npm - @fractary/codex-mcp - Versions diffs - 0.2.1 → 0.3.1 - Mend

@fractary/codex-mcp 0.2.1 → 0.3.1

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Files changed (4) hide show

package/README.md CHANGED Viewed

@@ -37,7 +37,7 @@ Add to your `.claude/settings.json`:
   "mcpServers": {
     "fractary-codex": {
       "command": "npx",
-      "args": ["-y", "@fractary/codex-mcp-server", "--config", ".fractary/codex.yaml"]
+      "args": ["-y", "@fractary/codex-mcp-server", "--config", ".fractary/codex/config.yaml"]
     }
   }
 }
@@ -46,7 +46,7 @@ Add to your `.claude/settings.json`:
 ### Stdio Mode (Default)
 ```bash
-fractary-codex-mcp --config .fractary/codex.yaml
+fractary-codex-mcp --config .fractary/codex/config.yaml
 ```
 The server communicates via stdin/stdout using the MCP protocol.
@@ -61,11 +61,11 @@ The server exposes an SSE (Server-Sent Events) endpoint for HTTP clients.
 ## Configuration
-Create a `.fractary/codex.yaml` configuration file:
+Create a `.fractary/codex/config.yaml` configuration file:
 ```yaml
 cache:
-  dir: .codex-cache
+  dir: .fractary/codex/cache
   maxMemorySize: 104857600  # 100 MB
   defaultTtl: 3600          # 1 hour
@@ -79,7 +79,7 @@ storage:
 ### Environment Variables
-- `FRACTARY_CONFIG`: Path to configuration file (default: `.fractary/codex.yaml`)
+- `FRACTARY_CONFIG`: Path to configuration file (default: `.fractary/codex/config.yaml`)
 - `GITHUB_TOKEN`: GitHub personal access token for GitHub storage provider
 ## Available Tools
@@ -241,7 +241,7 @@ If you were using the MCP server from `@fractary/codex` (versions ≤0.1.x), upd
   "mcpServers": {
     "fractary-codex": {
       "command": "npx",
-      "args": ["@fractary/codex", "mcp", "--config", ".fractary/codex.yaml"]
+      "args": ["@fractary/codex", "mcp", "--config", ".fractary/codex/config.yaml"]
     }
   }
 }
@@ -253,7 +253,7 @@ If you were using the MCP server from `@fractary/codex` (versions ≤0.1.x), upd
   "mcpServers": {
     "fractary-codex": {
       "command": "npx",
-      "args": ["-y", "@fractary/codex-mcp-server", "--config", ".fractary/codex.yaml"]
+      "args": ["-y", "@fractary/codex-mcp-server", "--config", ".fractary/codex/config.yaml"]
     }
   }
 }
@@ -270,14 +270,6 @@ MIT
 - [@fractary/codex](https://www.npmjs.com/package/@fractary/codex) - Core SDK
 - [@fractary/codex-cli](https://www.npmjs.com/package/@fractary/codex-cli) - CLI tool
-## Documentation
-- [Command Reference](../../docs/guides/command-reference.md) - Complete command reference for all interfaces
-- [API Reference](../../docs/guides/api-reference.md) - Complete API documentation
-- [Naming Conventions](../../docs/guides/naming-conventions.md) - Naming standards across all interfaces
-- [MCP Migration Guide](../../docs/guides/mcp-migration-guide.md) - Migrating from old MCP tool names
-- [Troubleshooting](../../docs/guides/troubleshooting.md) - Common issues and solutions
 ## Links
 - [GitHub Repository](https://github.com/fractary/codex)

package/dist/cli.js CHANGED Viewed

@@ -439,13 +439,13 @@ var McpServer = class {
 // src/cli.ts
 var program = new Command();
-program.name("fractary-codex-mcp").description("MCP server for Fractary Codex knowledge management").version("0.1.0").option("--config <path>", "Path to config file", ".fractary/codex.yaml").action(async (options) => {
+program.name("fractary-codex-mcp").description("MCP server for Fractary Codex knowledge management").version("0.3.1").option("--config <path>", "Path to config file", ".fractary/codex/config.yaml").action(async (options) => {
   let config = {};
   try {
     const configFile = readFileSync(options.config, "utf-8");
     config = yaml.load(configFile);
   } catch (error) {
-    if (options.config !== ".fractary/codex.yaml") {
+    if (options.config !== ".fractary/codex/config.yaml") {
       console.error(`Warning: Could not load config file: ${options.config}`);
     }
   }
@@ -456,7 +456,7 @@ program.name("fractary-codex-mcp").description("MCP server for Fractary Codex kn
   });
   const server = new McpServer({
     name: "fractary-codex",
-    version: "0.1.0",
+    version: "0.3.1",
     cache,
     storage
   });

package/dist/cli.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"sources":["../src/cli.ts","../src/server.ts","../src/tools.ts"],"sourcesContent":["#!/usr/bin/env node\n/*\n CLI entry point for @fractary/codex-mcp-server\n \n Provides MCP server with stdio transport.\n /\n\nimport { Command } from 'commander'\nimport { createCacheManager, createStorageManager } from '@fractary/codex'\nimport { readFileSync } from 'fs'\nimport as yaml from 'js-yaml'\nimport { McpServer } from './server.js'\n\nconst program = new Command()\n\nprogram\n .name('fractary-codex-mcp')\n .description('MCP server for Fractary Codex knowledge management')\n .version('0.1.0')\n .option('--config <path>', 'Path to config file', '.fractary/codex.yaml')\n .action(async (options) => {\n // Load configuration\n let config: Record<string, unknown> = {}\n try {\n const configFile = readFileSync(options.config, 'utf-8')\n config = yaml.load(configFile) as Record<string, unknown>\n } catch (error) {\n // Config file is optional - continue with defaults\n if (options.config !