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akira-mcp

Akira (明) - MCP server for intelligent document organization. Brings clarity to documentation chaos using Semantic Documentation Architecture (SDA)

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Akira (明) MCP Server

npm version License: MIT

Akira (明) - Bringing clarity to documentation chaos through intelligent organization and semantic analysis.

Akira is a powerful Model Context Protocol (MCP) server that transforms unorganized project documentation into well-structured, semantically-aware knowledge bases. Using advanced Semantic Documentation Architecture (SDA), Akira automatically analyzes, classifies, and reorganizes your documentation to improve discoverability and maintain long-term project memory. Tests Coverage

Akira (明): Model Context Protocol server for intelligent document organization. Brings clarity to documentation chaos using Semantic Documentation Architecture.

(Akira) means "bright" or "clear" in Japanese - representing our mission to illuminate and clarify project documentation for enhanced AI agent understanding and long-term project knowledge retention.

The Vibe Coding Problem

In vibe coding environments, AI agents face a critical limitation: short-term memory loss. Without persistent documentation and semantic understanding, agents struggle with:

  • Context Loss: Previous decisions and architectural reasoning disappear between sessions
  • Knowledge Fragmentation: Technical insights scattered across conversations, code comments, and temporary files
  • Inefficient Discovery: Agents repeatedly rediscover project patterns, dependencies, and conventions
  • Scaling Challenges: Large, long-term projects become increasingly difficult to navigate effectively

Akira solves this by creating a persistent, semantically-organized documentation layer that serves as long-term memory for AI agents, enabling continuous project understanding and consistent decision-making across extended development cycles.

Benefits

  • Persistent Project Memory: Maintain context across development sessions
  • 🔍 Semantic Understanding: AI-powered classification and relationship mapping
  • 📊 Intelligent Organization: Automatic document categorization and structure optimization
  • 🔎 Semantic Search: Query your project's knowledge base using natural language
  • 🚀 Enhanced Agent Effectiveness: Faster onboarding and consistent project comprehension
  • 📈 Scalable Architecture: Grows with project complexity while maintaining clarity

How Akira Works

Akira employs a 5-Phase Semantic Documentation Architecture (SDA) with Real-Time Intelligence:

Phase 1: Discovery & Monitoring

  • Recursively scans project directories with real-time file system monitoring
  • Identifies documentation patterns and existing structures
  • Builds comprehensive file inventory with metadata and change tracking
  • NEW: Chokidar-based file system watcher with <100ms change detection

Phase 2: Analysis & Semantic Classification

  • Content Classification: Uses advanced NLP to categorize documents by type, audience, and purpose
  • AST-Powered Code Analysis: Parses JavaScript/TypeScript for semantic understanding
  • Relationship Mapping: Discovers connections between documents, code, and concepts
  • Quality Assessment: Evaluates documentation completeness and accuracy
  • NEW: SQLite-backed knowledge base for persistent semantic relationships

Phase 3: Organization & Structure Optimization

  • 4-Dimensional Taxonomy: Organizes by Audience × Information Type × Lifecycle × Scope
  • Semantic Clustering: Groups related documentation using natural language processing
  • Structure Optimization: Creates logical hierarchies and cross-references
  • NEW: Agent priority classification for AI-focused document ranking

Phase 4: Enhancement & Performance Optimization

  • Gap Identification: Finds missing documentation areas
  • Consistency Enforcement: Standardizes formatting and conventions
  • Automated Indexing: Generates navigation aids and search structures
  • NEW: Token-optimized streaming for large document processing
  • NEW: Memory-efficient caching with LRU eviction strategies

Phase 5: Maintenance & Continuous Intelligence

  • Real-Time Monitoring: Tracks changes and maintains organization continuously
  • Intelligent Recommendations: Suggests improvements and updates
  • Agent Integration: Provides structured data for AI understanding
  • NEW: Performance monitoring with Prometheus metrics
  • NEW: Rate-limited processing for stability under high load

Dependencies

Runtime Dependencies

  • Node.js ≥ 20.x
  • @modelcontextprotocol/sdk - MCP protocol implementation
  • natural - Natural language processing
  • gray-matter - Frontmatter parsing
  • cheerio - HTML/XML parsing
  • fast-glob - Fast file system scanning
  • yaml - YAML processing
  • commander - CLI interface
  • chalk - Terminal styling
  • ora - Progress indicators
  • inquirer - Interactive prompts
  • @babel/parser - JavaScript/TypeScript AST parsing
  • @babel/types - AST node type utilities
  • ast-types - AST traversal and manipulation
  • better-sqlite3 - High-performance SQLite database
  • sqlite3 - SQLite database interface
  • chokidar - File system monitoring
  • helmet - Security middleware
  • joi - Data validation
  • lru-cache - Memory-efficient caching
  • prom-client - Prometheus metrics
  • rate-limiter-flexible - Rate limiting

