directory-indexer 0.1.2 → 0.1.3

package/README.md

@@ -58,6 +58,8 @@ Add to your MCP configuration:
 
 Your AI assistant will automatically start the MCP server and can now search your indexed files.
 
+**Advanced:** For organizing content into focused search areas, see [Workspace Support](#workspace-support).
+
 ## Setup
 
 Directory Indexer runs locally on your machine or server. It uses an embedding provider (such as Ollama) to create vector embeddings of your files and stores them in a Qdrant vector database for fast semantic search. Both services can run remotely if needed.
@@ -208,9 +210,9 @@ Organize content into workspaces for focused searches:
       "command": "npx",
       "args": ["directory-indexer@latest", "serve"],
       "env": {
-        "WORKSPACE_DOCS": "/home/user/docs,/home/user/wiki",
-        "WORKSPACE_PROJECTS": "/home/user/code/api,/home/user/code/web",
-        "WORKSPACE_PERSONAL": "/home/user/notes,/home/user/journal"
+        "WORKSPACE_CUSTOMER_CASES": "C:\\Users\\john\\Documents\\Support\\Cases,C:\\Users\\john\\Documents\\Incidents",
+        "WORKSPACE_ENGINEERING_DOCS": "C:\\Users\\john\\Code\\API,C:\\Users\\john\\Code\\Web",
+        "WORKSPACE_COMPANY_POLICIES": "C:\\Users\\john\\Documents\\Policies,C:\\Users\\john\\Documents\\Procedures"
       }
     }
   }
@@ -220,7 +222,7 @@ Organize content into workspaces for focused searches:
 **How workspaces work:**
 - Define workspace environments with `WORKSPACE_NAME` format
 - Use comma-separated paths or JSON arrays: `["path1", "path2"]`
-- Search within specific workspaces: _"Find API docs in projects workspace"_
+- Search within specific workspaces: _"Find issues about authentication in customer cases workspace"_
 - Your AI assistant can filter results to relevant workspace content
 - Use `server_info` to see available workspaces and their statistics
 

package/dist/cli.js

@@ -31,49 +31,61 @@ async function handleIndexTool(args, config) {
   }
   const paths = args.directory_path.split(",").map((p) => p.trim());
   const result = await indexDirectories(paths, config);
+  let responseText = `Indexed ${result.indexed} files, skipped ${result.skipped} files, ${result.failed} failed`;
+  if (result.errors.length > 0) {
+    responseText += `
+Errors: [
+`;
+    result.errors.forEach((error) => {
+      responseText += `  '${error}'
+`;
+    });
+    responseText += `]`;
+  }
   return {
     content: [
       {
         type: "text",
-        text: `Indexed ${result.indexed} files, skipped ${result.skipped} files, ${result.errors.length} errors`
+        text: responseText
       }
     ]
   };
 }
+async function validateWorkspace(workspace) {
+  if (!workspace) return { workspace };
+  const config = (await import("./config.js")).loadConfig();
+  const { getAvailableWorkspaces } = await import("./config.js");
+  const availableWorkspaces = getAvailableWorkspaces(config);
+  if (availableWorkspaces.includes(workspace)) {
+    return { workspace };
+  }
+  const message = availableWorkspaces.length > 0 ? `Note: Workspace '${workspace}' not found. Searching all content instead. Available workspaces: ${availableWorkspaces.join(", ")}. Use server_info tool to see workspace details.` : `Note: Workspace '${workspace}' not found and no workspaces are configured. Searching all indexed content.`;
+  return { workspace: void 0, message };
+}
 async function handleSearchTool(args) {
   if (!isSearchToolArgs(args)) {
     throw new Error("query is required");
   }
-  const options = {
-    limit: args.limit || 10,
-    workspace: args.workspace
-  };
-  const results = await searchContent(args.query, options);
+  const { workspace, message } = await validateWorkspace(args.workspace);
+  const results = await searchContent(args.query, { limit: args.limit || 10, workspace });
+  const response = message ? `${message}
+
+${JSON.stringify(results, null, 2)}` : JSON.stringify(results, null, 2);
   return {
-    content: [
-      {
-        type: "text",
-        text: JSON.stringify(results, null, 2)
-      }
-    ]
+    content: [{ type: "text", text: response }]
   };
 }
 async function handleSimilarFilesTool(args) {
   if (!isSimilarFilesToolArgs(args)) {
     throw new Error("file_path is required");
   }
-  const results = await findSimilarFiles(
-    args.file_path,
-    args.limit || 10,
-    args.workspace
-  );
+  const { workspace, message } = await validateWorkspace(args.workspace);
+  const results = await findSimilarFiles(args.file_path, args.limit || 10, workspace);
+  const response = message ? `${message}
+
+${JSON.stringify(results, null, 2)}` : JSON.stringify(results, null, 2);
   return {
-    content: [
-      {
-        type: "text",
-        text: JSON.stringify(results, null, 2)
-      }
-    ]
+    content: [{ type: "text", text: response }]
   };
 }
 async function handleGetContentTool(args) {
@@ -218,7 +230,7 @@ Example queries:
         },
         workspace: {
           type: "string",
-          description: "Optional workspace name to filter search results. Only files within the workspace directories will be searched. Use server_info to see available workspaces."
+          description: "Optional workspace name to filter search results. Only files within the workspace directories will be searched. IMPORTANT: Use server_info tool first to discover available workspace names - using invalid workspace names will result in empty results."
         }
       },
       required: ["query"]
@@ -260,7 +272,7 @@ Returns file paths with similarity scores. Use get_content to read full files or
         },
         workspace: {
           type: "string",
-          description: "Optional workspace name to filter results. Only files within the workspace directories will be considered. Use server_info to see available workspaces."
+          description: "Optional workspace name to filter results. Only files within the workspace directories will be considered. IMPORTANT: Use server_info tool first to discover available workspace names - using invalid workspace names will result in empty results."
         }
       },
       required: ["file_path"]
@@ -345,6 +357,7 @@ Returns chunk content as text. Use this with chunk IDs from search results to ge
     description: `Get information about server status and indexed content. Shows what directories and files are available for search.
 
 When to use this tool:
+- REQUIRED: Check available workspace names before using workspace parameter in search or similar_files tools
 - Check what content is already indexed before performing searches
 - Verify system is working properly
 - See indexing statistics and status
@@ -354,14 +367,16 @@ How it works:
 - Reports total indexed directories, files, and chunks
 - Shows database size and last indexing time
 - Lists all indexed directories with file counts
+- Lists all configured workspaces with their paths and file counts
 - Reports any errors or issues
 
 Examples:
+- Check workspaces before searching: "What workspaces are available?"
 - Check before searching: "What content is indexed?"
 - Verify after indexing: "Did the indexing complete successfully?"
 - Monitor system: "How many files are searchable?"
 
