@jbrowse/plugin-wiggle 2.18.0 → 3.0.0

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 (144) hide show
  1. package/dist/BigWigAdapter/index.js +17 -7
  2. package/dist/CreateMultiWiggleExtension/ConfirmDialog.d.ts +1 -2
  3. package/dist/CreateMultiWiggleExtension/ConfirmDialog.js +12 -47
  4. package/dist/CreateMultiWiggleExtension/index.js +17 -7
  5. package/dist/DensityRenderer/DensityRenderer.js +35 -2
  6. package/dist/GuessAdapter/index.d.ts +2 -0
  7. package/dist/GuessAdapter/index.js +25 -0
  8. package/dist/LinePlotRenderer/LinePlotRenderer.js +35 -2
  9. package/dist/LinearWiggleDisplay/components/SetColorDialog.d.ts +1 -2
  10. package/dist/LinearWiggleDisplay/components/SetColorDialog.js +21 -57
  11. package/dist/LinearWiggleDisplay/components/Tooltip.d.ts +1 -2
  12. package/dist/LinearWiggleDisplay/components/Tooltip.js +5 -17
  13. package/dist/LinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +1 -2
  14. package/dist/LinearWiggleDisplay/components/WiggleDisplayComponent.js +9 -12
  15. package/dist/LinearWiggleDisplay/index.js +17 -7
  16. package/dist/LinearWiggleDisplay/model.d.ts +31 -8
  17. package/dist/LinearWiggleDisplay/model.js +37 -20
  18. package/dist/LinearWiggleDisplay/renderSvg.d.ts +1 -2
  19. package/dist/LinearWiggleDisplay/renderSvg.js +2 -5
  20. package/dist/MultiDensityRenderer/MultiDensityRenderer.js +38 -3
  21. package/dist/MultiLineRenderer/MultiLineRenderer.js +35 -2
  22. package/dist/MultiLinearWiggleDisplay/components/ColorLegend.d.ts +2 -4
  23. package/dist/MultiLinearWiggleDisplay/components/ColorLegend.js +5 -14
  24. package/dist/MultiLinearWiggleDisplay/components/FullHeightScaleBar.d.ts +7 -0
  25. package/dist/MultiLinearWiggleDisplay/components/FullHeightScaleBar.js +17 -0
  26. package/dist/MultiLinearWiggleDisplay/components/IndividualScaleBars.d.ts +7 -0
  27. package/dist/MultiLinearWiggleDisplay/components/IndividualScaleBars.js +15 -0
  28. package/dist/MultiLinearWiggleDisplay/components/LegendItem.d.ts +11 -0
  29. package/dist/MultiLinearWiggleDisplay/components/LegendItem.js +19 -0
  30. package/dist/MultiLinearWiggleDisplay/components/RectBg.d.ts +1 -2
  31. package/dist/MultiLinearWiggleDisplay/components/RectBg.js +2 -5
  32. package/dist/MultiLinearWiggleDisplay/components/ScoreLegend.d.ts +1 -2
  33. package/dist/MultiLinearWiggleDisplay/components/ScoreLegend.js +2 -4
  34. package/dist/MultiLinearWiggleDisplay/components/SetColorDialog.d.ts +1 -2
  35. package/dist/MultiLinearWiggleDisplay/components/SetColorDialog.js +18 -55
  36. package/dist/MultiLinearWiggleDisplay/components/SourcesGrid.d.ts +1 -2
  37. package/dist/MultiLinearWiggleDisplay/components/SourcesGrid.js +79 -85
  38. package/dist/MultiLinearWiggleDisplay/components/Tooltip.d.ts +1 -2
  39. package/dist/MultiLinearWiggleDisplay/components/Tooltip.js +7 -21
  40. package/dist/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +1 -2
  41. package/dist/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js +2 -4
  42. package/dist/MultiLinearWiggleDisplay/components/YScaleBars.d.ts +1 -2
  43. package/dist/MultiLinearWiggleDisplay/components/YScaleBars.js +7 -27
  44. package/dist/MultiLinearWiggleDisplay/index.js +17 -7
  45. package/dist/MultiLinearWiggleDisplay/model.d.ts +10 -7
  46. package/dist/MultiLinearWiggleDisplay/model.js +30 -8
  47. package/dist/MultiLinearWiggleDisplay/renderSvg.d.ts +1 -2
  48. package/dist/MultiLinearWiggleDisplay/renderSvg.js +2 -5
  49. package/dist/MultiLinearWiggleDisplay/util.d.ts +1 -0
  50. package/dist/MultiLinearWiggleDisplay/util.js +10 -0
  51. package/dist/MultiRowLineRenderer/MultiRowLineRenderer.js +35 -2
  52. package/dist/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js +35 -2
  53. package/dist/MultiWiggleAdapter/index.js +17 -7
  54. package/dist/MultiWiggleAddTrackWorkflow/AddTrackWorkflow.d.ts +3 -3
  55. package/dist/MultiWiggleAddTrackWorkflow/AddTrackWorkflow.js +61 -100
  56. package/dist/MultiWiggleAddTrackWorkflow/index.js +17 -7
  57. package/dist/MultiWiggleRendering.d.ts +1 -2
  58. package/dist/MultiWiggleRendering.js +4 -27
  59. package/dist/MultiXYPlotRenderer/MultiXYPlotRenderer.js +35 -2
  60. package/dist/Tooltip.d.ts +1 -2
  61. package/dist/Tooltip.js +6 -32
  62. package/dist/WiggleBaseRenderer.d.ts +3 -3
  63. package/dist/WiggleRendering.d.ts +1 -2
  64. package/dist/WiggleRendering.js +4 -27
  65. package/dist/XYPlotRenderer/XYPlotRenderer.js +35 -2
  66. package/dist/index.d.ts +3 -3
  67. package/dist/index.js +19 -34
  68. package/dist/shared/SetMinMaxDialog.d.ts +1 -2
  69. package/dist/shared/SetMinMaxDialog.js +11 -41
  70. package/dist/shared/SharedWiggleMixin.d.ts +6 -6
  71. package/dist/shared/SharedWiggleMixin.js +17 -7
  72. package/dist/shared/YScaleBar.d.ts +1 -2
  73. package/dist/shared/YScaleBar.js +2 -5
  74. package/esm/CreateMultiWiggleExtension/ConfirmDialog.d.ts +1 -2
  75. package/esm/CreateMultiWiggleExtension/ConfirmDialog.js +12 -24
  76. package/esm/DensityRenderer/DensityRenderer.js +1 -1
  77. package/esm/GuessAdapter/index.d.ts +2 -0
  78. package/esm/GuessAdapter/index.js +22 -0
  79. package/esm/LinePlotRenderer/LinePlotRenderer.js +1 -1
  80. package/esm/LinearWiggleDisplay/components/SetColorDialog.d.ts +1 -2
  81. package/esm/LinearWiggleDisplay/components/SetColorDialog.js +21 -34
  82. package/esm/LinearWiggleDisplay/components/Tooltip.d.ts +1 -2
  83. package/esm/LinearWiggleDisplay/components/Tooltip.js +5 -17
  84. package/esm/LinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +1 -2
  85. package/esm/LinearWiggleDisplay/components/WiggleDisplayComponent.js +9 -12
  86. package/esm/LinearWiggleDisplay/model.d.ts +31 -8
