@jbrowse/plugin-linear-genome-view 2.1.5 → 2.1.7

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Files changed (26) hide show
  1. package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts +1 -1
  2. package/dist/LinearBareDisplay/model.d.ts +1 -1
  3. package/dist/LinearBasicDisplay/model.d.ts +11 -3
  4. package/dist/LinearGenomeView/components/OverviewScaleBar.d.ts +11 -26
  5. package/dist/LinearGenomeView/components/OverviewScaleBar.js +2 -2
  6. package/dist/LinearGenomeView/components/OverviewScaleBar.js.map +1 -1
  7. package/dist/LinearGenomeView/components/SearchResultsDialog.js +4 -6
  8. package/dist/LinearGenomeView/components/SearchResultsDialog.js.map +1 -1
  9. package/dist/LinearGenomeView/components/TrackLabel.js +12 -22
  10. package/dist/LinearGenomeView/components/TrackLabel.js.map +1 -1
  11. package/dist/index.d.ts +3 -3
  12. package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts +1 -1
  13. package/esm/LinearBareDisplay/model.d.ts +1 -1
  14. package/esm/LinearBasicDisplay/model.d.ts +11 -3
  15. package/esm/LinearGenomeView/components/OverviewScaleBar.d.ts +11 -26
  16. package/esm/LinearGenomeView/components/OverviewScaleBar.js +2 -2
  17. package/esm/LinearGenomeView/components/OverviewScaleBar.js.map +1 -1
  18. package/esm/LinearGenomeView/components/SearchResultsDialog.js +5 -7
  19. package/esm/LinearGenomeView/components/SearchResultsDialog.js.map +1 -1
  20. package/esm/LinearGenomeView/components/TrackLabel.js +13 -23
  21. package/esm/LinearGenomeView/components/TrackLabel.js.map +1 -1
  22. package/esm/index.d.ts +3 -3
  23. package/package.json +2 -2
  24. package/src/LinearGenomeView/components/OverviewScaleBar.tsx +3 -4
  25. package/src/LinearGenomeView/components/SearchResultsDialog.tsx +5 -11
  26. package/src/LinearGenomeView/components/TrackLabel.tsx +15 -36
package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts CHANGED
@@ -112,7 +112,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
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  readonly adapterConfig: any;
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  readonly parentTrack: any;
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  renderProps(): any;
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- readonly rendererType: any;
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+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
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  readonly DisplayMessageComponent: React.FC<any> | undefined;
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  trackMenuItems(): MenuItem[];
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  readonly viewMenuActions: MenuItem[];
package/dist/LinearBareDisplay/model.d.ts CHANGED
@@ -100,7 +100,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
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  readonly adapterConfig: any;
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  readonly parentTrack: any;
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  renderProps(): any;
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- readonly rendererType: any;
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+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
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  readonly DisplayMessageComponent: import("react").FC<any> | undefined;
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  trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
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  readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
package/dist/LinearBasicDisplay/model.d.ts CHANGED
@@ -106,7 +106,7 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
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  readonly adapterConfig: any;
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  readonly parentTrack: any;
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  renderProps(): any;
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- readonly rendererType: any;
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+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
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  readonly DisplayMessageComponent: import("react").FC<any> | undefined;
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  trackMenuItems(): MenuItem[];
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  readonly viewMenuActions: MenuItem[];
@@ -194,7 +194,11 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
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  readonly maxHeight: any;
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  readonly displayMode: any;
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  } & {
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- readonly rendererConfig: any;
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+ readonly rendererConfig: {
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+ [x: string]: any;
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+ } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
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+ setSubschema(slotName: string, data: unknown): any;
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+ } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
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  } & {
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  toggleShowLabels(): void;
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  toggleShowDescriptions(): void;
@@ -202,7 +206,11 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
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  setMaxHeight(val: number): void;
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  } & {
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  renderProps(): {
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- config: any;
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+ config: {
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+ [x: string]: any;
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+ } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
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+ setSubschema(slotName: string, data: unknown): any;
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+ } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
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  };
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  trackMenuItems(): MenuItem[];
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  }, import("mobx-state-tree")._NotCustomized, {
package/dist/LinearGenomeView/components/OverviewScaleBar.d.ts CHANGED
@@ -1,12 +1,11 @@
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  import React from 'react';
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- import { Instance } from 'mobx-state-tree';
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  import { Base1DViewModel } from '@jbrowse/core/util/Base1DViewModel';
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  import { ContentBlock } from '@jbrowse/core/util/blockTypes';
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  import { Assembly } from '@jbrowse/core/assemblyManager/assembly';
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  import { LinearGenomeViewModel } from '..';
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  declare const Polygon: ({ model, overview, useOffset, }: {
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  model: LGV;
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- overview: Instance<Base1DViewModel>;
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+ overview: Base1DViewModel;
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  useOffset?: boolean | undefined;
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  }) => JSX.Element | null;
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  declare type LGV = LinearGenomeViewModel;
@@ -55,27 +54,20 @@ declare const Cytobands: ({ overview, block, assembly, }: {
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  }): void;
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  setError(e: Error): void;
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  setRegions(regions: import("@jbrowse/core/util").Region[]): void;
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- setRefNameAliases(refNameAliases: {
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+ setRefNameAliases(aliases: {
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  [x: string]: string;
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- }, lowerCaseRefNameAliases: {
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+ }, lowerCase: {
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  [x: string]: string;
