@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 +1,18 @@
1
+ import RpcMethodType from './RpcMethodType.js';
2
+ // Singular-region counterpart of RpcMethodTypeWithRenameRegions, for RPC methods
3
+ // whose wire contract carries one `region` (e.g. block-at-a-time wiggle
4
+ // rendering). Subclasses get region renaming for free.
5
+ export default class RpcMethodTypeWithRenameRegion extends RpcMethodType {
6
+ async serializeArguments(args) {
7
+ // adapt the singular `region` to the plural renameRegions helper.
8
+ // `rest`, not `args` — spreading the ORIGINAL back over the result drops
9
+ // everything renaming adds beside the regions, silently. That is how
10
+ // `sequenceAdapter` would reach a worker undefined on exactly the
11
+ // single-region methods while the plural ones got it.
12
+ const { regions, ...rest } = await this.renameRegions({
13
+ ...args,
14
+ regions: [args.region],
15
+ });
16
+ return super.serializeArguments({ ...rest, region: regions[0] });
17
+ }
18
+ }
@@ -0,0 +1,5 @@
1
+ import RpcMethodType from './RpcMethodType.ts';
2
+ import type { RenameRegionsArgs } from './RpcMethodType.ts';
3
+ export default abstract class RpcMethodTypeWithRenameRegions<MethodName extends string = string> extends RpcMethodType<MethodName> {
4
+ serializeArguments<T extends RenameRegionsArgs>(args: T): Promise<Record<string, unknown>>;
5
+ }
@@ -0,0 +1,10 @@
1
+ import RpcMethodType from './RpcMethodType.js';
2
+ // Base for RPC methods whose serialize step just maps region refNames into the
3
+ // data adapter's naming scheme. Subclasses get region renaming for free;
4
+ // override serializeArguments only to add extra transforms, calling super to
5
+ // keep the renaming.
6
+ export default class RpcMethodTypeWithRenameRegions extends RpcMethodType {
7
+ async serializeArguments(args) {
8
+ return super.serializeArguments(await this.renameRegions(args));
9
+ }
10
+ }
@@ -7,12 +7,12 @@ export default class TextSearchAdapterType extends PluggableElementBase {
7
7
  description?: string;
8
8
  constructor(stuff: {
9
9
  name: string;
10
+ configSchema: AnyConfigurationSchemaType;
10
11
  displayName?: string;
11
12
  description?: string;
12
- configSchema: AnyConfigurationSchemaType;
13
13
  } & ({
14
- AdapterClass: AnyAdapter;
15
- } | {
16
14
  getAdapterClass: () => Promise<AnyAdapter>;
15
+ } | {
16
+ AdapterClass: AnyAdapter;
17
17
  }));
18
18
  }
@@ -1,8 +1,10 @@
1
- import PluggableElementBase from "./PluggableElementBase.js";
1
+ import PluggableElementBase from './PluggableElementBase.js';
2
2
  export default class TextSearchAdapterType extends PluggableElementBase {
3
3
  getAdapterClass;
4
4
  configSchema;
5
5
  description;
6
+ // `AdapterClass` is retained for backward compatibility with third-party
7
+ // plugins; new code should prefer `getAdapterClass` for code splitting.
