Merge pull request cBioPortal#125 from onursumer/transcript-summary-u…

…rl-prop Made the transcript summary URL configurable for the gene summary panel
onursumer · Nov 18, 2019 · b1e1ec9 · b1e1ec9
1 parent c5235b9
commit b1e1ec9
Show file tree

Hide file tree

Showing 3 changed files with 11 additions and 3 deletions.
diff --git a/packages/react-mutation-mapper/package.json b/packages/react-mutation-mapper/package.json
@@ -1,6 +1,6 @@
 {
   "name": "react-mutation-mapper",
-  "version": "0.3.0",
+  "version": "0.3.1",
   "description": "Generic Mutation Mapper",
   "author": "cBioPortal",
   "license": "GNU Affero General Public License v3.0",

diff --git a/packages/react-mutation-mapper/src/component/mutationMapper/GeneSummary.tsx b/packages/react-mutation-mapper/src/component/mutationMapper/GeneSummary.tsx
@@ -5,12 +5,14 @@ import {getNCBIlink, VariantAnnotation} from "cbioportal-frontend-commons";
 import {EnsemblTranscript} from "../../model/EnsemblTranscript";
 import {Mutation} from "../../model/Mutation";
 import {RemoteData} from "../../model/RemoteData";
+import {getUrl} from "../../util/DataFetcherUtils";
 import TranscriptDropdown from "./TranscriptDropdown";
 import styles from "./geneSummary.module.scss";
 
 export type GeneSummaryProps = {
     hugoGeneSymbol: string;
     uniprotId?: string;
+    transcriptSummaryUrlTemplate?: string;
     showDropDown: boolean;
     showOnlyAnnotatedTranscriptsInDropdown: boolean;
     transcriptsByTranscriptId: {[transcriptId: string]: EnsemblTranscript};
@@ -27,6 +29,10 @@ export type GeneSummaryProps = {
 @observer
 export default class GeneSummary extends React.Component<GeneSummaryProps, {}>
 {
+    public static defaultProps: Partial<GeneSummaryProps> = {
+        transcriptSummaryUrlTemplate: "http://grch37.ensembl.org/homo_sapiens/Transcript/Summary?t=<%= transcriptId %>"
+    };
+
     public render()
     {
         const {
@@ -89,7 +95,7 @@ export default class GeneSummary extends React.Component<GeneSummaryProps, {}>
                     <div>
                         <span>Ensembl: </span>
                         <a
-                            href={`http://grch37.ensembl.org/homo_sapiens/Transcript/Summary?t=${activeTranscript}`}
+                            href={getUrl(this.props.transcriptSummaryUrlTemplate!, {transcriptId: activeTranscript})}
                             target="_blank"
                         >
                             {activeTranscript}
@@ -100,7 +106,7 @@ export default class GeneSummary extends React.Component<GeneSummaryProps, {}>
                     <div>
                         <span>Ensembl: </span>
                         <a
-                            href={`http://grch37.ensembl.org/homo_sapiens/Transcript/Summary?t=${canonicalTranscriptId}`}
+                            href={getUrl(this.props.transcriptSummaryUrlTemplate!, {transcriptId: canonicalTranscriptId})}
                             target="_blank"
                         >
                             {canonicalTranscriptId}

diff --git a/packages/react-mutation-mapper/src/component/mutationMapper/MutationMapper.tsx b/packages/react-mutation-mapper/src/component/mutationMapper/MutationMapper.tsx
@@ -66,6 +66,7 @@ export type MutationMapperProps = {
     showTranscriptDropDown?: boolean;
     showOnlyAnnotatedTranscriptsInDropdown?: boolean;
     filterMutationsBySelectedTranscript?: boolean;
+    transcriptSummaryUrlTemplate?: string;
     isoformOverrideSource?: string;
     annotationFields?: string[];
     mainLoadingIndicator?: JSX.Element;
@@ -324,6 +325,7 @@ export default class MutationMapper<P extends MutationMapperProps = MutationMapp
                 transcriptsWithAnnotations={this.store.transcriptsWithAnnotations}
                 transcriptsWithProteinLength={this.store.transcriptsWithProteinLength}
                 mutationsByTranscriptId={this.store.mutationsByTranscriptId}
+                transcriptSummaryUrlTemplate={this.props.transcriptSummaryUrlTemplate}
                 onTranscriptChange={this.handleTranscriptChange}
             />
         );