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  }): void;
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  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
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  afterAttach(): void;
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  } & {
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- getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
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- forwardMap: {
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- [key: string]: string;
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- };
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- reverseMap: {
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- [key: string]: string;
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- };
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- }>;
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+ getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
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  getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
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- [key: string]: string;
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+ [x: string]: string;
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  }>;
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  getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
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- [key: string]: string;
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+ [x: string]: string;
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  }>;
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  } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
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  configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
@@ -120,27 +112,20 @@ declare const Cytobands: ({ overview, block, assembly, }: {
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  }): void;
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  setError(e: Error): void;
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  setRegions(regions: import("@jbrowse/core/util").Region[]): void;
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- setRefNameAliases(refNameAliases: {
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+ setRefNameAliases(aliases: {
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  [x: string]: string;
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- }, lowerCaseRefNameAliases: {
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+ }, lowerCase: {
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  [x: string]: string;
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  }): void;
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  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
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  afterAttach(): void;
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  } & {
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- getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
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- forwardMap: {
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- [key: string]: string;
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- };
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- reverseMap: {
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- [key: string]: string;
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- };
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- }>;
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+ getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
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  getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
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- [key: string]: string;
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+ [x: string]: string;
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  }>;
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  getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
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- [key: string]: string;
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+ [x: string]: string;
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  }>;
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  }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
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  block: ContentBlock;
package/dist/LinearGenomeView/components/OverviewScaleBar.js CHANGED
@@ -194,7 +194,7 @@ const Cytobands = (0, mobx_react_1.observer)(({ overview, block, assembly, }) =>
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  exports.Cytobands = Cytobands;
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  const OverviewBox = (0, mobx_react_1.observer)(({ scale, model, block, overview, }) => {
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  const { classes, cx } = useStyles();
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- const { cytobandOffset, bpPerPx, showCytobands } = model;
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+ const { cytobandOffset, showCytobands } = model;
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  const { start, end, reversed, refName, assemblyName } = block;
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  const { majorPitch } = (0, util_2.chooseGridPitch)(scale, 120, 15);
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  const { assemblyManager } = (0, util_1.getSession)(model);
@@ -225,7 +225,7 @@ const OverviewBox = (0, mobx_react_1.observer)(({ scale, model, block, overview,
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  left: ((labelIdx + 1) * majorPitch) / scale,
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  pointerEvents: 'none',
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  color: refNameColor,
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- } }, (0, util_1.getTickDisplayStr)(tickLabel, bpPerPx))))
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+ } }, (0, util_1.getTickDisplayStr)(tickLabel, overview.bpPerPx))))
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  : null,
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  canDisplayCytobands ? (react_1.default.createElement("svg", { style: { width: '100%' } },
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  react_1.default.createElement(Cytobands, { overview: overview, assembly: assembly, block: block }))) : null)));
package/dist/LinearGenomeView/components/OverviewScaleBar.js.map CHANGED
@@ -1 +1 @@
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package/dist/LinearGenomeView/components/SearchResultsDialog.js CHANGED
@@ -24,7 +24,7 @@ function SearchResultsDialog({ model, optAssemblyName, handleClose, }) {
24
24
  var _a, _b;
25
25
  const { classes } = useStyles();
26
26
  const session = (0, util_1.getSession)(model);
27
- const { pluginManager } = (0, mobx_state_tree_1.getEnv)(session);
27
+ const { pluginManager } = (0, util_1.getEnv)(session);
28
28
  const { assemblyManager } = session;
29
29
  let assemblyName = optAssemblyName;
30
30
  if (model.displayedRegions.length > 0) {
@@ -62,11 +62,9 @@ function SearchResultsDialog({ model, optAssemblyName, handleClose, }) {
62
62
  function getTrackName(trackId) {
63
63
  var _a;
64
64
  if (trackId) {
65
- const trackConfigSchema = pluginManager.pluggableConfigSchemaType('track');
66
- const configuration = (0, mobx_state_tree_1.resolveIdentifier)(trackConfigSchema, (0, mobx_state_tree_1.getRoot)(model), trackId);
67
- if (configuration) {
68
- return (_a = configuration.name) === null || _a === void 0 ? void 0 : _a.value;
69
- }
65
+ const schema = pluginManager.pluggableConfigSchemaType('track');
66
+ const configuration = (0, mobx_state_tree_1.resolveIdentifier)(schema, (0, mobx_state_tree_1.getRoot)(model), trackId);
67
+ return ((_a = configuration === null || configuration === void 0 ? void 0 : configuration.name) === null || _a === void 0 ? void 0 : _a.value) || '';
70
68
  }
71
69
  return '';
72
70
  }
package/dist/LinearGenomeView/components/SearchResultsDialog.js.map CHANGED
@@ -1 +1 @@
1
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1
