diff --git a/test/build-test.xml b/test/build-test.xml index 0cbb7a478..53fd27d60 100644 --- a/test/build-test.xml +++ b/test/build-test.xml @@ -31,7 +31,7 @@ ============================================================= --> - + @@ -441,6 +441,8 @@ + + diff --git a/test/coverage-report/jacoco-manual-tests/index.html b/test/coverage-report/jacoco-manual-tests/index.html index 3f920f1b2..d2c5b5bcc 100644 --- a/test/coverage-report/jacoco-manual-tests/index.html +++ b/test/coverage-report/jacoco-manual-tests/index.html @@ -1 +1 @@ -Artemis non-Evosuite Unit Test Code Coverage Report

Artemis non-Evosuite Unit Test Code Coverage Report

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total287,723 of 341,65415%24,788 of 29,13514%19,82723,07959,58971,9456,4718,3791,1501,648
uk.ac.sanger.artemis.components83,16213,34713%7,4245737%6,0016,58318,90121,8852,0852,542476717
uk.ac.sanger.artemis.plot29,7762,0896%1,00418315%7819282,2052,7172213321537
uk.ac.sanger.artemis.components.alignment21,8603,64014%1,9481969%1,5111,6414,4485,207477568125153
uk.ac.sanger.artemis.io21,23913,48138%2,9201,56634%2,2973,2904,9358,2525491,02043121
uk.ac.sanger.artemis.chado19,9220%1,6530%1,2321,2324,4494,4494054052929
uk.ac.sanger.artemis.circular17,6470%8640%9669743,7983,817531539119124
uk.ac.sanger.artemis.components.genebuilder15,4421,1136%1,4071238%1,0371,1033,5373,8133043356774
uk.ac.sanger.artemis.editor12,2550%1,0130%7607632,6462,6572532564849
uk.ac.sanger.artemis.components.variant11,6458,40941%1,38761430%1,0131,4192,2023,7671874011881
uk.ac.sanger.artemis8,8146,95944%1,06361836%9701,4972,2494,1323146532856
uk.ac.sanger.artemis.util8,6676%9424%7047672,0402,2072252731428
uk.ac.sanger.artemis.components.filetree8,2100%6400%6236231,7961,7963013016060
uk.ac.sanger.artemis.components.genebuilder.ortholog6,9040%5920%4144171,4931,5021171192627
uk.ac.sanger.artemis.components.genebuilder.cv6,5850%4960%3593591,3971,3971111112323
uk.ac.sanger.artemis.circular.digest3,1944%1997%17719170474275841921
uk.ac.sanger.artemis.components.database2,9990%2300%2152156856851001001414
uk.ac.sanger.artemis.j2ssh2,7810%2720%198198612612626277
uk.ac.sanger.artemis.components.genebuilder.gff2,5440%2620%179179581581484899
uk.ac.sanger.artemis.sequence2,1223,94265%30840957%2575675131,32955179412
uk.ac.sanger.artemis.cramtools.ref1,9550%1640%133133398398515166
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +Artemis non-Evosuite Unit Test Code Coverage Report

Artemis non-Evosuite Unit Test Code Coverage Report

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total287,827 of 341,77015%24,799 of 29,14914%19,83423,08759,61171,9686,4728,3801,1501,648
uk.ac.sanger.artemis.components83,24613,34713%7,4385737%6,0096,59118,91821,9022,0862,543476717
uk.ac.sanger.artemis.plot29,7762,0896%1,00418315%7819282,2052,7172213321537
uk.ac.sanger.artemis.components.alignment21,8803,64714%1,9461989%1,5111,6414,4535,212477568125153
uk.ac.sanger.artemis.io21,23913,48638%2,9191,56734%2,2963,2904,9358,2535491,02043121
uk.ac.sanger.artemis.chado19,9220%1,6530%1,2321,2324,4494,4494054052929
uk.ac.sanger.artemis.circular17,6470%8640%9669743,7983,817531539119124
uk.ac.sanger.artemis.components.genebuilder15,4421,1136%1,4071238%1,0371,1033,5373,8133043356774
uk.ac.sanger.artemis.editor12,2550%1,0130%7607632,6462,6572532564849
uk.ac.sanger.artemis.components.variant11,6458,40941%1,38761430%1,0131,4192,2023,7671874011881
uk.ac.sanger.artemis8,8146,95944%1,06361836%9701,4972,2494,1323146532856