-Returns server version, indexing statistics, directory list, and any errors. Use this to understand what content is available for search and similar_files tools.`,
+Returns server version, indexing statistics, directory list, workspace information, and any errors. IMPORTANT: Always use this tool first to discover available workspace names when you need to search within specific workspaces.`,
     inputSchema: {
       type: "object",
       properties: {},
@@ -427,9 +442,13 @@ async function main() {
       const config = await loadConfig({ verbose: options.verbose });
       console.log(`Indexing ${paths.length} ${paths.length === 1 ? "directory" : "directories"}: ${paths.join(", ")}`);
       const result = await indexDirectories(paths, config);
-      console.log(`Indexed ${result.indexed} files, skipped ${result.skipped} files, ${result.errors.length} errors`);
-      if (result.errors.length > 0 && config.verbose) {
-        console.log("Errors:", result.errors);
+      console.log(`Indexed ${result.indexed} files, skipped ${result.skipped} files, ${result.failed} failed`);
+      if (result.errors.length > 0) {
+        console.log(`Errors: [`);
+        result.errors.forEach((error) => {
+          console.log(`  '${error}'`);
+        });
+        console.log(`]`);
       }
     } catch (error) {
       console.error("Error indexing directories:", error);

package/dist/cli.js.map

@@ -1 +1 @@
-{"version":3,"file":"cli.js","sources":["../src/mcp-handlers.ts","../src/mcp.ts","../src/cli.ts"],"sourcesContent":["import { Config } from './config.js';\nimport { indexDirectories } from './indexing.js';\nimport { searchContent, findSimilarFiles, getFileContent, getChunkContent } from './search.js';\nimport { getIndexStatus } from './storage.js';\nimport { CallToolResult } from '@modelcontextprotocol/sdk/types.js';\n\n// Type-safe interfaces for MCP tool arguments\ninterface IndexToolArgs {\n  directory_path: string;\n}\n\ninterface SearchToolArgs {\n  query: string;\n  limit?: number;\n  workspace?: string;\n}\n\ninterface SimilarFilesToolArgs {\n  file_path: string;\n  limit?: number;\n  workspace?: string;\n}\n\ninterface GetContentToolArgs {\n  file_path: string;\n  chunks?: string;\n}\n\ninterface GetChunkToolArgs {\n  file_path: string;\n  chunk_id: string;\n}\n\n// Type guard functions\nfunction isIndexToolArgs(args: unknown): args is IndexToolArgs {\n  return typeof args === 'object' && args !== null && \n         typeof (args as IndexToolArgs).directory_path === 'string';\n}\n\nfunction isSearchToolArgs(args: unknown): args is SearchToolArgs {\n  return typeof args === 'object' && args !== null && \n         typeof (args as SearchToolArgs).query === 'string';\n}\n\nfunction isSimilarFilesToolArgs(args: unknown): args is SimilarFilesToolArgs {\n  return typeof args === 'object' && args !== null && \n         typeof (args as SimilarFilesToolArgs).file_path === 'string';\n}\n\nfunction isGetContentToolArgs(args: unknown): args is GetContentToolArgs {\n  return typeof args === 'object' && args !== null && \n         typeof (args as GetContentToolArgs).file_path === 'string';\n}\n\nfunction isGetChunkToolArgs(args: unknown): args is GetChunkToolArgs {\n  return typeof args === 'object' && args !== null && \n         typeof (args as GetChunkToolArgs).file_path === 'string' &&\n         typeof (args as GetChunkToolArgs).chunk_id === 'string';\n}\n\nexport async function handleIndexTool(args: unknown, config: Config): Promise<CallToolResult> {\n  if (!isIndexToolArgs(args)) {\n    throw new Error('directory_path is required');\n  }\n  \n  const paths = args.directory_path.split(',').map((p: string) => p.trim());\n  const result = await indexDirectories(paths, config);\n  \n  return {\n    content: [\n      {\n        type: 'text',\n        text: `Indexed ${result.indexed} files, skipped ${result.skipped} files, ${result.errors.length} errors`\n      }\n    ]\n  };\n}\n\nexport async function handleSearchTool(args: unknown): Promise<CallToolResult> {\n  if (!isSearchToolArgs(args)) {\n    throw new Error('query is required');\n  }\n  \n  const options = { \n    limit: args.limit || 10,\n    workspace: args.workspace\n  };\n  \n  const results = await searchContent(args.query, options);\n  \n  return {\n    content: [\n      {\n        type: 'text',\n        text: JSON.stringify(results, null, 2)\n      }\n    ]\n  };\n}\n\nexport async function handleSimilarFilesTool(args: unknown): Promise<CallToolResult> {\n  if (!isSimilarFilesToolArgs(args)) {\n    throw new Error('file_path is required');\n  }\n  \n  const results = await findSimilarFiles(\n    args.file_path, \n    args.limit || 10,\n    args.workspace\n  );\n  \n  return {\n    content: [\n      {\n        type: 'text',\n        text: JSON.stringify(results, null, 2)\n      }\n    ]\n  };\n}\n\nexport async function handleGetContentTool(args: unknown): Promise<CallToolResult> {\n  if (!isGetContentToolArgs(args)) {\n    throw new Error('file_path is required');\n  }\n  \n  const content = await getFileContent(args.file_path, args.chunks);\n  \n  return {\n    content: [\n      {\n        type: 'text',\n        text: content\n      }\n    ]\n  };\n}\n\nexport async function handleGetChunkTool(args: unknown): Promise<CallToolResult> {\n  if (!isGetChunkToolArgs(args)) {\n    throw new Error('file_path and chunk_id are required');\n  }\n  \n  const content = await getChunkContent(args.file_path, args.chunk_id);\n  \n  return {\n    content: [\n      {\n        type: 'text',\n        text: content\n      }\n    ]\n  };\n}\n\nexport async function handleServerInfoTool(version: string): Promise<CallToolResult> {\n  const status = await getIndexStatus();\n  \n  return {\n    content: [\n      {\n        type: 'text',\n        text: JSON.stringify({\n          name: 'directory-indexer',\n          version: version,\n          status: status\n        }, null, 2)\n      }\n    ]\n  };\n}\n\nexport function formatErrorResponse(error: unknown): CallToolResult {\n  const errorMessage = error instanceof Error ? error.message : 'Unknown error';\n  return {\n    content: [\n      {\n        type: 'text',\n        text: `Error: ${errorMessage}`\n      }\n    ],\n    isError: true\n  };\n}","import { Server } from '@modelcontextprotocol/sdk/server/index.js';\nimport { StdioServerTransport } from '@modelcontextprotocol/sdk/server/stdio.js';\nimport { \n  CallToolRequestSchema, \n  ListToolsRequestSchema,\n  Tool\n} from '@modelcontextprotocol/sdk/types.js';\nimport { readFileSync } from 'fs';\nimport { join, dirname } from 'path';\nimport { fileURLToPath } from 'url';\nimport { Config } from './config.js';\nimport { \n  handleIndexTool, \n  handleSearchTool, \n  handleSimilarFilesTool, \n  handleGetContentTool, \n  handleGetChunkTool, \n  handleServerInfoTool,\n  formatErrorResponse\n} from './mcp-handlers.js';\n\n// Read version from package.json\nconst __dirname = dirname(fileURLToPath(import.meta.url));\nconst packageJsonPath = join(__dirname, '../package.json');\nconst packageJson = JSON.parse(readFileSync(packageJsonPath, 'utf-8'));\nconst VERSION = packageJson.version;\n\nconst MCP_TOOLS: Tool[] = [\n  {\n    name: 'index',\n    description: `Index directories to make their files searchable. Processes files to create vector embeddings for semantic search.\n\nWhen to use this tool:\n- User specifically requests indexing a directory as a knowledge base\n- Adding new documentation, code repositories, or file collections to search\n- Updating index when many files have changed\n\nHow it works:\n- Recursively scans directories for supported file types\n- Extracts text content and splits into chunks\n- Generates vector embeddings for semantic similarity\n- Stores in database for fast retrieval\n\nExamples:\n- Index documentation: \"/home/user/docs/project-wiki\"\n- Index codebase: \"/home/user/projects/api-server\"\n- Index multiple directories: \"/home/user/docs,/home/user/configs\"\n\nIndexing can take several minutes for large directories. Most users will already have directories indexed and can directly use search tool. Use server_info to check current indexing status first.`,\n    inputSchema: {\n      type: 'object',\n      properties: {\n        directory_path: {\n          type: 'string',\n          description: 'Comma-separated list of absolute directory paths to index. Must be absolute paths since MCP server runs independently. Examples: \"/home/user/projects\" (Unix) or \"C:\\\\Users\\\\user\\\\projects\" (Windows)'\n        }\n      },\n      required: ['directory_path']\n    }\n  },\n  {\n    name: 'search',\n    description: `Search indexed files using natural language queries. Finds files containing content semantically similar to the query.