chebi-skill

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Structure

• Ships 1 executable scriptscripts/rest_request.py. Review what they do before enabling the skill for agents with tool access.
• No license declaredConfirm you may reuse this skill before importing it into your repository.

SKILL.md

---
name: chebi-skill
description: Submit compact ChEBI 2.0 API requests for chemical search, compound lookup, ontology traversal, and structure metadata. Use when a user wants concise ChEBI summaries
---

## 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
```bash
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`.