await self._optimize()
-        return created_chunks
-
-    async def delete_all(self) -> None:
-        """Delete all chunks from the database."""
-        # Drop and recreate table to clear all data
-        self.store.db.drop_table("chunks")
-        self.store.chunks_table = self.store.db.create_table(
-            "chunks", schema=self.store.ChunkRecord
-        )
-        # Create FTS index on the new table with phrase query support
-        self.store.chunks_table.create_fts_index(
-            "content", replace=True, with_position=True, remove_stop_words=False
-        )
-
-    async def delete_by_document_id(self, document_id: str) -> bool:
-        """Delete all chunks for a document."""
-        chunks = await self.get_by_document_id(document_id)
-
-        if not chunks:
-            return False
-
-        self.store.chunks_table.delete(f"document_id = '{document_id}'")
-        return True
-
-    async def search(
-        self, query: str, limit: int = 5, search_type: str = "hybrid"
-    ) -> list[tuple[Chunk, float]]:
-        """Search for relevant chunks using the specified search method.
-
-        Args:
-            query: The search query string.
-            limit: Maximum number of results to return.
-            search_type: Type of search - "vector", "fts", or "hybrid" (default).
-
-        Returns:
-            List of (chunk, score) tuples ordered by relevance.
-        """
-        if not query.strip():
-            return []
-
-        if search_type == "vector":
-            query_embedding = await self.embedder.embed(query)
-
-            results = self.store.chunks_table.search(
-                query_embedding, query_type="vector", vector_column_name="vector"
-            ).limit(limit)
-
-            return await self._process_search_results(results)
-
-        elif search_type == "fts":
-            results = self.store.chunks_table.search(query, query_type="fts").limit(
-                limit
-            )
-            return await self._process_search_results(results)
-
-        else:  # hybrid (default)
-            query_embedding = await self.embedder.embed(query)
-
-            # Create RRF reranker
-            reranker = RRFReranker()
-
-            # Perform native hybrid search with RRF reranking
-            results = (
-                self.store.chunks_table.search(query_type="hybrid")
-                .vector(query_embedding)
-                .text(query)
-                .rerank(reranker)
-                .limit(limit)
-            )
-            return await self._process_search_results(results)
-
-    async def get_by_document_id(self, document_id: str) -> list[Chunk]:
-        """Get all chunks for a specific document."""
-        results = list(
-            self.store.chunks_table.search()
-            .where(f"document_id = '{document_id}'")
-            .to_pydantic(self.store.ChunkRecord)
-        )
-
-        # Get document info
-        doc_results = list(
-            self.store.documents_table.search()
-            .where(f"id = '{document_id}'")
-            .limit(1)
-            .to_pydantic(DocumentRecord)
-        )
-
-        doc_uri = doc_results[0].uri if doc_results else None
-        doc_title = doc_results[0].title if doc_results else None
-        doc_meta = doc_results[0].metadata if doc_results else "{}"
-
-        chunks: list[Chunk] = []
-        for rec in results:
-            md = json.loads(rec.metadata)
-            chunks.append(
-                Chunk(
-                    id=rec.id,
-                    document_id=rec.document_id,
-                    content=rec.content,
-                    metadata=md,
-                    order=rec.order,
-                    document_uri=doc_uri,
-                    document_title=doc_title,
-                    document_meta=json.loads(doc_meta),
-                )
-            )
-
-        chunks.sort(key=lambda c: c.order)
-        return chunks
-
-    async def get_adjacent_chunks(self, chunk: Chunk, num_adjacent: int) -> list[Chunk]:
-        """Get adjacent chunks before and after the given chunk within the same document."""
-        assert chunk.document_id, "Document id is required for adjacent chunk finding"
-
-        chunk_order = chunk.order
-
-        # Fetch chunks for the same document and filter by order proximity
-        all_chunks = await self.get_by_document_id(chunk.document_id)
-
-        adjacent_chunks: list[Chunk] = []
-        for c in all_chunks:
-            c_order = c.order
-            if c.id != chunk.id and abs(c_order - chunk_order) <= num_adjacent:
-                adjacent_chunks.append(c)
-
-        return adjacent_chunks
-
-    async def _process_search_results(self, query_result) -> list[tuple[Chunk, float]]:
-        """Process search results into chunks with document info and scores."""
