literature-agent-mcp

literature-agent-mcp

Exposes a local biomedical literature pipeline as MCP tools for automated research workflows. Enables literature search, open-access paper retrieval, and draft generation for biomedical and pathology domains through standard MCP clients.

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README

literature-agent-mcp

MCP server that exposes the local biomedical literature pipeline in:

  • /Users/zouxingyu/Desktop/Codex工作区/literature-agent

It wraps the existing five-step CLI workflow as MCP tools so OpenClaw / Codex / Claude Code / other MCP clients can call it as a standard server.

Tools

  • plan_query
  • search_and_merge
  • download_fulltexts
  • convert_and_index
  • write_draft
  • run_pipeline

Default assumptions

  • Biomedical / pathology domain
  • Legal open-access retrieval only
  • No paywall bypass
  • Local literature-agent project already exists

Local setup

cd /tmp/mcp_repo_zouxy111
python3.11 -m venv .venv
source .venv/bin/activate
pip install -e .

Run server

source .venv/bin/activate
literature-agent-mcp

Environment variables

  • LITERATURE_AGENT_ROOT: override the default project root
    Default: /Users/zouxingyu/Desktop/Codex工作区/literature-agent
  • LITERATURE_AGENT_PYTHON: override the interpreter used to call the backend
    Default: <root>/.venv/bin/python, fallback python

Example MCP config

{
  "mcpServers": {
    "literature-agent": {
      "command": "/tmp/mcp_repo_zouxy111/.venv/bin/literature-agent-mcp",
      "env": {
        "LITERATURE_AGENT_ROOT": "/Users/zouxingyu/Desktop/Codex工作区/literature-agent"
      }
    }
  }
}

Backend outputs

For a given task_id, outputs are written under:

<literature-agent>/work/<task_id>/

Typical structure:

  • query_plan.json
  • search/master_results.jsonl
  • corpus/
  • draft/

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