jbrowse-plugin-mafviewer 1.2.3 → 1.3.0

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Files changed (147) hide show
  1. package/dist/BgzipTaffyAdapter/BgzipTaffyAdapter.d.ts +1 -1
  2. package/dist/BigMafAdapter/BigMafAdapter.d.ts +1 -1
  3. package/dist/BigMafAdapter/BigMafAdapter.js +50 -49
  4. package/dist/BigMafAdapter/BigMafAdapter.js.map +1 -1
  5. package/dist/LinearMafDisplay/components/Crosshairs.d.ts +10 -0
  6. package/dist/LinearMafDisplay/components/Crosshairs.js +18 -0
  7. package/dist/LinearMafDisplay/components/Crosshairs.js.map +1 -0
  8. package/dist/LinearMafDisplay/components/GetSequenceDialog/GetSequenceDialog.d.ts +11 -0
  9. package/dist/LinearMafDisplay/components/GetSequenceDialog/GetSequenceDialog.js +97 -0
  10. package/dist/LinearMafDisplay/components/GetSequenceDialog/GetSequenceDialog.js.map +1 -0
  11. package/dist/LinearMafDisplay/components/{ReactComponent.d.ts → LinearMafDisplayComponent.d.ts} +1 -1
  12. package/dist/LinearMafDisplay/components/LinearMafDisplayComponent.js +168 -0
  13. package/dist/LinearMafDisplay/components/LinearMafDisplayComponent.js.map +1 -0
  14. package/dist/LinearMafDisplay/components/MAFTooltip.d.ts +12 -0
  15. package/dist/LinearMafDisplay/components/MAFTooltip.js +29 -0
  16. package/dist/LinearMafDisplay/components/MAFTooltip.js.map +1 -0
  17. package/dist/LinearMafDisplay/components/SetRowHeightDialog/SetRowHeightDialog.js +38 -0
  18. package/dist/LinearMafDisplay/components/SetRowHeightDialog/SetRowHeightDialog.js.map +1 -0
  19. package/dist/LinearMafDisplay/components/Sidebar/ColorLegend.d.ts +6 -0
  20. package/dist/LinearMafDisplay/components/{ColorLegend.js → Sidebar/ColorLegend.js} +2 -3
  21. package/dist/LinearMafDisplay/components/Sidebar/ColorLegend.js.map +1 -0
  22. package/dist/LinearMafDisplay/components/Sidebar/RectBg.js.map +1 -0
  23. package/dist/LinearMafDisplay/components/{SvgWrapper.d.ts → Sidebar/SvgWrapper.d.ts} +1 -1
  24. package/dist/LinearMafDisplay/components/{SvgWrapper.js → Sidebar/SvgWrapper.js} +3 -1
  25. package/dist/LinearMafDisplay/components/Sidebar/SvgWrapper.js.map +1 -0
  26. package/dist/LinearMafDisplay/components/{Tree.d.ts → Sidebar/Tree.d.ts} +2 -1
  27. package/dist/LinearMafDisplay/components/{Tree.js → Sidebar/Tree.js} +2 -0
  28. package/dist/LinearMafDisplay/components/Sidebar/Tree.js.map +1 -0
  29. package/dist/LinearMafDisplay/components/{YScaleBars.d.ts → Sidebar/YScaleBars.d.ts} +1 -1
  30. package/dist/LinearMafDisplay/components/Sidebar/YScaleBars.js +11 -0
  31. package/dist/LinearMafDisplay/components/Sidebar/YScaleBars.js.map +1 -0
  32. package/dist/LinearMafDisplay/index.js +1 -1
  33. package/dist/LinearMafDisplay/index.js.map +1 -1
  34. package/dist/LinearMafDisplay/renderSvg.js +1 -1
  35. package/dist/LinearMafDisplay/renderSvg.js.map +1 -1
  36. package/dist/LinearMafDisplay/stateModel.d.ts +23 -20
  37. package/dist/LinearMafDisplay/stateModel.js +62 -8
  38. package/dist/LinearMafDisplay/stateModel.js.map +1 -1
  39. package/dist/LinearMafDisplay/types.d.ts +5 -3
  40. package/dist/LinearMafDisplay/types.js +1 -15
  41. package/dist/LinearMafDisplay/types.js.map +1 -1
  42. package/dist/LinearMafDisplay/util.d.ts +4 -0
