Class |
Line # |
Actions |
|||
---|---|---|---|---|---|
JabaPreset | 32 | 13 | 10 | 0.409090940.9% |
Class JabaPreset |
13 |
10 |
0.409090940.9% |
|
---|---|---|---|---|
JabaPreset(Jws2Instance,Preset) JabaPreset(Jws2Instance,Preset) | 3838 | 2.02 | 1.01 | 1.0 1.0100% |
getName() : String getName() : String | 4444 | 1.01 | 1.01 | 1.0 1.0100% |
getDescription() : String getDescription() : String | 5050 | 1.01 | 1.01 | 1.0 1.0100% |
getApplicableUrls() : String[] getApplicableUrls() : String[] | 5656 | 1.01 | 1.01 | 0.0 0.00% |
getSourceFile() : String getSourceFile() : String | 6262 | 1.01 | 1.01 | 0.0 0.00% |
isModifiable() : boolean isModifiable() : boolean | 6868 | 1.01 | 1.01 | 1.0 1.0100% |
setSourceFile(String) : void setSourceFile(String) : void | 7474 | 1.01 | 1.01 | 0.0 0.00% |
getArguments() : List<ArgumentI> getArguments() : List<ArgumentI> | 8282 | 4.04 | 2.02 | 0.0 0.00% |
setArguments(List<ArgumentI>) : void setArguments(List<ArgumentI>) : void | 9797 | 1.01 | 1.01 | 0.0 0.00% |
0.4090909
|
jalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTestjalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTest | 1PASS | ||
0.4090909
|
jalview.gui.AlignViewportTest.testDeregisterMapping_withReferencejalview.gui.AlignViewportTest.testDeregisterMapping_withReference | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTestjalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTest | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.4090909
|
jalview.gui.FeatureSettingsTest.testSaveLoadjalview.gui.FeatureSettingsTest.testSaveLoad | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.4090909
|
jalview.schemes.ColourSchemesTest.testRegisterColourSchemejalview.schemes.ColourSchemesTest.testRegisterColourScheme | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.4090909
|
jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest | 1PASS | ||
0.4090909
|
jalview.gui.SeqPanelTest.testFindColumn_and_FindAlignmentColumn_wrappedjalview.gui.SeqPanelTest.testFindColumn_and_FindAlignmentColumn_wrapped | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.4090909
|
jalview.io.CrossRef2xmlTests.openCrossrefsForEnsemblTwicejalview.io.CrossRef2xmlTests.openCrossrefsForEnsemblTwice | 1PASS | ||
0.4090909
|
jalview.renderer.seqfeatures.FeatureRendererTest.testGetColourjalview.renderer.seqfeatures.FeatureRendererTest.testGetColour | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.4090909
|
jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.4090909
|
jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.4090909
|
jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest | 1PASS | ||
0.4090909
|
jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.4090909
|
jalview.gui.DesktopTests.testInternalCopyPastejalview.gui.DesktopTests.testInternalCopyPaste | 1PASS | ||
0.4090909
|
jalview.project.Jalview2xmlTests.gatherViewsHerejalview.project.Jalview2xmlTests.gatherViewsHere | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTestjalview.bin.CommandsTest.argFilesGlobAndSubstitutionsTest | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.4090909
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.27272728
|
jalview.gui.SeqPanelTest.testFindMousePosition_wrapped_scaleAbovejalview.gui.SeqPanelTest.testFindMousePosition_wrapped_scaleAbove | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testCopyViewSettingsjalview.project.Jalview2xmlTests.testCopyViewSettings | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageOutputTestjalview.bin.CommandsTest.structureImageOutputTest | 1PASS | ||
