@jbrowse/core 4.3.0 → 5.0.0-beta.1
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.
- package/README.md +783 -0
- package/esm/BaseFeatureWidget/BaseFeatureDetail/ArrayValue.d.ts +13 -3
- package/esm/BaseFeatureWidget/BaseFeatureDetail/ArrayValue.js +33 -22
- package/esm/BaseFeatureWidget/BaseFeatureDetail/Attributes.d.ts +8 -3
- package/esm/BaseFeatureWidget/BaseFeatureDetail/Attributes.js +117 -19
- package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseAttributes.d.ts +2 -8
- package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseAttributes.js +4 -4
- package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCard.d.ts +1 -1
- package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCard.js +2 -2
- package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCoreDetails.d.ts +1 -1
- package/esm/BaseFeatureWidget/BaseFeatureDetail/BaseCoreDetails.js +4 -4
- package/esm/BaseFeatureWidget/BaseFeatureDetail/BasicValue.d.ts +1 -1
- package/esm/BaseFeatureWidget/BaseFeatureDetail/BasicValue.js +12 -5
- package/esm/BaseFeatureWidget/BaseFeatureDetail/CoreDetails.d.ts +1 -1
- package/esm/BaseFeatureWidget/BaseFeatureDetail/CoreDetails.js +28 -17
- package/esm/BaseFeatureWidget/BaseFeatureDetail/DataGridDetails.d.ts +1 -1
- package/esm/BaseFeatureWidget/BaseFeatureDetail/DataGridDetails.js +19 -40
- package/esm/BaseFeatureWidget/BaseFeatureDetail/FeatureDetails.d.ts +6 -4
- package/esm/BaseFeatureWidget/BaseFeatureDetail/FeatureDetails.js +46 -30
- package/esm/BaseFeatureWidget/BaseFeatureDetail/FeatureWash.d.ts +20 -0
- package/esm/BaseFeatureWidget/BaseFeatureDetail/FeatureWash.js +66 -0
- package/esm/BaseFeatureWidget/BaseFeatureDetail/FieldName.d.ts +1 -1
- package/esm/BaseFeatureWidget/BaseFeatureDetail/FieldName.js +2 -2
- package/esm/BaseFeatureWidget/BaseFeatureDetail/Formatter.d.ts +3 -0
- package/esm/BaseFeatureWidget/BaseFeatureDetail/Formatter.js +17 -0
- package/esm/BaseFeatureWidget/BaseFeatureDetail/Position.d.ts +1 -1
- package/esm/BaseFeatureWidget/BaseFeatureDetail/Position.js +3 -9
- package/esm/BaseFeatureWidget/BaseFeatureDetail/SimpleField.d.ts +3 -2
- package/esm/BaseFeatureWidget/BaseFeatureDetail/SimpleField.js +3 -3
- package/esm/BaseFeatureWidget/BaseFeatureDetail/UriField.d.ts +3 -2
- package/esm/BaseFeatureWidget/BaseFeatureDetail/UriField.js +7 -14
- package/esm/BaseFeatureWidget/BaseFeatureDetail/index.d.ts +2 -1
- package/esm/BaseFeatureWidget/BaseFeatureDetail/index.js +19 -13
- package/esm/BaseFeatureWidget/BaseFeatureDetail/types.d.ts +5 -4
- package/esm/BaseFeatureWidget/BaseFeatureDetail/util.d.ts +8 -1
- package/esm/BaseFeatureWidget/BaseFeatureDetail/util.js +32 -10
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceBody.d.ts +18 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceBody.js +10 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceContents.d.ts +7 -4
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceContents.js +62 -24
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeatureDetails.d.ts +10 -5
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeatureDetails.js +64 -41
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeaturePanel.d.ts +1 -1
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceFeaturePanel.js +17 -8
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceLegend.d.ts +6 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceLegend.js +19 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceName.d.ts +5 -4
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequenceName.js +15 -18
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequencePanel.d.ts +1 -1
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/SequencePanel.js +33 -17
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/consts.d.ts +3 -3
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/consts.js +7 -3
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/FeatureSequenceDialog.d.ts +11 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/FeatureSequenceDialog.js +29 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/HelpDialog.d.ts +1 -1
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/HelpDialog.js +4 -6
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceDialog.d.ts +18 -6
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceDialog.js +11 -29
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceFeatureMenu.d.ts +9 -2
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceFeatureMenu.js +63 -58
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceTypeSelector.d.ts +7 -3
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SequenceTypeSelector.js +38 -51
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SettingsDialog.d.ts +1 -1
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/SettingsDialog.js +19 -27
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/TranscriptSelector.d.ts +6 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/dialogs/TranscriptSelector.js +18 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/featureTypeUtil.d.ts +12 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/featureTypeUtil.js +97 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/index.js +1 -1
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/model.d.ts +50 -63
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/model.js +62 -59
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/panelAssemblyName.d.ts +21 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/panelAssemblyName.js +24 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/CDNASequence.d.ts +5 -3
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/CDNASequence.js +93 -75
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/CDSSequence.d.ts +1 -1
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/CDSSequence.js +4 -11
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/GenomicSequence.d.ts +5 -2
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/GenomicSequence.js +21 -48
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/PlainSequence.d.ts +8 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/PlainSequence.js +20 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/ProteinSequence.d.ts +6 -3
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/ProteinSequence.js +33 -13
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/SequenceDisplay.d.ts +7 -4
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/SequenceDisplay.js +67 -11
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/renderSequenceSegments.d.ts +14 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/seqtypes/renderSequenceSegments.js +42 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/test_data/DLGAP3.d.ts +1 -1
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/test_data/NCDN.d.ts +7 -7
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/types.d.ts +8 -1
