@jbrowse/core 4.3.0 → 5.0.0-beta.2

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 (1140) hide show
  1. package/README.md +822 -0
  2. package/esm/BaseFeatureWidget/BaseFeatureDetail/ArrayValue.d.ts +13 -3
  3. package/esm/BaseFeatureWidget/BaseFeatureDetail/ArrayValue.js +33 -22
  4. package/esm/BaseFeatureWidget/BaseFeatureDetail/Attributes.d.ts +8 -3
  5. package/esm/BaseFeatureWidget/BaseFeatureDetail/Attributes.js +117 -19
  6. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseAttributes.d.ts +2 -8
  7. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseAttributes.js +4 -4
  8. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCard.d.ts +1 -1
  9. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCard.js +2 -2
  10. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCoreDetails.d.ts +1 -1
  11. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCoreDetails.js +4 -4
  12. package/esm/BaseFeatureWidget/BaseFeatureDetail/BasicValue.d.ts +1 -1
  13. package/esm/BaseFeatureWidget/BaseFeatureDetail/BasicValue.js +12 -5
  14. package/esm/BaseFeatureWidget/BaseFeatureDetail/CoreDetails.d.ts +1 -1
  15. package/esm/BaseFeatureWidget/BaseFeatureDetail/CoreDetails.js +28 -17
  16. package/esm/BaseFeatureWidget/BaseFeatureDetail/DataGridDetails.d.ts +1 -1
  17. package/esm/BaseFeatureWidget/BaseFeatureDetail/DataGridDetails.js +19 -40
  18. package/esm/BaseFeatureWidget/BaseFeatureDetail/FeatureDetails.d.ts +6 -4
  19. package/esm/BaseFeatureWidget/BaseFeatureDetail/FeatureDetails.js +46 -30
  20. package/esm/BaseFeatureWidget/BaseFeatureDetail/FeatureWash.d.ts +20 -0
  21. package/esm/BaseFeatureWidget/BaseFeatureDetail/FeatureWash.js +66 -0
  22. package/esm/BaseFeatureWidget/BaseFeatureDetail/FieldName.d.ts +1 -1
  23. package/esm/BaseFeatureWidget/BaseFeatureDetail/FieldName.js +2 -2
  24. package/esm/BaseFeatureWidget/BaseFeatureDetail/Formatter.d.ts +3 -0
  25. package/esm/BaseFeatureWidget/BaseFeatureDetail/Formatter.js +17 -0
  26. package/esm/BaseFeatureWidget/BaseFeatureDetail/Position.d.ts +1 -1
  27. package/esm/BaseFeatureWidget/BaseFeatureDetail/Position.js +3 -9
  28. package/esm/BaseFeatureWidget/BaseFeatureDetail/SimpleField.d.ts +3 -2
  29. package/esm/BaseFeatureWidget/BaseFeatureDetail/SimpleField.js +3 -3
  30. package/esm/BaseFeatureWidget/BaseFeatureDetail/UriField.d.ts +3 -2
  31. package/esm/BaseFeatureWidget/BaseFeatureDetail/UriField.js +7 -14
  32. package/esm/BaseFeatureWidget/BaseFeatureDetail/index.d.ts +2 -1
  33. package/esm/BaseFeatureWidget/BaseFeatureDetail/index.js +19 -13
  34. package/esm/BaseFeatureWidget/BaseFeatureDetail/types.d.ts +5 -4
  35. package/esm/BaseFeatureWidget/BaseFeatureDetail/util.d.ts +8 -1
  36. package/esm/BaseFeatureWidget/BaseFeatureDetail/util.js +32 -10
  37. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceBody.d.ts +18 -0
  38. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceBody.js +10 -0
  39. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceContents.d.ts +7 -4
  40. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceContents.js +62 -24
  41. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeatureDetails.d.ts +10 -5
  42. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeatureDetails.js +64 -41
  43. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeaturePanel.d.ts +1 -1
  44. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeaturePanel.js +17 -8
  45. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceLegend.d.ts +6 -0
  46. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceLegend.js +19 -0
  47. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceName.d.ts +5 -4
  48. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceName.js +15 -18
  49. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequencePanel.d.ts +1 -1
  50. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequencePanel.js +33 -17
  51. package/esm/BaseFeatureWidget/SequenceFeatureDetails/consts.d.ts +3 -3
  52. package/esm/BaseFeatureWidget/SequenceFeatureDetails/consts.js +7 -3
  53. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/FeatureSequenceDialog.d.ts +11 -0
  54. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/FeatureSequenceDialog.js +29 -0
  55. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/HelpDialog.d.ts +1 -1
  56. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/HelpDialog.js +4 -6
  57. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceDialog.d.ts +18 -6
  58. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceDialog.js +11 -29
  59. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceFeatureMenu.d.ts +9 -2
  60. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceFeatureMenu.js +63 -58
  61. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceTypeSelector.d.ts +7 -3
  62. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceTypeSelector.js +38 -51
  63. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SettingsDialog.d.ts +1 -1
  64. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SettingsDialog.js +19 -27
  65. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/TranscriptSelector.d.ts +6 -0
  66. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/TranscriptSelector.js +18 -0
  67. package/esm/BaseFeatureWidget/SequenceFeatureDetails/featureTypeUtil.d.ts +12 -0
  68. package/esm/BaseFeatureWidget/SequenceFeatureDetails/featureTypeUtil.js +97 -0
  69. package/esm/BaseFeatureWidget/SequenceFeatureDetails/index.js +1 -1
  70. package/esm/BaseFeatureWidget/SequenceFeatureDetails/model.d.ts +50 -63
  71. package/esm/BaseFeatureWidget/SequenceFeatureDetails/model.js +62 -59
  72. package/esm/BaseFeatureWidget/SequenceFeatureDetails/panelAssemblyName.d.ts +21 -0
  73. package/esm/BaseFeatureWidget/SequenceFeatureDetails/panelAssemblyName.js +24 -0
  74. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/CDNASequence.d.ts +5 -3
  75. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/CDNASequence.js +93 -75
  76. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/CDSSequence.d.ts +1 -1
  77. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/CDSSequence.js +4 -11
  78. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/GenomicSequence.d.ts +5 -2
  79. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/GenomicSequence.js +21 -48
  80. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/PlainSequence.d.ts +8 -0
  81. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/PlainSequence.js +20 -0
  82. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/ProteinSequence.d.ts +6 -3
  83. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/ProteinSequence.js +33 -13
  84. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/SequenceDisplay.d.ts +7 -4
  85. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/SequenceDisplay.js +67 -11
  86. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/renderSequenceSegments.d.ts +14 -0
  87. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/renderSequenceSegments.js +42 -0
  88. package/esm/BaseFeatureWidget/SequenceFeatureDetails/test_data/DLGAP3.d.ts +1 -1
  89. package/esm/BaseFeatureWidget/SequenceFeatureDetails/test_data/NCDN.d.ts +7 -7
  90. package/esm/BaseFeatureWidget/SequenceFeatureDetails/types.d.ts +8 -1
  91. package/esm/BaseFeatureWidget/SequenceFeatureDetails/useSequenceData.d.ts +9 -9
  92. package/esm/BaseFeatureWidget/SequenceFeatureDetails/useSequenceData.js +28 -44
  93. package/esm/BaseFeatureWidget/SequenceFeatureDetails/useSequenceFetch.d.ts +23 -0
  94. package/esm/BaseFeatureWidget/SequenceFeatureDetails/useSequenceFetch.js +31 -0
  95. package/esm/BaseFeatureWidget/SequenceFeatureDetails/util.d.ts +90 -1
  96. package/esm/BaseFeatureWidget/SequenceFeatureDetails/util.js +145 -23
  97. package/esm/BaseFeatureWidget/configSchema.js +1 -1
  98. package/esm/BaseFeatureWidget/formatDetails.d.ts +38 -0
  99. package/esm/BaseFeatureWidget/formatDetails.js +103 -0
  100. package/esm/BaseFeatureWidget/index.d.ts +3 -1
  101. package/esm/BaseFeatureWidget/index.js +2 -2
  102. package/esm/BaseFeatureWidget/stateModelFactory.d.ts +80 -62
  103. package/esm/BaseFeatureWidget/stateModelFactory.js +128 -29
  104. package/esm/BaseFeatureWidget/types.d.ts +4 -3
  105. package/esm/BaseFeatureWidget/util.d.ts +4 -29
  106. package/esm/BaseFeatureWidget/util.js +20 -84
  107. package/esm/CorePlugin.js +11 -6
  108. package/esm/PhasedScheduler.d.ts +4 -2
  109. package/esm/PhasedScheduler.js +18 -2
  110. package/esm/Plugin.d.ts +6 -1
  111. package/esm/Plugin.js +7 -0
  112. package/esm/PluginLoader.d.ts +41 -40
  113. package/esm/PluginLoader.js +206 -78
  114. package/esm/PluginManager.d.ts +421 -55
  115. package/esm/PluginManager.js +461 -89
  116. package/esm/ReExports/BaseFeatureDetails.js +7 -6
  117. package/esm/ReExports/MuiDataGridReExports.d.ts +2 -2
  118. package/esm/ReExports/MuiDataGridReExports.js +58 -130
  119. package/esm/ReExports/MuiReExports.d.ts +3 -134
  120. package/esm/ReExports/MuiReExports.js +43 -16
  121. package/esm/ReExports/MuiStylesReExports.d.ts +66 -0
  122. package/esm/ReExports/MuiStylesReExports.js +55 -0
  123. package/esm/ReExports/index.js +1 -1
  124. package/esm/ReExports/lazify.d.ts +2 -2
  125. package/esm/ReExports/lazify.js +16 -3
  126. package/esm/ReExports/list.js +54 -229
  127. package/esm/ReExports/modules.js +62 -93
  128. package/esm/ReExports/muiComponentNames.d.ts +18 -0
  129. package/esm/ReExports/muiComponentNames.js +130 -0
  130. package/esm/ReExports/publicUtil.d.ts +1 -0
  131. package/esm/ReExports/publicUtil.js +28 -0
  132. package/esm/ReExports/registry.d.ts +2 -0
  133. package/esm/ReExports/registry.js +28 -0
  134. package/esm/ReExports/sharedModules.d.ts +96 -0
  135. package/esm/ReExports/sharedModules.js +59 -0
  136. package/esm/ReExports/uiStub.d.ts +1 -0
  137. package/esm/ReExports/uiStub.js +13 -0
  138. package/esm/ReExports/workerModules.d.ts +2 -0
  139. package/esm/ReExports/workerModules.js +10 -0
  140. package/esm/TextSearch/BaseResults.d.ts +20 -21
  141. package/esm/TextSearch/BaseResults.js +8 -33
  142. package/esm/TextSearch/TextSearchManager.d.ts +14 -34
  143. package/esm/TextSearch/TextSearchManager.js +87 -34
  144. package/esm/assemblyManager/assembly.d.ts +307 -34
  145. package/esm/assemblyManager/assembly.js +551 -262
  146. package/esm/assemblyManager/assemblyAdapters.d.ts +12 -0
  147. package/esm/assemblyManager/assemblyAdapters.js +18 -0
  148. package/esm/assemblyManager/assemblyConfigSchema.d.ts +192 -17
  149. package/esm/assemblyManager/assemblyConfigSchema.js +213 -19
  150. package/esm/assemblyManager/assemblyManager.d.ts +711 -303
  151. package/esm/assemblyManager/assemblyManager.js +351 -46
  152. package/esm/assemblyManager/expandAssemblyConfigShorthand.d.ts +32 -0
  153. package/esm/assemblyManager/expandAssemblyConfigShorthand.js +85 -0
  154. package/esm/assemblyManager/geneticCodes.d.ts +21 -0
  155. package/esm/assemblyManager/geneticCodes.js +47 -0
  156. package/esm/assemblyManager/getSequenceAdapterConfig.d.ts +9 -0
  157. package/esm/assemblyManager/getSequenceAdapterConfig.js +12 -0
  158. package/esm/assemblyManager/index.d.ts +1 -1
  159. package/esm/assemblyManager/index.js +2 -2
  160. package/esm/assemblyManager/loadRefNameMap.d.ts +5 -0
  161. package/esm/assemblyManager/loadRefNameMap.js +80 -0
  162. package/esm/assemblyManager/refNameColors.d.ts +1 -0
  163. package/esm/assemblyManager/refNameColors.js +32 -0
  164. package/esm/assemblyManager/refNameMaps.d.ts +26 -0
  165. package/esm/assemblyManager/refNameMaps.js +87 -0
  166. package/esm/assemblyManager/refNameMismatch.d.ts +54 -0
  167. package/esm/assemblyManager/refNameMismatch.js +66 -0
  168. package/esm/checkPlugins.d.ts +11 -0
  169. package/esm/checkPlugins.js +77 -0
  170. package/esm/configuration/configurationSchema.d.ts +122 -20
  171. package/esm/configuration/configurationSchema.js +374 -140
  172. package/esm/configuration/configurationSlot.d.ts +283 -30
  173. package/esm/configuration/configurationSlot.js +205 -226
  174. package/esm/configuration/formatAboutConfigSchema.d.ts +55 -0
  175. package/esm/configuration/formatAboutConfigSchema.js +58 -0
  176. package/esm/configuration/formatDetailsConfigSchema.d.ts +80 -0
  177. package/esm/configuration/formatDetailsConfigSchema.js +90 -0
  178. package/esm/configuration/fullConfSnapshot.d.ts +28 -0
  179. package/esm/configuration/fullConfSnapshot.js +66 -0
  180. package/esm/configuration/getConf.d.ts +88 -0
  181. package/esm/configuration/getConf.js +74 -0
  182. package/esm/configuration/index.d.ts +19 -3
  183. package/esm/configuration/index.js +19 -2
  184. package/esm/configuration/mergeFormatCallbacks.d.ts +15 -0
  185. package/esm/configuration/mergeFormatCallbacks.js +24 -0
  186. package/esm/configuration/promotableDefaults.d.ts +199 -0
  187. package/esm/configuration/promotableDefaults.js +332 -0
  188. package/esm/configuration/promotablePin.d.ts +55 -0
  189. package/esm/configuration/promotableResolve.d.ts +108 -0
  190. package/esm/configuration/promotableResolve.js +117 -0
  191. package/esm/configuration/promotableSlots.d.ts +12 -0
  192. package/esm/configuration/promotableSlots.js +45 -0
  193. package/esm/configuration/readConfObject.d.ts +56 -0
  194. package/esm/configuration/readConfObject.js +161 -0
  195. package/esm/configuration/schemaRegistry.d.ts +35 -0
  196. package/esm/configuration/schemaRegistry.js +50 -0
  197. package/esm/configuration/schemaTypes.d.ts +23 -0
  198. package/esm/configuration/schemaTypes.js +94 -0
  199. package/esm/configuration/slotFacade.d.ts +82 -0
  200. package/esm/configuration/slotFacade.js +89 -0
  201. package/esm/configuration/slotShape.d.ts +12 -0
  202. package/esm/configuration/slotShape.js +84 -0
  203. package/esm/configuration/slotValueUtils.d.ts +17 -0
  204. package/esm/configuration/slotValueUtils.js +25 -0
  205. package/esm/configuration/tabixIndexFields.d.ts +44 -0
  206. package/esm/configuration/tabixIndexFields.js +45 -0
  207. package/esm/configuration/tabixShorthand.d.ts +34 -0
  208. package/esm/configuration/tabixShorthand.js +45 -0
  209. package/esm/configuration/types.d.ts +170 -7
  210. package/esm/data_adapters/BaseAdapter/BaseAdapter.d.ts +24 -10
  211. package/esm/data_adapters/BaseAdapter/BaseAdapter.js +23 -15
  212. package/esm/data_adapters/BaseAdapter/BaseFeatureDataAdapter.d.ts +132 -7
  213. package/esm/data_adapters/BaseAdapter/BaseFeatureDataAdapter.js +136 -25
  214. package/esm/data_adapters/BaseAdapter/BaseRefNameAliasAdapter.d.ts +1 -0
  215. package/esm/data_adapters/BaseAdapter/BaseSequenceAdapter.d.ts +13 -5
  216. package/esm/data_adapters/BaseAdapter/BaseSequenceAdapter.js +9 -7
  217. package/esm/data_adapters/BaseAdapter/BaseTextSearchAdapter.d.ts +2 -1
  218. package/esm/data_adapters/BaseAdapter/CytobandAdapter.d.ts +7 -0
  219. package/esm/data_adapters/BaseAdapter/RegionsAdapter.d.ts +2 -1
  220. package/esm/data_adapters/BaseAdapter/featureDensity.d.ts +29 -0
  221. package/esm/data_adapters/BaseAdapter/featureDensity.js +17 -0
  222. package/esm/data_adapters/BaseAdapter/getAdapterId.d.ts +2 -0
  223. package/esm/data_adapters/BaseAdapter/getAdapterId.js +9 -0
  224. package/esm/data_adapters/BaseAdapter/index.d.ts +7 -4
  225. package/esm/data_adapters/BaseAdapter/index.js +6 -5
  226. package/esm/data_adapters/BaseAdapter/stats.d.ts +37 -5
  227. package/esm/data_adapters/BaseAdapter/stats.js +89 -24
  228. package/esm/data_adapters/BaseAdapter/types.d.ts +11 -8
  229. package/esm/data_adapters/BaseAdapter/types.js +1 -0
  230. package/esm/data_adapters/BaseAdapter/util.d.ts +5 -1
  231. package/esm/data_adapters/BaseAdapter/util.js +14 -3
  232. package/esm/data_adapters/CytobandAdapter/CytobandAdapter.d.ts +1 -1
  233. package/esm/data_adapters/CytobandAdapter/CytobandAdapter.js +4 -4
  234. package/esm/data_adapters/CytobandAdapter/configSchema.d.ts +36 -4
  235. package/esm/data_adapters/CytobandAdapter/configSchema.js +46 -2
  236. package/esm/data_adapters/CytobandAdapter/index.js +3 -3
  237. package/esm/data_adapters/adapterSessionRefcount.d.ts +61 -0
  238. package/esm/data_adapters/adapterSessionRefcount.js +96 -0
  239. package/esm/data_adapters/dataAdapterCache.d.ts +35 -1
  240. package/esm/data_adapters/dataAdapterCache.js +62 -22
  241. package/esm/data_adapters/getFeatureAdapter.d.ts +22 -0
  242. package/esm/data_adapters/getFeatureAdapter.js +27 -0
  243. package/esm/data_adapters/getSequenceSubAdapter.d.ts +21 -0
  244. package/esm/data_adapters/getSequenceSubAdapter.js +44 -0
  245. package/esm/pluggableElementTypes/AdapterType.d.ts +52 -2
  246. package/esm/pluggableElementTypes/AdapterType.js +44 -5
  247. package/esm/pluggableElementTypes/AddTrackWorkflowType.d.ts +6 -1
  248. package/esm/pluggableElementTypes/AddTrackWorkflowType.js +3 -1
  249. package/esm/pluggableElementTypes/ConnectionType.d.ts +5 -5
  250. package/esm/pluggableElementTypes/ConnectionType.js +1 -1
  251. package/esm/pluggableElementTypes/DisplayType.d.ts +19 -10
  252. package/esm/pluggableElementTypes/DisplayType.js +53 -5
  253. package/esm/pluggableElementTypes/InternetAccountType.js +1 -1
  254. package/esm/pluggableElementTypes/PluggableElementBase.d.ts +13 -0
  255. package/esm/pluggableElementTypes/PluggableElementBase.js +13 -0
  256. package/esm/pluggableElementTypes/RpcMethodType.d.ts +132 -12
  257. package/esm/pluggableElementTypes/RpcMethodType.js +263 -98
  258. package/esm/pluggableElementTypes/RpcMethodTypeWithFiltersAndRenameRegions.d.ts +19 -9
  259. package/esm/pluggableElementTypes/RpcMethodTypeWithFiltersAndRenameRegions.js +26 -20
  260. package/esm/pluggableElementTypes/RpcMethodTypeWithRenameRegion.d.ts +5 -0
  261. package/esm/pluggableElementTypes/RpcMethodTypeWithRenameRegion.js +18 -0
  262. package/esm/pluggableElementTypes/RpcMethodTypeWithRenameRegions.d.ts +5 -0
  263. package/esm/pluggableElementTypes/RpcMethodTypeWithRenameRegions.js +10 -0
  264. package/esm/pluggableElementTypes/TextSearchAdapterType.d.ts +3 -3
  265. package/esm/pluggableElementTypes/TextSearchAdapterType.js +3 -1
  266. package/esm/pluggableElementTypes/TrackType.d.ts +2 -1
  267. package/esm/pluggableElementTypes/TrackType.js +1 -1
  268. package/esm/pluggableElementTypes/ViewType.d.ts +27 -3
  269. package/esm/pluggableElementTypes/ViewType.js +84 -4
  270. package/esm/pluggableElementTypes/WidgetType.d.ts +2 -2
  271. package/esm/pluggableElementTypes/WidgetType.js +1 -1
  272. package/esm/pluggableElementTypes/addMenuItems.d.ts +87 -0
  273. package/esm/pluggableElementTypes/addMenuItems.js +82 -0
  274. package/esm/pluggableElementTypes/extendElementType.d.ts +30 -0
  275. package/esm/pluggableElementTypes/extendElementType.js +73 -0
  276. package/esm/pluggableElementTypes/index.d.ts +7 -7
  277. package/esm/pluggableElementTypes/index.js +24 -14
  278. package/esm/pluggableElementTypes/models/BaseConnectionModelFactory.d.ts +70 -15
  279. package/esm/pluggableElementTypes/models/BaseConnectionModelFactory.js +90 -10
  280. package/esm/pluggableElementTypes/models/BaseDisplayModel.d.ts +646 -84
  281. package/esm/pluggableElementTypes/models/BaseDisplayModel.js +241 -60
  282. package/esm/pluggableElementTypes/models/BaseTrackModel.d.ts +216 -35
  283. package/esm/pluggableElementTypes/models/BaseTrackModel.js +365 -83
  284. package/esm/pluggableElementTypes/models/BaseViewModel.d.ts +216 -16
  285. package/esm/pluggableElementTypes/models/BaseViewModel.js +150 -16
  286. package/esm/pluggableElementTypes/models/HighlightsMixin.d.ts +51 -0
  287. package/esm/pluggableElementTypes/models/HighlightsMixin.js +78 -0
  288. package/esm/pluggableElementTypes/models/InternetAccountModel.d.ts +163 -29
  289. package/esm/pluggableElementTypes/models/InternetAccountModel.js +218 -48
  290. package/esm/pluggableElementTypes/models/assertDisplayContract.d.ts +177 -0
  291. package/esm/pluggableElementTypes/models/assertDisplayContract.js +239 -0
  292. package/esm/pluggableElementTypes/models/baseConnectionConfig.d.ts +22 -8
  293. package/esm/pluggableElementTypes/models/baseConnectionConfig.js +18 -2
  294. package/esm/pluggableElementTypes/models/baseInternetAccountConfig.d.ts +39 -20
  295. package/esm/pluggableElementTypes/models/baseInternetAccountConfig.js +23 -2
  296. package/esm/pluggableElementTypes/models/baseTrackConfig.d.ts +181 -65
  297. package/esm/pluggableElementTypes/models/baseTrackConfig.js +191 -89
  298. package/esm/pluggableElementTypes/models/components/SaveTrackData.d.ts +3 -8
  299. package/esm/pluggableElementTypes/models/components/SaveTrackData.js +113 -139
  300. package/esm/pluggableElementTypes/models/components/fetchTrackData.d.ts +55 -0
  301. package/esm/pluggableElementTypes/models/components/fetchTrackData.js +83 -0
  302. package/esm/pluggableElementTypes/models/expandTrackConfigShorthand.d.ts +40 -0
  303. package/esm/pluggableElementTypes/models/expandTrackConfigShorthand.js +115 -0
  304. package/esm/pluggableElementTypes/models/index.d.ts +6 -3
  305. package/esm/pluggableElementTypes/models/index.js +10 -8
  306. package/esm/pluggableElementTypes/models/migrateTrackConfig.d.ts +34 -0
  307. package/esm/pluggableElementTypes/models/migrateTrackConfig.js +54 -0
  308. package/esm/pluggableElementTypes/models/saveTrackFileTypes/bed.js +75 -7
  309. package/esm/pluggableElementTypes/models/saveTrackFileTypes/genbank.d.ts +9 -3
  310. package/esm/pluggableElementTypes/models/saveTrackFileTypes/genbank.js +153 -103
  311. package/esm/pluggableElementTypes/models/saveTrackFileTypes/gff3.d.ts +6 -1
  312. package/esm/pluggableElementTypes/models/saveTrackFileTypes/gff3.js +70 -74
  313. package/esm/pluggableElementTypes/models/saveTrackFileTypes/types.d.ts +9 -1
  314. package/esm/pluggableElementTypes/models/saveTrackFileTypes/util.d.ts +21 -0
  315. package/esm/pluggableElementTypes/models/saveTrackFileTypes/util.js +51 -0
  316. package/esm/pluggableElementTypes/models/uriMatchesDomains.d.ts +29 -0
  317. package/esm/pluggableElementTypes/models/uriMatchesDomains.js +62 -0
  318. package/esm/pluggableElementTypes/renderers/util/serializableFilterChain.d.ts +5 -4
  319. package/esm/pluggableElementTypes/renderers/util/serializableFilterChain.js +20 -10
  320. package/esm/pluginDefinitions.d.ts +198 -0
  321. package/esm/pluginDefinitions.js +220 -0
  322. package/esm/rpc/BaseRpcDriver.d.ts +27 -35
  323. package/esm/rpc/BaseRpcDriver.js +74 -107
  324. package/esm/rpc/MainThreadRpcDriver.d.ts +9 -10
  325. package/esm/rpc/MainThreadRpcDriver.js +18 -29
  326. package/esm/rpc/RpcClient.d.ts +38 -0
  327. package/esm/rpc/RpcClient.js +154 -0
  328. package/esm/rpc/RpcManager.d.ts +116 -27
  329. package/esm/rpc/RpcManager.js +177 -50
  330. package/esm/rpc/RpcRegistry.d.ts +275 -0
  331. package/esm/rpc/RpcRegistry.js +1 -0
  332. package/esm/rpc/RpcServer.d.ts +41 -0
  333. package/esm/rpc/RpcServer.js +235 -0
  334. package/esm/rpc/WebWorkerRpcDriver.d.ts +71 -24
  335. package/esm/rpc/WebWorkerRpcDriver.js +312 -27
  336. package/esm/rpc/byteBudget.d.ts +58 -0
  337. package/esm/rpc/byteBudget.js +50 -0
  338. package/esm/rpc/configSchema.d.ts +27 -5
  339. package/esm/rpc/configSchema.js +40 -16
  340. package/esm/rpc/coreRpcMethods.d.ts +3 -5
  341. package/esm/rpc/coreRpcMethods.js +10 -12
  342. package/esm/rpc/explainTransferError.d.ts +35 -0
  343. package/esm/rpc/explainTransferError.js +158 -0
  344. package/esm/rpc/methods/CoreFreeResources.d.ts +19 -4
  345. package/esm/rpc/methods/CoreFreeResources.js +17 -6
  346. package/esm/rpc/methods/CoreGetExportData.d.ts +5 -18
  347. package/esm/rpc/methods/CoreGetExportData.js +26 -15
  348. package/esm/rpc/methods/CoreGetFeatureDensity.d.ts +11 -0
  349. package/esm/rpc/methods/CoreGetFeatureDensity.js +22 -0
  350. package/esm/rpc/methods/CoreGetFeatures.d.ts +6 -15
  351. package/esm/rpc/methods/CoreGetFeatures.js +15 -17
  352. package/esm/rpc/methods/CoreGetInfo.d.ts +6 -0
  353. package/esm/rpc/methods/CoreGetInfo.js +12 -0
  354. package/esm/rpc/methods/CoreGetMetadata.d.ts +4 -7
  355. package/esm/rpc/methods/CoreGetMetadata.js +6 -9
  356. package/esm/rpc/methods/CoreGetRefNames.d.ts +4 -8
  357. package/esm/rpc/methods/CoreGetRefNames.js +24 -13
  358. package/esm/rpc/methods/CoreGetRegionByteEstimate.d.ts +6 -0
  359. package/esm/rpc/methods/CoreGetRegionByteEstimate.js +19 -0
  360. package/esm/rpc/methods/CoreGetRegions.d.ts +4 -6
  361. package/esm/rpc/methods/CoreGetRegions.js +6 -9
  362. package/esm/rpc/methods/CoreGetSequence.d.ts +4 -11
  363. package/esm/rpc/methods/CoreGetSequence.js +12 -13
  364. package/esm/rpc/serializeError/index.d.ts +9 -0
  365. package/esm/rpc/serializeError/index.js +86 -0
  366. package/esm/svg/SvgExport.d.ts +30 -0
  367. package/esm/svg/SvgExport.js +53 -0
  368. package/esm/svg/constants.d.ts +1 -0
  369. package/esm/svg/constants.js +5 -0
  370. package/esm/svg/saveSvgAsImage.d.ts +6 -0
  371. package/esm/svg/saveSvgAsImage.js +90 -0
  372. package/esm/svg/svgId.d.ts +42 -0
  373. package/esm/svg/svgId.js +84 -0
  374. package/esm/svg/svgReady.d.ts +137 -0
  375. package/esm/svg/svgReady.js +164 -0
  376. package/esm/svg/trackNames.d.ts +27 -0
  377. package/esm/svg/trackNames.js +31 -0
  378. package/esm/svg/wrapSvgExport.d.ts +12 -0
  379. package/esm/svg/wrapSvgExport.js +78 -0
  380. package/esm/ui/ActionLink.d.ts +7 -0
  381. package/esm/ui/ActionLink.js +9 -0
  382. package/esm/ui/AddCustomPluginDialog.d.ts +14 -0
  383. package/esm/ui/AddCustomPluginDialog.js +61 -0
  384. package/esm/ui/AddGenomePane.d.ts +8 -0
  385. package/esm/ui/AddGenomePane.js +228 -0
  386. package/esm/ui/AdvancedOptions.d.ts +6 -0
  387. package/esm/ui/AdvancedOptions.js +17 -0
  388. package/esm/ui/AppLogo.d.ts +1 -1
  389. package/esm/ui/AppLogo.js +2 -2
  390. package/esm/ui/AssemblySelector.d.ts +5 -8
  391. package/esm/ui/AssemblySelector.js +8 -26
  392. package/esm/ui/BaseExportSvgDialog.d.ts +16 -0
  393. package/esm/ui/BaseExportSvgDialog.js +84 -0
  394. package/esm/ui/BaseTooltip.d.ts +14 -3
  395. package/esm/ui/BaseTooltip.js +151 -34
  396. package/esm/ui/CascadingMenu.d.ts +9 -18
  397. package/esm/ui/CascadingMenu.js +390 -41
  398. package/esm/ui/CascadingMenuButton.d.ts +9 -11
  399. package/esm/ui/CascadingMenuButton.js +36 -18
  400. package/esm/ui/CascadingMenuHelpDialog.d.ts +2 -2
  401. package/esm/ui/CascadingMenuHelpDialog.js +4 -5
  402. package/esm/ui/CascadingMenuHelpIconButton.d.ts +2 -1
  403. package/esm/ui/CascadingMenuHelpIconButton.js +18 -9
  404. package/esm/ui/ColorPicker.d.ts +6 -9
  405. package/esm/ui/ColorPicker.js +36 -39
  406. package/esm/ui/ConfirmDialog.d.ts +2 -9
  407. package/esm/ui/ConfirmDialog.js +6 -9
  408. package/esm/ui/ContextMenu.d.ts +50 -0
  409. package/esm/ui/ContextMenu.js +55 -0
  410. package/esm/ui/CopyToClipboardButton.d.ts +10 -0
  411. package/esm/ui/CopyToClipboardButton.js +14 -0
  412. package/esm/ui/Crosshairs.d.ts +10 -0
  413. package/esm/ui/Crosshairs.js +15 -0
  414. package/esm/ui/DOMPurifySanitizedHTML.d.ts +1 -1
  415. package/esm/ui/DOMPurifySanitizedHTML.js +5 -5
  416. package/esm/ui/DataGridFlexContainer.d.ts +9 -2
  417. package/esm/ui/DataGridFlexContainer.js +4 -3
  418. package/esm/ui/Dialog.d.ts +5 -2
  419. package/esm/ui/Dialog.js +35 -27
  420. package/esm/ui/DraggableDialog.d.ts +3 -3
  421. package/esm/ui/DraggableDialog.js +50 -12
  422. package/esm/ui/DropDownMenu.d.ts +4 -2
  423. package/esm/ui/DropDownMenu.js +4 -4
  424. package/esm/ui/EditableTypography.d.ts +3 -1
  425. package/esm/ui/EditableTypography.js +34 -26
  426. package/esm/ui/ErrorActions.d.ts +24 -0
  427. package/esm/ui/ErrorActions.js +20 -0
  428. package/esm/ui/ErrorBanner.d.ts +7 -0
  429. package/esm/ui/ErrorBanner.js +35 -0
  430. package/esm/ui/ErrorBar.d.ts +6 -0
  431. package/esm/ui/ErrorBar.js +35 -0
  432. package/esm/ui/ErrorBoundary.d.ts +29 -5
  433. package/esm/ui/ErrorBoundary.js +32 -2
  434. package/esm/ui/ErrorMessage.d.ts +2 -4
  435. package/esm/ui/ErrorMessage.js +17 -52
  436. package/esm/ui/ErrorMessageStackTraceContents.d.ts +1 -1
  437. package/esm/ui/ErrorMessageStackTraceContents.js +3 -3
  438. package/esm/ui/ErrorMessageStackTraceDialog.d.ts +1 -1
  439. package/esm/ui/ErrorMessageStackTraceDialog.js +57 -96
  440. package/esm/ui/ErrorOverlay.d.ts +8 -0
  441. package/esm/ui/ErrorOverlay.js +5 -0
  442. package/esm/ui/ExportSvgDialog.d.ts +7 -0
  443. package/esm/ui/ExportSvgDialog.js +9 -0
  444. package/esm/ui/ExternalLink.d.ts +1 -1
  445. package/esm/ui/FactoryResetDialog.d.ts +1 -1
  446. package/esm/ui/FactoryResetDialog.js +6 -15
  447. package/esm/ui/FatalErrorDialog.d.ts +3 -2
  448. package/esm/ui/FatalErrorDialog.js +6 -5
  449. package/esm/ui/FileDropZone.d.ts +25 -0
  450. package/esm/ui/FileDropZone.js +128 -0
  451. package/esm/ui/FileSelector/FileSelector.d.ts +1 -1
  452. package/esm/ui/FileSelector/FileSelector.js +59 -30
  453. package/esm/ui/FileSelector/LocalFileChooser.d.ts +7 -2
  454. package/esm/ui/FileSelector/LocalFileChooser.js +61 -47
  455. package/esm/ui/FileSelector/LocationInput.d.ts +1 -1
  456. package/esm/ui/FileSelector/LocationInput.js +8 -12
  457. package/esm/ui/FileSelector/SourceTypeSelector.d.ts +5 -5
  458. package/esm/ui/FileSelector/SourceTypeSelector.js +9 -7
  459. package/esm/ui/FileSelector/UrlChooser.d.ts +1 -1
  460. package/esm/ui/FileSelector/UrlChooser.js +26 -2
  461. package/esm/ui/FileSelector/emptySourceType.d.ts +2 -0
  462. package/esm/ui/FileSelector/emptySourceType.js +14 -0
  463. package/esm/ui/FileSelector/useInternetAccounts.d.ts +383 -71
  464. package/esm/ui/FileSelector/useInternetAccounts.js +13 -6
  465. package/esm/ui/FileSelector/util.d.ts +58 -3
  466. package/esm/ui/FileSelector/util.js +128 -11
  467. package/esm/ui/GpuFallbackButton.d.ts +12 -0
  468. package/esm/ui/GpuFallbackButton.js +20 -0
  469. package/esm/ui/HoverMenu.d.ts +12 -3
  470. package/esm/ui/HoverMenu.js +31 -9
  471. package/esm/ui/HoverTooltip.d.ts +27 -0
  472. package/esm/ui/HoverTooltip.js +24 -0
  473. package/esm/ui/Icons.d.ts +6 -4
  474. package/esm/ui/Icons.js +9 -0
  475. package/esm/ui/InfoDialog.d.ts +7 -0
  476. package/esm/ui/InfoDialog.js +16 -0
  477. package/esm/ui/InlineMenuControls.d.ts +6 -0
  478. package/esm/ui/InlineMenuControls.js +17 -0
  479. package/esm/ui/JexlFilterDialog.d.ts +23 -0
  480. package/esm/ui/JexlFilterDialog.js +94 -0
  481. package/esm/ui/LabeledCheckbox.d.ts +9 -0
  482. package/esm/ui/LabeledCheckbox.js +7 -0
  483. package/esm/ui/LegendSwatchGlyph.d.ts +7 -0
  484. package/esm/ui/LegendSwatchGlyph.js +25 -0
  485. package/esm/ui/LoadingDots.d.ts +1 -0
  486. package/esm/ui/LoadingDots.js +30 -0
  487. package/esm/ui/LoadingEllipses.d.ts +17 -1
  488. package/esm/ui/LoadingEllipses.js +20 -29
  489. package/esm/ui/LoadingOverlay.d.ts +23 -0
  490. package/esm/ui/LoadingOverlay.js +137 -0
  491. package/esm/ui/LoadingProgress.d.ts +16 -0
  492. package/esm/ui/LoadingProgress.js +16 -0
  493. package/esm/ui/Logo.d.ts +2 -2
  494. package/esm/ui/Logo.js +23 -24
  495. package/esm/ui/Menu.js +1 -1
  496. package/esm/ui/MenuItemChevron.d.ts +3 -0
  497. package/esm/ui/MenuItemChevron.js +19 -0
  498. package/esm/ui/MenuItemEndDecoration.d.ts +4 -0
  499. package/esm/ui/MenuItemEndDecoration.js +28 -0
  500. package/esm/ui/MenuItemTrailing.d.ts +12 -0
  501. package/esm/ui/MenuItemTrailing.js +42 -0
  502. package/esm/ui/MenuTypes.d.ts +134 -5
  503. package/esm/ui/MenuTypes.js +16 -1
  504. package/esm/ui/MonospaceTextField.d.ts +9 -0
  505. package/esm/ui/MonospaceTextField.js +37 -0
  506. package/esm/ui/NumberTextField.d.ts +31 -0
  507. package/esm/ui/NumberTextField.js +33 -0
  508. package/esm/ui/PaletteContext.d.ts +92 -0
  509. package/esm/ui/PaletteContext.js +133 -0
  510. package/esm/ui/PinAdornment.d.ts +5 -0
  511. package/esm/ui/PinAdornment.js +85 -0
  512. package/esm/ui/PluggableComponent.d.ts +10 -0
  513. package/esm/ui/PluggableComponent.js +19 -0
  514. package/esm/ui/PluggableComponents.d.ts +29 -0
  515. package/esm/ui/PluggableComponents.js +28 -0
  516. package/esm/ui/PluggableElements.d.ts +23 -0
  517. package/esm/ui/PluggableElements.js +24 -0
  518. package/esm/ui/PluginStoreCard.d.ts +17 -0
  519. package/esm/ui/PluginStoreCard.js +45 -0
  520. package/esm/ui/PopoverPicker.d.ts +6 -0
  521. package/esm/ui/PopoverPicker.js +25 -0
  522. package/esm/ui/PrerenderedCanvas.d.ts +1 -1
  523. package/esm/ui/PrerenderedCanvas.js +5 -4
  524. package/esm/ui/ProgressChip.d.ts +37 -0
  525. package/esm/ui/ProgressChip.js +66 -0
  526. package/esm/ui/RedErrorMessageBox.d.ts +1 -1
  527. package/esm/ui/RedErrorMessageBox.js +9 -3
  528. package/esm/ui/RefNameAutocomplete/EndAdornment.d.ts +5 -0
  529. package/esm/ui/RefNameAutocomplete/EndAdornment.js +31 -0
  530. package/esm/ui/RefNameAutocomplete/HelpDialog.d.ts +3 -0
  531. package/esm/ui/RefNameAutocomplete/HelpDialog.js +7 -0
  532. package/esm/ui/RefNameAutocomplete/index.d.ts +22 -0
  533. package/esm/ui/RefNameAutocomplete/index.js +78 -0
  534. package/esm/ui/RefNameAutocomplete/util.d.ts +49 -0
  535. package/esm/ui/RefNameAutocomplete/util.js +168 -0
  536. package/esm/ui/ReplaceCurrentViewButton.d.ts +19 -0
  537. package/esm/ui/ReplaceCurrentViewButton.js +22 -0
  538. package/esm/ui/ResizeHandle.d.ts +13 -7
  539. package/esm/ui/ResizeHandle.js +42 -55
  540. package/esm/ui/ReturnToImportFormDialog.d.ts +1 -1
  541. package/esm/ui/ReturnToImportFormDialog.js +7 -9
  542. package/esm/ui/SanitizedHTML.d.ts +6 -1
  543. package/esm/ui/SanitizedHTML.js +7 -47
  544. package/esm/ui/ScrollEdgeShadow.d.ts +44 -0
  545. package/esm/ui/ScrollEdgeShadow.js +98 -0
  546. package/esm/ui/ScrollZoomToggle.d.ts +38 -0
  547. package/esm/ui/ScrollZoomToggle.js +92 -0
  548. package/esm/ui/SequenceAdapterInputs.d.ts +9 -0
  549. package/esm/ui/SequenceAdapterInputs.js +30 -0
  550. package/esm/ui/SettingsChangesTable.d.ts +14 -0
  551. package/esm/ui/SettingsChangesTable.js +49 -0
  552. package/esm/ui/ShareLinkField.d.ts +6 -0
  553. package/esm/ui/ShareLinkField.js +42 -0
  554. package/esm/ui/SingleSlider.d.ts +8 -0
  555. package/esm/ui/SingleSlider.js +11 -0
  556. package/esm/ui/SizeSliderRow.d.ts +16 -0
  557. package/esm/ui/SizeSliderRow.js +50 -0
  558. package/esm/ui/SliderTooltip.d.ts +2 -0
  559. package/esm/ui/SliderTooltip.js +17 -0
  560. package/esm/ui/Snackbar.d.ts +4 -2
  561. package/esm/ui/Snackbar.js +11 -8
  562. package/esm/ui/SnackbarContents.d.ts +1 -1
  563. package/esm/ui/SnackbarContents.js +21 -3
  564. package/esm/ui/SnackbarModel.d.ts +40 -0
  565. package/esm/ui/SnackbarModel.js +43 -11
  566. package/esm/ui/StackTraceButton.d.ts +5 -0
  567. package/esm/ui/StackTraceButton.js +16 -0
  568. package/esm/ui/StatusProgressBar.d.ts +37 -0
  569. package/esm/ui/StatusProgressBar.js +76 -0
  570. package/esm/ui/SubmitDialog.d.ts +6 -0
  571. package/esm/ui/SubmitDialog.js +9 -0
  572. package/esm/ui/SubmitForm.d.ts +23 -0
  573. package/esm/ui/SubmitForm.js +23 -0
  574. package/esm/ui/SvgColorLegend.d.ts +13 -0
  575. package/esm/ui/SvgColorLegend.js +65 -0
  576. package/esm/ui/SvgGradientLegend.d.ts +26 -0
  577. package/esm/ui/SvgGradientLegend.js +26 -0
  578. package/esm/ui/TagTextField.d.ts +40 -0
  579. package/esm/ui/TagTextField.js +32 -0
  580. package/esm/ui/VerticalScrollbar.d.ts +45 -0
  581. package/esm/ui/VerticalScrollbar.js +158 -0
  582. package/esm/ui/ViewLoadingScreen.d.ts +24 -0
  583. package/esm/ui/ViewLoadingScreen.js +76 -0
  584. package/esm/ui/addExtensionElement.d.ts +18 -0
  585. package/esm/ui/addExtensionElement.js +23 -0
  586. package/esm/ui/buildExtraTrackMenuItems.d.ts +22 -0
  587. package/esm/ui/buildExtraTrackMenuItems.js +14 -0
  588. package/esm/ui/colorSwatchStyle.d.ts +9 -0
  589. package/esm/ui/colorSwatchStyle.js +11 -0
  590. package/esm/ui/colors.d.ts +61 -8
  591. package/esm/ui/colors.js +135 -1
  592. package/esm/ui/extensionSelectors.d.ts +38 -0
  593. package/esm/ui/extensionSelectors.js +49 -0
  594. package/esm/ui/filterMenuItems.d.ts +112 -0
  595. package/esm/ui/filterMenuItems.js +86 -0
  596. package/esm/ui/formatErrorStack.d.ts +1 -0
  597. package/esm/ui/formatErrorStack.js +56 -0
  598. package/esm/ui/gpuFallback.d.ts +33 -0
  599. package/esm/ui/gpuFallback.js +39 -0
  600. package/esm/ui/highlightChipReveal.d.ts +32 -0
  601. package/esm/ui/highlightChipReveal.js +39 -0
  602. package/esm/ui/hoverBoxStyle.d.ts +11 -0
  603. package/esm/ui/hoverBoxStyle.js +13 -0
  604. package/esm/ui/index.d.ts +76 -4
  605. package/esm/ui/index.js +90 -19
  606. package/esm/ui/inlineMenuRowWidth.d.ts +1 -0
  607. package/esm/ui/inlineMenuRowWidth.js +8 -0
  608. package/esm/ui/launchTargetsMenuItem.d.ts +18 -0
  609. package/esm/ui/launchTargetsMenuItem.js +24 -0
  610. package/esm/ui/launchViewMenu.d.ts +4 -0
  611. package/esm/ui/launchViewMenu.js +42 -0
  612. package/esm/ui/legendMenuItem.d.ts +38 -0
  613. package/esm/ui/legendMenuItem.js +44 -0
  614. package/esm/ui/legendSpec.d.ts +62 -0
  615. package/esm/ui/legendSpec.js +78 -0
  616. package/esm/ui/loadingDotKeyframes.d.ts +18 -0
  617. package/esm/ui/loadingDotKeyframes.js +17 -0
  618. package/esm/ui/makeSizeMenu.d.ts +30 -0
  619. package/esm/ui/makeSizeMenu.js +82 -0
  620. package/esm/ui/mapStackTrace.d.ts +8 -0
  621. package/esm/ui/mapStackTrace.js +108 -0
  622. package/esm/ui/measureLegendText.d.ts +1 -0
  623. package/esm/ui/measureLegendText.js +8 -0
  624. package/esm/ui/menuItemAdornment.d.ts +33 -0
  625. package/esm/ui/menuItemAdornment.js +50 -0
  626. package/esm/ui/menuItems.d.ts +28 -0
  627. package/esm/ui/menuItems.js +26 -0
  628. package/esm/ui/menuLabels.d.ts +41 -0
  629. package/esm/ui/menuLabels.js +43 -0
  630. package/esm/ui/multiTrackMenuItems.d.ts +19 -0
  631. package/esm/ui/multiTrackMenuItems.js +15 -0
  632. package/esm/ui/palette.d.ts +559 -0
  633. package/esm/ui/palette.js +746 -0
  634. package/esm/ui/parseError.d.ts +4 -0
  635. package/esm/ui/parseError.js +18 -0
  636. package/esm/ui/persistentScrollbarStyle.d.ts +49 -0
  637. package/esm/ui/persistentScrollbarStyle.js +53 -0
  638. package/esm/ui/promotableMenuItems.d.ts +19 -0
  639. package/esm/ui/promotableMenuItems.js +91 -0
  640. package/esm/ui/promotablePinCoverage.d.ts +44 -0
  641. package/esm/ui/promotablePinCoverage.js +88 -0
  642. package/esm/ui/radioSubMenu.d.ts +33 -0
  643. package/esm/ui/radioSubMenu.js +32 -0
  644. package/esm/ui/react-colorful.js +5 -1
  645. package/esm/ui/replaceViewAction.d.ts +31 -0
  646. package/esm/ui/replaceViewAction.js +39 -0
  647. package/esm/ui/rewriteExternalAnchors.d.ts +1 -0
  648. package/esm/ui/rewriteExternalAnchors.js +8 -0
  649. package/esm/ui/scrollZoomLabels.d.ts +17 -0
  650. package/esm/ui/scrollZoomLabels.js +22 -0
  651. package/esm/ui/showSubMenu.d.ts +19 -0
  652. package/esm/ui/showSubMenu.js +30 -0
  653. package/esm/ui/sliderScale.d.ts +6 -0
  654. package/esm/ui/sliderScale.js +30 -0
  655. package/esm/ui/statusProgressKeyframes.d.ts +6 -0
  656. package/esm/ui/statusProgressKeyframes.js +14 -0
  657. package/esm/ui/stripStackTraceMessage.d.ts +1 -0
  658. package/esm/ui/stripStackTraceMessage.js +9 -0
  659. package/esm/ui/styleTheme.d.ts +158 -0
  660. package/esm/ui/styleTheme.js +115 -0
  661. package/esm/ui/submenuAim.d.ts +30 -0
  662. package/esm/ui/submenuAim.js +37 -0
  663. package/esm/ui/theme.d.ts +343 -29
  664. package/esm/ui/theme.js +258 -342
  665. package/esm/ui/toggleMenuItems.d.ts +42 -0
  666. package/esm/ui/toggleMenuItems.js +60 -0
  667. package/esm/ui/useAssemblySelection.d.ts +153 -0
  668. package/esm/ui/useAssemblySelection.js +54 -0
  669. package/esm/ui/useCoalescedPointer.d.ts +36 -0
  670. package/esm/ui/useCoalescedPointer.js +60 -0
  671. package/esm/ui/useCopyToClipboard.d.ts +15 -0
  672. package/esm/ui/useCopyToClipboard.js +41 -0
  673. package/esm/ui/useExportSvgPreference.d.ts +1 -0
  674. package/esm/ui/useExportSvgPreference.js +4 -0
  675. package/esm/ui/useMouseTracking.d.ts +71 -0
  676. package/esm/ui/useMouseTracking.js +179 -0
  677. package/esm/ui/useRecentLocations.d.ts +28 -0
  678. package/esm/ui/useRecentLocations.js +31 -0
  679. package/esm/ui/wrapComponent.d.ts +47 -0
  680. package/esm/ui/wrapComponent.js +58 -0
  681. package/esm/ui/zIndexes.d.ts +28 -0
  682. package/esm/ui/zIndexes.js +38 -0
  683. package/esm/util/Base1DUtils.d.ts +204 -16
  684. package/esm/util/Base1DUtils.js +310 -175
  685. package/esm/util/Base1DViewModel.d.ts +97 -20
  686. package/esm/util/Base1DViewModel.js +148 -39
  687. package/esm/util/FileSaver/index.d.ts +1 -0
  688. package/esm/util/FileSaver/index.js +27 -0
  689. package/esm/util/IntervalTree.d.ts +18 -39
  690. package/esm/util/IntervalTree.js +63 -244
  691. package/esm/util/SvgCanvas.d.ts +81 -0
  692. package/esm/util/SvgCanvas.js +500 -0
  693. package/esm/util/TimeTraveller.d.ts +12 -0
  694. package/esm/util/TimeTraveller.js +130 -27
  695. package/esm/util/aborting.d.ts +17 -4
  696. package/esm/util/aborting.js +30 -25
  697. package/esm/util/adapterMetadata.d.ts +20 -0
  698. package/esm/util/adapterMetadata.js +39 -0
  699. package/esm/util/addAndShowTrack.d.ts +22 -0
  700. package/esm/util/addAndShowTrack.js +27 -0
  701. package/esm/util/addRelativeUris.d.ts +17 -0
  702. package/esm/util/addRelativeUris.js +42 -0
  703. package/esm/util/addTrackComponent.d.ts +72 -0
  704. package/esm/util/addTrackComponent.js +53 -0
  705. package/esm/util/addTrackFromWidget.d.ts +94 -0
  706. package/esm/util/addTrackFromWidget.js +90 -0
  707. package/esm/util/analytics.d.ts +32 -3
  708. package/esm/util/analytics.js +102 -49
  709. package/esm/util/animationAllowed.d.ts +17 -0
  710. package/esm/util/animationAllowed.js +22 -0
  711. package/esm/util/applyRowResizeWheel.d.ts +10 -0
  712. package/esm/util/applyRowResizeWheel.js +34 -0
  713. package/esm/util/assemblyConfigUtils.d.ts +144 -0
  714. package/esm/util/assemblyConfigUtils.js +498 -0
  715. package/esm/util/bandHeight.d.ts +53 -0
  716. package/esm/util/bandHeight.js +56 -0
  717. package/esm/util/bandLayout.d.ts +51 -0
  718. package/esm/util/bandLayout.js +36 -0
  719. package/esm/util/bezierConnector.d.ts +14 -0
  720. package/esm/util/bezierConnector.js +108 -0
  721. package/esm/util/bgzfWorkerPool.d.ts +78 -0
  722. package/esm/util/bgzfWorkerPool.js +81 -0
  723. package/esm/util/blockTypes.d.ts +64 -45
  724. package/esm/util/blockTypes.js +67 -74
  725. package/esm/util/bpUtils.d.ts +81 -0
  726. package/esm/util/bpUtils.js +103 -0
  727. package/esm/util/cacheBudgets.d.ts +55 -0
  728. package/esm/util/cacheBudgets.js +55 -0
  729. package/esm/util/cachedSetup.d.ts +51 -0
  730. package/esm/util/cachedSetup.js +87 -0
  731. package/esm/util/calculateDynamicBlocks.d.ts +5 -0
  732. package/esm/util/calculateDynamicBlocks.js +85 -82
  733. package/esm/util/calculateStaticBlocks.d.ts +2 -3
  734. package/esm/util/calculateStaticBlocks.js +48 -71
  735. package/esm/util/chooseGridPitch.d.ts +9 -0
  736. package/esm/util/chooseGridPitch.js +31 -0
  737. package/esm/util/clampToContig.d.ts +26 -0
  738. package/esm/util/clampToContig.js +28 -0
  739. package/esm/util/cmpStr.d.ts +1 -0
  740. package/esm/util/cmpStr.js +7 -0
  741. package/esm/util/coarseStripHTML.js +3 -15
  742. package/esm/util/color/cssColorsLevel4.js +6 -2
  743. package/esm/util/color/index.d.ts +81 -2
  744. package/esm/util/color/index.js +194 -25
  745. package/esm/util/color-bits/bit.d.ts +4 -0
  746. package/esm/util/color-bits/bit.js +37 -0
  747. package/esm/util/color-bits/convert.d.ts +23 -0
  748. package/esm/util/color-bits/convert.js +294 -0
  749. package/esm/util/color-bits/core.d.ts +34 -0
  750. package/esm/util/color-bits/core.js +67 -0
  751. package/esm/util/color-bits/format.d.ts +24 -0
  752. package/esm/util/color-bits/format.js +82 -0
  753. package/esm/util/color-bits/functions.d.ts +33 -0
  754. package/esm/util/color-bits/functions.js +70 -0
  755. package/esm/util/color-bits/index.d.ts +5 -0
  756. package/esm/util/color-bits/index.js +4 -0
  757. package/esm/util/color-bits/parse.d.ts +17 -0
  758. package/esm/util/color-bits/parse.js +382 -0
  759. package/esm/util/colorBits.d.ts +39 -0
  760. package/esm/util/colorBits.js +180 -0
  761. package/esm/util/colorRamp.d.ts +37 -0
  762. package/esm/util/colorRamp.js +93 -0
  763. package/esm/util/colord.d.ts +8 -0
  764. package/esm/util/colord.js +43 -191
  765. package/esm/util/convertCodingSequenceToPeptides.d.ts +17 -3
  766. package/esm/util/convertCodingSequenceToPeptides.js +51 -4
  767. package/esm/util/copyText.d.ts +18 -0
  768. package/esm/util/copyText.js +30 -0
  769. package/esm/util/copyToClipboard.d.ts +4 -0
  770. package/esm/util/copyToClipboard.js +58 -0
  771. package/esm/util/createStopTokenRotation.d.ts +118 -0
  772. package/esm/util/createStopTokenRotation.js +127 -0
  773. package/esm/util/createSvgRasterCanvas.d.ts +7 -0
  774. package/esm/util/createSvgRasterCanvas.js +22 -0
  775. package/esm/util/crypto.d.ts +24 -0
  776. package/esm/util/crypto.js +85 -2
  777. package/esm/util/dataGridUtils.d.ts +9 -0
  778. package/esm/util/dataGridUtils.js +36 -0
  779. package/esm/util/dedupe.js +1 -0
  780. package/esm/util/deepEqual.d.ts +8 -0
  781. package/esm/util/deepEqual.js +22 -0
  782. package/esm/util/deepMerge.d.ts +20 -0
  783. package/esm/util/deepMerge.js +44 -0
  784. package/esm/util/diagonalizeRegions.d.ts +23 -0
  785. package/esm/util/diagonalizeRegions.js +192 -0
  786. package/esm/util/environment.d.ts +4 -0
  787. package/esm/util/environment.js +43 -0
  788. package/esm/util/eventPoint.d.ts +32 -0
  789. package/esm/util/eventPoint.js +28 -0
  790. package/esm/util/fetchAndMaybeUnzip.d.ts +6 -0
  791. package/esm/util/fetchAndMaybeUnzip.js +64 -0
  792. package/esm/util/fetchContext.d.ts +82 -0
  793. package/esm/util/fetchContext.js +59 -0
  794. package/esm/util/fetchHub.d.ts +15 -0
  795. package/esm/util/fetchHub.js +31 -0
  796. package/esm/util/fetchJson.d.ts +1 -0
  797. package/esm/util/fetchJson.js +7 -0
  798. package/esm/util/fetchPhases.d.ts +77 -0
  799. package/esm/util/fetchPhases.js +1 -0
  800. package/esm/util/fetchSeq.d.ts +5 -1
  801. package/esm/util/fetchSeq.js +18 -6
  802. package/esm/util/fileHandleStore.d.ts +19 -2
  803. package/esm/util/fileHandleStore.js +95 -35
  804. package/esm/util/flatbush/index.d.ts +27 -6
  805. package/esm/util/flatbush/index.js +194 -218
  806. package/esm/util/formatBytes.d.ts +9 -0
  807. package/esm/util/formatBytes.js +18 -0
  808. package/esm/util/formatFastaStrings.d.ts +13 -0
  809. package/esm/util/formatFastaStrings.js +13 -0
  810. package/esm/util/formatGuessers.d.ts +30 -0
  811. package/esm/util/formatGuessers.js +69 -0
  812. package/esm/util/formatRelativeTime.d.ts +1 -0
  813. package/esm/util/formatRelativeTime.js +25 -0
  814. package/esm/util/frameCoalescer.d.ts +30 -0
  815. package/esm/util/frameCoalescer.js +22 -0
  816. package/esm/util/freezeDeep.d.ts +28 -0
  817. package/esm/util/freezeDeep.js +41 -0
  818. package/esm/util/geneticCodes.d.ts +56 -0
  819. package/esm/util/geneticCodes.js +371 -0
  820. package/esm/util/getFileName.d.ts +11 -0
  821. package/esm/util/getFileName.js +34 -0
  822. package/esm/util/getLocationUri.d.ts +49 -0
  823. package/esm/util/getLocationUri.js +63 -0
  824. package/esm/util/getRelativeX.d.ts +4 -0
  825. package/esm/util/getRelativeX.js +7 -0
  826. package/esm/util/getStr.d.ts +6 -0
  827. package/esm/util/getStr.js +15 -0
  828. package/esm/util/highlights.d.ts +21 -0
  829. package/esm/util/highlights.js +100 -0
  830. package/esm/util/hooks.d.ts +168 -0
  831. package/esm/util/hooks.js +443 -0
  832. package/esm/util/htmlText.d.ts +13 -0
  833. package/esm/util/htmlText.js +66 -0
  834. package/esm/util/idMaker.d.ts +1 -1
  835. package/esm/util/idMaker.js +31 -18
  836. package/esm/util/index.d.ts +81 -268
  837. package/esm/util/index.js +135 -853
  838. package/esm/util/indexCandidates.d.ts +50 -0
  839. package/esm/util/indexCandidates.js +101 -0
  840. package/esm/util/installClearHoverOnSurfaceMove.d.ts +40 -0
  841. package/esm/util/installClearHoverOnSurfaceMove.js +41 -0
  842. package/esm/util/installFetch.d.ts +220 -0
  843. package/esm/util/installFetch.js +206 -0
  844. package/esm/util/installInitAutorun.d.ts +62 -0
  845. package/esm/util/installInitAutorun.js +107 -0
  846. package/esm/util/intervals.d.ts +20 -0
  847. package/esm/util/intervals.js +37 -0
  848. package/esm/util/io/RemoteFileWithRangeCache.d.ts +10 -11
  849. package/esm/util/io/RemoteFileWithRangeCache.js +10 -148
  850. package/esm/util/io/index.d.ts +39 -2
  851. package/esm/util/io/index.js +115 -12
  852. package/esm/util/isDataCurrent.d.ts +7 -0
  853. package/esm/util/isDataCurrent.js +9 -0
  854. package/esm/util/isWebWorker.js +1 -2
  855. package/esm/util/iupac.d.ts +4 -0
  856. package/esm/util/iupac.js +59 -0
  857. package/esm/util/jexl.js +141 -17
  858. package/esm/util/jexlFilters.d.ts +75 -0
  859. package/esm/util/jexlFilters.js +49 -0
  860. package/esm/util/jexlStrings.d.ts +22 -1
  861. package/esm/util/jexlStrings.js +21 -14
  862. package/esm/util/layouts/GranularRectLayout.d.ts +13 -25
  863. package/esm/util/layouts/GranularRectLayout.js +99 -356
  864. package/esm/util/layouts/index.d.ts +1 -7
  865. package/esm/util/layouts/index.js +2 -6
  866. package/esm/util/layouts/intervalUtils.d.ts +12 -1
  867. package/esm/util/layouts/intervalUtils.js +13 -31
  868. package/esm/util/layouts/placeRect.d.ts +50 -0
  869. package/esm/util/layouts/placeRect.js +97 -0
  870. package/esm/util/lazyAfterAttach.d.ts +13 -0
  871. package/esm/util/lazyAfterAttach.js +31 -0
  872. package/esm/util/leadingEdgeAutorun.d.ts +40 -0
  873. package/esm/util/leadingEdgeAutorun.js +51 -0
  874. package/esm/util/legendCandidates.d.ts +50 -0
  875. package/esm/util/legendCandidates.js +87 -0
  876. package/esm/util/librpc.d.ts +5 -2
  877. package/esm/util/librpc.js +6 -1
  878. package/esm/util/linkify.js +2 -0
  879. package/esm/util/locString.d.ts +72 -0
  880. package/esm/util/locString.js +178 -7
  881. package/esm/util/locStringsToRegions.d.ts +10 -0
  882. package/esm/util/locStringsToRegions.js +35 -0
  883. package/esm/util/localStorage.d.ts +36 -0
  884. package/esm/util/localStorage.js +137 -0
  885. package/esm/util/makeAssembly.d.ts +54 -0
  886. package/esm/util/makeAssembly.js +52 -0
  887. package/esm/util/makeTrackId.d.ts +14 -0
  888. package/esm/util/makeTrackId.js +14 -0
  889. package/esm/util/matchTrackId.d.ts +11 -0
  890. package/esm/util/matchTrackId.js +14 -0
  891. package/esm/util/measureText.d.ts +24 -0
  892. package/esm/util/measureText.js +51 -0
  893. package/esm/util/mst-reflection.d.ts +14 -4
  894. package/esm/util/mst-reflection.js +33 -32
  895. package/esm/util/mstUtils.d.ts +100 -0
  896. package/esm/util/mstUtils.js +140 -0
  897. package/esm/util/nanoid.d.ts +0 -4
  898. package/esm/util/nanoid.js +10 -20
  899. package/esm/util/numericUtils.d.ts +20 -0
  900. package/esm/util/numericUtils.js +127 -0
  901. package/esm/util/objectUtils.d.ts +2 -0
  902. package/esm/util/objectUtils.js +9 -0
  903. package/esm/util/offscreenCanvasPonyfill.d.ts +5 -4
  904. package/esm/util/offscreenCanvasPonyfill.js +5 -47
  905. package/esm/util/openDisplays.d.ts +23 -0
  906. package/esm/util/openDisplays.js +79 -0
  907. package/esm/util/openFeatureWidget.d.ts +33 -0
  908. package/esm/util/openFeatureWidget.js +64 -0
  909. package/esm/util/paintLayer.d.ts +32 -0
  910. package/esm/util/paintLayer.js +33 -0
  911. package/esm/util/parentWalk.d.ts +32 -0
  912. package/esm/util/parentWalk.js +84 -0
  913. package/esm/util/parseLineByLine.d.ts +45 -2
  914. package/esm/util/parseLineByLine.js +156 -15
  915. package/esm/util/parseMotifList.d.ts +17 -0
  916. package/esm/util/parseMotifList.js +69 -0
  917. package/esm/util/pluginStore.d.ts +114 -0
  918. package/esm/util/pluginStore.js +260 -0
  919. package/esm/util/pointerPresence.d.ts +5 -0
  920. package/esm/util/pointerPresence.js +21 -0
  921. package/esm/util/progress.d.ts +459 -0
  922. package/esm/util/progress.js +820 -0
  923. package/esm/util/range.d.ts +46 -1
  924. package/esm/util/range.js +68 -2
  925. package/esm/util/renameRegions.d.ts +21 -0
  926. package/esm/util/renameRegions.js +129 -0
  927. package/esm/util/renderToStaticMarkup.d.ts +2 -0
  928. package/esm/util/renderToStaticMarkup.js +50 -0
  929. package/esm/util/reorder.d.ts +35 -0
  930. package/esm/util/reorder.js +83 -0
  931. package/esm/util/resolveRowHeight.d.ts +27 -0
  932. package/esm/util/resolveRowHeight.js +30 -0
  933. package/esm/util/revlist.d.ts +13 -0
  934. package/esm/util/revlist.js +14 -0
  935. package/esm/util/rowStackGeometry.d.ts +66 -0
  936. package/esm/util/rowStackGeometry.js +70 -0
  937. package/esm/util/rpc.d.ts +16 -1
  938. package/esm/util/rpc.js +12 -1
  939. package/esm/util/rxjs.d.ts +30 -1
  940. package/esm/util/rxjs.js +88 -10
  941. package/esm/util/sameStrings.d.ts +16 -0
  942. package/esm/util/sameStrings.js +20 -0
  943. package/esm/util/scrollLatch.d.ts +4 -0
  944. package/esm/util/scrollLatch.js +59 -0
  945. package/esm/util/selectNamedRegions.d.ts +136 -0
  946. package/esm/util/selectNamedRegions.js +222 -0
  947. package/esm/util/seqUtils.d.ts +17 -0
  948. package/esm/util/seqUtils.js +80 -0
  949. package/esm/util/sessionServices.d.ts +29 -0
  950. package/esm/util/sessionServices.js +46 -0
  951. package/esm/util/sessionSharing.d.ts +38 -0
  952. package/esm/util/sessionSharing.js +154 -0
  953. package/esm/util/sessionStorage.d.ts +1 -0
  954. package/esm/util/sessionStorage.js +15 -0
  955. package/esm/util/setStackTraceLimit.d.ts +6 -0
  956. package/esm/util/setStackTraceLimit.js +20 -0
  957. package/esm/util/simpleFeature.d.ts +112 -4
  958. package/esm/util/simpleFeature.js +181 -29
  959. package/esm/util/springAnimate.d.ts +20 -0
  960. package/esm/util/springAnimate.js +80 -0
  961. package/esm/util/stats.d.ts +25 -2
  962. package/esm/util/stats.js +39 -8
  963. package/esm/util/stopToken.d.ts +207 -15
  964. package/esm/util/stopToken.js +403 -55
  965. package/esm/util/stringUtils.d.ts +5 -0
  966. package/esm/util/stringUtils.js +34 -0
  967. package/esm/util/svgColorProps.d.ts +7 -0
  968. package/esm/util/svgColorProps.js +28 -0
  969. package/esm/util/tabix.d.ts +126 -0
  970. package/esm/util/tabix.js +149 -0
  971. package/esm/util/tags.d.ts +2 -0
  972. package/esm/util/tags.js +5 -0
  973. package/esm/util/temporaryAssembly.d.ts +21 -0
  974. package/esm/util/temporaryAssembly.js +29 -0
  975. package/esm/util/tickLabels.d.ts +36 -0
  976. package/esm/util/tickLabels.js +45 -0
  977. package/esm/util/timeGate.d.ts +26 -0
  978. package/esm/util/timeGate.js +79 -0
  979. package/esm/util/trackConfigDelta.d.ts +84 -0
  980. package/esm/util/trackConfigDelta.js +190 -0
  981. package/esm/util/tracks.d.ts +398 -30
  982. package/esm/util/tracks.js +699 -191
  983. package/esm/util/tss-react/cssAndCx.js +11 -66
  984. package/esm/util/tss-react/index.d.ts +11 -2
  985. package/esm/util/tss-react/index.js +9 -2
  986. package/esm/util/tss-react/makeStyles.js +7 -4
  987. package/esm/util/tss-react/mergeClasses.js +1 -0
  988. package/esm/util/tss-react/tools/classnames.d.ts +3 -0
  989. package/esm/util/tss-react/tools/classnames.js +3 -0
  990. package/esm/util/tss-react/tools/getDependencyArrayRef.d.ts +18 -0
  991. package/esm/util/tss-react/tools/getDependencyArrayRef.js +19 -0
  992. package/esm/util/tss-react/types.d.ts +1 -1
  993. package/esm/util/tss-react/types.js +1 -6
  994. package/esm/util/types/ElementId.js +1 -1
