sequence search : change API timeout 1 to 2 min, support secondary se…

…rver.

left-panel.js : define serverSelected_datasetsBlocks, to pass to sequence-search.
blast-results-view.js : resultParentBlocks()  and mapview.js : viewDataset() : if dataset name not found on primary then check serverSelected.datasetsBlocks (the server selected in dataset explorer).
auth.js : dnaSequenceSearch() : configure options.timeout 2min (default is 1min)
left-panel.hbs : pass serverSelected_datasetsBlocks to sequence-search instead of (primary server) datasets.

frontend/app/components/panel/left-panel.js

@@ -1,14 +1,31 @@
 import Component from '@ember/component';
+import { computed } from '@ember/object';
+import { alias } from '@ember/object/computed';
+import { inject as service } from '@ember/service';
 
 import { htmlSafe } from '@ember/template';
 
 /* global CSS */
 
 export default Component.extend({
+  apiServers: service(),
+
   style: htmlSafe(CSS.escape('height:100%')),
   attributeBindings: ['style:style'],
   view: 'mapview',
 
+  /** Return a list of datasets, with their included blocks, for the currently-selected
+   * API server tab
+   *
+   * This has the essentials from panel/manage-explorer.js : datasetsBlocks(),
+   * and can probably replace it; left-panel can pass this value to manage-explorer.
+   */
+  serverSelected_datasetsBlocks : computed(
+    'apiServers.serverSelected.datasetsBlocks.[]',
+    function () {
+      return this.get('apiServers.serverSelected.datasetsBlocks') || [];
+    }),
+
   actions: {
     toggleLeftPanel() {
       $(".left-panel-shown").toggle();

frontend/app/components/panel/upload/blast-results-view.js

@@ -373,6 +373,13 @@ export default Component.extend({
     let
     store = this.get('apiServers').get('primaryServer').get('store'),
     dataset = store.peekRecord('dataset', parentName);
+    /** If parentName not found on primary then check the server selected in
+     * dataset explorer.  Same logic as commented in mapview.js : viewDataset().
+     */
+    if (! dataset) {
+      dataset = this.get('apiServers').serverSelected?.datasetsBlocks.findBy('name', parentName);
+      dLog('resultParentBlocks serverSelected dataset', dataset, parentName);
+    }
     let
     blocks = dataset && dataset.get('blocks').toArray()
       .filter((b) => (blockNames.indexOf(b.get('name')) !== -1) );

frontend/app/components/service/api-server.js

@@ -134,7 +134,10 @@ export default EmberObject.extend({
     let
     name = server.get('name'),
     apiServers = this.get('apiServers'),
-    /** verification */
+    /** verification
+     * This could use lookupServerName(), because server.name has already been
+     * processed with removePunctuation().
+     */
     serverSo = apiServers.lookupServer(name),
     datasetsBlocks = this.get('datasetsBlocks'),
     datasetsHandle = server && server.host && server.get('name');

frontend/app/controllers/mapview.js

@@ -383,6 +383,15 @@ export default Controller.extend(Evented, {
     let
     store = this.get('apiServers').get('primaryServer').get('store'),
     dataset = store.peekRecord('dataset', datasetName);
+    /** If not found on primary then check the server selected in dataset
+     * explorer.  Could do just this instad of checking primary - probably
+     * viewDataset should be relative to serverSelected by default.
+     * blast-results-view.js : resultParentBlocks() does the same.
+     */
+    if (! dataset) {
+      let db = this.get('apiServers.serverSelected.datasetsBlocks');
+      dataset = db.findBy('name', datasetName);
+    }
     if (dataset) {
       let
       blocksToChange = dataset.get('blocks').toArray()

frontend/app/services/auth.js

@@ -296,6 +296,12 @@ export default Service.extend({
     options
   ) {
     dLog('services/auth featureSearch', dnaSequence.length, parent, searchType, resultRows, addDataset, datasetName, options);
+    /** allow longer for blast search; the server timeout for blast
+     * search is defined in backend/scripts/blastn_request.bash
+     */
+    if (options.timeout === undefined) {
+      options.timeout = 2 * 60 * 1000;
+    }
     /** Attach .server to JSON string, instead of using
      * requestServerAttr (.session.requestServer)
      * (this can be unwound after adding apiServer as param to ._ajax(),

frontend/app/templates/components/panel/left-panel.hbs

@@ -18,7 +18,7 @@
             }}
 
             {{panel/sequence-search
-                datasets=datasets
+                datasets=serverSelected_datasetsBlocks
                 view=view
                 refreshDatasets=refreshDatasets
                 viewDataset=viewDataset