react-msaview 9.1.0 → 9.1.1

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 (272) hide show
  1. package/bundle/index.js +111 -115
  2. package/bundle/index.js.map +4 -4
  3. package/dist/blosum62.d.ts +3 -0
  4. package/dist/blosum62.js +43 -0
  5. package/dist/blosum62.js.map +1 -0
  6. package/dist/colorSchemes.js +1 -0
  7. package/dist/colorSchemes.js.map +1 -1
  8. package/dist/components/Loading.d.ts +3 -2
  9. package/dist/components/Loading.js +2 -2
  10. package/dist/components/Loading.js.map +1 -1
  11. package/dist/components/MSAView.d.ts +3 -2
  12. package/dist/components/MSAView.js +7 -4
  13. package/dist/components/MSAView.js.map +1 -1
  14. package/dist/components/MSAViewer.d.ts +62 -12
  15. package/dist/components/MetadataTable.d.ts +4 -1
  16. package/dist/components/MetadataTable.js +55 -16
  17. package/dist/components/MetadataTable.js.map +1 -1
  18. package/dist/components/Track.js +6 -0
  19. package/dist/components/Track.js.map +1 -1
  20. package/dist/components/controls.js +2 -1
  21. package/dist/components/controls.js.map +1 -1
  22. package/dist/components/dialogs/AnnotationFileDialog.js +7 -2
  23. package/dist/components/dialogs/AnnotationFileDialog.js.map +1 -1
  24. package/dist/components/dialogs/FeatureDialog.js +2 -2
  25. package/dist/components/dialogs/FeatureDialog.js.map +1 -1
  26. package/dist/components/{header/MSASettingsMenu.d.ts → dialogs/GapThresholdDialog.d.ts} +3 -2
  27. package/dist/components/dialogs/GapThresholdDialog.js +15 -0
  28. package/dist/components/dialogs/GapThresholdDialog.js.map +1 -0
  29. package/dist/components/{header → dialogs}/GappynessSlider.d.ts +1 -1
  30. package/dist/components/{header → dialogs}/GappynessSlider.js +3 -10
  31. package/dist/components/dialogs/GappynessSlider.js.map +1 -0
  32. package/dist/components/{header → dialogs}/GoToBox.d.ts +4 -2
  33. package/dist/components/dialogs/GoToBox.js +48 -0
  34. package/dist/components/dialogs/GoToBox.js.map +1 -0
  35. package/dist/components/dialogs/GoToDialog.d.ts +6 -0
  36. package/dist/components/dialogs/GoToDialog.js +10 -0
  37. package/dist/components/dialogs/GoToDialog.js.map +1 -0
  38. package/dist/components/dialogs/MetadataDialog.js +11 -3
  39. package/dist/components/dialogs/MetadataDialog.js.map +1 -1
  40. package/dist/components/dialogs/goTo.d.ts +5 -0
  41. package/dist/components/{header → dialogs}/goTo.js +1 -1
  42. package/dist/components/dialogs/goTo.js.map +1 -0
  43. package/dist/components/dialogs/metadataLabels.d.ts +4 -0
  44. package/dist/components/dialogs/metadataLabels.js +52 -0
  45. package/dist/components/dialogs/metadataLabels.js.map +1 -0
  46. package/dist/components/dialogs/metadataRecord.d.ts +1 -0
  47. package/dist/components/dialogs/metadataRecord.js +38 -0
  48. package/dist/components/dialogs/metadataRecord.js.map +1 -0
  49. package/dist/components/header/Header.d.ts +6 -2
  50. package/dist/components/header/Header.js +30 -32
  51. package/dist/components/header/Header.js.map +1 -1
  52. package/dist/components/header/{TreeSettingsMenu.d.ts → HiddenColumnsChip.d.ts} +2 -2
  53. package/dist/components/header/HiddenColumnsChip.js +15 -0
  54. package/dist/components/header/HiddenColumnsChip.js.map +1 -0
  55. package/dist/components/header/MenuBar.d.ts +6 -0
  56. package/dist/components/header/MenuBar.js +33 -0
  57. package/dist/components/header/MenuBar.js.map +1 -0
  58. package/dist/components/header/ScrollZoomCheckbox.d.ts +7 -0
  59. package/dist/components/header/ScrollZoomCheckbox.js +19 -0
  60. package/dist/components/header/ScrollZoomCheckbox.js.map +1 -0
  61. package/dist/components/header/ZoomControls.js +10 -30
  62. package/dist/components/header/ZoomControls.js.map +1 -1
  63. package/dist/components/header/colorSchemeMenuItems.d.ts +4 -0
