bluera-knowledge 0.9.43 → 0.10.1

package/dist/mcp/server.js

@@ -1,8 +1,8 @@
 import {
   createMCPServer,
   runMCPServer
-} from "../chunk-CUHYSPRV.js";
-import "../chunk-DWAIT2OD.js";
+} from "../chunk-DP5XBPQV.js";
+import "../chunk-UE4ZIJYA.js";
 import "../chunk-6FHWC36B.js";
 export {
   createMCPServer,

package/dist/workers/background-worker-cli.js

@@ -1,13 +1,13 @@
 #!/usr/bin/env node
 import {
   IntelligentCrawler
-} from "../chunk-MQE32YY6.js";
+} from "../chunk-6U45VP5Z.js";
 import {
   JobService,
   createDocumentId,
   createServices,
   createStoreId
-} from "../chunk-DWAIT2OD.js";
+} from "../chunk-UE4ZIJYA.js";
 import "../chunk-6FHWC36B.js";
 
 // src/workers/background-worker.ts
@@ -186,7 +186,8 @@ var BackgroundWorker = class {
       const crawlOptions = {
         maxPages: resolvedMaxPages,
         simple: simple ?? false,
-        useHeadless: useHeadless ?? false
+        useHeadless: useHeadless ?? true
+        // Default to headless for reliability
       };
       if (crawlInstruction !== void 0) {
         crawlOptions.crawlInstruction = crawlInstruction;