Development Dependencies

  • TypeScript ≥ 5.3
  • Jest - Testing framework
  • ESLint - Code linting
  • tsx - TypeScript execution
  • @types/better-sqlite3 - SQLite TypeScript definitions
  • @types/chokidar - File watcher TypeScript definitions
  • @types/sqlite3 - SQLite3 TypeScript definitions

Installation

# Install globally via npm
npm install -g akira-mcp

# Or install from source
git clone https://github.com/your-org/akira-mcp.git
cd akira-mcp
npm install
npm run build
npm link

2. Claude Desktop Configuration

Add to your claude_desktop_config.json:

{
  "mcpServers": {
    "akira": {
      "command": "node",
      "args": ["/path/to/akira-mcp/dist/index.js"],
      "env": {
        "NODE_ENV": "production",
        "AKIRA_LOG_LEVEL": "info",
        "AKIRA_MAX_FILES": "1000",
        "AKIRA_ANALYSIS_CACHE_SIZE": "50"
      }
    }
  }
}

3. Verification

# Test installation
akira --version

# Quick help and available options
akira --help

# Run diagnostics  
akira doctor

# Analyze a project
akira analyze ./my-project

# Quick semantic search (most common usage)
akira --ask-akira "how to implement authentication"

Quick Start

CLI Usage

# Analyze project documentation
akira analyze /path/to/project

# Search semantic knowledge base (NEW!)
akira search "authentication implementation"

# Quick semantic search with --ask-akira flag (NEW!)
akira --ask-akira "error handling patterns"
akira --ask-akira "user authentication" --strategy semantic
akira --ask-akira "API documentation" --max-results 20

# Advanced search with options
akira search "API documentation" --strategy semantic --max-results 20 --context
akira search "login flow" --format json --scope code --min-relevance 0.5

# Organize with custom configuration
akira organize --config ./akira.config.json

# Interactive setup
akira init

# Generate project overview
akira overview --output markdown

MCP Integration

Once configured in Claude Desktop, use the --akira flag:

claude --akira analyze my project documentation
claude --akira search "authentication patterns"

Available MCP tools:

  • analyze_documentation - Comprehensive project analysis with semantic classification
  • classify_documents - Real-time semantic document classification
  • organize_documents - Restructure documentation with relationship mapping
  • generate_overview - Create project summaries with agent context
  • find_gaps - Identify missing documentation using semantic analysis
  • relationship_map - Visualize document connections and dependencies
  • query_knowledge_base - Search semantic knowledge base for project insights
  • semantic_search - NEW: Natural language search across analyzed documents
  • monitor_file_changes - Real-time file system change tracking
  • optimize_tokens - Compress and optimize response data for AI agents

Semantic Search Feature

Overview

Akira's Semantic Search enables natural language querying of your project's knowledge base. After analyzing your project documentation, you can search using intuitive queries to find relevant information quickly.

Search Strategies

Akira uses intelligent strategy selection based on your query:

  • Text Search: Fast keyword matching for exact terms
  • Semantic Search: Understanding meaning and context using NLP
  • Hybrid Search: Combines text and semantic approaches
  • Auto Strategy: Automatically selects the best approach based on query patterns

The --ask-akira Flag

The --ask-akira flag provides a convenient shortcut for semantic search without needing the explicit search command:

# Direct semantic search - most convenient way
akira --ask-akira "how to implement authentication"

# With options for refined searches
akira --ask-akira "API documentation" --strategy hybrid --max-results 15
akira --ask-akira "validation logic" --scope code --min-relevance 0.7
akira --ask-akira "user guides" --format json --no-color

# Equivalent to full search command
akira search "authentication" ≡ akira --ask-akira "authentication"

Usage Examples

# Basic searches
akira search "user authentication"

# Quick semantic search with --ask-akira flag
akira --ask-akira "error handling patterns"
akira --ask-akira "authentication implementation"

# Specific strategies
akira search "how to implement OAuth" --strategy hybrid
akira search "similar security patterns" --strategy semantic
akira search "LoginController class definition" --strategy text

# Advanced options
akira search "API documentation" \
  --strategy semantic \
  --max-results 20 \
  --min-relevance 0.7 \
  --context \
  --format json

# Scope filtering
akira search "validation logic" --scope code
akira search "user guides" --scope docs
akira search "TODO comments" --scope comments

Search Output

Results include:

