claude-flow 3.28.0 → 3.29.0

package/v3/README.md

@@ -1,493 +1,493 @@
-# Claude Flow V3
-
-> **Modular AI Agent Coordination System** - A complete reimagining of Claude-Flow with 15-agent hierarchical mesh swarm coordination.
-
-[![Version](https://img.shields.io/badge/version-3.0.0--alpha.1-blue.svg)](https://github.com/ruvnet/claude-flow)
-[![Node.js](https://img.shields.io/badge/node-%3E%3D20.0.0-green.svg)](https://nodejs.org/)
-[![TypeScript](https://img.shields.io/badge/TypeScript-5.3+-blue.svg)](https://www.typescriptlang.org/)
-[![License](https://img.shields.io/badge/license-MIT-purple.svg)](../LICENSE)
-
-## Introduction
-
-Claude Flow V3 is a next-generation AI agent coordination system built on 10 Architecture Decision Records (ADRs). It provides a modular, security-first, high-performance platform for orchestrating multi-agent swarms with hierarchical mesh topology.
-
-V3 represents a complete architectural overhaul:
-- **10x faster testing** with Vitest
-- **150x-12,500x faster search** with HNSW indexing
-- **2.49x-7.47x Flash Attention speedup**
-- **50-75% memory reduction**
-
-## Features
-
-### Core Capabilities
-
-- **15-Agent Hierarchical Mesh** - Queen-led coordination with specialized worker agents
-- **Domain-Driven Design** - Clean bounded contexts with separation of concerns
-- **Plugin Architecture** - Microkernel pattern for extensibility
-- **MCP-First API** - Consistent interfaces across all modules
-- **Event Sourcing** - Full audit trail for state changes
-- **Hybrid Memory Backend** - SQLite + AgentDB for optimal performance
-
-### Security
-
-- **CVE Remediation** - All known vulnerabilities addressed
-- **Input Validation** - Zod-based schema validation
-- **Secure ID Generation** - Cryptographic random IDs
-- **Path Security** - Traversal protection
-- **SQL Injection Prevention** - Parameterized queries
-
-### Performance
-
-| Metric | Target | Achieved |
-|--------|--------|----------|
-| Event Bus (100k events) | <50ms | ~6ms |
-| Map Lookup (100k gets) | <20ms | ~16ms |
-| Array.find vs Map O(1) | N/A | 978x speedup |
-| Flash Attention | 2.49x-7.47x | Validated |
-| AgentDB Search | 150x-12,500x | HNSW indexed |
-
-## Architecture
-
-### Architecture Decision Records (ADRs)
-
-| ADR | Decision |
-|-----|----------|
-| ADR-001 | Adopt agentic-flow as core foundation |
-| ADR-002 | Domain-Driven Design structure |
-| ADR-003 | Single coordination engine (UnifiedSwarmCoordinator) |
-| ADR-004 | Plugin-based architecture (microkernel) |
-| ADR-005 | MCP-first API design |
-| ADR-006 | Unified memory service (AgentDB) |
-| ADR-007 | Event sourcing for state changes |
-| ADR-008 | Vitest over Jest (10x faster) |
-| ADR-009 | Hybrid memory backend default |
-| ADR-010 | Remove Deno support (Node.js 20+ only) |
-
-### Module Architecture
-
-```
-┌─────────────────────────────────────────────────────────────────┐
-│                     @claude-flow/v3-monorepo                    │
-├─────────────────────────────────────────────────────────────────┤
-│                                                                 │
-│  ┌──────────────┐  ┌──────────────┐  ┌──────────────┐          │
-│  │   security   │  │    memory    │  │    swarm     │          │
-│  │  CVE fixes   │  │   AgentDB    │  │ 15-agent     │          │
-│  │  validation  │  │   HNSW       │  │ coordination │          │
-│  └──────────────┘  └──────────────┘  └──────────────┘          │
-│                                                                 │
-│  ┌──────────────┐  ┌──────────────┐  ┌──────────────┐          │
-│  │ integration  │  │  performance │  │    neural    │          │
-│  │ agentic-flow │  │ Flash Attn   │  │   SONA       │          │
-│  │  bridge      │  │ benchmarks   │  │  learning    │          │
-│  └──────────────┘  └──────────────┘  └──────────────┘          │
-│                                                                 │
-│  ┌──────────────┐  ┌──────────────┐  ┌──────────────┐          │
-│  │     cli      │  │   testing    │  │  deployment  │          │
-│  │  commands    │  │ TDD London   │  │   release    │          │
-│  │  prompts     │  │   School     │  │    CI/CD     │          │
-│  └──────────────┘  └──────────────┘  └──────────────┘          │
-│                                                                 │
-│  ┌─────────────────────────────────────────────────────────┐   │
-│  │                       shared                             │   │
-│  │  types • events • core • hooks • resilience • plugins   │   │
-│  └─────────────────────────────────────────────────────────┘   │
-│                                                                 │
-└─────────────────────────────────────────────────────────────────┘
-```
-
-## Directory Structure
-
-```
-v3/
-├── @claude-flow/                    # Modular packages
-│   ├── security/                    # Security module
-│   │   └── src/
-│   │       ├── index.ts             # Password hashing, validators
-│   │       └── ...