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/useSequenceData.d.ts +9 -9
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/useSequenceData.js +28 -44
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/useSequenceFetch.d.ts +23 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/useSequenceFetch.js +31 -0
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/util.d.ts +90 -1
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/util.js +145 -23
- package/esm/BaseFeatureWidget/configSchema.js +1 -1
- package/esm/BaseFeatureWidget/formatDetails.d.ts +38 -0
- package/esm/BaseFeatureWidget/formatDetails.js +103 -0
- package/esm/BaseFeatureWidget/index.d.ts +3 -1
- package/esm/BaseFeatureWidget/index.js +2 -2
- package/esm/BaseFeatureWidget/stateModelFactory.d.ts +80 -62
- package/esm/BaseFeatureWidget/stateModelFactory.js +128 -29
- package/esm/BaseFeatureWidget/types.d.ts +4 -3
- package/esm/BaseFeatureWidget/util.d.ts +4 -29
- package/esm/BaseFeatureWidget/util.js +20 -84
- package/esm/CorePlugin.js +11 -6
- package/esm/PhasedScheduler.d.ts +4 -2
- package/esm/PhasedScheduler.js +18 -2
- package/esm/Plugin.d.ts +6 -1
- package/esm/Plugin.js +7 -0
- package/esm/PluginLoader.d.ts +40 -40
- package/esm/PluginLoader.js +166 -82
- package/esm/PluginManager.d.ts +368 -55
- package/esm/PluginManager.js +326 -85
- package/esm/ReExports/BaseFeatureDetails.js +7 -6
- package/esm/ReExports/MuiDataGridReExports.d.ts +2 -2
- package/esm/ReExports/MuiDataGridReExports.js +58 -130
- package/esm/ReExports/MuiReExports.d.ts +3 -134
- package/esm/ReExports/MuiReExports.js +43 -16
- package/esm/ReExports/MuiStylesReExports.d.ts +66 -0
- package/esm/ReExports/MuiStylesReExports.js +55 -0
- package/esm/ReExports/index.js +1 -1
- package/esm/ReExports/lazify.d.ts +2 -2
- package/esm/ReExports/lazify.js +16 -3
- package/esm/ReExports/list.js +54 -229
- package/esm/ReExports/modules.js +84 -65
- package/esm/ReExports/muiComponentNames.d.ts +18 -0
- package/esm/ReExports/muiComponentNames.js +130 -0
- package/esm/ReExports/publicUtil.d.ts +1 -0
- package/esm/ReExports/publicUtil.js +28 -0
- package/esm/ReExports/registry.d.ts +2 -0
- package/esm/ReExports/registry.js +28 -0
- package/esm/TextSearch/BaseResults.d.ts +20 -21
- package/esm/TextSearch/BaseResults.js +8 -33
- package/esm/TextSearch/TextSearchManager.d.ts +14 -34
- package/esm/TextSearch/TextSearchManager.js +87 -34
- package/esm/assemblyManager/assembly.d.ts +307 -34
- package/esm/assemblyManager/assembly.js +551 -262
- package/esm/assemblyManager/assemblyAdapters.d.ts +12 -0
- package/esm/assemblyManager/assemblyAdapters.js +18 -0
- package/esm/assemblyManager/assemblyConfigSchema.d.ts +192 -17
- package/esm/assemblyManager/assemblyConfigSchema.js +213 -19
- package/esm/assemblyManager/assemblyManager.d.ts +711 -303
- package/esm/assemblyManager/assemblyManager.js +351 -46
- package/esm/assemblyManager/expandAssemblyConfigShorthand.d.ts +32 -0
- package/esm/assemblyManager/expandAssemblyConfigShorthand.js +85 -0
- package/esm/assemblyManager/geneticCodes.d.ts +21 -0
- package/esm/assemblyManager/geneticCodes.js +47 -0
- package/esm/assemblyManager/getSequenceAdapterConfig.d.ts +9 -0
- package/esm/assemblyManager/getSequenceAdapterConfig.js +12 -0
- package/esm/assemblyManager/index.d.ts +1 -1
- package/esm/assemblyManager/index.js +2 -2
- package/esm/assemblyManager/loadRefNameMap.d.ts +5 -0
- package/esm/assemblyManager/loadRefNameMap.js +80 -0
- package/esm/assemblyManager/refNameColors.d.ts +1 -0
- package/esm/assemblyManager/refNameColors.js +32 -0
- package/esm/assemblyManager/refNameMaps.d.ts +26 -0
- package/esm/assemblyManager/refNameMaps.js +87 -0
- package/esm/assemblyManager/refNameMismatch.d.ts +54 -0
- package/esm/assemblyManager/refNameMismatch.js +66 -0
- package/esm/checkPlugins.d.ts +11 -0
- package/esm/checkPlugins.js +77 -0
- package/esm/configuration/configurationSchema.d.ts +154 -19
- package/esm/configuration/configurationSchema.js +359 -138
- package/esm/configuration/configurationSlot.d.ts +283 -30
- package/esm/configuration/configurationSlot.js +205 -226
- package/esm/configuration/formatAboutConfigSchema.d.ts +55 -0
- package/esm/configuration/formatAboutConfigSchema.js +58 -0
- package/esm/configuration/formatDetailsConfigSchema.d.ts +80 -0
- package/esm/configuration/formatDetailsConfigSchema.js +90 -0
- package/esm/configuration/fullConfSnapshot.d.ts +28 -0
- package/esm/configuration/fullConfSnapshot.js +66 -0
- package/esm/configuration/getConf.d.ts +88 -0
- package/esm/configuration/getConf.js +74 -0
- package/esm/configuration/index.d.ts +19 -3
- package/esm/configuration/index.js +19 -2
- package/esm/configuration/mergeFormatCallbacks.d.ts +15 -0
- package/esm/configuration/mergeFormatCallbacks.js +24 -0
- package/esm/configuration/promotableDefaults.d.ts +199 -0
- package/esm/configuration/promotableDefaults.js +326 -0
- package/esm/configuration/promotablePin.d.ts +55 -0
- package/esm/configuration/promotableResolve.d.ts +108 -0
- package/esm/configuration/promotableResolve.js +117 -0
- package/esm/configuration/promotableSlots.d.ts +12 -0
- package/esm/configuration/promotableSlots.js +45 -0
- package/esm/configuration/readConfObject.d.ts +56 -0
- package/esm/configuration/readConfObject.js +161 -0
- package/esm/configuration/schemaRegistry.d.ts +35 -0
- package/esm/configuration/schemaRegistry.js +50 -0
- package/esm/configuration/schemaTypes.d.ts +23 -0
- package/esm/configuration/schemaTypes.js +94 -0
- package/esm/configuration/slotFacade.d.ts +82 -0
- package/esm/configuration/slotFacade.js +89 -0
- package/esm/configuration/slotShape.d.ts +12 -0
- package/esm/configuration/slotShape.js +84 -0
- package/esm/configuration/slotValueUtils.d.ts +17 -0
- package/esm/configuration/slotValueUtils.js +25 -0
- package/esm/configuration/tabixIndexFields.d.ts +44 -0
- package/esm/configuration/tabixIndexFields.js +45 -0
- package/esm/configuration/tabixShorthand.d.ts +34 -0
- package/esm/configuration/tabixShorthand.js +45 -0
- package/esm/configuration/types.d.ts +170 -7
- package/esm/data_adapters/BaseAdapter/BaseAdapter.d.ts +24 -10
- package/esm/data_adapters/BaseAdapter/BaseAdapter.js +23 -15
- package/esm/data_adapters/BaseAdapter/BaseFeatureDataAdapter.d.ts +120 -7
- package/esm/data_adapters/BaseAdapter/BaseFeatureDataAdapter.js +99 -27
- package/esm/data_adapters/BaseAdapter/BaseRefNameAliasAdapter.d.ts +1 -0
- package/esm/data_adapters/BaseAdapter/BaseSequenceAdapter.d.ts +13 -5
- package/esm/data_adapters/BaseAdapter/BaseSequenceAdapter.js +9 -7
- package/esm/data_adapters/BaseAdapter/BaseTextSearchAdapter.d.ts +2 -1
- package/esm/data_adapters/BaseAdapter/CytobandAdapter.d.ts +7 -0
- package/esm/data_adapters/BaseAdapter/RegionsAdapter.d.ts +2 -1
