Use correct isValidRefNameForAssembly on variantTable->variantSearch

navigation

Author: Sebastian Benjamin

jbrowse/src/client/JBrowse/VariantTable/VariantTable.tsx

@@ -91,7 +91,7 @@ function VariantTable() {
                 <ErrorBoundary>
                     <JBrowseFilterPanel session={state.session}/>
                     <VariantTableWidget assembly={assembly} assemblyName={assemblyName} trackId={trackId} locString={locString}
-                                        sessionId={sessionId} session={session} pluginManager={pluginManager} parsedLocString={parsedLocString}/>
+                                        sessionId={sessionId} session={session} pluginManager={pluginManager} />
                 </ErrorBoundary>
             </div>
         </ThemeProvider>

jbrowse/src/client/JBrowse/VariantTable/components/VariantTableWidget.tsx

@@ -37,7 +37,7 @@ import { ActionURL, Ajax } from '@labkey/api';
 import { deserializeFilters } from '../../Browser/plugins/ExtendedVariantPlugin/InfoFilterWidget/filterUtil';
 
 const VariantTableWidget = observer(props => {
-  const { assembly, assemblyName, trackId, locString, parsedLocString, sessionId, session, pluginManager } = props
+  const { assembly, assemblyName, trackId, locString, sessionId, session, pluginManager } = props
   const { view, assemblyManager } = session
 
   const isValidRefNameForAssembly = function(refName: string, assemblyName?: string) {
@@ -78,7 +78,7 @@ const VariantTableWidget = observer(props => {
         navigateToBrowser(sessionId, locString, trackId, track)
         break;
       case "luceneRedirect":
-        navigateToSearch(sessionId, locString, trackId, track)
+        navigateToSearch(sessionId, locString, trackId, isValidRefNameForAssembly, track)
         break;
     }
   }

jbrowse/src/client/JBrowse/utils.ts

@@ -223,13 +223,13 @@ export function navigateToTable(sessionId, locString, trackId, track?: any) {
     window.location.href = ActionURL.buildURL("jbrowse", "variantTable.view", null, {session: sessionId, location: locString, trackId: trackId, activeTracks: trackId, sampleFilters: sampleFilterURL, infoFilters: infoFilterURL})
 }
 
-export function navigateToSearch(sessionId, locString, trackId, track?: any) {
+export function navigateToSearch(sessionId, locString, trackId, isValidRefNameForAssembly, track?: any) {
     const sampleFilterURL = serializeSampleFilters(track)
     const infoFilterURL = serializeInfoFilters(track)
 
     let searchString = null
     if (locString) {
-        const parsedLocString = parseLocString(locString, () => { return true})
+        const parsedLocString = parseLocString(locString, isValidRefNameForAssembly)
         const contig = parsedLocString.refName;
         const start = parsedLocString.start;
         const end = parsedLocString.end;