react-mutation-mapper 0.8.88 → 0.8.90

package/dist/component/column/Annotation.d.ts

@@ -25,6 +25,7 @@ export declare type AnnotationProps = {
         [genomicLocation: string]: VariantAnnotation;
     } | undefined>;
     userDisplayName?: string;
+    hasMultipleCancerTypes?: boolean;
 };
 export declare type GenericAnnotationProps = {
     annotation: IAnnotation;
@@ -37,6 +38,7 @@ export declare type GenericAnnotationProps = {
     oncoKbContentPadding?: number;
     pubMedCache?: MobxCache;
     userDisplayName?: string;
+    hasMultipleCancerTypes?: boolean;
 };
 export interface IAnnotation {
     isHotspot: boolean;

package/dist/component/mutationMapper/FilterResetPanel.d.ts

@@ -2,6 +2,7 @@ import * as React from 'react';
 declare type FilterResetPanelProps = {
     resetFilters: () => void;
     filterInfo?: JSX.Element | string;
+    additionalInfo?: JSX.Element | string;
     className?: string;
     buttonText?: string;
     buttonClass?: string;

package/dist/filter/ProteinChangeFilter.d.ts

@@ -0,0 +1,2 @@
+import { DataFilter } from '../model/DataFilter';
+export declare type ProteinChangeFilter = DataFilter<string>;

package/dist/index.es.js

@@ -738,9 +738,9 @@ function sortValue$4(annotation) {
     ]);
 }
 function GenericAnnotation(props) {
-    var annotation = props.annotation, enableCivic = props.enableCivic, enableHotspot = props.enableHotspot, enableMyCancerGenome = props.enableMyCancerGenome, enableOncoKb = props.enableOncoKb, enableRevue = props.enableRevue; props.pubMedCache; var userDisplayName = props.userDisplayName, mergeOncoKbIcons = props.mergeOncoKbIcons, oncoKbContentPadding = props.oncoKbContentPadding;
+    var annotation = props.annotation, enableCivic = props.enableCivic, enableHotspot = props.enableHotspot, enableMyCancerGenome = props.enableMyCancerGenome, enableOncoKb = props.enableOncoKb, enableRevue = props.enableRevue; props.pubMedCache; var userDisplayName = props.userDisplayName, mergeOncoKbIcons = props.mergeOncoKbIcons, oncoKbContentPadding = props.oncoKbContentPadding, hasMultipleCancerTypes = props.hasMultipleCancerTypes;
     return (React.createElement("span", { style: { display: 'flex', minWidth: 100 } },
-        enableOncoKb && (React.createElement(OncoKB, { usingPublicOncoKbInstance: annotation.usingPublicOncoKbInstance, hugoGeneSymbol: annotation.hugoGeneSymbol, geneNotExist: !annotation.oncoKbGeneExist, isCancerGene: annotation.isOncoKbCancerGene, status: annotation.oncoKbStatus, indicator: annotation.oncoKbIndicator, availableDataTypes: annotation.oncoKbAvailableDataTypes, mergeAnnotationIcons: mergeOncoKbIcons, userDisplayName: userDisplayName, contentPadding: oncoKbContentPadding })),
+        enableOncoKb && (React.createElement(OncoKB, { usingPublicOncoKbInstance: annotation.usingPublicOncoKbInstance, hugoGeneSymbol: annotation.hugoGeneSymbol, geneNotExist: !annotation.oncoKbGeneExist, isCancerGene: annotation.isOncoKbCancerGene, status: annotation.oncoKbStatus, indicator: annotation.oncoKbIndicator, availableDataTypes: annotation.oncoKbAvailableDataTypes, mergeAnnotationIcons: mergeOncoKbIcons, userDisplayName: userDisplayName, contentPadding: oncoKbContentPadding, hasMultipleCancerTypes: hasMultipleCancerTypes })),
         enableRevue ? (annotation.vue ? (React.createElement(RevueCell, { vue: annotation.vue })) : (React.createElement("span", { className: "" + annotationStyles['annotation-item'] }))) : (React.createElement(React.Fragment, null)),
         enableCivic && (React.createElement(Civic, { civicEntry: annotation.civicEntry, civicStatus: annotation.civicStatus, hasCivicVariants: annotation.hasCivicVariants })),
         enableMyCancerGenome && (React.createElement(MyCancerGenome, { linksHTML: annotation.myCancerGenomeLinks })),
@@ -2581,8 +2581,10 @@ var FilterResetPanel = /** @class */ (function (_super) {
         value: function () {
             return (React.createElement("div", { className: this.props.className, "data-test": "filter-reset-panel" },
                 React.createElement("span", { style: { verticalAlign: 'middle' } },
-                    this.props.filterInfo,
-                    React.createElement("button", { className: this.props.buttonClass, style: { cursor: 'pointer', marginLeft: 6 }, onClick: this.props.resetFilters }, this.props.buttonText))));
+                    React.createElement("strong", null, this.props.filterInfo),
+                    React.createElement("button", { className: this.props.buttonClass, style: { cursor: 'pointer', marginLeft: 6 }, onClick: this.props.resetFilters }, this.props.buttonText),
+                    React.createElement("br", null),
+                    this.props.additionalInfo)));
         }
     });
     Object.defineProperty(FilterResetPanel, "defaultProps", {
@@ -2610,6 +2612,7 @@ var DataFilterType;
     DataFilterType["CANCER_TYPE"] = "cancerType";
     DataFilterType["PROTEIN_IMPACT_TYPE"] = "proteinImpactType";
     DataFilterType["MUTATION_STATUS"] = "mutationStatus";
+    DataFilterType["PROTEIN_CHANGE"] = "proteinChange";
 })(DataFilterType || (DataFilterType = {}));
 
