@rcsb/rcsb-saguaro-app 6.0.0-development.1 → 6.0.0-development.2
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/lib/ExternalResources/NcbiData/NcbiGenomeSequenceData.d.ts +7 -0
- package/lib/ExternalResources/NcbiData/NcbiGenomeSequenceData.js +65 -0
- package/lib/ExternalResources/NcbiData/NcbiSummary.d.ts +24 -0
- package/lib/ExternalResources/NcbiData/NcbiSummary.js +81 -0
- package/lib/RcsbAnnotationConfig/AnnotationConfigInterface.d.ts +66 -0
- package/lib/RcsbAnnotationConfig/AnnotationConfigInterface.js +1 -0
- package/lib/RcsbAnnotationConfig/GroupAnnotationConfig.ac.json +98 -0
- package/lib/RcsbAnnotationConfig/RcsbAnnotationConfig.ac.json +670 -0
- package/lib/RcsbAnnotationConfig/RcsbAnnotationConfig.d.ts +31 -0
- package/lib/RcsbAnnotationConfig/RcsbAnnotationConfig.js +183 -0
- package/lib/RcsbAnnotationConfig/RcsbAnnotationConstants.d.ts +15 -0
- package/lib/RcsbAnnotationConfig/RcsbAnnotationConstants.js +17 -0
- package/lib/RcsbAnnotationConfig/RcsbDistributionConfig.d.ts +12 -0
- package/lib/RcsbAnnotationConfig/RcsbDistributionConfig.dc.json +59 -0
- package/lib/RcsbAnnotationConfig/RcsbDistributionConfig.js +31 -0
- package/lib/RcsbAnnotationConfig/RcsbResidueConfig.ac.json +685 -0
- package/lib/RcsbChartWeb/AbsractChartComponent.d.ts +21 -0
- package/lib/RcsbChartWeb/AbsractChartComponent.js +48 -0
- package/lib/RcsbChartWeb/BarChartComponent.d.ts +4 -0
- package/lib/RcsbChartWeb/BarChartComponent.js +10 -0
- package/lib/RcsbChartWeb/HistogramChartComponent.d.ts +5 -0
- package/lib/RcsbChartWeb/HistogramChartComponent.js +10 -0
- package/lib/RcsbCollectTools/AlignmentCollector/AlignmentCollector.d.ts +17 -0
- package/lib/RcsbCollectTools/AlignmentCollector/AlignmentCollector.js +104 -0
- package/lib/RcsbCollectTools/AlignmentCollector/AlignmentCollectorInterface.d.ts +29 -0
- package/lib/RcsbCollectTools/AlignmentCollector/AlignmentCollectorInterface.js +1 -0
- package/lib/RcsbCollectTools/AnnotationCollector/AnnotationCollector.d.ts +16 -0
- package/lib/RcsbCollectTools/AnnotationCollector/AnnotationCollector.js +83 -0
- package/lib/RcsbCollectTools/AnnotationCollector/AnnotationCollectorInterface.d.ts +37 -0
- package/lib/RcsbCollectTools/AnnotationCollector/AnnotationCollectorInterface.js +1 -0
- package/lib/RcsbCollectTools/DataCollectors/AssemblyInterfacesCollector.d.ts +9 -0
- package/lib/RcsbCollectTools/DataCollectors/AssemblyInterfacesCollector.js +31 -0
- package/lib/RcsbCollectTools/DataCollectors/DataCollectorInterface.d.ts +7 -0
- package/lib/RcsbCollectTools/DataCollectors/DataCollectorInterface.js +1 -0
- package/lib/RcsbCollectTools/DataCollectors/EntryAssembliesCollector.d.ts +10 -0
- package/lib/RcsbCollectTools/DataCollectors/EntryAssembliesCollector.js +92 -0
- package/lib/RcsbCollectTools/DataCollectors/GroupMemberCollector.d.ts +6 -0
- package/lib/RcsbCollectTools/DataCollectors/GroupMemberCollector.js +21 -0
- package/lib/RcsbCollectTools/DataCollectors/GroupPropertyCollector.d.ts +10 -0
- package/lib/RcsbCollectTools/DataCollectors/GroupPropertyCollector.js +26 -0
- package/lib/RcsbCollectTools/DataCollectors/InterfaceInstanceCollector.d.ts +12 -0
- package/lib/RcsbCollectTools/DataCollectors/InterfaceInstanceCollector.js +41 -0
- package/lib/RcsbCollectTools/DataCollectors/MultipleEntityInstancesCollector.d.ts +8 -0
- package/lib/RcsbCollectTools/DataCollectors/MultipleEntityInstancesCollector.js +32 -0
- package/lib/RcsbCollectTools/DataCollectors/MultipleEntryPropertyCollector.d.ts +19 -0
- package/lib/RcsbCollectTools/DataCollectors/MultipleEntryPropertyCollector.js +28 -0
- package/lib/RcsbCollectTools/DataCollectors/MultipleInstanceSequencesCollector.d.ts +11 -0
- package/lib/RcsbCollectTools/DataCollectors/MultipleInstanceSequencesCollector.js +22 -0
- package/lib/RcsbCollectTools/DataCollectors/MultiplePolymerEntityCollector.d.ts +12 -0
- package/lib/RcsbCollectTools/DataCollectors/MultiplePolymerEntityCollector.js +26 -0
- package/lib/RcsbCollectTools/DataCollectors/PolymerEntityChromosomeCollector.d.ts +5 -0
- package/lib/RcsbCollectTools/DataCollectors/PolymerEntityChromosomeCollector.js +39 -0
- package/lib/RcsbCollectTools/DataCollectors/PolymerEntityInstancesCollector.d.ts +24 -0
- package/lib/RcsbCollectTools/DataCollectors/PolymerEntityInstancesCollector.js +67 -0
- package/lib/RcsbCollectTools/FeatureTools/ExternalTrackBuilderInterface.d.ts +23 -0
- package/lib/RcsbCollectTools/FeatureTools/ExternalTrackBuilderInterface.js +1 -0
- package/lib/RcsbCollectTools/FeatureTools/FeatureTools.d.ts +9 -0
- package/lib/RcsbCollectTools/FeatureTools/FeatureTools.js +85 -0
- package/lib/RcsbExport/FeatureType.d.ts +10 -0
- package/lib/RcsbExport/FeatureType.js +9 -0
- package/lib/RcsbExport/RcsbFvUI.d.ts +7 -0
- package/lib/RcsbExport/RcsbFvUI.js +12 -0
- package/lib/RcsbFvExamples/ChromosomeFv.d.ts +1 -0
- package/lib/RcsbFvExamples/ChromosomeFv.js +4 -0
- package/lib/RcsbFvExamples/EntitySummaryFv.d.ts +1 -0
- package/lib/RcsbFvExamples/EntitySummaryFv.js +4 -0
- package/lib/RcsbFvExamples/ExternalDataProvider.d.ts +1 -0
- package/lib/RcsbFvExamples/ExternalDataProvider.js +951 -0
- package/lib/RcsbFvExamples/GroupHistogram.d.ts +1 -0
- package/lib/RcsbFvExamples/GroupHistogram.js +13 -0
- package/lib/RcsbFvExamples/InstanceFv.d.ts +1 -0
- package/lib/RcsbFvExamples/InstanceFv.js +20 -0
- package/lib/RcsbFvExamples/InstanceSequenceFv.d.ts +1 -0
- package/lib/RcsbFvExamples/InstanceSequenceFv.js +67 -0
- package/lib/RcsbFvExamples/ResidueDistribution.d.ts +1 -0
- package/lib/RcsbFvExamples/ResidueDistribution.js +5 -0
- package/lib/RcsbFvExamples/SequenceIdentityGroupAlignmentFv.d.ts +1 -0
- package/lib/RcsbFvExamples/SequenceIdentityGroupAlignmentFv.js +60 -0
- package/lib/RcsbFvExamples/SequenceIdentityGroupFv.d.ts +1 -0
- package/lib/RcsbFvExamples/SequenceIdentityGroupFv.js +41 -0
- package/lib/RcsbFvExamples/SingleEntitySummaryFv.d.ts +1 -0
- package/lib/RcsbFvExamples/SingleEntitySummaryFv.js +2 -0
- package/lib/RcsbFvExamples/TestCollectors.d.ts +1 -0
- package/lib/RcsbFvExamples/TestCollectors.js +112 -0
- package/lib/RcsbFvExamples/UniprotAlignmentFv.d.ts +1 -0
- package/lib/RcsbFvExamples/UniprotAlignmentFv.js +2 -0
- package/lib/RcsbFvExamples/UniprotEntityInstanceFv.d.ts +1 -0
- package/lib/RcsbFvExamples/UniprotEntityInstanceFv.js +42 -0
- package/lib/RcsbFvExamples/UniprotFv.d.ts +1 -0
- package/lib/RcsbFvExamples/UniprotFv.js +10 -0
- package/lib/RcsbFvExamples/UniprotGroupFv.d.ts +1 -0
- package/lib/RcsbFvExamples/UniprotGroupFv.js +70 -0
- package/lib/RcsbFvUI/AbstractMenuItemComponent.d.ts +11 -0
- package/lib/RcsbFvUI/AbstractMenuItemComponent.js +6 -0
- package/lib/RcsbFvUI/Components/FilterItemComponent.d.ts +17 -0
- package/lib/RcsbFvUI/Components/FilterItemComponent.js +16 -0
- package/lib/RcsbFvUI/Components/ItemComponent.d.ts +4 -0
- package/lib/RcsbFvUI/Components/ItemComponent.js +7 -0
- package/lib/RcsbFvUI/Components/PaginationItemComponent.d.ts +23 -0
- package/lib/RcsbFvUI/Components/PaginationItemComponent.js +81 -0
- package/lib/RcsbFvUI/GroupPfvUI.d.ts +10 -0
- package/lib/RcsbFvUI/GroupPfvUI.js +25 -0
- package/lib/RcsbFvUI/Helper/ActionMethods.d.ts +11 -0
