@jbrowse/plugin-wiggle 2.4.0 → 2.4.1

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Files changed (151) hide show
  1. package/dist/BigWigAdapter/BigWigAdapter.js +5 -6
  2. package/dist/BigWigAdapter/BigWigAdapter.js.map +1 -1
  3. package/dist/CreateMultiWiggleExtension/ConfirmDialog.js +1 -1
  4. package/dist/CreateMultiWiggleExtension/ConfirmDialog.js.map +1 -1
  5. package/dist/CreateMultiWiggleExtension/index.js +1 -3
  6. package/dist/CreateMultiWiggleExtension/index.js.map +1 -1
  7. package/dist/LinearWiggleDisplay/components/Tooltip.d.ts +2 -2
  8. package/dist/LinearWiggleDisplay/components/Tooltip.js +2 -1
  9. package/dist/LinearWiggleDisplay/components/Tooltip.js.map +1 -1
  10. package/dist/LinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +1 -2
  11. package/dist/LinearWiggleDisplay/components/WiggleDisplayComponent.js +2 -1
  12. package/dist/LinearWiggleDisplay/components/WiggleDisplayComponent.js.map +1 -1
  13. package/dist/LinearWiggleDisplay/index.d.ts +3 -4
  14. package/dist/LinearWiggleDisplay/index.js +7 -5
  15. package/dist/LinearWiggleDisplay/index.js.map +1 -1
  16. package/dist/LinearWiggleDisplay/models/model.d.ts +15 -8
  17. package/dist/LinearWiggleDisplay/models/model.js +1 -6
  18. package/dist/LinearWiggleDisplay/models/model.js.map +1 -1
  19. package/dist/MultiDensityRenderer/MultiDensityRenderer.js +2 -2
  20. package/dist/MultiDensityRenderer/MultiDensityRenderer.js.map +1 -1
  21. package/dist/MultiLineRenderer/MultiLineRenderer.js +2 -2
  22. package/dist/MultiLineRenderer/MultiLineRenderer.js.map +1 -1
  23. package/dist/MultiLinearWiggleDisplay/components/DraggableDialog.js +1 -1
  24. package/dist/MultiLinearWiggleDisplay/components/DraggableDialog.js.map +1 -1
  25. package/dist/MultiLinearWiggleDisplay/components/SetColorDialog.js +4 -4
  26. package/dist/MultiLinearWiggleDisplay/components/SetColorDialog.js.map +1 -1
  27. package/dist/MultiLinearWiggleDisplay/components/Tooltip.d.ts +2 -2
  28. package/dist/MultiLinearWiggleDisplay/components/Tooltip.js +2 -1
  29. package/dist/MultiLinearWiggleDisplay/components/Tooltip.js.map +1 -1
  30. package/dist/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +1 -2
  31. package/dist/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js +5 -4
  32. package/dist/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js.map +1 -1
  33. package/dist/MultiLinearWiggleDisplay/models/model.d.ts +3 -3
  34. package/dist/MultiLinearWiggleDisplay/models/model.js +1 -6
  35. package/dist/MultiLinearWiggleDisplay/models/model.js.map +1 -1
  36. package/dist/MultiRowLineRenderer/MultiRowLineRenderer.js +2 -2
  37. package/dist/MultiRowLineRenderer/MultiRowLineRenderer.js.map +1 -1
  38. package/dist/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js +2 -2
  39. package/dist/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js.map +1 -1
  40. package/dist/MultiWiggleAdapter/MultiWiggleAdapter.d.ts +2 -1
  41. package/dist/MultiWiggleAdapter/MultiWiggleAdapter.js +2 -2
  42. package/dist/MultiWiggleAdapter/MultiWiggleAdapter.js.map +1 -1
  43. package/dist/MultiWiggleAddTrackWidget/AddTrackWorkflow.js +2 -2
  44. package/dist/MultiWiggleAddTrackWidget/AddTrackWorkflow.js.map +1 -1
  45. package/dist/MultiXYPlotRenderer/MultiXYPlotRenderer.js +5 -5
  46. package/dist/MultiXYPlotRenderer/MultiXYPlotRenderer.js.map +1 -1
  47. package/dist/WiggleBaseRenderer.d.ts +2 -2
  48. package/dist/WiggleBaseRenderer.js +1 -1
  49. package/dist/WiggleBaseRenderer.js.map +1 -1
  50. package/dist/WiggleRPC/rpcMethods.js +2 -2
  51. package/dist/WiggleRPC/rpcMethods.js.map +1 -1
  52. package/dist/XYPlotRenderer/index.d.ts +3 -4
  53. package/dist/XYPlotRenderer/index.js +7 -4
  54. package/dist/XYPlotRenderer/index.js.map +1 -1
  55. package/dist/drawxy.js +4 -8
  56. package/dist/drawxy.js.map +1 -1
  57. package/dist/index.d.ts +9 -9
  58. package/dist/index.js +9 -7
  59. package/dist/index.js.map +1 -1
  60. package/dist/util.js +6 -5
  61. package/dist/util.js.map +1 -1
  62. package/esm/BigWigAdapter/BigWigAdapter.js +5 -6
  63. package/esm/BigWigAdapter/BigWigAdapter.js.map +1 -1
  64. package/esm/CreateMultiWiggleExtension/ConfirmDialog.js +1 -1
  65. package/esm/CreateMultiWiggleExtension/ConfirmDialog.js.map +1 -1
  66. package/esm/CreateMultiWiggleExtension/index.js +1 -3
  67. package/esm/CreateMultiWiggleExtension/index.js.map +1 -1
  68. package/esm/LinearWiggleDisplay/components/Tooltip.d.ts +2 -2
  69. package/esm/LinearWiggleDisplay/components/Tooltip.js +1 -1
  70. package/esm/LinearWiggleDisplay/components/Tooltip.js.map +1 -1
  71. package/esm/LinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +1 -2
  72. package/esm/LinearWiggleDisplay/components/WiggleDisplayComponent.js +1 -1
  73. package/esm/LinearWiggleDisplay/components/WiggleDisplayComponent.js.map +1 -1
  74. package/esm/LinearWiggleDisplay/index.d.ts +3 -4
  75. package/esm/LinearWiggleDisplay/index.js +3 -2
  76. package/esm/LinearWiggleDisplay/index.js.map +1 -1
