react-msaview 5.9.0 → 6.0.0

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 (196) 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/components/ConservationTrack.js +21 -16
  6. package/dist/components/ConservationTrack.js.map +1 -1
  7. package/dist/components/CopyButton.d.ts +9 -0
  8. package/dist/components/CopyButton.js +23 -0
  9. package/dist/components/CopyButton.js.map +1 -0
  10. package/dist/components/Loading.js +2 -2
  11. package/dist/components/Loading.js.map +1 -1
  12. package/dist/components/MSAView.js +18 -24
  13. package/dist/components/MSAView.js.map +1 -1
  14. package/dist/components/ResizeHandles.js +24 -40
  15. package/dist/components/ResizeHandles.js.map +1 -1
  16. package/dist/components/ScrollbarThumb.d.ts +14 -0
  17. package/dist/components/ScrollbarThumb.js +28 -0
  18. package/dist/components/ScrollbarThumb.js.map +1 -0
  19. package/dist/components/SequenceTextArea.js +3 -10
  20. package/dist/components/SequenceTextArea.js.map +1 -1
  21. package/dist/components/TextTrack.js +26 -21
  22. package/dist/components/TextTrack.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/{UserProvidedDomainsDialog.d.ts → InterProScanFileDialog.d.ts} +2 -2
  28. package/dist/components/dialogs/{UserProvidedDomainsDialog.js → InterProScanFileDialog.js} +6 -10
  29. package/dist/components/dialogs/InterProScanFileDialog.js.map +1 -0
  30. package/dist/components/dialogs/TrackInfoDialog.d.ts +2 -4
  31. package/dist/components/dialogs/TrackInfoDialog.js +8 -14
  32. package/dist/components/dialogs/TrackInfoDialog.js.map +1 -1
  33. package/dist/components/header/FileMenu.js +3 -3
  34. package/dist/components/header/FileMenu.js.map +1 -1
  35. package/dist/components/header/GappynessSlider.js +1 -1
  36. package/dist/components/header/GappynessSlider.js.map +1 -1
  37. package/dist/components/header/{getDomainsMenu.d.ts → getAnnotationsMenu.d.ts} +1 -1
  38. package/dist/components/header/{getDomainsMenu.js → getAnnotationsMenu.js} +10 -9
  39. package/dist/components/header/getAnnotationsMenu.js.map +1 -0
  40. package/dist/components/header/settingsMenuItems.js +39 -72
  41. package/dist/components/header/settingsMenuItems.js.map +1 -1
  42. package/dist/components/import/ImportForm.js +1 -1
  43. package/dist/components/import/ImportForm.js.map +1 -1
  44. package/dist/components/import/ImportFormExamples.js +66 -57
  45. package/dist/components/import/ImportFormExamples.js.map +1 -1
  46. package/dist/components/minimap/Minimap.js +11 -22
  47. package/dist/components/minimap/Minimap.js.map +1 -1
  48. package/dist/components/minimap/MinimapSVG.d.ts +2 -1
  49. package/dist/components/minimap/MinimapSVG.js +3 -4
  50. package/dist/components/minimap/MinimapSVG.js.map +1 -1
  51. package/dist/components/minimap/minimapLayout.d.ts +10 -1
  52. package/dist/components/minimap/minimapLayout.js +15 -10
  53. package/dist/components/minimap/minimapLayout.js.map +1 -1
  54. package/dist/components/msa/{DomainLegend.d.ts → AnnotationLegend.d.ts} +2 -2
  55. package/dist/components/msa/{DomainLegend.js → AnnotationLegend.js} +4 -4
  56. package/dist/components/msa/AnnotationLegend.js.map +1 -0
  57. package/dist/components/msa/MSACanvas.js +2 -2
  58. package/dist/components/msa/MSACanvas.js.map +1 -1
  59. package/dist/components/msa/MSACanvasBlock.js +19 -16
  60. package/dist/components/msa/MSACanvasBlock.js.map +1 -1
  61. package/dist/components/msa/MSAMouseoverCanvas.js +14 -8
  62. package/dist/components/msa/MSAMouseoverCanvas.js.map +1 -1
  63. package/dist/components/msa/MSAPanel.js +2 -2
  64. package/dist/components/msa/MSAPanel.js.map +1 -1