  87. package/esm/LinearWiggleDisplay/model.js +20 -13
  88. package/esm/LinearWiggleDisplay/renderSvg.d.ts +1 -2
  89. package/esm/LinearWiggleDisplay/renderSvg.js +2 -5
  90. package/esm/MultiDensityRenderer/MultiDensityRenderer.js +4 -2
  91. package/esm/MultiLineRenderer/MultiLineRenderer.js +1 -1
  92. package/esm/MultiLinearWiggleDisplay/components/ColorLegend.d.ts +2 -4
  93. package/esm/MultiLinearWiggleDisplay/components/ColorLegend.js +5 -14
  94. package/esm/MultiLinearWiggleDisplay/components/FullHeightScaleBar.d.ts +7 -0
  95. package/esm/MultiLinearWiggleDisplay/components/FullHeightScaleBar.js +12 -0
  96. package/esm/MultiLinearWiggleDisplay/components/IndividualScaleBars.d.ts +7 -0
  97. package/esm/MultiLinearWiggleDisplay/components/IndividualScaleBars.js +10 -0
  98. package/esm/MultiLinearWiggleDisplay/components/LegendItem.d.ts +11 -0
  99. package/esm/MultiLinearWiggleDisplay/components/LegendItem.js +14 -0
  100. package/esm/MultiLinearWiggleDisplay/components/RectBg.d.ts +1 -2
  101. package/esm/MultiLinearWiggleDisplay/components/RectBg.js +2 -2
  102. package/esm/MultiLinearWiggleDisplay/components/ScoreLegend.d.ts +1 -2
  103. package/esm/MultiLinearWiggleDisplay/components/ScoreLegend.js +2 -4
  104. package/esm/MultiLinearWiggleDisplay/components/SetColorDialog.d.ts +1 -2
  105. package/esm/MultiLinearWiggleDisplay/components/SetColorDialog.js +18 -32
  106. package/esm/MultiLinearWiggleDisplay/components/SourcesGrid.d.ts +1 -2
  107. package/esm/MultiLinearWiggleDisplay/components/SourcesGrid.js +62 -78
  108. package/esm/MultiLinearWiggleDisplay/components/Tooltip.d.ts +1 -2
  109. package/esm/MultiLinearWiggleDisplay/components/Tooltip.js +7 -21
  110. package/esm/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +1 -2
  111. package/esm/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js +2 -4
  112. package/esm/MultiLinearWiggleDisplay/components/YScaleBars.d.ts +1 -2
  113. package/esm/MultiLinearWiggleDisplay/components/YScaleBars.js +8 -28
  114. package/esm/MultiLinearWiggleDisplay/model.d.ts +10 -7
  115. package/esm/MultiLinearWiggleDisplay/model.js +14 -2
  116. package/esm/MultiLinearWiggleDisplay/renderSvg.d.ts +1 -2
  117. package/esm/MultiLinearWiggleDisplay/renderSvg.js +2 -5
  118. package/esm/MultiLinearWiggleDisplay/util.d.ts +1 -0
  119. package/esm/MultiLinearWiggleDisplay/util.js +7 -0
  120. package/esm/MultiRowLineRenderer/MultiRowLineRenderer.js +1 -1
  121. package/esm/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js +1 -1
  122. package/esm/MultiWiggleAddTrackWorkflow/AddTrackWorkflow.d.ts +3 -3
  123. package/esm/MultiWiggleAddTrackWorkflow/AddTrackWorkflow.js +61 -76
  124. package/esm/MultiWiggleRendering.d.ts +1 -2
  125. package/esm/MultiWiggleRendering.js +4 -4
  126. package/esm/MultiXYPlotRenderer/MultiXYPlotRenderer.js +1 -1
  127. package/esm/Tooltip.d.ts +1 -2
  128. package/esm/Tooltip.js +6 -9
  129. package/esm/WiggleBaseRenderer.d.ts +3 -3
  130. package/esm/WiggleRendering.d.ts +1 -2
  131. package/esm/WiggleRendering.js +4 -4
  132. package/esm/XYPlotRenderer/XYPlotRenderer.js +1 -1
  133. package/esm/index.d.ts +3 -3
  134. package/esm/index.js +2 -27
  135. package/esm/shared/SetMinMaxDialog.d.ts +1 -2
  136. package/esm/shared/SetMinMaxDialog.js +11 -18
  137. package/esm/shared/SharedWiggleMixin.d.ts +6 -6
  138. package/esm/shared/YScaleBar.d.ts +1 -2
  139. package/esm/shared/YScaleBar.js +2 -2
  140. package/package.json +3 -4
  141. package/dist/MultiLinearWiggleDisplay/components/DraggableDialog.d.ts +0 -6
  142. package/dist/MultiLinearWiggleDisplay/components/DraggableDialog.js +0 -62
  143. package/esm/MultiLinearWiggleDisplay/components/DraggableDialog.d.ts +0 -6
  144. package/esm/MultiLinearWiggleDisplay/components/DraggableDialog.js +0 -34
@@ -1,11 +1,43 @@
1
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  "use strict";
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+ var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
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+ if (k2 === undefined) k2 = k;
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+ var desc = Object.getOwnPropertyDescriptor(m, k);
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+ if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
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+ desc = { enumerable: true, get: function() { return m[k]; } };
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+ }
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+ Object.defineProperty(o, k2, desc);
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+ }) : (function(o, m, k, k2) {
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+ if (k2 === undefined) k2 = k;
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+ o[k2] = m[k];
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+ }));
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+ var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
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+ Object.defineProperty(o, "default", { enumerable: true, value: v });
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+ }) : function(o, v) {
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+ o["default"] = v;
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+ });
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+ var __importStar = (this && this.__importStar) || (function () {
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+ var ownKeys = function(o) {
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+ ownKeys = Object.getOwnPropertyNames || function (o) {
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+ var ar = [];