  64. package/dist/components/header/colorSchemeMenuItems.js +106 -0
  65. package/dist/components/header/colorSchemeMenuItems.js.map +1 -0
  66. package/dist/components/header/getAnnotationsMenu.d.ts +3 -30
  67. package/dist/components/header/getAnnotationsMenu.js +48 -54
  68. package/dist/components/header/getAnnotationsMenu.js.map +1 -1
  69. package/dist/components/header/menuBarItems.d.ts +11 -0
  70. package/dist/components/header/menuBarItems.js +277 -0
  71. package/dist/components/header/menuBarItems.js.map +1 -0
  72. package/dist/components/import/ImportForm.js +12 -6
  73. package/dist/components/import/ImportForm.js.map +1 -1
  74. package/dist/components/minimap/Minimap.js +7 -3
  75. package/dist/components/minimap/Minimap.js.map +1 -1
  76. package/dist/components/minimap/MinimapSVG.js +2 -1
  77. package/dist/components/minimap/MinimapSVG.js.map +1 -1
  78. package/dist/components/minimap/minimapLayout.d.ts +12 -0
  79. package/dist/components/minimap/minimapLayout.js +20 -0
  80. package/dist/components/minimap/minimapLayout.js.map +1 -1
  81. package/dist/components/msa/MSACanvas.js +26 -9
  82. package/dist/components/msa/MSACanvas.js.map +1 -1
  83. package/dist/components/msa/MSACanvasBlock.js +15 -11
  84. package/dist/components/msa/MSACanvasBlock.js.map +1 -1
  85. package/dist/components/msa/MSAMouseoverCanvas.js +2 -2
  86. package/dist/components/msa/MSAMouseoverCanvas.js.map +1 -1
  87. package/dist/components/msa/WheelZoomHint.d.ts +7 -0
  88. package/dist/components/msa/WheelZoomHint.js +38 -0
  89. package/dist/components/msa/WheelZoomHint.js.map +1 -0
  90. package/dist/components/msa/msaKeys.js +3 -0
  91. package/dist/components/msa/msaKeys.js.map +1 -1
  92. package/dist/components/msa/msaRaster.d.ts +4 -5
  93. package/dist/components/msa/msaRaster.js +5 -5
  94. package/dist/components/msa/msaRaster.js.map +1 -1
  95. package/dist/components/msa/renderBoxFeatureCanvasBlock.js +22 -2
  96. package/dist/components/msa/renderBoxFeatureCanvasBlock.js.map +1 -1
  97. package/dist/components/msa/renderHighlights.d.ts +0 -3
  98. package/dist/components/msa/renderHighlights.js +3 -3
  99. package/dist/components/msa/renderHighlights.js.map +1 -1
  100. package/dist/components/msa/renderMSABlock.d.ts +6 -1
  101. package/dist/components/msa/renderMSABlock.js +44 -17
  102. package/dist/components/msa/renderMSABlock.js.map +1 -1
  103. package/dist/components/msa/tileColor.js +7 -0
  104. package/dist/components/msa/tileColor.js.map +1 -1
  105. package/dist/components/rowpanels/RowPanelBlock.js +2 -2
  106. package/dist/components/rowpanels/RowPanelBlock.js.map +1 -1
  107. package/dist/components/settings/MenuItemsForm.d.ts +10 -0
  108. package/dist/components/settings/MenuItemsForm.js +80 -0
  109. package/dist/components/settings/MenuItemsForm.js.map +1 -0
  110. package/dist/components/settings/SettingsPanel.d.ts +12 -0
  111. package/dist/components/settings/SettingsPanel.js +92 -0
  112. package/dist/components/settings/SettingsPanel.js.map +1 -0
  113. package/dist/components/{header/FileMenu.d.ts → settings/TrackList.d.ts} +2 -2
  114. package/dist/components/settings/TrackList.js +55 -0
  115. package/dist/components/settings/TrackList.js.map +1 -0
  116. package/dist/components/tracks/TrackBlocks.js +2 -2
  117. package/dist/components/tracks/TrackBlocks.js.map +1 -1
  118. package/dist/components/tree/TreeCanvasBlock.js +2 -2
  119. package/dist/components/tree/TreeCanvasBlock.js.map +1 -1
  120. package/dist/components/tree/TreeMenu.js +4 -6
  121. package/dist/components/tree/TreeMenu.js.map +1 -1
  122. package/dist/components/tree/TreeOverview.js +2 -2
  123. package/dist/components/tree/TreeOverview.js.map +1 -1
  124. package/dist/constants.d.ts +4 -1
  125. package/dist/constants.js +7 -1
  126. package/dist/constants.js.map +1 -1