 var TEXT_INPUT_FILTER_ID = '_mutationTableTextInputFilter_';
@@ -2692,6 +2695,12 @@ function applyDefaultPositionFilter(filter, mutation) {
 function applyDefaultProteinImpactTypeFilter(filter, mutation) {
     return filter.values.includes(getProteinImpactType(mutation.mutationType || 'other'));
 }
+function applyDefaultProteinChangeFilter(filter, mutation) {
+    return (mutation.proteinChange !== undefined &&
+        ___default.some(filter.values, function (value) {
+            return value.toLowerCase() === mutation.proteinChange.toLowerCase();
+        }));
+}
 function applyDefaultMutationStatusFilter(filter, mutation) {
     return (mutation.mutationStatus !== undefined &&
         ___default.some(filter.values, function (value) {
@@ -5965,7 +5974,6 @@ var PercentToggle = /** @class */ (function (_super) {
                 } },
                 React.createElement("div", { style: {
                         marginLeft: 10,
-                        marginRight: 10,
                     } },
                     React.createElement("div", { style: { textAlign: 'center' } }, "Y-Axis:"),
                     React.createElement(AxisScaleSwitch, { selectedScale: this.props.axisMode, onChange: this.props.onScaleToggle }))));
@@ -9540,7 +9548,7 @@ var DefaultMutationMapperFilterApplier = /** @class */ (function () {
         get: function () {
             var _a;
             return __assign((_a = {}, _a[DataFilterType.POSITION] = this.applyPositionFilter, _a[DataFilterType.ONCOKB] = this.applyOncoKbFilter, _a[DataFilterType.HOTSPOT] = this.applyHostpotFilter, _a[DataFilterType.MUTATION] = this.applyMutationFilter, _a[DataFilterType.PROTEIN_IMPACT_TYPE] = this
-                .applyProteinImpactTypeFilter, _a[DataFilterType.MUTATION_STATUS] = this.applyMutationStatusFilter, _a), this.filterAppliersOverride);
+                .applyProteinImpactTypeFilter, _a[DataFilterType.MUTATION_STATUS] = this.applyMutationStatusFilter, _a[DataFilterType.PROTEIN_CHANGE] = this.applyProteinChangeFilter, _a), this.filterAppliersOverride);
         },
         enumerable: false,
         configurable: true
@@ -9609,6 +9617,14 @@ var DefaultMutationMapperFilterApplier = /** @class */ (function () {
             return applyDefaultMutationStatusFilter(filter, mutation);
         }
     });
+    Object.defineProperty(DefaultMutationMapperFilterApplier.prototype, "applyProteinChangeFilter", {
+        enumerable: false,
+        configurable: true,
+        writable: true,
+        value: function (filter, mutation) {
+            return applyDefaultProteinChangeFilter(filter, mutation);
+        }
+    });
     __decorate([
         autobind
     ], DefaultMutationMapperFilterApplier.prototype, "applyFilter", null);
@@ -9630,6 +9646,9 @@ var DefaultMutationMapperFilterApplier = /** @class */ (function () {
     __decorate([
         autobind
     ], DefaultMutationMapperFilterApplier.prototype, "applyMutationStatusFilter", null);
+    __decorate([
+        autobind
+    ], DefaultMutationMapperFilterApplier.prototype, "applyProteinChangeFilter", null);
     return DefaultMutationMapperFilterApplier;
 }());
 