  43. package/dist/LinearMafDisplay/util.js +16 -0
  44. package/dist/LinearMafDisplay/util.js.map +1 -0
  45. package/dist/LinearMafRenderer/LinearMafRenderer.d.ts +5 -4
  46. package/dist/LinearMafRenderer/LinearMafRenderer.js +8 -10
  47. package/dist/LinearMafRenderer/LinearMafRenderer.js.map +1 -1
  48. package/dist/LinearMafRenderer/makeImageData.d.ts +1 -0
  49. package/dist/LinearMafRenderer/makeImageData.js +25 -20
  50. package/dist/LinearMafRenderer/makeImageData.js.map +1 -1
  51. package/dist/MafAddTrackWorkflow/index.js +0 -1
  52. package/dist/MafAddTrackWorkflow/index.js.map +1 -1
  53. package/dist/{MafRPC/index.d.ts → MafGetSamples/MafGetSamples.d.ts} +1 -3
  54. package/dist/{MafRPC/index.js → MafGetSamples/MafGetSamples.js} +2 -7
  55. package/dist/MafGetSamples/MafGetSamples.js.map +1 -0
  56. package/dist/MafGetSamples/index.d.ts +2 -0
  57. package/dist/MafGetSamples/index.js +7 -0
  58. package/dist/MafGetSamples/index.js.map +1 -0
  59. package/dist/MafGetSequences/MafGetSequences.d.ts +16 -0
  60. package/dist/MafGetSequences/MafGetSequences.js +20 -0
  61. package/dist/MafGetSequences/MafGetSequences.js.map +1 -0
  62. package/dist/MafGetSequences/index.d.ts +2 -0
  63. package/dist/MafGetSequences/index.js +7 -0
  64. package/dist/MafGetSequences/index.js.map +1 -0
  65. package/dist/MafTabixAdapter/MafTabixAdapter.d.ts +1 -1
  66. package/dist/MafTabixAdapter/MafTabixAdapter.js +9 -11
  67. package/dist/MafTabixAdapter/MafTabixAdapter.js.map +1 -1
  68. package/dist/MafTabixAdapter/configSchema.js +29 -1
  69. package/dist/MafTabixAdapter/configSchema.js.map +1 -1
  70. package/dist/index.js +4 -2
  71. package/dist/index.js.map +1 -1
  72. package/dist/jbrowse-plugin-mafviewer.umd.production.min.js +9 -20
  73. package/dist/jbrowse-plugin-mafviewer.umd.production.min.js.map +4 -4
  74. package/dist/util/extractSubsequence.d.ts +12 -0
  75. package/dist/util/extractSubsequence.js +60 -0
  76. package/dist/util/extractSubsequence.js.map +1 -0
  77. package/dist/util/extractSubsequence.test.d.ts +1 -0
  78. package/dist/util/extractSubsequence.test.js +42 -0
  79. package/dist/util/extractSubsequence.test.js.map +1 -0
  80. package/dist/util/fastaUtils.d.ts +16 -0
  81. package/dist/util/fastaUtils.js +84 -0
  82. package/dist/util/fastaUtils.js.map +1 -0
  83. package/dist/util/fastaUtils.test.d.ts +1 -0
  84. package/dist/util/fastaUtils.test.js +95 -0
  85. package/dist/util/fastaUtils.test.js.map +1 -0
  86. package/dist/util/fetchSequences.d.ts +18 -0
  87. package/dist/util/fetchSequences.js +39 -0
  88. package/dist/util/fetchSequences.js.map +1 -0
  89. package/dist/util/useSequences.d.ts +21 -0
  90. package/dist/util/useSequences.js +64 -0
  91. package/dist/util/useSequences.js.map +1 -0
  92. package/dist/util.d.ts +2 -2
  93. package/dist/util.js +5 -1
  94. package/dist/util.js.map +1 -1
  95. package/package.json +13 -13
  96. package/src/BigMafAdapter/BigMafAdapter.ts +52 -49
  97. package/src/LinearMafDisplay/components/Crosshairs.tsx +50 -0
  98. package/src/LinearMafDisplay/components/GetSequenceDialog/GetSequenceDialog.tsx +175 -0
  99. package/src/LinearMafDisplay/components/LinearMafDisplayComponent.tsx +257 -0