+ {"version":3,"file":"SearchResultsDialog.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/SearchResultsDialog.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,uCAA0C;AAC1C,qDAA4D;AAC5D,6CAAuD;AACvD,4CAgBsB;AACtB,sEAAiD;AAGjD,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,aAAa,EAAE;QACb,KAAK,EAAE,MAAM;KACd;IACD,WAAW,EAAE;QACX,QAAQ,EAAE,UAAU;QACpB,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACvB,GAAG,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACrB,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,GAAG,CAAC;KAC/B;CACF,CAAC,CAAC,CAAA;AAEH,SAAwB,mBAAmB,CAAC,EAC1C,KAAK,EACL,eAAe,EACf,WAAW,GAKZ;;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,OAAO,GAAG,IAAA,iBAAU,EAAC,KAAK,CAAC,CAAA;IACjC,MAAM,EAAE,aAAa,EAAE,GAAG,IAAA,aAAM,EAAC,OAAO,CAAC,CAAA;IACzC,MAAM,EAAE,eAAe,EAAE,GAAG,OAAO,CAAA;IACnC,IAAI,YAAY,GAAG,eAAe,CAAA;IAClC,IAAI,KAAK,CAAC,gBAAgB,CAAC,MAAM,GAAG,CAAC,EAAE;QACrC,YAAY,GAAG,MAAA,KAAK,CAAC,gBAAgB,CAAC,CAAC,CAAC,0CAAE,YAAY,CAAA;KACvD;IACD,IAAI,CAAC,YAAY,EAAE;QACjB,MAAM,IAAI,KAAK,CAAC,yBAAyB,CAAC,CAAA;KAC3C;IACD,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;IAClD,IAAI,CAAC,QAAQ,EAAE;QACb,MAAM,IAAI,KAAK,CAAC,YAAY,YAAY,YAAY,CAAC,CAAA;KACtD;IACD,IAAI,CAAC,QAAQ,CAAC,OAAO,EAAE;QACrB,MAAM,IAAI,KAAK,CAAC,YAAY,YAAY,qBAAqB,CAAC,CAAA;KAC/D;IACD,MAAM,eAAe,GAAG,QAAQ,CAAC,OAAO,CAAA;IAExC,SAAS,WAAW,CAAC,QAAgB;QACnC,IAAI;YACF,MAAM,SAAS,GAAG,eAAe,CAAC,IAAI,CACpC,MAAM,CAAC,EAAE,CAAC,QAAQ,KAAK,MAAM,CAAC,OAAO,CACtC,CAAA;YACD,IAAI,SAAS,EAAE;gBACb,KAAK,CAAC,mBAAmB,CAAC,CAAC,SAAS,CAAC,CAAC,CAAA;gBACtC,qEAAqE;gBACrE,6BAA6B;gBAC7B,KAAK,CAAC,cAAc,EAAE,CAAA;aACvB;iBAAM;gBACL,KAAK,CAAC,cAAc,CAAC,QAAQ,EAAE,YAAY,CAAC,CAAA;aAC7C;SACF;QAAC,OAAO,CAAC,EAAE;YACV,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;YACf,OAAO,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,EAAE,SAAS,CAAC,CAAA;SAClC;IACH,CAAC;IAED,SAAS,YAAY,CAAC,OAA2B;;QAC/C,IAAI,OAAO,EAAE;YACX,MAAM,MAAM,GAAG,aAAa,CAAC,yBAAyB,CAAC,OAAO,CAAC,CAAA;YAC/D,MAAM,aAAa,GAAG,IAAA,mCAAiB,EAAC,MAAM,EAAE,IAAA,yBAAO,EAAC,KAAK,CAAC,EAAE,OAAO,CAAC,CAAA;YACxE,OAAO,CAAA,MAAA,aAAa,aAAb,aAAa,uBAAb,aAAa,CAAE,IAAI,0CAAE,KAAK,KAAI,EAAE,CAAA;SACxC;QACD,OAAO,EAAE,CAAA;IACX,CAAC;IAED,OAAO,CACL,8BAAC,iBAAM,IAAC,IAAI,QAAC,QAAQ,EAAC,IAAI,EAAC,OAAO,EAAE,WAAW;QAC7C,8BAAC,sBAAW;;YAET,WAAW,CAAC,CAAC,CAAC,CACb,8BAAC,qBAAU,mBACG,qBAAqB,EACjC,SAAS,EAAE,OAAO,CAAC,WAAW,EAC9B,OAAO,EAAE,GAAG,EAAE;oBACZ,WAAW,EAAE,CAAA;gBACf,CAAC,EACD,IAAI,EAAC,OAAO;gBAEZ,8BAAC,eAAS,OAAG,CACF,CACd,CAAC,CAAC,CAAC,IAAI,CACI;QACd,8BAAC,kBAAO,OAAG;QACX,8BAAC,wBAAa,QACX,CAAC,CAAA,MAAA,KAAK,CAAC,aAAa,0CAAE,MAAM,CAAA,CAAC,CAAC,CAAC,CAC9B,8BAAC,qBAAU;;YACY,yCAAI,KAAK,CAAC,WAAW,CAAK,CACpC,CACd,CAAC,CAAC,CAAC,CACF;YACE,8BAAC,qBAAU;;gBACW,yCAAI,KAAK,CAAC,WAAW,CAAK,CACnC;YACb,8BAAC,yBAAc,IAAC,SAAS,EAAE,gBAAK;gBAC9B,8BAAC,gBAAK;oBACJ,8BAAC,oBAAS;wBACR,8BAAC,mBAAQ;4BACP,8BAAC,oBAAS,eAAiB;4BAC3B,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO,eAAqB;4BAC7C,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO,YAAkB;4BAC1C,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO,GAAG,CAClB,CACD;oBACZ,8BAAC,oBAAS,QACP,KAAK,CAAC,aAAa,CAAC,GAAG,CAAC,MAAM,CAAC,EAAE,CAAC,CACjC,8BAAC,mBAAQ,IAAC,GAAG,EAAE,GAAG,MAAM,CAAC,KAAK,EAAE,EAAE;wBAChC,8BAAC,oBAAS,IAAC,SAAS,EAAC,IAAI,EAAC,KAAK,EAAC,KAAK,IAClC,MAAM,CAAC,QAAQ,EAAE,CACR;wBACZ,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO,IACrB,MAAM,CAAC,WAAW,EAAE,CACX;wBACZ,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO,IACrB,YAAY,CAAC,MAAM,CAAC,UAAU,EAAE,CAAC,IAAI,KAAK,CACjC;wBACZ,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO;4BACtB,8BAAC,iBAAM,IACL,OAAO,EAAE,GAAG,EAAE;oCACZ,MAAM,QAAQ,GAAG,MAAM,CAAC,WAAW,EAAE,CAAA;oCACrC,IAAI,QAAQ,EAAE;wCACZ,WAAW,CAAC,QAAQ,CAAC,CAAA;wCACrB,MAAM,aAAa,GAAG,MAAM,CAAC,UAAU,EAAE,CAAA;wCACzC,IAAI,aAAa,EAAE;4CACjB,KAAK,CAAC,SAAS,CAAC,aAAa,CAAC,CAAA;yCAC/B;qCACF;oCACD,WAAW,EAAE,CAAA;gCACf,CAAC,EACD,KAAK,EAAC,SAAS,EACf,OAAO,EAAC,WAAW,SAGZ,CACC,CACH,CACZ,CAAC,CACQ,CACN,CACO,CAChB,CACJ,CACa;QAChB,8BAAC,kBAAO,OAAG;QACX,8BAAC,wBAAa;YACZ,8BAAC,iBAAM,IAAC,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,EAAE,EAAE,KAAK,EAAC,SAAS,aAE5C,CACK,CACT,CACV,CAAA;AACH,CAAC;AA9ID,sCA8IC"}
package/dist/LinearGenomeView/components/TrackLabel.js CHANGED
@@ -4,12 +4,13 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
4
4
  };
5
5
  Object.defineProperty(exports, "__esModule", { value: true });
6
6
  const react_1 = __importDefault(require("react"));
7
+ const material_1 = require("@mui/material");
8
+ const mui_1 = require("tss-react/mui");
7
9
  const mobx_react_1 = require("mobx-react");
8
10
  const configuration_1 = require("@jbrowse/core/configuration");
9
11
  const CascadingMenu_1 = __importDefault(require("@jbrowse/core/ui/CascadingMenu"));
10
12
  const util_1 = require("@jbrowse/core/util");
11
- const material_1 = require("@mui/material");
12
- const mui_1 = require("tss-react/mui");
13
+ const tracks_1 = require("@jbrowse/core/util/tracks");
13
14
  const hooks_1 = require("material-ui-popup-state/hooks");
14
15
  // icons
15
16
  const MoreVert_1 = __importDefault(require("@mui/icons-material/MoreVert"));
@@ -44,16 +45,6 @@ const useStyles = (0, mui_1.makeStyles)()(theme => ({
44
45
  padding: theme.spacing(1),
45
46
  },
46
47
  }));
47
- function getTrackName(track, session) {
48
- const trackName = (0, configuration_1.getConf)(track, 'name');
49
- if (!trackName && (0, configuration_1.getConf)(track, 'type') === 'ReferenceSequenceTrack') {
50
- const asm = session.assemblies.find(a => a.sequence === track.configuration);
51
- return asm
52
- ? `Reference Sequence (${(0, configuration_1.readConfObject)(asm, 'displayName') || (0, configuration_1.readConfObject)(asm, 'name')})`
53
- : 'Reference Sequence';
54
- }
55
- return trackName;
56
- }
57
48
  const TrackLabel = react_1.default.forwardRef(({ track, className }, ref) => {
58
49
  var _a;
59
50
  const { classes, cx } = useStyles();
@@ -61,25 +52,24 @@ const TrackLabel = react_1.default.forwardRef(({ track, className }, ref) => {
61
52
  const session = (0, util_1.getSession)(track);
62
53
  const trackConf = track.configuration;
63
54
  const trackId = (0, configuration_1.getConf)(track, 'trackId');
64
- const trackName = getTrackName(track, session);
55
+ const trackName = (0, tracks_1.getTrackName)(trackConf, session);
65
56
  const popupState = (0, hooks_1.usePopupState)({
66
57
  popupId: 'trackLabelMenu',
67
58
  variant: 'popover',
68
59
  });
69
- const onDragStart = (event) => {
70
- const target = event.currentTarget;
71
- if (target.parentNode) {
72
- const parent = target.parentNode;
73
- event.dataTransfer.setDragImage(parent, 20, 20);
74
- view.setDraggingTrackId(track.id);
75
- }
76
- };
77
60
  const items = [
78
61
  ...(((_a = session.getTrackActionMenuItems) === null || _a === void 0 ? void 0 : _a.call(session, trackConf)) || []),
79
62
  ...track.trackMenuItems(),
80
63
  ].sort((a, b) => (b.priority || 0) - (a.priority || 0));
81
64
  return (react_1.default.createElement(material_1.Paper, { ref: ref, className: cx(className, classes.root) },
82
- react_1.default.createElement("span", { draggable: true, className: classes.dragHandle, onDragStart: onDragStart, onDragEnd: () => view.setDraggingTrackId(undefined), "data-testid": `dragHandle-${view.id}-${trackId}` },
65
+ react_1.default.createElement("span", { draggable: true, className: classes.dragHandle, onDragStart: event => {
66
+ const target = event.currentTarget;
67
+ if (target.parentNode) {
68
+ const parent = target.parentNode;
69
+ event.dataTransfer.setDragImage(parent, 20, 20);
70
+ view.setDraggingTrackId(track.id);
71
+ }
72
+ }, onDragEnd: () => view.setDraggingTrackId(undefined), "data-testid": `dragHandle-${view.id}-${trackId}` },
83
73
  react_1.default.createElement(DragIndicator_1.default, { className: classes.dragHandleIcon, fontSize: "small" })),
84
74
  react_1.default.createElement(material_1.IconButton, { onClick: () => view.hideTrack(trackId), className: classes.iconButton, title: "close this track", color: "secondary" },
85
75
  react_1.default.createElement(Close_1.default, { fontSize: "small" })),
