react-msaview 5.10.0 → 6.1.0

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 (226) hide show
  1. package/bundle/index.js +99 -99
  2. package/bundle/index.js.map +4 -4
  3. package/dist/clustalX.js +22 -22
  4. package/dist/clustalX.js.map +1 -1
  5. package/dist/columnCounts.d.ts +7 -0
  6. package/dist/columnCounts.js +18 -0
  7. package/dist/columnCounts.js.map +1 -1
  8. package/dist/components/CopyButton.d.ts +9 -0
  9. package/dist/components/CopyButton.js +23 -0
  10. package/dist/components/CopyButton.js.map +1 -0
  11. package/dist/components/DragHandle.d.ts +25 -0
  12. package/dist/components/DragHandle.js +49 -0
  13. package/dist/components/DragHandle.js.map +1 -0
  14. package/dist/components/Loading.js +2 -2
  15. package/dist/components/Loading.js.map +1 -1
  16. package/dist/components/MSAView.js +2 -2
  17. package/dist/components/MSAView.js.map +1 -1
  18. package/dist/components/ResizeHandles.d.ts +4 -2
  19. package/dist/components/ResizeHandles.js +35 -54
  20. package/dist/components/ResizeHandles.js.map +1 -1
  21. package/dist/components/SequenceTextArea.js +3 -10
  22. package/dist/components/SequenceTextArea.js.map +1 -1
  23. package/dist/components/VerticalScrollbar.js +11 -25
  24. package/dist/components/VerticalScrollbar.js.map +1 -1
  25. package/dist/components/dialogs/FeatureDialog.js +3 -3
  26. package/dist/components/dialogs/FeatureDialog.js.map +1 -1
  27. package/dist/components/dialogs/InterProScanDialog.js +52 -129
  28. package/dist/components/dialogs/InterProScanDialog.js.map +1 -1
  29. package/dist/components/dialogs/{UserProvidedDomainsDialog.d.ts → InterProScanFileDialog.d.ts} +2 -2
  30. package/dist/components/dialogs/{UserProvidedDomainsDialog.js → InterProScanFileDialog.js} +6 -10
  31. package/dist/components/dialogs/InterProScanFileDialog.js.map +1 -0
  32. package/dist/components/dialogs/TrackInfoDialog.d.ts +2 -4
  33. package/dist/components/dialogs/TrackInfoDialog.js +8 -14
  34. package/dist/components/dialogs/TrackInfoDialog.js.map +1 -1
  35. package/dist/components/header/FileMenu.js +3 -3
  36. package/dist/components/header/FileMenu.js.map +1 -1
  37. package/dist/components/header/GappynessSlider.js +1 -1
  38. package/dist/components/header/GappynessSlider.js.map +1 -1
  39. package/dist/components/header/{getDomainsMenu.d.ts → getAnnotationsMenu.d.ts} +1 -1
  40. package/dist/components/header/{getDomainsMenu.js → getAnnotationsMenu.js} +10 -9
  41. package/dist/components/header/getAnnotationsMenu.js.map +1 -0
  42. package/dist/components/header/settingsMenuItems.js +15 -0
  43. package/dist/components/header/settingsMenuItems.js.map +1 -1
  44. package/dist/components/import/ImportForm.js +1 -1
  45. package/dist/components/import/ImportForm.js.map +1 -1
  46. package/dist/components/import/ImportFormExamples.js +66 -57
  47. package/dist/components/import/ImportFormExamples.js.map +1 -1
  48. package/dist/components/minimap/Minimap.js +40 -23
  49. package/dist/components/minimap/Minimap.js.map +1 -1
  50. package/dist/components/minimap/MinimapSVG.d.ts +2 -1
  51. package/dist/components/minimap/MinimapSVG.js +3 -4
  52. package/dist/components/minimap/MinimapSVG.js.map +1 -1