  995. package/esm/util/types/data.d.ts +75 -0
  996. package/esm/util/types/data.js +41 -0
  997. package/esm/util/types/index.d.ts +402 -120
  998. package/esm/util/types/index.js +90 -64
  999. package/esm/util/types/isAny.d.ts +11 -0
  1000. package/esm/util/types/isAny.js +1 -0
  1001. package/esm/util/types/mst.d.ts +71 -47
  1002. package/esm/util/types/mst.js +27 -22
  1003. package/esm/util/types/predicate.d.ts +9 -0
  1004. package/esm/util/types/predicate.js +1 -0
  1005. package/esm/util/types/renderingServices.d.ts +16 -0
  1006. package/esm/util/types/renderingServices.js +1 -0
  1007. package/esm/util/types/services.d.ts +55 -0
  1008. package/esm/util/types/services.js +10 -0
  1009. package/esm/util/types/util.d.ts +8 -2
  1010. package/esm/util/unknownSnapshotKeys.d.ts +36 -0
  1011. package/esm/util/unknownSnapshotKeys.js +69 -0
  1012. package/esm/util/unzip.d.ts +1 -0
  1013. package/esm/util/unzip.js +6 -0
  1014. package/esm/util/useEventCallback.d.ts +1 -0
  1015. package/esm/util/useEventCallback.js +16 -0
  1016. package/esm/util/useFeatureSequence.d.ts +13 -7
  1017. package/esm/util/useFeatureSequence.js +56 -78
  1018. package/esm/util/useFetch.d.ts +56 -0
  1019. package/esm/util/useFetch.js +188 -0
  1020. package/esm/util/useFetchPlugins.d.ts +12 -0
  1021. package/esm/util/useFetchPlugins.js +14 -0
  1022. package/esm/util/useMeasure.d.ts +11 -1
  1023. package/esm/util/useMeasure.js +20 -6
  1024. package/esm/util/usePanZoom.d.ts +75 -0
  1025. package/esm/util/usePanZoom.js +175 -0
  1026. package/esm/util/usePanelVirtualScroll.d.ts +37 -0
  1027. package/esm/util/usePanelVirtualScroll.js +42 -0
  1028. package/esm/util/usePointerDrag.d.ts +37 -0
  1029. package/esm/util/usePointerDrag.js +61 -0
  1030. package/esm/util/useRafCommit.d.ts +4 -0
  1031. package/esm/util/useRafCommit.js +50 -0
  1032. package/esm/util/useResizeDrag.d.ts +91 -0
  1033. package/esm/util/useResizeDrag.js +105 -0
  1034. package/esm/util/useRowVirtualScroll.d.ts +32 -0
  1035. package/esm/util/useRowVirtualScroll.js +63 -0
  1036. package/esm/util/useVirtualScrollWheel.d.ts +7 -0
  1037. package/esm/util/useVirtualScrollWheel.js +108 -0
  1038. package/esm/util/viewStatus.d.ts +81 -0
  1039. package/esm/util/viewStatus.js +37 -0
  1040. package/esm/util/virtualRange.d.ts +36 -0
  1041. package/esm/util/virtualRange.js +26 -0
  1042. package/esm/util/webStorage.d.ts +26 -0
  1043. package/esm/util/webStorage.js +92 -0
  1044. package/esm/util/wheelZoom.d.ts +59 -0
  1045. package/esm/util/wheelZoom.js +231 -0
  1046. package/esm/util/whenViewSettled.d.ts +40 -0
  1047. package/esm/util/whenViewSettled.js +41 -0
  1048. package/esm/util/withFeatureDetails.d.ts +34 -0
  1049. package/esm/util/withFeatureDetails.js +59 -0
  1050. package/esm/util/withLaunchInput.d.ts +123 -0
  1051. package/esm/util/withLaunchInput.js +228 -0
  1052. package/package.json +243 -820
  1053. package/esm/ReExports/DataGrid.d.ts +0 -1
  1054. package/esm/ReExports/DataGrid.js +0 -1
  1055. package/esm/configuration/util.d.ts +0 -10
  1056. package/esm/configuration/util.js +0 -123
  1057. package/esm/data_adapters/BaseAdapter/BaseOptions.d.ts +0 -18
  1058. package/esm/data_adapters/util.d.ts +0 -1
  1059. package/esm/data_adapters/util.js +0 -6
  1060. package/esm/pluggableElementTypes/GlyphType.d.ts +0 -43
  1061. package/esm/pluggableElementTypes/GlyphType.js +0 -18
  1062. package/esm/pluggableElementTypes/models/saveTrackFileTypes/fetchSequence.d.ts +0 -5
  1063. package/esm/pluggableElementTypes/models/saveTrackFileTypes/fetchSequence.js +0 -17
  1064. package/esm/pluggableElementTypes/renderers/BoxRendererType.d.ts +0 -52
  1065. package/esm/pluggableElementTypes/renderers/BoxRendererType.js +0 -78
  1066. package/esm/pluggableElementTypes/renderers/CircularChordRendererType.d.ts +0 -4
  1067. package/esm/pluggableElementTypes/renderers/CircularChordRendererType.js +0 -4
  1068. package/esm/pluggableElementTypes/renderers/FeatureRendererType.d.ts +0 -58
  1069. package/esm/pluggableElementTypes/renderers/FeatureRendererType.js +0 -77
  1070. package/esm/pluggableElementTypes/renderers/LayoutSession.d.ts +0 -31
  1071. package/esm/pluggableElementTypes/renderers/LayoutSession.js +0 -40
  1072. package/esm/pluggableElementTypes/renderers/RendererType.d.ts +0 -28
  1073. package/esm/pluggableElementTypes/renderers/RendererType.js +0 -20
  1074. package/esm/pluggableElementTypes/renderers/ServerSideRendererType.d.ts +0 -58
  1075. package/esm/pluggableElementTypes/renderers/ServerSideRendererType.js +0 -108
  1076. package/esm/pluggableElementTypes/renderers/index.d.ts +0 -6
  1077. package/esm/pluggableElementTypes/renderers/index.js +0 -6
  1078. package/esm/pluggableElementTypes/renderers/util.d.ts +0 -3
  1079. package/esm/pluggableElementTypes/renderers/util.js +0 -14
  1080. package/esm/rpc/baseRpcConfig.d.ts +0 -8
  1081. package/esm/rpc/baseRpcConfig.js +0 -10
  1082. package/esm/rpc/mainThreadRpcConfig.d.ts +0 -8
  1083. package/esm/rpc/mainThreadRpcConfig.js +0 -8
  1084. package/esm/rpc/methods/CoreGetFeatureDensityStats.d.ts +0 -17
  1085. package/esm/rpc/methods/CoreGetFeatureDensityStats.js +0 -25
  1086. package/esm/rpc/methods/CoreGetFeatureDetails.d.ts +0 -11
  1087. package/esm/rpc/methods/CoreGetFeatureDetails.js +0 -24
  1088. package/esm/rpc/methods/CoreGetFileInfo.d.ts +0 -9
  1089. package/esm/rpc/methods/CoreGetFileInfo.js +0 -15
  1090. package/esm/rpc/methods/CoreRender.d.ts +0 -14
  1091. package/esm/rpc/methods/CoreRender.js +0 -40
  1092. package/esm/rpc/methods/CoreSaveFeatureData.d.ts +0 -16
  1093. package/esm/rpc/methods/CoreSaveFeatureData.js +0 -32
  1094. package/esm/rpc/methods/util.d.ts +0 -15
  1095. package/esm/rpc/methods/util.js +0 -7
  1096. package/esm/rpc/webWorkerRpcConfig.d.ts +0 -8
  1097. package/esm/rpc/webWorkerRpcConfig.js +0 -8
  1098. package/esm/ui/MenuButton.d.ts +0 -1
  1099. package/esm/ui/MenuButton.js +0 -1
  1100. package/esm/ui/MenuItems.d.ts +0 -15
  1101. package/esm/ui/MenuItems.js +0 -59
  1102. package/esm/ui/useEvent.d.ts +0 -1
  1103. package/esm/ui/useEvent.js +0 -10
  1104. package/esm/util/blobToDataURL.d.ts +0 -1
  1105. package/esm/util/blobToDataURL.js +0 -14
  1106. package/esm/util/compositeMap.d.ts +0 -11
  1107. package/esm/util/compositeMap.js +0 -59
  1108. package/esm/util/flatqueue/index.d.ts +0 -11
  1109. package/esm/util/flatqueue/index.js +0 -61
  1110. package/esm/util/layouts/BaseLayout.d.ts +0 -30
  1111. package/esm/util/layouts/MultiLayout.d.ts +0 -12
  1112. package/esm/util/layouts/MultiLayout.js +0 -40
  1113. package/esm/util/layouts/PileupLayout.d.ts +0 -41
  1114. package/esm/util/layouts/PileupLayout.js +0 -202
  1115. package/esm/util/layouts/PrecomputedLayout.d.ts +0 -30
  1116. package/esm/util/layouts/PrecomputedLayout.js +0 -71
  1117. package/esm/util/layouts/SceneGraph.d.ts +0 -31
  1118. package/esm/util/layouts/SceneGraph.js +0 -121
  1119. package/esm/util/makeAbortableReaction.d.ts +0 -3
  1120. package/esm/util/makeAbortableReaction.js +0 -47
  1121. package/esm/util/map-obj/index.d.ts +0 -13
  1122. package/esm/util/map-obj/index.js +0 -92
  1123. package/esm/util/nextTick.d.ts +0 -1
  1124. package/esm/util/nextTick.js +0 -3
  1125. package/esm/util/offscreenCanvasGetSerializingSvg.d.ts +0 -5
  1126. package/esm/util/offscreenCanvasGetSerializingSvg.js +0 -9
  1127. package/esm/util/offscreenCanvasUtils.d.ts +0 -12
  1128. package/esm/util/offscreenCanvasUtils.js +0 -19
  1129. package/esm/util/renderToAbstractCanvas.d.ts +0 -17
  1130. package/esm/util/renderToAbstractCanvas.js +0 -53
  1131. package/esm/util/transferables.d.ts +0 -2
  1132. package/esm/util/transferables.js +0 -35
  1133. package/esm/util/tss-react/mui/index.d.ts +0 -1
  1134. package/esm/util/tss-react/mui/index.js +0 -1
  1135. package/esm/util/tss-react/mui/mui.d.ts +0 -10
  1136. package/esm/util/tss-react/mui/mui.js +0 -5
  1137. package/esm/util/when.d.ts +0 -1
  1138. package/esm/util/when.js +0 -1
  1139. /package/esm/{data_adapters/BaseAdapter/BaseOptions.js → configuration/promotablePin.js} +0 -0
  1140. /package/esm/{util/layouts/BaseLayout.js → data_adapters/BaseAdapter/CytobandAdapter.js} +0 -0
@@ -0,0 +1,105 @@
1
+ import { useRef } from 'react';
2
+ import { usePointerDrag } from './usePointerDrag.js';
3
+ import { useRafCommit } from './useRafCommit.js';
4
+ /**
5
+ * A pointer drag along one axis, reported as a distance per animation frame.
6
+ *
7
+ * This is the whole gesture behind a resize handle with no opinion about how the
8
+ * handle looks. `ui/ResizeHandle` is this hook plus JBrowse's own 4px bar, and an
9
+ * app drawing its own divider spreads the returned props onto it. That is the
10
+ * per-track resize story for an embedder who mounts displays themselves: the
11
+ * track row is the host's box, so the bar has to be theirs, but the gesture and
12
+ * the two model calls are not.
13
+ *
14
+ * ```tsx
15
+ * const handleProps = useResizeDrag({
16
+ * onDrag: distance => {
17
+ * display.resizeHeight(distance)
18
+ * },
19
+ * onDragStart: () => {
20
+ * track.setResizing(true)
21
+ * },
22
+ * onDragEnd: () => {
23
+ * track.setResizing(false)
24
+ * },
25
+ * })
26
+ * return (
27
+ * <div
28
+ * {...handleProps}
29
+ * style={{ height: 4, cursor: 'row-resize', touchAction: 'none' }}
30
+ * />
31
+ * )
32
+ * ```
33
+ *
34
+ * `touchAction: 'none'` is the caller's half of the deal: without it the browser
35
+ * claims a touch drag as a page scroll and the pointer stream never arrives.
36
+ * `usePanZoom` writes the same property itself and this cannot — that one is
37
+ * handed the element as a ref, while this returns props and never sees a node.
38
+ * It stays out of those props because a caller's own `style` would silently
39
+ * replace it.
40
+ *
41
+ * Three things a hand-rolled version gets wrong, none of which fails loudly:
42
+ *
43
+ * - **One commit per frame.** A pointermove stream (plus the browser's own
44
+ * coalesced batches) outruns the frame rate, and each commit reruns whatever
45
+ * the resize drives. Committing per event relayouts a pileup several times a
46
+ * frame and throws all but the last away.
47
+ * - **The distance is measured from the last commit**, not from where the press
48
+ * started, so a dropped intermediate position costs nothing and a drag that
49
+ * runs into a clamp (`resizeHeight` stops at the display's minimum) does not
50
+ * bank a debt the pointer has to pay back on the way out.
51
+ * - **`data-gesture-owner` rides in the props.** It is the marker ancestor
52
+ * gestures test for (`closest('[data-gesture-owner]')`, in the LGV's own pan
53
+ * and in `usePanZoom`) before starting a drag of their own, so without it
54
+ * dragging a resize bar pans the view sideways instead. A `stopPropagation` is
55
+ * not a substitute: those ancestors listen on *mouse* events while this runs
56
+ * on *pointer* events, so there is no shared event to stop, and stopping the
57
+ * mousedown would also cost focus-on-click, whose document-level listener
58
+ * (`useFocusOnInteraction`) React's stopPropagation does block.