package/dist/LinearGenomeView/components/TrackLabel.js.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"TrackLabel.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/TrackLabel.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,2CAAqC;AAErC,+DAIoC;AACpC,mFAA0D;AAC1D,6CAAkE;AAElE,4CAAoE;AACpE,uCAA0C;AAE1C,yDAIsC;AAEtC,QAAQ;AACR,4EAAuD;AACvD,sFAAwD;AACxD,sEAAiD;AAIjD,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,IAAI,EAAE;QACJ,UAAU,EAAE,IAAA,gBAAK,EAAC,KAAK,CAAC,OAAO,CAAC,UAAU,CAAC,KAAK,EAAE,GAAG,CAAC;QACtD,SAAS,EAAE;YACT,UAAU,EAAE,KAAK,CAAC,OAAO,CAAC,UAAU,CAAC,KAAK;SAC3C;QACD,UAAU,EAAE,KAAK,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC,YAAY,CAAC,EAAE;YACnD,QAAQ,EAAE,KAAK,CAAC,WAAW,CAAC,QAAQ,CAAC,QAAQ;SAC9C,CAAC;KACH;IACD,SAAS,EAAE;QACT,MAAM,EAAE,QAAQ;QAChB,KAAK,EAAE,KAAK;QACZ,QAAQ,EAAE,QAAQ;QAClB,aAAa,EAAE,MAAM;KACtB;IACD,UAAU,EAAE;QACV,MAAM,EAAE,MAAM;QACd,KAAK,EAAE,SAAS;KACjB;IACD,cAAc,EAAE;QACd,OAAO,EAAE,cAAc;QACvB,aAAa,EAAE,QAAQ;QACvB,aAAa,EAAE,MAAM;KACtB;IACD,UAAU,EAAE;QACV,OAAO,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KAC1B;CACF,CAAC,CAAC,CAAA;AASH,SAAS,YAAY,CACnB,KAAqB,EACrB,OAAgD;IAEhD,MAAM,SAAS,GAAG,IAAA,uBAAO,EAAC,KAAK,EAAE,MAAM,CAAC,CAAA;IACxC,IAAI,CAAC,SAAS,IAAI,IAAA,uBAAO,EAAC,KAAK,EAAE,MAAM,CAAC,KAAK,wBAAwB,EAAE;QACrE,MAAM,GAAG,GAAG,OAAO,CAAC,UAAU,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,QAAQ,KAAK,KAAK,CAAC,aAAa,CAAC,CAAA;QAC5E,OAAO,GAAG;YACR,CAAC,CAAC,uBACE,IAAA,8BAAc,EAAC,GAAG,EAAE,aAAa,CAAC,IAAI,IAAA,8BAAc,EAAC,GAAG,EAAE,MAAM,CAClE,GAAG;YACL,CAAC,CAAC,oBAAoB,CAAA;KACzB;IACD,OAAO,SAAS,CAAA;AAClB,CAAC;AACD,MAAM,UAAU,GAAG,eAAK,CAAC,UAAU,CACjC,CAAC,EAAE,KAAK,EAAE,SAAS,EAAE,EAAE,GAAG,EAAE,EAAE;;IAC5B,MAAM,EAAE,OAAO,EAAE,EAAE,EAAE,GAAG,SAAS,EAAE,CAAA;IACnC,MAAM,IAAI,GAAG,IAAA,wBAAiB,EAAC,KAAK,CAAQ,CAAA;IAC5C,MAAM,OAAO,GAAG,IAAA,iBAAU,EAAC,KAAK,CAAC,CAAA;IACjC,MAAM,SAAS,GAAG,KAAK,CAAC,aAAa,CAAA;IACrC,MAAM,OAAO,GAAG,IAAA,uBAAO,EAAC,KAAK,EAAE,SAAS,CAAC,CAAA;IACzC,MAAM,SAAS,GAAG,YAAY,CAAC,KAAK,EAAE,OAAO,CAAC,CAAA;IAE9C,MAAM,UAAU,GAAG,IAAA,qBAAa,EAAC;QAC/B,OAAO,EAAE,gBAAgB;QACzB,OAAO,EAAE,SAAS;KACnB,CAAC,CAAA;IAEF,MAAM,WAAW,GAAG,CAAC,KAAuC,EAAE,EAAE;QAC9D,MAAM,MAAM,GAAG,KAAK,CAAC,aAAa,CAAA;QAClC,IAAI,MAAM,CAAC,UAAU,EAAE;YACrB,MAAM,MAAM,GAAG,MAAM,CAAC,UAAyB,CAAA;YAC/C,KAAK,CAAC,YAAY,CAAC,YAAY,CAAC,MAAM,EAAE,EAAE,EAAE,EAAE,CAAC,CAAA;YAC/C,IAAI,CAAC,kBAAkB,CAAC,KAAK,CAAC,EAAE,CAAC,CAAA;SAClC;IACH,CAAC,CAAA;IAED,MAAM,KAAK,GAAG;QACZ,GAAG,CAAC,CAAA,MAAA,OAAO,CAAC,uBAAuB,wDAAG,SAAS,CAAC,KAAI,EAAE,CAAC;QACvD,GAAG,KAAK,CAAC,cAAc,EAAE;KAC1B,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,CAAC,CAAA;IAEvD,OAAO,CACL,8BAAC,gBAAK,IAAC,GAAG,EAAE,GAAG,EAAE,SAAS,EAAE,EAAE,CAAC,SAAS,EAAE,OAAO,CAAC,IAAI,CAAC;QACrD,wCACE,SAAS,QACT,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,WAAW,EAAE,WAAW,EACxB,SAAS,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,kBAAkB,CAAC,SAAS,CAAC,iBACtC,cAAc,IAAI,CAAC,EAAE,IAAI,OAAO,EAAE;YAE/C,8BAAC,uBAAQ,IAAC,SAAS,EAAE,OAAO,CAAC,cAAc,EAAE,QAAQ,EAAC,OAAO,GAAG,CAC3D;QACP,8BAAC,qBAAU,IACT,OAAO,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,SAAS,CAAC,OAAO,CAAC,EACtC,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,KAAK,EAAC,kBAAkB,EACxB,KAAK,EAAC,WAAW;YAEjB,8BAAC,eAAS,IAAC,QAAQ,EAAC,OAAO,GAAG,CACnB;QACb,8BAAC,qBAAU,IACT,OAAO,EAAC,OAAO,EACf,SAAS,EAAC,MAAM,EAChB,SAAS,EAAE,OAAO,CAAC,SAAS,IAE3B,SAAS,CACC;QACb,8BAAC,qBAAU,OACL,IAAA,mBAAW,EAAC,UAAU,CAAC,EAC3B,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,KAAK,EAAC,WAAW,iBACL,iBAAiB,EAC7B,QAAQ,EAAE,CAAC,KAAK,CAAC,MAAM;YAEvB,8BAAC,kBAAY,IAAC,QAAQ,EAAC,OAAO,GAAG,CACtB;QACb,8BAAC,uBAAa,OACR,IAAA,mBAAW,EAAC,UAAU,CAAC,EAC3B,eAAe,EAAE,CAAC,CAAU,EAAE,QAAkB,EAAE,EAAE,CAAC,QAAQ,EAAE,EAC/D,SAAS,EAAE,KAAK,EAChB,UAAU,EAAE,UAAU,GACtB,CACI,CACT,CAAA;AACH,CAAC,CACF,CAAA;AAED,kBAAe,IAAA,qBAAQ,EAAC,UAAU,CAAC,CAAA"}
1
+ {"version":3,"file":"TrackLabel.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/TrackLabel.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,4CAAoE;AACpE,uCAA0C;AAC1C,2CAAqC;AACrC,+DAAqD;AACrD,mFAA0D;AAC1D,6CAAkE;AAClE,sDAAwD;AAGxD,yDAIsC;AAEtC,QAAQ;AACR,4EAAuD;AACvD,sFAAwD;AACxD,sEAAiD;AAIjD,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,IAAI,EAAE;QACJ,UAAU,EAAE,IAAA,gBAAK,EAAC,KAAK,CAAC,OAAO,CAAC,UAAU,CAAC,KAAK,EAAE,GAAG,CAAC;QACtD,SAAS,EAAE;YACT,UAAU,EAAE,KAAK,CAAC,OAAO,CAAC,UAAU,CAAC,KAAK;SAC3C;QACD,UAAU,EAAE,KAAK,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC,YAAY,CAAC,EAAE;YACnD,QAAQ,EAAE,KAAK,CAAC,WAAW,CAAC,QAAQ,CAAC,QAAQ;SAC9C,CAAC;KACH;IACD,SAAS,EAAE;QACT,MAAM,EAAE,QAAQ;QAChB,KAAK,EAAE,KAAK;QACZ,QAAQ,EAAE,QAAQ;QAClB,aAAa,EAAE,MAAM;KACtB;IACD,UAAU,EAAE;QACV,MAAM,EAAE,MAAM;QACd,KAAK,EAAE,SAAS;KACjB;IACD,cAAc,EAAE;QACd,OAAO,EAAE,cAAc;QACvB,aAAa,EAAE,QAAQ;QACvB,aAAa,EAAE,MAAM;KACtB;IACD,UAAU,EAAE;QACV,OAAO,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KAC1B;CACF,CAAC,CAAC,CAAA;AASH,MAAM,UAAU,GAAG,eAAK,CAAC,UAAU,CACjC,CAAC,EAAE,KAAK,EAAE,SAAS,EAAE,EAAE,GAAG,EAAE,EAAE;;IAC5B,MAAM,EAAE,OAAO,EAAE,EAAE,EAAE,GAAG,SAAS,EAAE,CAAA;IACnC,MAAM,IAAI,GAAG,IAAA,wBAAiB,EAAC,KAAK,CAAQ,CAAA;IAC5C,MAAM,OAAO,GAAG,IAAA,iBAAU,EAAC,KAAK,CAAC,CAAA;IACjC,MAAM,SAAS,GAAG,KAAK,CAAC,aAAa,CAAA;IACrC,MAAM,OAAO,GAAG,IAAA,uBAAO,EAAC,KAAK,EAAE,SAAS,CAAC,CAAA;IACzC,MAAM,SAAS,GAAG,IAAA,qBAAY,EAAC,SAAS,EAAE,OAAO,CAAC,CAAA;IAElD,MAAM,UAAU,GAAG,IAAA,qBAAa,EAAC;QAC/B,OAAO,EAAE,gBAAgB;QACzB,OAAO,EAAE,SAAS;KACnB,CAAC,CAAA;IAEF,MAAM,KAAK,GAAG;QACZ,GAAG,CAAC,CAAA,MAAA,OAAO,CAAC,uBAAuB,wDAAG,SAAS,CAAC,KAAI,EAAE,CAAC;QACvD,GAAG,KAAK,CAAC,cAAc,EAAE;KAC1B,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,CAAC,CAAA;IAEvD,OAAO,CACL,8BAAC,gBAAK,IAAC,GAAG,EAAE,GAAG,EAAE,SAAS,EAAE,EAAE,CAAC,SAAS,EAAE,OAAO,CAAC,IAAI,CAAC;QACrD,wCACE,SAAS,QACT,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,MAAM,MAAM,GAAG,KAAK,CAAC,aAAa,CAAA;gBAClC,IAAI,MAAM,CAAC,UAAU,EAAE;oBACrB,MAAM,MAAM,GAAG,MAAM,CAAC,UAAyB,CAAA;oBAC/C,KAAK,CAAC,YAAY,CAAC,YAAY,CAAC,MAAM,EAAE,EAAE,EAAE,EAAE,CAAC,CAAA;oBAC/C,IAAI,CAAC,kBAAkB,CAAC,KAAK,CAAC,EAAE,CAAC,CAAA;iBAClC;YACH,CAAC,EACD,SAAS,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,kBAAkB,CAAC,SAAS,CAAC,iBACtC,cAAc,IAAI,CAAC,EAAE,IAAI,OAAO,EAAE;YAE/C,8BAAC,uBAAQ,IAAC,SAAS,EAAE,OAAO,CAAC,cAAc,EAAE,QAAQ,EAAC,OAAO,GAAG,CAC3D;QACP,8BAAC,qBAAU,IACT,OAAO,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,SAAS,CAAC,OAAO,CAAC,EACtC,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,KAAK,EAAC,kBAAkB,EACxB,KAAK,EAAC,WAAW;YAEjB,8BAAC,eAAS,IAAC,QAAQ,EAAC,OAAO,GAAG,CACnB;QACb,8BAAC,qBAAU,IACT,OAAO,EAAC,OAAO,EACf,SAAS,EAAC,MAAM,EAChB,SAAS,EAAE,OAAO,CAAC,SAAS,IAE3B,SAAS,CACC;QACb,8BAAC,qBAAU,OACL,IAAA,mBAAW,EAAC,UAAU,CAAC,EAC3B,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,KAAK,EAAC,WAAW,iBACL,iBAAiB,EAC7B,QAAQ,EAAE,CAAC,KAAK,CAAC,MAAM;YAEvB,8BAAC,kBAAY,IAAC,QAAQ,EAAC,OAAO,GAAG,CACtB;QACb,8BAAC,uBAAa,OACR,IAAA,mBAAW,EAAC,UAAU,CAAC,EAC3B,eAAe,EAAE,CAAC,CAAU,EAAE,QAAkB,EAAE,EAAE,CAAC,QAAQ,EAAE,EAC/D,SAAS,EAAE,KAAK,EAChB,UAAU,EAAE,UAAU,GACtB,CACI,CACT,CAAA;AACH,CAAC,CACF,CAAA;AAED,kBAAe,IAAA,qBAAQ,EAAC,UAAU,CAAC,CAAA"}
package/dist/index.d.ts CHANGED
@@ -150,7 +150,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
150
150
  readonly adapterConfig: any;
151
151
  readonly parentTrack: any;
152
152
  renderProps(): any;
153
- readonly rendererType: any;
153
+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
154
154
  readonly DisplayMessageComponent: import("react").FC<any> | undefined;
155
155
  trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
156
156
  readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
@@ -328,7 +328,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
328
328
  readonly adapterConfig: any;
329
329
  readonly parentTrack: any;
330
330
  renderProps(): any;
331
- readonly rendererType: any;
331
+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
332
332
  readonly DisplayMessageComponent: import("react").FC<any> | undefined;
333
333
  trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
334
334
  readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
@@ -516,7 +516,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
516
516
  readonly adapterConfig: any;
517
517
  readonly parentTrack: any;
518
518
  renderProps(): any;
519
- readonly rendererType: any;
519
+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
520
520
  readonly DisplayMessageComponent: import("react").FC<any> | undefined;
521
521
  trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
522
522
  readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts CHANGED
@@ -112,7 +112,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
112
112
  readonly adapterConfig: any;
113
113
  readonly parentTrack: any;
114
114
  renderProps(): any;
115
- readonly rendererType: any;
115
+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
116
116
  readonly DisplayMessageComponent: React.FC<any> | undefined;
117
117
  trackMenuItems(): MenuItem[];
118
118
  readonly viewMenuActions: MenuItem[];
package/esm/LinearBareDisplay/model.d.ts CHANGED
@@ -100,7 +100,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
100
100
  readonly adapterConfig: any;
101
101
  readonly parentTrack: any;
102
102
  renderProps(): any;
103
- readonly rendererType: any;
103
+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
104
104
  readonly DisplayMessageComponent: import("react").FC<any> | undefined;
105
105
  trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
106
106
  readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
package/esm/LinearBasicDisplay/model.d.ts CHANGED
@@ -106,7 +106,7 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
106
106
  readonly adapterConfig: any;
107
107
  readonly parentTrack: any;
108
108
  renderProps(): any;
109
- readonly rendererType: any;
109
+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
110
110
  readonly DisplayMessageComponent: import("react").FC<any> | undefined;
111
111
  trackMenuItems(): MenuItem[];
112
112
  readonly viewMenuActions: MenuItem[];
@@ -194,7 +194,11 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
