ocr-provenance-mcp 1.0.0

package/dist/services/storage/database/image-operations.js

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+/**
+ * Image operations for DatabaseService
+ *
+ * Handles all CRUD operations for extracted images including
+ * insert, get, list, update VLM results, and delete.
+ */
+import { v4 as uuidv4 } from 'uuid';
+import { DatabaseError, DatabaseErrorCode } from './types.js';
+import { rowToImage } from './converters.js';
+/**
+ * Insert a new image reference
+ *
+ * @param db - Database connection
+ * @param image - Image data (id and timestamps will be generated)
+ * @returns ImageReference - The created image with generated fields
+ */
+export function insertImage(db, image) {
+    const id = uuidv4();
+    const created_at = new Date().toISOString();
+    const stmt = db.prepare(`
+    INSERT INTO images (
+      id, document_id, ocr_result_id, page_number,
+      bbox_x, bbox_y, bbox_width, bbox_height,
+      image_index, format, width, height,
+      extracted_path, file_size, vlm_status,
+      context_text, provenance_id, created_at,
+      block_type, is_header_footer, content_hash
+    ) VALUES (?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, 'pending', ?, ?, ?, ?, ?, ?)
+  `);
+    stmt.run(id, image.document_id, image.ocr_result_id, image.page_number, image.bounding_box.x, image.bounding_box.y, image.bounding_box.width, image.bounding_box.height, image.image_index, image.format, image.dimensions.width, image.dimensions.height, image.extracted_path ?? null, image.file_size ?? null, image.context_text ?? null, image.provenance_id ?? null, created_at, image.block_type ?? null, image.is_header_footer ? 1 : 0, image.content_hash ?? null);
+    return {
+        ...image,
+        id,
+        created_at,
+        vlm_status: 'pending',
+        vlm_description: null,
+        vlm_structured_data: null,
+        vlm_embedding_id: null,
+        vlm_model: null,
+        vlm_confidence: null,
+        vlm_processed_at: null,
+        vlm_tokens_used: null,
+        error_message: null,
+        block_type: image.block_type ?? null,
+        is_header_footer: image.is_header_footer ?? false,
+        content_hash: image.content_hash ?? null,
+    };
+}
+/**
+ * Insert multiple images in a batch
+ *
+ * @param db - Database connection
+ * @param images - Array of image data to insert
+ * @returns ImageReference[] - Array of created images
+ */
+export function insertImageBatch(db, images) {
+    const results = [];
+    const insertFn = db.transaction(() => {
+        for (const image of images) {
+            results.push(insertImage(db, image));
+        }
+    });
+    insertFn();
+    return results;
+}
+/**
+ * Get an image by ID
+ *
+ * @param db - Database connection
+ * @param id - Image ID
+ * @returns ImageReference | null - The image or null if not found
+ */
+export function getImage(db, id) {
+    const stmt = db.prepare('SELECT * FROM images WHERE id = ?');
+    const row = stmt.get(id);
+    return row ? rowToImage(row) : null;
+}
+/**
+ * Get images for a document with optional filtering
+ *
+ * @param db - Database connection
+ * @param documentId - Document ID
+ * @param options - Optional filters: vlmStatus, limit
+ * @returns ImageReference[] - Array of images ordered by page and index
+ */
+export function getImagesByDocument(db, documentId, options) {
+    const params = [documentId];
+    let sql = 'SELECT * FROM images WHERE document_id = ?';
+    if (options?.vlmStatus) {
+        sql += ' AND vlm_status = ?';
+        params.push(options.vlmStatus);
+    }