package/dist/workers/background-worker-cli.js.map

@@ -1 +1 @@
-{"version":3,"sources":["../../src/workers/background-worker.ts","../../src/workers/pid-file.ts","../../src/workers/background-worker-cli.ts"],"sourcesContent":["import { createHash } from 'node:crypto';\nimport { IntelligentCrawler, type CrawlProgress } from '../crawl/intelligent-crawler.js';\nimport { IndexService } from '../services/index.service.js';\nimport { JobService } from '../services/job.service.js';\nimport { StoreService } from '../services/store.service.js';\nimport { createStoreId, createDocumentId } from '../types/brands.js';\nimport type { EmbeddingEngine } from '../db/embeddings.js';\nimport type { LanceStore } from '../db/lance.js';\nimport type { Document } from '../types/document.js';\nimport type { Job } from '../types/job.js';\n\n/**\n * Calculate index progress as a percentage, handling division by zero.\n * @param current - Current number of items processed\n * @param total - Total number of items (may be 0)\n * @param scale - Scale factor for progress (default 100 for 0-100%)\n * @returns Progress value, or 0 if total is 0\n */\nexport function calculateIndexProgress(\n  current: number,\n  total: number,\n  scale: number = 100\n): number {\n  if (total === 0) return 0;\n  return (current / total) * scale;\n}\n\nexport class BackgroundWorker {\n  constructor(\n    private readonly jobService: JobService,\n    private readonly storeService: StoreService,\n    private readonly indexService: IndexService,\n    private readonly lanceStore: LanceStore,\n    private readonly embeddingEngine: EmbeddingEngine\n  ) {}\n\n  /**\n   * Execute a job based on its type\n   */\n  async executeJob(jobId: string): Promise<void> {\n    const job = this.jobService.getJob(jobId);\n\n    if (!job) {\n      throw new Error(`Job ${jobId} not found`);\n    }\n\n    try {\n      // Update to running status\n      this.jobService.updateJob(jobId, {\n        status: 'running',\n        message: `Starting ${job.type} operation...`,\n        progress: 0,\n        details: { startedAt: new Date().toISOString() },\n      });\n\n      // Execute based on job type\n      switch (job.type) {\n        case 'clone':\n          await this.executeCloneJob(job);\n          break;\n        case 'index':\n          await this.executeIndexJob(job);\n          break;\n        case 'crawl':\n          await this.executeCrawlJob(job);\n          break;\n        default:\n          throw new Error(`Unknown job type: ${String(job.type)}`);\n      }\n\n      // Mark as completed\n      this.jobService.updateJob(jobId, {\n        status: 'completed',\n        progress: 100,\n        message: `${job.type} operation completed successfully`,\n        details: { completedAt: new Date().toISOString() },\n      });\n    } catch (error) {\n      // Mark as failed\n      const errorDetails: Record<string, unknown> = {\n        completedAt: new Date().toISOString(),\n      };\n      if (error instanceof Error && error.stack !== undefined) {\n        errorDetails['error'] = error.stack;\n      } else {\n        errorDetails['error'] = String(error);\n      }\n      this.jobService.updateJob(jobId, {\n        status: 'failed',\n        message: error instanceof Error ? error.message : 'Unknown error',\n        details: errorDetails,\n      });\n      throw error;\n    }\n  }\n\n  /**\n   * Execute a clone job (git clone + initial indexing)\n   */\n  private async executeCloneJob(job: Job): Promise<void> {\n    const { storeId } = job.details;\n\n    if (storeId === undefined || typeof storeId !== 'string') {\n      throw new Error('Store ID required for clone job');\n    }\n\n    // Get the store\n    const store = await this.storeService.get(createStoreId(storeId));\n    if (!store) {\n      throw new Error(`Store ${storeId} not found`);\n    }\n\n    // Clone is already done by the time the job is created\n    // (happens in StoreService.create), so we just need to index\n\n    // Update progress - cloning considered done (30%)\n    this.jobService.updateJob(job.id, {\n      status: 'running',\n      message: 'Repository cloned, starting indexing...',\n      progress: 30,\n    });\n\n    // Index the repository with progress updates\n    const result = await this.indexService.indexStore(\n      store,\n      (event: { type: string; current: number; total: number; message: string }) => {\n        // Check if job was cancelled\n        const currentJob = this.jobService.getJob(job.id);\n        if (currentJob?.status === 'cancelled') {\n          throw new Error('Job cancelled by user');\n        }\n\n        // Indexing is 70% of total progress (30-100%)\n        const indexProgress = calculateIndexProgress(event.current, event.total, 70);\n        const totalProgress = 30 + indexProgress;\n\n        this.jobService.updateJob(job.id, {\n          message: `Indexed ${String(event.current)}/${String(event.total)} files`,\n          progress: Math.min(99, totalProgress), // Cap at 99 until fully complete\n          details: {\n            filesProcessed: event.current,\n            totalFiles: event.total,\n          },\n        });\n      }\n    );\n\n    if (!result.success) {\n      throw result.error;\n    }\n  }\n\n  /**\n   * Execute an index job (re-indexing existing store)\n   */\n  private async executeIndexJob(job: Job): Promise<void> {\n    const { storeId } = job.details;\n\n    if (storeId === undefined || typeof storeId !