@jbrowse/core 1.5.6 → 1.6.0

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 (155) hide show
  1. package/BaseFeatureWidget/BaseFeatureDetail.js +91 -78
  2. package/BaseFeatureWidget/SequenceFeatureDetails.js +65 -57
  3. package/BaseFeatureWidget/SequenceFeatureDetails.test.js +9 -9
  4. package/BaseFeatureWidget/index.js +1 -1
  5. package/BaseFeatureWidget/index.test.js +4 -4
  6. package/BaseFeatureWidget/util.js +13 -9
  7. package/CorePlugin.js +32 -20
  8. package/Plugin.js +13 -11
  9. package/PluginLoader.js +38 -33
  10. package/PluginManager.d.ts +8 -5
  11. package/PluginManager.js +142 -53
  12. package/ReExports/index.js +4 -4
  13. package/ReExports/list.js +2 -2
  14. package/ReExports/material-ui-colors.js +20 -20
  15. package/ReExports/modules.d.ts +7 -5
  16. package/ReExports/modules.js +51 -47
  17. package/TextSearch/BaseResults.js +34 -24
  18. package/TextSearch/BaseResults.test.js +7 -3
  19. package/TextSearch/TextSearchManager.js +17 -15
  20. package/assemblyManager/assembly.js +39 -34
  21. package/assemblyManager/assemblyConfigSchema.js +2 -2
  22. package/assemblyManager/assemblyManager.js +20 -16
  23. package/assemblyManager/index.js +3 -3
  24. package/babel.config.d.ts +15 -0
  25. package/babel.config.js +19 -0
  26. package/configuration/configurationSchema.js +19 -17
  27. package/configuration/configurationSlot.js +11 -11
  28. package/configuration/configurationSlot.test.js +5 -5
  29. package/configuration/index.d.ts +1 -0
  30. package/configuration/util.js +5 -5
  31. package/data_adapters/BaseAdapter.d.ts +15 -3
  32. package/data_adapters/BaseAdapter.js +216 -62
  33. package/data_adapters/BaseAdapter.test.js +30 -24
  34. package/data_adapters/CytobandAdapter.d.ts +1 -1
  35. package/data_adapters/CytobandAdapter.js +25 -19
  36. package/data_adapters/dataAdapterCache.js +9 -9
  37. package/package.json +4 -5
  38. package/pluggableElementTypes/AdapterType.js +31 -22
  39. package/pluggableElementTypes/ConnectionType.js +28 -18
  40. package/pluggableElementTypes/DisplayType.js +27 -17
  41. package/pluggableElementTypes/InternetAccountType.js +24 -14
  42. package/pluggableElementTypes/PluggableElementBase.js +10 -8
  43. package/pluggableElementTypes/RpcMethodType.d.ts +1 -1
  44. package/pluggableElementTypes/RpcMethodType.js +141 -118
  45. package/pluggableElementTypes/RpcMethodType.test.js +23 -17
  46. package/pluggableElementTypes/TextSearchAdapterType.js +25 -15
  47. package/pluggableElementTypes/TrackType.js +25 -15
  48. package/pluggableElementTypes/ViewType.js +25 -15
  49. package/pluggableElementTypes/WidgetType.js +27 -17
  50. package/pluggableElementTypes/index.js +11 -11
  51. package/pluggableElementTypes/models/BaseConnectionModelFactory.js +5 -5
  52. package/pluggableElementTypes/models/BaseDisplayModel.js +8 -5
  53. package/pluggableElementTypes/models/BaseTrackModel.js +11 -8
  54. package/pluggableElementTypes/models/BaseViewModel.js +3 -3
  55. package/pluggableElementTypes/models/InternetAccountModel.d.ts +1 -1
  56. package/pluggableElementTypes/models/InternetAccountModel.js +5 -5
  57. package/pluggableElementTypes/models/baseConnectionConfig.js +2 -2
  58. package/pluggableElementTypes/models/baseTrackConfig.js +7 -4
  59. package/pluggableElementTypes/models/index.js +4 -4
  60. package/pluggableElementTypes/renderers/BoxRendererType.js +49 -39
  61. package/pluggableElementTypes/renderers/CircularChordRendererType.js +18 -12
  62. package/pluggableElementTypes/renderers/ComparativeServerSideRendererType.js +35 -27
  63. package/pluggableElementTypes/renderers/FeatureRendererType.js +46 -36
  64. package/pluggableElementTypes/renderers/RendererType.js +31 -21
  65. package/pluggableElementTypes/renderers/ServerSideRenderedContent.js +12 -8
  66. package/pluggableElementTypes/renderers/ServerSideRendererType.d.ts +1 -1
  67. package/pluggableElementTypes/renderers/ServerSideRendererType.js +45 -33
  68. package/pluggableElementTypes/renderers/index.js +8 -8
  69. package/pluggableElementTypes/renderers/util/serializableFilterChain.js +10 -8
  70. package/pluggableElementTypes/renderers/util/serializableFilterChain.test.js +2 -2
  71. package/rpc/BaseRpcDriver.js +43 -38
  72. package/rpc/BaseRpcDriver.test.js +63 -49
  73. package/rpc/MainThreadRpcDriver.js +32 -22
  74. package/rpc/RpcManager.js +19 -17
  75. package/rpc/WebWorkerRpcDriver.js +38 -28
  76. package/rpc/configSchema.js +2 -2
  77. package/rpc/coreRpcMethods.d.ts +16 -0
  78. package/rpc/coreRpcMethods.js +248 -121
  79. package/rpc/remoteAbortSignals.js +3 -3
  80. package/ui/AboutDialog.js +21 -17
  81. package/ui/App.js +42 -38
  82. package/ui/AssemblySelector.d.ts +1 -1
  83. package/ui/AssemblySelector.js +6 -6
  84. package/ui/Drawer.js +7 -7
  85. package/ui/DrawerWidget.d.ts +1 -1
  86. package/ui/DrawerWidget.js +37 -33
  87. package/ui/DropDownMenu.js +21 -9
  88. package/ui/EditableTypography.js +30 -19
  89. package/ui/ErrorMessage.js +5 -5
  90. package/ui/FactoryResetDialog.js +8 -8
  91. package/ui/FatalErrorDialog.js +29 -12
  92. package/ui/FatalErrorDialog.test.js +11 -11
  93. package/ui/FileSelector/FileSelector.js +42 -32
  94. package/ui/FileSelector/LocalFileChooser.js +9 -9
  95. package/ui/FileSelector/UrlChooser.js +4 -4
  96. package/ui/FileSelector/index.js +4 -4
  97. package/ui/Icons.js +9 -9
  98. package/ui/Logo.js +19 -19
  99. package/ui/Menu.js +46 -35
  100. package/ui/NewSessionCards.js +29 -19
  101. package/ui/PrerenderedCanvas.js +27 -10
  102. package/ui/ResizeHandle.js +17 -10
  103. package/ui/SanitizedHTML.js +5 -5
  104. package/ui/SanitizedHTML.test.js +4 -4
  105. package/ui/Snackbar.js +16 -12
  106. package/ui/SnackbarModel.js +1 -1
  107. package/ui/Tooltip.js +11 -7
  108. package/ui/ViewContainer.d.ts +2 -5
  109. package/ui/ViewContainer.js +44 -49
  110. package/ui/index.d.ts +1 -0
  111. package/ui/index.js +26 -13
  112. package/ui/theme.js +15 -11
  113. package/util/Base1DViewModel.d.ts +14 -12
  114. package/util/Base1DViewModel.js +51 -55
  115. package/util/Base1DViewModel.test.js +5 -5
  116. package/util/QuickLRU.js +31 -27
  117. package/util/aborting.js +26 -16
  118. package/util/analytics.d.ts +1 -0
  119. package/util/analytics.js +15 -7
  120. package/util/blockTypes.js +48 -36
  121. package/util/calculateDynamicBlocks.js +4 -4
  122. package/util/calculateDynamicBlocks.test.js +14 -10
  123. package/util/calculateStaticBlocks.js +1 -1
  124. package/util/calculateStaticBlocks.test.js +15 -15
  125. package/util/compositeMap.js +31 -27
  126. package/util/idMaker.js +4 -4
  127. package/util/index.d.ts +23 -1
  128. package/util/index.js +133 -39
  129. package/util/index.test.js +11 -7
  130. package/util/io/RemoteFileWithRangeCache.js +41 -29
