@jbrowse/plugin-variants 3.7.0 → 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 (539) hide show
  1. package/esm/ChordVariantDisplay/components/ChordVariantDisplay.d.ts +11 -0
  2. package/esm/ChordVariantDisplay/components/ChordVariantDisplay.js +16 -0
  3. package/esm/ChordVariantDisplay/components/DisplayError.d.ts +9 -0
  4. package/esm/ChordVariantDisplay/components/DisplayError.js +7 -0
  5. package/esm/ChordVariantDisplay/components/Loading.d.ts +8 -0
  6. package/esm/ChordVariantDisplay/components/Loading.js +28 -0
  7. package/esm/ChordVariantDisplay/index.js +4 -4
  8. package/esm/ChordVariantDisplay/models/configSchema.d.ts +4 -5
  9. package/esm/ChordVariantDisplay/models/configSchema.js +10 -5
  10. package/esm/ChordVariantDisplay/models/renderReaction.d.ts +30 -0
  11. package/esm/ChordVariantDisplay/models/renderReaction.js +48 -0
  12. package/esm/ChordVariantDisplay/models/renderSvg.d.ts +6 -0
  13. package/esm/ChordVariantDisplay/models/renderSvg.js +12 -0
  14. package/esm/ChordVariantDisplay/models/stateModelFactory.d.ts +535 -46
  15. package/esm/ChordVariantDisplay/models/stateModelFactory.js +146 -8
  16. package/esm/LinearVariantDisplay/configSchema.d.ts +5 -5
  17. package/esm/LinearVariantDisplay/configSchema.js +2 -2
  18. package/esm/LinearVariantDisplay/index.js +6 -4
  19. package/esm/LinearVariantDisplay/model.d.ts +1086 -103
  20. package/esm/LinearVariantDisplay/model.js +10 -26
  21. package/esm/MultiLinearVariantDisplay/components/VariantDisplayComponent.d.ts +1 -1
  22. package/esm/MultiLinearVariantDisplay/components/VariantDisplayComponent.js +8 -18
  23. package/esm/MultiLinearVariantDisplay/configSchema.d.ts +6 -44
  24. package/esm/MultiLinearVariantDisplay/configSchema.js +2 -2
  25. package/esm/MultiLinearVariantDisplay/index.js +4 -3
  26. package/esm/MultiLinearVariantDisplay/model.d.ts +1031 -125
  27. package/esm/MultiLinearVariantDisplay/model.js +3 -23
  28. package/esm/MultiLinearVariantDisplay/renderSvg.d.ts +1 -1
  29. package/esm/MultiLinearVariantDisplay/renderSvg.js +4 -4
  30. package/esm/MultiLinearVariantMatrixDisplay/components/LinesConnectingMatrixToGenomicPosition.d.ts +8 -2
  31. package/esm/MultiLinearVariantMatrixDisplay/components/LinesConnectingMatrixToGenomicPosition.js +26 -23
  32. package/esm/MultiLinearVariantMatrixDisplay/components/VariantDisplayComponent.d.ts +1 -1
  33. package/esm/MultiLinearVariantMatrixDisplay/components/VariantDisplayComponent.js +9 -20
  34. package/esm/MultiLinearVariantMatrixDisplay/configSchema.d.ts +6 -6
  35. package/esm/MultiLinearVariantMatrixDisplay/configSchema.js +1 -1
  36. package/esm/MultiLinearVariantMatrixDisplay/index.js +5 -4
  37. package/esm/MultiLinearVariantMatrixDisplay/model.d.ts +1110 -131
  38. package/esm/MultiLinearVariantMatrixDisplay/model.js +22 -48
  39. package/esm/MultiLinearVariantMatrixDisplay/renderSvg.d.ts +1 -1
  40. package/esm/MultiLinearVariantMatrixDisplay/renderSvg.js +3 -3
  41. package/esm/MultiLinearVariantMatrixRenderer/MultiLinearVariantMatrixRenderer.d.ts +4 -35
  42. package/esm/MultiLinearVariantMatrixRenderer/MultiLinearVariantMatrixRenderer.js +19 -33
  43. package/esm/MultiLinearVariantMatrixRenderer/components/MultiLinearVariantMatrixRendering.d.ts +12 -1
  44. package/esm/MultiLinearVariantMatrixRenderer/components/MultiLinearVariantMatrixRendering.js +48 -22
  45. package/esm/MultiLinearVariantMatrixRenderer/configSchema.d.ts +1 -1
  46. package/esm/MultiLinearVariantMatrixRenderer/index.js +4 -4
  47. package/esm/MultiLinearVariantMatrixRenderer/makeImageData.d.ts +10 -2
  48. package/esm/MultiLinearVariantMatrixRenderer/makeImageData.js +155 -135
  49. package/esm/MultiLinearVariantMatrixRenderer/types.d.ts +2 -14
  50. package/esm/MultiLinearVariantRenderer/MultiVariantRenderer.d.ts +3 -60
  51. package/esm/MultiLinearVariantRenderer/MultiVariantRenderer.js +9 -18
  52. package/esm/MultiLinearVariantRenderer/components/MultiLinearVariantRendering.d.ts +7 -6
  53. package/esm/MultiLinearVariantRenderer/components/MultiLinearVariantRendering.js +30 -26
  54. package/esm/MultiLinearVariantRenderer/configSchema.d.ts +1 -1
  55. package/esm/MultiLinearVariantRenderer/index.js +4 -4
  56. package/esm/MultiLinearVariantRenderer/makeImageData.d.ts +14 -11
  57. package/esm/MultiLinearVariantRenderer/makeImageData.js +127 -110
  58. package/esm/MultiLinearVariantRenderer/types.d.ts +3 -20
  59. package/esm/SplitVcfTabixAdapter/SplitVcfTabixAdapter.js +1 -1
  60. package/esm/SplitVcfTabixAdapter/configSchema.d.ts +2 -2
  61. package/esm/SplitVcfTabixAdapter/index.d.ts +1 -1
  62. package/esm/SplitVcfTabixAdapter/index.js +3 -3
  63. package/esm/StructuralVariantChordRenderer/Chord.d.ts +1 -1
  64. package/esm/StructuralVariantChordRenderer/Chord.js +41 -58
  65. package/esm/StructuralVariantChordRenderer/ReactComponent.d.ts +3 -3
  66. package/esm/StructuralVariantChordRenderer/ReactComponent.js +3 -3
  67. package/esm/StructuralVariantChordRenderer/configSchema.d.ts +2 -2
  68. package/esm/StructuralVariantChordRenderer/index.js +3 -3
  69. package/esm/Tooltip.js +2 -2
  70. package/esm/VariantFeatureWidget/AltFormatter.js +1 -1
  71. package/esm/VariantFeatureWidget/Formatter.js +2 -2
  72. package/esm/VariantFeatureWidget/LaunchBreakendPanel/BreakpointSplitViewChoiceDialog.d.ts +1 -0
  73. package/esm/VariantFeatureWidget/LaunchBreakendPanel/BreakpointSplitViewChoiceDialog.js +1 -0
  74. package/esm/VariantFeatureWidget/LaunchBreakendPanel/LaunchBreakendPanel.d.ts +1 -1
  75. package/esm/VariantFeatureWidget/LaunchBreakendPanel/LaunchBreakendPanel.js +8 -23
  76. package/esm/VariantFeatureWidget/VariantConsequence/VariantConsequenceDataGrid.js +1 -1
  77. package/esm/VariantFeatureWidget/VariantFeatureWidget.d.ts +1 -1
  78. package/esm/VariantFeatureWidget/VariantFeatureWidget.js +16 -29
  79. package/esm/VariantFeatureWidget/VariantSampleGrid/VariantGenotypeFrequencyTable.d.ts +5 -2
  80. package/esm/VariantFeatureWidget/VariantSampleGrid/VariantGenotypeFrequencyTable.js +68 -59
  81. package/esm/VariantFeatureWidget/VariantSampleGrid/VariantSampleFilters.js +13 -2
  82. package/esm/VariantFeatureWidget/VariantSampleGrid/VariantSampleGrid.d.ts +1 -1