- package/esm/data_adapters/BaseAdapter/getAdapterId.d.ts +2 -0
- package/esm/data_adapters/BaseAdapter/getAdapterId.js +9 -0
- package/esm/data_adapters/BaseAdapter/index.d.ts +6 -4
- package/esm/data_adapters/BaseAdapter/index.js +5 -5
- package/esm/data_adapters/BaseAdapter/stats.d.ts +5 -5
- package/esm/data_adapters/BaseAdapter/stats.js +48 -22
- package/esm/data_adapters/BaseAdapter/types.d.ts +10 -8
- package/esm/data_adapters/BaseAdapter/types.js +1 -0
- package/esm/data_adapters/BaseAdapter/util.d.ts +5 -1
- package/esm/data_adapters/BaseAdapter/util.js +14 -3
- package/esm/data_adapters/CytobandAdapter/CytobandAdapter.d.ts +1 -1
- package/esm/data_adapters/CytobandAdapter/CytobandAdapter.js +4 -4
- package/esm/data_adapters/CytobandAdapter/configSchema.d.ts +36 -4
- package/esm/data_adapters/CytobandAdapter/configSchema.js +46 -2
- package/esm/data_adapters/CytobandAdapter/index.js +3 -3
- package/esm/data_adapters/adapterSessionRefcount.d.ts +61 -0
- package/esm/data_adapters/adapterSessionRefcount.js +96 -0
- package/esm/data_adapters/dataAdapterCache.d.ts +35 -1
- package/esm/data_adapters/dataAdapterCache.js +62 -22
- package/esm/data_adapters/getFeatureAdapter.d.ts +22 -0
- package/esm/data_adapters/getFeatureAdapter.js +27 -0
- package/esm/data_adapters/getSequenceSubAdapter.d.ts +21 -0
- package/esm/data_adapters/getSequenceSubAdapter.js +44 -0
- package/esm/pluggableElementTypes/AdapterType.d.ts +52 -2
- package/esm/pluggableElementTypes/AdapterType.js +44 -5
- package/esm/pluggableElementTypes/AddTrackWorkflowType.d.ts +6 -1
- package/esm/pluggableElementTypes/AddTrackWorkflowType.js +3 -1
- package/esm/pluggableElementTypes/ConnectionType.d.ts +5 -5
- package/esm/pluggableElementTypes/ConnectionType.js +1 -1
- package/esm/pluggableElementTypes/DisplayType.d.ts +10 -0
- package/esm/pluggableElementTypes/DisplayType.js +14 -1
- package/esm/pluggableElementTypes/InternetAccountType.js +1 -1
- package/esm/pluggableElementTypes/PluggableElementBase.d.ts +13 -0
- package/esm/pluggableElementTypes/PluggableElementBase.js +13 -0
- package/esm/pluggableElementTypes/RpcMethodType.d.ts +132 -12
- package/esm/pluggableElementTypes/RpcMethodType.js +263 -98
- package/esm/pluggableElementTypes/RpcMethodTypeWithFiltersAndRenameRegions.d.ts +19 -9
- package/esm/pluggableElementTypes/RpcMethodTypeWithFiltersAndRenameRegions.js +26 -20
- package/esm/pluggableElementTypes/RpcMethodTypeWithRenameRegion.d.ts +5 -0
- package/esm/pluggableElementTypes/RpcMethodTypeWithRenameRegion.js +18 -0
- package/esm/pluggableElementTypes/RpcMethodTypeWithRenameRegions.d.ts +5 -0
- package/esm/pluggableElementTypes/RpcMethodTypeWithRenameRegions.js +10 -0
- package/esm/pluggableElementTypes/TextSearchAdapterType.d.ts +3 -3
- package/esm/pluggableElementTypes/TextSearchAdapterType.js +3 -1
- package/esm/pluggableElementTypes/TrackType.d.ts +2 -1
- package/esm/pluggableElementTypes/TrackType.js +1 -1
- package/esm/pluggableElementTypes/ViewType.d.ts +2 -1
- package/esm/pluggableElementTypes/ViewType.js +9 -2
- package/esm/pluggableElementTypes/WidgetType.d.ts +2 -2
- package/esm/pluggableElementTypes/WidgetType.js +1 -1
- package/esm/pluggableElementTypes/addMenuItems.d.ts +87 -0
- package/esm/pluggableElementTypes/addMenuItems.js +82 -0
- package/esm/pluggableElementTypes/extendElementType.d.ts +30 -0
- package/esm/pluggableElementTypes/extendElementType.js +68 -0
- package/esm/pluggableElementTypes/index.d.ts +7 -7
- package/esm/pluggableElementTypes/index.js +24 -14
- package/esm/pluggableElementTypes/models/BaseConnectionModelFactory.d.ts +70 -15
- package/esm/pluggableElementTypes/models/BaseConnectionModelFactory.js +90 -10
- package/esm/pluggableElementTypes/models/BaseDisplayModel.d.ts +605 -84
- package/esm/pluggableElementTypes/models/BaseDisplayModel.js +172 -64
- package/esm/pluggableElementTypes/models/BaseTrackModel.d.ts +195 -35
- package/esm/pluggableElementTypes/models/BaseTrackModel.js +332 -85
- package/esm/pluggableElementTypes/models/BaseViewModel.d.ts +167 -16
- package/esm/pluggableElementTypes/models/BaseViewModel.js +111 -16
- package/esm/pluggableElementTypes/models/HighlightsMixin.d.ts +51 -0
- package/esm/pluggableElementTypes/models/HighlightsMixin.js +78 -0
- package/esm/pluggableElementTypes/models/InternetAccountModel.d.ts +163 -29
- package/esm/pluggableElementTypes/models/InternetAccountModel.js +218 -48
- package/esm/pluggableElementTypes/models/assertDisplayContract.d.ts +174 -0
- package/esm/pluggableElementTypes/models/assertDisplayContract.js +246 -0
- package/esm/pluggableElementTypes/models/baseConnectionConfig.d.ts +22 -8
- package/esm/pluggableElementTypes/models/baseConnectionConfig.js +18 -2
- package/esm/pluggableElementTypes/models/baseInternetAccountConfig.d.ts +39 -20
- package/esm/pluggableElementTypes/models/baseInternetAccountConfig.js +23 -2
- package/esm/pluggableElementTypes/models/baseTrackConfig.d.ts +181 -65
- package/esm/pluggableElementTypes/models/baseTrackConfig.js +191 -89
- package/esm/pluggableElementTypes/models/components/SaveTrackData.d.ts +3 -8
- package/esm/pluggableElementTypes/models/components/SaveTrackData.js +113 -139
- package/esm/pluggableElementTypes/models/components/fetchTrackData.d.ts +55 -0
- package/esm/pluggableElementTypes/models/components/fetchTrackData.js +83 -0
- package/esm/pluggableElementTypes/models/expandTrackConfigShorthand.d.ts +40 -0
- package/esm/pluggableElementTypes/models/expandTrackConfigShorthand.js +115 -0
- package/esm/pluggableElementTypes/models/index.d.ts +6 -3
- package/esm/pluggableElementTypes/models/index.js +10 -8
- package/esm/pluggableElementTypes/models/migrateTrackConfig.d.ts +34 -0
- package/esm/pluggableElementTypes/models/migrateTrackConfig.js +54 -0
- package/esm/pluggableElementTypes/models/saveTrackFileTypes/bed.js +75 -7
- package/esm/pluggableElementTypes/models/saveTrackFileTypes/genbank.d.ts +9 -3
- package/esm/pluggableElementTypes/models/saveTrackFileTypes/genbank.js +153 -103
- package/esm/pluggableElementTypes/models/saveTrackFileTypes/gff3.d.ts +6 -1
- package/esm/pluggableElementTypes/models/saveTrackFileTypes/gff3.js +70 -74
- package/esm/pluggableElementTypes/models/saveTrackFileTypes/types.d.ts +9 -1
- package/esm/pluggableElementTypes/models/saveTrackFileTypes/util.d.ts +21 -0
- package/esm/pluggableElementTypes/models/saveTrackFileTypes/util.js +51 -0
- package/esm/pluggableElementTypes/models/uriMatchesDomains.d.ts +29 -0
- package/esm/pluggableElementTypes/models/uriMatchesDomains.js +62 -0
- package/esm/pluggableElementTypes/renderers/util/serializableFilterChain.d.ts +5 -4
- package/esm/pluggableElementTypes/renderers/util/serializableFilterChain.js +20 -10
- package/esm/pluginDefinitions.d.ts +198 -0
- package/esm/pluginDefinitions.js +220 -0
- package/esm/rpc/BaseRpcDriver.d.ts +27 -35