  65. package/dist/components/msa/domainBandCursor.d.ts +17 -0
  66. package/dist/components/msa/domainBandCursor.js +39 -0
  67. package/dist/components/msa/domainBandCursor.js.map +1 -0
  68. package/dist/components/msa/renderBoxFeatureCanvasBlock.js +9 -6
  69. package/dist/components/msa/renderBoxFeatureCanvasBlock.js.map +1 -1
  70. package/dist/components/msa/renderMSABlock.js +14 -20
  71. package/dist/components/msa/renderMSABlock.js.map +1 -1
  72. package/dist/components/msa/renderMSAMouseover.js +32 -33
  73. package/dist/components/msa/renderMSAMouseover.js.map +1 -1
  74. package/dist/components/overlayColors.d.ts +2 -0
  75. package/dist/components/overlayColors.js +5 -0
  76. package/dist/components/overlayColors.js.map +1 -1
  77. package/dist/components/tree/TreeCanvas.js +29 -24
  78. package/dist/components/tree/TreeCanvas.js.map +1 -1
  79. package/dist/components/tree/TreeCanvasBlock.js +19 -12
  80. package/dist/components/tree/TreeCanvasBlock.js.map +1 -1
  81. package/dist/components/tree/TreeRuler.js +5 -2
  82. package/dist/components/tree/TreeRuler.js.map +1 -1
  83. package/dist/components/tree/renderTreeCanvas.d.ts +0 -38
  84. package/dist/components/tree/renderTreeCanvas.js +17 -17
  85. package/dist/components/tree/renderTreeCanvas.js.map +1 -1
  86. package/dist/ggplotPalettes.d.ts +0 -1
  87. package/dist/ggplotPalettes.js +0 -3
  88. package/dist/ggplotPalettes.js.map +1 -1
  89. package/dist/hierarchy.d.ts +2 -6
  90. package/dist/hierarchy.js +4 -6
  91. package/dist/hierarchy.js.map +1 -1
  92. package/dist/index.d.ts +2 -2
  93. package/dist/launchInterProScan.d.ts +0 -23
  94. package/dist/launchInterProScan.js +2 -5
  95. package/dist/launchInterProScan.js.map +1 -1
  96. package/dist/measureTextCanvas.js +21 -6
  97. package/dist/measureTextCanvas.js.map +1 -1
  98. package/dist/model.d.ts +50 -100
  99. package/dist/model.js +209 -219
  100. package/dist/model.js.map +1 -1
  101. package/dist/neighborJoining.js +12 -19
  102. package/dist/neighborJoining.js.map +1 -1
  103. package/dist/parseAsn1.js +32 -43
  104. package/dist/parseAsn1.js.map +1 -1
  105. package/dist/renderToSvg.js +5 -2
  106. package/dist/renderToSvg.js.map +1 -1
  107. package/dist/rowCoordinateCalculations.d.ts +13 -17
  108. package/dist/rowCoordinateCalculations.js +45 -39
  109. package/dist/rowCoordinateCalculations.js.map +1 -1
  110. package/dist/seqPosToGlobalCol.d.ts +6 -19
  111. package/dist/seqPosToGlobalCol.js +6 -33
  112. package/dist/seqPosToGlobalCol.js.map +1 -1
  113. package/dist/types.d.ts +4 -11
  114. package/dist/useCanvasAutorun.d.ts +23 -1
  115. package/dist/useCanvasAutorun.js +20 -8
  116. package/dist/useCanvasAutorun.js.map +1 -1
  117. package/dist/version.d.ts +1 -1
  118. package/dist/version.js +1 -1
  119. package/package.json +5 -5
  120. package/src/clustalX.ts +22 -22
  121. package/src/colSpace.test.ts +27 -0
  122. package/src/components/ConservationTrack.tsx +7 -5
  123. package/src/components/CopyButton.tsx +44 -0
  124. package/src/components/Loading.tsx +10 -1
  125. package/src/components/MSAView.tsx +25 -32
  126. package/src/components/ResizeHandles.tsx +60 -69
  127. package/src/components/ScrollbarThumb.tsx +48 -0
  128. package/src/components/SequenceTextArea.tsx +3 -16
  129. package/src/components/TextTrack.tsx +7 -12
  130. package/src/components/VerticalScrollbar.tsx +19 -33
  131. package/src/components/dialogs/FeatureDialog.tsx +3 -4
  132. package/src/components/dialogs/{UserProvidedDomainsDialog.tsx → InterProScanFileDialog.tsx} +6 -14
  133. package/src/components/dialogs/TrackInfoDialog.tsx +18 -20
