@sjcrh/proteinpaint-server 2.138.2 → 2.138.3-1

package/src/serverconfig.js

@@ -163,6 +163,13 @@ if (serverconfig.debugmode && !serverconfig.binpath.includes('sjcrh/')) {
 	serverconfig.routeSetters = routeSetters
 }
 
+if (serverconfig.debugmode) {
+	// should be able to run this in local dev and test environments that use containers
+	const hg38test = serverconfig.genomes.find(g => g.name == 'hg38-test')
+	// this internal function must be trusted to only modify test-related serverconfig entries
+	if (hg38test?.datasets) mayUpdateTestDatasets(hg38test.datasets, serverconfig)
+}
+
 if (serverconfig.allow_env_overrides) {
 	if (process.env.PP_URL) {
 		serverconfig.URL = process.env.PP_URL
@@ -279,3 +286,45 @@ if (!serverconfig.cache_snpgt) {
 }
 
 export default serverconfig
+
+/*
+	Option to add datasets under hg38-test and also feature flags, dsCredentials
+
+	datasets[]: the raw datasets array from a serverconfig genomes entry
+	serverconfig
+*/
+function mayUpdateTestDatasets(datasets, serverconfig) {
+	const ds = datasets.find(ds => ds.jsfile.includes('/termdb.test.'))
+	if (!ds) return
+	const fileExt = ds.jsfile.split('.').pop()
+	datasets.push({
+		name: 'ProtectedTest',
+		jsfile: `./dataset/protected.test.${fileExt}`
+	})
+
+	if (serverconfig.features.dslabelFilter?.includes('TermdbTest')) {
+		serverconfig.features.dslabelFilter.push('ProtectedTest')
+	}
+
+	if (!serverconfig.dsCredentials) serverconfig.dsCredentials = {}
+	serverconfig.dsCredentials.ProtectedTest = {
+		termdb: {
+			'*': {
+				type: 'jwt',
+				secret: 'fake-secret', // pragma: allowlist secret
+				dsnames: [
+					{
+						id: 'ABC',
+						label: 'ABC cohort',
+						role: 'admin',
+						sites: [1, 2, 5]
+					},
+					{
+						id: 'XYZ',
+						label: 'XYZ cohort'
+					}
+				]
+			}
+		}
+	}
+}