Build: #131 failed
Job: Default Job failed
Build log
The build generated 17,952 lines of output.The output is too long and has been truncated to the last 1,000 lines. Download or view full build log
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPrintGffFormat |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPrintGffFormat_withFilters |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPrintJalviewFormat |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPrintJalviewFormat_withFilters |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDeregisterFileFormat |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testForName |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetFormats |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetReadableFormats |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetWritableFormats |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsIdentifiable |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRegisterFileFormat |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGzipIo |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGziplocalFileIO |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testNonGzipURLIO |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testNonGziplocalFileIO |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testStarsInFasta1 |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testStarsInFasta2 |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindAll_sequenceIds |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindNext |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_findAll |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_findAllCaseSensitive |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_findAllInSelection |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_findAllInSelectionWithShortSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_findNext |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_inDescription |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_inSelection |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_maximalResultOnly |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_regex |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_residueNumber |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_withHiddenColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFind_withHiddenColumnsAndSelection |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRoundTrip(Fasta) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRoundTrip(Pfam) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRoundTrip(Stockholm) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRoundTrip(PIR) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRoundTrip(BLC) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRoundTrip(AMSA) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRoundTrip(Json) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRoundTrip(Pileup) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRoundTrip(MSF) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRoundTrip(Clustal) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRoundTrip(Phylip) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAppendPercentage |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testForm_float |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFormat_scientific |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFormat_scientific_overflow |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRepeat |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetCodeTable |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetCodeTables |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTranslate |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTranslateCanonical |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTranslate_nonStandardTableAmbiguityCodes |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTranslate_standardTable |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTranslate_standardTableAmbiguityCodes |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetDescription |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testProcessCdnaMatch_forwardToForward |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testProcessCdnaMatch_forwardToReverse |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testProcessCdnaMatch_reverseToForward |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testProcessCdnaMatch_spliced |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseNameValuePairs |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTrimMapping |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetHelper |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testResolveExonerateGff |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMakeGroupsWithBoth |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindColour |
| 18-Apr-2019 15:40:21 | [testng] PASSED: checkHelpTargets |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindRegionForColumn |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindRegionForColumn_Visible |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAdjustForHiddenColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBoundedIterator |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBoundedStartIterator |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCopyConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCopyConstructor2 |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEquals |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindColumnPosition |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetNextHiddenBoundary_Left |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetNextHiddenBoundary_Right |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetRegionWithEdgeAtRes |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSize |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetVisibleColsIterator |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetVisibleStartAndEndIndex |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHasHiddenColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHasManyHiddenColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHashCode |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHideColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHideColumns_BitSet |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHideColumns_BitSet_range |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHideColumns_subsumingHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHideInsertionsFor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsVisible |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIterator |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testOffsetByVisibleColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRegionsToString |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRevealAllHiddenColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRevealHiddenColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testVisibleBlocksVisBoundsIterator |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testVisibleContigsIterator |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAdjustForHiddenSeqs |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAdjustHeightSequenceAdded |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAdjustHeightSequenceDeleted |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindIndexNFromRow |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindIndexWithoutHiddenSeqs |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetFullAlignment |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetHiddenSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSize |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetWidth |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHideShowLastSequences |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHideShowSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHideShowSequence_withHiddenRepSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindColour |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDefaultUrl |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testUrlLinks |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/example.json", Json) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/plantfdx.fa", Fasta) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/dna_interleaved.phy", Phylip) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/2GIS.pdb", PDB) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/RF00031_folded.stk", Stockholm) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/test.rnaml", Rnaml) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/test.aln", Clustal) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/test.pfam", Pfam) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/test.msf", MSF) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/test.pir", PIR) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/test.html", Html) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/test.pileup", Pileup) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/test.blc", BLC) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/exampleFeatures.txt", Features) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/simpleGff3.gff", Features) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/test.jvp", Jalview) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/test.cif", MMCif) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("examples/testdata/cullpdb_pc25_res3.0_R0.3_d150729_chains9361.fasta.15316", Fasta) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("resources/scoreModel/pam250.scm", ScoreMatrix) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify("resources/scoreModel/blosum80.scm", ScoreMatrix) |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIdentify_featureFile |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLooksLikeFeatureData |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testProcessProteinMatch |
