jbrowse-plugin-protein3d 0.0.2

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Files changed (210) hide show
  1. package/README.md +3 -0
  2. package/dist/AddHighlightModel/GenomeMouseoverHighlight.d.ts +6 -0
  3. package/dist/AddHighlightModel/GenomeMouseoverHighlight.js +24 -0
  4. package/dist/AddHighlightModel/GenomeMouseoverHighlight.js.map +1 -0
  5. package/dist/AddHighlightModel/Highlight.d.ts +10 -0
  6. package/dist/AddHighlightModel/Highlight.js +24 -0
  7. package/dist/AddHighlightModel/Highlight.js.map +1 -0
  8. package/dist/AddHighlightModel/HighlightComponents.d.ts +7 -0
  9. package/dist/AddHighlightModel/HighlightComponents.js +14 -0
  10. package/dist/AddHighlightModel/HighlightComponents.js.map +1 -0
  11. package/dist/AddHighlightModel/ProteinToGenomeClickHighlight.d.ts +7 -0
  12. package/dist/AddHighlightModel/ProteinToGenomeClickHighlight.js +13 -0
  13. package/dist/AddHighlightModel/ProteinToGenomeClickHighlight.js.map +1 -0
  14. package/dist/AddHighlightModel/ProteinToGenomeHoverHighlight.d.ts +7 -0
  15. package/dist/AddHighlightModel/ProteinToGenomeHoverHighlight.js +13 -0
  16. package/dist/AddHighlightModel/ProteinToGenomeHoverHighlight.js.map +1 -0
  17. package/dist/AddHighlightModel/index.d.ts +2 -0
  18. package/dist/AddHighlightModel/index.js +14 -0
  19. package/dist/AddHighlightModel/index.js.map +1 -0
  20. package/dist/AddHighlightModel/util.d.ts +9 -0
  21. package/dist/AddHighlightModel/util.js +17 -0
  22. package/dist/AddHighlightModel/util.js.map +1 -0
  23. package/dist/LaunchProteinView/calculateProteinSequence.d.ts +28 -0
  24. package/dist/LaunchProteinView/calculateProteinSequence.js +77 -0
  25. package/dist/LaunchProteinView/calculateProteinSequence.js.map +1 -0
  26. package/dist/LaunchProteinView/components/AlphaFoldDBSearch.d.ts +8 -0
  27. package/dist/LaunchProteinView/components/AlphaFoldDBSearch.js +71 -0
  28. package/dist/LaunchProteinView/components/AlphaFoldDBSearch.js.map +1 -0
  29. package/dist/LaunchProteinView/components/AlphaFoldDBSearchStatus.d.ts +8 -0
  30. package/dist/LaunchProteinView/components/AlphaFoldDBSearchStatus.js +19 -0
  31. package/dist/LaunchProteinView/components/AlphaFoldDBSearchStatus.js.map +1 -0
  32. package/dist/LaunchProteinView/components/HelpButton.d.ts +2 -0
  33. package/dist/LaunchProteinView/components/HelpButton.js +15 -0
  34. package/dist/LaunchProteinView/components/HelpButton.js.map +1 -0
  35. package/dist/LaunchProteinView/components/HelpDialog.d.ts +4 -0
  36. package/dist/LaunchProteinView/components/HelpDialog.js +16 -0
  37. package/dist/LaunchProteinView/components/HelpDialog.js.map +1 -0
  38. package/dist/LaunchProteinView/components/LaunchProteinViewDialog.d.ts +7 -0
  39. package/dist/LaunchProteinView/components/LaunchProteinViewDialog.js +23 -0
  40. package/dist/LaunchProteinView/components/LaunchProteinViewDialog.js.map +1 -0
  41. package/dist/LaunchProteinView/components/PreLoadedStructureMapping.d.ts +8 -0
  42. package/dist/LaunchProteinView/components/PreLoadedStructureMapping.js +72 -0
  43. package/dist/LaunchProteinView/components/PreLoadedStructureMapping.js.map +1 -0
  44. package/dist/LaunchProteinView/components/TabPanel.d.ts +6 -0
  45. package/dist/LaunchProteinView/components/TabPanel.js +6 -0
  46. package/dist/LaunchProteinView/components/TabPanel.js.map +1 -0