+    sql += ' ORDER BY page_number, image_index';
+    if (options?.limit && options.limit > 0) {
+        sql += ' LIMIT ?';
+        params.push(options.limit);
+    }
+    else {
+        sql += ' LIMIT 5000'; // Default bound to prevent unbounded image loading
+    }
+    const stmt = db.prepare(sql);
+    const rows = stmt.all(...params);
+    return rows.map(rowToImage);
+}
+/**
+ * Get all images for an OCR result
+ *
+ * @param db - Database connection
+ * @param ocrResultId - OCR result ID
+ * @returns ImageReference[] - Array of images ordered by page and index
+ */
+export function getImagesByOCRResult(db, ocrResultId) {
+    const stmt = db.prepare(`
+    SELECT * FROM images
+    WHERE ocr_result_id = ?
+    ORDER BY page_number, image_index
+    LIMIT 5000
+  `);
+    const rows = stmt.all(ocrResultId);
+    return rows.map(rowToImage);
+}
+/**
+ * Get pending images for VLM processing
+ *
+ * @param db - Database connection
+ * @param limit - Maximum number of images to return
+ * @returns ImageReference[] - Array of pending images ordered by creation time
+ */
+export function getPendingImages(db, limit = 100) {
+    const stmt = db.prepare(`
+    SELECT * FROM images
+    WHERE vlm_status = 'pending'
+    ORDER BY created_at
+    LIMIT ?
+  `);
+    const rows = stmt.all(limit);
+    return rows.map(rowToImage);
+}
+/**
+ * List images with optional filtering
+ *
+ * @param db - Database connection
+ * @param options - Optional filter options
+ * @returns ImageReference[] - Array of images
+ */
+export function listImages(db, options) {
+    let query = 'SELECT * FROM images';
+    const params = [];
+    if (options?.vlmStatus) {
+        query += ' WHERE vlm_status = ?';
+        params.push(options.vlmStatus);
+    }
+    query += ' ORDER BY created_at DESC';
+    const limit = options?.limit ?? 10000;
+    query += ' LIMIT ?';
+    params.push(limit);
+    if (options?.offset !== undefined) {
+        query += ' OFFSET ?';
+        params.push(options.offset);
+    }
+    const stmt = db.prepare(query);
+    const rows = stmt.all(...params);
+    return rows.map(rowToImage);
+}
+/**
+ * Update image VLM status to processing
+ *
+ * @param db - Database connection
+ * @param id - Image ID
+ */
+export function setImageProcessing(db, id) {
+    const stmt = db.prepare(`
+    UPDATE images SET vlm_status = 'processing'
+    WHERE id = ? AND vlm_status = 'pending'
+  `);
+    const result = stmt.run(id);
+    // Returns false if image not found or already processing/complete/failed
+    return result.changes > 0;
+}
+/**
+ * Update image with VLM results
+ *
+ * @param db - Database connection
+ * @param id - Image ID
+ * @param result - VLM processing result
+ */
+export function updateImageVLMResult(db, id, result) {
+    const vlm_processed_at = new Date().toISOString();
+    const stmt = db.prepare(`
+    UPDATE images SET
+      vlm_status = 'complete',
+      vlm_description = ?,
+      vlm_structured_data = ?,
+      vlm_embedding_id = ?,
+      vlm_model = ?,
+      vlm_confidence = ?,
+      vlm_tokens_used = ?,
+      vlm_processed_at = ?,
+      error_message = NULL
+    WHERE id = ?
+  `);
+    const changes = stmt.run(result.description, JSON.stringify(result.structuredData), result.embeddingId, result.model, result.confidence, result.tokensUsed, vlm_processed_at, id).changes;
+    if (changes === 0) {
+        throw new DatabaseError(`Image "${id}" not found`, DatabaseErrorCode.IMAGE_NOT_FOUND);
+    }
+}
+/**
+ * Mark image as complete but intentionally skipped by relevance filtering.
+ * Sets vlm_status='complete' with vlm_description='[SKIPPED]' so the image