uk.ac.sanger.artemis.util8,6676%9424%7047672,0402,2072252731428
uk.ac.sanger.artemis.components.filetree8,2100%6400%6236231,7961,7963013016060
uk.ac.sanger.artemis.components.genebuilder.ortholog6,9040%5920%4144171,4931,5021171192627
uk.ac.sanger.artemis.components.genebuilder.cv6,5850%4960%3593591,3971,3971111112323
uk.ac.sanger.artemis.circular.digest3,1944%1997%17719170474275841921
uk.ac.sanger.artemis.components.database2,9990%2300%2152156856851001001414
uk.ac.sanger.artemis.j2ssh2,7810%2720%198198612612626277
uk.ac.sanger.artemis.components.genebuilder.gff2,5440%2620%179179581581484899
uk.ac.sanger.artemis.sequence2,1223,94265%30840957%2575675131,32955179412
uk.ac.sanger.artemis.cramtools.ref1,9550%1640%133133398398515166
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/jacoco-sessions.html b/test/coverage-report/jacoco-manual-tests/jacoco-sessions.html index ea400e351..e16b7e9e8 100644 --- a/test/coverage-report/jacoco-manual-tests/jacoco-sessions.html +++ b/test/coverage-report/jacoco-manual-tests/jacoco-sessions.html @@ -1 +1 @@ -Sessions

Sessions

This coverage report is based on execution data from the following sessions:

SessionStart TimeDump Time
mib111165i.internal.sanger.ac.uk-19ce34825-Jan-2018 15:46:1025-Jan-2018 15:46:44
mib111165i.internal.sanger.ac.uk-8837bb9025-Jan-2018 15:46:4525-Jan-2018 15:46:46
mib111165i.internal.sanger.ac.uk-76d7835025-Jan-2018 15:46:4625-Jan-2018 15:46:46
mib111165i.internal.sanger.ac.uk-2f5a1ef025-Jan-2018 15:46:4725-Jan-2018 15:46:47
mib111165i.internal.sanger.ac.uk-19decab325-Jan-2018 15:46:4725-Jan-2018 15:46:48
mib111165i.internal.sanger.ac.uk-9573b94025-Jan-2018 15:46:4825-Jan-2018 15:46:50
mib111165i.internal.sanger.ac.uk-2665b28025-Jan-2018 15:46:5125-Jan-2018 15:46:54
mib111165i.internal.sanger.ac.uk-ec471eef25-Jan-2018 15:46:5425-Jan-2018 15:46:57
mib111165i.internal.sanger.ac.uk-2d7c9c4925-Jan-2018 15:46:5825-Jan-2018 15:47:01
mib111165i.internal.sanger.ac.uk-f6d8428425-Jan-2018 15:47:0125-Jan-2018 15:47:05
mib111165i.internal.sanger.ac.uk-788569ca25-Jan-2018 15:47:0625-Jan-2018 15:47:10
mib111165i.internal.sanger.ac.uk-8c5acf5225-Jan-2018 15:47:1125-Jan-2018 15:47:16
mib111165i.internal.sanger.ac.uk-56f88fb725-Jan-2018 15:47:1725-Jan-2018 15:47:17
mib111165i.internal.sanger.ac.uk-1c0c0f8b25-Jan-2018 15:47:1725-Jan-2018 15:47:18
mib111165i.internal.sanger.ac.uk-800bec6625-Jan-2018 15:47:1825-Jan-2018 15:47:20
mib111165i.internal.sanger.ac.uk-f039eaeb25-Jan-2018 15:47:2125-Jan-2018 15:47:24
mib111165i.internal.sanger.ac.uk-3619864a25-Jan-2018 15:47:2425-Jan-2018 15:47:26
mib111165i.internal.sanger.ac.uk-f7009d025-Jan-2018 15:47:2625-Jan-2018 15:47:28
mib111165i.internal.sanger.ac.uk-6f25281325-Jan-2018 15:47:2925-Jan-2018 15:47:31
mib111165i.internal.sanger.ac.uk-b541627725-Jan-2018 15:47:3125-Jan-2018 15:47:33

Execution data for the following classes is considered in this report:

ClassId
htsjdk.samtools.AbstractBAMFileIndex08d7fac8fa40e8f9
htsjdk.samtools.AbstractBAMFileIndex.IndexFileBuffer56a26451b61ff57b
htsjdk.samtools.AbstractBAMFileIndex.MemoryMappedFileBuffer5e342fa0266991fa
htsjdk.samtools.AbstractSAMHeaderRecord76d80c73f6180b08
htsjdk.samtools.BAMFileConstantsef4c16bdd7ca9e23
htsjdk.samtools.BAMFileReaderdc4234e3cc2a82d5
htsjdk.samtools.BAMFileReader.137b3451d76ddd9f8
htsjdk.samtools.BAMFileReader.AbstractBamIteratora144d09797156e47
htsjdk.samtools.BAMFileReader.BAMFileIndexIterator54a1b6b302c2bfad