0.27272728
|
jalview.controller.AlignViewControllerTest.testSelectColumnsWithHighlightjalview.controller.AlignViewControllerTest.testSelectColumnsWithHighlight | 1PASS | ||
0.27272728
|
jalview.gui.ProgressBarTest.testConstructor_prematureInstantiationjalview.gui.ProgressBarTest.testConstructor_prematureInstantiation | 1PASS | ||
0.27272728
|
jalview.gui.AlignViewportTest.testGetConsensusSeqjalview.gui.AlignViewportTest.testGetConsensusSeq | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageOutputTestjalview.bin.CommandsTest.structureImageOutputTest | 1PASS | ||
0.27272728
|
jalview.io.FeaturesFileTest.testParse_mixedJalviewGffjalview.io.FeaturesFileTest.testParse_mixedJalviewGff | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testMergeDatasetsforManyViewsjalview.project.Jalview2xmlTests.testMergeDatasetsforManyViews | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testAutoShowOverviewForLegacyProjectsjalview.project.Jalview2xmlTests.testAutoShowOverviewForLegacyProjects | 1PASS | ||
0.27272728
|
jalview.ext.ensembl.EnsemblProteinTest.testIsValidReferencejalview.ext.ensembl.EnsemblProteinTest.testIsValidReference | 1PASS | ||
0.27272728
|
jalview.urls.UrlProviderTest.testInitUrlProviderjalview.urls.UrlProviderTest.testInitUrlProvider | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationColumnChooserTest.testResetjalview.gui.AnnotationColumnChooserTest.testReset | 1PASS | ||
0.27272728
|
jalview.io.JalviewFileViewTest.testGetImageIconjalview.io.JalviewFileViewTest.testGetImageIcon | 1PASS | ||
0.27272728
|
jalview.util.MappingUtilsTest.testFindOverlapjalview.util.MappingUtilsTest.testFindOverlap | 1PASS | ||
0.27272728
|
jalview.gui.ScalePanelTest.testBuildPopupMenujalview.gui.ScalePanelTest.testBuildPopupMenu | 1PASS | ||
0.27272728
|
jalview.util.MappingUtilsTest.testMapEditCommandjalview.util.MappingUtilsTest.testMapEditCommand | 1PASS | ||
0.27272728
|
jalview.datamodel.AlignmentTest.testAlignAs_cdnaAsProtein_singleSequencejalview.datamodel.AlignmentTest.testAlignAs_cdnaAsProtein_singleSequence | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testGetAnnotationTypesjalview.gui.AnnotationChooserTest.testGetAnnotationTypes | 1PASS | ||
0.27272728
|
jalview.datamodel.MappingTest.testIntersectVisContigsjalview.datamodel.MappingTest.testIntersectVisContigs | 1PASS | ||
0.27272728
|
jalview.workers.AlignCalcManagerTest.testRemoveWorkerForAnnotationjalview.workers.AlignCalcManagerTest.testRemoveWorkerForAnnotation | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testMergeDatasetsforViewsjalview.project.Jalview2xmlTests.testMergeDatasetsforViews | 1PASS | ||
0.27272728
|
jalview.urls.UrlProviderTest.testSetDefaultUrljalview.urls.UrlProviderTest.testSetDefaultUrl | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverGeneLocusjalview.project.Jalview2xmlTests.testStoreAndRecoverGeneLocus | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.27272728
|
jalview.gui.AlignmentPanelTest.testUpdateLayout_endResjalview.gui.AlignmentPanelTest.testUpdateLayout_endRes | 1PASS | ||
0.27272728
|
jalview.io.vcf.VCFLoaderTest.testDoLoad_vepCsqjalview.io.vcf.VCFLoaderTest.testDoLoad_vepCsq | 1PASS | ||
0.27272728
|
jalview.gui.AlignViewportTest.testSetSelectionGroupjalview.gui.AlignViewportTest.testSetSelectionGroup | 1PASS | ||
0.27272728
|
jalview.urls.IdentifiersUrlProviderTest.testUrlLinksjalview.urls.IdentifiersUrlProviderTest.testUrlLinks | 1PASS | ||