\n\nWhen to use this tool:\n- Find documentation, guides, or explanations about specific topics\n- Locate code files implementing certain functionality or patterns\n- Discover configuration files, scripts, or settings related to a topic\n- Search for files covering specific concepts or technologies\n\nHow it works:\n- Converts query to vector embedding using semantic similarity\n- Searches all indexed file chunks for relevant content\n- Groups results by file and calculates average relevance scores\n- Returns files ranked by relevance score\n\nExamples:\n- \"database configuration and connection pooling setup\" - finds config files, documentation about DB setup\n- \"comprehensive error handling patterns and exception management\" - finds code files with exception handling\n- \"JWT authentication implementation and session management\" - finds auth-related code and docs\n- \"REST API documentation and endpoint specifications\" - finds API guides, endpoint definitions\n- \"Docker deployment scripts and CI/CD pipeline configuration\" - finds deployment automation\n\nReturns files with similarity scores and chunk information. Use get_content to retrieve full file content or get_chunk to retrieve specific chunk content by chunk ID.\n- Groups results by file to avoid duplicates from multiple matching sections\n\nResponse format:\n- Returns lightweight metadata including file paths, relevance scores, and chunk IDs\n- Use 'get_chunk' or 'get_content' tools to fetch actual content from search results\n- Chunks are sorted by relevance score within each file\n- Average similarity score calculated across all matching chunks per file\n\nExample queries:\n- \"error handling patterns and exception management strategies\" (finds try/catch, error classes, logging)\n- \"database migration scripts and schema versioning approaches\" (finds SQL, schema changes, migration files)\n- \"authentication middleware and JWT token validation logic\" (finds auth logic, JWT handling, middleware functions)`,\n    inputSchema: {\n      type: 'object',\n      properties: {\n        query: {\n          type: 'string',\n          description: 'Natural language search query describing what you are looking for. Can be concepts, functionality, or specific technical terms.'\n        },\n        limit: {\n          type: 'number',\n          description: 'Maximum number of files to return (default: 10). Each file may contain multiple matching chunks.',\n          default: 10\n        },\n        workspace: {\n          type: 'string',\n          description: 'Optional workspace name to filter search results. Only files within the workspace directories will be searched. Use server_info to see available workspaces.'\n        }\n      },\n      required: ['query']\n    }\n  },\n  {\n    name: 'similar_files',\n    description: `Find files with content similar to a reference file. Uses semantic similarity to find related documents, code files, or any text content.\n\nWhen to use this tool:\n- Find documentation similar to a specific guide or README\n- Locate related code files, configuration files, or scripts\n- Discover alternative implementations or approaches\n- Find files covering similar topics or concepts\n\nHow it works:\n- Analyzes the semantic content of the reference file\n- Compares against all indexed files using vector similarity\n- Returns files ranked by content similarity score\n\nExamples:\n- Given \"deployment-guide.md\" - finds other deployment docs, CI/CD guides, infrastructure setup\n- Given \"troubleshooting.md\" - finds other troubleshooting guides, FAQ files, error documentation\n- Given \"config.yaml\" - finds other configuration files, settings, environment setups\n- Given \"auth.py\" - finds other authentication modules, security code, middleware\n\nReturns file paths with similarity scores. Use get_content to read full files or get_chunk for specific sections.`,\n    inputSchema: {\n      type: 'object',\n      properties: {\n        file_path: {\n          type: 'string',\n          description: 'Absolute or relative path to the reference file. This file must have been previously indexed.'\n        },\n        limit: {\n          type: 'number',\n          description: 'Maximum number of similar files to return (default: 10). Results are sorted by similarity score.',\n          default: 10\n        },\n        workspace: {\n          type: 'string',\n          description: 'Optional workspace name to filter results. Only files within the workspace directories will be considered. Use server_info to see available workspaces.'\n        }\n      },\n      required: ['file_path']\n    }\n  },\n  {\n    name: 'get_content',\n    description: `Retrieve the full content of a file or specific chunks. Reads files directly from the filesystem.\n\nWhen to use this tool:\n- Get complete file content after finding files through search\n- Read documentation, code files, or configuration files for analysis\n- Extract specific sections of large files using chunk ranges\n- Access any text-based file content\n\nHow it works:\n- Reads files directly from filesystem (not from search index)\n- Returns entire file by default\n- Can return specific chunk ranges for indexed files\n- Preserves original formatting and content\n\nExamples:\n- Get full file: file_path=\"/home/user/docs/api.md\"\n- Get specific chunks: file_path=\"/home/user/code/main.py\", chunks=\"2-5\"\n- Get single chunk: file_path=\"/home/user/config.json\", chunks=\"1\"\n\nReturns file content as text. Use this after search or similar_files to read actual content.`,\n    inputSchema: {\n      type: 'object',\n      properties: {\n        file_path: {\n          type: 'string',\n          description: 'Absolute or relative path to the file to retrieve. File must be readable and text-based.'\n        },\n        chunks: {\n          type: 'string',\n          description: 'Optional chunk range specification. Examples: \"3\" (single chunk), \"2-5\" (chunks 2 through 5), \"1-3\" (first three chunks). Only works for indexed files.'\n        }\n      },\n      required: ['file_path']\n    }\n  },\n  {\n    name: 'get_chunk',\n    description: `Retrieve content of a specific chunk from an indexed file. Gets exact text segments identified during search.\n\nWhen to use this tool:\n- Get specific relevant sections after performing a search\n- Access only the most pertinent parts of large files\n- Retrieve content from high-scoring chunks identified in search results\n- Avoid reading entire files when only specific sections are needed\n\nHow it works:\n- Files are split into overlapping text chunks during indexing\n- Each chunk has a sequential ID (\"0\", \"1\", \"2\", etc.)\n- Search results include chunk IDs for relevant sections\n- Returns the exact content that was semantically matched\n\nExamples:\n- After search returns chunk \"3\" from \"api-docs.md\" with high score\n- Get chunk content: file_path=\"/docs/api-docs.md\", chunk_id=\"3\"\n- Returns the specific text segment that matched your query\n\nReturns chunk content as text. Use this with chunk IDs from search results to get precise content sections.`,\n    inputSchema: {\n      type: 'object',\n      properties: {\n        file_path: {\n          type: 'string',\n          description: 'Absolute or relative path to the indexed file containing the desired chunk.'\n        },\n        chunk_id: {\n          type: 'string',\n          description: 'ID of the specific chunk to retrieve. This is typically obtained from search results and is a sequential string like \"0\", \"1\", \"2\", etc.'\n        }\n      },\n      required: ['file_path', 'chunk_id']\n    }\n  },\n  {\n    name: 'server_info',\n    description: `Get information about server status and indexed content. Shows what directories and files are available for search.\n\nWhen to use this tool:\n- Check what content is already indexed before performing searches\n- Verify system is working properly\n- See indexing statistics and status\n- Understand scope of available searchable content\n\nHow it works:\n- Reports total indexed directories, files, and chunks\n- Shows database size and last indexing time\n- Lists all indexed directories with file counts\n- Reports any errors or issues\n\nExamples:\n- Check before searching: \"What content is indexed?\"\n- Verify after indexing: \"Did the indexing complete successfully?\"\n- Monitor system: \"How many files are searchable?\"\n\nReturns server version, indexing statistics, directory list, and any errors. Use this to understand what content is available for search and similar_files tools.`,\n    inputSchema: {\n      type: 'object',\n      properties: {},\n      additionalProperties: false\n    }\n  }\n];\n\nexport async function startMcpServer(config: Config): Promise<void> {\n  const server = new Server(\n    {\n      name: 'directory-indexer',\n      version: VERSION\n    },\n    {\n      capabilities: {\n        tools: {}\n      }\n    }\n  );\n\n  server.setRequestHandler(ListToolsRequestSchema, async () => {\n    return {\n      tools: MCP_TOOLS\n    };\n  });\n\n  server.setRequestHandler(CallToolRequestSchema, async (request) => {\n    const { name, arguments: args } = request.params;\n\n    try {\n      switch (name) {\n        case 'index':\n          return await handleIndexTool(args, config);\n        \n        case 'search':\n          return await handleSearchTool(args);\n        \n        case 'similar_files':\n          return await handleSimilarFilesTool(args);\n        \n        case 'get_content':\n          return await handleGetContentTool(args);\n        \n        case 'get_chunk':\n          return await handleGetChunkTool(args);\n        \n        case 'server_info':\n          return await handleServerInfoTool(VERSION);\n        \n        default:\n          throw new Error(`Unknown tool: ${name}`);\n      }\n    } catch (error) {\n      return formatErrorResponse(error);\n    }\n  });\n\n  const transport = new StdioServerTransport();\n  await server.connect(transport);\n  \n  if (config.verbose) {\n    console.error('MCP server started successfully');\n  }\n}","#!