htsjdk.samtools.BAMFileReader.BAMFileIterator0addbff5a5ebb24f
htsjdk.samtools.BAMFileReader.BAMQueryFilteringIterator85b5d43ce7532443
htsjdk.samtools.BAMFileSpan419a1330c2586c31
htsjdk.samtools.BAMIndexContent2fedbc7ff616df63
htsjdk.samtools.BAMIndexMetaDatae9ea2e4b46df2110
htsjdk.samtools.BAMIndexer92eb7020686d1ec2
htsjdk.samtools.BAMIndexer.BAMIndexBuilder362c4400595c17cc
htsjdk.samtools.BAMIndexer.BAMIndexBuilder.1876dec072698b2f8
htsjdk.samtools.BAMIteratorFilter.FilteringIteratorState53bbd459b8eb623c
htsjdk.samtools.BAMIteratorFilter.IntervalComparison58f069f9501a663a
htsjdk.samtools.BAMQueryMultipleIntervalsIteratorFilter6a9c82f75e6ca7c2
htsjdk.samtools.BAMQueryMultipleIntervalsIteratorFilter.12a05b19c68f871cf
htsjdk.samtools.BAMRecord2cf1564ef07d61b5
htsjdk.samtools.BAMRecordCodec0a49e6da8882efe5
htsjdk.samtools.Bine16b02bcd6f6d075
htsjdk.samtools.BinaryBAMIndexWriter198e5d5b294828e8
htsjdk.samtools.BinaryCigarCodec0bd808a4a6bf5a5b
htsjdk.samtools.BinaryTagCodecb1190463fc64d877
htsjdk.samtools.BinningIndexBuilder0413bcf4855cc725
htsjdk.samtools.BinningIndexContent999c2a8dd2f9d66e
htsjdk.samtools.BinningIndexContent.BinListfc96e7c615a61228
htsjdk.samtools.BinningIndexContent.BinList.BinIterator811ac2cdb5357f71
htsjdk.samtools.CRAMCRAIIndexer71b250940a367c88
htsjdk.samtools.CachingBAMFileIndexc704c8415f0b23ac
htsjdk.samtools.Chunk5833047bd09481c8
htsjdk.samtools.Cigar75c5f4944c9a018d
htsjdk.samtools.Cigar.1f399f2eb286d388a
htsjdk.samtools.CigarElement770cc3d611fabef3
htsjdk.samtools.CigarOperatorc92d205b4dbb4db7
htsjdk.samtools.CustomReaderFactory9a433df17e25062d
htsjdk.samtools.DefaultSAMRecordFactoryfad61f4a2fad3433
htsjdk.samtools.Defaults4385de1727795ddd
htsjdk.samtools.FileInputResourceba051790b9ceebbf
htsjdk.samtools.FileInputResource.19495e9494d824997
htsjdk.samtools.GenomicIndexUtilc7148e56d84f41d2
htsjdk.samtools.InputResource00eed0ac84605a94
htsjdk.samtools.InputResource.Typec73f9a7fc12cc73c
htsjdk.samtools.LinearIndexc730aeab68f8f787
htsjdk.samtools.QueryInterval293305312bf3badd
htsjdk.samtools.SAMExceptiona5747de5396b7a63
htsjdk.samtools.SAMFileHeader5df609b34e4c92ae
htsjdk.samtools.SAMFileHeader.SortOrderec180923226150da
htsjdk.samtools.SAMFileSource2015605fc8f69044
htsjdk.samtools.SAMFlag490918947593a9ad
htsjdk.samtools.SAMHeaderRecordComparator4b0bd989f12d1ab3
htsjdk.samtools.SAMReadGroupRecord263365ce3ce5168f
htsjdk.samtools.SAMRecorda11267c85b83178c
htsjdk.samtools.SAMSequenceDictionary424aaa1e692294f6
htsjdk.samtools.SAMSequenceRecord892e2a68542adc53
htsjdk.samtools.SAMTaga880e842a9e92992
htsjdk.samtools.SAMTextHeaderCodec184577cc65fd1ad6
htsjdk.samtools.SAMTextHeaderCodec.1fb4a915f40b21a26
htsjdk.samtools.SAMTextHeaderCodec.HeaderRecordTypef6ee9c1ad2933463
htsjdk.samtools.SAMTextHeaderCodec.ParsedHeaderLined3adec0b84548062
htsjdk.samtools.SAMUtils19ee4b419a7f8f3d
htsjdk.samtools.SamFilesf47ed084460848c4
htsjdk.samtools.SamFlagFielda90ea78727452308
htsjdk.samtools.SamFlagField.157acbc404b2f0ce7
htsjdk.samtools.SamFlagField.216c93c9e794af262
htsjdk.samtools.SamFlagField.3a179ff6975c93fda
htsjdk.samtools.SamFlagField.4f9d414612d84cd2b
htsjdk.samtools.SamFlagField.5e2879542335dbe8b
htsjdk.samtools.SamInputResource68ac47972851fa4e
htsjdk.samtools.SamReader.AssertingIteratorf4e0dbc0e3e2e582
htsjdk.samtools.SamReader.PrimitiveSamReaderToSamReaderAdaptere2ceb1de36314576
htsjdk.samtools.SamReader.ReaderImplementation8975308a095081fc
htsjdk.samtools.SamReader.Typef5eaa76338d79c37