  131. package/util/io/index.js +6 -6
  132. package/util/jexl.js +5 -5
  133. package/util/jexlStrings.js +2 -2
  134. package/util/jexlStrings.test.js +2 -2
  135. package/util/layouts/GranularRectLayout.js +33 -27
  136. package/util/layouts/GranularRectLayout.test.js +10 -10
  137. package/util/layouts/MultiLayout.js +19 -13
  138. package/util/layouts/PrecomputedLayout.js +16 -14
  139. package/util/layouts/PrecomputedMultiLayout.js +23 -17
  140. package/util/layouts/SceneGraph.js +18 -12
  141. package/util/layouts/index.js +6 -6
  142. package/util/offscreenCanvasPonyfill.js +31 -29
  143. package/util/offscreenCanvasUtils.js +6 -6
  144. package/util/range.test.js +20 -20
  145. package/util/rxjs.js +2 -2
  146. package/util/simpleFeature.js +23 -18
  147. package/util/simpleFeature.test.js +3 -3
  148. package/util/stats.d.ts +1 -1
  149. package/util/stats.js +11 -7
  150. package/util/stats.test.js +16 -16
  151. package/util/tracks.js +1 -3
  152. package/util/types/index.d.ts +1 -1
  153. package/util/types/index.js +36 -31
  154. package/util/types/mst.js +19 -15
  155. package/util/when.js +6 -6
@@ -1,6 +1,6 @@
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  "use strict";
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- var _interopRequireDefault = require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/interopRequireDefault.js")["default"];
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+ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
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  Object.defineProperty(exports, "__esModule", {
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  value: true
@@ -8,115 +8,115 @@ Object.defineProperty(exports, "__esModule", {
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  Object.defineProperty(exports, "amber", {
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  enumerable: true,
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  get: function get() {
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- return _amber["default"];
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+ return _amber.default;
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  }
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  });
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  Object.defineProperty(exports, "blue", {
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  enumerable: true,
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  get: function get() {
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- return _blue["default"];
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+ return _blue.default;
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  }
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  });
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  Object.defineProperty(exports, "blueGrey", {
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  enumerable: true,
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  get: function get() {
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- return _blueGrey["default"];
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+ return _blueGrey.default;
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  }
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  });
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  Object.defineProperty(exports, "brown", {
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  enumerable: true,
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  get: function get() {
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- return _brown["default"];
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+ return _brown.default;
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  }
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  });
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  Object.defineProperty(exports, "cyan", {
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  enumerable: true,
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  get: function get() {
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- return _cyan["default"];
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+ return _cyan.default;
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  }
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  });
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  Object.defineProperty(exports, "deepOrange", {
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  enumerable: true,
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  get: function get() {
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- return _deepOrange["default"];
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+ return _deepOrange.default;
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  }
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  });
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  Object.defineProperty(exports, "deepPurple", {
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  enumerable: true,
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  get: function get() {
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- return _deepPurple["default"];
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+ return _deepPurple.default;
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  }
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  });
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  Object.defineProperty(exports, "green", {
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  enumerable: true,
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  get: function get() {
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- return _green["default"];
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+ return _green.default;
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  }
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  });
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  Object.defineProperty(exports, "grey", {
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  enumerable: true,
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  get: function get() {
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- return _grey["default"];
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+ return _grey.default;
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  }
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  });
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  Object.defineProperty(exports, "indigo", {
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  enumerable: true,
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  get: function get() {