  53. package/dist/components/minimap/minimapLayout.d.ts +10 -1
  54. package/dist/components/minimap/minimapLayout.js +15 -10
  55. package/dist/components/minimap/minimapLayout.js.map +1 -1
  56. package/dist/components/msa/{DomainLegend.d.ts → AnnotationLegend.d.ts} +2 -2
  57. package/dist/components/msa/{DomainLegend.js → AnnotationLegend.js} +4 -4
  58. package/dist/components/msa/AnnotationLegend.js.map +1 -0
  59. package/dist/components/msa/MSACanvas.js +9 -3
  60. package/dist/components/msa/MSACanvas.js.map +1 -1
  61. package/dist/components/msa/MSACanvasBlock.js +12 -3
  62. package/dist/components/msa/MSACanvasBlock.js.map +1 -1
  63. package/dist/components/msa/MSAMouseoverCanvas.js +1 -2
  64. package/dist/components/msa/MSAMouseoverCanvas.js.map +1 -1
  65. package/dist/components/msa/MSAPanel.js +2 -2
  66. package/dist/components/msa/MSAPanel.js.map +1 -1
  67. package/dist/components/msa/domainBandCursor.d.ts +17 -0
  68. package/dist/components/msa/domainBandCursor.js +39 -0
  69. package/dist/components/msa/domainBandCursor.js.map +1 -0
  70. package/dist/components/msa/msaRaster.d.ts +63 -0
  71. package/dist/components/msa/msaRaster.js +252 -0
  72. package/dist/components/msa/msaRaster.js.map +1 -0
  73. package/dist/components/msa/renderMSABlock.d.ts +2 -1
  74. package/dist/components/msa/renderMSABlock.js +27 -41
  75. package/dist/components/msa/renderMSABlock.js.map +1 -1
  76. package/dist/components/msa/renderMSAMouseover.js +1 -2
  77. package/dist/components/msa/renderMSAMouseover.js.map +1 -1
  78. package/dist/components/msa/tileColor.d.ts +6 -0
  79. package/dist/components/msa/tileColor.js +35 -0
  80. package/dist/components/msa/tileColor.js.map +1 -0
  81. package/dist/components/renderCtx.d.ts +1 -1
  82. package/dist/components/tracks/TrackBlocks.d.ts +14 -0
  83. package/dist/components/tracks/TrackBlocks.js +65 -0
  84. package/dist/components/tracks/TrackBlocks.js.map +1 -0
  85. package/dist/components/tracks/{renderTracksSvg.d.ts → drawTracks.d.ts} +22 -10
  86. package/dist/components/tracks/drawTracks.js +193 -0
  87. package/dist/components/tracks/drawTracks.js.map +1 -0
  88. package/dist/components/tree/TreeCanvas.js +8 -2
  89. package/dist/components/tree/TreeCanvas.js.map +1 -1
  90. package/dist/components/tree/TreeCanvasBlock.js +7 -4
  91. package/dist/components/tree/TreeCanvasBlock.js.map +1 -1
  92. package/dist/components/tree/TreeRuler.js +5 -2
  93. package/dist/components/tree/TreeRuler.js.map +1 -1
  94. package/dist/components/tree/renderTreeCanvas.js +5 -2
  95. package/dist/components/tree/renderTreeCanvas.js.map +1 -1
  96. package/dist/constants.d.ts +3 -0
  97. package/dist/constants.js +8 -0
  98. package/dist/constants.js.map +1 -1
  99. package/dist/ggplotPalettes.d.ts +0 -1
  100. package/dist/ggplotPalettes.js +0 -3
  101. package/dist/ggplotPalettes.js.map +1 -1
  102. package/dist/hierarchy.d.ts +2 -6
  103. package/dist/hierarchy.js +4 -6
  104. package/dist/hierarchy.js.map +1 -1
  105. package/dist/index.d.ts +2 -2
  106. package/dist/launchInterProScan.d.ts +0 -23
  107. package/dist/launchInterProScan.js +2 -5
  108. package/dist/launchInterProScan.js.map +1 -1
