+------------------------------------------+
|              AI Assistant                |
+--------------------+---------------------+
                    |
                    | Model Context Protocol
                    |
+--------------------v---------------------+
|              YaraFlux MCP Server         |
|                                          |
|  +----------------+    +---------------+ |
|  | MCP Server     |    | Tool Registry | |
|  +-------+--------+    +-------+-------+ |
|          |                     |         |
|  +-------v--------+    +-------v-------+ |
|  | YARA Service   |    | Storage Layer | |
|  +----------------+    +---------------+ |
|                                          |
+------------------------------------------+
          |                   |
 +-----------------+  +---------------+
 | YARA Engine     |  | Storage       |
 | - Rule Compiling|  | - Local FS    |
 | - File Scanning |  | - MinIO/S3    |
 +-----------------+  +---------------+

# Pull the latest Docker image
docker pull threatflux/yaraflux-mcp-server:latest
# Run the container
docker run -p 8000:8000 \
  -e JWT_SECRET_KEY=your-secret-key \
  -e ADMIN_PASSWORD=your-admin-password \
  -e DEBUG=true \
  threatflux/yaraflux-mcp-server:latest
### Using Docker building from source

```bash
# Clone the repository
git clone https://github.com/ThreatFlux/YaraFlux.git
cd YaraFlux/

# Build the Docker image
docker build -t yaraflux-mcp-server:latest .

# Run the container
docker run -p 8000:8000 \
  -e JWT_SECRET_KEY=your-secret-key \
  -e ADMIN_PASSWORD=your-admin-password \
  -e DEBUG=true \
  yaraflux-mcp-server:latest

# Clone the repository
git clone https://github.com/ThreatFlux/YaraFlux.git
cd YaraFlux/

# Install dependencies (requires Python 3.13+)
make install

# Run the server
make run

docker build -t yaraflux-mcp-server:latest .

{
  "mcpServers": {
    "yaraflux-mcp-server": {
      "command": "docker",
      "args": [
        "run",
        "-i",
        "--rm",
        "--env",
        "JWT_SECRET_KEY=your-secret-key",
        "--env",
        "ADMIN_PASSWORD=your-admin-password",
        "--env",
        "DEBUG=true",
        "--env",
        "PYTHONUNBUFFERED=1",
        "threatflux/yaraflux-mcp-server:latest"
      ],
      "disabled": false,
      "autoApprove": [
        "scan_url",
        "scan_data",
        "list_yara_rules",
        "get_yara_rule"
      ]
    }
  }
}

yaraflux_mcp_server/
├── src/
│   └── yaraflux_mcp_server/
│       ├── app.py                 # FastAPI application
│       ├── auth.py                # JWT authentication and user management
│       ├── config.py              # Configuration settings loader
│       ├── models.py              # Pydantic models for requests/responses
│       ├── mcp_server.py          # MCP server implementation
│       ├── utils/                 # Utility functions package
│       │   ├── __init__.py        # Package initialization
│       │   ├── error_handling.py  # Standardized error handling
│       │   ├── param_parsing.py   # Parameter parsing utilities
│       │   └── wrapper_generator.py # Tool wrapper generation
│       ├── mcp_tools/             # Modular MCP tools package
│       │   ├── __init__.py        # Package initialization
│       │   ├── base.py            # Base tool registration utilities
│       │   ├── file_tools.py      # File management tools
│       │   ├── rule_tools.py      # YARA rule management tools
│       │   ├── scan_tools.py      # Scanning tools
│       │   └── storage_tools.py   # Storage management tools
│       ├── storage/               # Storage implementation package
│       │   ├── __init__.py        # Package initialization
│       │   ├── base.py            # Base storage interface
│       │   ├── factory.py         # Storage client factory
│       │   ├── local.py           # Local filesystem storage
│       │   └── minio.py           # MinIO/S3 storage
│       ├── routers/               # API route definitions
│       │   ├── __init__.py        # Package initialization
│       │   ├── auth.py            # Authentication API routes
│       │   ├── files.py           # File management API routes
│       │   ├── rules.py           # YARA rule management API routes
│       │   └── scan.py            # YARA scanning API routes
│       ├── yara_service.py        # YARA rule management and scanning
│       ├── __init__.py            # Package initialization
│       └── __main__.py            # CLI entry point
├── docs/                          # Documentation
├── tests/                         # Test suite
├── Dockerfile                     # Docker configuration
├── entrypoint.sh                  # Container entrypoint script
├── Makefile                       # Build automation
├── pyproject.toml                 # Project metadata and dependencies
├── requirements.txt               # Core dependencies
└── requirements-dev.txt           # Development dependencies

# Set up development environment
make dev-setup

# Run tests
make test

# Code quality checks
make lint
make format
make security-check

# Generate test coverage report
make coverage

# Run development server
make run