- package/esm/rpc/BaseRpcDriver.js +74 -107
- package/esm/rpc/MainThreadRpcDriver.d.ts +9 -10
- package/esm/rpc/MainThreadRpcDriver.js +18 -29
- package/esm/rpc/RpcClient.d.ts +38 -0
- package/esm/rpc/RpcClient.js +154 -0
- package/esm/rpc/RpcManager.d.ts +116 -27
- package/esm/rpc/RpcManager.js +177 -50
- package/esm/rpc/RpcRegistry.d.ts +265 -0
- package/esm/rpc/RpcRegistry.js +1 -0
- package/esm/rpc/RpcServer.d.ts +41 -0
- package/esm/rpc/RpcServer.js +235 -0
- package/esm/rpc/WebWorkerRpcDriver.d.ts +71 -24
- package/esm/rpc/WebWorkerRpcDriver.js +312 -27
- package/esm/rpc/byteBudget.d.ts +49 -0
- package/esm/rpc/byteBudget.js +50 -0
- package/esm/rpc/configSchema.d.ts +27 -5
- package/esm/rpc/configSchema.js +40 -16
- package/esm/rpc/coreRpcMethods.d.ts +2 -5
- package/esm/rpc/coreRpcMethods.js +9 -12
- package/esm/rpc/explainTransferError.d.ts +35 -0
- package/esm/rpc/explainTransferError.js +158 -0
- package/esm/rpc/methods/CoreFreeResources.d.ts +19 -4
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- package/esm/util/when.js +0 -1
- /package/esm/{data_adapters/BaseAdapter/BaseOptions.js → configuration/promotablePin.js} +0 -0
- /package/esm/{util/layouts/BaseLayout.js → data_adapters/BaseAdapter/CytobandAdapter.js} +0 -0
package/esm/ui/ExternalLink.d.ts
CHANGED
|
@@ -1,2 +1,2 @@
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|
|
1
1
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import type { LinkProps } from '@mui/material';
|
|
2
|
-
export default function ExternalLink(props: LinkProps): import("react
|
|
2
|
+
export default function ExternalLink(props: LinkProps): import("react").JSX.Element;
|
|
@@ -1,18 +1,9 @@
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|
|
1
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-
import { jsx as _jsx
|
|
2
|
-
import {
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|
3
|
-
import
|
|
1
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+
import { jsx as _jsx } from "react/jsx-runtime";
|
|
2
|
+
import { DialogContentText } from '@mui/material';
|
|
3
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+
import ConfirmDialog from './ConfirmDialog.js';
|
|
4
4
|
export default function FactoryResetDialog({ onClose, open, onFactoryReset, }) {
|
|
5
|
-
|
|
6
|
-
if (action === 'reset') {
|
|
5
|
+
return (_jsx(ConfirmDialog, { open: open, title: "Reset", submitText: "Reset", onCancel: onClose, onSubmit: () => {
|
|
7
6
|
onFactoryReset();
|
|
8
|
-
|
|
9
|
-
|
|
10
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-
}
|
|
11
|
-
return (_jsxs(Dialog, { title: "Reset", onClose: () => {
|
|
12
|
-
handleDialogClose();
|
|
13
|
-
}, open: open, children: [_jsx(DialogContent, { children: _jsx(DialogContentText, { children: "Are you sure you want to reset? This will restore the default configuration." }) }), _jsxs(DialogActions, { children: [_jsx(Button, { onClick: () => {
|
|
14
|
-
handleDialogClose();
|
|
15
|
-
}, color: "primary", children: "Cancel" }), _jsx(Button, { onClick: () => {
|
|
16
|
-
handleDialogClose('reset');
|
|
17
|
-
}, color: "primary", variant: "contained", children: "OK" })] })] }));
|
|
7
|
+
onClose();
|
|
8
|
+
}, children: _jsx(DialogContentText, { children: "Are you sure you want to reset? This will restore the default configuration." }) }));
|
|
18
9
|
}
|
|
@@ -1,6 +1,7 @@
|
|
|
1
|
-
export default function FatalErrorDialog({ componentStack, error, onFactoryReset, resetButtonText, }: {
|
|
1
|
+
export default function FatalErrorDialog({ componentStack, error, onFactoryReset, resetButtonText, extraActions, }: {
|
|
2
2
|
componentStack?: string;
|
|
3
3
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error?: unknown;
|
|
4
4
|
onFactoryReset: () => void;
|
|
5
5
|
resetButtonText?: string;
|
|
6
|
-
|
|
6
|
+
extraActions?: React.ReactNode;
|
|
7
|
+
}): import("react").JSX.Element;
|
|
@@ -1,8 +1,9 @@
|
|
|
1
|
-
import {
|
|
1
|
+
import { Fragment as _Fragment, jsx as _jsx, jsxs as _jsxs } from "react/jsx-runtime";
|
|
2
2
|
import { useState } from 'react';
|
|
3
3
|
import { Button, Dialog, DialogActions, DialogContent, DialogTitle, } from '@mui/material';
|
|
4
|
-
import
|
|
5
|
-
import
|
|
4
|
+
import ErrorBanner from './ErrorBanner.js';
|
|
5
|
+
import ErrorMessageStackTraceContents from './ErrorMessageStackTraceContents.js';
|
|
6
|
+
import FactoryResetDialog from './FactoryResetDialog.js';
|
|
6
7
|
const ResetComponent = ({ onFactoryReset, resetButtonText, }) => {
|
|
7
8
|
const [dialogOpen, setDialogOpen] = useState(false);
|
|
8
9
|
return (_jsxs(_Fragment, { children: [_jsx(Button, { "data-testid": "fatal-error", color: "primary", variant: "contained", onClick: () => {
|
|
@@ -11,8 +12,8 @@ const ResetComponent = ({ onFactoryReset, resetButtonText, }) => {
|
|
|
11
12
|
setDialogOpen(false);
|
|
12
13
|
}, open: dialogOpen, onFactoryReset: onFactoryReset })] }));
|
|
13
14
|
};
|
|
14
|
-
export default function FatalErrorDialog({ componentStack, error = 'No error message provided', onFactoryReset, resetButtonText = 'Factory Reset', }) {
|
|
15
|
-
return (_jsxs(Dialog, { maxWidth: "xl", open: true, children: [_jsx(DialogTitle, { children: "Fatal error" }), _jsxs(DialogContent, { children: [_jsx(
|
|
15
|
+
export default function FatalErrorDialog({ componentStack, error = 'No error message provided', onFactoryReset, resetButtonText = 'Factory Reset', extraActions, }) {
|
|
16
|
+
return (_jsxs(Dialog, { maxWidth: "xl", open: true, children: [_jsx(DialogTitle, { children: "Fatal error" }), _jsxs(DialogContent, { children: [_jsx(ErrorBanner, { error: error }), componentStack ? (_jsx(ErrorMessageStackTraceContents, { text: componentStack })) : null] }), _jsxs(DialogActions, { children: [extraActions, _jsx(Button, { color: "secondary", variant: "contained", onClick: () => {
|
|
16
17
|
window.location.reload();
|
|
17
18
|
}, children: "Refresh" }), _jsx(ResetComponent, { onFactoryReset: onFactoryReset, resetButtonText: resetButtonText })] })] }));
|
|
18
19
|
}
|
|
@@ -0,0 +1,25 @@
|
|
|
1
|
+
import type { ReactNode } from 'react';
|
|
2
|
+
export type Accept = Record<string, string[]>;
|
|
3
|
+
export interface FileRejection {
|
|
4
|
+
file: File;
|
|
5
|
+
errors: {
|
|
6
|
+
code: string;
|
|
7
|
+
message: string;
|
|
8
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+
}[];
|
|
9
|
+
}
|
|
10
|
+
/**
|
|
11
|
+
* Shared dashed-border file dropzone (drag-and-drop plus click-to-browse) used
|
|
12
|
+
* by the bulk add-track, multi-wiggle, assembly, and session-import forms. The
|
|
13
|
+
* `onDrop` signature reports accepted files and, when `accept`/`maxSize` are
|
|
14
|
+
* set, rejected files with their validation errors. Pass `message` to replace
|
|
15
|
+
* the default prompt and `children` for extra content (e.g. a Browse button).
