@jbrowse/plugin-variants 2.3.4 → 2.4.1
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/ChordVariantDisplay/index.js +1 -0
- package/dist/ChordVariantDisplay/index.js.map +1 -1
- package/dist/ChordVariantDisplay/models/stateModelFactory.d.ts +9 -2
- package/dist/ChordVariantDisplay/models/stateModelFactory.js +1 -1
- package/dist/ChordVariantDisplay/models/stateModelFactory.js.map +1 -1
- package/dist/LinearVariantDisplay/model.d.ts +3 -1
- package/dist/StructuralVariantChordRenderer/ReactComponent.d.ts +2 -3
- package/dist/StructuralVariantChordRenderer/ReactComponent.js +3 -5
- package/dist/StructuralVariantChordRenderer/ReactComponent.js.map +1 -1
- package/dist/VariantFeatureWidget/BreakendOptionDialog.js +4 -3
- package/dist/VariantFeatureWidget/BreakendOptionDialog.js.map +1 -1
- package/dist/VariantFeatureWidget/VariantSampleGrid.js +11 -7
- package/dist/VariantFeatureWidget/VariantSampleGrid.js.map +1 -1
- package/dist/VcfAdapter/VcfAdapter.d.ts +3 -1
- package/dist/VcfAdapter/VcfAdapter.js +9 -10
- package/dist/VcfAdapter/VcfAdapter.js.map +1 -1
- package/dist/VcfFeature/index.js +1 -1
- package/dist/VcfFeature/index.js.map +1 -1
- package/dist/VcfFeature/util.js +4 -7
- package/dist/VcfFeature/util.js.map +1 -1
- package/dist/VcfTabixAdapter/VcfTabixAdapter.js.map +1 -1
- package/esm/ChordVariantDisplay/index.js +1 -0
- package/esm/ChordVariantDisplay/index.js.map +1 -1
- package/esm/ChordVariantDisplay/models/stateModelFactory.d.ts +9 -2
- package/esm/ChordVariantDisplay/models/stateModelFactory.js +1 -1
- package/esm/ChordVariantDisplay/models/stateModelFactory.js.map +1 -1
- package/esm/LinearVariantDisplay/model.d.ts +3 -1
- package/esm/StructuralVariantChordRenderer/ReactComponent.d.ts +2 -3
- package/esm/StructuralVariantChordRenderer/ReactComponent.js +3 -5
- package/esm/StructuralVariantChordRenderer/ReactComponent.js.map +1 -1
- package/esm/VariantFeatureWidget/BreakendOptionDialog.js +4 -3
- package/esm/VariantFeatureWidget/BreakendOptionDialog.js.map +1 -1
- package/esm/VariantFeatureWidget/VariantSampleGrid.js +11 -7
- package/esm/VariantFeatureWidget/VariantSampleGrid.js.map +1 -1
- package/esm/VcfAdapter/VcfAdapter.d.ts +3 -1
- package/esm/VcfAdapter/VcfAdapter.js +9 -10
- package/esm/VcfAdapter/VcfAdapter.js.map +1 -1
- package/esm/VcfFeature/index.js +1 -1
- package/esm/VcfFeature/index.js.map +1 -1
- package/esm/VcfFeature/util.js +4 -7
- package/esm/VcfFeature/util.js.map +1 -1
- package/esm/VcfTabixAdapter/VcfTabixAdapter.js.map +1 -1
- package/package.json +3 -3
- package/src/ChordVariantDisplay/index.ts +2 -0
- package/src/ChordVariantDisplay/models/stateModelFactory.ts +2 -2
- package/src/StructuralVariantChordRenderer/ReactComponent.tsx +14 -15
- package/src/VariantFeatureWidget/BreakendOptionDialog.tsx +11 -5
- package/src/VariantFeatureWidget/VariantFeatureWidget.test.tsx +1 -1
- package/src/VariantFeatureWidget/VariantSampleGrid.tsx +48 -33
- package/src/VariantFeatureWidget/__snapshots__/VariantFeatureWidget.test.tsx.snap +8 -8
- package/src/VcfAdapter/VcfAdapter.ts +15 -16
- package/src/VcfFeature/index.ts +1 -1
- package/src/VcfFeature/util.ts +4 -6
- package/src/VcfTabixAdapter/VcfTabixAdapter.ts +2 -2
- package/src/VcfTabixAdapter/__snapshots__/VcfTabixAdapter.test.ts.snap +5 -5
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@@ -5,6 +5,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
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Object.defineProperty(exports, "__esModule", { value: true });
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const plugin_circular_view_1 = require("@jbrowse/plugin-circular-view");
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const DisplayType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/DisplayType"));
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// locals
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const configSchema_1 = __importDefault(require("./models/configSchema"));
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const stateModelFactory_1 = __importDefault(require("./models/stateModelFactory"));
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exports.default = (pluginManager) => {
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@@ -1 +1 @@
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-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/ChordVariantDisplay/index.ts"],"names":[],"mappings":";;;;;AACA,wEAAyE;AACzE,kGAAyE;
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/ChordVariantDisplay/index.ts"],"names":[],"mappings":";;;;;AACA,wEAAyE;AACzE,kGAAyE;AAEzE,SAAS;AACT,yEAAiD;AACjD,mFAAoD;AAEpD,kBAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAAC,GAAG,EAAE;QAChC,MAAM,YAAY,GAAG,IAAA,sBAAa,EAAC,aAAa,CAAC,CAAA;QACjD,MAAM,UAAU,GAAG,IAAA,2BAAW,EAAC,YAAY,CAAC,CAAA;QAC5C,OAAO,IAAI,qBAAW,CAAC;YACrB,IAAI,EAAE,qBAAqB;YAC3B,WAAW,EAAE,uBAAuB;YACpC,YAAY;YACZ,UAAU;YACV,SAAS,EAAE,cAAc;YACzB,QAAQ,EAAE,cAAc;YACxB,cAAc,EAAE,gDAAyB;SAC1C,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC,CAAA"}
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@@ -1,5 +1,6 @@
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/// <reference types="react" />
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import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
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import { Feature } from '@jbrowse/core/util';
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/**
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* #stateModel ChordVariantDisplay
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* extends `BaseChordDisplay`
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@@ -22,7 +23,9 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
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configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
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}, {
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rendererTypeName: string;
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error: unknown;
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error: unknown; /**
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* #property
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*/
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} & {
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readonly RenderingComponent: import("react").FC<{
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model: {
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@@ -81,7 +84,7 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
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renderingComponent: import("@jbrowse/core/util").AnyReactComponentType | undefined;
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refNameMap: Record<string, string> | undefined;
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} & {
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onChordClick(feature:
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onChordClick(feature: Feature): void;
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} & {
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readonly blockDefinitions: import("@jbrowse/plugin-circular-view/src/CircularView/models/slices").Slice[];
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renderProps(): any;
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@@ -101,6 +104,10 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
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setRefNameMap(refNameMap: Record<string, string>): void;
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} & {
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afterAttach(): void;
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} & {
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renderSvg(opts: import("@jbrowse/plugin-circular-view/src/CircularView/models/CircularView").ExportSvgOptions & {
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theme: import("@mui/material").ThemeOptions;
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}): Promise<JSX.Element>;
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} & {
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/**
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* #getter
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@@ -41,7 +41,7 @@ const stateModelFactory = (configSchema) => {
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radius: view.radiusPx,