+ * is not reprocessed by retry_failed, and does not inflate failure counts.
+ *
+ * @param db - Database connection
+ * @param id - Image ID
+ * @param skipReason - Reason the image was skipped (stored in error_message for diagnostics)
+ */
+export function setImageVLMSkipped(db, id, skipReason) {
+    const stmt = db.prepare(`
+    UPDATE images SET
+      vlm_status = 'complete',
+      vlm_description = '[SKIPPED]',
+      vlm_tokens_used = 0,
+      vlm_processed_at = ?,
+      error_message = ?
+    WHERE id = ?
+  `);
+    const result = stmt.run(new Date().toISOString(), skipReason, id);
+    if (result.changes === 0) {
+        throw new DatabaseError(`Image "${id}" not found`, DatabaseErrorCode.IMAGE_NOT_FOUND);
+    }
+}
+/**
+ * Mark image VLM processing as failed
+ *
+ * @param db - Database connection
+ * @param id - Image ID
+ * @param errorMessage - Error message
+ */
+export function setImageVLMFailed(db, id, errorMessage) {
+    const stmt = db.prepare(`
+    UPDATE images SET
+      vlm_status = 'failed',
+      error_message = ?
+    WHERE id = ?
+  `);
+    const result = stmt.run(errorMessage, id);
+    if (result.changes === 0) {
+        throw new DatabaseError(`Image "${id}" not found`, DatabaseErrorCode.IMAGE_NOT_FOUND);
+    }
+}
+/**
+ * Update image context text
+ *
+ * @param db - Database connection
+ * @param id - Image ID
+ * @param contextText - Surrounding text from document
+ */
+export function updateImageContext(db, id, contextText) {
+    const stmt = db.prepare(`
+    UPDATE images SET context_text = ?
+    WHERE id = ?
+  `);
+    const result = stmt.run(contextText, id);
+    if (result.changes === 0) {
+        throw new DatabaseError(`Image "${id}" not found`, DatabaseErrorCode.IMAGE_NOT_FOUND);
+    }
+}
+/**
+ * Update image provenance_id
+ *
+ * @param db - Database connection
+ * @param id - Image ID
+ * @param provenanceId - Provenance record ID to set
+ */
+export function updateImageProvenance(db, id, provenanceId) {
+    const result = db
+        .prepare('UPDATE images SET provenance_id = ? WHERE id = ?')
+        .run(provenanceId, id);
+    if (result.changes === 0) {
+        throw new DatabaseError(`Image "${id}" not found`, DatabaseErrorCode.IMAGE_NOT_FOUND);
+    }
+}
+/**
+ * Get image statistics
+ *
+ * @param db - Database connection
+ * @returns ImageStats - Statistics about images in database
+ */
+export function getImageStats(db) {
+    return db
+        .prepare(`
+    SELECT
+      COUNT(*) as total,
+      COUNT(CASE WHEN vlm_status = 'complete' THEN 1 END) as processed,
+      COUNT(CASE WHEN vlm_status = 'pending' THEN 1 END) as pending,
+      COUNT(CASE WHEN vlm_status = 'processing' THEN 1 END) as processing,
+      COUNT(CASE WHEN vlm_status = 'failed' THEN 1 END) as failed
+    FROM images
+  `)
+        .get();
+}
+/**
+ * Delete an image by ID
+ *
+ * @param db - Database connection
+ * @param id - Image ID
+ * @returns boolean - True if image was deleted
+ */
+export function deleteImage(db, id) {
+    const stmt = db.prepare('DELETE FROM images WHERE id = ?');
+    return stmt.run(id).changes > 0;
+}
+/**
+ * Delete an image and all its derived data (embeddings, vectors, provenance).
+ * Performs a full cascade deletion to prevent orphaned records.
+ *
+ * @param db - Database connection
+ * @param imageId - Image ID to delete
+ */
+export function deleteImageCascade(db, imageId) {
+    // 1. Delete vec_embeddings for this image's embeddings
+    db.prepare('DELETE FROM vec_embeddings WHERE embedding_id IN (SELECT id FROM embeddings WHERE image_id = ?)').run(imageId);