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- return _indigo["default"];
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+ return _indigo.default;
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  }
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  });
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  Object.defineProperty(exports, "lightBlue", {
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  enumerable: true,
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  get: function get() {
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- return _lightBlue["default"];
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+ return _lightBlue.default;
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  }
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  });
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  Object.defineProperty(exports, "lightGreen", {
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  enumerable: true,
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  get: function get() {
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- return _lightGreen["default"];
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+ return _lightGreen.default;
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  }
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  });
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  Object.defineProperty(exports, "lime", {
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  enumerable: true,
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  get: function get() {
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- return _lime["default"];
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+ return _lime.default;
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  }
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  });
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  Object.defineProperty(exports, "orange", {
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  enumerable: true,
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  get: function get() {
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- return _orange["default"];
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+ return _orange.default;
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  }
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  });
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  Object.defineProperty(exports, "pink", {
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  get: function get() {
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- return _pink["default"];
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+ return _pink.default;
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  }
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  });
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  Object.defineProperty(exports, "purple", {
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  get: function get() {
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- return _purple["default"];
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+ return _purple.default;
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  }
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  });
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  Object.defineProperty(exports, "red", {
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  enumerable: true,
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  get: function get() {
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- return _red["default"];
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+ return _red.default;
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  }
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  });
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  Object.defineProperty(exports, "teal", {
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  get: function get() {
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- return _teal["default"];
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+ return _teal.default;
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  });
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  Object.defineProperty(exports, "yellow", {
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- return _yellow["default"];
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+ return _yellow.default;
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  }
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@@ -160,11 +160,6 @@ declare const libs: {
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  readonly maxOffset: number;
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  readonly minOffset: number;
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  readonly totalBp: number;
163
- bpToPx({ refName, coord, regionNumber, }: {
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- refName: string;
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- coord: number;
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- }): number | undefined;
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  pxToBp(px: number): {
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  oob: boolean;
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  coord: number;
@@ -189,6 +184,11 @@ declare const libs: {
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  readonly dynamicBlocks: import("../util/blockTypes").BlockSet;
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  readonly staticBlocks: import("../util/blockTypes").BlockSet;
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  readonly currBp: number;
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+ bpToPx({ refName, coord, regionNumber, }: {
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+ refName: string;
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+ coord: number;
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+ regionNumber?: number | undefined;
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+ }): number | undefined;
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  } & {
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  setFeatures(features: import("../util/simpleFeature").Feature[]): void;
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  zoomToDisplayedRegions(leftPx: import("../util/Base1DViewModel").BpOffset | undefined, rightPx: import("../util/Base1DViewModel").BpOffset | undefined): void;
@@ -197,6 +197,8 @@ declare const libs: {
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  zoomOut(): void;
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  zoomIn(): void;
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  zoomTo(newBpPerPx: number, offset?: number): void;
