@jbrowse/plugin-breakpoint-split-view 3.6.5 → 4.0.0

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.
Files changed (99) hide show
  1. package/esm/BreakpointAlignmentsFeatureDetail/BreakpointAlignmentsFeatureDetail.js +1 -1
  2. package/esm/BreakpointAlignmentsFeatureDetail/index.js +2 -2
  3. package/esm/BreakpointGetFeatures/BreakpointGetFeatures.d.ts +51 -0
  4. package/esm/BreakpointGetFeatures/BreakpointGetFeatures.js +57 -0
  5. package/esm/BreakpointGetFeatures/index.d.ts +2 -0
  6. package/esm/BreakpointGetFeatures/index.js +4 -0
  7. package/esm/BreakpointSplitView/BreakpointSplitView.js +33 -47
  8. package/esm/BreakpointSplitView/components/AlignmentConnections.d.ts +2 -7
  9. package/esm/BreakpointSplitView/components/AlignmentConnections.js +20 -25
  10. package/esm/BreakpointSplitView/components/Breakends.d.ts +2 -7
  11. package/esm/BreakpointSplitView/components/Breakends.js +28 -59
  12. package/esm/BreakpointSplitView/components/BreakpointSplitView.d.ts +1 -1
  13. package/esm/BreakpointSplitView/components/BreakpointSplitView.js +19 -5
  14. package/esm/BreakpointSplitView/components/BreakpointSplitViewOverlay.d.ts +1 -1
  15. package/esm/BreakpointSplitView/components/BreakpointSplitViewOverlay.js +3 -3
  16. package/esm/BreakpointSplitView/components/ExportSvgDialog.d.ts +1 -1
  17. package/esm/BreakpointSplitView/components/ExportSvgDialog.js +5 -1
  18. package/esm/BreakpointSplitView/components/Header.d.ts +5 -0
  19. package/esm/BreakpointSplitView/components/Header.js +47 -0
  20. package/esm/BreakpointSplitView/components/HeaderSearchBoxes.d.ts +5 -0
  21. package/esm/BreakpointSplitView/components/HeaderSearchBoxes.js +22 -0
  22. package/esm/BreakpointSplitView/components/Overlay.d.ts +1 -1
  23. package/esm/BreakpointSplitView/components/Overlay.js +8 -11
  24. package/esm/BreakpointSplitView/components/PairedFeatures.d.ts +2 -7
  25. package/esm/BreakpointSplitView/components/PairedFeatures.js +22 -47
  26. package/esm/BreakpointSplitView/components/Rubberband.d.ts +6 -0
  27. package/esm/BreakpointSplitView/components/Rubberband.js +27 -0
  28. package/esm/BreakpointSplitView/components/RubberbandSpan.d.ts +15 -0
  29. package/esm/BreakpointSplitView/components/RubberbandSpan.js +30 -0
  30. package/esm/BreakpointSplitView/components/RubberbandTooltip.d.ts +5 -0
  31. package/esm/BreakpointSplitView/components/RubberbandTooltip.js +17 -0
  32. package/esm/BreakpointSplitView/components/Translocations.d.ts +2 -7
  33. package/esm/BreakpointSplitView/components/Translocations.js +23 -58
  34. package/esm/BreakpointSplitView/components/VerticalGuide.d.ts +6 -0
  35. package/esm/BreakpointSplitView/components/VerticalGuide.js +24 -0
  36. package/esm/BreakpointSplitView/components/overlayUtils.d.ts +24 -0
  37. package/esm/BreakpointSplitView/components/overlayUtils.js +47 -0
  38. package/esm/BreakpointSplitView/components/rubberbandUtil.d.ts +4 -0
  39. package/esm/BreakpointSplitView/components/rubberbandUtil.js +3 -0
  40. package/esm/BreakpointSplitView/components/useRangeSelect.d.ts +59 -0
  41. package/esm/BreakpointSplitView/components/useRangeSelect.js +121 -0
  42. package/esm/BreakpointSplitView/components/util.js +1 -2
  43. package/esm/BreakpointSplitView/getClip.js +4 -4
  44. package/esm/BreakpointSplitView/index.js +2 -2
  45. package/esm/BreakpointSplitView/model.d.ts +403 -116
  46. package/esm/BreakpointSplitView/model.js +117 -41
  47. package/esm/BreakpointSplitView/svgcomponents/SVGBreakpointSplitView.d.ts +2 -2
  48. package/esm/BreakpointSplitView/svgcomponents/SVGBreakpointSplitView.js +8 -8
  49. package/esm/BreakpointSplitView/types.d.ts +8 -0
  50. package/esm/BreakpointSplitView/util.d.ts +1 -1
  51. package/esm/BreakpointSplitView/util.js +8 -17
  52. package/esm/LaunchBreakpointSplitView/index.d.ts +2 -0
  53. package/esm/LaunchBreakpointSplitView/index.js +12 -0
  54. package/esm/index.js +7 -6
  55. package/package.json +28 -34
  56. package/dist/BreakpointAlignmentsFeatureDetail/BreakpointAlignmentsFeatureDetail.d.ts +0 -10
  57. package/dist/BreakpointAlignmentsFeatureDetail/BreakpointAlignmentsFeatureDetail.js +0 -12
  58. package/dist/BreakpointAlignmentsFeatureDetail/index.d.ts +0 -2
  59. package/dist/BreakpointAlignmentsFeatureDetail/index.js +0 -67
  60. package/dist/BreakpointSplitView/BreakpointSplitView.d.ts +0 -34
  61. package/dist/BreakpointSplitView/BreakpointSplitView.js +0 -84
  62. package/dist/BreakpointSplitView/components/AlignmentConnections.d.ts +0 -8
  63. package/dist/BreakpointSplitView/components/AlignmentConnections.js +0 -133
  64. package/dist/BreakpointSplitView/components/Breakends.d.ts +0 -8
  65. package/dist/BreakpointSplitView/components/Breakends.js +0 -95
  66. package/dist/BreakpointSplitView/components/BreakpointSplitView.d.ts +0 -5
  67. package/dist/BreakpointSplitView/components/BreakpointSplitView.js +0 -45
  68. package/dist/BreakpointSplitView/components/BreakpointSplitViewOverlay.d.ts +0 -5
  69. package/dist/BreakpointSplitView/components/BreakpointSplitViewOverlay.js +0 -33
