@jbrowse/plugin-dotplot-view 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 (111) hide show
  1. package/dist/DotplotDisplay/components/DotplotDisplay.d.ts +1 -2
  2. package/dist/DotplotDisplay/components/DotplotDisplay.js +6 -11
  3. package/dist/DotplotDisplay/stateModelFactory.d.ts +1 -2
  4. package/dist/DotplotDisplay/stateModelFactory.js +2 -3
  5. package/dist/DotplotRenderer/DotplotRenderer.d.ts +3 -3
  6. package/dist/DotplotRenderer/DotplotRenderer.js +17 -7
  7. package/dist/DotplotRenderer/components/DotplotRendering.d.ts +1 -2
  8. package/dist/DotplotRenderer/components/DotplotRendering.js +2 -5
  9. package/dist/DotplotView/components/Axes.d.ts +4 -5
  10. package/dist/DotplotView/components/Axes.js +23 -36
  11. package/dist/DotplotView/components/CursorIcon.d.ts +2 -3
  12. package/dist/DotplotView/components/CursorIcon.js +3 -5
  13. package/dist/DotplotView/components/DotplotControls.d.ts +1 -2
  14. package/dist/DotplotView/components/DotplotControls.js +89 -91
  15. package/dist/DotplotView/components/DotplotTooltipClick.d.ts +1 -2
  16. package/dist/DotplotView/components/DotplotTooltipClick.js +2 -6
  17. package/dist/DotplotView/components/DotplotTooltipMouseover.d.ts +1 -2
  18. package/dist/DotplotView/components/DotplotTooltipMouseover.js +3 -7
  19. package/dist/DotplotView/components/DotplotView.d.ts +1 -2
  20. package/dist/DotplotView/components/DotplotView.js +75 -80
  21. package/dist/DotplotView/components/DotplotWarnings.d.ts +1 -2
  22. package/dist/DotplotView/components/DotplotWarnings.js +26 -20
  23. package/dist/DotplotView/components/ExportSvgDialog.d.ts +1 -2
  24. package/dist/DotplotView/components/ExportSvgDialog.js +31 -64
  25. package/dist/DotplotView/components/Grid.d.ts +2 -3
  26. package/dist/DotplotView/components/Grid.js +17 -28
  27. package/dist/DotplotView/components/Header.d.ts +1 -2
  28. package/dist/DotplotView/components/Header.js +2 -21
  29. package/dist/DotplotView/components/ImportForm/ImportSyntenyOpenCustomTrack.d.ts +7 -0
  30. package/dist/DotplotView/components/ImportForm/ImportSyntenyOpenCustomTrack.js +129 -0
  31. package/dist/DotplotView/components/ImportForm/ImportSyntenyTrackSelector.d.ts +3 -5
  32. package/dist/DotplotView/components/ImportForm/ImportSyntenyTrackSelector.js +12 -38
  33. package/dist/DotplotView/components/ImportForm/TrackSelector.d.ts +7 -0
  34. package/dist/DotplotView/components/ImportForm/TrackSelector.js +23 -0
  35. package/dist/DotplotView/components/ImportForm/getAdapter.d.ts +117 -0
  36. package/dist/DotplotView/components/ImportForm/getAdapter.js +68 -0
  37. package/dist/DotplotView/components/ImportForm/index.d.ts +2 -3
  38. package/dist/DotplotView/components/ImportForm/index.js +43 -92
  39. package/dist/DotplotView/components/PanButtons.d.ts +1 -2
  40. package/dist/DotplotView/components/PanButtons.js +14 -32
  41. package/dist/DotplotView/components/WarningDialog.d.ts +1 -2
  42. package/dist/DotplotView/components/WarningDialog.js +2 -9
  43. package/dist/DotplotView/index.js +17 -7
  44. package/dist/DotplotView/model.d.ts +6 -4
  45. package/dist/DotplotView/model.js +40 -30
  46. package/dist/DotplotView/svgcomponents/SVGBackground.d.ts +1 -2
  47. package/dist/DotplotView/svgcomponents/SVGBackground.js +2 -5
  48. package/dist/DotplotView/svgcomponents/SVGDotplotView.js +2 -16
  49. package/dist/DotplotView/types.d.ts +12 -0
  50. package/dist/DotplotView/types.js +2 -0
  51. package/dist/ServerSideRenderedBlockContent.d.ts +1 -2
  52. package/dist/ServerSideRenderedBlockContent.js +9 -34
  53. package/dist/ServerSideSyntenyRendering.d.ts +1 -2
  54. package/dist/ServerSideSyntenyRendering.js +3 -25
  55. package/esm/DotplotDisplay/components/DotplotDisplay.d.ts +1 -2
  56. package/esm/DotplotDisplay/components/DotplotDisplay.js +6 -8
  57. package/esm/DotplotDisplay/stateModelFactory.d.ts +1 -2
  58. package/esm/DotplotDisplay/stateModelFactory.js +2 -3
  59. package/esm/DotplotRenderer/DotplotRenderer.d.ts +3 -3
  60. package/esm/DotplotRenderer/components/DotplotRendering.d.ts +1 -2
  61. package/esm/DotplotRenderer/components/DotplotRendering.js +2 -2
  62. package/esm/DotplotView/components/Axes.d.ts +4 -5
  63. package/esm/DotplotView/components/Axes.js +23 -33
  64. package/esm/DotplotView/components/CursorIcon.d.ts +2 -3
  65. package/esm/DotplotView/components/CursorIcon.js +3 -5
  66. package/esm/DotplotView/components/DotplotControls.d.ts +1 -2
  67. package/esm/DotplotView/components/DotplotControls.js +89 -91
  68. package/esm/DotplotView/components/DotplotTooltipClick.d.ts +1 -2
  69. package/esm/DotplotView/components/DotplotTooltipClick.js +2 -6
  70. package/esm/DotplotView/components/DotplotTooltipMouseover.d.ts +1 -2
  71. package/esm/DotplotView/components/DotplotTooltipMouseover.js +3 -7
  72. package/esm/DotplotView/components/DotplotView.d.ts +1 -2
  73. package/esm/DotplotView/components/DotplotView.js +58 -73
  74. package/esm/DotplotView/components/DotplotWarnings.d.ts +1 -2
  75. package/esm/DotplotView/components/DotplotWarnings.js +9 -13
  76. package/esm/DotplotView/components/ExportSvgDialog.d.ts +1 -2
