Class | Line # | Actions | |||
---|---|---|---|---|---|
JalviewAppender | 43 | 8 | 8 | 0.666666766.7% |
Class JalviewAppender |
Line # 43 |
8 |
8 |
0.666666766.7% |
---|---|---|---|---|
JalviewAppender() JalviewAppender() | 4747 | 1.01 | 1.01 | 0.0 0.00% |
JalviewAppender(LogLevel) JalviewAppender(LogLevel) | 5252 | 1.01 | 2.02 | 0.6666667 0.666666766.7% |
JalviewAppender(String,Filter,Layout<? extends Serializable>,boolean,Property[]) JalviewAppender(String,Filter,Layout<? extends Serializable>,boolean,Property[]) | 6060 | 1.01 | 1.01 | 0.0 0.00% |
setTextArea(JTextArea) : void setTextArea(JTextArea) : void | 7171 | 1.01 | 1.01 | 1.0 1.0100% |
run() : void run() : void | 8787 | 2.02 | 2.02 | 0.75 0.7575% |
append(LogEvent) : void append(LogEvent) : void | 7979 | 2.02 | 1.01 | 1.0 1.0100% |
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTestjalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.6666667
|
jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.6666667
|
jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest | 1PASS | ||
0.6666667
|
jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTestjalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTest | 1PASS | ||
0.6666667
|
jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.6666667
|
jalview.renderer.seqfeatures.FeatureRendererTest.testFindComplementFeaturesAtResiduejalview.renderer.seqfeatures.FeatureRendererTest.testFindComplementFeaturesAtResidue | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTestjalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTestjalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTest | 1PASS | ||
0.6666667
|
jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTestjalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.6666667
|
jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest | 1PASS | ||
0.6666667
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.3888889
|
jalview.renderer.seqfeatures.FeatureRendererTest.testGetColourjalview.renderer.seqfeatures.FeatureRendererTest.testGetColour | 1PASS | ||
0.3888889
|
jalview.gui.AssociatePDBFileTest.testAssociatePDBFilejalview.gui.AssociatePDBFileTest.testAssociatePDBFile | 1PASS | ||
0.3888889
|
jalview.fts.threedbeacons.TDBeaconsPanelTest.populateCmbSearchTargetOptionsTestjalview.fts.threedbeacons.TDBeaconsPanelTest.populateCmbSearchTargetOptionsTest | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testPAEsaveRestorejalview.project.Jalview2xmlTests.testPAEsaveRestore | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.3888889
|
jalview.io.vcf.VCFLoaderTest.testDoLoadjalview.io.vcf.VCFLoaderTest.testDoLoad | 1PASS | ||
0.3888889
|
jalview.io.BackupFilesTest.backupsEnabledNoRollMaxTestjalview.io.BackupFilesTest.backupsEnabledNoRollMaxTest | 1PASS | ||
0.3888889
|
jalview.ext.so.SequenceOntologyTest.testIsAjalview.ext.so.SequenceOntologyTest.testIsA | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverGroupRepSeqsjalview.project.Jalview2xmlTests.testStoreAndRecoverGroupRepSeqs | 1PASS | ||
0.3888889
|
jalview.renderer.seqfeatures.FeatureRendererTest.testIsVisiblejalview.renderer.seqfeatures.FeatureRendererTest.testIsVisible | 1PASS | ||
0.3888889
|
jalview.gui.SeqPanelTest.testFindMousePosition_wrapped_annotationsjalview.gui.SeqPanelTest.testFindMousePosition_wrapped_annotations | 1PASS | ||
0.3888889
|
jalview.gui.AlignmentPanelTest.testSetOverviewTitle_automaticOverviewjalview.gui.AlignmentPanelTest.testSetOverviewTitle_automaticOverview | 1PASS | ||