6
8
  constructor(stuff) {
7
9
  super(stuff);
8
10
  this.description = stuff.description;
@@ -1,6 +1,6 @@
1
1
  import PluggableElementBase from './PluggableElementBase.ts';
2
- import type DisplayType from './DisplayType.ts';
3
2
  import type { AnyConfigurationSchemaType } from '../configuration/index.ts';
3
+ import type DisplayType from './DisplayType.ts';
4
4
  import type { IAnyModelType } from '@jbrowse/mobx-state-tree';
5
5
  export default class TrackType extends PluggableElementBase {
6
6
  stateModel: IAnyModelType;
@@ -11,6 +11,7 @@ export default class TrackType extends PluggableElementBase {
11
11
  stateModel: IAnyModelType;
12
12
  displayName?: string;
13
13
  configSchema: AnyConfigurationSchemaType;
14
+ aliases?: string[];
14
15
  });
15
16
  addDisplayType(display: DisplayType): void;
16
17
  }
@@ -1,4 +1,4 @@
1
- import PluggableElementBase from "./PluggableElementBase.js";
1
+ import PluggableElementBase from './PluggableElementBase.js';
2
2
  export default class TrackType extends PluggableElementBase {
3
3
  stateModel;
4
4
  configSchema;
@@ -1,7 +1,8 @@
1
- import type React from 'react';
2
1
  import PluggableElementBase from './PluggableElementBase.ts';
2
+ import type { LaunchKeyRegistration } from '../util/withLaunchInput.ts';
3
3
  import type DisplayType from './DisplayType.ts';
4
4
  import type { IAnyModelType, IAnyStateTreeNode } from '@jbrowse/mobx-state-tree';
5
+ import type React from 'react';
5
6
  type BasicView = React.ComponentType<{
6
7
  model: any;
7
8
  session?: IAnyStateTreeNode;
@@ -12,18 +13,41 @@ interface ViewMetadata {
12
13
  }
13
14
  export default class ViewType extends PluggableElementBase {
14
15
  ReactComponent: ViewComponentType;
15
- stateModel: IAnyModelType;
16
+ private loadedStateModel?;
17
+ get stateModel(): IAnyModelType;
18
+ stateModelLoader?: () => Promise<IAnyModelType>;
19
+ private stateModelPromise?;
20
+ private pendingStateModelExtensions;
21
+ launchKeys?: LaunchKeyRegistration<unknown, string>;
16
22
  displayTypes: DisplayType[];
17
23
  viewMetadata: ViewMetadata;
18
24
  extendedName?: string;
19
25
  constructor(stuff: {
20
26
  name: string;
21
27
  displayName?: string;
22
- stateModel: IAnyModelType;
28
+ stateModel: IAnyModelType | (() => Promise<IAnyModelType>);
29
+ launchKeys?: LaunchKeyRegistration<unknown, string>;
23
30
  extendedName?: string;
24
31
  viewMetadata?: ViewMetadata;
25
32
  ReactComponent: ViewComponentType;
33
+ aliases?: string[];
26
34
  });
35
+ /**
36
+ * Every key this view accepts written on the view object — its declared MST
37
+ * properties plus the launch keys above. `undefined` for a view that
38
+ * registers none: nothing there says which of its launcher's arguments are
39
+ * settings, so a caller must classify nothing rather than call them all typos.
40
+ * Also `undefined` while a lazily registered state model is not loaded yet,
41
+ * for the same reason: nothing is known, so nothing is a typo.
42
+ *
43
+ * This is the set `withLaunchInput`'s partition reads off the same two
44
+ * declarations, published for the surfaces that never build a view snapshot —
45
+ * a session spec launches straight through `LaunchView-<type>`.
46
+ */
47
+ get acceptedKeys(): string[] | undefined;
48
+ get isStateModelLoaded(): boolean;
49
+ loadStateModel(): Promise<IAnyModelType>;
50
+ extendStateModel(extend: (stateModel: IAnyModelType) => IAnyModelType): void;
27
51
  addDisplayType(display: DisplayType): void;
28
52
  }
29
53
  export {};
@@ -1,17 +1,97 @@
1
- import PluggableElementBase from "./PluggableElementBase.js";
1
+ import PluggableElementBase from './PluggableElementBase.js';
2
2
  export default class ViewType extends PluggableElementBase {
3
3
  ReactComponent;
4
- stateModel;
4
+ loadedStateModel;
5
+ // Non-optional because nearly every reader holds a view instance, which
6
+ // implies the model is loaded; code that can run before any instance exists
7
+ // (session preloading, pruning, union membership) must check
8
+ // isStateModelLoaded first.
9
+ get stateModel() {
10
+ return this.loadedStateModel;
11
+ }
12
+ // named `stateModel` + `Loader` because pluggableMstType and
13
+ // pruneUnbuildableNodes probe `${fieldName}Loader` generically
14
+ stateModelLoader;
15
+ stateModelPromise;
16
+ pendingStateModelExtensions = [];
17
+ // What `withLaunchInput` partitioned out of this view's snapshots, published
18
+ // beside the model so an out-of-tree plugin, the doc generator and the
19
+ // validator read one declaration rather than each keeping a list.