- package/lib/RcsbFvUI/Helper/ActionMethods.js +29 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvAssemblyBuilder.d.ts +5 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvAssemblyBuilder.js +40 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvChromosomeBuilder.d.ts +7 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvChromosomeBuilder.js +93 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvContextManager.d.ts +14 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvContextManager.js +48 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvCoreBuilder.d.ts +35 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvCoreBuilder.js +91 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvDataProviderBuilder.d.ts +4 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvDataProviderBuilder.js +27 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvEntityBuilder.d.ts +7 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvEntityBuilder.js +88 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvGroupAlignmentBuilder.d.ts +8 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvGroupAlignmentBuilder.js +84 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvGroupBuilder.d.ts +6 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvGroupBuilder.js +53 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvInstanceBuilder.d.ts +25 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvInstanceBuilder.js +110 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvPairwiseAligmentBuilder.d.ts +5 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvPairwiseAligmentBuilder.js +28 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvProteinSequenceBuilder.d.ts +12 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvProteinSequenceBuilder.js +42 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvUniprotBuilder.d.ts +17 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder/RcsbFvUniprotBuilder.js +159 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder.d.ts +30 -0
- package/lib/RcsbFvWeb/RcsbFvBuilder.js +78 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/ComponentsManager.d.ts +23 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/ComponentsManager.js +63 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/LoaderSpinner.d.ts +4 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/LoaderSpinner.js +8 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/MountableComponent.d.ts +8 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/MountableComponent.js +14 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/RcsbTabs.d.ts +19 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/RcsbTabs.js +20 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/SelectButton.d.ts +54 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/SelectButton.js +116 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/SelectButtonManager.d.ts +17 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/SelectButtonManager.js +54 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/SelectButtonTitle.d.ts +6 -0
- package/lib/RcsbFvWeb/RcsbFvComponents/SelectButtonTitle.js +7 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/AlignmentBlockFactory.d.ts +11 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/AlignmentBlockFactory.js +23 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/AnnotationsBlockFactory.d.ts +15 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/AnnotationsBlockFactory.js +19 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/BlockFactoryInterface.d.ts +7 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/BlockFactoryInterface.js +1 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/BlockManager/AnnotationBlockManager.d.ts +21 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/BlockManager/AnnotationBlockManager.js +98 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/BlockManager/AnnotationTrackManager.d.ts +11 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/BlockManager/AnnotationTrackManager.js +241 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/BlockManager/BlockManagerInterface.d.ts +5 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/BlockManager/BlockManagerInterface.js +1 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/BlockManager/TrackManagerInterface.d.ts +28 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvBlockFactory/BlockManager/TrackManagerInterface.js +1 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/RcsbFvTrackDataAnnotationInterface.d.ts +35 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/RcsbFvTrackDataAnnotationInterface.js +1 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/AlignmentTrackFactory.d.ts +19 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/AlignmentTrackFactory.js +128 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/AnnotationsTrackFactory.d.ts +9 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/AnnotationsTrackFactory.js +145 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/Helper/TrackUtils.d.ts +9 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/Helper/TrackUtils.js +36 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/MsaAlignmentTrackFactory.d.ts +12 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/MsaAlignmentTrackFactory.js +24 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/PlainAlignmentTrackFactory.d.ts +23 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/PlainAlignmentTrackFactory.js +128 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/PlainObservedAlignmentTrackFactory.d.ts +17 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/PlainObservedAlignmentTrackFactory.js +110 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/PositionalScoreAlignmentTrackFactory.d.ts +17 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/PositionalScoreAlignmentTrackFactory.js +114 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/SequenceTrackFactory.d.ts +21 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/SequenceTrackFactory.js +76 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryInterface.d.ts +4 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryInterface.js +1 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/AlignmentTrackTitleFactory.d.ts +13 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/AlignmentTrackTitleFactory.js +34 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/AnnotationsTrackTitleFactory.d.ts +8 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/AnnotationsTrackTitleFactory.js +34 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/ExperimentalAlignmentTrackTitleFactory.d.ts +13 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/ExperimentalAlignmentTrackTitleFactory.js +77 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/InstanceSequenceTrackTitleFactory.d.ts +11 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/InstanceSequenceTrackTitleFactory.js +22 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/ModelAlignmentTrackTitleFactory.d.ts +12 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/ModelAlignmentTrackTitleFactory.js +27 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/SequenceTrackTitleFactory.d.ts +12 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/SequenceTrackTitleFactory.js +67 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryInterface.d.ts +6 -0
- package/lib/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryInterface.js +1 -0
- package/lib/RcsbFvWeb/RcsbFvGroup/GroupPfvTabs.d.ts +28 -0
- package/lib/RcsbFvWeb/RcsbFvGroup/GroupPfvTabs.js +109 -0
- package/lib/RcsbFvWeb/RcsbFvGroup/GroupTabs/GroupPfvApp.d.ts +10 -0
- package/lib/RcsbFvWeb/RcsbFvGroup/GroupTabs/GroupPfvApp.js +131 -0
- package/lib/RcsbFvWeb/RcsbFvGroup/RcsbFvGroupTabsBuilder.d.ts +6 -0