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+ for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
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+ return ar;
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+ };
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+ return ownKeys(o);
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+ };
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+ return function (mod) {
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+ if (mod && mod.__esModule) return mod;
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+ var result = {};
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+ if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
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+ __setModuleDefault(result, mod);
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+ return result;
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+ };
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+ })();
2
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  var __importDefault = (this && this.__importDefault) || function (mod) {
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  return (mod && mod.__esModule) ? mod : { "default": mod };
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  };
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  Object.defineProperty(exports, "__esModule", { value: true });
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  const util_1 = require("@jbrowse/core/util");
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  const WiggleBaseRenderer_1 = __importDefault(require("../WiggleBaseRenderer"));
8
- const drawXY_1 = require("../drawXY");
9
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  class MultiXYPlotRenderer extends WiggleBaseRenderer_1.default {
10
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  async draw(ctx, props) {
11
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  const { bpPerPx, sources, regions, features } = props;
@@ -13,10 +45,11 @@ class MultiXYPlotRenderer extends WiggleBaseRenderer_1.default {
13
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  const groups = (0, util_1.groupBy)(features.values(), f => f.get('source'));
14
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  const height = props.height / sources.length;
15
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  const width = (region.end - region.start) / bpPerPx;
48
+ const { drawXY } = await Promise.resolve().then(() => __importStar(require('../drawXY')));
16
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  let feats = [];
17
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  ctx.save();
18
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  sources.forEach(source => {
19
- const { reducedFeatures } = (0, drawXY_1.drawXY)(ctx, {
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+ const { reducedFeatures } = drawXY(ctx, {
20
53
  ...props,
21
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  features: groups[source.name] || [],
22
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  height,
@@ -15,13 +15,23 @@ var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (
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  }) : function(o, v) {
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  o["default"] = v;
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  });
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- var __importStar = (this && this.__importStar) || function (mod) {
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- if (mod && mod.__esModule) return mod;
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- var result = {};
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- if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
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- __setModuleDefault(result, mod);
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- return result;
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- };
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+ var __importStar = (this && this.__importStar) || (function () {
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+ var ownKeys = function(o) {
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+ ownKeys = Object.getOwnPropertyNames || function (o) {
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+ var ar = [];
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+ for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
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+ return ar;
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+ };
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+ return ownKeys(o);
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+ };
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+ return function (mod) {
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+ if (mod && mod.__esModule) return mod;
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+ var result = {};
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+ if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
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+ __setModuleDefault(result, mod);
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+ return result;
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+ };
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+ })();
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  var __importDefault = (this && this.__importDefault) || function (mod) {
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  return (mod && mod.__esModule) ? mod : { "default": mod };
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  };
@@ -1,5 +1,5 @@
1
- import React from 'react';
2
1