20
+ launchKeys;
5
21
  displayTypes = [];
6
22
  viewMetadata = {};
23
+ // extendedName can be used for when you extend a given view type, and want
24
+ // to register all of that view types displays to yourself
25
+ //
26
+ // e.g. you create a linear-genome-view subtype, and want all the tracks that
27
+ // are compatible display types for the linear-genome-view to be compatible
28
+ // with your type also (without this, display types are only registered to a
29
+ // single view type)
7
30
  extendedName;
8
31
  constructor(stuff) {
9
32
  super(stuff);
10
33
  this.ReactComponent = stuff.ReactComponent;
11
- this.viewMetadata = stuff.viewMetadata || {};
12
- this.stateModel = stuff.stateModel;
34
+ this.viewMetadata = stuff.viewMetadata ?? {};
35
+ if (typeof stuff.stateModel === 'function') {
36
+ this.stateModelLoader = stuff.stateModel;
37
+ }
38
+ else {
39
+ this.loadedStateModel = stuff.stateModel;
40
+ }
41
+ this.launchKeys = stuff.launchKeys;
13
42
  this.extendedName = stuff.extendedName;
14
43
  }
44
+ /**
45
+ * Every key this view accepts written on the view object — its declared MST
46
+ * properties plus the launch keys above. `undefined` for a view that
47
+ * registers none: nothing there says which of its launcher's arguments are
48
+ * settings, so a caller must classify nothing rather than call them all typos.
49
+ * Also `undefined` while a lazily registered state model is not loaded yet,
50
+ * for the same reason: nothing is known, so nothing is a typo.
51
+ *
52
+ * This is the set `withLaunchInput`'s partition reads off the same two
53
+ * declarations, published for the surfaces that never build a view snapshot —
54
+ * a session spec launches straight through `LaunchView-<type>`.
55
+ */
56
+ get acceptedKeys() {
57
+ const properties = this.loadedStateModel?.properties;
58
+ return this.launchKeys && properties
59
+ ? [
60
+ ...Object.keys(properties),
61
+ ...Object.keys(this.launchKeys.keys),
62
+ ...this.launchKeys.passThrough,
63
+ ]
64
+ : undefined;
65
+ }
66
+ get isStateModelLoaded() {
67
+ return this.loadedStateModel !== undefined;
68
+ }
69
+ loadStateModel() {
70
+ if (this.loadedStateModel !== undefined) {
71
+ return Promise.resolve(this.loadedStateModel);
72
+ }
73
+ if (!this.stateModelLoader) {
74
+ throw new Error(`view type ${this.name} has neither a state model nor a loader`);
75
+ }
76
+ this.stateModelPromise ??= this.stateModelLoader().then(loaded => {
77
+ let stateModel = loaded;
78
+ for (const extend of this.pendingStateModelExtensions) {
79
+ stateModel = extend(stateModel);
80
+ }
81
+ this.pendingStateModelExtensions = [];
82
+ this.loadedStateModel = stateModel;
83
+ return stateModel;
84
+ });
85
+ return this.stateModelPromise;
86
+ }
87
+ extendStateModel(extend) {
88
+ if (this.loadedStateModel !== undefined) {
89
+ this.loadedStateModel = extend(this.loadedStateModel);
90
+ }
91
+ else {
92
+ this.pendingStateModelExtensions.push(extend);
93
+ }
94
+ }
15
95
  addDisplayType(display) {
16
96
  this.displayTypes.push(display);
17
97
  }
@@ -1,8 +1,8 @@
1
- import type { ComponentType, LazyExoticComponent } from 'react';
2
- import type React from 'react';
3
1
  import PluggableElementBase from './PluggableElementBase.ts';
4
2
  import type { AnyConfigurationSchemaType } from '../configuration/index.ts';
5
3
  import type { IAnyModelType, IAnyStateTreeNode } from '@jbrowse/mobx-state-tree';
4
+ import type { ComponentType, LazyExoticComponent } from 'react';
5
+ import type React from 'react';
6
6
  type WidgetComponentType = LazyExoticComponent<React.FC<any>> | React.FC<any>;
7
7
  type HeadingComponentType = ComponentType<{
8
8
  model: IAnyStateTreeNode;
@@ -1,4 +1,4 @@
1
- import PluggableElementBase from "./PluggableElementBase.js";
1
+ import PluggableElementBase from './PluggableElementBase.js';
2
2
  export default class WidgetType extends PluggableElementBase {
3
3
  heading;
4
4
  configSchema;
@@ -0,0 +1,87 @@
1
+ import type PluginManager from '../PluginManager.ts';
2
+ import type { DisplayTypeName, DisplayTypeRegistry, ViewTypeName, ViewTypeRegistry } from '../PluginManager.ts';
3
+ import type { MenuItem } from '../ui/MenuTypes.ts';
4
+ import type { IAnyType, Instance } from '@jbrowse/mobx-state-tree';
5
+ /**
6
+ * The instance a registry entry's state model produces. The registries are
7
+ * declared empty here and filled by module augmentation, so inside this package
8
+ * every one of these resolves to `never` — see {@link extendViewType} for why
9
+ * that is fine and what the caller gets instead.
