@claude-flow/cli 3.38.9 → 3.38.12

package/dist/src/mcp-tools/neural-tools.js

@@ -199,11 +199,12 @@ function ensureEmbeddings() {
     })();
     return embeddingsPromise;
 }
-// Storage paths
+// Storage paths. Note: `.claude-flow/neural/patterns.json` is a SEPARATE
+// file owned by the ReasoningBank store in memory/intelligence.ts — this
+// module only ever reads/writes MODELS_FILE, never a patterns.json.
 const STORAGE_DIR = '.claude-flow';
 const NEURAL_DIR = 'neural';
 const MODELS_FILE = 'models.json';
-const PATTERNS_FILE = 'patterns.json';
 function getNeuralDir() {
     return join(getProjectCwd(), STORAGE_DIR, NEURAL_DIR);
 }
@@ -262,7 +263,7 @@ export function getNeuralStoreStats() {
         patternCount: patterns.length,
         byType,
         modelCount: Object.values(store.models ?? {}).length,
-        source: '.claude-flow/neural/patterns.json (loadNeuralStore)',
+        source: '.claude-flow/neural/models.json (loadNeuralStore)',
     };
 }
 /**

package/dist/src/memory/memory-bridge.d.ts

@@ -16,6 +16,14 @@
  *
  * @module v3/cli/memory-bridge
  */
+/**
+ * #3024: AgentDB's optional native controller stack can abort the whole Node
+ * process on Windows during registry initialization (a Rust allocation panic),
+ * which cannot be caught by JavaScript. Keep the CLI/MCP server on the
+ * sql.js + local-embedding path there until the native dependency is proven
+ * safe. Advanced users and CI can opt back in explicitly for diagnosis.
+ */
+export declare function shouldDisableNativeBridge(platform?: NodeJS.Platform, env?: NodeJS.ProcessEnv): boolean;
 /**
  * Should this init-time log line be swallowed?
  *

package/dist/src/memory/memory-bridge.js

@@ -38,6 +38,18 @@ const ACTIVE_MEMORY_ROW_SQL = `(status = 'active' OR status IS NULL)`;
  * better-sqlite3 bridge") the caller has no way to check.
  */
 let bridgeFailureReason = null;
+/**
+ * #3024: AgentDB's optional native controller stack can abort the whole Node
+ * process on Windows during registry initialization (a Rust allocation panic),
+ * which cannot be caught by JavaScript. Keep the CLI/MCP server on the
+ * sql.js + local-embedding path there until the native dependency is proven
+ * safe. Advanced users and CI can opt back in explicitly for diagnosis.
+ */
+export function shouldDisableNativeBridge(platform = process.platform, env = process.env) {
+    if (env.CLAUDE_FLOW_DISABLE_BRIDGE === '1')
+        return true;
+    return platform === 'win32' && env.CLAUDE_FLOW_ENABLE_NATIVE_BRIDGE_ON_WINDOWS !== '1';
+}
 /**
  * ADR-323: reuse memory-initializer's provenance-type allowlist rather than
  * duplicating it (drift risk). Lazy CJS require for the same circular-ESM-
@@ -154,6 +166,12 @@ export function shouldSuppressInitLog(msg) {
  * Returns null if @claude-flow/memory is not available.
  */
 async function getRegistry(dbPath) {
+    if (shouldDisableNativeBridge()) {
+        bridgeFailureReason = process.platform === 'win32'
+            ? 'AgentDB native bridge disabled on Windows after #3024; set CLAUDE_FLOW_ENABLE_NATIVE_BRIDGE_ON_WINDOWS=1 to opt in'
+            : 'AgentDB native bridge disabled by CLAUDE_FLOW_DISABLE_BRIDGE=1';
+        return null;
+    }
     if (bridgeAvailable === false)
         return null;
     if (registryInstance)

