@jbrowse/core 2.0.0 → 2.1.2

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Files changed (184) hide show
  1. package/BaseFeatureWidget/BaseFeatureDetail.d.ts +9 -3
  2. package/BaseFeatureWidget/BaseFeatureDetail.js +313 -581
  3. package/BaseFeatureWidget/SequenceFeatureDetails.js +213 -478
  4. package/BaseFeatureWidget/index.js +88 -126
  5. package/BaseFeatureWidget/types.d.ts +1 -0
  6. package/BaseFeatureWidget/types.js +1 -4
  7. package/BaseFeatureWidget/util.js +40 -75
  8. package/CorePlugin.js +55 -94
  9. package/Plugin.js +9 -34
  10. package/PluginLoader.js +153 -422
  11. package/PluginManager.d.ts +28 -33
  12. package/PluginManager.js +377 -666
  13. package/ReExports/Attributes.js +3 -10
  14. package/ReExports/BaseCard.js +3 -10
  15. package/ReExports/DataGrid.js +5 -12
  16. package/ReExports/FeatureDetails.js +3 -10
  17. package/ReExports/index.js +6 -12
  18. package/ReExports/list.d.ts +5 -0
  19. package/ReExports/list.js +271 -7
  20. package/ReExports/material-ui-colors.js +15 -16
  21. package/ReExports/modules.d.ts +11 -20
  22. package/ReExports/modules.js +453 -798
  23. package/TextSearch/BaseResults.js +51 -123
  24. package/TextSearch/TextSearchManager.js +66 -144
  25. package/assemblyManager/assembly.js +280 -555
  26. package/assemblyManager/assemblyConfigSchema.js +47 -64
  27. package/assemblyManager/assemblyManager.js +126 -272
  28. package/assemblyManager/index.js +9 -22
  29. package/configuration/configurationSchema.js +167 -203
  30. package/configuration/configurationSlot.js +248 -326
  31. package/configuration/index.js +19 -35
  32. package/configuration/util.js +131 -173
  33. package/data_adapters/BaseAdapter.d.ts +2 -2
  34. package/data_adapters/BaseAdapter.js +132 -521
  35. package/data_adapters/CytobandAdapter.js +40 -126
  36. package/data_adapters/dataAdapterCache.js +77 -158
  37. package/package.json +4 -5
  38. package/pluggableElementTypes/AdapterType.js +24 -79
  39. package/pluggableElementTypes/AddTrackWorkflowType.d.ts +17 -0
  40. package/pluggableElementTypes/AddTrackWorkflowType.js +20 -0
  41. package/pluggableElementTypes/ConnectionType.js +22 -65
  42. package/pluggableElementTypes/DisplayType.js +35 -82
  43. package/pluggableElementTypes/InternetAccountType.js +23 -64
  44. package/pluggableElementTypes/PluggableElementBase.js +8 -20
  45. package/pluggableElementTypes/RpcMethodType.js +85 -427
  46. package/pluggableElementTypes/TextSearchAdapterType.js +16 -55
  47. package/pluggableElementTypes/TrackType.js +26 -70
  48. package/pluggableElementTypes/ViewType.js +21 -63
  49. package/pluggableElementTypes/WidgetType.js +21 -64
  50. package/pluggableElementTypes/index.d.ts +4 -3
  51. package/pluggableElementTypes/index.js +42 -125
  52. package/pluggableElementTypes/models/BaseConnectionModelFactory.js +28 -43
  53. package/pluggableElementTypes/models/BaseDisplayModel.js +58 -95
  54. package/pluggableElementTypes/models/BaseTrackModel.js +139 -199
  55. package/pluggableElementTypes/models/BaseViewModel.js +24 -40
  56. package/pluggableElementTypes/models/InternetAccountModel.js +116 -263
  57. package/pluggableElementTypes/models/baseConnectionConfig.js +14 -25
  58. package/pluggableElementTypes/models/baseInternetAccountConfig.js +29 -38
  59. package/pluggableElementTypes/models/baseTrackConfig.js +106 -133
  60. package/pluggableElementTypes/models/index.js +21 -70
  61. package/pluggableElementTypes/renderers/BoxRendererType.js +132 -291
  62. package/pluggableElementTypes/renderers/CircularChordRendererType.js +8 -38
  63. package/pluggableElementTypes/renderers/ComparativeServerSideRendererType.js +60 -192
  64. package/pluggableElementTypes/renderers/FeatureRendererType.d.ts +0 -2
  65. package/pluggableElementTypes/renderers/FeatureRendererType.js +89 -255
  66. package/pluggableElementTypes/renderers/RendererType.js +31 -105
  67. package/pluggableElementTypes/renderers/ServerSideRenderedContent.js +61 -72
