@genome-spy/core 0.14.0

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Files changed (226) hide show
  1. package/dist/index.js +224 -0
  2. package/dist/style.css +1 -0
  3. package/package.json +54 -0
  4. package/src/data/collector.js +178 -0
  5. package/src/data/collector.test.js +82 -0
  6. package/src/data/dataFlow.js +109 -0
  7. package/src/data/dataFlow.test.js +3 -0
  8. package/src/data/facetNode.js +17 -0
  9. package/src/data/flow.test.js +71 -0
  10. package/src/data/flowBatch.d.ts +40 -0
  11. package/src/data/flowNode.js +283 -0
  12. package/src/data/flowNode.test.js +49 -0
  13. package/src/data/flowOptimizer.js +117 -0
  14. package/src/data/flowOptimizer.test.js +192 -0
  15. package/src/data/flowTestUtils.js +63 -0
  16. package/src/data/formats/fasta.js +32 -0
  17. package/src/data/formats/fasta.test.js +26 -0
  18. package/src/data/sources/dataSource.js +22 -0
  19. package/src/data/sources/dataSourceFactory.js +24 -0
  20. package/src/data/sources/dataUtils.js +31 -0
  21. package/src/data/sources/dynamicCallbackSource.js +56 -0
  22. package/src/data/sources/dynamicSource.js +36 -0
  23. package/src/data/sources/inlineSource.js +69 -0
  24. package/src/data/sources/inlineSource.test.js +55 -0
  25. package/src/data/sources/namedSource.js +74 -0
  26. package/src/data/sources/sequenceSource.js +46 -0
  27. package/src/data/sources/sequenceSource.test.js +45 -0
  28. package/src/data/sources/urlSource.js +74 -0
  29. package/src/data/transforms/aggregate.js +69 -0
  30. package/src/data/transforms/clone.js +40 -0
  31. package/src/data/transforms/clone.test.js +10 -0
  32. package/src/data/transforms/coverage.js +187 -0
  33. package/src/data/transforms/coverage.test.js +122 -0
  34. package/src/data/transforms/filter.js +37 -0
  35. package/src/data/transforms/filter.test.js +17 -0
  36. package/src/data/transforms/filterScoredLabels.js +134 -0
  37. package/src/data/transforms/flattenCompressedExons.js +57 -0
  38. package/src/data/transforms/flattenDelimited.js +68 -0
  39. package/src/data/transforms/flattenDelimited.test.js +86 -0
  40. package/src/data/transforms/flattenSequence.js +39 -0
  41. package/src/data/transforms/flattenSequence.test.js +33 -0
  42. package/src/data/transforms/formula.js +39 -0
  43. package/src/data/transforms/formula.test.js +18 -0
  44. package/src/data/transforms/identifier.js +108 -0
  45. package/src/data/transforms/identifier.test.js +82 -0
  46. package/src/data/transforms/linearizeGenomicCoordinate.js +101 -0
  47. package/src/data/transforms/measureText.js +44 -0
  48. package/src/data/transforms/pileup.js +128 -0
  49. package/src/data/transforms/pileup.test.js +69 -0
  50. package/src/data/transforms/project.js +41 -0
  51. package/src/data/transforms/project.test.js +31 -0
  52. package/src/data/transforms/regexExtract.js +61 -0
  53. package/src/data/transforms/regexExtract.test.js +66 -0
  54. package/src/data/transforms/regexFold.js +141 -0
  55. package/src/data/transforms/regexFold.test.js +159 -0
  56. package/src/data/transforms/sample.js +101 -0
  57. package/src/data/transforms/sample.test.js +37 -0
  58. package/src/data/transforms/stack.js +137 -0
  59. package/src/data/transforms/stack.test.js +90 -0
  60. package/src/data/transforms/transformFactory.js +60 -0
  61. package/src/encoder/accessor.js +82 -0
  62. package/src/encoder/accessor.test.js +46 -0
  63. package/src/encoder/encoder.js +369 -0
  64. package/src/encoder/encoder.test.js +97 -0
  65. package/src/fonts/Lato-Regular.json +1267 -0
  66. package/src/fonts/Lato-Regular.png +0 -0
  67. package/src/fonts/OFL.txt +93 -0
  68. package/src/fonts/README.md +3 -0
  69. package/src/fonts/bmFont.d.ts +58 -0
  70. package/src/fonts/bmFontManager.js +357 -0
  71. package/src/fonts/bmFontMetrics.js +108 -0