/usr/bin/env node\n\nimport { Command } from 'commander';\nimport { fileURLToPath } from 'url';\nimport { readFileSync } from 'fs';\nimport { join, dirname } from 'path';\nimport { indexDirectories } from './indexing.js';\nimport { searchContent, findSimilarFiles, getFileContent } from './search.js';\nimport { loadConfig } from './config.js';\nimport { getIndexStatus } from './storage.js';\nimport { startMcpServer } from './mcp.js';\n\n// Read version from package.json\nconst __dirname = dirname(fileURLToPath(import.meta.url));\nconst packageJsonPath = join(__dirname, '../package.json');\nconst packageJson = JSON.parse(readFileSync(packageJsonPath, 'utf-8'));\nconst VERSION = packageJson.version;\n\nexport async function main() {\n  const program = new Command();\n  \n  program\n    .name('directory-indexer')\n    .description('AI-powered directory indexing with semantic search')\n    .version(VERSION);\n\n  program\n    .command('index')\n    .description('Index directories for semantic search')\n    .argument('<paths...>', 'Directory paths to index')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (paths: string[], options) => {\n      try {\n        const config = await loadConfig({ verbose: options.verbose });\n        console.log(`Indexing ${paths.length} ${paths.length === 1 ? 'directory' : 'directories'}: ${paths.join(', ')}`);\n        const result = await indexDirectories(paths, config);\n        console.log(`Indexed ${result.indexed} files, skipped ${result.skipped} files, ${result.errors.length} errors`);\n        if (result.errors.length > 0 && config.verbose) {\n          console.log('Errors:', result.errors);\n        }\n      } catch (error) {\n        console.error('Error indexing directories:', error);\n        process.exit(1);\n      }\n    });\n\n  program\n    .command('search')\n    .description('Search indexed content semantically')\n    .argument('<query>', 'Search query')\n    .option('-l, --limit <number>', 'Maximum number of results', '10')\n    .option('-c, --show-chunks', 'Show individual chunk scores and IDs')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (query: string, options) => {\n      try {\n        await loadConfig({ verbose: options.verbose });\n        const results = await searchContent(query, { limit: parseInt(options.limit) });\n        \n        if (results.length === 0) {\n          console.log('No results found');\n          return;\n        }\n\n        console.log(`Found ${results.length} results:\\n`);\n        results.forEach((result, index) => {\n          console.log(`${index + 1}. ${result.filePath}`);\n          console.log(`   Score: ${result.score.toFixed(3)} (${result.matchingChunks} chunks)`);\n          \n          if (options.showChunks && result.chunks.length > 0) {\n            console.log(`   Chunks:`);\n            result.chunks.forEach(chunk => {\n              console.log(`     - Chunk ${chunk.chunkId}: ${chunk.score.toFixed(3)}`);\n            });\n          }\n          \n          console.log();\n        });\n      } catch (error) {\n        console.error('Error searching content:', error);\n        process.exit(1);\n      }\n    });\n\n  program\n    .command('similar')\n    .description('Find files similar to a given file')\n    .argument('<file>', 'File path to find similar files for')\n    .option('-l, --limit <number>', 'Maximum number of results', '10')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (filePath: string, options) => {\n      try {\n        await loadConfig({ verbose: options.verbose });\n        const results = await findSimilarFiles(filePath, parseInt(options.limit));\n        \n        if (results.length === 0) {\n          console.log('No similar files found');\n          return;\n        }\n\n        console.log(`Found ${results.length} similar files:\\n`);\n        results.forEach((result, index) => {\n          console.log(`${index + 1}. ${result.filePath}`);\n          console.log(`   Similarity: ${result.score.toFixed(3)}`);\n          console.log();\n        });\n      } catch (error) {\n        console.error('Error finding similar files:', error);\n        process.exit(1);\n      }\n    });\n\n  program\n    .command('get')\n    .description('Get file content')\n    .argument('<file>', 'File path to retrieve')\n    .option('-c, --chunks <range>', 'Chunk range (e.g., \"2-5\")')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (filePath: string, options) => {\n      try {\n        await loadConfig({ verbose: options.verbose });\n        const content = await getFileContent(filePath, options.chunks);\n        console.log(content);\n      } catch (error) {\n        console.error('Error getting file content:', error);\n        process.exit(1);\n      }\n    });\n\n  program\n    .command('serve')\n    .description('Start MCP server')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (options) => {\n      try {\n        const config = await loadConfig({ verbose: options.verbose });\n        await startMcpServer(config);\n      } catch (error) {\n        console.error('Error starting MCP server:', error);\n        process.exit(1);\n      }\n    });\n\n  program\n    .command('status')\n    .description('Show indexing status')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (options) => {\n      try {\n        await loadConfig({ verbose: options.verbose });\n        const status = await getIndexStatus();\n        \n        console.log('Directory Indexer Status Report');\n        console.log('=====================================');\n        console.log('');\n        console.log('OVERVIEW:');\n        console.log(`  • ${status.directoriesIndexed} directories have been indexed`);\n        console.log(`  • ${status.filesIndexed} files processed for semantic search`);\n        console.log(`  • ${status.chunksIndexed} text chunks available for AI search`);\n        console.log(`  • Database storage: ${status.databaseSize}`);\n        console.log(`  • Most recent indexing: ${status.lastIndexed || 'No indexing performed yet'}`);\n        \n        if (status.errors.length > 0) {\n          console.log(`  • Processing errors encountered: ${status.errors.length}`);\n          if (options.verbose) {\n            console.log('');\n            console.log('RECENT ERRORS:');\n            status.errors.slice(0, 5).forEach(error => {\n              console.log(`  - ${error}`);\n            });\n          }\n        }\n        \n        console.log('');\n        console.log('INDEXED DIRECTORIES:');\n        if (status.directories.length === 0) {\n          console.log('  No directories have been indexed yet.');\n          console.log('  Run \"directory-indexer index <path>\" to start indexing.');\n        } else {\n          status.directories.forEach(dir => {\n            console.log('');\n            console.log(`  Directory: ${dir.path}`);\n            console.log(`    • Indexing status: ${dir.status}`);\n            console.log(`    • Files processed: ${dir.filesCount}`);\n            console.log(`    • Searchable chunks: ${dir.chunksCount}`);\n            console.log(`    • Last indexed: ${dir.lastIndexed || 'Never completed'}`);\n            if (dir.errors.length > 0) {\n              console.log(`    • Files with errors: ${dir.errors.length}`);\n              if (options.verbose) {\n                console.log('    • Recent errors:');\n                dir.errors.slice(0, 3).forEach(error => {\n                  console.log(`      - ${error}`);\n                });\n              }\n            }\n          });\n        }\n        \n        if (!status.qdrantConsistency.isConsistent) {\n          console.log('');\n          console.log('SYSTEM STATUS:');\n          status.qdrantConsistency.issues.forEach(issue => {\n            console.log(`  • ${issue}`);\n          });\n          console.log('');\n          console.log('ℹ️  Note: Status messages above may be normal during setup or active indexing.');\n        } else {\n          console.log('');\n          console.log('SYSTEM STATUS:');\n          console.log('  • All systems operational - ready for AI-powered search');\n        }\n      } 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+{"version":3,"file":"cli.js","sources":["../src/mcp-handlers.ts","../src/mcp.ts","../src/cli.ts"],"sourcesContent":["import { Config } from './config.js';\nimport { indexDirectories } from './indexing.js';\nimport { searchContent, findSimilarFiles, getFileContent, getChunkContent } from './search.js';\nimport { getIndexStatus } from './storage.js';\nimport { CallToolResult } from '@modelcontextprotocol/sdk/types.js';\n\n// Type-safe interfaces for MCP tool arguments\ninterface IndexToolArgs {\n  directory_path: string;\n}\n\ninterface SearchToolArgs {\n  query: string;\n  limit?: number;\n  workspace?: string;\n}\n\ninterface SimilarFilesToolArgs {\n  file_path: string;\n  limit?: number;\n  workspace?: string;\n}\n\ninterface GetContentToolArgs {\n  file_path: string;\n  chunks?: string;\n}\n\ninterface GetChunkToolArgs {\n  file_path: string;\n  chunk_id: string;\n}\n\n// Type guard functions\nfunction isIndexToolArgs(args: unknown): args is IndexToolArgs {\n  return typeof args === 'object' && args !