@genome-spy/core 0.72.0 → 0.74.0

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 (396) hide show
  1. package/LICENSE +1 -1
  2. package/dist/bundle/AbortablePromiseCache-3gHJdF3E.js +96 -0
  3. package/dist/bundle/browser-BTgw5ieH.js +126 -0
  4. package/dist/bundle/chunk-DmhlhrBa.js +11 -0
  5. package/dist/bundle/esm-BDFRLEuD.js +1248 -0
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  13. package/dist/bundle/esm-sIoQYZ21.js +461 -0
  14. package/dist/bundle/index.es.js +21078 -24556
  15. package/dist/bundle/index.js +379 -383
  16. package/dist/bundle/parquetRead-DG_-F5j5.js +1609 -0
  17. package/dist/schema.json +13349 -7082
  18. package/dist/src/config/axisConfig.d.ts +16 -0
  19. package/dist/src/config/axisConfig.d.ts.map +1 -0
  20. package/dist/src/config/axisConfig.js +84 -0
  21. package/dist/src/config/defaultConfig.d.ts +3 -0
  22. package/dist/src/config/defaultConfig.d.ts.map +1 -0
  23. package/dist/src/config/defaultConfig.js +38 -0
  24. package/dist/src/config/defaults/axisDefaults.d.ts +5 -0
  25. package/dist/src/config/defaults/axisDefaults.d.ts.map +1 -0
  26. package/dist/src/config/defaults/axisDefaults.js +72 -0
  27. package/dist/src/config/defaults/markDefaults.d.ts +15 -0
  28. package/dist/src/config/defaults/markDefaults.d.ts.map +1 -0
  29. package/dist/src/config/defaults/markDefaults.js +121 -0
  30. package/dist/src/config/defaults/scaleDefaults.d.ts +5 -0
  31. package/dist/src/config/defaults/scaleDefaults.d.ts.map +1 -0
  32. package/dist/src/config/defaults/scaleDefaults.js +18 -0
  33. package/dist/src/config/defaults/titleDefaults.d.ts +5 -0
  34. package/dist/src/config/defaults/titleDefaults.d.ts.map +1 -0
  35. package/dist/src/config/defaults/titleDefaults.js +47 -0
  36. package/dist/src/config/defaults/viewDefaults.d.ts +3 -0
  37. package/dist/src/config/defaults/viewDefaults.d.ts.map +1 -0
  38. package/dist/src/config/defaults/viewDefaults.js +2 -0
  39. package/dist/src/config/markConfig.d.ts +8 -0
  40. package/dist/src/config/markConfig.d.ts.map +1 -0
  41. package/dist/src/config/markConfig.js +27 -0
  42. package/dist/src/config/mergeConfig.d.ts +8 -0
  43. package/dist/src/config/mergeConfig.d.ts.map +1 -0
  44. package/dist/src/config/mergeConfig.js +81 -0
  45. package/dist/src/config/resolveConfig.d.ts +22 -0
  46. package/dist/src/config/resolveConfig.d.ts.map +1 -0
  47. package/dist/src/config/resolveConfig.js +32 -0
  48. package/dist/src/config/scaleConfig.d.ts +40 -0
  49. package/dist/src/config/scaleConfig.d.ts.map +1 -0
  50. package/dist/src/config/scaleConfig.js +220 -0
  51. package/dist/src/config/styleUtils.d.ts +6 -0
  52. package/dist/src/config/styleUtils.d.ts.map +1 -0
  53. package/dist/src/config/styleUtils.js +10 -0
  54. package/dist/src/config/themes.d.ts +15 -0
  55. package/dist/src/config/themes.d.ts.map +1 -0
  56. package/dist/src/config/themes.js +293 -0
  57. package/dist/src/config/titleConfig.d.ts +12 -0
  58. package/dist/src/config/titleConfig.d.ts.map +1 -0
  59. package/dist/src/config/titleConfig.js +42 -0
  60. package/dist/src/config/viewConfig.d.ts +7 -0
  61. package/dist/src/config/viewConfig.d.ts.map +1 -0
  62. package/dist/src/config/viewConfig.js +29 -0
  63. package/dist/src/data/flowNode.d.ts +22 -1
  64. package/dist/src/data/flowNode.d.ts.map +1 -1
  65. package/dist/src/data/flowNode.js +37 -1
  66. package/dist/src/data/formats/bed.d.ts +8 -0
  67. package/dist/src/data/formats/bed.d.ts.map +1 -0
  68. package/dist/src/data/formats/bed.js +58 -0
  69. package/dist/src/data/formats/bedpe.d.ts +8 -0
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  71. package/dist/src/data/formats/bedpe.js +164 -0
  72. package/dist/src/data/formats/fasta.d.ts.map +1 -1
  73. package/dist/src/data/formats/fasta.js +4 -0
  74. package/dist/src/data/formats/parquet.d.ts.map +1 -1
  75. package/dist/src/data/formats/parquet.js +4 -0
  76. package/dist/src/data/sources/dataSourceFactory.d.ts +2 -13
  77. package/dist/src/data/sources/dataSourceFactory.d.ts.map +1 -1
  78. package/dist/src/data/sources/dataSourceFactory.js +5 -141
  79. package/dist/src/data/sources/dataUtils.d.ts +16 -0
  80. package/dist/src/data/sources/dataUtils.d.ts.map +1 -1
  81. package/dist/src/data/sources/dataUtils.js +53 -3
  82. package/dist/src/data/sources/lazy/axisGenomeSource.d.ts.map +1 -1
  83. package/dist/src/data/sources/lazy/axisGenomeSource.js +11 -0
  84. package/dist/src/data/sources/lazy/axisTickSource.d.ts +1 -1
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  86. package/dist/src/data/sources/lazy/axisTickSource.js +19 -8
  87. package/dist/src/data/sources/lazy/bamSource.d.ts.map +1 -1
  88. package/dist/src/data/sources/lazy/bamSource.js +11 -0
  89. package/dist/src/data/sources/lazy/bigBedSource.d.ts.map +1 -1
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  91. package/dist/src/data/sources/lazy/bigWigSource.d.ts.map +1 -1
  92. package/dist/src/data/sources/lazy/bigWigSource.js +11 -0
  93. package/dist/src/data/sources/lazy/gff3Source.d.ts.map +1 -1
  94. package/dist/src/data/sources/lazy/gff3Source.js +12 -1
  95. package/dist/src/data/sources/lazy/indexedFastaSource.d.ts.map +1 -1
  96. package/dist/src/data/sources/lazy/indexedFastaSource.js +11 -0
  97. package/dist/src/data/sources/lazy/lazyDataSourceRegistry.d.ts +27 -0
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  99. package/dist/src/data/sources/lazy/lazyDataSourceRegistry.js +65 -0