  77. package/esm/DotplotView/components/ExportSvgDialog.js +31 -41
  78. package/esm/DotplotView/components/Grid.d.ts +2 -3
  79. package/esm/DotplotView/components/Grid.js +17 -25
  80. package/esm/DotplotView/components/Header.d.ts +1 -2
  81. package/esm/DotplotView/components/Header.js +2 -21
  82. package/esm/DotplotView/components/ImportForm/ImportSyntenyOpenCustomTrack.d.ts +7 -0
  83. package/esm/DotplotView/components/ImportForm/ImportSyntenyOpenCustomTrack.js +124 -0
  84. package/esm/DotplotView/components/ImportForm/ImportSyntenyTrackSelector.d.ts +3 -5
  85. package/esm/DotplotView/components/ImportForm/ImportSyntenyTrackSelector.js +12 -15
  86. package/esm/DotplotView/components/ImportForm/TrackSelector.d.ts +7 -0
  87. package/esm/DotplotView/components/ImportForm/TrackSelector.js +18 -0
  88. package/esm/DotplotView/components/ImportForm/getAdapter.d.ts +117 -0
  89. package/esm/DotplotView/components/ImportForm/getAdapter.js +65 -0
  90. package/esm/DotplotView/components/ImportForm/index.d.ts +2 -3
  91. package/esm/DotplotView/components/ImportForm/index.js +45 -71
  92. package/esm/DotplotView/components/PanButtons.d.ts +1 -2
  93. package/esm/DotplotView/components/PanButtons.js +14 -32
  94. package/esm/DotplotView/components/WarningDialog.d.ts +1 -2
  95. package/esm/DotplotView/components/WarningDialog.js +2 -6
  96. package/esm/DotplotView/model.d.ts +6 -4
  97. package/esm/DotplotView/model.js +25 -25
  98. package/esm/DotplotView/svgcomponents/SVGBackground.d.ts +1 -2
  99. package/esm/DotplotView/svgcomponents/SVGBackground.js +2 -2
  100. package/esm/DotplotView/svgcomponents/SVGDotplotView.js +2 -16
  101. package/esm/DotplotView/types.d.ts +12 -0
  102. package/esm/DotplotView/types.js +1 -0
  103. package/esm/ServerSideRenderedBlockContent.d.ts +1 -2
  104. package/esm/ServerSideRenderedBlockContent.js +9 -11
  105. package/esm/ServerSideSyntenyRendering.d.ts +1 -2
  106. package/esm/ServerSideSyntenyRendering.js +3 -2
  107. package/package.json +2 -2
  108. package/dist/DotplotView/components/ImportForm/ImportCustomTrack.d.ts +0 -11
  109. package/dist/DotplotView/components/ImportForm/ImportCustomTrack.js +0 -194
  110. package/esm/DotplotView/components/ImportForm/ImportCustomTrack.d.ts +0 -11
  111. package/esm/DotplotView/components/ImportForm/ImportCustomTrack.js +0 -169
@@ -1,7 +1,6 @@
1
- import React from 'react';
2
1
  import type { DotplotDisplayModel } from '../stateModelFactory';
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2
  declare const DotplotDisplay: (props: {
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  model: DotplotDisplayModel;
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  children?: React.ReactNode;
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- }) => React.JSX.Element;
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+ }) => import("react/jsx-runtime").JSX.Element;
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  export default DotplotDisplay;
@@ -1,9 +1,6 @@
1
1
  "use strict";
2
- 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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2
  Object.defineProperty(exports, "__esModule", { value: true });
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- const react_1 = __importDefault(require("react"));
3
+ const jsx_runtime_1 = require("react/jsx-runtime");
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  const util_1 = require("@jbrowse/core/util");
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  const mobx_react_1 = require("mobx-react");
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  const DotplotDisplay = (0, mobx_react_1.observer)(function DotplotDisplay(props) {
@@ -12,12 +9,10 @@ const DotplotDisplay = (0, mobx_react_1.observer)(function DotplotDisplay(props)
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  const view = (0, util_1.getContainingView)(model);
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  const top = view.vview.offsetPx - offsetY;
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  const left = -(view.hview.offsetPx - offsetX);
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- return (react_1.default.createElement("div", { style: { position: 'relative' } },
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- react_1.default.createElement(model.ReactComponent2, { ...props, style: {
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- position: 'absolute',
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- top,
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- left,
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- } }),
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- children));
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+ return ((0, jsx_runtime_1.jsxs)("div", { style: { position: 'relative' }, children: [(0, jsx_runtime_1.jsx)(model.ReactComponent2, { ...props, style: {
13
+ position: 'absolute',
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+ top,
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+ left,
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+ } }), children] }));