== '.fractary/codex.yaml') {\n console.error(`Warning: Could not load config file: ${options.config}`)\n }\n }\n\n // Initialize storage and cache managers\n const storage = createStorageManager(config.storage as Record<string, unknown> \| undefined)\n const cache = createCacheManager({\n cacheDir: (config.cache as Record<string, unknown>)?.cacheDir as string \|\| '.fractary/cache',\n ...(config.cache as Record<string, unknown>),\n })\n\n // Create MCP server\n const server = new McpServer({\n name: 'fractary-codex',\n version: '0.1.0',\n cache,\n storage,\n })\n\n // Stdio mode\n process.stdin.setEncoding('utf-8')\n\n let buffer = ''\n process.stdin.on('data', async (chunk) => {\n buffer += chunk\n const lines = buffer.split('\\n')\n buffer = lines.pop() \|\| ''\n\n for (const line of lines) {\n if (line.trim()) {\n try {\n const message = JSON.parse(line)\n const response = await handleMessage(server, message)\n process.stdout.write(JSON.stringify(response) + '\\n')\n } catch (error) {\n const errorResponse = {\n jsonrpc: '2.0',\n error: {\n code: -32700,\n message: 'Parse error',\n data: error instanceof Error ? error.message : 'Unknown error',\n },\n id: null,\n }\n process.stdout.write(JSON.stringify(errorResponse) + '\\n')\n }\n }\n }\n })\n\n process.stdin.on('end', () => {\n process.exit(0)\n })\n\n console.error('MCP server running in stdio mode')\n })\n\n/*\n Handle a JSON-RPC message\n /\nasync function handleMessage(\n server: McpServer,\n message: Record<string, unknown>\n): Promise<Record<string, unknown>> {\n const method = message.method as string\n const params = (message.params as Record<string, unknown>) \|\| {}\n const id = message.id\n\n try {\n let result: unknown\n\n switch (method) {\n case 'initialize':\n result = server.getServerInfo()\n break\n\n case 'tools/list':\n result = { tools: server.listTools() }\n break\n\n case 'tools/call': {\n const toolName = params.name as string\n const toolArgs = params.arguments as Record<string, unknown>\n result = await server.callTool(toolName, toolArgs)\n break\n }\n\n case 'resources/list':\n result = { resources: [] }\n break\n\n default:\n return {\n jsonrpc: '2.0',\n error: {\n code: -32601,\n message: `Method not found: ${method}`,\n },\n id,\n }\n }\n\n return {\n jsonrpc: '2.0',\n result,\n id,\n }\n } catch (error) {\n return {\n jsonrpc: '2.0',\n error: {\n code: -32603,\n message: 'Internal error',\n data: error instanceof Error ? error.message : 'Unknown error',\n },\n id,\n }\n }\n}\n\n// Run the program\nprogram.parse(process.argv)\n","/\n MCP Server implementation\n \n Implements a Model Context Protocol server for the Codex SDK.\n * This server can be used standalone or embedded in other applications.\n /\n\nimport type { CacheManager } from '@fractary/codex'\nimport type { StorageManager } from '@fractary/codex'\nimport { resolveReference } from '@fractary/codex'\nimport type {\n McpServerInfo,\n McpCapabilities,\n McpTool,\n McpResource,\n McpResourceTemplate,\n ResourceContent,\n ToolResult,\n} from './types.js'\nimport { CODEX_TOOLS, handleToolCall, type ToolHandlerContext } from './tools.js'\n\n/\n MCP Server configuration\n /\nexport interface McpServerConfig {\n /* Server name /\n name?: string\n /* Server version /\n version?: string\n /* Cache manager instance /\n cache: CacheManager\n /* Storage manager instance /\n storage: StorageManager\n}\n\n/\n MCP Server for Codex\n \n Provides a Model Context Protocol server implementation that exposes\n * Codex functionality as MCP tools and resources.\n /\nexport class McpServer {\n private config: Required<Omit<McpServerConfig, 'cache' \| 'storage'>> & Pick<McpServerConfig, 'cache' \| 'storage'>\n private toolContext: ToolHandlerContext\n\n constructor(config: McpServerConfig) {\n this.config = {\n name: config.name ?? 'codex',\n version: config.version ?? '1.0.0',\n cache: config.cache,\n storage: config.storage,\n }\n\n this.toolContext = {\n cache: config.cache,\n storage: config.storage,\n }\n }\n\n /\n Get server info\n /\n getServerInfo(): McpServerInfo {\n return {\n name: this.config.name,\n version: this.config.version,\n capabilities: this.getCapabilities(),\n }\n }\n\n /\n Get server capabilities\n /\n getCapabilities(): McpCapabilities {\n return {\n tools: {\n listChanged: false,\n },\n resources: {\n subscribe: false,\n listChanged: false,\n },\n }\n }\n\n /\n List available tools\n /\n listTools(): McpTool[] {\n return CODEX_TOOLS\n }\n\n /\n Call a tool\n /\n async callTool(name: string, args: Record<string, unknown>): Promise<ToolResult> {\n return handleToolCall(name, args, this.toolContext)\n }\n\n /\n List available resources\n /\n async listResources(): Promise<McpResource[]> {\n // List cached documents as resources\n const resources: McpResource[] = []\n\n // Get cache stats for info\n const stats = await this.config.cache.getStats()\n\n // Add a summary resource\n resources.push({\n uri: 'codex://cache/summary',\n name: 'Cache