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blockDefinitions: self.blockDefinitions,
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config: self.configuration.renderer,
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onChordClick: self.onChordClick,
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onChordClick: (arg) => self.onChordClick(arg),
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};
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},
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}));
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@@ -1 +1 @@
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-
{"version":3,"file":"stateModelFactory.js","sourceRoot":"","sources":["../../../src/ChordVariantDisplay/models/stateModelFactory.ts"],"names":[],"mappings":";;AAAA,wEAAqE;AACrE,+DAGoC;AACpC,qDAAuC;AACvC,
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{"version":3,"file":"stateModelFactory.js","sourceRoot":"","sources":["../../../src/ChordVariantDisplay/models/stateModelFactory.ts"],"names":[],"mappings":";;AAAA,wEAAqE;AACrE,+DAGoC;AACpC,qDAAuC;AACvC,6CAA+D;AAC/D,sDAAgE;AAEhE;;;GAGG;AACH,MAAM,iBAAiB,GAAG,CAAC,YAAwC,EAAE,EAAE;IACrE,OAAO,uBAAK;SACT,OAAO,CACN,qBAAqB,EACrB,4CAAqB,EACrB,uBAAK,CAAC,KAAK,CAAC;QACV;;WAEG;QACH,IAAI,EAAE,uBAAK,CAAC,OAAO,CAAC,qBAAqB,CAAC;QAC1C;;WAEG;QACH,aAAa,EAAE,IAAA,sCAAsB,EAAC,YAAY,CAAC;KACpD,CAAC,CACH;SACA,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,gBAAgB;YAClB,OAAO,IAAI,CAAC,aAAa,CAAC,QAAQ,CAAC,IAAI,CAAA;QACzC,CAAC;QAED;;WAEG;QACH,WAAW;YACT,MAAM,IAAI,GAAG,IAAA,wBAAiB,EAAC,IAAI,CAAC,CAAA;YACpC,OAAO;gBACL,GAAG,IAAA,6BAAoB,EAAC,IAAI,CAAC;gBAC7B,aAAa,EAAE,IAAI,CAAC,aAAa;gBACjC,YAAY,EAAE,IAAI;gBAClB,YAAY,EAAE,IAAI,CAAC,QAAQ,GAAG,IAAI,CAAC,iBAAiB;gBACpD,MAAM,EAAE,IAAI,CAAC,QAAQ;gBACrB,gBAAgB,EAAE,IAAI,CAAC,gBAAgB;gBACvC,MAAM,EAAE,IAAI,CAAC,aAAa,CAAC,QAAQ;gBACnC,YAAY,EAAE,CAAC,GAAY,EAAE,EAAE,CAAC,IAAI,CAAC,YAAY,CAAC,GAAG,CAAC;aACvD,CAAA;QACH,CAAC;KACF,CAAC,CAAC,CAAA;AACP,CAAC,CAAA;AAED,0EAA0E;AAE1E,wDAAwD;AAExD,2BAA2B;AAC3B,EAAE;AACF,kBAAe,iBAAiB,CAAA"}
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@@ -11,7 +11,7 @@ export default function stateModelFactory(configSchema: LinearVariantDisplayConf
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type: import("mobx-state-tree").ISimpleType<string>;
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rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
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} & {
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-
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heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
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blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
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key: import("mobx-state-tree").ISimpleType<string>;
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region: import("mobx-state-tree").IModelType<{
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@@ -137,6 +137,7 @@ export default function stateModelFactory(configSchema: LinearVariantDisplayConf
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estimatedRegionStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
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estimatedRegionStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
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} & {
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readonly height: number;
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readonly blockType: "dynamicBlocks" | "staticBlocks";
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readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
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} & {
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} & {
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renderSvg(opts: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions & {
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overrideHeight: number;
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theme: import("@mui/material").ThemeOptions;
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}): Promise<JSX.Element>;
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} & {
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readonly rendererTypeName: any;
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import { Feature } from '@jbrowse/core/util';
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import { AnyConfigurationModel } from '@jbrowse/core/configuration';
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import { Block, AnyRegion } from './Chord';
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declare
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declare const _default: ({ features, config, displayModel, blockDefinitions, radius, bezierRadius, displayModel: { selectedFeatureId }, onChordClick, }: {
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radius: number;
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config: AnyConfigurationModel;
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blockDefinitions: Block[];
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bezierRadius: number;
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onChordClick: (feature: Feature, reg: AnyRegion, endBlock: AnyRegion, evt: unknown) => void;
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})
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declare const _default: typeof StructuralVariantChords;
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}) => JSX.Element;
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export default _default;
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const mobx_react_1 = require("mobx-react");
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// locals
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const Chord_1 = __importDefault(require("./Chord"));
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function StructuralVariantChords(
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const { features, config, displayModel, blockDefinitions, radius, bezierRadius, displayModel: { selectedFeatureId }, onChordClick, } = props;
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exports.default = (0, mobx_react_1.observer)(function StructuralVariantChords({ features, config, displayModel, blockDefinitions, radius, bezierRadius, displayModel: { selectedFeatureId }, onChordClick, }) {
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// make a map of refName -> blockDefinition
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const selected = String(selectedFeatureId) === String(id);
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chords.push(react_1.default.createElement(Chord_1.default, { key: id, feature: feature, config: config, radius: radius, bezierRadius: bezierRadius, blocksForRefs: blocksForRefsMemo, selected: selected, onClick: onChordClick }));
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}
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const trackStyleId = `chords-${displayModel.id}`;
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const trackStyleId = `chords-${typeof jest !== 'undefined' ? 'test' : displayModel.id}`;
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return (react_1.default.createElement("g", { id: trackStyleId, "data-testid": "structuralVariantChordRenderer" },
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react_1.default.createElement("style", {
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// eslint-disable-next-line react/no-danger
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@@ -60,6 +59,5 @@ function StructuralVariantChords(props) {
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`,
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} }),
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chords));
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}
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exports.default = (0, mobx_react_1.observer)(StructuralVariantChords);
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});
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//# sourceMappingURL=ReactComponent.js.map
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{"version":3,"file":"ReactComponent.js","sourceRoot":"","sources":["../../src/StructuralVariantChordRenderer/ReactComponent.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAsC;AACtC,2CAAqC;AAIrC,SAAS;AACT,oDAAiD;AAEjD,SAAS,uBAAuB,CAAC,
