@jbrowse/plugin-linear-genome-view 3.6.5 → 4.0.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (392) hide show
  1. package/esm/BaseLinearDisplay/SVGLegend.d.ts +6 -0
  2. package/esm/BaseLinearDisplay/SVGLegend.js +17 -0
  3. package/esm/BaseLinearDisplay/calculateSvgLegendWidth.d.ts +2 -0
  4. package/esm/BaseLinearDisplay/calculateSvgLegendWidth.js +11 -0
  5. package/esm/BaseLinearDisplay/components/BaseLinearDisplay.d.ts +3 -3
  6. package/esm/BaseLinearDisplay/components/BaseLinearDisplay.js +13 -24
  7. package/esm/BaseLinearDisplay/components/Block.js +2 -2
  8. package/esm/BaseLinearDisplay/components/BlockErrorMessage.js +2 -2
  9. package/esm/BaseLinearDisplay/components/BlockMsg.js +11 -2
  10. package/esm/BaseLinearDisplay/components/CollapseIntronsDialog/CollapseIntronsDialog.d.ts +9 -0
  11. package/esm/BaseLinearDisplay/components/CollapseIntronsDialog/CollapseIntronsDialog.js +42 -0
  12. package/esm/BaseLinearDisplay/components/CollapseIntronsDialog/TranscriptTable.d.ts +11 -0
  13. package/esm/BaseLinearDisplay/components/CollapseIntronsDialog/TranscriptTable.js +40 -0
  14. package/esm/BaseLinearDisplay/components/CollapseIntronsDialog/util.d.ts +19 -0
  15. package/esm/BaseLinearDisplay/components/CollapseIntronsDialog/util.js +45 -0
  16. package/esm/BaseLinearDisplay/components/FloatingLabels.d.ts +5 -0
  17. package/esm/BaseLinearDisplay/components/FloatingLabels.js +89 -0
  18. package/esm/BaseLinearDisplay/components/FloatingLegend.d.ts +8 -0
  19. package/esm/BaseLinearDisplay/components/FloatingLegend.js +43 -0
  20. package/esm/BaseLinearDisplay/components/LinearBlocks.d.ts +1 -5
  21. package/esm/BaseLinearDisplay/components/LinearBlocks.js +5 -42
  22. package/esm/BaseLinearDisplay/components/LoadingOverlay.d.ts +4 -0
  23. package/esm/BaseLinearDisplay/components/LoadingOverlay.js +49 -0
  24. package/esm/BaseLinearDisplay/components/MaxHeightReachedIndicator.d.ts +4 -0
  25. package/esm/BaseLinearDisplay/components/MaxHeightReachedIndicator.js +26 -0
  26. package/esm/BaseLinearDisplay/components/MenuPage.d.ts +8 -0
  27. package/esm/BaseLinearDisplay/components/MenuPage.js +24 -0
  28. package/esm/BaseLinearDisplay/components/NonBlockCanvasDisplayComponent.d.ts +19 -0
  29. package/esm/BaseLinearDisplay/components/NonBlockCanvasDisplayComponent.js +48 -0
  30. package/esm/BaseLinearDisplay/components/RenderedBlocks.d.ts +12 -0
  31. package/esm/BaseLinearDisplay/components/RenderedBlocks.js +22 -0
  32. package/esm/BaseLinearDisplay/components/ServerSideRenderedBlockContent.d.ts +4 -4
  33. package/esm/BaseLinearDisplay/components/ServerSideRenderedBlockContent.js +5 -8
  34. package/esm/BaseLinearDisplay/components/TooLargeMessage.js +3 -3
  35. package/esm/BaseLinearDisplay/components/Tooltip.d.ts +2 -0
  36. package/esm/BaseLinearDisplay/components/Tooltip.js +10 -7
  37. package/esm/BaseLinearDisplay/components/types.d.ts +1 -0
  38. package/esm/BaseLinearDisplay/components/types.js +1 -0
  39. package/esm/BaseLinearDisplay/components/util.d.ts +21 -0
  40. package/esm/BaseLinearDisplay/components/util.js +116 -0
  41. package/esm/BaseLinearDisplay/index.d.ts +17 -8
  42. package/esm/BaseLinearDisplay/index.js +13 -6
  43. package/esm/BaseLinearDisplay/model.d.ts +1177 -0
  44. package/esm/BaseLinearDisplay/model.js +424 -0
  45. package/esm/BaseLinearDisplay/models/FeatureDensityMixin.d.ts +5 -5
  46. package/esm/BaseLinearDisplay/models/FeatureDensityMixin.js +11 -14
  47. package/esm/BaseLinearDisplay/models/NonBlockCanvasDisplayMixin.d.ts +21 -0
  48. package/esm/BaseLinearDisplay/models/NonBlockCanvasDisplayMixin.js +46 -0
  49. package/esm/BaseLinearDisplay/models/TrackHeightMixin.d.ts +3 -3
  50. package/esm/BaseLinearDisplay/models/TrackHeightMixin.js +2 -3
  51. package/esm/BaseLinearDisplay/models/autorunFeatureDensityStats.d.ts +1 -1
  52. package/esm/BaseLinearDisplay/models/autorunFeatureDensityStats.js +2 -3
  53. package/esm/BaseLinearDisplay/models/calculateLabelPositions.d.ts +24 -0
  54. package/esm/BaseLinearDisplay/models/calculateLabelPositions.js +60 -0
  55. package/esm/BaseLinearDisplay/models/configSchema.d.ts +2 -2
  56. package/esm/BaseLinearDisplay/models/configSchema.js +3 -3
  57. package/esm/BaseLinearDisplay/models/renderSvg.d.ts +3 -7
  58. package/esm/BaseLinearDisplay/models/renderSvg.js +22 -11
  59. package/esm/BaseLinearDisplay/models/serverSideRenderedBlock.d.ts +37 -19
  60. package/esm/BaseLinearDisplay/models/serverSideRenderedBlock.js +151 -135
  61. package/esm/BaseLinearDisplay/models/util.d.ts +4 -4
  62. package/esm/BaseLinearDisplay/models/util.js +16 -13
  63. package/esm/BaseLinearDisplay/renderSvg.d.ts +3 -0
  64. package/esm/BaseLinearDisplay/renderSvg.js +59 -0
  65. package/esm/BaseLinearDisplay/types.d.ts +47 -0
  66. package/esm/BaseLinearDisplay/types.js +3 -0
  67. package/esm/BaseLinearDisplay/util.d.ts +15 -0
  68. package/esm/BaseLinearDisplay/util.js +61 -0
  69. package/esm/BasicTrack/configSchema.d.ts +16 -11
  70. package/esm/BasicTrack/index.js +1 -1
  71. package/esm/FeatureTrack/configSchema.d.ts +16 -11
  72. package/esm/FeatureTrack/index.js +1 -1
  73. package/esm/LaunchLinearGenomeView/index.js +12 -62
  74. package/esm/LinearBareDisplay/configSchema.d.ts +4 -4
  75. package/esm/LinearBareDisplay/configSchema.js +1 -1
  76. package/esm/LinearBareDisplay/index.d.ts +2 -2
  77. package/esm/LinearBareDisplay/index.js +5 -5
  78. package/esm/LinearBareDisplay/model.d.ts +959 -92
  79. package/esm/LinearBareDisplay/model.js +3 -6
  80. package/esm/LinearBasicDisplay/components/LinearBasicDisplayComponent.d.ts +5 -0
  81. package/esm/LinearBasicDisplay/components/LinearBasicDisplayComponent.js +9 -0
  82. package/esm/LinearBasicDisplay/configSchema.d.ts +4 -4
  83. package/esm/LinearBasicDisplay/configSchema.js +1 -1
  84. package/esm/LinearBasicDisplay/index.d.ts +2 -2
  85. package/esm/LinearBasicDisplay/index.js +6 -6
  86. package/esm/LinearBasicDisplay/model.d.ts +1134 -122
  87. package/esm/LinearBasicDisplay/model.js +116 -116
  88. package/esm/{LinearBasicDisplay → LinearFeatureDisplay}/components/AddFiltersDialog.js +2 -2
  89. package/esm/{LinearBasicDisplay → LinearFeatureDisplay}/components/SetMaxHeightDialog.js +3 -3
  90. package/{dist/LinearBasicDisplay → esm/LinearFeatureDisplay}/configSchema.d.ts +4 -4
  91. package/esm/LinearFeatureDisplay/configSchema.js +11 -0
  92. package/esm/LinearFeatureDisplay/index.d.ts +3 -0
  93. package/esm/LinearFeatureDisplay/index.js +2 -0
  94. package/esm/LinearFeatureDisplay/model.d.ts +1415 -0
