react-msaview 1.3.2 → 2.1.0

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 (245) hide show
  1. package/bundle/index.js +285 -97099
  2. package/dist/StructureModel.d.ts +9 -0
  3. package/dist/StructureModel.js +11 -0
  4. package/dist/StructureModel.js.map +1 -0
  5. package/dist/UniprotTrack.d.ts +27 -0
  6. package/dist/UniprotTrack.js +53 -0
  7. package/dist/UniprotTrack.js.map +1 -0
  8. package/dist/colorSchemes.d.ts +5 -11
  9. package/dist/colorSchemes.js +27 -32
  10. package/dist/colorSchemes.js.map +1 -0
  11. package/dist/components/BoxTrack.d.ts +6 -6
  12. package/dist/components/BoxTrack.js +9 -137
  13. package/dist/components/BoxTrack.js.map +1 -0
  14. package/dist/components/BoxTrackBlock.d.ts +8 -0
  15. package/dist/components/BoxTrackBlock.js +136 -0
  16. package/dist/components/BoxTrackBlock.js.map +1 -0
  17. package/dist/components/Header.d.ts +2 -2
  18. package/dist/components/Header.js +55 -48
  19. package/dist/components/Header.js.map +1 -0
  20. package/dist/components/ImportForm.d.ts +2 -2
  21. package/dist/components/ImportForm.js +59 -71
  22. package/dist/components/ImportForm.js.map +1 -0
  23. package/dist/components/MSABlock.d.ts +8 -0
  24. package/dist/components/MSABlock.js +103 -0
  25. package/dist/components/MSABlock.js.map +1 -0
  26. package/dist/components/MSACanvas.d.ts +2 -2
  27. package/dist/components/MSACanvas.js +32 -133
  28. package/dist/components/MSACanvas.js.map +1 -0
  29. package/dist/components/MSAMouseoverCanvas.d.ts +6 -0
  30. package/dist/components/MSAMouseoverCanvas.js +52 -0
  31. package/dist/components/MSAMouseoverCanvas.js.map +1 -0
  32. package/dist/components/MSAView.d.ts +2 -2
  33. package/dist/components/MSAView.js +17 -62
  34. package/dist/components/MSAView.js.map +1 -0
  35. package/dist/components/MultiAlignmentSelector.d.ts +6 -0
  36. package/dist/components/MultiAlignmentSelector.js +13 -0
  37. package/dist/components/MultiAlignmentSelector.js.map +1 -0
  38. package/dist/components/ResizeHandles.d.ts +5 -5
  39. package/dist/components/ResizeHandles.js +31 -32
  40. package/dist/components/ResizeHandles.js.map +1 -0
  41. package/dist/components/Rubberband.d.ts +3 -2
  42. package/dist/components/Rubberband.js +41 -64
  43. package/dist/components/Rubberband.js.map +1 -0
  44. package/dist/components/Ruler.d.ts +2 -16
  45. package/dist/components/Ruler.js +19 -88
  46. package/dist/components/Ruler.js.map +1 -0
  47. package/dist/components/TextTrack.d.ts +5 -5
  48. package/dist/components/TextTrack.js +23 -24
  49. package/dist/components/TextTrack.js.map +1 -0
  50. package/dist/components/Track.d.ts +5 -5
  51. package/dist/components/Track.js +41 -40
  52. package/dist/components/Track.js.map +1 -0
  53. package/dist/components/TreeBranchMenu.d.ts +14 -0
  54. package/dist/components/TreeBranchMenu.js +26 -0
  55. package/dist/components/TreeBranchMenu.js.map +1 -0
  56. package/dist/components/TreeCanvas.d.ts +2 -2
  57. package/dist/components/TreeCanvas.js +24 -356
  58. package/dist/components/TreeCanvas.js.map +1 -0
  59. package/dist/components/TreeCanvasBlock.d.ts +7 -0
  60. package/dist/components/TreeCanvasBlock.js +252 -0
  61. package/dist/components/TreeCanvasBlock.js.map +1 -0
  62. package/dist/components/TreeMenu.d.ts +12 -0
  63. package/dist/components/TreeMenu.js +56 -0
  64. package/dist/components/TreeMenu.js.map +1 -0
  65. package/dist/components/TreeRuler.d.ts +2 -2
  66. package/dist/components/TreeRuler.js +3 -3
  67. package/dist/components/TreeRuler.js.map +1 -0
  68. package/dist/components/VerticalGuide.d.ts +7 -0
  69. package/dist/components/VerticalGuide.js +30 -0
  70. package/dist/components/VerticalGuide.js.map +1 -0
  71. package/dist/components/ZoomControls.d.ts +6 -0
  72. package/dist/components/ZoomControls.js +58 -0
  73. package/dist/components/ZoomControls.js.map +1 -0
  74. package/dist/components/data/seq2.d.ts +3 -3
  75. package/dist/components/data/seq2.js +33 -3
  76. package/dist/components/data/seq2.js.map +1 -0
  77. package/dist/components/dialogs/AboutDlg.d.ts +4 -0
  78. package/dist/components/dialogs/AboutDlg.js +40 -0
  79. package/dist/components/dialogs/AboutDlg.js.map +1 -0
  80. package/{bundle/components → dist/components/dialogs}/AddTrackDlg.d.ts +3 -3
  81. package/dist/components/dialogs/AddTrackDlg.js +26 -0
  82. package/dist/components/dialogs/AddTrackDlg.js.map +1 -0
  83. package/dist/components/{AnnotationDlg.d.ts → dialogs/AnnotationDlg.d.ts} +3 -3
  84. package/dist/components/dialogs/AnnotationDlg.js +65 -0
  85. package/dist/components/dialogs/AnnotationDlg.js.map +1 -0
  86. package/dist/components/dialogs/DetailsDlg.d.ts +7 -0
  87. package/dist/components/dialogs/DetailsDlg.js +13 -0
  88. package/dist/components/dialogs/DetailsDlg.js.map +1 -0
  89. package/dist/components/dialogs/MoreInfoDlg.d.ts +6 -0
  90. package/dist/components/dialogs/MoreInfoDlg.js +11 -0
  91. package/dist/components/dialogs/MoreInfoDlg.js.map +1 -0
  92. package/dist/components/dialogs/SettingsDlg.d.ts +7 -0
  93. package/dist/components/dialogs/SettingsDlg.js +48 -0
  94. package/dist/components/dialogs/SettingsDlg.js.map +1 -0
  95. package/dist/components/dialogs/TrackInfoDlg.d.ts +9 -0
  96. package/{bundle/components → dist/components/dialogs}/TrackInfoDlg.js +12 -13
  97. package/dist/components/dialogs/TrackInfoDlg.js.map +1 -0
  98. package/dist/components/dialogs/TracklistDlg.d.ts +7 -0
  99. package/dist/components/dialogs/TracklistDlg.js +18 -0
  100. package/dist/components/dialogs/TracklistDlg.js.map +1 -0
  101. package/{bundle/components/Ruler.d.ts → dist/components/util.d.ts} +1 -6
  102. package/dist/components/util.js +68 -0
  103. package/dist/components/util.js.map +1 -0
  104. package/dist/index.d.ts +2 -4
  105. package/dist/index.js +3 -3
  106. package/dist/index.js.map +1 -0
  107. package/dist/layout.js +14 -20
  108. package/dist/layout.js.map +1 -0
  109. package/dist/model.d.ts +114 -97
  110. package/dist/model.js +248 -486
  111. package/dist/model.js.map +1 -0
  112. package/dist/parseNewick.d.ts +1 -5
  113. package/dist/parseNewick.js +11 -8
  114. package/dist/parseNewick.js.map +1 -0
  115. package/dist/parsers/ClustalMSA.d.ts +6 -18
  116. package/dist/parsers/ClustalMSA.js +55 -64
  117. package/dist/parsers/ClustalMSA.js.map +1 -0
  118. package/dist/parsers/FastaMSA.d.ts +5 -12
  119. package/dist/parsers/FastaMSA.js +55 -64
  120. package/dist/parsers/FastaMSA.js.map +1 -0
  121. package/dist/parsers/StockholmMSA.d.ts +10 -17
  122. package/dist/parsers/StockholmMSA.js +81 -110
