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mcp/harbor
VS Code

mol2 mcp for VS Code

io.github.mrfentmen/mol2-mcp

MOL2 MCP: parse molecules, validate atoms, coordinates, bonds and counts.

client:VS Code transport:stdio runtime:npm

Install mol2 mcp in VS Code

.vscode/mcp.json 

{
  "servers": {
    "mol2-mcp": {
      "type": "stdio",
      "command": "npx",
      "args": [
        "-y",
        "@mrfentmen/mol2-mcp"
      ]
    }
  }
}

Requires agent mode. MCP: Open User Configuration puts the same block in every workspace. VS Code docs

mol2 mcp in other clients

mol2 mcp MCP server