  68. package/pluggableElementTypes/renderers/ServerSideRendererType.js +112 -265
  69. package/pluggableElementTypes/renderers/index.js +19 -62
  70. package/pluggableElementTypes/renderers/util/serializableFilterChain.js +27 -65
  71. package/rpc/BaseRpcDriver.js +169 -405
  72. package/rpc/MainThreadRpcDriver.js +27 -150
  73. package/rpc/RpcManager.js +58 -159
  74. package/rpc/WebWorkerRpcDriver.js +54 -171
  75. package/rpc/configSchema.js +25 -49
  76. package/rpc/coreRpcMethods.d.ts +1 -3
  77. package/rpc/coreRpcMethods.js +221 -959
  78. package/rpc/remoteAbortSignals.js +46 -70
  79. package/tsconfig.build.tsbuildinfo +1 -1
  80. package/ui/AboutDialog.js +106 -162
  81. package/ui/App.js +157 -242
  82. package/ui/AssemblySelector.js +59 -120
  83. package/ui/CascadingMenu.js +101 -196
  84. package/ui/ColorPicker.d.ts +16 -0
  85. package/ui/ColorPicker.js +97 -0
  86. package/ui/Drawer.js +28 -61
  87. package/ui/DrawerWidget.js +108 -202
  88. package/ui/DropDownMenu.js +60 -91
  89. package/ui/EditableTypography.js +87 -149
  90. package/ui/ErrorMessage.js +41 -56
  91. package/ui/FactoryResetDialog.js +24 -57
  92. package/ui/FatalErrorDialog.js +59 -91
  93. package/ui/FileSelector/FileSelector.js +123 -189
  94. package/ui/FileSelector/LocalFileChooser.js +44 -75
  95. package/ui/FileSelector/UrlChooser.js +17 -38
  96. package/ui/FileSelector/index.js +6 -12
  97. package/ui/Icons.js +45 -69
  98. package/ui/Logo.js +57 -110
  99. package/ui/Menu.js +232 -354
  100. package/ui/PrerenderedCanvas.js +63 -87
  101. package/ui/ResizeHandle.js +87 -116
  102. package/ui/ReturnToImportFormDialog.js +32 -63
  103. package/ui/SanitizedHTML.js +64 -47
  104. package/ui/Snackbar.js +74 -101
  105. package/ui/SnackbarModel.js +37 -51
  106. package/ui/Tooltip.js +49 -76
  107. package/ui/ViewContainer.js +113 -196
  108. package/ui/colors.d.ts +10 -0
  109. package/ui/colors.js +78 -0
  110. package/ui/index.js +51 -181
  111. package/ui/react-colorful.d.ts +17 -0
  112. package/ui/react-colorful.js +455 -0
  113. package/ui/theme.d.ts +23 -1
  114. package/ui/theme.js +199 -247
  115. package/util/Base1DUtils.d.ts +32 -0
  116. package/util/Base1DUtils.js +174 -0
  117. package/util/Base1DViewModel.d.ts +16 -30
  118. package/util/Base1DViewModel.js +116 -293
  119. package/util/QuickLRU.js +84 -332
  120. package/util/TimeTraveller.d.ts +19 -0
  121. package/util/TimeTraveller.js +86 -0
  122. package/util/aborting.js +49 -127
  123. package/util/analytics.js +91 -154
  124. package/util/blockTypes.js +106 -240
  125. package/util/calculateDynamicBlocks.js +98 -128
  126. package/util/calculateStaticBlocks.js +105 -125
  127. package/util/color/cssColorsLevel4.js +156 -160
  128. package/util/color/index.js +33 -55
  129. package/util/compositeMap.js +49 -333
  130. package/util/formatFastaStrings.js +9 -14
  131. package/util/idMaker.js +18 -31
  132. package/util/index.d.ts +18 -32
  133. package/util/index.js +747 -1226
  134. package/util/io/RemoteFileWithRangeCache.js +88 -257
  135. package/util/io/index.js +95 -169
  136. package/util/jexl.js +60 -115
  137. package/util/jexlStrings.js +24 -29
  138. package/util/layouts/BaseLayout.js +1 -4
  139. package/util/layouts/GranularRectLayout.js +388 -555
  140. package/util/layouts/MultiLayout.js +41 -109
  141. package/util/layouts/PrecomputedLayout.js +56 -112
  142. package/util/layouts/PrecomputedMultiLayout.js +22 -59
  143. package/util/layouts/SceneGraph.js +127 -197
  144. package/util/layouts/index.js +29 -66
  145. package/util/mst-reflection.js +55 -71
  146. package/util/offscreenCanvasPonyfill.js +66 -134
  147. package/util/offscreenCanvasUtils.d.ts +2 -7
  148. package/util/offscreenCanvasUtils.js +49 -146
  149. package/util/range.js +29 -40
  150. package/util/rxjs.js +20 -27
  151. package/util/simpleFeature.js +88 -152
  152. package/util/stats.js +91 -151
  153. package/util/tracks.js +130 -173