10
+ */
11
+ type ModelOf<T> = T extends IAnyType ? Instance<T> : never;
12
+ /**
13
+ * The methods on a model that return a menu. Derived from the model rather than
14
+ * listed, which is what makes a renamed or retired method a compile error at
15
+ * the call site: there are six of them across views and displays (`menuItems`,
16
+ * `trackMenuItems`, `contextMenuItems`, `rubberBandMenuItems`,
17
+ * `rubberBandLaunchMenuItems`, `highlightMenuItems`), they are a convention
18
+ * rather than one declared interface, and a contribution to a name the model no
19
+ * longer has is otherwise silent.
20
+ *
21
+ * Given several names, `M` arrives as the union of their models and `keyof M`
22
+ * is what they share, so a menu only one of them has is a compile error rather
23
+ * than a `self[menu]` that is undefined on the others.
24
+ */
25
+ type MenuMethodName<M> = {
26
+ [K in keyof M]: M[K] extends (...args: never[]) => MenuItem[] ? K : never;
27
+ }[keyof M];
28
+ /**
29
+ * What a contributor is handed: the model, plus whatever the menu method itself
30
+ * takes (`highlightMenuItems` gets the highlight). Returning `undefined` adds
31
+ * nothing, which is how a contribution scoped to some state opts out.
32
+ */
33
+ type MenuItemsCallback<M, K extends keyof M> = (model: M, ...args: M[K] extends (...args: infer A) => unknown ? A : never) => MenuItem | MenuItem[] | undefined;
34
+ interface MenuItemsOptions<M, K extends keyof M> {
35
+ /** which menu to add to */
36
+ menu: K;
37
+ /**
38
+ * a submenu label to collect the items under, e.g. `LAUNCH_LABEL`. The
39
+ * submenu is created once and shared, so several plugins naming the same
40
+ * group land in one place rather than each adding a top-level row
41
+ */
42
+ group?: string;
43
+ items: MenuItemsCallback<M, K>;
44
+ }
45
+ /**
46
+ * Add items to a menu on a view type belonging to another plugin, e.g. an "open
47
+ * a synteny view on this locus" entry on the linear genome view. Pass an array
48
+ * to contribute the same items to several types at once.
49
+ *
50
+ * Prefer this to extending the state model by hand. The model is the right seam
51
+ * — `menuItems()` is called from seven pieces of view chrome, and only the model
52
+ * reaches all of them — but writing the extension out means `stateModel.views`,
53
+ * capturing the previous method, spreading it, and remembering to return the
54
+ * whole array. Each of those is silent when it goes wrong, and the middle one
55
+ * costs every plugin registered earlier its items.
56
+ *
57
+ * ```ts
58
+ * addViewMenuItems(pluginManager, 'LinearGenomeView', {
59
+ * menu: 'rubberBandLaunchMenuItems',
60
+ * items: self => ({ label: 'Consensus sequence', onClick: () => {} }),
61
+ * })
62
+ * ```
63
+ *
64
+ * A contribution needing state or actions of its own is still a model
65
+ * extension: use {@link extendViewType} and add the menu items in the same
66
+ * `.views` block, so the items and the actions they call stay together.
67
+ */
68
+ export declare function addViewMenuItems<N extends ViewTypeName, K extends MenuMethodName<ModelOf<ViewTypeRegistry[N]>>>(pluginManager: PluginManager, name: N | readonly N[], options: MenuItemsOptions<ModelOf<ViewTypeRegistry[N]>, K>): void;
69
+ /**
70
+ * Add items to a menu on a display type belonging to another plugin, e.g. an
71
+ * "open this read in a dotplot" entry on the alignments display's context menu.
72
+ * See {@link addViewMenuItems}; the name is checked against
73
+ * `DisplayTypeRegistry`.