Summary',\n description: `${stats.entryCount} cached documents`,\n mimeType: 'text/plain',\n })\n\n return resources\n }\n\n /\n List resource templates\n /\n listResourceTemplates(): McpResourceTemplate[] {\n return [\n {\n uriTemplate: 'codex://{org}/{project}/{path}',\n name: 'Codex Document',\n description: 'Fetch a document from the Codex knowledge base',\n mimeType: 'text/markdown',\n },\n ]\n }\n\n /\n Read a resource\n /\n async readResource(uri: string): Promise<ResourceContent[]> {\n // Handle special URIs\n if (uri === 'codex://cache/summary') {\n const stats = await this.config.cache.getStats()\n return [\n {\n uri,\n mimeType: 'text/plain',\n text: `Cache Statistics:\n- Total entries: ${stats.entryCount}\n- Memory entries: ${stats.memoryEntries}\n- Fresh: ${stats.freshCount}\n- Stale: ${stats.staleCount}\n- Expired: ${stats.expiredCount}`,\n },\n ]\n }\n\n // Resolve and fetch the reference\n const ref = resolveReference(uri)\n if (!ref) {\n throw new Error(`Invalid codex URI: ${uri}`)\n }\n\n const result = await this.config.cache.get(ref)\n return [\n {\n uri,\n mimeType: result.contentType,\n text: result.content.toString('utf-8'),\n },\n ]\n }\n\n /\n Handle JSON-RPC request\n \n This method handles the low-level MCP protocol messages.\n /\n async handleRequest(method: string, params?: Record<string, unknown>): Promise<unknown> {\n switch (method) {\n case 'initialize':\n return {\n protocolVersion: '2024-11-05',\n serverInfo: this.getServerInfo(),\n capabilities: this.getCapabilities(),\n }\n\n case 'tools/list':\n return { tools: this.listTools() }\n\n case 'tools/call': {\n const { name, arguments: args } = params as { name: string; arguments: Record<string, unknown> }\n return await this.callTool(name, args)\n }\n\n case 'resources/list':\n return { resources: await this.listResources() }\n\n case 'resources/templates/list':\n return { resourceTemplates: this.listResourceTemplates() }\n\n case 'resources/read': {\n const { uri } = params as { uri: string }\n return { contents: await this.readResource(uri) }\n }\n\n case 'prompts/list':\n return { prompts: [] }\n\n default:\n throw new Error(`Unknown method: ${method}`)\n }\n }\n\n /\n Process a JSON-RPC message\n /\n async processMessage(message: string): Promise<string> {\n let id: unknown = null\n\n try {\n const request = JSON.parse(message)\n id = request.id\n const { method, params } = request\n\n const result = await this.handleRequest(method, params)\n\n return JSON.stringify({\n jsonrpc: '2.0',\n id,\n result,\n })\n } catch (error) {\n const errorMessage = error instanceof Error ? error.message : String(error)\n\n return JSON.stringify({\n jsonrpc: '2.0',\n id,\n error: {\n code: -32603,\n message: errorMessage,\n },\n })\n }\n }\n}\n\n/\n Create an MCP server\n /\nexport function createMcpServer(config: McpServerConfig): McpServer {\n return new McpServer(config)\n}\n","/\n MCP Tool definitions and handlers\n \n Implements the tools exposed by the Codex MCP server.\n /\n\nimport type { CacheManager } from '@fractary/codex'\nimport type { StorageManager } from '@fractary/codex'\nimport { resolveReference } from '@fractary/codex'\nimport type {\n McpTool,\n ToolResult,\n FetchToolArgs,\n SearchToolArgs,\n ListToolArgs,\n CacheClearToolArgs,\n} from './types.js'\n\n/\n Tool definitions for the MCP server\n /\nexport const CODEX_TOOLS: McpTool[] = [\n {\n name: 'codex_document_fetch',\n description: 'Fetch a document from the Codex knowledge base by URI. Returns the document content.',\n inputSchema: {\n type: 'object',\n properties: {\n uri: {\n type: 'string',\n description: 'Codex URI in format: codex://org/project/path/to/file.md',\n },\n branch: {\n type: 'string',\n description: 'Git branch to fetch from (default: main)',\n },\n noCache: {\n type: 'boolean',\n description: 'Bypass cache and fetch fresh content',\n },\n },\n required: ['uri'],\n },\n },\n {\n name: 'codex_search',\n description: 'Search for documents in the Codex knowledge base.',\n inputSchema: {\n type: 'object',\n properties: {\n query: {\n type: 'string',\n description: 'Search query string',\n },\n org: {\n type: 'string',\n description: 'Filter by organization',\n },\n project: {\n type: 'string',\n description: 'Filter by project',\n },\n limit: {\n type: 'number',\n description: 'Maximum number of results (default: 10)',\n },\n type: {\n type: 'string',\n description: 'Filter by artifact type (e.g., docs, specs, logs)',\n },\n },\n required: ['query'],\n },\n },\n {\n name: 'codex_cache_list',\n description: 'List documents in the Codex cache.',\n inputSchema: {\n type: 'object',\n properties: {\n org: {\n type: 'string',\n description: 'Filter by organization',\n },\n project: {\n type: 'string',\n description: 'Filter by project',\n },\n includeExpired: {\n type: 'boolean',\n description: 'Include expired cache entries',\n },\n },\n },\n },\n {\n name: 'codex_cache_clear',\n description: 'Clear cached documents matching a pattern.',\n inputSchema: {\n type: 'object',\n properties: {\n pattern: {\n type: 'string',\n description: 'URI pattern to