  95. package/esm/LinearFeatureDisplay/model.js +265 -0
  96. package/esm/LinearGenomeView/SVGErrorBox.d.ts +5 -0
  97. package/esm/LinearGenomeView/SVGErrorBox.js +4 -0
  98. package/esm/LinearGenomeView/afterAttach.d.ts +5 -0
  99. package/esm/LinearGenomeView/afterAttach.js +95 -0
  100. package/esm/LinearGenomeView/components/CenterLine.js +6 -4
  101. package/esm/LinearGenomeView/components/Cytobands.js +4 -4
  102. package/esm/LinearGenomeView/components/ExportSvgDialog.d.ts +1 -1
  103. package/esm/LinearGenomeView/components/ExportSvgDialog.js +5 -1
  104. package/esm/LinearGenomeView/components/GetSequenceDialog.d.ts +8 -2
  105. package/esm/LinearGenomeView/components/GetSequenceDialog.js +13 -16
  106. package/esm/LinearGenomeView/components/Gridlines.js +18 -15
  107. package/esm/LinearGenomeView/components/Header.js +9 -9
  108. package/esm/LinearGenomeView/components/HeaderPanControls.js +2 -2
  109. package/esm/LinearGenomeView/components/HeaderRegionWidth.js +4 -5
  110. package/esm/LinearGenomeView/components/HeaderTrackSelectorButton.js +2 -2
  111. package/esm/LinearGenomeView/components/HeaderZoomControls.js +3 -3
  112. package/esm/LinearGenomeView/components/Highlight.d.ts +1 -1
  113. package/esm/LinearGenomeView/components/Highlight.js +6 -6
  114. package/esm/LinearGenomeView/components/ImportForm.d.ts +1 -1
  115. package/esm/LinearGenomeView/components/ImportForm.js +14 -12
  116. package/esm/LinearGenomeView/components/ImportFormRefNameAutocomplete.js +3 -3
  117. package/esm/LinearGenomeView/components/LinearGenomeView.js +7 -7
  118. package/esm/LinearGenomeView/components/LinearGenomeViewContainer.js +7 -8
  119. package/esm/LinearGenomeView/components/MiniControls.js +6 -6
  120. package/esm/LinearGenomeView/components/NoTracksActiveButton.js +2 -2
  121. package/esm/LinearGenomeView/components/OverviewHighlight.d.ts +1 -1
  122. package/esm/LinearGenomeView/components/OverviewHighlight.js +5 -5
  123. package/esm/LinearGenomeView/components/OverviewRubberband.js +4 -4
  124. package/esm/LinearGenomeView/components/OverviewRubberbandHoverTooltip.js +9 -5
  125. package/esm/LinearGenomeView/components/OverviewScalebar.js +36 -28
  126. package/esm/LinearGenomeView/components/OverviewScalebarPolygon.js +5 -5
  127. package/esm/LinearGenomeView/components/OverviewScalebarTickLabels.js +7 -7
  128. package/esm/LinearGenomeView/components/RefNameAutocomplete/EndAdornment.js +1 -1
  129. package/esm/LinearGenomeView/components/RefNameAutocomplete/index.d.ts +1 -1
  130. package/esm/LinearGenomeView/components/RefNameAutocomplete/index.js +10 -10
  131. package/esm/LinearGenomeView/components/RegionWidthEditorDialog.d.ts +1 -1
  132. package/esm/LinearGenomeView/components/RegionWidthEditorDialog.js +6 -4
  133. package/esm/LinearGenomeView/components/Rubberband.js +9 -7
  134. package/esm/LinearGenomeView/components/RubberbandSpan.js +4 -5
  135. package/esm/LinearGenomeView/components/Scalebar.js +8 -10
  136. package/esm/LinearGenomeView/components/ScalebarCoordinateLabels.d.ts +1 -1
  137. package/esm/LinearGenomeView/components/ScalebarCoordinateLabels.js +50 -17
  138. package/esm/LinearGenomeView/components/ScalebarRefNameLabels.d.ts +1 -1
  139. package/esm/LinearGenomeView/components/ScalebarRefNameLabels.js +13 -11
  140. package/esm/LinearGenomeView/components/SearchBox.d.ts +1 -1
  141. package/esm/LinearGenomeView/components/SearchBox.js +8 -9
  142. package/esm/LinearGenomeView/components/SearchResultsDialog.d.ts +1 -1
  143. package/esm/LinearGenomeView/components/SearchResultsDialog.js +2 -2
  144. package/esm/LinearGenomeView/components/SearchResultsTable.d.ts +1 -1
  145. package/esm/LinearGenomeView/components/SearchResultsTable.js +4 -6
  146. package/esm/LinearGenomeView/components/SequenceSearchDialog.js +6 -6
  147. package/esm/LinearGenomeView/components/TrackContainer.js +32 -20
  148. package/esm/LinearGenomeView/components/TrackLabel.js +10 -11
  149. package/esm/LinearGenomeView/components/TrackLabelContainer.js +7 -8
  150. package/esm/LinearGenomeView/components/TrackLabelDragHandle.js +1 -1
  151. package/esm/LinearGenomeView/components/TrackLabelMenu.js +80 -68
  152. package/esm/LinearGenomeView/components/TrackRenderingContainer.d.ts +1 -2
  153. package/esm/LinearGenomeView/components/TrackRenderingContainer.js +5 -5
  154. package/esm/LinearGenomeView/components/TracksContainer.js +18 -15
  155. package/esm/LinearGenomeView/components/VerticalGuide.js +5 -3
  156. package/esm/LinearGenomeView/components/fetchSequence.d.ts +7 -2
  157. package/esm/LinearGenomeView/components/useRangeSelect.d.ts +27 -2
  158. package/esm/LinearGenomeView/components/useRangeSelect.js +26 -20
  159. package/esm/LinearGenomeView/components/useWheelScroll.js +22 -12
  160. package/esm/LinearGenomeView/components/util.d.ts +2 -13
  161. package/esm/LinearGenomeView/components/util.js +12 -31
  162. package/esm/LinearGenomeView/index.d.ts +1 -1
  163. package/esm/LinearGenomeView/index.js +3 -3
  164. package/esm/LinearGenomeView/keyboardHandler.d.ts +2 -0
  165. package/esm/LinearGenomeView/keyboardHandler.js +29 -0
  166. package/esm/LinearGenomeView/menuItems.d.ts +7 -0
  167. package/esm/LinearGenomeView/menuItems.js +299 -0
  168. package/esm/LinearGenomeView/model.d.ts +92 -89
  169. package/esm/LinearGenomeView/model.js +166 -414
  170. package/esm/LinearGenomeView/svgExportUtil.d.ts +9 -0
  171. package/esm/LinearGenomeView/svgExportUtil.js +6 -0
  172. package/{dist/LinearGenomeView/svgcomponents/SVGRegionSeparators.d.ts → esm/LinearGenomeView/svgcomponents/SVGGridlines.d.ts} +2 -2
  173. package/esm/LinearGenomeView/svgcomponents/SVGGridlines.js +20 -0
  174. package/esm/LinearGenomeView/svgcomponents/SVGHeader.js +5 -5
  175. package/esm/LinearGenomeView/svgcomponents/SVGLinearGenomeView.d.ts +4 -3
  176. package/esm/LinearGenomeView/svgcomponents/SVGLinearGenomeView.js +24 -12
  177. package/esm/LinearGenomeView/svgcomponents/SVGRuler.js +13 -5
  178. package/esm/LinearGenomeView/svgcomponents/SVGTracks.js +2 -2
  179. package/esm/LinearGenomeView/types.d.ts +5 -1
  180. package/esm/LinearGenomeView/util.d.ts +2 -2
  181. package/esm/LinearGenomeView/util.js +8 -6
  182. package/esm/index.d.ts +975 -94
  183. package/esm/index.js +37 -38
  184. package/esm/searchUtils.d.ts +1 -1
  185. package/esm/searchUtils.js +6 -4
  186. package/package.json +28 -33
  187. package/dist/BaseLinearDisplay/components/BaseLinearDisplay.d.ts +0 -8
  188. package/dist/BaseLinearDisplay/components/BaseLinearDisplay.js +0 -72
