The MCP Servers for Bio-OS instance platforms.
The MCP Servers for Bio-OS instance platforms.
A Model Context Protocol (MCP) based tool and prompt server for Bio-OS that provides workflow management and Docker image building capabilities.
Bio-OS MCP Server requires the following dependencies: 1. Install uv (Python package manager): 2. Install Cromwell (Workflow execution engine):
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Check the linked publisher documentation and your connected client's tool list. Names and availability can vary with the server version and account permissions.
| Tool | What it does |
|---|---|
| workspace_name | Workspace name |
| workflow_name | Workflow name |
| input_json | Input JSON file path |
| workflow_source | WDL file path |
| workflow_desc | Workflow description |
| namespace_name | Namespace |
| repo_name | Repository name |
| tag | Version tag |
| source_path | Dockerfile or archive path |
Bio-OS MCP Server requires the following dependencies: 1. Install uv (Python package manager): 2. Install Cromwell (Workflow execution engine):
| Variable | Description | Required |
|---|---|---|
| PYTHONPATH | Python module search path for a local installation. | Optional |
| MIRACLE_ACCESS_KEY | Credential the server authenticates with. | Yes |
| MIRACLE_SECRET_KEY | Credential the server authenticates with. | Yes |
Read, search and edit files inside allowed directories with the Model Context Protocol reference Filesystem server.
Retrieve version-aware library documentation and code examples with Context7 MCP, using resolve-library-id and query-docs.
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