== 'string') {\n      throw new Error('Store ID required for index job');\n    }\n\n    // Get the store\n    const store = await this.storeService.getByIdOrName(createStoreId(storeId));\n    if (!store) {\n      throw new Error(`Store ${storeId} not found`);\n    }\n\n    // Index with progress updates\n    const result = await this.indexService.indexStore(\n      store,\n      (event: { type: string; current: number; total: number; message: string }) => {\n        // Check if job was cancelled\n        const currentJob = this.jobService.getJob(job.id);\n        if (currentJob?.status === 'cancelled') {\n          throw new Error('Job cancelled by user');\n        }\n\n        const progress = calculateIndexProgress(event.current, event.total);\n\n        this.jobService.updateJob(job.id, {\n          message: `Indexed ${String(event.current)}/${String(event.total)} files`,\n          progress: Math.min(99, progress), // Cap at 99 until fully complete\n          details: {\n            filesProcessed: event.current,\n            totalFiles: event.total,\n          },\n        });\n      }\n    );\n\n    if (!result.success) {\n      throw result.error;\n    }\n  }\n\n  /**\n   * Execute a crawl job (web crawling + indexing)\n   */\n  private async executeCrawlJob(job: Job): Promise<void> {\n    const { storeId, url, crawlInstruction, extractInstruction, maxPages, simple, useHeadless } =\n      job.details;\n\n    if (storeId === undefined || typeof storeId !== 'string') {\n      throw new Error('Store ID required for crawl job');\n    }\n    if (url === undefined || typeof url !== 'string') {\n      throw new Error('URL required for crawl job');\n    }\n\n    // Get the store\n    const store = await this.storeService.get(createStoreId(storeId));\n    if (store?.type !== 'web') {\n      throw new Error(`Web store ${storeId} not found`);\n    }\n\n    const resolvedMaxPages = typeof maxPages === 'number' ? maxPages : 50;\n    const crawler = new IntelligentCrawler();\n\n    // Listen for progress events\n    crawler.on('progress', (progress: CrawlProgress) => {\n      // Check if job was cancelled - just return early, for-await loop will throw and finally will cleanup\n      const currentJob = this.jobService.getJob(job.id);\n      if (currentJob?.status === 'cancelled') {\n        return;\n      }\n\n      // Crawling is 80% of total progress (0-80%)\n      const crawlProgress = (progress.pagesVisited / resolvedMaxPages) * 80;\n\n      this.jobService.updateJob(job.id, {\n        message:\n          progress.message ??\n          `Crawling page ${String(progress.pagesVisited)}/${String(resolvedMaxPages)}`,\n        progress: Math.min(80, crawlProgress),\n        details: { pagesCrawled: progress.pagesVisited },\n      });\n    });\n\n    try {\n      await this.lanceStore.initialize(store.id);\n      const docs: Document[] = [];\n\n      // Build crawl options, only including defined values\n      const crawlOptions: {\n        maxPages: number;\n        simple: boolean;\n        useHeadless: boolean;\n        crawlInstruction?: string;\n        extractInstruction?: string;\n      } = {\n        maxPages: resolvedMaxPages,\n        simple: simple ?? false,\n        useHeadless: useHeadless ?? false,\n      };\n      if (crawlInstruction !== undefined) {\n        crawlOptions.crawlInstruction = crawlInstruction;\n      }\n      if (extractInstruction !== undefined) {\n        crawlOptions.extractInstruction = extractInstruction;\n      }\n\n      // Crawl pages using IntelligentCrawler\n      for await (const result of crawler.crawl(url, crawlOptions)) {\n        // Check cancellation between pages\n        const currentJob = this.jobService.getJob(job.id);\n        if (currentJob?.status === 'cancelled') {\n          throw new Error('Job cancelled by user');\n        }\n\n        // Embed and index the content (use extracted if available, otherwise markdown)\n        const contentToEmbed = result.extracted ?? result.markdown;\n        const vector = await this.embeddingEngine.embed(contentToEmbed);\n\n        docs.push({\n          id: createDocumentId(`${store.id}-${createHash('md5').update(result.url).digest('hex')}`),\n          content: contentToEmbed,\n          vector,\n          metadata: {\n            type: 'web',\n            storeId: store.id,\n            url: result.url,\n            title: result.title,\n            extracted: result.extracted !== undefined,\n            depth: result.depth,\n            indexedAt: new Date(),\n          },\n        });\n      }\n\n      // Index all documents (remaining 20%)\n      if (docs.length > 0) {\n        this.jobService.updateJob(job.id, {\n          message: 'Indexing crawled documents...',\n          progress: 85,\n        });\n\n        await this.lanceStore.addDocuments(store.id, docs);\n        // Create FTS index for full-text search\n        await this.lanceStore.createFtsIndex(store.id);\n      }\n\n      this.jobService.updateJob(job.id, {\n        message: `Crawled and indexed ${String(docs.length)} pages`,\n        progress: 100,\n        details: { pagesCrawled: docs.length },\n      });\n    } finally {\n      await crawler.stop();\n    }\n  }\n}\n","import fs from 'fs';\nimport path from 'path';\n\n/**\n * Result of a PID file delete operation.\n * Delete operations are best-effort and should not throw.\n */\nexport interface PidFileResult {\n  success: boolean;\n  error?: Error;\n}\n\n/**\n * Context for PID file deletion - indicates when the delete is happening.\n * Used for logging/debugging purposes.\n */\nexport type PidFileDeleteContext = 'sigterm' | 'success' | 'failure';\n\n/**\n * Write PID file - CRITICAL operation that must succeed.