  100. package/dist/src/data/sources/lazy/registerBuiltInLazySources.d.ts +2 -0
  101. package/dist/src/data/sources/lazy/registerBuiltInLazySources.d.ts.map +1 -0
  102. package/dist/src/data/sources/lazy/registerBuiltInLazySources.js +8 -0
  103. package/dist/src/data/sources/lazy/singleAxisLazySource.d.ts.map +1 -1
  104. package/dist/src/data/sources/lazy/singleAxisLazySource.js +11 -2
  105. package/dist/src/data/sources/lazy/vcfSource.d.ts.map +1 -1
  106. package/dist/src/data/sources/lazy/vcfSource.js +11 -0
  107. package/dist/src/data/sources/urlSource.d.ts +4 -0
  108. package/dist/src/data/sources/urlSource.d.ts.map +1 -1
  109. package/dist/src/data/sources/urlSource.js +138 -16
  110. package/dist/src/data/transforms/aggregate.d.ts +1 -0
  111. package/dist/src/data/transforms/aggregate.d.ts.map +1 -1
  112. package/dist/src/data/transforms/aggregate.js +30 -8
  113. package/dist/src/data/transforms/aggregateOps.d.ts.map +1 -1
  114. package/dist/src/data/transforms/aggregateOps.js +12 -1
  115. package/dist/src/data/transforms/coverage.js +2 -2
  116. package/dist/src/data/transforms/filter.js +1 -1
  117. package/dist/src/data/transforms/filterScoredLabels.d.ts +6 -0
  118. package/dist/src/data/transforms/filterScoredLabels.d.ts.map +1 -1
  119. package/dist/src/data/transforms/filterScoredLabels.js +9 -0
  120. package/dist/src/data/transforms/measureText.d.ts +1 -0
  121. package/dist/src/data/transforms/measureText.d.ts.map +1 -1
  122. package/dist/src/data/transforms/measureText.js +14 -5
  123. package/dist/src/data/transforms/pileup.d.ts.map +1 -1
  124. package/dist/src/data/transforms/pileup.js +1 -2
  125. package/dist/src/data/transforms/regexFold.d.ts.map +1 -1
  126. package/dist/src/data/transforms/regexFold.js +0 -1
  127. package/dist/src/embedFactory.d.ts +13 -0
  128. package/dist/src/embedFactory.d.ts.map +1 -0
  129. package/dist/src/embedFactory.js +127 -0
  130. package/dist/src/encoder/accessor.d.ts +3 -12
  131. package/dist/src/encoder/accessor.d.ts.map +1 -1
  132. package/dist/src/encoder/accessor.js +10 -65
  133. package/dist/src/encoder/encoder.d.ts +51 -8
  134. package/dist/src/encoder/encoder.d.ts.map +1 -1
  135. package/dist/src/encoder/encoder.js +179 -55
  136. package/dist/src/fonts/bmFontManager.js +1 -1
  137. package/dist/src/full.d.ts +2 -0
  138. package/dist/src/full.d.ts.map +1 -0
  139. package/dist/src/full.js +2 -0
  140. package/dist/src/genome/assemblyPreflight.d.ts +31 -0
  141. package/dist/src/genome/assemblyPreflight.d.ts.map +1 -0
  142. package/dist/src/genome/assemblyPreflight.js +99 -0
  143. package/dist/src/genome/genome.d.ts +10 -2
  144. package/dist/src/genome/genome.d.ts.map +1 -1
  145. package/dist/src/genome/genome.js +20 -2
  146. package/dist/src/genome/genomeStore.d.ts +34 -3
  147. package/dist/src/genome/genomeStore.d.ts.map +1 -1
  148. package/dist/src/genome/genomeStore.js +409 -18
  149. package/dist/src/genome/rootGenomeConfig.d.ts +26 -0
  150. package/dist/src/genome/rootGenomeConfig.d.ts.map +1 -0
  151. package/dist/src/genome/rootGenomeConfig.js +98 -0
  152. package/dist/src/genome/scaleLocus.d.ts.map +1 -1
  153. package/dist/src/genome/scaleLocus.js +26 -7
  154. package/dist/src/genomeSpy/cursorManager.d.ts +69 -0
  155. package/dist/src/genomeSpy/cursorManager.d.ts.map +1 -0
  156. package/dist/src/genomeSpy/cursorManager.js +131 -0
  157. package/dist/src/genomeSpy/headlessBootstrap.d.ts +113 -0
  158. package/dist/src/genomeSpy/headlessBootstrap.d.ts.map +1 -0
  159. package/dist/src/genomeSpy/headlessBootstrap.js +246 -0
  160. package/dist/src/genomeSpy/interactionController.d.ts +10 -1
  161. package/dist/src/genomeSpy/interactionController.d.ts.map +1 -1
  162. package/dist/src/genomeSpy/interactionController.js +448 -40
  163. package/dist/src/genomeSpy/interactionDispatcher.d.ts +50 -0
  164. package/dist/src/genomeSpy/interactionDispatcher.d.ts.map +1 -0
  165. package/dist/src/genomeSpy/interactionDispatcher.js +203 -0
  166. package/dist/src/genomeSpy/renderCoordinator.js +1 -1
  167. package/dist/src/genomeSpy/viewContextFactory.d.ts +4 -2
  168. package/dist/src/genomeSpy/viewContextFactory.d.ts.map +1 -1
  169. package/dist/src/genomeSpy/viewContextFactory.js +12 -4
  170. package/dist/src/genomeSpy/viewDataInit.d.ts.map +1 -1
  171. package/dist/src/genomeSpy/viewDataInit.js +7 -3
  172. package/dist/src/genomeSpy.d.ts +1 -114
  173. package/dist/src/genomeSpy.d.ts.map +1 -1
  174. package/dist/src/genomeSpy.js +7 -614
  175. package/dist/src/genomeSpyBase.d.ts +133 -0
  176. package/dist/src/genomeSpyBase.d.ts.map +1 -0
  177. package/dist/src/genomeSpyBase.js +719 -0
  178. package/dist/src/gl/arrayBuilder.d.ts.map +1 -1
  179. package/dist/src/gl/arrayBuilder.js +0 -3
  180. package/dist/src/gl/canvasSizeHelper.d.ts +74 -0
  181. package/dist/src/gl/canvasSizeHelper.d.ts.map +1 -0
  182. package/dist/src/gl/canvasSizeHelper.js +203 -0
  183. package/dist/src/gl/colorUtils.d.ts.map +1 -1
  184. package/dist/src/gl/colorUtils.js +3 -0
  185. package/dist/src/gl/dataToVertices.d.ts.map +1 -1
  186. package/dist/src/gl/dataToVertices.js +13 -8
  187. package/dist/src/gl/glslScaleGenerator.d.ts +2 -2
  188. package/dist/src/gl/glslScaleGenerator.d.ts.map +1 -1
  189. package/dist/src/gl/glslScaleGenerator.js +5 -7
  190. package/dist/src/gl/webGLHelper.d.ts +25 -11
  191. package/dist/src/gl/webGLHelper.d.ts.map +1 -1
  192. package/dist/src/gl/webGLHelper.js +59 -33
  193. package/dist/src/index.d.ts +3 -9
  194. package/dist/src/index.d.ts.map +1 -1
