MCP Server Lims

🚀 MCP Server LIMS

The goal of MCP Server LIMS is to implement a complete Laboratory Information Management System (LIMS) for managing the entire process from sample reception to data analysis.

🚀 Quick Start

The MCP Server LIMS aims to offer a comprehensive solution for laboratory information management, covering the entire workflow from sample reception to data analysis.

✨ Features

1. Sample Reception and Registration
   • Enter basic sample information (e.g., name, source) into the system.
2. Preparation Steps
   • Process samples using MCP tools, including attaching labels and monitoring "Pass" or "Fail" status.
3. Analysis Steps
   • Analyze samples that passed the preparation steps.
4. Report Generation
   • Generate comprehensive reports containing data from all the previous three steps.

🔧 Technical Details

• Develop server - side code using Python.
• Use SQLite database to store and manage sample information and experimental data.
• Provide RESTful API interfaces for easy integration with other systems.

📦 Installation

Clone the repository

$ git clone https://github.com/sheffler/mcp-server-lims

Initialize the environment

$ cd mcp-server-lims
$ uv init
$ uv venv
$ . .venv/bin/activate

Install dependencies

$ uv sync

📚 Documentation

Configuration Examples

Claude Desktop Configuration

Edit ~/Library/Application Support/Claude/claude_desktop_config.json and add the following content:

{
    "mcpServers": {
        "mcp-lims-server": {
            "command": "/Users/sheffler/git/mcp-server-lims/.venv/bin/python",
            "args": [
                "/Users/sheffler/git/mcp-server-lims/lims_server.py"
            ]
        },
        "sqlite": {
            "command": "/Users/sheffler/.local/bin/uvx",
            "args": [
                "mcp-server-sqlite",
                "--db-path",
                "/Users/sheffler/test.db"
            ]
        }
    }
}

Oterm Configuration

Edit ~/Library/Application Support/oterm/config.json and add the following content:

{
    "theme": "textual-dark",
    "splash-screen": false,
    "mcpServers": {
        "mcp-lims-server": {
            "command": "/Users/sheffler/git/mcp-server-lims/.venv/bin/python",
            "args": [
                "/Users/sheffler/git/mcp-server-lims/lims_server.py"
            ]
        },
        "sqlite": {
            "command": "/Users/sheffler/.local/bin/uvx",
            "args": [
                "mcp-server-sqlite",
                "--db-path",
                "/Users/sheffler/test.db"
            ]
        }
    }
}

Example Report

The example report generated by Claude Desktop is shown in the following figure: