@jbrowse/core 2.0.1 → 2.1.0

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 (179) hide show
  1. package/BaseFeatureWidget/BaseFeatureDetail.d.ts +6 -0
  2. package/BaseFeatureWidget/BaseFeatureDetail.js +313 -592
  3. package/BaseFeatureWidget/SequenceFeatureDetails.js +213 -479
  4. package/BaseFeatureWidget/index.js +88 -126
  5. package/BaseFeatureWidget/types.js +1 -4
  6. package/BaseFeatureWidget/util.js +40 -75
  7. package/CorePlugin.js +55 -94
  8. package/Plugin.js +9 -34
  9. package/PluginLoader.js +153 -422
  10. package/PluginManager.d.ts +17 -14
  11. package/PluginManager.js +377 -666
  12. package/ReExports/Attributes.js +3 -10
  13. package/ReExports/BaseCard.js +3 -10
  14. package/ReExports/DataGrid.js +5 -12
  15. package/ReExports/FeatureDetails.js +3 -10
  16. package/ReExports/index.js +6 -12
  17. package/ReExports/list.d.ts +5 -0
  18. package/ReExports/list.js +271 -7
  19. package/ReExports/material-ui-colors.js +15 -16
  20. package/ReExports/modules.d.ts +0 -1
  21. package/ReExports/modules.js +453 -798
  22. package/TextSearch/BaseResults.js +51 -123
  23. package/TextSearch/TextSearchManager.js +66 -144
  24. package/assemblyManager/assembly.js +280 -555
  25. package/assemblyManager/assemblyConfigSchema.js +47 -64
  26. package/assemblyManager/assemblyManager.js +126 -272
  27. package/assemblyManager/index.js +9 -22
  28. package/configuration/configurationSchema.js +167 -203
  29. package/configuration/configurationSlot.js +248 -326
  30. package/configuration/index.js +19 -35
  31. package/configuration/util.js +131 -173
  32. package/data_adapters/BaseAdapter.d.ts +2 -2
  33. package/data_adapters/BaseAdapter.js +132 -521
  34. package/data_adapters/CytobandAdapter.js +40 -126
  35. package/data_adapters/dataAdapterCache.js +77 -158
  36. package/package.json +4 -5
  37. package/pluggableElementTypes/AdapterType.js +24 -79
  38. package/pluggableElementTypes/AddTrackWorkflowType.d.ts +17 -0
  39. package/pluggableElementTypes/AddTrackWorkflowType.js +20 -0
  40. package/pluggableElementTypes/ConnectionType.js +22 -65
  41. package/pluggableElementTypes/DisplayType.js +35 -82
  42. package/pluggableElementTypes/InternetAccountType.js +23 -64
  43. package/pluggableElementTypes/PluggableElementBase.js +8 -20
  44. package/pluggableElementTypes/RpcMethodType.js +85 -427
  45. package/pluggableElementTypes/TextSearchAdapterType.js +16 -55
  46. package/pluggableElementTypes/TrackType.js +26 -70
  47. package/pluggableElementTypes/ViewType.js +21 -63
  48. package/pluggableElementTypes/WidgetType.js +21 -64
  49. package/pluggableElementTypes/index.d.ts +4 -3
  50. package/pluggableElementTypes/index.js +42 -125
  51. package/pluggableElementTypes/models/BaseConnectionModelFactory.js +28 -43
  52. package/pluggableElementTypes/models/BaseDisplayModel.js +58 -95
  53. package/pluggableElementTypes/models/BaseTrackModel.js +139 -199
  54. package/pluggableElementTypes/models/BaseViewModel.js +24 -40
  55. package/pluggableElementTypes/models/InternetAccountModel.js +116 -263
  56. package/pluggableElementTypes/models/baseConnectionConfig.js +14 -25
  57. package/pluggableElementTypes/models/baseInternetAccountConfig.js +29 -38
  58. package/pluggableElementTypes/models/baseTrackConfig.js +106 -133
  59. package/pluggableElementTypes/models/index.js +21 -70
  60. package/pluggableElementTypes/renderers/BoxRendererType.js +132 -291
  61. package/pluggableElementTypes/renderers/CircularChordRendererType.js +8 -38
  62. package/pluggableElementTypes/renderers/ComparativeServerSideRendererType.js +60 -192
  63. package/pluggableElementTypes/renderers/FeatureRendererType.d.ts +0 -2
  64. package/pluggableElementTypes/renderers/FeatureRendererType.js +89 -264
  65. package/pluggableElementTypes/renderers/RendererType.js +31 -105
  66. package/pluggableElementTypes/renderers/ServerSideRenderedContent.js +61 -72
  67. package/pluggableElementTypes/renderers/ServerSideRendererType.js +112 -265
  68. package/pluggableElementTypes/renderers/index.js +19 -62
  69. package/pluggableElementTypes/renderers/util/serializableFilterChain.js +27 -65
  70. package/rpc/BaseRpcDriver.js +169 -405
  71. package/rpc/MainThreadRpcDriver.js +27 -150
  72. package/rpc/RpcManager.js +58 -159
  73. package/rpc/WebWorkerRpcDriver.js +54 -171
  74. package/rpc/configSchema.js +25 -49
  75. package/rpc/coreRpcMethods.js +221 -959
  76. package/rpc/remoteAbortSignals.js +46 -70
  77. package/tsconfig.build.tsbuildinfo +1 -1
  78. package/ui/AboutDialog.js +106 -162
  79. package/ui/App.js +157 -242
  80. package/ui/AssemblySelector.js +59 -120
  81. package/ui/CascadingMenu.js +101 -196
  82. package/ui/ColorPicker.d.ts +16 -0
  83. package/ui/ColorPicker.js +97 -0
  84. package/ui/Drawer.js +28 -61
  85. package/ui/DrawerWidget.js +108 -202
  86. package/ui/DropDownMenu.js +60 -91
  87. package/ui/EditableTypography.js +87 -149
  88. package/ui/ErrorMessage.js +41 -56
  89. package/ui/FactoryResetDialog.js +24 -57
  90. package/ui/FatalErrorDialog.js +59 -91
  91. package/ui/FileSelector/FileSelector.js +123 -189
  92. package/ui/FileSelector/LocalFileChooser.js +44 -75
  93. package/ui/FileSelector/UrlChooser.js +17 -38
  94. package/ui/FileSelector/index.js +6 -12
  95. package/ui/Icons.js +45 -69
  96. package/ui/Logo.js +57 -110
  97. package/ui/Menu.js +232 -354
  98. package/ui/PrerenderedCanvas.js +63 -87
  99. package/ui/ResizeHandle.js +87 -116
  100. package/ui/ReturnToImportFormDialog.js +32 -63
  101. package/ui/SanitizedHTML.js +64 -47
  102. package/ui/Snackbar.js +74 -101
  103. package/ui/SnackbarModel.js +37 -51
  104. package/ui/Tooltip.js +49 -76
  105. package/ui/ViewContainer.js +113 -196
  106. package/ui/colors.d.ts +10 -0
  107. package/ui/colors.js +78 -0
  108. package/ui/index.js +51 -181
  109. package/ui/react-colorful.d.ts +17 -0
  110. package/ui/react-colorful.js +455 -0
  111. package/ui/theme.js +199 -247
  112. package/util/Base1DUtils.js +163 -202
  113. package/util/Base1DViewModel.js +121 -168
  114. package/util/QuickLRU.js +84 -332
  115. package/util/TimeTraveller.d.ts +19 -0
  116. package/util/TimeTraveller.js +86 -0
  117. package/util/aborting.js +49 -127
  118. package/util/analytics.js +91 -154
  119. package/util/blockTypes.js +106 -240
  120. package/util/calculateDynamicBlocks.js +98 -128
  121. package/util/calculateStaticBlocks.js +105 -125
  122. package/util/color/cssColorsLevel4.js +156 -160
  123. package/util/color/index.js +33 -55
  124. package/util/compositeMap.js +49 -333
  125. package/util/formatFastaStrings.js +9 -14
  126. package/util/idMaker.js +18 -31
  127. package/util/index.d.ts +7 -20
  128. package/util/index.js +742 -1188
  129. package/util/io/RemoteFileWithRangeCache.js +88 -257
  130. package/util/io/index.js +95 -169
  131. package/util/jexl.js +60 -115
  132. package/util/jexlStrings.js +24 -29
  133. package/util/layouts/BaseLayout.js +1 -4
  134. package/util/layouts/GranularRectLayout.js +388 -555
  135. package/util/layouts/MultiLayout.js +41 -109
  136. package/util/layouts/PrecomputedLayout.js +56 -112
  137. package/util/layouts/PrecomputedMultiLayout.js +22 -59
  138. package/util/layouts/SceneGraph.js +127 -197
  139. package/util/layouts/index.js +29 -66
  140. package/util/mst-reflection.js +55 -71
  141. package/util/offscreenCanvasPonyfill.js +66 -134
  142. package/util/offscreenCanvasUtils.d.ts +2 -7
  143. package/util/offscreenCanvasUtils.js +49 -146
  144. package/util/range.js +29 -40
  145. package/util/rxjs.js +20 -27
  146. package/util/simpleFeature.js +88 -152
  147. package/util/stats.js +91 -151
  148. package/util/tracks.js +130 -173
  149. package/util/types/index.js +110 -179
  150. package/util/types/mst.js +91 -146
  151. package/util/types/util.js +1 -4
  152. package/util/when.js +54 -101
  153. package/BaseFeatureWidget/SequenceFeatureDetails.test.js +0 -122
  154. package/BaseFeatureWidget/index.test.js +0 -69
  155. package/TextSearch/BaseResults.test.js +0 -42
  156. package/configuration/configurationSchema.test.js +0 -266
  157. package/configuration/configurationSlot.test.js +0 -69
  158. package/configuration/util.test.js +0 -39
  159. package/data_adapters/BaseAdapter.test.js +0 -200
  160. package/declare.d.js +0 -1
  161. package/pluggableElementTypes/RpcMethodType.test.js +0 -118
  162. package/pluggableElementTypes/renderers/declare.d.js +0 -1
  163. package/pluggableElementTypes/renderers/util/serializableFilterChain.test.js +0 -20
  164. package/rpc/BaseRpcDriver.test.js +0 -540
  165. package/rpc/declaration.d.js +0 -1
  166. package/ui/FatalErrorDialog.test.js +0 -82
  167. package/ui/SanitizedHTML.test.js +0 -36
  168. package/ui/theme.test.js +0 -92
  169. package/util/Base1DViewModel.test.js +0 -130
  170. package/util/calculateDynamicBlocks.test.js +0 -74
  171. package/util/calculateStaticBlocks.test.js +0 -297
  172. package/util/declare.d.js +0 -1
  173. package/util/formatFastaStrings.test.js +0 -40
  174. package/util/index.test.js +0 -213
  175. package/util/jexlStrings.test.js +0 -48