74
+ *
75
+ * ```ts
76
+ * addDisplayMenuItems(pluginManager, 'LinearAlignmentsDisplay', {
77
+ * menu: 'contextMenuItems',
78
+ * group: LAUNCH_LABEL,
79
+ * items: self =>
80
+ * self.contextMenuFeatureId === undefined
81
+ * ? undefined
82
+ * : { label: 'Dotplot of read vs ref', onClick: () => {} },
83
+ * })
84
+ * ```
85
+ */
86
+ export declare function addDisplayMenuItems<N extends DisplayTypeName, K extends MenuMethodName<ModelOf<DisplayTypeRegistry[N]>>>(pluginManager: PluginManager, name: N | readonly N[], options: MenuItemsOptions<ModelOf<DisplayTypeRegistry[N]>, K>): void;
87
+ export {};
@@ -0,0 +1,82 @@
1
+ import { pushIntoSubMenu } from '../ui/launchViewMenu.js';
2
+ import { extendDisplayType, extendViewType } from './extendElementType.js';
3
+ // The shared fold. Both entry points are thin wrappers rather than overloads of
4
+ // one function: with overloads, a `menu` the model does not have stops matching
5
+ // the view signature, falls through to the display one, and reports as "'view'
6
+ // does not exist in type …" — an error about the wrong parameter, for a mistake
7
+ // this helper exists to name precisely.
8
+ function menuExtension(menu, group, items) {
9
+ return (stateModel) => stateModel.views((self) => {
10
+ const superMenu = self[menu];
11
+ return {
12
+ // Copied rather than pushed into: `group` reaches inside an item the
13
+ // method before us built, and the array it came from is this call's
14
+ // to change, not one an earlier caller is still holding.
15
+ [menu](...args) {
16
+ const built = [...superMenu(...args)];
17
+ const contributed = items(self, ...args);
18
+ if (contributed !== undefined) {
19
+ for (const item of Array.isArray(contributed)
20
+ ? contributed
21
+ : [contributed]) {
22
+ if (group === undefined) {
23
+ built.push(item);
24
+ }
25
+ else {
26
+ pushIntoSubMenu(built, group, item);
27
+ }
28
+ }
29
+ }
30
+ return built;
31
+ },
32
+ };
33
+ });
34
+ }
35
+ /**
36
+ * Add items to a menu on a view type belonging to another plugin, e.g. an "open
37
+ * a synteny view on this locus" entry on the linear genome view. Pass an array
38
+ * to contribute the same items to several types at once.
39
+ *
40
+ * Prefer this to extending the state model by hand. The model is the right seam
41
+ * — `menuItems()` is called from seven pieces of view chrome, and only the model
42
+ * reaches all of them — but writing the extension out means `stateModel.views`,
43
+ * capturing the previous method, spreading it, and remembering to return the
44
+ * whole array. Each of those is silent when it goes wrong, and the middle one
45
+ * costs every plugin registered earlier its items.
46
+ *
47
+ * ```ts
48
+ * addViewMenuItems(pluginManager, 'LinearGenomeView', {
49
+ * menu: 'rubberBandLaunchMenuItems',
50
+ * items: self => ({ label: 'Consensus sequence', onClick: () => {} }),
51
+ * })
52
+ * ```
53
+ *
54
+ * A contribution needing state or actions of its own is still a model
55
+ * extension: use {@link extendViewType} and add the menu items in the same
56
+ * `.views` block, so the items and the actions they call stay together.
57
+ */
58
+ export function addViewMenuItems(pluginManager, name, options) {
59
+ const { menu, group, items } = options;
60
+ extendViewType(pluginManager, name, menuExtension(menu, group, items));
61
+ }
62
+ /**
63
+ * Add items to a menu on a display type belonging to another plugin, e.g. an
64
+ * "open this read in a dotplot" entry on the alignments display's context menu.
65
+ * See {@link addViewMenuItems}; the name is checked against
66
+ * `DisplayTypeRegistry`.