0.3888889
|
jalview.datamodel.DBRefEntryTest.testEqualRefjalview.datamodel.DBRefEntryTest.testEqualRef | 1PASS | ||
0.3888889
|
jalview.io.AnnotatedPDBFileInputTest.testJalviewProjectRelocationAnnotationjalview.io.AnnotatedPDBFileInputTest.testJalviewProjectRelocationAnnotation | 1PASS | ||
0.3888889
|
jalview.io.BackupFilesTest.backupsEnabledReverseRollMaxTestjalview.io.BackupFilesTest.backupsEnabledReverseRollMaxTest | 1PASS | ||
0.3888889
|
jalview.gui.AlignViewportTest.testDeregisterMapping_withReferencejalview.gui.AlignViewportTest.testDeregisterMapping_withReference | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testAutoShowOverviewForLegacyProjectsjalview.project.Jalview2xmlTests.testAutoShowOverviewForLegacyProjects | 1PASS | ||
0.3888889
|
jalview.gui.AlignFrameTest.testColourThresholdActionsjalview.gui.AlignFrameTest.testColourThresholdActions | 1PASS | ||
0.3888889
|
jalview.io.FormatAdapterTest.testRoundTripjalview.io.FormatAdapterTest.testRoundTrip | 1PASS | ||
0.3888889
|
jalview.gui.SeqPanelTest.testFindMousePosition_wrapped_scales_longSequencejalview.gui.SeqPanelTest.testFindMousePosition_wrapped_scales_longSequence | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverPDBEntryjalview.project.Jalview2xmlTests.testStoreAndRecoverPDBEntry | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageOutputTestjalview.bin.CommandsTest.structureImageOutputTest | 1PASS | ||
0.3888889
|
jalview.gui.AlignViewportTest.testDeregisterMapping_onCloseViewjalview.gui.AlignViewportTest.testDeregisterMapping_onCloseView | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.3888889
|
jalview.datamodel.features.SequenceFeaturesTest.testGetFeaturesByOntologyjalview.datamodel.features.SequenceFeaturesTest.testGetFeaturesByOntology | 1PASS | ||
0.3888889
|
jalview.gui.StructureChooserTest.displayTDBQueryTestjalview.gui.StructureChooserTest.displayTDBQueryTest | 1PASS | ||
0.3888889
|
jalview.io.PhylipFileTests.testInterleavedIOjalview.io.PhylipFileTests.testInterleavedIO | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.3888889
|
jalview.gui.SeqPanelTest.testFindMousePosition_wrapped_noAnnotationsjalview.gui.SeqPanelTest.testFindMousePosition_wrapped_noAnnotations | 1PASS | ||
0.3888889
|
jalview.io.RNAMLfileTest.testRnamlSeqImportjalview.io.RNAMLfileTest.testRnamlSeqImport | 1PASS | ||
0.3888889
|
jalview.io.gff.GffHelperFactoryTest.testGetHelperjalview.io.gff.GffHelperFactoryTest.testGetHelper | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverNoOverviewjalview.project.Jalview2xmlTests.testStoreAndRecoverNoOverview | 1PASS | ||
0.3888889
|
jalview.gui.AnnotationLabelsTest.testDrawLabelsjalview.gui.AnnotationLabelsTest.testDrawLabels | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.3888889
|
jalview.structure.StructureSelectionManagerTest.testSetMapping_seqFeaturesjalview.structure.StructureSelectionManagerTest.testSetMapping_seqFeatures | 1PASS | ||
0.3888889
|
jalview.gui.SeqPanelTest.testFindMousePosition_wrapped_scaleAbovejalview.gui.SeqPanelTest.testFindMousePosition_wrapped_scaleAbove | 1PASS | ||
0.3888889
|
jalview.ext.jmol.JmolViewerTest.testAddStrToSingleSeqViewJMoljalview.ext.jmol.JmolViewerTest.testAddStrToSingleSeqViewJMol | 1PASS | ||
0.3888889
|
jalview.gui.AlignViewportTest.testSetGetHasSearchResultsjalview.gui.AlignViewportTest.testSetGetHasSearchResults | 1PASS | ||
0.3888889
|
jalview.io.gff.ExonerateHelperTest.testAddExonerateGffToAlignmentjalview.io.gff.ExonerateHelperTest.testAddExonerateGffToAlignment | 1PASS | ||