  127. package/dist/darkReader.d.ts +7 -0
  128. package/dist/darkReader.js +42 -0
  129. package/dist/darkReader.js.map +1 -0
  130. package/dist/element.js +22 -47
  131. package/dist/element.js.map +1 -1
  132. package/dist/featurePanels.d.ts +37 -0
  133. package/dist/featurePanels.js +187 -0
  134. package/dist/featurePanels.js.map +1 -0
  135. package/dist/filehandleLoader.d.ts +41 -0
  136. package/dist/filehandleLoader.js +99 -0
  137. package/dist/filehandleLoader.js.map +1 -0
  138. package/dist/index.d.ts +3 -0
  139. package/dist/index.js +2 -0
  140. package/dist/index.js.map +1 -1
  141. package/dist/model/treeModel.d.ts +9 -0
  142. package/dist/model/treeModel.js +12 -1
  143. package/dist/model/treeModel.js.map +1 -1
  144. package/dist/model.d.ts +142 -32
  145. package/dist/model.js +268 -569
  146. package/dist/model.js.map +1 -1
  147. package/dist/neighborJoining.js +1 -40
  148. package/dist/neighborJoining.js.map +1 -1
  149. package/dist/renderToSvg.js +1 -13
  150. package/dist/renderToSvg.js.map +1 -1
  151. package/dist/rerootTree.d.ts +1 -0
  152. package/dist/rerootTree.js +7 -6
  153. package/dist/rerootTree.js.map +1 -1
  154. package/dist/schemeResidueColor.d.ts +12 -0
  155. package/dist/schemeResidueColor.js +33 -0
  156. package/dist/schemeResidueColor.js.map +1 -0
  157. package/dist/similarityColors.d.ts +11 -0
  158. package/dist/similarityColors.js +90 -0
  159. package/dist/similarityColors.js.map +1 -0
  160. package/dist/svgTestUtil.d.ts +62 -12
  161. package/dist/treeDisplay.d.ts +37 -0
  162. package/dist/treeDisplay.js +209 -0
  163. package/dist/treeDisplay.js.map +1 -0
  164. package/dist/types.d.ts +6 -2
  165. package/dist/useWheelScroll.d.ts +3 -1
  166. package/dist/useWheelScroll.js +36 -17
  167. package/dist/useWheelScroll.js.map +1 -1
  168. package/dist/util.d.ts +2 -0
  169. package/dist/util.js +2 -0
  170. package/dist/util.js.map +1 -1
  171. package/dist/version.d.ts +1 -1
  172. package/dist/version.js +1 -1
  173. package/dist/wheelZoom.d.ts +8 -3
  174. package/dist/wheelZoom.js +44 -32
  175. package/dist/wheelZoom.js.map +1 -1
  176. package/dist/zoomSnapshot.d.ts +29 -0
  177. package/dist/zoomSnapshot.js +47 -0
  178. package/dist/zoomSnapshot.js.map +1 -0
  179. package/package.json +11 -11
  180. package/src/blosum62.ts +45 -0
  181. package/src/colorSchemes.ts +1 -0
  182. package/src/components/Loading.tsx +6 -2
  183. package/src/components/MSAView.tsx +22 -5
  184. package/src/components/MetadataTable.tsx +83 -26
  185. package/src/components/Track.tsx +13 -0
  186. package/src/components/controls.ts +2 -1
  187. package/src/components/dialogs/AnnotationFileDialog.tsx +12 -1
  188. package/src/components/dialogs/FeatureDialog.tsx +2 -5
  189. package/src/components/dialogs/GapThresholdDialog.tsx +36 -0
  190. package/src/components/{header → dialogs}/GappynessSlider.tsx +3 -10
  191. package/src/components/{header → dialogs}/GoToBox.tsx +36 -10
  192. package/src/components/dialogs/GoToDialog.tsx +30 -0
  193. package/src/components/dialogs/MetadataDialog.tsx +32 -4
  194. package/src/components/{header → dialogs}/goTo.ts +1 -1
  195. package/src/components/dialogs/metadataLabels.ts +54 -0
  196. package/src/components/dialogs/metadataRecord.tsx +61 -0
  197. package/src/components/header/Header.tsx +75 -42
  198. package/src/components/header/HiddenColumnsChip.tsx +39 -0
  199. package/src/components/header/MenuBar.tsx +64 -0
  200. package/src/components/header/ScrollZoomCheckbox.tsx +46 -0
  201. package/src/components/header/ZoomControls.tsx +20 -35
  202. package/src/components/header/colorSchemeMenuItems.ts +121 -0
  203. package/src/components/header/getAnnotationsMenu.ts +52 -56
  204. package/src/components/header/menuBarItems.ts +357 -0