  import type { AddTrackModel } from '@jbrowse/plugin-data-management';
3
- export default function MultiWiggleWidget({ model }: {
2
+ declare const MultiWiggleAddTrackWorkflow: ({ model, }: {
4
3
  model: AddTrackModel;
5
- }): React.JSX.Element;
4
+ }) => import("react/jsx-runtime").JSX.Element;
5
+ export default MultiWiggleAddTrackWorkflow;
@@ -1,33 +1,11 @@
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  "use strict";
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- var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
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- if (k2 === undefined) k2 = k;
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- var desc = Object.getOwnPropertyDescriptor(m, k);
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- if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
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- desc = { enumerable: true, get: function() { return m[k]; } };
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- }
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- Object.defineProperty(o, k2, desc);
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- }) : (function(o, m, k, k2) {
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- if (k2 === undefined) k2 = k;
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- o[k2] = m[k];
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- }));
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- var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
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- Object.defineProperty(o, "default", { enumerable: true, value: v });
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- }) : function(o, v) {
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- o["default"] = v;
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- });
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- var __importStar = (this && this.__importStar) || function (mod) {
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- if (mod && mod.__esModule) return mod;
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- var result = {};
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- if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
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- __setModuleDefault(result, mod);
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- return result;
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- };
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  Object.defineProperty(exports, "__esModule", { value: true });
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- exports.default = MultiWiggleWidget;
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- const react_1 = __importStar(require("react"));
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+ const jsx_runtime_1 = require("react/jsx-runtime");
4
+ const react_1 = require("react");
28
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  const util_1 = require("@jbrowse/core/util");
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  const tracks_1 = require("@jbrowse/core/util/tracks");
30
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  const material_1 = require("@mui/material");
8
+ const mobx_react_1 = require("mobx-react");
31
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  const mui_1 = require("tss-react/mui");
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  const useStyles = (0, mui_1.makeStyles)()(theme => ({
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  paper: {
@@ -49,81 +27,64 @@ function makeFileLocation(file) {
49
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  }
50
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  : (0, tracks_1.storeBlobLocation)({ blob: file });
51
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  }
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- function MultiWiggleWidget({ model }) {
30
+ function doSubmit({ trackName, val, model, }) {
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+ var _a;
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+ const session = (0, util_1.getSession)(model);
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+ try {
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+ const trackId = [
35
+ `${trackName.toLowerCase().replaceAll(' ', '_')}-${Date.now()}`,
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+ session.adminMode ? '' : '-sessionTrack',
37
+ ].join('');
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+ let bigWigs;
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+ try {
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+ bigWigs = JSON.parse(val);
41
+ }
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+ catch (e) {
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+ bigWigs = val
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+ .split(/\n|\r\n|\r/)
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+ .map(f => f.trim())
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+ .filter(f => !!f);
47
+ }
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+ const obj = typeof bigWigs[0] === 'string' ? { bigWigs } : { subadapters: bigWigs };
49
+ if ((0, util_1.isSessionWithAddTracks)(session)) {
50
+ session.addTrackConf({
51
+ trackId,
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+ type: 'MultiQuantitativeTrack',
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+ name: trackName,
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+ assemblyNames: [model.assembly],
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+ adapter: {
56
+ type: 'MultiWiggleAdapter',
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+ ...obj,
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+ },