0.3888889
|
jalview.gui.AlignViewportTest.testDeregisterMapping_withNoReferencejalview.gui.AlignViewportTest.testDeregisterMapping_withNoReference | 1PASS | ||
0.3888889
|
jalview.io.BackupFilesTest.backupsEnabledRollMaxTestjalview.io.BackupFilesTest.backupsEnabledRollMaxTest | 1PASS | ||
0.3888889
|
jalview.gui.AlignViewportTest.testGetSelectionAsNewSequences_withContactMatricesjalview.gui.AlignViewportTest.testGetSelectionAsNewSequences_withContactMatrices | 1PASS | ||
0.3888889
|
jalview.gui.AlignFrameTest.testHideFeatureColumnsjalview.gui.AlignFrameTest.testHideFeatureColumns | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testStoreAndRestoreIDwidthAndAnnotationHeightjalview.project.Jalview2xmlTests.testStoreAndRestoreIDwidthAndAnnotationHeight | 1PASS | ||
0.3888889
|
jalview.gui.AnnotationLabelsTest2.testIdWidthChangesjalview.gui.AnnotationLabelsTest2.testIdWidthChanges | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverExpandedviewsjalview.project.Jalview2xmlTests.testStoreAndRecoverExpandedviews | 1PASS | ||
0.3888889
|
jalview.renderer.seqfeatures.FeatureRendererTest.testFindFeaturesAtColumnjalview.renderer.seqfeatures.FeatureRendererTest.testFindFeaturesAtColumn | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverGeneLocusjalview.project.Jalview2xmlTests.testStoreAndRecoverGeneLocus | 1PASS | ||
0.3888889
|
jalview.io.BackupFilesTest.backupsEnabledSingleFileBackupTestjalview.io.BackupFilesTest.backupsEnabledSingleFileBackupTest | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverColourThresholdsjalview.project.Jalview2xmlTests.testStoreAndRecoverColourThresholds | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageOutputTestjalview.bin.CommandsTest.structureImageOutputTest | 1PASS | ||
0.3888889
|
jalview.structures.models.AAStructureBindingModelTest.testImportPDBPreservesChainMappingsjalview.structures.models.AAStructureBindingModelTest.testImportPDBPreservesChainMappings | 1PASS | ||
0.3888889
|
jalview.io.BackupFilesTest.noBackupsEnabledTestjalview.io.BackupFilesTest.noBackupsEnabledTest | 1PASS | ||
0.3888889
|
jalview.io.gff.InterProScanHelperTest.testProcessProteinMatchjalview.io.gff.InterProScanHelperTest.testProcessProteinMatch | 1PASS | ||
0.3888889
|
jalview.bin.argparser.ArgParserTest.parseArgsTestjalview.bin.argparser.ArgParserTest.parseArgsTest | 1PASS | ||
0.3888889
|
jalview.io.RNAMLfileTest.testRnamlToStockholmIOjalview.io.RNAMLfileTest.testRnamlToStockholmIO | 1PASS | ||
0.3888889
|
jalview.ws.dbsources.UniprotTest.testimportOfProblemEntriesjalview.ws.dbsources.UniprotTest.testimportOfProblemEntries | 1PASS | ||
0.3888889
|
jalview.gui.StructureChooserTest.populateFilterComboBoxTestjalview.gui.StructureChooserTest.populateFilterComboBoxTest | 1PASS | ||
0.3888889
|
jalview.gui.FeatureSettingsTest.testSaveLoadjalview.gui.FeatureSettingsTest.testSaveLoad | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverAnnotationRowElementColoursjalview.project.Jalview2xmlTests.testStoreAndRecoverAnnotationRowElementColours | 1PASS | ||
0.3888889
|
jalview.gui.StructureChooserTest.fetchStructuresInfoMockedTestjalview.gui.StructureChooserTest.fetchStructuresInfoMockedTest | 1PASS | ||
0.3888889
|
jalview.io.FileIOTester.testIsGzipInputStreamjalview.io.FileIOTester.testIsGzipInputStream | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageOutputTestjalview.bin.CommandsTest.structureImageOutputTest | 1PASS | ||
0.3888889
|
