@sjcrh/proteinpaint-server 2.81.2 → 2.81.4-0

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@sjcrh/proteinpaint-server",
-  "version": "2.81.2",
+  "version": "2.81.4-0",
   "type": "module",
   "description": "a genomics visualization tool for exploring a cohort's genotype and phenotype data",
   "main": "src/app.js",

package/routes/termdb.cluster.js

@@ -37,6 +37,12 @@ function init({ genomes }) {
       if (q.dataType == TermTypes.GENE_EXPRESSION || q.dataType == TermTypes.METABOLITE_INTENSITY) {
         if (!ds.queries?.[q.dataType])
           throw `no ${q.dataType} data on this dataset`;
+        if (!q.terms)
+          throw `missing gene list`;
+        if (!Array.isArray(q.terms))
+          throw `gene list is not an array`;
+        if (q.terms.length < 3)
+          throw `A minimum of three genes is required for clustering. Please refresh this page to clear this error.`;
         result = await getResult(q, ds);
       } else {
         throw "unknown q.dataType " + q.dataType;

package/routes/termdb.topVariablyExpressedGenes.js

@@ -3,7 +3,6 @@ import serverconfig from "#src/serverconfig.js";
 import { get_samples } from "#src/termdb.sql.js";
 import { makeFilter } from "#src/mds3.gdc.js";
 import { cachedFetch } from "#src/utils.js";
-import { resolve } from "url";
 const api = {
   endpoint: "termdb/topVariablyExpressedGenes",
   methods: {
@@ -182,7 +181,7 @@ function gdcValidateQuery(ds, genome) {
       throw "The server has not finished caching the case IDs: try again in about 2 minutes.";
     }
     const { host, headers } = ds.getHostHeaders(q);
-    const url = resolve(host.geneExp, "/gene_expression/gene_selection");
+    const url = `${host.geneExp}/gene_expression/gene_selection`;
     try {
       const response = await cachedFetch(
         url,