|
|
16
|
+
*/
|
|
17
|
+
export default function FileDropZone({ onDrop, accept, maxSize, multiple, message, children, className, }: {
|
|
18
|
+
onDrop: (accepted: File[], rejected: FileRejection[]) => void;
|
|
19
|
+
accept?: Accept;
|
|
20
|
+
maxSize?: number;
|
|
21
|
+
multiple?: boolean;
|
|
22
|
+
message?: ReactNode;
|
|
23
|
+
children?: ReactNode;
|
|
24
|
+
className?: string;
|
|
25
|
+
}): import("react").JSX.Element;
|
|
@@ -0,0 +1,128 @@
|
|
|
1
|
+
import { jsx as _jsx, jsxs as _jsxs } from "react/jsx-runtime";
|
|
2
|
+
import { useRef, useState } from 'react';
|
|
3
|
+
import CloudUploadIcon from '@mui/icons-material/CloudUpload';
|
|
4
|
+
import { Typography, alpha } from '@mui/material';
|
|
5
|
+
import { makeStyles } from '../util/tss-react/index.js';
|
|
6
|
+
const useStyles = makeStyles()(theme => ({
|
|
7
|
+
dropZone: {
|
|
8
|
+
textAlign: 'center',
|
|
9
|
+
padding: theme.spacing(2),
|
|
10
|
+
borderWidth: 2,
|
|
11
|
+
borderRadius: 2,
|
|
12
|
+
borderStyle: 'dashed',
|
|
13
|
+
outline: 'none',
|
|
14
|
+
cursor: 'pointer',
|
|
15
|
+
transition: 'border .24s ease-in-out, background-color .24s ease-in-out',
|
|
16
|
+
},
|
|
17
|
+
dropZoneActive: {
|
|
18
|
+
borderColor: theme.palette.secondary.light,
|
|
19
|
+
backgroundColor: alpha(theme.palette.text.primary, theme.palette.action.hoverOpacity),
|
|
20
|
+
},
|
|
21
|
+
dropZoneInactive: {
|
|
22
|
+
borderColor: theme.palette.divider,
|
|
23
|
+
backgroundColor: theme.palette.background.default,
|
|
24
|
+
},
|
|
25
|
+
uploadIcon: {
|
|
26
|
+
color: theme.palette.text.secondary,
|
|
27
|
+
},
|
|
28
|
+
}));
|
|
29
|
+
// a file matches an Accept entry if its extension is listed or its MIME type
|
|
30
|
+
// matches a key (with trailing-slash glob support, e.g. 'image/*')
|
|
31
|
+
function mimeMatches(fileType, pattern) {
|
|
32
|
+
return pattern.endsWith('/*')
|
|
33
|
+
? fileType.startsWith(pattern.slice(0, -1))
|
|
34
|
+
: fileType === pattern;
|
|
35
|
+
}
|
|
36
|
+
function validate(file, accept, maxSize) {
|
|
37
|
+
const errors = [];
|
|
38
|
+
if (maxSize !== undefined && file.size > maxSize) {
|
|
39
|
+
errors.push({
|
|
40
|
+
code: 'file-too-large',
|
|
41
|
+
message: `File is larger than ${maxSize} bytes`,
|
|
42
|
+
});
|
|
43
|
+
}
|
|
44
|
+
if (accept) {
|
|
45
|
+
const name = file.name.toLowerCase();
|
|
46
|
+
const extOk = Object.values(accept)
|
|
47
|
+
.flat()
|
|
48
|
+
.some(ext => name.endsWith(ext.toLowerCase()));
|
|
49
|
+
const mimeOk = Object.keys(accept).some(m => mimeMatches(file.type, m));
|
|
50
|
+
if (!extOk && !mimeOk) {
|
|
51
|
+
const allowed = Object.entries(accept)
|
|
52
|
+
.flatMap(([mime, exts]) => [mime, ...exts])
|
|
53
|
+
.join(', ');
|
|
54
|
+
errors.push({
|
|
55
|
+
code: 'file-invalid-type',
|
|
56
|
+
message: `File type must be ${allowed}`,
|
|
57
|
+
});
|
|
58
|
+
}
|
|
59
|
+
}
|
|
60
|
+
return errors;
|
|
61
|
+
}
|
|
62
|
+
/**
|
|
63
|
+
* Shared dashed-border file dropzone (drag-and-drop plus click-to-browse) used
|
|
64
|
+
* by the bulk add-track, multi-wiggle, assembly, and session-import forms. The
|
|
65
|
+
* `onDrop` signature reports accepted files and, when `accept`/`maxSize` are
|
|
66
|
+
* set, rejected files with their validation errors. Pass `message` to replace
|
|
67
|
+
* the default prompt and `children` for extra content (e.g. a Browse button).
|
|
68
|
+
*/
|
|
69
|
+
export default function FileDropZone({ onDrop, accept, maxSize, multiple = true, message, children, className, }) {
|
|
70
|
+
const { classes, cx } = useStyles();
|
|
71
|
+
const inputRef = useRef(null);
|
|
72
|
+
// dragenter/dragleave fire for child elements too; ref-count them so
|
|
73
|
+
// isDragActive does not flicker as the cursor moves over inner content
|
|
74
|
+
const dragDepthRef = useRef(0);
|
|
75
|
+
const [isDragActive, setIsDragActive] = useState(false);
|
|
76
|
+
function handleFiles(fileList) {
|
|
77
|
+
const files = fileList ? [...fileList] : [];
|
|
78
|
+
const chosen = multiple ? files : files.slice(0, 1);
|
|
79
|
+
const accepted = [];
|
|
80
|
+
const rejected = [];
|
|
81
|
+
for (const file of chosen) {
|
|
82
|
+
const errors = validate(file, accept, maxSize);
|
|
83
|
+
if (errors.length > 0) {
|
|
84
|
+
rejected.push({ file, errors });
|
|
85
|
+
}
|
|
86
|
+
else {
|
|
87
|
+
accepted.push(file);
|
|
88
|
+
}
|
|
89
|
+
}
|
|
90
|
+
onDrop(accepted, rejected);
|
|
91
|
+
}
|
|
92
|
+
function openBrowse() {
|
|
93
|
+
inputRef.current?.click();
|
|
94
|
+
}
|
|
95
|
+
const acceptAttr = accept
|
|
96
|
+
? Object.entries(accept)
|
|
97
|
+
.flatMap(([mime, exts]) => [mime, ...exts])
|
|
98
|
+
.join(',')
|
|
99
|
+
: undefined;
|
|
100
|
+
return (_jsxs("div", { role: "button", tabIndex: 0, "data-testid": "file-drop-zone", className: cx(classes.dropZone, isDragActive ? classes.dropZoneActive : classes.dropZoneInactive, className), onClick: openBrowse, onKeyDown: (event) => {
|
|
101
|
+
if (event.key === 'Enter' || event.key === ' ') {
|
|
102
|
+
event.preventDefault();
|
|
103
|
+
openBrowse();
|
|
104
|
+
}
|
|
105
|
+
}, onDragEnter: (event) => {
|
|
106
|
+
event.preventDefault();
|
|
107
|
+
dragDepthRef.current += 1;
|
|
108
|
+
setIsDragActive(true);
|
|
109
|
+
}, onDragOver: (event) => {
|
|
110
|
+
event.preventDefault();
|
|
111
|
+
}, onDragLeave: (event) => {
|
|
112
|
+
event.preventDefault();
|
|
113
|
+
dragDepthRef.current -= 1;
|
|
114
|
+
if (dragDepthRef.current <= 0) {
|
|
115
|
+
dragDepthRef.current = 0;
|
|
116
|
+
setIsDragActive(false);
|
|
117
|
+
}
|
|
118
|
+
}, onDrop: (event) => {
|
|
119
|
+
event.preventDefault();
|
|
120
|
+
dragDepthRef.current = 0;
|
|
121
|
+
setIsDragActive(false);
|
|
122
|
+
handleFiles(event.dataTransfer.files);
|
|
123
|
+
}, children: [_jsx("input", { ref: inputRef, type: "file", accept: acceptAttr, multiple: multiple, style: { display: 'none' }, onChange: event => {
|
|
124
|
+
handleFiles(event.target.files);
|
|
125
|
+
// reset so selecting the same file again still fires onChange
|
|
126
|
+
event.target.value = '';
|
|
127
|
+
} }), _jsx(CloudUploadIcon, { className: classes.uploadIcon, fontSize: "large" }), _jsx(Typography, { color: "text.secondary", align: "center", children: message ?? 'Drag and drop files here, or click to browse' }), children] }));
|
|
128
|
+
}
|
|
@@ -6,5 +6,5 @@ declare const FileSelector: ({ inline, location, name, description, rootModel, s
|
|
|
6
6
|
inline?: boolean;
|
|
7
7
|
rootModel?: AbstractRootModel;
|
|
8
8
|
setLocation: (param: FileLocation) => void;
|
|
9
|
-
}) => import("react