-        chunks_with_scores = []
-
-        # Get both arrow and pydantic results to access scores
-        arrow_result = query_result.to_arrow()
-        pydantic_results = list(query_result.to_pydantic(self.store.ChunkRecord))
-
-        # Extract scores from arrow result based on search type
-        scores = []
-        column_names = arrow_result.column_names
-
-        if "_distance" in column_names:
-            # Vector search - distance (lower is better, convert to similarity)
-            distances = arrow_result.column("_distance").to_pylist()
-            scores = [max(0.0, 1.0 / (1.0 + dist)) for dist in distances]
-        elif "_relevance_score" in column_names:
-            # Hybrid search - relevance score (higher is better)
-            scores = arrow_result.column("_relevance_score").to_pylist()
-        elif "_score" in column_names:
-            # FTS search - score (higher is better)
-            scores = arrow_result.column("_score").to_pylist()
-        else:
-            raise ValueError("Unknown search result format, cannot extract scores")
-
-        # Collect all unique document IDs for batch lookup
-        document_ids = list(set(chunk.document_id for chunk in pydantic_results))
-
-        # Batch fetch all documents at once
-        documents_map = {}
-        if document_ids:
-            # Create a WHERE clause for all document IDs
-            where_clause = " OR ".join(f"id = '{doc_id}'" for doc_id in document_ids)
-            doc_results = list(
-                self.store.documents_table.search()
-                .where(where_clause)
-                .to_pydantic(DocumentRecord)
-            )
-            documents_map = {doc.id: doc for doc in doc_results}
-
-        for i, chunk_record in enumerate(pydantic_results):
-            # Get document info from pre-fetched map
-            doc = documents_map.get(chunk_record.document_id)
-            doc_uri = doc.uri if doc else None
-            doc_title = doc.title if doc else None
-            doc_meta = doc.metadata if doc else "{}"
-
-            md = json.loads(chunk_record.metadata)
-
-            chunk = Chunk(
-                id=chunk_record.id,
-                document_id=chunk_record.document_id,
-                content=chunk_record.content,
-                metadata=md,
-                order=chunk_record.order,
-                document_uri=doc_uri,
-                document_title=doc_title,
-                document_meta=json.loads(doc_meta),
-            )
-
-            # Get score from arrow result
-            score = scores[i] if i < len(scores) else 1.0
-
-            chunks_with_scores.append((chunk, score))
-
-        return chunks_with_scores

haiku/rag/store/repositories/document.py

@@ -1,237 +0,0 @@
-import json
-from datetime import datetime
-from typing import TYPE_CHECKING
-from uuid import uuid4
-
-from docling_core.types.doc.document import DoclingDocument
-
-from haiku.rag.store.engine import DocumentRecord, Store
-from haiku.rag.store.models.document import Document
-
-if TYPE_CHECKING:
-    from haiku.rag.store.models.chunk import Chunk
-
-
-class DocumentRepository:
-    """Repository for Document operations."""
-
-    def __init__(self, store: Store) -> None:
-        self.store = store
-        self._chunk_repository = None
-
-    @property
-    def chunk_repository(self):
-        """Lazy-load ChunkRepository when needed."""
-        if self._chunk_repository is None:
-            from haiku.rag.store.repositories.chunk import ChunkRepository
-
-            self._chunk_repository = ChunkRepository(self.store)
-        return self._chunk_repository
-
-    def _record_to_document(self, record: DocumentRecord) -> Document:
-        """Convert a DocumentRecord to a Document model."""
-        return Document(
-            id=record.id,
-            content=record.content,
-            uri=record.uri,
-            title=record.title,
-            metadata=json.loads(record.metadata),
-            created_at=datetime.fromisoformat(record.created_at)
-            if record.created_at
-            else datetime.now(),
-            updated_at=datetime.fromisoformat(record.updated_at)
-            if record.updated_at
-            else datetime.now(),
-        )
-
-    async def create(self, entity: Document) -> Document:
-        """Create a document in the database."""
-        # Generate new UUID
-        doc_id = str(uuid4())
-
-        # Create timestamp
-        now = datetime.now().isoformat()
-
-        # Create document record
-        doc_record = DocumentRecord(
-            id=doc_id,
-            content=entity.content,
-            uri=entity.uri,
-            title=entity.title,
-            metadata=json.dumps(entity.metadata),
-            created_at=now,
-            updated_at=now,
-        )
-
-        # Add to table
-        self.store.documents_table.add([doc_record])
-
-        entity.id = doc_id
-        entity.created_at = datetime.fromisoformat(now)
-        entity.updated_at = datetime.fromisoformat(now)
-        return entity
-
-    async def get_by_id(self, entity_id: str) -> Document | None:
-        """Get a document by its ID."""