htsjdk.samtools.SamReader.Type.TypeImpld980986469ecb1b1
htsjdk.samtools.SamReaderFactory92265585198024f2
htsjdk.samtools.SamReaderFactory.Optiond4a2225305824def
htsjdk.samtools.SamReaderFactory.Option.14ac29678dcffe45b
htsjdk.samtools.SamReaderFactory.Option.20eb709596d96c8d9
htsjdk.samtools.SamReaderFactory.Option.3a0879b22fda6aaf1
htsjdk.samtools.SamReaderFactory.Option.40e830367287b033a
htsjdk.samtools.SamReaderFactory.Option.5fd200329e5d1159a
htsjdk.samtools.SamReaderFactory.SamReaderFactoryImpld091bce525057184
htsjdk.samtools.SamStreamsa83720e968be4528
htsjdk.samtools.TextCigarCodece8ce804196038a5a
htsjdk.samtools.TextTagCodec2934c706b1fb4a19
htsjdk.samtools.ValidationStringency9a6bd46bf1deab90
htsjdk.samtools.cram.CRAIEntryd68051896cb636ba
htsjdk.samtools.cram.CRAIEntry.1e7c3aa1051d93fd4
htsjdk.samtools.cram.CRAIEntry.295541c03971a0997
htsjdk.samtools.cram.CRAIEntry.3947a70917aded714
htsjdk.samtools.cram.CRAIIndexad46f0c18ac90f1a
htsjdk.samtools.cram.build.CramIO35ecdbc7db72f3f6
htsjdk.samtools.cram.common.CramVersionsf5ac1bb5da869645
htsjdk.samtools.cram.common.Version2462dccf474bd6f6
htsjdk.samtools.cram.encoding.NullEncoding8bad6cfde0487b26
htsjdk.samtools.cram.encoding.rans.D04600ebde3e18922ee
htsjdk.samtools.cram.encoding.rans.Decoding071d2502f62ff8e2
htsjdk.samtools.cram.encoding.rans.Decoding.AriDecodera93f88dbc378352c
htsjdk.samtools.cram.encoding.rans.Decoding.FCd51ea269cdff5ac8
htsjdk.samtools.cram.encoding.rans.Decoding.RansDecSymbolecbb70ef5c8c0f21
htsjdk.samtools.cram.encoding.rans.Frequencies1f65f07417a6c325
htsjdk.samtools.cram.encoding.rans.RANSdcbd240675a9bd45
htsjdk.samtools.cram.encoding.rans.RANS.1d93b0183b62da1cd
htsjdk.samtools.cram.encoding.rans.RANS.ORDERfb9eb9e2364a9ad1
htsjdk.samtools.cram.io.CRC32InputStream83226756333d6ce5
htsjdk.samtools.cram.io.CramArrayb111bfeaec7d9907
htsjdk.samtools.cram.io.CramIntc6ed0208623facdd
htsjdk.samtools.cram.io.ExternalCompressiond621981e500128c7
htsjdk.samtools.cram.io.ITF84c572ca6ed59b62a
htsjdk.samtools.cram.io.InputStreamUtils63620c8b6e387e8e
htsjdk.samtools.cram.io.LTF8e136e360503d1d4e
htsjdk.samtools.cram.structure.Block7ee2e596d48e520b
htsjdk.samtools.cram.structure.Block.1db4ac477e2292d3f
htsjdk.samtools.cram.structure.BlockCompressionMethod7ff80ed1c0e521a2
htsjdk.samtools.cram.structure.BlockContentType902f7a3c7e8d0923
htsjdk.samtools.cram.structure.CompressionHeaderbccf1f33c079aadf
htsjdk.samtools.cram.structure.Container4c0147df16ba9a73
htsjdk.samtools.cram.structure.ContainerHeaderIO5ef6533fd829941f
htsjdk.samtools.cram.structure.ContainerIO9eedc4b54da9f095
htsjdk.samtools.cram.structure.CramHeaderd95c1d2d323dde98
htsjdk.samtools.cram.structure.EncodingID1054ab5cf0358f2f
htsjdk.samtools.cram.structure.EncodingKey9ac44f91c5b0bad3
htsjdk.samtools.cram.structure.EncodingParamsf24fc1dc1c748d39
htsjdk.samtools.cram.structure.Slice355c0a305f5d2ecd
htsjdk.samtools.cram.structure.SliceIOb08009500b3e71d2
htsjdk.samtools.cram.structure.SliceIO.1f35c056189e2a689
htsjdk.samtools.cram.structure.SubstitutionMatrix3726278da2d7ef0e
htsjdk.samtools.cram.structure.SubstitutionMatrix.148e26ceccaca6777
htsjdk.samtools.seekablestream.SeekableFileStream3d0fb11aeef7c4b3
htsjdk.samtools.seekablestream.SeekableStream3dfae1d09e4526ef
htsjdk.samtools.seekablestream.SeekableStreamFactoryeeeb2a9ed0ef87b2
htsjdk.samtools.seekablestream.SeekableStreamFactory.DefaultSeekableStreamFactory674a1f9fa7d4b7fb
htsjdk.samtools.util.BinaryCodec86f9343a05345e49
