@jbrowse/core 5.0.0-beta.11 → 5.0.0-beta.14

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 (439) hide show
  1. package/README.md +450 -132
  2. package/esm/BaseFeatureWidget/BaseFeatureDetail/ArrayValue.d.ts +3 -2
  3. package/esm/BaseFeatureWidget/BaseFeatureDetail/ArrayValue.js +4 -2
  4. package/esm/BaseFeatureWidget/BaseFeatureDetail/Attributes.d.ts +6 -2
  5. package/esm/BaseFeatureWidget/BaseFeatureDetail/Attributes.js +18 -3
  6. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseAttributes.d.ts +2 -1
  7. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseAttributes.js +4 -2
  8. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCard.d.ts +2 -1
  9. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCard.js +4 -2
  10. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCoreDetails.d.ts +2 -1
  11. package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCoreDetails.js +4 -2
  12. package/esm/BaseFeatureWidget/BaseFeatureDetail/BasicValue.d.ts +5 -4
  13. package/esm/BaseFeatureWidget/BaseFeatureDetail/BasicValue.js +6 -4
  14. package/esm/BaseFeatureWidget/BaseFeatureDetail/CoreDetails.d.ts +2 -1
  15. package/esm/BaseFeatureWidget/BaseFeatureDetail/CoreDetails.js +4 -2
  16. package/esm/BaseFeatureWidget/BaseFeatureDetail/DataGridDetails.d.ts +3 -2
  17. package/esm/BaseFeatureWidget/BaseFeatureDetail/DataGridDetails.js +4 -2
  18. package/esm/BaseFeatureWidget/BaseFeatureDetail/FeatureDetails.js +2 -2
  19. package/esm/BaseFeatureWidget/BaseFeatureDetail/FeatureWash.d.ts +3 -2
  20. package/esm/BaseFeatureWidget/BaseFeatureDetail/FeatureWash.js +4 -2
  21. package/esm/BaseFeatureWidget/BaseFeatureDetail/FieldActionsButton.d.ts +3 -2
  22. package/esm/BaseFeatureWidget/BaseFeatureDetail/FieldActionsButton.js +4 -2
  23. package/esm/BaseFeatureWidget/BaseFeatureDetail/FieldName.d.ts +3 -2
  24. package/esm/BaseFeatureWidget/BaseFeatureDetail/FieldName.js +4 -2
  25. package/esm/BaseFeatureWidget/BaseFeatureDetail/Formatter.d.ts +3 -2
  26. package/esm/BaseFeatureWidget/BaseFeatureDetail/Formatter.js +4 -2
  27. package/esm/BaseFeatureWidget/BaseFeatureDetail/ParentFeatureLine.d.ts +3 -2
  28. package/esm/BaseFeatureWidget/BaseFeatureDetail/ParentFeatureLine.js +4 -2
  29. package/esm/BaseFeatureWidget/BaseFeatureDetail/SimpleField.d.ts +3 -2
  30. package/esm/BaseFeatureWidget/BaseFeatureDetail/SimpleField.js +4 -2
  31. package/esm/BaseFeatureWidget/BaseFeatureDetail/UriField.d.ts +3 -2
  32. package/esm/BaseFeatureWidget/BaseFeatureDetail/UriField.js +4 -2
  33. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceBody.d.ts +3 -2
  34. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceBody.js +4 -2
  35. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeatureDetails.d.ts +3 -1
  36. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeatureDetails.js +15 -24
  37. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeaturePanel.js +1 -1
  38. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceLegend.d.ts +3 -2
  39. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceLegend.js +4 -2
  40. package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequencePanel.js +4 -4
  41. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/FeatureSequenceDialog.d.ts +3 -1
  42. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/FeatureSequenceDialog.js +2 -2
  43. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/HelpDialog.d.ts +3 -2
  44. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/HelpDialog.js +4 -2
  45. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceDialog.d.ts +1 -2
  46. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceDialog.js +2 -2
  47. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceTypeSelector.d.ts +1 -2