== null && \n         typeof (args as IndexToolArgs).directory_path === 'string';\n}\n\nfunction isSearchToolArgs(args: unknown): args is SearchToolArgs {\n  return typeof args === 'object' && args !== null && \n         typeof (args as SearchToolArgs).query === 'string';\n}\n\nfunction isSimilarFilesToolArgs(args: unknown): args is SimilarFilesToolArgs {\n  return typeof args === 'object' && args !== null && \n         typeof (args as SimilarFilesToolArgs).file_path === 'string';\n}\n\nfunction isGetContentToolArgs(args: unknown): args is GetContentToolArgs {\n  return typeof args === 'object' && args !== null && \n         typeof (args as GetContentToolArgs).file_path === 'string';\n}\n\nfunction isGetChunkToolArgs(args: unknown): args is GetChunkToolArgs {\n  return typeof args === 'object' && args !== null && \n         typeof (args as GetChunkToolArgs).file_path === 'string' &&\n         typeof (args as GetChunkToolArgs).chunk_id === 'string';\n}\n\nexport async function handleIndexTool(args: unknown, config: Config): Promise<CallToolResult> {\n  if (!isIndexToolArgs(args)) {\n    throw new Error('directory_path is required');\n  }\n  \n  const paths = args.directory_path.split(',').map((p: string) => p.trim());\n  const result = await indexDirectories(paths, config);\n  \n  let responseText = `Indexed ${result.indexed} files, skipped ${result.skipped} files, ${result.failed} failed`;\n  \n  if (result.errors.length > 0) {\n    responseText += `\\nErrors: [\\n`;\n    result.errors.forEach(error => {\n      responseText += `  '${error}'\\n`;\n    });\n    responseText += `]`;\n  }\n  \n  return {\n    content: [\n      {\n        type: 'text',\n        text: responseText\n      }\n    ]\n  };\n}\n\nasync function validateWorkspace(workspace?: string): Promise<{ workspace?: string; message?: string }> {\n  if (!workspace) return { workspace };\n  \n  const config = (await import('./config.js')).loadConfig();\n  const { getAvailableWorkspaces } = await import('./config.js');\n  const availableWorkspaces = getAvailableWorkspaces(config);\n  \n  if (availableWorkspaces.includes(workspace)) {\n    return { workspace };\n  }\n  \n  // Invalid workspace - search all content with informative message\n  const message = availableWorkspaces.length > 0\n    ? `Note: Workspace '${workspace}' not found. Searching all content instead. Available workspaces: ${availableWorkspaces.join(', ')}. Use server_info tool to see workspace details.`\n    : `Note: Workspace '${workspace}' not found and no workspaces are configured. Searching all indexed content.`;\n  \n  return { workspace: undefined, message };\n}\n\nexport async function handleSearchTool(args: unknown): Promise<CallToolResult> {\n  if (!isSearchToolArgs(args)) {\n    throw new Error('query is required');\n  }\n  \n  const { workspace, message } = await validateWorkspace(args.workspace);\n  const results = await searchContent(args.query, { limit: args.limit || 10, workspace });\n  \n  const response = message \n    ? `${message}\\n\\n${JSON.stringify(results, null, 2)}`\n    : JSON.stringify(results, null, 2);\n  \n  return {\n    content: [{ type: 'text', text: response }]\n  };\n}\n\nexport async function handleSimilarFilesTool(args: unknown): Promise<CallToolResult> {\n  if (!isSimilarFilesToolArgs(args)) {\n    throw new Error('file_path is required');\n  }\n  \n  const { workspace, message } = await validateWorkspace(args.workspace);\n  const results = await findSimilarFiles(args.file_path, args.limit || 10, workspace);\n  \n  const response = message \n    ? `${message}\\n\\n${JSON.stringify(results, null, 2)}`\n    : JSON.stringify(results, null, 2);\n  \n  return {\n    content: [{ type: 'text', text: response }]\n  };\n}\n\nexport async function handleGetContentTool(args: unknown): Promise<CallToolResult> {\n  if (!isGetContentToolArgs(args)) {\n    throw new Error('file_path is required');\n  }\n  \n  const content = await getFileContent(args.file_path, args.chunks);\n  \n  return {\n    content: [\n      {\n        type: 'text',\n        text: content\n      }\n    ]\n  };\n}\n\nexport async function handleGetChunkTool(args: unknown): Promise<CallToolResult> {\n  if (!isGetChunkToolArgs(args)) {\n    throw new Error('file_path and chunk_id are required');\n  }\n  \n  const content = await getChunkContent(args.file_path, args.chunk_id);\n  \n  return {\n    content: [\n      {\n        type: 'text',\n        text: content\n      }\n    ]\n  };\n}\n\nexport async function handleServerInfoTool(version: string): Promise<CallToolResult> {\n  const status = await getIndexStatus();\n  \n  return {\n    content: [\n      {\n        type: 'text',\n        text: JSON.stringify({\n          name: 'directory-indexer',\n          version: version,\n          status: status\n        }, null, 2)\n      }\n    ]\n  };\n}\n\nexport function formatErrorResponse(error: unknown): CallToolResult {\n  const errorMessage = error instanceof Error ? error.message : 'Unknown error';\n  return {\n    content: [\n      {\n        type: 'text',\n        text: `Error: ${errorMessage}`\n      }\n    ],\n    isError: true\n  };\n}","import { Server } from '@modelcontextprotocol/sdk/server/index.js';\nimport { StdioServerTransport } from '@modelcontextprotocol/sdk/server/stdio.js';\nimport { \n  CallToolRequestSchema, \n  ListToolsRequestSchema,\n  Tool\n} from '@modelcontextprotocol/sdk/types.js';\nimport { readFileSync } from 'fs';\nimport { join, dirname } from 'path';\nimport { fileURLToPath } from 'url';\nimport { Config } from './config.js';\nimport { \n  handleIndexTool, \n  handleSearchTool, \n  handleSimilarFilesTool, \n  handleGetContentTool, \n  handleGetChunkTool, \n  handleServerInfoTool,\n  formatErrorResponse\n} from './mcp-handlers.js';\n\n// Read version from package.json\nconst __dirname = dirname(fileURLToPath(import.meta.url));\nconst packageJsonPath = join(__dirname, '../package.json');\nconst packageJson = JSON.parse(readFileSync(packageJsonPath, 'utf-8'));\nconst VERSION = packageJson.version;\n\nconst MCP_TOOLS: Tool[] = [\n  {\n    name: 'index',\n    description: `Index directories to make their files searchable. Processes files to create vector embeddings for semantic search.\n\nWhen to use this tool:\n- User specifically requests indexing a directory as a knowledge base\n- Adding new documentation, code repositories, or file collections to search\n- Updating index when many files have changed\n\nHow it works:\n- Recursively scans directories for supported file types\n- Extracts text content and splits into chunks\n- Generates vector embeddings for semantic similarity\n- Stores in database for fast retrieval\n\nExamples:\n- Index documentation: \"/home/user/docs/project-wiki\"\n- Index codebase: \"/home/user/projects/api-server\"\n- Index multiple directories: \"/home/user/docs,/home/user/configs\"\n\nIndexing can take several minutes for large directories. Most users will already have directories indexed and can directly use search tool. Use server_info to check current indexing status first.`,\n    inputSchema: {\n      type: 'object',\n      properties: {\n        directory_path: {\n          type: 'string',\n          description: 'Comma-separated list of absolute directory paths to index. Must be absolute paths since MCP server runs independently. Examples: \"/home/user/projects\" (Unix) or \"C:\\\\Users\\\\user\\\\projects\" (Windows)'\n        }\n      },\n      required: ['directory_path']\n    }\n  },\n  {\n    name: 'search',\n    description: `Search indexed files using natural language queries. Finds files containing content semantically similar to the query.\n\nWhen to use this tool:\n- Find documentation, guides, or explanations about specific topics\n- Locate code files implementing certain functionality or patterns\n- Discover configuration files, scripts, or settings related to a topic\n- Search for files covering specific concepts or technologies\n\nHow it works:\n- Converts query to vector embedding using semantic similarity\n- Searches all indexed file chunks for relevant content\n- Groups results by file and calculates average relevance scores\n- Returns files ranked by relevance score\n\nExamples:\n- \"database configuration and connection pooling setup\" - finds config files, documentation about DB setup\n- \"comprehensive error handling patterns and exception management\" - finds code files with exception handling\n- \"JWT authentication implementation and session management\" - finds auth-related code and docs\n- \"REST API documentation and endpoint specifications\" - finds API guides, endpoint definitions\n- \"Docker deployment scripts and CI/CD pipeline configuration\" - finds deployment automation\n\nReturns files with similarity scores and chunk information. Use get_content to retrieve full file content or get_chunk to retrieve specific chunk content by chunk ID.