  189. package/dist/BaseLinearDisplay/components/Block.d.ts +0 -14
  190. package/dist/BaseLinearDisplay/components/Block.js +0 -50
  191. package/dist/BaseLinearDisplay/components/BlockErrorMessage.d.ts +0 -7
  192. package/dist/BaseLinearDisplay/components/BlockErrorMessage.js +0 -27
  193. package/dist/BaseLinearDisplay/components/BlockLoadingMessage.d.ts +0 -6
  194. package/dist/BaseLinearDisplay/components/BlockLoadingMessage.js +0 -26
  195. package/dist/BaseLinearDisplay/components/BlockMsg.d.ts +0 -6
  196. package/dist/BaseLinearDisplay/components/BlockMsg.js +0 -20
  197. package/dist/BaseLinearDisplay/components/LinearBlocks.d.ts +0 -9
  198. package/dist/BaseLinearDisplay/components/LinearBlocks.js +0 -61
  199. package/dist/BaseLinearDisplay/components/ServerSideRenderedBlockContent.d.ts +0 -11
  200. package/dist/BaseLinearDisplay/components/ServerSideRenderedBlockContent.js +0 -59
  201. package/dist/BaseLinearDisplay/components/TooLargeMessage.d.ts +0 -10
  202. package/dist/BaseLinearDisplay/components/TooLargeMessage.js +0 -25
  203. package/dist/BaseLinearDisplay/components/Tooltip.d.ts +0 -11
  204. package/dist/BaseLinearDisplay/components/Tooltip.js +0 -24
  205. package/dist/BaseLinearDisplay/index.d.ts +0 -8
  206. package/dist/BaseLinearDisplay/index.js +0 -20
  207. package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts +0 -311
  208. package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.js +0 -325
  209. package/dist/BaseLinearDisplay/models/FeatureDensityMixin.d.ts +0 -32
  210. package/dist/BaseLinearDisplay/models/FeatureDensityMixin.js +0 -122
  211. package/dist/BaseLinearDisplay/models/TrackHeightMixin.d.ts +0 -11
  212. package/dist/BaseLinearDisplay/models/TrackHeightMixin.js +0 -35
  213. package/dist/BaseLinearDisplay/models/autorunFeatureDensityStats.d.ts +0 -2
  214. package/dist/BaseLinearDisplay/models/autorunFeatureDensityStats.js +0 -33
  215. package/dist/BaseLinearDisplay/models/configSchema.d.ts +0 -29
  216. package/dist/BaseLinearDisplay/models/configSchema.js +0 -35
  217. package/dist/BaseLinearDisplay/models/renderSvg.d.ts +0 -7
  218. package/dist/BaseLinearDisplay/models/renderSvg.js +0 -80
  219. package/dist/BaseLinearDisplay/models/serverSideRenderedBlock.d.ts +0 -78
  220. package/dist/BaseLinearDisplay/models/serverSideRenderedBlock.js +0 -229
  221. package/dist/BaseLinearDisplay/models/util.d.ts +0 -22
  222. package/dist/BaseLinearDisplay/models/util.js +0 -45
  223. package/dist/BasicTrack/configSchema.d.ts +0 -80
  224. package/dist/BasicTrack/configSchema.js +0 -10
  225. package/dist/BasicTrack/index.d.ts +0 -2
  226. package/dist/BasicTrack/index.js +0 -18
  227. package/dist/FeatureTrack/configSchema.d.ts +0 -80
  228. package/dist/FeatureTrack/configSchema.js +0 -10
  229. package/dist/FeatureTrack/index.d.ts +0 -2
  230. package/dist/FeatureTrack/index.js +0 -19
  231. package/dist/LaunchLinearGenomeView/index.d.ts +0 -2
  232. package/dist/LaunchLinearGenomeView/index.js +0 -70
  233. package/dist/LinearBareDisplay/configSchema.d.ts +0 -32
  234. package/dist/LinearBareDisplay/configSchema.js +0 -13
  235. package/dist/LinearBareDisplay/index.d.ts +0 -4
  236. package/dist/LinearBareDisplay/index.js +0 -26
  237. package/dist/LinearBareDisplay/model.d.ts +0 -309
  238. package/dist/LinearBareDisplay/model.js +0 -38
  239. package/dist/LinearBasicDisplay/components/AddFiltersDialog.js +0 -61
  240. package/dist/LinearBasicDisplay/components/SetMaxHeightDialog.js +0 -28
  241. package/dist/LinearBasicDisplay/configSchema.js +0 -13
  242. package/dist/LinearBasicDisplay/index.d.ts +0 -4
  243. package/dist/LinearBasicDisplay/index.js +0 -29
  244. package/dist/LinearBasicDisplay/model.d.ts +0 -346
  245. package/dist/LinearBasicDisplay/model.js +0 -192
  246. package/dist/LinearGenomeView/components/CenterLine.d.ts +0 -6
  247. package/dist/LinearGenomeView/components/CenterLine.js +0 -38
  248. package/dist/LinearGenomeView/components/Cytobands.d.ts +0 -9
  249. package/dist/LinearGenomeView/components/Cytobands.js +0 -89
  250. package/dist/LinearGenomeView/components/ExportSvgDialog.d.ts +0 -7
  251. package/dist/LinearGenomeView/components/ExportSvgDialog.js +0 -57
  252. package/dist/LinearGenomeView/components/GetSequenceDialog.d.ts +0 -6
  253. package/dist/LinearGenomeView/components/GetSequenceDialog.js +0 -109
  254. package/dist/LinearGenomeView/components/Gridlines.d.ts +0 -7
  255. package/dist/LinearGenomeView/components/Gridlines.js +0 -70
  256. package/dist/LinearGenomeView/components/Header.d.ts +0 -5
  257. package/dist/LinearGenomeView/components/Header.js +0 -38
  258. package/dist/LinearGenomeView/components/HeaderPanControls.d.ts +0 -6
  259. package/dist/LinearGenomeView/components/HeaderPanControls.js +0 -27
  260. package/dist/LinearGenomeView/components/HeaderRegionWidth.d.ts +0 -5
  261. package/dist/LinearGenomeView/components/HeaderRegionWidth.js +0 -21
  262. package/dist/LinearGenomeView/components/HeaderTrackSelectorButton.d.ts +0 -5
  263. package/dist/LinearGenomeView/components/HeaderTrackSelectorButton.js +0 -19
  264. package/dist/LinearGenomeView/components/HeaderZoomControls.d.ts +0 -5
  265. package/dist/LinearGenomeView/components/HeaderZoomControls.js +0 -109
  266. package/dist/LinearGenomeView/components/Highlight.d.ts +0 -12
  267. package/dist/LinearGenomeView/components/Highlight.js +0 -95
  268. package/dist/LinearGenomeView/components/ImportForm.d.ts +0 -6
  269. package/dist/LinearGenomeView/components/ImportForm.js +0 -80
  270. package/dist/LinearGenomeView/components/ImportFormRefNameAutocomplete.d.ts +0 -11
  271. package/dist/LinearGenomeView/components/ImportFormRefNameAutocomplete.js +0 -32
  272. package/dist/LinearGenomeView/components/LinearGenomeView.d.ts +0 -5
  273. package/dist/LinearGenomeView/components/LinearGenomeView.js +0 -57
  274. package/dist/LinearGenomeView/components/LinearGenomeViewContainer.d.ts +0 -5
  275. package/dist/LinearGenomeView/components/LinearGenomeViewContainer.js +0 -98
  276. package/dist/LinearGenomeView/components/MiniControls.d.ts +0 -5
  277. package/dist/LinearGenomeView/components/MiniControls.js +0 -36
  278. package/dist/LinearGenomeView/components/NoTracksActiveButton.d.ts +0 -5
  279. package/dist/LinearGenomeView/components/NoTracksActiveButton.js +0 -23
  280. package/dist/LinearGenomeView/components/OverviewHighlight.d.ts +0 -8
  281. package/dist/LinearGenomeView/components/OverviewHighlight.js +0 -50
  282. package/dist/LinearGenomeView/components/OverviewRubberband.d.ts +0 -9