  77. package/esm/LinearWiggleDisplay/models/model.d.ts +15 -8
  78. package/esm/LinearWiggleDisplay/models/model.js +1 -6
  79. package/esm/LinearWiggleDisplay/models/model.js.map +1 -1
  80. package/esm/MultiDensityRenderer/MultiDensityRenderer.js +2 -2
  81. package/esm/MultiDensityRenderer/MultiDensityRenderer.js.map +1 -1
  82. package/esm/MultiLineRenderer/MultiLineRenderer.js +2 -2
  83. package/esm/MultiLineRenderer/MultiLineRenderer.js.map +1 -1
  84. package/esm/MultiLinearWiggleDisplay/components/DraggableDialog.js +1 -1
  85. package/esm/MultiLinearWiggleDisplay/components/DraggableDialog.js.map +1 -1
  86. package/esm/MultiLinearWiggleDisplay/components/SetColorDialog.js +4 -4
  87. package/esm/MultiLinearWiggleDisplay/components/SetColorDialog.js.map +1 -1
  88. package/esm/MultiLinearWiggleDisplay/components/Tooltip.d.ts +2 -2
  89. package/esm/MultiLinearWiggleDisplay/components/Tooltip.js +1 -1
  90. package/esm/MultiLinearWiggleDisplay/components/Tooltip.js.map +1 -1
  91. package/esm/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +1 -2
  92. package/esm/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js +4 -4
  93. package/esm/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js.map +1 -1
  94. package/esm/MultiLinearWiggleDisplay/models/model.d.ts +3 -3
  95. package/esm/MultiLinearWiggleDisplay/models/model.js +1 -6
  96. package/esm/MultiLinearWiggleDisplay/models/model.js.map +1 -1
  97. package/esm/MultiRowLineRenderer/MultiRowLineRenderer.js +2 -2
  98. package/esm/MultiRowLineRenderer/MultiRowLineRenderer.js.map +1 -1
  99. package/esm/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js +2 -2
  100. package/esm/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js.map +1 -1
  101. package/esm/MultiWiggleAdapter/MultiWiggleAdapter.d.ts +2 -1
  102. package/esm/MultiWiggleAdapter/MultiWiggleAdapter.js +2 -2
  103. package/esm/MultiWiggleAdapter/MultiWiggleAdapter.js.map +1 -1
  104. package/esm/MultiWiggleAddTrackWidget/AddTrackWorkflow.js +2 -2
  105. package/esm/MultiWiggleAddTrackWidget/AddTrackWorkflow.js.map +1 -1
  106. package/esm/MultiXYPlotRenderer/MultiXYPlotRenderer.js +5 -5
  107. package/esm/MultiXYPlotRenderer/MultiXYPlotRenderer.js.map +1 -1
  108. package/esm/WiggleBaseRenderer.d.ts +2 -2
  109. package/esm/WiggleBaseRenderer.js +1 -1
  110. package/esm/WiggleBaseRenderer.js.map +1 -1
  111. package/esm/WiggleRPC/rpcMethods.js +2 -2
  112. package/esm/WiggleRPC/rpcMethods.js.map +1 -1
  113. package/esm/XYPlotRenderer/index.d.ts +3 -4
  114. package/esm/XYPlotRenderer/index.js +3 -1
  115. package/esm/XYPlotRenderer/index.js.map +1 -1
  116. package/esm/drawxy.js +4 -8
  117. package/esm/drawxy.js.map +1 -1
  118. package/esm/index.d.ts +9 -9
  119. package/esm/index.js +4 -3
  120. package/esm/index.js.map +1 -1
  121. package/esm/util.js +6 -5
  122. package/esm/util.js.map +1 -1
  123. package/package.json +2 -2
  124. package/src/BigWigAdapter/BigWigAdapter.ts +5 -6
  125. package/src/CreateMultiWiggleExtension/ConfirmDialog.tsx +1 -1
  126. package/src/CreateMultiWiggleExtension/index.ts +1 -3
  127. package/src/DensityRenderer/DensityRenderer.test.ts +3 -3
  128. package/src/LinearWiggleDisplay/components/Tooltip.tsx +2 -1
  129. package/src/LinearWiggleDisplay/components/WiggleDisplayComponent.tsx +1 -1
  130. package/src/LinearWiggleDisplay/index.ts +3 -2
  131. package/src/LinearWiggleDisplay/models/model.tsx +1 -5
  132. package/src/MultiDensityRenderer/MultiDensityRenderer.ts +2 -2
  133. package/src/MultiLineRenderer/MultiLineRenderer.ts +2 -2
  134. package/src/MultiLinearWiggleDisplay/components/DraggableDialog.tsx +1 -1
  135. package/src/MultiLinearWiggleDisplay/components/SetColorDialog.tsx +4 -4
  136. package/src/MultiLinearWiggleDisplay/components/Tooltip.tsx +2 -1
  137. package/src/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.tsx +5 -5
  138. package/src/MultiLinearWiggleDisplay/models/model.tsx +1 -5
  139. package/src/MultiRowLineRenderer/MultiRowLineRenderer.ts +2 -2
  140. package/src/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.ts +2 -2
  141. package/src/MultiWiggleAdapter/MultiWiggleAdapter.ts +3 -2
  142. package/src/MultiWiggleAddTrackWidget/AddTrackWorkflow.tsx +2 -2
  143. package/src/MultiXYPlotRenderer/MultiXYPlotRenderer.ts +5 -5
  144. package/src/WiggleBaseRenderer.tsx +8 -12
  145. package/src/WiggleRPC/rpcMethods.ts +2 -2
  146. package/src/WiggleRendering.test.js +1 -1
  147. package/src/XYPlotRenderer/XYPlotRenderer.test.ts +3 -3
  148. package/src/XYPlotRenderer/index.ts +4 -1
  149. package/src/drawxy.ts +6 -8
  150. package/src/index.ts +8 -9
  151. package/src/util.ts +5 -4
package/esm/XYPlotRenderer/index.js CHANGED
@@ -1,7 +1,6 @@
1
1
  import ReactComponent from '../WiggleRendering';
2
2
  import XYPlotRenderer from './XYPlotRenderer';
3
3
  import configSchema from './configSchema';
4
- export { XYPlotRenderer, configSchema, ReactComponent };
5
4