package/node_modules/@claude-flow/mcp/README.md

@@ -0,0 +1,429 @@
+# @claude-flow/mcp
+
+[![npm version](https://img.shields.io/npm/v/@claude-flow/mcp.svg)](https://www.npmjs.com/package/@claude-flow/mcp)
+[![npm downloads](https://img.shields.io/npm/dm/@claude-flow/mcp.svg)](https://www.npmjs.com/package/@claude-flow/mcp)
+[![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT)
+[![TypeScript](https://img.shields.io/badge/TypeScript-5.0+-blue.svg)](https://www.typescriptlang.org/)
+[![MCP 2025-11-25](https://img.shields.io/badge/MCP-2025--11--25-blue.svg)](https://modelcontextprotocol.io)
+[![Standalone](https://img.shields.io/badge/Module-Standalone-green.svg)](https://github.com/ruvnet/claude-flow)
+
+> **MCP 2025-11-25 Compliant** - Standalone Model Context Protocol server implementation with full Resources, Prompts, and Tasks support
+
+## Features
+
+- **MCP 2025-11-25 Compliant** - Full specification support
+- **High-Performance Server** - <400ms startup time
+- **Multiple Transports** - stdio, HTTP, WebSocket, in-process
+- **Resources** - list, read, subscribe with caching
+- **Prompts** - templates with arguments and embedded resources
+- **Tasks** - Async operations with progress and cancellation
+- **Pagination** - Cursor-based pagination for large datasets
+- **Connection Pooling** - Max 10 connections, configurable
+- **Fast Tool Registry** - O(1) lookup, <10ms registration
+- **Session Management** - Timeout handling, authentication
+- **Security** - CORS, Helmet, auth tokens
+- **Zero Dependencies** - No @claude-flow/* dependencies
+
+## Installation
+
+```bash
+npm install @claude-flow/mcp
+```
+
+## Quick Start
+
+```typescript
+import { quickStart, defineTool } from '@claude-flow/mcp';
+
+// Create and start server
+const server = await quickStart({
+  transport: 'stdio',
+  name: 'My MCP Server',
+});
+
+// Register custom tools
+server.registerTool(defineTool(
+  'greet',
+  'Greet a user',
+  {
+    type: 'object',
+    properties: {
+      name: { type: 'string', description: 'User name' }
+    },
+    required: ['name']
+  },
+  async ({ name }) => ({ message: `Hello, ${name}!` })
+));
+
+// Start listening
+await server.start();
+```
+
+## Transports
+
+### Stdio (Default)
+
+```typescript
+import { createMCPServer } from '@claude-flow/mcp';
+
+const server = createMCPServer({
+  transport: 'stdio',
+  name: 'Stdio Server',
+}, logger);
+
+await server.start();
+```
+
+### HTTP
+
+```typescript
+const server = createMCPServer({
+  transport: 'http',
+  host: 'localhost',
+  port: 3000,
+  corsEnabled: true,
+  corsOrigins: ['http://localhost:8080'],
+  auth: {
+    enabled: true,
+    method: 'token',
+    tokens: ['secret-token'],
+  },
+}, logger);
+
+await server.start();
+// Server at http://localhost:3000
+// WebSocket at ws://localhost:3000/ws
+```
+
+### WebSocket
+
+```typescript
+const server = createMCPServer({
+  transport: 'websocket',
+  host: 'localhost',
+  port: 3001,
+  maxConnections: 100,
+  heartbeatInterval: 30000,
+}, logger);
+
+await server.start();
+// WebSocket at ws://localhost:3001/ws
+```
+
+## Tool Registry
+
+```typescript
+import { createToolRegistry, defineTool } from '@claude-flow/mcp';
+
+const registry = createToolRegistry(logger);
+
+// Register tool
+registry.register({
+  name: 'calculate',
+  description: 'Perform calculations',
+  inputSchema: {
+    type: 'object',
+    properties: {
+      expression: { type: 'string' }
+    }
+  },
+  handler: async ({ expression }) => {
+    return { result: eval(expression) };
+  },
+  category: 'math',
+  tags: ['calculator'],
+});
+
+// Execute tool
+const result = await registry.execute('calculate', { expression: '2 + 2' });
+
+// Search tools
+const mathTools = registry.getByCategory('math');
+const stats = registry.getStats();
+```
+
+## Session Management
+
+```typescript
+import { createSessionManager } from '@claude-flow/mcp';
+
+const sessions = createSessionManager(logger, {
+  maxSessions: 100,
+  sessionTimeout: 30 * 60 * 1000, // 30 minutes
+});
+
+// Create session
+const session = sessions.createSession('http');
+
+// Initialize with client info
+sessions.initializeSession(session.id, {
+  protocolVersion: '2024-11-05', // MCP spec: YYYY-MM-DD string
+  capabilities: { tools: { listChanged: true } },
+  clientInfo: { name: 'Claude', version: '1.0' },
+});
+
+// Get metrics
+const metrics = sessions.getSessionMetrics();
+// { total: 1, active: 1, authenticated: 0, expired: 0 }
+```
+
+## Connection Pool
+
+```typescript
+import { createConnectionPool } from '@claude-flow/mcp';
+
+const pool = createConnectionPool({
+  maxConnections: 10,
+  minConnections: 2,
+  idleTimeout: 30000,
+  acquireTimeout: 5000,
+}, logger, 'http');
+
+// Acquire connection
+const conn = await pool.acquire();
+
+// Use connection...
+
+// Release back to pool
+pool.release(conn);
+
+// Get stats
+const stats = pool.getStats();
+// { totalConnections: 5, idleConnections: 4, busyConnections: 1, ... }
+```
+
+## API Reference
+
+### Server
+
+```typescript
+interface IMCPServer {
+  start(): Promise<void>;
+  stop(): Promise<void>;
+  registerTool(tool: MCPTool): boolean;
+  registerTools(tools: MCPTool[]): { registered: number; failed: string[] };
+  getHealthStatus(): Promise<{ healthy: boolean; error?: string; metrics?: Record<string, number> }>;
+  getMetrics(): MCPServerMetrics;
+  getSessions(): MCPSession[];
+  getSession(sessionId: string): MCPSession | undefined;
+  terminateSession(sessionId: string): boolean;