@@ -11466,5 +11485,5 @@ var MutationMapper = /** @class */ (function (_super) {
     return MutationMapper;
 }(React.Component));
 
-export { Annotation, AxisScale, AxisScaleSwitch, BadgeLabel, BadgeSelector, Civic, ClinvarInterpretation, ClinvarSummary, ColumnHeader, ColumnSelector, ColumnSortDirection, DEFAULT_ANNOTATION_DATA, DEFAULT_GENOME_NEXUS_URL, DEFAULT_MUTATION_ALIGNER_PROXY_URL_TEMPLATE, DEFAULT_MUTATION_ALIGNER_URL_TEMPLATE, DEFAULT_MUTATION_COLUMNS, DEFAULT_MY_GENE_URL_TEMPLATE, DEFAULT_ONCO_KB_URL, DEFAULT_PROTEIN_IMPACT_TYPE_COLORS, DEFAULT_UNIPROT_ID_URL_TEMPLATE, DataFilterType, DataTable, Dbsnp, DbsnpId, DefaultMutationMapperDataFetcher, DefaultMutationMapperDataStore, DefaultMutationMapperFilterApplier, DefaultMutationMapperStore, DefaultMutationTable, Domain, DropdownSelector, FilterResetPanel, GenericAnnotation, Gnomad, GnomadFrequency, GnomadFrequencyBreakdown, GnomadFrequencyTable, GnomadFrequencyValue, Hgvsc, Hgvsg, HotspotAnnotation, HotspotInfo, Lollipop, LollipopMutationPlot, LollipopPlot, LollipopPlotNoTooltip, LollipopTooltipCountInfo, MUTATION_COLUMNS_DEFINITION, MUTATION_COLUMN_HEADERS, MUTATION_STATUS_BADGE_STYLE_OVERRIDE, MUTATION_TYPE_PRIORITY, MutationColumn, MutationColumnName, MutationMapper, MutationStatus, MutationStatusBadgeSelector, MyCancerGenome, ONCOKB_DEFAULT_DATA, ONCOKB_DEFAULT_INFO, PercentToggle, ProteinChange, ProteinImpactTypeBadgeSelector, ProteinImpactTypeDropdownSelector, RevueCell, RevueTooltipContent, LollipopPlot as Sequence, Signal, SignalTable, TEXT_INPUT_FILTER_ID, TrackName, TrackSelector, USE_DEFAULT_PUBLIC_INSTANCE_FOR_ONCOKB, sortValue$4 as annotationSortValue, applyDataFilters, applyDataFiltersOnDatum, applyDefaultMutationFilter, applyDefaultMutationStatusFilter, applyDefaultPositionFilter, applyDefaultProteinImpactTypeFilter, calculateGnomadAlleleFrequency, download$6 as civicDownload, sortValue$8 as civicSortValue, download$4 as clinvarDownload, sortValue$3 as clinvarSortValue, download$3 as dbsnpDownload, sortValue$2 as dbsnpSortValue, fetchVariantAnnotationsByMutation, fetchVariantAnnotationsIndexedByGenomicLocation, findAllUniquePositions, findNonTextInputFilters, findOneMutationFilterValue, findTextInputFilter, getAllOptionValues, getAnnotationData, getClinvarData, getColorForProteinImpactType, getGnomadData, getHgvscColumnData, getHgvsgColumnData, getProteinImpactTypeBadgeLabel, getProteinImpactTypeOptionLabel, getSelectedOptionValues, getSignalData, getSingleSignalValue, getUrl, download$2 as gnomadDownload, sortValue$1 as gnomadSortValue, groupDataByGroupFilters, groupDataByProteinImpactType, handleOptionSelect, download$1 as hgvscDownload, sortValue as hgvscSortValue, sortValue$6 as hotspotAnnotationSortValue, includesSearchTextIgnoreCase, indexPositions, initDefaultMutationMapperStore, initDefaultTrackVisibility, initGenomeNexusClient, initGenomeNexusInternalClient, initOncoKbClient, mergeColumns, mutationTypeSort, download$5 as myCancerGenomeDownload, sortValue$7 as myCancerGenomeSortValue, onFilterOptionSelect, proteinChangeSortMethod, rightAlignedCell, download as signalDownload, getSortValue as signalSortValue, updatePositionHighlightFilters, updatePositionRangeHighlightFilters, updatePositionSelectionFilters };
