jbrowse-plugin-gwas 2.1.2 → 2.1.4
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/GWASAdapter/index.js +1 -1
- package/dist/GWASAdapter/index.js.map +1 -1
- package/dist/GWASAddTrackComponent/index.js.map +1 -1
- package/dist/GWASTrack/configSchema.d.ts +16 -11
- package/dist/GuessAdapter/index.js +4 -7
- package/dist/GuessAdapter/index.js.map +1 -1
- package/dist/LinearManhattanDisplay/components/AddFiltersDialog.js +6 -10
- package/dist/LinearManhattanDisplay/components/AddFiltersDialog.js.map +1 -1
- package/dist/LinearManhattanDisplay/components/TooltipComponent.d.ts +2 -5
- package/dist/LinearManhattanDisplay/components/TooltipComponent.js.map +1 -1
- package/dist/LinearManhattanDisplay/configSchemaFactory.d.ts +6 -38
- package/dist/LinearManhattanDisplay/configSchemaFactory.js +1 -6
- package/dist/LinearManhattanDisplay/configSchemaFactory.js.map +1 -1
- package/dist/LinearManhattanDisplay/jexlMouseover.js +1 -1
- package/dist/LinearManhattanDisplay/jexlMouseover.js.map +1 -1
- package/dist/LinearManhattanDisplay/stateModelFactory.d.ts +1076 -142
- package/dist/LinearManhattanDisplay/stateModelFactory.js +3 -16
- package/dist/LinearManhattanDisplay/stateModelFactory.js.map +1 -1
- package/dist/LinearManhattanRenderer/LinearManhattanRenderer.d.ts +114 -68
- package/dist/LinearManhattanRenderer/LinearManhattanRenderer.js +145 -78
- package/dist/LinearManhattanRenderer/LinearManhattanRenderer.js.map +1 -1
- package/dist/LinearManhattanRenderer/LinearManhattanRendering.d.ts +13 -12
- package/dist/LinearManhattanRenderer/LinearManhattanRendering.js +12 -19
- package/dist/LinearManhattanRenderer/LinearManhattanRendering.js.map +1 -1
- package/dist/LinearManhattanRenderer/configSchema.d.ts +2 -2
- package/dist/LinearManhattanRenderer/index.js +7 -11
- package/dist/LinearManhattanRenderer/index.js.map +1 -1
- package/dist/jbrowse-plugin-gwas.umd.production.min.js +4 -86
- package/dist/jbrowse-plugin-gwas.umd.production.min.js.map +4 -4
- package/package.json +23 -23
- package/src/GWASAdapter/index.ts +1 -1
- package/src/GWASAddTrackComponent/index.tsx +1 -3
- package/src/GuessAdapter/index.ts +10 -14
- package/src/LinearManhattanDisplay/components/AddFiltersDialog.tsx +6 -11
- package/src/LinearManhattanDisplay/components/TooltipComponent.tsx +2 -6
- package/src/LinearManhattanDisplay/configSchemaFactory.ts +1 -7
- package/src/LinearManhattanDisplay/jexlMouseover.ts +1 -1
- package/src/LinearManhattanDisplay/stateModelFactory.ts +3 -17
- package/src/LinearManhattanRenderer/LinearManhattanRenderer.ts +216 -113
- package/src/LinearManhattanRenderer/LinearManhattanRendering.tsx +31 -36
- package/src/LinearManhattanRenderer/index.ts +10 -11
- package/dist/out.js +0 -46782
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@@ -1,5 +1,5 @@
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1
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-
import AdapterType from '@jbrowse/core/pluggableElementTypes/AdapterType';
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import { ConfigurationSchema } from '@jbrowse/core/configuration';
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import AdapterType from '@jbrowse/core/pluggableElementTypes/AdapterType';
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export default function GWASAdapterF(pluginManager) {
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pluginManager.addAdapterType(() => {
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const res = pluginManager.getAdapterType('BedTabixAdapter');
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@@ -1 +1 @@
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-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/GWASAdapter/index.ts"],"names":[],"mappings":"AAAA,OAAO,
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+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/GWASAdapter/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE,OAAO,WAAW,MAAM,iDAAiD,CAAA;AAIzE,MAAM,CAAC,OAAO,UAAU,YAAY,CAAC,aAA4B;IAC/D,aAAa,CAAC,cAAc,CAAC,GAAG,EAAE;QAChC,MAAM,GAAG,GAAG,aAAa,CAAC,cAAc,CAAC,iBAAiB,CAAE,CAAA;QAC5D,MAAM,YAAY,GAAG,mBAAmB,CACtC,aAAa,EACb,EAAE,EACF,EAAE,iBAAiB,EAAE,GAAG,CAAC,YAAY,EAAE,eAAe,EAAE,IAAI,EAAE,CAC/D,CAAA;QACD,OAAO,IAAI,WAAW,CAAC;YACrB,IAAI,EAAE,aAAa;YACnB,WAAW,EAAE,cAAc;YAC3B,YAAY;YACZ,eAAe,EAAE,GAAG,CAAC,eAAe;SACrC,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC"}
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/GWASAddTrackComponent/index.tsx"],"names":[],"mappings":"AAAA,OAAO,EAAE,IAAI,EAAE,MAAM,OAAO,CAAA;AAI5B,MAAM,qBAAqB,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,yBAAyB,CAAC,CAAC,CAAA;AAE3E,MAAM,CAAC,OAAO,UAAU,sBAAsB,
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/GWASAddTrackComponent/index.tsx"],"names":[],"mappings":"AAAA,OAAO,EAAE,IAAI,EAAE,MAAM,OAAO,CAAA;AAI5B,MAAM,qBAAqB,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,yBAAyB,CAAC,CAAC,CAAA;AAE3E,MAAM,CAAC,OAAO,UAAU,sBAAsB,CAAC,aAA4B;IACzE,aAAa,CAAC,mBAAmB,CAC/B,wBAAwB;IACxB,mBAAmB;IACnB,CAAC,IAAI,EAAE,EAAE,KAAK,EAAgC,EAAE,EAAE;QAChD,OAAO,KAAK,CAAC,gBAAgB,KAAK,aAAa;YAC7C,CAAC,CAAC,qBAAqB;YACvB,CAAC,CAAC,IAAI,CAAA;IACV,CAAC,CACF,CAAA;AACH,CAAC"}
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@@ -4,7 +4,7 @@ import type PluginManager from '@jbrowse/core/PluginManager';
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* #category track
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* used for GWAS (Genome-Wide Association Study) tracks with Manhattan plot display
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*/
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export default function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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export default function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaType<{}, import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaType<{
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name: {
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description: string;
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type: string;
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@@ -30,8 +30,13 @@ export default function configSchemaFactory(pluginManager: PluginManager): impor
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description: string;
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defaultValue: {};
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};
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-
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rpcDriverName: {
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type: string;
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description: string;
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defaultValue: string;
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};
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adapter: import("@jbrowse/mobx-state-tree").IAnyModelType;
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textSearching: import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaType<{
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indexingAttributes: {
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type: string;
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description: string;
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@@ -42,10 +47,10 @@ export default function configSchemaFactory(pluginManager: PluginManager): impor
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description: string;
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defaultValue: string[];
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};
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textSearchAdapter: import("mobx-state-tree").IAnyModelType;
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}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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displays: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
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formatDetails: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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textSearchAdapter: import("@jbrowse/mobx-state-tree").IAnyModelType;
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}, import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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displays: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyModelType>;
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formatDetails: import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaType<{
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feature: {
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type: string;
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description: string;
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@@ -68,8 +73,8 @@ export default function configSchemaFactory(pluginManager: PluginManager): impor
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defaultValue: number;
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description: string;
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};
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}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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formatAbout: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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}, import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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formatAbout: import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaType<{
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config: {
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type: string;
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description: string;
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@@ -80,5 +85,5 @@ export default function configSchemaFactory(pluginManager: PluginManager): impor
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type: string;
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defaultValue: boolean;
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};
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}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "trackId">>, undefined>>;
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}, import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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}, import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "trackId">>, undefined>>;
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@@ -5,19 +5,16 @@ export default function GuessAdapterF(pluginManager) {
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return (file, index, adapterHint) => {
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const fileName = getFileName(file);
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const indexName = index && getFileName(index);
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return testAdapter(fileName, /\.txt\.gz$/i, adapterHint, 'GWASAdapter')
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? {
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type: 'GWASAdapter',
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bedGzLocation: file,
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index: {
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location: index || makeIndex(file, '.tbi'),
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indexType: makeIndexType(indexName, 'CSI', 'TBI'),
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},
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}
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else {
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return adapterGuesser(file, index, adapterHint);
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}
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}
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: adapterGuesser(file, index, adapterHint);
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};
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});
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pluginManager.addToExtensionPoint('Core-guessTrackTypeForLocation', (trackTypeGuesser) => {
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/GuessAdapter/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,MAAM,oBAAoB,CAAA;AAChD,OAAO,EACL,WAAW,EACX,SAAS,EACT,aAAa,GACd,MAAM,2BAA2B,CAAA;AASlC,MAAM,CAAC,OAAO,UAAU,aAAa,CAAC,aAA4B;IAChE,aAAa,CAAC,mBAAmB,CAC/B,8BAA8B,EAC9B,CAAC,cAA8B,EAAE,EAAE;QACjC,OAAO,CACL,IAAkB,EAClB,KAAoB,EACpB,WAAoB,EACpB,EAAE;YACF,MAAM,QAAQ,GAAG,WAAW,CAAC,IAAI,CAAC,CAAA;YAClC,MAAM,SAAS,GAAG,KAAK,IAAI,WAAW,CAAC,KAAK,CAAC,CAAA;YAC7C,
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/GuessAdapter/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,MAAM,oBAAoB,CAAA;AAChD,OAAO,EACL,WAAW,EACX,SAAS,EACT,aAAa,GACd,MAAM,2BAA2B,CAAA;AASlC,MAAM,CAAC,OAAO,UAAU,aAAa,CAAC,aAA4B;IAChE,aAAa,CAAC,mBAAmB,CAC/B,8BAA8B,EAC9B,CAAC,cAA8B,EAAE,EAAE;QACjC,OAAO,CACL,IAAkB,EAClB,KAAoB,EACpB,WAAoB,EACpB,EAAE;YACF,MAAM,QAAQ,GAAG,WAAW,CAAC,IAAI,CAAC,CAAA;YAClC,MAAM,SAAS,GAAG,KAAK,IAAI,WAAW,CAAC,KAAK,CAAC,CAAA;YAC7C,OAAO,WAAW,CAAC,QAAQ,EAAE,aAAa,EAAE,WAAW,EAAE,aAAa,CAAC;gBACrE,CAAC,CAAC;oBACE,IAAI,EAAE,aAAa;oBACnB,aAAa,EAAE,IAAI;oBACnB,KAAK,EAAE;wBACL,QAAQ,EAAE,KAAK,IAAI,SAAS,CAAC,IAAI,EAAE,MAAM,CAAC;wBAC1C,SAAS,EAAE,aAAa,CAAC,SAAS,EAAE,KAAK,EAAE,KAAK,CAAC;qBAClD;iBACF;gBACH,CAAC,CAAC,cAAc,CAAC,IAAI,EAAE,KAAK,EAAE,WAAW,CAAC,CAAA;QAC9C,CAAC,CAAA;IACH,CAAC,CACF,CAAA;IAED,aAAa,CAAC,mBAAmB,CAC/B,gCAAgC,EAChC,CAAC,gBAAkC,EAAE,EAAE;QACrC,OAAO,CAAC,WAAmB,EAAE,EAAE;YAC7B,OAAO,WAAW,KAAK,aAAa;gBAClC,CAAC,CAAC,WAAW;gBACb,CAAC,CAAC,gBAAgB,CAAC,WAAW,CAAC,CAAA;QACnC,CAAC,CAAA;IACH,CAAC,CACF,CAAA;AACH,CAAC"}