22
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  });
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18
  exports.default = DotplotDisplay;
@@ -1,4 +1,3 @@
1
- import React from 'react';
2
1
  import type { ExportSvgOptions } from '../DotplotView/model';
3
2
  import type { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
4
3
  import type { ThemeOptions } from '@mui/material';
@@ -87,7 +86,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
87
86
  } & {
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  renderSvg(opts: ExportSvgOptions & {
89
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  theme?: ThemeOptions;
90
- }): Promise<React.JSX.Element | null>;
89
+ }): Promise<import("react/jsx-runtime").JSX.Element | null>;
91
90
  } & {
92
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  afterAttach(): void;
93
92
  setLoading(stopToken?: string): void;
@@ -4,7 +4,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
4
4
  };
5
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  Object.defineProperty(exports, "__esModule", { value: true });
6
6
  exports.stateModelFactory = stateModelFactory;
7
- const react_1 = __importDefault(require("react"));
7
+ const jsx_runtime_1 = require("react/jsx-runtime");
8
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  const configuration_1 = require("@jbrowse/core/configuration");
9
9
  const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
10
10
  const util_1 = require("@jbrowse/core/util");
@@ -62,8 +62,7 @@ function stateModelFactory(configSchema) {
62
62
  const { hview, vview } = (0, util_1.getContainingView)(self);
63
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  const offX = -hview.offsetPx + rendering.offsetX;
64
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  const offY = -vview.offsetPx + rendering.offsetY;
65
- return (react_1.default.createElement("g", { transform: `translate(${offX} ${-offY})` },
66
- react_1.default.createElement(util_1.ReactRendering, { rendering: rendering })));
65
+ return ((0, jsx_runtime_1.jsx)("g", { transform: `translate(${offX} ${-offY})`, children: (0, jsx_runtime_1.jsx)(util_1.ReactRendering, { rendering: rendering }) }));
67
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  },
68
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  }))
69
68
  .actions(self => ({
@@ -36,7 +36,7 @@ export default class DotplotRenderer extends ComparativeRenderer {
36
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  bpPerPxX: number;
37
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  bpPerPxY: number;
38
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  canvasRecordedData: any;
39
- reactElement?: import("react").ReactElement;
39
+ reactElement?: React.ReactElement;
40
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  html?: string;
41
41
  } | {
42
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  height: number;
@@ -45,7 +45,7 @@ export default class DotplotRenderer extends ComparativeRenderer {
45
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  offsetY: number;
46
46
  bpPerPxX: number;
47
47
  bpPerPxY: number;
48
- reactElement: React.JSX.Element;
48
+ reactElement: import("react/jsx-runtime").JSX.Element;
49
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  html?: string;
50
50
  } | {
51
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  height: number;
@@ -55,7 +55,7 @@ export default class DotplotRenderer extends ComparativeRenderer {
55
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  bpPerPxX: number;
56
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  bpPerPxY: number;
57
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  imageData: any;
58
- reactElement?: import("react").ReactElement;
58
+ reactElement?: React.ReactElement;
59
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  html?: string;
60
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  }>;
61
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  }
@@ -15,13 +15,23 @@ var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (
15
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  }) : function(o, v) {
16
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  o["default"] = v;
17
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  });
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;
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- };
18
+ var __importStar = (this && this.__importStar) || (function () {
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+ var ownKeys = function(o) {
20
+ 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;
24
+ };
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+ 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
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  var __importDefault = (this && this.__importDefault) || function (mod) {
26
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  return (mod && mod.__esModule) ? mod : { "default": mod };
27
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  };
@@ -1,4 +1,3 @@
1
- import React from 'react';
2
1