+    // 2. Break circular FK: images.vlm_embedding_id -> embeddings AND embeddings.image_id -> images
+    db.prepare('UPDATE images SET vlm_embedding_id = NULL WHERE id = ?').run(imageId);
+    // 3. Delete embeddings (safe now that vlm_embedding_id is NULLed)
+    db.prepare('DELETE FROM embeddings WHERE image_id = ?').run(imageId);
+    // 4. Collect image provenance_id, then delete image (removes FK to provenance)
+    const img = db.prepare('SELECT provenance_id FROM images WHERE id = ?').get(imageId);
+    db.prepare('DELETE FROM images WHERE id = ?').run(imageId);
+    // 5. Delete provenance chain deepest-first: EMBEDDING(4) -> VLM_DESCRIPTION(3) -> IMAGE(2)
+    // Embedding provenance (deleted in step 3) was also a grandchild here, so the
+    // grandchild DELETE is a no-op for it but catches any other depth-4 descendants.
+    if (img?.provenance_id) {
+        db.prepare('DELETE FROM provenance WHERE parent_id IN (SELECT id FROM provenance WHERE parent_id = ?)').run(img.provenance_id);
+        db.prepare('DELETE FROM provenance WHERE parent_id = ?').run(img.provenance_id);
+        db.prepare('DELETE FROM provenance WHERE id = ?').run(img.provenance_id);
+    }
+}
+/**
+ * Delete all images for a document and all their derived data (embeddings, vectors, provenance).
+ * Performs a full cascade deletion to prevent orphaned records.
+ *
+ * @param db - Database connection
+ * @param documentId - Document ID
+ * @returns number - Number of images deleted
+ */
+export function deleteImagesByDocumentCascade(db, documentId) {
+    // 1. Delete vec_embeddings for these images' embeddings
+    db.prepare(`DELETE FROM vec_embeddings WHERE embedding_id IN (
+      SELECT e.id FROM embeddings e
+      JOIN images i ON e.image_id = i.id
+      WHERE i.document_id = ?
+    )`).run(documentId);
+    // 2. Break circular FK: images.vlm_embedding_id -> embeddings AND embeddings.image_id -> images
+    db.prepare('UPDATE images SET vlm_embedding_id = NULL WHERE document_id = ?').run(documentId);
+    // 3. Delete embeddings (safe now that vlm_embedding_id is NULLed)
+    db.prepare('DELETE FROM embeddings WHERE image_id IN (SELECT id FROM images WHERE document_id = ?)').run(documentId);
+    // 4. Collect image provenance IDs before deleting images
+    const imageProvIds = db
+        .prepare('SELECT provenance_id FROM images WHERE document_id = ? AND provenance_id IS NOT NULL')
+        .all(documentId);
+    // 5. Delete images (removes FK references to their provenance)
+    const result = db.prepare('DELETE FROM images WHERE document_id = ?').run(documentId);
+    // 6. Delete provenance chains deepest-first: EMBEDDING(4) -> VLM_DESCRIPTION(3) -> IMAGE(2)
+    // This covers embedding provenance (grandchildren) that was freed in step 3,
+    // VLM_DESCRIPTION provenance (children), and the IMAGE provenance itself.
+    for (const { provenance_id } of imageProvIds) {
+        db.prepare('DELETE FROM provenance WHERE parent_id IN (SELECT id FROM provenance WHERE parent_id = ?)').run(provenance_id);
+        db.prepare('DELETE FROM provenance WHERE parent_id = ?').run(provenance_id);
+        db.prepare('DELETE FROM provenance WHERE id = ?').run(provenance_id);
+    }
+    return result.changes;
+}
+/**
+ * Delete all images for a document
+ *
+ * @param db - Database connection
+ * @param documentId - Document ID
+ * @returns number - Number of images deleted
+ */
+export function deleteImagesByDocument(db, documentId) {
+    const stmt = db.prepare('DELETE FROM images WHERE document_id = ?');