  283. package/dist/LinearGenomeView/components/OverviewRubberband.js +0 -113
  284. package/dist/LinearGenomeView/components/OverviewRubberbandHoverTooltip.d.ts +0 -10
  285. package/dist/LinearGenomeView/components/OverviewRubberbandHoverTooltip.js +0 -28
  286. package/dist/LinearGenomeView/components/OverviewScalebar.d.ts +0 -7
  287. package/dist/LinearGenomeView/components/OverviewScalebar.js +0 -146
  288. package/dist/LinearGenomeView/components/OverviewScalebarPolygon.d.ts +0 -8
  289. package/dist/LinearGenomeView/components/OverviewScalebarPolygon.js +0 -41
  290. package/dist/LinearGenomeView/components/OverviewScalebarTickLabels.d.ts +0 -10
  291. package/dist/LinearGenomeView/components/OverviewScalebarTickLabels.js +0 -37
  292. package/dist/LinearGenomeView/components/RefNameAutocomplete/AutocompleteTextField.d.ts +0 -8
  293. package/dist/LinearGenomeView/components/RefNameAutocomplete/AutocompleteTextField.js +0 -18
  294. package/dist/LinearGenomeView/components/RefNameAutocomplete/EndAdornment.d.ts +0 -3
  295. package/dist/LinearGenomeView/components/RefNameAutocomplete/EndAdornment.js +0 -56
  296. package/dist/LinearGenomeView/components/RefNameAutocomplete/HelpDialog.d.ts +0 -3
  297. package/dist/LinearGenomeView/components/RefNameAutocomplete/HelpDialog.js +0 -11
  298. package/dist/LinearGenomeView/components/RefNameAutocomplete/index.d.ts +0 -16
  299. package/dist/LinearGenomeView/components/RefNameAutocomplete/index.js +0 -127
  300. package/dist/LinearGenomeView/components/RefNameAutocomplete/util.d.ts +0 -10
  301. package/dist/LinearGenomeView/components/RefNameAutocomplete/util.js +0 -53
  302. package/dist/LinearGenomeView/components/RegionWidthEditorDialog.d.ts +0 -6
  303. package/dist/LinearGenomeView/components/RegionWidthEditorDialog.js +0 -30
  304. package/dist/LinearGenomeView/components/Rubberband.d.ts +0 -7
  305. package/dist/LinearGenomeView/components/Rubberband.js +0 -35
  306. package/dist/LinearGenomeView/components/RubberbandSpan.d.ts +0 -15
  307. package/dist/LinearGenomeView/components/RubberbandSpan.js +0 -39
  308. package/dist/LinearGenomeView/components/RubberbandTooltip.d.ts +0 -5
  309. package/dist/LinearGenomeView/components/RubberbandTooltip.js +0 -20
  310. package/dist/LinearGenomeView/components/Scalebar.d.ts +0 -10
  311. package/dist/LinearGenomeView/components/Scalebar.js +0 -40
  312. package/dist/LinearGenomeView/components/ScalebarCoordinateLabels.d.ts +0 -6
  313. package/dist/LinearGenomeView/components/ScalebarCoordinateLabels.js +0 -29
  314. package/dist/LinearGenomeView/components/ScalebarCoordinateTicks.d.ts +0 -6
  315. package/dist/LinearGenomeView/components/ScalebarCoordinateTicks.js +0 -38
  316. package/dist/LinearGenomeView/components/ScalebarRefNameLabels.d.ts +0 -6
  317. package/dist/LinearGenomeView/components/ScalebarRefNameLabels.js +0 -46
  318. package/dist/LinearGenomeView/components/SearchBox.d.ts +0 -6
  319. package/dist/LinearGenomeView/components/SearchBox.js +0 -88
  320. package/dist/LinearGenomeView/components/SearchResultsDialog.d.ts +0 -9
  321. package/dist/LinearGenomeView/components/SearchResultsDialog.js +0 -15
  322. package/dist/LinearGenomeView/components/SearchResultsTable.d.ts +0 -8
  323. package/dist/LinearGenomeView/components/SearchResultsTable.js +0 -74
  324. package/dist/LinearGenomeView/components/SequenceSearchDialog.d.ts +0 -8
  325. package/dist/LinearGenomeView/components/SequenceSearchDialog.js +0 -67
  326. package/dist/LinearGenomeView/components/TrackContainer.d.ts +0 -8
  327. package/dist/LinearGenomeView/components/TrackContainer.js +0 -51
  328. package/dist/LinearGenomeView/components/TrackLabel.d.ts +0 -7
  329. package/dist/LinearGenomeView/components/TrackLabel.js +0 -49
  330. package/dist/LinearGenomeView/components/TrackLabelContainer.d.ts +0 -8
  331. package/dist/LinearGenomeView/components/TrackLabelContainer.js +0 -31
  332. package/dist/LinearGenomeView/components/TrackLabelDragHandle.d.ts +0 -8
  333. package/dist/LinearGenomeView/components/TrackLabelDragHandle.js +0 -32
  334. package/dist/LinearGenomeView/components/TrackLabelMenu.d.ts +0 -5
  335. package/dist/LinearGenomeView/components/TrackLabelMenu.js +0 -93
  336. package/dist/LinearGenomeView/components/TrackRenderingContainer.d.ts +0 -9
  337. package/dist/LinearGenomeView/components/TrackRenderingContainer.js +0 -50
  338. package/dist/LinearGenomeView/components/TracksContainer.d.ts +0 -7
  339. package/dist/LinearGenomeView/components/TracksContainer.js +0 -84
  340. package/dist/LinearGenomeView/components/VerticalGuide.d.ts +0 -7
  341. package/dist/LinearGenomeView/components/VerticalGuide.js +0 -31
  342. package/dist/LinearGenomeView/components/fetchSequence.d.ts +0 -4
  343. package/dist/LinearGenomeView/components/fetchSequence.js +0 -29
  344. package/dist/LinearGenomeView/components/useRangeSelect.d.ts +0 -59
  345. package/dist/LinearGenomeView/components/useRangeSelect.js +0 -131
  346. package/dist/LinearGenomeView/components/useSideScroll.d.ts +0 -6
  347. package/dist/LinearGenomeView/components/useSideScroll.js +0 -60
  348. package/dist/LinearGenomeView/components/useWheelScroll.d.ts +0 -7
  349. package/dist/LinearGenomeView/components/useWheelScroll.js +0 -62
  350. package/dist/LinearGenomeView/components/util.d.ts +0 -25
  351. package/dist/LinearGenomeView/components/util.js +0 -49
  352. package/dist/LinearGenomeView/consts.d.ts +0 -7
  353. package/dist/LinearGenomeView/consts.js +0 -10
  354. package/dist/LinearGenomeView/index.d.ts +0 -3
  355. package/dist/LinearGenomeView/index.js +0 -53
  356. package/dist/LinearGenomeView/model.d.ts +0 -268
  357. package/dist/LinearGenomeView/model.js +0 -1109
  358. package/dist/LinearGenomeView/svgcomponents/SVGBackground.d.ts +0 -5
  359. package/dist/LinearGenomeView/svgcomponents/SVGBackground.js +0 -10
  360. package/dist/LinearGenomeView/svgcomponents/SVGHeader.d.ts +0 -7
  361. package/dist/LinearGenomeView/svgcomponents/SVGHeader.js +0 -47
  362. package/dist/LinearGenomeView/svgcomponents/SVGLinearGenomeView.d.ts +0 -6
  363. package/dist/LinearGenomeView/svgcomponents/SVGLinearGenomeView.js +0 -42
  364. package/dist/LinearGenomeView/svgcomponents/SVGRegionSeparators.js +0 -8
  365. package/dist/LinearGenomeView/svgcomponents/SVGRuler.d.ts +0 -7
  366. package/dist/LinearGenomeView/svgcomponents/SVGRuler.js +0 -39
  367. package/dist/LinearGenomeView/svgcomponents/SVGScalebar.d.ts +0 -7
  368. package/dist/LinearGenomeView/svgcomponents/SVGScalebar.js +0 -17
  369. package/dist/LinearGenomeView/svgcomponents/SVGTrackLabel.d.ts +0 -7
