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sandervd

linkml-mcp

by sandervd
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Python
Hybrid

linkml-mcp

MCP server for commit-addressed editing of LinkML YAML schemas.

See SCOPE.md for the project scope and milestone boundaries.

Setup

uv sync --dev

Related MCP server: github-mcp-tool

Run The MCP Server

For local editor/Codex testing, HTTP is currently the recommended transport:

uv run linkml-mcp --transport http --host 127.0.0.1 --port 8765

To accept requests through a hostname or reverse proxy, bind beyond localhost and allow the external Host header:

uv run linkml-mcp \
  --transport http \
  --host 0.0.0.0 \
  --port 8765 \
  --allowed-host essentialcomplexity.eu

If the proxy forwards a different Host header, pass that value with another --allowed-host.

Use this MCP config:

{
  "servers": {
    "linkml-server": {
      "type": "http",
      "url": "http://127.0.0.1:8765/mcp"
    }
  },
  "inputs": []
}

Stdio is also available:

uv run linkml-mcp

The server stores workspaces under .linkml-mcp/workspaces by default. Override this with:

export LINKML_MCP_WORKSPACE_ROOT=/path/to/workspaces
export LINKML_MCP_GENERATOR_OUTPUT_ROOT=/path/to/generated

Test Client

Create a workspace:

uv run linkml-mcp-client init --name test_schema

Apply a semantic changeset:

uv run linkml-mcp-client apply-change \
  --workspace-id ws_... \
  --base-commit abc123 \
  --changes-json examples/add_person.json \
  --message "Add Person"

Read a schema at a commit:

uv run linkml-mcp-client read-schema \
  --workspace-id ws_... \
  --commit-id def456

Run tests:

uv run pytest
Install Server
F
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A
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maintenance

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