-│   │
-│   ├── memory/                      # Memory module
-│   │   ├── src/
-│   │   │   ├── agentdb-backend.ts   # AgentDB integration
-│   │   │   ├── hnsw-index.ts        # HNSW vector indexing
-│   │   │   ├── hybrid-backend.ts    # SQLite + AgentDB
-│   │   │   ├── sqlite-backend.ts    # SQLite backend
-│   │   │   ├── cache-manager.ts     # Caching layer
-│   │   │   └── domain/              # DDD entities
-│   │   ├── benchmarks/              # Performance benchmarks
-│   │   └── examples/                # Usage examples
-│   │
-│   ├── swarm/                       # Swarm coordination
-│   │   └── src/
-│   │       ├── unified-coordinator.ts  # Main coordinator
-│   │       ├── topology-manager.ts     # Topology management
-│   │       ├── consensus/              # Consensus protocols
-│   │       └── domain/                 # DDD entities
-│   │
-│   ├── integration/                 # agentic-flow integration
-│   │   └── src/
-│   │       ├── agentic-flow-bridge.ts  # Core bridge
-│   │       ├── agent-adapter.ts        # Agent adaptation
-│   │       └── sona-adapter.ts         # SONA learning
-│   │
-│   ├── performance/                 # Performance module
-│   │   ├── src/
-│   │   │   └── framework/           # Benchmark framework
-│   │   └── benchmarks/
-│   │       ├── startup/             # Startup benchmarks
-│   │       └── attention/           # Flash Attention
-│   │
-│   ├── neural/                      # Neural/SONA module
-│   │   └── src/
-│   │       ├── algorithms/          # Learning algorithms
-│   │       └── modes/               # Neural modes
-│   │
-│   ├── cli/                         # CLI module
-│   │   ├── bin/                     # Executable
-│   │   └── src/
-│   │       └── commands/            # Command handlers
-│   │
-│   ├── testing/                     # Testing framework
-│   │   └── src/
-│   │       ├── fixtures/            # Test fixtures
-│   │       ├── mocks/               # Mock services
-│   │       ├── helpers/             # Test helpers
-│   │       └── regression/          # Regression tests
-│   │
-│   ├── shared/                      # Shared utilities
-│   │   └── src/
-│   │       ├── types/               # Shared types
-│   │       ├── events/              # Event system
-│   │       ├── core/                # Core interfaces
-│   │       ├── hooks/               # Hook system
-│   │       ├── resilience/          # Retry, circuit breaker
-│   │       ├── plugins/             # Plugin system
-│   │       └── security/            # Security utilities
-│   │
-│   └── deployment/                  # Deployment module
-│       └── src/                     # Release management
-│
-├── mcp/                             # MCP Server
-│   ├── server.ts                    # Main server
-│   ├── tools/                       # MCP tools
-│   │   ├── agent-tools.ts
-│   │   ├── swarm-tools.ts
-│   │   ├── memory-tools.ts
-│   │   └── hooks-tools.ts
-│   └── transport/                   # Transport layers
-│       ├── stdio.ts
-│       ├── http.ts
-│       └── websocket.ts
-│
-├── __tests__/                       # Integration tests
-│   └── integration/
-│       ├── memory-integration.test.ts
-│       ├── swarm-integration.test.ts
-│       ├── mcp-integration.test.ts
-│       └── workflow-integration.test.ts
-│
-├── docs/                            # Documentation
-│   ├── README.md                    # Docs overview
-│   ├── guides/                      # User guides
-│   └── implementation/              # Implementation details
-│
-├── helpers/                         # Cross-platform helpers
-│   ├── claude-flow-v3.sh            # Master helper (Linux/macOS)
-│   ├── claude-flow-v3.ps1           # Master helper (Windows)
-│   └── templates/                   # Helper templates
-│
-├── scripts/                         # Utility scripts
-│   └── quick-benchmark.mjs          # Quick perf test
-│
-├── index.ts                         # Main entry point
-├── swarm.config.ts                  # Swarm configuration
-├── vitest.config.ts                 # Test configuration
-└── package.json                     # Monorepo package
-```
-
-## Modules
-
-### @claude-flow/security
-Security-first implementation with CVE fixes, input validation, and credential management.