invalidate (supports regex)',\n },\n },\n required: ['pattern'],\n },\n },\n]\n\n/\n Tool handler context\n /\nexport interface ToolHandlerContext {\n cache: CacheManager\n storage: StorageManager\n}\n\n/\n Create a text result\n /\nfunction textResult(text: string, isError = false): ToolResult {\n return {\n content: [{ type: 'text', text }],\n isError,\n }\n}\n\n/\n Create a resource result\n /\nfunction resourceResult(uri: string, content: string, mimeType?: string): ToolResult {\n return {\n content: [\n {\n type: 'resource',\n resource: {\n uri,\n mimeType,\n text: content,\n },\n },\n ],\n }\n}\n\n/\n Handle codex_document_fetch tool\n /\nexport async function handleFetch(args: FetchToolArgs, ctx: ToolHandlerContext): Promise<ToolResult> {\n const { uri, branch, noCache } = args\n\n // Validate input\n if (!uri \|\| typeof uri !== 'string') {\n return textResult('URI is required and must be a string', true)\n }\n\n if (branch && typeof branch !== 'string') {\n return textResult('Branch must be a string', true)\n }\n\n // Resolve the reference\n const ref = resolveReference(uri)\n if (!ref) {\n return textResult(`Invalid codex URI: ${uri}`, true)\n }\n\n try {\n let result\n\n if (noCache) {\n // Bypass cache, fetch directly\n result = await ctx.storage.fetch(ref, { branch })\n // Still cache the result for next time\n await ctx.cache.set(uri, result)\n } else {\n // Use cache\n result = await ctx.cache.get(ref, { branch })\n }\n\n const content = result.content.toString('utf-8')\n return resourceResult(uri, content, result.contentType)\n } catch (error) {\n const message = error instanceof Error ? error.message : String(error)\n return textResult(`Failed to fetch ${uri}: ${message}`, true)\n }\n}\n\n/\n Handle codex_search tool\n \n Note: This is a basic implementation that searches cached entries.\n * A more sophisticated implementation might use a search index.\n /\nexport async function handleSearch(args: SearchToolArgs, ctx: ToolHandlerContext): Promise<ToolResult> {\n const { query, org, project, limit = 10 } = args\n\n // Validate input\n if (!query \|\| typeof query !== 'string') {\n return textResult('Query is required and must be a string', true)\n }\n\n if (query.length > 500) {\n return textResult('Query too long (max 500 characters)', true)\n }\n\n if (typeof limit !== 'number' \|\| limit < 1 \|\| limit > 100) {\n return textResult('Limit must be a number between 1 and 100', true)\n }\n\n // Get all cached entries\n const stats = await ctx.cache.getStats()\n if (stats.entryCount === 0) {\n return textResult('No documents in cache. Use codex_document_fetch to load documents first.')\n }\n\n // This is a simplified search - in a real implementation,\n // we would use a proper search index\n // For now, we search through the cached URIs and content\n\n // Note: This is a placeholder. The actual search implementation\n // would depend on having access to the cache persistence layer's\n // list of URIs and their content.\n\n const message = `Search functionality requires a search index.\nQuery: \"${query}\"\nFilters: org=${org \|\| 'any'}, project=${project \|\| 'any'}\nLimit: ${limit}\n\nTo fetch documents, use codex_document_fetch with a specific URI like:\ncodex://org/project/docs/file.md`\n\n return textResult(message)\n}\n\n/\n Handle codex_cache_list tool\n /\nexport async function handleList(args: ListToolArgs, ctx: ToolHandlerContext): Promise<ToolResult> {\n const { org, project, includeExpired } = args\n\n // Get cache stats and any available info\n const stats = await ctx.cache.getStats()\n\n let message = `Cache Statistics:\n- Total entries: ${stats.entryCount}\n- Memory entries: ${stats.memoryEntries}\n- Memory size: ${formatBytes(stats.memorySize)}\n- Total size: ${formatBytes(stats.totalSize)}\n- Fresh: ${stats.freshCount}\n- Stale: ${stats.staleCount}\n- Expired: ${stats.expiredCount}`\n\n if (org) {\n message += `\\n\\nFiltered by org: ${org}`\n }\n if (project) {\n message += `\\nFiltered by project: ${project}`\n }\n if (includeExpired) {\n message += `\\nIncluding expired entries`\n }\n\n return textResult(message)\n}\n\n/\n Validate and sanitize regex pattern to prevent ReDoS attacks\n /\nfunction validateRegexPattern(pattern: string): { valid: boolean; error?: string } {\n // Check pattern length (prevent extremely long patterns)\n if (pattern.length > 1000) {\n return { valid: false, error: 'Pattern too long (max 1000 characters)' }\n }\n\n // Check for common ReDoS patterns\n const redosPatterns = [\n /(\\.\\){3,}/, // Multiple consecutive .\n /(\\+\\+\|\\\\\|\\?\\?)/, // Nested quantifiers\n /(\\([^)]){10,}/, // Too many groups\n /(\\[[^\\]]{100,})/, // Very long character classes\n ]\n\n for (const redos of redosPatterns) {\n if (redos.test(pattern)) {\n return { valid: false, error: 'Pattern contains potentially dangerous constructs' }\n }\n }\n\n // Try to compile the regex to check for syntax errors\n try {\n new RegExp(pattern)\n return { valid: true }\n } catch (error) {\n const message = error instanceof Error ? error.message : 'Invalid regex'\n return { valid: false, error: message }\n }\n}\n\n/*\n Handle codex_cache_clear tool\n /\nexport async function handleCacheClear(args: CacheClearToolArgs, ctx: ToolHandlerContext): Promise<ToolResult> {\n const { pattern } = args\n\n if (!pattern \|\| typeof pattern !