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+ scrollTo(offsetPx: number): number;
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+ centerAt(bp: number, refName: string, regionIndex: number): void;
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  scroll(distance: number): number;
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  }, mst._NotCustomized, mst._NotCustomized>;
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  '@jbrowse/core/util/io': typeof coreIo;
@@ -1,13 +1,13 @@
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  "use strict";
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- var _interopRequireWildcard = require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/interopRequireWildcard.js")["default"];
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+ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
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- var _interopRequireDefault = require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/interopRequireDefault.js")["default"];
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+ var _typeof = require("@babel/runtime/helpers/typeof");
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- exports["default"] = void 0;
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@@ -151,20 +151,24 @@ var mstTypes = _interopRequireWildcard(require("../util/types/mst"));
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+ function _getRequireWildcardCache(nodeInterop) { if (typeof WeakMap !== "function") return null; var cacheBabelInterop = new WeakMap(); var cacheNodeInterop = new WeakMap(); return (_getRequireWildcardCache = function _getRequireWildcardCache(nodeInterop) { return nodeInterop ? cacheNodeInterop : cacheBabelInterop; })(nodeInterop); }
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+
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+ function _interopRequireWildcard(obj, nodeInterop) { if (!nodeInterop && obj && obj.__esModule) { return obj; } if (obj === null || _typeof(obj) !== "object" && typeof obj !== "function") { return { default: obj }; } var cache = _getRequireWildcardCache(nodeInterop); if (cache && cache.has(obj)) { return cache.get(obj); } var newObj = {}; var hasPropertyDescriptor = Object.defineProperty && Object.getOwnPropertyDescriptor; for (var key in obj) { if (key !== "default" && Object.prototype.hasOwnProperty.call(obj, key)) { var desc = hasPropertyDescriptor ? Object.getOwnPropertyDescriptor(obj, key) : null; if (desc && (desc.get || desc.set)) { Object.defineProperty(newObj, key, desc); } else { newObj[key] = obj[key]; } } } newObj.default = obj; if (cache) { cache.set(obj, newObj); } return newObj; }
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+
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  // this is all the stuff that the pluginManager re-exports for plugins to use
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  // @material-ui components
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  // material-ui lab
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  var libs = {
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  mobx: mobx,
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  'mobx-state-tree': mst,
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- react: _react["default"],
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+ react: _react.default,
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  'react-dom': ReactDom,
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  'mobx-react': mxreact,
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- 'prop-types': _propTypes["default"],
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+ 'prop-types': _propTypes.default,
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  // material-ui 1st-level components
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  '@material-ui/core': MUICore,
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  // special case so plugins can easily use @material-ui/icons; don't remove
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- '@material-ui/core/SvgIcon': _SvgIcon["default"],
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+ '@material-ui/core/SvgIcon': _SvgIcon.default,
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  '@material-ui/core/utils': MUIUtils,
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  // end special case
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  '@material-ui/lab': MUILab,
@@ -173,48 +177,48 @@ var libs = {
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  // material-ui subcomponents, should get rid of these
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  '@material-ui/core/colors': MUIColors,
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- '@material-ui/core/Box': _Box["default"],
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- '@material-ui/core/Button': _Button["default"],
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- '@material-ui/core/ButtonGroup': _ButtonGroup["default"],
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- '@material-ui/core/Card': _Card["default"],
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- '@material-ui/core/CardContent': _CardContent["default"],
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- '@material-ui/core/Container': _Container["default"],
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- '@material-ui/core/Checkbox': _Checkbox["default"],
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- '@material-ui/core/Dialog': _Dialog["default"],
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- '@material-ui/core/FormGroup': _FormGroup["default"],
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- '@material-ui/core/FormLabel': _FormLabel["default"],
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- '@material-ui/core/FormControl': _FormControl["default"],
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- '@material-ui/core/FormControlLabel': _FormControlLabel["default"],
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- '@material-ui/core/Grid': _Grid["default"],
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- '@material-ui/core/Icon': _Icon["default"],
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- '@material-ui/core/IconButton': _IconButton["default"],
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- '@material-ui/core/InputAdornment': _InputAdornment["default"],
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- '@material-ui/core/LinearProgress': _LinearProgress["default"],
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- '@material-ui/core/ListItemIcon': _ListItemIcon["default"],