|
|
9
|
+
}) => import("react").JSX.Element;
|
|
10
10
|
export default FileSelector;
|
|
@@ -1,40 +1,69 @@
|
|
|
1
|
-
import {
|
|
2
|
-
import { useCallback,
|
|
3
|
-
import { Box,
|
|
1
|
+
import { Fragment as _Fragment, jsx as _jsx, jsxs as _jsxs } from "react/jsx-runtime";
|
|
2
|
+
import { useCallback, useId, useState } from 'react';
|
|
3
|
+
import { Box, FormHelperText, InputLabel } from '@mui/material';
|
|
4
4
|
import { observer } from 'mobx-react';
|
|
5
|
-
import
|
|
6
|
-
import
|
|
7
|
-
import
|
|
8
|
-
import
|
|
9
|
-
import {
|
|
10
|
-
import
|
|
5
|
+
import { notEmpty } from '../../util/index.js';
|
|
6
|
+
import { isUriLocation } from '../../util/types/index.js';
|
|
7
|
+
import LocationInput from './LocationInput.js';
|
|
8
|
+
import SourceTypeSelector from './SourceTypeSelector.js';
|
|
9
|
+
import { useEmptySourceType } from './emptySourceType.js';
|
|
10
|
+
import useInternetAccounts from './useInternetAccounts.js';
|
|
11
|
+
import { addAccountToLocation, availableSourceTypes, getInitialSourceType, sourceTypeForLocation, } from './util.js';
|
|
11
12
|
const FileSelector = observer(function FileSelector({ inline, location, name, description, rootModel, setLocation, }) {
|
|
12
|
-
const
|
|
13
|
-
const
|
|
14
|
-
const
|
|
13
|
+
const emptySourceType = useEmptySourceType();
|
|
14
|
+
const labelId = useId();
|
|
15
|
+
const descriptionId = useId();
|
|
16
|
+
const [sourceType, setSourceType] = useState(() => getInitialSourceType(location, emptySourceType));
|
|
17
|
+
const { accountMap, shownAccounts, hiddenAccounts, recentlyUsed, setRecentlyUsed, } = useInternetAccounts(rootModel);
|
|
18
|
+
// What a location wants and what the group draws are answered separately, so
|
|
19
|
+
// they have to be reconciled somewhere: a selection no button carries leaves
|
|
20
|
+
// the group with nothing pressed. Derived rather than clamped into state, so
|
|
21
|
+
// an account that installs after this mounted takes its selection back.
|
|
22
|
+
const sourceTypes = availableSourceTypes(Object.keys(accountMap));
|
|
23
|
+
const shownSourceType = sourceTypes.includes(sourceType) ? sourceType : 'url';
|
|
24
|
+
// A location the form filled in for the user has to be able to show itself.
|
|
25
|
+
// The toggle is picked once, at mount, from a slot that is usually still
|
|
26
|
+
// empty, so an index detected beside the main file went into the model and
|
|
27
|
+
// rendered as a blank box — under a note saying it had been filled in. Only a
|
|
28
|
+
// location the showing toggle CANNOT render moves it, so this never overrides
|
|
29
|
+
// a toggle the user picked for a slot they are still filling.
|
|
30
|
+
const [lastLocation, setLastLocation] = useState(location);
|
|
31
|
+
if (location !== lastLocation) {
|
|
32
|
+
setLastLocation(location);
|
|
33
|
+
const needed = sourceTypeForLocation(location, shownSourceType);
|
|
34
|
+
if (needed) {
|
|
35
|
+
setSourceType(needed);
|
|
36
|
+
}
|
|
37
|
+
}
|
|
38
|
+
const selectedAccount = accountMap[shownSourceType];
|
|
15
39
|
const handleLocationChange = useCallback((loc) => {
|
|
16
40
|
setLocation(addAccountToLocation(loc, selectedAccount));
|
|
17
41
|
}, [setLocation, selectedAccount]);
|
|
18
|
-
useEffect(() => {
|
|
19
|
-
if (selectedAccount &&
|
|
20
|
-
isUriLocation(location) &&
|
|
21
|
-
location.internetAccountId !== selectedAccount.internetAccountId) {
|
|
22
|
-
handleLocationChange(location);
|
|
23
|
-
}
|
|
24
|
-
}, [location, selectedAccount, handleLocationChange]);
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const handleSourceTypeChange = useCallback((newValue) => {
|
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if (newValue) {
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if (!newValue) {
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return;
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}
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setRecentlyUsed([
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|
+
...new Set([newValue, ...recentlyUsed].filter(notEmpty)),
|
|
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|
+
]);
|
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|
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setSourceType(newValue);
|
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|
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// re-stamp an existing URL for the source type just chosen — the account
|
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// it names, or none at all if it names none. Read from accountMap rather
|
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// than the closed-over selectedAccount, which still reflects the source
|
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// type being left.
|
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if (location && isUriLocation(location)) {
|
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const next = addAccountToLocation(location, accountMap[newValue]);
|
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if (next !== location) {
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setLocation(next);
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}
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}, [location, recentlyUsed, setRecentlyUsed,
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return (_jsxs(_Fragment, { children: [_jsx(Box, { display:
|
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|
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-
|
|
60
|
+
}, [location, recentlyUsed, setRecentlyUsed, accountMap, setLocation]);
|
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|
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return (_jsxs(_Fragment, { children: [_jsx(Box, { sx: { display: 'flex' }, children: _jsx(InputLabel, { id: labelId, shrink: true, children: name }) }), _jsxs(Box, { role: "group", "aria-labelledby": name ? labelId : undefined, "aria-describedby": description ? descriptionId : undefined, sx: {
|
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|
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display: 'flex',
|
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flexDirection: inline ? 'row' : 'column',
|
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|
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gap: 0.5,
|
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}, children: [_jsx(SourceTypeSelector, { value: shownSourceType, sourceTypes: sourceTypes, shownAccounts: shownAccounts, hiddenAccounts: hiddenAccounts, onChange: (_event, newValue) => {