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{"version":3,"file":"ReactComponent.js","sourceRoot":"","sources":["../../src/StructuralVariantChordRenderer/ReactComponent.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAsC;AACtC,2CAAqC;AAIrC,SAAS;AACT,oDAAiD;AAEjD,kBAAe,IAAA,qBAAQ,EAAC,SAAS,uBAAuB,CAAC,EACvD,QAAQ,EACR,MAAM,EACN,YAAY,EACZ,gBAAgB,EAChB,MAAM,EACN,YAAY,EACZ,YAAY,EAAE,EAAE,iBAAiB,EAAE,EACnC,YAAY,GAcb;IACC,2CAA2C;IAC3C,MAAM,iBAAiB,GAAG,IAAA,eAAO,EAAC,GAAG,EAAE;QACrC,MAAM,aAAa,GAAG,EAA8B,CAAA;QACpD,gBAAgB,CAAC,OAAO,CAAC,KAAK,CAAC,EAAE;YAC/B,CAAC;YAAA,CAAC,KAAK,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,CAAC,KAAK,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC,CAAC,OAAO,CACpE,CAAC,CAAC,EAAE,CAAC,CAAC,aAAa,CAAC,CAAC,CAAC,OAAO,CAAC,GAAG,KAAK,CAAC,CACxC,CAAA;QACH,CAAC,CAAC,CAAA;QACF,OAAO,aAAa,CAAA;IACtB,CAAC,EAAE,CAAC,gBAAgB,CAAC,CAAC,CAAA;IACtB,MAAM,MAAM,GAAG,EAAE,CAAA;IACjB,KAAK,MAAM,OAAO,IAAI,QAAQ,CAAC,MAAM,EAAE,EAAE;QACvC,MAAM,EAAE,GAAG,OAAO,CAAC,EAAE,EAAE,CAAA;QACvB,MAAM,QAAQ,GAAG,MAAM,CAAC,iBAAiB,CAAC,KAAK,MAAM,CAAC,EAAE,CAAC,CAAA;QACzD,MAAM,CAAC,IAAI,CACT,8BAAC,eAAK,IACJ,GAAG,EAAE,EAAE,EACP,OAAO,EAAE,OAAO,EAChB,MAAM,EAAE,MAAM,EACd,MAAM,EAAE,MAAM,EACd,YAAY,EAAE,YAAY,EAC1B,aAAa,EAAE,iBAAiB,EAChC,QAAQ,EAAE,QAAQ,EAClB,OAAO,EAAE,YAAY,GACrB,CACH,CAAA;KACF;IACD,MAAM,YAAY,GAAG,UACnB,OAAO,IAAI,KAAK,WAAW,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,YAAY,CAAC,EACtD,EAAE,CAAA;IACF,OAAO,CACL,qCAAG,EAAE,EAAE,YAAY,iBAAc,gCAAgC;QAC/D;YACE,2CAA2C;YAC3C,uBAAuB,EAAE;gBACvB,MAAM,EAAE;aACL,YAAY;;;;CAIxB;aACQ,GACD;QACD,MAAM,CACL,CACL,CAAA;AACH,CAAC,CAAC,CAAA"}
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try {
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const viewSnapshot = viewType.snapshotFromBreakendFeature(feature, view);
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function remapIds(arr) {
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return arr.map(
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return arr.map(v => ({
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id: v.trackId
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viewSnapshot.views[0].offsetPx -= view.width / 2 + 100;
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viewSnapshot.views[1].offsetPx -= view.width / 2 + 100;
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viewSnapshot.featureData = feature;
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// eslint-disable-next-line @typescript-eslint/no-unnecessary-type-assertion
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const viewTracks = (0, mobx_state_tree_1.getSnapshot)(view.tracks);
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viewSnapshot.views[0].tracks = remapIds(viewTracks);
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viewSnapshot.views[1].tracks = remapIds(mirrorTracks ? viewTracks.
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viewSnapshot.views[1].tracks = remapIds(mirrorTracks ? [...viewTracks].reverse() : viewTracks);
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session.addView('BreakpointSplitView', viewSnapshot);
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69
|
catch (e) {
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"BreakendOptionDialog.js","sourceRoot":"","sources":["../../src/VariantFeatureWidget/BreakendOptionDialog.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;AAAA,uDAAuD;AACvD,+CAAuC;AACvC,2CAAqC;AACrC,4CAMsB;AACtB,uCAA0C;AAC1C,qDAA6C;AAC7C,UAAU;AACV,yCAAyC;AACzC,6CAAwD;AAExD,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC;IAC7B,KAAK,EAAE;QACL,OAAO,EAAE,OAAO;KACjB;CACF,CAAC,CAAA;AAEF,SAAS,oBAAoB,CAAC,EAC5B,KAAK,EACL,WAAW,EACX,OAAO,EACP,QAAQ,GAMT;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,CAAC,UAAU,EAAE,aAAa,CAAC,GAAG,IAAA,gBAAQ,EAAC,IAAI,CAAC,CAAA;IAClD,MAAM,CAAC,YAAY,EAAE,eAAe,CAAC,GAAG,IAAA,gBAAQ,EAAC,IAAI,CAAC,CAAA;IAEtD,OAAO,CACL,8BAAC,WAAM,IAAC,IAAI,QAAC,OAAO,EAAE,WAAW,EAAE,KAAK,EAAC,+BAA+B;QACtE,8BAAC,wBAAa;YACZ,8BAAC,2BAAgB,IACf,SAAS,EAAE,OAAO,CAAC,KAAK,EACxB,OAAO,EACL,8BAAC,mBAAQ,IACP,OAAO,EAAE,UAAU,EACnB,QAAQ,EAAE,GAAG,EAAE,CAAC,aAAa,CAAC,GAAG,CAAC,EAAE,CAAC,CAAC,GAAG,CAAC,GAC1C,EAEJ,KAAK,EAAC,+BAA+B,GACrC;YAEF,8BAAC,2BAAgB,IACf,SAAS,EAAE,OAAO,CAAC,KAAK,EACxB,OAAO,EACL,8BAAC,mBAAQ,IACP,OAAO,EAAE,YAAY,EACrB,QAAQ,EAAE,GAAG,EAAE,CAAC,eAAe,CAAC,GAAG,CAAC,EAAE,CAAC,CAAC,GAAG,CAAC,GAC5C,EAEJ,KAAK,EAAC,qDAAqD,GAC3D,CACY;QAChB,8BAAC,wBAAa;YACZ,8BAAC,iBAAM,IACL,OAAO,EAAE,GAAG,EAAE;oBACZ,MAAM,EAAE,IAAI,EAAE,GAAG,KAAK,CAAA;oBACtB,MAAM,OAAO,GAAG,IAAA,iBAAU,EAAC,KAAK,CAAC,CAAA;oBACjC,IAAI;wBACF,MAAM,YAAY,GAAG,QAAQ,CAAC,2BAA2B,CACvD,OAAO,EACP,IAAI,CACL,CAAA;
|
|
1
|
+
{"version":3,"file":"BreakendOptionDialog.js","sourceRoot":"","sources":["../../src/VariantFeatureWidget/BreakendOptionDialog.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;AAAA,uDAAuD;AACvD,+CAAuC;AACvC,2CAAqC;AACrC,4CAMsB;AACtB,uCAA0C;AAC1C,qDAA6C;AAC7C,UAAU;AACV,yCAAyC;AACzC,6CAAwD;AAExD,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC;IAC7B,KAAK,EAAE;QACL,OAAO,EAAE,OAAO;KACjB;CACF,CAAC,CAAA;AAEF,SAAS,oBAAoB,CAAC,EAC5B,KAAK,EACL,WAAW,EACX,OAAO,EACP,QAAQ,GAMT;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,CAAC,UAAU,EAAE,aAAa,CAAC,GAAG,IAAA,gBAAQ,EAAC,IAAI,CAAC,CAAA;IAClD,MAAM,CAAC,YAAY,EAAE,eAAe,CAAC,GAAG,IAAA,gBAAQ,EAAC,IAAI,CAAC,CAAA;IAEtD,OAAO,CACL,8BAAC,WAAM,IAAC,IAAI,QAAC,OAAO,EAAE,WAAW,EAAE,KAAK,EAAC,+BAA+B;QACtE,8BAAC,wBAAa;YACZ,8BAAC,2BAAgB,IACf,SAAS,EAAE,OAAO,CAAC,KAAK,EACxB,OAAO,EACL,8BAAC,mBAAQ,IACP,OAAO,EAAE,UAAU,EACnB,QAAQ,EAAE,GAAG,EAAE,CAAC,aAAa,CAAC,GAAG,CAAC,EAAE,CAAC,CAAC,GAAG,CAAC,GAC1C,EAEJ,KAAK,EAAC,+BAA+B,GACrC;YAEF,8BAAC,2BAAgB,IACf,SAAS,EAAE,OAAO,CAAC,KAAK,EACxB,OAAO,EACL,8BAAC,mBAAQ,IACP,OAAO,EAAE,YAAY,EACrB,QAAQ,EAAE,GAAG,EAAE,CAAC,eAAe,CAAC,GAAG,CAAC,EAAE,CAAC,CAAC,GAAG,CAAC,GAC5C,EAEJ,KAAK,EAAC,qDAAqD,GAC3D,CACY;QAChB,8BAAC,wBAAa;YACZ,8BAAC,iBAAM,IACL,OAAO,EAAE,GAAG,EAAE;oBACZ,MAAM,EAAE,IAAI,EAAE,GAAG,KAAK,CAAA;oBACtB,MAAM,OAAO,GAAG,IAAA,iBAAU,EAAC,KAAK,CAAC,CAAA;oBACjC,IAAI;wBACF,MAAM,YAAY,GAAG,QAAQ,CAAC,2BAA2B,CACvD,OAAO,EACP,IAAI,CACL,CAAA;wBAMD,SAAS,QAAQ,CAAC,GAAY;4BAC5B,OAAO,GAAG,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC;gCACnB,GAAG,CAAC;gCACJ,EAAE,EAAE,GAAG,CAAC,CAAC,OAAO,IAAI,IAAI,CAAC,MAAM,EAAE,EAAE;6BACpC,CAAC,CAAC,CAAA;wBACL,CAAC;wBACD,YAAY,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,QAAQ,IAAI,IAAI,CAAC,KAAK,GAAG,CAAC,GAAG,GAAG,CAAA;wBACtD,YAAY,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,QAAQ,IAAI,IAAI,CAAC,KAAK,GAAG,CAAC,GAAG,GAAG,CAAA;wBACtD,YAAY,CAAC,WAAW,GAAG,OAAO,CAAA;wBAClC,4EAA4E;wBAC5E,MAAM,UAAU,GAAG,IAAA,6BAAW,EAAC,IAAI,CAAC,MAAM,CAAY,CAAA;wBACtD,YAAY,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,MAAM,GAAG,QAAQ,CAAC,UAAU,CAAC,CAAA;wBACnD,YAAY,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,MAAM,GAAG,QAAQ,CACrC,YAAY,CAAC,CAAC,CAAC,CAAC,GAAG,UAAU,CAAC,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC,UAAU,CACtD,CAAA;wBAED,OAAO,CAAC,OAAO,CAAC,qBAAqB,EAAE,YAAY,CAAC,CAAA;qBACrD;oBAAC,OAAO,CAAC,EAAE;wBACV,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;wBAChB,OAAO,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,CAAC,CAAA;qBACvB;oBACD,WAAW,EAAE,CAAA;gBACf,CAAC,EACD,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,SAAS,EACf,SAAS,eAGF;YACT,8BAAC,iBAAM,IACL,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,EAAE,EAC5B,KAAK,EAAC,WAAW,EACjB,OAAO,EAAC,WAAW,aAGZ,CACK,CACT,CACV,CAAA;AACH,CAAC;AACD,kBAAe,IAAA,qBAAQ,EAAC,oBAAoB,CAAC,CAAA"}
|
|
@@ -29,12 +29,19 @@ const x_data_grid_1 = require("@mui/x-data-grid");
|
|
|
29
29
|
const BaseFeatureDetail_1 = require("@jbrowse/core/BaseFeatureWidget/BaseFeatureDetail");
|
|
30
30
|
const util_1 = require("@jbrowse/core/util");
|
|
31
31
|
const ResizeBar_1 = __importStar(require("@jbrowse/core/ui/ResizeBar"));
|
|
32
|
+
function SampleFilters({ columns, filter, setFilter, }) {
|
|
33
|
+
const [showFilters, setShowFilters] = (0, react_1.useState)(false);
|
|
34
|
+
return (react_1.default.createElement(react_1.default.Fragment, null,
|
|
35
|
+
react_1.default.createElement(material_1.FormControlLabel, { control: react_1.default.createElement(material_1.Checkbox, { checked: showFilters, onChange: () => setShowFilters(f => !f) }), label: "Show sample filters" }),
|
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showFilters ? (react_1.default.createElement(react_1.default.Fragment, null,
|
|
37
|
+