59
+ */
60
+ export function useResizeDrag({ onDrag, onDragStart, onDragEnd, vertical = false, gain = 1, }) {
61
+ const prevPosRef = useRef(0);
62
+ const getPos = (event) => vertical ? event.clientX : event.clientY;
63
+ // The scheduled value is the absolute pointer position, last-write-wins, and
64
+ // the delta against the previous commit is derived here.
65
+ //
66
+ // Whole px, and the remainder stays in the baseline rather than in a second
67
+ // ref: a divided delta has a sub-pixel tail, and every consumer rounds (a band
68
+ // height is whole px), so rounding it away each frame instead made a gain-2
69
+ // drag travel 4/3 of the pointer. Leaving the unspent fraction ahead of
70
+ // `prevPos` is the same mechanism that keeps a drag into a clamp from banking
71
+ // debt — the distance is always measured from what was last committed.
72
+ const { schedule, flush } = useRafCommit(pos => {
73
+ const distance = Math.trunc((pos - prevPosRef.current) / gain);
74
+ if (distance !== 0) {
75
+ prevPosRef.current += distance * gain;
76
+ onDrag(distance);
77
+ }
78
+ });
79
+ const handlers = usePointerDrag({
80
+ onDragStart: event => {
81
+ prevPosRef.current = getPos(event);
82
+ onDragStart?.();
83
+ },
84
+ onDrag: event => {
85
+ event.preventDefault();
86
+ // read the position synchronously: the deferred commit runs after React
87
+ // has nulled the event
88
+ schedule(getPos(event));
89
+ },
90
+ onDragEnd: () => {
91
+ // land the resting size exactly, rather than a frame late
92
+ flush();
93
+ onDragEnd?.();
94
+ },
95
+ });
96
+ return {
97
+ ...handlers,
98
+ onPointerDown: (event) => {
99
+ // stops the press from starting a text selection that follows the drag
100
+ event.preventDefault();
101
+ handlers.onPointerDown(event);
102
+ },
103
+ 'data-gesture-owner': 'true',
104
+ };
105
+ }
@@ -0,0 +1,32 @@
1
+ interface RowScrollTarget {
2
+ effectiveRowHeight: number;
3
+ scrollTop: number;
4
+ nrow: number;
5
+ scrollableHeight: number;
6
+ setRowHeight: (n: number) => void;
7
+ setScrollTop: (n: number) => void;
8
+ }
9
+ /**
10
+ * Wheel gestures over a **row-stack** panel — the multi-sample variant displays
11
+ * and MAF: `shift`+wheel resizes the rows (a vertical-zoom that keeps the row
12
+ * under the cursor put), a plain wheel scrolls them, and anything the panel
13
+ * can't consume is left to bubble to the view.
14
+ *
15
+ * These panels paint a fixed-size canvas at `-scrollTop` rather than living in a
16
+ * DOM overflow container, so nothing scrolls them without this.
17
+ *
18
+ * ADR-027 keeps wheel-*intent* dispatch per handler, because the four panels do
19
+ * not agree on what a gesture means — and that still holds. This is the one rule
20
+ * two of them genuinely share, which the ADR states outright ("same rule as the
21
+ * variant displays, and deliberately so: same sample-row shape, same coupled
22
+ * row-height axis"). It is unified for exactly that reason, and no further: the
23
+ * pileup / canvas-basic rule (`shift` scrolls, nothing resizes) stays where it
24
+ * is. `scrollZoom` and `viewportHeight` are inputs rather than reads off the
25
+ * model, so core needs no view typing and each display keeps naming its own
26
+ * rows-area height.
27
+ */
28
+ export declare function useRowVirtualScroll(el: HTMLElement | null, model: RowScrollTarget, { viewportHeight, scrollZoom, }: {
29
+ viewportHeight: number;
30
+ scrollZoom: boolean;
31
+ }): void;
32
+ export {};
@@ -0,0 +1,63 @@
1
+ import { applyRowResizeWheel } from './applyRowResizeWheel.js';
2
+ import { useVirtualScrollWheel } from './useVirtualScrollWheel.js';
3
+ /**
4
+ * Wheel gestures over a **row-stack** panel — the multi-sample variant displays
5
+ * and MAF: `shift`+wheel resizes the rows (a vertical-zoom that keeps the row
6
+ * under the cursor put), a plain wheel scrolls them, and anything the panel
7
+ * can't consume is left to bubble to the view.
8
+ *
9
+ * These panels paint a fixed-size canvas at `-scrollTop` rather than living in a
10
+ * DOM overflow container, so nothing scrolls them without this.
11
+ *
12
+ * ADR-027 keeps wheel-*intent* dispatch per handler, because the four panels do
13
+ * not agree on what a gesture means — and that still holds. This is the one rule
14
+ * two of them genuinely share, which the ADR states outright ("same rule as the
15
+ * variant displays, and deliberately so: same sample-row shape, same coupled
16
+ * row-height axis"). It is unified for exactly that reason, and no further: the
17
+ * pileup / canvas-basic rule (`shift` scrolls, nothing resizes) stays where it
18
+ * is. `scrollZoom` and `viewportHeight` are inputs rather than reads off the
19
+ * model, so core needs no view typing and each display keeps naming its own
20
+ * rows-area height.
21
+ */
22
+ export function useRowVirtualScroll(el, model, { viewportHeight, scrollZoom, }) {
23
+ useVirtualScrollWheel(el, (e, applyScroll, rowsEl) => {
24
+ // ctrl/meta is the browser's own zoom (and the view's pinch-zoom) and is
25
+ // never ours, whatever else is held. Tested first rather than only in the
26
+ // scroll branch: ctrl+shift+wheel used to reach the resize below, which
27
+ // `preventDefault`s — so a row-stack display swallowed page zoom where
28
+ // every other display passes it through.
29
+ if (e.ctrlKey || e.metaKey) {
30
+ return;
31
+ }
32
+ if (e.shiftKey) {
33
+ // Resizing exits fit-to-height into a pinned height, which is what makes
34
+ // the gesture meaningful: the fit height is exactly the floor it shrinks
35
+ // to, so there is nothing to zoom while the sentinel is set.
36
+ applyRowResizeWheel(e, rowsEl, {
37
+ effectiveRowHeight: model.effectiveRowHeight,
38
+ scrollTop: model.scrollTop,
39
+ nrow: model.nrow,
40
+ viewportHeight,
41
+ setRowHeight: n => {
42
+ model.setRowHeight(n);
43
+ },
44
+ setScrollTop: n => {
45
+ model.setScrollTop(n);
46
+ },
47
+ });
48
+ }
49
+ else if (!scrollZoom) {
50
+ // A gesture the panel can't consume is left alone: with the rows fitting
51
+ // the track (`scrollableHeight === 0`, always true in fit-to-height mode)
52
+ // the wheel reaches the view and zooms or scrolls the page exactly as it
53
+ // does over any other track. Same for the explicit zoom gestures.
54
+ applyScroll(e, {
55
+ scrollTop: model.scrollTop,
56
+ viewportHeight,
57
+ scrollableHeight: model.scrollableHeight,
58
+ }, n => {
59
+ model.setScrollTop(n);
60
+ });
61
+ }
62
+ });
63
+ }
@@ -0,0 +1,7 @@
1
+ export interface VirtualScrollOpts {
2
+ scrollTop: number;
3
+ viewportHeight: number;
4
+ scrollableHeight: number;
5
+ }
6
+ export type ApplyVirtualScroll = (e: WheelEvent, opts: VirtualScrollOpts, commit: (scrollTop: number) => void) => void;
7
+ export declare function useVirtualScrollWheel(panel: HTMLElement | null, onWheel: (e: WheelEvent, applyScroll: ApplyVirtualScroll, el: HTMLElement) => void): void;
@@ -0,0 +1,108 @@
1
+ import { useCallback, useEffect, useMemo, useRef } from 'react';
2
+ import { createFrameCoalescer } from './frameCoalescer.js';
3
+ import { trackPointerPresence } from './pointerPresence.js';
4
+ import { createScrollLatch } from './scrollLatch.js';
5
+ import { useEventCallback } from './useEventCallback.js';
6
+ import { normalizeWheelDelta } from './wheelZoom.js';
7
+ // Whether the wheel landed inside something within the panel that runs its own
8
+ // gestures — JBrowse's `[data-gesture-owner]` marker, the same one the LGV's
9
+ // click-drag pan and MAF's drag-selection test for. A panel spans its overlays
10
+ // now, and a few of those are controls rather than content: the display's own
11
+ // `VerticalScrollbar` (which scrolls the panel itself, from its own listener),
12
+ // the pileup's band resize handles, a floating legend. Those keep the gesture
13
+ // they already had instead of being absorbed the moment the panel grew to cover
14
+ // them.
15
+ //
16
+ // The marker element ITSELF is a panel at the one call site that is one — the
17
+ // scrollbar binds this hook to its own marked track — so an owner that IS the
18
+ // panel does not count. Nor does one ABOVE it: `TrackContainer` stamps the
19
+ // marker once for its whole overlay layer, and `closest` walking out of the
20
+ // panel into that would otherwise disown every wheel a display gets.
21
+ function claimedInside(panel, target) {
22
+ const owner = target instanceof Element ? target.closest('[data-gesture-owner]') : null;
23
+ return owner !== null && owner !== panel && panel.contains(owner);
24
+ }
25
+ // Non-passive wheel wiring for a canvas-backed virtual scroll (no DOM overflow
26
+ // container to self-correct). Owns the latch, the per-frame coalescing, and the
27
+ // listener lifecycle, and hands the caller an `applyScroll` that runs the latch
28
+ // + schedules the commit. The gesture guards (scrollZoom, ctrl/meta,
29
+ // shift-to-resize) differ per display and so stay in the caller; this
30
+ // centralizes the mechanical latch + listener + rAF boilerplate shared by the
31
+ // alignments pileup, the variant matrix, and the canvas display.
32
+ //
33
+ // **Bind this to the panel, not to the `<canvas>`.** A canvas cannot hold DOM
34
+ // children, so every overlay a display draws over it — floating feature labels,
35
+ // group chips, sashimi arcs — is a positioned SIBLING, and the ones that answer
36
+ // the pointer (`pointerEvents: 'auto'`, because they are clickable) are what a
37
+ // wheel event over them targets. That event bubbles past the canvas entirely, so
38
+ // a listener bound to the canvas never sees it and the gesture falls through to
39
+ // the page mid-scroll. Bound to the element containing both, the wheel is the
40
+ // panel's wherever inside it the cursor happens to be. `trackPointerPresence`
41
+ // below keys off the same element, and `mouseenter`/`mouseleave` ignore
42
+ // descendant transitions — so crossing onto an overlay no longer reads as
43
+ // leaving the panel either.
44
+ //
45
+ // What keeps a panel safe to widen is `claimedInside` above: it covers its
46
+ // overlays, and yields the ones that run gestures of their own.
47
+ export function useVirtualScrollWheel(panel,
48
+ // `el` is the element the listener is bound to, handed back non-null: a
49
+ // gesture measuring against its own box (the row-resize pin) would otherwise
50
+ // re-assert the nullable it was passed, at the one call site that cannot be
51
+ // reached with a null.
52
+ onWheel) {
53
+ const latch = useMemo(() => createScrollLatch(), []);
54
+ const frame = useMemo(() => createFrameCoalescer(), []);
55
+ // The latched scroll position as it advances across one frame's events. The
56
+ // latch reads this, not the model, so its boundary/preventDefault decision
57
+ // sees monotonically advancing offsets and no delta is lost to a
58
+ // not-yet-committed model read.
59
+ const runningRef = useRef(0);
60
+ const applyScroll = useCallback((e, { scrollTop, viewportHeight, scrollableHeight }, commit) => {
61
+ if (scrollableHeight <= 0) {
62
+ return;
63
+ }
64
+ // A fresh frame (nothing pending) re-syncs to the model's live scrollTop;
65
+ // within a frame `running` keeps advancing from the last latched offset.
66
+ if (!frame.pending) {
67
+ runningRef.current = scrollTop;
68
+ }
69
+ const dy = normalizeWheelDelta(e.deltaY, e.deltaMode, viewportHeight);
70
+ const next = latch.scroll(e, runningRef.current, dy, scrollableHeight);
71
+ if (next !== null) {
72
+ runningRef.current = next;
73
+ // The first move of a frame schedules the commit; later moves only
74
+ // advance `running`, so the frame ends with a single setScrollTop (one
75
+ // repaint) carrying the accumulated offset.
76
+ frame.schedule(() => {
77
+ commit(runningRef.current);
78
+ });
79
+ }
80
+ }, [latch, frame]);
81
+ const handleWheel = useEventCallback((e, el) => {
82
+ onWheel(e, applyScroll, el);
83
+ });
84
+ useEffect(() => {
85
+ if (!panel) {
86
+ return undefined;
87
+ }
88
+ // Ignore wheel events the browser keeps latching to this panel once the
89
+ // pointer has left (see trackPointerPresence): let them chain to the page
90
+ // and reset the latch so the next in-panel gesture starts clean. Without
91
+ // this the panel stays stuck to per-track scroll after the mouse has left —
92
+ // worst in embedded, where the outer page is the thing that should scroll.
93
+ const presence = trackPointerPresence(panel, () => {
94
+ latch.reset();
95
+ });
96
+ const onWheelNative = (e) => {
97
+ if (presence.isOver && !claimedInside(panel, e.target)) {
98
+ handleWheel(e, panel);
99
+ }
100
+ };
101
+ panel.addEventListener('wheel', onWheelNative, { passive: false });
102
+ return () => {
103
+ panel.removeEventListener('wheel', onWheelNative);
104
+ presence.dispose();
105
+ frame.cancel();
106
+ };
107
+ }, [panel, handleWheel, latch, frame]);
108
+ }
@@ -0,0 +1,81 @@
1
+ /**
2
+ * The mutually-exclusive lifecycle state of a view, as one value.