- package/lib/RcsbFvWeb/RcsbFvGroup/RcsbFvGroupTabsBuilder.js +12 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvAbstractModule.d.ts +47 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvAbstractModule.js +143 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvChromosome.d.ts +49 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvChromosome.js +738 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvDataProvider.d.ts +5 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvDataProvider.js +25 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvEntity.d.ts +6 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvEntity.js +56 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvGroupAlignment.d.ts +7 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvGroupAlignment.js +101 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvGroupAnnotation.d.ts +7 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvGroupAnnotation.js +52 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvInstance.d.ts +5 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvInstance.js +52 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvInterface.d.ts +12 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvInterface.js +123 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvModuleInterface.d.ts +95 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvModuleInterface.js +1 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvPairwiseAlignment.d.ts +5 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvPairwiseAlignment.js +21 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvProteinSequence.d.ts +5 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvProteinSequence.js +50 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvUniprot.d.ts +5 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvUniprot.js +69 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvUniprotAlignment.d.ts +5 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvUniprotAlignment.js +71 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvUniprotEntity.d.ts +6 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvUniprotEntity.js +63 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvUniprotInstance.d.ts +5 -0
- package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvUniprotInstance.js +63 -0
- package/lib/RcsbFvWeb/RcsbFvTooltip/RcsbFvTooltip.d.ts +8 -0
- package/lib/RcsbFvWeb/RcsbFvTooltip/RcsbFvTooltip.js +82 -0
- package/lib/RcsbFvWeb/RcsbFvWorkers/RcsbFvAlignmentCollectorQueue.d.ts +12 -0
- package/lib/RcsbFvWeb/RcsbFvWorkers/RcsbFvAlignmentCollectorQueue.js +67 -0
- package/lib/RcsbFvWeb/RcsbFvWorkers/RcsbFvAlignmentCollectorWorker.worker.d.ts +1 -0
- package/lib/RcsbFvWeb/RcsbFvWorkers/RcsbFvAlignmentCollectorWorker.worker.js +10 -0
- package/lib/RcsbGraphQL/RcsbClient.d.ts +35 -0
- package/lib/RcsbGraphQL/RcsbClient.js +83 -0
- package/lib/RcsbGraphQL/RcsbCoreQueryInterface.d.ts +5 -0
- package/lib/RcsbGraphQL/RcsbCoreQueryInterface.js +1 -0
- package/lib/RcsbGraphQL/RcsbQueryAlignment.d.ts +20 -0
- package/lib/RcsbGraphQL/RcsbQueryAlignment.js +43 -0
- package/lib/RcsbGraphQL/RcsbQueryAnnotations.d.ts +13 -0
- package/lib/RcsbGraphQL/RcsbQueryAnnotations.js +43 -0
- package/lib/RcsbGraphQL/RcsbQueryAssemblyInterfaces.d.ts +8 -0
- package/lib/RcsbGraphQL/RcsbQueryAssemblyInterfaces.js +19 -0
- package/lib/RcsbGraphQL/RcsbQueryEntryInstances.d.ts +8 -0
- package/lib/RcsbGraphQL/RcsbQueryEntryInstances.js +21 -0
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- package/lib/commonjs/RcsbQueries/Yosemite/QueryInterfaceInstances.graphql +18 -0
- package/lib/commonjs/RcsbQueries/Yosemite/QueryMultipleEntityInstances.graphql +39 -0
- package/lib/commonjs/RcsbQueries/Yosemite/QueryMultipleEntriesProperties.graphql +30 -0
- package/lib/commonjs/RcsbQueries/Yosemite/QueryMultipleInstanceSequences.graphql +11 -0
- package/lib/commonjs/RcsbQueries/Yosemite/schema.graphql +14224 -0
- package/lib/commonjs/RcsbRequest/RcsbRequestClient.d.ts +7 -0
- package/lib/commonjs/RcsbRequest/RcsbRequestClient.js +10 -0
- package/lib/commonjs/RcsbRequest/RcsbRequestContextManager.d.ts +62 -0
- package/lib/commonjs/RcsbRequest/RcsbRequestContextManager.js +156 -0
- package/lib/commonjs/RcsbRequest/RcsbRequestTools.d.ts +5 -0
- package/lib/commonjs/RcsbRequest/RcsbRequestTools.js +39 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/DepositionGroupFacetStore.d.ts +15 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/DepositionGroupFacetStore.js +60 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/EntityGranularitySearchFacetStore.d.ts +15 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/EntityGranularitySearchFacetStore.js +37 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/FacetMemberInterface.d.ts +16 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/FacetMemberInterface.js +2 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/FacetStoreInterface.d.ts +8 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/FacetStoreInterface.js +2 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/SequenceGroupFacetStore.d.ts +15 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/SequenceGroupFacetStore.js +60 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/SingleFacets.d.ts +39 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/SingleFacets.js +563 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/UniprotGroupFacetStore.d.ts +15 -0
- package/lib/commonjs/RcsbSeacrh/FacetStore/UniprotGroupFacetStore.js +60 -0
- package/lib/commonjs/RcsbSeacrh/FacetTools.d.ts +62 -0
- package/lib/commonjs/RcsbSeacrh/FacetTools.js +108 -0
- package/lib/commonjs/RcsbSeacrh/SearchQueryTools.d.ts +17 -0
- package/lib/commonjs/RcsbSeacrh/SearchQueryTools.js +117 -0
- package/lib/commonjs/RcsbSeacrh/SearchRequestProperty.d.ts +17 -0
- package/lib/commonjs/RcsbSeacrh/SearchRequestProperty.js +73 -0
- package/lib/commonjs/RcsbServerConfig/ServerConfig.d.ts +1 -0
- package/lib/commonjs/RcsbServerConfig/ServerConfig.js +6 -0
- package/lib/commonjs/RcsbServerConfig/codegen.borrego.json +4 -0
- package/lib/commonjs/RcsbServerConfig/codegen.yosemite.json +4 -0
- package/lib/commonjs/RcsbServerConfig/web.resources.json +43 -0
- package/lib/commonjs/RcsbUtils/Groups/GroupGapLessTransformer.d.ts +8 -0
- package/lib/commonjs/RcsbUtils/Groups/GroupGapLessTransformer.js +80 -0
- package/lib/commonjs/RcsbUtils/Groups/GroupPropertiesProvider.d.ts +16 -0
- package/lib/commonjs/RcsbUtils/Groups/GroupPropertiesProvider.js +31 -0
- package/lib/commonjs/RcsbUtils/Groups/GroupProvenanceToAggregationType.d.ts +6 -0
- package/lib/commonjs/RcsbUtils/Groups/GroupProvenanceToAggregationType.js +10 -0
- package/lib/commonjs/RcsbUtils/Helpers/Assertions.d.ts +5 -0
- package/lib/commonjs/RcsbUtils/Helpers/Assertions.js +29 -0
- package/lib/commonjs/RcsbUtils/Helpers/DataContainer.d.ts +9 -0
- package/lib/commonjs/RcsbUtils/Helpers/DataContainer.js +16 -0
- package/lib/commonjs/RcsbUtils/Helpers/ObservableHelper.d.ts +4 -0
- package/lib/commonjs/RcsbUtils/Helpers/ObservableHelper.js +16 -0
- package/lib/commonjs/RcsbUtils/Helpers/Operator.d.ts +5 -0
- package/lib/commonjs/RcsbUtils/Helpers/Operator.js +19 -0
- package/lib/commonjs/RcsbUtils/Helpers/SingletonMap.d.ts +4 -0
- package/lib/commonjs/RcsbUtils/Helpers/SingletonMap.js +15 -0
- package/lib/commonjs/RcsbUtils/Helpers/UrlTools.d.ts +11 -0
- package/lib/commonjs/RcsbUtils/Helpers/UrlTools.js +34 -0
- package/lib/commonjs/RcsbUtils/PairwiseAlignmentTools/AlignmentReference.d.ts +17 -0
- package/lib/commonjs/RcsbUtils/PairwiseAlignmentTools/AlignmentReference.js +169 -0
- package/lib/commonjs/RcsbUtils/PairwiseAlignmentTools/PairwiseAlignmentBuilder.d.ts +37 -0
- package/lib/commonjs/RcsbUtils/PairwiseAlignmentTools/PairwiseAlignmentBuilder.js +295 -0
- package/lib/commonjs/RcsbUtils/TrackGenerators/AlignmentGlobalBindingSite.d.ts +2 -0
- package/lib/commonjs/RcsbUtils/TrackGenerators/AlignmentGlobalBindingSite.js +103 -0
- package/lib/commonjs/RcsbUtils/TrackGenerators/BurialFraction.d.ts +3 -0
- package/lib/commonjs/RcsbUtils/TrackGenerators/BurialFraction.js +67 -0
- package/lib/commonjs/RcsbUtils/TrackGenerators/BuriedResidues.d.ts +3 -0
- package/lib/commonjs/RcsbUtils/TrackGenerators/BuriedResidues.js +52 -0
- package/lib/commonjs/RcsbUtils/TrackGenerators/GroupExternalTrackBuilder.d.ts +2 -0
- package/lib/commonjs/RcsbUtils/TrackGenerators/GroupExternalTrackBuilder.js +100 -0
- package/lib/commonjs/RcsbUtils/TrackGenerators/Logo.d.ts +16 -0
- package/lib/commonjs/RcsbUtils/TrackGenerators/Logo.js +49 -0
- package/lib/commonjs/RcsbUtils/Translators/AssemblyInterfacesTranslate.d.ts +8 -0
- package/lib/commonjs/RcsbUtils/Translators/AssemblyInterfacesTranslate.js +19 -0
- package/lib/commonjs/RcsbUtils/Translators/EntryAssemblyTranslate.d.ts +6 -0
- package/lib/commonjs/RcsbUtils/Translators/EntryAssemblyTranslate.js +12 -0
- package/lib/commonjs/RcsbUtils/Translators/InterfaceInstanceTranslate.d.ts +10 -0
- package/lib/commonjs/RcsbUtils/Translators/InterfaceInstanceTranslate.js +24 -0
- package/lib/commonjs/RcsbUtils/Translators/MultipleEntityInstanceTranslate.d.ts +10 -0