194
194
  readonly maxHeight: any;
195
195
  readonly displayMode: any;
196
196
  } & {
197
- readonly rendererConfig: any;
197
+ readonly rendererConfig: {
198
+ [x: string]: any;
199
+ } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
200
+ setSubschema(slotName: string, data: unknown): any;
201
+ } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
198
202
  } & {
199
203
  toggleShowLabels(): void;
200
204
  toggleShowDescriptions(): void;
@@ -202,7 +206,11 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
202
206
  setMaxHeight(val: number): void;
203
207
  } & {
204
208
  renderProps(): {
205
- config: any;
209
+ config: {
210
+ [x: string]: any;
211
+ } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
212
+ setSubschema(slotName: string, data: unknown): any;
213
+ } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
206
214
  };
207
215
  trackMenuItems(): MenuItem[];
208
216
  }, import("mobx-state-tree")._NotCustomized, {
package/esm/LinearGenomeView/components/OverviewScaleBar.d.ts CHANGED
@@ -1,12 +1,11 @@
1
1
  import React from 'react';
2
- import { Instance } from 'mobx-state-tree';
3
2
  import { Base1DViewModel } from '@jbrowse/core/util/Base1DViewModel';
4
3
  import { ContentBlock } from '@jbrowse/core/util/blockTypes';
5
4
  import { Assembly } from '@jbrowse/core/assemblyManager/assembly';
6
5
  import { LinearGenomeViewModel } from '..';
7
6
  declare const Polygon: ({ model, overview, useOffset, }: {
8
7
  model: LGV;
9
- overview: Instance<Base1DViewModel>;
8
+ overview: Base1DViewModel;
10
9
  useOffset?: boolean | undefined;
11
10
  }) => JSX.Element | null;
12
11
  declare type LGV = LinearGenomeViewModel;
@@ -55,27 +54,20 @@ declare const Cytobands: ({ overview, block, assembly, }: {
55
54
  }): void;
56
55
  setError(e: Error): void;
57
56
  setRegions(regions: import("@jbrowse/core/util").Region[]): void;
58
- setRefNameAliases(refNameAliases: {
57
+ setRefNameAliases(aliases: {
59
58
  [x: string]: string;
60
- }, lowerCaseRefNameAliases: {
59
+ }, lowerCase: {
61
60
  [x: string]: string;
62
61
  }): void;
63
62
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
64
63
  afterAttach(): void;
65
64
  } & {
66
- getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
67
- forwardMap: {
68
- [key: string]: string;
69
- };
70
- reverseMap: {
71
- [key: string]: string;
72
- };
73
- }>;
65
+ getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
74
66
  getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
75
- [key: string]: string;
67
+ [x: string]: string;
76
68
  }>;
77
69
  getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
78
- [key: string]: string;
70
+ [x: string]: string;
79
71
  }>;
80
72
  } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
81
73
  configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
@@ -120,27 +112,20 @@ declare const Cytobands: ({ overview, block, assembly, }: {
120
112
  }): void;
121
113
  setError(e: Error): void;
122
114
  setRegions(regions: import("@jbrowse/core/util").Region[]): void;
123
- setRefNameAliases(refNameAliases: {
115
+ setRefNameAliases(aliases: {
124
116
  [x: string]: string;
125
- }, lowerCaseRefNameAliases: {
117
+ }, lowerCase: {
126
118
  [x: string]: string;
127
119
  }): void;
128
120
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
129
121
  afterAttach(): void;
130
122
  } & {
131
- getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
132
- forwardMap: {
133
- [key: string]: string;
134
- };
135
- reverseMap: {
136
- [key: string]: string;
137
- };
138
- }>;
123
+ getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
139
124
  getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
140
- [key: string]: string;
125
+ [x: string]: string;
141
126
  }>;
142
127
  getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
143
- [key: string]: string;
128
+ [x: string]: string;
144
129
  }>;
145
130
  }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
146
131
  block: ContentBlock;
package/esm/LinearGenomeView/components/OverviewScaleBar.js CHANGED
@@ -186,7 +186,7 @@ const Cytobands = observer(({ overview, block, assembly, }) => {
186
186
  });
187
187
  const OverviewBox = observer(({ scale, model, block, overview, }) => {
188
188
  const { classes, cx } = useStyles();
189
- const { cytobandOffset, bpPerPx, showCytobands } = model;
189
+ const { cytobandOffset, showCytobands } = model;
190
190
  const { start, end, reversed, refName, assemblyName } = block;
191
191
  const { majorPitch } = chooseGridPitch(scale, 120, 15);
192
192
  const { assemblyManager } = getSession(model);
@@ -217,7 +217,7 @@ const OverviewBox = observer(({ scale, model, block, overview, }) => {
217
217
  left: ((labelIdx + 1) * majorPitch) / scale,
218
218
  pointerEvents: 'none',
219
219
  color: refNameColor,
220
- } }, getTickDisplayStr(tickLabel, bpPerPx))))
220
+ } }, getTickDisplayStr(tickLabel, overview.bpPerPx))))
221
221
  : null,
222
222
  canDisplayCytobands ? (React.createElement("svg", { style: { width: '100%' } },
223
223
  React.createElement(Cytobands, { overview: overview, assembly: assembly, block: block }))) : null)));
package/esm/LinearGenomeView/components/OverviewScaleBar.js.map CHANGED
@@ -1 +1 @@
1
- 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package/esm/LinearGenomeView/components/SearchResultsDialog.js CHANGED
@@ -1,7 +1,7 @@
1
1
  import React from 'react';
2
2
  import { makeStyles } from 'tss-react/mui';
3
- import { getEnv, resolveIdentifier, getRoot } from 'mobx-state-tree';
4
- import { getSession } from '@jbrowse/core/util';
3
+ import { resolveIdentifier, getRoot } from 'mobx-state-tree';
4
+ import { getSession, getEnv } from '@jbrowse/core/util';
5
5
  import { Button, Dialog, DialogActions, DialogContent, DialogTitle, Divider, IconButton, Paper, Table, TableBody, TableCell, TableContainer, TableHead, TableRow, Typography, } from '@mui/material';
6
6
  import CloseIcon from '@mui/icons-material/Close';
7
7
  const useStyles = makeStyles()(theme => ({
@@ -57,11 +57,9 @@ export default function SearchResultsDialog({ model, optAssemblyName, handleClos
57
57
  function getTrackName(trackId) {
58
58
  var _a;
59
59
  if (trackId) {
60
- const trackConfigSchema = pluginManager.pluggableConfigSchemaType('track');
61
- const configuration = resolveIdentifier(trackConfigSchema, getRoot(model), trackId);
62
- if (configuration) {
63
- return (_a = configuration.name) === null || _a === void 0 ? void 0 : _a.value;
64
- }
60
+ const schema = pluginManager.pluggableConfigSchemaType('track');
61
+ const configuration = resolveIdentifier(schema, getRoot(model), trackId);
62
+ return ((_a = configuration === null || configuration === void 0 ? void 0 : configuration.name) === null || _a === void 0 ? void 0 : _a.value) || '';
65
63
  }
66
64
  return '';
67
65
  }
package/esm/LinearGenomeView/components/SearchResultsDialog.js.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"SearchResultsDialog.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/SearchResultsDialog.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AACzB,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,EAAE,MAAM,EAAE,iBAAiB,EAAE,OAAO,EAAE,MAAM,iBAAiB,CAAA;AACpE,OAAO,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAA;AAC/C,OAAO,EACL,MAAM,EACN,MAAM,EACN,aAAa,EACb,aAAa,EACb,WAAW,EACX,OAAO,EACP,UAAU,EACV,KAAK,EACL,KAAK,EACL,SAAS,EACT,SAAS,EACT,cAAc,EACd,SAAS,EACT,QAAQ,EACR,UAAU,GACX,MAAM,eAAe,CAAA;AACtB,OAAO,SAAS,MAAM,2BAA2B,CAAA;AAGjD,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,aAAa,EAAE;QACb,KAAK,EAAE,MAAM;KACd;IACD,WAAW,EAAE;QACX,QAAQ,EAAE,UAAU;QACpB,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACvB,GAAG,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACrB,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,GAAG,CAAC;KAC/B;CACF,CAAC,CAAC,CAAA;AAEH,MAAM,CAAC,OAAO,UAAU,mBAAmB,CAAC,EAC1C,KAAK,EACL,eAAe,EACf,WAAW,GAKZ;;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,OAAO,GAAG,UAAU,CAAC,KAAK,CAAC,CAAA;IACjC,MAAM,EAAE,aAAa,EAAE,GAAG,MAAM,CAAC,OAAO,CAAC,CAAA;IACzC,MAAM,EAAE,eAAe,EAAE,GAAG,OAAO,CAAA;IACnC,IAAI,YAAY,GAAG,eAAe,CAAA;IAClC,IAAI,KAAK,CAAC,gBAAgB,CAAC,MAAM,GAAG,CAAC,EAAE;QACrC,YAAY,GAAG,MAAA,KAAK,CAAC,gBAAgB,CAAC,CAAC,CAAC,0CAAE,YAAY,CAAA;KACvD;IACD,IAAI,CAAC,YAAY,EAAE;QACjB,MAAM,IAAI,KAAK,CAAC,yBAAyB,CAAC,CAAA;KAC3C;IACD,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;IAClD,IAAI,CAAC,QAAQ,EAAE;QACb,MAAM,IAAI,KAAK,CAAC,YAAY,YAAY,YAAY,CAAC,CAAA;KACtD;IACD,IAAI,CAAC,QAAQ,CAAC,OAAO,EAAE;QACrB,MAAM,IAAI,KAAK,CAAC,YAAY,YAAY,qBAAqB,CAAC,CAAA;KAC/D;IACD,MAAM,eAAe,GAAG,QAAQ,CAAC,OAAO,CAAA;IAExC,SAAS,WAAW,CAAC,QAAgB;QACnC,IAAI;YACF,MAAM,SAAS,GAAG,eAAe,CAAC,IAAI,CACpC,MAAM,CAAC,EAAE,CAAC,QAAQ,KAAK,MAAM,CAAC,OAAO,CACtC,CAAA;YACD,IAAI,SAAS,EAAE;gBACb,KAAK,CAAC,mBAAmB,CAAC,CAAC,SAAS,CAAC,CAAC,CAAA;gBACtC,qEAAqE;gBACrE,6BAA6B;gBAC7B,KAAK,CAAC,cAAc,EAAE,CAAA;aACvB;iBAAM;gBACL,KAAK,CAAC,cAAc,CAAC,QAAQ,EAAE,YAAY,CAAC,CAAA;aAC7C;SACF;QAAC,OAAO,CAAC,EAAE;YACV,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;YACf,OAAO,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,EAAE,SAAS,CAAC,CAAA;SAClC;IACH,CAAC;IAED,SAAS,YAAY,CAAC,OAA2B;;QAC/C,IAAI,OAAO,EAAE;YACX,MAAM,iBAAiB,GAAG,aAAa,CAAC,yBAAyB,CAAC,OAAO,CAAC,CAAA;YAC1E,MAAM,aAAa,GAAG,iBAAiB,CACrC,iBAAiB,EACjB,OAAO,CAAC,KAAK,CAAC,EACd,OAAO,CACR,CAAA;YACD,IAAI,aAAa,EAAE;gBACjB,OAAO,MAAA,aAAa,CAAC,IAAI,0CAAE,KAAK,CAAA;aACjC;SACF;QACD,OAAO,EAAE,CAAA;IACX,CAAC;IAED,OAAO,CACL,oBAAC,MAAM,IAAC,IAAI,QAAC,QAAQ,EAAC,IAAI,EAAC,OAAO,EAAE,WAAW;QAC7C,oBAAC,WAAW;;YAET,WAAW,CAAC,CAAC,CAAC,CACb,oBAAC,UAAU,mBACG,qBAAqB,EACjC,SAAS,EAAE,OAAO,CAAC,WAAW,EAC9B,OAAO,EAAE,GAAG,EAAE;oBACZ,WAAW,EAAE,CAAA;gBACf,CAAC,EACD,IAAI,EAAC,OAAO;gBAEZ,oBAAC,SAAS,OAAG,CACF,CACd,CAAC,CAAC,CAAC,IAAI,CACI;QACd,oBAAC,OAAO,OAAG;QACX,oBAAC,aAAa,QACX,CAAC,CAAA,MAAA,KAAK,CAAC,aAAa,0CAAE,MAAM,CAAA,CAAC,CAAC,CAAC,CAC9B,oBAAC,UAAU;;YACY,+BAAI,KAAK,CAAC,WAAW,CAAK,CACpC,CACd,CAAC,CAAC,CAAC,CACF;YACE,oBAAC,UAAU;;gBACW,+BAAI,KAAK,CAAC,WAAW,CAAK,CACnC;YACb,oBAAC,cAAc,IAAC,SAAS,EAAE,KAAK;gBAC9B,oBAAC,KAAK;oBACJ,oBAAC,SAAS;wBACR,oBAAC,QAAQ;4BACP,oBAAC,SAAS,eAAiB;4BAC3B,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO,eAAqB;4BAC7C,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO,YAAkB;4BAC1C,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO,GAAG,CAClB,CACD;oBACZ,oBAAC,SAAS,QACP,KAAK,CAAC,aAAa,CAAC,GAAG,CAAC,MAAM,CAAC,EAAE,CAAC,CACjC,oBAAC,QAAQ,IAAC,GAAG,EAAE,GAAG,MAAM,CAAC,KAAK,EAAE,EAAE;wBAChC,oBAAC,SAAS,IAAC,SAAS,EAAC,IAAI,EAAC,KAAK,EAAC,KAAK,IAClC,MAAM,CAAC,QAAQ,EAAE,CACR;wBACZ,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO,IACrB,MAAM,CAAC,WAAW,EAAE,CACX;wBACZ,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO,IACrB,YAAY,CAAC,MAAM,CAAC,UAAU,EAAE,CAAC,IAAI,KAAK,CACjC;wBACZ,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO;4BACtB,oBAAC,MAAM,IACL,OAAO,EAAE,GAAG,EAAE;oCACZ,MAAM,QAAQ,GAAG,MAAM,CAAC,WAAW,EAAE,CAAA;oCACrC,IAAI,QAAQ,EAAE;wCACZ,WAAW,CAAC,QAAQ,CAAC,CAAA;wCACrB,MAAM,aAAa,GAAG,MAAM,CAAC,UAAU,EAAE,CAAA;wCACzC,IAAI,aAAa,EAAE;4CACjB,KAAK,CAAC,SAAS,CAAC,aAAa,CAAC,CAAA;yCAC/B;qCACF;oCACD,WAAW,EAAE,CAAA;gCACf,CAAC,EACD,KAAK,EAAC,SAAS,EACf,OAAO,EAAC,WAAW,SAGZ,CACC,CACH,CACZ,CAAC,CACQ,CACN,CACO,CAChB,CACJ,CACa;QAChB,oBAAC,OAAO,OAAG;QACX,oBAAC,aAAa;YACZ,oBAAC,MAAM,IAAC,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,EAAE,EAAE,KAAK,EAAC,SAAS,aAE5C,CACK,CACT,CACV,CAAA;AACH,CAAC"}
1
+ {"version":3,"file":"SearchResultsDialog.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/SearchResultsDialog.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AACzB,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,EAAE,iBAAiB,EAAE,OAAO,EAAE,MAAM,iBAAiB,CAAA;AAC5D,OAAO,EAAE,UAAU,EAAE,MAAM,EAAE,MAAM,oBAAoB,CAAA;AACvD,OAAO,EACL,MAAM,EACN,MAAM,EACN,aAAa,EACb,aAAa,EACb,WAAW,EACX,OAAO,EACP,UAAU,EACV,KAAK,EACL,KAAK,EACL,SAAS,EACT,SAAS,EACT,cAAc,EACd,SAAS,EACT,QAAQ,EACR,UAAU,GACX,MAAM,eAAe,CAAA;AACtB,OAAO,SAAS,MAAM,2BAA2B,CAAA;AAGjD,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,aAAa,EAAE;QACb,KAAK,EAAE,MAAM;KACd;IACD,WAAW,EAAE;QACX,QAAQ,EAAE,UAAU;QACpB,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACvB,GAAG,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACrB,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,GAAG,CAAC;KAC/B;CACF,CAAC,CAAC,CAAA;AAEH,MAAM,CAAC,OAAO,UAAU,mBAAmB,CAAC,EAC1C,KAAK,EACL,eAAe,EACf,WAAW,GAKZ;;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,OAAO,GAAG,UAAU,CAAC,KAAK,CAAC,CAAA;IACjC,MAAM,EAAE,aAAa,EAAE,GAAG,MAAM,CAAC,OAAO,CAAC,CAAA;IACzC,MAAM,EAAE,eAAe,EAAE,GAAG,OAAO,CAAA;IACnC,IAAI,YAAY,GAAG,eAAe,CAAA;IAClC,IAAI,KAAK,CAAC,gBAAgB,CAAC,MAAM,GAAG,CAAC,EAAE;QACrC,YAAY,GAAG,MAAA,KAAK,CAAC,gBAAgB,CAAC,CAAC,CAAC,0CAAE,YAAY,CAAA;KACvD;IACD,IAAI,CAAC,YAAY,EAAE;QACjB,MAAM,IAAI,KAAK,CAAC,yBAAyB,CAAC,CAAA;KAC3C;IACD,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;IAClD,IAAI,CAAC,QAAQ,EAAE;QACb,MAAM,IAAI,KAAK,CAAC,YAAY,YAAY,YAAY,CAAC,CAAA;KACtD;IACD,IAAI,CAAC,QAAQ,CAAC,OAAO,EAAE;QACrB,MAAM,IAAI,KAAK,CAAC,YAAY,YAAY,qBAAqB,CAAC,CAAA;KAC/D;IACD,MAAM,eAAe,GAAG,QAAQ,CAAC,OAAO,CAAA;IAExC,SAAS,WAAW,CAAC,QAAgB;QACnC,IAAI;YACF,MAAM,SAAS,GAAG,eAAe,CAAC,IAAI,CACpC,MAAM,CAAC,EAAE,CAAC,QAAQ,KAAK,MAAM,CAAC,OAAO,CACtC,CAAA;YACD,IAAI,SAAS,EAAE;gBACb,KAAK,CAAC,mBAAmB,CAAC,CAAC,SAAS,CAAC,CAAC,CAAA;gBACtC,qEAAqE;gBACrE,6BAA6B;gBAC7B,KAAK,CAAC,cAAc,EAAE,CAAA;aACvB;iBAAM;gBACL,KAAK,CAAC,cAAc,CAAC,QAAQ,EAAE,YAAY,CAAC,CAAA;aAC7C;SACF;QAAC,OAAO,CAAC,EAAE;YACV,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;YACf,OAAO,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,EAAE,SAAS,CAAC,CAAA;SAClC;IACH,CAAC;IAED,SAAS,YAAY,CAAC,OAA2B;;QAC/C,IAAI,OAAO,EAAE;YACX,MAAM,MAAM,GAAG,aAAa,CAAC,yBAAyB,CAAC,OAAO,CAAC,CAAA;YAC/D,MAAM,aAAa,GAAG,iBAAiB,CAAC,MAAM,EAAE,OAAO,CAAC,KAAK,CAAC,EAAE,OAAO,CAAC,CAAA;YACxE,OAAO,CAAA,MAAA,aAAa,aAAb,aAAa,uBAAb,aAAa,CAAE,IAAI,0CAAE,KAAK,KAAI,EAAE,CAAA;SACxC;QACD,OAAO,EAAE,CAAA;IACX,CAAC;IAED,OAAO,CACL,oBAAC,MAAM,IAAC,IAAI,QAAC,QAAQ,EAAC,IAAI,EAAC,OAAO,EAAE,WAAW;QAC7C,oBAAC,WAAW;;YAET,WAAW,CAAC,CAAC,CAAC,CACb,oBAAC,UAAU,mBACG,qBAAqB,EACjC,SAAS,EAAE,OAAO,CAAC,WAAW,EAC9B,OAAO,EAAE,GAAG,EAAE;oBACZ,WAAW,EAAE,CAAA;gBACf,CAAC,EACD,IAAI,EAAC,OAAO;gBAEZ,oBAAC,SAAS,OAAG,CACF,CACd,CAAC,CAAC,CAAC,IAAI,CACI;QACd,oBAAC,OAAO,OAAG;QACX,oBAAC,aAAa,QACX,CAAC,CAAA,MAAA,KAAK,CAAC,aAAa,0CAAE,MAAM,CAAA,CAAC,CAAC,CAAC,CAC9B,oBAAC,UAAU;;YACY,+BAAI,KAAK,CAAC,WAAW,CAAK,CACpC,CACd,CAAC,CAAC,CAAC,CACF;YACE,oBAAC,UAAU;;gBACW,+BAAI,KAAK,CAAC,WAAW,CAAK,CACnC;YACb,oBAAC,cAAc,IAAC,SAAS,EAAE,KAAK;gBAC9B,oBAAC,KAAK;oBACJ,oBAAC,SAAS;wBACR,oBAAC,QAAQ;4BACP,oBAAC,SAAS,eAAiB;4BAC3B,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO,eAAqB;4BAC7C,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO,YAAkB;4BAC1C,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO,GAAG,CAClB,CACD;oBACZ,oBAAC,SAAS,QACP,KAAK,CAAC,aAAa,CAAC,GAAG,CAAC,MAAM,CAAC,EAAE,CAAC,CACjC,oBAAC,QAAQ,IAAC,GAAG,EAAE,GAAG,MAAM,CAAC,KAAK,EAAE,EAAE;wBAChC,oBAAC,SAAS,IAAC,SAAS,EAAC,IAAI,EAAC,KAAK,EAAC,KAAK,IAClC,MAAM,CAAC,QAAQ,EAAE,CACR;wBACZ,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO,IACrB,MAAM,CAAC,WAAW,EAAE,CACX;wBACZ,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO,IACrB,YAAY,CAAC,MAAM,CAAC,UAAU,EAAE,CAAC,IAAI,KAAK,CACjC;wBACZ,oBAAC,SAAS,IAAC,KAAK,EAAC,OAAO;4BACtB,oBAAC,MAAM,IACL,OAAO,EAAE,GAAG,EAAE;oCACZ,MAAM,QAAQ,GAAG,MAAM,CAAC,WAAW,EAAE,CAAA;oCACrC,IAAI,QAAQ,EAAE;wCACZ,WAAW,CAAC,QAAQ,CAAC,CAAA;wCACrB,MAAM,aAAa,GAAG,MAAM,CAAC,UAAU,EAAE,CAAA;wCACzC,IAAI,aAAa,EAAE;4CACjB,KAAK,CAAC,SAAS,CAAC,aAAa,CAAC,CAAA;yCAC/B;qCACF;oCACD,WAAW,EAAE,CAAA;gCACf,CAAC,EACD,KAAK,EAAC,SAAS,EACf,OAAO,EAAC,WAAW,SAGZ,CACC,CACH,CACZ,CAAC,CACQ,CACN,CACO,CAChB,CACJ,CACa;QAChB,oBAAC,OAAO,OAAG;QACX,oBAAC,aAAa;YACZ,oBAAC,MAAM,IAAC,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,EAAE,EAAE,KAAK,EAAC,SAAS,aAE5C,CACK,CACT,CACV,CAAA;AACH,CAAC"}
package/esm/LinearGenomeView/components/TrackLabel.js CHANGED
@@ -1,10 +1,11 @@
1
1
  import React from 'react';
2
+ import { IconButton, Paper, Typography, alpha } from '@mui/material';
3
+ import { makeStyles } from 'tss-react/mui';
2
4
  import { observer } from 'mobx-react';
3
- import { getConf, readConfObject, } from '@jbrowse/core/configuration';
5
+ import { getConf } from '@jbrowse/core/configuration';
4
6
  import CascadingMenu from '@jbrowse/core/ui/CascadingMenu';
5
7
  import { getSession, getContainingView } from '@jbrowse/core/util';
6
- import { IconButton, Paper, Typography, alpha } from '@mui/material';
7
- import { makeStyles } from 'tss-react/mui';
8
+ import { getTrackName } from '@jbrowse/core/util/tracks';
8
9
  import { bindTrigger, bindPopover, usePopupState, } from 'material-ui-popup-state/hooks';
9
10
  // icons
10
11
  import MoreVertIcon from '@mui/icons-material/MoreVert';
@@ -39,16 +40,6 @@ const useStyles = makeStyles()(theme => ({
39
40
  padding: theme.spacing(1),
40
41
  },
41
42
  }));
42
- function getTrackName(track, session) {
43
- const trackName = getConf(track, 'name');
44
- if (!trackName && getConf(track, 'type') === 'ReferenceSequenceTrack') {
45
- const asm = session.assemblies.find(a => a.sequence === track.configuration);
46
- return asm
47
- ? `Reference Sequence (${readConfObject(asm, 'displayName') || readConfObject(asm, 'name')})`
48
- : 'Reference Sequence';
49
- }
50
- return trackName;
51
- }
52
43
  const TrackLabel = React.forwardRef(({ track, className }, ref) => {
53
44
  var _a;
54
45
  const { classes, cx } = useStyles();
@@ -56,25 +47,24 @@ const TrackLabel = React.forwardRef(({ track, className }, ref) => {
56
47
  const session = getSession(track);
57
48
  const trackConf = track.configuration;
58
49
