ensembl-skill

Operating rules

• Use scripts/rest_request.py for all Ensembl API calls.
• Use base_url=https://rest.ensembl.org.
• The script accepts max_items; object lookups usually do not need it, but overlap and xrefs are better with max_items=10.
• Send JSON-friendly headers such as Accept: application/json and Content-Type: application/json.
• 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 script JSON verbatim only if the user explicitly asks for machine-readable output.
• Prefer these paths: lookup/id/<id>, overlap/region/<species>/<region>, xrefs/id/<id>, and variation/<species>/<id>.
• Use save_raw=true when the user needs the full payload.

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 Ensembl patterns: