@jbrowse/plugin-sv-inspector 2.6.1

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Files changed (58) hide show
  1. package/LICENSE +201 -0
  2. package/dist/LaunchSvInspectorView/index.d.ts +3 -0
  3. package/dist/LaunchSvInspectorView/index.js +27 -0
  4. package/dist/LaunchSvInspectorView/index.js.map +1 -0
  5. package/dist/SvInspectorView/components/CircularViewOptions.d.ts +6 -0
  6. package/dist/SvInspectorView/components/CircularViewOptions.js +22 -0
  7. package/dist/SvInspectorView/components/CircularViewOptions.js.map +1 -0
  8. package/dist/SvInspectorView/components/SvInspectorView.d.ts +6 -0
  9. package/dist/SvInspectorView/components/SvInspectorView.js +51 -0
  10. package/dist/SvInspectorView/components/SvInspectorView.js.map +1 -0
  11. package/dist/SvInspectorView/index.d.ts +3 -0
  12. package/dist/SvInspectorView/index.js +35 -0
  13. package/dist/SvInspectorView/index.js.map +1 -0
  14. package/dist/SvInspectorView/models/SvInspectorView.d.ts +881 -0
  15. package/dist/SvInspectorView/models/SvInspectorView.js +317 -0
  16. package/dist/SvInspectorView/models/SvInspectorView.js.map +1 -0
  17. package/dist/SvInspectorView/models/adhocFeatureUtils.d.ts +44 -0
  18. package/dist/SvInspectorView/models/adhocFeatureUtils.js +97 -0
  19. package/dist/SvInspectorView/models/adhocFeatureUtils.js.map +1 -0
  20. package/dist/SvInspectorView/models/breakpointSplitViewFromTableRow.d.ts +4 -0
  21. package/dist/SvInspectorView/models/breakpointSplitViewFromTableRow.js +49 -0
  22. package/dist/SvInspectorView/models/breakpointSplitViewFromTableRow.js.map +1 -0
  23. package/dist/index.d.ts +7 -0
  24. package/dist/index.js +35 -0
  25. package/dist/index.js.map +1 -0
  26. package/esm/LaunchSvInspectorView/index.d.ts +3 -0
  27. package/esm/LaunchSvInspectorView/index.js +25 -0
  28. package/esm/LaunchSvInspectorView/index.js.map +1 -0
  29. package/esm/SvInspectorView/components/CircularViewOptions.d.ts +6 -0
  30. package/esm/SvInspectorView/components/CircularViewOptions.js +17 -0
  31. package/esm/SvInspectorView/components/CircularViewOptions.js.map +1 -0
  32. package/esm/SvInspectorView/components/SvInspectorView.d.ts +6 -0
  33. package/esm/SvInspectorView/components/SvInspectorView.js +46 -0
  34. package/esm/SvInspectorView/components/SvInspectorView.js.map +1 -0
  35. package/esm/SvInspectorView/index.d.ts +3 -0
  36. package/esm/SvInspectorView/index.js +30 -0
  37. package/esm/SvInspectorView/index.js.map +1 -0
  38. package/esm/SvInspectorView/models/SvInspectorView.d.ts +881 -0
  39. package/esm/SvInspectorView/models/SvInspectorView.js +312 -0
  40. package/esm/SvInspectorView/models/SvInspectorView.js.map +1 -0
  41. package/esm/SvInspectorView/models/adhocFeatureUtils.d.ts +44 -0
  42. package/esm/SvInspectorView/models/adhocFeatureUtils.js +90 -0
  43. package/esm/SvInspectorView/models/adhocFeatureUtils.js.map +1 -0
  44. package/esm/SvInspectorView/models/breakpointSplitViewFromTableRow.d.ts +4 -0
  45. package/esm/SvInspectorView/models/breakpointSplitViewFromTableRow.js +42 -0
  46. package/esm/SvInspectorView/models/breakpointSplitViewFromTableRow.js.map +1 -0
  47. package/esm/index.d.ts +7 -0
  48. package/esm/index.js +29 -0
  49. package/esm/index.js.map +1 -0
  50. package/package.json +62 -0
  51. package/src/LaunchSvInspectorView/index.ts +41 -0
  52. package/src/SvInspectorView/components/CircularViewOptions.tsx +47 -0
  53. package/src/SvInspectorView/components/SvInspectorView.tsx +81 -0
  54. package/src/SvInspectorView/index.ts +41 -0
  55. package/src/SvInspectorView/models/SvInspectorView.ts +406 -0
  56. package/src/SvInspectorView/models/adhocFeatureUtils.js +152 -0
  57. package/src/SvInspectorView/models/breakpointSplitViewFromTableRow.js +84 -0
  58. package/src/index.ts +34 -0
@@ -0,0 +1 @@
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+ {"version":3,"file":"CircularViewOptions.js","sourceRoot":"","sources":["../../../src/SvInspectorView/components/CircularViewOptions.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AACzB,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EAAE,IAAI,EAAE,gBAAgB,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AAChE,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAK1C,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,mBAAmB,EAAE;QACnB,OAAO,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KAC1B;CACF,CAAC,CAAC,CAAA;AAEH,MAAM,mBAAmB,GAAG,QAAQ,CAAC,UAAU,EAC7C,WAAW,GAGZ;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAE/B,OAAO,CACL,oBAAC,IAAI,IACH,SAAS,QACT,SAAS,EAAE,OAAO,CAAC,mBAAmB,EACtC,KAAK,EAAE,EAAE,MAAM,EAAE,WAAW,CAAC,4BAA4B,EAAE;QAE3D,oBAAC,IAAI,IAAC,IAAI;YACR,oBAAC,gBAAgB,IACf,OAAO,EACL,oBAAC,QAAQ,IACP,OAAO,EAAE,WAAW,CAAC,wCAAwC,EAC7D,QAAQ,EAAE,CAAC,CAAC,EAAE,CACZ,WAAW,CAAC,2CAA2C,CACrD,CAAC,CAAC,MAAM,CAAC,OAAO,CACjB,GAEH,EAEJ,KAAK,EAAC,6BAA6B,GACnC,CACG,CACF,CACR,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,mBAAmB,CAAA"}
@@ -0,0 +1,6 @@
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+ import React from 'react';
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+ import { SvInspectorViewModel } from '../models/SvInspectorView';
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+ declare const _default: ({ model, }: {
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+ model: SvInspectorViewModel;
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+ }) => React.JSX.Element;
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+ export default _default;
@@ -0,0 +1,46 @@
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+ import React from 'react';
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+ import { observer } from 'mobx-react';
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+ import { makeStyles } from 'tss-react/mui';
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+ import { ResizeHandle } from '@jbrowse/core/ui';
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+ import CircularViewOptions from './CircularViewOptions';
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+ const useStyles = makeStyles()(theme => ({
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+ resizeHandleVert: {
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+ background: theme.palette.action.selected,
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+ width: 4,
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+ boxSizing: 'border-box',
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+ borderTop: '1px solid #fafafa',
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+ },
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+ resizeHandleHoriz: {
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+ background: theme.palette.action.selected,
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+ height: 4,
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+ boxSizing: 'border-box',
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+ borderTop: '1px solid #fafafa',
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+ },
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+ viewControls: {
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+ margin: 0,
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+ },
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+ viewsContainer: {
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+ display: 'flex',
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+ },
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+ container: {
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+ overflow: 'hidden',
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+ },
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+ }));
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+ export default observer(function SvInspectorView({ model, }) {
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+ const { classes } = useStyles();
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+ const { SpreadsheetViewReactComponent, CircularViewReactComponent, showCircularView, } = model;