  83. package/esm/VariantFeatureWidget/VariantSampleGrid/VariantSampleGrid.js +72 -30
  84. package/esm/VariantFeatureWidget/VariantSampleGrid/getSampleGridRows.d.ts +2 -2
  85. package/esm/VariantFeatureWidget/VariantSampleGrid/getSampleGridRows.js +49 -26
  86. package/esm/VariantFeatureWidget/VariantSampleGrid/types.d.ts +3 -5
  87. package/esm/VariantFeatureWidget/configSchema.d.ts +1 -1
  88. package/esm/VariantFeatureWidget/index.js +3 -3
  89. package/esm/VariantFeatureWidget/stateModelFactory.d.ts +39 -39
  90. package/esm/VariantFeatureWidget/stateModelFactory.js +1 -1
  91. package/esm/VariantRPC/MultiVariantClusterGenotypeMatrix.d.ts +2 -7
  92. package/esm/VariantRPC/MultiVariantClusterGenotypeMatrix.js +3 -14
  93. package/esm/VariantRPC/MultiVariantGetGenotypeMatrix.d.ts +4 -2
  94. package/esm/VariantRPC/MultiVariantGetGenotypeMatrix.js +2 -5
  95. package/esm/VariantRPC/MultiVariantGetSimplifiedFeatures.d.ts +2 -2
  96. package/esm/VariantRPC/MultiVariantGetSimplifiedFeatures.js +34 -19
  97. package/esm/VariantRPC/MultiVariantGetSources.js +2 -6
  98. package/esm/VariantRPC/executeClusterGenotypeMatrix.d.ts +22 -0
  99. package/esm/VariantRPC/executeClusterGenotypeMatrix.js +19 -0
  100. package/esm/VariantRPC/getGenotypeMatrix.d.ts +18 -3
  101. package/esm/VariantRPC/getGenotypeMatrix.js +23 -40
  102. package/esm/VariantRPC/types.d.ts +10 -24
  103. package/esm/VariantTrack/configSchema.d.ts +16 -11
  104. package/esm/VariantTrack/index.js +13 -2
  105. package/esm/VariantTrack/saveTrackFormats/vcf.d.ts +4 -0
  106. package/esm/VariantTrack/saveTrackFormats/vcf.js +15 -0
  107. package/esm/VcfAdapter/VcfAdapter.d.ts +6 -3
  108. package/esm/VcfAdapter/VcfAdapter.js +36 -24
  109. package/esm/VcfAdapter/configSchema.d.ts +2 -2
  110. package/esm/VcfAdapter/index.js +3 -2
  111. package/esm/VcfExtensionPoints/index.d.ts +2 -0
  112. package/esm/{extensionPoints.js → VcfExtensionPoints/index.js} +1 -1
  113. package/esm/VcfFeature/index.js +20 -8
  114. package/esm/VcfFeature/util.d.ts +0 -1
  115. package/esm/VcfFeature/util.js +70 -188
  116. package/esm/VcfTabixAdapter/VcfTabixAdapter.d.ts +2 -0
  117. package/esm/VcfTabixAdapter/VcfTabixAdapter.js +28 -3
  118. package/esm/VcfTabixAdapter/configSchema.d.ts +5 -5
  119. package/esm/VcfTabixAdapter/configSchema.js +1 -1
  120. package/esm/VcfTabixAdapter/index.d.ts +1 -1
  121. package/esm/VcfTabixAdapter/index.js +4 -3
  122. package/esm/d3-hierarchy2/accessors.d.ts +2 -0
  123. package/esm/d3-hierarchy2/accessors.js +8 -0
  124. package/esm/d3-hierarchy2/array.d.ts +2 -0
  125. package/esm/d3-hierarchy2/array.js +15 -0
  126. package/esm/d3-hierarchy2/cluster.d.ts +8 -0
  127. package/esm/d3-hierarchy2/cluster.js +63 -0
  128. package/esm/d3-hierarchy2/constant.d.ts +2 -0
  129. package/esm/d3-hierarchy2/constant.js +8 -0
  130. package/esm/d3-hierarchy2/hierarchy/ancestors.d.ts +1 -0
  131. package/esm/d3-hierarchy2/hierarchy/ancestors.js +7 -0
  132. package/esm/d3-hierarchy2/hierarchy/count.d.ts +1 -0
  133. package/esm/d3-hierarchy2/hierarchy/count.js +12 -0
  134. package/esm/d3-hierarchy2/hierarchy/descendants.d.ts +1 -0
  135. package/esm/d3-hierarchy2/hierarchy/descendants.js +3 -0
  136. package/esm/d3-hierarchy2/hierarchy/each.d.ts +1 -0
  137. package/esm/d3-hierarchy2/hierarchy/each.js +7 -0
  138. package/esm/d3-hierarchy2/hierarchy/eachAfter.d.ts +1 -0
  139. package/esm/d3-hierarchy2/hierarchy/eachAfter.js +15 -0
  140. package/esm/d3-hierarchy2/hierarchy/eachBefore.d.ts +1 -0
  141. package/esm/d3-hierarchy2/hierarchy/eachBefore.js +12 -0
  142. package/esm/d3-hierarchy2/hierarchy/find.d.ts +1 -0
  143. package/esm/d3-hierarchy2/hierarchy/find.js +8 -0
  144. package/esm/d3-hierarchy2/hierarchy/index.d.ts +3 -0
  145. package/esm/d3-hierarchy2/hierarchy/index.js +78 -0
  146. package/esm/d3-hierarchy2/hierarchy/iterator.d.ts +1 -0
  147. package/esm/d3-hierarchy2/hierarchy/iterator.js +14 -0
  148. package/esm/d3-hierarchy2/hierarchy/leaves.d.ts +1 -0
  149. package/esm/d3-hierarchy2/hierarchy/leaves.js +9 -0
  150. package/esm/d3-hierarchy2/hierarchy/links.d.ts +1 -0
  151. package/esm/d3-hierarchy2/hierarchy/links.js +9 -0
  152. package/esm/d3-hierarchy2/hierarchy/path.d.ts +1 -0
  153. package/esm/d3-hierarchy2/hierarchy/path.js +26 -0
  154. package/esm/d3-hierarchy2/hierarchy/sort.d.ts +1 -0
  155. package/esm/d3-hierarchy2/hierarchy/sort.js +7 -0
  156. package/esm/d3-hierarchy2/hierarchy/sum.d.ts +1 -0
  157. package/esm/d3-hierarchy2/hierarchy/sum.js +8 -0
  158. package/esm/d3-hierarchy2/index.d.ts +15 -0
  159. package/esm/d3-hierarchy2/index.js +15 -0
  160. package/esm/d3-hierarchy2/lcg.d.ts +1 -0
  161. package/esm/d3-hierarchy2/lcg.js +7 -0
  162. package/esm/d3-hierarchy2/pack/enclose.d.ts +10 -0
  163. package/esm/d3-hierarchy2/pack/enclose.js +84 -0
  164. package/esm/d3-hierarchy2/pack/index.d.ts +7 -0
  165. package/esm/d3-hierarchy2/pack/index.js +68 -0
  166. package/esm/d3-hierarchy2/pack/siblings.d.ts +2 -0
  167. package/esm/d3-hierarchy2/pack/siblings.js +94 -0
  168. package/esm/d3-hierarchy2/partition.d.ts +6 -0
  169. package/esm/d3-hierarchy2/partition.js +42 -0
  170. package/esm/d3-hierarchy2/stratify.d.ts +9 -0
  171. package/esm/d3-hierarchy2/stratify.js +115 -0
  172. package/esm/d3-hierarchy2/tree.d.ts +8 -0
  173. package/esm/d3-hierarchy2/tree.js +153 -0
  174. package/esm/d3-hierarchy2/treemap/binary.d.ts +1 -0
  175. package/esm/d3-hierarchy2/treemap/binary.js +36 -0
  176. package/esm/d3-hierarchy2/treemap/dice.d.ts +1 -0
  177. package/esm/d3-hierarchy2/treemap/dice.js +7 -0
  178. package/esm/d3-hierarchy2/treemap/index.d.ts +17 -0
  179. package/esm/d3-hierarchy2/treemap/index.js +72 -0
  180. package/esm/d3-hierarchy2/treemap/resquarify.d.ts +5 -0
  181. package/esm/d3-hierarchy2/treemap/resquarify.js +28 -0
  182. package/esm/d3-hierarchy2/treemap/round.d.ts +1 -0
  183. package/esm/d3-hierarchy2/treemap/round.js +6 -0
  184. package/esm/d3-hierarchy2/treemap/slice.d.ts +1 -0
  185. package/esm/d3-hierarchy2/treemap/slice.js +7 -0
  186. package/esm/d3-hierarchy2/treemap/sliceDice.d.ts +1 -0
  187. package/esm/d3-hierarchy2/treemap/sliceDice.js +5 -0
  188. package/esm/d3-hierarchy2/treemap/squarify.d.ts +11 -0
