jbrowse-plugin-msaview 1.0.18 → 2.0.0

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 (147) hide show
  1. package/CHANGELOG.md +6 -4
  2. package/README.md +6 -4
  3. package/dist/AddHighlightModel/GenomeMouseoverHighlight.d.ts +6 -0
  4. package/dist/AddHighlightModel/GenomeMouseoverHighlight.js +30 -0
  5. package/dist/AddHighlightModel/GenomeMouseoverHighlight.js.map +1 -0
  6. package/dist/AddHighlightModel/HighlightComponents.d.ts +7 -0
  7. package/dist/AddHighlightModel/HighlightComponents.js +12 -0
  8. package/dist/AddHighlightModel/HighlightComponents.js.map +1 -0
  9. package/dist/AddHighlightModel/MsaToGenomeHighlight.d.ts +7 -0
  10. package/dist/AddHighlightModel/MsaToGenomeHighlight.js +26 -0
  11. package/dist/AddHighlightModel/MsaToGenomeHighlight.js.map +1 -0
  12. package/dist/AddHighlightModel/index.d.ts +2 -0
  13. package/dist/AddHighlightModel/index.js +14 -0
  14. package/dist/AddHighlightModel/index.js.map +1 -0
  15. package/dist/AddHighlightModel/util.d.ts +9 -0
  16. package/dist/AddHighlightModel/util.js +14 -0
  17. package/dist/AddHighlightModel/util.js.map +1 -0
  18. package/dist/LaunchMsaView/components/LaunchMsaViewDialog.d.ts +7 -0
  19. package/dist/LaunchMsaView/components/LaunchMsaViewDialog.js +20 -0
  20. package/dist/LaunchMsaView/components/LaunchMsaViewDialog.js.map +1 -0
  21. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/NcbiBlastPanel.d.ts +8 -0
  22. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/NcbiBlastPanel.js +76 -0
  23. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/NcbiBlastPanel.js.map +1 -0
  24. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/calculateProteinSequence.d.ts +26 -0
  25. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/calculateProteinSequence.js +48 -0
  26. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/calculateProteinSequence.js.map +1 -0
  27. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/index.d.ts +2 -0
  28. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/index.js +3 -0
  29. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/index.js.map +1 -0
  30. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/ncbiBlastLaunchView.d.ts +8 -0
  31. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/ncbiBlastLaunchView.js +17 -0
  32. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/ncbiBlastLaunchView.js.map +1 -0
  33. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/useFeatureSequence.d.ts +20 -0
  34. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/useFeatureSequence.js +64 -0
  35. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/useFeatureSequence.js.map +1 -0
  36. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/util.d.ts +5 -0
  37. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/util.js +7 -0
  38. package/dist/LaunchMsaView/components/NewNCBIBlastQuery/util.js.map +1 -0
  39. package/dist/LaunchMsaView/components/PreLoadedMSA/PreLoadedMSADataPanel.d.ts +8 -0
  40. package/dist/LaunchMsaView/components/PreLoadedMSA/PreLoadedMSADataPanel.js +90 -0
  41. package/dist/LaunchMsaView/components/PreLoadedMSA/PreLoadedMSADataPanel.js.map +1 -0