  123. package/dist/parsers/StockholmMSA.js.map +1 -0
  124. package/dist/util.d.ts +34 -7
  125. package/dist/util.js +76 -24
  126. package/dist/util.js.map +1 -0
  127. package/dist/version.d.ts +1 -0
  128. package/dist/version.js +2 -0
  129. package/dist/version.js.map +1 -0
  130. package/package.json +34 -34
  131. package/src/StructureModel.ts +11 -0
  132. package/src/UniprotTrack.ts +59 -0
  133. package/src/colorSchemes.ts +520 -0
  134. package/src/components/BoxTrack.tsx +33 -0
  135. package/src/components/BoxTrackBlock.tsx +198 -0
  136. package/src/components/Header.tsx +106 -0
  137. package/src/components/ImportForm.tsx +192 -0
  138. package/src/components/MSABlock.tsx +164 -0
  139. package/src/components/MSACanvas.tsx +142 -0
  140. package/src/components/MSAMouseoverCanvas.tsx +87 -0
  141. package/src/components/MSAView.tsx +88 -0
  142. package/src/components/MultiAlignmentSelector.tsx +33 -0
  143. package/src/components/ResizeHandles.tsx +137 -0
  144. package/src/components/Rubberband.tsx +270 -0
  145. package/src/components/Ruler.tsx +123 -0
  146. package/src/components/TextTrack.tsx +120 -0
  147. package/src/components/Track.tsx +153 -0
  148. package/src/components/TreeBranchMenu.tsx +67 -0
  149. package/src/components/TreeCanvas.tsx +128 -0
  150. package/src/components/TreeCanvasBlock.tsx +359 -0
  151. package/src/components/TreeMenu.tsx +105 -0
  152. package/src/components/TreeRuler.tsx +12 -0
  153. package/src/components/VerticalGuide.tsx +50 -0
  154. package/src/components/ZoomControls.tsx +78 -0
  155. package/src/components/data/seq2.ts +35 -0
  156. package/src/components/dialogs/AboutDlg.tsx +58 -0
  157. package/src/components/dialogs/AddTrackDlg.tsx +74 -0
  158. package/src/components/dialogs/AnnotationDlg.tsx +144 -0
  159. package/src/components/dialogs/DetailsDlg.tsx +28 -0
  160. package/src/components/dialogs/MoreInfoDlg.tsx +21 -0
  161. package/src/components/dialogs/SettingsDlg.tsx +154 -0
  162. package/src/components/dialogs/TrackInfoDlg.tsx +59 -0
  163. package/src/components/dialogs/TracklistDlg.tsx +59 -0
  164. package/src/components/util.ts +93 -0
  165. package/src/declare.d.ts +1 -0
  166. package/src/index.ts +2 -0
  167. package/src/layout.ts +83 -0
  168. package/src/model.ts +793 -0
  169. package/{bundle/parseNewick.d.ts → src/parseNewick.ts} +35 -5
  170. package/src/parsers/ClustalMSA.ts +79 -0
  171. package/src/parsers/FastaMSA.ts +82 -0
  172. package/src/parsers/StockholmMSA.ts +137 -0
  173. package/src/util.ts +142 -0
  174. package/src/version.ts +1 -0
  175. package/bundle/colorSchemes.d.ts +0 -16
  176. package/bundle/colorSchemes.js +0 -455
  177. package/bundle/components/AboutDlg.d.ts +0 -5
  178. package/bundle/components/AboutDlg.js +0 -47
  179. package/bundle/components/AddTrackDlg.js +0 -26
  180. package/bundle/components/AnnotationDlg.d.ts +0 -11
  181. package/bundle/components/AnnotationDlg.js +0 -77
  182. package/bundle/components/BoxTrack.d.ts +0 -7
  183. package/bundle/components/BoxTrack.js +0 -143
  184. package/bundle/components/DetailsDlg.d.ts +0 -8
  185. package/bundle/components/DetailsDlg.js +0 -12
  186. package/bundle/components/Header.d.ts +0 -6
  187. package/bundle/components/Header.js +0 -63
  188. package/bundle/components/ImportForm.d.ts +0 -6
  189. package/bundle/components/ImportForm.js +0 -89
  190. package/bundle/components/MSACanvas.d.ts +0 -6
  191. package/bundle/components/MSACanvas.js +0 -210
  192. package/bundle/components/MSAView.d.ts +0 -6
  193. package/bundle/components/MSAView.js +0 -88
  194. package/bundle/components/MoreInfoDlg.d.ts +0 -6
  195. package/bundle/components/MoreInfoDlg.js +0 -11
  196. package/bundle/components/ResizeHandles.d.ts +0 -8
  197. package/bundle/components/ResizeHandles.js +0 -110
  198. package/bundle/components/Rubberband.d.ts +0 -7
  199. package/bundle/components/Rubberband.js +0 -196
  200. package/bundle/components/Ruler.js +0 -121
  201. package/bundle/components/SettingsDlg.d.ts +0 -8
  202. package/bundle/components/SettingsDlg.js +0 -40
  203. package/bundle/components/TextTrack.d.ts +0 -7
  204. package/bundle/components/TextTrack.js +0 -72
  205. package/bundle/components/Track.d.ts +0 -11
  206. package/bundle/components/Track.js +0 -81
  207. package/bundle/components/TrackInfoDlg.d.ts +0 -6
  208. package/bundle/components/TracklistDlg.d.ts +0 -8
  209. package/bundle/components/TracklistDlg.js +0 -18
  210. package/bundle/components/TreeCanvas.d.ts +0 -6
  211. package/bundle/components/TreeCanvas.js +0 -431
  212. package/bundle/components/TreeRuler.d.ts +0 -6
  213. package/bundle/components/TreeRuler.js +0 -8
  214. package/bundle/components/data/seq2.d.ts +0 -3
  215. package/bundle/components/data/seq2.js +0 -3
  216. package/bundle/index.d.ts +0 -4
  217. package/bundle/layout.d.ts +0 -23
  218. package/bundle/layout.js +0 -53
  219. package/bundle/model.d.ts +0 -364
  220. package/bundle/model.js +0 -894
  221. package/bundle/parseNewick.js +0 -94
  222. package/bundle/parsers/ClustalMSA.d.ts +0 -39
  223. package/bundle/parsers/ClustalMSA.js +0 -77
  224. package/bundle/parsers/FastaMSA.d.ts +0 -26
  225. package/bundle/parsers/FastaMSA.js +0 -78
  226. package/bundle/parsers/StockholmMSA.d.ts +0 -75
  227. package/bundle/parsers/StockholmMSA.js +0 -142
  228. package/bundle/util.d.ts +0 -17
  229. package/bundle/util.js +0 -33
  230. package/dist/components/AboutDlg.d.ts +0 -5
  231. package/dist/components/AboutDlg.js +0 -50
  232. package/dist/components/AddTrackDlg.d.ts +0 -8
  233. package/dist/components/AddTrackDlg.js +0 -26
  234. package/dist/components/AnnotationDlg.js +0 -77
  235. package/dist/components/DetailsDlg.d.ts +0 -8
  236. package/dist/components/DetailsDlg.js +0 -12
  237. package/dist/components/MoreInfoDlg.d.ts +0 -6
  238. package/dist/components/MoreInfoDlg.js +0 -11
  239. package/dist/components/SettingsDlg.d.ts +0 -8
  240. package/dist/components/SettingsDlg.js +0 -40
  241. package/dist/components/TrackInfoDlg.d.ts +0 -6
  242. package/dist/components/TrackInfoDlg.js +0 -33
  243. package/dist/components/TracklistDlg.d.ts +0 -8
  244. package/dist/components/TracklistDlg.js +0 -18
  245. package/dist/components/package.json +0 -62
@@ -0,0 +1 @@
1