  189. package/esm/d3-hierarchy2/treemap/squarify.js +46 -0
  190. package/esm/index.d.ts +1 -1
  191. package/esm/index.js +19 -22
  192. package/esm/shared/MultiVariantBaseModel.d.ts +1103 -117
  193. package/esm/shared/MultiVariantBaseModel.js +231 -65
  194. package/esm/shared/SharedVariantConfigSchema.d.ts +2 -40
  195. package/esm/shared/SharedVariantConfigSchema.js +1 -46
  196. package/esm/shared/components/AddFiltersDialog.d.ts +2 -3
  197. package/esm/shared/components/AddFiltersDialog.js +20 -28
  198. package/esm/shared/components/{ui/SetColorDialog.d.ts → BaseSetColorDialog.d.ts} +2 -1
  199. package/esm/shared/components/BaseSetColorDialog.js +61 -0
  200. package/esm/shared/components/ClearTreeWarningDialog.d.ts +4 -0
  201. package/esm/shared/components/ClearTreeWarningDialog.js +9 -0
  202. package/esm/shared/components/MAFFilterDialog.d.ts +2 -3
  203. package/esm/shared/components/MAFFilterDialog.js +4 -8
  204. package/esm/shared/components/MultiVariantBaseDisplayComponent.d.ts +1 -1
  205. package/esm/shared/components/MultiVariantBaseDisplayComponent.js +8 -17
  206. package/esm/shared/components/MultiVariantClusterDialog/ClusterDialog.d.ts +1 -1
  207. package/esm/shared/components/MultiVariantClusterDialog/ClusterDialog.js +3 -3
  208. package/esm/shared/components/MultiVariantClusterDialog/ClusterDialogAuto.d.ts +1 -1
  209. package/esm/shared/components/MultiVariantClusterDialog/ClusterDialogAuto.js +9 -14
  210. package/esm/shared/components/MultiVariantClusterDialog/ClusterDialogManual.d.ts +1 -1
  211. package/esm/shared/components/MultiVariantClusterDialog/ClusterDialogManual.js +11 -15
  212. package/esm/shared/components/MultiVariantClusterDialog/types.d.ts +3 -2
  213. package/esm/shared/components/MultiVariantColorLegend.d.ts +1 -1
  214. package/esm/shared/components/MultiVariantColorLegend.js +22 -12
  215. package/esm/shared/components/MultiVariantCrosshairs.d.ts +4 -2
  216. package/esm/shared/components/MultiVariantCrosshairs.js +31 -23
  217. package/esm/shared/components/MultiVariantLegendBar.d.ts +4 -4
  218. package/esm/shared/components/MultiVariantLegendBar.js +24 -22
  219. package/esm/shared/components/MultiVariantLegendBarWrapper.d.ts +7 -0
  220. package/esm/shared/components/MultiVariantLegendBarWrapper.js +18 -0
  221. package/esm/shared/components/MultiVariantTooltip.d.ts +5 -6
  222. package/esm/shared/components/MultiVariantTooltip.js +35 -17
  223. package/esm/shared/components/ScrollableVariantContainer.d.ts +8 -0
  224. package/esm/shared/components/ScrollableVariantContainer.js +23 -0
  225. package/esm/shared/components/SetColorDialog.d.ts +3 -2
  226. package/esm/shared/components/SetColorDialog.js +2 -2
  227. package/esm/shared/components/SetColorDialogBulkEditPanel.d.ts +7 -8
  228. package/esm/shared/components/SetColorDialogBulkEditPanel.js +24 -54
  229. package/esm/shared/components/SetColorDialogRowPalettizer.js +13 -23
  230. package/esm/shared/components/SetRowHeightDialog.d.ts +2 -3
  231. package/esm/shared/components/SourcesDataGrid.d.ts +1 -1
  232. package/esm/shared/components/SourcesDataGrid.js +1 -1
  233. package/esm/shared/components/SourcesGrid.d.ts +1 -1
  234. package/esm/shared/components/SourcesGrid.js +2 -2
  235. package/esm/shared/components/SourcesGridHeader.d.ts +1 -1
  236. package/esm/shared/components/SourcesGridHeader.js +1 -1
  237. package/esm/shared/components/SvgTree.d.ts +5 -0
  238. package/esm/shared/components/SvgTree.js +19 -0
  239. package/esm/shared/components/TreeSidebar.d.ts +5 -0
  240. package/esm/shared/components/TreeSidebar.js +121 -0
  241. package/esm/shared/components/types.d.ts +43 -0
  242. package/esm/shared/components/types.js +1 -0
  243. package/esm/shared/constants.d.ts +8 -2
  244. package/esm/shared/constants.js +11 -2
  245. package/esm/shared/drawAlleleCount.d.ts +2 -1
  246. package/esm/shared/drawAlleleCount.js +50 -16
  247. package/esm/shared/drawPhased.js +11 -12
  248. package/{dist → esm/shared}/getMultiVariantFeaturesAutorun.d.ts +5 -4
  249. package/esm/{getMultiVariantFeaturesAutorun.js → shared/getMultiVariantFeaturesAutorun.js} +9 -2
  250. package/esm/{getMultiVariantSourcesAutorun.d.ts → shared/getMultiVariantSourcesAutorun.d.ts} +4 -3
  251. package/esm/{getMultiVariantSourcesAutorun.js → shared/getMultiVariantSourcesAutorun.js} +10 -2
  252. package/esm/shared/getSources.d.ts +1 -1
  253. package/esm/shared/getSources.js +2 -2
  254. package/esm/shared/hooks/useMouseTracking.d.ts +6 -0
  255. package/esm/shared/hooks/useMouseTracking.js +34 -0
  256. package/esm/shared/makeSidebarSvg.d.ts +9 -0
  257. package/esm/shared/makeSidebarSvg.js +9 -0
  258. package/esm/shared/minorAlleleFrequencyUtils.d.ts +6 -5
  259. package/esm/shared/minorAlleleFrequencyUtils.js +37 -38
  260. package/esm/shared/setupMultiVariantAutoruns.d.ts +2 -0
  261. package/esm/shared/setupMultiVariantAutoruns.js +8 -0
  262. package/esm/shared/treeDrawingAutorun.d.ts +16 -0
  263. package/esm/shared/treeDrawingAutorun.js +71 -0
  264. package/esm/shared/types.d.ts +15 -0
  265. package/package.json +38 -39
  266. package/dist/ChordVariantDisplay/index.d.ts +0 -2
  267. package/dist/ChordVariantDisplay/index.js +0 -25
  268. package/dist/ChordVariantDisplay/models/configSchema.d.ts +0 -12
  269. package/dist/ChordVariantDisplay/models/configSchema.js +0 -15
  270. package/dist/ChordVariantDisplay/models/stateModelFactory.d.ts +0 -115
  271. package/dist/ChordVariantDisplay/models/stateModelFactory.js +0 -35
  272. package/dist/LinearVariantDisplay/configSchema.d.ts +0 -34
  273. package/dist/LinearVariantDisplay/configSchema.js +0 -12
  274. package/dist/LinearVariantDisplay/index.d.ts +0 -2
  275. package/dist/LinearVariantDisplay/index.js +0 -24
  276. package/dist/LinearVariantDisplay/model.d.ts +0 -278
  277. package/dist/LinearVariantDisplay/model.js +0 -37
  278. package/dist/MultiLinearVariantDisplay/components/VariantDisplayComponent.d.ts +0 -5
  279. package/dist/MultiLinearVariantDisplay/components/VariantDisplayComponent.js +0 -29
  280. package/dist/MultiLinearVariantDisplay/configSchema.d.ts +0 -80
  281. package/dist/MultiLinearVariantDisplay/configSchema.js +0 -30
  282. package/dist/MultiLinearVariantDisplay/index.d.ts +0 -2