  109. package/dist/measureTextCanvas.js +21 -6
  110. package/dist/measureTextCanvas.js.map +1 -1
  111. package/dist/model/DataModel.d.ts +1 -4
  112. package/dist/model/DataModel.js +8 -10
  113. package/dist/model/DataModel.js.map +1 -1
  114. package/dist/model.d.ts +86 -107
  115. package/dist/model.js +238 -162
  116. package/dist/model.js.map +1 -1
  117. package/dist/neighborJoining.js +34 -18
  118. package/dist/neighborJoining.js.map +1 -1
  119. package/dist/renderTestEnv.d.ts +43 -0
  120. package/dist/renderTestEnv.js +88 -0
  121. package/dist/renderTestEnv.js.map +1 -0
  122. package/dist/renderToSvg.js +3 -3
  123. package/dist/renderToSvg.js.map +1 -1
  124. package/dist/rowCoordinateCalculations.d.ts +13 -17
  125. package/dist/rowCoordinateCalculations.js +45 -39
  126. package/dist/rowCoordinateCalculations.js.map +1 -1
  127. package/dist/sequenceLogo.d.ts +28 -0
  128. package/dist/sequenceLogo.js +47 -0
  129. package/dist/sequenceLogo.js.map +1 -0
  130. package/dist/types.d.ts +6 -11
  131. package/dist/version.d.ts +1 -1
  132. package/dist/version.js +1 -1
  133. package/dist/version.js.map +1 -1
  134. package/package.json +5 -5
  135. package/src/clustalX.ts +22 -22
  136. package/src/colSpace.test.ts +27 -0
  137. package/src/columnCounts.test.ts +15 -0
  138. package/src/columnCounts.ts +19 -0
  139. package/src/components/CopyButton.tsx +44 -0
  140. package/src/components/DragHandle.tsx +81 -0
  141. package/src/components/Loading.tsx +10 -1
  142. package/src/components/MSAView.tsx +2 -3
  143. package/src/components/ResizeHandles.tsx +70 -87
  144. package/src/components/SequenceTextArea.tsx +3 -16
  145. package/src/components/VerticalScrollbar.tsx +20 -33
  146. package/src/components/dialogs/FeatureDialog.tsx +3 -4
  147. package/src/components/dialogs/InterProScanDialog.tsx +54 -131
  148. package/src/components/dialogs/{UserProvidedDomainsDialog.tsx → InterProScanFileDialog.tsx} +6 -14
  149. package/src/components/dialogs/TrackInfoDialog.tsx +18 -20
  150. package/src/components/header/FileMenu.tsx +3 -3
  151. package/src/components/header/GappynessSlider.tsx +4 -1
  152. package/src/components/header/{getDomainsMenu.ts → getAnnotationsMenu.ts} +10 -9
  153. package/src/components/header/settingsMenuItems.ts +18 -0
  154. package/src/components/import/ImportForm.tsx +1 -1
  155. package/src/components/import/ImportFormExamples.tsx +82 -133
  156. package/src/components/minimap/Minimap.tsx +67 -32
  157. package/src/components/minimap/MinimapSVG.tsx +32 -31
  158. package/src/components/minimap/minimapLayout.test.ts +60 -0
  159. package/src/components/minimap/minimapLayout.ts +15 -10
  160. package/src/components/msa/{DomainLegend.tsx → AnnotationLegend.tsx} +7 -3
  161. package/src/components/msa/MSACanvas.tsx +24 -11
  162. package/src/components/msa/MSACanvasBlock.tsx +13 -3
  163. package/src/components/msa/MSAMouseoverCanvas.tsx +1 -3
  164. package/src/components/msa/MSAPanel.tsx +2 -2
  165. package/src/components/msa/domainBandCursor.ts +41 -0
  166. package/src/components/msa/msaRaster.test.ts +145 -0
  167. package/src/components/msa/msaRaster.ts +350 -0
