mcp-server-galaxy-tool

mcp-server-galaxy-tool

1
developer_tools

This project is an MCP server that facilitates the management and utility functions related to Galaxy tool XML files, including validation and template generation. It is intended for use with the Cline extension in VSCode, requiring Python 3.8+ and UV for setup.

MCP Server: Galaxy Tool Utilities

This project provides an MCP (Model Context Protocol) server that exposes utilities for working with Galaxy tool XML files.

Features (More Coming Soon)

  • Validate Galaxy Tool XML: Check if a Galaxy tool XML file is valid according to the official schema.
  • Generate Basic Template: Instantly create a boilerplate Galaxy tool XML file.

Requirements

  • Python 3.8+
  • uv (for running the server, or use your preferred Python environment)
  • Cline (or any MCP-compatible agent)

Installation

  1. Clone this repository:

    git clone https://github.com/yourusername/mcp-server-galaxy-tool.git
cd mcp-server-galaxy-tool

  2. Install dependencies:

    uv sync

Configuring the MCP Server in Cline

To use this MCP server with Cline in VSCode, add it to your Cline MCP configuration. Here’s how:

  1. Install Cline in VSCode by searching for it in the Extensions marketplace and installing it.

  2. Follow the Cline documentation to add a new server entry. Here is an example MCP servers config:

    {
  "mcpServers": {
    "Galaxy Tools": {
      "disabled": false,
      "timeout": 60,
      "command": "<path to your uv>",
      "args": [
        "--directory",
        "</path/to/this/repo/mcp-server-galaxy-tool>",
        "run",
        "main.py"
      ],
      "transportType": "stdio"
    }
  }
}
  • Make sure the command and workingDirectory match your local setup.
  • Save the file and restart Cline if necessary.

Usage

Once the server is running and configured in Cline, you can try this example in Cline:

Create a Galaxy tool that uses PyCaret to perform regression on tabular data.

Project Structure

  • main.py — MCP server entry point
  • galaxy.xsd — Official Galaxy tool XML schema
  • pyproject.toml — Python project configuration
  • README.md — This documentation

License

MIT License

Acknowledgments