  154. package/util/types/index.js +110 -179
  155. package/util/types/mst.js +91 -146
  156. package/util/types/util.js +1 -4
  157. package/util/when.js +54 -101
  158. package/BaseFeatureWidget/SequenceFeatureDetails.test.js +0 -122
  159. package/BaseFeatureWidget/index.test.js +0 -69
  160. package/TextSearch/BaseResults.test.js +0 -42
  161. package/configuration/configurationSchema.test.js +0 -266
  162. package/configuration/configurationSlot.test.js +0 -69
  163. package/configuration/util.test.js +0 -39
  164. package/data_adapters/BaseAdapter.test.js +0 -200
  165. package/declare.d.js +0 -1
  166. package/pluggableElementTypes/RpcMethodType.test.js +0 -118
  167. package/pluggableElementTypes/renderers/declare.d.js +0 -1
  168. package/pluggableElementTypes/renderers/util/serializableFilterChain.test.js +0 -20
  169. package/rpc/BaseRpcDriver.test.js +0 -540
  170. package/rpc/declaration.d.js +0 -1
  171. package/ui/FatalErrorDialog.test.js +0 -82
  172. package/ui/SanitizedHTML.test.js +0 -36
  173. package/ui/theme.test.js +0 -92
  174. package/util/Base1DViewModel.test.js +0 -130
  175. package/util/calculateDynamicBlocks.test.js +0 -74
  176. package/util/calculateStaticBlocks.test.js +0 -297
  177. package/util/declare.d.js +0 -1
  178. package/util/formatFastaStrings.test.js +0 -40
  179. package/util/index.test.js +0 -213
  180. package/util/jexlStrings.test.js +0 -48
  181. package/util/layouts/GranularRectLayout.test.js +0 -99
  182. package/util/range.test.js +0 -64
  183. package/util/simpleFeature.test.js +0 -34
  184. package/util/stats.test.js +0 -172
@@ -1,103 +1,79 @@
1
1
  "use strict";
2
-
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- var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
4
-
5
- Object.defineProperty(exports, "__esModule", {
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- value: true
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- });
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- exports.deserializeAbortSignal = deserializeAbortSignal;
9
- exports.isRemoteAbortSignal = isRemoteAbortSignal;
10
- exports.remoteAbort = remoteAbort;
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- exports.remoteAbortRpcHandler = remoteAbortRpcHandler;
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- exports.serializeAbortSignal = serializeAbortSignal;
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-
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- var _typeof2 = _interopRequireDefault(require("@babel/runtime/helpers/typeof"));
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-
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2
  /* ---------------- for the RPC client ----------------- */
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- var abortSignalCounter = 0;
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- var abortSignalIds = new WeakMap(); // map of abortsignal => numerical ID
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-
3
+ Object.defineProperty(exports, "__esModule", { value: true });
4
+ exports.remoteAbortRpcHandler = exports.remoteAbort = exports.deserializeAbortSignal = exports.isRemoteAbortSignal = exports.serializeAbortSignal = void 0;
5
+ let abortSignalCounter = 0;
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+ const abortSignalIds = new WeakMap(); // map of abortsignal => numerical ID
20
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  /**
21
8
  * assign an ID to the given abort signal and return a plain object representation
22
9
  * @param signal - the signal to serialize
23
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  * @param callfunc - function used to call
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  * a remote method, will be called like callfunc('signalAbort', signalId)
25
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  */
26
-
27
13
  function serializeAbortSignal(signal, callfunc) {
28