  283. package/dist/MultiLinearVariantDisplay/index.js +0 -57
  284. package/dist/MultiLinearVariantDisplay/model.d.ts +0 -422
  285. package/dist/MultiLinearVariantDisplay/model.js +0 -82
  286. package/dist/MultiLinearVariantDisplay/renderSvg.d.ts +0 -3
  287. package/dist/MultiLinearVariantDisplay/renderSvg.js +0 -15
  288. package/dist/MultiLinearVariantMatrixDisplay/components/LinesConnectingMatrixToGenomicPosition.d.ts +0 -6
  289. package/dist/MultiLinearVariantMatrixDisplay/components/LinesConnectingMatrixToGenomicPosition.js +0 -83
  290. package/dist/MultiLinearVariantMatrixDisplay/components/VariantDisplayComponent.d.ts +0 -5
  291. package/dist/MultiLinearVariantMatrixDisplay/components/VariantDisplayComponent.js +0 -31
  292. package/dist/MultiLinearVariantMatrixDisplay/configSchema.d.ts +0 -37
  293. package/dist/MultiLinearVariantMatrixDisplay/configSchema.js +0 -22
  294. package/dist/MultiLinearVariantMatrixDisplay/index.d.ts +0 -2
  295. package/dist/MultiLinearVariantMatrixDisplay/index.js +0 -24
  296. package/dist/MultiLinearVariantMatrixDisplay/model.d.ts +0 -431
  297. package/dist/MultiLinearVariantMatrixDisplay/model.js +0 -125
  298. package/dist/MultiLinearVariantMatrixDisplay/renderSvg.d.ts +0 -3
  299. package/dist/MultiLinearVariantMatrixDisplay/renderSvg.js +0 -17
  300. package/dist/MultiLinearVariantMatrixRenderer/MultiLinearVariantMatrixRenderer.d.ts +0 -37
  301. package/dist/MultiLinearVariantMatrixRenderer/MultiLinearVariantMatrixRenderer.js +0 -87
  302. package/dist/MultiLinearVariantMatrixRenderer/components/MultiLinearVariantMatrixRendering.d.ts +0 -8
  303. package/dist/MultiLinearVariantMatrixRenderer/components/MultiLinearVariantMatrixRendering.js +0 -41
  304. package/dist/MultiLinearVariantMatrixRenderer/configSchema.d.ts +0 -2
  305. package/dist/MultiLinearVariantMatrixRenderer/configSchema.js +0 -6
  306. package/dist/MultiLinearVariantMatrixRenderer/index.d.ts +0 -2
  307. package/dist/MultiLinearVariantMatrixRenderer/index.js +0 -20
  308. package/dist/MultiLinearVariantMatrixRenderer/makeImageData.d.ts +0 -14
  309. package/dist/MultiLinearVariantMatrixRenderer/makeImageData.js +0 -154
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@@ -1,431 +0,0 @@
1
- import type { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
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- import type { ExportSvgDisplayOptions } from '@jbrowse/plugin-linear-genome-view';
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- import type { Instance } from 'mobx-state-tree';
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- export default function stateModelFactory(configSchema: AnyConfigurationSchemaType): import("mobx-state-tree").IModelType<{
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- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
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- type: import("mobx-state-tree").ISimpleType<string>;
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- rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
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- } & {
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- heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
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- } & {
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- userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
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- userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
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- } & {
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- blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
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- key: import("mobx-state-tree").ISimpleType<string>;
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- region: import("mobx-state-tree").IType<import("@jbrowse/core/util").Region, import("@jbrowse/core/util").Region, import("@jbrowse/core/util").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>;
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- isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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- }, {
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- stopToken: string | undefined;
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- filled: boolean;
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- reactElement: React.ReactElement | undefined;
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- features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
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- layout: any;
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- status: string;
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- error: unknown;
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- message: string | undefined;
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- maxHeightReached: boolean;
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- ReactComponent: ({ model, }: {
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- model: {
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- error?: unknown;
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- reload: () => void;
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- message: React.ReactNode;
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- filled?: boolean;
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- status?: string;
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- reactElement?: React.ReactElement;
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- };
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- }) => import("react/jsx-runtime").JSX.Element | undefined;
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- renderProps: any;
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- } & {
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- doReload(): void;
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- afterAttach(): void;
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- setStatus(message: string): void;
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- setLoading(newStopToken: string): void;