\n- Groups results by file to avoid duplicates from multiple matching sections\n\nResponse format:\n- Returns lightweight metadata including file paths, relevance scores, and chunk IDs\n- Use 'get_chunk' or 'get_content' tools to fetch actual content from search results\n- Chunks are sorted by relevance score within each file\n- Average similarity score calculated across all matching chunks per file\n\nExample queries:\n- \"error handling patterns and exception management strategies\" (finds try/catch, error classes, logging)\n- \"database migration scripts and schema versioning approaches\" (finds SQL, schema changes, migration files)\n- \"authentication middleware and JWT token validation logic\" (finds auth logic, JWT handling, middleware functions)`,\n    inputSchema: {\n      type: 'object',\n      properties: {\n        query: {\n          type: 'string',\n          description: 'Natural language search query describing what you are looking for. Can be concepts, functionality, or specific technical terms.'\n        },\n        limit: {\n          type: 'number',\n          description: 'Maximum number of files to return (default: 10). Each file may contain multiple matching chunks.',\n          default: 10\n        },\n        workspace: {\n          type: 'string',\n          description: 'Optional workspace name to filter search results. Only files within the workspace directories will be searched. IMPORTANT: Use server_info tool first to discover available workspace names - using invalid workspace names will result in empty results.'\n        }\n      },\n      required: ['query']\n    }\n  },\n  {\n    name: 'similar_files',\n    description: `Find files with content similar to a reference file. Uses semantic similarity to find related documents, code files, or any text content.\n\nWhen to use this tool:\n- Find documentation similar to a specific guide or README\n- Locate related code files, configuration files, or scripts\n- Discover alternative implementations or approaches\n- Find files covering similar topics or concepts\n\nHow it works:\n- Analyzes the semantic content of the reference file\n- Compares against all indexed files using vector similarity\n- Returns files ranked by content similarity score\n\nExamples:\n- Given \"deployment-guide.md\" - finds other deployment docs, CI/CD guides, infrastructure setup\n- Given \"troubleshooting.md\" - finds other troubleshooting guides, FAQ files, error documentation\n- Given \"config.yaml\" - finds other configuration files, settings, environment setups\n- Given \"auth.py\" - finds other authentication modules, security code, middleware\n\nReturns file paths with similarity scores. Use get_content to read full files or get_chunk for specific sections.`,\n    inputSchema: {\n      type: 'object',\n      properties: {\n        file_path: {\n          type: 'string',\n          description: 'Absolute or relative path to the reference file. This file must have been previously indexed.'\n        },\n        limit: {\n          type: 'number',\n          description: 'Maximum number of similar files to return (default: 10). Results are sorted by similarity score.',\n          default: 10\n        },\n        workspace: {\n          type: 'string',\n          description: 'Optional workspace name to filter results. Only files within the workspace directories will be considered. IMPORTANT: Use server_info tool first to discover available workspace names - using invalid workspace names will result in empty results.'\n        }\n      },\n      required: ['file_path']\n    }\n  },\n  {\n    name: 'get_content',\n    description: `Retrieve the full content of a file or specific chunks. Reads files directly from the filesystem.\n\nWhen to use this tool:\n- Get complete file content after finding files through search\n- Read documentation, code files, or configuration files for analysis\n- Extract specific sections of large files using chunk ranges\n- Access any text-based file content\n\nHow it works:\n- Reads files directly from filesystem (not from search index)\n- Returns entire file by default\n- Can return specific chunk ranges for indexed files\n- Preserves original formatting and content\n\nExamples:\n- Get full file: file_path=\"/home/user/docs/api.md\"\n- Get specific chunks: file_path=\"/home/user/code/main.py\", chunks=\"2-5\"\n- Get single chunk: file_path=\"/home/user/config.json\", chunks=\"1\"\n\nReturns file content as text. Use this after search or similar_files to read actual content.`,\n    inputSchema: {\n      type: 'object',\n      properties: {\n        file_path: {\n          type: 'string',\n          description: 'Absolute or relative path to the file to retrieve. File must be readable and text-based.'\n        },\n        chunks: {\n          type: 'string',\n          description: 'Optional chunk range specification. Examples: \"3\" (single chunk), \"2-5\" (chunks 2 through 5), \"1-3\" (first three chunks). Only works for indexed files.'\n        }\n      },\n      required: ['file_path']\n    }\n  },\n  {\n    name: 'get_chunk',\n    description: `Retrieve content of a specific chunk from an indexed file. Gets exact text segments identified during search.\n\nWhen to use this tool:\n- Get specific relevant sections after performing a search\n- Access only the most pertinent parts of large files\n- Retrieve content from high-scoring chunks identified in search results\n- Avoid reading entire files when only specific sections are needed\n\nHow it works:\n- Files are split into overlapping text chunks during indexing\n- Each chunk has a sequential ID (\"0\", \"1\", \"2\", etc.)\n- Search results include chunk IDs for relevant sections\n- Returns the exact content that was semantically matched\n\nExamples:\n- After search returns chunk \"3\" from \"api-docs.md\" with high score\n- Get chunk content: file_path=\"/docs/api-docs.md\", chunk_id=\"3\"\n- Returns the specific text segment that matched your query\n\nReturns chunk content as text. Use this with chunk IDs from search results to get precise content sections.`,\n    inputSchema: {\n      type: 'object',\n      properties: {\n        file_path: {\n          type: 'string',\n          description: 'Absolute or relative path to the indexed file containing the desired chunk.'\n        },\n        chunk_id: {\n          type: 'string',\n          description: 'ID of the specific chunk to retrieve. This is typically obtained from search results and is a sequential string like \"0\", \"1\", \"2\", etc.'\n        }\n      },\n      required: ['file_path', 'chunk_id']\n    }\n  },\n  {\n    name: 'server_info',\n    description: `Get information about server status and indexed content. Shows what directories and files are available for search.\n\nWhen to use this tool:\n- REQUIRED: Check available workspace names before using workspace parameter in search or similar_files tools\n- Check what content is already indexed before performing searches\n- Verify system is working properly\n- See indexing statistics and status\n- Understand scope of available searchable content\n\nHow it works:\n- Reports total indexed directories, files, and chunks\n- Shows database size and last indexing time\n- Lists all indexed directories with file counts\n- Lists all configured workspaces with their paths and file counts\n- Reports any errors or issues\n\nExamples:\n- Check workspaces before searching: \"What workspaces are available?\"\n- Check before searching: \"What content is indexed?\"\n- Verify after indexing: \"Did the indexing complete successfully?\"\n- Monitor system: \"How many files are searchable?\"\n\nReturns server version, indexing statistics, directory list, workspace information, and any errors. IMPORTANT: Always use this tool first to discover available workspace names when you need to search within specific workspaces.`,\n    inputSchema: {\n      type: 'object',\n      properties: {},\n      additionalProperties: false\n    }\n  }\n];\n\nexport async function startMcpServer(config: Config): Promise<void> {\n  const server = new Server(\n    {\n      name: 'directory-indexer',\n      version: VERSION\n    },\n    {\n      capabilities: {\n        tools: {}\n      }\n    }\n  );\n\n  server.setRequestHandler(ListToolsRequestSchema, async () => {\n    return {\n      tools: MCP_TOOLS\n    };\n  });\n\n  server.setRequestHandler(CallToolRequestSchema, async (request) => {\n    const { name, arguments: args } = request.params;\n\n    try {\n      switch (name) {\n        case 'index':\n          return await handleIndexTool(args, config);\n        \n        case 'search':\n          return await handleSearchTool(args);\n        \n        case 'similar_files':\n          return await handleSimilarFilesTool(args);\n        \n        case 'get_content':\n          return await handleGetContentTool(args);\n        \n        case 'get_chunk':\n          return await handleGetChunkTool(args);\n        \n        case 'server_info':\n          return await handleServerInfoTool(VERSION);\n        \n        default:\n          throw new Error(`Unknown tool: ${name}`);\n      }\n    } catch (error) {\n      return formatErrorResponse(error);\n    }\n  });\n\n  const transport = new StdioServerTransport();\n  await server.connect(transport);\n  \n  if (config.verbose) {\n    console.error('MCP server started successfully');\n  }\n}","#!