@jbrowse/core 2.13.0 → 2.14.0

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Files changed (149) hide show
  1. package/BaseFeatureWidget/BaseFeatureDetail/ArrayValue.js +2 -2
  2. package/BaseFeatureWidget/BaseFeatureDetail/BasicValue.js +1 -1
  3. package/BaseFeatureWidget/BaseFeatureDetail/DataGridDetails.js +3 -1
  4. package/BaseFeatureWidget/BaseFeatureDetail/index.js +28 -25
  5. package/BaseFeatureWidget/BaseFeatureDetail/util.js +1 -1
  6. package/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeatureDetails.js +11 -5
  7. package/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeaturePanel.d.ts +1 -1
  8. package/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeaturePanel.js +11 -7
  9. package/BaseFeatureWidget/SequenceFeatureDetails/SequencePanel.js +1 -1
  10. package/BaseFeatureWidget/SequenceFeatureDetails/dialogs/HelpDialog.js +6 -2
  11. package/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceDialog.js +11 -5
  12. package/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceFeatureMenu.js +15 -5
  13. package/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceTypeSelector.js +4 -2
  14. package/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SettingsDialog.js +15 -5
  15. package/BaseFeatureWidget/SequenceFeatureDetails/hooks.js +2 -2
  16. package/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/CDNASequence.js +2 -2
  17. package/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/SequenceDisplay.js +5 -3
  18. package/BaseFeatureWidget/stateModelFactory.js +0 -2
  19. package/PluginLoader.d.ts +1 -2
  20. package/PluginLoader.js +16 -6
  21. package/PluginManager.d.ts +13 -13
  22. package/PluginManager.js +7 -2
  23. package/ReExports/modules.js +2 -11
  24. package/assemblyManager/assembly.d.ts +18 -12
  25. package/assemblyManager/assembly.js +75 -52
  26. package/assemblyManager/assemblyConfigSchema.d.ts +9 -7
  27. package/assemblyManager/assemblyConfigSchema.js +15 -16
  28. package/assemblyManager/assemblyManager.d.ts +109 -81
  29. package/assemblyManager/assemblyManager.js +3 -6
  30. package/configuration/configurationSchema.d.ts +1 -1
  31. package/configuration/configurationSchema.js +1 -2
  32. package/configuration/configurationSlot.js +7 -8
  33. package/configuration/util.js +0 -7
  34. package/data_adapters/BaseAdapter/BaseFeatureDataAdapter.d.ts +6 -6
  35. package/data_adapters/BaseAdapter/BaseFeatureDataAdapter.js +6 -6
  36. package/data_adapters/BaseAdapter/BaseRefNameAliasAdapter.d.ts +1 -0
  37. package/data_adapters/CytobandAdapter/CytobandAdapter.d.ts +0 -1
  38. package/data_adapters/CytobandAdapter/CytobandAdapter.js +4 -8
  39. package/data_adapters/dataAdapterCache.d.ts +9 -6
  40. package/data_adapters/dataAdapterCache.js +16 -22
  41. package/package.json +3 -3
  42. package/pluggableElementTypes/AddTrackWorkflowType.js +0 -6
  43. package/pluggableElementTypes/ConnectionType.js +0 -6
  44. package/pluggableElementTypes/DisplayType.js +0 -20
  45. package/pluggableElementTypes/InternetAccountType.js +0 -11
  46. package/pluggableElementTypes/RpcMethodType.d.ts +1 -1
  47. package/pluggableElementTypes/TextSearchAdapterType.js +0 -3
  48. package/pluggableElementTypes/TrackType.js +0 -11
  49. package/pluggableElementTypes/ViewType.js +0 -6
  50. package/pluggableElementTypes/WidgetType.js +0 -6
  51. package/pluggableElementTypes/models/BaseConnectionModelFactory.d.ts +4 -3
  52. package/pluggableElementTypes/models/BaseConnectionModelFactory.js +1 -3
  53. package/pluggableElementTypes/models/BaseDisplayModel.d.ts +4 -5
  54. package/pluggableElementTypes/models/BaseDisplayModel.js +6 -14
  55. package/pluggableElementTypes/models/BaseTrackModel.js +8 -5
  56. package/pluggableElementTypes/models/InternetAccountModel.d.ts +1 -1
  57. package/pluggableElementTypes/models/InternetAccountModel.js +19 -13
  58. package/pluggableElementTypes/models/baseTrackConfig.js +2 -5
  59. package/pluggableElementTypes/renderers/BoxRendererType.d.ts +10 -4
  60. package/pluggableElementTypes/renderers/BoxRendererType.js +10 -26
  61. package/pluggableElementTypes/renderers/CircularChordRendererType.d.ts +1 -1
  62. package/pluggableElementTypes/renderers/ComparativeServerSideRendererType.d.ts +9 -12
  63. package/pluggableElementTypes/renderers/ComparativeServerSideRendererType.js +12 -19
  64. package/pluggableElementTypes/renderers/FeatureRendererType.d.ts +5 -5
  65. package/pluggableElementTypes/renderers/FeatureRendererType.js +6 -13
  66. package/pluggableElementTypes/renderers/RendererType.js +0 -10
  67. package/pluggableElementTypes/renderers/RpcRenderedSvgGroup.d.ts +1 -1
  68. package/pluggableElementTypes/renderers/RpcRenderedSvgGroup.js +8 -9
  69. package/pluggableElementTypes/renderers/ServerSideRenderedContent.js +11 -14
  70. package/pluggableElementTypes/renderers/ServerSideRendererType.d.ts +4 -4
  71. package/pluggableElementTypes/renderers/ServerSideRendererType.js +7 -5
  72. package/pluggableElementTypes/renderers/util/serializableFilterChain.js +0 -1
  73. package/rpc/BaseRpcDriver.d.ts +1 -1
  74. package/rpc/BaseRpcDriver.js +12 -11
  75. package/rpc/MainThreadRpcDriver.d.ts +2 -2
  76. package/rpc/MainThreadRpcDriver.js +3 -0
  77. package/rpc/RpcManager.d.ts +1 -1
  78. package/rpc/RpcManager.js +11 -8
  79. package/rpc/configSchema.js +0 -1
  80. package/rpc/methods/CoreFreeResources.d.ts +2 -2
  81. package/rpc/methods/CoreGetFeatureDensityStats.d.ts +2 -2
  82. package/rpc/methods/CoreGetFeatureDetails.d.ts +1 -1
  83. package/rpc/methods/CoreGetFeatureDetails.js +3 -3
  84. package/rpc/methods/CoreGetFeatures.d.ts +1 -1
  85. package/rpc/methods/CoreGetFileInfo.d.ts +1 -1
  86. package/rpc/methods/CoreGetMetadata.d.ts +1 -1
  87. package/rpc/methods/CoreGetRefNames.d.ts +1 -1
  88. package/rpc/methods/util.d.ts +2 -2
  89. package/rpc/methods/util.js +0 -3
  90. package/tsconfig.build.tsbuildinfo +1 -1
  91. package/ui/AssemblySelector.js +3 -1
  92. package/ui/CascadingMenu.js +2 -1
  93. package/ui/CascadingMenuButton.js +3 -1
  94. package/ui/ColorPicker.js +14 -4
  95. package/ui/DropDownMenu.js +3 -1
  96. package/ui/EditableTypography.js +6 -2
  97. package/ui/ErrorMessage.d.ts +2 -2
  98. package/ui/ErrorMessage.js +37 -20
  99. package/ui/ErrorMessageStackTraceDialog.js +11 -9
  100. package/ui/FactoryResetDialog.d.ts +1 -1
  101. package/ui/FactoryResetDialog.js +9 -3
  102. package/ui/FatalErrorDialog.js +9 -3
  103. package/ui/FileSelector/FileSelector.js +8 -4
  104. package/ui/FileSelector/LocalFileChooser.js +7 -6
  105. package/ui/LoadingEllipses.js +1 -1
  106. package/ui/Menu.d.ts +4 -4
  107. package/ui/Menu.js +6 -9
  108. package/ui/MenuButton.js +6 -2
  109. package/ui/PrerenderedCanvas.js +8 -5
  110. package/ui/RedErrorMessageBox.js +13 -8
  111. package/ui/ResizeHandle.d.ts +1 -1
  112. package/ui/ReturnToImportFormDialog.js +3 -1
  113. package/ui/SanitizedHTML.js +1 -3
  114. package/ui/SnackbarModel.d.ts +12 -1
  115. package/ui/SnackbarModel.js +19 -3
  116. package/ui/theme.js +5 -5
  117. package/util/Base1DViewModel.js +3 -1
  118. package/util/QuickLRU.js +8 -8
  119. package/util/TimeTraveller.js +12 -4
  120. package/util/analytics.js +0 -1
  121. package/util/blockTypes.js +5 -9
  122. package/util/calculateStaticBlocks.d.ts +1 -1
  123. package/util/compositeMap.js +2 -2
  124. package/util/idMaker.js +0 -1
  125. package/util/index.d.ts +9 -8
  126. package/util/index.js +91 -51
  127. package/util/io/RemoteFileWithRangeCache.js +1 -3
  128. package/util/io/index.js +3 -5
  129. package/util/jexlStrings.js +5 -8
  130. package/util/layouts/GranularRectLayout.js +1 -4
  131. package/util/layouts/SceneGraph.d.ts +1 -1
  132. package/util/layouts/SceneGraph.js +2 -6
  133. package/util/map-obj.js +15 -7
  134. package/util/mst-reflection.js +1 -2
  135. package/util/nanoid.js +9 -8
  136. package/util/offscreenCanvasPonyfill.d.ts +1 -1
  137. package/util/offscreenCanvasPonyfill.js +7 -10
  138. package/util/offscreenCanvasUtils.d.ts +1 -1
  139. package/util/offscreenCanvasUtils.js +1 -3
  140. package/util/rxjs.js +4 -2
  141. package/util/simpleFeature.d.ts +2 -3
  142. package/util/simpleFeature.js +9 -12
  143. package/util/stats.js +3 -1
  144. package/util/tracks.d.ts +4 -2
  145. package/util/tracks.js +10 -11
  146. package/util/types/index.d.ts +5 -5
  147. package/util/types/index.js +8 -1
  148. package/util/types/mst.js +1 -0
  149. package/util/when.js +7 -2
package/rpc/methods/CoreGetFeatures.d.ts CHANGED
@@ -10,7 +10,7 @@ export default class CoreGetFeatures extends RpcMethodType {
10
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  execute(args: {
11
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  sessionId: string;
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  regions: Region[];