-
-```typescript
-import { PasswordHasher, validateInput, sanitizePath } from '@claude-flow/security';
-
-const hasher = new PasswordHasher();
-const hash = await hasher.hash('password');
-const valid = await hasher.verify('password', hash);
-```
-
-### @claude-flow/memory
-Unified memory service with AgentDB, HNSW indexing, and 150x-12,500x faster search.
-
-```typescript
-import { HybridMemoryRepository, HNSWIndex } from '@claude-flow/memory';
-
-const memory = new HybridMemoryRepository({
-  backend: 'agentdb',
-  vectorSearch: true
-});
-
-await memory.store({ key: 'knowledge', value: 'context', embedding: [...] });
-const results = await memory.search({ query: 'knowledge', limit: 10 });
-```
-
-### @claude-flow/swarm
-15-agent hierarchical mesh coordination with consensus protocols.
-
-```typescript
-import { UnifiedSwarmCoordinator } from '@claude-flow/swarm';
-
-const coordinator = new UnifiedSwarmCoordinator({
-  topology: 'hierarchical-mesh',
-  maxAgents: 15
-});
-
-await coordinator.initialize();
-await coordinator.spawnAgent({ type: 'queen-coordinator' });
-```
-
-### @claude-flow/integration
-Deep integration with agentic-flow@alpha per ADR-001.
-
-```typescript
-import { AgenticFlowBridge } from '@claude-flow/integration';
-
-const bridge = new AgenticFlowBridge();
-await bridge.initialize();
-const agent = await bridge.createAgent({ type: 'coder' });
-```
-
-### @claude-flow/performance
-Benchmarking framework with Flash Attention validation.
-
-```typescript
-import { BenchmarkRunner, formatTime } from '@claude-flow/performance';
-
-const runner = new BenchmarkRunner();
-const result = await runner.run('map-lookup', () => map.get(key), {
-  iterations: 100000,
-  targetTime: 20
-});
-```
-
-### @claude-flow/neural
-SONA learning integration for self-optimizing agents.
-
-```typescript
-import { SONAAdapter } from '@claude-flow/neural';
-
-const sona = new SONAAdapter();
-await sona.train({ patterns: learningData });
-const prediction = await sona.predict(context);
-```
-
-### @claude-flow/cli
-Modern CLI with interactive prompts and formatted output.
-
-```bash
-npx @claude-flow/cli swarm init --topology hierarchical-mesh
-npx @claude-flow/cli agent spawn --type queen-coordinator
-npx @claude-flow/cli memory search "knowledge"
-```
-
-### @claude-flow/testing
-TDD London School framework with mocks, fixtures, and regression testing.
-
-```typescript
-import { createMockAgent, createTestFixture } from '@claude-flow/testing';
-
-const mockAgent = createMockAgent({ type: 'coder' });
-const fixture = createTestFixture('swarm-coordination');
-```
-
-### @claude-flow/shared
-Common types, events, utilities, and core interfaces.
-
-```typescript
-import { EventBus, Result, success, failure } from '@claude-flow/shared';
-import type { AgentId, TaskStatus } from '@claude-flow/shared/types';
-```
-
-### @claude-flow/deployment
-Release management and CI/CD automation.