+}
+```
+
+### Tool
+
+```typescript
+interface MCPTool<TInput = unknown, TOutput = unknown> {
+  name: string;
+  description: string;
+  inputSchema: JSONSchema;
+  handler: (input: TInput, context?: ToolContext) => Promise<TOutput>;
+  category?: string;
+  tags?: string[];
+  cacheable?: boolean;
+  cacheTTL?: number;
+  timeout?: number;
+}
+```
+
+### Transport
+
+```typescript
+interface ITransport {
+  readonly type: TransportType;
+  start(): Promise<void>;
+  stop(): Promise<void>;
+  onRequest(handler: RequestHandler): void;
+  onNotification(handler: NotificationHandler): void;
+  sendNotification?(notification: MCPNotification): Promise<void>;
+  getHealthStatus(): Promise<TransportHealthStatus>;
+}
+```
+
+## Built-in Tools
+
+The server automatically registers these system tools:
+
+| Tool | Description |
+|------|-------------|
+| `system/info` | Get server information |
+| `system/health` | Get health status |
+| `system/metrics` | Get server metrics |
+| `tools/list-detailed` | List all tools with details |
+
+## Resources (MCP 2025-11-25)
+
+```typescript
+import { createMCPServer, createTextResource } from '@claude-flow/mcp';
+
+const server = createMCPServer({ transport: 'stdio' }, logger);
+const resourceRegistry = server.getResourceRegistry();
+
+// Register a text resource
+const { resource, handler } = createTextResource(
+  'file://readme.txt',
+  'README',
+  'Welcome to the application!',
+  { mimeType: 'text/plain' }
+);
+resourceRegistry.registerResource(resource, handler);
+
+// Register with custom handler
+resourceRegistry.registerResource(
+  {
+    uri: 'db://users/{id}',
+    name: 'User Data',
+    description: 'Get user by ID',
+    mimeType: 'application/json',
+  },
+  async (uri) => {
+    const id = uri.split('/').pop();
+    const user = await fetchUser(id);
+    return [{ uri, mimeType: 'application/json', text: JSON.stringify(user) }];
+  }
+);
+
+// Subscribe to updates
+resourceRegistry.subscribe('file://readme.txt', (uri, content) => {
+  console.log('Resource updated:', uri);
+});
+```
+
+## Prompts (MCP 2025-11-25)
+
+```typescript
+import { createMCPServer, definePrompt, textMessage, interpolate } from '@claude-flow/mcp';
+
+const server = createMCPServer({ transport: 'stdio' }, logger);
+const promptRegistry = server.getPromptRegistry();
+
+// Define a prompt with arguments
+const codeReviewPrompt = definePrompt(
+  'code_review',
+  'Review code for quality and best practices',
+  async (args) => [
+    textMessage('user', `Please review this ${args.language} code:\n\n${args.code}`),
+  ],
+  {
+    title: 'Code Review',
+    arguments: [
+      { name: 'code', description: 'The code to review', required: true },
+      { name: 'language', description: 'Programming language', required: false },
+    ],
+  }
+);
+
+promptRegistry.register(codeReviewPrompt);
+
+// Get prompt with arguments
+const result = await promptRegistry.get('code_review', {
+  code: 'function hello() { return "world"; }',
+  language: 'JavaScript',
+});
+```
+
+## Tasks (MCP 2025-11-25)
+
+```typescript
+import { createMCPServer } from '@claude-flow/mcp';
+
+const server = createMCPServer({ transport: 'stdio' }, logger);
+const taskManager = server.getTaskManager();
+
+// Create a long-running task
+const taskId = taskManager.createTask(async (reportProgress, signal) => {
+  for (let i = 0; i <= 100; i += 10) {
+    if (signal.aborted) throw new Error('Task cancelled');
+
+    reportProgress({
+      progress: i,
+      total: 100,
+      message: `Processing... ${i}%`,
+    });
+
+    await new Promise(r => setTimeout(r, 100));
+  }
+
+  return { success: true, processedItems: 100 };
+});
+
+// Get task status
+const status = taskManager.getTask(taskId);
+
+// Wait for completion
+const result = await taskManager.waitForTask(taskId);
+
+// Cancel a task
+taskManager.cancelTask(taskId, 'User requested cancellation');
+```
+
+## MCP Methods Supported
+
+| Method | Description |
+|--------|-------------|
+| `initialize` | Initialize connection |
+| `tools/list` | List available tools |
+| `tools/call` | Execute a tool |
+| `resources/list` | List resources with pagination |
+| `resources/read` | Read resource content |
+| `resources/subscribe` | Subscribe to updates |
+| `resources/unsubscribe` | Unsubscribe from updates |
+| `prompts/list` | List prompts with pagination |
+| `prompts/get` | Get prompt with arguments |
+| `tasks/status` | Get task status |
+| `tasks/cancel` | Cancel a running task |
+| `completion/complete` | Auto-complete arguments |
+| `logging/setLevel` | Set log level |
+| `ping` | Keep-alive |
+
+## Performance Targets
+
+| Metric | Target |
+|--------|--------|
+| Server startup | <400ms |
+| Tool registration | <10ms |
+| Tool execution overhead | <50ms |
+| Connection acquire | <5ms |
+| Connection release | <1ms |
+
+## Security
+
+### Authentication
+
+```typescript
+const server = createMCPServer({
+  auth: {
+    enabled: true,
+    method: 'token',
+    tokens: ['your-secret-token'],
+  },
+}, logger);
+```
+
+### CORS
+
+```typescript
+const server = createMCPServer({
+  transport: 'http',
+  corsEnabled: true,
+  corsOrigins: ['https://your-domain.com'],
+}, logger);
+```
+
+## Error Codes
+
+```typescript
+const ErrorCodes = {
+  PARSE_ERROR: -32700,
+  INVALID_REQUEST: -32600,
+  METHOD_NOT_FOUND: -32601,
+  INVALID_PARAMS: -32602,
+  INTERNAL_ERROR: -32603,
+  SERVER_NOT_INITIALIZED: -32002,
+  AUTHENTICATION_REQUIRED: -32001,
+};
+```
+
+## License
+
+MIT