  export default (pluginManager) => {
6
5
  pluginManager.addRendererType(() => new XYPlotRenderer({
7
6
  name: 'XYPlotRenderer',
@@ -10,4 +9,7 @@ export default (pluginManager) => {
10
9
  pluginManager,
11
10
  }));
12
11
  };
12
+ export { default as XYPlotRenderer } from './XYPlotRenderer';
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+ export { default as ReactComponent } from '../WiggleRendering';
14
+ export { default as configSchema } from './configSchema';
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  //# sourceMappingURL=index.js.map
package/esm/XYPlotRenderer/index.js.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/XYPlotRenderer/index.ts"],"names":[],"mappings":"AAAA,OAAO,cAAc,MAAM,oBAAoB,CAAA;AAE/C,OAAO,cAAc,MAAM,kBAAkB,CAAA;AAC7C,OAAO,YAAY,MAAM,gBAAgB,CAAA;AACzC,OAAO,EAAE,cAAc,EAAE,YAAY,EAAE,cAAc,EAAE,CAAA;AAEvD,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,eAAe,CAC3B,GAAG,EAAE,CACH,IAAI,cAAc,CAAC;QACjB,IAAI,EAAE,gBAAgB;QACtB,cAAc;QACd,YAAY;QACZ,aAAa;KACd,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}
1
+ {"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/XYPlotRenderer/index.ts"],"names":[],"mappings":"AAAA,OAAO,cAAc,MAAM,oBAAoB,CAAA;AAE/C,OAAO,cAAc,MAAM,kBAAkB,CAAA;AAC7C,OAAO,YAAY,MAAM,gBAAgB,CAAA;AAEzC,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,eAAe,CAC3B,GAAG,EAAE,CACH,IAAI,cAAc,CAAC;QACjB,IAAI,EAAE,gBAAgB;QACtB,cAAc;QACd,YAAY;QACZ,aAAa;KACd,CAAC,CACL,CAAA;AACH,CAAC,CAAA;AAED,OAAO,EAAE,OAAO,IAAI,cAAc,EAAE,MAAM,kBAAkB,CAAA;AAC5D,OAAO,EAAE,OAAO,IAAI,cAAc,EAAE,MAAM,oBAAoB,CAAA;AAC9D,OAAO,EAAE,OAAO,IAAI,YAAY,EAAE,MAAM,gBAAgB,CAAA"}
package/esm/drawxy.js CHANGED
@@ -191,7 +191,7 @@ export function drawLine(ctx, props) {
191
191
  const c = colorCallback(feature, score);
192
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  ctx.beginPath();
193
193
  ctx.strokeStyle = c;
194
- const startPos = typeof lastVal !== 'undefined' ? lastVal : score;
194
+ const startPos = lastVal !== undefined ? lastVal : score;
195
195
  if (!region.reversed) {
196
196
  ctx.moveTo(leftPx, toY(startPos));
197
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  ctx.lineTo(leftPx, toY(score));
@@ -241,13 +241,9 @@ export function drawDensity(ctx, props) {
241
241
  range: crossing ? [negColor, 'white', posColor] : ['white', posColor],
242
242
  });
243
243
  const scale2 = getScale({ ...scaleOpts, range: [0, height] });
244
- let cb;
245
- if (color === '#f0f') {
246
- cb = (_feature, score) => scale(score);
247
- }
248
- else {
249
- cb = (feature, score) => readConfObject(config, 'color', { feature, score });
250
- }
244
+ const cb = color === '#f0f'
245
+ ? (_, score) => scale(score)
246
+ : (feature, score) => readConfObject(config, 'color', { feature, score });
251
247
  const [niceMin, niceMax] = scale2.domain();
252
248
  let prevLeftPx = -Infinity;
253
249
  let hasClipping = false;
package/esm/drawxy.js.map CHANGED
@@ -1 +1 @@
1
- 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package/esm/index.d.ts CHANGED
@@ -2,10 +2,8 @@
2
2
  import Plugin from '@jbrowse/core/Plugin';
3
3
  import PluginManager from '@jbrowse/core/PluginManager';
4
4
  import WiggleBaseRenderer from './WiggleBaseRenderer';
5
- import WiggleRendering from './WiggleRendering';
6
5
  import * as utils from './util';
7
- import { ReactComponent as LinearWiggleDisplayReactComponent, modelFactory as linearWiggleDisplayModelFactory, Tooltip } from './LinearWiggleDisplay';
8
- import { TooltipContentsComponent } from './Tooltip';
6
+ import { modelFactory as linearWiggleDisplayModelFactory } from './LinearWiggleDisplay';
9
7
  import { XYPlotRenderer } from './XYPlotRenderer';
10
8
  export default class WigglePlugin extends Plugin {
11
9
  name: string;
@@ -191,7 +189,7 @@ export default class WigglePlugin extends Plugin {
191
189
  estimatedRegionStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
192
190
  estimatedRegionStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
193
191
  } & {
194
- readonly height: any;
192
+ readonly height: number;
195
193
  readonly blockType: "dynamicBlocks" | "staticBlocks";
196
194
  readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
197
195
  } & {
@@ -221,7 +219,7 @@ export default class WigglePlugin extends Plugin {
221
219
  setRegionStatsP(p?: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined): void;
222
220
  setRegionStats(estimatedRegionStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
223
221
  clearRegionStats(): void;
224
- setHeight(displayHeight: number): any;
222
+ setHeight(displayHeight: number): number;
225
223
  resizeHeight(distance: number): number;
226
224
  setScrollTop(scrollTop: number): void;
227
225
  updateStatsLimit(stats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats): void;
@@ -490,7 +488,7 @@ export default class WigglePlugin extends Plugin {
490
488
  estimatedRegionStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
491
489
  estimatedRegionStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