  72. package/src/genome/genome.js +305 -0
  73. package/src/genome/genome.test.js +152 -0
  74. package/src/genome/genomeStore.js +54 -0
  75. package/src/genome/locusFormat.js +31 -0
  76. package/src/genome/scaleIndex.js +199 -0
  77. package/src/genome/scaleIndex.test.js +61 -0
  78. package/src/genome/scaleLocus.js +112 -0
  79. package/src/genome/scaleLocus.test.js +3 -0
  80. package/src/genomeSpy.js +753 -0
  81. package/src/gl/arrayBuilder.js +199 -0
  82. package/src/gl/dataToVertices.js +621 -0
  83. package/src/gl/includes/common.glsl +63 -0
  84. package/src/gl/includes/fp64-arithmetic.glsl +187 -0
  85. package/src/gl/includes/fp64-utils.js +132 -0
  86. package/src/gl/includes/picking.fragment.glsl +3 -0
  87. package/src/gl/includes/picking.vertex.glsl +29 -0
  88. package/src/gl/includes/sampleFacet.glsl +107 -0
  89. package/src/gl/includes/scales.glsl +79 -0
  90. package/src/gl/includes/scales_fp64.glsl +30 -0
  91. package/src/gl/link.fragment.glsl +18 -0
  92. package/src/gl/link.vertex.glsl +111 -0
  93. package/src/gl/point.fragment.glsl +123 -0
  94. package/src/gl/point.vertex.glsl +128 -0
  95. package/src/gl/rect.fragment.glsl +51 -0
  96. package/src/gl/rect.vertex.glsl +114 -0
  97. package/src/gl/rule.fragment.glsl +52 -0
  98. package/src/gl/rule.vertex.glsl +89 -0
  99. package/src/gl/text.fragment.glsl +31 -0
  100. package/src/gl/text.vertex.glsl +246 -0
  101. package/src/gl/webGLHelper.js +490 -0
  102. package/src/img/bowtie.svg +1 -0
  103. package/src/img/genomespy-favicon.svg +34 -0
  104. package/src/index.html +11 -0
  105. package/src/index.js +151 -0
  106. package/src/marks/link.js +189 -0
  107. package/src/marks/mark.js +867 -0
  108. package/src/marks/markUtils.js +109 -0
  109. package/src/marks/pointMark.js +279 -0
  110. package/src/marks/rectMark.js +236 -0
  111. package/src/marks/rule.js +231 -0
  112. package/src/marks/text.js +274 -0
  113. package/src/options.d.ts +9 -0
  114. package/src/scale/colorUtils.js +184 -0
  115. package/src/scale/glslScaleGenerator.js +462 -0
  116. package/src/scale/scale.js +441 -0
  117. package/src/scale/scale.test.js +323 -0
  118. package/src/scale/ticks.js +198 -0
  119. package/src/scale/ticks.test.js +39 -0
  120. package/src/singlePageApp.js +13 -0
  121. package/src/spec/axis.d.ts +296 -0
  122. package/src/spec/channel.d.ts +127 -0
  123. package/src/spec/data.d.ts +185 -0
  124. package/src/spec/font.d.ts +15 -0
  125. package/src/spec/genome.d.ts +35 -0
  126. package/src/spec/mark.d.ts +432 -0
  127. package/src/spec/root.d.ts +22 -0
  128. package/src/spec/scale.d.ts +265 -0
  129. package/src/spec/tooltip.d.ts +9 -0
  130. package/src/spec/transform.d.ts +479 -0
  131. package/src/spec/view.d.ts +215 -0
  132. package/src/styles/genome-spy.scss +153 -0
  133. package/src/tooltip/dataTooltipHandler.js +59 -0
  134. package/src/tooltip/refseqGeneTooltipHandler.js +77 -0
  135. package/src/tooltip/tooltipHandler.ts +12 -0
  136. package/src/types/filetypes.d.ts +4 -0
  137. package/src/types/flatqueue.d.ts +53 -0
  138. package/src/types/glsl.d.ts +4 -0
  139. package/src/types/object.d.ts +21 -0
  140. package/src/types/vega-scale.d.ts +60 -0
  141. package/src/utils/animator.js +83 -0
  142. package/src/utils/arrayUtils.js +55 -0
  143. package/src/utils/binnedRangeIndex.js +83 -0
  144. package/src/utils/clamp.js +8 -0
  145. package/src/utils/cloner.js +32 -0
  146. package/src/utils/cloner.test.js +23 -0
  147. package/src/utils/coalesce.js +11 -0
  148. package/src/utils/coalesce.test.js +15 -0
  149. package/src/utils/concatIterables.js +26 -0
  150. package/src/utils/concatIterables.test.js +7 -0
  151. package/src/utils/debounce.js +37 -0
  152. package/src/utils/domainArray.js +224 -0