  import type { DotplotRenderArgsDeserialized } from '../DotplotRenderer';
3
- declare const DotplotRendering: (props: DotplotRenderArgsDeserialized) => React.JSX.Element;
2
+ declare const DotplotRendering: (props: DotplotRenderArgsDeserialized) => import("react/jsx-runtime").JSX.Element;
4
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  export default DotplotRendering;
@@ -1,12 +1,9 @@
1
1
  "use strict";
2
- var __importDefault = (this && this.__importDefault) || function (mod) {
3
- return (mod && mod.__esModule) ? mod : { "default": mod };
4
- };
5
2
  Object.defineProperty(exports, "__esModule", { value: true });
6
- const react_1 = __importDefault(require("react"));
3
+ const jsx_runtime_1 = require("react/jsx-runtime");
7
4
  const ui_1 = require("@jbrowse/core/ui");
8
5
  const mobx_react_1 = require("mobx-react");
9
6
  const DotplotRendering = (0, mobx_react_1.observer)(function (props) {
10
- return react_1.default.createElement(ui_1.PrerenderedCanvas, { ...props });
7
+ return (0, jsx_runtime_1.jsx)(ui_1.PrerenderedCanvas, { ...props });
11
8
  });
12
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  exports.default = DotplotRendering;
@@ -1,14 +1,13 @@
1
- import React from 'react';
2
1
  import type { DotplotViewModel } from '../model';
3
2
  export declare const HorizontalAxis: ({ model, }: {
4
3
  model: DotplotViewModel;
5
- }) => React.JSX.Element;
4
+ }) => import("react/jsx-runtime").JSX.Element;
6
5
  export declare const HorizontalAxisRaw: ({ model, }: {
7
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  model: DotplotViewModel;
8
- }) => React.JSX.Element;
7
+ }) => import("react/jsx-runtime").JSX.Element;
9
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  export declare const VerticalAxis: ({ model, }: {
10
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  model: DotplotViewModel;
11
- }) => React.JSX.Element;
10
+ }) => import("react/jsx-runtime").JSX.Element;
12
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  export declare const VerticalAxisRaw: ({ model, }: {
13
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  model: DotplotViewModel;
14
- }) => React.JSX.Element;
13
+ }) => import("react/jsx-runtime").JSX.Element;
@@ -1,10 +1,7 @@
1
1
  "use strict";
2
- var __importDefault = (this && this.__importDefault) || function (mod) {
3
- return (mod && mod.__esModule) ? mod : { "default": mod };
4
- };
5
2
  Object.defineProperty(exports, "__esModule", { value: true });
6
3
  exports.VerticalAxisRaw = exports.VerticalAxis = exports.HorizontalAxisRaw = exports.HorizontalAxis = void 0;
7
- const react_1 = __importDefault(require("react"));
4
+ const jsx_runtime_1 = require("react/jsx-runtime");
8
5
  const util_1 = require("@jbrowse/core/util");
9
6
  const Base1DUtils_1 = require("@jbrowse/core/util/Base1DUtils");
10
7
  const material_1 = require("@mui/material");
@@ -29,8 +26,7 @@ const useStyles = (0, mui_1.makeStyles)()(() => ({
29
26
  exports.HorizontalAxis = (0, mobx_react_1.observer)(function ({ model, }) {
30
27
  const { viewWidth, borderY } = model;
31
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  const { classes } = useStyles();
32
- return (react_1.default.createElement("svg", { width: viewWidth, height: borderY, className: classes.htext },
33
- react_1.default.createElement(exports.HorizontalAxisRaw, { model: model })));
29
+ return ((0, jsx_runtime_1.jsx)("svg", { width: viewWidth, height: borderY, className: classes.htext, children: (0, jsx_runtime_1.jsx)(exports.HorizontalAxisRaw, { model: model }) }));
34
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  });
35
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  exports.HorizontalAxisRaw = (0, mobx_react_1.observer)(function ({ model, }) {
36
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  const { viewWidth, borderX, borderY, hview, htextRotation, hticks } = model;
@@ -57,26 +53,21 @@ exports.HorizontalAxisRaw = (0, mobx_react_1.observer)(function ({ model, }) {
57
53
  })
58
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  .filter(f => f[1] !== undefined)
59
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  .map(f => [f[0], f[1] - offsetPx]);
60
- return (react_1.default.createElement(react_1.default.Fragment, null,
61
- dblocks
62
- .filter(region => !hide.has(region.key))
63
- .map(region => {
64
- const x = region.offsetPx;
65
- const y = 0;
66
- const xoff = Math.floor(x - hview.offsetPx);
67
- return (react_1.default.createElement("text", { transform: `rotate(${htextRotation},${xoff},${y})`, key: JSON.stringify(region), x: xoff, y: y + 1, fontSize: 11, dominantBaseline: "hanging", textAnchor: "end", ...(0, util_1.getFillProps)(theme.palette.text.primary) }, region.refName));
68
- }),
69
- ticks.map(([tick, x]) => x > 0 && x < width ? (react_1.default.createElement("line", { key: `line-${JSON.stringify(tick)}`, x1: x, x2: x, y1: 0, y2: tick.type === 'major' ? 6 : 4, strokeWidth: 1, ...(0, util_1.getFillProps)(theme.palette.text.primary) })) : null),
70
- ticks
71
- .filter(t => t[0].type === 'major')
72