react_1.default.createElement(material_1.Typography, null, "These filters can use a plain text search or regex style query, e.g. in the genotype field, entering 1 will query for all genotypes that include the first alternate allele e.g. 0|1 or 1|1, entering [1-9]\\d* will find any non-zero allele e.g. 0|2 or 2/33"),
|
|
38
|
+
columns.map(({ field }) => (react_1.default.createElement(material_1.TextField, { key: `filter-${field}`, placeholder: `Filter ${field}`, value: filter[field] || '', onChange: event => setFilter({ ...filter, [field]: event.target.value }) }))))) : null));
|
|
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|
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}
|
|
32
40
|
function VariantSamples(props) {
|
|
33
41
|
var _a;
|
|
34
42
|
const { feature, descriptions = {} } = props;
|
|
35
43
|
const { ref, scrollLeft } = (0, ResizeBar_1.useResizeBar)();
|
|
36
44
|
const [filter, setFilter] = (0, react_1.useState)({});
|
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|
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const [showFilters, setShowFilters] = (0, react_1.useState)(false);
|
|
38
45
|
const samples = (feature.samples || {});
|
|
39
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|
const preFilteredRows = Object.entries(samples);
|
|
40
47
|
let error;
|
|
@@ -65,7 +72,7 @@ function VariantSamples(props) {
|
|
|
65
72
|
}
|
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|
const keys = ['sample', ...Object.keys(((_a = preFilteredRows[0]) === null || _a === void 0 ? void 0 : _a[1]) || {})];
|
|
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74
|
const [widths, setWidths] = (0, react_1.useState)(keys.map(e => (0, util_1.measureGridWidth)(rows.map(r => r[e]))));
|
|
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-
const
|
|
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|
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const columns = keys.map((field, index) => {
|
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76
|
var _a, _b;
|
|
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|
return ({
|
|
71
78
|
field,
|
|
@@ -77,14 +84,11 @@ function VariantSamples(props) {
|
|
|
77
84
|
// https://github.com/mui-org/material-ui-x/issues/1197
|
|
78
85
|
return !preFilteredRows.length ? null : (react_1.default.createElement(BaseFeatureDetail_1.BaseCard, { ...props, title: "Samples" },
|
|
79
86
|
error ? react_1.default.createElement(material_1.Typography, { color: "error" }, `${error}`) : null,
|
|
80
|
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react_1.default.createElement(
|
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81
|
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showFilters ? (react_1.default.createElement(react_1.default.Fragment, null,
|
|
82
|
-
react_1.default.createElement(material_1.Typography, null, "These filters can use a plain text search or regex style query, e.g. in the genotype field, entering 1 will query for all genotypes that include the first alternate allele e.g. 0|1 or 1|1, entering [1-9]\\d* will find any non-zero allele e.g. 0|2 or 2/33"),
|
|
83
|
-
infoFields.map(({ field }) => (react_1.default.createElement(material_1.TextField, { key: `filter-${field}`, placeholder: `Filter ${field}`, value: filter[field] || '', onChange: event => setFilter({ ...filter, [field]: event.target.value }) }))))) : null,
|
|
87
|
+
react_1.default.createElement(SampleFilters, { setFilter: setFilter, columns: columns, filter: filter }),
|
|
84
88
|
react_1.default.createElement("div", { ref: ref },
|
|
85
89
|
react_1.default.createElement(ResizeBar_1.default, { widths: widths, setWidths: setWidths, scrollLeft: scrollLeft }),
|
|
86
90
|
react_1.default.createElement("div", { ref: ref, style: { height: 600, width: '100%', overflow: 'auto' } },
|
|
87
|
-
react_1.default.createElement(x_data_grid_1.DataGrid, { rows: rows, columns:
|
|
91
|
+
react_1.default.createElement(x_data_grid_1.DataGrid, { rows: rows, columns: columns, disableSelectionOnClick: true, rowHeight: 25, headerHeight: 35, disableColumnMenu: true })))));
|
|
88
92
|
}
|
|
89
93
|
exports.default = VariantSamples;
|
|
90
94
|
//# sourceMappingURL=VariantSampleGrid.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"VariantSampleGrid.js","sourceRoot":"","sources":["../../src/VariantFeatureWidget/VariantSampleGrid.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAuC;AAEvC,4CAKsB;AAEtB,kDAA2C;AAC3C,yFAA4E;AAC5E,6CAA8E;AAC9E,wEAAoE;AAWpE,
|
|
1
|
+
{"version":3,"file":"VariantSampleGrid.js","sourceRoot":"","sources":["../../src/VariantFeatureWidget/VariantSampleGrid.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAuC;AAEvC,4CAKsB;AAEtB,kDAA2C;AAC3C,yFAA4E;AAC5E,6CAA8E;AAC9E,wEAAoE;AAWpE,SAAS,aAAa,CAAC,EACrB,OAAO,EACP,MAAM,EACN,SAAS,GAKV;IACC,MAAM,CAAC,WAAW,EAAE,cAAc,CAAC,GAAG,IAAA,gBAAQ,EAAC,KAAK,CAAC,CAAA;IACrD,OAAO,CACL;QACE,8BAAC,2BAAgB,IACf,OAAO,EACL,8BAAC,mBAAQ,IACP,OAAO,EAAE,WAAW,EACpB,QAAQ,EAAE,GAAG,EAAE,CAAC,cAAc,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,GACvC,EAEJ,KAAK,EAAC,qBAAqB,GAC3B;QACD,WAAW,CAAC,CAAC,CAAC,CACb;YACE,8BAAC,qBAAU,yQAKE;YACZ,OAAO,CAAC,GAAG,CAAC,CAAC,EAAE,KAAK,EAAE,EAAE,EAAE,CAAC,CAC1B,8BAAC,oBAAS,IACR,GAAG,EAAE,UAAU,KAAK,EAAE,EACtB,WAAW,EAAE,UAAU,KAAK,EAAE,EAC9B,KAAK,EAAE,MAAM,CAAC,KAAK,CAAC,IAAI,EAAE,EAC1B,QAAQ,EAAE,KAAK,CAAC,EAAE,CAChB,SAAS,CAAC,EAAE,GAAG,MAAM,EAAE,CAAC,KAAK,CAAC,EAAE,KAAK,CAAC,MAAM,CAAC,KAAK,EAAE,CAAC,GAEvD,CACH,CAAC,CACD,CACJ,CAAC,CAAC,CAAC,IAAI,CACP,CACJ,CAAA;AACH,CAAC;AAED,SAAwB,cAAc,CAAC,KAItC;;IACC,MAAM,EAAE,OAAO,EAAE,YAAY,GAAG,EAAE,EAAE,GAAG,KAAK,CAAA;IAC5C,MAAM,EAAE,GAAG,EAAE,UAAU,EAAE,GAAG,IAAA,wBAAY,GAAE,CAAA;IAC1C,MAAM,CAAC,MAAM,EAAE,SAAS,CAAC,GAAG,IAAA,gBAAQ,EAAU,EAAE,CAAC,CAAA;IACjD,MAAM,OAAO,GAAG,CAAC,OAAO,CAAC,OAAO,IAAI,EAAE,CAA+B,CAAA;IACrE,MAAM,eAAe,GAAG,MAAM,CAAC,OAAO,CAAC,OAAO,CAAC,CAAA;IAE/C,IAAI,KAAK,CAAA;IACT,IAAI,IAAI,GAAG,EAAa,CAAA;IACxB,MAAM,OAAO,GAAG,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,CAAA;IAEnC,qCAAqC;IACrC,wEAAwE;IACxE,4BAA4B;IAC5B,IAAI;QACF,IAAI,GAAG,eAAe;aACnB,GAAG,CAAC,GAAG,CAAC,EAAE;YACT,OAAO;gBACL,GAAG,MAAM,CAAC,WAAW,CACnB,MAAM,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,GAAG,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CACnD;gBACD,MAAM,EAAE,GAAG,CAAC,CAAC,CAAC;gBACd,EAAE,EAAE,GAAG,CAAC,CAAC,CAAC;aACF,CAAA;QACZ,CAAC,CAAC;aACD,MAAM,CAAC,GAAG,CAAC,EAAE,CACZ,OAAO,CAAC,MAAM;YACZ,CAAC,CAAC,OAAO,CAAC,KAAK,CAAC,GAAG,CAAC,EAAE;gBAClB,MAAM,GAAG,GAAG,GAAG,CAAC,GAAG,CAAC,CAAA;gBACpB,MAAM,UAAU,GAAG,MAAM,CAAC,GAAG,CAAC,CAAA;gBAC9B,OAAO,UAAU,CAAC,CAAC,CAAC,GAAG,CAAC,KAAK,CAAC,IAAI,MAAM,CAAC,UAAU,EAAE,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,CAAA;YACnE,CAAC,CAAC;YACJ,CAAC,CAAC,IAAI,CACT,CAAA;KACJ;IAAC,OAAO,CAAC,EAAE;QACV,KAAK,GAAG,CAAC,CAAA;KACV;IAED,MAAM,IAAI,GAAG,CAAC,QAAQ,EAAE,GAAG,MAAM,CAAC,IAAI,CAAC,CAAA,MAAA,eAAe,CAAC,CAAC,CAAC,0CAAG,CAAC,CAAC,KAAI,EAAE,CAAC,CAAC,CAAA;IAEtE,MAAM,CAAC,MAAM,EAAE,SAAS,CAAC,GAAG,IAAA,gBAAQ,EAClC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,IAAA,uBAAgB,EAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CACrD,CAAA;IACD,MAAM,OAAO,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,KAAK,EAAE,KAAK,EAAE,EAAE;;QAAC,OAAA,CAAC;YAC1C,KAAK;YACL,WAAW,EAAE,MAAA,MAAA,YAAY,CAAC,MAAM,0CAAG,KAAK,CAAC,0CAAE,WAAW;YACtD,KAAK,EAAE,MAAM,CAAC,KAAK,CAAC;SACrB,CAAC,CAAA;KAAA,CAAC,CAAA;IAEH,sCAAsC;IACtC,uDAAuD;IACvD,OAAO,CAAC,eAAe,CAAC,MAAM,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CACtC,8BAAC,4BAAQ,OAAK,KAAK,EAAE,KAAK,EAAC,SAAS;QACjC,KAAK,CAAC,CAAC,CAAC,8BAAC,qBAAU,IAAC,KAAK,EAAC,OAAO,IAAE,GAAG,KAAK,EAAE,CAAc,CAAC,CAAC,CAAC,IAAI;QACnE,8BAAC,aAAa,IAAC,SAAS,EAAE,SAAS,EAAE,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,GAAI;QACzE,uCAAK,GAAG,EAAE,GAAG;YACX,8BAAC,mBAAS,IACR,MAAM,EAAE,MAAM,EACd,SAAS,EAAE,SAAS,EACpB,UAAU,EAAE,UAAU,GACtB;YACF,uCAAK,GAAG,EAAE,GAAG,EAAE,KAAK,EAAE,EAAE,MAAM,EAAE,GAAG,EAAE,KAAK,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,EAAE;gBACpE,8BAAC,sBAAQ,IACP,IAAI,EAAE,IAAI,EACV,OAAO,EAAE,OAAO,EAChB,uBAAuB,QACvB,SAAS,EAAE,EAAE,EACb,YAAY,EAAE,EAAE,EAChB,iBAAiB,SACjB,CACE,CACF,CACG,CACZ,CAAA;AACH,CAAC;AA9ED,iCA8EC"}
|
|
@@ -11,7 +11,9 @@ export default class VcfAdapter extends BaseFeatureDataAdapter {
|
|
|
11
11
|
getMetadata(): Promise<any>;
|
|
12
12
|
setupP(): Promise<{
|
|
13
13
|
header: string;
|
|
14
|
-
intervalTree:
|
|
14
|
+
intervalTree: {
|
|
15
|
+
[key: string]: IntervalTree<any>;
|
|
16
|
+
};
|
|
15
17
|
}>;
|
|
16
18
|
setup(): Promise<{
|
|
17
19
|
header: string;
|
|