  70. package/dist/BreakpointSplitView/components/ExportSvgDialog.d.ts +0 -7
  71. package/dist/BreakpointSplitView/components/ExportSvgDialog.js +0 -57
  72. package/dist/BreakpointSplitView/components/Overlay.d.ts +0 -8
  73. package/dist/BreakpointSplitView/components/Overlay.js +0 -27
  74. package/dist/BreakpointSplitView/components/PairedFeatures.d.ts +0 -8
  75. package/dist/BreakpointSplitView/components/PairedFeatures.js +0 -75
  76. package/dist/BreakpointSplitView/components/Translocations.d.ts +0 -8
  77. package/dist/BreakpointSplitView/components/Translocations.js +0 -99
  78. package/dist/BreakpointSplitView/components/getOrientationColor.d.ts +0 -41
  79. package/dist/BreakpointSplitView/components/getOrientationColor.js +0 -103
  80. package/dist/BreakpointSplitView/components/util.d.ts +0 -8
  81. package/dist/BreakpointSplitView/components/util.js +0 -142
  82. package/dist/BreakpointSplitView/getClip.d.ts +0 -1
  83. package/dist/BreakpointSplitView/getClip.js +0 -10
  84. package/dist/BreakpointSplitView/index.d.ts +0 -2
  85. package/dist/BreakpointSplitView/index.js +0 -52
  86. package/dist/BreakpointSplitView/model.d.ts +0 -342
  87. package/dist/BreakpointSplitView/model.js +0 -244
  88. package/dist/BreakpointSplitView/svgcomponents/SVGBackground.d.ts +0 -5
  89. package/dist/BreakpointSplitView/svgcomponents/SVGBackground.js +0 -10
  90. package/dist/BreakpointSplitView/svgcomponents/SVGBreakpointSplitView.d.ts +0 -5
  91. package/dist/BreakpointSplitView/svgcomponents/SVGBreakpointSplitView.js +0 -41
  92. package/dist/BreakpointSplitView/svgcomponents/util.d.ts +0 -4
  93. package/dist/BreakpointSplitView/svgcomponents/util.js +0 -18
  94. package/dist/BreakpointSplitView/types.d.ts +0 -22
  95. package/dist/BreakpointSplitView/types.js +0 -2
  96. package/dist/BreakpointSplitView/util.d.ts +0 -28
  97. package/dist/BreakpointSplitView/util.js +0 -67
  98. package/dist/index.d.ts +0 -7
  99. package/dist/index.js +0 -20
@@ -1,41 +1,42 @@
1
- import type { ExportSvgOptions } from './types';
1
+ import type { BreakpointSplitViewInit, ExportSvgOptions } from './types.ts';
2
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  import type PluginManager from '@jbrowse/core/PluginManager';
3
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  import type { Feature } from '@jbrowse/core/util';
4
- import type { Instance } from 'mobx-state-tree';
5
- export default function stateModelFactory(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
6
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
7
- displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
8
- minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
4
+ import type { Instance } from '@jbrowse/mobx-state-tree';
5
+ export default function stateModelFactory(pluginManager: PluginManager): import("@jbrowse/mobx-state-tree").IModelType<{
6
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
7
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
8
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
9
9
  } & {
10
- type: import("mobx-state-tree").ISimpleType<"BreakpointSplitView">;
11
- height: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
12
- trackSelectorType: import("mobx-state-tree").IType<string | undefined, string, string>;
13
- showIntraviewLinks: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
14
- linkViews: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
15
- interactiveOverlay: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
16
- views: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
17
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
18
- displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
19
- minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
20
- } & {
21
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
22
- type: import("mobx-state-tree").IType<string | undefined, string, string>;
23
- offsetPx: import("mobx-state-tree").IType<number | undefined, number, number>;
24
- bpPerPx: import("mobx-state-tree").IType<number | undefined, number, number>;
25
- displayedRegions: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
26
- tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
27
- hideHeader: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
28
- hideHeaderOverview: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
29
- hideNoTracksActive: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
30
- trackSelectorType: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
31
- showCenterLine: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
32
- showCytobandsSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
33
- trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
34
- showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
35
- highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType>>, [undefined]>;
36
- colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
37
- showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
38
- init: import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined>;
10
+ type: import("@jbrowse/mobx-state-tree").ISimpleType<"BreakpointSplitView">;
11
+ height: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
12
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
13
+ showIntraviewLinks: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
14
+ linkViews: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
15
+ interactiveOverlay: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
16
+ showHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
17
+ views: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IModelType<{
18
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
19
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
20
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
21
+ } & {
22
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
23
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
24
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
25
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
26
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
27
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
28
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
29
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
30
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
31
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
32
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
33
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
34
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
35
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
36
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
37
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
38
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
39
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
39
40
  }, {
40
41
  width: number;
41
42
  } & {
@@ -48,14 +49,14 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
48
49
  volatileWidth: number | undefined;
49
50
  minimumBlockWidth: number;
50
51
  draggingTrackId: undefined | string;
52
+ lastTrackDragY: undefined | number;
51
53
  volatileError: unknown;
52
- afterDisplayedRegionsSetCallbacks: (() => void)[];
53
54
  scaleFactor: number;
54
55
  trackRefs: Record<string, HTMLDivElement>;
55
56
  coarseDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
56
57
  coarseTotalBp: number;
57
- leftOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset;
58
- rightOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset;
58
+ leftOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
59
+ rightOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
59
60
  } & {
60
61
  readonly pinnedTracks: any[];
61
62
  readonly unpinnedTracks: any[];
@@ -69,7 +70,7 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
69
70
  readonly rubberbandTop: number;
70
71
  readonly pinnedTracksTop: number;
71
72
  } & {
72
- scaleBarDisplayPrefix(): string | undefined;
73
+ scalebarDisplayPrefix(): string | undefined;
73
74
  MiniControlsComponent(): React.FC<any>;
74
75
  HeaderComponent(): React.FC<any>;
75
76
  readonly assembliesNotFound: string | undefined;
@@ -77,7 +78,11 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
77
78
  readonly assembliesInitialized: boolean;
78
79
  readonly initialized: boolean;
79
80
  readonly hasDisplayedRegions: boolean;
80
- readonly scaleBarHeight: number;
81
+ readonly loadingMessage: "Loading" | undefined;
82
+ readonly hasSomethingToShow: boolean;
83
+ readonly showLoading: boolean;
84
+ readonly showImportForm: boolean;
85
+ readonly scalebarHeight: number;
81
86
  readonly headerHeight: number;
82
87
  readonly trackHeights: number;
83
88
  readonly trackHeightsWithResizeHandles: number;
@@ -93,11 +98,11 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
93
98
  searchScope(assemblyName: string): {
94
99
  assemblyName: string;
95
100
  includeAggregateIndexes: boolean;
96
- tracks: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>>;
101
+ tracks: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IAnyType> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>>;
97
102
  };
103
+ readonly trackMap: Map<any, any>;
98
104
  getTrack(id: string): any;
99
105
  rankSearchResults(results: import("@jbrowse/core/TextSearch/BaseResults").default[]): import("@jbrowse/core/TextSearch/BaseResults").default[];
100
- rewriteOnClicks(trackType: string, viewMenuActions: import("@jbrowse/core/ui").MenuItem[]): void;
101
106
  readonly trackTypeActions: Map<string, import("@jbrowse/core/ui").MenuItem[]>;
102
107
  } & {
103
108
  setShowTrackOutlines(arg: boolean): void;
@@ -109,52 +114,44 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
109
114
  setHideHeaderOverview(b: boolean): void;
110
115
  setHideNoTracksActive(b: boolean): void;
111
116
  setShowGridlines(b: boolean): void;
112
- addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType): void;
113
- setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType[]): void;
114
- removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType): void;
