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Added Gene panel column to tables in Patient View
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49 changes: 49 additions & 0 deletions
49
src/shared/components/mutationTable/column/PanelColumnFormatter.spec.tsx
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,49 @@ | ||
| import PanelColumnFormatter from "./PanelColumnFormatter"; | ||
| import { shallow } from "enzyme"; | ||
| import { assert } from 'chai'; | ||
|
|
||
| const mockData = [ | ||
| { | ||
| alteration: 1, | ||
| entrezGeneId: 1, | ||
| gene: { | ||
| entrezGeneId: 1, | ||
| hugoGeneSymbol: 'test', | ||
| geneticEntityId: 1, | ||
| type: 'test' | ||
| }, | ||
| molecularProfileId: 'test', | ||
| patientId: 'test', | ||
| sampleId: 'sampleId', | ||
| studyId: 'test', | ||
| uniquePatientKey: 'test', | ||
| uniqueSampleKey: 'test', | ||
| } | ||
| ]; | ||
|
|
||
| const mockSampleToMutationGenePanelId = { 'sampleId': 'genePanelId' }; | ||
|
|
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| describe("PanelColumnFormatter", () => { | ||
| it('renders spinner icon if sampleToMutationGenePanelId object is empty', () => { | ||
| const PanelColumn = shallow(PanelColumnFormatter.renderFunction(mockData, {})); | ||
| assert.isTrue(PanelColumn.find('i.fa-spinner').exists()); | ||
| }); | ||
|
|
||
| it('renders gene panel information', () => { | ||
| const PanelColumn = shallow(PanelColumnFormatter.renderFunction( | ||
| mockData, | ||
| mockSampleToMutationGenePanelId | ||
| )); | ||
| assert.isTrue(PanelColumn.text().includes('genePanelId')); | ||
| }); | ||
|
|
||
| it('returns a list of gene panel ids on download', () => { | ||
| const genePanelIds = PanelColumnFormatter.download(mockData, mockSampleToMutationGenePanelId); | ||
| assert.deepEqual(genePanelIds, ['genePanelId']) | ||
| }); | ||
|
|
||
| it('returns a list of gene panel ids on getGenePanelIds', () => { | ||
| const genePanelIds = PanelColumnFormatter.getGenePanelIds(mockData, mockSampleToMutationGenePanelId); | ||
| assert.deepEqual(genePanelIds, ['genePanelId']) | ||
| }) | ||
| }) |
67 changes: 67 additions & 0 deletions
67
src/shared/components/mutationTable/column/PanelColumnFormatter.tsx
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,67 @@ | ||
| import * as React from 'react'; | ||
| import { | ||
| Mutation, | ||
| DiscreteCopyNumberData | ||
| } from 'shared/api/generated/CBioPortalAPI'; | ||
|
|
||
| interface PanelColumnFormatterProps { | ||
| data: Mutation[] | DiscreteCopyNumberData[]; | ||
| sampleToMutationGenePanelId: {[sampleId:string]: string} | undefined; | ||
| } | ||
|
|
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| class PanelColumn extends React.Component<PanelColumnFormatterProps, {}> { | ||
| constructor(props: PanelColumnFormatterProps) { | ||
| super(props); | ||
| } | ||
|
|
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| render() { | ||
| const { data, sampleToMutationGenePanelId } = this.props; | ||
|
|
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| if (!sampleToMutationGenePanelId) return; | ||
|
|
||
| if (sampleToMutationGenePanelId && !Object.keys(sampleToMutationGenePanelId).length) { | ||
| return <i className='fa fa-spinner fa-pulse' />; | ||
| } | ||
|
|
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| const genePanelIds: string[] = getGenePanelIds( | ||
| data, | ||
| sampleToMutationGenePanelId | ||
| ); | ||
|
|
||
| return ( | ||
| <div style={{ position: 'relative' }}> | ||
| <ul style={{ marginBottom: 0 }} className='list-inline list-unstyled'> | ||
| {genePanelIds.join(', ')} | ||
| </ul> | ||
| </div> | ||
| ); | ||
| } | ||
| } | ||
|
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| const getGenePanelIds = ( | ||
| data: any[], | ||
| sampleToMutationGenePanelId: {[sampleId:string]: string} | undefined | ||
| ) => { | ||
| if (sampleToMutationGenePanelId) { | ||
| const sampleIds = data.map((datum) => datum.sampleId); | ||
| return sampleIds.map((id) => sampleToMutationGenePanelId[id]); | ||
| } | ||
| return []; | ||
| }; | ||
|
|
||
| export default { | ||
| renderFunction: ( | ||
| data: Mutation[] | DiscreteCopyNumberData[], | ||
| sampleToMutationGenePanelId: {[sampleId:string]: string} | undefined | ||
| ) => ( | ||
| <PanelColumn | ||
| data={data} | ||
| sampleToMutationGenePanelId={sampleToMutationGenePanelId} | ||
| /> | ||
| ), | ||
| download: ( | ||
| data: Mutation[] | DiscreteCopyNumberData[], | ||
| sampleToMutationGenePanelId: {[sampleId:string]: string} | undefined | ||
| ) => getGenePanelIds(data, sampleToMutationGenePanelId), | ||
| getGenePanelIds | ||
| }; |