+ {"version":3,"file":"model.js","sourceRoot":"","sources":["../src/model.ts"],"names":[],"mappings":"AACA,OAAO,EAAY,IAAI,EAAE,KAAK,EAAE,WAAW,EAAc,MAAM,iBAAiB,CAAA;AAChF,OAAO,EAAE,SAAS,EAAE,OAAO,EAAiB,MAAM,cAAc,CAAA;AAChE,OAAO,EAAE,SAAS,EAAE,MAAM,UAAU,CAAA;AACpC,OAAO,EAAE,YAAY,EAAE,SAAS,EAAE,MAAM,8BAA8B,CAAA;AAEtE,OAAO,EAAE,YAAY,EAAE,MAAM,uBAAuB,CAAA;AACpD,OAAO,EAAE,OAAO,EAAE,MAAM,MAAM,CAAA;AAC9B,OAAO,aAAa,MAAM,0DAA0D,CAAA;AACpF,OAAO,SAAS,MAAM,cAAc,CAAA;AAQpC,SAAS;AACT,OAAO,EACL,QAAQ,EACR,eAAe,EACf,SAAS,EACT,WAAW,EACX,UAAU,EACV,KAAK,GAGN,MAAM,QAAQ,CAAA;AACf,OAAO,SAAS,MAAM,wBAAwB,CAAA;AAC9C,OAAO,QAAQ,MAAM,uBAAuB,CAAA;AAC5C,OAAO,UAAU,MAAM,sBAAsB,CAAA;AAC7C,OAAO,YAAY,MAAM,wBAAwB,CAAA;AACjD,OAAO,QAAQ,MAAM,oBAAoB,CAAA;AACzC,OAAO,WAAW,MAAM,eAAe,CAAA;AACvC,OAAO,YAAY,MAAM,gBAAgB,CAAA;AACzC,OAAO,EAAE,YAAY,EAAE,MAAM,gBAAgB,CAAA;AAC7C,OAAO,EAAE,cAAc,EAAE,MAAM,kBAAkB,CAAA;AA+BjD,MAAM,QAAQ,GAAG,KAAK;KACnB,KAAK,CAAC,SAAS,EAAE;IAChB,EAAE,EAAE,SAAS;IACb,IAAI,EAAE,KAAK,CAAC,OAAO,CAAC,SAAS,CAAC;IAC9B,MAAM,EAAE,KAAK,CAAC,QAAQ,CAAC,KAAK,CAAC,MAAM,EAAE,GAAG,CAAC;IACzC,aAAa,EAAE,KAAK,CAAC,QAAQ,CAAC,KAAK,CAAC,MAAM,EAAE,GAAG,CAAC;IAChD,SAAS,EAAE,KAAK,CAAC,QAAQ,CAAC,KAAK,CAAC,MAAM,EAAE,GAAG,CAAC;IAC5C,SAAS,EAAE,EAAE;IACb,OAAO,EAAE,CAAC;IACV,OAAO,EAAE,CAAC;IACV,iBAAiB,EAAE,CAAC;IACpB,SAAS,EAAE,IAAI;IACf,QAAQ,EAAE,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC;IACnC,QAAQ,EAAE,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC;IACnC,kBAAkB,EAAE,KAAK,CAAC,KAAK,CAAC,cAAc,CAAC;IAC/C,gBAAgB,EAAE,KAAK;IACvB,QAAQ,EAAE,EAAE;IACZ,aAAa,EAAE,IAAI;IACnB,OAAO,EAAE,IAAI;IACb,QAAQ,EAAE,IAAI;IACd,eAAe,EAAE,IAAI;IACrB,kBAAkB,EAAE,CAAC;IACrB,eAAe,EAAE,UAAU;IAC3B,cAAc,EAAE,KAAK,CAAC,KAAK,CAAC,YAAY,CAAC;IACzC,aAAa,EAAE,KAAK,CAAC,KAAK,CAAC,YAAY,CAAC;IACxC,gBAAgB,EAAE,CAAC;IACnB,SAAS,EAAE,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC;IACpC,QAAQ,EAAE,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC;IACnC,SAAS,EAAE,KAAK,CAAC,KAAK,CAAC,YAAY,CAAC;IACpC,eAAe,EAAE,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,OAAO,CAAC;IACzC,gBAAgB,EAAE,KAAK,CAAC,KAAK,CAC3B,KAAK,CAAC,KAAK,CAAC;QACV,KAAK,EAAE,KAAK,CAAC,MAAM;QACnB,GAAG,EAAE,KAAK,CAAC,MAAM;QACjB,UAAU,EAAE,KAAK,CAAC,MAAM,EAA4B;KACrD,CAAC,CACH;IACD,IAAI,EAAE,KAAK,CAAC,QAAQ,CAClB,KAAK;SACF,KAAK,CAAC;QACL,IAAI,EAAE,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC;QAC/B,GAAG,EAAE,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC;KAC/B,CAAC;SACD,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB,OAAO,CAAC,IAAa;YACnB,IAAI,CAAC,IAAI,GAAG,IAAI,CAAA;QAClB,CAAC;QACD,MAAM,CAAC,GAAY;YACjB,IAAI,CAAC,GAAG,GAAG,GAAG,CAAA;QAChB,CAAC;KACF,CAAC,CAAC,EACL,EAAE,IAAI,EAAE,EAAE,EAAE,GAAG,EAAE,EAAE,EAAE,CACtB;CACF,CAAC;KACD,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;IACf,WAAW,EAAE,EAAE;IACf,KAAK,EAAE,SAAoB;IAC3B,MAAM,EAAE,EAAE,IAAI,EAAE,EAAE,EAAE,GAAG,EAAE,EAAE,EAAE;IAC7B,8DAA8D;IAC9D,eAAe,EAAE,SAAsC;IACvD,8DAA8D;IAC9D,WAAW,EAAE,SAAgB;IAE7B,cAAc;IACd,QAAQ,EAAE,SAAwD;CACnE,CAAC,CAAC;KACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IAChB,8DAA8D;IAC9D,kBAAkB,CAAC,GAA8B,EAAE,KAAU;QAC3D,IAAI,CAAC,eAAe,GAAG,GAAG,CAAA;QAC1B,IAAI,CAAC,WAAW,GAAG,KAAK,CAAA;IAC1B,CAAC;IACD,SAAS,CAAC,MAAc;QACtB,IAAI,CAAC,MAAM,GAAG,MAAM,CAAA;IACtB,CAAC;IACD,uBAAuB,CAAC,GAAsC;QAC5D,IAAI,CAAC,kBAAkB,CAAC,IAAI,CAAC,GAAG,CAAC,CAAA;IACnC,CAAC;IACD,4BAA4B,CAAC,GAAsC;QACjE,MAAM,CAAC,GAAG,IAAI,CAAC,kBAAkB,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,EAAE,KAAK,GAAG,CAAC,EAAE,CAAC,CAAA;QAClE,IAAI,CAAC,EAAE;YACL,IAAI,CAAC,kBAAkB,CAAC,MAAM,CAAC,CAAC,CAAC,CAAA;SAClC;IACH,CAAC;IACD,wBAAwB,CAAC,GAGxB;QACC,MAAM,CAAC,GAAG,IAAI,CAAC,kBAAkB,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,EAAE,KAAK,GAAG,CAAC,EAAE,CAAC,CAAA;QAClE,IAAI,CAAC,EAAE;YACL,IAAI,CAAC,kBAAkB,CAAC,MAAM,CAAC,CAAC,CAAC,CAAA;SAClC;aAAM;YACL,IAAI,CAAC,kBAAkB,CAAC,IAAI,CAAC,GAAG,CAAC,CAAA;SAClC;IACH,CAAC;IACD,uBAAuB;QACrB,mBAAmB;QACnB,IAAI,CAAC,kBAAkB,GAAG,EAAE,CAAA;IAC9B,CAAC;IACD,QAAQ,CAAC,KAAe;QACtB,IAAI,CAAC,KAAK,GAAG,KAAK,CAAA;IACpB,CAAC;IACD,WAAW,CAAC,GAAY,EAAE,GAAY;QACpC,IAAI,CAAC,QAAQ,GAAG,GAAG,CAAA;QACnB,IAAI,CAAC,QAAQ,GAAG,GAAG,CAAA;IACrB,CAAC;IACD,YAAY,CAAC,CAAS;QACpB,IAAI,CAAC,SAAS,GAAG,CAAC,CAAA;IACpB,CAAC;IACD,WAAW,CAAC,CAAS;QACnB,IAAI,CAAC,QAAQ,GAAG,CAAC,CAAA;IACnB,CAAC;IACD,kBAAkB,CAAC,IAAY;QAC7B,IAAI,CAAC,eAAe,GAAG,IAAI,CAAA;IAC7B,CAAC;IACD,UAAU,CAAC,CAAS;QAClB,IAAI,CAAC,OAAO,GAAG,CAAC,CAAA;IAClB,CAAC;IACD,UAAU,CAAC,CAAS;QAClB,IAAI,CAAC,OAAO,GAAG,CAAC,CAAA;IAClB,CAAC;IACD,gBAAgB,CAAC,CAAS;QACxB,IAAI,CAAC,aAAa,GAAG,CAAC,CAAA;IACxB,CAAC;IACD,YAAY,CAAC,CAAS;QACpB,IAAI,CAAC,SAAS,GAAG,CAAC,CAAA;IACpB,CAAC;IACD,mBAAmB,CAAC,CAAS;QAC3B,IAAI,CAAC,gBAAgB,GAAG,CAAC,CAAA;IAC3B,CAAC;IACD,sBAAsB;QACpB,IAAI,CAAC,gBAAgB,GAAG,CAAC,IAAI,CAAC,gBAAgB,CAAA;IAChD,CAAC;IACD,cAAc;QACZ,IAAI,CAAC,QAAQ,GAAG,CAAC,IAAI,CAAC,QAAQ,CAAA;IAChC,CAAC;IACD,eAAe,CAAC,IAAY;QAC1B,IAAI,IAAI,CAAC,SAAS,CAAC,QAAQ,CAAC,IAAI,CAAC,EAAE;YACjC,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,IAAI,CAAC,CAAA;SAC5B;aAAM;YACL,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;SAC1B;IACH,CAAC;IACD,WAAW,CAAC,IAAa;QACvB,IAAI,CAAC,QAAQ,GAAG,IAAI,CAAA;IACtB,CAAC;IACD,eAAe;QACb,IAAI,CAAC,aAAa,GAAG,CAAC,IAAI,CAAC,aAAa,CAAA;IAC1C,CAAC;IACD,aAAa;QACX,IAAI,CAAC,OAAO,GAAG,CAAC,IAAI,CAAC,OAAO,CAAA;IAC9B,CAAC;IACD,iBAAiB;QACf,IAAI,CAAC,eAAe,GAAG,CAAC,IAAI,CAAC,eAAe,CAAA;IAC9C,CAAC;IACD,OAAO,CAAC,IAAqC;QAC3C,IAAI,CAAC,IAAI,GAAG,IAAI,CAAC,IAAI,CAAC,CAAA;IACxB,CAAC;IACD,KAAK,CAAC,gBAAgB,CAAC,aAAgC;QACrD,IAAI,CAAC,aAAa,GAAG,aAAa,CAAA;IACpC,CAAC;IACD,KAAK,CAAC,iBAAiB,CAAC,cAAiC;QACvD,IAAI,cAAc,IAAI,QAAQ,IAAI,cAAc,EAAE;YAChD,MAAM,CAAC,GAAG,MAAM,YAAY,CAAC,cAAc,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAA;YAC7D,IAAI,CAAC,OAAO,CAAC,CAAC,CAAC,CAAA;SAChB;aAAM;YACL,IAAI,CAAC,cAAc,GAAG,cAAc,CAAA;SACrC;IACH,CAAC;IACD,MAAM,CAAC,MAAc;QACnB,IAAI,CAAC,IAAI,CAAC,MAAM,CAAC,MAAM,CAAC,CAAA;IAC1B,CAAC;IACD,OAAO,CAAC,MAAc;QACpB,IAAI,CAAC,IAAI,CAAC,OAAO,CAAC,MAAM,CAAC,CAAA;IAC3B,CAAC;IAED,WAAW;QACT,WAAW,CACT,IAAI,EACJ,OAAO,CAAC,KAAK,IAAI,EAAE;YACjB,MAAM,EAAE,cAAc,EAAE,GAAG,IAAI,CAAA;YAC/B,IAAI,cAAc,EAAE;gBAClB,IAAI;oBACF,IAAI,CAAC,OAAO,CAAC,MAAM,YAAY,CAAC,cAAc,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAA;iBAClE;gBAAC,OAAO,CAAC,EAAE;oBACV,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;oBAChB,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAA;iBACjB;aACF;QACH,CAAC,CAAC,CACH,CAAA;QACD,WAAW,CACT,IAAI,EACJ,OAAO,CAAC,KAAK,IAAI,EAAE;YACjB,MAAM,EAAE,aAAa,EAAE,GAAG,IAAI,CAAA;YAC9B,IAAI,aAAa,EAAE;gBACjB,IAAI;oBACF,IAAI,CAAC,MAAM,CAAC,MAAM,YAAY,CAAC,aAAa,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAA;iBAChE;gBAAC,OAAO,CAAC,EAAE;oBACV,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;oBAChB,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAA;iBACjB;aACF;QACH,CAAC,CAAC,CACH,CAAA;IACH,CAAC;CACF,CAAC,CAAC;KACF,KAAK,CAAC,IAAI,CAAC,EAAE;IACZ,IAAI,UAAU,GAAa,EAAE,CAAA;IAC7B,IAAI,UAAU,