59
+ });
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+ (_a = model.view) === null || _a === void 0 ? void 0 : _a.showTrack(trackId);
61
+ }
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+ model.clearData();
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+ if ((0, util_1.isSessionModelWithWidgets)(session)) {
64
+ session.hideWidget(model);
65
+ }
66
+ }
67
+ catch (e) {
68
+ console.error(e);
69
+ session.notifyError(`${e}`, e);
70
+ }
71
+ }
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+ const MultiWiggleAddTrackWorkflow = (0, mobx_react_1.observer)(function ({ model, }) {
53
73
  const { classes } = useStyles();
54
74
  const [val, setVal] = (0, react_1.useState)('');
55
75
  const [trackName, setTrackName] = (0, react_1.useState)(`MultiWiggle${+Date.now()}`);
56
- return (react_1.default.createElement(material_1.Paper, { className: classes.paper },
57
- react_1.default.createElement("ul", null,
58
- react_1.default.createElement("li", null, "Enter list of URLs for bigwig files in the textbox"),
59
- react_1.default.createElement("li", null, "Or, use the button below the text box to select files from your computer")),
60
- react_1.default.createElement(material_1.TextField, { multiline: true, fullWidth: true, rows: 10, value: val, placeholder: "Paste list of URLs here, or use file selector below", variant: "outlined", onChange: event => {
61
- setVal(event.target.value);
62
- } }),
63
- react_1.default.createElement(material_1.Button, { variant: "outlined", component: "label" },
64
- "Choose Files from your computer",
65
- react_1.default.createElement("input", { type: "file", hidden: true, multiple: true, onChange: ({ target }) => {
66
- const res = [...(target.files || [])].map(file => ({
67
- type: 'BigWigAdapter',
68
- bigWigLocation: makeFileLocation(file),
69
- source: file.name,
70
- }));
71
- setVal(JSON.stringify(res, null, 2));
72
- } })),
73
- react_1.default.createElement(material_1.TextField, { value: trackName, helperText: "Track name", onChange: event => {
74
- setTrackName(event.target.value);
75
- } }),
76
- react_1.default.createElement(material_1.Button, { variant: "contained", className: classes.submit, onClick: () => {
77
- var _a;
78
- const session = (0, util_1.getSession)(model);
79
- try {
80
- const trackId = [
81
- `${trackName.toLowerCase().replaceAll(' ', '_')}-${Date.now()}`,
82
- session.adminMode ? '' : '-sessionTrack',
83
- ].join('');
84
- let bigWigs;
85
- try {
86
- bigWigs = JSON.parse(val);
87
- }
88
- catch (e) {
89
- bigWigs = val
90
- .split(/\n|\r\n|\r/)
91
- .map(f => f.trim())
92
- .filter(f => !!f);
93
- }
94
- const obj = typeof bigWigs[0] === 'string'
95
- ? { bigWigs }
96
- : { subadapters: bigWigs };
97
- if ((0, util_1.isSessionWithAddTracks)(session)) {
98
- session.addTrackConf({
99
- trackId,
100
- type: 'MultiQuantitativeTrack',
101
- name: trackName,
102
- assemblyNames: [model.assembly],
103
- adapter: {
104
- type: 'MultiWiggleAdapter',
105
- ...obj,
106
- },
107
- });
108
- (_a = model.view) === null || _a === void 0 ? void 0 : _a.showTrack(trackId);
109
- }
110
- model.clearData();
111
- if ((0, util_1.isSessionModelWithWidgets)(session)) {
112
- session.hideWidget(model);
113
- }
114
- }
115
- catch (e) {
116
- console.error(e);
117
- session.notifyError(`${e}`, e);
118
- }
119
- } }, "Submit"),
120
- react_1.default.createElement("p", null, "Additional notes: "),
121
- react_1.default.createElement("ul", null,
122
- react_1.default.createElement("li", null,
123
- "The list of bigwig files in the text box can be a list of URLs, or a list of elements like",
124
- ' ',
125
- react_1.default.createElement("code", null, `[{"type":"BigWigAdapter","bigWigLocation":{"uri":"http://host/file.bw"}, "color":"green","source":"name for subtrack"}]`),
126
- ' ',
127
- "to apply e.g. the color attribute to the view"),
128
- react_1.default.createElement("li", null, "Adding local files will update the textbox with JSON contents that are ready to submit with the \"Submit\" button"))));
129
- }
76
+ return ((0, jsx_runtime_1.jsxs)(material_1.Paper, { className: classes.paper, children: [(0, jsx_runtime_1.jsxs)("ul", { children: [(0, jsx_runtime_1.jsx)("li", { children: "Enter list of URLs for bigwig files in the textbox" }), (0, jsx_runtime_1.jsx)("li", { children: "Or, use the button below the text box to select files from your computer" })] }), (0, jsx_runtime_1.jsx)(material_1.TextField, { multiline: true, fullWidth: true, rows: 10, value: val, placeholder: "Paste list of URLs here, or use file selector below", variant: "outlined", onChange: event => {
77
+ setVal(event.target.value);
78
+ } }), (0, jsx_runtime_1.jsxs)(material_1.Button, { variant: "outlined", component: "label", children: ["Choose Files from your computer", (0, jsx_runtime_1.jsx)("input", { type: "file", hidden: true, multiple: true, onChange: ({ target }) => {
79
+ setVal(JSON.stringify([...(target.files || [])].map(file => ({
80
+ type: 'BigWigAdapter',
81
+ bigWigLocation: makeFileLocation(file),
82
+ source: file.name,
83
+ })), null, 2));
84
+ } })] }), (0, jsx_runtime_1.jsx)(material_1.TextField, { value: trackName, helperText: "Track name", onChange: event => {
85
+ setTrackName(event.target.value);
86
+ } }), (0, jsx_runtime_1.jsx)(material_1.Button, { variant: "contained", className: classes.submit, onClick: () => {
87
+ doSubmit({ trackName, val, model });
88