\n *\n * If the PID file cannot be written, the job cannot be cancelled through\n * the job management system. This is a critical failure and the job\n * should not proceed.\n *\n * @param pidFile - Absolute path to the PID file\n * @param pid - Process ID to write\n * @throws Error if PID file cannot be written\n */\nexport function writePidFile(pidFile: string, pid: number): void {\n  try {\n    fs.writeFileSync(pidFile, pid.toString(), 'utf-8');\n  } catch (error) {\n    const message = error instanceof Error ? error.message : String(error);\n    throw new Error(\n      `CRITICAL: Failed to write PID file ${pidFile}. ` +\n        `Job cannot be cancelled without PID file. ` +\n        `Original error: ${message}`\n    );\n  }\n}\n\n/**\n * Delete PID file - best-effort cleanup during shutdown.\n *\n * This operation should NEVER throw. During process shutdown (SIGTERM,\n * job success, job failure), failing to delete a PID file should not\n * prevent the process from exiting cleanly.\n *\n * Stale PID files are cleaned up by JobService.cleanupOldJobs().\n *\n * @param pidFile - Absolute path to the PID file\n * @param _context - Context indicating when the delete is happening (for future logging)\n * @returns Result indicating success or failure with error details\n */\nexport function deletePidFile(pidFile: string, _context: PidFileDeleteContext): PidFileResult {\n  try {\n    fs.unlinkSync(pidFile);\n    return { success: true };\n  } catch (error) {\n    // ENOENT = file doesn't exist - that's success (nothing to delete)\n    if (error instanceof Error && 'code' in error && error.code === 'ENOENT') {\n      return { success: true };\n    }\n    // Any other error = failure (permission denied, etc.)\n    return {\n      success: false,\n      error: error instanceof Error ? error : new Error(String(error)),\n    };\n  }\n}\n\n/**\n * Build the path to a PID file for a given job.\n *\n * @param jobsDir - Directory where job files are stored\n * @param jobId - Job identifier\n * @returns Absolute path to the PID file\n */\nexport function buildPidFilePath(jobsDir: string, jobId: string): string {\n  return path.join(jobsDir, `${jobId}.pid`);\n}\n","#!/usr/bin/env node\nimport { BackgroundWorker } from './background-worker.js';\nimport { writePidFile, deletePidFile, buildPidFilePath } from './pid-file.js';\nimport { createServices } from '../services/index.js';\nimport { JobService } from '../services/job.service.js';\n\n/**\n * Background worker CLI entry point\n *\n * Usage: background-worker-cli <job-id>\n *\n * This process runs detached from the parent and executes a single job.\n */\n\nasync function main(): Promise<void> {\n  const jobId = process.argv[2];\n  const dataDir = process.env['BLUERA_DATA_DIR'];\n\n  if (jobId === undefined || jobId === '') {\n    console.error('Error: Job ID required');\n    console.error('Usage: background-worker-cli <job-id>');\n    process.exit(1);\n  }\n\n  // Initialize services\n  const jobService = new JobService(dataDir);\n  const services = await createServices(undefined, dataDir);\n\n  // Write PID file for job cancellation - CRITICAL: must succeed or job cannot be cancelled\n  const pidFile = buildPidFilePath(\n    jobService['jobsDir'], // Access private field for PID path\n    jobId\n  );\n\n  try {\n    writePidFile(pidFile, process.pid);\n  } catch (error) {\n    // CRITICAL: Cannot proceed without PID file - job would be uncancellable\n    console.error(error instanceof Error ? error.message : String(error));\n    process.exit(1);\n  }\n\n  // Handle SIGTERM for graceful shutdown\n  process.on('SIGTERM', () => {\n    console.log(`[${jobId}] Received SIGTERM, cancelling job...`);\n    jobService.updateJob(jobId, {\n      status: 'cancelled',\n      message: 'Job cancelled by user',\n    });\n\n    // Clean up PID file (best-effort - don't block shutdown)\n    const deleteResult = deletePidFile(pidFile, 'sigterm');\n    if (!deleteResult.success && deleteResult.error !== undefined) {\n      console.error(\n        `Warning: Could not remove PID file during SIGTERM: ${deleteResult.error.message}`\n      );\n    }\n\n    process.exit(0);\n  });\n\n  // Create worker and execute job\n  const worker = new BackgroundWorker(\n    jobService,\n    services.store,\n    services.index,\n    services.lance,\n    services.embeddings\n  );\n\n  try {\n    await worker.executeJob(jobId);\n\n    // Clean up PID file on success (best-effort - don't change exit code)\n    const successCleanup = deletePidFile(pidFile, 'success');\n    if (!successCleanup.success && successCleanup.error !== undefined) {\n      console.error(\n        `Warning: Could not remove PID file after success: ${successCleanup.error.message}`\n      );\n    }\n\n    console.log(`[${jobId}] Job completed successfully`);\n    process.exit(0);\n  } catch (error) {\n    // Job service already updated with failure status in BackgroundWorker\n    console.error(`[${jobId}] Job failed:`, error);\n\n    // Clean up PID file on failure (best-effort - exit code reflects job failure)\n    const failureCleanup = deletePidFile(pidFile, 'failure');\n    if (!failureCleanup.success && failureCleanup.error !== undefined) {\n      console.error(\n        `Warning: Could not remove PID file after failure: ${failureCleanup.error.message}`\n      );\n    }\n\n    process.exit(1);\n  }\n}\n\nmain().catch((error: unknown) => {\n  console.error('Fatal error in background worker:', error);\n  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package/hooks/check-dependencies.sh