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- '@material-ui/core/ListItemText': _ListItemText["default"],
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- '@material-ui/core/Menu': _Menu["default"],
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- '@material-ui/core/MenuItem': _MenuItem["default"],
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- '@material-ui/core/RadioGroup': _RadioGroup["default"],
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- '@material-ui/core/Radio': _Radio["default"],
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- '@material-ui/core/Select': _Select["default"],
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- '@material-ui/core/Snackbar': _Snackbar["default"],
201
- '@material-ui/core/SnackbarContent': _SnackbarContent["default"],
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- '@material-ui/core/TextField': _TextField["default"],
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- '@material-ui/core/Tooltip': _Tooltip["default"],
204
- '@material-ui/core/Typography': _Typography["default"],
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+ '@material-ui/core/Box': _Box.default,
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+ '@material-ui/core/Button': _Button.default,
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+ '@material-ui/core/ButtonGroup': _ButtonGroup.default,
183
+ '@material-ui/core/Card': _Card.default,
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+ '@material-ui/core/CardContent': _CardContent.default,
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+ '@material-ui/core/Container': _Container.default,
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+ '@material-ui/core/Checkbox': _Checkbox.default,
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+ '@material-ui/core/Dialog': _Dialog.default,
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+ '@material-ui/core/FormGroup': _FormGroup.default,
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+ '@material-ui/core/FormLabel': _FormLabel.default,
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+ '@material-ui/core/FormControl': _FormControl.default,
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+ '@material-ui/core/FormControlLabel': _FormControlLabel.default,
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+ '@material-ui/core/Grid': _Grid.default,
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+ '@material-ui/core/Icon': _Icon.default,
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+ '@material-ui/core/IconButton': _IconButton.default,
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+ '@material-ui/core/InputAdornment': _InputAdornment.default,
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+ '@material-ui/core/LinearProgress': _LinearProgress.default,
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+ '@material-ui/core/ListItemIcon': _ListItemIcon.default,
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+ '@material-ui/core/ListItemText': _ListItemText.default,
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+ '@material-ui/core/Menu': _Menu.default,
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+ '@material-ui/core/MenuItem': _MenuItem.default,
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+ '@material-ui/core/RadioGroup': _RadioGroup.default,
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+ '@material-ui/core/Radio': _Radio.default,
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+ '@material-ui/core/Select': _Select.default,
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+ '@material-ui/core/Snackbar': _Snackbar.default,
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+ '@material-ui/core/SnackbarContent': _SnackbarContent.default,
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+ '@material-ui/core/TextField': _TextField.default,
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+ '@material-ui/core/Tooltip': _Tooltip.default,
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+ '@material-ui/core/Typography': _Typography.default,
205
209
  // @material-ui lab
206
- '@material-ui/lab/ToggleButton': _ToggleButton["default"],
207
- '@material-ui/lab/ToggleButtonGroup': _ToggleButtonGroup["default"],
208
- '@jbrowse/core/Plugin': _Plugin["default"],
210
+ '@material-ui/lab/ToggleButton': _ToggleButton.default,
211
+ '@material-ui/lab/ToggleButtonGroup': _ToggleButtonGroup.default,
212
+ '@jbrowse/core/Plugin': _Plugin.default,
209
213
  '@jbrowse/core/pluggableElementTypes': pluggableElementTypes,
210
- '@jbrowse/core/pluggableElementTypes/ViewType': _ViewType["default"],
211
- '@jbrowse/core/pluggableElementTypes/AdapterType': _AdapterType["default"],
212
- '@jbrowse/core/pluggableElementTypes/DisplayType': _DisplayType["default"],
213
- '@jbrowse/core/pluggableElementTypes/TrackType': _TrackType["default"],
214
- '@jbrowse/core/pluggableElementTypes/WidgetType': _WidgetType["default"],
214
+ '@jbrowse/core/pluggableElementTypes/ViewType': _ViewType.default,
215
+ '@jbrowse/core/pluggableElementTypes/AdapterType': _AdapterType.default,
216
+ '@jbrowse/core/pluggableElementTypes/DisplayType': _DisplayType.default,
217
+ '@jbrowse/core/pluggableElementTypes/TrackType': _TrackType.default,
218
+ '@jbrowse/core/pluggableElementTypes/WidgetType': _WidgetType.default,
215
219
  '@jbrowse/core/pluggableElementTypes/models': pluggableElementTypeModels,
216
220
  '@jbrowse/core/pluggableElementTypes/renderers/ServerSideRendererType': ServerSideRendererType,
217
- '@jbrowse/core/pluggableElementTypes/renderers/CircularChordRendererType': _CircularChordRendererType["default"],
221
+ '@jbrowse/core/pluggableElementTypes/renderers/CircularChordRendererType': _CircularChordRendererType.default,
218
222
  '@jbrowse/core/pluggableElementTypes/renderers/BoxRendererType': BoxRendererType,
219
223
  '@jbrowse/core/pluggableElementTypes/renderers/FeatureRendererType': FeatureRendererType,
220
224
  '@jbrowse/core/pluggableElementTypes/renderers/RendererType': RendererType,
@@ -225,7 +229,7 @@ var libs = {
225
229
  '@jbrowse/core/util/color': coreColor,
226
230
  '@jbrowse/core/util/layouts': coreLayouts,
227
231
  '@jbrowse/core/util/tracks': trackUtils,
228
- '@jbrowse/core/util/Base1DViewModel': _Base1DViewModel["default"],
232
+ '@jbrowse/core/util/Base1DViewModel': _Base1DViewModel.default,
229
233
  '@jbrowse/core/util/io': coreIo,
230
234
  '@jbrowse/core/util/mst-reflection': coreMstReflection,
231
235
  '@jbrowse/core/util/rxjs': rxjs,
@@ -234,11 +238,11 @@ var libs = {
234
238
  }; // make sure that all the items in the ReExports/list array (used by build systems and such)
235
239
  // are included here. it's OK if there are some additional ones that are not in the list
236
240
 