| 18-Apr-2019 15:40:21 | [testng] PASSED: colorSchemeTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: hiddenColsTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: hiddenSeqsTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: isShowSeqFeaturesSet |
| 18-Apr-2019 15:40:21 | [testng] PASSED: roundTripTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAnnotationParsed |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBioJSONRoundTripWithColourSchemeNone |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGrpParsed |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGrpParsed_colourNone |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSeqParsed |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testArrayToList |
| 18-Apr-2019 15:40:21 | [testng] PASSED: gatherViewsHere |
| 18-Apr-2019 15:40:21 | [testng] PASSED: noDuplicatePdbMappingsMade |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testColourByAnnotScores |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCopyViewSettings |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsVersionStringLaterThan |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMergeDatasetsforManyViews |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMergeDatasetsforViews |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPcaViewAssociation |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRNAStructureRecovery |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSaveLoadFeatureColoursAndFilters |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testStoreAndRecoverColourThresholds |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testStoreAndRecoverExpandedviews |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testStoreAndRecoverGroupRepSeqs |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testStoreAndRecoverPDBEntry |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testStoreAndRecoverReferenceSeqSettings |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTCoffeeScores |
| 18-Apr-2019 15:40:21 | [testng] PASSED: viewRefPdbAnnotation |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSchemeClass |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testToString |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testImportExportPeriodGaps |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetExtension |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetImageIcon |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetTypeDescription |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSeparatorListToArray |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetColourBySequenceCommand_noFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetColourBySequenceCommands_hiddenColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAlignmentLoader |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFileParser |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLocalPDBId |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParse_alternativeResidues |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParse_missingResidues |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetSecondaryStructure |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddStrToSingleSeqViewJMol |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSingleSeqViewJMol |
| 18-Apr-2019 15:40:21 | [testng] PASSED: getUserInputTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: updateCacheTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: showConfirmDialogFamilyTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: showInputDialogFamilyTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: showInternalConfirmDialogFamilyTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: showInternalMessageDialogFamilyTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: showMessageDialogFamilyTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetScrollBarProportion |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetScrollValueForProportion |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testWrapTooltip_longText |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testWrapTooltip_multilineShortText |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testWrapTooltip_shortText |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddMapList |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddMapList_contiguous |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddMapList_sameMap |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddRange |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCoalesceRanges |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCoalesceRanges_withOverlap |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_mergeRanges |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_withLists |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEquals |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetInverse |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetRanges |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsFromForwardStrand |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsToForwardsStrand |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLocateInFrom_noIntrons |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLocateInFrom_withIntrons |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLocateInTo_noIntrons |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLocateInTo_withIntrons |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSomething |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testToString |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTraverse |
| 18-Apr-2019 15:40:21 | [testng] PASSED: compareTransferredToRefPDBAnnot |
| 18-Apr-2019 15:40:21 | [testng] PASSED: mapFer1From3W5V |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCopyConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIntersectVisContigs |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testToString |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetFromRatio |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetInverse |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetToRatio |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBuildSearchResults |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBuildSearchResults_withIntron |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testContains |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindMappingsForSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindMappingsForSequenceAndOthers |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFlattenRanges |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFlattenRanges_reverseStrand |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetLength |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMapColumnSelection_dnaToProtein |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMapColumnSelection_hiddenColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMapColumnSelection_null |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMapColumnSelection_proteinToDna |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMapEditCommand |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMapSequenceGroup_columns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMapSequenceGroup_region |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMapSequenceGroup_sequences |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRangeContains |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRemoveEndPositions |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRemoveStartPositions |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRemoveStartPositions_reverseStrand |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEquals |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testToString |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEquals |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHashCode |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMatches_float |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMatches_floatNullOrInvalid |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMatches_floatWithStringCondition |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMatches_pattern |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testToString |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGcd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCopy |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEquals |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindMinMax |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindMinMax_timing |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMultiply |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPostMultiply |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPreMultiply |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPreMultiply_tooFewColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPreMultiply_tooManyColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testReverseRange_maxToZero |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testReverseRange_swapMinMax |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTred_reproducible |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTreeIO |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTreeIO |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTreeIO |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDragging |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenColsAtEnd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenColsAtStart |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenColsInMiddle |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenRowsAtEnd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenRowsAtStart |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenRowsInMiddle |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPositionInBox |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromMouseClick |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewport |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenColsAtEnd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenColsAtStart |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenColsInMiddle |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenRowsAtEnd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenRowsAtStart |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenRowsInMiddle |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDragging |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenColsAtEnd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenColsAtStart |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenColsInMiddle |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenRowsAtEnd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenRowsAtStart |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenRowsAtStartWrapped |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFromMouseWithHiddenRowsInMiddle |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPositionInBox |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromMouseClick |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewport |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenColsAtEnd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenColsAtStart |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenColsInMiddle |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenRowsAtEnd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenRowsAtStart |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetBoxFromViewportHiddenRowsInMiddle |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetResidueBoxColour_none |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetResidueBoxColour_userdef |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetResidueBoxColour_zappo |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetChargeColour |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetNewlineString |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMakeBond |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMakeCaBondList |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMakeCaBondList_nucleotide |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMakeExactMapping |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMakeResidueList_noAnnotation |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMakeResidueList_withTempFactor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPrint |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetChainColours_colour |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetChainColours_colourScheme |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetChargeColours |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_fromDbref |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEquals |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetType |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetChainCode |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTypeMatches |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testUpdateFrom |
| 18-Apr-2019 15:40:21 | [testng] PASSED: populateCmbSearchTargetOptionsTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDecodeSearchTerm |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testgetPDBIdwithSpecifiedChain |
| 18-Apr-2019 15:40:21 | [testng] PASSED: getPDBDocFieldsAsCommaDelimitedStringTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: getPDBIdColumIndexTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsRna |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParse |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParse_withAnnotations_noSS |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParse_withJmolAddAlignmentAnnotations |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParse_withJmol_noAnnotations |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindColour |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindColour_ignoreGaps |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testComputePID_matchLongestSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testComputePID_matchShortestSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testComputePID_matchesComparisonPID |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetPairwiseScore |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetAssociatedPanels |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRegister |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRemoveComponent |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_noSelectionGroup |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_withSelectionGroup |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseHtml_noLinks |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseHtml_withLinks |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseHtml_withLinksWithEncoding |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseHtml_withLinksWithParameters |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetScoresFromDescription |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetScoresFromDescription_twoScores |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetScoresFromDescription_wordBoundaries |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPfamFormatNoLimits |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPfamFormatValidLimits |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetURL |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetURL |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testInterleavedDataExtraction |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testInterleavedIO |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSequentialDataExtraction |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSequentialIO |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsControlDown_mac |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsControlDown_notMac |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBuildAnnotationTypesMenus |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBuildAnnotationTypesMenus_hideDisabled |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBuildAnnotationTypesMenus_showDisabled |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBuildLinkMenu |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConfigureReferenceAnnotationsMenu |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConfigureReferenceAnnotationsMenu_alreadyAdded |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConfigureReferenceAnnotationsMenu_noReferenceAnnotations |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConfigureReferenceAnnotationsMenu_noSequenceSelected |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConfigureReferenceAnnotationsMenu_notOnAlignment |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConfigureReferenceAnnotationsMenu_twoViews |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHideInsertions |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_prematureInstantiation |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_wrongLayout |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetProgressBar |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCharSortByFloat |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCharSortByInt |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSortByInt |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSortByString |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSort_byDoubleValues |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSort_byFloatValues |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSort_byIntValues |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSort_byStringValues |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSort_charSortByFloat_mostlyZeroValues |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSort_charSortByInt_mostlyZeroValues |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRnamlToStockholmIO |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHasNextAndNextEndHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHasNextAndNextNoHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHasNextAndNextStartHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHasNextAndNextWithHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLastNextEndHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLastNextNoHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLastNextStartHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLastNextWithHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRemove |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetResidueColour_none |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetResidueColour_userdef |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetResidueColour_zappo |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetName |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsApplicableTo |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsApplicableTo_dynamicColourScheme |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddGap |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetModalCount |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetResiduesForCount |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSymbolCounts_nucleotide |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSymbolCounts_peptide |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetTooltip |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testOverflow |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPut |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testToString |