  const trackId = getConf(track, 'trackId');
59
- const trackName = getTrackName(track, session);
50
+ const trackName = getTrackName(trackConf, session);
60
51
  const popupState = usePopupState({
61
52
  popupId: 'trackLabelMenu',
62
53
  variant: 'popover',
63
54
  });
64
- const onDragStart = (event) => {
65
- const target = event.currentTarget;
66
- if (target.parentNode) {
67
- const parent = target.parentNode;
68
- event.dataTransfer.setDragImage(parent, 20, 20);
69
- view.setDraggingTrackId(track.id);
70
- }
71
- };
72
55
  const items = [
73
56
  ...(((_a = session.getTrackActionMenuItems) === null || _a === void 0 ? void 0 : _a.call(session, trackConf)) || []),
74
57
  ...track.trackMenuItems(),
75
58
  ].sort((a, b) => (b.priority || 0) - (a.priority || 0));
76
59
  return (React.createElement(Paper, { ref: ref, className: cx(className, classes.root) },
77
- React.createElement("span", { draggable: true, className: classes.dragHandle, onDragStart: onDragStart, onDragEnd: () => view.setDraggingTrackId(undefined), "data-testid": `dragHandle-${view.id}-${trackId}` },
60
+ React.createElement("span", { draggable: true, className: classes.dragHandle, onDragStart: event => {
61
+ const target = event.currentTarget;
62
+ if (target.parentNode) {
63
+ const parent = target.parentNode;
64
+ event.dataTransfer.setDragImage(parent, 20, 20);
65
+ view.setDraggingTrackId(track.id);
66
+ }
67
+ }, onDragEnd: () => view.setDraggingTrackId(undefined), "data-testid": `dragHandle-${view.id}-${trackId}` },
78
68
  React.createElement(DragIcon, { className: classes.dragHandleIcon, fontSize: "small" })),
79
69
  React.createElement(IconButton, { onClick: () => view.hideTrack(trackId), className: classes.iconButton, title: "close this track", color: "secondary" },
80
70
  React.createElement(CloseIcon, { fontSize: "small" })),
package/esm/LinearGenomeView/components/TrackLabel.js.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"TrackLabel.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/TrackLabel.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AACzB,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAEL,OAAO,EACP,cAAc,GACf,MAAM,6BAA6B,CAAA;AACpC,OAAO,aAAa,MAAM,gCAAgC,CAAA;AAC1D,OAAO,EAAE,UAAU,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAA;AAElE,OAAO,EAAE,UAAU,EAAE,KAAK,EAAE,UAAU,EAAE,KAAK,EAAE,MAAM,eAAe,CAAA;AACpE,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAE1C,OAAO,EACL,WAAW,EACX,WAAW,EACX,aAAa,GACd,MAAM,+BAA+B,CAAA;AAEtC,QAAQ;AACR,OAAO,YAAY,MAAM,8BAA8B,CAAA;AACvD,OAAO,QAAQ,MAAM,mCAAmC,CAAA;AACxD,OAAO,SAAS,MAAM,2BAA2B,CAAA;AAIjD,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,IAAI,EAAE;QACJ,UAAU,EAAE,KAAK,CAAC,KAAK,CAAC,OAAO,CAAC,UAAU,CAAC,KAAK,EAAE,GAAG,CAAC;QACtD,SAAS,EAAE;YACT,UAAU,EAAE,KAAK,CAAC,OAAO,CAAC,UAAU,CAAC,KAAK;SAC3C;QACD,UAAU,EAAE,KAAK,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC,YAAY,CAAC,EAAE;YACnD,QAAQ,EAAE,KAAK,CAAC,WAAW,CAAC,QAAQ,CAAC,QAAQ;SAC9C,CAAC;KACH;IACD,SAAS,EAAE;QACT,MAAM,EAAE,QAAQ;QAChB,KAAK,EAAE,KAAK;QACZ,QAAQ,EAAE,QAAQ;QAClB,aAAa,EAAE,MAAM;KACtB;IACD,UAAU,EAAE;QACV,MAAM,EAAE,MAAM;QACd,KAAK,EAAE,SAAS;KACjB;IACD,cAAc,EAAE;QACd,OAAO,EAAE,cAAc;QACvB,aAAa,EAAE,QAAQ;QACvB,aAAa,EAAE,MAAM;KACtB;IACD,UAAU,EAAE;QACV,OAAO,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KAC1B;CACF,CAAC,CAAC,CAAA;AASH,SAAS,YAAY,CACnB,KAAqB,EACrB,OAAgD;IAEhD,MAAM,SAAS,GAAG,OAAO,CAAC,KAAK,EAAE,MAAM,CAAC,CAAA;IACxC,IAAI,CAAC,SAAS,IAAI,OAAO,CAAC,KAAK,EAAE,MAAM,CAAC,KAAK,wBAAwB,EAAE;QACrE,MAAM,GAAG,GAAG,OAAO,CAAC,UAAU,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,QAAQ,KAAK,KAAK,CAAC,aAAa,CAAC,CAAA;QAC5E,OAAO,GAAG;YACR,CAAC,CAAC,uBACE,cAAc,CAAC,GAAG,EAAE,aAAa,CAAC,IAAI,cAAc,CAAC,GAAG,EAAE,MAAM,CAClE,GAAG;YACL,CAAC,CAAC,oBAAoB,CAAA;KACzB;IACD,OAAO,SAAS,CAAA;AAClB,CAAC;AACD,MAAM,UAAU,GAAG,KAAK,CAAC,UAAU,CACjC,CAAC,EAAE,KAAK,EAAE,SAAS,EAAE,EAAE,GAAG,EAAE,EAAE;;IAC5B,MAAM,EAAE,OAAO,EAAE,EAAE,EAAE,GAAG,SAAS,EAAE,CAAA;IACnC,MAAM,IAAI,GAAG,iBAAiB,CAAC,KAAK,CAAQ,CAAA;IAC5C,MAAM,OAAO,GAAG,UAAU,CAAC,KAAK,CAAC,CAAA;IACjC,MAAM,SAAS,GAAG,KAAK,CAAC,aAAa,CAAA;IACrC,MAAM,OAAO,GAAG,OAAO,CAAC,KAAK,EAAE,SAAS,CAAC,CAAA;IACzC,MAAM,SAAS,GAAG,YAAY,CAAC,KAAK,EAAE,OAAO,CAAC,CAAA;IAE9C,MAAM,UAAU,GAAG,aAAa,CAAC;QAC/B,OAAO,EAAE,gBAAgB;QACzB,OAAO,EAAE,SAAS;KACnB,CAAC,CAAA;IAEF,MAAM,WAAW,GAAG,CAAC,KAAuC,EAAE,EAAE;QAC9D,MAAM,MAAM,GAAG,KAAK,CAAC,aAAa,CAAA;QAClC,IAAI,MAAM,CAAC,UAAU,EAAE;YACrB,MAAM,MAAM,GAAG,MAAM,CAAC,UAAyB,CAAA;YAC/C,KAAK,CAAC,YAAY,CAAC,YAAY,CAAC,MAAM,EAAE,EAAE,EAAE,EAAE,CAAC,CAAA;YAC/C,IAAI,CAAC,kBAAkB,CAAC,KAAK,CAAC,EAAE,CAAC,CAAA;SAClC;IACH,CAAC,CAAA;IAED,MAAM,KAAK,GAAG;QACZ,GAAG,CAAC,CAAA,MAAA,OAAO,CAAC,uBAAuB,wDAAG,SAAS,CAAC,KAAI,EAAE,CAAC;QACvD,GAAG,KAAK,CAAC,cAAc,EAAE;KAC1B,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,CAAC,CAAA;IAEvD,OAAO,CACL,oBAAC,KAAK,IAAC,GAAG,EAAE,GAAG,EAAE,SAAS,EAAE,EAAE,CAAC,SAAS,EAAE,OAAO,CAAC,IAAI,CAAC;QACrD,8BACE,SAAS,QACT,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,WAAW,EAAE,WAAW,EACxB,SAAS,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,kBAAkB,CAAC,SAAS,CAAC,iBACtC,cAAc,IAAI,CAAC,EAAE,IAAI,OAAO,EAAE;YAE/C,oBAAC,QAAQ,IAAC,SAAS,EAAE,OAAO,CAAC,cAAc,EAAE,QAAQ,EAAC,OAAO,GAAG,CAC3D;QACP,oBAAC,UAAU,IACT,OAAO,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,SAAS,CAAC,OAAO,CAAC,EACtC,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,KAAK,EAAC,kBAAkB,EACxB,KAAK,EAAC,WAAW;YAEjB,oBAAC,SAAS,IAAC,QAAQ,EAAC,OAAO,GAAG,CACnB;QACb,oBAAC,UAAU,IACT,OAAO,EAAC,OAAO,EACf,SAAS,EAAC,MAAM,EAChB,SAAS,EAAE,OAAO,CAAC,SAAS,IAE3B,SAAS,CACC;QACb,oBAAC,UAAU,OACL,WAAW,CAAC,UAAU,CAAC,EAC3B,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,KAAK,EAAC,WAAW,iBACL,iBAAiB,EAC7B,QAAQ,EAAE,CAAC,KAAK,CAAC,MAAM;YAEvB,oBAAC,YAAY,IAAC,QAAQ,EAAC,OAAO,GAAG,CACtB;QACb,oBAAC,aAAa,OACR,WAAW,CAAC,UAAU,CAAC,EAC3B,eAAe,EAAE,CAAC,CAAU,EAAE,QAAkB,EAAE,EAAE,CAAC,QAAQ,EAAE,EAC/D,SAAS,EAAE,KAAK,EAChB,UAAU,EAAE,UAAU,GACtB,CACI,CACT,CAAA;AACH,CAAC,CACF,CAAA;AAED,eAAe,QAAQ,CAAC,UAAU,CAAC,CAAA"}
1
+ {"version":3,"file":"TrackLabel.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/TrackLabel.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AACzB,OAAO,EAAE,UAAU,EAAE,KAAK,EAAE,UAAU,EAAE,KAAK,EAAE,MAAM,eAAe,CAAA;AACpE,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EAAE,OAAO,EAAE,MAAM,6BAA6B,CAAA;AACrD,OAAO,aAAa,MAAM,gCAAgC,CAAA;AAC1D,OAAO,EAAE,UAAU,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAA;AAClE,OAAO,EAAE,YAAY,EAAE,MAAM,2BAA2B,CAAA;AAGxD,OAAO,EACL,WAAW,EACX,WAAW,EACX,aAAa,GACd,MAAM,+BAA+B,CAAA;AAEtC,QAAQ;AACR,OAAO,YAAY,MAAM,8BAA8B,CAAA;AACvD,OAAO,QAAQ,MAAM,mCAAmC,CAAA;AACxD,OAAO,SAAS,MAAM,2BAA2B,CAAA;AAIjD,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,IAAI,EAAE;QACJ,UAAU,EAAE,KAAK,CAAC,KAAK,CAAC,OAAO,CAAC,UAAU,CAAC,KAAK,EAAE,GAAG,CAAC;QACtD,SAAS,EAAE;YACT,UAAU,EAAE,KAAK,CAAC,OAAO,CAAC,UAAU,CAAC,KAAK;SAC3C;QACD,UAAU,EAAE,KAAK,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC,YAAY,CAAC,EAAE;YACnD,QAAQ,EAAE,KAAK,CAAC,WAAW,CAAC,QAAQ,CAAC,QAAQ;SAC9C,CAAC;KACH;IACD,SAAS,EAAE;QACT,MAAM,EAAE,QAAQ;QAChB,KAAK,EAAE,KAAK;QACZ,QAAQ,EAAE,QAAQ;QAClB,aAAa,EAAE,MAAM;KACtB;IACD,UAAU,EAAE;QACV,MAAM,EAAE,MAAM;QACd,KAAK,EAAE,SAAS;KACjB;IACD,cAAc,EAAE;QACd,OAAO,EAAE,cAAc;QACvB,aAAa,EAAE,QAAQ;QACvB,aAAa,EAAE,MAAM;KACtB;IACD,UAAU,EAAE;QACV,OAAO,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KAC1B;CACF,CAAC,CAAC,CAAA;AASH,MAAM,UAAU,GAAG,KAAK,CAAC,UAAU,CACjC,CAAC,EAAE,KAAK,EAAE,SAAS,EAAE,EAAE,GAAG,EAAE,EAAE;;IAC5B,MAAM,EAAE,OAAO,EAAE,EAAE,EAAE,GAAG,SAAS,EAAE,CAAA;IACnC,MAAM,IAAI,GAAG,iBAAiB,CAAC,KAAK,CAAQ,CAAA;IAC5C,MAAM,OAAO,GAAG,UAAU,CAAC,KAAK,CAAC,CAAA;IACjC,MAAM,SAAS,GAAG,KAAK,CAAC,aAAa,CAAA;IACrC,MAAM,OAAO,GAAG,OAAO,CAAC,KAAK,EAAE,SAAS,CAAC,CAAA;IACzC,MAAM,SAAS,GAAG,YAAY,CAAC,SAAS,EAAE,OAAO,CAAC,CAAA;IAElD,MAAM,UAAU,GAAG,aAAa,CAAC;QAC/B,OAAO,EAAE,gBAAgB;QACzB,OAAO,EAAE,SAAS;KACnB,CAAC,CAAA;IAEF,MAAM,KAAK,GAAG;QACZ,GAAG,CAAC,CAAA,MAAA,OAAO,CAAC,uBAAuB,wDAAG,SAAS,CAAC,KAAI,EAAE,CAAC;QACvD,GAAG,KAAK,CAAC,cAAc,EAAE;KAC1B,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,CAAC,CAAA;IAEvD,OAAO,CACL,oBAAC,KAAK,IAAC,GAAG,EAAE,GAAG,EAAE,SAAS,EAAE,EAAE,CAAC,SAAS,EAAE,OAAO,CAAC,IAAI,CAAC;QACrD,8BACE,SAAS,QACT,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,MAAM,MAAM,GAAG,KAAK,CAAC,aAAa,CAAA;gBAClC,IAAI,MAAM,CAAC,UAAU,EAAE;oBACrB,MAAM,MAAM,GAAG,MAAM,CAAC,UAAyB,CAAA;oBAC/C,KAAK,CAAC,YAAY,CAAC,YAAY,CAAC,MAAM,EAAE,EAAE,EAAE,EAAE,CAAC,CAAA;oBAC/C,IAAI,CAAC,kBAAkB,CAAC,KAAK,CAAC,EAAE,CAAC,CAAA;iBAClC;YACH,CAAC,EACD,SAAS,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,kBAAkB,CAAC,SAAS,CAAC,iBACtC,cAAc,IAAI,CAAC,EAAE,IAAI,OAAO,EAAE;YAE/C,oBAAC,QAAQ,IAAC,SAAS,EAAE,OAAO,CAAC,cAAc,EAAE,QAAQ,EAAC,OAAO,GAAG,CAC3D;QACP,oBAAC,UAAU,IACT,OAAO,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,SAAS,CAAC,OAAO,CAAC,EACtC,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,KAAK,EAAC,kBAAkB,EACxB,KAAK,EAAC,WAAW;YAEjB,oBAAC,SAAS,IAAC,QAAQ,EAAC,OAAO,GAAG,CACnB;QACb,oBAAC,UAAU,IACT,OAAO,EAAC,OAAO,EACf,SAAS,EAAC,MAAM,EAChB,SAAS,EAAE,OAAO,CAAC,SAAS,IAE3B,SAAS,CACC;QACb,oBAAC,UAAU,OACL,WAAW,CAAC,UAAU,CAAC,EAC3B,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,KAAK,EAAC,WAAW,iBACL,iBAAiB,EAC7B,QAAQ,EAAE,CAAC,KAAK,CAAC,MAAM;YAEvB,oBAAC,YAAY,IAAC,QAAQ,EAAC,OAAO,GAAG,CACtB;QACb,oBAAC,aAAa,OACR,WAAW,CAAC,UAAU,CAAC,EAC3B,eAAe,EAAE,CAAC,CAAU,EAAE,QAAkB,EAAE,EAAE,CAAC,QAAQ,EAAE,EAC/D,SAAS,EAAE,KAAK,EAChB,UAAU,EAAE,UAAU,GACtB,CACI,CACT,CAAA;AACH,CAAC,CACF,CAAA;AAED,eAAe,QAAQ,CAAC,UAAU,CAAC,CAAA"}