GAAa,EAAE,CAAA;IAC7B,IAAI,OAAO,GAAG,CAAC,CAAA;IACf,IAAI,OAAO,GAAG,CAAC,CAAA;IACf,OAAO;QACL,IAAI,WAAW;YACb,OAAO,CACL,CAAC,IAAI,CAAC,IAAI,CAAC,GAAG;gBACZ,IAAI,CAAC,IAAI,CAAC,IAAI;gBACd,IAAI,CAAC,aAAa;gBAClB,IAAI,CAAC,cAAc,CAAC;gBACtB,CAAC,IAAI,CAAC,KAAK,CACZ,CAAA;QACH,CAAC;QAED,IAAI,OAAO;YACT,MAAM,EAAE,OAAO,EAAE,SAAS,EAAE,IAAI,EAAE,QAAQ,EAAE,GAAG,IAAI,CAAA;YACnD,MAAM,GAAG,GAAG,CAAC,CAAC,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,OAAO,GAAG,IAAI,CAAC,CAAC,GAAG,IAAI,CAAA;YAEvD,MAAM,CAAC,GAAG,EAAE,CAAA;YACZ,KAAK,IAAI,CAAC,GAAG,GAAG,EAAE,CAAC,GAAG,GAAG,GAAG,IAAI,GAAG,CAAC,EAAE,CAAC,IAAI,IAAI,EAAE;gBAC/C,IAAI,CAAC,GAAG,IAAI,GAAG,CAAC,EAAE;oBAChB,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;iBACV;aACF;YACD,IACE,IAAI,CAAC,SAAS,CAAC,CAAC,CAAC,KAAK,IAAI,CAAC,SAAS,CAAC,UAAU,CAAC;gBAChD,QAAQ,KAAK,OAAO,EACpB;gBACA,UAAU,GAAG,CAAC,CAAA;gBACd,OAAO,GAAG,QAAQ,CAAA;aACnB;YACD,OAAO,UAAU,CAAA;QACnB,CAAC;QAED,IAAI,OAAO;YACT,MAAM,EAAE,OAAO,EAAE,SAAS,EAAE,IAAI,EAAE,SAAS,EAAE,GAAG,IAAI,CAAA;YACpD,MAAM,GAAG,GAAG,CAAC,CAAC,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,OAAO,GAAG,IAAI,CAAC,CAAC,GAAG,CAAC,GAAG,IAAI,CAAA;YAE3D,MAAM,CAAC,GAAG,EAAE,CAAA;YACZ,KAAK,IAAI,CAAC,GAAG,GAAG,EAAE,CAAC,GAAG,GAAG,GAAG,IAAI,GAAG,CAAC,EAAE,CAAC,IAAI,IAAI,EAAE;gBAC/C,IAAI,CAAC,GAAG,IAAI,GAAG,CAAC,EAAE;oBAChB,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;iBACV;aACF;YACD,IACE,IAAI,CAAC,SAAS,CAAC,CAAC,CAAC,KAAK,IAAI,CAAC,SAAS,CAAC,UAAU,CAAC;gBAChD,SAAS,KAAK,OAAO,EACrB;gBACA,UAAU,GAAG,CAAC,CAAA;gBACd,OAAO,GAAG,SAAS,CAAA;aACpB;YACD,OAAO,UAAU,CAAA;QACnB,CAAC;KACF,CAAA;AACH,CAAC,CAAC;KACD,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IACd,IAAI,QAAQ;QACV,OAAO,IAAI,CAAC,OAAO,CAAC,OAAO,CAAC,EAAE,CAAC,EAAE,CAAC,IAAI,CAAC,OAAO,CAAC,GAAG,CAAC,EAAE,CAAC,EAAE,CAAC,CAAC,EAAE,EAAE,EAAE,CAAC,CAAC,CAAC,CAAA;IACrE,CAAC;IACD,IAAI,IAAI;QACN,OAAO,IAAI,CAAC,WAAW,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,GAAG,IAAI,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;IAC9D,CAAC;IAED,IAAI,WAAW;QACb,OAAO,YAAY,CAAC,IAAI,CAAC,eAAe,CAAC,CAAA;IAC3C,CAAC;IAED,IAAI,MAAM;;QACR,OAAO,CAAA,MAAA,IAAI,CAAC,GAAG,0CAAE,SAAS,EAAE,KAAI,EAAE,CAAA;IACpC,CAAC;IAED,UAAU,CAAC,IAAY;;QACrB,MAAM,OAAO,GAAG,IAAI,CAAC,KAAK,CAAC,kBAAkB,CAAC,CAAA;QAC9C,OAAO;YACL,IAAI,EAAE,CAAA,MAAA,IAAI,CAAC,GAAG,0CAAE,UAAU,CAAC,IAAI,CAAC,KAAK,EAA8B;YACnE,GAAG,CAAC,OAAO,IAAI,EAAE,KAAK,EAAE,EAAE,KAAK,EAAE,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,GAAG,EAAE,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC;SACpE,CAAA;IACH,CAAC;IAED,IAAI,oBAAoB;QACtB,OAAO,IAAI,CAAC,cAAc,CAAC,IAAI,CAAC,gBAAgB,CAAC,CAAA;IACnD,CAAC;IAED,IAAI,cAAc;;QAChB,OAAO,CAAA,MAAA,IAAI,CAAC,GAAG,0CAAE,cAAc,KAAI,EAAE,CAAA;IACvC,CAAC;IAED,IAAI,MAAM;QACR,OAAO,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,MAAM,CAAA;IAC3B,CAAC;IAED,IAAI,SAAS;QACX,OAAO,EAAE,CAAA;IACX,CAAC;IAED,IAAI,GAAG;QACL,MAAM,IAAI,GAAG,IAAI,CAAC,IAAI,CAAC,GAAG,CAAA;QAC1B,IAAI,IAAI,EAAE;YACR,IAAI,SAAS,CAAC,KAAK,CAAC,IAAI,CAAC,EAAE;gBACzB,OAAO,IAAI,YAAY,CAAC,IAAI,EAAE,IAAI,CAAC,gBAAgB,CAAC,CAAA;aACrD;iBAAM,IAAI,IAAI,CAAC,UAAU,CAAC,GAAG,CAAC,EAAE;gBAC/B,OAAO,IAAI,QAAQ,CAAC,IAAI,CAAC,CAAA;aAC1B;iBAAM;gBACL,OAAO,IAAI,UAAU,CAAC,IAAI,CAAC,CAAA;aAC5B;SACF;QACD,OAAO,IAAI,CAAA;IACb,CAAC;IAED,IAAI,UAAU;;QACZ,OAAO,CAAC,CAAC,CAAA,MAAA,IAAI,CAAC,GAAG,0CAAE,QAAQ,EAAE,KAAI,CAAC,CAAC,GAAG,IAAI,CAAC,MAAM,CAAC,MAAM,CAAC,GAAG,IAAI,CAAC,QAAQ,CAAA;IAC3E,CAAC;IAED,IAAI,IAAI;;QACN,OAAO,IAAI,CAAC,IAAI,CAAC,IAAI;YACnB,CAAC,CAAC,eAAe,CAAC,WAAW,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;YAC9C,CAAC,CAAC,CAAA,MAAA,IAAI,CAAC,GAAG,0CAAE,OAAO,EAAE,KAAI;gBACrB,MAAM,EAAE,IAAI;gBACZ,SAAS,EAAE,EAAE;gBACb,EAAE,EAAE,OAAO;gBACX,IAAI,EAAE,OAAO;aACd,CAAA;IACP,CAAC;IAED,IAAI,QAAQ;QACV,OAAO,IAAI,CAAC,SAAS,CAAC,MAAM,EAAE,CAAC,GAAG,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;IAC5D,CAAC;IAED,IAAI,gBAAgB;QAClB,OAAO,IAAI,CAAC,QAAQ,KAAK,SAAS;YAChC,CAAC,CAAC,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,QAAQ,CAAC;YAC9B,CAAC,CAAC,SAAS,CAAA;IACf,CAAC;IAED,mBAAmB,CAAC,OAAe;QACjC,OAAO,IAAI,CAAC,OAAO,CAAC,OAAO,CAAC,CAAA;IAC9B,CAAC;IAED,IAAI,IAAI;QACN,IAAI,IAAI,GAAG,SAAS,CAAC,IAAI,CAAC,IAAI,EAAE,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,SAAS,CAAC;aAC9C,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC;aAC/B,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,SAAS,CAAC,CAAC,CAAC,IAAI,CAAC,MAAM,IAAI,CAAC,EAAE,CAAC,CAAC,IAAI,CAAC,MAAM,IAAI,CAAC,CAAC,CAAC,CAAA;QACpE,IAAI,IAAI,CAAC,QAAQ,EAAE;YACjB,MAAM,GAAG,GAAG,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,KAAK,IAAI,CAAC,QAAQ,CAAC,CAAA;YAC7D,IAAI,GAAG,EAAE;gBACP,IAAI,GAAG,GAAG,CAAA;aACX;SACF;QAED,IAAI,IAAI,CAAC,SAAS,CAAC,MAAM,EAAE;YACzB,IAAI,CAAC,SAAS;iBACX,GAAG,CAAC,WAAW,CAAC,EAAE,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,KAAK,WAAW,CAAC,CAAC;iBACnE,MAAM,CAAC,CAAC,CAAC,EAAmC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC;iBACnD,GAAG,CAAC,IAAI,CAAC,EAAE,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAA;SAC/B;QACD,OAAO,IAAI,CAAA;IACb,CAAC;IAED,IAAI,UAAU;;QAQZ,OAAO,CAAA,MAAA,IAAI,CAAC,GAAG,0CAAE,aAAa,EAAE,KAAI,EAAE,CAAA;IACxC,CAAC;IAED,IAAI,iBAAiB;QACnB,OAAO,MAAM,CAAC,WAAW,CACvB,MAAM,CAAC,OAAO,CAAC,IAAI,CAAC,UAAU,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,GAAG,EAAE,GAAG,CAAC,EAAE,EAAE,CACrD,GAAG,CAAC,GAAG,CAAC,QAAQ,CAAC,EAAE,CAAC,CAAC,QAAQ,CAAC,GAAG,EAAE,EAAE,EAAE,EAAE,GAAG,EAAE,CAAC,CAAC,CACjD,CACF,CAAA;IACH,CAAC;IAED,IAAI,YAAY;QACd,mBAAmB;QACnB,OAAO,IAAI,CAAC,KAAK,GAAG,IAAI,CAAC,aAAa,CAAA;IACxC,CAAC;IAED,IAAI,MAAM;;QACR,MAAM,MAAM,GAAG,EAAE,CAAA;QACjB,MAAM,IAAI,GAAG,IAAI,CAAC,SAAS;aACxB,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,EAAE,IAAI,EAAE,EAAE,EAAE,WAAC,OAAA,MAAA,IAAI,CAAC,GAAG,0CAAE,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA,EAAA,CAAC;aAC9C,MAAM,CAAC,CAAC,IAAI,EAAoB,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,CAAA;QAE7C,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,IAAG,MAAA,IAAI,CAAC,CAAC,CAAC,0CAAE,MAAM,CAAA,EAAE,CAAC,EAAE,EAAE;YACxC,IAAI,OAAO,GAAG,CAAC,CAAA;YACf,KAAK,MAAM,GAAG,IAAI,IAAI,EAAE;gBACtB,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE;oBAClB,OAAO,EAAE,CAAA;iBACV;aACF;YACD,IAAI,OAAO,KAAK,IAAI,CAAC,MAAM,EAAE;gBAC3B,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;aACf;SACF;QACD,OAAO,MAAM,CAAA;IACf,CAAC;IAED,IAAI,IAAI;QACN,OAAO,IAAI,CAAC,SAAS;aAClB,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,EAAE,IAAI,EAAE,EAAE,EAAE,WAAC,OAAA,CAAC,IAAI,CAAC,IAAI,EAAE,MAAA,IAAI,CAAC,GAAG,0CAAE,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,CAAU,CAAA,EAAA,CAAC;aACpE,MAAM,CAAC,CAAC,CAAC,EAA2B,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