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- setMessage(messageText: string): void;
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- setRendered(props: import("@jbrowse/plugin-linear-genome-view/src/BaseLinearDisplay/models/serverSideRenderedBlock").RenderedProps | undefined): void;
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- setError(error: unknown): void;
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- reload(): void;
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- beforeDestroy(): void;
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- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
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- configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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- maxFeatureScreenDensity: {
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- type: string;
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- description: string;
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- defaultValue: number;
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- };
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- fetchSizeLimit: {
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- type: string;
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- defaultValue: number;
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- description: string;
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- };
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- height: {
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- type: string;
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- defaultValue: number;
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- description: string;
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- };
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- mouseover: {
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- type: string;
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- description: string;
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- defaultValue: string;
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- contextVariable: string[];
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- };
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- jexlFilters: {
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- type: string;
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- description: string;
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- defaultValue: never[];
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- };
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- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
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- } & {
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- type: import("mobx-state-tree").ISimpleType<"LinearBareDisplay">;
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- configuration: AnyConfigurationSchemaType;
83
- } & {
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- type: import("mobx-state-tree").ISimpleType<"LinearVariantMatrixDisplay">;
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- layout: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<import("../shared/types").Source[], import("../shared/types").Source[], import("../shared/types").Source[]>, [undefined]>;
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- configuration: AnyConfigurationSchemaType;
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- minorAlleleFrequencyFilter: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
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- showSidebarLabelsSetting: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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- renderingMode: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
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- rowHeightSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
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- autoHeight: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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- lengthCutoffFilter: import("mobx-state-tree").IType<number | undefined, number, number>;
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- jexlFilters: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IArrayType<import("mobx-state-tree").ISimpleType<string>>>;
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- referenceDrawingMode: import("mobx-state-tree").IType<string | undefined, string, string>;
95
- } & {
96
- type: import("mobx-state-tree").ISimpleType<"LinearVariantMatrixDisplay">;
97
- rowHeightSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
98
- lineZoneHeight: import("mobx-state-tree").IType<number | undefined, number, number>;
99
- }, {
100
- rendererTypeName: string;
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- error: unknown;
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- message: string | undefined;
103
- } & {
104
- readonly RenderingComponent: React.FC<{
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- model: {
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- id: string;
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- type: string;
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- rpcDriverName: string | undefined;
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- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
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- rendererTypeName: string;
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- error: unknown;
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- message: string | undefined;
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- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
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- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
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- type: import("mobx-state-tree").ISimpleType<string>;
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- rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
117
- }, {
118
- rendererTypeName: string;
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- error: unknown;
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- message: string | undefined;
