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test(workbench): resync catalog contract for Batch 5 (uk_biobank, ega, eggnog, dbnsfp, marrvel, thousand_genomes) #123

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Merged
man4ish merged 1 commit into from
Oct 9, 2026
Merged

test(workbench): resync catalog contract for Batch 5 (uk_biobank, ega, eggnog, dbnsfp, marrvel, thousand_genomes) #123

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19 changes: 13 additions & 6 deletions tests/ui/workbench-catalog-contracts.test.js
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Original file line number Diff line number Diff line change
Expand Up @@ -11,31 +11,38 @@ import { resolveWorkbenchComponent } from "../../src/ui/components/workbench/com
const source = process.env.WORKBENCH_SOURCE;
const enabled = Boolean(source);
describe.skipIf(!enabled)("generated Workbench catalog compatibility", () => {
it("validates 289 v1 native descriptors, 78 v2 queries, and legacy fallbacks", () => {
// Batch 5 (uk_biobank, ega, eggnog, dbnsfp, marrvel, thousand_genomes) adds
// the campaign's own next six reference_db plugins on top of this
// already-integrated baseline (Workbench commit 7ea5b6bf on
// feat/refdb-batch5-uk-biobank-ega-eggnog-dbnsfp-marrvel-thousand-genomes,
// itself Workbench's original Batch 5 commit 26ab2ac0 cherry-picked onto
// fresh main since that branch's earlier Batches 1-4 are already present
// here via the Claude+Codex integration merge).
it("validates 289 v1 native descriptors, 84 v2 queries, and legacy fallbacks", () => {
const exporter = path.join(source, "scripts/export_workbench_ui_compatibility.py");
expect(existsSync(exporter)).toBe(true);
const catalog = JSON.parse(execFileSync(process.env.PYTHON || "python3", ["-B", exporter], {
cwd: source, encoding: "utf8", maxBuffer: 8 * 1024 * 1024,
env: { ...process.env, PYTHONDONTWRITEBYTECODE: "1", DJANGO_DEBUG: "true", DJANGO_SETTINGS_MODULE: "omnibioai.settings_test" },
}));
expect(catalog.counts).toEqual({ enabled: 501, native: 367, legacy: 134 });
expect(catalog.counts).toEqual({ enabled: 501, native: 373, legacy: 128 });
expect(catalog.plugins).toHaveLength(501);
const native = catalog.plugins.filter(plugin => plugin.descriptor.native_supported);
expect(native.filter(plugin => plugin.schema_version === 1)).toHaveLength(289);
expect(native.filter(plugin => plugin.schema_version === 2).map(plugin => plugin.slug).sort()).toEqual([
"all_of_us", "api_analytics", "bindingdb", "biogrid", "bioportal", "brenda",
"cbioportal", "ccle", "cell_ontology", "chebi", "civic", "clingen",
"clinicaltrials_gov", "cpic", "dbgap", "depmap", "dgidb", "disease_ontology",
"disgenet", "drugcentral", "drugsatfda", "ena", "encode", "ensembl",
"clinicaltrials_gov", "cpic", "dbgap", "dbnsfp", "depmap", "dgidb", "disease_ontology",
"disgenet", "drugcentral", "drugsatfda", "ega", "eggnog", "ena", "encode", "ensembl",
"expression_atlas", "gdc", "gene_ontology", "genereviews", "gnomad", "gtex",
"hgmd", "hgnc", "hpa", "icgc", "intact", "integration_connections",
"interpro", "job_queue_manager", "kegg", "lipidmaps", "lovd", "mastermind",
"interpro", "job_queue_manager", "kegg", "lipidmaps", "lovd", "marrvel", "mastermind",
"mavedb", "medgen", "metabolights", "mondo", "msigdb", "ncbi",
"notification_center", "omim", "opentargets", "orphanet", "panglaodb", "panther",
"pdb_redo", "pdbe", "pharmvar", "pharos", "phegeni", "pride",
"proteomexchange", "pubchem", "rcsb_pdb", "rfam", "rxnorm", "sgd",
"snpedia", "sra", "storage_quota_manager", "string_db", "swisslipids", "targetscan",
"tcga", "topmed", "ucsc", "uniprot", "wikipathways", "wormbase",
"tcga", "thousand_genomes", "topmed", "ucsc", "uk_biobank", "uniprot", "wikipathways", "wormbase",
]);
expect(native.filter(plugin => plugin.schema_version === 1 && plugin.renderer === "query")).toHaveLength(9);
expect(native.filter(plugin => plugin.schema_version === 1 && plugin.renderer === "async_analysis").map(plugin => plugin.slug).sort()).toEqual([
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