  195. package/dist/src/index.js +5 -111
  196. package/dist/src/marks/__snapshots__/shaderSnapshot.test.js.snap +4462 -0
  197. package/dist/src/marks/link.d.ts.map +1 -1
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  202. package/dist/src/marks/markUtils.d.ts +18 -1
  203. package/dist/src/marks/markUtils.d.ts.map +1 -1
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  205. package/dist/src/marks/point.d.ts.map +1 -1
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  207. package/dist/src/marks/rect.d.ts.map +1 -1
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  209. package/dist/src/marks/rule.d.ts +7 -2
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  212. package/dist/src/marks/text.d.ts.map +1 -1
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  214. package/dist/src/minimal.d.ts +8 -0
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  217. package/dist/src/paramRuntime/viewParamRuntime.d.ts +19 -0
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  220. package/dist/src/scale/scale.d.ts.map +1 -1
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  222. package/dist/src/scales/axisResolution.d.ts.map +1 -1
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  224. package/dist/src/scales/domainPlanner.d.ts +58 -7
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  227. package/dist/src/scales/indexLikeDomainUtils.d.ts +29 -0
  228. package/dist/src/scales/indexLikeDomainUtils.d.ts.map +1 -0
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  230. package/dist/src/scales/resolutionMemberOrder.d.ts +15 -0
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  233. package/dist/src/scales/scaleInstanceManager.d.ts +2 -1
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  236. package/dist/src/scales/scaleInteractionController.d.ts.map +1 -1
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  238. package/dist/src/scales/scalePropsResolver.d.ts +3 -1
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  241. package/dist/src/scales/scaleResolution.d.ts +39 -0
  242. package/dist/src/scales/scaleResolution.d.ts.map +1 -1
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  244. package/dist/src/scales/scaleResolutionTestUtils.d.ts +21 -0
  245. package/dist/src/scales/scaleResolutionTestUtils.d.ts.map +1 -0
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  247. package/dist/src/scales/scaleRules.d.ts.map +1 -1
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  249. package/dist/src/scales/selectionDomainUtils.d.ts +52 -0
  250. package/dist/src/scales/selectionDomainUtils.d.ts.map +1 -0
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  252. package/dist/src/scales/zoomDomainUtils.d.ts +18 -0
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  255. package/dist/src/screenshotHarness.d.ts +16 -0
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  257. package/dist/src/screenshotHarness.js +241 -0
  258. package/dist/src/singlePageApp.js +1 -1
  259. package/dist/src/spec/axis.d.ts +41 -30
  260. package/dist/src/spec/channel.d.ts +15 -9
  261. package/dist/src/spec/config.d.ts +264 -0
  262. package/dist/src/spec/data.d.ts +30 -3
  263. package/dist/src/spec/decoration.d.ts +51 -0
  264. package/dist/src/spec/exampleFiles.d.ts +12 -0
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  267. package/dist/src/spec/font.d.ts +1 -1
  268. package/dist/src/spec/genome.d.ts +22 -2
  269. package/dist/src/spec/mark.d.ts +97 -13
  270. package/dist/src/spec/parameter.d.ts +62 -5
  271. package/dist/src/spec/root.d.ts +34 -1
  272. package/dist/src/spec/scale.d.ts +46 -5
  273. package/dist/src/spec/title.d.ts +13 -2
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  275. package/dist/src/spec/transform.d.ts +39 -4
  276. package/dist/src/spec/view.d.ts +67 -19
  277. package/dist/src/styles/genome-spy.css +63 -55
  278. package/dist/src/styles/genome-spy.css.d.ts +1 -1
  279. package/dist/src/styles/genome-spy.css.d.ts.map +1 -1
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  281. package/dist/src/testSetup.d.ts +2 -0
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  287. package/dist/src/types/embedApi.d.ts +26 -0
  288. package/dist/src/types/encoder.d.ts +17 -15
  289. package/dist/src/types/scaleResolutionApi.d.ts +20 -0
  290. package/dist/src/types/viewContext.d.ts +23 -1
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  302. package/dist/src/utils/interaction.d.ts +109 -0
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  319. package/dist/src/view/axisGridView.d.ts +1 -1
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  333. package/dist/src/view/dataReadiness.js +63 -58
  334. package/dist/src/view/facetView.d.ts +1 -1
  335. package/dist/src/view/facetView.js +4 -4
  336. package/dist/src/view/flowBuilder.js +2 -2
  337. package/dist/src/view/gridView/gridChild.d.ts +13 -0
  338. package/dist/src/view/gridView/gridChild.d.ts.map +1 -1
  339. package/dist/src/view/gridView/gridChild.js +247 -49
  340. package/dist/src/view/gridView/gridView.d.ts.map +1 -1
  341. package/dist/src/view/gridView/gridView.js +296 -99
  342. package/dist/src/view/gridView/keyboardZoomController.d.ts +2 -2
  343. package/dist/src/view/gridView/keyboardZoomController.d.ts.map +1 -1
  344. package/dist/src/view/gridView/keyboardZoomController.js +1 -1
  345. package/dist/src/view/gridView/scrollbar.d.ts.map +1 -1
  346. package/dist/src/view/gridView/scrollbar.js +4 -2
  347. package/dist/src/view/gridView/selectionRect.d.ts +4 -0