  370. package/dist/LinearGenomeView/svgcomponents/SVGTrackLabel.js +0 -14
  371. package/dist/LinearGenomeView/svgcomponents/SVGTracks.d.ts +0 -21
  372. package/dist/LinearGenomeView/svgcomponents/SVGTracks.js +0 -32
  373. package/dist/LinearGenomeView/svgcomponents/util.d.ts +0 -8
  374. package/dist/LinearGenomeView/svgcomponents/util.js +0 -8
  375. package/dist/LinearGenomeView/types.d.ts +0 -43
  376. package/dist/LinearGenomeView/types.js +0 -2
  377. package/dist/LinearGenomeView/util.d.ts +0 -26
  378. package/dist/LinearGenomeView/util.js +0 -138
  379. package/dist/index.d.ts +0 -353
  380. package/dist/index.js +0 -120
  381. package/dist/searchUtils.d.ts +0 -26
  382. package/dist/searchUtils.js +0 -80
  383. package/esm/BaseLinearDisplay/components/BlockLoadingMessage.d.ts +0 -6
  384. package/esm/BaseLinearDisplay/components/BlockLoadingMessage.js +0 -24
  385. package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts +0 -311
  386. package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.js +0 -286
  387. package/esm/LinearBasicDisplay/components/AddFiltersDialog.d.ts +0 -9
  388. package/esm/LinearBasicDisplay/components/SetMaxHeightDialog.d.ts +0 -8
  389. package/esm/LinearGenomeView/components/ScalebarCoordinateTicks.d.ts +0 -6
  390. package/esm/LinearGenomeView/components/ScalebarCoordinateTicks.js +0 -36
  391. /package/{dist/LinearBasicDisplay → esm/LinearFeatureDisplay}/components/AddFiltersDialog.d.ts +0 -0
  392. /package/{dist/LinearBasicDisplay → esm/LinearFeatureDisplay}/components/SetMaxHeightDialog.d.ts +0 -0
@@ -1,80 +0,0 @@
1
- "use strict";
2
- var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
3
- if (k2 === undefined) k2 = k;
4
- var desc = Object.getOwnPropertyDescriptor(m, k);
5
- if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
6
- desc = { enumerable: true, get: function() { return m[k]; } };
7
- }
8
- Object.defineProperty(o, k2, desc);
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- }) : (function(o, m, k, k2) {
10
- if (k2 === undefined) k2 = k;
11
- o[k2] = m[k];
12
- }));
13
- var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
14
- Object.defineProperty(o, "default", { enumerable: true, value: v });
15
- }) : function(o, v) {
16
- o["default"] = v;
17
- });
18
- var __importStar = (this && this.__importStar) || (function () {
19
- var ownKeys = function(o) {
20
- ownKeys = Object.getOwnPropertyNames || function (o) {
21
- var ar = [];
22
- for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
23
- return ar;
24
- };
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- return ownKeys(o);
26
- };
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- return function (mod) {
28
- if (mod && mod.__esModule) return mod;
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- var result = {};
30
- if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
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- __setModuleDefault(result, mod);
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- return result;
33
- };
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- })();
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- Object.defineProperty(exports, "__esModule", { value: true });
36
- exports.renderBaseLinearDisplaySvg = renderBaseLinearDisplaySvg;
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- const jsx_runtime_1 = require("react/jsx-runtime");
38
- const react_1 = require("react");
39
- const util_1 = require("@jbrowse/core/util");
40
- const serverSideRenderedBlock_1 = __importStar(require("./serverSideRenderedBlock"));
41
- const util_2 = require("./util");
42
- async function renderBaseLinearDisplaySvg(self, opts) {
43
- const { height, id } = self;
44
- const { overrideHeight } = opts;
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- const view = (0, util_1.getContainingView)(self);
46
- const { offsetPx: viewOffsetPx, roundedDynamicBlocks, width } = view;
47
- const renderings = await Promise.all(roundedDynamicBlocks.map(async (block) => {
48
- const blockState = serverSideRenderedBlock_1.default.create({
49
- key: block.key,
50
- region: block,
51
- });
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- const cannotBeRenderedReason = self.regionCannotBeRenderedText(block) ||
53
- self.regionCannotBeRendered(block);
54
- if (cannotBeRenderedReason) {
55
- return [
56
- block,
57
- {
58
- reactElement: ((0, jsx_runtime_1.jsxs)(jsx_runtime_1.Fragment, { children: [(0, jsx_runtime_1.jsx)("rect", { x: 0, y: 0, width: width, height: 20, fill: "#aaa" }), (0, jsx_runtime_1.jsx)("text", { x: 0, y: 15, children: cannotBeRenderedReason })] })),
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- },
60
- ];
61
- }
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- const { rpcManager, renderArgs, renderProps, rendererType } = (0, serverSideRenderedBlock_1.renderBlockData)(blockState, self);
63
- return [
64
- block,
65
- await rendererType.renderInClient(rpcManager, {
66
- ...renderArgs,
67
- ...renderProps,
68
- viewParams: (0, util_1.getViewParams)(self, true),
69
- exportSVG: opts,
70
- theme: opts.theme || renderProps.theme,
71
- }),
72
- ];
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- }));
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- return ((0, jsx_runtime_1.jsx)(jsx_runtime_1.Fragment, { children: renderings.map(([block, rendering], index) => {
75
- const { offsetPx, widthPx } = block;
76
- const offset = offsetPx - viewOffsetPx;
77
- const clipid = (0, util_2.getId)(id, index);
78
- return ((0, jsx_runtime_1.jsxs)(react_1.Fragment, { children: [(0, jsx_runtime_1.jsx)("defs", { children: (0, jsx_runtime_1.jsx)("clipPath", { id: clipid, children: (0, jsx_runtime_1.jsx)("rect", { x: 0, y: 0, width: widthPx, height: overrideHeight || height }) }) }), (0, jsx_runtime_1.jsx)("g", { transform: `translate(${offset} 0)`, children: (0, jsx_runtime_1.jsx)("g", { clipPath: `url(#${clipid})`, children: (0, jsx_runtime_1.jsx)(util_1.ReactRendering, { rendering: rendering }) }) })] }, `frag-${index}`));
79
- }) }));
80
- }
@@ -1,78 +0,0 @@
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- import type React from 'react';
2
- import type { Feature } from '@jbrowse/core/util';
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- import type { AbstractDisplayModel, Region } from '@jbrowse/core/util/types';
4
- import type { Instance } from 'mobx-state-tree';
5
- export interface RenderedProps {
6
- reactElement: React.ReactElement;
7
- features: Map<string, Feature>;
8
- layout: any;