jalview.io.CrossRef2xmlTests.openCrossrefsForEnsemblTwicejalview.io.CrossRef2xmlTests.openCrossrefsForEnsemblTwice | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverOverviewjalview.project.Jalview2xmlTests.testStoreAndRecoverOverview | 1PASS | ||
0.3888889
|
jalview.schemes.ColourSchemesTest.testRegisterColourSchemejalview.schemes.ColourSchemesTest.testRegisterColourScheme | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testPcaViewAssociationjalview.project.Jalview2xmlTests.testPcaViewAssociation | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.gatherViewsHerejalview.project.Jalview2xmlTests.gatherViewsHere | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.structureImageOutputTestjalview.bin.CommandsTest.structureImageOutputTest | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverReferenceSeqSettingsjalview.project.Jalview2xmlTests.testStoreAndRecoverReferenceSeqSettings | 1PASS | ||
0.3888889
|
jalview.gui.ScalePanelTest.testBuildPopupMenujalview.gui.ScalePanelTest.testBuildPopupMenu | 1PASS | ||
0.3888889
|
jalview.gui.AlignViewportTest.testGetConsensusSeqjalview.gui.AlignViewportTest.testGetConsensusSeq | 1PASS | ||
0.3888889
|
jalview.bin.CommandsTest.headlessOrGuiImageOutputTestjalview.bin.CommandsTest.headlessOrGuiImageOutputTest | 1PASS | ||
0.3888889
|
jalview.gui.AnnotationLabelsTest2.testIdWidthChangesjalview.gui.AnnotationLabelsTest2.testIdWidthChanges | 1PASS | ||
0.3888889
|
jalview.gui.QuitHandlerTest.testNoGUIUnsavedChangesjalview.gui.QuitHandlerTest.testNoGUIUnsavedChanges | 1PASS | ||
0.3888889
|
jalview.datamodel.features.SequenceFeaturesTest.testIsOntologyTermjalview.datamodel.features.SequenceFeaturesTest.testIsOntologyTerm | 1PASS | ||
0.3888889
|
jalview.gui.QuitHandlerTest.testInstantQuitjalview.gui.QuitHandlerTest.testInstantQuit | 1PASS | ||
0.3888889
|
jalview.project.Jalview2xmlTests.testMergeDatasetsforManyViewsjalview.project.Jalview2xmlTests.testMergeDatasetsforManyViews | 1PASS | ||
0.3888889
|
jalview.gui.AlignFrameTest.testNewView_colourThresholdsjalview.gui.AlignFrameTest.testNewView_colourThresholds | 1PASS | ||
0.22222222
|
jalview.util.CaseInsensitiveStringTest.testHashcodejalview.util.CaseInsensitiveStringTest.testHashcode | 1PASS | ||
0.22222222
|
jalview.gui.SeqPanelTest.testFindColumn_unwrappedjalview.gui.SeqPanelTest.testFindColumn_unwrapped | 1PASS | ||
0.22222222
|
jalview.gui.QuitHandlerTest.testForceQuitjalview.gui.QuitHandlerTest.testForceQuit | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTestjalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTest | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTestjalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTest | 1PASS | ||
0.22222222
|
jalview.io.FeaturesFileTest.simpleGff3FileLoaderjalview.io.FeaturesFileTest.simpleGff3FileLoader | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTestjalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTest | 1PASS | ||
0.22222222
|
jalview.ext.ensembl.EnsemblCdsTest.testGetGenomicRangesFromFeaturesjalview.ext.ensembl.EnsemblCdsTest.testGetGenomicRangesFromFeatures | 1PASS | ||
0.22222222
|
jalview.gui.QuitHandlerTest.testSavedAlignmentChangesjalview.gui.QuitHandlerTest.testSavedAlignmentChanges | 1PASS | ||
0.22222222
|
jalview.io.FeaturesFileTest.testParse_pureGff3jalview.io.FeaturesFileTest.testParse_pureGff3 | 1PASS | ||
0.22222222
|
jalview.datamodel.AlignmentTest.testAssertDatasetIsNormalisedjalview.datamodel.AlignmentTest.testAssertDatasetIsNormalised | 1PASS | ||
0.22222222
|
jalview.gui.AlignmentPanelTest.testSetOverviewTitlejalview.gui.AlignmentPanelTest.testSetOverviewTitle | 1PASS | ||
0.22222222
|
jalview.io.vcf.VCFLoaderTest.testDoLoad_vepCsqjalview.io.vcf.VCFLoaderTest.testDoLoad_vepCsq | 1PASS | ||
0.22222222
|
jalview.io.gff.Gff3HelperTest.testProcessCdnaMatch_forwardToReversejalview.io.gff.Gff3HelperTest.testProcessCdnaMatch_forwardToReverse | 1PASS | ||
0.22222222
|
jalview.io.cache.JvCacheableInputBoxTest.updateCacheTestjalview.io.cache.JvCacheableInputBoxTest.updateCacheTest | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.bootstrapArgsValuesAndHeadlessModeTestjalview.bin.argparser.ArgParserTest.bootstrapArgsValuesAndHeadlessModeTest | 1PASS | ||
0.22222222
|
jalview.gui.QuitHandlerTest.testSavedProjectChangesjalview.gui.QuitHandlerTest.testSavedProjectChanges | 1PASS | ||
0.22222222
|
jalview.renderer.seqfeatures.FeatureRendererTest.testFindAllFeaturesjalview.renderer.seqfeatures.FeatureRendererTest.testFindAllFeatures | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTestjalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTest | 1PASS | ||
0.22222222
|
jalview.analysis.AlignmentUtilsTests.testAlignSequenceAs_withMapping_withIntronsjalview.analysis.AlignmentUtilsTests.testAlignSequenceAs_withMapping_withIntrons | 1PASS | ||
0.22222222
|
jalview.gui.QuitHandlerTest.testWaitForSaveQuitjalview.gui.QuitHandlerTest.testWaitForSaveQuit | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.bootstrapArgsValuesAndHeadlessModeTestjalview.bin.argparser.ArgParserTest.bootstrapArgsValuesAndHeadlessModeTest | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.parseSubValsAndLinkedIdsTestjalview.bin.argparser.ArgParserTest.parseSubValsAndLinkedIdsTest | 1PASS | ||
0.22222222
|
jalview.ext.ensembl.EnsemblProteinTest.testIsValidReferencejalview.ext.ensembl.EnsemblProteinTest.testIsValidReference | 1PASS | ||
0.22222222
|
jalview.datamodel.AlignmentTest.testVerifyAlignmentDatasetRefsjalview.datamodel.AlignmentTest.testVerifyAlignmentDatasetRefs | 1PASS | ||
0.22222222
|
jalview.io.JalviewExportPropertiesTests.testImportExportPeriodGapsjalview.io.JalviewExportPropertiesTests.testImportExportPeriodGaps | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.bootstrapArgsValuesAndHeadlessModeTestjalview.bin.argparser.ArgParserTest.bootstrapArgsValuesAndHeadlessModeTest | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.parseArgsTestjalview.bin.argparser.ArgParserTest.parseArgsTest | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTestjalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTest | 1PASS | ||
0.22222222
|
jalview.io.StockholmFileTest.pfamFileIOjalview.io.StockholmFileTest.pfamFileIO | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.parseArgsTestjalview.bin.argparser.ArgParserTest.parseArgsTest | 1PASS | ||
0.22222222
|
jalview.analysis.AverageDistanceEngineTest.testUPGMAEnginejalview.analysis.AverageDistanceEngineTest.testUPGMAEngine | 1PASS | ||
0.22222222
|
jalview.renderer.seqfeatures.FeatureRendererTest.testFilterFeaturesForDisplayjalview.renderer.seqfeatures.FeatureRendererTest.testFilterFeaturesForDisplay | 1PASS | ||
0.22222222
|
jalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTestjalview.bin.argparser.ArgParserTest.parseAutoIndexAndSubstitutionsTest | 1PASS | ||
0.22222222
|
jalview.io.FormatAdapterTest.testRoundTripjalview.io.FormatAdapterTest.testRoundTrip | 1PASS | ||
0.22222222
|
