chebi-skill

Imported from openai/plugins (plugins/life-science-research/skills/chebi-skill/SKILL.md). Install upstream with npx skills add openai/plugins --skill chebi-skill. Copyright stays with the author.

Operating rules

• Use scripts/rest_request.py for all ChEBI calls.
• Use base_url=https://www.ebi.ac.uk.
• Prefer the documented public routes under chebi/backend/api/public/.
• Start with es_search/ for free-text lookup and use compound/<CHEBI:id>/ for targeted records.
• Re-run requests in long conversations instead of relying on older tool output.

Execution behavior

• Return concise markdown summaries from the script JSON by default.
• Return raw JSON only if the user explicitly asks for machine-readable output.
• Prefer these paths: chebi/backend/api/public/es_search/, chebi/backend/api/public/compound/<CHEBI:id>/, and ontology child or parent routes.

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 ChEBI patterns:
  • {"base_url":"https://www.ebi.ac.uk","path":"chebi/backend/api/public/es_search/","params":{"query":"caffeine","size":10},"record_path":"results","max_items":10}
  • {"base_url":"https://www.ebi.ac.uk","path":"chebi/backend/api/public/compound/CHEBI:27732/"}
  • {"base_url":"https://www.ebi.ac.uk","path":"chebi/backend/api/public/ontology/children/CHEBI:27732/"}

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://www.ebi.ac.uk","path":"chebi/backend/api/public/es_search/","params":{"query":"caffeine","size":10},"record_path":"results","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.