  348. package/dist/src/view/gridView/selectionRect.d.ts.map +1 -1
  349. package/dist/src/view/gridView/selectionRect.js +20 -1
  350. package/dist/src/view/gridView/separatorView.d.ts +1 -0
  351. package/dist/src/view/gridView/separatorView.d.ts.map +1 -1
  352. package/dist/src/view/gridView/separatorView.js +9 -0
  353. package/dist/src/view/interactionRouting.d.ts +20 -0
  354. package/dist/src/view/interactionRouting.d.ts.map +1 -0
  355. package/dist/src/view/interactionRouting.js +53 -0
  356. package/dist/src/view/layerView.d.ts.map +1 -1
  357. package/dist/src/view/layerView.js +12 -9
  358. package/dist/src/view/layout/grid.js +1 -1
  359. package/dist/src/view/renderingContext/bufferedViewRenderingContext.d.ts.map +1 -1
  360. package/dist/src/view/renderingContext/bufferedViewRenderingContext.js +0 -2
  361. package/dist/src/view/testUtils.d.ts +17 -3
  362. package/dist/src/view/testUtils.d.ts.map +1 -1
  363. package/dist/src/view/testUtils.js +62 -69
  364. package/dist/src/view/title.d.ts +8 -1
  365. package/dist/src/view/title.d.ts.map +1 -1
  366. package/dist/src/view/title.js +66 -76
  367. package/dist/src/view/unitView.d.ts +1 -1
  368. package/dist/src/view/unitView.d.ts.map +1 -1
  369. package/dist/src/view/unitView.js +67 -17
  370. package/dist/src/view/view.d.ts +76 -30
  371. package/dist/src/view/view.d.ts.map +1 -1
  372. package/dist/src/view/view.js +136 -47
  373. package/dist/src/view/viewFactory.d.ts +11 -3
  374. package/dist/src/view/viewFactory.d.ts.map +1 -1
  375. package/dist/src/view/viewFactory.js +37 -11
  376. package/dist/src/view/viewUtils.d.ts.map +1 -1
  377. package/dist/src/view/viewUtils.js +41 -5
  378. package/dist/src/view/zoom.d.ts +15 -3
  379. package/dist/src/view/zoom.d.ts.map +1 -1
  380. package/dist/src/view/zoom.js +375 -80
  381. package/package.json +20 -10
  382. package/dist/bundle/AbortablePromiseCache-Dj0vzLnp.js +0 -149
  383. package/dist/bundle/browser-0iNU5Wit.js +0 -138
  384. package/dist/bundle/index-BYsZN7b0.js +0 -1597
  385. package/dist/bundle/index-C3kClAEN.js +0 -1771
  386. package/dist/bundle/index-C7wOh6y1.js +0 -657
  387. package/dist/bundle/index-CRaQAuki.js +0 -326
  388. package/dist/bundle/index-D9v1PCj9.js +0 -507
  389. package/dist/bundle/index-GDOuv_D5.js +0 -266
  390. package/dist/bundle/index-Gt44EOIH.js +0 -628
  391. package/dist/bundle/inflate-GtwLkvSP.js +0 -1048
  392. package/dist/bundle/parquetRead-BnAGCa4_.js +0 -1663
  393. package/dist/bundle/unzip-Bac01w6X.js +0 -1492
  394. package/dist/src/config/scaleDefaults.d.ts +0 -8
  395. package/dist/src/config/scaleDefaults.d.ts.map +0 -1
  396. package/dist/src/config/scaleDefaults.js +0 -45
@@ -0,0 +1,22 @@
1
+ /**
2
+ * @param {{ view: { getPathString(): string }, channel?: string }} member
3
+ */
4
+ function memberKey(member) {
5
+ const path = member.view.getPathString();
6
+ const channel = member.channel ?? "";
7
+ return path + "|" + channel;
8
+ }
9
+
10
+ /**
11
+ * Stable ordering for resolution members so merge behavior does not depend on
12
+ * registration order.
13
+ *
14
+ * @template {{ view: { getPathString(): string }, channel?: string }} T
15
+ * @param {Set<T> | Iterable<T>} members
16
+ * @returns {T[]}
17
+ */
18
+ export function orderResolutionMembers(members) {
19
+ return Array.from(members).sort((a, b) =>
20
+ memberKey(a).localeCompare(memberKey(b))
21
+ );
22
+ }
@@ -18,9 +18,10 @@ export default class ScaleInstanceManager {
18
18
  props: import("../spec/scale.js").Scale;
19
19
  };
20
20
  /**
21
+ * @param {import("../spec/scale.js").Scale["assembly"]} [assembly]
21
22
  * @returns {import("../genome/genome.js").default}
22
23
  */
23
- getLocusGenome(): import("../genome/genome.js").default;
24
+ getLocusGenome(assembly?: import("../spec/scale.js").Scale["assembly"]): import("../genome/genome.js").default;
24
25
  /**
25
26
  * @param {import("../spec/scale.js").Scale} props
26
27
  * @returns {ScaleWithProps}
@@ -1 +1 @@
1
- {"version":3,"file":"scaleInstanceManager.d.ts","sourceRoot":"","sources":["../../../src/scales/scaleInstanceManager.js"],"names":[],"mappings":"AAMA;IA0BI;;;;;;OAMG;IACH,iFALG;QAAkH,eAAe,EAAzH,MAAM;YAAE,gBAAgB,EAAE,CAAC,IAAI,EAAE,MAAM,KAAK,OAAO,0BAA0B,EAAE,eAAe,CAAA;SAAE;QAC5E,aAAa,EAAjC,MAAM,IAAI;QACW,cAAc,GAAnC,MAAM,IAAI;QAC6D,cAAc,GAArF,MAAM,OAAO,0BAA0B,EAAE,OAAO,GAAG,SAAS;KAA0B,EAYhG;IAED;eA1CkC,OAAO,kBAAkB,EAAE,KAAK;MA4CjE;IAED;;OAEG;IACH,kBAFa,OAAO,qBAAqB,EAAE,OAAO,CASjD;IAED;;;OAGG;IACH,mBAHW,OAAO,kBAAkB,EAAE,KAAK;eA3DT,OAAO,kBAAkB,EAAE,KAAK;MAgFjE;IAoBD;;OAEG;IACH,wBAFW,OAAO,kBAAkB,EAAE,KAAK,QAc1C;IAED;;;OAGG;IACH,4CAHW,MAAM,IAAI,GACR,IAAI,CAShB;IAmFD,gBAGC;;CACJ"}
1
+ {"version":3,"file":"scaleInstanceManager.d.ts","sourceRoot":"","sources":["../../../src/scales/scaleInstanceManager.js"],"names":[],"mappings":"AAMA;IA0BI;;;;;;OAMG;IACH,iFALG;QAAkH,eAAe,EAAzH,MAAM;YAAE,gBAAgB,EAAE,CAAC,IAAI,EAAE,MAAM,KAAK,OAAO,0BAA0B,EAAE,eAAe,CAAA;SAAE;QAC5E,aAAa,EAAjC,MAAM,IAAI;QACW,cAAc,GAAnC,MAAM,IAAI;QAC6D,cAAc,GAArF,MAAM,OAAO,0BAA0B,EAAE,OAAO,GAAG,SAAS;KAA0B,EAYhG;IAED;eA1CkC,OAAO,kBAAkB,EAAE,KAAK;MA4CjE;IAED;;;OAGG;IACH,0BAHW,OAAO,kBAAkB,EAAE,KAAK,CAAC,UAAU,CAAC,GAC1C,OAAO,qBAAqB,EAAE,OAAO,CAajD;IAED;;;OAGG;IACH,mBAHW,OAAO,kBAAkB,EAAE,KAAK;eAhET,OAAO,kBAAkB,EAAE,KAAK;MAqFjE;IAcD;;OAEG;IACH,wBAFW,OAAO,kBAAkB,EAAE,KAAK,QAc1C;IAED;;;OAGG;IACH,4CAHW,MAAM,IAAI,GACR,IAAI,CAShB;IAmFD,gBAGC;;CACJ"}
@@ -54,15 +54,20 @@ export default class ScaleInstanceManager {
54
54
  }
55
55
 