jalview.gui.QuitHandlerTest.testUnsavedChangesjalview.gui.QuitHandlerTest.testUnsavedChanges | 1PASS | ||
0.16666667
|
jalview.structures.models.AAStructureBindingModelTest.testBuildColoursMapjalview.structures.models.AAStructureBindingModelTest.testBuildColoursMap | 1PASS | ||
0.16666667
|
jalview.bin.argparser.ArgParserTest.parseArgsTestjalview.bin.argparser.ArgParserTest.parseArgsTest | 1PASS | ||
0.16666667
|
jalview.io.FeaturesFileTest.readGff3Filejalview.io.FeaturesFileTest.readGff3File | 1PASS | ||
0.16666667
|
jalview.util.MessageManagerTest.testFormatMessage_invalidjalview.util.MessageManagerTest.testFormatMessage_invalid | 1PASS | ||
0.16666667
|
jalview.analysis.AlignmentUtilsTests.testAlignSequenceAs_withMapping_noIntronsjalview.analysis.AlignmentUtilsTests.testAlignSequenceAs_withMapping_noIntrons | 1PASS | ||
0.16666667
|
jalview.gui.AlignmentPanelTest.testCalculateIdWidth_noArgsjalview.gui.AlignmentPanelTest.testCalculateIdWidth_noArgs | 1PASS | ||
0.16666667
|
jalview.analysis.AlignmentUtilsTests.testTransferFeatures_withSelectjalview.analysis.AlignmentUtilsTests.testTransferFeatures_withSelect | 1PASS | ||
0.16666667
|
jalview.bin.argparser.ArgParserTest.parseSubValsAndLinkedIdsTestjalview.bin.argparser.ArgParserTest.parseSubValsAndLinkedIdsTest | 1PASS | ||
0.16666667
|
jalview.io.gff.Gff3HelperTest.testGetDescriptionjalview.io.gff.Gff3HelperTest.testGetDescription | 1PASS | ||
0.16666667
|
jalview.util.MessageManagerTest.testGetStringOrReturnjalview.util.MessageManagerTest.testGetStringOrReturn | 1PASS | ||
0.16666667
|
jalview.bin.argparser.ArgParserTest.allLinkedIdsTestjalview.bin.argparser.ArgParserTest.allLinkedIdsTest | 1PASS | ||
0.16666667
|
jalview.util.MessageManagerTest.testGetString_invalidjalview.util.MessageManagerTest.testGetString_invalid | 1PASS | ||
0.16666667
|
jalview.bin.argparser.ArgParserTest.parseArgsTestjalview.bin.argparser.ArgParserTest.parseArgsTest | 1PASS | ||
0.16666667
|
jalview.gui.DesktopTests.testInternalCopyPastejalview.gui.DesktopTests.testInternalCopyPaste | 1PASS | ||
0.16666667
|
jalview.io.vcf.VCFLoaderTest.testDoLoad_reverseStrandjalview.io.vcf.VCFLoaderTest.testDoLoad_reverseStrand | 1PASS | ||
0.16666667
|
jalview.renderer.seqfeatures.FeatureColourFinderTest.testFindFeatureColour_featureGroupNotDisplayedjalview.renderer.seqfeatures.FeatureColourFinderTest.testFindFeatureColour_featureGroupNotDisplayed | 1PASS | ||
0.16666667
|
jalview.bin.argparser.ArgParserTest.parseArgsTestjalview.bin.argparser.ArgParserTest.parseArgsTest | 1PASS | ||
0.16666667
|
jalview.io.FeaturesFileTest.testParse_mixedJalviewGffjalview.io.FeaturesFileTest.testParse_mixedJalviewGff | 1PASS | ||
0.16666667
|
jalview.analysis.FinderTest.testFind_withHiddenColumnsAndSelectionjalview.analysis.FinderTest.testFind_withHiddenColumnsAndSelection | 1PASS |
1 | /* | ||||||
2 | * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) | ||||||
3 | * Copyright (C) $$Year-Rel$$ The Jalview Authors | ||||||
4 | * | ||||||
5 | * This file is part of Jalview. | ||||||
6 | * | ||||||
7 | * Jalview is free software: you can redistribute it and/or | ||||||
8 | * modify it under the terms of the GNU General Public License | ||||||
9 | * as published by the Free Software Foundation, either version 3 | ||||||
10 | * of the License, or (at your option) any later version. | ||||||
11 | * | ||||||
12 | * Jalview is distributed in the hope that it will be useful, but | ||||||
13 | * WITHOUT ANY WARRANTY; without even the implied warranty | ||||||