  168. package/src/components/msa/renderMSABlock.ts +34 -43
  169. package/src/components/msa/renderMSAMouseover.ts +1 -3
  170. package/src/components/msa/tileColor.ts +37 -0
  171. package/src/components/renderCtx.ts +2 -0
  172. package/src/components/tracks/TrackBlocks.tsx +111 -0
  173. package/src/components/tracks/drawTracks.ts +323 -0
  174. package/src/components/tree/TreeCanvas.tsx +16 -4
  175. package/src/components/tree/TreeCanvasBlock.tsx +18 -11
  176. package/src/components/tree/TreeRuler.tsx +7 -2
  177. package/src/components/tree/renderTreeCanvas.test.ts +15 -7
  178. package/src/components/tree/renderTreeCanvas.ts +5 -1
  179. package/src/constants.ts +10 -0
  180. package/src/domainBands.test.ts +24 -0
  181. package/src/domainLetterColor.test.ts +80 -0
  182. package/src/ggplotPalettes.ts +0 -4
  183. package/src/hierarchy.test.ts +7 -7
  184. package/src/hierarchy.ts +6 -9
  185. package/src/impgRender.test.tsx +2 -57
  186. package/src/index.ts +4 -1
  187. package/src/largeTree.test.ts +39 -4
  188. package/src/launchInterProScan.ts +3 -30
  189. package/src/loadErrorDisplay.test.tsx +102 -0
  190. package/src/measureTextCanvas.ts +22 -6
  191. package/src/model/DataModel.ts +11 -11
  192. package/src/model.ts +262 -172
  193. package/src/neighborJoining.ts +36 -18
  194. package/src/renderDomainsSvg.test.tsx +2 -57
  195. package/src/renderMinimapSvg.test.tsx +55 -0
  196. package/src/renderSequenceLogoSvg.test.tsx +176 -0
  197. package/src/renderTestEnv.ts +96 -0
  198. package/src/renderToSvg.tsx +3 -3
  199. package/src/rowCoordinateCalculations.ts +48 -44
  200. package/src/sequenceLogo.test.ts +88 -0
  201. package/src/sequenceLogo.ts +63 -0
  202. package/src/types.ts +17 -16
  203. package/src/version.ts +1 -1
  204. package/src/viewChrome.test.tsx +134 -0
  205. package/dist/components/ConservationTrack.d.ts +0 -8
  206. package/dist/components/ConservationTrack.js +0 -49
  207. package/dist/components/ConservationTrack.js.map +0 -1
  208. package/dist/components/TextTrack.d.ts +0 -8
  209. package/dist/components/TextTrack.js +0 -58
  210. package/dist/components/TextTrack.js.map +0 -1
  211. package/dist/components/dialogs/DomainDialog.d.ts +0 -6
  212. package/dist/components/dialogs/DomainDialog.js +0 -19
  213. package/dist/components/dialogs/DomainDialog.js.map +0 -1
  214. package/dist/components/dialogs/UserProvidedDomainsDialog.js.map +0 -1
  215. package/dist/components/header/SettingsMenu.d.ts +0 -6
  216. package/dist/components/header/SettingsMenu.js +0 -40
  217. package/dist/components/header/SettingsMenu.js.map +0 -1
  218. package/dist/components/header/getDomainsMenu.js.map +0 -1
  219. package/dist/components/msa/DomainLegend.js.map +0 -1
  220. package/dist/components/tracks/renderTracksSvg.js +0 -126
  221. package/dist/components/tracks/renderTracksSvg.js.map +0 -1
  222. package/src/components/ConservationTrack.tsx +0 -99
  223. package/src/components/TextTrack.tsx +0 -103
  224. package/src/components/dialogs/DomainDialog.tsx +0 -45
  225. package/src/components/header/SettingsMenu.tsx +0 -57
  226. package/src/components/tracks/renderTracksSvg.ts +0 -247

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