@@ -51,22 +51,21 @@ class VcfAdapter extends BaseAdapter_1.BaseFeatureDataAdapter {
|
|
|
51
51
|
}
|
|
52
52
|
const str = new TextDecoder().decode(buffer);
|
|
53
53
|
const { header, lines } = readVcf(str);
|
|
54
|
-
const intervalTree =
|
|
55
|
-
|
|
54
|
+
const intervalTree = {};
|
|
55
|
+
for (const obj of lines.map((line, id) => {
|
|
56
56
|
var _a;
|
|
57
57
|
const [refName, startP, , ref, , , , info] = line.split('\t');
|
|
58
58
|
const start = +startP - 1;
|
|
59
|
-
const
|
|
59
|
+
const def = start + ref.length;
|
|
60
|
+
const end = +(((_a = info.match(/END=(\d+)/)) === null || _a === void 0 ? void 0 : _a[1].trim()) || def);
|
|
60
61
|
return { line, refName, start, end, id };
|
|
61
|
-
})
|
|
62
|
-
.reduce((acc, obj) => {
|
|
62
|
+
})) {
|
|
63
63
|
const key = obj.refName;
|
|
64
|
-
if (!
|
|
65
|
-
|
|
64
|
+
if (!intervalTree[key]) {
|
|
65
|
+
intervalTree[key] = new interval_tree_1.default();
|
|
66
66
|
}
|
|
67
|
-
|
|
68
|
-
|
|
69
|
-
}, {});
|
|
67
|
+
intervalTree[key].insert([obj.start, obj.end], obj);
|
|
68
|
+
}
|
|
70
69
|
return { header, intervalTree };
|
|
71
70
|
}
|
|
72
71
|
async setup() {
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"VcfAdapter.js","sourceRoot":"","sources":["../../src/VcfAdapter/VcfAdapter.ts"],"names":[],"mappings":";;;;;AAAA,yEAGgD;AAEhD,8CAAoD;AACpD,kDAA0D;AAC1D,8EAAoD;AACpD,2DAA6C;AAC7C,oDAA2B;AAE3B,QAAQ;AACR,+DAAsC;AAEtC,MAAM,OAAO,GAAG,CAAC,CAAS,EAAE,EAAE;IAC5B,MAAM,MAAM,GAAa,EAAE,CAAA;IAC3B,MAAM,IAAI,GAAa,EAAE,CAAA;IACzB,CAAC,CAAC,KAAK,CAAC,YAAY,CAAC;SAClB,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC;SAClB,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC;SAChB,OAAO,CAAC,IAAI,CAAC,EAAE;QACd,IAAI,IAAI,CAAC,UAAU,CAAC,GAAG,CAAC,EAAE;YACxB,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;SAClB;aAAM,IAAI,IAAI,EAAE;YACf,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;SAChB;IACH,CAAC,CAAC,CAAA;IACJ,OAAO,EAAE,MAAM,EAAE,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,KAAK,EAAE,IAAI,EAAE,CAAA;AACnD,CAAC,CAAA;AAED,SAAS,MAAM,CAAC,GAAW;IACzB,OAAO,GAAG,CAAC,CAAC,CAAC,KAAK,EAAE,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,CAAC,CAAA;AACxD,CAAC;AAED,MAAqB,UAAW,SAAQ,oCAAsB;IAQrD,KAAK,CAAC,SAAS;QACpB,MAAM,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,EAAE,CAAA;QACrC,OAAO,MAAM,CAAA;IACf,CAAC;IAED,KAAK,CAAC,WAAW;QACf,MAAM,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,EAAE,CAAA;QACrC,MAAM,MAAM,GAAG,IAAI,aAAG,CAAC,EAAE,MAAM,EAAE,MAAM,EAAE,CAAC,CAAA;QAC1C,OAAO,MAAM,CAAC,WAAW,EAAE,CAAA;IAC7B,CAAC;IAED,uCAAuC;IAChC,KAAK,CAAC,MAAM;QACjB,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,GAAG,GAAG,MAAM,IAAA,iBAAY,EAAC,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,EAAE,EAAE,CAAC,CAAC,QAAQ,EAAE,CAAA;QAE1E,MAAM,MAAM,GAAG,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,IAAA,uBAAK,EAAC,GAAG,CAAC,CAAC,CAAC,CAAC,GAAG,CAAA;QAEnD,2CAA2C;QAC3C,IAAI,MAAM,CAAC,MAAM,GAAG,SAAW,EAAE;YAC/B,MAAM,IAAI,KAAK,CAAC,4CAA4C,CAAC,CAAA;SAC9D;QAED,MAAM,GAAG,GAAG,IAAI,WAAW,EAAE,CAAC,MAAM,CAAC,MAAM,CAAC,CAAA;QAC5C,MAAM,EAAE,MAAM,EAAE,KAAK,EAAE,GAAG,OAAO,CAAC,GAAG,CAAC,CAAA;
|
|
1
|
+
{"version":3,"file":"VcfAdapter.js","sourceRoot":"","sources":["../../src/VcfAdapter/VcfAdapter.ts"],"names":[],"mappings":";;;;;AAAA,yEAGgD;AAEhD,8CAAoD;AACpD,kDAA0D;AAC1D,8EAAoD;AACpD,2DAA6C;AAC7C,oDAA2B;AAE3B,QAAQ;AACR,+DAAsC;AAEtC,MAAM,OAAO,GAAG,CAAC,CAAS,EAAE,EAAE;IAC5B,MAAM,MAAM,GAAa,EAAE,CAAA;IAC3B,MAAM,IAAI,GAAa,EAAE,CAAA;IACzB,CAAC,CAAC,KAAK,CAAC,YAAY,CAAC;SAClB,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC;SAClB,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC;SAChB,OAAO,CAAC,IAAI,CAAC,EAAE;QACd,IAAI,IAAI,CAAC,UAAU,CAAC,GAAG,CAAC,EAAE;YACxB,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;SAClB;aAAM,IAAI,IAAI,EAAE;YACf,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;SAChB;IACH,CAAC,CAAC,CAAA;IACJ,OAAO,EAAE,MAAM,EAAE,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,KAAK,EAAE,IAAI,EAAE,CAAA;AACnD,CAAC,CAAA;AAED,SAAS,MAAM,CAAC,GAAW;IACzB,OAAO,GAAG,CAAC,CAAC,CAAC,KAAK,EAAE,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,CAAC,CAAA;AACxD,CAAC;AAED,MAAqB,UAAW,SAAQ,oCAAsB;IAQrD,KAAK,CAAC,SAAS;QACpB,MAAM,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,EAAE,CAAA;QACrC,OAAO,MAAM,CAAA;IACf,CAAC;IAED,KAAK,CAAC,WAAW;QACf,MAAM,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,EAAE,CAAA;QACrC,MAAM,MAAM,GAAG,IAAI,aAAG,CAAC,EAAE,MAAM,EAAE,MAAM,EAAE,CAAC,CAAA;QAC1C,OAAO,MAAM,CAAC,WAAW,EAAE,CAAA;IAC7B,CAAC;IAED,uCAAuC;IAChC,KAAK,CAAC,MAAM;QACjB,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,GAAG,GAAG,MAAM,IAAA,iBAAY,EAAC,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,EAAE,EAAE,CAAC,CAAC,QAAQ,EAAE,CAAA;QAE1E,MAAM,MAAM,GAAG,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,IAAA,uBAAK,EAAC,GAAG,CAAC,CAAC,CAAC,CAAC,GAAG,CAAA;QAEnD,2CAA2C;QAC3C,IAAI,MAAM,CAAC,MAAM,GAAG,SAAW,EAAE;YAC/B,MAAM,IAAI,KAAK,CAAC,4CAA4C,CAAC,CAAA;SAC9D;QAED,MAAM,GAAG,GAAG,IAAI,WAAW,EAAE,CAAC,MAAM,CAAC,MAAM,CAAC,CAAA;QAC5C,MAAM,EAAE,MAAM,EAAE,KAAK,EAAE,GAAG,OAAO,CAAC,GAAG,CAAC,CAAA;QACtC,MAAM,YAAY,GAAG,EAAqC,CAAA;QAE1D,KAAK,MAAM,GAAG,IAAI,KAAK,CAAC,GAAG,CAAC,CAAC,IAAI,EAAE,EAAE,EAAE,EAAE;;YACvC,MAAM,CAAC,OAAO,EAAE,MAAM,EAAE,AAAD,EAAG,GAAG,EAAE,AAAD,EAAG,AAAD,EAAG,AAAD,EAAG,IAAI,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;YAC7D,MAAM,KAAK,GAAG,CAAC,MAAM,GAAG,CAAC,CAAA;YACzB,MAAM,GAAG,GAAG,KAAK,GAAG,GAAG,CAAC,MAAM,CAAA;YAC9B,MAAM,GAAG,GAAG,CAAC,CAAC,CAAA,MAAA,IAAI,CAAC,KAAK,CAAC,WAAW,CAAC,0CAAG,CAAC,EAAE,IAAI,EAAE,KAAI,GAAG,CAAC,CAAA;YACzD,OAAO,EAAE,IAAI,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,EAAE,EAAE,CAAA;QAC1C,CAAC,CAAC,EAAE;YACF,MAAM,GAAG,GAAG,GAAG,CAAC,OAAO,CAAA;YACvB,IAAI,CAAC,YAAY,CAAC,GAAG,CAAC,EAAE;gBACtB,YAAY,CAAC,GAAG,CAAC,GAAG,IAAI,uBAAY,EAAE,CAAA;aACvC;YACD,YAAY,CAAC,GAAG,CAAC,CAAC,MAAM,CAAC,CAAC,GAAG,CAAC,KAAK,EAAE,GAAG,CAAC,GAAG,CAAC,EAAE,GAAG,CAAC,CAAA;SACpD;QAED,OAAO,EAAE,MAAM,EAAE,YAAY,EAAE,CAAA;IACjC,CAAC;IAEM,KAAK,CAAC,KAAK;QAChB,IAAI,CAAC,IAAI,CAAC,WAAW,EAAE;YACrB,IAAI,CAAC,WAAW,GAAG,IAAI,CAAC,MAAM,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBACzC,IAAI,CAAC,WAAW,GAAG,SAAS,CAAA;gBAC5B,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,WAAW,CAAA;IACzB,CAAC;IAEM,KAAK,CAAC,WAAW,CAAC,IAAiB,EAAE;QAC1C,MAAM,EAAE,YAAY,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,EAAE,CAAA;QAC3C,OAAO,MAAM,CAAC,IAAI,CAAC,YAAY,CAAC,CAAA;IAClC,CAAC;IAEM,WAAW,CAAC,MAAc,EAAE,OAAoB,EAAE;QACvD,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;;YAChD,IAAI;gBACF,MAAM,EAAE,KAAK,EAAE,GAAG,EAAE,OAAO,EAAE,GAAG,MAAM,CAAA;gBACtC,MAAM,EAAE,MAAM,EAAE,YAAY,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,EAAE,CAAA;gBACnD,MAAM,MAAM,GAAG,IAAI,aAAG,CAAC,EAAE,MAAM,EAAE,CAAC,CAAA;gBAClC,MAAA,YAAY,CAAC,OAAO,CAAC,0CAAE,MAAM,CAAC,CAAC,KAAK,EAAE,GAAG,CAAC,EAAE,OAAO,CAAC,CAAC,CAAC,EAAE,CACtD,QAAQ,CAAC,IAAI,CACX,IAAI,oBAAU,CAAC;oBACb,OAAO,EAAE,MAAM,CAAC,SAAS,CAAC,CAAC,CAAC,IAAI,CAAC;oBACjC,MAAM;oBACN,EAAE,EAAE,GAAG,IAAI,CAAC,EAAE,IAAI,CAAC,CAAC,EAAE,EAAE;iBACzB,CAAC,CACH,CACF,CAAA;gBACD,QAAQ,CAAC,QAAQ,EAAE,CAAA;aACpB;YAAC,OAAO,CAAC,EAAE;gBACV,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;aAClB;QACH,CAAC,EAAE,IAAI,CAAC,MAAM,CAAC,CAAA;IACjB,CAAC;IAEM,aAAa,KAAU,CAAC;;AAzFjC,6BA0FC;AAzFe,uBAAY,GAAG,CAAC,aAAa,EAAE,aAAa,CAAC,CAAA"}
|
package/dist/VcfFeature/index.js
CHANGED
|
@@ -34,7 +34,7 @@ class VCFFeature {
|
|
|
34
34
|
const start = POS - 1;
|
|
35
35
|
const [type, description] = (0, util_1.getSOTermAndDescription)(REF, ALT, this.parser);
|
|
36
36
|
const isTRA = ALT === null || ALT === void 0 ? void 0 : ALT.some(f => f === '<TRA>');
|
|
37
|
-
const isSymbolic = ALT === null || ALT === void 0 ? void 0 : ALT.some(f => f.
|
|
37
|
+
const isSymbolic = ALT === null || ALT === void 0 ? void 0 : ALT.some(f => f.includes('<'));
|
|
38
38
|
return {
|
|
39
39
|
refName: CHROM,
|
|
40
40
|
start,