- package/lib/commonjs/RcsbUtils/Translators/MultipleEntityInstanceTranslate.js +37 -0
- package/lib/commonjs/RcsbUtils/Translators/PolymerEntityChromosomeTranslate.d.ts +5 -0
- package/lib/commonjs/RcsbUtils/Translators/PolymerEntityChromosomeTranslate.js +12 -0
- package/lib/commonjs/RcsbUtils/Translators/PolymerEntityInstanceTranslate.d.ts +29 -0
- package/lib/commonjs/RcsbUtils/Translators/PolymerEntityInstanceTranslate.js +96 -0
- package/lib/commonjs/app.d.ts +11 -0
- package/lib/commonjs/app.js +46 -0
- package/lib/commonjs/constants.d.ts +1 -0
- package/lib/commonjs/constants.js +5 -0
- package/lib/commonjs/plot.d.ts +1 -0
- package/lib/commonjs/plot.js +10 -0
- package/lib/commonjs/scss/bootstrap-fv-display.module.scss +40 -0
- package/lib/commonjs/scss/bootstrap-fv.scss +42 -0
- package/lib/commonjs/scss/bootstrap-group-display.module.scss +19 -0
- package/lib/commonjs/scss/bootstrap-mixin.module.scss +119 -0
- package/lib/commonjs/scss/load-spinner.scss +45 -0
- package/lib/constants.d.ts +1 -0
- package/lib/constants.js +1 -0
- package/lib/plot.d.ts +1 -0
- package/lib/plot.js +1 -0
- package/lib/scss/bootstrap-fv-display.module.scss +40 -0
- package/lib/scss/bootstrap-fv.scss +42 -0
- package/lib/scss/bootstrap-group-display.module.scss +19 -0
- package/lib/scss/bootstrap-mixin.module.scss +119 -0
- package/lib/scss/load-spinner.scss +45 -0
- package/package.json +3 -2
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"use strict";
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Object.defineProperty(exports, "__esModule", { value: true });
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exports.SearchFacets = exports.GO_COMPONENT_FACET = exports.GO_PROCESS_FACET = exports.GO_FUNCTION_FACET = exports.ENZYME_CLASS_FACET = exports.CHEM_COMP_FACET = exports.ENTITY_NAME_FACET = exports.PFAM_FACET = exports.TAXONOMY_FACET = exports.ORGANISM_FACET = exports.LIGAND_OF_INTEREST_FACET = exports.LIGAND_FACET = exports.ECOD_FACET = exports.CATH_FACET = exports.SCOP_FACET = exports.RELEASE_DATE_FACET = exports.METHODOLOGY_FACET = exports.RESOLUTION_FACET = exports.EXPERIMENTAL_METHOD_FACET = void 0;
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const SearchMetadata_1 = require("@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchMetadata");
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const SearchEnums_1 = require("@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchEnums");
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const ChartConfigInterface_1 = require("@rcsb/rcsb-charts/lib/RcsbChartComponent/ChartConfigInterface");
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exports.EXPERIMENTAL_METHOD_FACET = {
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id: "method",
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title: "Experimental Method",
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attributeName: "EXPERIMENTAL_METHOD_FACET",
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attribute: SearchMetadata_1.RcsbSearchMetadata.Exptl.Method.path,
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chartType: ChartConfigInterface_1.ChartType.barplot,
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chartConfig: {
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facet: {
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name: "EXPERIMENTAL_METHOD_FACET",
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aggregation_type: SearchEnums_1.AggregationType.Terms,
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attribute: SearchMetadata_1.RcsbSearchMetadata.Exptl.Method.path,
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min_interval_population: 1
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}
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};
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exports.RESOLUTION_FACET = {
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id: "resolution",
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title: "Resolution",
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attributeName: "RESOLUTION_FACET",
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbEntryInfo.ResolutionCombined.path,
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contentType: "number",
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chartType: ChartConfigInterface_1.ChartType.histogram,
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chartConfig: {
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chartDisplayConfig: {
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histogramBinIncrement: 0.5,
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mergeDomainMaxValue: 5,
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domainMinValue: 0,
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axisLabel: "Angstroms",
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tooltipText: (d) => {
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return "> 5";
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return `Resolution ${d.x - 0.25} - ${d.x + 0.25}`;
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}
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},
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facet: {
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name: "RESOLUTION_FACET",
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aggregation_type: SearchEnums_1.AggregationType.Histogram,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbEntryInfo.ResolutionCombined.path,
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interval: 0.5,
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min_interval_population: 1,
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exports.METHODOLOGY_FACET = {
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id: "computed",
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title: "Determination Methodology",
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attributeName: "METHODOLOGY_FACET",
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbEntryInfo.StructureDeterminationMethodology.path,
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chartType: ChartConfigInterface_1.ChartType.barplot,
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facet: {
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name: "METHODOLOGY_FACET",
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aggregation_type: SearchEnums_1.AggregationType.Terms,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbEntryInfo.StructureDeterminationMethodology.path,
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exports.RELEASE_DATE_FACET = {
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id: "release_date",
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title: undefined,
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attributeName: "RELEASE_DATE_FACET",
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbAccessionInfo.InitialReleaseDate.path,
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chartConfig: {
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increment: 10
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histogramBinIncrement: 1,
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domainMinValue: 1970,
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domainMaxValue: new Date().getFullYear() + 2,
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axisLabel: "Year",
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chartDisplayConfig: {
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constHeight: 225
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},
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tooltipText: (d) => {
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return `Release ${d.x - 0.5} - ${d.x + 0.5}`;
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}
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},
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facet: {
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name: "RELEASE_DATE_FACET",
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aggregation_type: SearchEnums_1.AggregationType.DateHistogram,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbAccessionInfo.InitialReleaseDate.path,
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interval: "year",
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}
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};
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exports.SCOP_FACET = {
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id: "scop_class",
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title: "SCOP/SCOPe Domain",
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attributeName: "SCOP_FACET",
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Name.path,
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contentType: "string",
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chartType: ChartConfigInterface_1.ChartType.barplot,
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chartConfig: {
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mostPopulatedGroups: 10
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},
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facet: {
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filter: {
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type: SearchEnums_1.Type.Terminal,
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service: SearchEnums_1.Service.Text,
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parameters: {
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operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.Type.operator.ExactMatch,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.Type.path,
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value: 'SCOP'
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}
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},
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facets: [{
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filter: {
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type: SearchEnums_1.Type.Terminal,
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service: SearchEnums_1.Service.Text,
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parameters: {
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operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Depth.operator.Equals,
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value: 5,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Depth.path
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}
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},
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facets: [{
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name: "SCOP_FACET",
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min_interval_population: 1,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Name.path,
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aggregation_type: SearchEnums_1.AggregationType.Terms
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}]
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}]
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}
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};
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exports.CATH_FACET = {
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id: "cath_class",
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title: "CATH Domain",
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attributeName: "CATH_FACET",
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Name.path,
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contentType: "string",
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chartType: ChartConfigInterface_1.ChartType.barplot,
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chartConfig: {
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mostPopulatedGroups: 10
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},
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facet: {
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filter: {
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type: SearchEnums_1.Type.Terminal,
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service: SearchEnums_1.Service.Text,
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parameters: {
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operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.Type.operator.ExactMatch,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.Type.path,
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value: 'CATH'
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}
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},
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facets: [{
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filter: {
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type: SearchEnums_1.Type.Terminal,
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service: SearchEnums_1.Service.Text,
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parameters: {
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operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Depth.operator.Equals,
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value: 4,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Depth.path
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}
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},
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facets: [{
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name: "CATH_FACET",
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min_interval_population: 1,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Name.path,
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aggregation_type: SearchEnums_1.AggregationType.Terms
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}]
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}]
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}
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};
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exports.ECOD_FACET = {
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id: "ecod_class",
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title: "ECOD Domain",
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attributeName: "ECOD_FACET",
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Name.path,
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contentType: "string",
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chartType: ChartConfigInterface_1.ChartType.barplot,
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chartConfig: {
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mostPopulatedGroups: 10
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},
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facet: {
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filter: {
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type: SearchEnums_1.Type.Terminal,
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service: SearchEnums_1.Service.Text,
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parameters: {
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operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.Type.operator.ExactMatch,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.Type.path,
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value: 'ECOD'
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}
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},
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facets: [{
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filter: {
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type: SearchEnums_1.Type.Terminal,
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service: SearchEnums_1.Service.Text,
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parameters: {
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operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Depth.operator.Equals,
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value: 4,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Depth.path
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}
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},
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facets: [{
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name: "ECOD_FACET",
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min_interval_population: 1,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Name.path,
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aggregation_type: SearchEnums_1.AggregationType.Terms
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}]
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}]
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}
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};
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exports.LIGAND_FACET = {
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id: "ligands",
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title: "Small Molecules",
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attributeName: "LIGAND_FACET",
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbNonpolymerEntityInstanceContainerIdentifiers.CompId.path,
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contentType: "string",
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chartType: ChartConfigInterface_1.ChartType.barplot,
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chartConfig: {
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mostPopulatedGroups: 20
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},
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facet: {
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name: "LIGAND_FACET",
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aggregation_type: SearchEnums_1.AggregationType.Terms,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbNonpolymerEntityInstanceContainerIdentifiers.CompId.path,
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min_interval_population: 1
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}
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};
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exports.LIGAND_OF_INTEREST_FACET = {
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id: "ligands",
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title: "Ligands of Interest",
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attributeName: "LIGAND_OF_INTEREST_FACET",
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbNonpolymerEntityInstanceContainerIdentifiers.CompId.path,
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contentType: "string",
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chartType: ChartConfigInterface_1.ChartType.barplot,
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chartConfig: {
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mostPopulatedGroups: 20
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},
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facet: {
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filter: {
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type: SearchEnums_1.Type.Terminal,
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service: SearchEnums_1.Service.Text,
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parameters: {
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbNonpolymerEntityAnnotation.Type.path,
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operator: SearchMetadata_1.RcsbSearchMetadata.RcsbNonpolymerEntityAnnotation.Type.operator.ExactMatch,
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value: "SUBJECT_OF_INVESTIGATION"
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}
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},
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facets: [{
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name: "LIGAND_OF_INTEREST_FACET",
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aggregation_type: SearchEnums_1.AggregationType.Terms,
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbNonpolymerEntityAnnotation.CompId.path,
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min_interval_population: 1
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}]
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}
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};
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exports.ORGANISM_FACET = {
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id: "organism",
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title: "Organism",
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attributeName: "ORGANISM_FACET",
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiScientificName.path,
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contentType: "string",
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chartType: ChartConfigInterface_1.ChartType.barplot,
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chartConfig: {
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mostPopulatedGroups: 9
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},
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facet: {
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name: "ORGANISM_FACET",
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aggregation_type: SearchEnums_1.AggregationType.Terms,
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|
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiScientificName.path,
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min_interval_population: 1
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}
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|
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};
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exports.TAXONOMY_FACET = {
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id: "taxonomy",
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title: "Taxonomy",
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attributeName: "TAXONOMY_FACET",
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|
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attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiParentScientificName.path,
|
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|
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contentType: "string",
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|
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chartType: ChartConfigInterface_1.ChartType.barplot,
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|
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chartConfig: {
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|
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mostPopulatedGroups: 5
|
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},
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facet: {
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name: "TAXONOMY_FACET",
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|
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aggregation_type: SearchEnums_1.AggregationType.Terms,
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|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiParentScientificName.path,
|
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|
+
min_interval_population: 1
|
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|
+
}
|
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|
+
};
|
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|
+
exports.PFAM_FACET = {
|
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|
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id: "Pfam",
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318
|
+
title: "PFAM Domain",
|
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|