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- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
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- onHorizontalScroll?: () => void;
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- blockState?: Record<string, any>;
124
- }>;
125
- readonly DisplayBlurb: React.FC<{
126
- model: {
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- id: string;
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- type: string;
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- rpcDriverName: string | undefined;
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- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
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- rendererTypeName: string;
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- error: unknown;
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- message: string | undefined;
134
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
135
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
136
- type: import("mobx-state-tree").ISimpleType<string>;
137
- rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
138
- }, {
139
- rendererTypeName: string;
140
- error: unknown;
141
- message: string | undefined;
142
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
143
- }> | null;
144
- readonly adapterConfig: any;
145
- readonly parentTrack: any;
146
- renderProps(): any;
147
- readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
148
- readonly DisplayMessageComponent: undefined | React.FC<any>;
149
- trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
150
- readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
151
- regionCannotBeRendered(): null;
152
- } & {
153
- setMessage(arg?: string): void;
154
- setError(error?: unknown): void;
155
- setRpcDriverName(rpcDriverName: string): void;
156
- reload(): void;
157
- } & {
158
- scrollTop: number;
159
- } & {
160
- readonly height: number;
161
- } & {
162
- setScrollTop(scrollTop: number): void;
163
- setHeight(displayHeight: number): number;
164
- resizeHeight(distance: number): number;
165
- } & {
166
- featureDensityStatsP: undefined | Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
167
- featureDensityStats: undefined | import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats;
168
- currStatsBpPerPx: number;
169
- } & {
170
- readonly currentBytesRequested: number;
171
- readonly currentFeatureScreenDensity: number;
172
- readonly maxFeatureScreenDensity: any;
173
- readonly featureDensityStatsReady: boolean;
174
- readonly maxAllowableBytes: number;
175
- } & {
176
- afterAttach(): void;
177
- } & {
178
- setCurrStatsBpPerPx(n: number): void;
179
- setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats): void;
180
- getFeatureDensityStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
181
- setFeatureDensityStatsP(arg: any): void;
182
- setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats): void;
183
- clearFeatureDensityStats(): void;
184
- } & {
185
- readonly regionTooLarge: boolean;
186
- readonly regionTooLargeReason: string;
187
- } & {
188
- readonly statsReadyAndRegionNotTooLarge: boolean;
189
- regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
190
- regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): import("react/jsx-runtime").JSX.Element | null;
191
- } & {
192
- mouseoverExtraInformation: string | undefined;
193
- featureIdUnderMouse: undefined | string;
194
- contextMenuFeature: undefined | import("@jbrowse/core/util").Feature;
195
- } & {
196
- readonly DisplayMessageComponent: undefined | React.FC<any>;
197
- readonly blockType: "staticBlocks" | "dynamicBlocks";
198
- readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
199
- } & {
200
- readonly renderDelay: number;
201
- readonly TooltipComponent: import("@jbrowse/core/util").AnyReactComponentType;
202
- readonly selectedFeatureId: string | undefined;
203
- copyInfoToClipboard(feature: import("@jbrowse/core/util").Feature): void;
204
- } & {
205
- readonly features: import("@jbrowse/core/util/compositeMap").default<string, import("@jbrowse/core/util").Feature>;
206
- readonly featureUnderMouse: import("@jbrowse/core/util").Feature | undefined;
207
- readonly layoutFeatures: import("@jbrowse/core/util/compositeMap").default<string, [number, number, number, number] | [number, number, number, number, {
208
- label?: string;
209
- description?: string;
210
- refName: string;
211
- }]>;
212
- getFeatureOverlapping(blockKey: string, x: number, y: number): string | undefined;
213
- getFeatureByID(blockKey: string, id: string): ([number, number, number, number] | [number, number, number, number, {
214
- label?: string;
215
- description?: string;
216
- refName: string;
217
- }]) | undefined;
218
- searchFeatureByID(id: string): ([number, number, number, number] | [number, number, number, number, {
219
- label?: string;
220
- description?: string;
221
- refName: string;
222
- }]) | undefined;
223
- } & {
224
- addBlock(key: string, block: import("@jbrowse/core/util/blockTypes").BaseBlock): void;
225
- deleteBlock(key: string): void;
226
- selectFeature(feature: import("@jbrowse/core/util").Feature): void;
227
- navToFeature(feature: import("@jbrowse/core/util").Feature): void;
228
- clearFeatureSelection(): void;
229
- setFeatureIdUnderMouse(feature?: string): void;
230
- setContextMenuFeature(feature?: import("@jbrowse/core/util").Feature): void;
231
- setMouseoverExtraInformation(extra?: string): void;
232
- } & {
233
- reload(): Promise<void>;
234
- } & {
235
- trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
236
- contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
237
- renderProps(): any;
238
- } & {
239
- renderSvg(opts: ExportSvgDisplayOptions): Promise<import("react/jsx-runtime").JSX.Element>;
240
- afterAttach(): void;
241
- } & {
242
- readonly rendererConfig: {
243
- [x: string]: any;
244
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
245
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
246
- [x: string]: any;
247
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
248
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
249
- [x: string]: any;
250