  47. package/dist/LaunchProteinView/components/TranscriptSelector.d.ts +9 -0
  48. package/dist/LaunchProteinView/components/TranscriptSelector.js +28 -0
  49. package/dist/LaunchProteinView/components/TranscriptSelector.js.map +1 -0
  50. package/dist/LaunchProteinView/components/UserProvidedStructure.d.ts +8 -0
  51. package/dist/LaunchProteinView/components/UserProvidedStructure.js +118 -0
  52. package/dist/LaunchProteinView/components/UserProvidedStructure.js.map +1 -0
  53. package/dist/LaunchProteinView/components/useCheckAlphaFoldDBExistence.d.ts +7 -0
  54. package/dist/LaunchProteinView/components/useCheckAlphaFoldDBExistence.js +26 -0
  55. package/dist/LaunchProteinView/components/useCheckAlphaFoldDBExistence.js.map +1 -0
  56. package/dist/LaunchProteinView/index.d.ts +2 -0
  57. package/dist/LaunchProteinView/index.js +45 -0
  58. package/dist/LaunchProteinView/index.js.map +1 -0
  59. package/dist/LaunchProteinView/useMyGeneInfo.d.ts +7 -0
  60. package/dist/LaunchProteinView/useMyGeneInfo.js +29 -0
  61. package/dist/LaunchProteinView/useMyGeneInfo.js.map +1 -0
  62. package/dist/LaunchProteinView/useProteinSequences.d.ts +10 -0
  63. package/dist/LaunchProteinView/useProteinSequences.js +30 -0
  64. package/dist/LaunchProteinView/useProteinSequences.js.map +1 -0
  65. package/dist/LaunchProteinView/util.d.ts +18 -0
  66. package/dist/LaunchProteinView/util.js +54 -0
  67. package/dist/LaunchProteinView/util.js.map +1 -0
  68. package/dist/ProteinModelSessionExtension.d.ts +11 -0
  69. package/dist/ProteinModelSessionExtension.js +53 -0
  70. package/dist/ProteinModelSessionExtension.js.map +1 -0
  71. package/dist/ProteinView/clearSelection.d.ts +4 -0
  72. package/dist/ProteinView/clearSelection.js +4 -0
  73. package/dist/ProteinView/clearSelection.js.map +1 -0
  74. package/dist/ProteinView/components/Header.d.ts +6 -0
  75. package/dist/ProteinView/components/Header.js +49 -0
  76. package/dist/ProteinView/components/Header.js.map +1 -0
  77. package/dist/ProteinView/components/ProteinAlignment.d.ts +6 -0
  78. package/dist/ProteinView/components/ProteinAlignment.js +62 -0
  79. package/dist/ProteinView/components/ProteinAlignment.js.map +1 -0
  80. package/dist/ProteinView/components/ProteinAlignmentHelpButton.d.ts +5 -0
  81. package/dist/ProteinView/components/ProteinAlignmentHelpButton.js +14 -0
  82. package/dist/ProteinView/components/ProteinAlignmentHelpButton.js.map +1 -0
  83. package/dist/ProteinView/components/ProteinAlignmentHelpDialog.d.ts +4 -0
  84. package/dist/ProteinView/components/ProteinAlignmentHelpDialog.js +20 -0
  85. package/dist/ProteinView/components/ProteinAlignmentHelpDialog.js.map +1 -0
  86. package/dist/ProteinView/components/ProteinView.d.ts +6 -0
  87. package/dist/ProteinView/components/ProteinView.js +79 -0
  88. package/dist/ProteinView/components/ProteinView.js.map +1 -0
  89. package/dist/ProteinView/components/SplitString.d.ts +9 -0
  90. package/dist/ProteinView/components/SplitString.js +11 -0
  91. package/dist/ProteinView/components/SplitString.js.map +1 -0
  92. package/dist/ProteinView/css/molstar.d.ts +2 -0
  93. package/dist/ProteinView/css/molstar.js +3137 -0
  94. package/dist/ProteinView/css/molstar.js.map +1 -0
  95. package/dist/ProteinView/genomeToProtein.d.ts +4 -0
  96. package/dist/ProteinView/genomeToProtein.js +13 -0
  97. package/dist/ProteinView/genomeToProtein.js.map +1 -0