+
attributeName: "PFAM_FACET",
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|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Name.path,
|
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|
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contentType: "string",
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|
+
chartType: ChartConfigInterface_1.ChartType.barplot,
|
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|
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chartConfig: {
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|
+
mostPopulatedGroups: 10
|
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+
},
|
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|
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facet: {
|
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|
+
filter: {
|
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|
+
type: SearchEnums_1.Type.Terminal,
|
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|
+
service: SearchEnums_1.Service.Text,
|
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|
+
parameters: {
|
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|
+
operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Type.operator.ExactMatch,
|
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|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Type.path,
|
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|
+
value: 'Pfam'
|
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|
+
}
|
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|
+
},
|
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|
+
facets: [{
|
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|
+
name: "PFAM_FACET",
|
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|
+
min_interval_population: 1,
|
|
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|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Name.path,
|
|
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|
+
aggregation_type: SearchEnums_1.AggregationType.Terms
|
|
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|
+
}]
|
|
342
|
+
}
|
|
343
|
+
};
|
|
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|
+
exports.ENTITY_NAME_FACET = {
|
|
345
|
+
id: "entiy_names",
|
|
346
|
+
title: undefined,
|
|
347
|
+
attributeName: "ENTITY_NAME_FACET",
|
|
348
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntity.RcsbPolymerNameCombined.Names.path,
|
|
349
|
+
contentType: "string",
|
|
350
|
+
chartType: ChartConfigInterface_1.ChartType.barplot,
|
|
351
|
+
chartConfig: {
|
|
352
|
+
mostPopulatedGroups: 5
|
|
353
|
+
},
|
|
354
|
+
facet: {
|
|
355
|
+
name: "ENTITY_NAME_FACET",
|
|
356
|
+
aggregation_type: SearchEnums_1.AggregationType.Terms,
|
|
357
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntity.RcsbPolymerNameCombined.Names.path,
|
|
358
|
+
min_interval_population: 1
|
|
359
|
+
}
|
|
360
|
+
};
|
|
361
|
+
exports.CHEM_COMP_FACET = {
|
|
362
|
+
id: "chemp_comp",
|
|
363
|
+
title: "Chemical Component",
|
|
364
|
+
attributeName: "CHEM_COMP_FACET",
|
|
365
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.ChemComp.Type.path,
|
|
366
|
+
contentType: "string",
|
|
367
|
+
chartType: ChartConfigInterface_1.ChartType.barplot,
|
|
368
|
+
chartConfig: {
|
|
369
|
+
mostPopulatedGroups: 5
|
|
370
|
+
},
|
|
371
|
+
facet: {
|
|
372
|
+
name: "CHEM_COMP_FACET",
|
|
373
|
+
aggregation_type: SearchEnums_1.AggregationType.Terms,
|
|
374
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.ChemComp.Type.path,
|
|
375
|
+
min_interval_population: 1
|
|
376
|
+
}
|
|
377
|
+
};
|
|
378
|
+
exports.ENZYME_CLASS_FACET = {
|
|
379
|
+
id: "enzyme_class",
|
|
380
|
+
title: "Enzyme Classification",
|
|
381
|
+
attributeName: "ENZYME_CLASS_FACET",
|
|
382
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntity.RcsbEcLineage.Name.path,
|
|
383
|
+
contentType: "string",
|
|
384
|
+
chartType: ChartConfigInterface_1.ChartType.barplot,
|
|
385
|
+
chartConfig: {
|
|
386
|
+
mostPopulatedGroups: 10
|
|
387
|
+
},
|
|
388
|
+
facet: {
|
|
389
|
+
filter: {
|
|
390
|
+
type: SearchEnums_1.Type.Terminal,
|
|
391
|
+
service: SearchEnums_1.Service.Text,
|
|
392
|
+
parameters: {
|
|
393
|
+
operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntity.RcsbEcLineage.Depth.operator.GreaterOrEqual,
|
|
394
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntity.RcsbEcLineage.Depth.path,
|
|
395
|
+
value: 3
|
|
396
|
+
}
|
|
397
|
+
},
|
|
398
|
+
facets: [{
|
|
399
|
+
name: "ENZYME_CLASS_FACET",
|
|
400
|
+
aggregation_type: SearchEnums_1.AggregationType.Terms,
|
|
401
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntity.RcsbEcLineage.Name.path,
|
|
402
|
+
min_interval_population: 1
|
|
403
|
+
}]
|
|
404
|
+
}
|
|
405
|
+
};
|
|
406
|
+
exports.GO_FUNCTION_FACET = {
|
|
407
|
+
id: "go_function_class",
|
|
408
|
+
title: "GO Molecular Function",
|
|
409
|
+
attributeName: "GO_FUNCTION_FACET",
|
|
410
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Name.path,
|
|
411
|
+
contentType: "string",
|
|
412
|
+
chartType: ChartConfigInterface_1.ChartType.barplot,
|
|
413
|
+
chartConfig: {
|
|
414
|
+
mostPopulatedGroups: 10
|
|
415
|
+
},
|
|
416
|
+
facet: {
|
|
417
|
+
filter: {
|
|
418
|
+
type: SearchEnums_1.Type.Terminal,
|
|
419
|
+
service: SearchEnums_1.Service.Text,
|
|
420
|
+
parameters: {
|
|
421
|
+
operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Type.operator.ExactMatch,
|
|
422
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Type.path,
|
|
423
|
+
value: "GO"
|
|
424
|
+
}
|
|
425
|
+
},
|
|
426
|
+
facets: [{
|
|
427
|
+
name: "GO_FUNCTION_FACET",
|
|
428
|
+
aggregation_type: SearchEnums_1.AggregationType.Terms,
|
|
429
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Name.path,
|
|
430
|
+
max_num_intervals: 1000,
|
|
431
|
+
min_interval_population: 1,
|
|
432
|
+
facets: [{
|
|
433
|
+
filter: {
|
|
434
|
+
type: SearchEnums_1.Type.Terminal,
|
|
435
|
+
service: SearchEnums_1.Service.Text,
|
|
436
|
+
parameters: {
|
|
437
|
+
operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Type.operator.ExactMatch,
|
|
438
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.AnnotationLineage.Name.path,
|
|
439
|
+
value: "molecular_function"
|
|
440
|
+
}
|
|
441
|
+
},
|
|
442
|
+
facets: [{
|
|
443
|
+
name: `GO_FUNCTION_FACET/${SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.AnnotationLineage.Name.path}`,
|
|
444
|
+
aggregation_type: SearchEnums_1.AggregationType.Terms,
|
|
445
|
+
min_interval_population: 1,
|
|
446
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.AnnotationLineage.Name.path
|
|
447
|
+
}]
|
|
448
|
+
}]
|
|
449
|
+
}]
|
|
450
|
+
}
|
|
451
|
+
};
|
|
452
|
+
exports.GO_PROCESS_FACET = {
|
|
453
|
+
id: "go_process_class",
|
|
454
|
+
title: "GO Biological Process",
|
|
455
|
+
attributeName: "GO_PROCESS_FACET",
|
|
456
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Name.path,
|
|
457
|
+
contentType: "string",
|
|
458
|
+
chartType: ChartConfigInterface_1.ChartType.barplot,
|
|
459
|
+
chartConfig: {
|
|
460
|
+
mostPopulatedGroups: 10
|
|
461
|
+
},
|
|
462
|
+
facet: {
|
|
463
|
+
filter: {
|
|
464
|
+
type: SearchEnums_1.Type.Terminal,
|
|
465
|
+
service: SearchEnums_1.Service.Text,
|
|
466
|
+
parameters: {
|
|
467
|
+
operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Type.operator.ExactMatch,
|
|
468
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Type.path,
|
|
469
|
+
value: "GO"
|
|
470
|
+
}
|
|
471
|
+
},
|
|
472
|
+
facets: [{
|
|
473
|
+
name: "GO_PROCESS_FACET",
|
|
474
|
+
aggregation_type: SearchEnums_1.AggregationType.Terms,
|
|
475
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Name.path,
|
|
476
|
+
max_num_intervals: 1000,
|
|
477
|
+
min_interval_population: 1,
|
|
478
|
+
facets: [{
|
|
479
|
+
filter: {
|
|
480
|
+
type: SearchEnums_1.Type.Terminal,
|
|
481
|
+
service: SearchEnums_1.Service.Text,
|
|
482
|
+
parameters: {
|
|
483
|
+
operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Type.operator.ExactMatch,
|
|
484