+    return stmt.run(documentId).changes;
+}
+/**
+ * Count images by document
+ *
+ * @param db - Database connection
+ * @param documentId - Document ID
+ * @returns number - Number of images for this document
+ */
+export function countImagesByDocument(db, documentId) {
+    const row = db
+        .prepare(`
+    SELECT COUNT(*) as count FROM images WHERE document_id = ?
+  `)
+        .get(documentId);
+    return row.count;
+}
+/**
+ * Reset VLM status to pending for failed images
+ *
+ * @param db - Database connection
+ * @param documentId - Optional document ID to filter
+ * @returns number - Number of images reset
+ */
+export function resetFailedImages(db, documentId) {
+    let query = `
+    UPDATE images SET
+      vlm_status = 'pending',
+      error_message = NULL
+    WHERE vlm_status = 'failed'
+  `;
+    if (documentId) {
+        query += ' AND document_id = ?';
+        return db.prepare(query).run(documentId).changes;
+    }
+    return db.prepare(query).run().changes;
+}
+/**
+ * Reset VLM status to pending for images stuck in 'processing' state
+ *
+ * @param db - Database connection
+ * @param documentId - Optional document ID to filter
+ * @returns number - Number of images reset
+ */
+export function resetProcessingImages(db, documentId) {
+    let query = `
+    UPDATE images SET
+      vlm_status = 'pending',
+      error_message = 'Reset from stuck processing state'
+    WHERE vlm_status = 'processing'
+  `;
+    if (documentId) {
+        query += ' AND document_id = ?';
+        return db.prepare(query).run(documentId).changes;
+    }
+    return db.prepare(query).run().changes;
+}
+/**
+ * Find a VLM-complete image with the same content hash (for deduplication).
+ * Returns the first matching image or null.
+ *
+ * @param db - Database connection
+ * @param contentHash - SHA-256 hash to search for
+ * @param excludeId - Optional image ID to exclude from results
+ * @returns ImageReference | null
+ */
+export function findByContentHash(db, contentHash, excludeId) {
+    const query = excludeId
+        ? `SELECT * FROM images WHERE content_hash = ? AND vlm_status = 'complete' AND vlm_description != '[SKIPPED]' AND id != ? LIMIT 1`
+        : `SELECT * FROM images WHERE content_hash = ? AND vlm_status = 'complete' AND vlm_description != '[SKIPPED]' LIMIT 1`;
+    const row = excludeId
+        ? db.prepare(query).get(contentHash, excludeId)
+        : db.prepare(query).get(contentHash);
+    return row ? rowToImage(row) : null;
+}
+/**
+ * Copy VLM results from one image to another (deduplication).
+ * Sets vlm_status='complete', vlm_tokens_used=0 (no API call made).
+ *
+ * @param db - Database connection
+ * @param targetId - Image ID to copy results TO
+ * @param source - Source image to copy results FROM
+ */
+export function copyVLMResult(db, targetId, source) {
+    const stmt = db.prepare(`
+    UPDATE images SET
+      vlm_status = 'complete',
+      vlm_description = ?,
+      vlm_structured_data = ?,
+      vlm_embedding_id = ?,
+      vlm_model = ?,
+      vlm_confidence = ?,
+      vlm_tokens_used = 0,
+      vlm_processed_at = ?,
+      error_message = NULL
+    WHERE id = ?
+  `);
+    const changes = stmt.run(source.vlm_description, source.vlm_structured_data ? JSON.stringify(source.vlm_structured_data) : null, source.vlm_embedding_id, source.vlm_model, source.vlm_confidence, new Date().toISOString(), targetId).changes;
+    if (changes === 0) {
+        throw new DatabaseError(`Image "${targetId}" not found`, DatabaseErrorCode.IMAGE_NOT_FOUND);
+    }
+}
+//# sourceMappingURL=image-operations.js.map