| 18-Apr-2019 15:40:21 | [testng] PASSED: test_countNucleotide |
| 18-Apr-2019 15:40:21 | [testng] PASSED: test_countPeptide |
| 18-Apr-2019 15:40:21 | [testng] PASSED: test_unexpectedNucleotide |
| 18-Apr-2019 15:40:21 | [testng] PASSED: test_unexpectedPeptide |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCodonTranslate |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCodonTranslate_ambiguityCodes |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetCanonicalAminoAcid |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetDssp3State |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetResidues_nucleotide |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetResidues_peptide |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSingleCharacterCode |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPhysicoChemicalProperties |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAboveThreshold |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testApplyConservation |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindColour_gapColour |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindAtom |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetRestClient |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetURL |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetURL |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetHelixMap_oneHelix |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetHelixMap_twoHelices |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetMatchingOpeningParenthesis |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetRNASecStrucState |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSimpleBPs |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSimpleBPs_unmatchedCloser |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSimpleBPs_unmatchedOpener |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsCanonicalOrWobblePair |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsCanonicalPair |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsClosingParenthesis |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsOpeningParenthesis |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsRnaSecondaryStructureSymbol |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetRotation |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPreMultiply |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testVectorMultiply |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBuildPopupMenu |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPreventNegativeStartColumn |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSelectColumns_withHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCalculateMarks |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_aaIndexBlosum80 |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_aaindexFormat |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_aaindex_extraDataLines |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_aaindex_mMissing |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_aaindex_rowColMismatch |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_aaindex_tooFewColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_aaindex_tooManyRows |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_headerMissing |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_ncbiBadDelimiter |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_ncbiBadFloat |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_ncbiBadGuideCharacter |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_ncbiFormat |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_ncbiHeaderRepeated |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_ncbiMixedDelimiters |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_ncbiNameMissing |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_ncbiNotEnoughColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_ncbiNotEnoughRows |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_ncbiTooManyColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMatrix_ncbiTooManyRows |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParse_ncbiFormat |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBlosum62_values |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBuildSymbolIndex |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBuildSymbolIndex_nonAscii |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testComputePairwiseScores |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_gapDash |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_matrixNotSquare |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_matrixTooBig |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_matrixTooSmall |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEqualsAndHashCode |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetMatrix |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetMatrixIndex |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetMaximumScore |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetMinimumScore |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetPairwiseScore |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSize |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsSymmetric |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testOutputMatrix_html |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testOutputMatrix_roundTrip |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSymmetric |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testcomputeSimilarity_matchLongestSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testcomputeSimilarity_matchShortestSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddResult |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEquals |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEquals_distinctSequences |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEquals_orderDiffers |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHashcode |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMarkColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMatchConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMatchContains |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testToString |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCalculateWrappedGeometry_fromScrolled |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCalculateWrappedGeometry_noAnnotations |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCalculateWrappedGeometry_withAnnotations |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindPosition |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSomething |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAmbiguousAminoAcidGetsStatusMessage |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindColumn_unwrapped |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindColumn_wrapped |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindMousePosition_wrapped_annotations |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindMousePosition_wrapped_noAnnotations |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindMousePosition_wrapped_scaleAbove |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetEditStatusMessage |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetEditStatusMessage_lockedEditing |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetStatusReturnsNearestResiduePosition |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSeqFeatureAddition |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAppendFeature_DescEqualsType |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAppendFeature_colouredByAttribute |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAppendFeature_disulfideBond |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAppendFeature_noScore |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAppendFeature_status |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAppendFeature_stripHtml |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAppendFeature_withScore |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAppendFeature_withScoreStatusAttribute |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCreateSequenceAnnotationReport |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCreateSequenceAnnotationReport_withEllipsis |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBecome |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCopyConstructors |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEqualsAndHashCode |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetDetailsReport |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetStrand |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetValue |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsContactFeature |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDelete |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDeleteAll |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetAllFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetContactFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetFeatureCount |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetFeatureGroups |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetFeatureTypes |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetFeatureTypesForGroups |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetFeatureTypes_byOntology |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetFeaturesByOntology |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetFeaturesForGroup |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetMinimumScore_getMaximumScore |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetNonPositionalFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetPositionalFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetTotalFeatureLength |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHasFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsOntologyTerm |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testShiftFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSortFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testVarargsToTypes |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddOrRemove |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_list |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testContains |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCopyConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetColourScheme |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetContext |
| 18-Apr-2019 15:40:21 | [testng] PASSED: test_seqIdNameEquals |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsA_sequenceVariant |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsA |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsCDS |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsSequenceVariant |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetResidueColour_WithGroup |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddAlignmentAnnotation |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddDBRef |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddPDBId |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAddSequenceFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCheckValidRange |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCopyConstructor_noDataset |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCopyConstructor_withDataset |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCreateDatasetSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDeleteChars |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDeleteChars_withDbRefsAndFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDeleteChars_withGaps |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDeriveSequence_existingDataset |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDeriveSequence_noDatasetGapped |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDeriveSequence_noDatasetUngapped |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindIndex |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindIndex_withCursor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindPosition |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindPositionMap |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindPosition_withCursor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindPosition_withCursorAndEdits |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindPositions |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGapBitset |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGapMap |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetAlignmentAnnotations_forCalcIdAndLabel |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetAnnotation |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetAnnotation_forLabel |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetCharAt |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetPrimaryDBRefs_nucleotide |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetPrimaryDBRefs_peptide |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSequenceFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetStartGetEnd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSubsequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testInsertCharAt |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testInsertGapsAndGapmaps |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsProtein |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLocateVisibleStartofSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testReplace |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetDatasetSequence_cascading |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetDatasetSequence_toSelf |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetName |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testUpdatePDBIds |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCountDisjunction |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseMap |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testShmmrService |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testShmmrServiceDataprep |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAdd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testKeyAt_ValueAt |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testOverflow |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPut |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testUnderflow |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAdd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCheckOverflow |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPut |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFillRatio |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPostMultiply |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPreMultiply |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPreMultiply_sparseProduct |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPreMultiply_tooFewColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPreMultiply_tooManyColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTqli_matchesMatrix |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTranspose |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTred_matchesMatrix |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTred_reproducible |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAdd |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPut |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBasicBoundsIterator |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBoundsIteratorUsingCursor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testBoundsIteratorUsingNullCursor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: curlyWUSSsecondaryStructureForRNASequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: detectWussBrackets |
| 18-Apr-2019 15:40:21 | [testng] PASSED: fullWUSSsecondaryStructureForRNASequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: pfamFileDataExtraction |
| 18-Apr-2019 15:40:21 | [testng] PASSED: pfamFileIO |
| 18-Apr-2019 15:40:21 | [testng] PASSED: rfamFileIO |
| 18-Apr-2019 15:40:21 | [testng] PASSED: secondaryStructureForRNASequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: stockholmFileRnaSSAlphaChars |
| 18-Apr-2019 15:40:21 | [testng] PASSED: stockholmFileRnaSSSpaceChars |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testAnnotationEquivalence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindColour |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testArrayToSeparatorList |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCompareVersions |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDeleteChars |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetLastToken |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testInsertCharAt |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testListToDelimitedString |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseInt |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSeparatorListToArray |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testStripHtmlTags |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testToSentenceCase |