+ }, children: "Submit" }), (0, jsx_runtime_1.jsx)("p", { children: "Additional notes: " }), (0, jsx_runtime_1.jsxs)("ul", { children: [(0, jsx_runtime_1.jsxs)("li", { children: ["The list of bigwig files in the text box can be a list of URLs, or a list of elements like", ' ', (0, jsx_runtime_1.jsx)("code", { children: `[{"type":"BigWigAdapter","bigWigLocation":{"uri":"http://host/file.bw"}, "color":"green","source":"name for subtrack"}]` }), ' ', "to apply e.g. the color attribute to the view"] }), (0, jsx_runtime_1.jsx)("li", { children: "Adding local files will update the textbox with JSON contents that are ready to submit with the \"Submit\" button" })] })] }));
89
+ });
90
+ exports.default = MultiWiggleAddTrackWorkflow;
@@ -15,13 +15,23 @@ var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (
15
15
  }) : function(o, v) {
16
16
  o["default"] = v;
17
17
  });
18
- var __importStar = (this && this.__importStar) || function (mod) {
19
- if (mod && mod.__esModule) return mod;
20
- var result = {};
21
- if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
22
- __setModuleDefault(result, mod);
23
- return result;
24
- };
18
+ var __importStar = (this && this.__importStar) || (function () {
19
+ var ownKeys = function(o) {
20
+ ownKeys = Object.getOwnPropertyNames || function (o) {
21
+ var ar = [];
22
+ for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
23
+ return ar;
24
+ };
25
+ return ownKeys(o);
26
+ };
27
+ return function (mod) {
28
+ if (mod && mod.__esModule) return mod;
29
+ var result = {};
30
+ if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
31
+ __setModuleDefault(result, mod);
32
+ return result;
33
+ };
34
+ })();
25
35
  Object.defineProperty(exports, "__esModule", { value: true });
26
36
  exports.default = MultiWiggleAddTrackWorkflowF;
27
37
  const react_1 = require("react");
@@ -1,4 +1,3 @@
1
- import React from 'react';
2
1
  import type { Source } from './util';
3
2
  import type { Feature } from '@jbrowse/core/util';
4
3
  import type { Region } from '@jbrowse/core/util/types';
@@ -16,5 +15,5 @@ declare const MultiWiggleRendering: (props: {
16
15
  onMouseLeave?: (event: React.MouseEvent) => void;
17
16
  onMouseMove?: (event: React.MouseEvent, arg?: Feature) => void;
18
17
  onFeatureClick?: (event: React.MouseEvent, arg?: Feature) => void;
19
- }) => React.JSX.Element;
18
+ }) => import("react/jsx-runtime").JSX.Element;
20
19
  export default MultiWiggleRendering;
@@ -1,29 +1,7 @@
1
1
  "use strict";
2
- var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
3
- if (k2 === undefined) k2 = k;
4
- var desc = Object.getOwnPropertyDescriptor(m, k);
5
- if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
6
- desc = { enumerable: true, get: function() { return m[k]; } };
7
- }
8
- Object.defineProperty(o, k2, desc);
9
- }) : (function(o, m, k, k2) {
10
- if (k2 === undefined) k2 = k;
11
- o[k2] = m[k];
12
- }));
13
- var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
14
- Object.defineProperty(o, "default", { enumerable: true, value: v });
15
- }) : function(o, v) {
16
- o["default"] = v;
17
- });
18
- var __importStar = (this && this.__importStar) || function (mod) {
19
- if (mod && mod.__esModule) return mod;
20
- var result = {};
21
- if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
22
- __setModuleDefault(result, mod);
23
- return result;
24
- };
25
2
  Object.defineProperty(exports, "__esModule", { value: true });
26
- const react_1 = __importStar(require("react"));
3
+ const jsx_runtime_1 = require("react/jsx-runtime");
4
+ const react_1 = require("react");
27
5
  const ui_1 = require("@jbrowse/core/ui");
28
6
  const util_1 = require("@jbrowse/core/util");
29
7
  const mobx_react_1 = require("mobx-react");
@@ -84,7 +62,7 @@ const MultiWiggleRendering = (0, mobx_react_1.observer)(function (props) {
84
62
  }
85
63
  return featureUnderMouse;
86
64
  }
87
- return (react_1.default.createElement("div", { ref: ref, onMouseMove: event => {
65
+ return ((0, jsx_runtime_1.jsx)("div", { ref: ref, onMouseMove: event => {
88
66
  const { clientX, clientY } = event;
89
67
  const featureUnderMouse = getFeatureUnderMouse(clientX, clientY);
90
68
  onMouseMove(event, featureUnderMouse);
@@ -98,7 +76,6 @@ const MultiWiggleRendering = (0, mobx_react_1.observer)(function (props) {
98
76
  overflow: 'visible',
99
77
  position: 'relative',
100
78
  height,
101
- } },
102
- react_1.default.createElement(ui_1.PrerenderedCanvas, { ...props })));
79
+ }, children: (0, jsx_runtime_1.jsx)(ui_1.PrerenderedCanvas, { ...props }) }));
103
80
  });
104
81
  exports.default = MultiWiggleRendering;
@@ -1,20 +1,53 @@
1
1
  "use strict";
2
+ var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
3
+ if (k2 === undefined) k2 = k;
4
+ var desc = Object.getOwnPropertyDescriptor(m, k);
5
+ if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
6
+ desc = { enumerable: true, get: function() { return m[k]; } };
7
+ }
8
+ Object.defineProperty(o, k2, desc);
9
+ }) : (function(o, m, k, k2) {
10
+ if (k2 === undefined) k2 = k;
11
+ o[k2] = m[k];
12
+ }));
13
+ var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
14
+ Object.defineProperty(o, "default", { enumerable: true, value: v });
15
+ }) : function(o, v) {
16
+ o["default"] = v;
17
+ });
18
+ var __importStar = (this && this.__importStar) || (function () {
19
+ var ownKeys = function(o) {
20
+ ownKeys = Object.getOwnPropertyNames || function (o) {
21
+ var ar = [];
22
+ for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
23
+ return ar;
24
+ };
25
+ return ownKeys(o);
26
+ };
27
+ return function (mod) {
28
+ if (mod && mod.__esModule) return mod;
29
+ var result = {};
30
+ if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
31
+ __setModuleDefault(result, mod);
32
+ return result;
33
+ };
34
+ })();
2
35
  var __importDefault = (this && this.__importDefault) || function (mod) {
3
36
  return (mod && mod.__esModule) ? mod : { "default": mod };
4
37
  };
5
38
  Object.defineProperty(exports, "__esModule", { value: true });