  176. package/util/layouts/GranularRectLayout.test.js +0 -99
  177. package/util/range.test.js +0 -64
  178. package/util/simpleFeature.test.js +0 -34
  179. package/util/stats.test.js +0 -172
@@ -1,103 +1,79 @@
1
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  "use strict";
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-
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- var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
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-
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- Object.defineProperty(exports, "__esModule", {
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- value: true
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- });
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- exports.deserializeAbortSignal = deserializeAbortSignal;
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- exports.isRemoteAbortSignal = isRemoteAbortSignal;
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- 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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  /* ---------------- 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;
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+ let abortSignalCounter = 0;
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+ const abortSignalIds = new WeakMap(); // map of abortsignal => numerical ID
20
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  /**
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  * assign an ID to the given abort signal and return a plain object representation
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  * @param signal - the signal to serialize
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  * @param callfunc - function used to call
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  * a remote method, will be called like callfunc('signalAbort', signalId)
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  */
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-
27
13
  function serializeAbortSignal(signal, callfunc) {
28
- var abortSignalId = abortSignalIds.get(signal);
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-
30
- if (!abortSignalId) {
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- abortSignalCounter += 1;
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- abortSignalIds.set(signal, abortSignalCounter);
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- abortSignalId = abortSignalCounter;
34
- signal.addEventListener('abort', function () {
35
- var signalId = abortSignalIds.get(signal);
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-
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- if (signalId !== undefined) {
38
- callfunc('signalAbort', signalId);
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- }
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- });
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- }
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-
43
- return {
44
- abortSignalId: abortSignalId
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- };
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+ let abortSignalId = abortSignalIds.get(signal);
15
+ if (!abortSignalId) {
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+ abortSignalCounter += 1;
17
+ abortSignalIds.set(signal, abortSignalCounter);
18
+ abortSignalId = abortSignalCounter;
19
+ signal.addEventListener('abort', () => {
20
+ const signalId = abortSignalIds.get(signal);
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+ if (signalId !== undefined) {
22
+ callfunc('signalAbort', signalId);
23
+ }
24
+ });
25
+ }
26
+ return { abortSignalId };
46
27
  }
28
+ exports.serializeAbortSignal = serializeAbortSignal;
47
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  /* ---------------- for the RPC server ----------------- */
48
-
49
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  /**
50
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  * test whether a given object
51
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  * @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
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  *
68
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  * @param signal -
69
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  * @returns an abort signal that corresponds to the given ID
70
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  */
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;