14 | * of MERCHANTABILITY or FITNESS FOR A PARTICULAR | ||||||
15 | * PURPOSE. See the GNU General Public License for more details. | ||||||
16 | * | ||||||
17 | * You should have received a copy of the GNU General Public License | ||||||
18 | * along with Jalview. If not, see <http://www.gnu.org/licenses/>. | ||||||
19 | * The Jalview Authors are detailed in the 'AUTHORS' file. | ||||||
20 | */ | ||||||
21 | package jalview.log; | ||||||
22 | |||||||
23 | import java.io.Serializable; | ||||||
24 | import java.nio.charset.StandardCharsets; | ||||||
25 | |||||||
26 | import javax.swing.JTextArea; | ||||||
27 | import javax.swing.SwingUtilities; | ||||||
28 | |||||||
29 | import org.apache.logging.log4j.Level; | ||||||
30 | import org.apache.logging.log4j.core.Filter; | ||||||
31 | import org.apache.logging.log4j.core.Layout; | ||||||
32 | import org.apache.logging.log4j.core.LogEvent; | ||||||
33 | import org.apache.logging.log4j.core.appender.AbstractAppender; | ||||||
34 | import org.apache.logging.log4j.core.config.Property; | ||||||
35 | |||||||
36 | import jalview.log.JLoggerI.LogLevel; | ||||||
37 | import jalview.util.Log4j; | ||||||
38 | |||||||
39 | /** | ||||||
40 | * From http://textareaappender.zcage.com/ the means to capture the logs, too. | ||||||
41 | * Simple example of creating a Log4j appender that will write to a JTextArea. | ||||||
42 | */ | ||||||
|
|||||||
43 | public class JalviewAppender extends AbstractAppender | ||||||
44 | { | ||||||
45 | public final static String NAME = "JalviewAppender"; | ||||||
46 | |||||||
|
|||||||
47 | 0 | public JalviewAppender()... | |||||
48 | { | ||||||
49 | 0 | this(LogLevel.INFO); | |||||
50 | } | ||||||
51 | |||||||
|
|||||||
52 | 75 | public JalviewAppender(LogLevel loglevel)... | |||||
53 | { | ||||||
54 | 75 | super(NAME, | |||||
55 | 75 | Log4j.getThresholdFilter(loglevel == null ? Level.INFO | |||||
56 | : Log4j.log4jLevel(loglevel)), | ||||||
57 | Log4j.getSimpleLayout(), false, new Property[0]); | ||||||
58 | } | ||||||
59 | |||||||
|
|||||||
60 | 0 | protected JalviewAppender(String name, Filter filter,... | |||||
61 | Layout<? extends Serializable> layout, boolean ignoreExceptions, | ||||||
62 | Property[] properties) | ||||||
63 | { | ||||||
64 | 0 | super(name, filter, layout, ignoreExceptions, properties); | |||||
65 | // TODO Auto-generated constructor stub | ||||||
66 | } | ||||||
67 | |||||||
68 | static private JTextArea jTextArea = null; | ||||||
69 | |||||||
70 | /** Set the target JTextArea for the logging information to appear. */ | ||||||
|
|||||||
71 | 75 | static public void setTextArea(JTextArea jTextArea)... | |||||
72 | { | ||||||
73 | 75 | JalviewAppender.jTextArea = jTextArea; | |||||
74 | } | ||||||
75 | |||||||
76 | /** | ||||||
77 | * Format and then append the loggingEvent to the stored JTextArea. | ||||||
78 | */ | ||||||
|
|||||||
79 | 1433 | public void append(LogEvent logEvent)... | |||||
80 | { | ||||||
81 | 1433 | final String message = new String( | |||||
82 | this.getLayout().toByteArray(logEvent), StandardCharsets.UTF_8); | ||||||
83 | |||||||
84 | // Append formatted message to textarea using the Swing Thread. | ||||||
85 | 1433 | SwingUtilities.invokeLater(new Runnable() | |||||
86 | { | ||||||
|
|||||||
87 | 1412 | public void run()... | |||||
88 | { | ||||||
89 | 1412 | if (jTextArea != null) | |||||
90 | { | ||||||
91 | 1412 | jTextArea.append(message); | |||||
92 | } | ||||||
93 | } | ||||||
94 | }); | ||||||
95 | } | ||||||
96 | } |