Merge pull request #394 from zhx828/bug-fix

Use MSK overrides for mutation mapper

Author: zhx828

.github/release-drafter.yml

@@ -1,5 +1,5 @@
-name-template: '$NEXT_MINOR_VERSION'
-tag-template: '$NEXT_MINOR_VERSION'
+name-template: '$NEXT_PATCH_VERSION'
+tag-template: '$NEXT_PATCH_VERSION'
 categories:
   - title: '🧬 Features'
     labels:
@@ -37,4 +37,4 @@ template: |
 
   ## 🕵️‍♀️ Full commit logs
 
-  - https://github.com/oncokb/oncokb-public/compare/$PREVIOUS_TAG...$NEXT_MINOR_VERSION
+  - https://github.com/oncokb/oncokb-public/compare/$PREVIOUS_TAG...$NEXT_PATCH_VERSION

k8s/oncokb-public-local.yml

@@ -17,7 +17,7 @@ spec:
     spec:
       containers:
         - name: oncokb-public
-          image: cbioportal/oncokb-public:2.2.6
+          image: cbioportal/oncokb-public:2.2.7
           env:
             - name: SPRING_PROFILES_ACTIVE
               value: prod,no-liquibase

pom.xml

@@ -5,7 +5,7 @@
 
     <groupId>org.mskcc.cbio.oncokb</groupId>
     <artifactId>public-website</artifactId>
-    <version>2.2.6</version>
+    <version>2.2.7</version>
     <packaging>jar</packaging>
     <name>OncoKB Public Website</name>
 
@@ -608,7 +608,7 @@
                             <image>adoptopenjdk:11-jre-hotspot</image>
                         </from>
                         <to>
-                            <image>cbioportal/oncokb-public:2.2.6</image>
+                            <image>cbioportal/oncokb-public:2.2.7</image>
                         </to>
                         <container>
                             <entrypoint>

src/main/docker/app.yml

@@ -1,7 +1,7 @@
 version: '2'
 services:
   oncokb-app:
-    image: cbioportal/oncokb-public:2.2.6
+    image: cbioportal/oncokb-public:2.2.7
     environment:
       - _JAVA_OPTIONS=-Xmx512m -Xms256m
       - SPRING_PROFILES_ACTIVE=prod,swagger

src/main/webapp/app/config/constants.tsx

@@ -417,6 +417,7 @@ export type DataRelease = {
 };
 
 export const DATA_RELEASES: DataRelease[] = [
+  { date: '03262020', version: 'v2.1_patch_1' },
   { date: '02122020', version: 'v2.1' },
   { date: '12202019', version: 'v2.0' },
   { date: '12162019', version: 'v1.24_patch_1' },

src/main/webapp/app/store/AnnotationStore.ts

@@ -166,6 +166,7 @@ export class AnnotationStore {
         tracks: [TrackName.OncoKB, TrackName.CancerHotspots, TrackName.PTM],
         data: this.mutationMapperData.result,
         oncogenicities: this.uniqOncogenicity,
+        isoformOverrideSource: 'mskcc',
         filterAppliersOverride: getCustomFilterAppliers()
       });
     },
@@ -452,7 +453,7 @@ export class AnnotationStore {
           referenceAllele,
           variantAllele,
           mutationType: mutation.alterationType,
-          oncogenic: shortenOncogenicity( oncogenic ),
+          oncogenic: shortenOncogenicity(oncogenic),
           cancerType: mutation.cancerType
         };
       });