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/VcfFeature/index.ts"],"names":[],"mappings":";;AAGA,SAAS;AACT,iCAAgD;AAsBhD,MAAqB,UAAU;IAU7B,8DAA8D;IAC9D,YAAY,IAA+C;QACzD,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC,OAAO,CAAA;QAC3B,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,MAAM,CAAA;QACzB,IAAI,CAAC,IAAI,GAAG,IAAI,CAAC,eAAe,CAAC,IAAI,CAAC,OAAO,CAAC,CAAA;QAC9C,IAAI,CAAC,GAAG,GAAG,IAAI,CAAC,EAAE,CAAA;IACpB,CAAC;IAED,8DAA8D;IAC9D,GAAG,CAAC,KAAa;QACf,OAAO,KAAK,KAAK,SAAS;YACxB,CAAC,CAAC,IAAI,CAAC,OAAO,CAAC,OAAO;YACtB,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,IAAI,CAAC,OAAO,CAAC,KAAK,CAAC,CAAA;IAC7C,CAAC;IAED,GAAG,KAAI,CAAC;IAER,MAAM;QACJ,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,QAAQ;QACN,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,IAAI;QACF,OAAO,CAAC,GAAG,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,GAAG,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,OAAO,CAAC,EAAE,SAAS,CAAC,CAAA;IAC7E,CAAC;IAED,EAAE;QACA,OAAO,IAAI,CAAC,GAAG,CAAA;IACjB,CAAC;IAED,eAAe,CAAC,OAOf;QACC,MAAM,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,KAAK,EAAE,IAAI,EAAE,EAAE,EAAE,GAAG,OAAO,CAAA;QAClD,MAAM,KAAK,GAAG,GAAG,GAAG,CAAC,CAAA;QACrB,MAAM,CAAC,IAAI,EAAE,WAAW,CAAC,GAAG,IAAA,8BAAuB,EAAC,GAAG,EAAE,GAAG,EAAE,IAAI,CAAC,MAAM,CAAC,CAAA;QAC1E,MAAM,KAAK,GAAG,GAAG,aAAH,GAAG,uBAAH,GAAG,CAAE,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,KAAK,OAAO,CAAC,CAAA;QAC3C,MAAM,UAAU,GAAG,GAAG,aAAH,GAAG,uBAAH,GAAG,CAAE,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/VcfFeature/index.ts"],"names":[],"mappings":";;AAGA,SAAS;AACT,iCAAgD;AAsBhD,MAAqB,UAAU;IAU7B,8DAA8D;IAC9D,YAAY,IAA+C;QACzD,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC,OAAO,CAAA;QAC3B,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,MAAM,CAAA;QACzB,IAAI,CAAC,IAAI,GAAG,IAAI,CAAC,eAAe,CAAC,IAAI,CAAC,OAAO,CAAC,CAAA;QAC9C,IAAI,CAAC,GAAG,GAAG,IAAI,CAAC,EAAE,CAAA;IACpB,CAAC;IAED,8DAA8D;IAC9D,GAAG,CAAC,KAAa;QACf,OAAO,KAAK,KAAK,SAAS;YACxB,CAAC,CAAC,IAAI,CAAC,OAAO,CAAC,OAAO;YACtB,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,IAAI,CAAC,OAAO,CAAC,KAAK,CAAC,CAAA;IAC7C,CAAC;IAED,GAAG,KAAI,CAAC;IAER,MAAM;QACJ,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,QAAQ;QACN,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,IAAI;QACF,OAAO,CAAC,GAAG,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,GAAG,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,OAAO,CAAC,EAAE,SAAS,CAAC,CAAA;IAC7E,CAAC;IAED,EAAE;QACA,OAAO,IAAI,CAAC,GAAG,CAAA;IACjB,CAAC;IAED,eAAe,CAAC,OAOf;QACC,MAAM,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,KAAK,EAAE,IAAI,EAAE,EAAE,EAAE,GAAG,OAAO,CAAA;QAClD,MAAM,KAAK,GAAG,GAAG,GAAG,CAAC,CAAA;QACrB,MAAM,CAAC,IAAI,EAAE,WAAW,CAAC,GAAG,IAAA,8BAAuB,EAAC,GAAG,EAAE,GAAG,EAAE,IAAI,CAAC,MAAM,CAAC,CAAA;QAC1E,MAAM,KAAK,GAAG,GAAG,aAAH,GAAG,uBAAH,GAAG,CAAE,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,KAAK,OAAO,CAAC,CAAA;QAC3C,MAAM,UAAU,GAAG,GAAG,aAAH,GAAG,uBAAH,GAAG,CAAE,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAA;QAElD,OAAO;YACL,OAAO,EAAE,KAAK;YACd,KAAK;YACL,GAAG,EAAE,UAAU,IAAI,IAAI,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,GAAG,CAAC,MAAM;YACzE,WAAW;YACX,IAAI;YACJ,IAAI,EAAE,EAAE,aAAF,EAAE,uBAAF,EAAE,CAAE,IAAI,CAAC,GAAG,CAAC;YACnB,OAAO,EAAE,EAAE,IAAI,EAAE,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,SAAS;SAC/D,CAAA;IACH,CAAC;IAED,8DAA8D;IAC9D,MAAM;QACJ,OAAO;YACL,QAAQ,EAAE,IAAI,CAAC,GAAG;YAClB,GAAG,IAAI,CAAC,OAAO;YACf,GAAG,IAAI,CAAC,IAAI;YACZ,OAAO,EAAE,IAAI,CAAC,OAAO,CAAC,OAAO;SAC9B,CAAA;IACH,CAAC;CACF;AA7ED,6BA6EC"}
|
package/dist/VcfFeature/util.js
CHANGED
|
@@ -74,7 +74,7 @@ function getSOAndDescFromAltDefs(ref, alt, parser) {
|
|
|
74
74
|
// try to look for a definition for a parent term if we can
|
|
75
75
|
const modAlt = alt.split(':');
|
|
76
76
|
if (modAlt.length > 1) {
|
|
77
|
-
return getSOAndDescFromAltDefs(ref, `<${modAlt.slice(0,
|
|
77
|
+
return getSOAndDescFromAltDefs(ref, `<${modAlt.slice(0, -1).join(':')}>`, parser);
|
|
78
78
|
}
|
|
79
79
|
// no parent
|
|
80
80
|
return [];
|
|
@@ -107,12 +107,9 @@ function getSOAndDescByExamination(ref, alt) {
|
|
|
107
107
|
return ['sv', alt];
|
|
108
108
|
}
|
|
109
109
|
else if (ref.length === alt.length) {
|
|
110
|
-
|
|
111
|
-
|
|
112
|
-
|
|
113
|
-
else {
|
|
114
|
-
return ['substitution', makeDescriptionString('substitution', ref, alt)];
|
|
115
|
-
}
|
|
110
|
+
return ref.split('').reverse().join('') === alt
|
|
111
|
+
? ['inversion', makeDescriptionString('inversion', ref, alt)]
|
|
112
|
+
: ['substitution', makeDescriptionString('substitution', ref, alt)];
|
|
116
113
|
}
|
|
117
114
|
else if (ref.length <= alt.length) {
|
|
118
115
|
return ['insertion', makeDescriptionString('insertion', ref, alt)];
|
|
@@ -1 +1 @@
|
|
|
1
|
-
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|
|
1
|
+
{"version":3,"file":"util.js","sourceRoot":"","sources":["../../src/VcfFeature/util.ts"],"names":[],"mappings":";;;AAAA,mCAA8C;AAE9C,MAAM,WAAW,GAA0C;IACzD,GAAG,EAAE,UAAU;IACf,GAAG,EAAE,WAAW;IAChB,GAAG,EAAE,aAAa;IAClB,GAAG,EAAE,WAAW;IAChB,MAAM,EAAE,sBAAsB;IAC9B,GAAG,EAAE,uBAAuB;IAC5B,GAAG,EAAE,eAAe;IACpB,YAAY,EAAE,oBAAoB;IAClC,OAAO,EAAE,kBAAkB;IAC3B,GAAG,EAAE,kBAAkB;CACxB,CAAA;AAED;;GAEG;AACH,SAAgB,uBAAuB,CACrC,GAAW,EACX,GAAa,EACb,MAAW;IAEX,uDAAuD;IACvD,IAAI,CAAC,GAAG,IAAI,GAAG,CAAC,MAAM,KAAK,CAAC,EAAE;QAC5B,OAAO,CAAC,QAAQ,EAAE,wBAAwB,CAAC,CAAA;KAC5C;IAED,MAAM,OAAO,GAAG,IAAI,GAAG,EAAU,CAAA;IACjC,IAAI,YAAY,GAAG,IAAI,GAAG,EAAU,CAAA;IACpC,GAAG,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE;QACd,IAAI,CAAC,MAAM,EAAE,WAAW,CAAC,GAAG,uBAAuB,CAAC,GAAG,EAAE,CAAC,EAAE,MAAM,CAAC,CAAA;QACnE,IAAI,CAAC,MAAM,EAAE;YACX,CAAC;YAAA,CAAC,MAAM,EAAE,WAAW,CAAC,GAAG,yBAAyB,CAAC,GAAG,EAAE,CAAC,CAAC,CAAA;SAC3D;QACD,IAAI,MAAM,IAAI,WAAW,EAAE;YACzB,OAAO,CAAC,GAAG,CAAC,MAAM,CAAC,CAAA;YACnB,YAAY,CAAC,GAAG,CAAC,WAAW,CAAC,CAAA;SAC9B;IACH,CAAC,CAAC,CAAA;IAEF,6EAA6E;IAC7E,IAAI,YAAY,CAAC,IAAI,GAAG,CAAC,EAAE;QACzB,MAAM,KAAK,GAAG,CAAC,GAAG,YAAY,CAAC,CAAA;QAC/B,MAAM,QAAQ,GAAG,IAAI,GAAG,CACtB,KAAK,CAAC,GAAG,CAAC,IAAI,CAAC,EAAE;YACf,MAAM,MAAM,GAAG,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;YAC/B,OAAO,MAAM,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,CAAA;QACrC,CAAC,CAAC,CACH,CAAA;QAED,YAAY,GAAG,IAAI,GAAG,CACpB,CAAC,GAAG,QAAQ,CAAC,CAAC,GAAG,CAAC,MAAM,CAAC,EAAE;YACzB,MAAM,QAAQ,GAAG,KAAK;iBACnB,GAAG,CAAC,IAAI,CAAC,EAAE;gBACV,MAAM,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,CAAA;gBAC9B,OAAO,IAAI,CAAC,CAAC,CAAC,IAAI,IAAI,CAAC,CAAC,CAAC,KAAK,MAAM,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAA;YACrD,CAAC,CAAC;iBACD,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;YAEnB,OAAO,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAC,MAAM,GAAG,KAAK,GAAG,QAAQ,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,CAAA;QACvE,CAAC,CAAC,CACH,CAAA;KACF;IACD,IAAI,OAAO,CAAC,IAAI,EAAE;QAChB,OAAO,CAAC,CAAC,GAAG,OAAO,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,YAAY,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAA;KAC7D;IACD,OAAO,EAAE,CAAA;AACX,CAAC;AAlDD,0DAkDC;AAED,SAAgB,uBAAuB,CACrC,GAAW,EACX,GAAW,EACX,MAAW;IAEX,IAAI,OAAO,GAAG,KAAK,QAAQ,IAAI,CAAC,GAAG,CAAC,UAAU,CAAC,GAAG,CAAC,EAAE;QACnD,OAAO,EAAE,CAAA;KACV;IAED,iDAAiD;IACjD,IAAI,MAAM,GAAG,WAAW,CAAC,GAAG,CAAC,CAAA;IAC7B,gEAAgE;IAChE,IAAI,CAAC,MAAM,IAAI,MAAM,CAAC,WAAW,CAAC,KAAK,EAAE,GAAG,CAAC,EAAE;QAC7C,MAAM,GAAG,kBAAkB,CAAA;KAC5B;IACD,IAAI,MAAM,EAAE;QACV,OAAO,CAAC,MAAM,EAAE,GAAG,CAAC,CAAA;KACrB;IAED,2DAA2D;IAC3D,MAAM,MAAM,GAAG,GAAG,CAAC,KAAK,CAAC,GAAG,CAAC,CAAA;IAC7B,IAAI,MAAM,CAAC,MAAM,GAAG,CAAC,EAAE;QACrB,OAAO,uBAAuB,CAC5B,GAAG,EACH,IAAI,MAAM,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,GAAG,EACpC,MAAM,CACP,CAAA;KACF;IAED,YAAY;IACZ,OAAO,EAAE,CAAA;AACX,CAAC;AA/BD,0DA+BC;AAED,0EAA0E;AAC1E,yEAAyE;AACzE,OAAO;AACP,SAAgB,yBAAyB,CAAC,GAAW,EAAE,GAAW;IAChE,MAAM,GAAG,GAAG,IAAA,mBAAa,EAAC,GAAG,CAAC,CAAA;IAC9B,IAAI,GAAG,EAAE;QACP,OAAO,CAAC,UAAU,EAAE,GAAG,CAAC,CAAA;KACzB;SAAM,IAAI,GAAG,CAAC,MAAM,KAAK,CAAC,IAAI,GAAG,CAAC,MAAM,KAAK,CAAC,EAAE;QAC/C,OAAO,CAAC,KAAK,EAAE,qBAAqB,CAAC,KAAK,EAAE,GAAG,EAAE,GAAG,CAAC,CAAC,CAAA;KACvD;SAAM,IAAI,GAAG,KAAK,OAAO,EAAE;QAC1B,OAAO,CAAC,WAAW,EAAE,GAAG,CAAC,CAAA;KAC1B;SAAM,IAAI,GAAG,KAAK,OAAO,EAAE;QAC1B,OAAO,CAAC,UAAU,EAAE,GAAG,CAAC,CAAA;KACzB;SAAM,IAAI,GAAG,KAAK,OAAO,EAAE;QAC1B,OAAO,CAAC,UAAU,EAAE,GAAG,CAAC,CAAA;KACzB;SAAM,IAAI,GAAG,KAAK,OAAO,EAAE;QAC1B,OAAO,CAAC,eAAe,EAAE,GAAG,CAAC,CAAA;KAC9B;SAAM,IAAI,GAAG,CAAC,QAAQ,CAAC,GAAG,CAAC,EAAE;QAC5B,OAAO,CAAC,IAAI,EAAE,GAAG,CAAC,CAAA;KACnB;SAAM,IAAI,GAAG,CAAC,MAAM,KAAK,GAAG,CAAC,MAAM,EAAE;QACpC,OAAO,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC,KAAK,GAAG;YAC7C,CAAC,CAAC,CAAC,WAAW,EAAE,qBAAqB,CAAC,WAAW,EAAE,GAAG,EAAE,GAAG,CAAC,CAAC;YAC7D,CAAC,CAAC,CAAC,cAAc,EAAE,qBAAqB,CAAC,cAAc,EAAE,GAAG,EAAE,GAAG,CAAC,CAAC,CAAA;KACtE;SAAM,IAAI,GAAG,CAAC,MAAM,IAAI,GAAG,CAAC,MAAM,EAAE;QACnC,OAAO,CAAC,WAAW,EAAE,qBAAqB,CAAC,WAAW,EAAE,GAAG,EAAE,GAAG,CAAC,CAAC,CAAA;KACnE;SAAM,IAAI,GAAG,CAAC,MAAM,GAAG,GAAG,CAAC,MAAM,EAAE;QAClC,OAAO,CAAC,UAAU,EAAE,qBAAqB,CAAC,UAAU,EAAE,GAAG,EAAE,GAAG,CAAC,CAAC,CAAA;KACjE;IAED,OAAO,CAAC,OAAO,EAAE,qBAAqB,CAAC,OAAO,EAAE,GAAG,EAAE,GAAG,CAAC,CAAC,CAAA;AAC5D,CAAC;AA3BD,8DA2BC;AAED,SAAS,qBAAqB,CAAC,MAAc,EAAE,GAAW,EAAE,GAAW;IACrE,OAAO,GAAG,MAAM,IAAI,GAAG,OAAO,GAAG,EAAE,CAAA;AACrC,CAAC"}
