mcp-server-jupyter

An MCP server for managing and interacting with Jupyter notebooks programmatically.

Components

Tools

The server provides six tools for notebook manipulation:

1. read_notebook_with_outputs: Read a notebook's content including cell outputs

• Required: notebook_path (string)

2. read_notebook_source_only: Read notebook content without outputs

• Required: notebook_path (string)
• Use when size limitations prevent reading full notebook with outputs

3. read_output_of_cell: Read output of a specific cell

• Required:
• notebook_path (string)
• cell_id (string)

4. add_cell: Add new cell to notebook

• Required:
• notebook_path (string)
• source (string)
• Optional:
• cell_type (string): "code" or "markdown"
• position (integer): insertion index (-1 to append)

5. edit_cell: Modify existing cell content

• Required:
• notebook_path (string)
• cell_id (string): Unique ID of the cell to edit
• source (string)

6. execute_cell: Execute a specific cell and return its output

• Required:
• notebook_path (string)
• cell_id (string)
• Useful for verifying cell execution and output

Usage with Claude Desktop

Step1: Start JupyterLab or Jupyter Notebook

By using uv to run Jupyter notebooks it's much easier to manage venv and package installations.

Follow uv jupyter docummentation for more details.

uv venv --seed
source .venv/bin/activate
uv pip install jupyterlab
.venv/bin/jupyter lab

NOTE: this environment should be used as UV_PROJECT_ENVIRONMENT env variable in MCP server (next step). Run in the same folder where Jupyter started.

echo $(pwd)/.venv

Step2: Configure Claude Desctop Add this configuration to your Claude Desktop config file:

PyPi package:

// ~/Library/Application Support/Claude/claude_desktop_config.json
{
  "mcpServers": {
    "Jupyter-notebook-manager": {
      "command": "uv",
      "args": ["run", "--with", "mcp-server-jupyter", "mcp-server-jupyter"],
      "env": {
        "UV_PROJECT_ENVIRONMENT": "/path/to/venv_for_jupyter/.venv"
      }
    }
  }
}

Git repo fork

// ~/Library/Application Support/Claude/claude_desktop_config.json
{
  "mcpServers": {
    "Jupyter-notebook-manager": {
      "command": "uv",
      "args": [
        "run",
        "--directory",
        "/Users/inna/mcp-server-jupyter/src/mcp_server_jupyter",
        "mcp-server-jupyter"
      ],
      "env": {
        "UV_PROJECT_ENVIRONMENT": "/path/to/venv_for_jupyter/.venv"
      }
    }
  }
}

Step 3: Open Notebook & Claude Chat

Open or create a notebook in JupyterLab/Jupyter Notebook

Get the full path to your notebook:

• In JupyterLab: Right-click on the notebook in the file browser → "Copy Path"
• In Jupyter Notebook: Copy the path from the URL (modify to full system path)

In Claude Desktop chat:

• Always use the full path to the notebook when calling tools
• Example: /Users/username/projects/my_notebook.ipynb

Important Notes:

• After any modifications through Claude (add_cell, edit_cell):
• Reload the notebook page in JupyterLab/Jupyter Notebook
• Current version does not support automatic reload
• Keep JupyterLab/Jupyter Notebook instance running while working with Claude

License

This project is licensed under the MIT License. See the LICENSE file for details.