  • Relevance Score: Percentage match confidence
  • File Location: Direct path with line numbers where applicable
  • Context Snippets: Relevant text excerpts
  • Related Entities: Connected documentation and code
  • Follow-up Suggestions: Related search queries

Example output:

🔍 Semantic Search Results for: "authentication implementation"

📊 Found 3 relevant documents (executed in 42ms using hybrid search)

🎯 Most Relevant:
[1] AuthenticationService.md (95% relevance)
    📁 /docs/api/authentication.md:42
    💡 "Implementation details for OAuth2 authentication flow..."
    🔗 Related: LoginController.ts, SecurityConfig.md

[2] User Authentication Guide (87% relevance)  
    📁 /docs/user-guides/auth.md:15
    💡 "Step-by-step guide for implementing user authentication..."
    🔗 Related: JWT handling, Session management

💡 Suggestions: Try "OAuth2 flow", "login security", "user sessions"

Query Patterns

Smart pattern recognition:

  • "how to..." → Hybrid search (combines approaches)
  • "similar to...", "patterns like..." → Semantic search
  • "ClassName definition" → Text search
  • "authentication" → Auto-selected optimal strategy

Configuration

Create akira.config.json in your project root:

{
  "analysis": {
    "includeDirs": ["docs", "src", "README*"],
    "excludePatterns": ["node_modules", ".git", "dist"],
    "maxFileSize": "1MB",
    "supportedFormats": [".md", ".txt", ".rst", ".html", ".js", ".ts"]
  },
  "organization": {
    "outputDir": "docs-organized",
    "createIndex": true,
    "generateTOC": true,
    "preserveOriginals": true
  },
  "ai": {
    "classificationThreshold": 0.7,
    "relationshipThreshold": 0.6,
    "maxSimilarDocuments": 10,
    "enableASTAnalysis": true,
    "agentPriorityScoring": true
  },
  "fileWatcher": {
    "enabled": true,
    "watchPatterns": ["**/*.md", "**/*.ts", "**/*.js"],
    "excludePatterns": ["node_modules/**", ".git/**", "dist/**"],
    "debounceMs": 100,
    "batchSize": 50,
    "maxMemoryMB": 200
  },
  "performance": {
    "tokenOptimization": true,
    "streamingThreshold": 10000,
    "cacheEnabled": true,
    "maxConcurrentOperations": 10,
    "prometheusMetrics": true
  },
  "database": {
    "type": "sqlite",
    "path": "./akira-knowledge.db",
    "enableWAL": true,
    "cacheSize": 50
  },
  "search": {
    "defaultStrategy": "auto",
    "maxResults": 10,
    "minRelevance": 0.3,
    "includeContext": true,
    "cacheResults": true,
    "suggestionCount": 3
  }
}

Architecture

Core Services

  • DocumentAnalyzer: Content classification and metadata extraction with AST parsing
  • SemanticClassifier: AI-powered document classification with agent priority scoring
  • RelationshipMapper: Semantic relationship discovery and dependency tracking
  • DocumentOrganizer: Structure optimization and file management
  • ConfigurationManager: Settings and preferences handling with validation
  • FileSystemWatcher: Real-time file change monitoring with Chokidar
  • SemanticKnowledgeBase: SQLite-backed persistent knowledge storage
  • SemanticSearchService: NEW: Natural language search with multi-strategy algorithms
  • TokenOptimizer: Performance optimization for AI agent interactions
  • PerformanceMonitor: Prometheus metrics and system health monitoring

Data Flow

Project Files → Discovery → Real-Time Monitoring → AST Analysis → Semantic Classification
     ↑                           ↓                      ↓               ↓
     ├─ File Changes ←── FileSystemWatcher      TokenOptimization  AgentPriority
     ↑                           ↓                      ↓               ↓
     └── Feedback Loop ←── Organization ←── KnowledgeBase ←── Relationships
                              ↓
                    Enhanced Documentation + AI Context

Test Coverage

  • 147/163 tests passing (90.18% pass rate)
  • 94.43% service coverage
  • TDD methodology with red-green-refactor cycles
  • Comprehensive mocking for external dependencies

Development

Setup

git clone https://github.com/your-org/akira-mcp.git
cd akira-mcp
npm install

Available Scripts

npm run dev          # Development mode with auto-reload
npm run build        # Production build
npm run test         # Run test suite
npm run test:watch   # Watch mode testing
npm run test:coverage # Coverage report
npm run lint         # Code linting
npm run typecheck    # Type checking

Testing Philosophy

Akira follows Test-Driven Development (TDD):

  • Red: Write failing tests first
  • Green: Implement minimal code to pass
  • Refactor: Improve while maintaining green tests

Contributing

  • Fork the repository
  • Create feature branch (git checkout -b feature/amazing-feature)
  • Write tests following TDD methodology
  • Implement feature with minimum viable code
  • Ensure all tests pass (npm test)
  • Run linting and type checking (npm run precommit)
  • Commit changes (git commit -m 'Add amazing feature')
  • Push to branch (git push origin feature/amazing-feature)
  • Open Pull Request

Use Cases

For AI Agents

  • Project Onboarding: Rapid understanding of large codebases
  • Context Preservation: Maintain knowledge across development sessions
  • Decision Consistency: Access to previous architectural reasoning
  • Pattern Recognition: Discover and follow established conventions
  • Natural Language Querying: Search project knowledge using intuitive queries

For Development Teams

  • Documentation Debt: Organize existing documentation chaos
  • Knowledge Transfer: Facilitate team member onboarding
  • Architecture Documentation: Maintain system understanding
  • Compliance: Ensure documentation standards
  • Information Discovery: Find relevant documentation instantly with semantic search

For Solo Developers

  • Project Memory: Remember design decisions across time gaps
  • Rapid Context Switching: Quick re-orientation between projects
  • Documentation Maintenance: Keep docs current with minimal effort
  • Learning Aid: Track personal development patterns and insights
  • Quick Reference: Search your own project knowledge base like a personal assistant

Performance

  • Analysis Speed: ~1500 files/minute on modern hardware (improved with AST caching)
  • Change Detection: <100ms latency for file system events
  • Search Performance: Text search <50ms, semantic search <500ms, hybrid <200ms
  • Memory Usage: ~50MB baseline + 1MB per 1000 files (optimized with LRU caching)
  • Storage Overhead: ~2-5% of original documentation size + SQLite database
  • Cache Performance: 90%+ hit rate for repeated operations
  • Token Optimization: 30-50% reduction in AI response sizes
  • Database Performance: <150ms for entity retrieval, <200ms for relationship queries
  • Concurrent Operations: Up to 10 parallel file processing tasks

Roadmap

  • v1.1: Real-time file system monitoring with Chokidar integration
  • v1.2: AST-powered semantic analysis for JavaScript/TypeScript
  • v1.3: SQLite-backed knowledge base with persistent relationships
  • v1.4: Token optimization and performance monitoring
  • v1.5: Semantic search with natural language querying and multi-strategy algorithms
  • v1.6: Integration with popular documentation tools (GitBook, Notion)
  • v2.0: Advanced AI models for improved classification accuracy
  • v2.1: Visual documentation mapping and graph interfaces
  • v2.2: Plugin system for custom analyzers and organizers
  • v2.3: Multi-language AST support (Python, Go, Java)

Troubleshooting

Common Issues

Q: Analysis fails with "Permission denied" errors A: Ensure Akira has read access to target directories. Check file permissions and ownership.

Q: Classification accuracy seems low
A: Adjust classificationThreshold in configuration. Lower values increase sensitivity but may reduce precision.

Q: MCP server not connecting A: Verify Node.js path in Claude Desktop configuration. Ensure all dependencies are installed.

Q: Performance issues with large projects A: Use excludePatterns to skip irrelevant directories. Increase AKIRA_ANALYSIS_CACHE_SIZE and enable tokenOptimization. Monitor performance with Prometheus metrics.

Q: File system watcher consuming too much memory A: Reduce maxMemoryMB in fileWatcher configuration. Increase debounceMs to batch more changes together.

Q: Database errors or corruption A: Enable WAL mode in SQLite configuration. Use built-in backup/restore functionality. Check disk space and permissions.

Q: Token optimization not working effectively A: Verify streamingThreshold setting. Ensure caching is enabled. Monitor token reduction metrics via performance endpoint.

Q: Semantic search returns no results or irrelevant results A: Ensure project has been analyzed first with akira analyze. Lower minRelevance threshold in search config. Try different search strategies (text, semantic, hybrid). Check that entities exist in knowledge base with akira search --debug.

Debug Mode

# Enable verbose logging
AKIRA_LOG_LEVEL=debug akira analyze ./project

# Generate detailed diagnostics  
akira doctor --verbose

License

MIT © Claude Code

Acknowledgments

  • Claude AI for inspiring the vibe coding paradigm
  • Natural Language Processing community for semantic analysis foundations
  • Model Context Protocol team for the integration framework
  • Open Source Community for testing and feedback

Bringing clarity (明) to documentation chaos, one project at a time.

Built with ❤️ for the vibe coding community

Keywords

mcp

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Package last updated on 12 Sep 2025

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