492
490
  } & {
493
- readonly height: any;
491
+ readonly height: number;
494
492
  readonly blockType: "dynamicBlocks" | "staticBlocks";
495
493
  readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
496
494
  } & {
@@ -520,7 +518,7 @@ export default class WigglePlugin extends Plugin {
520
518
  setRegionStatsP(p?: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined): void;
521
519
  setRegionStats(estimatedRegionStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
522
520
  clearRegionStats(): void;
523
- setHeight(displayHeight: number): any;
521
+ setHeight(displayHeight: number): number;
524
522
  resizeHeight(distance: number): number;
525
523
  setScrollTop(scrollTop: number): void;
526
524
  updateStatsLimit(stats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats): void;
@@ -739,5 +737,7 @@ export default class WigglePlugin extends Plugin {
739
737
  };
740
738
  }
741
739
  export * from './util';
742
- export { LinearWiggleDisplayReactComponent, Tooltip, WiggleRendering, WiggleBaseRenderer, linearWiggleDisplayModelFactory, };
743
- export type { TooltipContentsComponent };
740
+ export { default as WiggleRendering } from './WiggleRendering';
741
+ export { Tooltip, ReactComponent as LinearWiggleDisplayReactComponent, modelFactory as linearWiggleDisplayModelFactory, } from './LinearWiggleDisplay';
742
+ export { type TooltipContentsComponent } from './Tooltip';
743
+ export { default as WiggleBaseRenderer } from './WiggleBaseRenderer';
package/esm/index.js CHANGED
@@ -2,7 +2,6 @@ import Plugin from '@jbrowse/core/Plugin';
2
2
  import { getFileName, } from '@jbrowse/core/util/tracks';
3
3
  // locals
4
4
  import WiggleBaseRenderer from './WiggleBaseRenderer';
5
- import WiggleRendering from './WiggleRendering';
6
5
  import BigWigAdapterF from './BigWigAdapter';
7
6
  import QuantitativeTrackF from './QuantitativeTrack';
8
7
  import MultiQuantitativeTrackF from './MultiQuantitativeTrack';
@@ -21,7 +20,7 @@ import CreateMultiWiggleExtensionF from './CreateMultiWiggleExtension';
21
20
  import MultiWiggleAddTrackWidgetF from './MultiWiggleAddTrackWidget';
22
21
  import * as utils from './util';
23
22
  import { WiggleGetGlobalStats, WiggleGetMultiRegionStats, MultiWiggleGetSources, } from './WiggleRPC/rpcMethods';
24
- import { ReactComponent as LinearWiggleDisplayReactComponent, modelFactory as linearWiggleDisplayModelFactory, Tooltip, } from './LinearWiggleDisplay';
23
+ import { ReactComponent as LinearWiggleDisplayReactComponent, modelFactory as linearWiggleDisplayModelFactory, } from './LinearWiggleDisplay';
25
24
  import { ReactComponent as XYPlotRendererReactComponent, configSchema as xyPlotRendererConfigSchema, XYPlotRenderer, } from './XYPlotRenderer';
26
25
  export default class WigglePlugin extends Plugin {
27
26
  constructor() {
@@ -86,5 +85,7 @@ export default class WigglePlugin extends Plugin {
86
85
  }
87
86
  }
88
87
  export * from './util';
89
- export { LinearWiggleDisplayReactComponent, Tooltip, WiggleRendering, WiggleBaseRenderer, linearWiggleDisplayModelFactory, };
88
+ export { default as WiggleRendering } from './WiggleRendering';
89
+ export { Tooltip, ReactComponent as LinearWiggleDisplayReactComponent, modelFactory as linearWiggleDisplayModelFactory, } from './LinearWiggleDisplay';
90
+ export { default as WiggleBaseRenderer } from './WiggleBaseRenderer';
90
91
  //# sourceMappingURL=index.js.map
package/esm/index.js.map CHANGED
@@ -1 +1 @@
1
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package/esm/util.js CHANGED
@@ -127,12 +127,13 @@ export function getNiceDomain({ scaleType, domain, bounds, }) {
127
127
  return scale.domain();
128
128
  }
129
129
  export function groupBy(array, predicate) {
130
- return array.reduce((acc, value) => {
131
- var _a;
132
- const entry = (acc[_a = predicate(value)] || (acc[_a] = []));
130
+ var _a;
131
+ const result = {};
132
+ for (const value of array) {
133
+ const entry = (result[_a = predicate(value)] || (result[_a] = []));
133
134
  entry.push(value);
134
- return acc;
135
- }, {});
135
+ }
136
+ return result;
136
137
  }
137
138
  export async function getStats(self, opts) {
138
139
  const { rpcManager } = getSession(self);
package/esm/util.js.map CHANGED
@@ -1 +1 @@
1
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package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@jbrowse/plugin-wiggle",
3
- "version": "2.4.0",
3
+ "version": "2.4.1",
4
4
  "description": "JBrowse 2 wiggle adapters, tracks, etc.",
5
5
  "keywords": [
6
6
  "jbrowse",
@@ -69,5 +69,5 @@
69
69
  "distModule": "esm/index.js",
70
70
  "srcModule": "src/index.ts",
71
71
  "module": "esm/index.js",
72
- "gitHead": "78707a2bc3ba8489f26a590ef83f62ede945d048"
72
+ "gitHead": "747c50c4edc0184827efa4f8dfc576ca9a72caeb"
73
73
  }
package/src/BigWigAdapter/BigWigAdapter.ts CHANGED
@@ -81,21 +81,20 @@ export default class BigWigAdapter extends BaseFeatureDataAdapter {
81
81
  basesPerSpan: bpPerPx / resolution,
82
82
  })
83
83
 