56
56
  /**
57
+ * @param {import("../spec/scale.js").Scale["assembly"]} [assembly]
57
58
  * @returns {import("../genome/genome.js").default}
58
59
  */
59
- getLocusGenome() {
60
+ getLocusGenome(assembly) {
60
61
  const genomeStore = this.#getGenomeStore?.();
61
- const genome = genomeStore?.getGenome();
62
- if (!genome) {
62
+ if (!genomeStore) {
63
63
  throw new Error("No genome has been defined!");
64
64
  }
65
- return genome;
65
+
66
+ if (assembly) {
67
+ return genomeStore.getGenome(assembly);
68
+ }
69
+
70
+ return genomeStore.getGenome();
66
71
  }
67
72
 
68
73
  /**
@@ -98,13 +103,7 @@ export default class ScaleInstanceManager {
98
103
  return;
99
104
  }
100
105
 
101
- const genomeStore = this.#getGenomeStore?.();
102
- const genome = genomeStore?.getGenome(props.assembly);
103
- if (!genome) {
104
- throw new Error("No genome has been defined!");
105
- }
106
-
107
- scale.genome(genome);
106
+ scale.genome(this.getLocusGenome(props.assembly));
108
107
  }
109
108
 
110
109
  /**
@@ -1 +1 @@
1
- {"version":3,"file":"scaleInteractionController.d.ts","sourceRoot":"","sources":["../../../src/scales/scaleInteractionController.js"],"names":[],"mappings":"AAoBA;;;;;;;GAOG;AAEH;IAsBI;;;;;;;;OAQG;IACH,wHAPG;QAAsC,QAAQ,EAAtC,MAAM,cAAc;QACkC,WAAW,EAAjE,MAAM,OAAO,sBAAsB,EAAE,OAAO;QACpB,wBAAwB,EAAhD,MAAM,MAAM,EAAE;QACU,cAAc,EAAtC,MAAM,MAAM,EAAE;QAC8C,mBAAmB,EAA/E,CAAC,MAAM,EAAE,YAAY,GAAG,aAAa,KAAK,MAAM,EAAE;QAC1B,eAAe,EAAvC,MAAM,MAAM,EAAE;KACxB,EAeA;IAED,0BAUC;IAED,sBAEC;IAED,8BAGC;IAED;;;;OAIG;IACH,sCAJW,MAAM,EAAE,aACR,MAAM,EAAE,GACN,SAAS,GAAG,SAAS,GAAG,QAAQ,GAAG,MAAM,CAarD;IAED;;;;OAIG;IACH,oBAQC;IAED;;;;;;;OAOG;IACH,kBALW,MAAM,eACN,MAAM,OACN,MAAM,GACJ,OAAO,CA2BnB;IAED;;;;;;OAMG;IACH,eAJW,aAAa,GAAG,aAAa,aAC7B,OAAO,GAAG,MAAM,iBA+D1B;IASD;;;;OAIG;IACH,qBAcC;IAED;;OAEG;IACH,uBAOC;;CACJ;4BA5PY,OAAO,kBAAkB,EAAE,aAAa;2BACxC,OAAO,kBAAkB,EAAE,YAAY;4BACvC,OAAO,kBAAkB,EAAE,aAAa;yBACxC,OAAO,kBAAkB,EAAE,UAAU;wBACrC,OAAO,qBAAqB,EAAE,SAAS;6BACvC,SAAS,GAAG;IAAE,KAAK,EAAE,OAAO,kBAAkB,EAAE,KAAK,CAAA;CAAE"}
1
+ {"version":3,"file":"scaleInteractionController.d.ts","sourceRoot":"","sources":["../../../src/scales/scaleInteractionController.js"],"names":[],"mappings":"AAuBA;;;;;;;GAOG;AAEH;IAsBI;;;;;;;;OAQG;IACH,wHAPG;QAAsC,QAAQ,EAAtC,MAAM,cAAc;QACkC,WAAW,EAAjE,MAAM,OAAO,sBAAsB,EAAE,OAAO;QACpB,wBAAwB,EAAhD,MAAM,MAAM,EAAE;QACU,cAAc,EAAtC,MAAM,MAAM,EAAE;QAC8C,mBAAmB,EAA/E,CAAC,MAAM,EAAE,YAAY,GAAG,aAAa,KAAK,MAAM,EAAE;QAC1B,eAAe,EAAvC,MAAM,MAAM,EAAE;KACxB,EAeA;IAED,0BAUC;IAED,sBAEC;IAED,8BAGC;IAED;;;;OAIG;IACH,sCAJW,MAAM,EAAE,aACR,MAAM,EAAE,GACN,SAAS,GAAG,SAAS,GAAG,QAAQ,GAAG,MAAM,CAarD;IAED;;;;OAIG;IACH,oBAQC;IAED;;;;;;;OAOG;IACH,kBALW,MAAM,eACN,MAAM,OACN,MAAM,GACJ,OAAO,CA2BnB;IAED;;;;;;OAMG;IACH,eAJW,aAAa,GAAG,aAAa,aAC7B,OAAO,GAAG,MAAM,iBAkE1B;IASD;;;;OAIG;IACH,qBAcC;IAED;;OAEG;IACH,uBAOC;;CACJ;4BA/PY,OAAO,kBAAkB,EAAE,aAAa;2BACxC,OAAO,kBAAkB,EAAE,YAAY;4BACvC,OAAO,kBAAkB,EAAE,aAAa;yBACxC,OAAO,kBAAkB,EAAE,UAAU;wBACrC,OAAO,qBAAqB,EAAE,SAAS;6BACvC,SAAS,GAAG;IAAE,KAAK,EAAE,OAAO,kBAAkB,EAAE,KAAK,CAAA;CAAE"}
@@ -7,9 +7,6 @@ import {
7
7
  panLog,
8
8
  panPow,
9
9
  span,
10
- zoomLinear,
11
- zoomLog,
12
- zoomPow,
13
10
  } from "vega-util";
14
11
  import { isContinuous, isDiscrete } from "vega-scale";
