Test Summary

1450

tests
0

failures
0

ignored
2m3.98s

duration
100%

successful

Packages

Package Tests Failures Ignored Duration Success rate
jalview.analysis 135 0 0 2.694s 100%
jalview.analysis.scoremodels 33 0 0 0.135s 100%
jalview.bin 41 0 0 56.423s 100%
jalview.commands 31 0 0 0.074s 100%
jalview.controller 2 0 0 0.042s 100%
jalview.datamodel 260 0 0 0.232s 100%
jalview.datamodel.features 65 0 0 0.040s 100%
jalview.ext.android 5 0 0 0.006s 100%
jalview.ext.ensembl 25 0 0 0.030s 100%
jalview.ext.htsjdk 5 0 0 0.230s 100%
jalview.ext.jmol 21 0 0 5.965s 100%
jalview.ext.pymol 20 0 0 0.020s 100%
jalview.ext.rbvi.chimera 47 0 0 0.060s 100%
jalview.ext.so 3 0 0 0.003s 100%
jalview.fts.core 16 0 0 0.026s 100%
jalview.fts.service.pdb 5 0 0 0.129s 100%
jalview.fts.threedbeacons 14 0 0 0.330s 100%
jalview.gui 103 0 0 2.934s 100%
jalview.gui.structurechooser 7 0 0 4.186s 100%
jalview.io 163 0 0 17.094s 100%
jalview.io.cache 4 0 0 0.303s 100%
jalview.io.gff 18 0 0 0.052s 100%
jalview.io.vcf 4 0 0 0.141s 100%
jalview.math 28 0 0 0.192s 100%
jalview.project 18 0 0 26.696s 100%
jalview.renderer 10 0 0 0.052s 100%
jalview.renderer.seqfeatures 22 0 0 0.522s 100%
jalview.schemes 51 0 0 0.237s 100%
jalview.structure 9 0 0 2.136s 100%
jalview.structures.models 4 0 0 0.252s 100%
jalview.urls 25 0 0 0.021s 100%
jalview.util 135 0 0 1.297s 100%
jalview.util.matcher 13 0 0 0.013s 100%
jalview.viewmodel 63 0 0 0.085s 100%
jalview.viewmodel.styles 2 0 0 0.003s 100%
jalview.workers 1 0 0 0.103s 100%
jalview.ws 1 0 0 0.001s 100%
jalview.ws.dbsources 13 0 0 0.141s 100%
jalview.ws.ebi 2 0 0 0.005s 100%
jalview.ws.rest 3 0 0 0.136s 100%
jalview.ws.seqfetcher 1 0 0 0.001s 100%
mc_view 22 0 0 0.940s 100%