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- maxHeightReached: boolean;
10
- renderProps: any;
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- }
12
- declare const blockState: import("mobx-state-tree").IModelType<{
13
- key: import("mobx-state-tree").ISimpleType<string>;
14
- region: import("mobx-state-tree").IType<Region, Region, Region>;
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- reloadFlag: import("mobx-state-tree").IType<number | undefined, number, number>;
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- isLeftEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
17
- isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
18
- }, {
19
- stopToken: string | undefined;
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- filled: boolean;
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- reactElement: React.ReactElement | undefined;
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- features: Map<string, Feature> | undefined;
23
- layout: any;
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- status: string;
25
- error: unknown;
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- message: string | undefined;
27
- maxHeightReached: boolean;
28
- ReactComponent: ({ model, }: {
29
- model: {
30
- error?: unknown;
31
- reload: () => void;
32
- message: React.ReactNode;
33
- filled?: boolean;
34
- status?: string;
35
- reactElement?: React.ReactElement;
36
- };
37
- }) => import("react/jsx-runtime").JSX.Element | undefined;
38
- renderProps: any;
39
- } & {
40
- doReload(): void;
41
- afterAttach(): void;
42
- setStatus(message: string): void;
43
- setLoading(newStopToken: string): void;
44
- setMessage(messageText: string): void;
45
- setRendered(props: RenderedProps | undefined): void;
46
- setError(error: unknown): void;
47
- reload(): void;
48
- beforeDestroy(): void;
49
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
50
- export default blockState;
51
- export type BlockStateModel = typeof blockState;
52
- export type BlockModel = Instance<BlockStateModel>;
53
- export declare function renderBlockData(self: BlockModel, optDisplay?: AbstractDisplayModel): {
54
- rendererType: any;
55
- rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
56
- renderProps: any;
57
- cannotBeRenderedReason: any;
58
- displayError: any;
59
- renderArgs: {
60
- statusCallback: (message: string) => void;
61
- assemblyName: string;
62
- regions: (Region & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IType<Region, Region, Region>>)[];
63
- adapterConfig: any;
64
- rendererType: any;
65
- sessionId: string;
66
- layoutId: string;
67
- blockKey: string;
68
- reloadFlag: number;
69
- timeout: number;
70
- };
71
- } | {
72
- displayError: unknown;
73
- rendererType?: undefined;
74
- rpcManager?: undefined;
75
- renderProps?: undefined;
76
- cannotBeRenderedReason?: undefined;
77
- renderArgs?: undefined;
78
- };
@@ -1,229 +0,0 @@
1
- "use strict";
2
- var __importDefault = (this && this.__importDefault) || function (mod) {
3
- return (mod && mod.__esModule) ? mod : { "default": mod };
4
- };
5
- Object.defineProperty(exports, "__esModule", { value: true });
6
- exports.renderBlockData = renderBlockData;
7
- const configuration_1 = require("@jbrowse/core/configuration");
8
- const util_1 = require("@jbrowse/core/util");
9
- const stopToken_1 = require("@jbrowse/core/util/stopToken");
10
- const tracks_1 = require("@jbrowse/core/util/tracks");
11
- const types_1 = require("@jbrowse/core/util/types");
12
- const mobx_state_tree_1 = require("mobx-state-tree");
13
- const ServerSideRenderedBlockContent_1 = __importDefault(require("../components/ServerSideRenderedBlockContent"));
14
- const blockState = mobx_state_tree_1.types
15
- .model('BlockState', {
16
- key: mobx_state_tree_1.types.string,
17
- region: mobx_state_tree_1.types.frozen(),
18
- reloadFlag: 0,
19
- isLeftEndOfDisplayedRegion: false,
20
- isRightEndOfDisplayedRegion: false,
21
- })
22
- .volatile(() => ({
23
- stopToken: undefined,
24
- filled: false,
25
- reactElement: undefined,
26
- features: undefined,
27
- layout: undefined,
28
- status: '',
29
- error: undefined,
30
- message: undefined,
31
- maxHeightReached: false,
32
- ReactComponent: ServerSideRenderedBlockContent_1.default,
33
- renderProps: undefined,
34
- }))
35
- .actions(self => ({
36
- doReload() {
37
- self.reloadFlag = self.reloadFlag + 1;
38
- },
39
- afterAttach() {
40
- const display = (0, util_1.getContainingDisplay)(self);
41
- setTimeout(() => {
42
- if ((0, mobx_state_tree_1.isAlive)(self)) {
43
- (0, util_1.makeAbortableReaction)(self, renderBlockData, renderBlockEffect, {
44
- name: `${display.id}/${(0, util_1.assembleLocString)(self.region)} rendering`,
45
- delay: display.renderDelay,
46
- fireImmediately: true,
47
- }, this.setLoading, this.setRendered, this.setError);
48
- }
49
- }, display.renderDelay);
50
- },
51
- setStatus(message) {
52
- self.status = message;
53
- },
54
- setLoading(newStopToken) {
55
- if (self.stopToken !== undefined) {
56
- (0, stopToken_1.stopStopToken)(self.stopToken);
57
- }
58
- self.filled = false;
59
- self.message = undefined;
60
- self.reactElement = undefined;
61
- self.features = undefined;
62
- self.layout = undefined;
63
- self.error = undefined;
64
- self.maxHeightReached = false;
65
- self.renderProps = undefined;
66
- self.stopToken = newStopToken;
67
- },
68
- setMessage(messageText) {
69
- if (self.stopToken !== undefined) {
70
- (0, stopToken_1.stopStopToken)(self.stopToken);
71
- }
72
- self.filled = false;
73
- self.message = messageText;
74
- self.reactElement = undefined;
75
- self.features = undefined;
76
- self.layout = undefined;
77
- self.error = undefined;
78
- self.maxHeightReached = false;
79
- self.renderProps = undefined;
80
- self.stopToken = undefined;
81
- },
82
- setRendered(props) {
83
- if (!props) {
84
- return;
85
- }
86
- const { reactElement, features, layout, maxHeightReached, renderProps } = props;
87
- self.filled = true;
88
- self.message = undefined;
89
- self.reactElement = reactElement;
90
- self.features = features;
91
- self.layout = layout;
92
- self.error = undefined;
93
- self.maxHeightReached = maxHeightReached;
94
- self.renderProps = renderProps;
95
- self.stopToken = undefined;
96
- },
97
- setError(error) {
98
- console.error(error);
99
- if (self.stopToken !== undefined) {
100
- (0, stopToken_1.stopStopToken)(self.stopToken);
101
- }
102
- self.filled = false;
103
- self.message = undefined;
104
- self.reactElement = undefined;
105
- self.features = undefined;
106
- self.layout = undefined;
107
- self.maxHeightReached = false;
108