@@ -13,6 +13,29 @@ GREEN='\033[0;32m'
 YELLOW='\033[1;33m'
 NC='\033[0m' # No Color
 
+# =====================
+# Helper Functions
+# =====================
+
+# Install Playwright browser (called after crawl4ai is confirmed installed)
+install_playwright_browser() {
+    # Check if Playwright Chromium is already installed by testing if browser can be launched
+    if python3 -c "from playwright.sync_api import sync_playwright; p = sync_playwright().start(); b = p.chromium.launch(); b.close(); p.stop()" 2>/dev/null; then
+        echo -e "${GREEN}[bluera-knowledge] Playwright Chromium ready ✓${NC}"
+        return 0
+    fi
+
+    echo -e "${YELLOW}[bluera-knowledge] Installing Playwright browser (one-time setup)...${NC}"
+    if python3 -m playwright install chromium 2>/dev/null; then
+        echo -e "${GREEN}[bluera-knowledge] Playwright Chromium installed ✓${NC}"
+        return 0
+    else
+        echo -e "${YELLOW}[bluera-knowledge] Playwright browser install failed.${NC}"
+        echo -e "${YELLOW}Manual fix: python3 -m playwright install chromium${NC}"
+        return 1
+    fi
+}
+
 # =====================
 # Node.js Dependencies
 # =====================
@@ -60,6 +83,8 @@ if python3 -c "import crawl4ai" 2>/dev/null; then
     # Already installed - get version
     crawl4ai_version=$(python3 -c "import crawl4ai; print(crawl4ai.__version__)" 2>/dev/null || echo "unknown")
     echo -e "${GREEN}[bluera-knowledge] crawl4ai ${crawl4ai_version} is installed ✓${NC}"
+    # Ensure Playwright browser is installed for headless crawling
+    install_playwright_browser
     exit 0
 fi
 
@@ -87,12 +112,16 @@ if command -v pip3 &> /dev/null || command -v pip &> /dev/null; then
         echo -e "${GREEN}[bluera-knowledge] Successfully installed crawl4ai ✓${NC}"
         crawl4ai_version=$(python3 -c "import crawl4ai; print(crawl4ai.__version__)" 2>/dev/null || echo "installed")
         echo -e "${GREEN}[bluera-knowledge] crawl4ai ${crawl4ai_version} ready${NC}"
+        # Install Playwright browser for headless crawling
+        install_playwright_browser
     else
         # Fallback: try without --break-system-packages for older Python
         if $PIP_CMD install --quiet --user crawl4ai 2>/dev/null; then
             echo -e "${GREEN}[bluera-knowledge] Successfully installed crawl4ai ✓${NC}"
             crawl4ai_version=$(python3 -c "import crawl4ai; print(crawl4ai.__version__)" 2>/dev/null || echo "installed")
             echo -e "${GREEN}[bluera-knowledge] crawl4ai ${crawl4ai_version} ready${NC}"
+            # Install Playwright browser for headless crawling
+            install_playwright_browser
         else
             echo -e "${RED}[bluera-knowledge] Auto-installation failed${NC}"
             echo ""

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "bluera-knowledge",
-  "version": "0.9.43",
+  "version": "0.10.1",
   "description": "CLI tool for managing knowledge stores with semantic search",
   "type": "module",
   "bin": {

package/python/crawl_worker.py

@@ -29,10 +29,15 @@ async def fetch_headless(url: str):
         if not result.success:
             raise Exception(f"Crawl failed: {result.error_message}")
 
+        # Combine internal and external links - let TypeScript filter by domain
+        all_links = []
+        if isinstance(result.links, dict):
+            all_links = result.links.get("internal", []) + result.links.get("external", [])
+
         return {
             "html": result.html or '',
             "markdown": result.markdown or result.cleaned_html or '',
-            "links": result.links.get("internal", []) if isinstance(result.links, dict) else []
+            "links": all_links
         }
 
 def is_exported(node: ast.AST) -> bool:

package/src/cli/commands/crawl.test.ts

@@ -132,7 +132,7 @@ describe('crawl command execution', () => {
       expect(mockCrawler.crawl).toHaveBeenCalledWith('https://example.com', {
         crawlInstruction: 'all documentation pages',
         maxPages: 50,
-        useHeadless: false,
+        useHeadless: true,
       });
       expect(mockServices.embeddings.embed).toHaveBeenCalledTimes(2);
       expect(mockServices.lance.addDocuments).toHaveBeenCalledWith(
@@ -162,6 +162,46 @@ describe('crawl command execution', () => {
       expect(processExitSpy).not.toHaveBeenCalled();
     });
 