  48. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceTypeSelector.js +15 -36
  49. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/TranscriptSelector.d.ts +3 -2
  50. package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/TranscriptSelector.js +4 -2
  51. package/esm/BaseFeatureWidget/SequenceFeatureDetails/featureTypeUtil.d.ts +4 -2
  52. package/esm/BaseFeatureWidget/SequenceFeatureDetails/featureTypeUtil.js +29 -20
  53. package/esm/BaseFeatureWidget/SequenceFeatureDetails/model.d.ts +13 -1
  54. package/esm/BaseFeatureWidget/SequenceFeatureDetails/model.js +28 -1
  55. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/CDNASequence.js +3 -3
  56. package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/SequenceDisplay.js +2 -2
  57. package/esm/BaseFeatureWidget/stateModelFactory.d.ts +9 -0
  58. package/esm/BaseFeatureWidget/stateModelFactory.js +11 -0
  59. package/esm/BaseFeatureWidget/types.d.ts +2 -0
  60. package/esm/PluginManager.d.ts +7 -3
  61. package/esm/PluginManager.js +12 -3
  62. package/esm/ReExports/coreModules.generated.js +538 -518
  63. package/esm/ReExports/coreWorkerModules.generated.js +456 -438
  64. package/esm/ReExports/lazify.js +3 -2
  65. package/esm/ReExports/list.js +22 -6
  66. package/esm/ReExports/names.d.ts +1 -0
  67. package/esm/ReExports/names.generated.d.ts +2 -0
  68. package/esm/ReExports/names.generated.js +566 -0
  69. package/esm/ReExports/names.js +3 -0
  70. package/esm/TextSearch/TextSearchManager.d.ts +3 -3
  71. package/esm/TextSearch/TextSearchManager.js +6 -13
  72. package/esm/assemblyManager/assembly.d.ts +9 -0
  73. package/esm/assemblyManager/assembly.js +13 -0
  74. package/esm/assemblyManager/assemblyConfigSchema.d.ts +6 -1
  75. package/esm/assemblyManager/assemblyConfigSchema.js +23 -22
  76. package/esm/assemblyManager/assemblyManager.d.ts +11 -0
  77. package/esm/assemblyManager/assemblyManager.js +2 -0
  78. package/esm/assemblyManager/expandAssemblyConfigShorthand.d.ts +9 -0
  79. package/esm/assemblyManager/expandAssemblyConfigShorthand.js +23 -0
  80. package/esm/checkPlugins.js +10 -4
  81. package/esm/configuration/configurationSchema.d.ts +51 -100
  82. package/esm/configuration/configurationSchema.js +59 -225
  83. package/esm/configuration/configurationSchemaUnion.d.ts +2 -1
  84. package/esm/configuration/configurationSchemaUnion.js +2 -1
  85. package/esm/configuration/configurationSlot.d.ts +18 -64
  86. package/esm/configuration/configurationSlot.js +32 -98
  87. package/esm/configuration/fillLocations.d.ts +4 -2
  88. package/esm/configuration/fillLocations.js +9 -3
  89. package/esm/configuration/formatAboutConfigSchema.d.ts +2 -2
  90. package/esm/configuration/formatAboutConfigSchema.js +2 -2
  91. package/esm/configuration/formatDetailsConfigSchema.d.ts +2 -2
  92. package/esm/configuration/formatDetailsConfigSchema.js +7 -5
  93. package/esm/configuration/getConf.d.ts +7 -36
  94. package/esm/configuration/getConf.js +20 -41
  95. package/esm/configuration/index.d.ts +4 -3
  96. package/esm/configuration/index.js +3 -2
  97. package/esm/configuration/partitionAdvanced.d.ts +12 -0
  98. package/esm/configuration/partitionAdvanced.js +42 -0
  99. package/esm/configuration/plot.d.ts +6 -0
  100. package/esm/configuration/plot.js +56 -9
  101. package/esm/configuration/readConfObject.d.ts +15 -17
  102. package/esm/configuration/readConfObject.js +19 -50
  103. package/esm/configuration/schemaRegistry.d.ts +0 -2
  104. package/esm/configuration/schemaTypes.js +5 -1
  105. package/esm/configuration/slotFacade.js +2 -2
  106. package/esm/configuration/snapshotPreprocess.d.ts +42 -18
  107. package/esm/configuration/snapshotPreprocess.js +95 -37
  108. package/esm/configuration/tabixShorthand.js +1 -3