  98. package/dist/ProteinView/highlightResidue.d.ts +7 -0
  99. package/dist/ProteinView/highlightResidue.js +14 -0
  100. package/dist/ProteinView/highlightResidue.js.map +1 -0
  101. package/dist/ProteinView/index.d.ts +2 -0
  102. package/dist/ProteinView/index.js +15 -0
  103. package/dist/ProteinView/index.js.map +1 -0
  104. package/dist/ProteinView/launchRemotePairwiseAlignment.d.ts +14 -0
  105. package/dist/ProteinView/launchRemotePairwiseAlignment.js +72 -0
  106. package/dist/ProteinView/launchRemotePairwiseAlignment.js.map +1 -0
  107. package/dist/ProteinView/loadStructureFromData.d.ts +17 -0
  108. package/dist/ProteinView/loadStructureFromData.js +20 -0
  109. package/dist/ProteinView/loadStructureFromData.js.map +1 -0
  110. package/dist/ProteinView/loadStructureFromURL.d.ts +17 -0
  111. package/dist/ProteinView/loadStructureFromURL.js +17 -0
  112. package/dist/ProteinView/loadStructureFromURL.js.map +1 -0
  113. package/dist/ProteinView/model.d.ts +226 -0
  114. package/dist/ProteinView/model.js +324 -0
  115. package/dist/ProteinView/model.js.map +1 -0
  116. package/dist/ProteinView/proteinAbbreviationMapping.d.ts +7 -0
  117. package/dist/ProteinView/proteinAbbreviationMapping.js +23 -0
  118. package/dist/ProteinView/proteinAbbreviationMapping.js.map +1 -0
  119. package/dist/ProteinView/proteinToGenomeMapping.d.ts +13 -0
  120. package/dist/ProteinView/proteinToGenomeMapping.js +69 -0
  121. package/dist/ProteinView/proteinToGenomeMapping.js.map +1 -0
  122. package/dist/ProteinView/selectResidue.d.ts +7 -0
  123. package/dist/ProteinView/selectResidue.js +10 -0
  124. package/dist/ProteinView/selectResidue.js.map +1 -0
  125. package/dist/ProteinView/useProteinView.d.ts +11 -0
  126. package/dist/ProteinView/useProteinView.js +57 -0
  127. package/dist/ProteinView/useProteinView.js.map +1 -0
  128. package/dist/ProteinView/useProteinViewClickBehavior.d.ts +8 -0
  129. package/dist/ProteinView/useProteinViewClickBehavior.js +34 -0
  130. package/dist/ProteinView/useProteinViewClickBehavior.js.map +1 -0
  131. package/dist/ProteinView/useProteinViewHoverBehavior.d.ts +6 -0
  132. package/dist/ProteinView/useProteinViewHoverBehavior.js +31 -0
  133. package/dist/ProteinView/useProteinViewHoverBehavior.js.map +1 -0
  134. package/dist/ProteinView/util.d.ts +19 -0
  135. package/dist/ProteinView/util.js +32 -0
  136. package/dist/ProteinView/util.js.map +1 -0
  137. package/dist/fetchUtils.d.ts +5 -0
  138. package/dist/fetchUtils.js +23 -0
  139. package/dist/fetchUtils.js.map +1 -0
  140. package/dist/genomeToTranscriptMapping.d.ts +7 -0
  141. package/dist/genomeToTranscriptMapping.js +36 -0
  142. package/dist/genomeToTranscriptMapping.js.map +1 -0
  143. package/dist/index.d.ts +8 -0
  144. package/dist/index.js +26 -0
  145. package/dist/index.js.map +1 -0
  146. package/dist/jbrowse-plugin-protein3d.umd.production.min.js +9298 -0
  147. package/dist/jbrowse-plugin-protein3d.umd.production.min.js.map +7 -0
  148. package/dist/mappings.d.ts +19 -0
  149. package/dist/mappings.js +67 -0
  150. package/dist/mappings.js.map +1 -0
  151. package/dist/mappings.test.d.ts +1 -0
  152. package/dist/mappings.test.js +27 -0
  153. package/dist/mappings.test.js.map +1 -0
  154. package/dist/test_data/gene.d.ts +67 -0
  155. package/dist/test_data/gene.js +603 -0
  156. package/dist/test_data/gene.js.map +1 -0
  157. package/package.json +70 -0