  100. package/src/LinearMafDisplay/components/MAFTooltip.tsx +59 -0
  101. package/src/LinearMafDisplay/components/SetRowHeightDialog/SetRowHeightDialog.tsx +83 -0
  102. package/src/LinearMafDisplay/components/{ColorLegend.tsx → Sidebar/ColorLegend.tsx} +11 -7
  103. package/src/LinearMafDisplay/components/{SvgWrapper.tsx → Sidebar/SvgWrapper.tsx} +5 -3
  104. package/src/LinearMafDisplay/components/{Tree.tsx → Sidebar/Tree.tsx} +5 -1
  105. package/src/LinearMafDisplay/components/Sidebar/YScaleBars.tsx +23 -0
  106. package/src/LinearMafDisplay/index.ts +1 -1
  107. package/src/LinearMafDisplay/renderSvg.tsx +1 -1
  108. package/src/LinearMafDisplay/stateModel.ts +71 -18
  109. package/src/LinearMafDisplay/types.ts +4 -24
  110. package/src/LinearMafDisplay/util.ts +27 -0
  111. package/src/LinearMafRenderer/LinearMafRenderer.ts +10 -14
  112. package/src/LinearMafRenderer/makeImageData.ts +33 -22
  113. package/src/MafAddTrackWorkflow/index.ts +0 -1
  114. package/src/{MafRPC/index.ts → MafGetSamples/MafGetSamples.ts} +1 -8
  115. package/src/MafGetSamples/index.ts +9 -0
  116. package/src/MafGetSequences/MafGetSequences.ts +47 -0
  117. package/src/MafGetSequences/index.ts +9 -0
  118. package/src/MafTabixAdapter/MafTabixAdapter.ts +13 -12
  119. package/src/MafTabixAdapter/configSchema.ts +29 -1
  120. package/src/index.ts +4 -2
  121. package/src/util/__snapshots__/fastaUtils.test.ts.snap +22 -0
  122. package/src/util/extractSubsequence.test.ts +54 -0
  123. package/src/util/extractSubsequence.ts +74 -0
  124. package/src/util/fastaUtils.test.ts +99 -0
  125. package/src/util/fastaUtils.ts +102 -0
  126. package/src/util/fetchSequences.ts +57 -0
  127. package/src/util/useSequences.ts +90 -0
  128. package/src/util.ts +6 -2
  129. package/dist/LinearMafDisplay/components/ColorLegend.d.ts +0 -8
  130. package/dist/LinearMafDisplay/components/ColorLegend.js.map +0 -1
  131. package/dist/LinearMafDisplay/components/ReactComponent.js +0 -50
  132. package/dist/LinearMafDisplay/components/ReactComponent.js.map +0 -1
  133. package/dist/LinearMafDisplay/components/RectBg.js.map +0 -1
  134. package/dist/LinearMafDisplay/components/SetRowHeight.js +0 -36
  135. package/dist/LinearMafDisplay/components/SetRowHeight.js.map +0 -1
  136. package/dist/LinearMafDisplay/components/SvgWrapper.js.map +0 -1
  137. package/dist/LinearMafDisplay/components/Tree.js.map +0 -1
  138. package/dist/LinearMafDisplay/components/YScaleBars.js +0 -20
  139. package/dist/LinearMafDisplay/components/YScaleBars.js.map +0 -1
  140. package/dist/MafRPC/index.js.map +0 -1
  141. package/src/LinearMafDisplay/components/ReactComponent.tsx +0 -91
  142. package/src/LinearMafDisplay/components/SetRowHeight.tsx +0 -83
  143. package/src/LinearMafDisplay/components/YScaleBars.tsx +0 -41
  144. /package/dist/LinearMafDisplay/components/{SetRowHeight.d.ts → SetRowHeightDialog/SetRowHeightDialog.d.ts} +0 -0
  145. /package/dist/LinearMafDisplay/components/{RectBg.d.ts → Sidebar/RectBg.d.ts} +0 -0
  146. /package/dist/LinearMafDisplay/components/{RectBg.js → Sidebar/RectBg.js} +0 -0
  147. /package/src/LinearMafDisplay/components/{RectBg.tsx → Sidebar/RectBg.tsx} +0 -0

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