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fontSize: '0.8em',
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},
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});
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function checkJexl(code) {
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stringToJexlExpression(code);
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}
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const AddFiltersDialog = observer(function ({ model, handleClose, }) {
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const { classes } = useStyles();
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const [error, setError] = useState();
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useEffect(() => {
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try {
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});
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for (const line of data.split('\n')) {
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const trimmed = line.trim();
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if (trimmed) {
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stringToJexlExpression(trimmed);
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}
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}
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setError(undefined);
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}
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catch (e) {
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{"version":3,"file":"AddFiltersDialog.js","sourceRoot":"","sources":["../../../src/LinearManhattanDisplay/components/AddFiltersDialog.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,SAAS,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAElD,OAAO,EAAE,MAAM,EAAE,MAAM,kBAAkB,CAAA;AACzC,OAAO,EAAE,sBAAsB,EAAE,MAAM,gCAAgC,CAAA;AACvE,OAAO,EAAE,MAAM,EAAE,aAAa,EAAE,aAAa,EAAE,SAAS,EAAE,MAAM,eAAe,CAAA;AAC/E,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAE1C,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC;IAC7B,aAAa,EAAE;QACb,KAAK,EAAE,MAAM;KACd;IACD,YAAY,EAAE;QACZ,UAAU,EAAE,aAAa;KAC1B;IAED,KAAK,EAAE;QACL,KAAK,EAAE,KAAK;QACZ,QAAQ,EAAE,OAAO;KAClB;CACF,CAAC,CAAA;AAEF,
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{"version":3,"file":"AddFiltersDialog.js","sourceRoot":"","sources":["../../../src/LinearManhattanDisplay/components/AddFiltersDialog.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,SAAS,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAElD,OAAO,EAAE,MAAM,EAAE,MAAM,kBAAkB,CAAA;AACzC,OAAO,EAAE,sBAAsB,EAAE,MAAM,gCAAgC,CAAA;AACvE,OAAO,EAAE,MAAM,EAAE,aAAa,EAAE,aAAa,EAAE,SAAS,EAAE,MAAM,eAAe,CAAA;AAC/E,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAE1C,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC;IAC7B,aAAa,EAAE;QACb,KAAK,EAAE,MAAM;KACd;IACD,YAAY,EAAE;QACZ,UAAU,EAAE,aAAa;KAC1B;IAED,KAAK,EAAE;QACL,KAAK,EAAE,KAAK;QACZ,QAAQ,EAAE,OAAO;KAClB;CACF,CAAC,CAAA;AAEF,MAAM,gBAAgB,GAAG,QAAQ,CAAC,UAAU,EAC1C,KAAK,EACL,WAAW,GAQZ;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,EAAE,aAAa,EAAE,GAAG,KAAK,CAAA;IAC/B,MAAM,CAAC,IAAI,EAAE,OAAO,CAAC,GAAG,QAAQ,CAAC,aAAa,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,CAAA;IAC1D,MAAM,CAAC,KAAK,EAAE,QAAQ,CAAC,GAAG,QAAQ,EAAW,CAAA;IAE7C,SAAS,CAAC,GAAG,EAAE;QACb,IAAI,CAAC;YACH,KAAK,MAAM,IAAI,IAAI,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC;gBACpC,MAAM,OAAO,GAAG,IAAI,CAAC,IAAI,EAAE,CAAA;gBAC3B,IAAI,OAAO,EAAE,CAAC;oBACZ,sBAAsB,CAAC,OAAO,CAAC,CAAA;gBACjC,CAAC;YACH,CAAC;YACD,QAAQ,CAAC,SAAS,CAAC,CAAA;QACrB,CAAC;QAAC,OAAO,CAAC,EAAE,CAAC;YACX,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;YAChB,QAAQ,CAAC,CAAC,CAAC,CAAA;QACb,CAAC;IACH,CAAC,EAAE,CAAC,IAAI,CAAC,CAAC,CAAA;IAEV,OAAO,CACL,oBAAC,MAAM,IAAC,QAAQ,EAAC,IAAI,EAAC,IAAI,QAAC,OAAO,EAAE,WAAW,EAAE,KAAK,EAAC,mBAAmB;QACxE,oBAAC,aAAa;YACZ;;gBAEmB,GAAG;gBACpB;oBACE;wBACE,sEAA8C;iFAE3C;oBACL;wBACE,qEAA6C;qGAE1C;oBACL;wBACE,oEAA+C;mFAE5C,CACF,CACD;YAEL,KAAK,CAAC,CAAC,CAAC,2BAAG,SAAS,EAAE,OAAO,CAAC,KAAK,IAAG,GAAG,KAAK,EAAE,CAAK,CAAC,CAAC,CAAC,IAAI;YAC7D,oBAAC,SAAS,IACR,OAAO,EAAC,UAAU,EAClB,SAAS,QACT,OAAO,EAAE,CAAC,EACV,OAAO,EAAE,EAAE,EACX,SAAS,EAAE,OAAO,CAAC,aAAa,EAChC,SAAS,QACT,KAAK,EAAE,IAAI,EACX,QAAQ,EAAE,KAAK,CAAC,EAAE;oBAChB,OAAO,CAAC,KAAK,CAAC,MAAM,CAAC,KAAK,CAAC,CAAA;gBAC7B,CAAC,EACD,SAAS,EAAE;oBACT,KAAK,EAAE;wBACL,OAAO,EAAE;4BACP,KAAK,EAAE,OAAO,CAAC,YAAY;yBAC5B;qBACF;iBACF,GACD,CACY;QAChB,oBAAC,aAAa;YACZ,oBAAC,MAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,SAAS,EACf,IAAI,EAAC,QAAQ,EACb,SAAS,QACT,QAAQ,EAAE,CAAC,CAAC,KAAK,EACjB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,cAAc,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAA;oBACtC,WAAW,EAAE,CAAA;gBACf,CAAC,aAGM;YACT,oBAAC,MAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,WAAW,EACjB,OAAO,EAAE,GAAG,EAAE;oBACZ,WAAW,EAAE,CAAA;gBACf,CAAC,aAGM,CACK,CACT,CACV,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,gBAAgB,CAAA"}
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@@ -1,7 +1,6 @@
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import React from 'react';
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import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
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import type { Feature } from '@jbrowse/core/util';
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-
import type { TooltipContentsComponent } from '@jbrowse/plugin-wiggle';
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export interface Props {
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feature: Feature;
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model: Model;
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@@ -10,13 +9,11 @@ export interface Model {
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configuration: AnyConfigurationModel;
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featureUnderMouse?: Feature;
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}
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type Coord = [number, number];
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declare const TooltipComponent: (props: {
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model: Model;
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height: number;
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offsetMouseCoord:
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clientMouseCoord:
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clientRect?: DOMRect;
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TooltipContents?: TooltipContentsComponent;
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export default TooltipComponent;
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-
{"version":3,"file":"TooltipComponent.js","sourceRoot":"","sources":["../../../src/LinearManhattanDisplay/components/TooltipComponent.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,OAAO,EAAE,MAAM,6BAA6B,CAAA;AACrD,OAAO,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAA;AAChD,OAAO,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAA;AAChD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;
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1
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+
{"version":3,"file":"TooltipComponent.js","sourceRoot":"","sources":["../../../src/LinearManhattanDisplay/components/TooltipComponent.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,OAAO,EAAE,MAAM,6BAA6B,CAAA;AACrD,OAAO,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAA;AAChD,OAAO,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAA;AAChD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAcrC,MAAM,eAAe,GAAG,KAAK,CAAC,UAAU,CACtC,SAAS,gBAAgB,CAAC,EAAE,KAAK,EAAE,OAAO,EAAE,EAAE,GAAG;IAC/C,OAAO,CACL,6BAAK,GAAG,EAAE,GAAG;QACX,oBAAC,aAAa,IAAC,IAAI,EAAE,OAAO,CAAC,KAAK,EAAE,WAAW,EAAE,EAAE,OAAO,EAAE,CAAC,GAAI,CAC7D,CACP,CAAA;AACH,CAAC,CACF,CAAA;AAED,MAAM,gBAAgB,GAAG,QAAQ,CAAC,UAAU,KAM3C;IACC,OAAO,oBAAC,OAAO,IAAC,eAAe,EAAE,eAAe,KAAM,KAAK,GAAI,CAAA;AACjE,CAAC,CAAC,CAAA;AAEF,eAAe,gBAAgB,CAAA"}
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@@ -1,5 +1,5 @@
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1
|
import type PluginManager from '@jbrowse/core/PluginManager';
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-
export declare function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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+
export declare function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaType<{
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mouseover: {
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type: string;
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defaultValue: string;
