jbrowse-plugin-msaview 2.8.1 → 2.9.0

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 (91) hide show
  1. package/dist/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastRIDPanel.d.ts → BlastQuery/BlastAutomaticPanel.d.ts} +2 -3
  2. package/dist/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastAutomaticPanel.js → BlastQuery/BlastAutomaticPanel.js} +6 -25
  3. package/dist/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastManualPanel.d.ts → BlastQuery/BlastManualPanel.d.ts} +2 -3
  4. package/dist/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastManualPanel.js → BlastQuery/BlastManualPanel.js} +7 -4
  5. package/dist/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastMethodSelector.d.ts → BlastQuery/BlastMethodSelector.d.ts} +2 -2
  6. package/dist/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastMethodSelector.js → BlastQuery/BlastMethodSelector.js} +1 -2
  7. package/dist/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastPanel.d.ts → BlastQuery/BlastPanel.d.ts} +3 -12
  8. package/dist/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastPanel.js → BlastQuery/BlastPanel.js} +14 -16
  9. package/dist/LaunchMsaView/components/BlastQuery/BlastSettingsDialog.d.ts +8 -0
  10. package/dist/LaunchMsaView/components/{NCBIBlastQuery/NCBISettingsDialog.js → BlastQuery/BlastSettingsDialog.js} +13 -9
  11. package/dist/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/CachedBlastResults.js +1 -1
  12. package/dist/LaunchMsaView/components/BlastQuery/consts.d.ts +12 -0
  13. package/dist/LaunchMsaView/components/BlastQuery/consts.js +17 -0
  14. package/dist/LaunchMsaView/components/LaunchMsaViewDialog.js +3 -3
  15. package/dist/LaunchMsaView/components/OrthologQuery/OrthologPanel.js +1 -1
  16. package/dist/LaunchMsaViewExtensionPoint/index.js +11 -4
  17. package/dist/MsaViewPanel/components/JobLink.d.ts +5 -0
  18. package/dist/MsaViewPanel/components/JobLink.js +13 -0
  19. package/dist/MsaViewPanel/components/LoadingBLAST.d.ts +1 -2
  20. package/dist/MsaViewPanel/components/LoadingBLAST.js +8 -15
  21. package/dist/MsaViewPanel/components/MsaViewPanel.js +1 -1
  22. package/dist/MsaViewPanel/doLaunchBlast.js +11 -19
  23. package/dist/MsaViewPanel/doLaunchOrthologs.js +44 -21
  24. package/dist/MsaViewPanel/doLaunchOrthologs.test.d.ts +1 -0
  25. package/dist/MsaViewPanel/doLaunchOrthologs.test.js +127 -0
  26. package/dist/MsaViewPanel/model.d.ts +15 -7
  27. package/dist/jbrowse-plugin-msaview.umd.production.min.js +32 -32
  28. package/dist/jbrowse-plugin-msaview.umd.production.min.js.map +4 -4
  29. package/dist/utils/blastCache.d.ts +8 -4
  30. package/dist/utils/blastCache.js +4 -5
  31. package/dist/utils/ebiBlast.d.ts +52 -0
  32. package/dist/utils/ebiBlast.js +63 -0
  33. package/dist/utils/ebiJobDispatcher.d.ts +33 -0
  34. package/dist/utils/ebiJobDispatcher.js +55 -0
  35. package/dist/utils/fetch.js +24 -1
  36. package/dist/utils/msa.d.ts +1 -1
  37. package/dist/utils/msa.js +25 -32
  38. package/dist/utils/types.d.ts +9 -14
  39. package/dist/utils/useLocalStorage.d.ts +1 -0
  40. package/dist/utils/useLocalStorage.js +1 -1
  41. package/dist/version.d.ts +1 -1
  42. package/dist/version.js +1 -1
  43. package/package.json +1 -1
  44. package/src/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastAutomaticPanel.tsx → BlastQuery/BlastAutomaticPanel.tsx} +13 -59
  45. package/src/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastManualPanel.tsx → BlastQuery/BlastManualPanel.tsx} +7 -6