== 'string') {\n return textResult('Pattern is required and must be a string', true)\n }\n\n // Validate pattern to prevent ReDoS\n const validation = validateRegexPattern(pattern)\n if (!validation.valid) {\n return textResult(`Invalid pattern: ${validation.error}`, true)\n }\n\n try {\n const regex = new RegExp(pattern)\n const count = await ctx.cache.invalidatePattern(regex)\n\n return textResult(`Cleared ${count} cache entries matching pattern: ${pattern}`)\n } catch (error) {\n const message = error instanceof Error ? error.message : String(error)\n return textResult(`Failed to clear cache: ${message}`, true)\n }\n}\n\n/\n Route a tool call to its handler\n /\nexport async function handleToolCall(\n name: string,\n args: Record<string, unknown>,\n ctx: ToolHandlerContext\n): Promise<ToolResult> {\n switch (name) {\n case 'codex_document_fetch':\n return handleFetch(args as unknown as FetchToolArgs, ctx)\n case 'codex_search':\n return handleSearch(args as unknown as SearchToolArgs, ctx)\n case 'codex_cache_list':\n return handleList(args as unknown as ListToolArgs, ctx)\n case 'codex_cache_clear':\n return handleCacheClear(args as unknown as CacheClearToolArgs, ctx)\n default:\n return textResult(`Unknown tool: ${name}`, true)\n }\n}\n\n/\n Format bytes to human readable string\n */\nfunction formatBytes(bytes: number): string {\n if (bytes === 0) return '0 B'\n const k = 1024\n const sizes = ['B', 'KB', 'MB', 'GB']\n const i = Math.floor(Math.log(bytes) / Math.log(k))\n return `${parseFloat((bytes / Math.pow(k, i)).toFixed(2))} 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1	+ {"version":3,"sources":["../src/cli.ts","../src/server.ts","../src/tools.ts"],"sourcesContent":["#!/usr/bin/env node\n/*\n CLI entry point for @fractary/codex-mcp-server\n \n Provides MCP server with stdio transport.\n /\n\nimport { Command } from 'commander'\nimport { createCacheManager, createStorageManager } from '@fractary/codex'\nimport { readFileSync } from 'fs'\nimport as yaml from 'js-yaml'\nimport { McpServer } from './server.js'\n\nconst program = new Command()\n\nprogram\n .name('fractary-codex-mcp')\n .description('MCP server for Fractary Codex knowledge management')\n .version('0.3.1')\n .option('--config <path>', 'Path to config file', '.fractary/codex/config.yaml')\n .action(async (options) => {\n // Load configuration\n let config: Record<string, unknown> = {}\n try {\n const configFile = readFileSync(options.config, 'utf-8')\n config = yaml.load(configFile) as Record<string, unknown>\n } catch (error) {\n // Config file is optional - continue with defaults\n if (options.config !== '.fractary/codex/config.yaml') {\n console.error(`Warning: Could not load config file: ${options.config}`)\n }\n }\n\n // Initialize storage and cache managers\n const storage = createStorageManager(config.storage as Record<string, unknown> \| undefined)\n const cache = createCacheManager({\n cacheDir: (config.cache as Record<string, unknown>)?.cacheDir as string \|\| '.fractary/cache',\n ...(config.cache as Record<string, unknown>),\n })\n\n // Create MCP server\n const server = new McpServer({\n name: 'fractary-codex',\n version: '0.3.1',\n cache,\n storage,\n })\n\n // Stdio mode\n process.stdin.setEncoding('utf-8')\n\n let buffer = ''\n process.stdin.on('data', async (chunk) => {\n buffer += chunk\n const lines = buffer.split('\\n')\n buffer = lines.pop() \|\| ''\n\n for (const line of lines) {\n if (line.trim()) {\n try {\n const message = JSON.parse(line)\n const response = await handleMessage(server, message)\n process.stdout.write(JSON.stringify(response) + '\\n')\n } catch (error) {\n const errorResponse = {\n jsonrpc: '2.0',\n error: {\n code: -32700,\n message: 'Parse error',\n data: error instanceof Error ? error.message : 'Unknown error',\n },\n id: null,\n }\n process.stdout.write(JSON.stringify(errorResponse) + '\\n')\n }\n }\n }\n })\n\n process.stdin.on('end', () => {\n process.exit(0)\n })\n\n console.error('MCP server running in stdio mode')\n })\n\n/*\n Handle a JSON-RPC message\n /\nasync function handleMessage(\n server: McpServer,\n message: Record<string, unknown>\n): Promise<Record<string, unknown>> {\n const method = message.method as string\n const params = (message.params as Record<string, unknown>) \|\| {}\n const id = message.id\n\n try {\n let result: unknown\n\n switch (method) {\n case 'initialize':\n result = server.getServerInfo()\n break\n\n case 'tools/list':\n result = { tools: server.listTools() }\n break\n\n case 'tools/call': {\n const toolName = params.name as string\n const toolArgs = params.arguments as Record<string, unknown>\n result = await server.callTool(toolName, toolArgs)\n break\n }\n\n case 'resources/list':\n result = { resources: [] }\n break\n\n default:\n return {\n jsonrpc: '2.0',\n error: {\n code: -32601,\n message: `Method not found: ${method}`,\n },\n id,\n }\n }\n\n return {\n jsonrpc: '2.0',\n result,\n id,\n }\n } catch (error) {\n return {\n jsonrpc: '2.0',\n error: {\n code: -32603,\n message: 'Internal error',\n data: error instanceof Error ? error.message : 'Unknown error',\n },\n id,\n }\n }\n}\n\n// Run the program\nprogram.parse(process.argv)\n","/\n MCP Server implementation\n \n Implements a Model Context Protocol server for the Codex SDK.