6
39
  const util_1 = require("@jbrowse/core/util");
7
40
  const WiggleBaseRenderer_1 = __importDefault(require("../WiggleBaseRenderer"));
8
- const drawXY_1 = require("../drawXY");
9
41
  const util_2 = require("../util");
10
42
  class MultiXYPlotRenderer extends WiggleBaseRenderer_1.default {
11
43
  async draw(ctx, props) {
12
44
  const { sources, features } = props;
13
45
  const groups = (0, util_1.groupBy)(features.values(), f => f.get('source'));
46
+ const { drawXY } = await Promise.resolve().then(() => __importStar(require('../drawXY')));
14
47
  let feats = [];
15
48
  for (const source of sources) {
16
49
  const features = groups[source.name] || [];
17
- const { reducedFeatures } = (0, drawXY_1.drawXY)(ctx, {
50
+ const { reducedFeatures } = drawXY(ctx, {
18
51
  ...props,
19
52
  features,
20
53
  offset: util_2.YSCALEBAR_LABEL_OFFSET,
package/dist/Tooltip.d.ts CHANGED
@@ -1,4 +1,3 @@
1
- import React from 'react';
2
1
  import type { Feature } from '@jbrowse/core/util';
3
2
  type Coord = [number, number];
4
3
  export type TooltipContentsComponent = React.ForwardRefExoticComponent<{
@@ -15,5 +14,5 @@ declare const Tooltip: ({ model, height, clientMouseCoord, offsetMouseCoord, cli
15
14
  offsetMouseCoord: Coord;
16
15
  clientRect?: DOMRect;
17
16
  TooltipContents: TooltipContentsComponent;
18
- }) => React.JSX.Element | null;
17
+ }) => import("react/jsx-runtime").JSX.Element | null;
19
18
  export default Tooltip;
package/dist/Tooltip.js CHANGED
@@ -1,32 +1,10 @@
1
1
  "use strict";
2
- var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
3
- if (k2 === undefined) k2 = k;
4
- var desc = Object.getOwnPropertyDescriptor(m, k);
5
- if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
6
- desc = { enumerable: true, get: function() { return m[k]; } };
7
- }
8
- Object.defineProperty(o, k2, desc);
9
- }) : (function(o, m, k, k2) {
10
- if (k2 === undefined) k2 = k;
11
- o[k2] = m[k];
12
- }));
13
- var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
14
- Object.defineProperty(o, "default", { enumerable: true, value: v });
15
- }) : function(o, v) {
16
- o["default"] = v;
17
- });
18
- var __importStar = (this && this.__importStar) || function (mod) {
19
- if (mod && mod.__esModule) return mod;
20
- var result = {};
21
- if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
22
- __setModuleDefault(result, mod);
23
- return result;
24
- };
25
2
  var __importDefault = (this && this.__importDefault) || function (mod) {
26
3
  return (mod && mod.__esModule) ? mod : { "default": mod };
27
4
  };
28
5
  Object.defineProperty(exports, "__esModule", { value: true });
29
- const react_1 = __importStar(require("react"));
6
+ const jsx_runtime_1 = require("react/jsx-runtime");
7
+ const react_1 = require("react");
30
8
  const BaseTooltip_1 = __importDefault(require("@jbrowse/core/ui/BaseTooltip"));
31
9
  const mobx_react_1 = require("mobx-react");
32
10
  const mui_1 = require("tss-react/mui");
@@ -48,13 +26,9 @@ const Tooltip = (0, mobx_react_1.observer)(function Tooltip({ model, height, cli
48
26
  const { classes } = useStyles();
49
27
  const x = clientMouseCoord[0] + 5;
50
28
  const y = useClientY ? clientMouseCoord[1] : (clientRect === null || clientRect === void 0 ? void 0 : clientRect.top) || 0;
51
- return featureUnderMouse ? (react_1.default.createElement(react_1.default.Fragment, null,
52
- react_1.default.createElement(react_1.Suspense, { fallback: null },
53
- react_1.default.createElement(BaseTooltip_1.default, { clientPoint: { x, y } },
54
- react_1.default.createElement(TooltipContents, { model: model, feature: featureUnderMouse }))),
55
- react_1.default.createElement("div", { className: classes.hoverVertical, style: {
56
- left: offsetMouseCoord[0],
57
- height: height - util_1.YSCALEBAR_LABEL_OFFSET * 2,
58
- } }))) : null;
29
+ return featureUnderMouse ? ((0, jsx_runtime_1.jsxs)(jsx_runtime_1.Fragment, { children: [(0, jsx_runtime_1.jsx)(react_1.Suspense, { fallback: null, children: (0, jsx_runtime_1.jsx)(BaseTooltip_1.default, { clientPoint: { x, y }, children: (0, jsx_runtime_1.jsx)(TooltipContents, { model: model, feature: featureUnderMouse }) }) }), (0, jsx_runtime_1.jsx)("div", { className: classes.hoverVertical, style: {
30
+ left: offsetMouseCoord[0],
31
+ height: height - util_1.YSCALEBAR_LABEL_OFFSET * 2,
32
+ } })] })) : null;
59
33
  });
60
34
  exports.default = Tooltip;
@@ -31,14 +31,14 @@ export default abstract class WiggleBaseRenderer extends FeatureRendererType {
31
31
  width: number;
32
32
  containsNoTransferables: boolean;
33
33
  canvasRecordedData: any;
34
- reactElement?: import("react").ReactElement;
34
+ reactElement?: React.ReactElement;
35
35
  html?: string;
36
36
  } | {
37
37
  features: Map<string, Feature>;
38
38
  height: number;
39
39
  width: number;
40
40
  containsNoTransferables: boolean;
41
- reactElement: React.JSX.Element;
41
+ reactElement: import("react/jsx-runtime").JSX.Element;
42
42
  html?: string;
43
43
  } | {
44
44
  features: Map<string, Feature>;
@@ -46,7 +46,7 @@ export default abstract class WiggleBaseRenderer extends FeatureRendererType {
46
46
  width: number;
47
47
  containsNoTransferables: boolean;
48
48
  imageData: any;
49
- reactElement?: import("react").ReactElement;
49
+ reactElement?: React.ReactElement;
50
50
  html?: string;
51
51
  }>;
52
52
  abstract draw<T extends RenderArgsDeserializedWithFeatures>(ctx: CanvasRenderingContext2D, props: T): Promise<Record<string, unknown> | undefined>;
@@ -1,4 +1,3 @@
1
- import React from 'react';
2
1
  import type { Feature } from '@jbrowse/core/util';
3
2
  import type { Region } from '@jbrowse/core/util/types';
4
3
  declare const WiggleRendering: (props: {