0.27272728
|
jalview.datamodel.AlignedCodonFrameTest.testGetMappedRegionjalview.datamodel.AlignedCodonFrameTest.testGetMappedRegion | 1PASS | ||
0.27272728
|
jalview.analysis.scoremodels.SecondaryStructureDistanceModelTest.testFindDistances_withGapjalview.analysis.scoremodels.SecondaryStructureDistanceModelTest.testFindDistances_withGap | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverColourThresholdsjalview.project.Jalview2xmlTests.testStoreAndRecoverColourThresholds | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testSelectType_showForSelectedjalview.gui.AnnotationChooserTest.testSelectType_showForSelected | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testBuildShowHideOptionsPaneljalview.gui.AnnotationChooserTest.testBuildShowHideOptionsPanel | 1PASS | ||
0.27272728
|
jalview.io.FeaturesFileTest.testPrintGffFormat_withFiltersjalview.io.FeaturesFileTest.testPrintGffFormat_withFilters | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.27272728
|
jalview.gui.AlignViewportTest.testSetGetHasSearchResultsjalview.gui.AlignViewportTest.testSetGetHasSearchResults | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testDeselectType_showForSelectedjalview.gui.AnnotationChooserTest.testDeselectType_showForSelected | 1PASS | ||
0.27272728
|
jalview.math.RotatableMatrixTest.testPrintjalview.math.RotatableMatrixTest.testPrint | 1PASS | ||
0.27272728
|
jalview.gui.QuitHandlerTest.testForceQuitjalview.gui.QuitHandlerTest.testForceQuit | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testStoreAndRestoreIDwidthAndAnnotationHeightjalview.project.Jalview2xmlTests.testStoreAndRestoreIDwidthAndAnnotationHeight | 1PASS | ||
0.27272728
|
jalview.io.FeaturesFileTest.testPrintJalviewFormatjalview.io.FeaturesFileTest.testPrintJalviewFormat | 1PASS | ||
0.27272728
|
jalview.util.MappingUtilsTest.testMapSequenceGroup_columnsjalview.util.MappingUtilsTest.testMapSequenceGroup_columns | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.27272728
|
jalview.ws.dbsources.UniprotTest.testimportOfProblemEntriesjalview.ws.dbsources.UniprotTest.testimportOfProblemEntries | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationLabelsTest2.testIdWidthChangesjalview.gui.AnnotationLabelsTest2.testIdWidthChanges | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationLabelsTest2.testIdWidthNoChangesjalview.gui.AnnotationLabelsTest2.testIdWidthNoChanges | 1PASS | ||
0.27272728
|
jalview.gui.SeqCanvasTest.testCalculateWrappedGeometry_noAnnotationsjalview.gui.SeqCanvasTest.testCalculateWrappedGeometry_noAnnotations | 1PASS | ||
0.27272728
|
jalview.gui.StructureChooserTest.displayTDBQueryTestjalview.gui.StructureChooserTest.displayTDBQueryTest | 1PASS | ||
0.27272728
|
jalview.gui.SeqPanelTest.testFindMousePosition_wrapped_noAnnotationsjalview.gui.SeqPanelTest.testFindMousePosition_wrapped_noAnnotations | 1PASS | ||
0.27272728
|
jalview.io.gff.ExonerateHelperTest.testAddExonerateGffToAlignmentjalview.io.gff.ExonerateHelperTest.testAddExonerateGffToAlignment | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testDeselectType_hideForSelectedjalview.gui.AnnotationChooserTest.testDeselectType_hideForSelected | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.27272728
|
jalview.gui.AlignFrameTest.testNewView_dsRefPreservedjalview.gui.AlignFrameTest.testNewView_dsRefPreserved | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.noDuplicatePdbMappingsMadejalview.project.Jalview2xmlTests.noDuplicatePdbMappingsMade | 1PASS | ||