\n * This server can be used standalone or embedded in other applications.\n /\n\nimport type { CacheManager } from '@fractary/codex'\nimport type { StorageManager } from '@fractary/codex'\nimport { resolveReference } from '@fractary/codex'\nimport type {\n McpServerInfo,\n McpCapabilities,\n McpTool,\n McpResource,\n McpResourceTemplate,\n ResourceContent,\n ToolResult,\n} from './types.js'\nimport { CODEX_TOOLS, handleToolCall, type ToolHandlerContext } from './tools.js'\n\n/\n MCP Server configuration\n /\nexport interface McpServerConfig {\n /* Server name /\n name?: string\n /* Server version /\n version?: string\n /* Cache manager instance /\n cache: CacheManager\n /* Storage manager instance /\n storage: StorageManager\n}\n\n/\n MCP Server for Codex\n \n Provides a Model Context Protocol server implementation that exposes\n * Codex functionality as MCP tools and resources.\n /\nexport class McpServer {\n private config: Required<Omit<McpServerConfig, 'cache' \| 'storage'>> & Pick<McpServerConfig, 'cache' \| 'storage'>\n private toolContext: ToolHandlerContext\n\n constructor(config: McpServerConfig) {\n this.config = {\n name: config.name ?? 'codex',\n version: config.version ?? '1.0.0',\n cache: config.cache,\n storage: config.storage,\n }\n\n this.toolContext = {\n cache: config.cache,\n storage: config.storage,\n }\n }\n\n /\n Get server info\n /\n getServerInfo(): McpServerInfo {\n return {\n name: this.config.name,\n version: this.config.version,\n capabilities: this.getCapabilities(),\n }\n }\n\n /\n Get server capabilities\n /\n getCapabilities(): McpCapabilities {\n return {\n tools: {\n listChanged: false,\n },\n resources: {\n subscribe: false,\n listChanged: false,\n },\n }\n }\n\n /\n List available tools\n /\n listTools(): McpTool[] {\n return CODEX_TOOLS\n }\n\n /\n Call a tool\n /\n async callTool(name: string, args: Record<string, unknown>): Promise<ToolResult> {\n return handleToolCall(name, args, this.toolContext)\n }\n\n /\n List available resources\n /\n async listResources(): Promise<McpResource[]> {\n // List cached documents as resources\n const resources: McpResource[] = []\n\n // Get cache stats for info\n const stats = await this.config.cache.getStats()\n\n // Add a summary resource\n resources.push({\n uri: 'codex://cache/summary',\n name: 'Cache Summary',\n description: `${stats.entryCount} cached documents`,\n mimeType: 'text/plain',\n })\n\n return resources\n }\n\n /\n List resource templates\n /\n listResourceTemplates(): McpResourceTemplate[] {\n return [\n {\n uriTemplate: 'codex://{org}/{project}/{path}',\n name: 'Codex Document',\n description: 'Fetch a document from the Codex knowledge base',\n mimeType: 'text/markdown',\n },\n ]\n }\n\n /\n Read a resource\n /\n async readResource(uri: string): Promise<ResourceContent[]> {\n // Handle special URIs\n if (uri === 'codex://cache/summary') {\n const stats = await this.config.cache.getStats()\n return [\n {\n uri,\n mimeType: 'text/plain',\n text: `Cache Statistics:\n- Total entries: ${stats.entryCount}\n- Memory entries: ${stats.memoryEntries}\n- Fresh: ${stats.freshCount}\n- Stale: ${stats.staleCount}\n- Expired: ${stats.expiredCount}`,\n },\n ]\n }\n\n // Resolve and fetch the reference\n const ref = resolveReference(uri)\n if (!ref) {\n throw new Error(`Invalid codex URI: ${uri}`)\n }\n\n const result = await this.config.cache.get(ref)\n return [\n {\n uri,\n mimeType: result.contentType,\n text: result.content.toString('utf-8'),\n },\n ]\n }\n\n /\n Handle JSON-RPC request\n \n This method handles the low-level MCP protocol messages.\n /\n async handleRequest(method: string, params?: Record<string, unknown>): Promise<unknown> {\n switch (method) {\n case 'initialize':\n return {\n protocolVersion: '2024-11-05',\n serverInfo: this.getServerInfo(),\n capabilities: this.getCapabilities(),\n }\n\n case 'tools/list':\n return { tools: this.listTools() }\n\n case 'tools/call': {\n const { name, arguments: args } = params as { name: string; arguments: Record<string, unknown> }\n return await this.callTool(name, args)\n }\n\n case 'resources/list':\n return { resources: await this.listResources() }\n\n case 'resources/templates/list':\n return { resourceTemplates: this.listResourceTemplates() }\n\n case 'resources/read': {\n const { uri } = params as { uri: string }\n return { contents: await this.readResource(uri) }\n }\n\n case 'prompts/list':\n return { prompts: [] }\n\n default:\n throw new Error(`Unknown method: ${method}`)\n }\n }\n\n /\n Process a JSON-RPC message\n /\n async processMessage(message: string): Promise<string> {\n let id: unknown = null\n\n try {\n const request = JSON.parse(message)\n id = request.id\n const { method, params } = request\n\n const result = await this.handleRequest(method, params)\n\n return JSON.stringify({\n jsonrpc: '2.0',\n id,\n result,\n })\n } catch (error) {\n const errorMessage = error instanceof Error ? error.message : String(error)\n\n return JSON.stringify({\n jsonrpc: '2.0',\n id,\n error: {\n code: -32603,\n message: errorMessage,\n },\n })\n }\n }\n}\n\n/\n Create an MCP server\n /\nexport function createMcpServer(config: McpServerConfig): McpServer {\n return new McpServer(config)\n}\n","/\n MCP Tool definitions and handlers\n \n Implements the tools exposed by the Codex MCP server.