+    it('uses axios-only mode when --fast flag is provided', async () => {
+      const mockStore: WebStore = {
+        id: createStoreId('store-1'),
+        name: 'test-store',
+        type: 'web',
+        url: 'https://example.com',
+        depth: 2,
+        createdAt: new Date(),
+        updatedAt: new Date(),
+      };
+
+      mockServices.store.getByIdOrName.mockResolvedValue(mockStore);
+      mockServices.lance.initialize.mockResolvedValue(undefined);
+      mockServices.embeddings.embed.mockResolvedValue([0.1, 0.2, 0.3]);
+      mockServices.lance.addDocuments.mockResolvedValue(undefined);
+
+      mockCrawler.crawl.mockReturnValue(
+        (async function* () {
+          yield {
+            url: 'https://example.com/page1',
+            title: 'Page 1',
+            markdown: '# Page 1',
+            depth: 0,
+          };
+        })()
+      );
+
+      const command = createCrawlCommand(getOptions);
+      command.parseOptions(['--fast', '--max-pages', '25']);
+      const actionHandler = command._actionHandler;
+
+      await actionHandler(['https://example.com', 'test-store']);
+
+      expect(mockCrawler.crawl).toHaveBeenCalledWith('https://example.com', {
+        maxPages: 25,
+        useHeadless: false, // --fast disables headless
+      });
+      expect(mockCrawler.stop).toHaveBeenCalled();
+    });
+
     it('successfully crawls in simple mode', async () => {
       const mockStore: WebStore = {
         id: createStoreId('store-1'),
@@ -198,7 +238,7 @@ describe('crawl command execution', () => {
       expect(mockCrawler.crawl).toHaveBeenCalledWith('https://example.com', {
         maxPages: 25,
         simple: true,
-        useHeadless: false,
+        useHeadless: true,
       });
       expect(mockCrawler.stop).toHaveBeenCalled();
     });
@@ -295,7 +335,7 @@ describe('crawl command execution', () => {
         crawlInstruction: 'all Getting Started pages',
         extractInstruction: 'code examples',
         maxPages: 100,
-        useHeadless: false,
+        useHeadless: true,
       });
     });
   });

package/src/cli/commands/crawl.ts

@@ -25,7 +25,7 @@ export function createCrawlCommand(getOptions: () => GlobalOptions): Command {
     )
     .option('--simple', 'Use simple BFS mode instead of intelligent crawling')
     .option('--max-pages <number>', 'Maximum number of pages to crawl', '50')
-    .option('--headless', 'Use headless browser for JavaScript-rendered sites')
+    .option('--fast', 'Use fast axios-only mode (may fail on JavaScript-heavy sites)')
     .action(
       async (
         url: string,
@@ -35,7 +35,7 @@ export function createCrawlCommand(getOptions: () => GlobalOptions): Command {
           extract?: string;
           simple?: boolean;
           maxPages?: string;
-          headless?: boolean;
+          fast?: boolean;
         }
       ) => {
         const globalOpts = getOptions();
@@ -125,7 +125,7 @@ export function createCrawlCommand(getOptions: () => GlobalOptions): Command {
             ...(cmdOptions.extract !== undefined && { extractInstruction: cmdOptions.extract }),
             maxPages,
             ...(cmdOptions.simple !== undefined && { simple: cmdOptions.simple }),
-            useHeadless: cmdOptions.headless ?? false,
+            useHeadless: !(cmdOptions.fast ?? false), // Default true (headless), --fast disables
           })) {
             // Use extracted content if available, otherwise markdown
             const contentToProcess = result.extracted ?? result.markdown;

package/src/cli/commands/sync.test.ts

@@ -0,0 +1,54 @@
+import { describe, it, expect } from 'vitest';
+import { createSyncCommand } from './sync.js';
+import type { GlobalOptions } from '../program.js';
+
+describe('createSyncCommand', () => {
+  function createTestOptions(): GlobalOptions {
+    return {
+      dataDir: '/tmp/test-data',
+      projectRoot: '/tmp/test-project',
+      format: 'table',
+    };
+  }
+
+  it('creates sync command with correct name and description', () => {
+    const cmd = createSyncCommand(createTestOptions);
+    expect(cmd.name()).toBe('sync');
+    expect(cmd.description()).toContain('Sync');
+  });
+
+  it('has --dry-run option', () => {
+    const cmd = createSyncCommand(createTestOptions);
+    const options = cmd.options;
+    const dryRunOpt = options.find((o) => o.long === '--dry-run');
+    expect(dryRunOpt).toBeDefined();
+  });
+
+  it('has --prune option', () => {
+    const cmd = createSyncCommand(createTestOptions);
+    const options = cmd.options;
+    const pruneOpt = options.find((o) => o.long === '--prune');
+    expect(pruneOpt).toBeDefined();
+  });
+
+  it('has --reindex option', () => {
+    const cmd = createSyncCommand(createTestOptions);
+    const options = cmd.options;
+    const reindexOpt = options.find((o) => o.long === '--reindex');
+    expect(reindexOpt).toBeDefined();
+  });
+
+  it('has correct option descriptions', () => {
+    const cmd = createSyncCommand(createTestOptions);
+    const options = cmd.options;
+
+    const dryRunOpt = options.find((o) => o.long === '--dry-run');
+    expect(dryRunOpt?.description).toContain('without making changes');
+
+    const pruneOpt = options.find((o) => o.long === '--prune');
+    expect(pruneOpt?.description).toContain('Remove');
+
+    const reindexOpt = options.find((o) => o.long === '--reindex');
+    expect(reindexOpt?.description).toContain('index');
+  });
+});