237
- _list["default"].forEach(function (name) {
241
+ _list.default.forEach(function (name) {
238
242
  if (!(name in libs)) {
239
243
  throw new Error("ReExports/modules is missing ".concat(name));
240
244
  }
241
245
  });
242
246
 
243
247
  var _default = libs;
244
- exports["default"] = _default;
248
+ exports.default = _default;
@@ -1,33 +1,43 @@
1
1
  "use strict";
2
2
 
3
- var _interopRequireDefault = require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/interopRequireDefault.js")["default"];
3
+ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
4
4
 
5
5
  Object.defineProperty(exports, "__esModule", {
6
6
  value: true
7
7
  });
8
- exports["default"] = exports.RefSequenceResult = void 0;
8
+ exports.default = exports.RefSequenceResult = void 0;
9
9
 
10
- var _inherits2 = _interopRequireDefault(require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/esm/inherits.js"));
10
+ var _assertThisInitialized2 = _interopRequireDefault(require("@babel/runtime/helpers/assertThisInitialized"));
11
11
 
12
- var _createSuper2 = _interopRequireDefault(require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/esm/createSuper.js"));
12
+ var _inherits2 = _interopRequireDefault(require("@babel/runtime/helpers/inherits"));
13
13
 
14
- var _classCallCheck2 = _interopRequireDefault(require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/esm/classCallCheck.js"));
14
+ var _possibleConstructorReturn2 = _interopRequireDefault(require("@babel/runtime/helpers/possibleConstructorReturn"));
15
15
 
16
- var _createClass2 = _interopRequireDefault(require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/esm/createClass.js"));
16
+ var _getPrototypeOf2 = _interopRequireDefault(require("@babel/runtime/helpers/getPrototypeOf"));
17
+
18
+ var _classCallCheck2 = _interopRequireDefault(require("@babel/runtime/helpers/classCallCheck"));
19
+
20
+ var _createClass2 = _interopRequireDefault(require("@babel/runtime/helpers/createClass"));
21
+
22
+ var _defineProperty2 = _interopRequireDefault(require("@babel/runtime/helpers/defineProperty"));
23
+
24
+ function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2.default)(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2.default)(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2.default)(this, result); }; }
25
+
26
+ function _isNativeReflectConstruct() { if (typeof Reflect === "undefined" || !Reflect.construct) return false; if (Reflect.construct.sham) return false; if (typeof Proxy === "function") return true; try { Boolean.prototype.valueOf.call(Reflect.construct(Boolean, [], function () {})); return true; } catch (e) { return false; } }
17
27
 
18
28
  var BaseResult = /*#__PURE__*/function () {
19
29
  function BaseResult(args) {
20
- (0, _classCallCheck2["default"])(this, BaseResult);
21
- this.label = void 0;
22
- this.renderingComponent = void 0;
23
- this.displayString = void 0;
24
- this.matchedAttribute = void 0;
25
- this.matchedObject = void 0;
26
- this.textSearchAdapter = void 0;
27
- this.relevance = void 0;
28
- this.trackId = void 0;
29
- this.score = void 0;
30
- this.locString = void 0;
30
+ (0, _classCallCheck2.default)(this, BaseResult);
31
+ (0, _defineProperty2.default)(this, "label", void 0);
32
+ (0, _defineProperty2.default)(this, "renderingComponent", void 0);
33
+ (0, _defineProperty2.default)(this, "displayString", void 0);
34
+ (0, _defineProperty2.default)(this, "matchedAttribute", void 0);
35
+ (0, _defineProperty2.default)(this, "matchedObject", void 0);
36
+ (0, _defineProperty2.default)(this, "textSearchAdapter", void 0);
37
+ (0, _defineProperty2.default)(this, "relevance", void 0);
38
+ (0, _defineProperty2.default)(this, "trackId", void 0);
39
+ (0, _defineProperty2.default)(this, "score", void 0);
40
+ (0, _defineProperty2.default)(this, "locString", void 0);
31
41
  this.label = args.label;
32
42
  this.locString = args.locString;
33
43
  this.renderingComponent = args.renderingComponent;
@@ -40,7 +50,7 @@ var BaseResult = /*#__PURE__*/function () {
40
50
  this.score = args.score || 1;
41
51
  }
42
52
 