84
- for (let i = 0; i < feats.length; i++) {
85
- const data = feats[i]
84
+ for (const data of feats) {
86
85
  if (source) {
87
- // @ts-ignore
86
+ // @ts-expect-error
88
87
  data.source = source
89
88
  }
90
89
  const uniqueId = `${source}:${region.refName}:${data.start}-${data.end}`
91
- // @ts-ignore
90
+ // @ts-expect-error
92
91
  data.refName = refName
93
92
  data.uniqueId = uniqueId
94
93
  observer.next({
95
- // @ts-ignore
94
+ // @ts-expect-error
96
95
  get: (str: string) => (data as Record<string, unknown>)[str],
97
96
  id: () => uniqueId,
98
- // @ts-ignore
97
+ // @ts-expect-error
99
98
  toJSON: () => data,
100
99
  })
101
100
  }
package/src/CreateMultiWiggleExtension/ConfirmDialog.tsx CHANGED
@@ -19,7 +19,7 @@ const ConfirmDialog = ({
19
19
  tracks: AnyConfigurationModel[]
20
20
  onClose: (arg: boolean, arg1?: { name: string }) => void
21
21
  }) => {
22
- const [val, setVal] = useState('MultiWiggle ' + Date.now())
22
+ const [val, setVal] = useState(`MultiWiggle ${Date.now()}`)
23
23
  const allQuant = tracks.every(t => t.type === 'QuantitativeTrack')
24
24
  return (
25
25
  <Dialog
package/src/CreateMultiWiggleExtension/index.ts CHANGED
@@ -26,9 +26,7 @@ export default function (pm: PluginManager) {
26
26
  .map((c, idx) => ({ ...c, source: trackIds[idx] }))
27
27
  const assemblyNames = [
28
28
  ...new Set(
29
- tracks
30
- .map(c => readConfObject(c, 'assemblyNames'))
31
- .flat(),
29
+ tracks.flatMap(c => readConfObject(c, 'assemblyNames')),
32
30
  ),
33
31
  ]
34
32
  const now = +Date.now()
package/src/DensityRenderer/DensityRenderer.test.ts CHANGED
@@ -6,10 +6,10 @@ import ReactComponent from '../WiggleRendering'
6
6
 