Classes

Class Tests Failures Ignored Duration Success rate
jalview.analysis.AAFrequencyTest 8 0 0 0.053s 100%
jalview.analysis.AlignSeqTest 3 0 0 0.003s 100%
jalview.analysis.AlignmentAnnotationUtilsTest 5 0 0 0.004s 100%
jalview.analysis.AlignmentSorterTest 2 0 0 0.005s 100%
jalview.analysis.AlignmentUtilsTests 37 0 0 0.043s 100%
jalview.analysis.AnnotationSorterTest 8 0 0 2.479s 100%
jalview.analysis.CodingUtilsTest 3 0 0 0.002s 100%
jalview.analysis.ConservationTest 5 0 0 0.003s 100%
jalview.analysis.CrossRefTest 8 0 0 0.009s 100%
jalview.analysis.DnaTest 12 0 0 0.044s 100%
jalview.analysis.FinderTest 16 0 0 0.019s 100%
jalview.analysis.GeneticCodesTest 7 0 0 0.004s 100%
jalview.analysis.GroupingTest 1 0 0 0.002s 100%
jalview.analysis.ParsePropertiesTest 3 0 0 0.006s 100%
jalview.analysis.RnaTest 12 0 0 0.012s 100%
jalview.analysis.SeqsetUtilsTest 1 0 0 0.001s 100%
jalview.analysis.SequenceIdMatcherTest 1 0 0 0.001s 100%
jalview.analysis.TestAlignSeq 3 0 0 0.004s 100%
jalview.analysis.scoremodels.FeatureDistanceModelTest 6 0 0 0.108s 100%
jalview.analysis.scoremodels.PIDModelTest 4 0 0 0.003s 100%
jalview.analysis.scoremodels.ScoreMatrixTest 22 0 0 0.023s 100%
jalview.analysis.scoremodels.ScoreModelsTest 1 0 0 0.001s 100%
jalview.bin.ArgsParserTest 4 0 0 0.002s 100%
jalview.bin.CacheTest 2 0 0 10.003s 100%
jalview.bin.CommandLineOperations 28 0 0 39.489s 100%
jalview.bin.HiDPISettingTest1 1 0 0 0.764s 100%
jalview.bin.HiDPISettingTest2 4 0 0 6.134s 100%
jalview.bin.JalviewLiteTest 1 0 0 0.009s 100%
jalview.bin.MemorySettingTest 1 0 0 0.022s 100%
jalview.commands.EditCommandTest 25 0 0 0.070s 100%
jalview.commands.TrimRegionCommandTest 6 0 0 0.004s 100%
jalview.controller.AlignViewControllerTest 2 0 0 0.042s 100%
jalview.datamodel.AlignedCodonFrameTest 13 0 0 0.011s 100%
jalview.datamodel.AlignedCodonIteratorTest 5 0 0 0.003s 100%
jalview.datamodel.AlignedCodonTest 2 0 0 0.001s 100%
jalview.datamodel.AlignmentAnnotationTests 6 0 0 0.009s 100%
jalview.datamodel.AlignmentTest 29 0 0 0.034s 100%
jalview.datamodel.AlignmentViewTest 2 0 0 0.014s 100%
jalview.datamodel.AllColsIteratorTest 4 0 0 0.003s 100%
jalview.datamodel.AllRowsIteratorTest 4 0 0 0.002s 100%
jalview.datamodel.CigarArrayTest 1 0 0 0.001s 100%
jalview.datamodel.ColumnSelectionTest 21 0 0 0.013s 100%
jalview.datamodel.DBRefEntryTest 3 0 0 0.004s 100%
jalview.datamodel.HiddenColumnsCursorTest 3 0 0 0.002s 100%
jalview.datamodel.HiddenColumnsTest 29 0 0 0.023s 100%
jalview.datamodel.HiddenSequencesTest 13 0 0 0.009s 100%
jalview.datamodel.MappedFeaturesTest 1 0 0 0.005s 100%
jalview.datamodel.MappingTest 3 0 0 0.001s 100%
jalview.datamodel.MappingTypeTest 3 0 0 0.003s 100%
jalview.datamodel.MatchTest 2 0 0 0.001s 100%
jalview.datamodel.PDBEntryTest 6 0 0 0.004s 100%
jalview.datamodel.RangeElementsIteratorTest 9 0 0 0.006s 100%
jalview.datamodel.ResidueCountTest 13 0 0 0.008s 100%
jalview.datamodel.SearchResultsTest 10 0 0 0.007s 100%
jalview.datamodel.SeqCigarTest 2 0 0 0.014s 100%
jalview.datamodel.SequenceDummyTest 1 0 0 0.001s 100%
jalview.datamodel.SequenceFeatureTest 7 0 0 0.011s 100%