15
12
  import { easeCubicInOut } from "d3-ease";
@@ -17,6 +14,12 @@ import { easeCubicInOut } from "d3-ease";
17
14
  import eerp from "../utils/eerp.js";
18
15
  import { shallowArrayEquals } from "../utils/arrayUtils.js";
19
16
  import { createCancelToken } from "../utils/transition.js";
17
+ import { zoomDomainByScaleType } from "./zoomDomainUtils.js";
18
+ import { toInternalIndexLikeInterval } from "./indexLikeDomainUtils.js";
19
+ import {
20
+ hasExplicitLocusUpperBound,
21
+ isChromosomalLocusInterval,
22
+ } from "../genome/genome.js";
20
23
 
21
24
  /**
22
25
  * @typedef {import("../spec/scale.js").NumericDomain} NumericDomain
@@ -121,7 +124,7 @@ export default class ScaleInteractionController {
121
124
  isZoomed() {
122
125
  return (
123
126
  this.isZoomingSupported() &&
124
- shallowArrayEquals(
127
+ !shallowArrayEquals(
125
128
  this.#getResetDomain(),
126
129
  this.#getScale().domain()
127
130
  )
@@ -179,13 +182,16 @@ export default class ScaleInteractionController {
179
182
  throw new Error("Not a zoomable scale!");
180
183
  }
181
184
 
182
- const to = this.#fromComplexInterval(domain);
185
+ const scale = this.#getScale();
186
+ const to = normalizeInteractionInterval(
187
+ /** @type {import("../spec/scale.js").ScaleType} */ (scale.type),
188
+ domain,
189
+ this.#fromComplexInterval
190
+ );
183
191
 
184
192
  // TODO: Intersect the domain with zoom extent
185
193
 
186
194
  const animator = this.#getAnimator();
187
-
188
- const scale = this.#getScale();
189
195
  const from = /** @type {number[]} */ (scale.domain());
190
196
 
191
197
  if (duration > 0 && from.length == 2) {
@@ -290,7 +296,11 @@ function resolveZoomExtent(
290
296
  ) {
291
297
  if (isZoomParams(zoom)) {
292
298
  if (isArray(zoom.extent)) {
293
- return fromComplexInterval(zoom.extent);
299
+ return normalizeInteractionInterval(
300
+ scale.props.type,
301
+ zoom.extent,
302
+ fromComplexInterval
303
+ );
294
304
  }
295
305
  }
296
306
 
@@ -326,17 +336,14 @@ function applyZoomTransform(scale, domain, scaleFactor, scaleAnchor, pan) {
326
336
  anchor += scale.align();
327
337
  }
328
338
 
329
- // TODO: symlog
330
339
  switch (scale.type) {
331
340
  case "linear":
332
341
  case "index":
333
342
  case "locus":
334
343
  newDomain = panLinear(newDomain, pan || 0);
335
- newDomain = zoomLinear(newDomain, anchor, scaleFactor);
336
344
  break;
337
345
  case "log":
338
346
  newDomain = panLog(newDomain, pan || 0);
339
- newDomain = zoomLog(newDomain, anchor, scaleFactor);
340
347
  break;
341
348
  case "pow":
342
349
  case "sqrt": {
@@ -345,19 +352,53 @@ function applyZoomTransform(scale, domain, scaleFactor, scaleAnchor, pan) {
345
352
  scale
346
353
  );
347
354
  newDomain = panPow(newDomain, pan || 0, powScale.exponent());
348
- newDomain = zoomPow(
349
- newDomain,
350
- anchor,
351
- scaleFactor,
352
- powScale.exponent()
353
- );
355
+ break;
356
+ }
357
+ case "symlog": {
358
+ if (pan !== 0) {
359
+ throw new Error(
360
+ "Panning is not implemented for: " + scale.type
361
+ );
362
+ }
354
363
  break;
355
364
  }
356
365
  default:
357
366
  throw new Error("Zooming is not implemented for: " + scale.type);
358
367
  }
359
368
 