67
+ *
68
+ * ```ts
69
+ * addDisplayMenuItems(pluginManager, 'LinearAlignmentsDisplay', {
70
+ * menu: 'contextMenuItems',
71
+ * group: LAUNCH_LABEL,
72
+ * items: self =>
73
+ * self.contextMenuFeatureId === undefined
74
+ * ? undefined
75
+ * : { label: 'Dotplot of read vs ref', onClick: () => {} },
76
+ * })
77
+ * ```
78
+ */
79
+ export function addDisplayMenuItems(pluginManager, name, options) {
80
+ const { menu, group, items } = options;
81
+ extendDisplayType(pluginManager, name, menuExtension(menu, group, items));
82
+ }
@@ -0,0 +1,30 @@
1
+ import type PluginManager from '../PluginManager.ts';
2
+ import type { DisplayTypeName, DisplayTypeRegistry, ViewTypeName, ViewTypeRegistry } from '../PluginManager.ts';
3
+ import type { IAnyModelType } from '@jbrowse/mobx-state-tree';
4
+ /**
5
+ * Replace a view type's state model with an extended one, e.g. to add a menu
6
+ * item to `LinearGenomeView`. Pass an array to extend several at once, which is
7
+ * how a contribution reaches a family: the tree spells a display family as a
8
+ * shared mixin set rather than a chain, so there is no parent to name — see
9
+ * `reference/REJECTED_IDEAS.md`, "Give a pluggable element an `extendsType`".
10
+ *
11
+ * `Core-extendPluggableElement` fires for every pluggable element there is —
12
+ * adapters, widgets, RPC methods, all of them — so a callback written against
13
+ * it directly has to match the name, convince TypeScript the element is the
14
+ * kind that name implies, and remember to return the element. The middle one
15
+ * has no honest answer at the call site, which is why the two plugins that
16
+ * tried both landed on a type guard asserting `elt is DisplayType` from a
17
+ * string compare, which would go on asserting it if the name ever belonged to
18
+ * something else.
19
+ *
20
+ * Here the group is checked rather than asserted — it comes from
21
+ * `addElementType`, which knew it all along — and the name is checked against
22
+ * `ViewTypeRegistry`, so the state model arrives typed and a rename is a
23
+ * compile error rather than an extension that quietly stops applying.
24
+ */
25
+ export declare function extendViewType<N extends ViewTypeName>(pluginManager: PluginManager, name: N | readonly N[], extend: (stateModel: ViewTypeRegistry[N]) => IAnyModelType): void;
26
+ /**
27
+ * Replace a display type's state model with an extended one. See
28
+ * {@link extendViewType}; the name is checked against `DisplayTypeRegistry`.
29
+ */
30
+ export declare function extendDisplayType<N extends DisplayTypeName>(pluginManager: PluginManager, name: N | readonly N[], extend: (stateModel: DisplayTypeRegistry[N]) => IAnyModelType): void;
@@ -0,0 +1,73 @@
1
+ // The one cast, in one place, named. `extend` is written by a caller against a
2
+ // registry entry; this package cannot name that entry (see extendViewType), so
3
+ // the callback is re-read as taking the base model type to call it.
4
+ function widen(extend) {
5
+ return extend;
6
+ }
7
+ // Built once per registration rather than per element: the point fires for
8
+ // every pluggable element there is, and every callback registered on it runs
9
+ // for each one.
10
+ function namesOf(name) {
11
+ return new Set(typeof name === 'string' ? [name] : name);
12
+ }
13
+ /**
14
+ * Replace a view type's state model with an extended one, e.g. to add a menu
15
+ * item to `LinearGenomeView`. Pass an array to extend several at once, which is
16
+ * how a contribution reaches a family: the tree spells a display family as a
17
+ * shared mixin set rather than a chain, so there is no parent to name — see
18
+ * `reference/REJECTED_IDEAS.md`, "Give a pluggable element an `extendsType`".
19
+ *
20
+ * `Core-extendPluggableElement` fires for every pluggable element there is —
21
+ * adapters, widgets, RPC methods, all of them — so a callback written against
22
+ * it directly has to match the name, convince TypeScript the element is the
23
+ * kind that name implies, and remember to return the element. The middle one
24
+ * has no honest answer at the call site, which is why the two plugins that
25
+ * tried both landed on a type guard asserting `elt is DisplayType` from a
26
+ * string compare, which would go on asserting it if the name ever belonged to
27
+ * something else.
28
+ *
29
+ * Here the group is checked rather than asserted — it comes from
30
+ * `addElementType`, which knew it all along — and the name is checked against
31
+ * `ViewTypeRegistry`, so the state model arrives typed and a rename is a
32
+ * compile error rather than an extension that quietly stops applying.