htsjdk.samtools.util.BlockCompressedFilePointerUtil91e71d2df8b58017
htsjdk.samtools.util.BlockCompressedInputStream0880da5d33e2f4a8
htsjdk.samtools.util.BlockCompressedInputStream.DecompressedBlockc0965dcf0f6e4d37
htsjdk.samtools.util.BlockGunzipper87993edf803dba75
htsjdk.samtools.util.BufferedLineReaderb98599f97690c046
htsjdk.samtools.util.CloserUtil4cd1d2a405fcb339
htsjdk.samtools.util.CollectionUtildcee08e0a93827b1
htsjdk.samtools.util.CoordMathe456ff1505de138d
htsjdk.samtools.util.IOUtilab5740edeb010f49
htsjdk.samtools.util.Lazyfc5c03105c9a7835
htsjdk.samtools.util.Log8f79c72333f061d9
htsjdk.samtools.util.Log.LogLevelf0b6e3a6d8d6f515
htsjdk.samtools.util.RuntimeEOFExceptionafa793a28410869a
htsjdk.samtools.util.StringUtilf150b4c6ba99caaa
htsjdk.samtools.util.zip.InflaterFactoryf45bd337b7770222
junit.framework.JUnit4TestAdapterbe9b49a69db26e47
junit.framework.JUnit4TestAdapterCache70030ebcb96388e1
junit.framework.JUnit4TestCaseFacaded442017b9571597c
junit.framework.TestResultdeb09a359e861141
org.apache.commons.lang.StringUtils9dd94cc65aafa7e1
org.apache.commons.lang.text.StrBuilder45e79079b5701935
org.apache.log4j.AppenderSkeletonf26348e939ab2240
org.apache.log4j.Category3e5a8c841a28f2da
org.apache.log4j.CategoryKeye744a33eb8887484
org.apache.log4j.DefaultCategoryFactory082e3139fd1bb14a
org.apache.log4j.Hierarchyddc90f7b3bd1fd15
org.apache.log4j.Levelc5a192d0c7124beb
org.apache.log4j.LogManagerc97876cb065366d0
org.apache.log4j.Loggerf9abcf2059e19260
org.apache.log4j.Priority7edd384e2aef98a7
org.apache.log4j.ProvisionNodebc455b61fb9fb8fb
org.apache.log4j.helpers.Loader5a0345b13b9f522f
org.apache.log4j.helpers.LogLog6ffb35569ca50f0f
org.apache.log4j.helpers.OnlyOnceErrorHandlere679102632e1add1
org.apache.log4j.helpers.OptionConverter0fe238b7f2870ac3
org.apache.log4j.or.DefaultRenderer59627d6dc2630fb0
org.apache.log4j.or.RendererMape9e67a88bd4ea5e0
org.apache.log4j.spi.DefaultRepositorySelectorcc18666890dc3a76
org.apache.log4j.spi.LoggingEventfa7797718b30df40
org.apache.log4j.spi.RootLogger854db392cc9f1cf3
org.apache.tools.ant.Project5f7ece170931a0f8
org.apache.tools.ant.taskdefs.condition.Os70e1e9b38ccad333
org.apache.tools.ant.taskdefs.optional.junit.BaseTesta4a146421279c078
org.apache.tools.ant.taskdefs.optional.junit.CustomJUnit4TestAdapterCachedfce4e8319124e18
org.apache.tools.ant.taskdefs.optional.junit.CustomJUnit4TestAdapterCache.12feb057b2dd38ae6
org.apache.tools.ant.taskdefs.optional.junit.FormatterElement0bc59f73666d34fc
org.apache.tools.ant.taskdefs.optional.junit.FormatterElement.DelayedFileOutputStreame7852295efbb74af
org.apache.tools.ant.taskdefs.optional.junit.IgnoredTestResult78b5063a1b04d777
org.apache.tools.ant.taskdefs.optional.junit.JUnitTestdc1233222b619e8f
org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunnerf87f20d834c25ff1
org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.216daa2d26ef37923
org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.33e61c0b305251e6b
org.apache.tools.ant.taskdefs.optional.junit.JUnitVersionHelperec516e1617d857a9
org.apache.tools.ant.taskdefs.optional.junit.PlainJUnitResultFormatterb2277b41a2221cb4
org.apache.tools.ant.taskdefs.optional.junit.SummaryJUnitResultFormatterd15df956341a6242
org.apache.tools.ant.taskdefs.optional.junit.TestIgnoredb4e0ad6fcc769522
org.apache.tools.ant.taskdefs.optional.junit.TestListenerWrapper5676d808eaf09589
org.apache.tools.ant.taskdefs.optional.junit.XMLJUnitResultFormatter6738283628fb58e0
org.apache.tools.ant.util.DOMElementWriterc872f774a062800b
