Suf newfeature #30
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Suf newfeature #30
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Here is what is included in this PR:
Harvest & dynamic REST infrastructure
Created the harvest/ package plus dynamic_rest_runner.py to manage generated REST/GraphQL tools at runtime.
Added Verified Source tooling (VerifiedSourceRegisterTool, VerifiedSourceDiscoveryTool, VerifiedSourceRemoveTool) so freshly harvested endpoints can be registered, listed, and removed on the fly.
Generated specs are stored under ~/.tooluniverse/vsd/generated_tools.json and load immediately through the new runner.
Seven new bioscience tool integrations
InterPro – search EBI InterPro for protein domain/family entries.
KEGG – query KEGG for pathways/genes/compounds with descriptions.
IUCN Red List – fetch conservation status for a species (API token supported).
JASPAR – look up transcription factor binding motifs (collection/tax filters optional).
MarineSpecies (WoRMS) – retrieve marine taxonomy records by scientific name.
cBioPortal – discover public cancer genomics studies matching a keyword.
Phenome Jax (MPD) – list Mouse Phenome Database projects with keyword filtering.
Wired all new tool modules into the loader and default config so Spaces/load_tools can pick them up.
Added targeted unit coverage (tests/unit/test_biodomain_tools.py) and a live smoke script (scripts/run_new_tools.py) to hit each API.