@jbrowse/plugin-data-management 2.13.1 → 2.14.0

package/esm/ucsc-trackhub/ucscTrackHub.d.ts

@@ -35,8 +35,8 @@ export declare function generateTracks({ trackDb, trackDbLoc, assemblyName, sequ
     trackId: string;
     assemblyNames: string[];
     type: string;
-    name: string;
-    description: string;
+    name: string | undefined;
+    description: string | undefined;
     category: string[];
     adapter: {
         type: string;
@@ -63,7 +63,7 @@ export declare function generateTracks({ trackDb, trackDbLoc, assemblyName, sequ
     assemblyNames: string[];
     type: string;
     name: string;
-    description: string;
+    description: string | undefined;
     category: string[];
     adapter: {
         type: string;
@@ -88,7 +88,7 @@ export declare function generateTracks({ trackDb, trackDbLoc, assemblyName, sequ
     assemblyNames: string[];
     type: string;
     name: string;
-    description: string;
+    description: string | undefined;
     category: string[];
     adapter: {
         type: string;
@@ -110,7 +110,7 @@ export declare function generateTracks({ trackDb, trackDbLoc, assemblyName, sequ
     assemblyNames: string[];
     type: string;
     name: string;
-    description: string;
+    description: string | undefined;
     category: string[];
     adapter: {
         type: string;
@@ -132,7 +132,7 @@ export declare function generateTracks({ trackDb, trackDbLoc, assemblyName, sequ
     assemblyNames: string[];
     type: string;
     name: string;
-    description: string;
+    description: string | undefined;
     category: string[];
     adapter: {
         type: string;
@@ -159,7 +159,7 @@ export declare function generateTracks({ trackDb, trackDbLoc, assemblyName, sequ
     assemblyNames: string[];
     type: string;
     name: string;
-    description: string;
+    description: string | undefined;
     category: string[];
     adapter: {
         type: string;

package/esm/ucsc-trackhub/ucscTrackHub.js

@@ -1,4 +1,3 @@
-/* eslint-disable @typescript-eslint/no-explicit-any */
 import { isUriLocation, notEmpty, objectHash, } from '@jbrowse/core/util';
 import { openLocation } from '@jbrowse/core/util/io';
 import { generateUnknownTrackConf } from '@jbrowse/core/util/tracks';
@@ -50,8 +49,7 @@ export function generateTracks({ trackDb, trackDbLoc, assemblyName, sequenceAdap
         do {
             currentTrackName = ((_a = trackDb.data[currentTrackName]) === null || _a === void 0 ? void 0 : _a.data.parent) || '';
             if (currentTrackName) {
-                ;
-                [currentTrackName] = currentTrackName.split(' ');
+                currentTrackName = currentTrackName.split(' ')[0];
                 parentTracks.push(trackDb.data[currentTrackName]);
             }
         } while (currentTrackName);
@@ -81,7 +79,7 @@ function makeTrackConfig({ track, categories, trackDbLoc, trackDb, sequenceAdapt
     const bigDataUrl = track.data.bigDataUrl || '';
     const bigDataIdx = track.data.bigDataIndex || '';
     const isUri = isUriLocation(trackDbLoc);
-    let baseTrackType = (trackType === null || trackType === void 0 ? void 0 : trackType.split(' ')[0]) || '';
+    let baseTrackType = trackType.split(' ')[0] || '';
     if (baseTrackType === 'bam' && bigDataUrl.toLowerCase().endsWith('cram')) {
         baseTrackType = 'cram';
     }
@@ -100,8 +98,8 @@ function makeTrackConfig({ track, categories, trackDbLoc, trackDb, sequenceAdapt
                     bamLocation: bigDataLocation,
                     index: {
                         location: isUri
-                            ? makeLocAlt(bigDataIdx, bigDataUrl + '.bai', trackDbLoc)
-                            : makeLoc2(bigDataIdx, bigDataUrl + '.bai'),
+                            ? makeLocAlt(bigDataIdx, `${bigDataUrl}.bai`, trackDbLoc)
+                            : makeLoc2(bigDataIdx, `${bigDataUrl}.bai`),
                     },
                 },
             };
@@ -115,8 +113,8 @@ function makeTrackConfig({ track, categories, trackDbLoc, trackDb, sequenceAdapt
                     type: 'CramAdapter',
                     cramLocation: bigDataLocation,
                     craiLocation: isUri
-                        ? makeLocAlt(bigDataIdx, bigDataUrl + '.crai', trackDbLoc)
-                        : makeLoc2(bigDataIdx, bigDataUrl + '.crai'),
+                        ? makeLocAlt(bigDataIdx, `${bigDataUrl}.crai`, trackDbLoc)
+                        : makeLoc2(bigDataIdx, `${bigDataUrl}.crai`),
                     sequenceAdapter,
                 },
             };
@@ -160,8 +158,8 @@ function makeTrackConfig({ track, categories, trackDbLoc, trackDb, sequenceAdapt
                     vcfGzLocation: bigDataLocation,
                     index: {
                         location: isUri
-                            ? makeLocAlt(bigDataIdx, bigDataUrl + '.tbi', trackDbLoc)
-                            : makeLoc2(bigDataIdx, bigDataUrl + '.tbi'),
+                            ? makeLocAlt(bigDataIdx, `${bigDataUrl}.tbi`, trackDbLoc)
+                            : makeLoc2(bigDataIdx, `${bigDataUrl}.tbi`),
                     },
                 },
             };

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-data-management",
-  "version": "2.13.1",
+  "version": "2.14.0",
   "description": "JBrowse 2 linear genome view",
   "keywords": [
     "jbrowse",
@@ -24,7 +24,7 @@
   ],
   "scripts": {
     "build": "npm-run-all build:*",
-    "test": "cd ../..; jest plugins/data-management",
+    "test": "cd ../..; jest --passWithNoTests plugins/data-management",
     "prepublishOnly": "yarn test",
     "prepack": "yarn build && yarn useDist",
     "postpack": "yarn useSrc",
@@ -60,5 +60,5 @@
   "distModule": "esm/index.js",
   "srcModule": "src/index.ts",
   "module": "esm/index.js",
-  "gitHead": "fcebca71cc1d066654603e1a9accfa6c6d4f764d"
+  "gitHead": "9fb8231d932db40adf0a283081765431756c66ff"
 }