-        results = list(
-            self.store.documents_table.search()
-            .where(f"id = '{entity_id}'")
-            .limit(1)
-            .to_pydantic(DocumentRecord)
-        )
-
-        if not results:
-            return None
-
-        return self._record_to_document(results[0])
-
-    async def update(self, entity: Document) -> Document:
-        """Update an existing document."""
-        assert entity.id, "Document ID is required for update"
-
-        # Update timestamp
-        now = datetime.now().isoformat()
-        entity.updated_at = datetime.fromisoformat(now)
-
-        # Update the record
-        self.store.documents_table.update(
-            where=f"id = '{entity.id}'",
-            values={
-                "content": entity.content,
-                "uri": entity.uri,
-                "title": entity.title,
-                "metadata": json.dumps(entity.metadata),
-                "updated_at": now,
-            },
-        )
-
-        return entity
-
-    async def delete(self, entity_id: str) -> bool:
-        """Delete a document by its ID."""
-        # Check if document exists
-        doc = await self.get_by_id(entity_id)
-        if doc is None:
-            return False
-
-        # Delete associated chunks first
-        await self.chunk_repository.delete_by_document_id(entity_id)
-
-        # Delete the document
-        self.store.documents_table.delete(f"id = '{entity_id}'")
-        return True
-
-    async def list_all(
-        self, limit: int | None = None, offset: int | None = None
-    ) -> list[Document]:
-        """List all documents with optional pagination."""
-        query = self.store.documents_table.search()
-
-        if offset is not None:
-            query = query.offset(offset)
-        if limit is not None:
-            query = query.limit(limit)
-
-        results = list(query.to_pydantic(DocumentRecord))
-        return [self._record_to_document(doc) for doc in results]
-
-    async def get_by_uri(self, uri: str) -> Document | None:
-        """Get a document by its URI."""
-        results = list(
-            self.store.documents_table.search()
-            .where(f"uri = '{uri}'")
-            .limit(1)
-            .to_pydantic(DocumentRecord)
-        )
-
-        if not results:
-            return None
-
-        return self._record_to_document(results[0])
-
-    async def delete_all(self) -> None:
-        """Delete all documents from the database."""
-        # Delete all chunks first
-        await self.chunk_repository.delete_all()
-
-        # Get count before deletion
-        count = len(
-            list(
-                self.store.documents_table.search().limit(1).to_pydantic(DocumentRecord)
-            )
-        )
-        if count > 0:
-            # Drop and recreate table to clear all data
-            self.store.db.drop_table("documents")
-            self.store.documents_table = self.store.db.create_table(
-                "documents", schema=DocumentRecord
-            )
-
-    async def _create_with_docling(
-        self,
-        entity: Document,
-        docling_document: DoclingDocument,
-        chunks: list["Chunk"] | None = None,
-    ) -> Document:
-        """Create a document with its chunks and embeddings."""
-        # Snapshot table versions for versioned rollback (if supported)
-        versions = self.store.current_table_versions()
-
-        # Create the document
-        created_doc = await self.create(entity)
-
-        # Attempt to create chunks; on failure, prefer version rollback
-        try:
-            # Create chunks if not provided
-            if chunks is None:
-                assert created_doc.id is not None, (
-                    "Document ID should not be None after creation"
-                )
-                await self.chunk_repository.create_chunks_for_document(
-                    created_doc.id, docling_document
-                )
-            else:
-                # Use provided chunks, set order from list position
-                assert created_doc.id is not None, (
-                    "Document ID should not be None after creation"
-                )
-                for order, chunk in enumerate(chunks):
-                    chunk.document_id = created_doc.id
-                    chunk.order = order
-                    await self.chunk_repository.create(chunk)
-
-            return created_doc
-        except Exception:
-            # Roll back to the captured versions and re-raise
-            self.store.restore_table_versions(versions)
-            raise
-
-    async def _update_with_docling(
-        self, entity: Document, docling_document: DoclingDocument
-    ) -> Document:
-        """Update a document and regenerate its chunks."""
-        assert entity.id is not None, "Document ID is required for update"
-
-        # Snapshot table versions for versioned rollback
-        versions = self.store.current_table_versions()
-
-        # Delete existing chunks before writing new ones
-        await self.chunk_repository.delete_by_document_id(entity.id)
-
-        try:
-            # Update the document
-            updated_doc = await self.update(entity)
-
-            # Create new chunks
-            assert updated_doc.id is not None, (
-                "Document ID should not be None after update"
-            )
-            await self.chunk_repository.create_chunks_for_document(
-                updated_doc.id, docling_document
-            )
-
-            return updated_doc
-        except Exception:
-            # Roll back to the captured versions and re-raise
-            self.store.restore_table_versions(versions)
-            raise