0.27272728
|
jalview.gui.AlignViewportTest.testGetSelectionAsNewSequences_withContactMatricesjalview.gui.AlignViewportTest.testGetSelectionAsNewSequences_withContactMatrices | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testDeselectType_showForAlljalview.gui.AnnotationChooserTest.testDeselectType_showForAll | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testBuildActionButtonsPaneljalview.gui.AnnotationChooserTest.testBuildActionButtonsPanel | 1PASS | ||
0.27272728
|
jalview.gui.AlignFrameTest.testNewView_colourThresholdsjalview.gui.AlignFrameTest.testNewView_colourThresholds | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.27272728
|
jalview.util.MappingUtilsTest.testMapColumnSelection_proteinToDnajalview.util.MappingUtilsTest.testMapColumnSelection_proteinToDna | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.viewRefPdbAnnotationjalview.project.Jalview2xmlTests.viewRefPdbAnnotation | 1PASS | ||
0.27272728
|
jalview.gui.SeqPanelTest.testFindMousePosition_wrapped_annotationsjalview.gui.SeqPanelTest.testFindMousePosition_wrapped_annotations | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testPAEsaveRestorejalview.project.Jalview2xmlTests.testPAEsaveRestore | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.27272728
|
jalview.util.ParseHtmlBodyAndLinksTest.testParseHtml_withLinksjalview.util.ParseHtmlBodyAndLinksTest.testParseHtml_withLinks | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.27272728
|
jalview.gui.QuitHandlerTest.testSavedAlignmentChangesjalview.gui.QuitHandlerTest.testSavedAlignmentChanges | 1PASS | ||
0.27272728
|
jalview.util.MappingUtilsTest.testMapColumnSelection_hiddenColumnsjalview.util.MappingUtilsTest.testMapColumnSelection_hiddenColumns | 1PASS | ||
0.27272728
|
jalview.gui.PairwiseAlignmentPanelTest.testConstructor_noSelectionGroupjalview.gui.PairwiseAlignmentPanelTest.testConstructor_noSelectionGroup | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testSelectType_showForAlljalview.gui.AnnotationChooserTest.testSelectType_showForAll | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverExpandedviewsjalview.project.Jalview2xmlTests.testStoreAndRecoverExpandedviews | 1PASS | ||
0.27272728
|
jalview.io.FeaturesFileTest.testParsejalview.io.FeaturesFileTest.testParse | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testBuildShowHidePaneljalview.gui.AnnotationChooserTest.testBuildShowHidePanel | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testIsInActionScope_unselectedScopejalview.gui.AnnotationChooserTest.testIsInActionScope_unselectedScope | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testPcaViewAssociationjalview.project.Jalview2xmlTests.testPcaViewAssociation | 1PASS | ||
0.27272728
|
jalview.datamodel.AlignmentTest.testAddSequencePreserveDatasetIntegrityjalview.datamodel.AlignmentTest.testAddSequencePreserveDatasetIntegrity | 1PASS | ||
0.27272728
|
jalview.util.MappingUtilsTest.testBuildSearchResultsjalview.util.MappingUtilsTest.testBuildSearchResults | 1PASS | ||
0.27272728
|
jalview.io.PfamFormatInputTest.testPfamFormatValidLimitsjalview.io.PfamFormatInputTest.testPfamFormatValidLimits | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverGroupRepSeqsjalview.project.Jalview2xmlTests.testStoreAndRecoverGroupRepSeqs | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverNoOverviewjalview.project.Jalview2xmlTests.testStoreAndRecoverNoOverview | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testColourByAnnotScoresjalview.project.Jalview2xmlTests.testColourByAnnotScores | 1PASS | ||