  134. package/src/components/header/FileMenu.tsx +3 -3
  135. package/src/components/header/GappynessSlider.tsx +4 -1
  136. package/src/components/header/{getDomainsMenu.ts → getAnnotationsMenu.ts} +10 -9
  137. package/src/components/header/settingsMenuItems.ts +40 -72
  138. package/src/components/import/ImportForm.tsx +1 -1
  139. package/src/components/import/ImportFormExamples.tsx +82 -133
  140. package/src/components/minimap/Minimap.tsx +23 -31
  141. package/src/components/minimap/MinimapSVG.tsx +32 -31
  142. package/src/components/minimap/minimapLayout.test.ts +60 -0
  143. package/src/components/minimap/minimapLayout.ts +15 -10
  144. package/src/components/msa/{DomainLegend.tsx → AnnotationLegend.tsx} +7 -3
  145. package/src/components/msa/MSACanvas.tsx +3 -10
  146. package/src/components/msa/MSACanvasBlock.tsx +16 -21
  147. package/src/components/msa/MSAMouseoverCanvas.tsx +11 -9
  148. package/src/components/msa/MSAPanel.tsx +2 -2
  149. package/src/components/msa/domainBandCursor.ts +41 -0
  150. package/src/components/msa/renderBoxFeatureCanvasBlock.test.ts +51 -0
  151. package/src/components/msa/renderBoxFeatureCanvasBlock.ts +13 -8
  152. package/src/components/msa/renderMSABlock.ts +19 -23
  153. package/src/components/msa/renderMSAMouseover.ts +38 -35
  154. package/src/components/overlayColors.ts +6 -0
  155. package/src/components/tree/TreeCanvas.tsx +6 -4
  156. package/src/components/tree/TreeCanvasBlock.tsx +11 -12
  157. package/src/components/tree/TreeRuler.tsx +7 -2
  158. package/src/components/tree/renderTreeCanvas.test.ts +15 -7
  159. package/src/components/tree/renderTreeCanvas.ts +20 -17
  160. package/src/domainBands.test.ts +24 -0
  161. package/src/domainLetterColor.test.ts +80 -0
  162. package/src/ggplotPalettes.ts +0 -4
  163. package/src/hierarchy.test.ts +7 -7
  164. package/src/hierarchy.ts +6 -9
  165. package/src/index.ts +4 -1
  166. package/src/largeTree.test.ts +23 -2
  167. package/src/launchInterProScan.ts +3 -30
  168. package/src/loadErrorDisplay.test.tsx +102 -0
  169. package/src/measureTextCanvas.ts +22 -6
  170. package/src/model.ts +233 -244
  171. package/src/modelFilehandleLoaders.test.ts +137 -0
  172. package/src/neighborJoining.test.ts +12 -0
  173. package/src/neighborJoining.ts +12 -20
  174. package/src/parseAsn1.ts +32 -40
  175. package/src/{renderDomainLegendSvg.test.tsx → renderDomainsSvg.test.tsx} +44 -20
  176. package/src/renderMinimapSvg.test.tsx +109 -0
  177. package/src/renderToSvg.tsx +5 -2
  178. package/src/rowCoordinateCalculations.ts +48 -44
  179. package/src/seqPosToGlobalCol.test.ts +39 -51
  180. package/src/seqPosToGlobalCol.ts +6 -41
  181. package/src/types.ts +10 -15
  182. package/src/useCanvasAutorun.test.tsx +98 -0
  183. package/src/useCanvasAutorun.ts +30 -11
  184. package/src/version.ts +1 -1
  185. package/src/viewChrome.test.tsx +134 -0
  186. package/dist/components/dialogs/DomainDialog.d.ts +0 -6
  187. package/dist/components/dialogs/DomainDialog.js +0 -19
  188. package/dist/components/dialogs/DomainDialog.js.map +0 -1
  189. package/dist/components/dialogs/UserProvidedDomainsDialog.js.map +0 -1
  190. package/dist/components/header/SettingsMenu.d.ts +0 -6
  191. package/dist/components/header/SettingsMenu.js +0 -40
  192. package/dist/components/header/SettingsMenu.js.map +0 -1
  193. package/dist/components/header/getDomainsMenu.js.map +0 -1
  194. package/dist/components/msa/DomainLegend.js.map +0 -1
  195. package/src/components/dialogs/DomainDialog.tsx +0 -45
  196. package/src/components/header/SettingsMenu.tsx +0 -57

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