- .map(([tick, x]) => x > 10 && x < width ? (react_1.default.createElement("text", { x: x - 7, y: 0, transform: `rotate(${htextRotation},${x},0)`, key: `text-${JSON.stringify(tick)}`, fontSize: 11, dominantBaseline: "middle", textAnchor: "end", ...(0, util_1.getFillProps)(theme.palette.text.primary) }, (0, util_1.getTickDisplayStr)(tick.base + 1, bpPerPx))) : null),
73
- react_1.default.createElement("text", { y: borderY - 12, x: (viewWidth - borderX) / 2, textAnchor: "middle", fontSize: 11, dominantBaseline: "hanging", ...(0, util_1.getFillProps)(theme.palette.text.primary) }, hview.assemblyNames.join(','))));
56
+ return ((0, jsx_runtime_1.jsxs)(jsx_runtime_1.Fragment, { children: [dblocks
57
+ .filter(region => !hide.has(region.key))
58
+ .map(region => {
59
+ const x = region.offsetPx;
60
+ const y = 0;
61
+ const xoff = Math.floor(x - hview.offsetPx);
62
+ return ((0, jsx_runtime_1.jsx)("text", { transform: `rotate(${htextRotation},${xoff},${y})`, x: xoff, y: y + 1, fontSize: 11, dominantBaseline: "hanging", textAnchor: "end", ...(0, util_1.getFillProps)(theme.palette.text.primary), children: region.refName }, JSON.stringify(region)));
63
+ }), ticks.map(([tick, x]) => x > 0 && x < width ? ((0, jsx_runtime_1.jsx)("line", { x1: x, x2: x, y1: 0, y2: tick.type === 'major' ? 6 : 4, strokeWidth: 1, ...(0, util_1.getFillProps)(theme.palette.text.primary) }, `line-${JSON.stringify(tick)}`)) : null), ticks
64
+ .filter(t => t[0].type === 'major')
65
+ .map(([tick, x]) => x > 10 && x < width ? ((0, jsx_runtime_1.jsx)("text", { x: x - 7, y: 0, transform: `rotate(${htextRotation},${x},0)`, fontSize: 11, dominantBaseline: "middle", textAnchor: "end", ...(0, util_1.getFillProps)(theme.palette.text.primary), children: (0, util_1.getTickDisplayStr)(tick.base + 1, bpPerPx) }, `text-${JSON.stringify(tick)}`)) : null), (0, jsx_runtime_1.jsx)("text", { y: borderY - 12, x: (viewWidth - borderX) / 2, textAnchor: "middle", fontSize: 11, dominantBaseline: "hanging", ...(0, util_1.getFillProps)(theme.palette.text.primary), children: hview.assemblyNames.join(',') })] }));
74
66
  });
75
67
  exports.VerticalAxis = (0, mobx_react_1.observer)(function ({ model, }) {
76
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  const { borderX, viewHeight } = model;
77
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  const { classes } = useStyles();
78
- return (react_1.default.createElement("svg", { className: classes.vtext, width: borderX, height: viewHeight },
79
- react_1.default.createElement(exports.VerticalAxisRaw, { model: model })));
70
+ return ((0, jsx_runtime_1.jsx)("svg", { className: classes.vtext, width: borderX, height: viewHeight, children: (0, jsx_runtime_1.jsx)(exports.VerticalAxisRaw, { model: model }) }));
80
71
  });
81
72
  exports.VerticalAxisRaw = (0, mobx_react_1.observer)(function ({ model, }) {
82
73
  const { viewHeight, borderX, borderY, vview, vtextRotation, vticks } = model;
@@ -103,18 +94,14 @@ exports.VerticalAxisRaw = (0, mobx_react_1.observer)(function ({ model, }) {
103
94
  })
104
95
  .filter(f => f[1] !== undefined)
105
96
  .map(f => [f[0], f[1] - offsetPx]);
106
- return (react_1.default.createElement(react_1.default.Fragment, null,
107
- dblocks
108
- .filter(region => !hide.has(region.key))
109
- .map(region => {
110
- const y = region.offsetPx;
111
- const x = borderX;
112
- const yoff = Math.floor(viewHeight - y + offsetPx);
113
- return (react_1.default.createElement("text", { transform: `rotate(${vtextRotation},${x},${y})`, key: JSON.stringify(region), x: x, y: yoff, fontSize: 11, textAnchor: "end", ...(0, util_1.getFillProps)(theme.palette.text.primary) }, region.refName));
114
- }),
115
- ticks.map(([tick, y]) => y > 0 ? (react_1.default.createElement("line", { key: `line-${JSON.stringify(tick)}`, y1: viewHeight - y, y2: viewHeight - y, x1: borderX, x2: borderX - (tick.type === 'major' ? 6 : 4), strokeWidth: 1, ...(0, util_1.getStrokeProps)(theme.palette.grey[400]) })) : null),
116
- ticks
117
- .filter(t => t[0].type === 'major')
118
- .map(([tick, y]) => y > 10 && y < viewHeight ? (react_1.default.createElement("text", { y: viewHeight - y - 3, x: borderX - 7, key: `text-${JSON.stringify(tick)}`, textAnchor: "end", dominantBaseline: "hanging", fontSize: 11, ...(0, util_1.getFillProps)(theme.palette.text.primary) }, (0, util_1.getTickDisplayStr)(tick.base + 1, bpPerPx))) : null),
119
- react_1.default.createElement("text", { y: (viewHeight - borderY) / 2, x: 12, transform: `rotate(-90,12,${(viewHeight - borderY) / 2})`, textAnchor: "middle", fontSize: 11, ...(0, util_1.getFillProps)(theme.palette.text.primary) }, vview.assemblyNames.join(','))));
97
+ return ((0, jsx_runtime_1.jsxs)(jsx_runtime_1.Fragment, { children: [dblocks
98
+ .filter(region => !hide.has(region.key))
99
+ .map(region => {
100
+ const y = region.offsetPx;
101
+ const x = borderX;
102
+ const yoff = Math.floor(viewHeight - y + offsetPx);
103
+ return ((0, jsx_runtime_1.jsx)("text", { transform: `rotate(${vtextRotation},${x},${y})`, x: x, y: yoff, fontSize: 11, textAnchor: "end", ...(0, util_1.getFillProps)(theme.palette.text.primary), children: region.refName }, JSON.stringify(region)));
104