  153. package/src/utils/domainArray.test.js +129 -0
  154. package/src/utils/eerp.js +13 -0
  155. package/src/utils/expression.js +32 -0
  156. package/src/utils/field.js +28 -0
  157. package/src/utils/fisheye.js +60 -0
  158. package/src/utils/formatObject.js +31 -0
  159. package/src/utils/html.js +23 -0
  160. package/src/utils/html.test.js +13 -0
  161. package/src/utils/indexer.js +43 -0
  162. package/src/utils/indexer.test.js +46 -0
  163. package/src/utils/inertia.js +124 -0
  164. package/src/utils/interactionEvent.js +33 -0
  165. package/src/utils/iterateNestedMaps.js +21 -0
  166. package/src/utils/iterateNestedMaps.test.js +32 -0
  167. package/src/utils/kWayMerge.js +42 -0
  168. package/src/utils/kWayMerge.test.js +25 -0
  169. package/src/utils/layout/flexLayout.js +336 -0
  170. package/src/utils/layout/flexLayout.test.js +296 -0
  171. package/src/utils/layout/padding.js +107 -0
  172. package/src/utils/layout/point.js +23 -0
  173. package/src/utils/layout/rectangle.js +282 -0
  174. package/src/utils/layout/rectangle.test.js +171 -0
  175. package/src/utils/mergeObjects.js +99 -0
  176. package/src/utils/mergeObjects.test.js +41 -0
  177. package/src/utils/numberExtractor.js +24 -0
  178. package/src/utils/numberExtractor.test.js +5 -0
  179. package/src/utils/point.js +14 -0
  180. package/src/utils/propertyCacher.js +70 -0
  181. package/src/utils/propertyCacher.test.js +84 -0
  182. package/src/utils/propertyCoalescer.js +37 -0
  183. package/src/utils/propertyCoalescer.test.js +21 -0
  184. package/src/utils/reservationMap.js +103 -0
  185. package/src/utils/reservationMap.test.js +19 -0
  186. package/src/utils/scaleNull.js +19 -0
  187. package/src/utils/setOperations.js +75 -0
  188. package/src/utils/smoothstep.js +10 -0
  189. package/src/utils/throttle.js +34 -0
  190. package/src/utils/topK.js +76 -0
  191. package/src/utils/topK.test.js +63 -0
  192. package/src/utils/transition.js +74 -0
  193. package/src/utils/ui/tooltip.js +189 -0
  194. package/src/utils/url.js +22 -0
  195. package/src/utils/variableTools.js +24 -0
  196. package/src/utils/variableTools.test.js +12 -0
  197. package/src/view/axisResolution.js +135 -0
  198. package/src/view/axisResolution.test.js +200 -0
  199. package/src/view/axisView.js +746 -0
  200. package/src/view/channel.js +5 -0
  201. package/src/view/concatView.js +296 -0
  202. package/src/view/containerView.js +141 -0
  203. package/src/view/decoratorView.js +510 -0
  204. package/src/view/facetView.js +488 -0
  205. package/src/view/flowBuilder.js +362 -0
  206. package/src/view/flowBuilder.test.js +124 -0
  207. package/src/view/importView.js +19 -0
  208. package/src/view/layerView.js +60 -0
  209. package/src/view/rendering.d.ts +44 -0
  210. package/src/view/renderingContext/compositeViewRenderingContext.js +51 -0
  211. package/src/view/renderingContext/deferredViewRenderingContext.js +174 -0
  212. package/src/view/renderingContext/layoutRecorderViewRenderingContext.js +128 -0
  213. package/src/view/renderingContext/simpleViewRenderingContext.js +62 -0
  214. package/src/view/renderingContext/svgViewRenderingContext.js +121 -0
  215. package/src/view/renderingContext/viewRenderingContext.js +41 -0
  216. package/src/view/scaleResolution.js +756 -0
  217. package/src/view/scaleResolution.test.js +571 -0
  218. package/src/view/scaleResolutionApi.d.ts +40 -0
  219. package/src/view/testUtils.js +48 -0
  220. package/src/view/unitView.js +368 -0
  221. package/src/view/view.js +589 -0
  222. package/src/view/view.test.js +213 -0
  223. package/src/view/viewContext.d.ts +57 -0
  224. package/src/view/viewFactory.js +179 -0
  225. package/src/view/viewFactory.test.js +16 -0
  226. package/src/view/viewUtils.js +420 -0
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