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Glygen MCP Server

Official
by glygener
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Python
Hybrid

Using the MCP server remotely

Assuming you have web based access to AI chat such as Claude - https://claude.ai, use the following steps to connect to the remove GlyGen MCP server (https://mcp.glygen.org/mcp). After you login to https://claude.ai

1. Login to https://claude.ai
2. Go to "Settings" --> "Connectors" --> "Add Custom Connector"
3. Put value "Glygen MCP Server" for the name field
4. Put value "https://mcp.glygen.org/mcp" for server

Related MCP server: OrigeneMCP

Deploying the MCP server on your linux VM

Create MCP container

Run the following command to create the MCP container

$ python3 create_mcp_container.py -s dev

Create service for the container

Edit /usr/lib/systemd/system/docker-glygen-mcp-dev.service and place the following content in it.

[Unit]
Description=GlyGen MCP Server Container (dev)
Requires=docker.service
After=docker.service
[Service]
Restart=always
ExecStart=/usr/bin/docker start -a running_glygen_mcp_dev
ExecStop=/usr/bin/docker stop -t 2 running_glygen_mcp_dev
[Install]
WantedBy=default.target

This will allow you to start/stop the container with the following commands, and ensure that the container will start on server reboot.

   $ sudo systemctl daemon-reload
   $ sudo systemctl enable docker-glygen-mcp-dev.service
   $ sudo systemctl start docker-glygen-mcp-dev.service
   $ sudo systemctl stop docker-glygen-mcp-dev.service

Testing the MCP server

Runn the following commands to test some of the MCP tools

python3 test-endpoint.py -s dev -g protein -n get_protein_summary
python3 test-endpoint.py -s dev -g site -n get_site_summary
python3 test-endpoint.py -s dev -g glycan -n get_glycan_summary
python3 test-endpoint.py -s dev -g biomarker -n get_biomarker_summary
python3 test-endpoint.py -s dev -g disease -n get_disease_summary

This server cannot be deployed

One endpoint for every MCP toolRayrun runs every MCP server behind one URL and holds the credentials. Each call is decided per client, tool, and argument, then recorded.ray.runAd

Maintenance

ActivityStale
ResponsivenessNo issues

Resources

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