  42. package/dist/LaunchMsaView/components/PreLoadedMSA/fetchGeneList.d.ts +1 -0
  43. package/dist/LaunchMsaView/components/PreLoadedMSA/fetchGeneList.js +12 -0
  44. package/dist/LaunchMsaView/components/PreLoadedMSA/fetchGeneList.js.map +1 -0
  45. package/dist/LaunchMsaView/components/PreLoadedMSA/preCalculatedLaunchView.d.ts +9 -0
  46. package/dist/LaunchMsaView/components/PreLoadedMSA/preCalculatedLaunchView.js +36 -0
  47. package/dist/LaunchMsaView/components/PreLoadedMSA/preCalculatedLaunchView.js.map +1 -0
  48. package/dist/LaunchMsaView/components/TabUtils.d.ts +12 -0
  49. package/dist/LaunchMsaView/components/TabUtils.js +13 -0
  50. package/dist/LaunchMsaView/components/TabUtils.js.map +1 -0
  51. package/dist/LaunchMsaView/index.d.ts +2 -0
  52. package/dist/LaunchMsaView/index.js +50 -0
  53. package/dist/LaunchMsaView/index.js.map +1 -0
  54. package/dist/LaunchMsaView/util.d.ts +5 -0
  55. package/dist/LaunchMsaView/util.js +25 -0
  56. package/dist/LaunchMsaView/util.js.map +1 -0
  57. package/dist/MsaViewPanel/components/LoadingBLAST.d.ts +6 -0
  58. package/dist/MsaViewPanel/components/LoadingBLAST.js +36 -0
  59. package/dist/MsaViewPanel/components/LoadingBLAST.js.map +1 -0
  60. package/dist/MsaViewPanel/components/MsaViewPanel.d.ts +6 -0
  61. package/dist/MsaViewPanel/components/MsaViewPanel.js +10 -0
  62. package/dist/MsaViewPanel/components/MsaViewPanel.js.map +1 -0
  63. package/dist/MsaViewPanel/components/RIDLink.d.ts +5 -0
  64. package/dist/MsaViewPanel/components/RIDLink.js +17 -0
  65. package/dist/MsaViewPanel/components/RIDLink.js.map +1 -0
  66. package/dist/MsaViewPanel/doLaunchBlast.d.ts +7 -0
  67. package/dist/MsaViewPanel/doLaunchBlast.js +27 -0
  68. package/dist/MsaViewPanel/doLaunchBlast.js.map +1 -0
  69. package/dist/MsaViewPanel/genomeToMSA.d.ts +4 -0
  70. package/dist/MsaViewPanel/genomeToMSA.js +18 -0
  71. package/dist/MsaViewPanel/genomeToMSA.js.map +1 -0
  72. package/dist/MsaViewPanel/index.d.ts +2 -0
  73. package/dist/MsaViewPanel/index.js +16 -0
  74. package/dist/MsaViewPanel/index.js.map +1 -0
  75. package/dist/MsaViewPanel/model.d.ts +596 -0
  76. package/dist/MsaViewPanel/model.js +235 -0
  77. package/dist/MsaViewPanel/model.js.map +1 -0
  78. package/dist/MsaViewPanel/msaCoordToGenomeCoord.d.ts +9 -0
  79. package/dist/MsaViewPanel/msaCoordToGenomeCoord.js +20 -0
  80. package/dist/MsaViewPanel/msaCoordToGenomeCoord.js.map +1 -0
  81. package/dist/MsaViewPanel/util.d.ts +8 -0
  82. package/dist/MsaViewPanel/util.js +7 -0
  83. package/dist/MsaViewPanel/util.js.map +1 -0
  84. package/dist/OpenInNewIcon.d.ts +3 -0
  85. package/dist/OpenInNewIcon.js +8 -0
  86. package/dist/OpenInNewIcon.js.map +1 -0
  87. package/dist/TextField2.d.ts +4 -0
  88. package/dist/TextField2.js +8 -0
  89. package/dist/TextField2.js.map +1 -0
  90. package/dist/index.d.ts +8 -8
  91. package/dist/index.js +32 -7
  92. package/dist/index.js.map +1 -0
  93. package/dist/jbrowse-plugin-msaview.umd.production.min.js +109 -1
  94. package/dist/jbrowse-plugin-msaview.umd.production.min.js.map +7 -1
  95. package/dist/utils/fetch.d.ts +4 -0