jalview.datamodel.SequenceGroupTest 7 0 0 0.004s 100%
jalview.datamodel.SequenceTest 46 0 0 0.031s 100%
jalview.datamodel.StartRegionIteratorTest 3 0 0 0.002s 100%
jalview.datamodel.VisibleContigsIteratorTest 3 0 0 0.001s 100%
jalview.datamodel.VisibleRowsIteratorTest 9 0 0 0.004s 100%
jalview.datamodel.features.FeatureAttributesTest 4 0 0 0.003s 100%
jalview.datamodel.features.FeatureMatcherSetTest 9 0 0 0.004s 100%
jalview.datamodel.features.FeatureMatcherTest 11 0 0 0.007s 100%
jalview.datamodel.features.FeatureStoreTest 19 0 0 0.013s 100%
jalview.datamodel.features.SequenceFeaturesTest 22 0 0 0.013s 100%
jalview.ext.android.SparseIntArrayTest 3 0 0 0.005s 100%
jalview.ext.android.SparseShortArrayTest 2 0 0 0.001s 100%
jalview.ext.ensembl.EnsemblCdnaTest 6 0 0 0.008s 100%
jalview.ext.ensembl.EnsemblCdsTest 4 0 0 0.004s 100%
jalview.ext.ensembl.EnsemblGeneTest 6 0 0 0.005s 100%
jalview.ext.ensembl.EnsemblGenomeTest 3 0 0 0.003s 100%
jalview.ext.ensembl.EnsemblProteinTest 2 0 0 0.001s 100%
jalview.ext.ensembl.EnsemblSeqProxyTest 3 0 0 0.006s 100%
jalview.ext.ensembl.EnsemblXrefTest 1 0 0 0.003s 100%
jalview.ext.htsjdk.TestHtsContigDb 3 0 0 0.097s 100%
jalview.ext.htsjdk.VCFReaderTest 2 0 0 0.133s 100%
jalview.ext.jmol.JmolCommandsTest 13 0 0 0.049s 100%
jalview.ext.jmol.JmolParserTest 6 0 0 2.633s 100%
jalview.ext.jmol.JmolViewerTest 2 0 0 3.283s 100%
jalview.ext.pymol.PymolCommandsTest 18 0 0 0.016s 100%
jalview.ext.pymol.PymolManagerTest 2 0 0 0.004s 100%
jalview.ext.rbvi.chimera.ChimeraCommandsTest 25 0 0 0.028s 100%
jalview.ext.rbvi.chimera.ChimeraXCommandsTest 22 0 0 0.032s 100%
jalview.ext.so.SequenceOntologyTest 3 0 0 0.003s 100%
jalview.fts.core.FTSRestClientTest 16 0 0 0.026s 100%
jalview.fts.service.pdb.PDBFTSPanelTest 3 0 0 0.129s 100%
jalview.fts.service.pdb.PDBFTSRestClientTest 2 0 0 0s 100%
jalview.fts.threedbeacons.TDBeaconsFTSRestClientTest 13 0 0 0.313s 100%
jalview.fts.threedbeacons.TDBeaconsPanelTest 1 0 0 0.017s 100%
jalview.gui.AlignFrameTest 5 0 0 0.309s 100%
jalview.gui.AlignViewportTest 10 0 0 0.596s 100%
jalview.gui.AlignmentPanelTest 4 0 0 0.030s 100%
jalview.gui.AnnotationChooserTest 17 0 0 0.152s 100%
jalview.gui.AnnotationColumnChooserTest 1 0 0 0.089s 100%
jalview.gui.AnnotationLabelsTest 2 0 0 0.002s 100%
jalview.gui.AnnotationPanelTest 1 0 0 0s 100%
jalview.gui.AnnotationRowFilterTest 1 0 0 0.001s 100%
jalview.gui.AppVarnaTest 1 0 0 0.004s 100%
jalview.gui.CalculationChooserTest 1 0 0 0.001s 100%
jalview.gui.ColourMenuHelperTest 4 0 0 0.024s 100%
jalview.gui.FeatureSettingsTest 2 0 0 0.049s 100%
jalview.gui.HelpTest 1 0 0 0.031s 100%
jalview.gui.JvOptionPaneTest 5 0 0 0.163s 100%
jalview.gui.JvSwingUtilsTest 5 0 0 0.005s 100%
jalview.gui.PaintRefresherTest 3 0 0 0.024s 100%
jalview.gui.PairwiseAlignmentPanelTest 2 0 0 0.095s 100%
jalview.gui.PopupMenuTest 13 0 0 0.067s 100%
jalview.gui.ProgressBarTest 3 0 0 0.009s 100%
jalview.gui.ScalePanelTest 3 0 0 0.218s 100%
jalview.gui.SeqCanvasTest 3 0 0 0.004s 100%
jalview.gui.SeqPanelTest 10 0 0 0.473s 100%
jalview.gui.SequenceRendererTest 1 0 0 0.001s 100%