7
7
  import { Image, createCanvas } from 'canvas'
8
8
 
9
- // @ts-ignore
9
+ // @ts-expect-error
10
10
  global.nodeImage = Image
11
11
 
12
- // @ts-ignore
12
+ // @ts-expect-error
13
13
  global.nodeCreateCanvas = createCanvas
14
14
 
15
15
  // eslint-disable-next-line @typescript-eslint/no-explicit-any
@@ -53,7 +53,7 @@ test('inverted mode and reversed', async () => {
53
53
  }
54
54
 
55
55
  const res = await renderToAbstractCanvas(1000, 200, renderProps, ctx =>
56
- // @ts-ignore
56
+ // @ts-expect-error
57
57
  renderer.draw(ctx, renderProps),
58
58
  )
59
59
  expect(res).toMatchSnapshot({
package/src/LinearWiggleDisplay/components/Tooltip.tsx CHANGED
@@ -55,4 +55,5 @@ const WiggleTooltip = observer(function (props: {
55
55
  return <Tooltip TooltipContents={TooltipContents} {...props} />
56
56
  })
57
57
  export default WiggleTooltip
58
- export { Tooltip }
58
+
59
+ export { default as Tooltip } from '../../Tooltip'
package/src/LinearWiggleDisplay/components/WiggleDisplayComponent.tsx CHANGED
@@ -50,4 +50,4 @@ const LinearWiggleDisplay = observer((props: { model: WiggleDisplayModel }) => {
50
50
 
51
51
  export default LinearWiggleDisplay
52
52
 
53
- export { YScaleBar }
53
+ export { default as YScaleBar } from '../../shared/YScaleBar'
package/src/LinearWiggleDisplay/index.ts CHANGED
@@ -4,7 +4,6 @@ import DisplayType from '@jbrowse/core/pluggableElementTypes/DisplayType'
4
4
  import configSchemaFactory from './models/configSchema'
5
5
  import modelFactory from './models/model'
6
6
  import ReactComponent from './components/WiggleDisplayComponent'
7
- import Tooltip from './components/Tooltip'
8
7
 
9
8
  export default (pluginManager: PluginManager) => {
10
9
  pluginManager.addDisplayType(() => {
@@ -22,4 +21,6 @@ export default (pluginManager: PluginManager) => {
22
21
  })
23
22
  }
24
23
 
25
- export { ReactComponent, modelFactory, Tooltip }
24
+ export { default as Tooltip } from './components/Tooltip'
25
+ export { default as ReactComponent } from './components/WiggleDisplayComponent'
26
+ export { default as modelFactory } from './models/model'
package/src/LinearWiggleDisplay/models/model.tsx CHANGED
@@ -216,11 +216,7 @@ function stateModelFactory(
216
216
  * #action
217
217
  */
218
218
  toggleLogScale() {
219
- if (self.scale !== 'log') {
220
- self.scale = 'log'
221
- } else {
222
- self.scale = 'linear'
223
- }
219
+ self.scale = self.scale === 'log' ? 'linear' : 'log'
224
220
  },
225
221
 
226
222
  /**
package/src/MultiDensityRenderer/MultiDensityRenderer.ts CHANGED
@@ -6,7 +6,7 @@ import WiggleBaseRenderer, {
6
6
  import { drawDensity } from '../drawxy'
7
7
 