package/dist/services/storage/database/image-operations.js.map

@@ -0,0 +1 @@
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package/dist/services/storage/database/index.d.ts

@@ -0,0 +1,13 @@
+/**
+ * Database Module - Public API
+ *
+ * Re-exports all public types, classes, and functions from the database module.
+ * This file serves as the facade for backwards compatibility.
+ */
+export { MigrationError } from '../migrations.js';
+export type { DatabaseInfo, DatabaseStats, ListDocumentsOptions, ListImagesOptions, } from './types.js';
+export { DatabaseErrorCode, DatabaseError } from './types.js';
+export { DatabaseService } from './service.js';
+export { insertImage, insertImageBatch, getImage, getImagesByDocument, getImagesByOCRResult, getPendingImages, listImages, setImageProcessing, updateImageVLMResult, setImageVLMFailed, updateImageContext, getImageStats, deleteImage, deleteImagesByDocument, countImagesByDocument, resetFailedImages, } from './image-operations.js';
+export { rowToImage } from './converters.js';
+//# sourceMappingURL=index.d.ts.map

package/dist/services/storage/database/index.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../../../src/services/storage/database/index.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAGH,OAAO,EAAE,cAAc,EAAE,MAAM,kBAAkB,CAAC;AAGlD,YAAY,EACV,YAAY,EACZ,aAAa,EACb,oBAAoB,EACpB,iBAAiB,GAClB,MAAM,YAAY,CAAC;AACpB,OAAO,EAAE,iBAAiB,EAAE,aAAa,EAAE,MAAM,YAAY,CAAC;AAG9D,OAAO,EAAE,eAAe,EAAE,MAAM,cAAc,CAAC;AAG/C,OAAO,EACL,WAAW,EACX,gBAAgB,EAChB,QAAQ,EACR,mBAAmB,EACnB,oBAAoB,EACpB,gBAAgB,EAChB,UAAU,EACV,kBAAkB,EAClB,oBAAoB,EACpB,iBAAiB,EACjB,kBAAkB,EAClB,aAAa,EACb,WAAW,EACX,sBAAsB,EACtB,qBAAqB,EACrB,iBAAiB,GAClB,MAAM,uBAAuB,CAAC;AAG/B,OAAO,EAAE,UAAU,EAAE,MAAM,iBAAiB,CAAC"}

package/dist/services/storage/database/index.js

@@ -0,0 +1,16 @@
+/**
+ * Database Module - Public API
+ *
+ * Re-exports all public types, classes, and functions from the database module.
+ * This file serves as the facade for backwards compatibility.
+ */
+// Re-export MigrationError from migrations for convenience
+export { MigrationError } from '../migrations.js';
+export { DatabaseErrorCode, DatabaseError } from './types.js';
+// Export the main service class
+export { DatabaseService } from './service.js';
+// Export image operations
+export { insertImage, insertImageBatch, getImage, getImagesByDocument, getImagesByOCRResult, getPendingImages, listImages, setImageProcessing, updateImageVLMResult, setImageVLMFailed, updateImageContext, getImageStats, deleteImage, deleteImagesByDocument, countImagesByDocument, resetFailedImages, } from './image-operations.js';
+// Export converters
+export { rowToImage } from './converters.js';
+//# sourceMappingURL=index.js.map

package/dist/services/storage/database/index.js.map

@@ -0,0 +1 @@
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package/dist/services/storage/database/lock-operations.d.ts

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+/**
+ * Document Lock Operations
+ *
+ * Provides database operations for document-level locking to prevent
+ * concurrent edits. Supports exclusive and shared lock types with
+ * automatic expiry via TTL.
+ *
+ * CRITICAL: NEVER use console.log() - stdout is reserved for JSON-RPC protocol.
+ *
+ * @module database/lock-operations
+ */
+import type Database from 'better-sqlite3';
+export interface LockRow {
+    document_id: string;
+    user_id: string;
+    session_id: string;
+    lock_type: string;
+    reason: string | null;
+    acquired_at: string;
+    expires_at: string;
+}
+export interface AcquireLockParams {
+    document_id: string;
+    user_id: string;
+    session_id: string;
+    lock_type: string;
+    reason?: string;
+    ttl_minutes?: number;
+}
+/**
+ * Acquire a lock on a document.
+ *
+ * Exclusive locks prevent any other lock. Shared locks allow other shared
+ * locks but block exclusive locks. Expired locks are cleaned up first.
+ *
+ * @param conn - Database connection
+ * @param params - Lock parameters
+ * @returns The acquired lock row
+ * @throws Error if document not found or lock conflict
+ */
+export declare function acquireLock(conn: Database.Database, params: AcquireLockParams): LockRow;
+/**
+ * Release a lock on a document.
+ *
+ * @param conn - Database connection
+ * @param documentId - Document ID
+ * @throws Error if no lock found
+ */
+export declare function releaseLock(conn: Database.Database, documentId: string): void;
+/**
+ * Get the current lock status for a document.
+ * Cleans up expired locks before checking.
+ *
+ * @param conn - Database connection
+ * @param documentId - Document ID
+ * @returns Lock row or null if no active lock
+ */
+export declare function getLockStatus(conn: Database.Database, documentId: string): LockRow | null;
+//# sourceMappingURL=lock-operations.d.ts.map

package/dist/services/storage/database/lock-operations.d.ts.map

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