-
-```typescript
-import { ReleaseManager } from '@claude-flow/deployment';
-
-const release = new ReleaseManager();
-await release.prepare({ version: '3.0.0', changelog: '...' });
-```
-
-## Usage
-
-### Quick Start
-
-```typescript
-import { initializeV3Swarm } from '@claude-flow/v3';
-
-// Initialize the swarm
-const swarm = await initializeV3Swarm();
-
-// Spawn agents
-await swarm.spawnAllAgents();
-
-// Submit a task
-const task = swarm.submitTask({
-  type: 'implementation',
-  title: 'Implement feature X',
-  description: 'Detailed description...',
-  domain: 'core',
-  phase: 'phase-2-core',
-  priority: 'high'
-});
-
-// Wait for completion
-const result = await swarm.waitForTask(task.id);
-```
-
-### Import Specific Modules
-
-```typescript
-// Import everything
-import * as claudeFlow from '@claude-flow/v3';
-
-// Or import specific modules for tree-shaking
-import { UnifiedSwarmCoordinator } from '@claude-flow/swarm';
-import { PasswordHasher } from '@claude-flow/security';
-import { HNSWIndex } from '@claude-flow/memory';
-```
-
-### MCP Server
-
-```typescript
-import { createMCPServer } from '@claude-flow/v3/mcp';
-
-const server = createMCPServer({
-  transport: 'stdio',
-  tools: ['agent', 'swarm', 'memory', 'hooks']
-});
-
-await server.start();
-```
-
-## Helper System
-
-Cross-platform automation for V3 development:
-
-```bash
-# Linux/macOS
-./helpers/claude-flow-v3.sh init
-./helpers/claude-flow-v3.sh status
-./helpers/claude-flow-v3.sh update domain 3
-
-# Windows (PowerShell)
-.\helpers\claude-flow-v3.ps1 init
-.\helpers\claude-flow-v3.ps1 status
-.\helpers\claude-flow-v3.ps1 update domain 3
-```
-
-Features:
-- **Progress Tracking**: Real-time domain/agent/performance metrics
-- **Checkpointing**: Auto-commit with development milestones
-- **Validation**: Environment and configuration verification
-- **GitHub Integration**: PR management and issue tracking
-
-## Installation
-
-```bash
-# Clone the repository
-git clone https://github.com/ruvnet/claude-flow.git
-cd claude-flow/v3
-
-# Install dependencies
-pnpm install
-
-# Build all modules
-pnpm build
-```
-
-## Testing
-
-```bash
-# Run all tests
-pnpm test
-
-# Run integration tests
-pnpm test:integration
-
-# Run specific module tests
-pnpm test:memory
-pnpm test:swarm
-pnpm test:security
-
-# Run benchmarks
-pnpm bench
-
-# Quick benchmark (no dependencies)
-node scripts/quick-benchmark.mjs
-
-# Coverage report
-pnpm test:coverage
-```
-
-## Performance Targets
-
-| Category | Metric | Target |
-|----------|--------|--------|
-| **Search** | AgentDB HNSW | 150x-12,500x faster |
-| **Attention** | Flash Attention | 2.49x-7.47x speedup |
-| **Memory** | Reduction | 50-75% |
-| **Code** | Total lines | <5,000 |
-| **Startup** | Cold start | <500ms |
-| **Learning** | SONA adaptation | <0.05ms |
-
-## Links
-
-### Documentation
-- [Docs Overview](./docs/README.md)
-- [Implementation Details](./docs/implementation/)
-- [User Guides](./docs/guides/)
-- [Helper System](./helpers/README.md)
-
-### Modules
-- [@claude-flow/security](./@claude-flow/security/)
-- [@claude-flow/memory](./@claude-flow/memory/)
-- [@claude-flow/swarm](./@claude-flow/swarm/)
-- [@claude-flow/integration](./@claude-flow/integration/)
-- [@claude-flow/performance](./@claude-flow/performance/)
-- [@claude-flow/neural](./@claude-flow/neural/)
-- [@claude-flow/cli](./@claude-flow/cli/)
-- [@claude-flow/testing](./@claude-flow/testing/)
-- [@claude-flow/shared](./@claude-flow/shared/)
-- [@claude-flow/deployment](./@claude-flow/deployment/)
-
-### Examples
-- [AgentDB Example](./@claude-flow/memory/examples/agentdb-example.ts)
-- [Cross-Platform Usage](./@claude-flow/memory/examples/cross-platform-usage.ts)
-
-### MCP Tools
-- [Agent Tools](./mcp/tools/agent-tools.ts)
-- [Swarm Tools](./mcp/tools/swarm-tools.ts)
-- [Memory Tools](./mcp/tools/memory-tools.ts)
-- [Hooks Tools](./mcp/tools/hooks-tools.ts)
-
-### External
-- [GitHub Repository](https://github.com/ruvnet/claude-flow)
-- [agentic-flow Integration](https://github.com/ruvnet/agentic-flow)
-- [AgentDB](https://github.com/ruvnet/agentdb)
-
-## Requirements
-
-- **Node.js**: >=20.0.0
-- **pnpm**: >=8.0.0
-- **TypeScript**: >=5.3.0
-
-## License
-
-MIT License - See [LICENSE](../LICENSE) for details.