/usr/bin/env node\n\nimport { Command } from 'commander';\nimport { fileURLToPath } from 'url';\nimport { readFileSync } from 'fs';\nimport { join, dirname } from 'path';\nimport { indexDirectories } from './indexing.js';\nimport { searchContent, findSimilarFiles, getFileContent } from './search.js';\nimport { loadConfig } from './config.js';\nimport { getIndexStatus } from './storage.js';\nimport { startMcpServer } from './mcp.js';\n\n// Read version from package.json\nconst __dirname = dirname(fileURLToPath(import.meta.url));\nconst packageJsonPath = join(__dirname, '../package.json');\nconst packageJson = JSON.parse(readFileSync(packageJsonPath, 'utf-8'));\nconst VERSION = packageJson.version;\n\nexport async function main() {\n  const program = new Command();\n  \n  program\n    .name('directory-indexer')\n    .description('AI-powered directory indexing with semantic search')\n    .version(VERSION);\n\n  program\n    .command('index')\n    .description('Index directories for semantic search')\n    .argument('<paths...>', 'Directory paths to index')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (paths: string[], options) => {\n      try {\n        const config = await loadConfig({ verbose: options.verbose });\n        console.log(`Indexing ${paths.length} ${paths.length === 1 ? 'directory' : 'directories'}: ${paths.join(', ')}`);\n        const result = await indexDirectories(paths, config);\n        console.log(`Indexed ${result.indexed} files, skipped ${result.skipped} files, ${result.failed} failed`);\n        if (result.errors.length > 0) {\n          console.log(`Errors: [`);\n          result.errors.forEach(error => {\n            console.log(`  '${error}'`);\n          });\n          console.log(`]`);\n        }\n      } catch (error) {\n        console.error('Error indexing directories:', error);\n        process.exit(1);\n      }\n    });\n\n  program\n    .command('search')\n    .description('Search indexed content semantically')\n    .argument('<query>', 'Search query')\n    .option('-l, --limit <number>', 'Maximum number of results', '10')\n    .option('-c, --show-chunks', 'Show individual chunk scores and IDs')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (query: string, options) => {\n      try {\n        await loadConfig({ verbose: options.verbose });\n        const results = await searchContent(query, { limit: parseInt(options.limit) });\n        \n        if (results.length === 0) {\n          console.log('No results found');\n          return;\n        }\n\n        console.log(`Found ${results.length} results:\\n`);\n        results.forEach((result, index) => {\n          console.log(`${index + 1}. ${result.filePath}`);\n          console.log(`   Score: ${result.score.toFixed(3)} (${result.matchingChunks} chunks)`);\n          \n          if (options.showChunks && result.chunks.length > 0) {\n            console.log(`   Chunks:`);\n            result.chunks.forEach(chunk => {\n              console.log(`     - Chunk ${chunk.chunkId}: ${chunk.score.toFixed(3)}`);\n            });\n          }\n          \n          console.log();\n        });\n      } catch (error) {\n        console.error('Error searching content:', error);\n        process.exit(1);\n      }\n    });\n\n  program\n    .command('similar')\n    .description('Find files similar to a given file')\n    .argument('<file>', 'File path to find similar files for')\n    .option('-l, --limit <number>', 'Maximum number of results', '10')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (filePath: string, options) => {\n      try {\n        await loadConfig({ verbose: options.verbose });\n        const results = await findSimilarFiles(filePath, parseInt(options.limit));\n        \n        if (results.length === 0) {\n          console.log('No similar files found');\n          return;\n        }\n\n        console.log(`Found ${results.length} similar files:\\n`);\n        results.forEach((result, index) => {\n          console.log(`${index + 1}. ${result.filePath}`);\n          console.log(`   Similarity: ${result.score.toFixed(3)}`);\n          console.log();\n        });\n      } catch (error) {\n        console.error('Error finding similar files:', error);\n        process.exit(1);\n      }\n    });\n\n  program\n    .command('get')\n    .description('Get file content')\n    .argument('<file>', 'File path to retrieve')\n    .option('-c, --chunks <range>', 'Chunk range (e.g., \"2-5\")')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (filePath: string, options) => {\n      try {\n        await loadConfig({ verbose: options.verbose });\n        const content = await getFileContent(filePath, options.chunks);\n        console.log(content);\n      } catch (error) {\n        console.error('Error getting file content:', error);\n        process.exit(1);\n      }\n    });\n\n  program\n    .command('serve')\n    .description('Start MCP server')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (options) => {\n      try {\n        const config = await loadConfig({ verbose: options.verbose });\n        await startMcpServer(config);\n      } catch (error) {\n        console.error('Error starting MCP server:', error);\n        process.exit(1);\n      }\n    });\n\n  program\n    .command('status')\n    .description('Show indexing status')\n    .option('-v, --verbose', 'Enable verbose logging')\n    .action(async (options) => {\n      try {\n        await loadConfig({ verbose: options.verbose });\n        const status = await getIndexStatus();\n        \n        console.log('Directory Indexer Status Report');\n        console.log('=====================================');\n        console.log('');\n        console.log('OVERVIEW:');\n        console.log(`  • ${status.directoriesIndexed} directories have been indexed`);\n        console.log(`  • ${status.filesIndexed} files processed for semantic search`);\n        console.log(`  • ${status.chunksIndexed} text chunks available for AI search`);\n        console.log(`  • Database storage: ${status.databaseSize}`);\n        console.log(`  • Most recent indexing: ${status.lastIndexed || 'No indexing performed yet'}`);\n        \n        if (status.errors.length > 0) {\n          console.log(`  • Processing errors encountered: ${status.errors.length}`);\n          if (options.verbose) {\n            console.log('');\n            console.log('RECENT ERRORS:');\n            status.errors.slice(0, 5).forEach(error => {\n              console.log(`  - ${error}`);\n            });\n          }\n        }\n        \n        console.log('');\n        console.log('INDEXED DIRECTORIES:');\n        if (status.directories.length === 0) {\n          console.log('  No directories have been indexed yet.');\n          console.log('  Run \"directory-indexer index <path>\" to start indexing.');\n        } else {\n          status.directories.forEach(dir => {\n            console.log('');\n            console.log(`  Directory: ${dir.path}`);\n            console.log(`    • Indexing status: ${dir.status}`);\n            console.log(`    • Files processed: ${dir.filesCount}`);\n            console.log(`    • Searchable chunks: ${dir.chunksCount}`);\n            console.log(`    • Last indexed: ${dir.lastIndexed || 'Never completed'}`);\n            if (dir.errors.length > 0) {\n              console.log(`    • Files with errors: ${dir.errors.length}`);\n              if (options.verbose) {\n                console.log('    • Recent errors:');\n                dir.errors.slice(0, 3).forEach(error => {\n                  console.log(`      - ${error}`);\n                });\n              }\n            }\n          });\n        }\n        \n        if (!status.qdrantConsistency.isConsistent) {\n          console.log('');\n          console.log('SYSTEM STATUS:');\n          status.qdrantConsistency.issues.forEach(issue => {\n            console.log(`  • ${issue}`);\n          });\n          console.log('');\n          console.log('ℹ️  Note: Status messages above may be normal during setup or active indexing.');\n        } else {\n          console.log('');\n          console.log('SYSTEM STATUS:');\n          console.log('  • All systems operational - ready for AI-powered search');\n        }\n      } catch (error) {\n        console.error('Error getting status:', error);\n        process.exit(1);\n      }\n    });\n\n  await program.parseAsync();\n}\n\n// Main function is already exported 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package/dist/indexing.js