;IACnD,CAAC;IAED,IAAI,OAAO;QACT,OAAO,MAAM,CAAC,WAAW,CACvB,IAAI,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,EAAE,KAAK,EAAE,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,IAAI,CAAC,SAAS,CAAC,KAAK,CAAC,CAAU,CAAC,CACxE,CAAA;IACH,CAAC;IAED,IAAI,SAAS;QACX,OAAO,IAAI,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,GAAG,CAAC,EAAE,CAAC,UAAU,CAAC,IAAI,CAAC,MAAM,EAAE,GAAG,CAAC,CAAC,CAAA;IAC1E,CAAC;IAED,IAAI,QAAQ;QACV,MAAM,CAAC,GAAG,EAA8B,CAAA;QACxC,MAAM,OAAO,GAAG,IAAI,CAAC,SAAS,CAAA;QAC9B,KAAK,MAAM,MAAM,IAAI,OAAO,EAAE;YAC5B,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;gBACtC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,IAAI,EAAE,CAAA;gBACpB,IAAI,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,EAAE;oBACjB,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAA;iBACjB;gBACD,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,EAAE,CAAA;gBACd,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAA;aACT;SACF;QACD,OAAO,CAAC,CAAA;IACV,CAAC;IAED,4DAA4D;IAC5D,IAAI,SAAS;QACX,MAAM,IAAI,GAAG,IAAI,CAAC,IAAI,CAAA;QACtB,MAAM,KAAK,GAAG,OAAO,EAAe;aACjC,IAAI,CAAC,CAAC,IAAI,CAAC,WAAW,EAAE,IAAI,CAAC,SAAS,CAAC,CAAC;aACxC,UAAU,CAAC,GAAG,EAAE,CAAC,CAAC,CAAC,CAAA;QACtB,KAAK,CAAC,IAAI,CAAC,CAAA;QACX,WAAW,CACT,IAAI,EACJ,CAAC,IAAI,CAAC,IAAI,CAAC,MAAM,GAAG,CAAC,CAAC,EACtB,IAAI,CAAC,SAAS,GAAG,SAAS,CAAC,IAAI,CAAC,CACjC,CAAA;QACD,OAAO,IAA2C,CAAA;IACpD,CAAC;IAED,IAAI,WAAW;QACb,OAAO,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE,CAAC,MAAM,GAAG,IAAI,CAAC,SAAS,CAAA;IACnD,CAAC;CACF,CAAC,CAAC;KACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IAChB,eAAe,CAAC,IAAyC;QACvD,IAAI,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,IAAI,CAAC,IAAI,CAAC,EAAE;YAClD,IAAI,IAAI,CAAC,eAAe,CAAC,GAAG,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE;gBACvC,IAAI,CAAC,WAAW,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;aAC5B;SACF;aAAM;YACL,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC;gBAClB,GAAG,IAAI;gBACP,EAAE,EAAE,IAAI,CAAC,IAAI;gBACb,iBAAiB,EAAE,IAAI,CAAC,IAAI;aAC7B,CAAC,CAAA;SACH;IACH,CAAC;IAED,SAAS,CAAC,MAAc;QACtB,IAAI,CAAC,OAAO,GAAG,KAAK,CAAC,CAAC,IAAI,CAAC,WAAW,GAAG,EAAE,EAAE,IAAI,CAAC,OAAO,GAAG,MAAM,EAAE,CAAC,CAAC,CAAA;IACxE,CAAC;IAED,SAAS,CAAC,MAAc;QACtB,IAAI,CAAC,OAAO,GAAG,KAAK,CAClB,CAAC,IAAI,CAAC,UAAU,GAAG,CAAC,IAAI,CAAC,YAAY,GAAG,GAAG,CAAC,EAC5C,IAAI,CAAC,OAAO,GAAG,MAAM,EACrB,CAAC,CACF,CAAA;IACH,CAAC;IACD,oBAAoB,CAAC,CAAS,EAAE,KAAa,EAAE,IAAY;;QACzD,IAAI,CAAC,GAAG,CAAC,CAAA;QACT,IAAI,CAAC,GAAG,CAAC,CAAA;QACT,MAAM,EAAE,EAAE,EAAE,GAAG,IAAI,CAAC,iBAAiB,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,IAAI,EAAE,CAAA;QAC9D,MAAM,GAAG,GAAG,MAAA,IAAI,CAAC,GAAG,0CAAE,MAAM,CAAC,EAAE,CAAC,CAAA;QAEhC,IAAI,GAAG,EAAE;YACP,KAAK,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,GAAG,CAAC,MAAM,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,EAAE,EAAE;gBACxC,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE;oBAClB,CAAC,EAAE,CAAA;iBACJ;aACF;YACD,IAAI,CAAC,QAAQ,GAAG,CAAC,GAAG,CAAC,CAAA;SACtB;aAAM;YACL,IAAI,CAAC,QAAQ,GAAG,SAAS,CAAA;SAC1B;IACH,CAAC;IAED,WAAW,CAAC,EAAU;QACpB,IAAI,IAAI,CAAC,eAAe,CAAC,GAAG,CAAC,EAAE,CAAC,EAAE;YAChC,IAAI,CAAC,eAAe,CAAC,MAAM,CAAC,EAAE,CAAC,CAAA;SAChC;aAAM;YACL,IAAI,CAAC,eAAe,CAAC,GAAG,CAAC,EAAE,EAAE,IAAI,CAAC,CAAA;SACnC;IACH,CAAC;CACF,CAAC,CAAC;KACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IACd,IAAI,2BAA2B;;QAC7B,OAAO,MAAA,IAAI,CAAC,GAAG,0CAAE,2BAA2B,CAAA;IAC9C,CAAC;IAED,IAAI,YAAY;;QACd,OAAO,MAAA,IAAI,CAAC,GAAG,0CAAE,YAAY,CAAA;IAC/B,CAAC;IAED,IAAI,YAAY;QACd,IAAI,IAAI,CAAC,SAAS,CAAC,MAAM,EAAE;YACzB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,SAAS,CAAC,CAAC,CAAC,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;gBACjD,MAAM,GAAG,GAAG,EAAE,CAAA;gBACd,KAAK,MAAM,MAAM,IAAI,IAAI,CAAC,SAAS,EAAE;oBACnC,GAAG,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,CAAA;iBACpB;aACF;SACF;QACD,OAAO,CAAC,GAAG,CAAC,CAAA;IACd,CAAC;IAED,IAAI,MAAM;QACR,MAAM,MAAM,GAAG,IAAI,CAAC,MAAM,CAAA;QAC1B,MAAM,aAAa,GAAG,IAAI,CAAC,GAAG;YAC5B,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE;gBAC1B,MAAM,EAAE,IAAI,EAAE,GAAG,KAAK,CAAA;gBACtB,OAAO;oBACL,KAAK,EAAE;wBACL,GAAG,KAAK;wBACR,IAAI,EAAE,IAAI,CAAC,CAAC,CAAC,UAAU,CAAC,MAAM,EAAE,IAAI,CAAC,CAAC,CAAC,CAAC,SAAS;wBACjD,MAAM,EAAE,IAAI,CAAC,SAAS;qBACL;oBACnB,cAAc,EAAE,SAAS;iBAC1B,CAAA;YACH,CAAC,CAAC;YACJ,CAAC,CAAE,EAAmB,CAAA;QAExB,MAAM,SAAS,GAAG,IAAI,CAAC,SAAS;YAC9B,yDAAyD;aACxD,MAAM,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,KAAK,KAAK,CAAC,IAAI,CAAC,CAAC;aAC/D,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;YACb,KAAK,EAAE,KAAsB;YAC7B,cAAc,EAAE,QAAQ;SACzB,CAAC,CAAC,CAAA;QAEL,MAAM,gBAAgB,GACpB,IAAI,CAAC,gBAAgB,CAAC,MAAM,GAAG,CAAC;YAC9B,CAAC,CAAC;gBACE;oBACE,KAAK,EAAE;wBACL,QAAQ,EAAE,IAAI,CAAC,gBAAgB;wBAC/B,MAAM,EAAE,GAAG;wBACX,EAAE,EAAE,aAAa;wBACjB,IAAI,EAAE,0BAA0B;wBAChC,IAAI,EAAE,IAAI,CAAC,gBAAgB;6BACxB,GAAG,CAAC,MAAM,CAAC,EAAE;4BACZ,MAAM,KAAK,GAAG,MAAM,CAAC,UAAU;gCAC7B,CAAC,CAAC,MAAM,CAAC,OAAO,CAAC,MAAM,CAAC,UAAU,CAAC;qCAC9B,GAAG,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,EAAE,EAAE,CAAC,GAAG,CAAC,IAAI,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC;qCACtC,IAAI,CAAC,GAAG,CAAC;gCACd,CAAC,CAAC,GAAG,CAAA;4BACP,OAAO;gCACL,cAAc;gCACd,GAAG;gCACH,GAAG;gCACH,MAAM,CAAC,KAAK;gCACZ,MAAM,CAAC,GAAG;gCACV,GAAG;gCACH,GAAG;gCACH,GAAG;gCACH,KAAK;6BACN,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;wBACd,CAAC,CAAC;6BACD,IAAI,CAAC,IAAI,CAAC;qBACG;oBAClB,cAAc,EAAE,QAAQ;iBACzB;aACF;YACH,CAAC,CAAE,EAAmB,CAAA;QAE1B,OAAO,CAAC,GAAG,aAAa,EAAE,GAAG,SAAS,EAAE,GAAG,gBAAgB,CAAC,CAAA;IAC9D,CAAC;IAED,IAAI,cAAc;QAChB,OAAO,IAAI,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,IAAI,CAAC,eAAe,CAAC,GAAG,CAAC,CAAC,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC,CAAA;IACvE,CAAC;IAED,+DAA+D;IAC/D,MAAM,CAAC,KAAa;QAClB,OAAO,IAAI,CAAC,KAAK,CAAC,CAAC,KAAK,GAAG,IAAI,CAAC,OAAO,CAAC,GAAG,IAAI,CAAC,QAAQ,CAAC,CAAA;IAC3D,CAAC;IAED,iBAAiB,CAAC,OAAe,EAAE,QAAgB;;QACjD,MAAM,EAAE,QAAQ,EAAE,IAAI,EAAE,MAAM,EAAE,GAAG,IAAI,CAAA;QACvC,MAAM,KAAK,GAAG,QAAQ,CAAC,OAAO,CAAC,OAAO,CAAC,CAAA;QACvC,MAAM,GAAG,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAA;QAC1B,MAAM,OAAO,GAAG,IAAI,CAAC,UAAU,CAAC,OAAO,CAAC,CAAA;QACxC,MAAM,MAAM,GAAG,CAAA,MAAA,OAAO,CAAC,KAAK,0CAAE,KAAK,KAAI,CAAC,CAAA;QACxC,MAAM,OAAO,GAAG,QAAQ,GAAG,MAAM,CAAA;QAEjC,IAAI,OAAO,GAAG,CAAC,EAAE;YACf,OAAO,CAAC,CAAA;SACT;QAED,IAAI,CAAC,GAAG,CAAC,CAAA;QACT,IAAI,CAAC,GAAG,CAAC,CAAA;QAET,OAAO,CAAC,GAAG,GAAG,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;YAC1B,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,CAAC,EAAE,KAAK,OAAO,EAAE;gBACrC,MAAK;aACN;SACF;QAED,IAAI,KAAK,GAAG,CAAC