-
----
-
-**Built with the SPARC methodology and 15-agent hierarchical mesh coordination.**
+# Claude Flow V3
+
+> **Modular AI Agent Coordination System** - A complete reimagining of Claude-Flow with 15-agent hierarchical mesh swarm coordination.
+
+[![Version](https://img.shields.io/badge/version-3.0.0--alpha.1-blue.svg)](https://github.com/ruvnet/claude-flow)
+[![Node.js](https://img.shields.io/badge/node-%3E%3D20.0.0-green.svg)](https://nodejs.org/)
+[![TypeScript](https://img.shields.io/badge/TypeScript-5.3+-blue.svg)](https://www.typescriptlang.org/)
+[![License](https://img.shields.io/badge/license-MIT-purple.svg)](../LICENSE)
+
+## Introduction
+
+Claude Flow V3 is a next-generation AI agent coordination system built on 10 Architecture Decision Records (ADRs). It provides a modular, security-first, high-performance platform for orchestrating multi-agent swarms with hierarchical mesh topology.
+
+V3 represents a complete architectural overhaul:
+- **10x faster testing** with Vitest
+- **150x-12,500x faster search** with HNSW indexing
+- **2.49x-7.47x Flash Attention speedup**
+- **50-75% memory reduction**
+
+## Features
+
+### Core Capabilities
+
+- **15-Agent Hierarchical Mesh** - Queen-led coordination with specialized worker agents
+- **Domain-Driven Design** - Clean bounded contexts with separation of concerns
+- **Plugin Architecture** - Microkernel pattern for extensibility
+- **MCP-First API** - Consistent interfaces across all modules
+- **Event Sourcing** - Full audit trail for state changes
+- **Hybrid Memory Backend** - SQLite + AgentDB for optimal performance
+
+### Security
+
+- **CVE Remediation** - All known vulnerabilities addressed
+- **Input Validation** - Zod-based schema validation
+- **Secure ID Generation** - Cryptographic random IDs
+- **Path Security** - Traversal protection
+- **SQL Injection Prevention** - Parameterized queries
+
+### Performance
+
+| Metric | Target | Achieved |
+|--------|--------|----------|
+| Event Bus (100k events) | <50ms | ~6ms |
+| Map Lookup (100k gets) | <20ms | ~16ms |
+| Array.find vs Map O(1) | N/A | 978x speedup |
+| Flash Attention | 2.49x-7.47x | Validated |
+| AgentDB Search | 150x-12,500x | HNSW indexed |
+
+## Architecture
+
+### Architecture Decision Records (ADRs)
+
+| ADR | Decision |
+|-----|----------|
+| ADR-001 | Adopt agentic-flow as core foundation |
+| ADR-002 | Domain-Driven Design structure |
+| ADR-003 | Single coordination engine (UnifiedSwarmCoordinator) |
+| ADR-004 | Plugin-based architecture (microkernel) |
+| ADR-005 | MCP-first API design |
+| ADR-006 | Unified memory service (AgentDB) |
+| ADR-007 | Event sourcing for state changes |
+| ADR-008 | Vitest over Jest (10x faster) |
+| ADR-009 | Hybrid memory backend default |
+| ADR-010 | Remove Deno support (Node.js 20+ only) |
+
+### Module Architecture
+
+```
+┌─────────────────────────────────────────────────────────────────┐
+│                     @claude-flow/v3-monorepo                    │
+├─────────────────────────────────────────────────────────────────┤
+│                                                                 │
+│  ┌──────────────┐  ┌──────────────┐  ┌──────────────┐          │
+│  │   security   │  │    memory    │  │    swarm     │          │
+│  │  CVE fixes   │  │   AgentDB    │  │ 15-agent     │          │
+│  │  validation  │  │   HNSW       │  │ coordination │          │
+│  └──────────────┘  └──────────────┘  └──────────────┘          │
+│                                                                 │
+│  ┌──────────────┐  ┌──────────────┐  ┌──────────────┐          │
+│  │ integration  │  │  performance │  │    neural    │          │
+│  │ agentic-flow │  │ Flash Attn   │  │   SONA       │          │
+│  │  bridge      │  │ benchmarks   │  │  learning    │          │
+│  └──────────────┘  └──────────────┘  └──────────────┘          │
+│                                                                 │
+│  ┌──────────────┐  ┌──────────────┐  ┌──────────────┐          │
+│  │     cli      │  │   testing    │  │  deployment  │          │
+│  │  commands    │  │ TDD London   │  │   release    │          │
+│  │  prompts     │  │   School     │  │    CI/CD     │          │
+│  └──────────────┘  └──────────────┘  └──────────────┘          │
+│                                                                 │
+│  ┌─────────────────────────────────────────────────────────┐   │
+│  │                       shared                             │   │
+│  │  types • events • core • hooks • resilience • plugins   │   │
+│  └─────────────────────────────────────────────────────────┘   │
+│                                                                 │
+└─────────────────────────────────────────────────────────────────┘
+```
+
+## Directory Structure
+
+```
+v3/
+├── @claude-flow/                    # Modular packages
+│   ├── security/                    # Security module
+│   │   └── src/
+│   │       ├── index.ts             # Password hashing, validators
+│   │       └── ...
