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Gbif Dataset Search Starter

ASecurity

Use this skill to query the official GBIF dataset-search API and summarize a small biodiversity dataset result set.

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  • Added September 8, 2026
ai-agentspythonbashapi

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Scanned September 8, 2026

npx -y skills add ma-compbio-lab/SkillFoundry --skill gbif-dataset-search-starter --agent claude-code

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SKILL.md
# GBIF Dataset Search Starter

Use this skill to query the official GBIF dataset-search API and summarize a small biodiversity dataset result set.

## What it does

- Searches GBIF dataset metadata with a free-text query.
- Returns compact dataset summaries including dataset keys, titles, DOI, license, and publishing country.
- Supports canonical-asset fallback for the main smoke query when the live API is transiently unavailable.

## When to use it

- You need a runnable starter for `Biodiversity dataset discovery`.
- You want a lightweight biodiversity-metadata search step before downstream occurrence or phylogenetics workflows.

## Example

```bash
python3 skills/ecology-evolution-and-biodiversity/gbif-dataset-search-starter/scripts/run_gbif_dataset_search.py \
  --query puma \
  --out scratch/gbif-datasets/puma_datasets.json
```

## Verification

- Skill-local tests: `python3 -m unittest discover -s skills/ecology-evolution-and-biodiversity/gbif-dataset-search-starter/tests -p 'test_*.py'`
- Repository smoke: `python3 -m unittest tests.smoke.test_phase31_frontier_leaf_conversion_skills -v`

Files in this skill

  • SKILL.md1.1 KB
  • assets/README.md88 B
  • assets/puma_dataset_search.json1.6 KB
  • examples/README.md96 B
  • metadata.yaml1.2 KB
  • refs.md139 B
  • scripts/run_gbif_dataset_search.py3.7 KB
  • tests/test_run_gbif_dataset_search.py1.6 KB

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