package/src/cli/commands/sync.ts

@@ -0,0 +1,264 @@
+import { Command } from 'commander';
+import { createServices, destroyServices } from '../../services/index.js';
+import { StoreDefinitionService } from '../../services/store-definition.service.js';
+import {
+  isFileStoreDefinition,
+  isRepoStoreDefinition,
+  isWebStoreDefinition,
+} from '../../types/store-definition.js';
+import type { StoreService } from '../../services/store.service.js';
+import type { StoreDefinition } from '../../types/store-definition.js';
+import type { GlobalOptions } from '../program.js';
+
+interface SyncResult {
+  created: string[];
+  skipped: string[];
+  failed: Array<{ name: string; error: string }>;
+  orphans: string[];
+  pruned: string[];
+  dryRun: boolean;
+  wouldCreate: string[];
+  wouldPrune: string[];
+}
+
+/**
+ * Create a store from a definition
+ */
+async function createStoreFromDefinition(
+  def: StoreDefinition,
+  defService: StoreDefinitionService,
+  storeService: StoreService
+): Promise<{ success: true } | { success: false; error: string }> {
+  try {
+    if (isFileStoreDefinition(def)) {
+      const resolvedPath = defService.resolvePath(def.path);
+      const createResult = await storeService.create(
+        {
+          name: def.name,
+          type: 'file',
+          path: resolvedPath,
+          description: def.description,
+          tags: def.tags,
+        },
+        { skipDefinitionSync: true }
+      );
+      if (!createResult.success) {
+        return { success: false, error: createResult.error.message };
+      }
+      return { success: true };
+    }
+
+    if (isRepoStoreDefinition(def)) {
+      const createResult = await storeService.create(
+        {
+          name: def.name,
+          type: 'repo',
+          url: def.url,
+          branch: def.branch,
+          depth: def.depth,
+          description: def.description,
+          tags: def.tags,
+        },
+        { skipDefinitionSync: true }
+      );
+      if (!createResult.success) {
+        return { success: false, error: createResult.error.message };
+      }
+      return { success: true };
+    }
+
+    if (isWebStoreDefinition(def)) {
+      const createResult = await storeService.create(
+        {
+          name: def.name,
+          type: 'web',
+          url: def.url,
+          depth: def.depth,
+          description: def.description,
+          tags: def.tags,
+        },
+        { skipDefinitionSync: true }
+      );
+      if (!createResult.success) {
+        return { success: false, error: createResult.error.message };
+      }
+      return { success: true };
+    }
+
+    return { success: false, error: 'Unknown store definition type' };
+  } catch (error) {
+    return {
+      success: false,
+      error: error instanceof Error ? error.message : String(error),
+    };
+  }
+}
+
+export function createSyncCommand(getOptions: () => GlobalOptions): Command {
+  const sync = new Command('sync').description(
+    'Sync stores from definitions config (bootstrap on fresh clone)'
+  );
+
+  sync
+    .option('--dry-run', 'Show what would happen without making changes')
+    .option('--prune', 'Remove stores not in definitions')
+    .option('--reindex', 'Re-index existing stores after sync')
+    .action(async (options: { dryRun?: boolean; prune?: boolean; reindex?: boolean }) => {
+      const globalOpts = getOptions();
+      const projectRoot = globalOpts.projectRoot ?? process.cwd();
+
+      const defService = new StoreDefinitionService(projectRoot);
+      const services = await createServices(globalOpts.config, globalOpts.dataDir, projectRoot);
+
+      try {
+        const config = await defService.load();
+        const existingStores = await services.store.list();
+        const existingNames = new Set(existingStores.map((s) => s.name));
+        const definedNames = new Set(config.stores.map((d) => d.name));
+
+        const result: SyncResult = {
+          created: [],
+          skipped: [],
+          failed: [],
+          orphans: [],
+          pruned: [],
+          dryRun: options.dryRun === true,
+          wouldCreate: [],
+          wouldPrune: [],
+        };
+
+        // Process each definition
+        for (const def of config.stores) {