117
+ addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
118
+ setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType[]): void;
119
+ removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
115
120
  scrollTo(offsetPx: number): number;
116
121
  zoomTo(bpPerPx: number, offset?: number, centerAtOffset?: boolean): number;
117
- setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): void;
122
+ setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
118
123
  setSearchResults(searchResults: import("@jbrowse/core/TextSearch/BaseResults").default[], searchQuery: string, assemblyName?: string): void;
119
124
  setNewView(bpPerPx: number, offsetPx: number): void;
120
125
  horizontallyFlip(): void;
121
126
  showTrack(trackId: string, initialSnapshot?: {}, displayInitialSnapshot?: {}): any;
122
- hideTrack(trackId: string): number;
127
+ hideTrack(trackId: string): 0 | 1;
123
128
  } & {
124
129
  moveTrackDown(id: string): void;
125
130
  moveTrackUp(id: string): void;
126
131
  moveTrackToTop(id: string): void;
127
132
  moveTrackToBottom(id: string): void;
128
133
  moveTrack(movingId: string, targetId: string): void;
129
- toggleTrack(trackId: string): boolean;
134
+ toggleTrack(trackId: string): void;
130
135
  setTrackLabels(setting: "overlapping" | "offset" | "hidden"): void;
131
136
  setShowCenterLine(b: boolean): void;
132
137
  setDisplayedRegions(regions: import("@jbrowse/core/util").Region[]): void;
133
138
  activateTrackSelector(): import("@jbrowse/core/util").Widget;
134
- getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): {
139
+ getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): {
140
+ assemblyName: string;
141
+ refName: string;
135
142
  start: number;
136
143
  end: number;
137
- type: string;
138
- regionNumber?: number;
139
- reversed?: boolean;
140
- refName: string;
141
- assemblyName: string;
142
- key: string;
143
- offsetPx: number;
144
- widthPx: number;
145
- variant?: string;
146
- isLeftEndOfDisplayedRegion?: boolean;
147
144
  }[];
148
- afterDisplayedRegionsSet(cb: () => void): void;
149
145
  horizontalScroll(distance: number): number;
150
146
  center(): void;
151
147
  showAllRegions(): void;
152
148
  showAllRegionsInAssembly(assemblyName?: string): void;
153
149
  setDraggingTrackId(idx?: string): void;
150
+ setLastTrackDragY(y: number): void;
154
151
  setScaleFactor(factor: number): void;
155
152
  clearView(): void;
156
- setInit(arg?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState): void;
157
- exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").ExportSvgOptions): Promise<void>;
153
+ setInit(arg?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState): void;
154
+ exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").ExportSvgOptions): Promise<void>;
158
155
  } & {
159
156
  slide: (viewWidths: number) => void;
160
157
  } & {
@@ -172,10 +169,11 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
172
169
  readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
173
170
  readonly visibleLocStrings: string;
174
171
  readonly coarseVisibleLocStrings: string;
172
+ readonly coarseTotalBpDisplayStr: string;
175
173
  } & {
176
174
  setCoarseDynamicBlocks(blocks: import("@jbrowse/core/util/blockTypes").BlockSet): void;
177
175
  } & {
178
- moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): void;
176
+ moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
179
177
  navToLocString(input: string, optAssemblyName?: string, grow?: number): Promise<void>;
180
178
  navToSearchString({ input, assembly, }: {
181
179
  input: string;
@@ -183,8 +181,8 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
183
181
  }): Promise<void>;
184
182
  navToLocation(parsedLocString: import("@jbrowse/core/util").ParsedLocString, assemblyName?: string, grow?: number): Promise<void>;
185
183
  navToLocations(regions: import("@jbrowse/core/util").ParsedLocString[], assemblyName?: string, grow?: number): Promise<void>;
186
- navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").NavLocation): void;
187
- navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").NavLocation[]): void;
184
+ navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation): void;
185
+ navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation[]): void;
188
186
  } & {
189
187
  rubberBandMenuItems(): import("@jbrowse/core/ui").MenuItem[];
190
188
  bpToPx({ refName, coord, regionNumber, }: {
@@ -218,53 +216,60 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
218
216
  end: number;
219
217
  reversed?: boolean;
220
218
  } | undefined;
219
+ readonly visibleRegions: import("@jbrowse/core/util/blockTypes").BaseBlock[];
220
+ } & {
221
+ rubberbandClickMenuItems(clickOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): import("@jbrowse/core/ui").MenuItem[];
221
222
  } & {
222
223
  afterCreate(): void;
223
224
  afterAttach(): void;
224
- }, import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
225
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
226
- displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
227
- minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
228
- } & {
229
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
230
- type: import("mobx-state-tree").IType<string | undefined, string, string>;
231
- offsetPx: import("mobx-state-tree").IType<number | undefined, number, number>;
232
- bpPerPx: import("mobx-state-tree").IType<number | undefined, number, number>;
233
- displayedRegions: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
234
- tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
235
- hideHeader: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
236
- hideHeaderOverview: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
237
- hideNoTracksActive: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
238
- trackSelectorType: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
239
- showCenterLine: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
240
- showCytobandsSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
241
- trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
242
- showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
243
- highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType>>, [undefined]>;
244
- colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
245
- showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
246
- init: import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined>;
247
- }>>, {
248
- id: string;
249
- type: string;
250
- displayName: string | undefined;
251
- tracks: any[];
252
- minimized: boolean;
253
- offsetPx: number;
254
- bpPerPx: number;
255
- displayedRegions: import("@jbrowse/core/util").Region[];
256
- hideHeader: boolean;
257
- hideHeaderOverview: boolean;
258
- hideNoTracksActive: boolean;
259
- trackSelectorType: string;
260
- showCenterLine: boolean;
261
- showCytobandsSetting: boolean;
262
- trackLabels: string;
263
- showGridlines: boolean;
264
- highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType[];
265
- colorByCDS: boolean;
266
- showTrackOutlines: boolean;
267
- }>>;
225
+ }, import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
226
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
227
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
228
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
229
+ } & {
230
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
231
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
232
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
233
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
234
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
235
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
236
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
237
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
238
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
239
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
240
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
241
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
242
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
243
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
244
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
245
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
246
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
247
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
248
+ }>>, import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
249
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
250
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
251
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
252
+ } & {
253
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
254
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
255
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
256
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
257
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
258
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
259
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
260
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
261
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
262
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
263
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
264
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
265
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
266
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
267
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
268
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
269
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
270
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
271
+ }>>>;
272
+ init: import("@jbrowse/mobx-state-tree").IType<BreakpointSplitViewInit | undefined, BreakpointSplitViewInit | undefined, BreakpointSplitViewInit | undefined>;
268
273
  }, {
269
274
  width: number;
270
275
  } & {
@@ -276,33 +281,43 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
276
281
  } & {
277
282
  width: number;
278
283