org.apache.tools.ant.util.DOMElementWriter.XmlNamespacePolicyccb298fd49814f3c
org.apache.tools.ant.util.DateUtilsb4f770cb260cfc63
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uk.ac.sanger.artemis.components.WriteMenu.18a68b1e2971f02e2
uk.ac.sanger.artemis.components.WriteMenu.10bda3e931a4bcbdca
uk.ac.sanger.artemis.components.WriteMenu.11d7a57a6850b56637
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uk.ac.sanger.artemis.components.WriteMenu.19310be6b3f0423d81
uk.ac.sanger.artemis.components.WriteMenu.2d95595bf646c7ec0
uk.ac.sanger.artemis.components.WriteMenu.20fe7ef0b819ec28b5
uk.ac.sanger.artemis.components.WriteMenu.21f2c127e753a73c1e
uk.ac.sanger.artemis.components.WriteMenu.32b8c1ac5f3a29959
uk.ac.sanger.artemis.components.WriteMenu.485d5fea9b624a86d
uk.ac.sanger.artemis.components.WriteMenu.55fdca0745c6afe43
uk.ac.sanger.artemis.components.WriteMenu.6088185b8a2bec2b6
uk.ac.sanger.artemis.components.WriteMenu.76da32f830e31a060
uk.ac.sanger.artemis.components.WriteMenu.8aec35ce697d0e57e
uk.ac.sanger.artemis.components.WriteMenu.9306959b6fd9de8d9
uk.ac.sanger.artemis.components.ZoomScrollBar6607d80d99537c9e
uk.ac.sanger.artemis.components.ZoomScrollBar.1984a52b7595e5d17
uk.ac.sanger.artemis.components.alignment.AbstractGraphPanelf39a14efaff539a7
uk.ac.sanger.artemis.components.alignment.AbstractGraphPanel.166e0525a96adb36b
uk.ac.sanger.artemis.components.alignment.AbstractGraphPanel.2aba300c245e59e02
uk.ac.sanger.artemis.components.alignment.AbstractGraphPanel.PopupListener49ac513a24480041
uk.ac.sanger.artemis.components.alignment.BamUtils3306b51a2bfac87c
uk.ac.sanger.artemis.components.alignment.BamUtilsTesta67dfb71a79bbde8
uk.ac.sanger.artemis.components.alignment.BamView7facfbbf7b5a7d56
uk.ac.sanger.artemis.components.alignment.BamView.40930357a142aed26a
uk.ac.sanger.artemis.components.alignment.BamView.41b8da1e97c86e87bf
uk.ac.sanger.artemis.components.alignment.BamView.4511bb051e2087d6bd
uk.ac.sanger.artemis.components.alignment.BamView.46365ed5c84a6759f1
uk.ac.sanger.artemis.components.alignment.BamView.BamReadTask64a295ce286e706a
uk.ac.sanger.artemis.components.alignment.BamView.PopupListener3e90ec8bd2c12efb
uk.ac.sanger.artemis.components.alignment.CoveragePanelb1b70dd3617c2a2b
uk.ac.sanger.artemis.components.alignment.CoveragePanel.13d2c2c3593dd201a
uk.ac.sanger.artemis.components.alignment.CoveragePanel.2f1c39f67e9d586fc
uk.ac.sanger.artemis.components.alignment.FileSelectionDialog93a54599d5aacf2a
uk.ac.sanger.artemis.components.alignment.GroupBamFrame284cdca8d050a0ed
uk.ac.sanger.artemis.components.alignment.GroupBamFrame.1d91a8183740a59eb
uk.ac.sanger.artemis.components.alignment.GroupBamFrame.229146a4abe5b7dbd
uk.ac.sanger.artemis.components.alignment.GroupBamFrame.3016c28cfbd3b8144
uk.ac.sanger.artemis.components.alignment.GroupBamFrame.4b21502aabf59e6b7
uk.ac.sanger.artemis.components.alignment.LineAttributes94eaa19366ff97ea
uk.ac.sanger.artemis.components.alignment.MappedReadsTest765ace98c2f320d8
uk.ac.sanger.artemis.components.alignment.PopupMessageFramedf25a567ce82e2e4
uk.ac.sanger.artemis.components.alignment.ReadCount717790d12399f0f3
uk.ac.sanger.artemis.components.alignment.ReadCountDialog503b5610b1d00ef3
uk.ac.sanger.artemis.components.alignment.SAMRecordFlagPredicatec5d51fc6b547d5f5
uk.ac.sanger.artemis.components.alignment.SnpPanelefc2b985521dfa04
uk.ac.sanger.artemis.components.alignment.SnpPanel.1fc2040b3f59afbde