+          if (existingNames.has(def.name)) {
+            result.skipped.push(def.name);
+            continue;
+          }
+
+          if (options.dryRun === true) {
+            result.wouldCreate.push(def.name);
+            continue;
+          }
+
+          const createResult = await createStoreFromDefinition(def, defService, services.store);
+          if (createResult.success) {
+            result.created.push(def.name);
+          } else {
+            result.failed.push({ name: def.name, error: createResult.error });
+          }
+        }
+
+        // Find orphans
+        for (const store of existingStores) {
+          if (!definedNames.has(store.name)) {
+            result.orphans.push(store.name);
+          }
+        }
+
+        // Prune orphans if requested
+        if (options.prune === true && result.orphans.length > 0) {
+          if (options.dryRun === true) {
+            result.wouldPrune = [...result.orphans];
+          } else {
+            for (const orphanName of result.orphans) {
+              const store = await services.store.getByName(orphanName);
+              if (store !== undefined) {
+                const deleteResult = await services.store.delete(store.id, {
+                  skipDefinitionSync: true,
+                });
+                if (deleteResult.success) {
+                  result.pruned.push(orphanName);
+                }
+              }
+            }
+          }
+        }
+
+        // Output result
+        if (globalOpts.format === 'json') {
+          console.log(JSON.stringify(result, null, 2));
+        } else {
+          printHumanReadable(result, globalOpts.quiet === true);
+        }
+      } finally {
+        await destroyServices(services);
+      }
+    });
+
+  return sync;
+}
+
+function printHumanReadable(result: SyncResult, quiet: boolean): void {
+  if (quiet) {
+    // Just print created/pruned store names
+    for (const name of result.created) {
+      console.log(`created: ${name}`);
+    }
+    for (const name of result.pruned) {
+      console.log(`pruned: ${name}`);
+    }
+    for (const name of result.wouldCreate) {
+      console.log(`would create: ${name}`);
+    }
+    for (const name of result.wouldPrune) {
+      console.log(`would prune: ${name}`);
+    }
+    return;
+  }
+
+  if (result.dryRun) {
+    console.log('\n[DRY RUN] No changes made.\n');
+  } else {
+    console.log('\nSync completed.\n');
+  }
+
+  if (result.created.length > 0) {
+    console.log(`Created (${String(result.created.length)}):`);
+    for (const name of result.created) {
+      console.log(`  + ${name}`);
+    }
+  }
+
+  if (result.wouldCreate.length > 0) {
+    console.log(`Would create (${String(result.wouldCreate.length)}):`);
+    for (const name of result.wouldCreate) {
+      console.log(`  + ${name}`);
+    }
+  }
+
+  if (result.skipped.length > 0) {
+    console.log(`Skipped (already exist) (${String(result.skipped.length)}):`);
+    for (const name of result.skipped) {
+      console.log(`  - ${name}`);
+    }
+  }
+
+  if (result.failed.length > 0) {
+    console.log(`Failed (${String(result.failed.length)}):`);
+    for (const { name, error } of result.failed) {
+      console.log(`  ! ${name}: ${error}`);
+    }
+  }
+
+  if (result.orphans.length > 0) {
+    console.log(`Orphans (not in definitions) (${String(result.orphans.length)}):`);
+    for (const name of result.orphans) {
+      console.log(`  ? ${name}`);
+    }
+  }
+
+  if (result.pruned.length > 0) {
+    console.log(`Pruned (${String(result.pruned.length)}):`);
+    for (const name of result.pruned) {
+      console.log(`  x ${name}`);
+    }
+  }
+
+  if (result.wouldPrune.length > 0) {
+    console.log(`Would prune (${String(result.wouldPrune.length)}):`);
+    for (const name of result.wouldPrune) {
+      console.log(`  x ${name}`);
+    }
+  }
+
+  console.log('');
+}

package/src/cli/index.ts

@@ -5,3 +5,4 @@ export { createIndexCommand } from './commands/index-cmd.js';
 export { createServeCommand } from './commands/serve.js';
 export { createCrawlCommand } from './commands/crawl.js';
 export { createSetupCommand } from './commands/setup.js';
+export { createSyncCommand } from './commands/sync.js';