+ }), ticks.map(([tick, y]) => y > 0 ? ((0, jsx_runtime_1.jsx)("line", { y1: viewHeight - y, y2: viewHeight - y, x1: borderX, x2: borderX - (tick.type === 'major' ? 6 : 4), strokeWidth: 1, ...(0, util_1.getStrokeProps)(theme.palette.grey[400]) }, `line-${JSON.stringify(tick)}`)) : null), ticks
105
+ .filter(t => t[0].type === 'major')
106
+ .map(([tick, y]) => y > 10 && y < viewHeight ? ((0, jsx_runtime_1.jsx)("text", { y: viewHeight - y - 3, x: borderX - 7, textAnchor: "end", dominantBaseline: "hanging", fontSize: 11, ...(0, util_1.getFillProps)(theme.palette.text.primary), children: (0, util_1.getTickDisplayStr)(tick.base + 1, bpPerPx) }, `text-${JSON.stringify(tick)}`)) : null), (0, jsx_runtime_1.jsx)("text", { y: (viewHeight - borderY) / 2, x: 12, transform: `rotate(-90,12,${(viewHeight - borderY) / 2})`, textAnchor: "middle", fontSize: 11, ...(0, util_1.getFillProps)(theme.palette.text.primary), children: vview.assemblyNames.join(',') })] }));
120
107
  });
@@ -1,4 +1,3 @@
1
- import React from 'react';
2
1
  import type { SvgIconProps } from '@mui/material/SvgIcon';
3
- export declare function CursorMove(props: SvgIconProps): React.JSX.Element;
4
- export declare function CursorMouse(props: SvgIconProps): React.JSX.Element;
2
+ export declare function CursorMove(props: SvgIconProps): import("react/jsx-runtime").JSX.Element;
3
+ export declare function CursorMouse(props: SvgIconProps): import("react/jsx-runtime").JSX.Element;
@@ -5,13 +5,11 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
5
5
  Object.defineProperty(exports, "__esModule", { value: true });
6
6
  exports.CursorMove = CursorMove;
7
7
  exports.CursorMouse = CursorMouse;
8
- const react_1 = __importDefault(require("react"));
8
+ const jsx_runtime_1 = require("react/jsx-runtime");
9
9
  const SvgIcon_1 = __importDefault(require("@mui/material/SvgIcon"));
10
10
  function CursorMove(props) {
11
- return (react_1.default.createElement(SvgIcon_1.default, { ...props },
12
- react_1.default.createElement("path", { fill: "currentColor", d: "M13,6V11H18V7.75L22.25,12L18,16.25V13H13V18H16.25L12,22.25L7.75,18H11V13H6V16.25L1.75,12L6,7.75V11H11V6H7.75L12,1.75L16.25,6H13Z" })));
11
+ return ((0, jsx_runtime_1.jsx)(SvgIcon_1.default, { ...props, children: (0, jsx_runtime_1.jsx)("path", { fill: "currentColor", d: "M13,6V11H18V7.75L22.25,12L18,16.25V13H13V18H16.25L12,22.25L7.75,18H11V13H6V16.25L1.75,12L6,7.75V11H11V6H7.75L12,1.75L16.25,6H13Z" }) }));
13
12
  }
14
13
  function CursorMouse(props) {
15
- return (react_1.default.createElement(SvgIcon_1.default, { ...props },
16
- react_1.default.createElement("path", { fill: "currentColor", d: "M10.07,14.27C10.57,14.03 11.16,14.25 11.4,14.75L13.7,19.74L15.5,18.89L13.19,13.91C12.95,13.41 13.17,12.81 13.67,12.58L13.95,12.5L16.25,12.05L8,5.12V15.9L9.82,14.43L10.07,14.27M13.64,21.97C13.14,22.21 12.54,22 12.31,21.5L10.13,16.76L7.62,18.78C7.45,18.92 7.24,19 7,19A1,1 0 0,1 6,18V3A1,1 0 0,1 7,2C7.24,2 7.47,2.09 7.64,2.23L7.65,2.22L19.14,11.86C19.57,12.22 19.62,12.85 19.27,13.27C19.12,13.45 18.91,13.57 18.7,13.61L15.54,14.23L17.74,18.96C18,19.46 17.76,20.05 17.26,20.28L13.64,21.97Z" })));
14
+ return ((0, jsx_runtime_1.jsx)(SvgIcon_1.default, { ...props, children: (0, jsx_runtime_1.jsx)("path", { fill: "currentColor", d: "M10.07,14.27C10.57,14.03 11.16,14.25 11.4,14.75L13.7,19.74L15.5,18.89L13.19,13.91C12.95,13.41 13.17,12.81 13.67,12.58L13.95,12.5L16.25,12.05L8,5.12V15.9L9.82,14.43L10.07,14.27M13.64,21.97C13.14,22.21 12.54,22 12.31,21.5L10.13,16.76L7.62,18.78C7.45,18.92 7.24,19 7,19A1,1 0 0,1 6,18V3A1,1 0 0,1 7,2C7.24,2 7.47,2.09 7.64,2.23L7.65,2.22L19.14,11.86C19.57,12.22 19.62,12.85 19.27,13.27C19.12,13.45 18.91,13.57 18.7,13.61L15.54,14.23L17.74,18.96C18,19.46 17.76,20.05 17.26,20.28L13.64,21.97Z" }) }));
17
15
  }
@@ -1,6 +1,5 @@
1
- import React from 'react';
2
1
  import type { DotplotViewModel } from '../model';
3
2
  declare const DotplotControls: ({ model, }: {
4
3
  model: DotplotViewModel;
5
- }) => React.JSX.Element;
4
+ }) => import("react/jsx-runtime").JSX.Element;
6
5
  export default DotplotControls;
@@ -3,115 +3,113 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
3
3
  return (mod && mod.__esModule) ? mod : { "default": mod };
4
4
  };
5
5
  Object.defineProperty(exports, "__esModule", { value: true });
6
- const react_1 = __importDefault(require("react"));
6
+ const jsx_runtime_1 = require("react/jsx-runtime");
7
7
  const CascadingMenuButton_1 = __importDefault(require("@jbrowse/core/ui/CascadingMenuButton"));
8
8
  const Icons_1 = require("@jbrowse/core/ui/Icons");
9
+ const CropDin_1 = __importDefault(require("@mui/icons-material/CropDin"));
10
+ const CropLandscape_1 = __importDefault(require("@mui/icons-material/CropLandscape"));
9
11
  const MoreVert_1 = __importDefault(require("@mui/icons-material/MoreVert"));
12
+ const SettingsOverscan_1 = __importDefault(require("@mui/icons-material/SettingsOverscan"));
10
13
  const ZoomIn_1 = __importDefault(require("@mui/icons-material/ZoomIn"));
11
14
  const ZoomOut_1 = __importDefault(require("@mui/icons-material/ZoomOut"));
12
15
  const material_1 = require("@mui/material");
13
16
  const mobx_react_1 = require("mobx-react");
14