360
- return newDomain;
369
+ return zoomDomainByScaleType(
370
+ scale,
371
+ /** @type {[number, number]} */ (newDomain),
372
+ anchor,
373
+ scaleFactor
374
+ );
375
+ }
376
+
377
+ /**
378
+ * Converts a user-facing interaction interval into the internal numeric domain
379
+ * representation used by index-like scales.
380
+ *
381
+ * @param {import("../spec/scale.js").ScaleType} type
382
+ * @param {ScalarDomain | ComplexDomain} interval
383
+ * @param {(domain: ScalarDomain | ComplexDomain) => number[]} fromComplexInterval
384
+ * @returns {number[]}
385
+ */
386
+ function normalizeInteractionInterval(type, interval, fromComplexInterval) {
387
+ const numericInterval =
388
+ type === "locus"
389
+ ? fromComplexInterval(interval)
390
+ : /** @type {number[]} */ (interval);
391
+
392
+ // Whole-chromosome locus intervals already resolve to the intended extent.
393
+ if (
394
+ type === "locus" &&
395
+ isChromosomalLocusInterval(interval) &&
396
+ !hasExplicitLocusUpperBound(interval)
397
+ ) {
398
+ return numericInterval;
399
+ }
400
+
401
+ return toInternalIndexLikeInterval(type, numericInterval);
361
402
  }
362
403
 
363
404
  /**
@@ -9,13 +9,15 @@
9
9
  * @param {import("../spec/channel.js").Type} options.dataType
10
10
  * @param {Set<ScaleResolutionMember>} options.members
11
11
  * @param {boolean} options.isExplicitDomain
12
+ * @param {import("../spec/config.js").GenomeSpyConfig[]} options.configScopes
12
13
  * @returns {Scale}
13
14
  */
14
- export function resolveScalePropsBase({ channel, dataType, members, isExplicitDomain, }: {
15
+ export function resolveScalePropsBase({ channel, dataType, members, isExplicitDomain, configScopes, }: {
15
16
  channel: Channel;
16
17
  dataType: import("../spec/channel.js").Type;
17
18
  members: Set<ScaleResolutionMember>;
18
19
  isExplicitDomain: boolean;
20
+ configScopes: import("../spec/config.js").GenomeSpyConfig[];
19
21
  }): Scale;
20
22
  export type Channel = import("../spec/channel.js").Channel;
21
23
  export type Scale = import("../spec/scale.js").Scale;
@@ -1 +1 @@
1
- {"version":3,"file":"scalePropsResolver.d.ts","sourceRoot":"","sources":["../../../src/scales/scalePropsResolver.js"],"names":[],"mappings":"AAOA;;;;GAIG;AAEH;;;;;;;GAOG;AACH,yFANG;IAAyB,OAAO,EAAxB,OAAO;IACoC,QAAQ,EAAnD,OAAO,oBAAoB,EAAE,IAAI;IACG,OAAO,EAA3C,GAAG,CAAC,qBAAqB,CAAC;IACT,gBAAgB,EAAjC,OAAO;CACf,GAAU,KAAK,CAiDjB;sBA5DY,OAAO,oBAAoB,EAAE,OAAO;oBACpC,OAAO,kBAAkB,EAAE,KAAK;oCAChC,OAAO,sBAAsB,EAAE,qBAAqB"}
1
+ {"version":3,"file":"scalePropsResolver.d.ts","sourceRoot":"","sources":["../../../src/scales/scalePropsResolver.js"],"names":[],"mappings":"AAcA;;;;GAIG;AAEH;;;;;;;;GAQG;AACH,uGAPG;IAAyB,OAAO,EAAxB,OAAO;IACoC,QAAQ,EAAnD,OAAO,oBAAoB,EAAE,IAAI;IACG,OAAO,EAA3C,GAAG,CAAC,qBAAqB,CAAC;IACT,gBAAgB,EAAjC,OAAO;IACgD,YAAY,EAAnE,OAAO,mBAAmB,EAAE,eAAe,EAAE;CACrD,GAAU,KAAK,CAsHjB;sBAlIY,OAAO,oBAAoB,EAAE,OAAO;oBACpC,OAAO,kBAAkB,EAAE,KAAK;oCAChC,OAAO,sBAAsB,EAAE,qBAAqB"}
@@ -1,9 +1,16 @@
1
1
  import { isDiscrete } from "vega-scale";
2
+ import { isColorChannel } from "../encoder/encoder.js";
2
3
 
3
4
  import mergeObjects from "../utils/mergeObjects.js";
4
- import { getDefaultScaleProperties } from "../config/scaleDefaults.js";
5
+ import {
6
+ getConfiguredScaleConfig,
7
+ getConfiguredScaleDefaults,
8
+ getConfiguredNamedRange,
9
+ isConfigRangeName,
10
+ } from "../config/scaleConfig.js";
5
11
  import { applyLockedProperties, getDefaultScaleType } from "./scaleRules.js";
6
12
  import { INDEX, LOCUS } from "./scaleResolutionConstants.js";
13
+ import { orderResolutionMembers } from "./resolutionMemberOrder.js";
7
14
 
8
15
  /**
9
16
  * @typedef {import("../spec/channel.js").Channel} Channel
@@ -17,6 +24,7 @@ import { INDEX, LOCUS } from "./scaleResolutionConstants.js";
17
24
  * @param {import("../spec/channel.js").Type} options.dataType
18
25
  * @param {Set<ScaleResolutionMember>} options.members
19
26
  * @param {boolean} options.isExplicitDomain
27
+ * @param {import("../spec/config.js").GenomeSpyConfig[]} options.configScopes
20
28
  * @returns {Scale}
21
29
  */
22
30
  export function resolveScalePropsBase({
@@ -24,8 +32,17 @@ export function resolveScalePropsBase({
24
32
  dataType,
25
33
  members,
26
34
  isExplicitDomain,
35
+ configScopes,
27
36
  }) {
28
- const propArray = Array.from(members)
37
+ const markTypes = [...members]
38
+ .map((member) =>
39
+ typeof member.view.getMarkType == "function"
40
+ ? member.view.getMarkType()
41
+ : undefined
42
+ )
43
+ .filter((markType) => !!markType);
44
+
45
+ const propArray = orderResolutionMembers(members)
29
46
  .map((member) => member.channelDef.scale)
30
47
  .filter((props) => props !== undefined);
31
48
 