jalview.gui.StructureChooserTest 4 0 0 0.586s 100%
jalview.gui.StructureViewerTest 1 0 0 0.001s 100%
jalview.gui.structurechooser.StructureChooserQuerySourceTest 7 0 0 4.186s 100%
jalview.io.AnnotatedPDBFileInputTest 4 0 0 0.602s 100%
jalview.io.AnnotationFileIOTest 2 0 0 0.216s 100%
jalview.io.BackupFilesTest 5 0 0 0.117s 100%
jalview.io.BioJsHTMLOutputTest 3 0 0 3.049s 100%
jalview.io.ClustalFileTest 2 0 0 0.004s 100%
jalview.io.CrossRef2xmlTests 1 0 0 11.019s 100%
jalview.io.EmblFlatFileTest 6 0 0 0.029s 100%
jalview.io.FeaturesFileTest 14 0 0 0.156s 100%
jalview.io.FileFormatsTest 7 0 0 0.003s 100%
jalview.io.FileIOTester 7 0 0 0.007s 100%
jalview.io.FormatAdapterTest 11 0 0 0.109s 100%
jalview.io.GenBankFileTest 1 0 0 0.014s 100%
jalview.io.IdentifyFileTest 24 0 0 0.095s 100%
jalview.io.JSONFileTest 10 0 0 0.079s 100%
jalview.io.JalviewExportPropertiesTests 1 0 0 0.820s 100%
jalview.io.JalviewFileViewTest 3 0 0 0.010s 100%
jalview.io.NewickFileTests 3 0 0 0.172s 100%
jalview.io.PfamFormatInputTest 2 0 0 0.007s 100%
jalview.io.PhylipFileTests 4 0 0 0.024s 100%
jalview.io.RNAMLfileTest 1 0 0 0.114s 100%
jalview.io.ScoreMatrixFileTest 20 0 0 0.012s 100%
jalview.io.SequenceAnnotationReportTest 12 0 0 0.010s 100%
jalview.io.StockholmFileTest 11 0 0 0.386s 100%
jalview.io.TCoffeeScoreFileTest 8 0 0 0.020s 100%
jalview.io.WindowsFileLoadAndSaveTest 1 0 0 0.020s 100%
jalview.io.cache.AppCacheTest 2 0 0 0.001s 100%
jalview.io.cache.JvCacheableInputBoxTest 2 0 0 0.302s 100%
jalview.io.gff.ExonerateHelperTest 6 0 0 0.028s 100%
jalview.io.gff.Gff3HelperTest 5 0 0 0.005s 100%
jalview.io.gff.GffHelperBaseTest 3 0 0 0.003s 100%
jalview.io.gff.GffHelperFactoryTest 1 0 0 0.002s 100%
jalview.io.gff.GffTests 1 0 0 0.012s 100%
jalview.io.gff.InterProScanHelperTest 1 0 0 0.001s 100%
jalview.io.gff.SequenceOntologyLiteTest 1 0 0 0.001s 100%
jalview.io.vcf.VCFLoaderTest 4 0 0 0.141s 100%
jalview.math.MatrixTest 13 0 0 0.176s 100%
jalview.math.RotatableMatrixTest 4 0 0 0.003s 100%
jalview.math.SparseMatrixTest 11 0 0 0.013s 100%
jalview.project.Jalview2xmlTests 18 0 0 26.696s 100%
jalview.renderer.OverviewResColourFinderTest 3 0 0 0.005s 100%
jalview.renderer.ResidueColourFinderTest 3 0 0 0.003s 100%
jalview.renderer.ResidueShaderTest 3 0 0 0.006s 100%
jalview.renderer.ScaleRendererTest 1 0 0 0.038s 100%
jalview.renderer.seqfeatures.FeatureColourFinderTest 16 0 0 0.015s 100%
jalview.renderer.seqfeatures.FeatureRendererTest 6 0 0 0.507s 100%
jalview.schemes.AnnotationColourGradientTest 7 0 0 0.003s 100%
jalview.schemes.Blosum62ColourSchemeTest 1 0 0 0s 100%
jalview.schemes.BuriedColourSchemeTest 1 0 0 0.001s 100%
jalview.schemes.ClustalxColourSchemeTest 2 0 0 0.052s 100%
jalview.schemes.ColourSchemePropertyTest 2 0 0 0.003s 100%
jalview.schemes.ColourSchemesTest 4 0 0 0.087s 100%
jalview.schemes.FeatureColourTest 12 0 0 0.010s 100%
jalview.schemes.HelixColourSchemeTest 1 0 0 0.001s 100%
jalview.schemes.HydrophobicColourSchemeTest 1 0 0 0s 100%
jalview.schemes.JalviewColourSchemeTest 2 0 0 0.001s 100%
jalview.schemes.PIDColourSchemeTest 2 0 0 0.063s 100%
jalview.schemes.ResidueColourSchemeTest 3 0 0 0.005s 100%