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@@ -8,7 +8,7 @@ export declare function configSchemaFactory(pluginManager: PluginManager): impor
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autoscale: {
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type: string;
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defaultValue: string;
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model: import("mobx-state-tree").ISimpleType<string>;
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+
model: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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description: string;
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};
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minScore: {
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@@ -28,7 +28,7 @@ export declare function configSchemaFactory(pluginManager: PluginManager): impor
|
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};
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scaleType: {
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model: import("mobx-state-tree").ISimpleType<string>;
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model: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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};
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@@ -37,39 +37,7 @@ export declare function configSchemaFactory(pluginManager: PluginManager): impor
|
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description: string;
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defaultValue: boolean;
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};
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type: string;
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model: import("mobx-state-tree").ISimpleType<string>;
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defaultValue: string;
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};
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renderers: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
|
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+
renderers: import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaType<{
|
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41
|
LinearManhattanRenderer: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
|
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-
}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
|
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-
}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<
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maxFeatureScreenDensity: {
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};
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fetchSizeLimit: {
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};
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height: {
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description: string;
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};
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mouseover: {
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type: string;
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description: string;
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defaultValue: string;
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contextVariable: string[];
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};
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jexlFilters: {
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type: string;
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description: string;
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defaultValue: never[];
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};
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75
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-
}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>, undefined>>;
|
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+
}, import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
|
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43
|
+
}, import("@jbrowse/core/esm/configuration/configurationSchema").ConfigurationSchemaOptions<any, undefined>>;
|
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@@ -1,5 +1,5 @@
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1
1
|
import { ConfigurationSchema } from '@jbrowse/core/configuration';
|
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2
|
-
import { types } from 'mobx-state-tree';