43
- (0, _createClass2["default"])(BaseResult, [{
53
+ (0, _createClass2.default)(BaseResult, [{
44
54
  key: "getLabel",
45
55
  value: function getLabel() {
46
56
  return this.label;
@@ -85,26 +95,26 @@ var BaseResult = /*#__PURE__*/function () {
85
95
  return BaseResult;
86
96
  }();
87
97
 
88
- exports["default"] = BaseResult;
98
+ exports.default = BaseResult;
89
99
 
90
100
  var RefSequenceResult = /*#__PURE__*/function (_BaseResult) {
91
- (0, _inherits2["default"])(RefSequenceResult, _BaseResult);
101
+ (0, _inherits2.default)(RefSequenceResult, _BaseResult);
92
102
 
93
- var _super = (0, _createSuper2["default"])(RefSequenceResult);
103
+ var _super = _createSuper(RefSequenceResult);
94
104
 
95
105
  function RefSequenceResult(args) {
96
106
  var _args$refName;
97
107
 
98
108
  var _this;
99
109
 
100
- (0, _classCallCheck2["default"])(this, RefSequenceResult);
110
+ (0, _classCallCheck2.default)(this, RefSequenceResult);
101
111
  _this = _super.call(this, args);
102
- _this.refName = void 0;
112
+ (0, _defineProperty2.default)((0, _assertThisInitialized2.default)(_this), "refName", void 0);
103
113
  _this.refName = (_args$refName = args.refName) !== null && _args$refName !== void 0 ? _args$refName : '';
104
114
  return _this;
105
115
  }
106
116
 
107
- (0, _createClass2["default"])(RefSequenceResult, [{
117
+ (0, _createClass2.default)(RefSequenceResult, [{
108
118
  key: "getLocation",
109
119
  value: function getLocation() {
110
120
  return this.refName;
@@ -1,18 +1,22 @@
1
1
  "use strict";
2
2
 
3
- var _interopRequireWildcard = require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/interopRequireWildcard.js")["default"];
3
+ var _typeof = require("@babel/runtime/helpers/typeof");
4
4
 
5
5
  var _BaseResults = _interopRequireWildcard(require("./BaseResults"));
6
6
 
7
+ function _getRequireWildcardCache(nodeInterop) { if (typeof WeakMap !== "function") return null; var cacheBabelInterop = new WeakMap(); var cacheNodeInterop = new WeakMap(); return (_getRequireWildcardCache = function _getRequireWildcardCache(nodeInterop) { return nodeInterop ? cacheNodeInterop : cacheBabelInterop; })(nodeInterop); }
8
+
9
+ function _interopRequireWildcard(obj, nodeInterop) { if (!nodeInterop && obj && obj.__esModule) { return obj; } if (obj === null || _typeof(obj) !== "object" && typeof obj !== "function") { return { default: obj }; } var cache = _getRequireWildcardCache(nodeInterop); if (cache && cache.has(obj)) { return cache.get(obj); } var newObj = {}; var hasPropertyDescriptor = Object.defineProperty && Object.getOwnPropertyDescriptor; for (var key in obj) { if (key !== "default" && Object.prototype.hasOwnProperty.call(obj, key)) { var desc = hasPropertyDescriptor ? Object.getOwnPropertyDescriptor(obj, key) : null; if (desc && (desc.get || desc.set)) { Object.defineProperty(newObj, key, desc); } else { newObj[key] = obj[key]; } } } newObj.default = obj; if (cache) { cache.set(obj, newObj); } return newObj; }
10
+
7
11
  test('create BaseResult', function () {
8
- var baseResult = new _BaseResults["default"]({
12
+ var baseResult = new _BaseResults.default({
9
13
  label: 'chr1'
10
14
  });
11
15
  expect(baseResult.getLabel()).toEqual('chr1');
12
16
  expect(baseResult.getLocation()).toEqual('chr1');
13
17
  });
14
18
  test('create LocationResult', function () {
15
- var locationResult = new _BaseResults["default"]({
19
+ var locationResult = new _BaseResults.default({
16
20
  label: 'location result',
17
21
  locString: 'chr1:1-900'
18
22
  });
@@ -1,21 +1,23 @@
1
1
  "use strict";
2
2
 