- var abortSignalId = abortSignalIds.get(signal);
29
-
30
- if (!abortSignalId) {
31
- abortSignalCounter += 1;
32
- abortSignalIds.set(signal, abortSignalCounter);
33
- abortSignalId = abortSignalCounter;
34
- signal.addEventListener('abort', function () {
35
- var signalId = abortSignalIds.get(signal);
36
-
37
- if (signalId !== undefined) {
38
- callfunc('signalAbort', signalId);
39
- }
40
- });
41
- }
42
-
43
- return {
44
- abortSignalId: abortSignalId
45
- };
14
+ let abortSignalId = abortSignalIds.get(signal);
15
+ if (!abortSignalId) {
16
+ abortSignalCounter += 1;
17
+ abortSignalIds.set(signal, abortSignalCounter);
18
+ abortSignalId = abortSignalCounter;
19
+ signal.addEventListener('abort', () => {
20
+ const signalId = abortSignalIds.get(signal);
21
+ if (signalId !== undefined) {
22
+ callfunc('signalAbort', signalId);
23
+ }
24
+ });
25
+ }
26
+ return { abortSignalId };
46
27
  }
28
+ exports.serializeAbortSignal = serializeAbortSignal;
47
29
  /* ---------------- for the RPC server ----------------- */
48
-
49
30
  /**
50
31
  * test whether a given object
51
32
  * @param thing - the thing to test
52
33
  * @returns true if the thing is a remote abort signal
53
34
  */
54
-
55
-
56
35
  function isRemoteAbortSignal(thing) {
57
- return (0, _typeof2.default)(thing) === 'object' && thing !== null && 'abortSignalId' in thing && // @ts-ignore
58
- typeof thing.abortSignalId === 'number';
59
- } // the server side keeps a set of surrogate abort controllers that can be
36
+ return (typeof thing === 'object' &&
37
+ thing !== null &&
38
+ 'abortSignalId' in thing &&
39
+ // @ts-ignore
40
+ typeof thing.abortSignalId === 'number');
41
+ }
42
+ exports.isRemoteAbortSignal = isRemoteAbortSignal;
43
+ // the server side keeps a set of surrogate abort controllers that can be
60
44
  // aborted based on ID
61
-
62
-
63
- var surrogateAbortControllers = new Map(); // numerical ID => surrogate abort controller
64
-
45
+ const surrogateAbortControllers = new Map(); // numerical ID => surrogate abort controller
65
46
  /**
66
47
  * deserialize the result of serializeAbortSignal into an AbortSignal
67
48
  *
68
49
  * @param signal -
69
50
  * @returns an abort signal that corresponds to the given ID
70
51
  */
71
-
72
- function deserializeAbortSignal(_ref) {
73
- var abortSignalId = _ref.abortSignalId;
74
- var surrogateAbortController = surrogateAbortControllers.get(abortSignalId);
75
-
76
- if (!surrogateAbortController) {
77
- surrogateAbortController = new AbortController();
78
- surrogateAbortControllers.set(abortSignalId, surrogateAbortController);
79
- }
80
-
81
- return surrogateAbortController.signal;
52
+ function deserializeAbortSignal({ abortSignalId, }) {
53
+ let surrogateAbortController = surrogateAbortControllers.get(abortSignalId);
54
+ if (!surrogateAbortController) {
55
+ surrogateAbortController = new AbortController();
56
+ surrogateAbortControllers.set(abortSignalId, surrogateAbortController);
57
+ }
58
+ return surrogateAbortController.signal;
82
59
  }
60
+ exports.deserializeAbortSignal = deserializeAbortSignal;
83
61
  /**
84
62
  * fire an abort signal from a remote abort signal ID
85
63
  *
86
64
  * @param abortSignalId -
87
65
  */
88
-
89
-
90
66
  function remoteAbort(props) {
91
- var abortSignalId = props.signalId;
92
- var surrogateAbortController = surrogateAbortControllers.get(abortSignalId);
93
-
94
- if (surrogateAbortController) {
95
- surrogateAbortController.abort();
96
- }
67
+ const { signalId: abortSignalId } = props;
68
+ const surrogateAbortController = surrogateAbortControllers.get(abortSignalId);
69
+ if (surrogateAbortController) {
70
+ surrogateAbortController.abort();
71
+ }
97
72
  }
98
-
73
+ exports.remoteAbort = remoteAbort;
99
74
  function remoteAbortRpcHandler() {
100
- return {
101
- signalAbort: remoteAbort
102
- };
103
- }
75
+ return {
76
+ signalAbort: remoteAbort,
77
+ };
78
+ }
79
+ exports.remoteAbortRpcHandler = remoteAbortRpcHandler;