  109. package/esm/configuration/types.d.ts +60 -159
  110. package/esm/data_adapters/BaseAdapter/BaseAdapter.d.ts +7 -0
  111. package/esm/data_adapters/BaseAdapter/BaseAdapter.js +7 -0
  112. package/esm/data_adapters/BaseAdapter/BaseFeatureDataAdapter.d.ts +0 -22
  113. package/esm/data_adapters/BaseAdapter/BaseFeatureDataAdapter.js +0 -55
  114. package/esm/data_adapters/BaseAdapter/index.d.ts +0 -1
  115. package/esm/data_adapters/BaseAdapter/index.js +0 -1
  116. package/esm/data_adapters/BaseAdapter/rowSources.d.ts +2 -2
  117. package/esm/data_adapters/BaseAdapter/types.d.ts +1 -0
  118. package/esm/data_adapters/CytobandAdapter/configSchema.d.ts +2 -0
  119. package/esm/data_adapters/CytobandAdapter/configSchema.js +5 -0
  120. package/esm/data_adapters/dataAdapterCache.d.ts +25 -13
  121. package/esm/data_adapters/dataAdapterCache.js +68 -24
  122. package/esm/data_adapters/getFeatureAdapter.d.ts +9 -0
  123. package/esm/data_adapters/getFeatureAdapter.js +17 -0
  124. package/esm/pluggableElementTypes/DisplayType.d.ts +7 -0
  125. package/esm/pluggableElementTypes/DisplayType.js +7 -0
  126. package/esm/pluggableElementTypes/RpcMethodType.d.ts +7 -0
  127. package/esm/pluggableElementTypes/RpcMethodType.js +9 -0
  128. package/esm/pluggableElementTypes/addMenuItems.d.ts +2 -1
  129. package/esm/pluggableElementTypes/addMenuItems.js +2 -1
  130. package/esm/pluggableElementTypes/models/BaseConnectionModelFactory.d.ts +2 -0
  131. package/esm/pluggableElementTypes/models/BaseConnectionModelFactory.js +2 -0
  132. package/esm/pluggableElementTypes/models/BaseDisplayModel.d.ts +40 -5
  133. package/esm/pluggableElementTypes/models/BaseDisplayModel.js +57 -9
  134. package/esm/pluggableElementTypes/models/BaseTrackModel.d.ts +5 -7
  135. package/esm/pluggableElementTypes/models/BaseTrackModel.js +9 -10
  136. package/esm/pluggableElementTypes/models/BaseViewModel.d.ts +2 -0
  137. package/esm/pluggableElementTypes/models/BaseViewModel.js +2 -0
  138. package/esm/pluggableElementTypes/models/InternetAccountModel.d.ts +3 -0
  139. package/esm/pluggableElementTypes/models/InternetAccountModel.js +3 -0
  140. package/esm/pluggableElementTypes/models/baseConnectionConfig.d.ts +3 -0
  141. package/esm/pluggableElementTypes/models/baseConnectionConfig.js +3 -0
  142. package/esm/pluggableElementTypes/models/baseInternetAccountConfig.d.ts +3 -1
  143. package/esm/pluggableElementTypes/models/baseInternetAccountConfig.js +3 -1
  144. package/esm/pluggableElementTypes/models/baseTrackConfig.js +12 -1
  145. package/esm/pluggableElementTypes/models/components/SaveTrackData.js +2 -2
  146. package/esm/pluggableElementTypes/models/expandTrackConfigShorthand.d.ts +1 -1
  147. package/esm/pluggableElementTypes/models/expandTrackConfigShorthand.js +1 -1
  148. package/esm/pluginDefinitions.d.ts +7 -0
  149. package/esm/pluginDefinitions.js +20 -0
  150. package/esm/rpc/RpcRegistry.d.ts +2 -11
  151. package/esm/rpc/byteBudget.d.ts +15 -0
  152. package/esm/rpc/byteBudget.js +23 -0
  153. package/esm/rpc/configSchema.d.ts +2 -0
  154. package/esm/rpc/configSchema.js +3 -1
  155. package/esm/rpc/coreRpcMethods.d.ts +1 -2
  156. package/esm/rpc/coreRpcMethods.js +1 -2
  157. package/esm/rpc/explainTransferError.js +3 -3
  158. package/esm/rpc/methods/CoreGetEncodedLayers.d.ts +2 -2
  159. package/esm/rpc/methods/CoreGetEncodedLayers.js +7 -5
  160. package/esm/rpc/methods/CoreLoadTrackCode.d.ts +17 -0
  161. package/esm/rpc/methods/CoreLoadTrackCode.js +24 -0
  162. package/esm/rpc/methods/layerFeatures.d.ts +9 -6
  163. package/esm/rpc/methods/layerFeatures.js +21 -5
  164. package/esm/ui/ActionLink.d.ts +3 -2
  165. package/esm/ui/ActionLink.js +4 -2