0.27272728
|
jalview.util.MappingUtilsTest.testBuildSearchResults_withIntronjalview.util.MappingUtilsTest.testBuildSearchResults_withIntron | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationLabelsTest2.testIdWidthNoChangesjalview.gui.AnnotationLabelsTest2.testIdWidthNoChanges | 1PASS | ||
0.27272728
|
jalview.gui.QuitHandlerTest.testNoGUIUnsavedChangesjalview.gui.QuitHandlerTest.testNoGUIUnsavedChanges | 1PASS | ||
0.27272728
|
jalview.io.TCoffeeScoreFileTest.testHeightAndWidthWithResidueNumbersjalview.io.TCoffeeScoreFileTest.testHeightAndWidthWithResidueNumbers | 1PASS | ||
0.27272728
|
jalview.gui.QuitHandlerTest.testSavedProjectChangesjalview.gui.QuitHandlerTest.testSavedProjectChanges | 1PASS | ||
0.27272728
|
jalview.gui.SeqPanelTest.testGetEditStatusMessage_lockedEditingjalview.gui.SeqPanelTest.testGetEditStatusMessage_lockedEditing | 1PASS | ||
0.27272728
|
jalview.datamodel.AlignmentTest.testAlignAs_dnaAsDnajalview.datamodel.AlignmentTest.testAlignAs_dnaAsDna | 1PASS | ||
0.27272728
|
jalview.datamodel.AlignmentViewTest.testGetVisibleContigsjalview.datamodel.AlignmentViewTest.testGetVisibleContigs | 1PASS | ||
0.27272728
|
jalview.schemes.ClustalxColourSchemeTest.testFindColour_ignoreGapsjalview.schemes.ClustalxColourSchemeTest.testFindColour_ignoreGaps | 1PASS | ||
0.27272728
|
jalview.gui.QuitHandlerTest.testUnsavedChangesjalview.gui.QuitHandlerTest.testUnsavedChanges | 1PASS | ||
0.27272728
|
jalview.gui.ProgressBarTest.testSetProgressBarjalview.gui.ProgressBarTest.testSetProgressBar | 1PASS | ||
0.27272728
|
jalview.analysis.FinderTest.testFind_findAllInSelectionWithShortSequencejalview.analysis.FinderTest.testFind_findAllInSelectionWithShortSequence | 1PASS | ||
0.27272728
|
jalview.gui.AlignmentPanelTest.testCalculateIdWidth_noArgsjalview.gui.AlignmentPanelTest.testCalculateIdWidth_noArgs | 1PASS | ||
0.27272728
|
jalview.util.ParseHtmlBodyAndLinksTest.testParseHtml_noLinksjalview.util.ParseHtmlBodyAndLinksTest.testParseHtml_noLinks | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverAnnotationRowElementColoursjalview.project.Jalview2xmlTests.testStoreAndRecoverAnnotationRowElementColours | 1PASS | ||
0.27272728
|
jalview.gui.AlignFrameTest.testHideFeatureColumnsjalview.gui.AlignFrameTest.testHideFeatureColumns | 1PASS | ||
0.27272728
|
jalview.io.FeaturesFileTest.testPrintGffFormatjalview.io.FeaturesFileTest.testPrintGffFormat | 1PASS | ||
0.27272728
|
jalview.analysis.ConservationTest.testCalculate_thresholdjalview.analysis.ConservationTest.testCalculate_threshold | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testDeselectType_hideForAlljalview.gui.AnnotationChooserTest.testDeselectType_hideForAll | 1PASS | ||
0.27272728
|
jalview.gui.AlignmentPanelTest.testSetOverviewTitle_automaticOverviewjalview.gui.AlignmentPanelTest.testSetOverviewTitle_automaticOverview | 1PASS | ||
0.27272728
|
jalview.ext.jmol.JmolParserTest.testAlignmentLoaderjalview.ext.jmol.JmolParserTest.testAlignmentLoader | 1PASS | ||
0.27272728
|
jalview.io.vcf.VCFLoaderTest.testDoLoad_reverseStrandjalview.io.vcf.VCFLoaderTest.testDoLoad_reverseStrand | 1PASS | ||
0.27272728
|
jalview.renderer.seqfeatures.FeatureRendererTest.testIsVisiblejalview.renderer.seqfeatures.FeatureRendererTest.testIsVisible | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverReferenceSeqSettingsjalview.project.Jalview2xmlTests.testStoreAndRecoverReferenceSeqSettings | 1PASS | ||