| 18-Apr-2019 15:40:21 | [testng] PASSED: buildQueryTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: populateFilterComboBoxTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: sanitizeSeqNameTest |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEquals |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetPDBResNumRanges |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRegisterMapping |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRegisterMappings |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetMapping_seqFeatures |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSequencesForPdbs |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetAsArray |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetAsList |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHeightAndWidth |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHeightAndWidthWithResidueNumbers |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParse |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testReadBlock |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testReadHeader |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testWrongFile |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testExtractGaps |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetMappingForS1 |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPrintAlignment |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCreateFastaSequenceIndex |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSequenceProxy |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSequenceProxy_indexed |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTrimLeft_noColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTrimLeft_oneColumn |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTrimLeft_withUndoAndRedo |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTrimRight_noColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTrimRight_oneColumn |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testTrimRight_withUndoAndRedo |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testFindColour |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetDescription |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetUniprotEntries |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetUniprotEntryDescription |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetUniprotEntryId |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetUniprotSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: getValue |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDescription |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDisplayColumnNames |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetSetValue |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testIsEditable |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testName |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testUrl |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testColumns |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCounts |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDeletable |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEditable |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testInitialisation |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRowDelete |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRowEditable |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRowInsert |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testValues |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCreateLinksForNonDynamic |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCreateLinksFromNullSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCreateLinksFromSequence |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLinkComparator |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLinksWithTargets |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMakeUrlNoRegex |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMakeUrlWithRegex |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testUrlLinkCreationNoRegex |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testUrlLinkCreationWithRegex |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testInitUrlProvider |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetDefaultUrl |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetDefaultUrlWrongly |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testConstructor_coloursArray |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testParseAppletParameter |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testToAppletParameter |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDoLoad |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDoLoad_reverseStrand |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testDoLoad_vepCsq |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLoadVCFContig |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testQuery_plain |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testReadVcf_plain |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testCopyConstructor |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEquals |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testEventFiring |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetAbsoluteAlignmentHeight |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetAbsoluteAlignmentWidth |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetWrappedMaxScroll |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testGetWrappedScrollPosition |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPageUpDown |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testPageUpDownWrapped |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testScrollRight |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testScrollRightWithHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testScrollToVisible |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testScrollToWrappedVisible |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testScrollUp |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testScrollUpWithHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testScrollUp_wrapped |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetEndSeq |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetStartEndRes |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetStartEndResWrapped |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetStartEndSeq |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetStartRes |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetStartResAndSeq |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetStartSeq |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetViewportHeight |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetViewportLocation |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetViewportStartAndHeight |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetViewportStartAndWidth |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetViewportStartAndWidthWrapped |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSetViewportWidth |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testViewportRanges |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testMultipleVisibleRegions |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testSimpleVisibleRegions |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testVisibleRegionsAtHiddenEdges |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHasNextAndNextEndHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHasNextAndNextNoHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHasNextAndNextStartHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testHasNextAndNextWithHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLastNextEndHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLastNextNoHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLastNextStartHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testLastNextWithHidden |
| 18-Apr-2019 15:40:21 | [testng] PASSED: testRemove |
| 18-Apr-2019 15:40:21 | [testng] FAILED: testFindXrefSequences_forGeneAndTranscripts |
| 18-Apr-2019 15:40:21 | [testng] java.lang.NullPointerException |
| 18-Apr-2019 15:40:21 | [testng] at jalview.analysis.CrossRefTest.__CLR4_2_16yj4942mwj(CrossRefTest.java:535) |
| 18-Apr-2019 15:40:21 | [testng] at jalview.analysis.CrossRefTest.testFindXrefSequences_forGeneAndTranscripts(CrossRefTest.java:469) |
| 18-Apr-2019 15:40:21 | [testng] at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) |
| 18-Apr-2019 15:40:21 | [testng] at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) |
| 18-Apr-2019 15:40:21 | [testng] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) |
| 18-Apr-2019 15:40:21 | [testng] at java.lang.reflect.Method.invoke(Method.java:498) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:85) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.Invoker.invokeMethod(Invoker.java:648) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:834) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1142) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:124) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:108) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestRunner.privateRun(TestRunner.java:771) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestRunner.run(TestRunner.java:621) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.runTest(SuiteRunner.java:357) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:352) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.privateRun(SuiteRunner.java:310) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.run(SuiteRunner.java:259) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:86) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.runSuitesSequentially(TestNG.java:1176) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.runSuitesLocally(TestNG.java:1101) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.run(TestNG.java:1009) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.privateMain(TestNG.java:1316) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.main(TestNG.java:1285) |
| 18-Apr-2019 15:40:21 | [testng] |
| 18-Apr-2019 15:40:21 | [testng] FAILED: testFindXrefSequences_uniprotEmblManyToMany |
| 18-Apr-2019 15:40:21 | [testng] java.lang.NullPointerException |
| 18-Apr-2019 15:40:21 | [testng] at jalview.analysis.CrossRefTest.__CLR4_2_1nurnsm2mxa(CrossRefTest.java:711) |
| 18-Apr-2019 15:40:21 | [testng] at jalview.analysis.CrossRefTest.testFindXrefSequences_uniprotEmblManyToMany(CrossRefTest.java:566) |
| 18-Apr-2019 15:40:21 | [testng] at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) |
| 18-Apr-2019 15:40:21 | [testng] at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) |