|
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@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"VcfTabixAdapter.js","sourceRoot":"","sources":["../../src/VcfTabixAdapter/VcfTabixAdapter.ts"],"names":[],"mappings":";;;;;AAAA,yEAGgD;AAEhD,8CAAoD;AACpD,kDAA0D;AAE1D,uCAA8C;AAC9C,oDAAiC;AAEjC,QAAQ;AACR,+DAAsC;AAEtC,eAAqB,SAAQ,oCAAsB;IAMzC,KAAK,CAAC,YAAY;QACxB,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,aAAa,GAAG,IAAI,CAAC,OAAO,CAAC,eAAe,CAAC,CAAA;QACnD,MAAM,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,UAAU,CAAC,CAAC,CAAA;QACpD,MAAM,SAAS,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,WAAW,CAAC,CAAC,CAAA;QAEtD,MAAM,UAAU,GAAG,IAAA,iBAAY,EAAC,
|
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1
|
+
{"version":3,"file":"VcfTabixAdapter.js","sourceRoot":"","sources":["../../src/VcfTabixAdapter/VcfTabixAdapter.ts"],"names":[],"mappings":";;;;;AAAA,yEAGgD;AAEhD,8CAAoD;AACpD,kDAA0D;AAE1D,uCAA8C;AAC9C,oDAAiC;AAEjC,QAAQ;AACR,+DAAsC;AAEtC,eAAqB,SAAQ,oCAAsB;IAMzC,KAAK,CAAC,YAAY;QACxB,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,aAAa,GAAG,IAAI,CAAC,OAAO,CAAC,eAAe,CAAC,CAAA;QACnD,MAAM,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,UAAU,CAAC,CAAC,CAAA;QACpD,MAAM,SAAS,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,WAAW,CAAC,CAAC,CAAA;QAEtD,MAAM,UAAU,GAAG,IAAA,iBAAY,EAAC,aAAa,EAAE,EAAE,CAAC,CAAA;QAClD,MAAM,KAAK,GAAG,SAAS,KAAK,KAAK,CAAA;QACjC,MAAM,GAAG,GAAG,IAAI,wBAAgB,CAAC;YAC/B,UAAU;YACV,aAAa,EAAE,KAAK,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,QAAQ,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YAC7D,aAAa,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,QAAQ,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YAC9D,cAAc,EAAE,EAAE,GAAG,CAAC,IAAI,EAAE;YAC5B,cAAc,EAAE,UAAU;SAC3B,CAAC,CAAA;QAEF,MAAM,MAAM,GAAG,MAAM,GAAG,CAAC,SAAS,EAAE,CAAA;QACpC,OAAO;YACL,GAAG;YACH,MAAM,EAAE,IAAI,aAAS,CAAC,EAAE,MAAM,EAAE,CAAC;SAClC,CAAA;IACH,CAAC;IAES,KAAK,CAAC,SAAS;QACvB,IAAI,CAAC,IAAI,CAAC,UAAU,EAAE;YACpB,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,YAAY,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC9C,IAAI,CAAC,UAAU,GAAG,SAAS,CAAA;gBAC3B,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,UAAU,CAAA;IACxB,CAAC;IAEM,KAAK,CAAC,WAAW,CAAC,OAAoB,EAAE;QAC7C,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,OAAO,GAAG,CAAC,yBAAyB,CAAC,IAAI,CAAC,CAAA;IAC5C,CAAC;IAED,KAAK,CAAC,SAAS;QACb,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,OAAO,GAAG,CAAC,SAAS,EAAE,CAAA;IACxB,CAAC;IAED,KAAK,CAAC,WAAW;QACf,MAAM,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACzC,OAAO,MAAM,CAAC,WAAW,EAAE,CAAA;IAC7B,CAAC;IAEM,WAAW,CAAC,KAAuB,EAAE,OAAoB,EAAE;QAChE,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,GAAG,KAAK,CAAA;YACrC,MAAM,EAAE,GAAG,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;YAC9C,MAAM,GAAG,CAAC,QAAQ,CAAC,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE;gBACtC,YAAY,EAAE,CAAC,IAAI,EAAE,UAAU,EAAE,EAAE;oBACjC,QAAQ,CAAC,IAAI,CACX,IAAI,oBAAU,CAAC;wBACb,OAAO,EAAE,MAAM,CAAC,SAAS,CAAC,IAAI,CAAC;wBAC/B,MAAM;wBACN,EAAE,EAAE,GAAG,IAAI,CAAC,EAAE,QAAQ,UAAU,EAAE;qBACnC,CAAC,CACH,CAAA;gBACH,CAAC;gBACD,GAAG,IAAI;aACR,CAAC,CAAA;YACF,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,EAAE,IAAI,CAAC,MAAM,CAAC,CAAA;IACjB,CAAC;IAEM,aAAa,EAAC,gBAAgB,IAAS,CAAC;CAChD;AA3ED,4BA2EC"}
|
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@@ -1,5 +1,6 @@
|
|
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1
1
|
import { BaseChordDisplayComponent } from '@jbrowse/plugin-circular-view';
|
|
2
2
|
import DisplayType from '@jbrowse/core/pluggableElementTypes/DisplayType';
|
|
3
|
+
// locals
|
|
3
4
|
import configSchemaF from './models/configSchema';
|
|
4
5
|
import stateModelF from './models/stateModelFactory';
|
|
5
6
|
export default (pluginManager) => {
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/ChordVariantDisplay/index.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,yBAAyB,EAAE,MAAM,+BAA+B,CAAA;AACzE,OAAO,WAAW,MAAM,iDAAiD,CAAA;
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/ChordVariantDisplay/index.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,yBAAyB,EAAE,MAAM,+BAA+B,CAAA;AACzE,OAAO,WAAW,MAAM,iDAAiD,CAAA;AAEzE,SAAS;AACT,OAAO,aAAa,MAAM,uBAAuB,CAAA;AACjD,OAAO,WAAW,MAAM,4BAA4B,CAAA;AAEpD,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAAC,GAAG,EAAE;QAChC,MAAM,YAAY,GAAG,aAAa,CAAC,aAAa,CAAC,CAAA;QACjD,MAAM,UAAU,GAAG,WAAW,CAAC,YAAY,CAAC,CAAA;QAC5C,OAAO,IAAI,WAAW,CAAC;YACrB,IAAI,EAAE,qBAAqB;YAC3B,WAAW,EAAE,uBAAuB;YACpC,YAAY;YACZ,UAAU;YACV,SAAS,EAAE,cAAc;YACzB,QAAQ,EAAE,cAAc;YACxB,cAAc,EAAE,yBAAyB;SAC1C,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC,CAAA"}
|
|
@@ -1,5 +1,6 @@
|
|
|
1
1
|
/// <reference types="react" />
|
|
2
2
|
import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
|
|
3
|
+
import { Feature } from '@jbrowse/core/util';
|
|
3
4
|
/**
|
|
4
5
|
* #stateModel ChordVariantDisplay
|
|
5
6
|
* extends `BaseChordDisplay`
|
|
@@ -22,7 +23,9 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
|
|
|
22
23
|
configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
|
|
23
24
|
}, {
|
|
24
25
|
rendererTypeName: string;
|
|
25
|
-
error: unknown;
|
|
26
|
+
error: unknown; /**
|
|
27
|
+
* #property
|
|
28
|
+
*/
|
|
26
29
|
} & {
|
|
27
30
|
readonly RenderingComponent: import("react").FC<{
|
|
28
31
|
model: {
|
|
@@ -81,7 +84,7 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
|
|
|
81
84
|
renderingComponent: import("@jbrowse/core/util").AnyReactComponentType | undefined;
|
|
82
85
|
refNameMap: Record<string, string> | undefined;
|
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|
} & {
|
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84
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-
onChordClick(feature:
|
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87
|
+
onChordClick(feature: Feature): void;
|
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85
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} & {
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86
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|
readonly blockDefinitions: import("@jbrowse/plugin-circular-view/src/CircularView/models/slices").Slice[];
|
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|
renderProps(): any;
|
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@@ -101,6 +104,10 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
|
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|
setRefNameMap(refNameMap: Record<string, string>): void;
|
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|
} & {
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|
afterAttach(): void;
|
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+
} & {
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|
+
renderSvg(opts: import("@jbrowse/plugin-circular-view/src/CircularView/models/CircularView").ExportSvgOptions & {
|
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|
+
theme: import("@mui/material").ThemeOptions;
|
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|
+
}): Promise<JSX.Element>;
|
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111
|
} & {
|
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105
112
|
/**
|
|
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|
* #getter
|
|
@@ -39,7 +39,7 @@ const stateModelFactory = (configSchema) => {
|
|
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39
39
|
radius: view.radiusPx,
|
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40
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blockDefinitions: self.blockDefinitions,
|
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41
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|
config: self.configuration.renderer,
|
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42
|
-
onChordClick: self.onChordClick,
|
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42
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+
onChordClick: (arg) => self.onChordClick(arg),
|
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};
|
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|
},
|
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|
}));
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"stateModelFactory.js","sourceRoot":"","sources":["../../../src/ChordVariantDisplay/models/stateModelFactory.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,qBAAqB,EAAE,MAAM,+BAA+B,CAAA;AACrE,OAAO,EAEL,sBAAsB,GACvB,MAAM,6BAA6B,CAAA;AACpC,OAAO,EAAE,KAAK,EAAE,MAAM,iBAAiB,CAAA;AACvC,OAAO,