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+ return (React.createElement("div", { className: classes.container },
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+ React.createElement("div", { className: classes.viewsContainer },
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+ React.createElement("div", { style: { width: model.spreadsheetView.width }, className: classes.container },
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+ React.createElement(SpreadsheetViewReactComponent, { model: model.spreadsheetView })),
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+ showCircularView ? (React.createElement(React.Fragment, null,
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+ React.createElement(ResizeHandle, { onDrag: distance => {
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+ const ret1 = model.circularView.resizeWidth(-distance);
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+ return model.spreadsheetView.resizeWidth(-ret1);
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+ }, vertical: true, flexbox: true, className: classes.resizeHandleVert }),
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+ React.createElement("div", { style: { width: model.circularView.width } },
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+ React.createElement(CircularViewOptions, { svInspector: model }),
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+ React.createElement(CircularViewReactComponent, { model: model.circularView })))) : null),
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+ React.createElement(ResizeHandle, { onDrag: model.resizeHeight, className: classes.resizeHandleHoriz })));
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+ });
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+ //# sourceMappingURL=SvInspectorView.js.map
@@ -0,0 +1 @@
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+ {"version":3,"file":"SvInspectorView.js","sourceRoot":"","sources":["../../../src/SvInspectorView/components/SvInspectorView.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AACzB,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,EAAE,YAAY,EAAE,MAAM,kBAAkB,CAAA;AAI/C,OAAO,mBAAmB,MAAM,uBAAuB,CAAA;AAEvD,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,gBAAgB,EAAE;QAChB,UAAU,EAAE,KAAK,CAAC,OAAO,CAAC,MAAM,CAAC,QAAQ;QACzC,KAAK,EAAE,CAAC;QACR,SAAS,EAAE,YAAY;QACvB,SAAS,EAAE,mBAAmB;KAC/B;IACD,iBAAiB,EAAE;QACjB,UAAU,EAAE,KAAK,CAAC,OAAO,CAAC,MAAM,CAAC,QAAQ;QACzC,MAAM,EAAE,CAAC;QACT,SAAS,EAAE,YAAY;QACvB,SAAS,EAAE,mBAAmB;KAC/B;IACD,YAAY,EAAE;QACZ,MAAM,EAAE,CAAC;KACV;IACD,cAAc,EAAE;QACd,OAAO,EAAE,MAAM;KAChB;IACD,SAAS,EAAE;QACT,QAAQ,EAAE,QAAQ;KACnB;CACF,CAAC,CAAC,CAAA;AAEH,eAAe,QAAQ,CAAC,SAAS,eAAe,CAAC,EAC/C,KAAK,GAGN;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAE/B,MAAM,EACJ,6BAA6B,EAC7B,0BAA0B,EAC1B,gBAAgB,GACjB,GAAG,KAAK,CAAA;IAET,OAAO,CACL,6BAAK,SAAS,EAAE,OAAO,CAAC,SAAS;QAC/B,6BAAK,SAAS,EAAE,OAAO,CAAC,cAAc;YACpC,6BACE,KAAK,EAAE,EAAE,KAAK,EAAE,KAAK,CAAC,eAAe,CAAC,KAAK,EAAE,EAC7C,SAAS,EAAE,OAAO,CAAC,SAAS;gBAE5B,oBAAC,6BAA6B,IAAC,KAAK,EAAE,KAAK,CAAC,eAAe,GAAI,CAC3D;YAEL,gBAAgB,CAAC,CAAC,CAAC,CAClB;gBACE,oBAAC,YAAY,IACX,MAAM,EAAE,QAAQ,CAAC,EAAE;wBACjB,MAAM,IAAI,GAAG,KAAK,CAAC,YAAY,CAAC,WAAW,CAAC,CAAC,QAAQ,CAAC,CAAA;wBACtD,OAAO,KAAK,CAAC,eAAe,CAAC,WAAW,CAAC,CAAC,IAAI,CAAC,CAAA;oBACjD,CAAC,EACD,QAAQ,QACR,OAAO,QACP,SAAS,EAAE,OAAO,CAAC,gBAAgB,GACnC;gBACF,6BAAK,KAAK,EAAE,EAAE,KAAK,EAAE,KAAK,CAAC,YAAY,CAAC,KAAK,EAAE;oBAC7C,oBAAC,mBAAmB,IAAC,WAAW,EAAE,KAAK,GAAI;oBAC3C,oBAAC,0BAA0B,IAAC,KAAK,EAAE,KAAK,CAAC,YAAY,GAAI,CACrD,CACL,CACJ,CAAC,CAAC,CAAC,IAAI,CACJ;QACN,oBAAC,YAAY,IACX,MAAM,EAAE,KAAK,CAAC,YAAY,EAC1B,SAAS,EAAE,OAAO,CAAC,iBAAiB,GACpC,CACE,CACP,CAAA;AACH,CAAC,CAAC,CAAA"}
@@ -0,0 +1,3 @@
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+ import PluginManager from '@jbrowse/core/PluginManager';
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+ declare const _default: (pluginManager: PluginManager) => void;
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+ export default _default;
@@ -0,0 +1,30 @@