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- adapterConfig: {};
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+ adapterConfig: Record<string, unknown>;
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14
  signal?: RemoteAbortSignal;
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  opts?: any;
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  }, rpcDriver: string): Promise<SimpleFeatureSerialized[]>;
package/rpc/methods/CoreGetFileInfo.d.ts CHANGED
@@ -5,6 +5,6 @@ export default class CoreGetFileInfo extends RpcMethodType {
5
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  execute(args: {
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  sessionId: string;
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  signal: RemoteAbortSignal;
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- adapterConfig: {};
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+ adapterConfig: Record<string, unknown>;
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9
  }, rpcDriver: string): Promise<unknown>;
10
10
  }
package/rpc/methods/CoreGetMetadata.d.ts CHANGED
@@ -5,6 +5,6 @@ export default class CoreGetMetadata extends RpcMethodType {
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5
  execute(args: {
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  sessionId: string;
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  signal: RemoteAbortSignal;
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- adapterConfig: {};
8
+ adapterConfig: Record<string, unknown>;
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  }, rpcDriver: string): Promise<unknown>;
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  }
package/rpc/methods/CoreGetRefNames.d.ts CHANGED
@@ -5,6 +5,6 @@ export default class CoreGetRefNames extends RpcMethodType {
5
5
  execute(args: {
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  sessionId: string;
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  signal: RemoteAbortSignal;
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- adapterConfig: {};
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+ adapterConfig: Record<string, unknown>;
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  }, rpcDriver: string): Promise<string[]>;
10
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  }
package/rpc/methods/util.d.ts CHANGED
@@ -2,13 +2,13 @@ import { ServerSideRendererType } from '../../pluggableElementTypes';
2
2
  import { RenderArgs as ServerSideRenderArgs, RenderArgsSerialized as ServerSideRenderArgsSerialized } from '../../pluggableElementTypes/renderers/ServerSideRendererType';
3
3
  import { Region } from '../../util';
4
4
  export interface RenderArgs extends ServerSideRenderArgs {
5
- adapterConfig: {};
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+ adapterConfig: Record<string, unknown>;
6
6
  rendererType: string;
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7
  }
8
8
  export interface RenderArgsSerialized extends ServerSideRenderArgsSerialized {
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9
  assemblyName: string;
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  regions: Region[];
11
- adapterConfig: {};
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+ adapterConfig: Record<string, unknown>;
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  rendererType: string;
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  }
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  export declare function validateRendererType<T>(rendererType: string, RendererType: T): ServerSideRendererType;
package/rpc/methods/util.js CHANGED
@@ -2,9 +2,6 @@
2
2
  Object.defineProperty(exports, "__esModule", { value: true });
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  exports.validateRendererType = validateRendererType;
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  function validateRendererType(rendererType, RendererType) {
5
- if (!RendererType) {
6
- throw new Error(`renderer "${rendererType}" not found`);
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- }
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  // @ts-expect-error
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  if (!RendererType.ReactComponent) {
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  throw new Error(`renderer ${rendererType} has no ReactComponent, it may not be completely implemented yet`);