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.AnnotationLineage.Name.path,
|
|
485
|
+
value: "biological_process"
|
|
486
|
+
}
|
|
487
|
+
},
|
|
488
|
+
facets: [{
|
|
489
|
+
name: `GO_PROCESS_FACET/${SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.AnnotationLineage.Name.path}`,
|
|
490
|
+
aggregation_type: SearchEnums_1.AggregationType.Terms,
|
|
491
|
+
min_interval_population: 1,
|
|
492
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.AnnotationLineage.Name.path
|
|
493
|
+
}]
|
|
494
|
+
}]
|
|
495
|
+
}]
|
|
496
|
+
}
|
|
497
|
+
};
|
|
498
|
+
exports.GO_COMPONENT_FACET = {
|
|
499
|
+
id: "go_component_class",
|
|
500
|
+
title: "GO Cellular Component",
|
|
501
|
+
attributeName: "GO_COMPONENT_FACET",
|
|
502
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Name.path,
|
|
503
|
+
contentType: "string",
|
|
504
|
+
chartType: ChartConfigInterface_1.ChartType.barplot,
|
|
505
|
+
chartConfig: {
|
|
506
|
+
mostPopulatedGroups: 10
|
|
507
|
+
},
|
|
508
|
+
facet: {
|
|
509
|
+
filter: {
|
|
510
|
+
type: SearchEnums_1.Type.Terminal,
|
|
511
|
+
service: SearchEnums_1.Service.Text,
|
|
512
|
+
parameters: {
|
|
513
|
+
operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Type.operator.ExactMatch,
|
|
514
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Type.path,
|
|
515
|
+
value: "GO"
|
|
516
|
+
}
|
|
517
|
+
},
|
|
518
|
+
facets: [{
|
|
519
|
+
name: "GO_COMPONENT_FACET",
|
|
520
|
+
aggregation_type: SearchEnums_1.AggregationType.Terms,
|
|
521
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Name.path,
|
|
522
|
+
max_num_intervals: 1000,
|
|
523
|
+
min_interval_population: 1,
|
|
524
|
+
facets: [{
|
|
525
|
+
filter: {
|
|
526
|
+
type: SearchEnums_1.Type.Terminal,
|
|
527
|
+
service: SearchEnums_1.Service.Text,
|
|
528
|
+
parameters: {
|
|
529
|
+
operator: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Type.operator.ExactMatch,
|
|
530
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.AnnotationLineage.Name.path,
|
|
531
|
+
value: "cellular_component"
|
|
532
|
+
}
|
|
533
|
+
},
|
|
534
|
+
facets: [{
|
|
535
|
+
name: `GO_COMPONENT_FACET/${SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.AnnotationLineage.Name.path}`,
|
|
536
|
+
aggregation_type: SearchEnums_1.AggregationType.Terms,
|
|
537
|
+
min_interval_population: 1,
|
|
538
|
+
attribute: SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.AnnotationLineage.Name.path
|
|
539
|
+
}]
|
|
540
|
+
}]
|
|
541
|
+
}]
|
|
542
|
+
}
|
|
543
|
+
};
|
|
544
|
+
exports.SearchFacets = {
|
|
545
|
+
EXPERIMENTAL_METHOD_FACET: exports.EXPERIMENTAL_METHOD_FACET,
|
|
546
|
+
RESOLUTION_FACET: exports.RESOLUTION_FACET,
|
|
547
|
+
RELEASE_DATE_FACET: exports.RELEASE_DATE_FACET,
|
|
548
|
+
SCOP_FACET: exports.SCOP_FACET,
|
|
549
|
+
LIGAND_FACET: exports.LIGAND_FACET,
|
|
550
|
+
ORGANISM_FACET: exports.ORGANISM_FACET,
|
|
551
|
+
TAXONOMY_FACET: exports.TAXONOMY_FACET,
|
|
552
|
+
PFAM_FACET: exports.PFAM_FACET,
|
|
553
|
+
ENTITY_NAME_FACET: exports.ENTITY_NAME_FACET,
|
|
554
|
+
CHEM_COMP_FACET: exports.CHEM_COMP_FACET,
|
|
555
|
+
ECOD_FACET: exports.ECOD_FACET,
|
|
556
|
+
CATH_FACET: exports.CATH_FACET,
|
|
557
|
+
ENZYME_CLASS_FACET: exports.ENZYME_CLASS_FACET,
|
|
558
|
+
GO_FUNCTION_FACET: exports.GO_FUNCTION_FACET,
|
|
559
|
+
GO_PROCESS_FACET: exports.GO_PROCESS_FACET,
|
|
560
|
+
GO_COMPONENT_FACET: exports.GO_COMPONENT_FACET,
|
|
561
|
+
LIGAND_OF_INTEREST_FACET: exports.LIGAND_OF_INTEREST_FACET,
|
|
562
|
+
METHODOLOGY_FACET: exports.METHODOLOGY_FACET
|
|
563
|
+
};
|
|
@@ -0,0 +1,15 @@
|
|
|
1
|
+
import { ReturnType, Service } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchEnums";
|
|
2
|
+
import { FacetMemberInterface } from "./FacetMemberInterface";
|
|
3
|
+
import { FacetStoreInterface } from "./FacetStoreInterface";
|
|
4
|
+
declare class UniprotGroupFacetStore implements FacetStoreInterface {
|
|
5
|
+
private readonly entryFacet;
|
|
6
|
+
private readonly instanceFacet;
|
|
7
|
+
private readonly entityFacet;
|
|
8
|
+
private readonly nonPolymerFacet;
|
|
9
|
+
getServices(): (Service.Text | Service.TextChem)[];
|
|
10
|
+
getFacetService(service: Service | "all"): FacetMemberInterface[];
|
|
11
|
+
readonly facetLayoutGrid: string[];
|
|
12
|
+
readonly returnType: ReturnType;
|
|
13
|
+
}
|
|
14
|
+
export declare const uniprotGroupFacetStore: UniprotGroupFacetStore;
|
|
15
|
+
export {};
|
|
@@ -0,0 +1,60 @@
|
|
|
1
|
+
"use strict";
|
|
2
|
+
Object.defineProperty(exports, "__esModule", { value: true });
|
|
3
|
+
exports.uniprotGroupFacetStore = void 0;
|
|
4
|
+
const SearchEnums_1 = require("@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchEnums");
|
|
5
|
+
const SearchMetadata_1 = require("@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchMetadata");
|
|
6
|
+
const SingleFacets_1 = require("./SingleFacets");
|
|
7
|
+
const lodash_1 = require("lodash");
|
|
8
|
+
class UniprotGroupFacetStore {
|
|
9
|
+
constructor() {
|
|
10
|
+
this.entryFacet = [
|
|
11
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.EXPERIMENTAL_METHOD_FACET),
|
|
12
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.RESOLUTION_FACET),
|
|
13
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.METHODOLOGY_FACET),
|
|
14
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.RELEASE_DATE_FACET),
|
|
15
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.ENZYME_CLASS_FACET)
|
|
16
|
+
];
|
|
17
|
+
this.instanceFacet = [
|
|
18
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.SCOP_FACET),
|
|
19
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.CATH_FACET),
|
|
20
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.ECOD_FACET),
|
|
21
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.LIGAND_FACET)
|
|
22
|
+
];
|
|
23
|
+
this.entityFacet = [
|
|
24
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.ORGANISM_FACET),
|
|
25
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.TAXONOMY_FACET),
|
|
26
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.PFAM_FACET),
|
|
27
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.ENTITY_NAME_FACET),
|
|
28
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.GO_FUNCTION_FACET),
|
|
29
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.GO_PROCESS_FACET),
|
|
30
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.GO_COMPONENT_FACET)
|
|
31
|
+
];
|
|
32
|
+
this.nonPolymerFacet = [
|
|
33
|
+
(0, lodash_1.cloneDeep)(SingleFacets_1.CHEM_COMP_FACET)
|
|
34
|
+
];
|
|
35
|
+
this.facetLayoutGrid = [
|
|
36
|
+
SearchMetadata_1.RcsbSearchMetadata.RcsbAccessionInfo.DepositDate.path,
|
|
37
|
+
SearchMetadata_1.RcsbSearchMetadata.RcsbEntryInfo.ResolutionCombined.path, SearchMetadata_1.RcsbSearchMetadata.Exptl.Method.path, SearchMetadata_1.RcsbSearchMetadata.RcsbEntryInfo.StructureDeterminationMethodology.path,
|
|
38
|
+
SearchMetadata_1.RcsbSearchMetadata.ChemComp.Type.path,
|
|
39
|
+
SearchMetadata_1.RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiScientificName.path, SearchMetadata_1.RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiParentScientificName.path,
|
|
40
|
+
SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Name.path, SearchMetadata_1.RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Name.path
|
|
41
|
+
];
|
|
42
|
+
this.returnType = SearchEnums_1.ReturnType.PolymerEntity;
|
|
43
|
+
}
|
|
44
|
+
getServices() {
|
|
45
|
+
return [SearchEnums_1.Service.Text];
|
|
46
|
+
}
|
|
47
|
+
getFacetService(service) {
|
|
48
|
+
switch (service) {
|
|
49
|
+
case SearchEnums_1.Service.Text:
|
|
50
|
+
return this.entryFacet.concat(this.instanceFacet).concat(this.entityFacet);
|
|
51
|
+
case SearchEnums_1.Service.TextChem:
|
|
52
|
+
return this.nonPolymerFacet;
|
|
53
|
+
case "all":
|
|
54
|
+
return this.entryFacet.concat(this.instanceFacet).concat(this.entityFacet).concat(this.nonPolymerFacet);
|
|
55
|
+
default:
|
|
56
|
+
return [];
|
|
57
|
+
}
|
|
58
|
+
}
|
|
59
|
+
}
|
|
60
|
+
exports.uniprotGroupFacetStore = new UniprotGroupFacetStore();
|