,CAAA;QACb,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,GAAG,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;YACnC,IAAI,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,GAAG,CAAC,EAAE;gBACnC,KAAK,EAAE,CAAA;aACR;SACF;QAED,OAAO,CAAC,GAAG,KAAK,CAAA;IAClB,CAAC;IACD,YAAY,CAAC,QAAgB;;QAC3B,IAAI,KAAK,GAAG,CAAC,CAAA;QACb,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,IAAG,MAAA,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,0CAAG,CAAC,EAAE,MAAM,CAAA,EAAE,CAAC,EAAE,EAAE;YACjD,IAAI,IAAI,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,IAAI,CAAC,GAAG,QAAQ,GAAG,CAAC,EAAE;gBAC/C,KAAK,EAAE,CAAA;aACR;SACF;QAED,OAAO,QAAQ,GAAG,KAAK,CAAA;IACzB,CAAC;IAED,cAAc,CAAC,OAAe,EAAE,QAAgB;QAC9C,MAAM,EAAE,QAAQ,EAAE,IAAI,EAAE,GAAG,IAAI,CAAA;QAC/B,MAAM,KAAK,GAAG,QAAQ,CAAC,OAAO,CAAC,OAAO,CAAC,CAAA;QACvC,IAAI,KAAK,KAAK,CAAC,CAAC,EAAE;YAChB,MAAM,GAAG,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAA;YAE1B,IAAI,CAAC,GAAG,CAAC,CAAA;YACT,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,QAAQ,EAAE,CAAC,EAAE,EAAE;gBACjC,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE;oBAClB,CAAC,EAAE,CAAA;iBACJ;qBAAM,IAAI,CAAC,IAAI,QAAQ,EAAE;oBACxB,MAAK;iBACN;aACF;YACD,OAAO,CAAC,CAAA;SACT;QACD,OAAO,CAAC,CAAA;IACV,CAAC;IAED,MAAM,CAAC,GAAW;QAChB,IAAI,CAAC,GAAG,CAAC,CAAA;QACT,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,GAAG,EAAE,CAAC,EAAE,EAAE,CAAC,EAAE,EAAE;YACxC,OAAO,CAAC,KAAK,IAAI,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE;gBAC3B,CAAC,EAAE,CAAA;gBACH,CAAC,EAAE,CAAA;aACJ;SACF;QACD,OAAO,CAAC,CAAA;IACV,CAAC;CACF,CAAC,CAAC;KACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IAChB,aAAa,CACX,KAAa,EACb,GAAW,EACX,UAAoC;QAEpC,IAAI,CAAC,gBAAgB,CAAC,IAAI,CAAC;YACzB,KAAK,EAAE,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC;YACzB,GAAG,EAAE,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC;YACrB,UAAU;SACX,CAAC,CAAA;IACJ,CAAC;IAED,UAAU,CAAC,IAAY,EAAE,KAAa;QACpC,IAAI,CAAC,QAAQ,GAAG,EAAE,IAAI,EAAE,KAAK,EAAE,CAAA;IACjC,CAAC;IAED,aAAa;QACX,IAAI,CAAC,QAAQ,GAAG,SAAS,CAAA;IAC3B,CAAC;CACF,CAAC,CAAC,CAAA;AAEL,MAAM,KAAK,GAAG,KAAK,CAAC,iBAAiB,CAAC,KAAK,CAAC,OAAO,CAAC,aAAa,EAAE,QAAQ,CAAC,EAAE;IAC5E,aAAa,CAAC,MAAM;QAClB,MAAM,IAAI,GAAG,MAAqC,CAAA;QAClD,MAAM,EACJ,IAAI,EAAE,EAAE,IAAI,EAAE,GAAG,EAAE,EACnB,GAAG,IAAI,EACR,GAAG,IAAI,CAAA;QAER,wEAAwE;QACxE,2CAA2C;QAC3C,OAAO;YACL,IAAI,EAAE;gBACJ,kHAAkH;gBAClH,GAAG,CAAC,CAAC,MAAM,CAAC,cAAc,IAAI,EAAE,IAAI,EAAE,CAAC;gBACvC,GAAG,CAAC,CAAC,MAAM,CAAC,aAAa,IAAI,EAAE,GAAG,EAAE,CAAC;aACtC;YACD,GAAG,IAAI;SACR,CAAA;IACH,CAAC;CACF,CAAC,CAAA;AAEF,eAAe,KAAK,CAAA"}
@@ -57,8 +57,4 @@
57
57
  * ]
58
58
  * }
59
59
  */
60
- export default function parse(s: any): {
61
- branchset: {}[];
62
- name: any;
63
- length: number;
64
- };
60
+ export default function parse(s: string): Record<string, any>;
@@ -58,12 +58,14 @@
58
58
  * }
59
59
  */
60
60
  export default function parse(s) {
61
- var ancestors = [];
62
- var tree = {};
63
- var tokens = s.split(/\s*(;|\(|\)|,|:)\s*/);
64
- for (var i = 0; i < tokens.length; i++) {
65
- var token = tokens[i];
66
- var subtree = {};
61
+ var _a;
62
+ const ancestors = [];
63
+ // eslint-disable-next-line @typescript-eslint/no-explicit-any
64
+ let tree = {};
65
+ const tokens = s.split(/\s*(;|\(|\)|,|:)\s*/);
66
+ for (let i = 0; i < tokens.length; i++) {
67
+ const token = tokens[i];
68
+ const subtree = {};
67
69
  switch (token) {
68
70
  case '(': // new branchset
69
71
  tree.branchset = [subtree];
@@ -71,7 +73,7 @@ export default function parse(s) {
71
73
  tree = subtree;
72
74
  break;
73
75
  case ',': // another branch
74
- ancestors[ancestors.length - 1].branchset.push(subtree);
76
+ (_a = ancestors.at(-1)) === null || _a === void 0 ? void 0 : _a.branchset.push(subtree);
75
77
  tree = subtree;
76
78
  break;
77
79
  case ')': // optional name next
@@ -80,7 +82,7 @@ export default function parse(s) {
80
82
  case ':': // optional length next
81
83
  break;
82
84
  default: {
83
- var x = tokens[i - 1];
85
+ const x = tokens[i - 1];
84
86
  if (x === ')' || x === '(' || x === ',') {
85
87
  tree.name = token;
86
88
  }
@@ -92,3 +94,4 @@ export default function parse(s) {
92
94
  }
93
95
  return tree;
94
96
  }
97
+ //# sourceMappingURL=parseNewick.js.map
@@ -0,0 +1 @@
1
+ {"version":3,"file":"parseNewick.js","sourceRoot":"","sources":["../src/parseNewick.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA0DG;AACH,MAAM,CAAC,OAAO,UAAU,KAAK,CAAC,CAAS;;IACrC,MAAM,SAAS,GAAG,EAAE,CAAA;IACpB,8DAA8D;IAC9D,IAAI,IAAI,GAAG,EAAyB,CAAA;IACpC,MAAM,MAAM,GAAG,CAAC,CAAC,KAAK,CAAC,qBAAqB,CAAC,CAAA;IAC7C,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;QACtC,MAAM,KAAK,GAAG,MAAM,CAAC,CAAC,CAAC,CAAA;QACvB,MAAM,OAAO,GAAG,EAAE,CAAA;QAClB,QAAQ,KAAK,EAAE;YACb,KAAK,GAAG,EAAE,gBAAgB;gBACxB,IAAI,CAAC,SAAS,GAAG,CAAC,OAAO,CAAC,CAAA;gBAC1B,SAAS,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;gBACpB,IAAI,GAAG,OAAO,CAAA;gBACd,MAAK;YACP,KAAK,GAAG,EAAE,iBAAiB;gBACzB,MAAA,SAAS,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,0CAAE,SAAS,CAAC,IAAI,CAAC,OAAO,CAAC,CAAA;gBACzC,IAAI,GAAG,OAAO,CAAA;gBACd,MAAK;YACP,KAAK,GAAG,EAAE,qBAAqB;gBAC7B,IAAI,GAAG,SAAS,CAAC,GAAG,EAAG,CAAA;gBACvB,MAAK;YACP,KAAK,GAAG,EAAE,uBAAuB;gBAC/B,MAAK;YACP,OAAO,CAAC,CAAC;gBACP,MAAM,CAAC,GAAG,MAAM,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA;gBACvB,IAAI,CAAC,KAAK,GAAG,IAAI,CAAC,KAAK,GAAG,IAAI,CAAC,KAAK,GAAG,EAAE;oBACvC,IAAI,CAAC,IAAI,GAAG,KAAK,CAAA;iBAClB;qBAAM,IAAI,CAAC,KAAK,GAAG,EAAE;oBACpB,IAAI,CAAC,MAAM,GAAG,UAAU,CAAC,KAAK,CAAC,CAAA;iBAChC;aACF;SACF;KACF;IACD,OAAO,IAAI,CAAA;AACb,CAAC"}
@@ -1,29 +1,17 @@
1
+ import { NodeWithIds } from '../util';
1
2
  export default class ClustalMSA {
2
3
  private MSA;
3
4
  constructor(text: string);
4
- getMSA(): {
5
- header: Record<string, any>;
6
- consensus?: string | undefined;
7
- alns: {
8
- id: string;
9
- seq: string;
10
- }[];
11
- };
5
+ getMSA(): import("clustal-js/dist/types").Results;
12
6
  getRow(name: string): string[] | undefined;
13
7
  getWidth(): number;
14
- getDetails(): Record<string, any>;
8
+ getRowData(): undefined;
9
+ getHeader(): import("clustal-js/dist/types").Header;
15
10
  getNames(): string[];
16
11
  getStructures(): {};
17
12
  get alignmentNames(): never[];
18
- getTree(): {
19
- id: string;
20
- noTree: boolean;
21
- branchset: {
22
- id: string;
23
- name: string;
24
- }[];
25
- };
26
- get seqConsensus(): string | undefined;
13
+ getTree(): NodeWithIds;
14
+ get seqConsensus(): string;
27
15
  get secondaryStructureConsensus(): undefined;
28
16
  get tracks(): {
29
17
  id: string;
@@ -1,77 +1,68 @@
1
1
  import { parse } from 'clustal-js';