\n /\n\nimport type { CacheManager } from '@fractary/codex'\nimport type { StorageManager } from '@fractary/codex'\nimport { resolveReference } from '@fractary/codex'\nimport type {\n McpTool,\n ToolResult,\n FetchToolArgs,\n SearchToolArgs,\n ListToolArgs,\n CacheClearToolArgs,\n} from './types.js'\n\n/\n Tool definitions for the MCP server\n /\nexport const CODEX_TOOLS: McpTool[] = [\n {\n name: 'codex_document_fetch',\n description: 'Fetch a document from the Codex knowledge base by URI. Returns the document content.',\n inputSchema: {\n type: 'object',\n properties: {\n uri: {\n type: 'string',\n description: 'Codex URI in format: codex://org/project/path/to/file.md',\n },\n branch: {\n type: 'string',\n description: 'Git branch to fetch from (default: main)',\n },\n noCache: {\n type: 'boolean',\n description: 'Bypass cache and fetch fresh content',\n },\n },\n required: ['uri'],\n },\n },\n {\n name: 'codex_search',\n description: 'Search for documents in the Codex knowledge base.',\n inputSchema: {\n type: 'object',\n properties: {\n query: {\n type: 'string',\n description: 'Search query string',\n },\n org: {\n type: 'string',\n description: 'Filter by organization',\n },\n project: {\n type: 'string',\n description: 'Filter by project',\n },\n limit: {\n type: 'number',\n description: 'Maximum number of results (default: 10)',\n },\n type: {\n type: 'string',\n description: 'Filter by artifact type (e.g., docs, specs, logs)',\n },\n },\n required: ['query'],\n },\n },\n {\n name: 'codex_cache_list',\n description: 'List documents in the Codex cache.',\n inputSchema: {\n type: 'object',\n properties: {\n org: {\n type: 'string',\n description: 'Filter by organization',\n },\n project: {\n type: 'string',\n description: 'Filter by project',\n },\n includeExpired: {\n type: 'boolean',\n description: 'Include expired cache entries',\n },\n },\n },\n },\n {\n name: 'codex_cache_clear',\n description: 'Clear cached documents matching a pattern.',\n inputSchema: {\n type: 'object',\n properties: {\n pattern: {\n type: 'string',\n description: 'URI pattern to invalidate (supports regex)',\n },\n },\n required: ['pattern'],\n },\n },\n]\n\n/\n Tool handler context\n /\nexport interface ToolHandlerContext {\n cache: CacheManager\n storage: StorageManager\n}\n\n/\n Create a text result\n /\nfunction textResult(text: string, isError = false): ToolResult {\n return {\n content: [{ type: 'text', text }],\n isError,\n }\n}\n\n/\n Create a resource result\n /\nfunction resourceResult(uri: string, content: string, mimeType?: string): ToolResult {\n return {\n content: [\n {\n type: 'resource',\n resource: {\n uri,\n mimeType,\n text: content,\n },\n },\n ],\n }\n}\n\n/\n Handle codex_document_fetch tool\n /\nexport async function handleFetch(args: FetchToolArgs, ctx: ToolHandlerContext): Promise<ToolResult> {\n const { uri, branch, noCache } = args\n\n // Validate input\n if (!uri \|\| typeof uri !== 'string') {\n return textResult('URI is required and must be a string', true)\n }\n\n if (branch && typeof branch !== 'string') {\n return textResult('Branch must be a string', true)\n }\n\n // Resolve the reference\n const ref = resolveReference(uri)\n if (!ref) {\n return textResult(`Invalid codex URI: ${uri}`, true)\n }\n\n try {\n let result\n\n if (noCache) {\n // Bypass cache, fetch directly\n result = await ctx.storage.fetch(ref, { branch })\n // Still cache the result for next time\n await ctx.cache.set(uri, result)\n } else {\n // Use cache\n result = await ctx.cache.get(ref, { branch })\n }\n\n const content = result.content.toString('utf-8')\n return resourceResult(uri, content, result.contentType)\n } catch (error) {\n const message = error instanceof Error ? error.message : String(error)\n return textResult(`Failed to fetch ${uri}: ${message}`, true)\n }\n}\n\n/\n Handle codex_search tool\n \n Note: This is a basic implementation that searches cached entries.\n * A more sophisticated implementation might use a search index.\n /\nexport async function handleSearch(args: SearchToolArgs, ctx: ToolHandlerContext): Promise<ToolResult> {\n const { query, org, project, limit = 10 } = args\n\n // Validate input\n if (!query \|\| typeof query !== 'string') {\n return textResult('Query is required and must be a string', true)\n }\n\n if (query.length > 500) {\n return textResult('Query too long (max 500 characters)', true)\n }\n\n if (typeof limit !