  166. package/esm/ui/AddCustomPluginDialog.d.ts +3 -2
  167. package/esm/ui/AddCustomPluginDialog.js +6 -4
  168. package/esm/ui/AppLogo.js +43 -3
  169. package/esm/ui/BaseTooltip.d.ts +3 -2
  170. package/esm/ui/BaseTooltip.js +4 -2
  171. package/esm/ui/CascadingMenu.js +14 -12
  172. package/esm/ui/CascadingMenuButton.d.ts +2 -2
  173. package/esm/ui/CascadingMenuButton.js +5 -4
  174. package/esm/ui/CascadingMenuHelpDialog.d.ts +3 -2
  175. package/esm/ui/CascadingMenuHelpDialog.js +4 -2
  176. package/esm/ui/CascadingMenuHelpIconButton.d.ts +4 -3
  177. package/esm/ui/CascadingMenuHelpIconButton.js +9 -5
  178. package/esm/ui/ColorPicker.d.ts +5 -4
  179. package/esm/ui/ColorPicker.js +6 -4
  180. package/esm/ui/ContextMenu.d.ts +1 -1
  181. package/esm/ui/ContextMenu.js +1 -1
  182. package/esm/ui/CopyToClipboardButton.d.ts +3 -2
  183. package/esm/ui/CopyToClipboardButton.js +4 -2
  184. package/esm/ui/Crosshairs.js +13 -10
  185. package/esm/ui/DOMPurifySanitizedHTML.d.ts +3 -2
  186. package/esm/ui/DOMPurifySanitizedHTML.js +4 -2
  187. package/esm/ui/DataGridFlexContainer.d.ts +3 -2
  188. package/esm/ui/DataGridFlexContainer.js +4 -2
  189. package/esm/ui/Dialog.d.ts +1 -1
  190. package/esm/ui/Dialog.js +5 -4
  191. package/esm/ui/DropDownMenu.js +2 -2
  192. package/esm/ui/EditableTypography.d.ts +1 -1
  193. package/esm/ui/EditableTypography.js +3 -2
  194. package/esm/ui/ErrorActions.d.ts +3 -2
  195. package/esm/ui/ErrorActions.js +4 -2
  196. package/esm/ui/ErrorBanner.d.ts +2 -2
  197. package/esm/ui/ErrorBanner.js +3 -2
  198. package/esm/ui/ErrorBar.d.ts +3 -2
  199. package/esm/ui/ErrorBar.js +4 -2
  200. package/esm/ui/ErrorMessage.d.ts +3 -2
  201. package/esm/ui/ErrorMessage.js +4 -2
  202. package/esm/ui/ErrorMessageStackTraceContents.d.ts +3 -2
  203. package/esm/ui/ErrorMessageStackTraceContents.js +4 -2
  204. package/esm/ui/ErrorMessageStackTraceDialog.d.ts +3 -2
  205. package/esm/ui/ErrorMessageStackTraceDialog.js +4 -2
  206. package/esm/ui/ErrorOverlay.d.ts +3 -2
  207. package/esm/ui/ErrorOverlay.js +4 -2
  208. package/esm/ui/ExportSvgDialog.d.ts +3 -2
  209. package/esm/ui/ExportSvgDialog.js +4 -2
  210. package/esm/ui/ExternalLink.d.ts +2 -1
  211. package/esm/ui/ExternalLink.js +4 -2
  212. package/esm/ui/FactoryResetDialog.d.ts +3 -2
  213. package/esm/ui/FactoryResetDialog.js +4 -2
  214. package/esm/ui/FatalErrorDialog.d.ts +3 -2
  215. package/esm/ui/FatalErrorDialog.js +6 -4
  216. package/esm/ui/FileDropZone.d.ts +3 -2
  217. package/esm/ui/FileDropZone.js +4 -2
  218. package/esm/ui/FileSelector/LocalFileChooser.js +4 -4
  219. package/esm/ui/FileSelector/LocationInput.d.ts +3 -2
  220. package/esm/ui/FileSelector/LocationInput.js +4 -2
  221. package/esm/ui/FileSelector/SourceTypeSelector.d.ts +3 -2
  222. package/esm/ui/FileSelector/SourceTypeSelector.js +8 -6
  223. package/esm/ui/GpuFallbackButton.d.ts +3 -2
  224. package/esm/ui/GpuFallbackButton.js +4 -2
  225. package/esm/ui/HoverMenu.d.ts +2 -2
  226. package/esm/ui/HoverMenu.js +7 -3
  227. package/esm/ui/HoverTooltip.d.ts +3 -2
  228. package/esm/ui/HoverTooltip.js +4 -2
  229. package/esm/ui/Icons.d.ts +5 -5
  230. package/esm/ui/Icons.js +11 -10
  231. package/esm/ui/InlineMenuControls.d.ts +2 -2
  232. package/esm/ui/InlineMenuControls.js +4 -3
  233. package/esm/ui/JexlFilterRowEditors.d.ts +4 -4
  234. package/esm/ui/JexlFilterRowEditors.js +9 -8
  235. package/esm/ui/LabeledCheckbox.d.ts +3 -2
  236. package/esm/ui/LabeledCheckbox.js +4 -2
  237. package/esm/ui/LazyBaseTooltip.d.ts +12 -3
  238. package/esm/ui/LazyBaseTooltip.js +4 -2
  239. package/esm/ui/LegendSwatchGlyph.js +1 -0
  240. package/esm/ui/LoadingDots.d.ts +2 -1
  241. package/esm/ui/LoadingDots.js +4 -2