package/node_modules/@claude-flow/mcp/dist/connection-pool.d.ts

@@ -0,0 +1,36 @@
+/**
+ * @claude-flow/mcp - Connection Pool
+ *
+ * High-performance connection pooling
+ */
+import { EventEmitter } from 'events';
+import type { PooledConnection, ConnectionPoolStats, ConnectionPoolConfig, IConnectionPool, ILogger, TransportType } from './types.js';
+export declare class ConnectionPool extends EventEmitter implements IConnectionPool {
+    private readonly logger;
+    private readonly transportType;
+    private readonly config;
+    private readonly connections;
+    private readonly waitingClients;
+    private evictionTimer?;
+    private connectionCounter;
+    private isShuttingDown;
+    private stats;
+    constructor(config: Partial<ConnectionPoolConfig> | undefined, logger: ILogger, transportType?: TransportType);
+    private initializeMinConnections;
+    private createConnection;
+    acquire(): Promise<PooledConnection>;
+    private waitForConnection;
+    release(connection: PooledConnection): void;
+    destroy(connection: PooledConnection): void;
+    getStats(): ConnectionPoolStats;
+    drain(): Promise<void>;
+    clear(): Promise<void>;
+    private startEvictionTimer;
+    private stopEvictionTimer;
+    private evictIdleConnections;
+    private recordAcquireTime;
+    getConnections(): PooledConnection[];
+    isHealthy(): boolean;
+}
+export declare function createConnectionPool(config: Partial<ConnectionPoolConfig> | undefined, logger: ILogger, transportType?: TransportType): ConnectionPool;
+//# sourceMappingURL=connection-pool.d.ts.map

package/node_modules/@claude-flow/mcp/dist/connection-pool.d.ts.map

@@ -0,0 +1 @@
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