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
251
- } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
252
- } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
253
- readonly rendererTypeName: any;
254
- } & {
255
- renderProps(): any;
256
- } & {
257
- sourcesLoadingStopToken: string | undefined;
258
- simplifiedFeaturesStopToken: string | undefined;
259
- featureUnderMouseVolatile: import("@jbrowse/core/util").Feature | undefined;
260
- sourcesVolatile: import("../shared/types").Source[] | undefined;
261
- featuresVolatile: import("@jbrowse/core/util").Feature[] | undefined;
262
- hasPhased: boolean;
263
- sampleInfo: undefined | Record<string, import("../shared/types").SampleInfo>;
264
- hoveredGenotype: {
265
- genotype: string;
266
- name: string;
267
- } | undefined;
268
- } & {
269
- setJexlFilters(f?: string[]): void;
270
- setRowHeight(arg: number): void;
271
- setHoveredGenotype(arg?: {
272
- genotype: string;
273
- name: string;
274
- }): void;
275
- setFeatures(f: import("@jbrowse/core/util").Feature[]): void;
276
- setLayout(layout: import("../shared/types").Source[]): void;
277
- clearLayout(): void;
278
- setSourcesLoading(str: string): void;
279
- setSimplifiedFeaturesLoading(str: string): void;
280
- setSources(sources: import("../shared/types").Source[]): void;
281
- setMafFilter(arg: number): void;
282
- setShowSidebarLabels(arg: boolean): void;
283
- setPhasedMode(arg: string): void;
284
- setAutoHeight(arg: boolean): void;
285
- setHasPhased(arg: boolean): void;
286
- setSampleInfo(arg: Record<string, import("../shared/types").SampleInfo>): void;
287
- setReferenceDrawingMode(arg: string): void;
288
- } & {
289
- readonly activeFilters: any;
290
- readonly preSources: import("../shared/types").Source[] | undefined;
291
- readonly sourcesWithoutLayout: {
292
- label: string;
293
- id: string;
294
- baseUri?: string;
295
- name: string;
296
- color?: string;
297
- group?: string;
298
- HP?: number;
299
- }[] | undefined;
300
- readonly sources: {
301
- label: string;
302
- id: string;
303
- baseUri?: string;
304
- name: string;
305
- color?: string;
306
- group?: string;
307
- HP?: number;
308
- }[] | undefined;
309
- } & {
310
- readonly sourceMap: {
311
- [k: string]: {
312
- label: string;
313
- id: string;
314
- baseUri?: string;
315
- name: string;
316
- color?: string;
317
- group?: string;
318
- HP?: number;
319
- };
320
- } | undefined;
321
- readonly rowHeight: number;
322
- adapterProps(): any;
323
- trackMenuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
324
- label: string;
325
- icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
326
- muiName: string;
327
- };
328
- type: string;
329
- checked: boolean;
330
- onClick: () => void;
331
- subMenu?: undefined;
332
- } | {
333
- label: string;
334
- icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
335
- muiName: string;
336
- };
337
- subMenu: ({
338
- label: string;
339
- disabled: boolean;
340
- onClick: () => void;
341
- type?: undefined;
342
- checked?: undefined;
343
- } | {
344
- label: string;
345
- type: string;
346
- checked: boolean;
347
- onClick: () => void;
348
- disabled?: undefined;
349
- })[];
350
- type?: undefined;
351
- checked?: undefined;
352
- onClick?: undefined;
353
- } | {
354
- label: string;
355
- icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
356
- muiName: string;
357
- };
358
- subMenu: ({
359
- label: string;
360
- type: string;
361
- checked: boolean;
362
- onClick: () => void;
363
- disabled?: undefined;
364
- } | {
365
- label: string;
366
- disabled: boolean;
367
- checked: boolean;
368
- type: string;
369
- onClick: () => void;
370
- })[];
371
- type?: undefined;
372
- checked?: undefined;
373
- onClick?: undefined;
374
- } | {
375
- label: string;
376
- type: string;
377
- subMenu: {
378
- label: string;
379
- type: string;
380
- checked: boolean;
381
- onClick: () => void;
382
- }[];
383
- icon?: undefined;
384
- checked?: undefined;
385
- onClick?: undefined;
386
- } | {
387
- label: string;
388
- icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
389
- muiName: string;
390
- };
391
- subMenu: {
392
- label: string;
393
- onClick: () => void;
394
- }[];
395
- type?: undefined;
396
- checked?: undefined;
397
- onClick?: undefined;
398
- } | {
399
- label: string;
400
- icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
401
- muiName: string;
402
- };
403
- onClick: () => void;
404
- type?: undefined;
405
- checked?: undefined;
406
- subMenu?: undefined;
407
- })[];
408
- } & {
409
- readonly canDisplayLabels: boolean;
410
- readonly totalHeight: number;
411
- readonly featuresReady: boolean;
412
- } & {
413
- renderProps(): any;
414
- } & {
415
- readonly nrow: number;
416
- readonly blockType: string;
417
- readonly totalHeight: number;
418
- readonly rowHeight: number;
419
- readonly featuresReady: boolean;
420
- } & {
421
- renderProps(): any;
422
- readonly canDisplayLabels: boolean;
423
- } & {
424
- setLineZoneHeight(n: number): number;
425
- } & {
426
- setLineZoneHeight(n: number): number;
427
- afterAttach(): void;
428
- renderSvg(opts: ExportSvgDisplayOptions): Promise<import("react/jsx-runtime").JSX.Element>;
429
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
430
- export type MultiLinearVariantMatrixDisplayStateModel = ReturnType<typeof stateModelFactory>;
431
- export type MultiLinearVariantMatrixDisplayModel = Instance<MultiLinearVariantMatrixDisplayStateModel>;
@@ -1,125 +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);
9
- }) : (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
- };
25
- return ownKeys(o);
26
- };
27
- return function (mod) {
28
- if (mod && mod.__esModule) return mod;
29
- 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]);
31
- __setModuleDefault(result, mod);
32
- return result;
33
- };
34
- })();
35
- var __importDefault = (this && this.__importDefault) || function (mod) {
36
- return (mod && mod.__esModule) ? mod : { "default": mod };
37
- };
38
- Object.defineProperty(exports, "__esModule", { value: true });
39
- exports.default = stateModelFactory;
40
- const util_1 = require("@jbrowse/core/util");
41
- const mobx_state_tree_1 = require("mobx-state-tree");
42
- const MultiVariantBaseModel_1 = __importDefault(require("../shared/MultiVariantBaseModel"));
