gbif-species-occurrence-search-starter

gbif-species-occurrence-search-starter is a skill for Claude Code, Codex from ma-compbio-lab/SkillFoundry. It costs 0 tokens per session (256 once invoked), scanned A, original, Apache-2.0.

A starter workflow for querying GBIF, a public biodiversity database, for a confirmed species name and a small sample of recorded observations.

In plain words
What is it for?
Use it to match a scientific name, fetch occurrence records with optional country filtering, and create a compact JSON summary for early species-distribution work.
Why use it?
It avoids setting up a large geographic-data system just to confirm a species and inspect a few distribution records.

Skill for Claude CodeCodex

Written for no agent in particular: nothing here depends on one.

Good fit Use it to match a scientific name, fetch occurrence records with optional country filtering, and create a compact JSON summary for early species-distribution work.

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Install with agentmods
npx agentmods add skills/ma-compbio-lab/skillfoundry/gbif-species-occurrence-search-starter
Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

Any agent
npx skills add ma-compbio-lab/SkillFoundry --skill gbif-species-occurrence-search-starter
Clone the repo
git clone --depth 1 https://github.com/ma-compbio-lab/SkillFoundry

Made for: Claude Code, Codex.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

agentmods badge for gbif-species-occurrence-search-starter

README.md
[![agentmods](https://agentmods.dev/badge/skills/ma-compbio-lab/skillfoundry/gbif-species-occurrence-search-starter/github.svg)](https://agentmods.dev/skills/ma-compbio-lab/skillfoundry/gbif-species-occurrence-search-starter)
Your own site
<a href="https://agentmods.dev/skills/ma-compbio-lab/skillfoundry/gbif-species-occurrence-search-starter"><img src="https://agentmods.dev/badge/skills/ma-compbio-lab/skillfoundry/gbif-species-occurrence-search-starter/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

agentmods 80×15 button for gbif-species-occurrence-search-starter

Your own site · 80×15
<a href="https://agentmods.dev/skills/ma-compbio-lab/skillfoundry/gbif-species-occurrence-search-starter"><img src="https://agentmods.dev/badge/skills/ma-compbio-lab/skillfoundry/gbif-species-occurrence-search-starter.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 0 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 256 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.
Origin original No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5.1 $0.00000 $0.00256
Opus 5 $0.00000 $0.00128
Sonnet 5 $0.00000 $0.00051
Haiku 4.5 $0.00000 $0.00026

Measured 12d ago against content hash 481b4f6a4cf6, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-11, from the pricing page.

Security

Grade A, and why

gbif-species-occurrence-search-starter scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 12d ago.

The scan reads SKILL.md. This mod also ships 2 executable files (scripts/run_gbif_species_occurrence_search.py, tests/test_run_gbif_species_occurrence_search.py), listed below but not scanned — reading those needs a real analyzer, not pattern matching.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

skills/ecology-evolution-and-biodiversity/gbif-species-occurrence-search-starter/SKILL.md · 29 lines

What it actually says

GBIF Species Occurrence Search Starter

Use this skill to query the official GBIF API for a canonical species match and a small live occurrence sample.

What it does

  • Resolves a scientific name against the GBIF species matcher.
  • Fetches a compact occurrence sample with optional country filtering.
  • Returns a normalized JSON summary suitable for biodiversity data discovery and early species-distribution workflows.

When to use it

  • You need a verified starter for Species distribution modeling.
  • You want a lightweight live biodiversity occurrence query without adding a heavyweight geospatial stack first.

Example

python3 skills/ecology-evolution-and-biodiversity/gbif-species-occurrence-search-starter/scripts/run_gbif_species_occurrence_search.py \
  --scientific-name "Puma concolor" \
  --country US \
  --out scratch/gbif/puma_concolor_us.json

Verification

  • Skill-local tests: python3 -m unittest discover -s skills/ecology-evolution-and-biodiversity/gbif-species-occurrence-search-starter/tests -p 'test_*.py'
  • Repository smoke: python3 -m unittest tests.smoke.test_phase30_empty_domain_seed_skills -v
Files

What ships with it

7 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 12d ago First seen · 29 lines · 0 tokens per session scan A 481b4f6a4cf6

Subscribe to this mod's changes

gbif-species-occurrence-search-starter is a skill published in the GitHub repository ma-compbio-lab/SkillFoundry (39 stars, last pushed 4mo ago), licensed Apache-2.0. It costs nothing until one of its globs matches a file; then it loads 256 tokens. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.

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