|
|
66
|
+
handleSourceTypeChange(newValue);
|
|
67
|
+
}, onHiddenAccountSelect: handleSourceTypeChange }), _jsx(LocationInput, { toggleButtonValue: shownSourceType, selectedAccount: selectedAccount, location: location, inline: inline, setLocation: handleLocationChange })] }), _jsx(FormHelperText, { id: descriptionId, children: description })] }));
|
|
39
68
|
});
|
|
40
69
|
export default FileSelector;
|
|
@@ -1,6 +1,11 @@
|
|
|
1
1
|
import type { FileLocation } from '../../util/types/index.ts';
|
|
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|
-
declare
|
|
2
|
+
declare global {
|
|
3
|
+
interface Window {
|
|
4
|
+
showOpenFilePicker(): Promise<FileSystemFileHandle[]>;
|
|
5
|
+
}
|
|
6
|
+
}
|
|
7
|
+
declare const LocalFileChooser: ({ location, setLocation, }: {
|
|
3
8
|
location?: FileLocation;
|
|
4
9
|
setLocation: (arg: FileLocation) => void;
|
|
5
|
-
})
|
|
10
|
+
}) => import("react").JSX.Element;
|
|
6
11
|
export default LocalFileChooser;
|
|
@@ -1,35 +1,38 @@
|
|
|
1
1
|
import { jsx as _jsx, jsxs as _jsxs } from "react/jsx-runtime";
|
|
2
2
|
import { Box, Button, FormControl, Typography } from '@mui/material';
|
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|
-
import {
|
|
4
|
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import {
|
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import {
|
|
6
|
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import {
|
|
7
|
-
import {
|
|
3
|
+
import { observer } from 'mobx-react';
|
|
4
|
+
import { isFileSystemAccessSupported } from '../../util/fileHandleStore.js';
|
|
5
|
+
import { isElectron, localStorageGetItem, localStorageSetItem, } from '../../util/index.js';
|
|
6
|
+
import { ensureFileHandleReady, getBlob, getFileFromCache, storeBlobLocation, storeFileHandleLocation, } from '../../util/tracks.js';
|
|
7
|
+
import { makeStyles } from '../../util/tss-react/index.js';
|
|
8
|
+
import { isBlobLocation, isFileHandleLocation, isLocalPathLocation, } from '../../util/types/index.js';
|
|
9
|
+
import { dirFromPath } from './util.js';
|
|
8
10
|
const useStyles = makeStyles()(theme => ({
|
|
9
11
|
filename: {
|
|
10
12
|
marginLeft: theme.spacing(1),
|
|
11
13
|
},
|
|
12
14
|
}));
|
|
13
15
|
const supportsFileSystemAccess = isFileSystemAccessSupported() && !isElectron;
|
|
14
|
-
|
|
15
|
-
|
|
16
|
-
|
|
16
|
+
const LAST_LOCAL_FILE_DIR_KEY = 'jbrowse-last-local-file-dir';
|
|
17
|
+
function getLastLocalFileDir() {
|
|
18
|
+
return localStorageGetItem(LAST_LOCAL_FILE_DIR_KEY);
|
|
19
|
+
}
|
|
20
|
+
function setLastLocalFileDir(filePath) {
|
|
21
|
+
const dir = dirFromPath(filePath);
|
|
22
|
+
if (dir) {
|
|
23
|
+
localStorageSetItem(LAST_LOCAL_FILE_DIR_KEY, dir);
|
|
17
24
|
}
|
|
18
|
-
|
|
25
|
+
}
|
|
26
|
+
function getFilename(location) {
|
|
27
|
+
if (isBlobLocation(location) || isFileHandleLocation(location)) {
|
|
19
28
|
return location.name;
|
|
20
29
|
}
|
|
21
30
|
if (isLocalPathLocation(location)) {
|
|
22
31
|
return location.localPath;
|
|
23
32
|
}
|
|
24
|
-
if (isFileHandleLocation(location)) {
|
|
25
|
-
return location.name;
|
|
26
|
-
}
|
|
27
33
|
return undefined;
|
|
28
34
|
}
|
|
29
35
|
function needsReload(location) {
|
|
30
|
-
if (!location) {
|
|
31
|
-
return false;
|
|
32
|
-
}
|
|
33
36
|
if (isBlobLocation(location)) {
|
|
34
37
|
return !getBlob(location.blobId);
|
|
35
38
|
}
|
|
@@ -38,38 +41,53 @@ function needsReload(location) {
|
|
|
38
41
|
}
|
|
39
42
|
return false;
|
|
40
43
|
}
|
|
41
|
-
|
|
42
|
-
|
|
43
|
-
|
|
44
|
+
// resolves the chosen file's location, or undefined if the user cancelled the
|
|
45
|
+
// native picker (which surfaces as a DOMException AbortError)
|
|
46
|
+
async function pickFileHandleLocation() {
|
|
47
|
+
try {
|
|
48
|
+
const [handle] = await window.showOpenFilePicker();
|
|
49
|
+
// showOpenFilePicker resolves with ≥1 handle on success. await before
|
|
50
|
+
// returning so a rejection unwinds through this try/catch (letting the
|
|
51
|
+
// AbortError check below see it) rather than escaping to the caller
|
|
52
|
+
return await storeFileHandleLocation(handle);
|
|
53
|
+
}
|
|
54
|
+
catch (e) {
|
|
55
|
+
if (e instanceof DOMException && e.name === 'AbortError') {
|
|
56
|
+
return undefined;
|
|
57
|
+
}
|
|
58
|
+
throw e;
|
|
59
|
+
}
|
|
44
60
|
}
|
|
45
61
|
function FilePickerButton({ setLocation, }) {
|
|
46
62
|
if (supportsFileSystemAccess) {
|
|
47
63
|
return (_jsx(Button, { variant: "outlined", onClick: async () => {
|
|
48
|
-
|
|
49
|
-
|
|
64
|
+
const loc = await pickFileHandleLocation();
|
|
65
|
+
if (loc) {
|
|
66
|
+
setLocation(loc);
|
|
50
67
|
}
|
|
51
|
-
|
|
52
|
-
|
|
53
|
-
|
|
54
|
-
|
|
68
|
+
}, children: "Choose File" }));
|
|
69
|
+
}
|
|
70
|
+
if (isElectron) {
|
|
71
|
+
return (_jsx(Button, { variant: "outlined", onClick: async () => {
|
|
72
|
+
// @ts-ignore - electron injects require onto window, needs to be ignore for now
|
|
73
|
+
const { ipcRenderer } = window.require('electron');
|
|
74
|
+
const result = await ipcRenderer.invoke('promptOpenLocalFile', getLastLocalFileDir());
|
|
75
|
+
const filePath = typeof result === 'string' ? result : undefined;
|
|
76
|
+
if (filePath) {
|
|
77
|
+
setLastLocalFileDir(filePath);
|
|
78
|
+
setLocation({
|
|
79
|
+
localPath: filePath,
|
|
80
|
+
locationType: 'LocalPathLocation',
|
|
81
|
+
});
|
|
55
82
|
}
|
|
56
83
|
}, children: "Choose File" }));
|
|
57
84
|
}
|
|
58
85
|
return (_jsxs(Button, { variant: "outlined", component: "label", children: ["Choose File", _jsx("input", { type: "file", hidden: true, onChange: ({ target }) => {
|
|
59
86
|
const file = target.files?.[0];
|
|
60
87
|
if (file) {
|
|
61
|
-
|
|
62
|
-
|
|
63
|
-
setLocation(
|
|
64
|
-
localPath: webUtils.getPathForFile(file),
|
|
65
|
-
locationType: 'LocalPathLocation',
|
|
66
|
-
});
|
|
67
|
-
}
|
|
68
|
-
else {
|
|
69
|
-
const loc = storeBlobLocation({ blob: file });
|
|
70
|
-
if ('blobId' in loc) {
|
|
71
|
-
setLocation(loc);
|
|
72
|
-
}
|
|
88
|
+
const loc = storeBlobLocation({ blob: file });
|
|
89
|
+
if ('blobId' in loc) {
|
|
90
|
+
setLocation(loc);
|
|
73
91
|
}
|
|
74
92
|
}
|
|
75
93
|
} })] }));
|
|
@@ -82,22 +100,18 @@ function ReloadPrompt({ location, setLocation, }) {
|
|
|
82
100
|
setLocation({ ...location });
|
|
83
101
|
}
|
|
84
102
|
catch {
|
|
85
|
-
|
|
86
|
-
|
|
87
|
-
|
|
88
|
-
catch (e) {
|
|
89
|
-
if (e.name !== 'AbortError') {
|
|
90
|
-
throw e;
|
|
91
|
-
}
|
|
103
|
+
const loc = await pickFileHandleLocation();
|
|
104
|
+
if (loc) {