| 18-Apr-2019 15:40:21 | [testng] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) |
| 18-Apr-2019 15:40:21 | [testng] at java.lang.reflect.Method.invoke(Method.java:498) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:85) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.Invoker.invokeMethod(Invoker.java:648) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:834) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1142) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:124) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:108) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestRunner.privateRun(TestRunner.java:771) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestRunner.run(TestRunner.java:621) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.runTest(SuiteRunner.java:357) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:352) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.privateRun(SuiteRunner.java:310) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.run(SuiteRunner.java:259) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:86) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.runSuitesSequentially(TestNG.java:1176) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.runSuitesLocally(TestNG.java:1101) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.run(TestNG.java:1009) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.privateMain(TestNG.java:1316) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.main(TestNG.java:1285) |
| 18-Apr-2019 15:40:21 | [testng] |
| 18-Apr-2019 15:40:21 | [testng] FAILED: testFindXrefSequences_withFetch |
| 18-Apr-2019 15:40:21 | [testng] java.lang.NullPointerException |
| 18-Apr-2019 15:40:21 | [testng] at jalview.analysis.CrossRefTest.__CLR4_2_1ruxmrc2mvx(CrossRefTest.java:452) |
| 18-Apr-2019 15:40:21 | [testng] at jalview.analysis.CrossRefTest.testFindXrefSequences_withFetch(CrossRefTest.java:415) |
| 18-Apr-2019 15:40:21 | [testng] at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) |
| 18-Apr-2019 15:40:21 | [testng] at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) |
| 18-Apr-2019 15:40:21 | [testng] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) |
| 18-Apr-2019 15:40:21 | [testng] at java.lang.reflect.Method.invoke(Method.java:498) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:85) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.Invoker.invokeMethod(Invoker.java:648) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:834) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1142) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:124) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:108) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestRunner.privateRun(TestRunner.java:771) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestRunner.run(TestRunner.java:621) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.runTest(SuiteRunner.java:357) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:352) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.privateRun(SuiteRunner.java:310) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunner.run(SuiteRunner.java:259) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:86) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.runSuitesSequentially(TestNG.java:1176) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.runSuitesLocally(TestNG.java:1101) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.run(TestNG.java:1009) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.privateMain(TestNG.java:1316) |
| 18-Apr-2019 15:40:21 | [testng] at org.testng.TestNG.main(TestNG.java:1285) |
| 18-Apr-2019 15:40:21 | [testng] |
| 18-Apr-2019 15:40:21 | [testng] |
| 18-Apr-2019 15:40:21 | [testng] =============================================== |
| 18-Apr-2019 15:40:21 | [testng] Ant test |
| 18-Apr-2019 15:40:21 | [testng] Tests run: 1286, Failures: 3, Skips: 0 |
| 18-Apr-2019 15:40:21 | [testng] =============================================== |
| 18-Apr-2019 15:40:21 | [testng] |
| 18-Apr-2019 15:40:21 | [testng] |
| 18-Apr-2019 15:40:21 | [testng] =============================================== |
| 18-Apr-2019 15:40:21 | [testng] Ant suite |
| 18-Apr-2019 15:40:21 | [testng] Total tests run: 1286, Failures: 3, Skips: 0 |
| 18-Apr-2019 15:40:21 | [testng] =============================================== |
| 18-Apr-2019 15:40:21 | [testng] |
| 18-Apr-2019 15:40:21 | [testng] [TestNG] Time taken by [FailedReporter passed=0 failed=0 skipped=0]: 34 ms |
| 18-Apr-2019 15:40:21 | [testng] [TestNG] Time taken by org.testng.reporters.jq.Main@2c13da15: 159 ms |
| 18-Apr-2019 15:40:21 | [testng] [TestNG] Time taken by org.testng.reporters.EmailableReporter2@71bc1ae4: 14 ms |
| 18-Apr-2019 15:40:21 | [testng] [TestNG] Time taken by org.testng.reporters.SuiteHTMLReporter@7960847b: 175 ms |
| 18-Apr-2019 15:40:21 | [testng] [TestNG] Time taken by org.testng.reporters.XMLReporter@2aae9190: 61 ms |
| 18-Apr-2019 15:40:21 | [testng] [TestNG] Time taken by org.testng.reporters.JUnitReportReporter@e73f9ac: 56 ms |
| 18-Apr-2019 15:40:22 | [testng] The tests failed. |
| 18-Apr-2019 15:40:22 | |
| 18-Apr-2019 15:40:22 | clover.save-history: |
| 18-Apr-2019 15:40:22 | [clover-historypoint] OpenClover Version 4.2.1, built on November 21 2017 (build-1004) |
| 18-Apr-2019 15:40:22 | [clover-historypoint] Loaded from: /home/bamboo/buildtools/clover/lib/clover.jar |
| 18-Apr-2019 15:40:22 | [clover-historypoint] Clover free edition. |
| 18-Apr-2019 15:40:36 | [clover-historypoint] Writing report to '/srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/.cloverhistory/jalviewX/clover-20190418154021.xml.gz' |
| 18-Apr-2019 15:40:37 | |
| 18-Apr-2019 15:40:37 | clover.report: |
| 18-Apr-2019 15:40:37 | [clover-report] OpenClover Version 4.2.1, built on November 21 2017 (build-1004) |
| 18-Apr-2019 15:40:37 | [clover-report] Loaded from: /home/bamboo/buildtools/clover/lib/clover.jar |
| 18-Apr-2019 15:40:37 | [clover-report] Clover free edition. |
| 18-Apr-2019 15:40:37 | [clover-report] Loading coverage database from: '/srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/.clover/clover4_2_1.db' |
| 18-Apr-2019 15:40:37 | [clover-report] Loading coverage database from: '/srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/.clover/clover4_2_1.db' |
| 18-Apr-2019 15:40:37 | [clover-report] Loading historical coverage data from: '/srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/.cloverhistory/jalviewX' |
| 18-Apr-2019 15:40:43 | [clover-report] Writing HTML report to '/srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/clover/jalviewX' |
| 18-Apr-2019 15:42:11 | [clover-report] Done. Processed 89 packages in 87814ms (986ms per package). |
| 18-Apr-2019 15:42:16 | [clover-report] Writing report to '/srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/clover/jalviewX/clover.xml' |
| 18-Apr-2019 15:42:17 | [clover-report] Writing historical report to '/srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/clover/jalviewX' |
| 18-Apr-2019 15:42:19 | [clover-report] Read 19 history points. |
| 18-Apr-2019 15:42:19 | [clover-report] using movers interval of 18 minutes |
| 18-Apr-2019 15:42:19 | [clover-report] using movers interval of 18 minutes |
| 18-Apr-2019 15:42:20 | [clover-report] Writing JSON historical-data to: /srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/clover/jalviewX/historical-json.js |
| 18-Apr-2019 15:42:20 | [clover-report] Done. |
| 18-Apr-2019 15:42:20 | |
| 18-Apr-2019 15:42:20 | BUILD SUCCESSFUL |
| 18-Apr-2019 15:42:20 | Total time: 5 minutes 11 seconds |
| 18-Apr-2019 15:42:20 | Finished task 'Clover TestNG Suite' with result: Success |
| 18-Apr-2019 15:42:20 | Starting task 'Process Jalview TestNG Suite' of type 'com.atlassian.bamboo.plugins.testresultparser:task.testresultparser.testng' |
| 18-Apr-2019 15:42:20 | Parsing test results under /srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1... |
| 18-Apr-2019 15:42:22 | Failing task since 3 failing test cases were found. |
| 18-Apr-2019 15:42:22 | Finished task 'Process Jalview TestNG Suite' with result: Failed |
| 18-Apr-2019 15:42:22 | Starting task 'build' of type 'com.atlassian.bamboo.plugins.ant:task.builder.ant' |