17
  const CursorIcon_1 = require("./CursorIcon");
15
18
  const DotplotControls = (0, mobx_react_1.observer)(function ({ model, }) {
16
- return (react_1.default.createElement("div", null,
17
- react_1.default.createElement(material_1.IconButton, { onClick: () => {
18
- model.zoomOut();
19
- } },
20
- react_1.default.createElement(ZoomOut_1.default, null)),
21
- react_1.default.createElement(material_1.IconButton, { onClick: () => {
22
- model.zoomIn();
23
- } },
24
- react_1.default.createElement(ZoomIn_1.default, null)),
25
- react_1.default.createElement(material_1.IconButton, { onClick: () => model.activateTrackSelector(), title: "Open track selector" },
26
- react_1.default.createElement(Icons_1.TrackSelector, null)),
27
- react_1.default.createElement(CascadingMenuButton_1.default, { menuItems: [
28
- {
29
- onClick: () => {
30
- model.squareView();
19
+ return ((0, jsx_runtime_1.jsxs)("div", { children: [(0, jsx_runtime_1.jsx)(material_1.IconButton, { onClick: () => {
20
+ model.zoomOut();
21
+ }, children: (0, jsx_runtime_1.jsx)(ZoomOut_1.default, {}) }), (0, jsx_runtime_1.jsx)(material_1.IconButton, { onClick: () => {
22
+ model.zoomIn();
23
+ }, children: (0, jsx_runtime_1.jsx)(ZoomIn_1.default, {}) }), (0, jsx_runtime_1.jsx)(material_1.IconButton, { onClick: () => model.activateTrackSelector(), title: "Open track selector", children: (0, jsx_runtime_1.jsx)(Icons_1.TrackSelector, {}) }), (0, jsx_runtime_1.jsx)(CascadingMenuButton_1.default, { menuItems: [
24
+ {
25
+ label: 'Square view - same bp per pixel',
26
+ icon: CropDin_1.default,
27
+ onClick: () => {
28
+ model.squareView();
29
+ },
31
30
  },
32
- label: 'Square view - same base pairs per pixel',
33
- },
34
- {
35
- onClick: () => {
36
- model.squareViewProportional();
31
+ {
32
+ label: 'Rectangular view - same total bp',
33
+ icon: CropLandscape_1.default,
34
+ onClick: () => {
35
+ model.squareViewProportional();
36
+ },
37
37
  },
38
- label: 'Rectanglularize view - same total bp',
39
- },
40
- {
41
- onClick: () => {
42
- model.showAllRegions();
38
+ {
39
+ label: 'Show all regions',
40
+ icon: SettingsOverscan_1.default,
41
+ onClick: () => {
42
+ model.showAllRegions();
43
+ },
43
44
  },
44
- label: 'Show all regions',
45
- },
46
- {
47
- onClick: () => {
48
- model.setDrawCigar(!model.drawCigar);
45
+ {
46
+ type: 'checkbox',
47
+ label: 'Draw CIGAR',
48
+ checked: model.drawCigar,
49
+ onClick: () => {
50
+ model.setDrawCigar(!model.drawCigar);
51
+ },
49
52
  },
50
- type: 'checkbox',
51
- label: 'Draw CIGAR',
52
- checked: model.drawCigar,
53
- },
54
- {
55
- onClick: () => {
56
- model.setShowPanButtons(!model.showPanButtons);
53
+ {
54
+ label: 'Show pan buttons',
55
+ type: 'checkbox',
56
+ checked: model.showPanButtons,
57
+ onClick: () => {
58
+ model.setShowPanButtons(!model.showPanButtons);
59
+ },
57
60
  },
58
- label: 'Show pan buttons',
59
- type: 'checkbox',
60
- checked: model.showPanButtons,
61
- },
62
- {
63
- label: 'Click and drag mode',
64
- subMenu: [
65
- {
66
- onClick: () => {
67
- model.setCursorMode('move');
61
+ {
62
+ label: 'Click and drag mode',
63
+ subMenu: [
64
+ {
65
+ label: 'Pan by default, select region when ctrl/cmd key is held',
66
+ icon: CursorIcon_1.CursorMove,
67
+ type: 'radio',
68
+ checked: model.cursorMode === 'move',
69
+ onClick: () => {
70
+ model.setCursorMode('move');
71
+ },
68
72
  },
69
- label: 'Pan by default, select region when ctrl/cmd key is held',
70
- icon: CursorIcon_1.CursorMove,
71
- type: 'radio',
72
- checked: model.cursorMode === 'move',
73
- },
74
- {
75
- onClick: () => {
76
- model.setCursorMode('crosshair');
73
+ {
74
+ label: 'Select region by default, pan when ctrl/cmd key is held',
75
+ icon: CursorIcon_1.CursorMouse,
76
+ type: 'radio',
77
+ checked: model.cursorMode === 'crosshair',
78
+ onClick: () => {
79
+ model.setCursorMode('crosshair');
80
+ },
77
81
  },
78
- label: 'Select region by default, pan when ctrl/cmd key is held',
79
- icon: CursorIcon_1.CursorMouse,
80
- type: 'radio',
81
- checked: model.cursorMode === 'crosshair',
82
- },
83
- ],
84
- },
85
- {
86
- label: 'Wheel scroll mode',
87
- subMenu: [
88
- {
89
- onClick: () => {
90
- model.setWheelMode('pan');
82
+ ],
83
+ },
84
+ {
85
+ label: 'Wheel scroll mode',
86
+ subMenu: [
87
+ {
88
+ label: 'Pans view',
89
+ type: 'radio',
90
+ checked: model.wheelMode === 'pan',
91
+ onClick: () => {
92
+ model.setWheelMode('pan');
93
+ },
91
94
  },
92
- label: 'Pans view',
93
- type: 'radio',
94
- checked: model.wheelMode === 'pan',
95
- },
96
- {
97
- onClick: () => {
98
- model.setWheelMode('zoom');
95
+ {
96
+ label: 'Zooms view',
97
+ type: 'radio',
98
+ checked: model.wheelMode === 'zoom',
99
+ onClick: () => {
100
+ model.setWheelMode('zoom');
101
+ },
99
102
  },
100
- label: 'Zooms view',
101
- type: 'radio',
102
- checked: model.wheelMode === 'zoom',
103
- },
104
- {
105
- onClick: () => {
106
- model.setWheelMode('none');
103
+ {
104
+ label: 'Disable',
105
+ type: 'radio',
106
+ checked: model.wheelMode === 'none',
107
+ onClick: () => {
108
+ model.setWheelMode('none');
109
+ },
107
110
  },
108
- label: 'Disable',
109