2
- var ClustalMSA = /** @class */ (function () {
3
- function ClustalMSA(text) {
2
+ export default class ClustalMSA {
3
+ constructor(text) {
4
4
  this.MSA = parse(text);
5
5
  }
6
- ClustalMSA.prototype.getMSA = function () {
6
+ getMSA() {
7
7
  return this.MSA;
8
- };
9
- ClustalMSA.prototype.getRow = function (name) {
8
+ }
9
+ getRow(name) {
10
10
  var _a;
11
- return (_a = this.MSA.alns.find(function (aln) { return aln.id === name; })) === null || _a === void 0 ? void 0 : _a.seq.split('');
12
- };
13
- ClustalMSA.prototype.getWidth = function () {
11
+ return (_a = this.MSA.alns.find(aln => aln.id === name)) === null || _a === void 0 ? void 0 : _a.seq.split('');
12
+ }
13
+ getWidth() {
14
14
  return this.MSA.alns[0].seq.length;
15
- };
16
- ClustalMSA.prototype.getDetails = function () {
15
+ }
16
+ getRowData() {
17
+ return undefined;
18
+ }
19
+ getHeader() {
17
20
  return this.MSA.header;
18
- };
19
- ClustalMSA.prototype.getNames = function () {
20
- return this.MSA.alns.map(function (aln) { return aln.id; });
21
- };
22
- ClustalMSA.prototype.getStructures = function () {
21
+ }
22
+ getNames() {
23
+ return this.MSA.alns.map(aln => aln.id);
24
+ }
25
+ getStructures() {
23
26
  return {};
24
- };
25
- Object.defineProperty(ClustalMSA.prototype, "alignmentNames", {
26
- get: function () {
27
- return [];
28
- },
29
- enumerable: false,
30
- configurable: true
31
- });
32
- ClustalMSA.prototype.getTree = function () {
27
+ }
28
+ get alignmentNames() {
29
+ return [];
30
+ }
31
+ getTree() {
33
32
  return {
34
33
  id: 'root',
34
+ name: 'root',
35
35
  noTree: true,
36
- branchset: this.getNames().map(function (name) { return ({ id: name, name: name }); }),
36
+ branchset: this.getNames().map(name => ({
37
+ id: name,
38
+ name,
39
+ branchset: [],
40
+ })),
37
41
  };
38
- };
39
- Object.defineProperty(ClustalMSA.prototype, "seqConsensus", {
40
- get: function () {
41
- return this.MSA.consensus;
42
- },
43
- enumerable: false,
44
- configurable: true
45
- });
46
- Object.defineProperty(ClustalMSA.prototype, "secondaryStructureConsensus", {
47
- get: function () {
48
- return undefined;
49
- },
50
- enumerable: false,
51
- configurable: true
52
- });
53
- Object.defineProperty(ClustalMSA.prototype, "tracks", {
54
- get: function () {
55
- var _a;
56
- return ((_a = this.seqConsensus) === null || _a === void 0 ? void 0 : _a.trim())
57
- ? [
58
- {
59
- id: 'seqConsensus',
60
- name: 'Sequence consensus',
61
- data: this.seqConsensus,
62
- customColorScheme: {
63
- '*': 'white',
64
- ':': 'grey',
65
- '.': 'darkgrey',
66
- ' ': 'black',
67
- },
42
+ }
43
+ get seqConsensus() {
44
+ return this.MSA.consensus;
45
+ }
46
+ get secondaryStructureConsensus() {
47
+ return undefined;
48
+ }
49
+ get tracks() {
50
+ var _a;
51
+ return ((_a = this.seqConsensus) === null || _a === void 0 ? void 0 : _a.trim())
52
+ ? [
53
+ {
54
+ id: 'seqConsensus',
55
+ name: 'Sequence consensus',
56
+ data: this.seqConsensus,
57
+ customColorScheme: {
58
+ '*': 'white',
59
+ ':': 'grey',
60
+ '.': 'darkgrey',
61
+ ' ': 'black',
68
62
  },
69
- ]
70
- : [];
71
- },
72
- enumerable: false,
73
- configurable: true
74
- });
75
- return ClustalMSA;
76
- }());
77
- export default ClustalMSA;
63
+ },
64
+ ]
65
+ : [];
66
+ }
67
+ }
68
+ //# sourceMappingURL=ClustalMSA.js.map
@@ -0,0 +1 @@
1
+ {"version":3,"file":"ClustalMSA.js","sourceRoot":"","sources":["../../src/parsers/ClustalMSA.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,MAAM,YAAY,CAAA;AAElC,MAAM,CAAC,OAAO,OAAO,UAAU;IAG7B,YAAY,IAAY;QACtB,IAAI,CAAC,GAAG,GAAG,KAAK,CAAC,IAAI,CAAC,CAAA;IACxB,CAAC;IAED,MAAM;QACJ,OAAO,IAAI,CAAC,GAAG,CAAA;IACjB,CAAC;IAED,MAAM,CAAC,IAAY;;QACjB,OAAO,MAAA,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,KAAK,IAAI,CAAC,0CAAE,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,CAAA;IAClE,CAAC;IAED,QAAQ;QACN,OAAO,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,MAAM,CAAA;IACpC,CAAC;IAED,UAAU;QACR,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,SAAS;QACP,OAAO,IAAI,CAAC,GAAG,CAAC,MAAM,CAAA;IACxB,CAAC;IAED,QAAQ;QACN,OAAO,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,GAAG,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC,CAAA;IACzC,CAAC;IAED,aAAa;QACX,OAAO,EAAE,CAAA;IACX,CAAC;IAED,IAAI,cAAc;QAChB,OAAO,EAAE,CAAA;IACX,CAAC;IAED,OAAO;QACL,OAAO;YACL,EAAE,EAAE,MAAM;YACV,IAAI,EAAE,MAAM;YACZ,MAAM,EAAE,IAAI;YACZ,SAAS,EAAE,IAAI,CAAC,QAAQ,EAAE,CAAC,GAAG,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;gBACtC,EAAE,EAAE,IAAI;gBACR,IAAI;gBACJ,SAAS,EAAE,EAAE;aACd,CAAC,CAAC;SACJ,CAAA;IACH,CAAC;IAED,IAAI,YAAY;QACd,OAAO,IAAI,CAAC,GAAG,CAAC,SAAS,CAAA;IAC3B,CAAC;IACD,IAAI,2BAA2B;QAC7B,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,IAAI,MAAM;;QACR,OAAO,CAAA,MAAA,IAAI,CAAC,YAAY,0CAAE,IAAI,EAAE;YAC9B,CAAC,CAAC;gBACE;oBACE,EAAE,EAAE,cAAc;oBAClB,IAAI,EAAE,oBAAoB;oBAC1B,IAAI,EAAE,IAAI,CAAC,YAAY;oBACvB,iBAAiB,EAAE;wBACjB,GAAG,EAAE,OAAO;wBACZ,GAAG,EAAE,MAAM;wBACX,GAAG,EAAE,UAAU;wBACf,GAAG,EAAE,OAAO;qBACb;iBACF;aACF;YACH,CAAC,CAAC,EAAE,CAAA;IACR,CAAC;CACF"}
@@ -1,25 +1,18 @@
1
+ import { NodeWithIds } from '../util';
1
2
  export default class FastaMSA {
2
3
  private MSA;
3
4
  constructor(text: string);
4
5
  getMSA(): {
5
- seqdata: {
6
- [key: string]: string;
7
- };
6
+ seqdata: Record<string, string>;
8
7
  };
8
+ getRowData(): undefined;
9
9
  getNames(): string[];
10
10
  getRow(name: string): string[];
11
11
  getWidth(): number;
12
12
  getStructures(): {};
13
13
  get alignmentNames(): never[];
14
- getDetails(): {};
15
- getTree(): {
16
- id: string;
17
- noTree: boolean;
18
- branchset: {
19
- id: string;
20
- name: string;
21
- }[];
22
- };
14
+ getHeader(): {};
15
+ getTree(): NodeWithIds;
23
16
  get seqConsensus(): undefined;
24
17
  get secondaryStructureConsensus(): undefined;
25
18
  get tracks(): never[];
@@ -1,78 +1,69 @@
1
- var FastaMSA = /** @class */ (function () {
2
- function FastaMSA(text) {
3
- var seq = {};
4
- var name = '';
5
- var re = /^>(\S+)/;
6
- text.split('\n').forEach(function (line) {
7
- var match = re.exec(line);
8
- if (match) {
9
- seq[(name = match[1])] = '';
10
- }
11
- else if (name) {
12
- seq[name] = seq[name] + line.replace(/[ \t]/g, '');
13
- }
14
- });
15
- this.MSA = { seqdata: seq };
1
+ function parseSmallFasta(text) {
2
+ return text
3
+ .split('>')
4
+ .filter(t => /\S/.test(t))
5
+ .map(entryText => {
6
+ const [defLine, ...seqLines] = entryText.split('\n');
7
+ const [id, ...description] = defLine.split(' ');
8
+ const descriptionStr = description.join(' ');
9
+ const seqLinesStr = seqLines.join('');