  matchedTrackFeatures: Record<string, Feature[][]>;
284
+ } & {
285
+ readonly hasSomethingToShow: boolean;
286
+ readonly initialized: boolean;
287
+ readonly showImportForm: boolean;
279
288
  } & {
280
289
  exportSvg(opts?: ExportSvgOptions): Promise<void>;
281
290
  } & {
282
- readonly matchedTracks: (import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>>) | {
291
+ readonly matchedTracks: (import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IAnyType> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>>) | {
283
292
  configuration: {
284
293
  trackId: string;
285
294
  };
286
295
  }[];
287
296
  getMatchedTracks(trackConfigId: string): any[];
288
- hasTranslocations(trackConfigId: string): Feature | undefined;
289
- hasPairedFeatures(trackConfigId: string): Feature | undefined;
297
+ hasTranslocations(trackConfigId: string): boolean;
298
+ hasPairedFeatures(trackConfigId: string): boolean;
290
299
  getTrackFeatures(trackConfigId: string): Map<string, Feature>;
291
300
  getMatchedFeaturesInLayout(trackConfigId: string, features: Feature[][]): {
292
301
  feature: Feature;
293
- layout: import("./types").LayoutRecord | undefined;
302
+ layout: import("./types.ts").LayoutRecord;
294
303
  level: number;
295
- clipPos: number;
304
+ clipLengthAtStartOfRead: any;
296
305
  }[][];
297
306
  } & {
298
307
  afterAttach(): void;
299
- onSubviewAction(actionName: string, path: string, args?: unknown[]): void;
300
308
  setWidth(newWidth: number): void;
301
309
  setInteractiveOverlay(arg: boolean): void;
302
310
  setShowIntraviewLinks(arg: boolean): void;
303
311
  setLinkViews(arg: boolean): void;
312
+ setShowHeader(arg: boolean): void;
304
313
  setMatchedTrackFeatures(obj: Record<string, Feature[][]>): void;
305
314
  reverseViewOrder(): void;
315
+ setInit(init?: BreakpointSplitViewInit): void;
316
+ setViews(viewInits: {
317
+ loc?: string;
318
+ assembly: string;
319
+ tracks?: string[];
320
+ }[]): void;
306
321
  } & {
307
322
  afterAttach(): void;
308
323
  menuItems(): ({
@@ -337,6 +352,278 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
337
352
  type?: undefined;
338
353
  checked?: undefined;
339
354
  })[];
340
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
355
+ rubberBandMenuItems(): {
356
+ label: string;
357
+ onClick: () => void;
358
+ }[];
359
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
360
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
361
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
362
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
363
+ } & {
364
+ type: import("@jbrowse/mobx-state-tree").ISimpleType<"BreakpointSplitView">;
365
+ height: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
366
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
367
+ showIntraviewLinks: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
368
+ linkViews: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
369
+ interactiveOverlay: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
370
+ showHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
371
+ views: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IModelType<{
372
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
373
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
374
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
375
+ } & {
376
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
377
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
378
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
379
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
380
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
381
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
382
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
383
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
384
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
385
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
386
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
387
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
388
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
389
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
390
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
391
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
392
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
393
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
394
+ }, {
395
+ width: number;
396
+ } & {
397
+ menuItems(): import("@jbrowse/core/ui").MenuItem[];
398
+ } & {
399
+ setDisplayName(name: string): void;
400
+ setWidth(newWidth: number): void;
401
+ setMinimized(flag: boolean): void;
402
+ } & {
403
+ volatileWidth: number | undefined;
404
+ minimumBlockWidth: number;
405
+ draggingTrackId: undefined | string;
406
+ lastTrackDragY: undefined | number;
407
+ volatileError: unknown;
408
+ scaleFactor: number;
409
+ trackRefs: Record<string, HTMLDivElement>;
410
+ coarseDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
411
+ coarseTotalBp: number;
412
+ leftOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
413
+ rightOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
414
+ } & {
415
+ readonly pinnedTracks: any[];
416
+ readonly unpinnedTracks: any[];
417
+ readonly trackLabelsSetting: any;
418
+ readonly width: number;
419
+ readonly interRegionPaddingWidth: number;
420
+ readonly assemblyNames: string[];
421
+ readonly assemblyDisplayNames: string[];
422
+ readonly isTopLevelView: boolean;
423
+ readonly stickyViewHeaders: boolean;
424
+ readonly rubberbandTop: number;
425
+ readonly pinnedTracksTop: number;
426
+ } & {
427
+ scalebarDisplayPrefix(): string | undefined;
428
+ MiniControlsComponent(): React.FC<any>;
429
+ HeaderComponent(): React.FC<any>;
430
+ readonly assembliesNotFound: string | undefined;
431
+ readonly assemblyErrors: string;
432
+ readonly assembliesInitialized: boolean;
433
+ readonly initialized: boolean;
434
+ readonly hasDisplayedRegions: boolean;
435
+ readonly loadingMessage: "Loading" | undefined;
436
+ readonly hasSomethingToShow: boolean;
437
+ readonly showLoading: boolean;
438
+ readonly showImportForm: boolean;
439
+ readonly scalebarHeight: number;
440
+ readonly headerHeight: number;
441
+ readonly trackHeights: number;
442
+ readonly trackHeightsWithResizeHandles: number;
443
+ readonly height: number;
444
+ readonly totalBp: number;
445
+ readonly maxBpPerPx: number;
446
+ readonly minBpPerPx: number;
447
+ readonly error: unknown;
448
+ readonly maxOffset: number;
449
+ readonly minOffset: number;
450
+ readonly displayedRegionsTotalPx: number;
451
+ renderProps(): any;
452
+ searchScope(assemblyName: string): {
453
+ assemblyName: string;
454
+ includeAggregateIndexes: boolean;
455
+ tracks: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IAnyType> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>>;
456
+ };
457
+ readonly trackMap: Map<any, any>;
458
+ getTrack(id: string): any;
459
+ rankSearchResults(results: import("@jbrowse/core/TextSearch/BaseResults").default[]): import("@jbrowse/core/TextSearch/BaseResults").default[];
460
+ readonly trackTypeActions: Map<string, import("@jbrowse/core/ui").MenuItem[]>;
461
+ } & {
462
+ setShowTrackOutlines(arg: boolean): void;
463
+ setColorByCDS(flag: boolean): void;
464
+ setShowCytobands(flag: boolean): void;
465
+ setWidth(newWidth: number): void;
466
+ setError(error: unknown): void;
467
+ setHideHeader(b: boolean): void;
468
+ setHideHeaderOverview(b: boolean): void;
469
+ setHideNoTracksActive(b: boolean): void;
470
+ setShowGridlines(b: boolean): void;
471
+ addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
472
+ setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType[]): void;
473
+ removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
474
+ scrollTo(offsetPx: number): number;
475
+ zoomTo(bpPerPx: number, offset?: number, centerAtOffset?: boolean): number;
476
+ setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
477
+ setSearchResults(searchResults: import("@jbrowse/core/TextSearch/BaseResults").default[], searchQuery: string, assemblyName?: string): void;
478
+ setNewView(bpPerPx: number, offsetPx: number): void;
479
+ horizontallyFlip(): void;
480
+ showTrack(trackId: string, initialSnapshot?: {}, displayInitialSnapshot?: {}): any;
481
+ hideTrack(trackId: string): 0 | 1;
482
+ } & {
483
+ moveTrackDown(id: string): void;
484
+ moveTrackUp(id: string): void;
485
+ moveTrackToTop(id: string): void;
486
+ moveTrackToBottom(id: string): void;
487
+ moveTrack(movingId: string, targetId: string): void;
488
+ toggleTrack(trackId: string): void;
489
+ setTrackLabels(setting: "overlapping" | "offset" | "hidden"): void;
490
+ setShowCenterLine(b: boolean): void;
491
+ setDisplayedRegions(regions: import("@jbrowse/core/util").Region[]): void;
492
+ activateTrackSelector(): import("@jbrowse/core/util").Widget;
493
+ getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): {
494
+ assemblyName: string;
495
+ refName: string;
496
+ start: number;
497
+ end: number;
498
+ }[];
499
+ horizontalScroll(distance: number): number;
500
+ center(): void;
501
+ showAllRegions(): void;
502
+ showAllRegionsInAssembly(assemblyName?: string): void;
503
+ setDraggingTrackId(idx?: string): void;
504
+ setLastTrackDragY(y: number): void;
505
+ setScaleFactor(factor: number): void;
506
+ clearView(): void;
507
+ setInit(arg?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState): void;
508
+ exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").ExportSvgOptions): Promise<void>;
509
+ } & {
510
+ slide: (viewWidths: number) => void;
511
+ } & {
512
+ zoom: (targetBpPerPx: number) => void;
513
+ } & {
514
+ readonly canShowCytobands: boolean;
515
+ readonly showCytobands: boolean;
516
+ readonly anyCytobandsExist: boolean;
517
+ readonly cytobandOffset: number;
518
+ } & {
519
+ menuItems(): import("@jbrowse/core/ui").MenuItem[];
520
+ } & {
521
+ readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
522
+ readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
523
+ readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
524
+ readonly visibleLocStrings: string;
