biorxiv-skill

name: biorxiv-skill description: Submit compact bioRxiv and medRxiv API requests for details, publication-linkage, and DOI lookups. Use when a user wants concise preprint metadata summaries

Operating rules

• Use scripts/rest_request.py for all bioRxiv and medRxiv API calls.
• Use base_url=https://api.biorxiv.org.
• The script accepts max_items; for details and pubs pages, start around max_items=10.
• Prefer one cursor page at a time instead of increasing page size or pasting long collections into chat.
• Re-run requests in long conversations instead of relying on older tool output.
• Treat displayed ... in tool previews as UI truncation, not part of the true request.

Execution behavior

• Return concise markdown summaries from the script JSON by default.
• Return the raw script JSON only if the user explicitly asks for machine-readable output.
• Prefer these paths: details/<server>/<start>/<end>/<cursor>/json, details/<server>/<doi>/na/json, pubs/<server>/<start>/<end>/<cursor>, and pubs/<server>/<doi>/na/json.
• If the user needs full page contents, set save_raw=true and report the saved file path rather than pasting large collections into chat.

Input

• Read one JSON object from stdin.
• Required fields: base_url, path
• Optional fields: method, params, headers, json_body, form_body, record_path, response_format, max_items, max_depth, timeout_sec, save_raw, raw_output_path
• Common biorxiv patterns:
  • {"base_url":"https://api.biorxiv.org","path":"details/biorxiv/2025-03-21/2025-03-28/0/json","record_path":"collection","max_items":10}
  • {"base_url":"https://api.biorxiv.org","path":"details/medrxiv/10.1101/2020.09.09.20191205/na/json","record_path":"collection","max_items":10}
  • {"base_url":"https://api.biorxiv.org","path":"pubs/medrxiv/2020-03-01/2020-03-30/0","record_path":"collection","max_items":10}

Output

• Success returns ok, source, path, method, status_code, warnings, and either compact records or a compact summary.
• Use raw_output_path when save_raw=true.
• Failure returns ok=false with error.code and error.message.

Execution

echo '{"base_url":"https://api.biorxiv.org","path":"details/biorxiv/2025-03-21/2025-03-28/0/json","record_path":"collection","max_items":10}' | python scripts/rest_request.py

References

• No additional runtime references are required; keep the import package limited to this file and scripts/rest_request.py.