0.27272728
|
jalview.datamodel.AlignmentTest.testAlignAs_proteinAsCdnajalview.datamodel.AlignmentTest.testAlignAs_proteinAsCdna | 1PASS | ||
0.27272728
|
jalview.gui.AlignViewportTest.testUpdateConservation_qualityOnlyjalview.gui.AlignViewportTest.testUpdateConservation_qualityOnly | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testTCoffeeScoresjalview.project.Jalview2xmlTests.testTCoffeeScores | 1PASS | ||
0.27272728
|
jalview.gui.AlignViewportTest.testShowOrDontShowOccupancyjalview.gui.AlignViewportTest.testShowOrDontShowOccupancy | 1PASS | ||
0.27272728
|
jalview.datamodel.PAEContactMatrixTest.testSeqAssociatedPAEMatrixjalview.datamodel.PAEContactMatrixTest.testSeqAssociatedPAEMatrix | 1PASS | ||
0.27272728
|
jalview.datamodel.AlignmentTest.testAppendjalview.datamodel.AlignmentTest.testAppend | 1PASS | ||
0.27272728
|
jalview.analysis.ConservationTest.testVerdictjalview.analysis.ConservationTest.testVerdict | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.27272728
|
jalview.urls.IdentifiersUrlProviderTest.testDefaultUrljalview.urls.IdentifiersUrlProviderTest.testDefaultUrl | 1PASS | ||
0.27272728
|
jalview.gui.AnnotationChooserTest.testSelectType_hideForSelectedjalview.gui.AnnotationChooserTest.testSelectType_hideForSelected | 1PASS | ||
0.27272728
|
jalview.ext.jmol.JmolParserTest.testFileParserjalview.ext.jmol.JmolParserTest.testFileParser | 1PASS | ||
0.27272728
|
jalview.io.ScoreMatrixFileTest.testParseMatrix_aaindex_rowColMismatchjalview.io.ScoreMatrixFileTest.testParseMatrix_aaindex_rowColMismatch | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testRNAStructureRecoveryjalview.project.Jalview2xmlTests.testRNAStructureRecovery | 1PASS | ||
0.27272728
|
jalview.io.ScoreMatrixFileTest.testParseMatrix_ncbiBadDelimiterjalview.io.ScoreMatrixFileTest.testParseMatrix_ncbiBadDelimiter | 1PASS | ||
0.27272728
|
jalview.gui.SeqPanelTest.testFindColumn_unwrappedjalview.gui.SeqPanelTest.testFindColumn_unwrapped | 1PASS | ||
0.27272728
|
jalview.gui.AlignmentPanelTest.testSetOverviewTitlejalview.gui.AlignmentPanelTest.testSetOverviewTitle | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testSaveLoadFeatureColoursAndFiltersjalview.project.Jalview2xmlTests.testSaveLoadFeatureColoursAndFilters | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageAnnotationsOutputTestjalview.bin.CommandsTest.structureImageAnnotationsOutputTest | 1PASS | ||
0.27272728
|
jalview.analysis.FinderTest.testFind_ignoreHiddenColumnsjalview.analysis.FinderTest.testFind_ignoreHiddenColumns | 1PASS | ||
0.27272728
|
jalview.analysis.scoremodels.SecondaryStructureDistanceModelTest.testFindDistances_withSSUndefinedInEitherOneSeqjalview.analysis.scoremodels.SecondaryStructureDistanceModelTest.testFindDistances_withSSUndefinedInEitherOneSeq | 1PASS | ||
0.27272728
|
jalview.gui.SeqPanelTest.testFindMousePosition_wrapped_scales_longSequencejalview.gui.SeqPanelTest.testFindMousePosition_wrapped_scales_longSequence | 1PASS | ||
0.27272728
|
jalview.datamodel.AlignedCodonFrameTest.testMarkMappedRegionjalview.datamodel.AlignedCodonFrameTest.testMarkMappedRegion | 1PASS | ||
0.27272728
|
jalview.util.MappingUtilsTest.testRangeContainsjalview.util.MappingUtilsTest.testRangeContains | 1PASS | ||
0.27272728
|
jalview.gui.StructureChooserTest.populateFilterComboBoxTestjalview.gui.StructureChooserTest.populateFilterComboBoxTest | 1PASS | ||
0.27272728
|