33
+ */
34
+ export function extendViewType(pluginManager, name, extend) {
35
+ const names = namesOf(name);
36
+ pluginManager.addToExtensionPoint('Core-extendPluggableElement', (element, props) => {
37
+ if (props.group === 'view' && names.has(element.name)) {
38
+ // The group check established this element is a ViewType, and the
39
+ // registry says which one, so the read is proven. The body still works
40
+ // in `IAnyModelType`: `ViewTypeRegistry` is declared empty here and
41
+ // filled by module augmentation, so inside this package `ViewTypeName`
42
+ // is `never` and `ViewTypeRegistry[N]` with it — a value of that type
43
+ // cannot be produced or consumed, and compiling core alone fails on
44
+ // both. The precise type is what the *caller* gets, which is the whole
45
+ // point of the signature; widening it once here costs nothing, since
46
+ // the only operation is handing the model to `extend` and storing what
47
+ // comes back.
48
+ //
49
+ // Routed through extendStateModel rather than assigning `.stateModel`
50
+ // directly so a view registered with a lazy loader queues the
51
+ // extension and composes it when the loader resolves.
52
+ const view = element;
53
+ view.extendStateModel(widen(extend));
54
+ }
55
+ return element;
56
+ });
57
+ }
58
+ /**
59
+ * Replace a display type's state model with an extended one. See
60
+ * {@link extendViewType}; the name is checked against `DisplayTypeRegistry`.
61
+ */
62
+ export function extendDisplayType(pluginManager, name, extend) {
63
+ const names = namesOf(name);
64
+ pluginManager.addToExtensionPoint('Core-extendPluggableElement', (element, props) => {
65
+ if (props.group === 'display' && names.has(element.name)) {
66
+ // widened for the reason in extendViewType; routed through
67
+ // extendStateModel so a lazy registration queues the extension
68
+ const display = element;
69
+ display.extendStateModel(widen(extend));
70
+ }
71
+ return element;
72
+ });
73
+ }
@@ -2,26 +2,26 @@ import type AdapterType from './AdapterType.ts';
2
2
  import type AddTrackWorkflowType from './AddTrackWorkflowType.ts';
3
3
  import type ConnectionType from './ConnectionType.ts';
4
4
  import type DisplayType from './DisplayType.ts';
5
- import type GlyphType from './GlyphType.ts';
6
5
  import type InternetAccountType from './InternetAccountType.ts';
7
6
  import type RpcMethodType from './RpcMethodType.ts';
8
7
  import type TextSearchAdapterType from './TextSearchAdapterType.ts';
9
8
  import type TrackType from './TrackType.ts';
10
9
  import type ViewType from './ViewType.ts';
11
10
  import type WidgetType from './WidgetType.ts';
12
- import type RendererType from './renderers/RendererType.tsx';
13
- export * from './renderers/index.ts';
14
- export * from './models/index.ts';
15
- export type PluggableElementType = AdapterType | ConnectionType | RendererType | WidgetType | TrackType | DisplayType | ViewType | RpcMethodType | InternetAccountType | TextSearchAdapterType | AddTrackWorkflowType | GlyphType;
11
+ export { BaseConnectionModelFactory, BaseDisplay, type BaseDisplayModel, type BaseDisplayStateModel, BaseInternetAccountConfig, type BaseInternetAccountModel, type BaseInternetAccountStateModel, type BaseTrackConfig, type BaseTrackModel, type BaseTrackStateModel, BaseViewModel, type DisplayModel, type FileTypeExporter, HighlightsMixin, type IBaseViewModel, InternetAccount, addDisplayConfigMigration, baseConnectionConfig, createBaseTrackConfig, createBaseTrackModel, preprocessTrackConfigSnapshot, type TrackConfigSnapshot, trackConfigActions, } from './models/index.ts';
12
+ export type PluggableElementType = AdapterType | ConnectionType | WidgetType | TrackType | DisplayType | ViewType | RpcMethodType | InternetAccountType | TextSearchAdapterType | AddTrackWorkflowType;
13
+ export { extendDisplayType, extendViewType } from './extendElementType.ts';
14
+ export { addDisplayMenuItems, addViewMenuItems } from './addMenuItems.ts';
16
15
  export { default as AdapterType } from './AdapterType.ts';
