Refactor & final cleanup

Author: fuzhaoyuan

src/pages/resultsView/ResultsViewPageStoreUtils.ts

@@ -60,8 +60,6 @@ import {
     AnnotatedMutation,
     AnnotatedStructuralVariant,
 } from 'shared/model/AnnotatedMutation';
-import { StructuralVariantFilterExt } from 'shared/model/Fusion';
-import { StructuralVariantFilter } from 'cbioportal-ts-api-client/src';
 
 type Omit<T, K extends keyof T> = Pick<T, Exclude<keyof T, K>>;
 
@@ -960,48 +958,3 @@ export function getGeneAndProfileChunksForRequest(
         profileChunks: _.chunk(profileIds, profilesPerChunk),
     };
 }
-
-export function getStructuralVariantProfile(studyId: string) {
-    return studyId + '_structural_variants';
-}
-
-export function getParamsForStructuralVariants(
-    genes: Gene[],
-    selectedMolecularProfiles: MolecularProfile[] | undefined,
-    samples: Sample[] | undefined
-) {
-    const params: StructuralVariantFilterExt = { entrezGeneIds: [] };
-    if (genes) {
-        params.entrezGeneIds = _.chain(genes)
-            .map(gene => gene.entrezGeneId)
-            .compact()
-            .value();
-    }
-    // compose request parameters
-    if (samples) {
-        // get sample molecular identifiers
-        const sampleMolecularIds = samples.map(sample => {
-            return {
-                molecularProfileId: getStructuralVariantProfile(sample.studyId),
-                sampleId: sample.sampleId,
-            };
-        });
-        params.sampleMolecularIdentifiers = sampleMolecularIds;
-    } else {
-        // get molecular profile ids
-        if (selectedMolecularProfiles) {
-            const molecularProfiles = selectedMolecularProfiles
-                .filter(profile => {
-                    return (
-                        profile.molecularAlterationType ===
-                        AlterationTypeConstants.STRUCTURAL_VARIANT
-                    );
-                })
-                .map(profile => {
-                    return profile.molecularProfileId;
-                });
-            params.molecularProfileIds = molecularProfiles;
-        }
-    }
-    return params as StructuralVariantFilter;
-}

src/pages/resultsView/fusion/ResultsViewFusionMapper.tsx

@@ -28,7 +28,6 @@ import {
     getOncoKbIconStyle,
     updateOncoKbIconStyle,
 } from 'shared/lib/AnnotationColumnUtils';
-import { StructuralVariant } from 'cbioportal-ts-api-client';
 
 export interface IFusionMapperProps {
     store: ResultsViewFusionMapperStore;
@@ -78,14 +77,6 @@ export default class ResultsViewFusionMapper extends React.Component<
 
         return (
             <>
-                {/*This is reserved for fusion bar charts*/}
-                {/*<div style={{ display: 'flex', flexWrap: 'wrap' }}>*/}
-                {/*    <FusionPieChart*/}
-                {/*        store={this.props.store.dataStore}*/}
-                {/*        fusionCounts={this.props.store.fusionCounts}*/}
-                {/*    />*/}
-                {/*</div>*/}
-                {/*<hr style={{ marginTop: 20 }} />*/}
                 <ResultsViewFusionTable
                     dataStore={this.props.store.dataStore}
                     itemsLabelPlural={this.itemsLabelPlural}

src/pages/resultsView/fusion/ResultsViewFusionTable.tsx

@@ -65,7 +65,7 @@ export default class ResultsViewFusionTable extends FusionTable<
             FusionTableColumnType.TUMOR_PAIRED_END_READ_COUNT,
             FusionTableColumnType.NORMAL_SPLIT_READ_COUNT,
             FusionTableColumnType.TUMOR_SPLIT_READ_COUNT,
-            FusionTableColumnType.FUSION_DESCRIPTION,
+            FusionTableColumnType.SV_DESCRIPTION,
             FusionTableColumnType.BREAKPOINT_TYPE,
             FusionTableColumnType.CENTER,
             FusionTableColumnType.CONNECTION_TYPE,