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+ import ViewType from '@jbrowse/core/pluggableElementTypes/ViewType';
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+ import ReactComponent from './components/SvInspectorView';
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+ import stateModelFactory from './models/SvInspectorView';
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+ import { getContainingView, getSession } from '@jbrowse/core/util';
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+ function defaultOnChordClick(feature, chordTrack, pluginManager) {
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+ const session = getSession(chordTrack);
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+ session.setSelection(feature);
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+ const view = getContainingView(chordTrack);
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+ // eslint-disable-next-line @typescript-eslint/no-explicit-any
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+ const viewType = pluginManager.getViewType('BreakpointSplitView');
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+ const viewSnapshot = viewType.snapshotFromBreakendFeature(feature, view);
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+ // try to center the offsetPx
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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.toJSON();
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+ session.addView('BreakpointSplitView', viewSnapshot);
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+ }
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+ export default (pluginManager) => {
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+ pluginManager.jexl.addFunction('defaultOnChordClick', defaultOnChordClick);
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+ pluginManager.addViewType(() => {
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+ const stateModel = stateModelFactory(pluginManager);
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+ return new ViewType({
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+ name: 'SvInspectorView',
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+ displayName: 'SV inspector',
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+ stateModel,
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+ ReactComponent,
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+ });
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+ });
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+ };
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+ //# sourceMappingURL=index.js.map
@@ -0,0 +1 @@
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+ {"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/SvInspectorView/index.ts"],"names":[],"mappings":"AACA,OAAO,QAAQ,MAAM,8CAA8C,CAAA;AAEnE,OAAO,cAAc,MAAM,8BAA8B,CAAA;AACzD,OAAO,iBAAiB,MAAM,0BAA0B,CAAA;AACxD,OAAO,EAAW,iBAAiB,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAA;AAG3E,SAAS,mBAAmB,CAC1B,OAAgB,EAChB,UAA6B,EAC7B,aAA4B;IAE5B,MAAM,OAAO,GAAG,UAAU,CAAC,UAAU,CAAC,CAAA;IACtC,OAAO,CAAC,YAAY,CAAC,OAAO,CAAC,CAAA;IAC7B,MAAM,IAAI,GAAG,iBAAiB,CAAC,UAAU,CAAC,CAAA;IAC1C,8DAA8D;IAC9D,MAAM,QAAQ,GAAG,aAAa,CAAC,WAAW,CAAC,qBAAqB,CAAQ,CAAA;IACxE,MAAM,YAAY,GAAG,QAAQ,CAAC,2BAA2B,CAAC,OAAO,EAAE,IAAI,CAAC,CAAA;IAExE,6BAA6B;IAC7B,YAAY,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,QAAQ,IAAI,IAAI,CAAC,KAAK,GAAG,CAAC,GAAG,GAAG,CAAA;IACtD,YAAY,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,QAAQ,IAAI,IAAI,CAAC,KAAK,GAAG,CAAC,GAAG,GAAG,CAAA;IACtD,YAAY,CAAC,WAAW,GAAG,OAAO,CAAC,MAAM,EAAE,CAAA;IAE3C,OAAO,CAAC,OAAO,CAAC,qBAAqB,EAAE,YAAY,CAAC,CAAA;AACtD,CAAC;AAED,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,IAAI,CAAC,WAAW,CAAC,qBAAqB,EAAE,mBAAmB,CAAC,CAAA;IAE1E,aAAa,CAAC,WAAW,CAAC,GAAG,EAAE;QAC7B,MAAM,UAAU,GAAG,iBAAiB,CAAC,aAAa,CAAC,CAAA;QACnD,OAAO,IAAI,QAAQ,CAAC;YAClB,IAAI,EAAE,iBAAiB;YACvB,WAAW,EAAE,cAAc;YAC3B,UAAU;YACV,cAAc;SACf,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC,CAAA"}