- type: 'radio',
110
- checked: model.wheelMode === 'none',
111
- },
112
- ],
113
- },
114
- ] },
115
- react_1.default.createElement(MoreVert_1.default, null))));
111
+ ],
112
+ },
113
+ ], children: (0, jsx_runtime_1.jsx)(MoreVert_1.default, {}) })] }));
116
114
  });
117
115
  exports.default = DotplotControls;
@@ -1,4 +1,3 @@
1
- import React from 'react';
2
1
  import type { DotplotViewModel } from '../model';
3
2
  type Coord = [number, number] | undefined;
4
3
  export declare const DotplotTooltipClick: ({ model, mousedown, mousedownClient, xdistance, ydistance, }: {
@@ -7,5 +6,5 @@ export declare const DotplotTooltipClick: ({ model, mousedown, mousedownClient,
7
6
  mousedownClient: Coord;
8
7
  xdistance: number;
9
8
  ydistance: number;
10
- }) => React.JSX.Element | null;
9
+ }) => import("react/jsx-runtime").JSX.Element | null;
11
10
  export default DotplotTooltipClick;
@@ -4,7 +4,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
4
4
  };
5
5
  Object.defineProperty(exports, "__esModule", { value: true });
6
6
  exports.DotplotTooltipClick = void 0;
7
- const react_1 = __importDefault(require("react"));
7
+ const jsx_runtime_1 = require("react/jsx-runtime");
8
8
  const BaseTooltip_1 = __importDefault(require("@jbrowse/core/ui/BaseTooltip"));
9
9
  const mobx_react_1 = require("mobx-react");
10
10
  const util_1 = require("./util");
@@ -12,10 +12,6 @@ exports.DotplotTooltipClick = (0, mobx_react_1.observer)(function ({ model, mous
12
12
  const { hview, vview, viewHeight } = model;
13
13
  const x = ((mousedownClient === null || mousedownClient === void 0 ? void 0 : mousedownClient[0]) || 0) - (xdistance < 0 ? 0 : 0);
14
14
  const y = ((mousedownClient === null || mousedownClient === void 0 ? void 0 : mousedownClient[1]) || 0) - (ydistance < 0 ? 0 : 0);
15
- return mousedown && Math.abs(xdistance) > 3 && Math.abs(ydistance) > 3 ? (react_1.default.createElement(BaseTooltip_1.default, { placement: xdistance < 0 ? 'right' : 'left', clientPoint: { x, y } },
16
- `x - ${(0, util_1.locstr)(mousedown[0], hview)}`,
17
- react_1.default.createElement("br", null),
18
- `y - ${(0, util_1.locstr)(viewHeight - mousedown[1], vview)}`,
19
- react_1.default.createElement("br", null))) : null;
15
+ return mousedown && Math.abs(xdistance) > 3 && Math.abs(ydistance) > 3 ? ((0, jsx_runtime_1.jsxs)(BaseTooltip_1.default, { placement: xdistance < 0 ? 'right' : 'left', clientPoint: { x, y }, children: [`x - ${(0, util_1.locstr)(mousedown[0], hview)}`, (0, jsx_runtime_1.jsx)("br", {}), `y - ${(0, util_1.locstr)(viewHeight - mousedown[1], vview)}`, (0, jsx_runtime_1.jsx)("br", {})] })) : null;
20
16
  });
21
17
  exports.default = exports.DotplotTooltipClick;
@@ -1,4 +1,3 @@
1
- import React from 'react';
2
1
  import type { DotplotViewModel } from '../model';
3
2
  type Coord = [number, number] | undefined;
4
3
  declare const DotplotTooltipMouseover: ({ model, mouserect, mouserectClient, xdistance, }: {
@@ -6,5 +5,5 @@ declare const DotplotTooltipMouseover: ({ model, mouserect, mouserectClient, xdi
6
5
  mouserect: Coord;
7
6
  mouserectClient: Coord;
8
7
  xdistance: number;
9
- }) => React.JSX.Element | null;
8
+ }) => import("react/jsx-runtime").JSX.Element | null;
10
9
  export default DotplotTooltipMouseover;
@@ -3,18 +3,14 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
3
3
  return (mod && mod.__esModule) ? mod : { "default": mod };
4
4
  };
5
5
  Object.defineProperty(exports, "__esModule", { value: true });
6
- const react_1 = __importDefault(require("react"));
6
+ const jsx_runtime_1 = require("react/jsx-runtime");
7
7
  const BaseTooltip_1 = __importDefault(require("@jbrowse/core/ui/BaseTooltip"));
8
8
  const mobx_react_1 = require("mobx-react");
9
9
  const util_1 = require("./util");
10
10
  const DotplotTooltipMouseover = (0, mobx_react_1.observer)(function ({ model, mouserect, mouserectClient, xdistance, }) {
11
11
  const { hview, vview, viewHeight } = model;
12
- return mouserect ? (react_1.default.createElement(BaseTooltip_1.default, { placement: xdistance < 0 ? 'left' : 'right', clientPoint: mouserectClient
12
+ return mouserect ? ((0, jsx_runtime_1.jsxs)(BaseTooltip_1.default, { placement: xdistance < 0 ? 'left' : 'right', clientPoint: mouserectClient
13
13
  ? { x: mouserectClient[0], y: mouserectClient[1] }
14
- : undefined },
15
- `x - ${(0, util_1.locstr)(mouserect[0], hview)}`,
16
- react_1.default.createElement("br", null),
17
- `y - ${(0, util_1.locstr)(viewHeight - mouserect[1], vview)}`,
18
- react_1.default.createElement("br", null))) : null;
14
+ : undefined, children: [`x - ${(0, util_1.locstr)(mouserect[0], hview)}`, (0, jsx_runtime_1.jsx)("br", {}), `y - ${(0, util_1.locstr)(viewHeight - mouserect[1], vview)}`, (0, jsx_runtime_1.jsx)("br", {})] })) : null;
19
15
  });
20
16
  exports.default = DotplotTooltipMouseover;
@@ -1,6 +1,5 @@
1
- import React from 'react';
2
1
  import type { DotplotViewModel } from '../model';
3
2
  declare const DotplotView: ({ model }: {
4
3
  model: DotplotViewModel;
5
- }) => React.JSX.Element;
4
+ }) => import("react/jsx-runtime").JSX.Element;
6
5
  export default DotplotView;