  242. package/esm/ui/LoadingEllipses.d.ts +5 -2
  243. package/esm/ui/LoadingEllipses.js +5 -3
  244. package/esm/ui/LoadingOverlay.d.ts +3 -2
  245. package/esm/ui/LoadingOverlay.js +4 -2
  246. package/esm/ui/LoadingProgress.d.ts +3 -2
  247. package/esm/ui/LoadingProgress.js +4 -2
  248. package/esm/ui/Logo.d.ts +2 -2
  249. package/esm/ui/Logo.js +9 -8
  250. package/esm/ui/MenuItemChevron.d.ts +2 -2
  251. package/esm/ui/MenuItemChevron.js +3 -2
  252. package/esm/ui/MenuItemEndDecoration.d.ts +2 -2
  253. package/esm/ui/MenuItemEndDecoration.js +3 -2
  254. package/esm/ui/MenuItemTrailing.d.ts +2 -2
  255. package/esm/ui/MenuItemTrailing.js +7 -6
  256. package/esm/ui/MenuTypes.d.ts +21 -1
  257. package/esm/ui/MenuTypes.js +20 -0
  258. package/esm/ui/MonospaceTextField.d.ts +3 -2
  259. package/esm/ui/MonospaceTextField.js +4 -2
  260. package/esm/ui/NumberTextField.d.ts +2 -2
  261. package/esm/ui/NumberTextField.js +4 -2
  262. package/esm/ui/PaletteContext.d.ts +11 -9
  263. package/esm/ui/PaletteContext.js +33 -18
  264. package/esm/ui/PluginStoreCard.d.ts +3 -2
  265. package/esm/ui/PluginStoreCard.js +4 -2
  266. package/esm/ui/PopoverPicker.d.ts +3 -2
  267. package/esm/ui/PopoverPicker.js +4 -2
  268. package/esm/ui/PrerenderedCanvas.d.ts +2 -2
  269. package/esm/ui/PrerenderedCanvas.js +3 -2
  270. package/esm/ui/RedErrorMessageBox.d.ts +3 -2
  271. package/esm/ui/RedErrorMessageBox.js +4 -2
  272. package/esm/ui/RefNameAutocomplete/EndAdornment.d.ts +3 -2
  273. package/esm/ui/RefNameAutocomplete/EndAdornment.js +4 -2
  274. package/esm/ui/RefNameAutocomplete/HelpDialog.d.ts +3 -2
  275. package/esm/ui/RefNameAutocomplete/HelpDialog.js +4 -2
  276. package/esm/ui/ReplaceCurrentViewButton.d.ts +3 -2
  277. package/esm/ui/ReplaceCurrentViewButton.js +4 -2
  278. package/esm/ui/ResizeHandle.d.ts +2 -2
  279. package/esm/ui/ResizeHandle.js +3 -2
  280. package/esm/ui/SanitizedHTML.d.ts +3 -2
  281. package/esm/ui/SanitizedHTML.js +6 -4
  282. package/esm/ui/ScrollChrome.d.ts +3 -2
  283. package/esm/ui/ScrollChrome.js +4 -2
  284. package/esm/ui/ScrollEdgeShadow.d.ts +2 -2
  285. package/esm/ui/ScrollEdgeShadow.js +2 -2
  286. package/esm/ui/SessionJsonPanel.d.ts +3 -2
  287. package/esm/ui/SessionJsonPanel.js +4 -2
  288. package/esm/ui/ShareLinkField.d.ts +3 -2
  289. package/esm/ui/ShareLinkField.js +4 -2
  290. package/esm/ui/SingleSlider.d.ts +2 -2
  291. package/esm/ui/SingleSlider.js +4 -2
  292. package/esm/ui/SliderTooltip.d.ts +2 -1
  293. package/esm/ui/SliderTooltip.js +4 -2
  294. package/esm/ui/SnackbarContents.d.ts +3 -2
  295. package/esm/ui/SnackbarContents.js +4 -2
  296. package/esm/ui/SnackbarModel.d.ts +2 -0
  297. package/esm/ui/SnackbarModel.js +2 -0
  298. package/esm/ui/StackTraceButton.d.ts +3 -2
  299. package/esm/ui/StackTraceButton.js +4 -2
  300. package/esm/ui/StatusProgressBar.d.ts +3 -2
  301. package/esm/ui/StatusProgressBar.js +4 -2
  302. package/esm/ui/SubmitForm.d.ts +2 -1
  303. package/esm/ui/SubmitForm.js +4 -2
  304. package/esm/ui/SvgColorLegend.d.ts +3 -4
  305. package/esm/ui/SvgColorLegend.js +27 -18
  306. package/esm/ui/TagTextField.d.ts +2 -2
  307. package/esm/ui/TagTextField.js +4 -2
  308. package/esm/ui/ViewLoadingScreen.d.ts +3 -2
  309. package/esm/ui/ViewLoadingScreen.js +4 -2
  310. package/esm/ui/buildExtraTrackMenuItems.d.ts +2 -2
  311. package/esm/ui/colorScale.d.ts +5 -1
  312. package/esm/ui/colorScale.js +12 -10
  313. package/esm/ui/colors.d.ts +42 -31
  314. package/esm/ui/colors.js +85 -48
  315. package/esm/ui/filterMenuItems.d.ts +10 -31
  316. package/esm/ui/filterMenuItems.js +13 -14
  317. package/esm/ui/index.d.ts +1 -1
  318. package/esm/ui/index.js +1 -1
  319. package/esm/ui/launchTargetsMenuItem.js +9 -13