+│   │
+│   ├── memory/                      # Memory module
+│   │   ├── src/
+│   │   │   ├── agentdb-backend.ts   # AgentDB integration
+│   │   │   ├── hnsw-index.ts        # HNSW vector indexing
+│   │   │   ├── hybrid-backend.ts    # SQLite + AgentDB
+│   │   │   ├── sqlite-backend.ts    # SQLite backend
+│   │   │   ├── cache-manager.ts     # Caching layer
+│   │   │   └── domain/              # DDD entities
+│   │   ├── benchmarks/              # Performance benchmarks
+│   │   └── examples/                # Usage examples
+│   │
+│   ├── swarm/                       # Swarm coordination
+│   │   └── src/
+│   │       ├── unified-coordinator.ts  # Main coordinator
+│   │       ├── topology-manager.ts     # Topology management
+│   │       ├── consensus/              # Consensus protocols
+│   │       └── domain/                 # DDD entities
+│   │
+│   ├── integration/                 # agentic-flow integration
+│   │   └── src/
+│   │       ├── agentic-flow-bridge.ts  # Core bridge
+│   │       ├── agent-adapter.ts        # Agent adaptation
+│   │       └── sona-adapter.ts         # SONA learning
+│   │
+│   ├── performance/                 # Performance module
+│   │   ├── src/
+│   │   │   └── framework/           # Benchmark framework
+│   │   └── benchmarks/
+│   │       ├── startup/             # Startup benchmarks
+│   │       └── attention/           # Flash Attention
+│   │
+│   ├── neural/                      # Neural/SONA module
+│   │   └── src/
+│   │       ├── algorithms/          # Learning algorithms
+│   │       └── modes/               # Neural modes
+│   │
+│   ├── cli/                         # CLI module
+│   │   ├── bin/                     # Executable
+│   │   └── src/
+│   │       └── commands/            # Command handlers
+│   │
+│   ├── testing/                     # Testing framework
+│   │   └── src/
+│   │       ├── fixtures/            # Test fixtures
+│   │       ├── mocks/               # Mock services
+│   │       ├── helpers/             # Test helpers
+│   │       └── regression/          # Regression tests
+│   │
+│   ├── shared/                      # Shared utilities
+│   │   └── src/
+│   │       ├── types/               # Shared types
+│   │       ├── events/              # Event system
+│   │       ├── core/                # Core interfaces
+│   │       ├── hooks/               # Hook system
+│   │       ├── resilience/          # Retry, circuit breaker
+│   │       ├── plugins/             # Plugin system
+│   │       └── security/            # Security utilities
+│   │
+│   └── deployment/                  # Deployment module
+│       └── src/                     # Release management
+│
+├── mcp/                             # MCP Server
+│   ├── server.ts                    # Main server
+│   ├── tools/                       # MCP tools
+│   │   ├── agent-tools.ts
+│   │   ├── swarm-tools.ts
+│   │   ├── memory-tools.ts
+│   │   └── hooks-tools.ts
+│   └── transport/                   # Transport layers
+│       ├── stdio.ts
+│       ├── http.ts
+│       └── websocket.ts
+│
+├── __tests__/                       # Integration tests
+│   └── integration/
+│       ├── memory-integration.test.ts
+│       ├── swarm-integration.test.ts
+│       ├── mcp-integration.test.ts
+│       └── workflow-integration.test.ts
+│
+├── docs/                            # Documentation
+│   ├── README.md                    # Docs overview
+│   ├── guides/                      # User guides
+│   └── implementation/              # Implementation details
+│
+├── helpers/                         # Cross-platform helpers
+│   ├── claude-flow-v3.sh            # Master helper (Linux/macOS)
+│   ├── claude-flow-v3.ps1           # Master helper (Windows)
+│   └── templates/                   # Helper templates
+│
+├── scripts/                         # Utility scripts
+│   └── quick-benchmark.mjs          # Quick perf test
+│
+├── index.ts                         # Main entry point
+├── swarm.config.ts                  # Swarm configuration
+├── vitest.config.ts                 # Test configuration
+└── package.json                     # Monorepo package
+```
+
+## Modules
+
+### @claude-flow/security
+Security-first implementation with CVE fixes, input validation, and credential management.