+export { Annotation, AxisScale, AxisScaleSwitch, BadgeLabel, BadgeSelector, Civic, ClinvarInterpretation, ClinvarSummary, ColumnHeader, ColumnSelector, ColumnSortDirection, DEFAULT_ANNOTATION_DATA, DEFAULT_GENOME_NEXUS_URL, DEFAULT_MUTATION_ALIGNER_PROXY_URL_TEMPLATE, DEFAULT_MUTATION_ALIGNER_URL_TEMPLATE, DEFAULT_MUTATION_COLUMNS, DEFAULT_MY_GENE_URL_TEMPLATE, DEFAULT_ONCO_KB_URL, DEFAULT_PROTEIN_IMPACT_TYPE_COLORS, DEFAULT_UNIPROT_ID_URL_TEMPLATE, DataFilterType, DataTable, Dbsnp, DbsnpId, DefaultMutationMapperDataFetcher, DefaultMutationMapperDataStore, DefaultMutationMapperFilterApplier, DefaultMutationMapperStore, DefaultMutationTable, Domain, DropdownSelector, FilterResetPanel, GenericAnnotation, Gnomad, GnomadFrequency, GnomadFrequencyBreakdown, GnomadFrequencyTable, GnomadFrequencyValue, Hgvsc, Hgvsg, HotspotAnnotation, HotspotInfo, Lollipop, LollipopMutationPlot, LollipopPlot, LollipopPlotNoTooltip, LollipopTooltipCountInfo, MUTATION_COLUMNS_DEFINITION, MUTATION_COLUMN_HEADERS, MUTATION_STATUS_BADGE_STYLE_OVERRIDE, MUTATION_TYPE_PRIORITY, MutationColumn, MutationColumnName, MutationMapper, MutationStatus, MutationStatusBadgeSelector, MyCancerGenome, ONCOKB_DEFAULT_DATA, ONCOKB_DEFAULT_INFO, PercentToggle, ProteinChange, ProteinImpactTypeBadgeSelector, ProteinImpactTypeDropdownSelector, RevueCell, RevueTooltipContent, LollipopPlot as Sequence, Signal, SignalTable, TEXT_INPUT_FILTER_ID, TrackName, TrackSelector, USE_DEFAULT_PUBLIC_INSTANCE_FOR_ONCOKB, sortValue$4 as annotationSortValue, applyDataFilters, applyDataFiltersOnDatum, applyDefaultMutationFilter, applyDefaultMutationStatusFilter, applyDefaultPositionFilter, applyDefaultProteinChangeFilter, applyDefaultProteinImpactTypeFilter, calculateGnomadAlleleFrequency, download$6 as civicDownload, sortValue$8 as civicSortValue, download$4 as clinvarDownload, sortValue$3 as clinvarSortValue, download$3 as dbsnpDownload, sortValue$2 as dbsnpSortValue, fetchVariantAnnotationsByMutation, fetchVariantAnnotationsIndexedByGenomicLocation, findAllUniquePositions, findNonTextInputFilters, findOneMutationFilterValue, findTextInputFilter, getAllOptionValues, getAnnotationData, getClinvarData, getColorForProteinImpactType, getGnomadData, getHgvscColumnData, getHgvsgColumnData, getProteinImpactTypeBadgeLabel, getProteinImpactTypeOptionLabel, getSelectedOptionValues, getSignalData, getSingleSignalValue, getUrl, download$2 as gnomadDownload, sortValue$1 as gnomadSortValue, groupDataByGroupFilters, groupDataByProteinImpactType, handleOptionSelect, download$1 as hgvscDownload, sortValue as hgvscSortValue, sortValue$6 as hotspotAnnotationSortValue, includesSearchTextIgnoreCase, indexPositions, initDefaultMutationMapperStore, initDefaultTrackVisibility, initGenomeNexusClient, initGenomeNexusInternalClient, initOncoKbClient, mergeColumns, mutationTypeSort, download$5 as myCancerGenomeDownload, sortValue$7 as myCancerGenomeSortValue, onFilterOptionSelect, proteinChangeSortMethod, rightAlignedCell, download as signalDownload, getSortValue as signalSortValue, updatePositionHighlightFilters, updatePositionRangeHighlightFilters, updatePositionSelectionFilters };
 //# sourceMappingURL=index.es.js.map