|
|
1
|
+
{"version":3,"file":"stateModelFactory.js","sourceRoot":"","sources":["../../../src/ChordVariantDisplay/models/stateModelFactory.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,qBAAqB,EAAE,MAAM,+BAA+B,CAAA;AACrE,OAAO,EAEL,sBAAsB,GACvB,MAAM,6BAA6B,CAAA;AACpC,OAAO,EAAE,KAAK,EAAE,MAAM,iBAAiB,CAAA;AACvC,OAAO,EAAW,iBAAiB,EAAE,MAAM,oBAAoB,CAAA;AAC/D,OAAO,EAAE,oBAAoB,EAAE,MAAM,2BAA2B,CAAA;AAEhE;;;GAGG;AACH,MAAM,iBAAiB,GAAG,CAAC,YAAwC,EAAE,EAAE;IACrE,OAAO,KAAK;SACT,OAAO,CACN,qBAAqB,EACrB,qBAAqB,EACrB,KAAK,CAAC,KAAK,CAAC;QACV;;WAEG;QACH,IAAI,EAAE,KAAK,CAAC,OAAO,CAAC,qBAAqB,CAAC;QAC1C;;WAEG;QACH,aAAa,EAAE,sBAAsB,CAAC,YAAY,CAAC;KACpD,CAAC,CACH;SACA,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,gBAAgB;YAClB,OAAO,IAAI,CAAC,aAAa,CAAC,QAAQ,CAAC,IAAI,CAAA;QACzC,CAAC;QAED;;WAEG;QACH,WAAW;YACT,MAAM,IAAI,GAAG,iBAAiB,CAAC,IAAI,CAAC,CAAA;YACpC,OAAO;gBACL,GAAG,oBAAoB,CAAC,IAAI,CAAC;gBAC7B,aAAa,EAAE,IAAI,CAAC,aAAa;gBACjC,YAAY,EAAE,IAAI;gBAClB,YAAY,EAAE,IAAI,CAAC,QAAQ,GAAG,IAAI,CAAC,iBAAiB;gBACpD,MAAM,EAAE,IAAI,CAAC,QAAQ;gBACrB,gBAAgB,EAAE,IAAI,CAAC,gBAAgB;gBACvC,MAAM,EAAE,IAAI,CAAC,aAAa,CAAC,QAAQ;gBACnC,YAAY,EAAE,CAAC,GAAY,EAAE,EAAE,CAAC,IAAI,CAAC,YAAY,CAAC,GAAG,CAAC;aACvD,CAAA;QACH,CAAC;KACF,CAAC,CAAC,CAAA;AACP,CAAC,CAAA;AAED,0EAA0E;AAE1E,wDAAwD;AAExD,2BAA2B;AAC3B,EAAE;AACF,eAAe,iBAAiB,CAAA"}
|
|
@@ -11,7 +11,7 @@ export default function stateModelFactory(configSchema: LinearVariantDisplayConf
|
|
|
11
11
|
type: import("mobx-state-tree").ISimpleType<string>;
|
|
12
12
|
rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
|
|
13
13
|
} & {
|
|
14
|
-
|
|
14
|
+
heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
|
|
15
15
|
blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
|
|
16
16
|
key: import("mobx-state-tree").ISimpleType<string>;
|
|
17
17
|
region: import("mobx-state-tree").IModelType<{
|
|
@@ -137,6 +137,7 @@ export default function stateModelFactory(configSchema: LinearVariantDisplayConf
|
|
|
137
137
|
estimatedRegionStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
|
|
138
138
|
estimatedRegionStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
|
|
139
139
|
} & {
|
|
140
|
+
readonly height: number;
|
|
140
141
|
readonly blockType: "dynamicBlocks" | "staticBlocks";
|
|
141
142
|
readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
|
|
142
143
|
} & {
|
|
@@ -199,6 +200,7 @@ export default function stateModelFactory(configSchema: LinearVariantDisplayConf
|
|
|
199
200
|
} & {
|
|
200
201
|
renderSvg(opts: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions & {
|
|
201
202
|
overrideHeight: number;
|
|
203
|
+
theme: import("@mui/material").ThemeOptions;
|
|
202
204
|
}): Promise<JSX.Element>;
|
|
203
205
|
} & {
|
|
204
206
|
readonly rendererTypeName: any;
|
|
@@ -2,7 +2,7 @@
|
|
|
2
2
|
import { Feature } from '@jbrowse/core/util';
|
|
3
3
|
import { AnyConfigurationModel } from '@jbrowse/core/configuration';
|
|
4
4
|
import { Block, AnyRegion } from './Chord';
|
|
5
|
-
declare
|
|
5
|
+
declare const _default: ({ features, config, displayModel, blockDefinitions, radius, bezierRadius, displayModel: { selectedFeatureId }, onChordClick, }: {
|
|
6
6
|
features: Map<string, Feature>;
|
|
7
7
|
radius: number;
|
|
8
8
|
config: AnyConfigurationModel;
|
|
@@ -13,6 +13,5 @@ declare function StructuralVariantChords(props: {
|
|
|
13
13
|
blockDefinitions: Block[];
|
|
14
14
|
bezierRadius: number;
|
|
15
15
|
onChordClick: (feature: Feature, reg: AnyRegion, endBlock: AnyRegion, evt: unknown) => void;
|
|
16
|
-
})
|
|
17
|
-
declare const _default: typeof StructuralVariantChords;
|
|
16
|
+
}) => JSX.Element;
|
|
18
17
|
export default _default;
|
|
@@ -2,8 +2,7 @@ import React, { useMemo } from 'react';
|
|
|
2
2
|
import { observer } from 'mobx-react';
|
|
3
3
|
// locals
|
|
4
4
|
import Chord from './Chord';
|
|
5
|
-
function StructuralVariantChords(
|
|
6
|
-
const { features, config, displayModel, blockDefinitions, radius, bezierRadius, displayModel: { selectedFeatureId }, onChordClick, } = props;
|
|
5
|
+
export default observer(function StructuralVariantChords({ features, config, displayModel, blockDefinitions, radius, bezierRadius, displayModel: { selectedFeatureId }, onChordClick, }) {
|
|
7
6
|
// make a map of refName -> blockDefinition
|
|
8
7
|
const blocksForRefsMemo = useMemo(() => {
|
|
9
8
|
const blocksForRefs = {};
|
|
@@ -19,7 +18,7 @@ function StructuralVariantChords(props) {
|
|
|
19
18
|
const selected = String(selectedFeatureId) === String(id);
|
|
20
19
|
chords.push(React.createElement(Chord, { key: id, feature: feature, config: config, radius: radius, bezierRadius: bezierRadius, blocksForRefs: blocksForRefsMemo, selected: selected, onClick: onChordClick }));
|
|
21
20
|
}
|
|
22
|
-
const trackStyleId = `chords-${displayModel.id}`;
|
|
21
|
+
const trackStyleId = `chords-${typeof jest !== 'undefined' ? 'test' : displayModel.id}`;
|
|
23
22
|
return (React.createElement("g", { id: trackStyleId, "data-testid": "structuralVariantChordRenderer" },
|
|
24
23
|
React.createElement("style", {
|
|
25
24
|
// eslint-disable-next-line react/no-danger
|
|
@@ -32,6 +31,5 @@ function StructuralVariantChords(props) {
|
|
|
32
31
|
`,
|
|
33
32
|
} }),
|
|
34
33
|
chords));
|
|
35
|
-
}
|
|
36
|
-
export default observer(StructuralVariantChords);
|
|
34
|
+
});
|
|
37
35
|
//# sourceMappingURL=ReactComponent.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"ReactComponent.js","sourceRoot":"","sources":["../../src/StructuralVariantChordRenderer/ReactComponent.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,OAAO,EAAE,MAAM,OAAO,CAAA;AACtC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAIrC,SAAS;AACT,OAAO,KAA2B,MAAM,SAAS,CAAA;AAEjD,SAAS,uBAAuB,CAAC,
|
|
1
|
+
{"version":3,"file":"ReactComponent.js","sourceRoot":"","sources":["../../src/StructuralVariantChordRenderer/ReactComponent.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,OAAO,EAAE,MAAM,OAAO,CAAA;AACtC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAIrC,SAAS;AACT,OAAO,KAA2B,MAAM,SAAS,CAAA;AAEjD,eAAe,QAAQ,CAAC,SAAS,uBAAuB,CAAC,EACvD,QAAQ,EACR,MAAM,EACN,YAAY,EACZ,gBAAgB,EAChB,MAAM,EACN,YAAY,EACZ,YAAY,EAAE,EAAE,iBAAiB,EAAE,EACnC,YAAY,GAcb;IACC,2CAA2C;IAC3C,MAAM,iBAAiB,GAAG,OAAO,CAAC,GAAG,EAAE;QACrC,MAAM,aAAa,GAAG,EAA8B,CAAA;QACpD,gBAAgB,CAAC,OAAO,CAAC,KAAK,CAAC,EAAE;YAC/B,CAAC;YAAA,CAAC,KAAK,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,CAAC,KAAK,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC,CAAC,OAAO,CACpE,CAAC,CAAC,EAAE,CAAC,CAAC,aAAa,CAAC,CAAC,CAAC,OAAO,CAAC,GAAG,KAAK,CAAC,CACxC,CAAA;QACH,CAAC,CAAC,CAAA;QACF,OAAO,aAAa,CAAA;IACtB,CAAC,EAAE,CAAC,gBAAgB,CAAC,CAAC,CAAA;IACtB,MAAM,MAAM,GAAG,EAAE,CAAA;IACjB,KAAK,MAAM,OAAO,IAAI,QAAQ,CAAC,MAAM,EAAE,EAAE;QACvC,MAAM,EAAE,GAAG,OAAO,CAAC,EAAE,EAAE,CAAA;QACvB,MAAM,QAAQ,GAAG,MAAM,CAAC,iBAAiB,CAAC,KAAK,MAAM,CAAC,EAAE,CAAC,CAAA;QACzD,MAAM,CAAC,IAAI,CACT,oBAAC,KAAK,IACJ,GAAG,EAAE,EAAE,EACP,OAAO,EAAE,OAAO,EAChB,MAAM,EAAE,MAAM,EACd,MAAM,EAAE,MAAM,EACd,YAAY,EAAE,YAAY,EAC1B,aAAa,EAAE,iBAAiB,EAChC,QAAQ,EAAE,QAAQ,EAClB,OAAO,EAAE,YAAY,GACrB,CACH,CAAA;KACF;IACD,MAAM,YAAY,GAAG,UACnB,OAAO,IAAI,KAAK,WAAW,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,YAAY,CAAC,EACtD,EAAE,CAAA;IACF,OAAO,CACL,2BAAG,EAAE,EAAE,YAAY,iBAAc,gCAAgC;QAC/D;YACE,2CAA2C;YAC3C,uBAAuB,EAAE;gBACvB,MAAM,EAAE;aACL,YAAY;;;;CAIxB;aACQ,GACD;QACD,MAAM,CACL,CACL,CAAA;AACH,CAAC,CAAC,CAAA"}
|
|
@@ -27,17 +27,18 @@ function BreakendOptionDialog({ model, handleClose, feature, viewType, }) {
|
|
|
27
27
|
try {
|
|
28
28
|
const viewSnapshot = viewType.snapshotFromBreakendFeature(feature, view);
|
|
29
29
|
function remapIds(arr) {
|
|
30
|
-
return arr.map(
|
|
30
|
+
return arr.map(v => ({
|
|
31
31
|
...v,
|
|
32
|
-
id: v.trackId
|
|
32
|
+
id: `${v.trackId}-${Math.random()}`,
|
|
33
33
|
}));
|
|
34
34
|
}
|
|
35
35
|
viewSnapshot.views[0].offsetPx -= view.width / 2 + 100;
|
|
36
36
|
viewSnapshot.views[1].offsetPx -= view.width / 2 + 100;
|
|
37
37
|
viewSnapshot.featureData = feature;
|
|
38
|
+
// eslint-disable-next-line @typescript-eslint/no-unnecessary-type-assertion
|
|
38
39
|
const viewTracks = getSnapshot(view.tracks);
|
|
39
40
|
viewSnapshot.views[0].tracks = remapIds(viewTracks);
|
|
40
|
-
viewSnapshot.views[1].tracks = remapIds(mirrorTracks ? viewTracks.
|
|
41
|
+
viewSnapshot.views[1].tracks = remapIds(mirrorTracks ? [...viewTracks].reverse() : viewTracks);
|
|
41
42
|
session.addView('BreakpointSplitView', viewSnapshot);
|
|
42
43
|
}
|
|
43
44
|
catch (e) {
|