|
|
105
|
+
setLocation(loc);
|
|
92
106
|
}
|
|
93
107
|
}
|
|
94
108
|
}
|
|
95
109
|
};
|
|
96
|
-
return (_jsxs(Box, { display:
|
|
110
|
+
return (_jsxs(Box, { sx: { display: 'flex', alignItems: 'center', gap: 1 }, children: [_jsx(Typography, { color: "error", children: "(need to reload)" }), isFileHandleLocation(location) && (_jsx(Button, { size: "small", variant: "text", color: "primary", onClick: handleReopen, children: "Reopen" }))] }));
|
|
97
111
|
}
|
|
98
|
-
function LocalFileChooser({ location, setLocation, }) {
|
|
112
|
+
const LocalFileChooser = observer(function LocalFileChooser({ location, setLocation, }) {
|
|
99
113
|
const { classes } = useStyles();
|
|
100
114
|
const filename = getFilename(location);
|
|
101
|
-
return (_jsxs(Box, { display:
|
|
102
|
-
}
|
|
115
|
+
return (_jsxs(Box, { sx: { display: 'flex', flexDirection: 'row', alignItems: 'center' }, children: [_jsx(Box, { children: _jsx(FormControl, { fullWidth: true, children: _jsx(FilePickerButton, { setLocation: setLocation }) }) }), _jsxs(Box, { children: [_jsx(Typography, { component: "span", className: classes.filename, color: filename ? 'initial' : 'textSecondary', children: filename || 'No file chosen' }), location && needsReload(location) && (_jsx(ReloadPrompt, { location: location, setLocation: setLocation }))] })] }));
|
|
116
|
+
});
|
|
103
117
|
export default LocalFileChooser;
|
|
@@ -1,15 +1,11 @@
|
|
|
1
1
|
import { jsx as _jsx } from "react/jsx-runtime";
|
|
2
|
-
import LocalFileChooser from
|
|
3
|
-
import UrlChooser from
|
|
2
|
+
import LocalFileChooser from './LocalFileChooser.js';
|
|
3
|
+
import UrlChooser from './UrlChooser.js';
|
|
4
4
|
export default function LocationInput({ toggleButtonValue, selectedAccount, location, inline, setLocation, }) {
|
|
5
|
-
|
|
6
|
-
|
|
7
|
-
|
|
8
|
-
|
|
9
|
-
|
|
10
|
-
}
|
|
11
|
-
if (toggleButtonValue === 'file') {
|
|
12
|
-
return _jsx(LocalFileChooser, { location: location, setLocation: setLocation });
|
|
13
|
-
}
|
|
14
|
-
return null;
|
|
5
|
+
// `file` is the only toggle with an input of its own — URL and every account
|
|
6
|
+
// toggle share the URL box, which is what `selectorLabel` names. Anything
|
|
7
|
+
// else falling through to `null` drew a field label and a toggle group with
|
|
8
|
+
// nothing under them: picking Dropbox did it, and so did a location arriving
|
|
9
|
+
// already stamped with an `internetAccountId`.
|
|
10
|
+
return toggleButtonValue === 'file' ? (_jsx(LocalFileChooser, { location: location, setLocation: setLocation })) : (_jsx(UrlChooser, { location: location, setLocation: setLocation, label: selectedAccount?.selectorLabel, style: inline ? { margin: 0 } : undefined }));
|
|
15
11
|
}
|
|
@@ -1,9 +1,9 @@
|
|
|
1
1
|
import type { BaseInternetAccountModel } from '../../pluggableElementTypes/index.ts';
|
|
2
|
-
export default function SourceTypeSelector({ value,
|
|
2
|
+
export default function SourceTypeSelector({ value, sourceTypes, shownAccounts, hiddenAccounts, onChange, onHiddenAccountSelect, }: {
|
|
3
3
|
value: string;
|
|
4
|
-
|
|
5
|
-
|
|
6
|
-
|
|
4
|
+
sourceTypes: string[];
|
|
5
|
+
shownAccounts: BaseInternetAccountModel[];
|
|
6
|
+
hiddenAccounts: BaseInternetAccountModel[];
|
|
7
7
|
onChange: (event: React.MouseEvent, newValue: string | null) => void;
|
|
8
8
|
onHiddenAccountSelect: (id: string) => void;
|
|
9
|
-
}): import("react
|
|
9
|
+
}): import("react").JSX.Element;
|
|
@@ -1,20 +1,22 @@
|
|
|
1
1
|
import { jsx as _jsx, jsxs as _jsxs } from "react/jsx-runtime";
|
|
2
2
|
import ArrowDropDownIcon from '@mui/icons-material/ArrowDropDown';
|
|
3
3
|
import { ToggleButton, ToggleButtonGroup, Tooltip } from '@mui/material';
|
|
4
|
-
import CascadingMenuButton from
|
|
5
|
-
import { getAccountLabel
|
|
4
|
+
import CascadingMenuButton from '../CascadingMenuButton.js';
|
|
5
|
+
import { getAccountLabel } from './util.js';
|
|
6
6
|
function AccountToggleButton({ account, }) {
|
|
7
7
|
return (_jsx(Tooltip, { title: account.name, children: _jsx(ToggleButton, { value: account.internetAccountId, children: getAccountLabel(account) }) }));
|
|
8
8
|
}
|
|
9
9
|
function MoreButton({ onClick, disabled, children, }) {
|
|
10
|
-
return (_jsx(ToggleButton, { value: "more", selected: false, disabled: disabled,
|
|
10
|
+
return (_jsx(ToggleButton, { value: "more", selected: false, disabled: disabled,
|
|
11
|
+
// ToggleButton types its target as HTMLElement, but it always renders a
|
|
12
|
+
// <button>, so narrowing to HTMLButtonElement for CascadingMenuButton's
|
|
13
|
+
// ButtonComponent contract is sound
|
|
14
|
+
onClick: e => {
|
|
11
15
|
onClick(e);
|
|
12
16
|
}, children: children }));
|
|
13
17
|
}
|
|
14
|
-
export default function SourceTypeSelector({ value,
|
|
15
|
-
|
|
16
|
-
const hiddenAccounts = hiddenAccountIds.map(id => accountMap[id]);
|
|
17
|
-
return (_jsxs(ToggleButtonGroup, { value: value, exclusive: true, size: "small", onChange: onChange, "aria-label": "file, url, or account picker", children: [!isAdminMode() && (_jsx(ToggleButton, { value: "file", "aria-label": "local file", children: "File" })), _jsx(ToggleButton, { value: "url", "aria-label": "url", children: "URL" }), shownAccounts.map(account => (_jsx(AccountToggleButton, { account: account }, account.internetAccountId))), hiddenAccounts.length > 0 && (_jsxs(CascadingMenuButton, { menuItems: hiddenAccounts.map(account => ({
|
|
18
|
+
export default function SourceTypeSelector({ value, sourceTypes, shownAccounts, hiddenAccounts, onChange, onHiddenAccountSelect, }) {
|
|
19
|
+
return (_jsxs(ToggleButtonGroup, { value: value, exclusive: true, size: "small", onChange: onChange, "aria-label": "file, url, or account picker", children: [sourceTypes.includes('file') && (_jsx(ToggleButton, { value: "file", "aria-label": "local file", children: "File" })), _jsx(ToggleButton, { value: "url", "aria-label": "url", children: "URL" }), shownAccounts.map(account => (_jsx(AccountToggleButton, { account: account }, account.internetAccountId))), hiddenAccounts.length > 0 && (_jsxs(CascadingMenuButton, { menuItems: hiddenAccounts.map(account => ({
|
|
18
20
|
label: account.name,
|
|
19
21
|
onClick: () => {
|
|
20
22
|
onHiddenAccountSelect(account.internetAccountId);
|
|
@@ -4,5 +4,5 @@ declare const UrlChooser: ({ location, label, style, setLocation, }: {
|
|
|
4
4
|
label?: string;
|
|
5
5
|
style?: Record<string, unknown>;
|
|
6
6
|
setLocation: (arg: FileLocation) => void;
|
|
7
|
-
}) => import("react
|
|
7
|
+
}) => import("react").JSX.Element;
|
|
8
8
|
export default UrlChooser;
|