jalview.io.ScoreMatrixFileTest.testParseMatrix_aaindexFormatjalview.io.ScoreMatrixFileTest.testParseMatrix_aaindexFormat | 1PASS | ||
0.27272728
|
jalview.gui.JvOptionPaneTest.showInternalConfirmDialogFamilyTestjalview.gui.JvOptionPaneTest.showInternalConfirmDialogFamilyTest | 1PASS | ||
0.27272728
|
jalview.gui.AlignViewportTest.testSetGlobalColourSchemejalview.gui.AlignViewportTest.testSetGlobalColourScheme | 1PASS | ||
0.27272728
|
jalview.io.FeaturesFileTest.testParse_pureGff3jalview.io.FeaturesFileTest.testParse_pureGff3 | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverPDBEntryjalview.project.Jalview2xmlTests.testStoreAndRecoverPDBEntry | 1PASS | ||
0.27272728
|
jalview.project.Jalview2xmlTests.testStoreAndRecoverOverviewjalview.project.Jalview2xmlTests.testStoreAndRecoverOverview | 1PASS | ||
0.27272728
|
jalview.util.MappingUtilsTest.testContainsjalview.util.MappingUtilsTest.testContains | 1PASS | ||
0.27272728
|
jalview.gui.QuitHandlerTest.testWaitForSaveQuitjalview.gui.QuitHandlerTest.testWaitForSaveQuit | 1PASS | ||
0.27272728
|
jalview.schemes.BuriedColourSchemeTest.testFindColourjalview.schemes.BuriedColourSchemeTest.testFindColour | 1PASS | ||
0.27272728
|
jalview.datamodel.MappingTypeTest.testGetFromRatiojalview.datamodel.MappingTypeTest.testGetFromRatio | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageOutputTestjalview.bin.CommandsTest.structureImageOutputTest | 1PASS | ||
0.27272728
|
jalview.analysis.AverageDistanceEngineTest.testUPGMAEnginejalview.analysis.AverageDistanceEngineTest.testUPGMAEngine | 1PASS | ||
0.27272728
|
jalview.bin.CommandsTest.structureImageOutputTestjalview.bin.CommandsTest.structureImageOutputTest | 1PASS | ||
0.27272728
|
jalview.io.JSONFileTest.testBioJSONRoundTripWithColourSchemeNonejalview.io.JSONFileTest.testBioJSONRoundTripWithColourSchemeNone | 1PASS | ||
0.27272728
|
jalview.io.ScoreMatrixFileTest.testParseMatrix_aaindex_mMissingjalview.io.ScoreMatrixFileTest.testParseMatrix_aaindex_mMissing | 1PASS | ||
0.27272728
|
jalview.util.MappingUtilsTest.testMapSequenceGroup_regionjalview.util.MappingUtilsTest.testMapSequenceGroup_region | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.22727273
|
jalview.gui.AlignViewportTest.testDeregisterMapping_onCloseViewjalview.gui.AlignViewportTest.testDeregisterMapping_onCloseView | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.22727273
|
jalview.gui.ScalePanelTest.testSelectColumns_withHiddenjalview.gui.ScalePanelTest.testSelectColumns_withHidden | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.22727273
|
jalview.renderer.seqfeatures.FeatureRendererTest.testFindFeaturesAtColumnjalview.renderer.seqfeatures.FeatureRendererTest.testFindFeaturesAtColumn | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.22727273
|
jalview.gui.AlignViewportTest.testDeregisterMapping_withNoReferencejalview.gui.AlignViewportTest.testDeregisterMapping_withNoReference | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.22727273
|
jalview.gui.ScalePanelTest.testPreventNegativeStartColumnjalview.gui.ScalePanelTest.testPreventNegativeStartColumn | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.headlessOrGuiImageOutputTestjalview.bin.CommandsTest.headlessOrGuiImageOutputTest | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.22727273
|
jalview.renderer.seqfeatures.FeatureRendererTest.testFindComplementFeaturesAtResiduejalview.renderer.seqfeatures.FeatureRendererTest.testFindComplementFeaturesAtResidue | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.commandsOpenTestjalview.bin.CommandsTest.commandsOpenTest | 1PASS | ||