uk.ac.sanger.artemis.components.genebuilder.AutoCompleteComboDocument7881a64168bcb1de
uk.ac.sanger.artemis.components.genebuilder.AutoCompleteComboDocument.1e160e0aa937771b7
uk.ac.sanger.artemis.components.genebuilder.AutoCompleteComboDocument.2c1e7cae7fc094c5d
uk.ac.sanger.artemis.components.genebuilder.AutoCompleteComboDocument.3c57b8393f031e1a8
uk.ac.sanger.artemis.components.genebuilder.GeneUtils2aaff5c2529fdf65
uk.ac.sanger.artemis.components.genebuilder.MapPanel2f23216abd625ea1
uk.ac.sanger.artemis.components.genebuilder.ProteinMapPanel0dc772c02253d98f
uk.ac.sanger.artemis.components.genebuilder.ortholog.MatchPanelc54e74d19e4bba7c
uk.ac.sanger.artemis.components.variant.AbstractVCFReader6e56ad9bd539508e
uk.ac.sanger.artemis.components.variant.BCFIndex5556a7236fe6d9e2
uk.ac.sanger.artemis.components.variant.BCFReaderdcc2d1c2bfd86dab
uk.ac.sanger.artemis.components.variant.BCFReader.BCFReaderIterator6416a0d645e9b512
uk.ac.sanger.artemis.components.variant.FilteredPanel3e13933463bc2b8b
uk.ac.sanger.artemis.components.variant.GraphPanelf8200cacf91ec914
uk.ac.sanger.artemis.components.variant.GraphPanel.185a17e306327560f
uk.ac.sanger.artemis.components.variant.GraphPanel.PopupListenerc7729ee1a7a4303b
uk.ac.sanger.artemis.components.variant.HeaderLine42d0896f4bb8182a
uk.ac.sanger.artemis.components.variant.IOUtils34bffa33ffd01362
uk.ac.sanger.artemis.components.variant.MultipleAlleleVariantd9f3d55ca5d99188
uk.ac.sanger.artemis.components.variant.RecordFilter2adaef5e603087f1
uk.ac.sanger.artemis.components.variant.TabixReader44bd185ef0e00217
uk.ac.sanger.artemis.components.variant.TabixReader.Iterator40d4c30fcca97bcf
uk.ac.sanger.artemis.components.variant.TabixReader.TIndex07cbe41284408047
uk.ac.sanger.artemis.components.variant.TabixReader.TIntv26f2983abb84fedf
uk.ac.sanger.artemis.components.variant.TabixReader.TPair64b5070553ba92a190
uk.ac.sanger.artemis.components.variant.VCFFilterdde388c78362f475
uk.ac.sanger.artemis.components.variant.VCFFilter.10af1bb79751b2a9c
uk.ac.sanger.artemis.components.variant.VCFFilter.1037fc5b08aac54b48
uk.ac.sanger.artemis.components.variant.VCFFilter.11767bd1c472c0e6e1
uk.ac.sanger.artemis.components.variant.VCFFilter.12db02027327986f70
uk.ac.sanger.artemis.components.variant.VCFFilter.2a5b8bdab292aef0a
uk.ac.sanger.artemis.components.variant.VCFFilter.39964e7334de2f23c
uk.ac.sanger.artemis.components.variant.VCFFilter.4373288b4fc30c7af
uk.ac.sanger.artemis.components.variant.VCFFilter.58ef97a37cfe350f8
uk.ac.sanger.artemis.components.variant.VCFFilter.6af63e44cb205cf77
uk.ac.sanger.artemis.components.variant.VCFFilter.7c334ded5dd9773d5
uk.ac.sanger.artemis.components.variant.VCFFilter.8d0768d99d00d22e2
uk.ac.sanger.artemis.components.variant.VCFFilter.926eff8a492804f6f
uk.ac.sanger.artemis.components.variant.VCFFilter.FilterListener81cba53820c71ebe
uk.ac.sanger.artemis.components.variant.VCFRecord9dff1b01cc50cb91
uk.ac.sanger.artemis.components.variant.VCFviewa62ccefe2cae95cc
uk.ac.sanger.artemis.components.variant.VCFview.10253a2ec435d4b1f
uk.ac.sanger.artemis.components.variant.VCFview.1137bd268bfd5dd57c
uk.ac.sanger.artemis.components.variant.VCFview.121d346629b483fd30
uk.ac.sanger.artemis.components.variant.VCFview.13ca51c72eb074cc31
uk.ac.sanger.artemis.components.variant.VCFview.1446596a9303d1943e
uk.ac.sanger.artemis.components.variant.VCFview.1550149839a5b5b1bf
uk.ac.sanger.artemis.components.variant.VCFview.16f501b5751db3bacf
uk.ac.sanger.artemis.components.variant.VCFview.17417048cb0123967a