  46. package/src/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastMethodSelector.tsx → BlastQuery/BlastMethodSelector.tsx} +2 -7
  47. package/src/LaunchMsaView/components/{NCBIBlastQuery/NCBIBlastPanel.tsx → BlastQuery/BlastPanel.tsx} +21 -25
  48. package/src/LaunchMsaView/components/{NCBIBlastQuery/NCBISettingsDialog.tsx → BlastQuery/BlastSettingsDialog.tsx} +26 -13
  49. package/src/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/CachedBlastResults.tsx +1 -1
  50. package/src/LaunchMsaView/components/BlastQuery/consts.ts +22 -0
  51. package/src/LaunchMsaView/components/LaunchMsaViewDialog.tsx +5 -7
  52. package/src/LaunchMsaView/components/OrthologQuery/OrthologPanel.tsx +2 -2
  53. package/src/LaunchMsaViewExtensionPoint/index.ts +31 -4
  54. package/src/MsaViewPanel/components/JobLink.tsx +17 -0
  55. package/src/MsaViewPanel/components/LoadingBLAST.tsx +10 -41
  56. package/src/MsaViewPanel/components/MsaViewPanel.tsx +1 -1
  57. package/src/MsaViewPanel/doLaunchBlast.ts +12 -28
  58. package/src/MsaViewPanel/doLaunchOrthologs.test.ts +159 -0
  59. package/src/MsaViewPanel/doLaunchOrthologs.ts +49 -20
  60. package/src/MsaViewPanel/model.ts +15 -8
  61. package/src/utils/blastCache.ts +8 -9
  62. package/src/utils/ebiBlast.ts +114 -0
  63. package/src/utils/ebiJobDispatcher.ts +91 -0
  64. package/src/utils/fetch.ts +26 -1
  65. package/src/utils/msa.ts +26 -47
  66. package/src/utils/types.ts +8 -13
  67. package/src/utils/useLocalStorage.ts +1 -1
  68. package/src/version.ts +1 -1
  69. package/dist/LaunchMsaView/components/NCBIBlastQuery/NCBIBlastAutomaticPanel.d.ts +0 -10
  70. package/dist/LaunchMsaView/components/NCBIBlastQuery/NCBIBlastRIDPanel.js +0 -74
  71. package/dist/LaunchMsaView/components/NCBIBlastQuery/NCBISettingsDialog.d.ts +0 -5
  72. package/dist/LaunchMsaView/components/NCBIBlastQuery/consts.d.ts +0 -7
  73. package/dist/LaunchMsaView/components/NCBIBlastQuery/consts.js +0 -4
  74. package/dist/MsaViewPanel/components/RIDLink.d.ts +0 -6
  75. package/dist/MsaViewPanel/components/RIDLink.js +0 -12
  76. package/dist/utils/ncbiBlast.d.ts +0 -30
  77. package/dist/utils/ncbiBlast.js +0 -84
  78. package/src/LaunchMsaView/components/NCBIBlastQuery/NCBIBlastRIDPanel.tsx +0 -137
  79. package/src/LaunchMsaView/components/NCBIBlastQuery/consts.ts +0 -10
  80. package/src/MsaViewPanel/components/RIDLink.tsx +0 -19
  81. package/src/utils/ncbiBlast.ts +0 -143
  82. /package/dist/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/CachedBlastResults.d.ts +0 -0
  83. /package/dist/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/MsaAlgorithmSelect.d.ts +0 -0
  84. /package/dist/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/MsaAlgorithmSelect.js +0 -0
  85. /package/dist/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/blastLaunchView.d.ts +0 -0
  86. /package/dist/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/blastLaunchView.js +0 -0
  87. /package/dist/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/useCachedBlastResults.d.ts +0 -0
  88. /package/dist/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/useCachedBlastResults.js +0 -0
  89. /package/src/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/MsaAlgorithmSelect.tsx +0 -0
  90. /package/src/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/blastLaunchView.ts +0 -0
  91. /package/src/LaunchMsaView/components/{NCBIBlastQuery → BlastQuery}/useCachedBlastResults.ts +0 -0

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