  320. package/esm/ui/legendMenuItem.d.ts +4 -4
  321. package/esm/ui/legendMenuItem.js +4 -4
  322. package/esm/ui/menuItemAdornment.d.ts +1 -1
  323. package/esm/ui/menuItemAdornment.js +1 -1
  324. package/esm/ui/menuItems.d.ts +1 -1
  325. package/esm/ui/menuItems.js +1 -1
  326. package/esm/ui/menuLabels.d.ts +2 -2
  327. package/esm/ui/menuLabels.js +2 -2
  328. package/esm/ui/multiTrackMenuItems.d.ts +2 -2
  329. package/esm/ui/palette.d.ts +2 -2
  330. package/esm/ui/palette.js +10 -10
  331. package/esm/ui/radioSubMenu.d.ts +5 -3
  332. package/esm/ui/radioSubMenu.js +2 -2
  333. package/esm/ui/rampKey.d.ts +15 -0
  334. package/esm/ui/rampKey.js +17 -0
  335. package/esm/ui/showSubMenu.d.ts +0 -5
  336. package/esm/ui/showSubMenu.js +6 -15
  337. package/esm/ui/theme.d.ts +2 -2
  338. package/esm/ui/theme.js +1 -1
  339. package/esm/ui/useAssemblySelection.d.ts +2 -0
  340. package/esm/ui/useMouseTracking.d.ts +8 -20
  341. package/esm/ui/useMouseTracking.js +23 -62
  342. package/esm/ui/usePlacedMenuFocus.d.ts +19 -0
  343. package/esm/ui/usePlacedMenuFocus.js +28 -0
  344. package/esm/util/Base1DViewModel.d.ts +5 -3
  345. package/esm/util/Base1DViewModel.js +5 -3
  346. package/esm/util/SvgCanvas.js +1 -1
  347. package/esm/util/aggregateFieldName.d.ts +1 -10
  348. package/esm/util/aggregateFieldName.js +1 -8
  349. package/esm/util/alignedBytes.d.ts +19 -0
  350. package/esm/util/alignedBytes.js +37 -0
  351. package/esm/util/analytics.d.ts +6 -9
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  353. package/esm/util/bezierConnector.d.ts +20 -0
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  355. package/esm/util/cacheBudgets.d.ts +3 -0
  356. package/esm/util/cacheBudgets.js +3 -0
  357. package/esm/util/categoricalField.d.ts +24 -4
  358. package/esm/util/categoricalField.js +38 -5
  359. package/esm/util/cellMatches.js +14 -14
  360. package/esm/util/cellsStep.d.ts +3 -5
  361. package/esm/util/cellsStep.js +31 -29
  362. package/esm/util/color/index.d.ts +1 -1
  363. package/esm/util/color/index.js +2 -2
  364. package/esm/util/color-bits/bit.js +1 -1
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  366. package/esm/util/colorBits.d.ts +15 -4
  367. package/esm/util/colorBits.js +38 -15
  368. package/esm/util/colorRamp.d.ts +3 -3
  369. package/esm/util/colorRamp.js +20 -2
  370. package/esm/util/colorScale.d.ts +123 -22
  371. package/esm/util/colorScale.js +157 -28
  372. package/esm/util/colorSchemes.d.ts +7 -3
  373. package/esm/util/colorSchemes.js +8 -2
  374. package/esm/util/createSvgRasterCanvas.d.ts +14 -1
  375. package/esm/util/createSvgRasterCanvas.js +36 -12
  376. package/esm/util/diagonalizeRegions.js +18 -9
  377. package/esm/util/featureTransforms.d.ts +2 -2
  378. package/esm/util/featureTransforms.js +85 -135
  379. package/esm/util/fileHandleStore.js +5 -0
  380. package/esm/util/groupKeys.d.ts +5 -4
  381. package/esm/util/groupKeys.js +15 -9
  382. package/esm/util/index.js +1 -1
  383. package/esm/util/installFetch.d.ts +2 -2
  384. package/esm/util/installPrerequisiteFetch.d.ts +8 -3
  385. package/esm/util/installPrerequisiteFetch.js +9 -7
  386. package/esm/util/io/RemoteFileWithRangeCache.d.ts +1 -1
  387. package/esm/util/io/RemoteFileWithRangeCache.js +1 -1
  388. package/esm/util/isoformRank.d.ts +39 -0
  389. package/esm/util/isoformRank.js +118 -0
  390. package/esm/util/jexl.js +1 -1
  391. package/esm/util/layouts/GranularRectLayout.d.ts +19 -3
  392. package/esm/util/layouts/GranularRectLayout.js +57 -34
  393. package/esm/util/leadingEdgeAutorun.d.ts +9 -1
  394. package/esm/util/leadingEdgeAutorun.js +5 -2
  395. package/esm/util/markEncoding.d.ts +10 -8
  396. package/esm/util/markEncoding.js +50 -12