  96. package/dist/utils/fetch.js +19 -0
  97. package/dist/utils/fetch.js.map +1 -0
  98. package/dist/utils/msa.d.ts +8 -0
  99. package/dist/utils/msa.js +75 -0
  100. package/dist/utils/msa.js.map +1 -0
  101. package/dist/utils/ncbiBlast.d.ts +20 -0
  102. package/dist/utils/ncbiBlast.js +66 -0
  103. package/dist/utils/ncbiBlast.js.map +1 -0
  104. package/package.json +51 -40
  105. package/src/AddHighlightModel/GenomeMouseoverHighlight.tsx +44 -0
  106. package/src/AddHighlightModel/HighlightComponents.tsx +24 -0
  107. package/src/AddHighlightModel/MsaToGenomeHighlight.tsx +50 -0
  108. package/src/AddHighlightModel/index.tsx +27 -0
  109. package/src/AddHighlightModel/util.ts +14 -0
  110. package/src/LaunchMsaView/components/LaunchMsaViewDialog.tsx +52 -0
  111. package/src/LaunchMsaView/components/NewNCBIBlastQuery/NcbiBlastPanel.tsx +160 -0
  112. package/src/LaunchMsaView/components/NewNCBIBlastQuery/calculateProteinSequence.ts +92 -0
  113. package/src/LaunchMsaView/components/NewNCBIBlastQuery/index.tsx +2 -0
  114. package/src/LaunchMsaView/components/NewNCBIBlastQuery/ncbiBlastLaunchView.ts +28 -0
  115. package/src/LaunchMsaView/components/NewNCBIBlastQuery/useFeatureSequence.ts +85 -0
  116. package/src/LaunchMsaView/components/NewNCBIBlastQuery/util.ts +7 -0
  117. package/src/LaunchMsaView/components/PreLoadedMSA/PreLoadedMSADataPanel.tsx +149 -0
  118. package/src/LaunchMsaView/components/PreLoadedMSA/fetchGeneList.ts +13 -0
  119. package/src/LaunchMsaView/components/PreLoadedMSA/preCalculatedLaunchView.ts +54 -0
  120. package/src/LaunchMsaView/components/TabUtils.tsx +30 -0
  121. package/src/LaunchMsaView/index.ts +61 -0
  122. package/src/LaunchMsaView/util.ts +30 -0
  123. package/src/MsaViewPanel/components/LoadingBLAST.tsx +59 -0
  124. package/src/MsaViewPanel/components/MsaViewPanel.tsx +22 -0
  125. package/src/MsaViewPanel/components/RIDLink.tsx +18 -0
  126. package/src/MsaViewPanel/doLaunchBlast.ts +38 -0
  127. package/src/MsaViewPanel/genomeToMSA.ts +21 -0
  128. package/src/MsaViewPanel/index.ts +19 -0
  129. package/src/MsaViewPanel/model.ts +290 -0
  130. package/src/MsaViewPanel/msaCoordToGenomeCoord.ts +29 -0
  131. package/src/MsaViewPanel/util.ts +13 -0
  132. package/src/OpenInNewIcon.tsx +11 -0
  133. package/src/TextField2.tsx +12 -0
  134. package/src/index.ts +12 -14
  135. package/src/utils/fetch.ts +25 -0
  136. package/src/utils/msa.ts +111 -0
  137. package/src/utils/ncbiBlast.ts +105 -0
  138. package/dist/config.json +0 -8
  139. package/dist/jbrowse-plugin-msaview.cjs.development.js +0 -168
  140. package/dist/jbrowse-plugin-msaview.cjs.development.js.map +0 -1
  141. package/dist/jbrowse-plugin-msaview.cjs.production.min.js +0 -2
  142. package/dist/jbrowse-plugin-msaview.cjs.production.min.js.map +0 -1
  143. package/dist/jbrowse-plugin-msaview.esm.js +0 -163
  144. package/dist/jbrowse-plugin-msaview.esm.js.map +0 -1
  145. package/dist/jbrowse-plugin-msaview.umd.development.js +0 -8659
  146. package/dist/jbrowse-plugin-msaview.umd.development.js.map +0 -1
  147. package/src/index.test.ts +0 -3

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