== 'number' \|\| limit < 1 \|\| limit > 100) {\n return textResult('Limit must be a number between 1 and 100', true)\n }\n\n // Get all cached entries\n const stats = await ctx.cache.getStats()\n if (stats.entryCount === 0) {\n return textResult('No documents in cache. Use codex_document_fetch to load documents first.')\n }\n\n // This is a simplified search - in a real implementation,\n // we would use a proper search index\n // For now, we search through the cached URIs and content\n\n // Note: This is a placeholder. The actual search implementation\n // would depend on having access to the cache persistence layer's\n // list of URIs and their content.\n\n const message = `Search functionality requires a search index.\nQuery: \"${query}\"\nFilters: org=${org \|\| 'any'}, project=${project \|\| 'any'}\nLimit: ${limit}\n\nTo fetch documents, use codex_document_fetch with a specific URI like:\ncodex://org/project/docs/file.md`\n\n return textResult(message)\n}\n\n/\n Handle codex_cache_list tool\n /\nexport async function handleList(args: ListToolArgs, ctx: ToolHandlerContext): Promise<ToolResult> {\n const { org, project, includeExpired } = args\n\n // Get cache stats and any available info\n const stats = await ctx.cache.getStats()\n\n let message = `Cache Statistics:\n- Total entries: ${stats.entryCount}\n- Memory entries: ${stats.memoryEntries}\n- Memory size: ${formatBytes(stats.memorySize)}\n- Total size: ${formatBytes(stats.totalSize)}\n- Fresh: ${stats.freshCount}\n- Stale: ${stats.staleCount}\n- Expired: ${stats.expiredCount}`\n\n if (org) {\n message += `\\n\\nFiltered by org: ${org}`\n }\n if (project) {\n message += `\\nFiltered by project: ${project}`\n }\n if (includeExpired) {\n message += `\\nIncluding expired entries`\n }\n\n return textResult(message)\n}\n\n/\n Validate and sanitize regex pattern to prevent ReDoS attacks\n /\nfunction validateRegexPattern(pattern: string): { valid: boolean; error?: string } {\n // Check pattern length (prevent extremely long patterns)\n if (pattern.length > 1000) {\n return { valid: false, error: 'Pattern too long (max 1000 characters)' }\n }\n\n // Check for common ReDoS patterns\n const redosPatterns = [\n /(\\.\\){3,}/, // Multiple consecutive .\n /(\\+\\+\|\\\\\|\\?\\?)/, // Nested quantifiers\n /(\\([^)]){10,}/, // Too many groups\n /(\\[[^\\]]{100,})/, // Very long character classes\n ]\n\n for (const redos of redosPatterns) {\n if (redos.test(pattern)) {\n return { valid: false, error: 'Pattern contains potentially dangerous constructs' }\n }\n }\n\n // Try to compile the regex to check for syntax errors\n try {\n new RegExp(pattern)\n return { valid: true }\n } catch (error) {\n const message = error instanceof Error ? error.message : 'Invalid regex'\n return { valid: false, error: message }\n }\n}\n\n/*\n Handle codex_cache_clear tool\n /\nexport async function handleCacheClear(args: CacheClearToolArgs, ctx: ToolHandlerContext): Promise<ToolResult> {\n const { pattern } = args\n\n if (!pattern \|\| typeof pattern !== 'string') {\n return textResult('Pattern is required and must be a string', true)\n }\n\n // Validate pattern to prevent ReDoS\n const validation = validateRegexPattern(pattern)\n if (!validation.valid) {\n return textResult(`Invalid pattern: ${validation.error}`, true)\n }\n\n try {\n const regex = new RegExp(pattern)\n const count = await ctx.cache.invalidatePattern(regex)\n\n return textResult(`Cleared ${count} cache entries matching pattern: ${pattern}`)\n } catch (error) {\n const message = error instanceof Error ? error.message : String(error)\n return textResult(`Failed to clear cache: ${message}`, true)\n }\n}\n\n/\n Route a tool call to its handler\n /\nexport async function handleToolCall(\n name: string,\n args: Record<string, unknown>,\n ctx: ToolHandlerContext\n): Promise<ToolResult> {\n switch (name) {\n case 'codex_document_fetch':\n return handleFetch(args as unknown as FetchToolArgs, ctx)\n case 'codex_search':\n return handleSearch(args as unknown as SearchToolArgs, ctx)\n case 'codex_cache_list':\n return handleList(args as unknown as ListToolArgs, ctx)\n case 'codex_cache_clear':\n return handleCacheClear(args as unknown as CacheClearToolArgs, ctx)\n default:\n return textResult(`Unknown tool: ${name}`, true)\n }\n}\n\n/\n Format bytes to human readable string\n */\nfunction formatBytes(bytes: number): string {\n if (bytes === 0) return '0 B'\n const k = 1024\n const sizes = ['B', 'KB', 'MB', 'GB']\n const i = Math.floor(Math.log(bytes) / Math.log(k))\n return `${parseFloat((bytes / Math.pow(k, i)).toFixed(2))} 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package/package.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
   "name": "@fractary/codex-mcp",
-  "version": "0.2.1",
+  "version": "0.3.1",
   "description": "MCP server for Fractary Codex knowledge management",
   "keywords": [
     "codex",
@@ -50,7 +50,7 @@
     "prepublishOnly": "npm run build && npm run test"
   },
   "dependencies": {
-    "@fractary/codex": "^0.2.0",
+    "@fractary/codex": "^0.3.0",
     "commander": "^11.1.0",
     "js-yaml": "^4.1.0"
   },