  397. package/esm/util/markEncodingTypes.d.ts +77 -21
  398. package/esm/util/originCut.d.ts +14 -0
  399. package/esm/util/originCut.js +19 -0
  400. package/esm/util/paintLayer.d.ts +1 -1
  401. package/esm/util/paintLayer.js +4 -3
  402. package/esm/util/pathSeries.d.ts +18 -0
  403. package/esm/util/pathSeries.js +143 -0
  404. package/esm/util/pressOwner.d.ts +20 -0
  405. package/esm/util/pressOwner.js +26 -0
  406. package/esm/util/quantileExtent.d.ts +23 -1
  407. package/esm/util/quantileExtent.js +25 -2
  408. package/esm/util/rowStackGeometry.d.ts +1 -1
  409. package/esm/util/rowStackGeometry.js +1 -1
  410. package/esm/util/sessionActivity.d.ts +36 -0
  411. package/esm/util/sessionActivity.js +88 -0
  412. package/esm/util/stepOutputs.d.ts +165 -0
  413. package/esm/util/stepOutputs.js +201 -0
  414. package/esm/util/stepTables.d.ts +7 -3
  415. package/esm/util/stepTables.js +86 -3
  416. package/esm/util/systemColorScheme.d.ts +4 -0
  417. package/esm/util/systemColorScheme.js +21 -0
  418. package/esm/util/tabix.d.ts +1 -1
  419. package/esm/util/tabix.js +1 -1
  420. package/esm/util/temporaryAssembly.d.ts +2 -2
  421. package/esm/util/temporaryAssembly.js +2 -3
  422. package/esm/util/thresholdScale.d.ts +1 -1
  423. package/esm/util/thresholdScale.js +1 -1
  424. package/esm/util/trackConfigDelta.d.ts +1 -1
  425. package/esm/util/tracks.d.ts +25 -15
  426. package/esm/util/tracks.js +68 -44
  427. package/esm/util/types/index.d.ts +15 -7
  428. package/esm/util/types/index.js +21 -2
  429. package/esm/util/usePanZoom.js +4 -10
  430. package/esm/util/useRowVirtualScroll.d.ts +1 -0
  431. package/esm/util/windowStep.d.ts +6 -0
  432. package/esm/util/windowStep.js +153 -0
  433. package/package.json +27 -16
  434. package/esm/data_adapters/BaseAdapter/featureDensity.d.ts +0 -40
  435. package/esm/data_adapters/BaseAdapter/featureDensity.js +0 -31
  436. package/esm/rpc/methods/CoreGetFeatureDensity.d.ts +0 -11
  437. package/esm/rpc/methods/CoreGetFeatureDensity.js +0 -22
  438. package/esm/rpc/methods/CoreLoadAdapterCode.d.ts +0 -13
  439. package/esm/rpc/methods/CoreLoadAdapterCode.js +0 -16
@@ -375,9 +375,12 @@ export default class PluginManager {
375
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  * frozen object, so a hit can only ever come from this same instance and this
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  * same track type. See ADR-031.
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  *
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- * The node is never mutated: admin edits replace the frozen entry (new
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- * identity drops the WeakMap entry), and a non-admin's edits go to a private
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- * session working copy, not here (ADR-032). Both levels are `WeakMap`s so
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+ * The node is never mutated: every edit goes to a private session working
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+ * copy, not here, and is stored as a delta whose merged config is a new
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+ * object (ADR-032). In a session composing `SessionTracksManagerSessionMixin`,
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+ * which every product does, `track.configuration` resolves to that working
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+ * copy, so this memo serves `hydrateTrackConfig` and sessions without the
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+ * mixin. Both levels are `WeakMap`s so
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  * entries collect normally — no manual invalidation needed, which is why this