+
+```typescript
+import { PasswordHasher, validateInput, sanitizePath } from '@claude-flow/security';
+
+const hasher = new PasswordHasher();
+const hash = await hasher.hash('password');
+const valid = await hasher.verify('password', hash);
+```
+
+### @claude-flow/memory
+Unified memory service with AgentDB, HNSW indexing, and 150x-12,500x faster search.
+
+```typescript
+import { HybridMemoryRepository, HNSWIndex } from '@claude-flow/memory';
+
+const memory = new HybridMemoryRepository({
+  backend: 'agentdb',
+  vectorSearch: true
+});
+
+await memory.store({ key: 'knowledge', value: 'context', embedding: [...] });
+const results = await memory.search({ query: 'knowledge', limit: 10 });
+```
+
+### @claude-flow/swarm
+15-agent hierarchical mesh coordination with consensus protocols.
+
+```typescript
+import { UnifiedSwarmCoordinator } from '@claude-flow/swarm';
+
+const coordinator = new UnifiedSwarmCoordinator({
+  topology: 'hierarchical-mesh',
+  maxAgents: 15
+});
+
+await coordinator.initialize();
+await coordinator.spawnAgent({ type: 'queen-coordinator' });
+```
+
+### @claude-flow/integration
+Deep integration with agentic-flow@alpha per ADR-001.
+
+```typescript
+import { AgenticFlowBridge } from '@claude-flow/integration';
+
+const bridge = new AgenticFlowBridge();
+await bridge.initialize();
+const agent = await bridge.createAgent({ type: 'coder' });
+```
+
+### @claude-flow/performance
+Benchmarking framework with Flash Attention validation.
+
+```typescript
+import { BenchmarkRunner, formatTime } from '@claude-flow/performance';
+
+const runner = new BenchmarkRunner();
+const result = await runner.run('map-lookup', () => map.get(key), {
+  iterations: 100000,
+  targetTime: 20
+});
+```
+
+### @claude-flow/neural
+SONA learning integration for self-optimizing agents.
+
+```typescript
+import { SONAAdapter } from '@claude-flow/neural';
+
+const sona = new SONAAdapter();
+await sona.train({ patterns: learningData });
+const prediction = await sona.predict(context);
+```
+
+### @claude-flow/cli
+Modern CLI with interactive prompts and formatted output.
+
+```bash
+npx @claude-flow/cli swarm init --topology hierarchical-mesh
+npx @claude-flow/cli agent spawn --type queen-coordinator
+npx @claude-flow/cli memory search "knowledge"
+```
+
+### @claude-flow/testing
+TDD London School framework with mocks, fixtures, and regression testing.
+
+```typescript
+import { createMockAgent, createTestFixture } from '@claude-flow/testing';
+
+const mockAgent = createMockAgent({ type: 'coder' });
+const fixture = createTestFixture('swarm-coordination');
+```
+
+### @claude-flow/shared
+Common types, events, utilities, and core interfaces.
+
+```typescript
+import { EventBus, Result, success, failure } from '@claude-flow/shared';
+import type { AgentId, TaskStatus } from '@claude-flow/shared/types';
+```
+
+### @claude-flow/deployment
+Release management and CI/CD automation.