- self.error = error;
109
- self.renderProps = undefined;
110
- self.stopToken = undefined;
111
- if ((0, types_1.isRetryException)(error)) {
112
- this.reload();
113
- }
114
- },
115
- reload() {
116
- self.stopToken = undefined;
117
- self.filled = false;
118
- self.reactElement = undefined;
119
- self.features = undefined;
120
- self.layout = undefined;
121
- self.error = undefined;
122
- self.message = undefined;
123
- self.maxHeightReached = false;
124
- self.ReactComponent = ServerSideRenderedBlockContent_1.default;
125
- self.renderProps = undefined;
126
- (0, mobx_state_tree_1.getParent)(self, 2).reload();
127
- },
128
- beforeDestroy() {
129
- ;
130
- (async () => {
131
- try {
132
- if (self.stopToken !== undefined) {
133
- (0, stopToken_1.stopStopToken)(self.stopToken);
134
- }
135
- const display = (0, util_1.getContainingDisplay)(self);
136
- const { rpcManager } = (0, util_1.getSession)(self);
137
- const { rendererType } = display;
138
- const { renderArgs } = renderBlockData((0, mobx_state_tree_1.cast)(self));
139
- if (renderArgs) {
140
- await rendererType.freeResourcesInClient(rpcManager, JSON.parse(JSON.stringify(renderArgs)));
141
- }
142
- }
143
- catch (e) {
144
- console.error('Error while destroying block', e);
145
- }
146
- })();
147
- },
148
- }));
149
- exports.default = blockState;
150
- function renderBlockData(self, optDisplay) {
151
- try {
152
- const display = optDisplay || (0, util_1.getContainingDisplay)(self);
153
- const { assemblyManager, rpcManager } = (0, util_1.getSession)(display);
154
- const { adapterConfig, rendererType, error, parentTrack } = display;
155
- const assemblyNames = (0, tracks_1.getTrackAssemblyNames)(parentTrack);
156
- const regionAsm = self.region.assemblyName;
157
- if (!assemblyNames.includes(regionAsm) &&
158
- !assemblyNames.some(name => { var _a; return (_a = assemblyManager.get(name)) === null || _a === void 0 ? void 0 : _a.hasName(regionAsm); })) {
159
- throw new Error(`region assembly (${regionAsm}) does not match track assemblies (${assemblyNames})`);
160
- }
161
- const renderProps = display.renderProps();
162
- const { config } = renderProps;
163
- (0, configuration_1.readConfObject)(config);
164
- const sessionId = (0, tracks_1.getRpcSessionId)(display);
165
- const layoutId = (0, util_1.getContainingTrack)(display).id;
166
- const cannotBeRenderedReason = display.regionCannotBeRendered(self.region);
167
- return {
168
- rendererType,
169
- rpcManager,
170
- renderProps,
171
- cannotBeRenderedReason,
172
- displayError: error,
173
- renderArgs: {
174
- statusCallback: (message) => {
175
- if ((0, mobx_state_tree_1.isAlive)(self)) {
176
- self.setStatus(message);
177
- }
178
- },
179
- assemblyName: self.region.assemblyName,
180
- regions: [self.region],
181
- adapterConfig,
182
- rendererType: rendererType.name,
183
- sessionId,
184
- layoutId,
185
- blockKey: self.key,
186
- reloadFlag: self.reloadFlag,
187
- timeout: 1000000,
188
- },
189
- };
190
- }
191
- catch (e) {
192
- return { displayError: e };
193
- }
194
- }
195
- async function renderBlockEffect(props, stopToken, self) {
196
- if (!props) {
197
- return;
198
- }
199
- const { rendererType, renderProps, rpcManager, renderArgs, cannotBeRenderedReason, displayError, } = props;
200
- if (!(0, mobx_state_tree_1.isAlive)(self)) {
201
- return undefined;
202
- }
203
- else if (displayError) {
204
- self.setError(displayError);
205
- return undefined;
206
- }
207
- else if (cannotBeRenderedReason) {
208
- self.setMessage(cannotBeRenderedReason);
209
- return undefined;
210
- }
211
- else if (renderProps.notReady) {
212
- return undefined;
213
- }
214
- else {
215
- const { reactElement, features, layout, maxHeightReached } = await rendererType.renderInClient(rpcManager, {
216
- ...renderArgs,
217
- ...renderProps,
218
- viewParams: (0, util_1.getViewParams)(self),
219
- stopToken,
220
- });
221
- return {
222
- reactElement,
223
- features,
224
- layout,
225
- maxHeightReached,
226
- renderProps,
227
- };
228
- }
229
- }
@@ -1,22 +0,0 @@
1
- import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
2
- import type { FeatureDensityStats } from '@jbrowse/core/data_adapters/BaseAdapter';
3
- import type { IAnyStateTreeNode } from 'mobx-state-tree';
4
- export interface RenderProps {
5
- rendererType: any;
6
- renderArgs: Record<string, any>;
7
- renderProps: Record<string, any>;
8
- displayError: unknown;
9
- rpcManager: {
10
- call: (...args: unknown[]) => void;
11
- };
12
- cannotBeRenderedReason: string;
13
- }
14
- export interface ErrorProps {
15
- displayError: string;
16
- }
17
- export declare function getDisplayStr(totalBytes: number): string;
18
- export declare function getId(id: string, index: number): string;
19
- export declare function getFeatureDensityStatsPre(self: IAnyStateTreeNode & {
20
- adapterConfig?: AnyConfigurationModel;
21
- setMessage: (arg: string) => void;
22
- }): Promise<FeatureDensityStats>;
@@ -1,45 +0,0 @@
1
- "use strict";
2
- Object.defineProperty(exports, "__esModule", { value: true });
3
- exports.getDisplayStr = getDisplayStr;
4
- exports.getId = getId;
5
- exports.getFeatureDensityStatsPre = getFeatureDensityStatsPre;
6
- const util_1 = require("@jbrowse/core/util");
7
- const tracks_1 = require("@jbrowse/core/util/tracks");
8
- const mobx_state_tree_1 = require("mobx-state-tree");
9
- function getDisplayStr(totalBytes) {
10
- if (Math.floor(totalBytes / 1000000) > 0) {
11
- return `${Number.parseFloat((totalBytes / 1000000).toPrecision(3))} Mb`;
12
- }
13
- else if (Math.floor(totalBytes / 1000) > 0) {
14
- return `${Number.parseFloat((totalBytes / 1000).toPrecision(3))} Kb`;
15
- }
16
- else {
17
- return `${Math.floor(totalBytes)} bytes`;
18
- }
19
- }
20
- function getId(id, index) {
21
- const notJest = typeof jest === 'undefined';
22
- return ['clip', notJest ? id : 'jest', index, notJest ? Math.random() : '']
23
- .filter(f => !!f)
24
- .join('-');
25
- }
26
- async function getFeatureDensityStatsPre(self) {
27
- const view = (0, util_1.getContainingView)(self);
28
- const regions = view.staticBlocks.contentBlocks;
29
- const { rpcManager } = (0, util_1.getSession)(self);
30
- const { adapterConfig } = self;
31
- if (!adapterConfig) {
32
- return {};
33
- }
34
- const sessionId = (0, tracks_1.getRpcSessionId)(self);
35
- return rpcManager.call(sessionId, 'CoreGetFeatureDensityStats', {
36
- sessionId,
37
- regions,
38
- adapterConfig,
39
- statusCallback: (message) => {
40
- if ((0, mobx_state_tree_1.isAlive)(self)) {
41
- self.setMessage(message);
42
- }
43
- },
44
- });
45
- }
@@ -1,80 +0,0 @@
1