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  * is a memo and not a cache with a lifecycle to expose.
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  */
@@ -474,6 +477,7 @@ export default class PluginManager {
474
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  addTrackType(cb: (pm: PluginManager) => TrackType): this;
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  addDisplayType(cb: (pluginManager: PluginManager) => DisplayType): this;
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  addViewType(cb: (pluginManager: PluginManager) => ViewType): this;
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+ addRendererType(_cb?: unknown): never;
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  addWidgetType(cb: (pm: PluginManager) => WidgetType): this;
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  addConnectionType(cb: (pm: PluginManager) => ConnectionType): this;
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  addRpcMethod(cb: (pm: PluginManager) => RpcMethodType): this;
@@ -155,9 +155,12 @@ export default class PluginManager {
155
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  * frozen object, so a hit can only ever come from this same instance and this
156
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  * same track type. See ADR-031.
157
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  *
158
- * The node is never mutated: admin edits replace the frozen entry (new
159
- * identity drops the WeakMap entry), and a non-admin's edits go to a private
160
- * session working copy, not here (ADR-032). Both levels are `WeakMap`s so
158
+ * The node is never mutated: every edit goes to a private session working
159
+ * copy, not here, and is stored as a delta whose merged config is a new
160
+ * object (ADR-032). In a session composing `SessionTracksManagerSessionMixin`,
161
+ * which every product does, `track.configuration` resolves to that working
162
+ * copy, so this memo serves `hydrateTrackConfig` and sessions without the
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+ * mixin. Both levels are `WeakMap`s so
161
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  * entries collect normally — no manual invalidation needed, which is why this
162
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  * is a memo and not a cache with a lifecycle to expose.
163
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  */
@@ -628,6 +631,12 @@ export default class PluginManager {
628
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  };
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  return this.addElementType('view', callback);
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  }
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+ // v5 has no renderer registry. A v4 plugin still calls this from `install`,
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+ // and without the method what it throws is "addRendererType is not a
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+ // function", which names neither the cause nor the fix.
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+ addRendererType(_cb) {
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+ throw new Error('addRendererType was removed in JBrowse 5 along with server-side renderers: this plugin was built for JBrowse 4 or earlier and has to draw from a display instead, as the "Upgrading to v5" guide describes');
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+ }
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  addWidgetType(cb) {
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  return this.addElementType('widget', cb);
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  }