3
- var _interopRequireDefault = require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/interopRequireDefault.js")["default"];
3
+ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
4
4
 
5
5
  Object.defineProperty(exports, "__esModule", {
6
6
  value: true
7
7
  });
8
- exports["default"] = void 0;
8
+ exports.default = void 0;
9
9
 
10
- var _index = _interopRequireDefault(require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/regenerator/index.js"));
10
+ var _regenerator = _interopRequireDefault(require("@babel/runtime/regenerator"));
11
11
 
12
- var _asyncToGenerator2 = _interopRequireDefault(require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/esm/asyncToGenerator.js"));
12
+ var _asyncToGenerator2 = _interopRequireDefault(require("@babel/runtime/helpers/asyncToGenerator"));
13
13
 
14
- var _toConsumableArray2 = _interopRequireDefault(require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/esm/toConsumableArray.js"));
14
+ var _toConsumableArray2 = _interopRequireDefault(require("@babel/runtime/helpers/toConsumableArray"));
15
15
 
16
- var _classCallCheck2 = _interopRequireDefault(require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/esm/classCallCheck.js"));
16
+ var _classCallCheck2 = _interopRequireDefault(require("@babel/runtime/helpers/classCallCheck"));
17
17
 
18
- var _createClass2 = _interopRequireDefault(require("/home/ubuntu/jbrowse-components/node_modules/@babel/runtime/helpers/esm/createClass.js"));
18
+ var _createClass2 = _interopRequireDefault(require("@babel/runtime/helpers/createClass"));
19
+
20
+ var _defineProperty2 = _interopRequireDefault(require("@babel/runtime/helpers/defineProperty"));
19
21
 
20
22
  var _QuickLRU = _interopRequireDefault(require("../util/QuickLRU"));
21
23
 
@@ -24,10 +26,10 @@ var _configuration = require("../configuration");
24
26
  /* text-searching controller */
25
27
  var TextSearchManager = /*#__PURE__*/function () {
26
28
  function TextSearchManager(pluginManager) {
27
- (0, _classCallCheck2["default"])(this, TextSearchManager);
29
+ (0, _classCallCheck2.default)(this, TextSearchManager);
28
30
  this.pluginManager = pluginManager;
29
- this.adapterCache = void 0;
30
- this.adapterCache = new _QuickLRU["default"]({
31
+ (0, _defineProperty2.default)(this, "adapterCache", void 0);
32
+ this.adapterCache = new _QuickLRU.default({
31
33
  maxSize: 15
32
34
  });
33
35
  }
@@ -36,7 +38,7 @@ var TextSearchManager = /*#__PURE__*/function () {
36
38
  */
37
39
 
38
40
 
39
- (0, _createClass2["default"])(TextSearchManager, [{
41
+ (0, _createClass2.default)(TextSearchManager, [{
40
42
  key: "loadTextSearchAdapters",
41
43
  value: function loadTextSearchAdapters(searchScope) {
42
44
  var _this = this;
@@ -73,7 +75,7 @@ var TextSearchManager = /*#__PURE__*/function () {
73
75
  tracks = _ref.tracks;
74
76
 
75
77
  var assemblyName = searchScope.assemblyName;
76
- return [].concat((0, _toConsumableArray2["default"])(this.getAdaptersWithAssembly(assemblyName, aggregateTextSearchAdapters)), (0, _toConsumableArray2["default"])(this.getAdaptersWithAssembly(assemblyName, tracks.map(function (track) {
78
+ return [].concat((0, _toConsumableArray2.default)(this.getAdaptersWithAssembly(assemblyName, aggregateTextSearchAdapters)), (0, _toConsumableArray2.default)(this.getAdaptersWithAssembly(assemblyName, tracks.map(function (track) {
77
79
  return (0, _configuration.readConfObject)(track, ['textSearching', 'textSearchAdapter']);
78
80
  }))));
79
81
  }
@@ -95,9 +97,9 @@ var TextSearchManager = /*#__PURE__*/function () {
95
97
  }, {
96
98
  key: "search",
97
99
  value: function () {
98
- var _search = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_index["default"].mark(function _callee(args, searchScope, rankFn) {
100
+ var _search = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee(args, searchScope, rankFn) {
99
101
  var textSearchAdapters, results;
100
- return _index["default"].wrap(function _callee$(_context) {
102
+ return _regenerator.default.wrap(function _callee$(_context) {
101
103
  while (1) {
102
104
  switch (_context.prev = _context.next) {
103
105
  case 0:
@@ -146,4 +148,4 @@ var TextSearchManager = /*#__PURE__*/function () {
146
148
  return TextSearchManager;
147
149
  }();
148
150
 
149
- exports["default"] = TextSearchManager;
151
+ exports.default = TextSearchManager;