| 18-Apr-2019 15:42:22 | Beginning to execute external process for build 'Jalview Builds - jalview develop build - Default Job #131 (JB-JDB-JOB1-131)' ... running command line: /usr/share/ant/bin/ant -Djava.io.tmpdir=/home/bamboo/latest/temp/JB-JDB-JOB1 -f build.xml makedist ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1 ... using extra environment variables: bamboo_planRepository_1_branch=develop bamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr bamboo_planRepository_1_branchDisplayName=develop bamboo_repository_revision_number=58ecc1bd5b01acd8f8378980f369003da9db2ee9 bamboo_resultsUrl=https://builds.jalview.org/browse/JB-JDB-JOB1-131 bamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1 bamboo_planRepository_1_name=Jalview Git bamboo_buildKey=JB-JDB-JOB1 bamboo_capability_system_jdk_JDK_1_8_0_171=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.171-8.b10.el7_5.x86_64 bamboo_shortPlanName=jalview develop build bamboo_planRepository_name=Jalview Git bamboo_buildNumber=131 bamboo_capability_system_jdk_OpenJDK_11_JRE_only=/home/bamboo/buildtools/jvm/jre11_x64_linux bamboo_shortJobName=Default Job bamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-JDB-JOB1-131 bamboo_repository_720898_git_branch=develop bamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_repository_720898_branch_name=develop bamboo_repository_720898_name=Jalview Git bamboo_agentId=196609 bamboo_planName=Jalview Builds - jalview develop build bamboo_shortPlanKey=JDB bamboo_shortJobKey=JOB1 bamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jvm/jdk11_x64_linux bamboo_planRepository_revision=58ecc1bd5b01acd8f8378980f369003da9db2ee9 bamboo_buildTimeStamp=2019-04-18T15:33:21.741+01:00 bamboo_repository_previous_revision_number=4992ecae64d0c987c217e8c584161706188f9d52 bamboo_planRepository_previousRevision=4992ecae64d0c987c217e8c584161706188f9d52 bamboo_repository_git_branch=develop bamboo_buildResultKey=JB-JDB-JOB1-131 bamboo_repository_branch_name=develop bamboo_buildPlanName=Jalview Builds - jalview develop build - Default Job bamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11 bamboo_planRepository_1_revision=58ecc1bd5b01acd8f8378980f369003da9db2ee9 bamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant bamboo_repository_720898_previous_revision_number=4992ecae64d0c987c217e8c584161706188f9d52 bamboo_repository_name=Jalview Git JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.171-8.b10.el7_5.x86_64 bamboo_buildFailed=true bamboo_build_commandline_com_atlassian_bamboo_plugins_ant_task_builder_ant_3=/home/bamboo/buildtools/x11-ant/bin/ant -Djava.io.tmpdir=/home/bamboo/latest/temp/JB-JDB-JOB1 -f build.xml -Dclover.jar=/home/bamboo/buildtools/clover/lib/clover.jar clean with.clover testng clover.report ANT_HOME=/usr/share/ant bamboo_planRepository_branch=develop bamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir bamboo_jobFailed=true bamboo_capability_system_git_executable=/bin/git bamboo_repository_720898_git_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_repository_git_username= bamboo_planRepository_1_previousRevision=4992ecae64d0c987c217e8c584161706188f9d52 bamboo_planRepository_branchDisplayName=develop bamboo_planRepository_1_type=gitv2 bamboo_planRepository_branchName=develop bamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11 bamboo_capability_system_builderivy_Ivy=/usr bamboo_capability_system_jdk_JDK=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.171-8.b10.el7_5.x86_64 bamboo_plan_storageTag=plan-753665 bamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle bamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache bamboo_planRepository_1_username= bamboo_planRepository_type=gitv2 bamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache bamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_capability_system_builder_ant_Ant=/usr/share/ant bamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven bamboo_tmp_directory=/srv/bamboo/bamboo-home/temp bamboo_repository_720898_git_username= bamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1 bamboo_planKey=JB-JDB bamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_planRepository_username= bamboo_capability_system_jdk_JDK_1_8=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.171-8.b10.el7_5.x86_64 bamboo_repository_720898_revision_number=58ecc1bd5b01acd8f8378980f369003da9db2ee9 bamboo_planRepository_1_branchName=develop PATH=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.171-8.b10.el7_5.x86_64/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin |
| 18-Apr-2019 15:42:22 | Buildfile: /srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/build.xml |
| 18-Apr-2019 15:42:23 | |
| 18-Apr-2019 15:42:23 | init: |
| 18-Apr-2019 15:42:23 | |
| 18-Apr-2019 15:42:23 | prepare: |
| 18-Apr-2019 15:42:23 | [copy] Copying 2 files to /srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/classes |
| 18-Apr-2019 15:42:23 | |
| 18-Apr-2019 15:42:23 | build: |
| 18-Apr-2019 15:42:23 | [javac] /srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/build.xml:279: warning: 'includeantruntime' was not set, defaulting to build.sysclasspath=last; set to false for repeatable builds |
| 18-Apr-2019 15:42:23 | |
| 18-Apr-2019 15:42:23 | buildPropertiesFile: |
| 18-Apr-2019 15:42:24 | [properties] write property file /srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/classes/.build_properties |
| 18-Apr-2019 15:42:24 | |
| 18-Apr-2019 15:42:24 | linkcheck: |
| 18-Apr-2019 15:42:24 | [javac] /srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/build.xml:1011: warning: 'includeantruntime' was not set, defaulting to build.sysclasspath=last; set to false for repeatable builds |
| 18-Apr-2019 15:42:24 | [java] Checking help file links |
| 18-Apr-2019 15:42:25 | [java] |
| 18-Apr-2019 15:42:25 | [java] Results: |
| 18-Apr-2019 15:42:25 | [java] 134 distinct help targets |
| 18-Apr-2019 15:42:25 | [java] 134 help mappings |
| 18-Apr-2019 15:42:25 | [java] 0 invalid targets |
| 18-Apr-2019 15:42:25 | [java] 23 unused targets |
| 18-Apr-2019 15:42:25 | [java] uniprotfetcher: html/features/uniprotsequencefetcher.html |
| 18-Apr-2019 15:42:25 | [java] overviewprefs: html/features/preferences.html#overview |
| 18-Apr-2019 15:42:25 | [java] cdnafeatures: html/features/codingfeatures.html |
| 18-Apr-2019 15:42:25 | [java] ensemblfetch: html/features/ensemblsequencefetcher.html |
| 18-Apr-2019 15:42:25 | [java] io.modellerpir: html/io/modellerpir.html |
| 18-Apr-2019 15:42:25 | [java] pdbmcviewer: html/features/pdbviewer.html |
| 18-Apr-2019 15:42:25 | [java] groovy.colours: html/features/groovy.html#groovyColours |
| 18-Apr-2019 15:42:25 | [java] seqmappings: html/features/seqmappings.html |
| 18-Apr-2019 15:42:25 | [java] uniprotfts: html/features/uniprotsequencefetcher.html#uniprotfts |
| 18-Apr-2019 15:42:25 | [java] splitframe.mirrorfonts: html/features/splitView.html#mirror |
| 18-Apr-2019 15:42:25 | [java] subtMatrices.pam250: html/calculations/scorematrices.html#pam250 |
| 18-Apr-2019 15:42:25 | [java] search: html/features/search.html |
| 18-Apr-2019 15:42:25 | [java] viewingpdbs.reps: html/features/viewingpdbs.html#viewreps |
| 18-Apr-2019 15:42:25 | [java] alformats: html/io/fileformats.html |
| 18-Apr-2019 15:42:25 | [java] strucprefs: html/features/preferences.html#structure |
| 18-Apr-2019 15:42:25 | [java] siftsmapping: html/features/siftsmapping.html |
| 18-Apr-2019 15:42:25 | [java] pdbfts: html/features/pdbsequencefetcher.html#pdbfts |
| 18-Apr-2019 15:42:25 | [java] newkeys: html/features/newkeystrokes.html |
| 18-Apr-2019 15:42:25 | [java] seqfeatures.settings.selcols: html/features/featuresettings.html#selectbyfeature |
| 18-Apr-2019 15:42:25 | [java] jalarchive: html/features/jalarchive.html |
| 18-Apr-2019 15:42:25 | [java] newsreader: html/webServices/newsreader.html |
| 18-Apr-2019 15:42:25 | [java] popMenuAddref: html/menus/popupMenu.html#addrefannot |
| 18-Apr-2019 15:42:25 | [java] overview: html/features/overview.html |
| 18-Apr-2019 15:42:25 | [java] 0 invalid map urls |
| 18-Apr-2019 15:42:25 | [java] 0 invalid image attributes |
| 18-Apr-2019 15:42:25 | [java] 356 internal href links (64 with anchors) |
| 18-Apr-2019 15:42:25 | [java] 0 invalid internal href links |
| 18-Apr-2019 15:42:25 | [java] 0 invalid internal anchor links |
| 18-Apr-2019 15:42:25 | [java] 87 external href links |
| 18-Apr-2019 15:42:25 | [java] External links not verified as internet not available |
| 18-Apr-2019 15:42:25 | [java] *** Success *** |
| 18-Apr-2019 15:42:25 | |
| 18-Apr-2019 15:42:25 | buildindices: |
| 18-Apr-2019 15:42:28 | |
| 18-Apr-2019 15:42:28 | makedist: |
| 18-Apr-2019 15:42:28 | [jar] Building jar: /srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/dist/jalview.jar |
| 18-Apr-2019 15:42:30 | [copy] Copying 51 files to /srv/bamboo/bamboo-home/xml-data/build-dir/JB-JDB-JOB1/dist |
| 18-Apr-2019 15:42:30 | |
| 18-Apr-2019 15:42:30 | BUILD SUCCESSFUL |
| 18-Apr-2019 15:42:30 | Total time: 7 seconds |
| 18-Apr-2019 15:42:30 | Finished task 'build' with result: Success |
| 18-Apr-2019 15:42:30 | Running post build plugin 'NCover Results Collector' |
| 18-Apr-2019 15:42:30 | Running post build plugin 'Artifact Copier' |
| 18-Apr-2019 15:42:30 | Publishing an artifact: jalview-jars |
| 18-Apr-2019 15:42:30 | Finished publishing of artifact Shared artifact: [jalview-jars], pattern: [**/*.*] anchored at: [dist] in 53.42 ms |
| 18-Apr-2019 15:42:30 | Publishing an artifact: Clover Report (System) |
| 18-Apr-2019 15:45:17 | Finished publishing of artifact Job artifact: [Clover Report (System)], pattern: [**/*.*] anchored at: [clover] in 2.789 min |
| 18-Apr-2019 15:45:17 | Running post build plugin 'Artifactory Release Management Staging' |
| 18-Apr-2019 15:45:17 | Running post build plugin 'Artifactory Build Info Copier' |
| 18-Apr-2019 15:45:17 | Running post build plugin 'Artifactory Gradle Properties Info Copier' |
| 18-Apr-2019 15:45:17 | Running post build plugin 'npm Cache Cleanup' |
| 18-Apr-2019 15:45:17 | Running post build plugin 'Clover Results Collector' |
| 18-Apr-2019 15:45:17 | Running post build plugin 'Docker Container Cleanup' |
| 18-Apr-2019 15:45:17 | Finalising the build... |
| 18-Apr-2019 15:45:17 | Stopping timer. |
| 18-Apr-2019 15:45:17 | Build JB-JDB-JOB1-131 completed. |
| 18-Apr-2019 15:45:17 | Running on server: post build plugin 'NCover Results Collector' |
| 18-Apr-2019 15:45:18 | Running on server: post build plugin 'Build Hanging Detection Configuration' |
| 18-Apr-2019 15:45:18 | Running on server: post build plugin 'Clover Delta Calculator' |
| 18-Apr-2019 15:45:18 | Running on server: post build plugin 'Maven Dependencies Postprocessor' |
| 18-Apr-2019 15:45:18 | All post build plugins have finished |
| 18-Apr-2019 15:45:18 | Generating build results summary... |
| 18-Apr-2019 15:45:18 | Saving build results to disk... |
| 18-Apr-2019 15:45:19 | Logging substituted variables... |
| 18-Apr-2019 15:45:19 | Indexing build results... |
| 18-Apr-2019 15:45:19 | Finished building JB-JDB-JOB1-131. |