  158. package/src/AddHighlightModel/GenomeMouseoverHighlight.tsx +45 -0
  159. package/src/AddHighlightModel/Highlight.tsx +46 -0
  160. package/src/AddHighlightModel/HighlightComponents.tsx +26 -0
  161. package/src/AddHighlightModel/ProteinToGenomeClickHighlight.tsx +39 -0
  162. package/src/AddHighlightModel/ProteinToGenomeHoverHighlight.tsx +39 -0
  163. package/src/AddHighlightModel/index.tsx +25 -0
  164. package/src/AddHighlightModel/util.ts +17 -0
  165. package/src/LaunchProteinView/calculateProteinSequence.ts +127 -0
  166. package/src/LaunchProteinView/components/AlphaFoldDBSearch.tsx +141 -0
  167. package/src/LaunchProteinView/components/AlphaFoldDBSearchStatus.tsx +44 -0
  168. package/src/LaunchProteinView/components/HelpButton.tsx +23 -0
  169. package/src/LaunchProteinView/components/HelpDialog.tsx +43 -0
  170. package/src/LaunchProteinView/components/LaunchProteinViewDialog.tsx +57 -0
  171. package/src/LaunchProteinView/components/PreLoadedStructureMapping.tsx +153 -0
  172. package/src/LaunchProteinView/components/TabPanel.tsx +19 -0
  173. package/src/LaunchProteinView/components/TranscriptSelector.tsx +54 -0
  174. package/src/LaunchProteinView/components/UserProvidedStructure.tsx +226 -0
  175. package/src/LaunchProteinView/components/useCheckAlphaFoldDBExistence.ts +31 -0
  176. package/src/LaunchProteinView/index.ts +56 -0
  177. package/src/LaunchProteinView/useMyGeneInfo.ts +37 -0
  178. package/src/LaunchProteinView/useProteinSequences.ts +36 -0
  179. package/src/LaunchProteinView/util.ts +74 -0
  180. package/src/ProteinModelSessionExtension.ts +71 -0
  181. package/src/ProteinView/clearSelection.ts +5 -0
  182. package/src/ProteinView/components/Header.tsx +84 -0
  183. package/src/ProteinView/components/ProteinAlignment.tsx +119 -0
  184. package/src/ProteinView/components/ProteinAlignmentHelpButton.tsx +33 -0
  185. package/src/ProteinView/components/ProteinAlignmentHelpDialog.tsx +59 -0
  186. package/src/ProteinView/components/ProteinView.tsx +131 -0
  187. package/src/ProteinView/components/SplitString.tsx +35 -0
  188. package/src/ProteinView/css/molstar.ts +3136 -0
  189. package/src/ProteinView/genomeToProtein.ts +21 -0
  190. package/src/ProteinView/highlightResidue.ts +23 -0
  191. package/src/ProteinView/index.ts +18 -0
  192. package/src/ProteinView/launchRemotePairwiseAlignment.ts +113 -0
  193. package/src/ProteinView/loadStructureFromData.ts +48 -0
  194. package/src/ProteinView/loadStructureFromURL.ts +50 -0
  195. package/src/ProteinView/model.ts +384 -0
  196. package/src/ProteinView/proteinAbbreviationMapping.ts +24 -0
  197. package/src/ProteinView/proteinToGenomeMapping.ts +99 -0
  198. package/src/ProteinView/selectResidue.ts +19 -0
  199. package/src/ProteinView/useProteinView.ts +70 -0
  200. package/src/ProteinView/useProteinViewClickBehavior.ts +48 -0
  201. package/src/ProteinView/useProteinViewHoverBehavior.ts +44 -0
  202. package/src/ProteinView/util.ts +56 -0
  203. package/src/__snapshots__/mappings.test.ts.snap +1351 -0
  204. package/src/declare.d.ts +1 -0
  205. package/src/fetchUtils.ts +30 -0
  206. package/src/genomeToTranscriptMapping.ts +46 -0
  207. package/src/index.ts +32 -0
  208. package/src/mappings.test.ts +32 -0
  209. package/src/mappings.ts +89 -0
  210. package/src/test_data/gene.ts +604 -0

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