@@ -11,5 +10,5 @@ declare const WiggleRendering: (props: {
11
10
  onMouseLeave?: (event: React.MouseEvent) => void;
12
11
  onMouseMove?: (event: React.MouseEvent, arg?: string) => void;
13
12
  onFeatureClick?: (event: React.MouseEvent, arg?: string) => void;
14
- }) => React.JSX.Element;
13
+ }) => import("react/jsx-runtime").JSX.Element;
15
14
  export default WiggleRendering;
@@ -1,29 +1,7 @@
1
1
  "use strict";
2
- var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
3
- if (k2 === undefined) k2 = k;
4
- var desc = Object.getOwnPropertyDescriptor(m, k);
5
- if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
6
- desc = { enumerable: true, get: function() { return m[k]; } };
7
- }
8
- Object.defineProperty(o, k2, desc);
9
- }) : (function(o, m, k, k2) {
10
- if (k2 === undefined) k2 = k;
11
- o[k2] = m[k];
12
- }));
13
- var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
14
- Object.defineProperty(o, "default", { enumerable: true, value: v });
15
- }) : function(o, v) {
16
- o["default"] = v;
17
- });
18
- var __importStar = (this && this.__importStar) || function (mod) {
19
- if (mod && mod.__esModule) return mod;
20
- var result = {};
21
- if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
22
- __setModuleDefault(result, mod);
23
- return result;
24
- };
25
2
  Object.defineProperty(exports, "__esModule", { value: true });
26
- const react_1 = __importStar(require("react"));
3
+ const jsx_runtime_1 = require("react/jsx-runtime");
4
+ const react_1 = require("react");
27
5
  const ui_1 = require("@jbrowse/core/ui");
28
6
  const mobx_react_1 = require("mobx-react");
29
7
  const WiggleRendering = (0, mobx_react_1.observer)(function (props) {
@@ -48,11 +26,10 @@ const WiggleRendering = (0, mobx_react_1.observer)(function (props) {
48
26
  }
49
27
  return featureUnderMouse;
50
28
  }
51
- return (react_1.default.createElement("div", { ref: ref, "data-testid": "wiggle-rendering-test", onMouseMove: e => { var _a; return onMouseMove === null || onMouseMove === void 0 ? void 0 : onMouseMove(e, (_a = getFeatureUnderMouse(e.clientX)) === null || _a === void 0 ? void 0 : _a.id()); }, onClick: e => { var _a; return onFeatureClick === null || onFeatureClick === void 0 ? void 0 : onFeatureClick(e, (_a = getFeatureUnderMouse(e.clientX)) === null || _a === void 0 ? void 0 : _a.id()); }, onMouseLeave: e => onMouseLeave === null || onMouseLeave === void 0 ? void 0 : onMouseLeave(e), style: {
29
+ return ((0, jsx_runtime_1.jsx)("div", { ref: ref, "data-testid": "wiggle-rendering-test", onMouseMove: e => { var _a; return onMouseMove === null || onMouseMove === void 0 ? void 0 : onMouseMove(e, (_a = getFeatureUnderMouse(e.clientX)) === null || _a === void 0 ? void 0 : _a.id()); }, onClick: e => { var _a; return onFeatureClick === null || onFeatureClick === void 0 ? void 0 : onFeatureClick(e, (_a = getFeatureUnderMouse(e.clientX)) === null || _a === void 0 ? void 0 : _a.id()); }, onMouseLeave: e => onMouseLeave === null || onMouseLeave === void 0 ? void 0 : onMouseLeave(e), style: {
52
30
  overflow: 'visible',
53
31
  position: 'relative',
54
32
  height,
55
- } },
56
- react_1.default.createElement(ui_1.PrerenderedCanvas, { ...props })));
33
+ }, children: (0, jsx_runtime_1.jsx)(ui_1.PrerenderedCanvas, { ...props }) }));
57
34
  });
58
35
  exports.default = WiggleRendering;
@@ -1,19 +1,52 @@
1
1
  "use strict";
2
+ var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
3
+ if (k2 === undefined) k2 = k;
4
+ var desc = Object.getOwnPropertyDescriptor(m, k);
5
+ if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
6
+ desc = { enumerable: true, get: function() { return m[k]; } };
7
+ }
8
+ Object.defineProperty(o, k2, desc);
9
+ }) : (function(o, m, k, k2) {
10
+ if (k2 === undefined) k2 = k;
11
+ o[k2] = m[k];
12
+ }));
13
+ var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
14
+ Object.defineProperty(o, "default", { enumerable: true, value: v });
15
+ }) : function(o, v) {
16
+ o["default"] = v;
17
+ });
18
+ var __importStar = (this && this.__importStar) || (function () {
19
+ var ownKeys = function(o) {
20
+ ownKeys = Object.getOwnPropertyNames || function (o) {
21
+ var ar = [];
22
+ for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
23
+ return ar;
24
+ };
25
+ return ownKeys(o);
26
+ };
27
+ return function (mod) {
28
+ if (mod && mod.__esModule) return mod;
29
+ var result = {};
30
+ if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
31
+ __setModuleDefault(result, mod);
32
+ return result;
33
+ };
34
+ })();
2
35
  var __importDefault = (this && this.__importDefault) || function (mod) {
3
36
  return (mod && mod.__esModule) ? mod : { "default": mod };
4
37
  };
5
38
  Object.defineProperty(exports, "__esModule", { value: true });
6
39
  const configuration_1 = require("@jbrowse/core/configuration");
7
40
  const WiggleBaseRenderer_1 = __importDefault(require("../WiggleBaseRenderer"));
8
- const drawXY_1 = require("../drawXY");
9
41
  const util_1 = require("../util");
10
42
  class XYPlotRenderer extends WiggleBaseRenderer_1.default {
11
43
  async draw(ctx, props) {
12
44
  const { stopToken, features, config } = props;
45
+ const { drawXY } = await Promise.resolve().then(() => __importStar(require('../drawXY')));
13
46
  const pivotValue = (0, configuration_1.readConfObject)(config, 'bicolorPivotValue');
14
47
  const negColor = (0, configuration_1.readConfObject)(config, 'negColor');
15
48
  const posColor = (0, configuration_1.readConfObject)(config, 'posColor');
16
- return (0, drawXY_1.drawXY)(ctx, {
49
+ return drawXY(ctx, {
17
50
  ...props,
18
51
  colorCallback: (0, configuration_1.readConfObject)(config, 'color') === '#f0f'
19
52
  ? (_, score) => score < pivotValue ? negColor : posColor