17
- export { default as RendererType } from './renderers/RendererType.tsx';
18
16
  export { default as ConnectionType } from './ConnectionType.ts';
19
17
  export { default as TrackType } from './TrackType.ts';
20
18
  export { default as WidgetType } from './WidgetType.ts';
21
19
  export { default as ViewType } from './ViewType.ts';
22
20
  export { default as DisplayType } from './DisplayType.ts';
23
21
  export { default as InternetAccountType } from './InternetAccountType.ts';
24
- export { default as GlyphType } from './GlyphType.ts';
25
22
  export { default as RpcMethodType } from './RpcMethodType.ts';
23
+ export { default as RpcMethodTypeWithRenameRegion } from './RpcMethodTypeWithRenameRegion.ts';
24
+ export { default as RpcMethodTypeWithRenameRegions } from './RpcMethodTypeWithRenameRegions.ts';
26
25
  export { default as AddTrackWorkflowType } from './AddTrackWorkflowType.ts';
26
+ export type { AddTrackWorkflowCategory } from './AddTrackWorkflowType.ts';
27
27
  export { default as TextSearchAdapterType } from './TextSearchAdapterType.ts';
@@ -1,14 +1,24 @@
1
- export * from "./renderers/index.js";
2
- export * from "./models/index.js";
3
- export { default as AdapterType } from "./AdapterType.js";
4
- export { default as RendererType } from "./renderers/RendererType.js";
5
- export { default as ConnectionType } from "./ConnectionType.js";
6
- export { default as TrackType } from "./TrackType.js";
7
- export { default as WidgetType } from "./WidgetType.js";
8
- export { default as ViewType } from "./ViewType.js";
9
- export { default as DisplayType } from "./DisplayType.js";
10
- export { default as InternetAccountType } from "./InternetAccountType.js";
11
- export { default as GlyphType } from "./GlyphType.js";
12
- export { default as RpcMethodType } from "./RpcMethodType.js";
13
- export { default as AddTrackWorkflowType } from "./AddTrackWorkflowType.js";
14
- export { default as TextSearchAdapterType } from "./TextSearchAdapterType.js";
1
+ export { BaseConnectionModelFactory, BaseDisplay, BaseInternetAccountConfig, BaseViewModel, HighlightsMixin, InternetAccount, addDisplayConfigMigration, baseConnectionConfig, createBaseTrackConfig, createBaseTrackModel, preprocessTrackConfigSnapshot, trackConfigActions, } from './models/index.js';
2
+ export { extendDisplayType, extendViewType } from './extendElementType.js';
3
+ export { addDisplayMenuItems, addViewMenuItems } from './addMenuItems.js';
4
+ export { default as AdapterType } from './AdapterType.js';
5
+ export { default as ConnectionType } from './ConnectionType.js';
6
+ export { default as TrackType } from './TrackType.js';
7
+ export { default as WidgetType } from './WidgetType.js';
8
+ export { default as ViewType } from './ViewType.js';
9
+ export { default as DisplayType } from './DisplayType.js';
10
+ export { default as InternetAccountType } from './InternetAccountType.js';
11
+ export { default as RpcMethodType } from './RpcMethodType.js';
12
+ // The two region-renaming bases, which nearly every RPC method that takes a
13
+ // viewport wants — without them an external plugin deep-imports the file and
14
+ // bundles its own copy, which is only harmless because RPC methods are keyed by
15
+ // name (PluginManager.rpcMethods) and nothing does an instanceof.
16
+ // `RpcMethodTypeWithFiltersAndRenameRegions` is deliberately not here: it pulls
17
+ // in `renderers/util/serializableFilterChain`, and RFC-001 §9 deletes
18
+ // `pluggableElementTypes/renderers/*` after the legacy renderer migration. This
19
+ // barrel is served as ABI, so exporting it would pin a directory we intend to
20
+ // remove.
21
+ export { default as RpcMethodTypeWithRenameRegion } from './RpcMethodTypeWithRenameRegion.js';
22
+ export { default as RpcMethodTypeWithRenameRegions } from './RpcMethodTypeWithRenameRegions.js';
23
+ export { default as AddTrackWorkflowType } from './AddTrackWorkflowType.js';
24
+ export { default as TextSearchAdapterType } from './TextSearchAdapterType.js';