8
8
  export default class MultiXYPlotRenderer extends WiggleBaseRenderer {
9
- // @ts-ignore
9
+ // @ts-expect-error
10
10
  async draw(ctx: CanvasRenderingContext2D, props: MultiArgs) {
11
11
  const { bpPerPx, sources, regions, features } = props
12
12
  const [region] = regions
@@ -31,7 +31,7 @@ export default class MultiXYPlotRenderer extends WiggleBaseRenderer {
31
31
  ctx.lineTo(width, height)
32
32
  ctx.stroke()
33
33
  ctx.translate(0, height)
34
- feats = feats.concat(reducedFeatures)
34
+ feats = [...feats, ...reducedFeatures]
35
35
  })
36
36
  ctx.restore()
37
37
  return { reducedFeatures: feats }
package/src/MultiLineRenderer/MultiLineRenderer.ts CHANGED
@@ -7,7 +7,7 @@ import WiggleBaseRenderer, {
7
7
  } from '../WiggleBaseRenderer'
8
8
 
9
9
  export default class MultiLineRenderer extends WiggleBaseRenderer {
10
- // @ts-ignore
10
+ // @ts-expect-error
11
11
  async draw(ctx: CanvasRenderingContext2D, props: MultiArgs) {
12
12
  const { sources, features } = props
13
13
  const groups = groupBy([...features.values()], f => f.get('source'))
@@ -22,7 +22,7 @@ export default class MultiLineRenderer extends WiggleBaseRenderer {
22
22
  features,
23
23
  colorCallback: () => source.color || 'blue',
24
24
  })
25
- feats = feats.concat(reducedFeatures)
25
+ feats = [...feats, ...reducedFeatures]
26
26
  })
27
27
  return { reducedFeatures: feats }
28
28
  }
package/src/MultiLinearWiggleDisplay/components/DraggableDialog.tsx CHANGED
@@ -54,7 +54,7 @@ function DraggableDialog(props: DialogProps & { title: string }) {
54
54
  <IconButton
55
55
  className={classes.closeButton}
56
56
  onClick={() => {
57
- // @ts-ignore
57
+ // @ts-expect-error
58
58
  onClose()
59
59
  }}
60
60
  >
package/src/MultiLinearWiggleDisplay/components/SetColorDialog.tsx CHANGED
@@ -141,7 +141,7 @@ function SourcesGrid({
141
141
  const [anchorEl, setAnchorEl] = useState<HTMLElement | null>(null)
142
142
  const [selected, setSelected] = useState([] as string[])
143
143
 
144
- // @ts-ignore
144
+ // @ts-expect-error
145
145
  const { name: _name, color: _color, baseUri: _baseUri, ...rest } = rows[0]
146
146
 
147
147
  // similar to BaseFeatureDetail data-grid for auto-measuring columns
@@ -178,7 +178,7 @@ function SourcesGrid({
178
178
  const { value } = params
179
179
  return isUriLocation(value) ? <UriLink value={value} /> : getStr(value)
180
180
  },
181
- // @ts-ignore
181
+ // @ts-expect-error
182
182
  width: measureGridWidth(rows.map(r => r[val])),
183
183
  })),
184
184
  ]
@@ -266,9 +266,9 @@ function SourcesGrid({
266
266
  onChange(
267
267
  field
268
268
  ? [...rows].sort((a, b) => {
269
- // @ts-ignore
269
+ // @ts-expect-error
270
270
  const aa = getStr(a[field])
271
- // @ts-ignore
271
+ // @ts-expect-error
272
272
  const bb = getStr(b[field])
273
273
  return idx === 1
274
274
  ? aa.localeCompare(bb)
package/src/MultiLinearWiggleDisplay/components/Tooltip.tsx CHANGED
@@ -73,4 +73,5 @@ const WiggleTooltip = observer(
73
73
  },
74
74
  )
75
75
  export default WiggleTooltip
76
- export { Tooltip }
76
+
77
+ export { default as Tooltip } from '../../Tooltip'
package/src/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.tsx CHANGED
@@ -132,15 +132,15 @@ const ColorLegend = observer(function ({
132
132
  {sources.map((source, idx) => {
133
133
  const boxHeight = Math.min(20, rowHeight)
134
134
  return (
135
- <React.Fragment key={source.name + '-' + idx}>
136
- {!needsFullHeightScalebar ? (
135
+ <React.Fragment key={`${source.name}-${idx}`}>
136
+ {needsFullHeightScalebar ? null : (
137
137
  <RectBg
138
138
  y={idx * rowHeight + 1}
139
139
  x={extraOffset}
140
140
  width={legendWidth}
141
141
  height={boxHeight}
142
142
  />
143
- ) : null}
143
+ )}
144
144
  {source.color ? (
145
145
  <RectBg
146
146
  y={idx * rowHeight + 1}
@@ -228,7 +228,7 @@ export const StatBars = observer(function (props: {
228
228
  sources.map((_source, idx) => (
229
229
  <g
230
230
  transform={`translate(0 ${rowHeight * idx})`}
231
- key={JSON.stringify(ticks) + '-' + idx}
231
+ key={`${JSON.stringify(ticks)}-${idx}`}
232
232
  >
233
233
  <YScaleBar model={model} orientation={orientation} />
234
234
  </g>
@@ -251,4 +251,4 @@ export default observer((props: { model: WiggleDisplayModel }) => {
251
251
  )
252
252
  })
253
253
 