+
+```typescript
+import { ReleaseManager } from '@claude-flow/deployment';
+
+const release = new ReleaseManager();
+await release.prepare({ version: '3.0.0', changelog: '...' });
+```
+
+## Usage
+
+### Quick Start
+
+```typescript
+import { initializeV3Swarm } from '@claude-flow/v3';
+
+// Initialize the swarm
+const swarm = await initializeV3Swarm();
+
+// Spawn agents
+await swarm.spawnAllAgents();
+
+// Submit a task
+const task = swarm.submitTask({
+  type: 'implementation',
+  title: 'Implement feature X',
+  description: 'Detailed description...',
+  domain: 'core',
+  phase: 'phase-2-core',
+  priority: 'high'
+});
+
+// Wait for completion
+const result = await swarm.waitForTask(task.id);
+```
+
+### Import Specific Modules
+
+```typescript
+// Import everything
+import * as claudeFlow from '@claude-flow/v3';
+
+// Or import specific modules for tree-shaking
+import { UnifiedSwarmCoordinator } from '@claude-flow/swarm';
+import { PasswordHasher } from '@claude-flow/security';
+import { HNSWIndex } from '@claude-flow/memory';
+```
+
+### MCP Server
+
+```typescript
+import { createMCPServer } from '@claude-flow/v3/mcp';
+
+const server = createMCPServer({
+  transport: 'stdio',
+  tools: ['agent', 'swarm', 'memory', 'hooks']
+});
+
+await server.start();
+```
+
+## Helper System
+
+Cross-platform automation for V3 development:
+
+```bash
+# Linux/macOS
+./helpers/claude-flow-v3.sh init
+./helpers/claude-flow-v3.sh status
+./helpers/claude-flow-v3.sh update domain 3
+
+# Windows (PowerShell)
+.\helpers\claude-flow-v3.ps1 init
+.\helpers\claude-flow-v3.ps1 status
+.\helpers\claude-flow-v3.ps1 update domain 3
+```
+
+Features:
+- **Progress Tracking**: Real-time domain/agent/performance metrics
+- **Checkpointing**: Auto-commit with development milestones
+- **Validation**: Environment and configuration verification
+- **GitHub Integration**: PR management and issue tracking
+
+## Installation
+
+```bash
+# Clone the repository
+git clone https://github.com/ruvnet/claude-flow.git
+cd claude-flow/v3
+
+# Install dependencies
+pnpm install
+
+# Build all modules
+pnpm build
+```
+
+## Testing
+
+```bash
+# Run all tests
+pnpm test
+
+# Run integration tests
+pnpm test:integration
+
+# Run specific module tests
+pnpm test:memory
+pnpm test:swarm
+pnpm test:security
+
+# Run benchmarks
+pnpm bench
+
+# Quick benchmark (no dependencies)
+node scripts/quick-benchmark.mjs
+
+# Coverage report
+pnpm test:coverage
+```
+
+## Performance Targets
+
+| Category | Metric | Target |
+|----------|--------|--------|
+| **Search** | AgentDB HNSW | 150x-12,500x faster |
+| **Attention** | Flash Attention | 2.49x-7.47x speedup |
+| **Memory** | Reduction | 50-75% |
+| **Code** | Total lines | <5,000 |
+| **Startup** | Cold start | <500ms |
+| **Learning** | SONA adaptation | <0.05ms |
+
+## Links
+
+### Documentation
+- [Docs Overview](./docs/README.md)
+- [Implementation Details](./docs/implementation/)
+- [User Guides](./docs/guides/)
+- [Helper System](./helpers/README.md)
+
+### Modules
+- [@claude-flow/security](./@claude-flow/security/)
+- [@claude-flow/memory](./@claude-flow/memory/)
+- [@claude-flow/swarm](./@claude-flow/swarm/)
+- [@claude-flow/integration](./@claude-flow/integration/)
+- [@claude-flow/performance](./@claude-flow/performance/)
+- [@claude-flow/neural](./@claude-flow/neural/)
+- [@claude-flow/cli](./@claude-flow/cli/)
+- [@claude-flow/testing](./@claude-flow/testing/)
+- [@claude-flow/shared](./@claude-flow/shared/)
+- [@claude-flow/deployment](./@claude-flow/deployment/)
+
+### Examples
+- [AgentDB Example](./@claude-flow/memory/examples/agentdb-example.ts)
+- [Cross-Platform Usage](./@claude-flow/memory/examples/cross-platform-usage.ts)
+
+### MCP Tools
+- [Agent Tools](./mcp/tools/agent-tools.ts)
+- [Swarm Tools](./mcp/tools/swarm-tools.ts)
+- [Memory Tools](./mcp/tools/memory-tools.ts)
+- [Hooks Tools](./mcp/tools/hooks-tools.ts)
+
+### External
+- [GitHub Repository](https://github.com/ruvnet/claude-flow)
+- [agentic-flow Integration](https://github.com/ruvnet/agentic-flow)
+- [AgentDB](https://github.com/ruvnet/agentdb)
+
+## Requirements
+
+- **Node.js**: >=20.0.0
+- **pnpm**: >=8.0.0
+- **TypeScript**: >=5.3.0
+
+## License
+
+MIT License - See [LICENSE](../LICENSE) for details.
+
+---
+
+**Built with the SPARC methodology and 15-agent hierarchical mesh coordination.**