  205. package/src/components/import/ImportForm.tsx +19 -7
  206. package/src/components/minimap/Minimap.tsx +11 -3
  207. package/src/components/minimap/MinimapSVG.tsx +17 -1
  208. package/src/components/minimap/minimapLayout.ts +27 -0
  209. package/src/components/msa/MSACanvas.tsx +22 -3
  210. package/src/components/msa/MSACanvasBlock.tsx +18 -11
  211. package/src/components/msa/MSAMouseoverCanvas.tsx +2 -2
  212. package/src/components/msa/WheelZoomHint.tsx +56 -0
  213. package/src/components/msa/msaKeys.ts +3 -0
  214. package/src/components/msa/msaRaster.ts +6 -8
  215. package/src/components/msa/renderBoxFeatureCanvasBlock.ts +28 -5
  216. package/src/components/msa/renderHighlights.ts +3 -3
  217. package/src/components/msa/renderMSABlock.ts +51 -15
  218. package/src/components/msa/tileColor.ts +7 -0
  219. package/src/components/rowpanels/RowPanelBlock.tsx +2 -2
  220. package/src/components/settings/MenuItemsForm.tsx +225 -0
  221. package/src/components/settings/SettingsPanel.tsx +156 -0
  222. package/src/components/settings/TrackList.tsx +119 -0
  223. package/src/components/tracks/TrackBlocks.tsx +2 -2
  224. package/src/components/tree/TreeCanvasBlock.tsx +2 -2
  225. package/src/components/tree/TreeMenu.tsx +4 -6
  226. package/src/components/tree/TreeOverview.tsx +2 -2
  227. package/src/constants.ts +9 -1
  228. package/src/darkReader.ts +57 -0
  229. package/src/element.ts +34 -57
  230. package/src/featurePanels.ts +269 -0
  231. package/src/filehandleLoader.ts +136 -0
  232. package/src/index.ts +4 -0
  233. package/src/model/treeModel.ts +13 -0
  234. package/src/model.ts +345 -748
  235. package/src/neighborJoining.ts +1 -42
  236. package/src/renderToSvg.tsx +1 -13
  237. package/src/rerootTree.ts +7 -6
  238. package/src/schemeResidueColor.ts +37 -0
  239. package/src/similarityColors.ts +112 -0
  240. package/src/treeDisplay.ts +278 -0
  241. package/src/types.ts +6 -3
  242. package/src/useWheelScroll.ts +43 -22
  243. package/src/util.ts +3 -0
  244. package/src/version.ts +1 -1
  245. package/src/wheelZoom.ts +55 -33
  246. package/src/zoomSnapshot.ts +80 -0
  247. package/dist/components/header/ColorSchemeMenu.d.ts +0 -12
  248. package/dist/components/header/ColorSchemeMenu.js +0 -37
  249. package/dist/components/header/ColorSchemeMenu.js.map +0 -1
  250. package/dist/components/header/FileMenu.js +0 -92
  251. package/dist/components/header/FileMenu.js.map +0 -1
  252. package/dist/components/header/GappynessSlider.js.map +0 -1
  253. package/dist/components/header/GoToBox.js +0 -31
  254. package/dist/components/header/GoToBox.js.map +0 -1
  255. package/dist/components/header/MSASettingsMenu.js +0 -11
  256. package/dist/components/header/MSASettingsMenu.js.map +0 -1
  257. package/dist/components/header/ScrollZoomIcons.d.ts +0 -6
  258. package/dist/components/header/ScrollZoomIcons.js +0 -35
  259. package/dist/components/header/ScrollZoomIcons.js.map +0 -1
  260. package/dist/components/header/TreeSettingsMenu.js +0 -11
  261. package/dist/components/header/TreeSettingsMenu.js.map +0 -1
  262. package/dist/components/header/goTo.d.ts +0 -20
  263. package/dist/components/header/goTo.js.map +0 -1
  264. package/dist/components/header/settingsMenuItems.d.ts +0 -5
  265. package/dist/components/header/settingsMenuItems.js +0 -171
  266. package/dist/components/header/settingsMenuItems.js.map +0 -1
  267. package/src/components/header/ColorSchemeMenu.tsx +0 -56
  268. package/src/components/header/FileMenu.tsx +0 -107
  269. package/src/components/header/MSASettingsMenu.tsx +0 -26
  270. package/src/components/header/ScrollZoomIcons.tsx +0 -52
  271. package/src/components/header/TreeSettingsMenu.tsx +0 -30
  272. package/src/components/header/settingsMenuItems.ts +0 -216

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