@@ -114,6 +114,7 @@ async function shouldReprocessFile(filePath, existingRecord, config) {
 async function indexDirectories(paths, config) {
   let indexed = 0;
   let skipped = 0;
+  let failed = 0;
   const errors = [];
   const scanOptions = {
     ignorePatterns: config.indexing.ignorePatterns,
@@ -181,7 +182,10 @@ async function indexDirectories(paths, config) {
         } catch (error) {
           const errorMessage = error instanceof Error ? error.message : String(error);
           const causeMessage = error instanceof Error && error.cause ? `: ${error.cause.message}` : "";
-          errors.push(`Failed to process ${file.path}: ${errorMessage}${causeMessage}`);
+          const fullError = `Failed to process ${file.path}: ${errorMessage}${causeMessage}`;
+          errors.push(fullError);
+          failed++;
+          console.error(`❌ ${fullError}`);
         }
       }
       const directoryErrors = errors.filter((err) => err.includes(path));
@@ -193,7 +197,7 @@ async function indexDirectories(paths, config) {
       errors.push(`Failed to scan directory ${path}: ${error.message}`);
     }
   }
-  return { indexed, skipped, errors };
+  return { indexed, skipped, failed, errors };
 }
 export {
   IndexingError,

package/dist/indexing.js.map

@@ -1 +1 @@
-{"version":3,"file":"indexing.js","sources":["../src/indexing.ts"],"sourcesContent":["import { promises as fs } from 'fs';\nimport { join } from 'path';\nimport { Config } from './config.js';\nimport { \n  FileInfo, \n  ChunkInfo, \n  normalizePath, \n  getFileInfo, \n  shouldIgnoreFile, \n  isSupportedFileType,\n  isDirectory,\n  isFile\n} from './utils.js';\nimport { generateEmbedding } from './embedding.js';\nimport { initializeStorage, FileRecord } from './storage.js';\n\nexport interface ScanOptions {\n  ignorePatterns: string[];\n  maxFileSize: number;\n}\n\nexport interface IndexResult {\n  indexed: number;\n  skipped: number;\n  errors: string[];\n}\n\nexport class IndexingError extends Error {\n  constructor(message: string, public override cause?: Error) {\n    super(message);\n    this.name = 'IndexingError';\n  }\n}\n\nexport function chunkText(content: string, chunkSize: number, overlap: number): ChunkInfo[] {\n  if (content.length <= chunkSize) {\n    return [{\n      id: '0',\n      content,\n      startIndex: 0,\n      endIndex: content.length\n    }];\n  }\n  \n  const chunks: ChunkInfo[] = [];\n  let startIndex = 0;\n  let chunkId = 0;\n  \n  while (startIndex < content.length) {\n    const endIndex = Math.min(startIndex + chunkSize, content.length);\n    const chunkContent = content.slice(startIndex, endIndex);\n    \n    chunks.push({\n      id: chunkId.toString(),\n      content: chunkContent,\n      startIndex,\n      endIndex\n    });\n    \n    chunkId++;\n    const nextStart = endIndex - overlap;\n    \n    if (nextStart <= startIndex) {\n      startIndex = startIndex + Math.max(1, chunkSize - overlap);\n    } else {\n      startIndex = nextStart;\n    }\n    \n    if (startIndex >= content.length) break;\n  }\n  \n  return chunks;\n}\n\nexport async function scanDirectory(dirPath: string, options: ScanOptions): Promise<FileInfo[]> {\n  const files: FileInfo[] = [];\n  const visited = new Set<string>();\n  \n  async function walkDirectory(currentPath: string): Promise<void> {\n    const normalizedPath = normalizePath(currentPath);\n    \n    if (visited.has(normalizedPath)) {\n      return;\n    }\n    visited.add(normalizedPath);\n    \n    try {\n      if (shouldIgnoreFile(normalizedPath, options.ignorePatterns)) {\n        return;\n      }\n      \n      if (await isDirectory(normalizedPath)) {\n        const entries = await fs.readdir(normalizedPath);\n        \n        for (const entry of entries) {\n          const fullPath = join(normalizedPath, entry);\n          await walkDirectory(fullPath);\n        }\n      } else if (await isFile(normalizedPath)) {\n        if (!isSupportedFileType(normalizedPath)) {\n          return;\n        }\n        \n        const stats = await fs.stat(normalizedPath);\n        if (stats.size > options.maxFileSize) {\n          return;\n        }\n        \n        const fileInfo = await getFileInfo(normalizedPath);\n        files.push(fileInfo);\n      }\n    } catch (error) {\n      throw new IndexingError(`Failed to scan directory: ${normalizedPath}`, error as Error);\n    }\n  }\n  \n  await walkDirectory(dirPath);\n  return files;\n}\n\nexport async function getFileMetadata(filePath: string): Promise<FileInfo> {\n  try {\n    return await getFileInfo(filePath);\n  } catch (error) {\n    throw new IndexingError(`Failed to get file metadata`, error as Error);\n  }\n}\n\nasync function shouldReprocessFile(filePath: string, existingRecord: FileRecord, config: Config): Promise<boolean> {\n  try {\n    const fs = await import('fs/promises');\n    \n    // Try modtime check first (fast path)\n    const currentStats = await fs.stat(filePath);\n    const existingModTime = new Date(existingRecord.modifiedTime);\n    \n    // If modtime is clearly older, likely unchanged\n    if (currentStats.mtime <= existingModTime) {\n      return false; 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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "directory-indexer",
-  "version": "0.1.2",
+  "version": "0.1.3",
   "description": "AI-powered directory indexing with semantic search for MCP servers",
   "main": "dist/cli.js",
   "bin": {