43
- function stateModelFactory(configSchema) {
44
- return mobx_state_tree_1.types
45
- .compose('LinearVariantMatrixDisplay', (0, MultiVariantBaseModel_1.default)(configSchema), mobx_state_tree_1.types.model({
46
- type: mobx_state_tree_1.types.literal('LinearVariantMatrixDisplay'),
47
- rowHeightSetting: mobx_state_tree_1.types.optional(mobx_state_tree_1.types.number, 1),
48
- lineZoneHeight: 20,
49
- }))
50
- .views(self => ({
51
- get nrow() {
52
- var _a;
53
- return ((_a = self.sources) === null || _a === void 0 ? void 0 : _a.length) || 1;
54
- },
55
- get blockType() {
56
- return 'dynamicBlocks';
57
- },
58
- get totalHeight() {
59
- return self.autoHeight
60
- ? self.height - self.lineZoneHeight
61
- : this.nrow * self.rowHeightSetting;
62
- },
63
- get rowHeight() {
64
- return self.autoHeight
65
- ? self.totalHeight / this.nrow
66
- : self.rowHeightSetting;
67
- },
68
- get featuresReady() {
69
- return !!self.featuresVolatile;
70
- },
71
- }))
72
- .views(self => ({
73
- renderProps() {
74
- const superProps = self.adapterProps();
75
- return {
76
- ...superProps,
77
- notReady: superProps.notReady || !self.sources || !self.featuresReady,
78
- renderingMode: self.renderingMode,
79
- minorAlleleFrequencyFilter: self.minorAlleleFrequencyFilter,
80
- lengthCutoffFilter: self.lengthCutoffFilter,
81
- height: self.totalHeight,
82
- sources: self.sources,
83
- };
84
- },
85
- get canDisplayLabels() {
86
- return self.rowHeight > 8 && self.showSidebarLabelsSetting;
87
- },
88
- }))
89
- .actions(self => ({
90
- setLineZoneHeight(n) {
91
- self.lineZoneHeight = (0, util_1.clamp)(n, 10, 1000);
92
- return self.lineZoneHeight;
93
- },
94
- }))
95
- .actions(self => {
96
- const { renderSvg: superRenderSvg } = self;
97
- return {
98
- setLineZoneHeight(n) {
99
- self.lineZoneHeight = (0, util_1.clamp)(n, 10, 1000);
100
- return self.lineZoneHeight;
101
- },
102
- afterAttach() {
103
- ;
104
- (async () => {
105
- try {
106
- const { getMultiVariantSourcesAutorun } = await Promise.resolve().then(() => __importStar(require('../getMultiVariantSourcesAutorun')));
107
- const { getMultiVariantFeaturesAutorun } = await Promise.resolve().then(() => __importStar(require('../getMultiVariantFeaturesAutorun')));
108
- getMultiVariantSourcesAutorun(self);
109
- getMultiVariantFeaturesAutorun(self);
110
- }
111
- catch (e) {
112
- if ((0, mobx_state_tree_1.isAlive)(self)) {
113
- console.error(e);
114
- (0, util_1.getSession)(self).notifyError(`${e}`, e);
115
- }
116
- }
117
- })();
118
- },
119
- async renderSvg(opts) {
120
- const { renderSvg } = await Promise.resolve().then(() => __importStar(require('./renderSvg')));
121
- return renderSvg(self, opts, superRenderSvg);
122
- },
123
- };
124
- });
125
- }
@@ -1,3 +0,0 @@
1
- import type { MultiLinearVariantMatrixDisplayModel } from './model';
2
- import type { ExportSvgDisplayOptions } from '@jbrowse/plugin-linear-genome-view';
3
- export declare function renderSvg(model: MultiLinearVariantMatrixDisplayModel, opts: ExportSvgDisplayOptions, superRenderSvg: (opts: ExportSvgDisplayOptions) => Promise<React.ReactNode>): Promise<import("react/jsx-runtime").JSX.Element>;
@@ -1,17 +0,0 @@
1
- "use strict";
2
- var __importDefault = (this && this.__importDefault) || function (mod) {
3
- return (mod && mod.__esModule) ? mod : { "default": mod };
4
- };
5
- Object.defineProperty(exports, "__esModule", { value: true });
6
- exports.renderSvg = renderSvg;
7
- const jsx_runtime_1 = require("react/jsx-runtime");
8
- const util_1 = require("@jbrowse/core/util");
9
- const mobx_1 = require("mobx");
10
- const LinesConnectingMatrixToGenomicPosition_1 = __importDefault(require("./components/LinesConnectingMatrixToGenomicPosition"));
11
- const MultiVariantLegendBar_1 = __importDefault(require("../shared/components/MultiVariantLegendBar"));
12
- async function renderSvg(model, opts, superRenderSvg) {
13
- await (0, mobx_1.when)(() => !!model.regionCannotBeRenderedText);
14
- const { offsetPx } = (0, util_1.getContainingView)(model);
15
- const { lineZoneHeight } = model;
16
- return ((0, jsx_runtime_1.jsx)(jsx_runtime_1.Fragment, { children: (0, jsx_runtime_1.jsxs)("g", { transform: `translate(${Math.max(-offsetPx, 0)})`, children: [(0, jsx_runtime_1.jsx)(LinesConnectingMatrixToGenomicPosition_1.default, { exportSVG: true, model: model }), (0, jsx_runtime_1.jsxs)("g", { transform: `translate(0,${lineZoneHeight})`, children: [(0, jsx_runtime_1.jsx)("g", { children: await superRenderSvg(opts) }), (0, jsx_runtime_1.jsx)(MultiVariantLegendBar_1.default, { model: model, orientation: "left", exportSVG: true })] })] }) }));
17
- }
@@ -1,37 +0,0 @@
1
- import BoxRendererType from '@jbrowse/core/pluggableElementTypes/renderers/BoxRendererType';
2
- import { SimpleFeature } from '@jbrowse/core/util';
3
- import type { RenderArgsDeserialized } from './types';
4
- export default class LinearVariantMatrixRenderer extends BoxRendererType {
5
- supportsSVG: boolean;
6
- render(renderProps: RenderArgsDeserialized): Promise<{
7
- features: Map<any, any>;
8
- simplifiedFeatures: SimpleFeature[];
9
- height: number;
10
- width: number;
11
- arr: string[][];
12
- canvasRecordedData: Record<string, unknown>;
13
- layout: import("@jbrowse/core/util/layouts/BaseLayout").BaseLayout<import("@jbrowse/core/util").Feature>;
14
- reactElement?: React.ReactElement;
15
- html?: string;
16
- } | {
17
- features: Map<any, any>;
18
- simplifiedFeatures: SimpleFeature[];
19
- height: number;
20
- width: number;
21
- arr: string[][];
22
- imageData: any;
23
- layout: import("@jbrowse/core/util/layouts/BaseLayout").BaseLayout<import("@jbrowse/core/util").Feature>;
24
- reactElement?: React.ReactElement;
25
- html?: string;
26
- } | {
27
- features: Map<any, any>;
28
- simplifiedFeatures: SimpleFeature[];
29
- height: number;
30
- width: number;
31
- arr: string[][];
32
- reactElement: React.ReactElement;
33
- layout: import("@jbrowse/core/util/layouts/BaseLayout").BaseLayout<import("@jbrowse/core/util").Feature>;
34
- html?: string;
35
- }>;
36
- }
37
- export type { RenderArgs, RenderArgsSerialized, RenderResults, ResultsDeserialized, ResultsSerialized, } from '@jbrowse/core/pluggableElementTypes/renderers/BoxRendererType';