- import type PluginManager from '@jbrowse/core/PluginManager';
2
- declare const configSchema: (pluginManager: PluginManager) => import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
3
- name: {
4
- description: string;
5
- type: string;
6
- defaultValue: string;
7
- };
8
- assemblyNames: {
9
- description: string;
10
- type: string;
11
- defaultValue: string[];
12
- };
13
- description: {
14
- description: string;
15
- type: string;
16
- defaultValue: string;
17
- };
18
- category: {
19
- description: string;
20
- type: string;
21
- defaultValue: never[];
22
- };
23
- metadata: {
24
- type: string;
25
- description: string;
26
- defaultValue: {};
27
- };
28
- adapter: import("mobx-state-tree").IAnyModelType;
29
- textSearching: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
30
- indexingAttributes: {
31
- type: string;
32
- description: string;
33
- defaultValue: string[];
34
- };
35
- indexingFeatureTypesToExclude: {
36
- type: string;
37
- description: string;
38
- defaultValue: string[];
39
- };
40
- textSearchAdapter: import("mobx-state-tree").IAnyModelType;
41
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
42
- displays: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
43
- formatDetails: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
44
- feature: {
45
- type: string;
46
- description: string;
47
- defaultValue: {};
48
- contextVariable: string[];
49
- };
50
- subfeatures: {
51
- type: string;
52
- description: string;
53
- defaultValue: {};
54
- contextVariable: string[];
55
- };
56
- depth: {
57
- type: string;
58
- defaultValue: number;
59
- description: string;
60
- };
61
- maxDepth: {
62
- type: string;
63
- defaultValue: number;
64
- description: string;
65
- };
66
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
67
- formatAbout: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
68
- config: {
69
- type: string;
70
- description: string;
71
- defaultValue: {};
72
- contextVariable: string[];
73
- };
74
- hideUris: {
75
- type: string;
76
- defaultValue: boolean;
77
- };
78
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
79
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "trackId">>, "trackId">>;
80
- export default configSchema;
@@ -1,10 +0,0 @@
1
- "use strict";
2
- Object.defineProperty(exports, "__esModule", { value: true });
3
- const configuration_1 = require("@jbrowse/core/configuration");
4
- const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
5
- function x() { }
6
- const configSchema = (pluginManager) => (0, configuration_1.ConfigurationSchema)('BasicTrack', {}, {
7
- baseConfiguration: (0, pluggableElementTypes_1.createBaseTrackConfig)(pluginManager),
8
- explicitIdentifier: 'trackId',
9
- });
10
- exports.default = configSchema;
@@ -1,2 +0,0 @@
1
- import type PluginManager from '@jbrowse/core/PluginManager';
2
- export default function BasicTrackF(pm: PluginManager): void;
@@ -1,18 +0,0 @@
1
- "use strict";
2
- var __importDefault = (this && this.__importDefault) || function (mod) {
3
- return (mod && mod.__esModule) ? mod : { "default": mod };
4
- };
5
- Object.defineProperty(exports, "__esModule", { value: true });
6
- exports.default = BasicTrackF;
7
- const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
8
- const configSchema_1 = __importDefault(require("./configSchema"));
9
- function BasicTrackF(pm) {
10
- pm.addTrackType(() => {
11
- const configSchema = (0, configSchema_1.default)(pm);
12
- return new pluggableElementTypes_1.TrackType({
13
- name: 'BasicTrack',
14
- configSchema,
15
- stateModel: (0, pluggableElementTypes_1.createBaseTrackModel)(pm, 'BasicTrack', configSchema),
16
- });
17
- });
18
- }
@@ -1,80 +0,0 @@
1
- import type PluginManager from '@jbrowse/core/PluginManager';
2
- declare const configSchema: (pluginManager: PluginManager) => import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
3
- name: {
4
- description: string;
5
- type: string;
6
- defaultValue: string;
7
- };
8
- assemblyNames: {
9
- description: string;
10
- type: string;
11
- defaultValue: string[];
12
- };
13
- description: {
14
- description: string;
15
- type: string;
16
- defaultValue: string;
17
- };
18
- category: {
19
- description: string;
20
- type: string;
21
- defaultValue: never[];
22
- };
23
- metadata: {
24
- type: string;
25
- description: string;
26
- defaultValue: {};
27
- };
28
- adapter: import("mobx-state-tree").IAnyModelType;
29
- textSearching: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
30
- indexingAttributes: {
31
- type: string;
32
- description: string;
33
- defaultValue: string[];
34
- };
35
- indexingFeatureTypesToExclude: {
36
- type: string;
37
- description: string;
38
- defaultValue: string[];
39
- };
40
- textSearchAdapter: import("mobx-state-tree").IAnyModelType;
41
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
42
- displays: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
43
- formatDetails: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
44
- feature: {
45
- type: string;
46
- description: string;
47
- defaultValue: {};
48
- contextVariable: string[];
49
- };
50
- subfeatures: {
51
- type: string;
52
- description: string;
53
- defaultValue: {};
54
- contextVariable: string[];
55
- };
56
- depth: {
57
- type: string;
58
- defaultValue: number;
59
- description: string;
60
- };
61
- maxDepth: {
62
- type: string;
63
- defaultValue: number;
64
- description: string;
65
- };
66
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
67
- formatAbout: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
68
- config: {
69
- type: string;
70
- description: string;
71
- defaultValue: {};
72
- contextVariable: string[];
73
- };
74
- hideUris: {
75
- type: string;
76
- defaultValue: boolean;
77
- };
78
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
79
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "trackId">>, "trackId">>;
80
- export default configSchema;
@@ -1,10 +0,0 @@
1
- "use strict";
2
- Object.defineProperty(exports, "__esModule", { value: true });
3
- const configuration_1 = require("@jbrowse/core/configuration");
4
- const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
5
- function x() { }
6
- const configSchema = (pluginManager) => (0, configuration_1.ConfigurationSchema)('FeatureTrack', {}, {
7
- baseConfiguration: (0, pluggableElementTypes_1.createBaseTrackConfig)(pluginManager),
8
- explicitIdentifier: 'trackId',
9
- });
10
- exports.default = configSchema;
@@ -1,2 +0,0 @@
1
- import type PluginManager from '@jbrowse/core/PluginManager';
2
- export default function FeatureTrackF(pm: PluginManager): void;