3
+ *
4
+ * A view answers this question through nine getters today — `ready`, `error`,
5
+ * `initialized`, `showLoading`, `showImportForm`, `hasSomethingToShow`,
6
+ * `loadingMessage`, `loadingProgress`, `assemblyErrors` — and a host reading
7
+ * them has to re-derive the precedence by subtraction, which is the mistake
8
+ * `computeDisplayPhase` was written to stop one level down. `view.ready` **is**
9
+ * that subtraction: `!showLoading && !this.error`.
10
+ *
11
+ * The payload travels with the branch, so a caller cannot read a loading
12
+ * message out of a failed view or an error out of a healthy one.
13
+ */
14
+ export type ViewStatus = {
15
+ type: 'ready';
16
+ } | {
17
+ type: 'error';
18
+ error: unknown;
19
+ } | {
20
+ type: 'loading';
21
+ message: string;
22
+ progress: number | undefined;
23
+ } | {
24
+ type: 'noRegions';
25
+ };
26
+ export interface ViewStatusInputs {
27
+ error: unknown;
28
+ /**
29
+ * Whether anything has told the view where to look — displayed regions, or an
30
+ * `init` blob still being applied.
31
+ */
32
+ hasSomethingToShow: boolean;
33
+ /**
34
+ * The view's own loading term, as a thunk: `undefined` when it is not
35
+ * loading, otherwise what the spinner should say.
36
+ *
37
+ * A thunk for the same reason `computeDisplayPhase` takes one. The message
38
+ * and the progress fraction come off the assembly's download status, which
39
+ * ticks continuously while a file is in flight — so evaluating it eagerly
40
+ * would make every reader of a *ready* view subscribe to a churning
41
+ * observable it never displays.
42
+ */
43
+ loading: () => {
44
+ message: string;
45
+ progress: number | undefined;
46
+ } | undefined;
47
+ }
48
+ /**
49
+ * Precedence is `error` > `noRegions` > `loading` > `ready`, in one place,
50
+ * rather than re-encoded by subtraction in each view and again in each host.
51
+ *
52
+ * **`ready` here is strictly narrower than `view.ready`**, which is the point of
53
+ * having it. That getter is true when nothing has told the view where to look —
54
+ * `showLoading` is false in that state and so is `error` — so a host gating on
55
+ * it mounts track components over a view with no regions and gets an empty box
56
+ * with nothing anywhere saying why. `noRegions` is that state, named.
57
+ */
58
+ export declare function computeViewStatus({ error, hasSomethingToShow, loading, }: ViewStatusInputs): ViewStatus;
59
+ /**
60
+ * The slice of `AssemblyManager` this needs, spelled out rather than imported:
61
+ * the real type is an MST model a `PluginManager` built, so naming it here
62
+ * would cost this leaf the whole application's type graph (`util/CLAUDE.md`).
63
+ */
64
+ interface AssemblyErrorSource {
65
+ get: (name: string) => {
66
+ error?: unknown;
67
+ } | undefined;
68
+ }
69
+ /**
70
+ * The assembly failures behind a view's `assemblyNames`, joined, or `undefined`
71
+ * when there are none.
72
+ *
73
+ * **Undefined and not `''`**, which is the whole reason this is shared. Three
74
+ * views spelled it as a bare `.join(', ')`, and a getter that answers the empty
75
+ * string for "nothing failed" reads as an error to every `!== undefined` test —
76
+ * `DotplotView.error` folded it in with `??`, so the view reported a terminal
77
+ * error permanently and jbrowse-img refused to render any dotplot. The in-app
78
+ * readers all happened to be truthiness tests, which is why it stayed invisible.
79
+ */
80
+ export declare function assemblyErrorMessage(assemblyManager: AssemblyErrorSource, assemblyNames: string[]): string | undefined;
81
+ export {};
@@ -0,0 +1,37 @@
1
+ /**
2
+ * Precedence is `error` > `noRegions` > `loading` > `ready`, in one place,
3
+ * rather than re-encoded by subtraction in each view and again in each host.
4
+ *
5
+ * **`ready` here is strictly narrower than `view.ready`**, which is the point of
6
+ * having it. That getter is true when nothing has told the view where to look —
7
+ * `showLoading` is false in that state and so is `error` — so a host gating on
8
+ * it mounts track components over a view with no regions and gets an empty box
9
+ * with nothing anywhere saying why. `noRegions` is that state, named.
10
+ */
11
+ export function computeViewStatus({ error, hasSomethingToShow, loading, }) {
12
+ if (error) {
13
+ return { type: 'error', error };
14
+ }
15
+ if (!hasSomethingToShow) {
16
+ return { type: 'noRegions' };
17
+ }
18
+ const pending = loading();
19
+ return pending ? { type: 'loading', ...pending } : { type: 'ready' };
20
+ }
21
+ /**
22
+ * The assembly failures behind a view's `assemblyNames`, joined, or `undefined`
23
+ * when there are none.
24
+ *
25
+ * **Undefined and not `''`**, which is the whole reason this is shared. Three
26
+ * views spelled it as a bare `.join(', ')`, and a getter that answers the empty
27
+ * string for "nothing failed" reads as an error to every `!== undefined` test —
28
+ * `DotplotView.error` folded it in with `??`, so the view reported a terminal
29
+ * error permanently and jbrowse-img refused to render any dotplot. The in-app
30
+ * readers all happened to be truthiness tests, which is why it stayed invisible.
31
+ */
32
+ export function assemblyErrorMessage(assemblyManager, assemblyNames) {
33
+ const errors = assemblyNames
34
+ .map(name => assemblyManager.get(name)?.error)
35
+ .filter(e => !!e);
36
+ return errors.length > 0 ? errors.join(', ') : undefined;
37
+ }
@@ -0,0 +1,36 @@
1
+ /**
2
+ * Index window for a virtualized 1-D axis of uniform cells: the `[start, end)`
3
+ * range covering the visible span plus `overscan` cells of buffer on each side,
4
+ * clamped to `[0, total]`.
5
+ *
6
+ * `end` is anchored to `start` (a fixed cell count) rather than recomputed from
7
+ * `scroll + viewport`. That makes the window **stable across sub-cell scrolling**
8
+ * — it only moves when `start` crosses a cell boundary — which is what lets
9
+ * consumers skip work on most scroll events: a canvas keeps its size and
10
+ * contents, a DOM list keeps its rows mounted. Recomputing `end` independently
11
+ * is tighter by up to `overscan` cells at the origin and costs that stability,
12
+ * which is the wrong trade for both.
13
+ *
14
+ * `start` is clamped to `total`, not just to 0. A list that shrinks while its
15
+ * container keeps its scroll position (a new region or track arriving under a
16
+ * scrolled grid) otherwise yields `start > end` — an inverted range whose
17
+ * consumers compute a negative canvas height and paint nothing until the next
18
+ * scroll event. The faceted selector had already hit that and clamped for it;
19
+ * the MAF sequence grid had the same math without the clamp, which is what
20
+ * brought the two together here.
21
+ */
22
+ export declare function virtualRange({ scroll, cellSize, viewport, overscan, total, }: {
23
+ /** scroll offset of the container, in px */
24
+ scroll: number;
25
+ /** px size of one cell along this axis */
26
+ cellSize: number;
27
+ /** px size of the visible span */
28
+ viewport: number;
29
+ /** cells of buffer to render beyond each edge */
30
+ overscan: number;
31
+ /** total number of cells on this axis */
32
+ total: number;
33
+ }): {
34
+ start: number;
35
+ end: number;
36
+ };
@@ -0,0 +1,26 @@
1
+ /**
2
+ * Index window for a virtualized 1-D axis of uniform cells: the `[start, end)`
3
+ * range covering the visible span plus `overscan` cells of buffer on each side,
4
+ * clamped to `[0, total]`.
5
+ *
6
+ * `end` is anchored to `start` (a fixed cell count) rather than recomputed from
7
+ * `scroll + viewport`. That makes the window **stable across sub-cell scrolling**
8
+ * — it only moves when `start` crosses a cell boundary — which is what lets
9
+ * consumers skip work on most scroll events: a canvas keeps its size and
10
+ * contents, a DOM list keeps its rows mounted. Recomputing `end` independently
11
+ * is tighter by up to `overscan` cells at the origin and costs that stability,
12
+ * which is the wrong trade for both.
13
+ *
14
+ * `start` is clamped to `total`, not just to 0. A list that shrinks while its
15
+ * container keeps its scroll position (a new region or track arriving under a
16
+ * scrolled grid) otherwise yields `start > end` — an inverted range whose
17
+ * consumers compute a negative canvas height and paint nothing until the next
18
+ * scroll event. The faceted selector had already hit that and clamped for it;
19
+ * the MAF sequence grid had the same math without the clamp, which is what
20
+ * brought the two together here.
21
+ */
22
+ export function virtualRange({ scroll, cellSize, viewport, overscan, total, }) {
23
+ const start = Math.min(total, Math.max(0, Math.floor(scroll / cellSize) - overscan));
24
+ const visible = Math.ceil(viewport / cellSize) + overscan * 2;
25
+ return { start, end: Math.min(total, start + visible) };
26
+ }
@@ -0,0 +1,26 @@
1
+ export interface GuardedStorage {
2
+ /**
3
+ * Whether there is a store to persist to at all — the first two failures
4
+ * above, both of which are decided once for the page.
5
+ *
6
+ * Every accessor is safe without asking; what this answers is the different
7
+ * question of whether persistence is *real*. With no store, a write is
8
+ * dropped and the matching read answers the default, so a caller that
9
+ * round-trips a value through a key (rather than merely saving one) has to
10
+ * know, or it reads back its own default and calls it the stored value.
11
+ */
12
+ available: () => boolean;
13
+ /** The raw string stored at `key`, or undefined if absent or unreadable. */
14
+ getItem: (key: string) => string | undefined;
15
+ /**
16
+ * Returns whether the store took the value. Nearly every caller ignores that
17
+ * — a setting that could not be persisted is not worth interrupting anyone
18
+ * over — but a caller that reads the key back to learn the current value
19
+ * needs to know that the read will not reflect this write.
20
+ */
21
+ setItem: (key: string, value: string) => boolean;
22
+ /** Returns whether the store took the removal; see {@link setItem}. */
23
+ removeItem: (key: string) => boolean;
24
+ }
25
+ export declare const guardedLocalStorage: GuardedStorage;
26
+ export declare const guardedSessionStorage: GuardedStorage;
@@ -0,0 +1,92 @@
1
+ // The guard both Web Storage stores need, written once.
2
+ //
3
+ // Every accessor built here is *total*: it falls back rather than throwing.
4
+ // That is not defensiveness for its own sake — the callers are MobX autoruns
5
+ // persisting a setting and state-model actions caching a token, and there a
6
+ // throw is doubly bad. It skips the writes queued behind it in the same autorun
7
+ // body (the LGV persists six keys in a row, the hierarchical track selector
8
+ // seven), and MobX reports it as an uncaught reaction error on every subsequent
9
+ // tick.
10
+ //
11
+ // Three separate ways this can fail, and only the first is the obvious one:
12
+ //
13
+ // - no store global at all — an RPC worker, SSR.
14
+ // - reading the global THROWS rather than being undefined: a cross-origin
15
+ // iframe with third-party storage blocked, or Safari with cookies disabled.
16
+ // `typeof localStorage` invokes the same getter, so even the probe has to be
17
+ // guarded — which is also why a `typeof … === 'undefined'` probe is not a way
18
+ // to ask whether you are in a worker. This is the embedded-product case
19
+ // (`@jbrowse/react-*` on someone else's page), where it is also the least
20
+ // likely to be noticed by us.
21
+ // - the store exists and reads fine, but `setItem` throws: quota exhausted, or
22
+ // Safari private browsing, which refuses every write.
23
+ /**
24
+ * `read` names the global rather than being handed it, so resolving it can be
25
+ * deferred past module load and wrapped in the try that the read itself needs.
26
+ * `label` only ever reaches the one warning below.
27
+ */
28
+ function guardedStorage(read, label) {
29
+ // Resolved once. `null` means "checked, unavailable" — distinct from the
30
+ // `undefined` that means "not checked yet".
31
+ let store;
32
+ function getStore() {
33
+ if (store === undefined) {
34
+ try {
35
+ store = read();
36
+ }
37
+ catch {
38
+ store = null;
39
+ }
40
+ }
41
+ return store ?? undefined;
42
+ }
43
+ // One warning per page per store, not one per failed write: the autoruns that
44
+ // persist settings re-run on every change, so a persistent failure (quota,
45
+ // private browsing) would otherwise fill the console with the same line. Same
46
+ // doctrine as the `savingFailed` latch in jbrowse-web's session autosave.
47
+ let warnedOnWrite = false;
48
+ return {
49
+ available: () => getStore() !== undefined,
50
+ getItem(key) {
51
+ try {
52
+ return getStore()?.getItem(key) ?? undefined;
53
+ }
54
+ catch {
55
+ return undefined;
56
+ }
57
+ },
58
+ setItem(key, value) {
59
+ const s = getStore();
60
+ if (!s) {
61
+ return false;
62
+ }
63
+ try {
64
+ s.setItem(key, value);
65
+ return true;
66
+ }
67
+ catch (e) {
68
+ if (!warnedOnWrite) {
69
+ warnedOnWrite = true;
70
+ console.warn(`Unable to persist to ${label} (key "${key}"); further failures are not reported`, e);
71
+ }
72
+ return false;
73
+ }
74
+ },
75
+ removeItem(key) {
76
+ const s = getStore();
77
+ if (!s) {
78
+ return false;
79
+ }
80
+ try {
81
+ s.removeItem(key);
82
+ return true;
83
+ }
84
+ catch {
85
+ // nothing useful to do: the value we wanted gone is unreachable anyway
86
+ return false;
87
+ }
88
+ },
89
+ };
90
+ }
91
+ export const guardedLocalStorage = guardedStorage(() => localStorage, 'localStorage');
92
+ export const guardedSessionStorage = guardedStorage(() => sessionStorage, 'sessionStorage');