@@ -36,14 +53,68 @@ export function resolveScalePropsBase({
36
53
  }
37
54
 
38
55
  const props = {
39
- ...getDefaultScaleProperties(channel, dataType, isExplicitDomain),
56
+ ...getConfiguredScaleDefaults(configScopes, {
57
+ channel,
58
+ dataType,
59
+ isExplicitDomain,
60
+ markTypes: /** @type {import("../spec/mark.js").MarkType[]} */ (
61
+ markTypes
62
+ ),
63
+ hasDomainMid: mergedProps.domainMid !== undefined,
64
+ }),
40
65
  ...mergedProps,
41
66
  };
42
67
 
43
68
  if (!props.type) {
69
+ // TODO: When discrete positional scale inference is revisited, plumb
70
+ // mark-level context into getDefaultScaleType instead of deciding only
71
+ // from channel + data type. The `markTypes` collection above is the
72
+ // natural starting point for a Vega-Lite-like band-vs-point choice,
73
+ // including future rect-backed marks such as "bar".
44
74
  props.type = getDefaultScaleType(channel, dataType);
45
75
  }
46
76
 
77
+ if (typeof props.range == "string") {
78
+ if (!isConfigRangeName(props.range)) {
79
+ throw new Error(
80
+ 'Unknown named scale range "' +
81
+ props.range +
82
+ '". Supported names: shape, size, angle, heatmap, ramp, diverging.'
83
+ );
84
+ }
85
+
86
+ const resolvedNamedRange = getConfiguredNamedRange(
87
+ configScopes,
88
+ props.range
89
+ );
90
+ if (resolvedNamedRange === undefined) {
91
+ throw new Error(
92
+ 'Named scale range "' +
93
+ props.range +
94
+ '" is not configured in config.range.'
95
+ );
96
+ }
97
+
98
+ if (
99
+ isColorChannel(channel) &&
100
+ (typeof resolvedNamedRange == "string" ||
101
+ (resolvedNamedRange != null &&
102
+ typeof resolvedNamedRange == "object" &&
103
+ !Array.isArray(resolvedNamedRange)))
104
+ ) {
105
+ props.scheme =
106
+ /** @type {import("../spec/scale.js").Scale["scheme"]} */ (
107
+ resolvedNamedRange
108
+ );
109
+ delete props.range;
110
+ } else {
111
+ props.range =
112
+ /** @type {import("../spec/scale.js").Scale["range"]} */ (
113
+ resolvedNamedRange
114
+ );
115
+ }
116
+ }
117
+
47
118
  // Reverse discrete y axis
48
119
  if (
49
120
  channel == "y" &&
@@ -58,9 +129,15 @@ export function resolveScalePropsBase({
58
129
  // TODO: Props should be set more intelligently
59
130
  }
60
131
 
61
- // By default, index and locus scales are zoomable, others are not
62
- if (!("zoom" in props) && [INDEX, LOCUS].includes(props.type)) {
63
- props.zoom = true;
132
+ // By default, index and locus scales are zoomable, others are not.
133
+ // Config can override this baseline via scale.zoom.
134
+ if (!("zoom" in props)) {
135
+ const scaleConfig = getConfiguredScaleConfig(configScopes, dataType);
136
+ if (scaleConfig.zoom !== undefined) {
137
+ props.zoom = scaleConfig.zoom;
138
+ } else if ([INDEX, LOCUS].includes(props.type)) {
139
+ props.zoom = true;
140
+ }
64
141
  }
65
142
 
66
143
  applyLockedProperties(props, channel);
@@ -51,6 +51,7 @@ export default class ScaleResolution implements ScaleResolutionApi {
51
51
  * @param {ScaleResolutionListener} listener function
52
52
  */
53
53
  removeEventListener(type: import("../types/scaleResolutionApi.js").ScaleResolutionEventType, listener: import("../types/scaleResolutionApi.js").ScaleResolutionListener): void;
54
+ syncLinkedSelectionFromDomain(): void;
54
55
  /**
55
56
  * @param {ScaleResolutionMember} member
56
57
  * @returns {() => boolean}
@@ -63,6 +64,36 @@ export default class ScaleResolution implements ScaleResolutionApi {
63
64
  * @returns {() => void}
64
65
  */
65
66
  registerCollectorSubscriptions(collector: import("../data/collector.js").default, accessors: Iterable<import("../types/encoder.js").ScaleAccessor>): () => void;
67
+ /**
68
+ * Returns true if the domain has been defined explicitly, i.e. not extracted from the data.
69
+ */
70
+ isDomainDefinedExplicitly(): boolean;
71
+ isDomainInitialized(): boolean;
72
+ /**
73
+ * Returns locus assembly requirements without initializing the scale.
74
+ *
75
+ * This is intentionally side-effect free: it only inspects merged scale
76
+ * properties from registered members and does not touch default domains or
77
+ * instantiate scale instances.
78
+ *
79
+ * @returns {{
80
+ * assembly: import("../spec/scale.js").Scale["assembly"] | undefined,
81
+ * needsDefaultAssembly: boolean
82
+ * }}
83
+ */
84
+ getAssemblyRequirement(): {
85
+ assembly: import("../spec/scale.js").Scale["assembly"] | undefined;
86
+ needsDefaultAssembly: boolean;
87
+ };
88
+ /**
89
+ * Returns the resolved scale type without instantiating the scale.
90
+ *
91
+ * Useful during view construction, before assembly preflight has loaded
92
+ * URL-backed locus genomes.
93
+ *
94
+ * @returns {import("../spec/scale.js").Scale["type"] | undefined}
95
+ */
96
+ getResolvedScaleType(): import("../spec/scale.js").Scale["type"] | undefined;
66
97
  /**
67
98
  * Reconfigures the scale: updates domain and other settings.
68
99
  *
@@ -112,6 +143,14 @@ export default class ScaleResolution implements ScaleResolutionApi {
112
143
  * @returns {NumericDomain | ComplexDomain}
113
144
  */
114
145
  getComplexDomain(): import("../spec/scale.js").NumericDomain | import("../spec/scale.js").ComplexDomain;
146
+ /**
147
+ * Returns metadata about a selection-linked domain, if present.
148
+ */
149
+ getLinkedSelectionDomainInfo(): {
150
+ param: string;
151
+ encoding: "x" | "y";
152
+ persist: boolean;
153
+ };
115
154
  /**
116
155
  * Return true if the scale is zoomable and the current domain differs from the initial domain.
117
156
  *
@@ -1 +1 @@
1
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1
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