525
+ readonly coarseVisibleLocStrings: string;
526
+ readonly coarseTotalBpDisplayStr: string;
527
+ } & {
528
+ setCoarseDynamicBlocks(blocks: import("@jbrowse/core/util/blockTypes").BlockSet): void;
529
+ } & {
530
+ moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
531
+ navToLocString(input: string, optAssemblyName?: string, grow?: number): Promise<void>;
532
+ navToSearchString({ input, assembly, }: {
533
+ input: string;
534
+ assembly: import("@jbrowse/core/assemblyManager/assembly").Assembly;
535
+ }): Promise<void>;
536
+ navToLocation(parsedLocString: import("@jbrowse/core/util").ParsedLocString, assemblyName?: string, grow?: number): Promise<void>;
537
+ navToLocations(regions: import("@jbrowse/core/util").ParsedLocString[], assemblyName?: string, grow?: number): Promise<void>;
538
+ navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation): void;
539
+ navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation[]): void;
540
+ } & {
541
+ rubberBandMenuItems(): import("@jbrowse/core/ui").MenuItem[];
542
+ bpToPx({ refName, coord, regionNumber, }: {
543
+ refName: string;
544
+ coord: number;
545
+ regionNumber?: number;
546
+ }): {
547
+ index: number;
548
+ offsetPx: number;
549
+ } | undefined;
550
+ centerAt(coord: number, refName: string, regionNumber?: number): void;
551
+ pxToBp(px: number): {
552
+ coord: number;
553
+ index: number;
554
+ refName: string;
555
+ oob: boolean;
556
+ assemblyName: string;
557
+ offset: number;
558
+ start: number;
559
+ end: number;
560
+ reversed?: boolean;
561
+ };
562
+ readonly centerLineInfo: {
563
+ coord: number;
564
+ index: number;
565
+ refName: string;
566
+ oob: boolean;
567
+ assemblyName: string;
568
+ offset: number;
569
+ start: number;
570
+ end: number;
571
+ reversed?: boolean;
572
+ } | undefined;
573
+ readonly visibleRegions: import("@jbrowse/core/util/blockTypes").BaseBlock[];
574
+ } & {
575
+ rubberbandClickMenuItems(clickOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): import("@jbrowse/core/ui").MenuItem[];
576
+ } & {
577
+ afterCreate(): void;
578
+ afterAttach(): void;
579
+ }, import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
580
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
581
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
582
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
583
+ } & {
584
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
585
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
586
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
587
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
588
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
589
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
590
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
591
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
592
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
593
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
594
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
595
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
596
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
597
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
598
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
599
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
600
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
601
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
602
+ }>>, import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
603
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
604
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
605
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
606
+ } & {
607
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
608
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
609
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
610
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
611
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
612
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
613
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
614
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
615
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
616
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
617
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
618
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
619
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
620
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
621
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
622
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
623
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
624
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
625
+ }>>>;
626
+ init: import("@jbrowse/mobx-state-tree").IType<BreakpointSplitViewInit | undefined, BreakpointSplitViewInit | undefined, BreakpointSplitViewInit | undefined>;
627
+ }>>;
341
628
  export type BreakpointViewStateModel = ReturnType<typeof stateModelFactory>;
342
629
  export type BreakpointViewModel = Instance<BreakpointViewStateModel>;