|
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2
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+
import { types } from '@jbrowse/mobx-state-tree';
|
|
3
3
|
export function configSchemaFactory(pluginManager) {
|
|
4
4
|
const LGVPlugin = pluginManager.getPlugin('LinearGenomeViewPlugin');
|
|
5
5
|
const { baseLinearDisplayConfigSchema } = LGVPlugin.exports;
|
|
@@ -48,11 +48,6 @@ export function configSchemaFactory(pluginManager) {
|
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48
48
|
description: 'draw upside down',
|
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49
49
|
defaultValue: false,
|
|
50
50
|
},
|
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defaultRendering: {
|
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|
-
type: 'stringEnum',
|
|
53
|
-
model: types.enumeration('Rendering', ['density', 'xyplot', 'line']),
|
|
54
|
-
defaultValue: 'xyplot',
|
|
55
|
-
},
|
|
56
51
|
renderers: ConfigurationSchema('RenderersConfiguration', {
|
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52
|
LinearManhattanRenderer: LinearManhattanRendererConfigSchema,
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53
|
}),
|
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@@ -1 +1 @@
|
|
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1
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-
{"version":3,"file":"configSchemaFactory.js","sourceRoot":"","sources":["../../src/LinearManhattanDisplay/configSchemaFactory.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE,OAAO,EAAE,KAAK,EAAE,MAAM,
|
|
1
|
+
{"version":3,"file":"configSchemaFactory.js","sourceRoot":"","sources":["../../src/LinearManhattanDisplay/configSchemaFactory.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE,OAAO,EAAE,KAAK,EAAE,MAAM,0BAA0B,CAAA;AAKhD,MAAM,UAAU,mBAAmB,CAAC,aAA4B;IAC9D,MAAM,SAAS,GAAG,aAAa,CAAC,SAAS,CACvC,wBAAwB,CACZ,CAAA;IACd,MAAM,EAAE,6BAA6B,EAAE,GAAG,SAAS,CAAC,OAAO,CAAA;IAE3D,MAAM,mCAAmC,GAAG,aAAa,CAAC,eAAe,CACvE,yBAAyB,CACzB,CAAC,YAAY,CAAA;IAEf,OAAO,mBAAmB,CACxB,wBAAwB,EACxB;QACE,SAAS,EAAE;YACT,IAAI,EAAE,QAAQ;YACd,YAAY,EAAE,0BAA0B;YACxC,eAAe,EAAE,CAAC,SAAS,CAAC;SAC7B;QACD,SAAS,EAAE;YACT,IAAI,EAAE,YAAY;YAClB,YAAY,EAAE,OAAO;YACrB,KAAK,EAAE,KAAK,CAAC,WAAW,CAAC,gBAAgB,EAAE;gBACzC,QAAQ;gBACR,OAAO;gBACP,UAAU;gBACV,SAAS;gBACT,QAAQ;aACT,CAAC;YACF,WAAW,EACT,sFAAsF;SACzF;QACD,QAAQ,EAAE;YACR,IAAI,EAAE,QAAQ;YACd,YAAY,EAAE,MAAM,CAAC,SAAS;YAC9B,WAAW,EAAE,+BAA+B;SAC7C;QACD,QAAQ,EAAE;YACR,IAAI,EAAE,QAAQ;YACd,WAAW,EAAE,+BAA+B;YAC5C,YAAY,EAAE,MAAM,CAAC,SAAS;SAC/B;QACD,SAAS,EAAE;YACT,IAAI,EAAE,QAAQ;YACd,WAAW,EACT,8EAA8E;YAChF,YAAY,EAAE,CAAC;SAChB;QACD,SAAS,EAAE;YACT,IAAI,EAAE,YAAY;YAClB,KAAK,EAAE,KAAK,CAAC,WAAW,CAAC,YAAY,EAAE,CAAC,QAAQ,EAAE,KAAK,CAAC,CAAC,EAAE,cAAc;YACzE,WAAW,EAAE,0BAA0B;YACvC,YAAY,EAAE,QAAQ;SACvB;QACD,QAAQ,EAAE;YACR,IAAI,EAAE,SAAS;YACf,WAAW,EAAE,kBAAkB;YAC/B,YAAY,EAAE,KAAK;SACpB;QACD,SAAS,EAAE,mBAAmB,CAAC,wBAAwB,EAAE;YACvD,uBAAuB,EAAE,mCAAmC;SAC7D,CAAC;KACH,EACD;QACE,iBAAiB,EAAE,6BAA6B;QAChD,eAAe,EAAE,IAAI;KACtB,CACF,CAAA;AACH,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"jexlMouseover.js","sourceRoot":"","sources":["../../src/LinearManhattanDisplay/jexlMouseover.ts"],"names":[],"mappings":"AAGA,SAAS,GAAG,CAAC,CAAC,GAAG,CAAC;IAChB,OAAO,CAAC,CAAC,CAAC,
|
|
1
|
+
{"version":3,"file":"jexlMouseover.js","sourceRoot":"","sources":["../../src/LinearManhattanDisplay/jexlMouseover.ts"],"names":[],"mappings":"AAGA,SAAS,GAAG,CAAC,CAAC,GAAG,CAAC;IAChB,OAAO,CAAC,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC,CAAA;AAC1B,CAAC;AAED,MAAM,EAAE,GAAG,CAAC,CAAS,EAAE,EAAE,CAAC,CAAC,CAAC,cAAc,CAAC,OAAO,CAAC,CAAA;AAEnD,SAAS,UAAU,CAAC,OAAgB;IAClC,MAAM,KAAK,GAAG,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC,GAAG,CAAC,CAAA;IACtC,MAAM,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;IAC9B,MAAM,OAAO,GAAG,OAAO,CAAC,GAAG,CAAC,SAAS,CAAC,CAAA;IACtC,MAAM,IAAI,GAAG,OAAO,CAAC,GAAG,CAAC,MAAM,CAAC,CAAA;IAChC,MAAM,IAAI,GAAG,OAAO,CAAC,GAAG,CAAC,MAAM,CAAC,CAAA;IAChC,MAAM,GAAG,GAAG,CAAC,OAAO,EAAE,KAAK,KAAK,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,GAAG,EAAE,CAAC,KAAK,CAAC,KAAK,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC;SAC1E,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC;SAChB,IAAI,CAAC,GAAG,CAAC,CAAA;IAEZ,OAAO,GAAG,GAAG,QAAQ,GAAG,CAAC,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC,QAAQ,IAAI,IAAI,IAAI,EAAE,CAAA;AACtE,CAAC;AAED,MAAM,CAAC,OAAO,UAAU,cAAc,CAAC,aAA4B;IACjE,aAAa,CAAC,IAAI,CAAC,WAAW,CAAC,YAAY,EAAE,CAAC,OAAgB,EAAE,EAAE,CAChE,UAAU,CAAC,OAAO,CAAC,CACpB,CAAA;AACH,CAAC"}
|