254
- export { YScaleBar }
254
+ export { default as YScaleBar } from '../../shared/YScaleBar'
package/src/MultiLinearWiggleDisplay/models/model.tsx CHANGED
@@ -176,11 +176,7 @@ const stateModelFactory = (
176
176
  },
177
177
 
178
178
  toggleLogScale() {
179
- if (self.scale !== 'log') {
180
- self.scale = 'log'
181
- } else {
182
- self.scale = 'linear'
183
- }
179
+ self.scale = self.scale === 'log' ? 'linear' : 'log'
184
180
  },
185
181
 
186
182
  setScaleType(scale?: string) {
package/src/MultiRowLineRenderer/MultiRowLineRenderer.ts CHANGED
@@ -6,7 +6,7 @@ import WiggleBaseRenderer, {
6
6
  } from '../WiggleBaseRenderer'
7
7
 
8
8
  export default class MultiRowLineRenderer extends WiggleBaseRenderer {
9
- // @ts-ignore
9
+ // @ts-expect-error
10
10
  async draw(ctx: CanvasRenderingContext2D, props: MultiArgs) {
11
11
  const { bpPerPx, sources, regions, features } = props
12
12
  const [region] = regions
@@ -28,7 +28,7 @@ export default class MultiRowLineRenderer extends WiggleBaseRenderer {
28
28
  ctx.lineTo(width, height)
29
29
  ctx.stroke()
30
30
  ctx.translate(0, height)
31
- feats = feats.concat(reducedFeatures)
31
+ feats = [...feats, ...reducedFeatures]
32
32
  })
33
33
  ctx.restore()
34
34
  return { reducedFeatures: feats }
package/src/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.ts CHANGED
@@ -7,7 +7,7 @@ import WiggleBaseRenderer, {
7
7
  } from '../WiggleBaseRenderer'
8
8
 
9
9
  export default class MultiXYPlotRenderer extends WiggleBaseRenderer {
10
- // @ts-ignore
10
+ // @ts-expect-error
11
11
  async draw(ctx: CanvasRenderingContext2D, props: MultiArgs) {
12
12
  const { bpPerPx, sources, regions, features } = props
13
13
  const [region] = regions
@@ -35,7 +35,7 @@ export default class MultiXYPlotRenderer extends WiggleBaseRenderer {
35
35
  ctx.lineTo(width, height)
36
36
  ctx.stroke()
37
37
  ctx.translate(0, height)
38
- feats = feats.concat(reducedFeatures)
38
+ feats = [...feats, ...reducedFeatures]
39
39
  })
40
40
  ctx.restore()
41
41
  return { reducedFeatures: feats }
package/src/MultiWiggleAdapter/MultiWiggleAdapter.ts CHANGED
@@ -19,6 +19,7 @@ function getFilename(uri: string) {
19
19
 
20
20
  interface AdapterEntry {
21
21
  dataAdapter: BaseFeatureDataAdapter
22
+ source: string
22
23
  [key: string]: unknown
23
24
  }
24
25
 
@@ -73,7 +74,7 @@ export default class MultiWiggleAdapter extends BaseFeatureDataAdapter {
73
74
  const adapters = await this.getAdapters()
74
75
  const stats = (
75
76
  await Promise.all(
76
- // @ts-ignore
77
+ // @ts-expect-error
77
78
  adapters.map(adp => adp.dataAdapter.getGlobalStats?.(opts)),
78
79
  )
79
80
  ).filter(f => !!f)
@@ -94,7 +95,7 @@ export default class MultiWiggleAdapter extends BaseFeatureDataAdapter {
94
95
  ? p
95
96
  : new SimpleFeature({
96
97
  ...p.toJSON(),
97
- uniqueId: adp.source + '-' + p.id(),
98
+ uniqueId: `${adp.source}-${p.id()}`,
98
99
  source: adp.source,
99
100
  }),
100
101
  ),
package/src/MultiWiggleAddTrackWidget/AddTrackWorkflow.tsx CHANGED
@@ -23,7 +23,7 @@ const useStyles = makeStyles()(theme => ({
23
23
  export default function MultiWiggleWidget({ model }: { model: AddTrackModel }) {
24
24
  const { classes } = useStyles()
25
25
  const [val, setVal] = useState('')
26
- const [trackName, setTrackName] = useState('MultiWiggle ' + Date.now())
26
+ const [trackName, setTrackName] = useState(`MultiWiggle${+Date.now()}`)
27
27
  return (
28
28
  <Paper className={classes.paper}>
29
29
  <ul>
@@ -51,7 +51,7 @@ export default function MultiWiggleWidget({ model }: { model: AddTrackModel }) {
51
51
  hidden
52
52
  multiple
53
53
  onChange={({ target }) => {
54
- const res = Array.from(target?.files || []).map(file => ({
54
+ const res = [...(target?.files || [])].map(file => ({
55
55
  type: 'BigWigAdapter',
56
56
  bigWigLocation: isElectron
57
57
  ? {