0.22727273
|
jalview.gui.SeqPanelTest.testAmbiguousAminoAcidGetsStatusMessagejalview.gui.SeqPanelTest.testAmbiguousAminoAcidGetsStatusMessage | 1PASS | ||
0.22727273
|
jalview.gui.AnnotationLabelsTest2.testIdWidthChangesjalview.gui.AnnotationLabelsTest2.testIdWidthChanges | 1PASS | ||
0.22727273
|
jalview.io.JalviewExportPropertiesTests.testImportExportPeriodGapsjalview.io.JalviewExportPropertiesTests.testImportExportPeriodGaps | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest.allLinkedIdsTestjalview.bin.CommandsTest.allLinkedIdsTest | 1PASS | ||
0.22727273
|
jalview.bin.CommandsTest2.structureOpeningArgsTestjalview.bin.CommandsTest2.structureOpeningArgsTest | 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.ws.jws2; | ||||||
22 | |||||||
23 | import jalview.util.MessageManager; | ||||||
24 | import jalview.ws.jws2.jabaws2.Jws2Instance; | ||||||
25 | import jalview.ws.params.ArgumentI; | ||||||
26 | import jalview.ws.params.WsParamSetI; | ||||||
27 | |||||||
28 | import java.util.List; | ||||||
29 | |||||||
30 | import compbio.metadata.Preset; | ||||||
31 | |||||||
|
|||||||
32 | public class JabaPreset implements WsParamSetI | ||||||
33 | { | ||||||
34 | Preset p = null; | ||||||
35 | |||||||
36 | Jws2Instance service; | ||||||
37 | |||||||
|
|||||||
38 | 631 | public JabaPreset(Jws2Instance svc, Preset preset)... | |||||
39 | { | ||||||
40 | 631 | service = svc; | |||||
41 | 631 | p = preset; | |||||
42 | } | ||||||
43 | |||||||
|
|||||||
44 | 16328 | @Override... | |||||
45 | public String getName() | ||||||
46 | { | ||||||
47 | 16328 | return p.getName(); | |||||
48 | } | ||||||
49 | |||||||
|
|||||||
50 | 15697 | @Override... | |||||
51 | public String getDescription() | ||||||
52 | { | ||||||
53 | 15697 | return p.getDescription(); | |||||
54 | } | ||||||
55 | |||||||
|
|||||||
56 | 0 | @Override... | |||||
57 | public String[] getApplicableUrls() | ||||||
58 | { | ||||||
59 | 0 | return new String[] { service.getUri() }; | |||||
60 | } | ||||||
61 | |||||||
|
|||||||
62 | 0 | @Override... | |||||
63 | public String getSourceFile() | ||||||
64 | { | ||||||
65 | 0 | return null; | |||||
66 | } | ||||||
67 | |||||||
|
|||||||
68 | 15697 | @Override... | |||||
69 | public boolean isModifiable() | ||||||
70 | { | ||||||
71 | 15697 | return false; | |||||
72 | } | ||||||
73 | |||||||
|
|||||||
74 | 0 | @Override... | |||||
75 | public void setSourceFile(String newfile) | ||||||
76 | { | ||||||
77 | 0 | throw new Error(MessageManager | |||||
78 | .formatMessage("error.cannot_set_source_file_for", new String[] | ||||||
79 | { getClass().toString() })); | ||||||
80 | } | ||||||
81 | |||||||
|
|||||||
82 | 0 | @Override... | |||||
83 | public List<ArgumentI> getArguments() | ||||||
84 | { | ||||||
85 | 0 | try | |||||
86 | { | ||||||
87 | 0 | return JabaParamStore.getJwsArgsfromJaba( | |||||
88 | p.getArguments(service.getRunnerConfig())); | ||||||
89 | } catch (Exception e) | ||||||
90 | { | ||||||
91 | 0 | e.printStackTrace(); | |||||
92 | 0 | throw new Error(MessageManager | |||||
93 | .getString("error.mismatch_service_instance_preset")); | ||||||
94 | } | ||||||
95 | } | ||||||
96 | |||||||
|
|||||||
97 | 0 | @Override... | |||||
98 | public void setArguments(List<ArgumentI> args) | ||||||
99 | { | ||||||
100 | 0 | throw new Error(MessageManager | |||||
101 | .getString("error.cannot_set_params_for_ws_preset")); | ||||||
102 | } | ||||||
103 | } |