package/esm/index.d.ts CHANGED
@@ -150,7 +150,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
150
150
  readonly adapterConfig: any;
151
151
  readonly parentTrack: any;
152
152
  renderProps(): any;
153
- readonly rendererType: any;
153
+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
154
154
  readonly DisplayMessageComponent: import("react").FC<any> | undefined;
155
155
  trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
156
156
  readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
@@ -328,7 +328,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
328
328
  readonly adapterConfig: any;
329
329
  readonly parentTrack: any;
330
330
  renderProps(): any;
331
- readonly rendererType: any;
331
+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
332
332
  readonly DisplayMessageComponent: import("react").FC<any> | undefined;
333
333
  trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
334
334
  readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
@@ -516,7 +516,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
516
516
  readonly adapterConfig: any;
517
517
  readonly parentTrack: any;
518
518
  renderProps(): any;
519
- readonly rendererType: any;
519
+ readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
520
520
  readonly DisplayMessageComponent: import("react").FC<any> | undefined;
521
521
  trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
522
522
  readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@jbrowse/plugin-linear-genome-view",
3
- "version": "2.1.5",
3
+ "version": "2.1.7",
4
4
  "description": "JBrowse 2 linear genome view",
5
5
  "keywords": [
6
6
  "jbrowse",
@@ -65,5 +65,5 @@
65
65
  "access": "public"
66
66
  },
67
67
  "module": "esm/index.js",
68
- "gitHead": "bc5253ecdddeceeb999fffebf6dc6cf5f444e1c9"
68
+ "gitHead": "a1344081f61e22e0f597517efa7386023eef9f33"
69
69
  }
package/src/LinearGenomeView/components/OverviewScaleBar.tsx CHANGED
@@ -2,7 +2,6 @@ import React from 'react'
2
2
  import { Typography, useTheme, alpha } from '@mui/material'
3
3
  import { makeStyles } from 'tss-react/mui'
4
4
  import { observer } from 'mobx-react'
5
- import { Instance } from 'mobx-state-tree'
6
5
 
7
6
  import Base1DView, { Base1DViewModel } from '@jbrowse/core/util/Base1DViewModel'
8
7
  import { getSession, getTickDisplayStr } from '@jbrowse/core/util'
@@ -79,7 +78,7 @@ const Polygon = observer(
79
78
  useOffset = true,
80
79
  }: {
81
80
  model: LGV
82
- overview: Instance<Base1DViewModel>
81
+ overview: Base1DViewModel
83
82
  useOffset?: boolean
84
83
  }) => {
85
84
  const theme = useTheme()
@@ -305,7 +304,7 @@ const OverviewBox = observer(
305
304
  overview: Base1DViewModel
306
305
  }) => {
307
306
  const { classes, cx } = useStyles()
308
- const { cytobandOffset, bpPerPx, showCytobands } = model
307
+ const { cytobandOffset, showCytobands } = model
309
308
  const { start, end, reversed, refName, assemblyName } = block
310
309
  const { majorPitch } = chooseGridPitch(scale, 120, 15)
311
310
  const { assemblyManager } = getSession(model)
@@ -361,7 +360,7 @@ const OverviewBox = observer(
361
360
  color: refNameColor,
362
361
  }}
363
362
  >
364
- {getTickDisplayStr(tickLabel, bpPerPx)}
363
+ {getTickDisplayStr(tickLabel, overview.bpPerPx)}
365
364
  </Typography>
366
365
  ))
367
366
  : null}
package/src/LinearGenomeView/components/SearchResultsDialog.tsx CHANGED
@@ -1,7 +1,7 @@
1
1
  import React from 'react'
2
2
  import { makeStyles } from 'tss-react/mui'
3
- import { getEnv, resolveIdentifier, getRoot } from 'mobx-state-tree'
4
- import { getSession } from '@jbrowse/core/util'
3
+ import { resolveIdentifier, getRoot } from 'mobx-state-tree'
4
+ import { getSession, getEnv } from '@jbrowse/core/util'
5
5
  import {
6
6
  Button,
7
7
  Dialog,
@@ -84,15 +84,9 @@ export default function SearchResultsDialog({
84
84
 
85
85
  function getTrackName(trackId: string | undefined) {
86
86
  if (trackId) {
87
- const trackConfigSchema = pluginManager.pluggableConfigSchemaType('track')
88
- const configuration = resolveIdentifier(
89
- trackConfigSchema,
90
- getRoot(model),
91
- trackId,
92
- )
93
- if (configuration) {
94
- return configuration.name?.value
95
- }
87
+ const schema = pluginManager.pluggableConfigSchemaType('track')
88
+ const configuration = resolveIdentifier(schema, getRoot(model), trackId)
89
+ return configuration?.name?.value || ''
96
90
  }
97
91
  return ''
98
92
  }
package/src/LinearGenomeView/components/TrackLabel.tsx CHANGED
@@ -1,16 +1,12 @@
1
1
  import React from 'react'
2
+ import { IconButton, Paper, Typography, alpha } from '@mui/material'
3
+ import { makeStyles } from 'tss-react/mui'
2
4
  import { observer } from 'mobx-react'
3
- import { Instance } from 'mobx-state-tree'
4
- import {
5
- AnyConfigurationModel,
6
- getConf,
7
- readConfObject,
8
- } from '@jbrowse/core/configuration'
5
+ import { getConf } from '@jbrowse/core/configuration'
9
6
  import CascadingMenu from '@jbrowse/core/ui/CascadingMenu'
10
7
  import { getSession, getContainingView } from '@jbrowse/core/util'
8
+ import { getTrackName } from '@jbrowse/core/util/tracks'
11
9
  import { BaseTrackModel } from '@jbrowse/core/pluggableElementTypes/models'
12
- import { IconButton, Paper, Typography, alpha } from '@mui/material'
13
- import { makeStyles } from 'tss-react/mui'
14
10
 
15
11
  import {
16
12
  bindTrigger,
@@ -23,7 +19,7 @@ import MoreVertIcon from '@mui/icons-material/MoreVert'
23
19
  import DragIcon from '@mui/icons-material/DragIndicator'
24
20
  import CloseIcon from '@mui/icons-material/Close'
25
21
 
26
- import { LinearGenomeViewStateModel } from '..'
22
+ import { LinearGenomeViewModel } from '..'
27
23
 
28
24
  const useStyles = makeStyles()(theme => ({
29
25
  root: {
@@ -55,28 +51,13 @@ const useStyles = makeStyles()(theme => ({
55
51
  },
56
52
  }))
57
53
 
58
- type LGV = Instance<LinearGenomeViewStateModel>
54
+ type LGV = LinearGenomeViewModel
59
55
 
60
56
  interface Props {
61
57
  track: BaseTrackModel
62
58
  className?: string
63
59
  }
64
60
 
65
- function getTrackName(
66
- track: BaseTrackModel,
67
- session: { assemblies: AnyConfigurationModel[] },
68
- ) {
69
- const trackName = getConf(track, 'name')
70
- if (!trackName && getConf(track, 'type') === 'ReferenceSequenceTrack') {
71
- const asm = session.assemblies.find(a => a.sequence === track.configuration)
72
- return asm
73
- ? `Reference Sequence (${
74
- readConfObject(asm, 'displayName') || readConfObject(asm, 'name')
75
- })`
76
- : 'Reference Sequence'
77
- }
78
- return trackName
79
- }
80
61
  const TrackLabel = React.forwardRef<HTMLDivElement, Props>(
81
62
  ({ track, className }, ref) => {
82
63
  const { classes, cx } = useStyles()
@@ -84,22 +65,13 @@ const TrackLabel = React.forwardRef<HTMLDivElement, Props>(
84
65
  const session = getSession(track)
85
66
  const trackConf = track.configuration
86
67
  const trackId = getConf(track, 'trackId')
87
- const trackName = getTrackName(track, session)
68
+ const trackName = getTrackName(trackConf, session)
88
69
 
89
70
  const popupState = usePopupState({
90
71
  popupId: 'trackLabelMenu',
91
72
  variant: 'popover',
92
73
  })
93
74
 
94
- const onDragStart = (event: React.DragEvent<HTMLSpanElement>) => {
95
- const target = event.currentTarget
96
- if (target.parentNode) {
97
- const parent = target.parentNode as HTMLElement
98
- event.dataTransfer.setDragImage(parent, 20, 20)
99
- view.setDraggingTrackId(track.id)
100
- }
101
- }
102
-
103
75
  const items = [
104
76
  ...(session.getTrackActionMenuItems?.(trackConf) || []),
105
77
  ...track.trackMenuItems(),
@@ -110,7 +82,14 @@ const TrackLabel = React.forwardRef<HTMLDivElement, Props>(
110
82
  <span
111
83
  draggable
112
84
  className={classes.dragHandle}
113
- onDragStart={onDragStart}
85
+ onDragStart={event => {
86
+ const target = event.currentTarget
87
+ if (target.parentNode) {
88
+ const parent = target.parentNode as HTMLElement
89
+ event.dataTransfer.setDragImage(parent, 20, 20)
90
+ view.setDraggingTrackId(track.id)
91
+ }
92
+ }}
114
93
  onDragEnd={() => view.setDraggingTrackId(undefined)}
115
94
  data-testid={`dragHandle-${view.id}-${trackId}`}
116
95
  >