jalview.schemes.ResiduePropertiesTest 8 0 0 0.007s 100%
jalview.schemes.StrandColourSchemeTest 1 0 0 0.001s 100%
jalview.schemes.TurnColourSchemeTest 1 0 0 0.001s 100%
jalview.schemes.UserColourSchemeTest 3 0 0 0.002s 100%
jalview.structure.AtomSpecModelTest 1 0 0 0.001s 100%
jalview.structure.Mapping 2 0 0 1.762s 100%
jalview.structure.StructureCommandTest 1 0 0 0.001s 100%
jalview.structure.StructureMappingTest 2 0 0 0.002s 100%
jalview.structure.StructureSelectionManagerTest 3 0 0 0.370s 100%
jalview.structures.models.AAStructureBindingModelTest 4 0 0 0.252s 100%
jalview.urls.AppletUrlProviderFactoryTest 1 0 0 0.002s 100%
jalview.urls.CustomUrlProviderTest 2 0 0 0.002s 100%
jalview.urls.DesktopUrlProviderFactoryTest 1 0 0 0.001s 100%
jalview.urls.IdentifiersUrlProviderTest 2 0 0 0.003s 100%
jalview.urls.UrlLinkDisplayTest 7 0 0 0.004s 100%
jalview.urls.UrlLinkTableModelTest 9 0 0 0.006s 100%
jalview.urls.UrlProviderTest 3 0 0 0.003s 100%
jalview.util.ArrayUtilsTest 1 0 0 0.011s 100%
jalview.util.CaseInsensitiveStringTest 2 0 0 0.001s 100%
jalview.util.ColorUtilsTest 8 0 0 0.003s 100%
jalview.util.ComparisonTest 7 0 0 0.001s 100%
jalview.util.DBRefUtilsTest 8 0 0 0.004s 100%
jalview.util.DnaUtilsTest 1 0 0 0.001s 100%
jalview.util.FormatTest 5 0 0 0.006s 100%
jalview.util.JSONUtilsTest 1 0 0 0s 100%
jalview.util.Log4jTest 1 0 0 1.177s 100%
jalview.util.MapListTest 29 0 0 0.022s 100%
jalview.util.MappingUtilsTest 22 0 0 0.018s 100%
jalview.util.MathUtilsTest 1 0 0 0s 100%
jalview.util.MessageManagerTest 3 0 0 0.003s 100%
jalview.util.ParseHtmlBodyAndLinksTest 4 0 0 0.002s 100%
jalview.util.PlatformTest 4 0 0 0.002s 100%
jalview.util.QuickSortTest 10 0 0 0.006s 100%
jalview.util.SetUtilsTest 1 0 0 0.009s 100%
jalview.util.ShiftListTest 1 0 0 0.001s 100%
jalview.util.SparseCountTest 5 0 0 0.002s 100%
jalview.util.StringUtilsTest 12 0 0 0.008s 100%
jalview.util.UrlLinkTest 9 0 0 0.020s 100%
jalview.util.matcher.ConditionTest 3 0 0 0.002s 100%
jalview.util.matcher.MatcherTest 10 0 0 0.011s 100%
jalview.viewmodel.OverviewDimensionsHideHiddenTest 17 0 0 0.030s 100%
jalview.viewmodel.OverviewDimensionsShowHiddenTest 18 0 0 0.032s 100%
jalview.viewmodel.ViewportRangesTest 28 0 0 0.023s 100%
jalview.viewmodel.styles.ViewStyleTest 2 0 0 0.003s 100%
jalview.workers.AlignCalcManagerTest 1 0 0 0.103s 100%
jalview.ws.SequenceFetcherTest 1 0 0 0.001s 100%
jalview.ws.dbsources.EmblXmlSourceTest 4 0 0 0.043s 100%
jalview.ws.dbsources.PfamFullTest 1 0 0 0.001s 100%
jalview.ws.dbsources.PfamSeedTest 1 0 0 0.001s 100%
jalview.ws.dbsources.RfamFullTest 1 0 0 0.002s 100%
jalview.ws.dbsources.RfamSeedTest 1 0 0 0.001s 100%
jalview.ws.dbsources.UniprotTest 5 0 0 0.093s 100%
jalview.ws.ebi.EBIFetchClientTest 2 0 0 0.005s 100%
jalview.ws.rest.RestClientTest 1 0 0 0.005s 100%
jalview.ws.rest.ShmmrRSBSService 2 0 0 0.131s 100%
jalview.ws.seqfetcher.DbRefFetcherTest 1 0 0 0.001s 100%
mc_view.AtomTest 3 0 0 0.004s 100%
mc_view.BondTest 1 0 0 0s 100%
mc_view.PDBChainTest 12 0 0 0.018s 100%
mc_view.PDBfileTest 5 0 0 0.918s 100%
mc_view.ResidueTest 1 0 0 0s 100%