10
+ const sequence = seqLinesStr.replaceAll(/\s/g, '');
11
+ return { id, description: descriptionStr, sequence };
12
+ });
13
+ }
14
+ export default class FastaMSA {
15
+ constructor(text) {
16
+ this.MSA = {
17
+ seqdata: Object.fromEntries(parseSmallFasta(text).map(m => [`${m.id}`, m.sequence])),
18
+ };
16
19
  }
17
- FastaMSA.prototype.getMSA = function () {
20
+ getMSA() {
18
21
  return this.MSA;
19
- };
20
- FastaMSA.prototype.getNames = function () {
22
+ }
23
+ getRowData() {
24
+ return undefined;
25
+ }
26
+ getNames() {
21
27
  return Object.keys(this.MSA.seqdata);
22
- };
23
- FastaMSA.prototype.getRow = function (name) {
28
+ }
29
+ getRow(name) {
24
30
  var _a, _b;
25
31
  return (_b = (_a = this.MSA) === null || _a === void 0 ? void 0 : _a.seqdata[name]) === null || _b === void 0 ? void 0 : _b.split('');
26
- };
27
- FastaMSA.prototype.getWidth = function () {
32
+ }
33
+ getWidth() {
28
34
  var _a;
29
- var name = Object.keys((_a = this.MSA) === null || _a === void 0 ? void 0 : _a.seqdata)[0];
35
+ const name = Object.keys((_a = this.MSA) === null || _a === void 0 ? void 0 : _a.seqdata)[0];
30
36
  return this.getRow(name).length;
31
- };
32
- FastaMSA.prototype.getStructures = function () {
37
+ }
38
+ getStructures() {
33
39
  return {};
34
- };
35
- Object.defineProperty(FastaMSA.prototype, "alignmentNames", {
36
- get: function () {
37
- return [];
38
- },
39
- enumerable: false,
40
- configurable: true
41
- });
42
- FastaMSA.prototype.getDetails = function () {
40
+ }
41
+ get alignmentNames() {
42
+ return [];
43
+ }
44
+ getHeader() {
43
45
  return {};
44
- };
45
- FastaMSA.prototype.getTree = function () {
46
+ }
47
+ getTree() {
46
48
  return {
47
49
  id: 'root',
50
+ name: 'root',
48
51
  noTree: true,
49
- branchset: this.getNames().map(function (name) { return ({
52
+ branchset: this.getNames().map(name => ({
50
53
  id: name,
51
- name: name,
52
- }); }),
54
+ branchset: [],
55
+ name,
56
+ })),
53
57
  };
54
- };
55
- Object.defineProperty(FastaMSA.prototype, "seqConsensus", {
56
- get: function () {
57
- return undefined;
58
- },
59
- enumerable: false,
60
- configurable: true
61
- });
62
- Object.defineProperty(FastaMSA.prototype, "secondaryStructureConsensus", {
63
- get: function () {
64
- return undefined;
65
- },
66
- enumerable: false,
67
- configurable: true
68
- });
69
- Object.defineProperty(FastaMSA.prototype, "tracks", {
70
- get: function () {
71
- return [];
72
- },
73
- enumerable: false,
74
- configurable: true
75
- });
76
- return FastaMSA;
77
- }());
78
- export default FastaMSA;
58
+ }
59
+ get seqConsensus() {
60
+ return undefined;
61
+ }
62
+ get secondaryStructureConsensus() {
63
+ return undefined;
64
+ }
65
+ get tracks() {
66
+ return [];
67
+ }
68
+ }
69
+ //# sourceMappingURL=FastaMSA.js.map
@@ -0,0 +1 @@
1
+ {"version":3,"file":"FastaMSA.js","sourceRoot":"","sources":["../../src/parsers/FastaMSA.ts"],"names":[],"mappings":"AAEA,SAAS,eAAe,CAAC,IAAY;IACnC,OAAO,IAAI;SACR,KAAK,CAAC,GAAG,CAAC;SACV,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;SACzB,GAAG,CAAC,SAAS,CAAC,EAAE;QACf,MAAM,CAAC,OAAO,EAAE,GAAG,QAAQ,CAAC,GAAG,SAAS,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QACpD,MAAM,CAAC,EAAE,EAAE,GAAG,WAAW,CAAC,GAAG,OAAO,CAAC,KAAK,CAAC,GAAG,CAAC,CAAA;QAC/C,MAAM,cAAc,GAAG,WAAW,CAAC,IAAI,CAAC,GAAG,CAAC,CAAA;QAC5C,MAAM,WAAW,GAAG,QAAQ,CAAC,IAAI,CAAC,EAAE,CAAC,CAAA;QACrC,MAAM,QAAQ,GAAG,WAAW,CAAC,UAAU,CAAC,KAAK,EAAE,EAAE,CAAC,CAAA;QAClD,OAAO,EAAE,EAAE,EAAE,WAAW,EAAE,cAAc,EAAE,QAAQ,EAAE,CAAA;IACtD,CAAC,CAAC,CAAA;AACN,CAAC;AACD,MAAM,CAAC,OAAO,OAAO,QAAQ;IAE3B,YAAY,IAAY;QACtB,IAAI,CAAC,GAAG,GAAG;YACT,OAAO,EAAE,MAAM,CAAC,WAAW,CACzB,eAAe,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,EAAE,EAAE,EAAE,CAAC,CAAC,QAAQ,CAAC,CAAC,CACxD;SACF,CAAA;IACH,CAAC;IAED,MAAM;QACJ,OAAO,IAAI,CAAC,GAAG,CAAA;IACjB,CAAC;IAED,UAAU;QACR,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,QAAQ;QACN,OAAO,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,CAAA;IACtC,CAAC;IAED,MAAM,CAAC,IAAY;;QACjB,OAAO,MAAA,MAAA,IAAI,CAAC,GAAG,0CAAE,OAAO,CAAC,IAAI,CAAC,0CAAE,KAAK,CAAC,EAAE,CAAC,CAAA;IAC3C,CAAC;IAED,QAAQ;;QACN,MAAM,IAAI,GAAG,MAAM,CAAC,IAAI,CAAC,MAAA,IAAI,CAAC,GAAG,0CAAE,OAAO,CAAC,CAAC,CAAC,CAAC,CAAA;QAC9C,OAAO,IAAI,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,MAAM,CAAA;IACjC,CAAC;IAED,aAAa;QACX,OAAO,EAAE,CAAA;IACX,CAAC;IAED,IAAI,cAAc;QAChB,OAAO,EAAE,CAAA;IACX,CAAC;IAED,SAAS;QACP,OAAO,EAAE,CAAA;IACX,CAAC;IAED,OAAO;QACL,OAAO;YACL,EAAE,EAAE,MAAM;YACV,IAAI,EAAE,MAAM;YACZ,MAAM,EAAE,IAAI;YACZ,SAAS,EAAE,IAAI,CAAC,QAAQ,EAAE,CAAC,GAAG,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;gBACtC,EAAE,EAAE,IAAI;gBACR,SAAS,EAAE,EAAE;gBACb,IAAI;aACL,CAAC,CAAC;SACJ,CAAA;IACH,CAAC;IAED,IAAI,YAAY;QACd,OAAO,SAAS,CAAA;IAClB,CAAC;IACD,IAAI,2BAA2B;QAC7B,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,IAAI,MAAM;QACR,OAAO,EAAE,CAAA;IACX,CAAC;CACF"}
@@ -1,4 +1,5 @@
1
- declare type StockholmEntry = {
1
+ import { NodeWithIds } from '../util';
2
+ interface StockholmEntry {
2
3
  gf: {
3
4
  DE?: string[];
4
5
  NH?: string[];
@@ -11,10 +12,8 @@ declare type StockholmEntry = {
11
12
  SS_cons?: string;
12
13
  seq_cons?: string;
13
14
  };
14
- seqdata: {
15
- [key: string]: string;
16
- };
17
- };
15
+ seqdata: Record<string, string>;
16
+ }
18
17
  export default class StockholmMSA {
19
18
  private data;
20
19
  private MSA;
@@ -23,7 +22,7 @@ export default class StockholmMSA {
23
22
  getRow(name: string): string[];
24
23
  getWidth(): number;
25
24
  get alignmentNames(): string[];
26
- getDetails(): {
25
+ getHeader(): {
27
26
  General: {
28
27
  DE?: string[] | undefined;
29
28
  NH?: string[] | undefined;
@@ -31,27 +30,21 @@ export default class StockholmMSA {
31
30
  Accessions: Record<string, string>;
32
31
  Dbxref: Record<string, string>;
33
32
  };
34
- getRowDetails(rowName: string): {
33
+ getRowData(rowName: string): {
35
34
  name: string;
36
35
  accession: string;
37
36
  dbxref: string;
38
37
  };
39
38
  getNames(): string[];
40
39
  getSeqCoords(): void;
41
- getStructures(): Record<string, {
40
+ getStructures(): Record<string, Omit<{
41
+ id: string;
42
42
  pdb: string;
43
43
  chain: string;
44
44
  startPos: number;
45
45
  endPos: number;
46
- }[]>;
47
- getTree(): import("../util").NodeWithIds | {
48
- id: string;
49
- noTree: boolean;
50
- branchset: {
51
- id: string;
52
- name: string;
53
- }[];
54
- };
46
+ }, "id">[]>;
47
+ getTree(): NodeWithIds;
55
48
  get seqConsensus(): string | undefined;
56
49
  get secondaryStructureConsensus(): string | undefined;
57
50
  get tracks(): ({