uk.ac.sanger.artemis.components.variant.VCFview.18313ca1fb31894b8c
uk.ac.sanger.artemis.components.variant.VCFview.19628ef1826fb5fc03
uk.ac.sanger.artemis.components.variant.VCFview.28ea2b2291662bf61
uk.ac.sanger.artemis.components.variant.VCFview.20071da05665ce9e0e
uk.ac.sanger.artemis.components.variant.VCFview.21c7b6d03d9a8cf051
uk.ac.sanger.artemis.components.variant.VCFview.22029173083ac182c3
uk.ac.sanger.artemis.components.variant.VCFview.2390b1706ac764fcf4
uk.ac.sanger.artemis.components.variant.VCFview.24ed4c157fe5df14cb
uk.ac.sanger.artemis.components.variant.VCFview.2548c5cd9d757ee212
uk.ac.sanger.artemis.components.variant.VCFview.26d817c6a846c44357
uk.ac.sanger.artemis.components.variant.VCFview.27ea617743c1e6431f
uk.ac.sanger.artemis.components.variant.VCFview.281e5055100adf6514
uk.ac.sanger.artemis.components.variant.VCFview.3e95e058201f10336
uk.ac.sanger.artemis.components.variant.VCFview.30be23a82756d637c7
uk.ac.sanger.artemis.components.variant.VCFview.4d3396db3c2cad262
uk.ac.sanger.artemis.components.variant.VCFview.5b9712d6cfcd2e1b7
uk.ac.sanger.artemis.components.variant.VCFview.6a7433ba0f3316ffa
uk.ac.sanger.artemis.components.variant.VCFview.7090304a10c01b0b2
uk.ac.sanger.artemis.components.variant.VCFview.8ae394792f8a3e537
uk.ac.sanger.artemis.components.variant.VCFview.96d998b863c1ebdba
uk.ac.sanger.artemis.components.variant.VCFview.PopupListener870945e42a7c6f6f
uk.ac.sanger.artemis.components.variant.VariantBase6bffa819687d3188
uk.ac.sanger.artemis.components.variant.WriteVCFTest44f79ab5bb575134
uk.ac.sanger.artemis.components.variant.WriteVariantSitesTest32bccbf6d1f6672f
uk.ac.sanger.artemis.editor.MultiLineToolTipUI159acec0be536414
uk.ac.sanger.artemis.io.ChadoCanonicalGenee6d09f2df3a6abeb
uk.ac.sanger.artemis.io.DocumentEntryAutosaveThreade483678400b6e815
uk.ac.sanger.artemis.io.DocumentEntryFactoryd0bce9e811c14867
uk.ac.sanger.artemis.io.EMBLObjecte2a00f4ae4c81811
uk.ac.sanger.artemis.io.EmblDocumentEntry3726312f488ca526
uk.ac.sanger.artemis.io.EmblMisc39048263a80a7ad3
uk.ac.sanger.artemis.io.EmblStreamFeaturebc93cba89787ecc9
uk.ac.sanger.artemis.io.EmblStreamSequencee2f1da7e3ec1e625
uk.ac.sanger.artemis.io.EntryInformationExceptionfda455e2e1f3fff6
uk.ac.sanger.artemis.io.FastaStreamSequence9993921b5d6af907
uk.ac.sanger.artemis.io.FeatureComparatora95c4861a09cc887
uk.ac.sanger.artemis.io.FeatureHeader25c86cbbf57d25ed
uk.ac.sanger.artemis.io.FeatureTable0a5fcc99263ef0c0
uk.ac.sanger.artemis.io.FeatureTree7afc2387ada287e1
uk.ac.sanger.artemis.io.FeatureTree.12ecd2cb60c0e89a9
uk.ac.sanger.artemis.io.FeatureTree.FeatureEnumerator0c1c6db8aa672fe3
uk.ac.sanger.artemis.io.FeatureVectorfa2a2c8c6d4cbb64
uk.ac.sanger.artemis.io.FuzzyRange0b0bf532516c8a79
uk.ac.sanger.artemis.io.GFF3AttributeBuilderf2f43edba5352f33
uk.ac.sanger.artemis.io.GFF3AttributeBuilder.1032028ad6d7d11ff
uk.ac.sanger.artemis.io.GFF3AttributeBuilder.2ec4dfdf16730b9a2
uk.ac.sanger.artemis.io.GFF3AttributeBuilderTest5bebe618c7ff9063
uk.ac.sanger.artemis.io.GFF3AttributeBuilderTest.1f419d5be7b6c508c
uk.ac.sanger.artemis.io.GFF3Encoderea1eff469396e7ac
uk.ac.sanger.artemis.io.GFF3EncoderTestcdf1cb1c6206ca8d
uk.ac.sanger.artemis.io.GFFDocumentEntrydfba413b3424765e
uk.ac.sanger.artemis.io.GFFEntryInformation1d067ad244f3986c
uk.ac.sanger.artemis.io.GFFMisc07f6b88df90017d6
uk.ac.sanger.artemis.io.GFFStreamFeaturea26217edb54bc3ff
uk.ac.sanger.artemis.io.GFFStreamFeature.14a56e23009861070
uk.ac.sanger.artemis.io.GFFStreamFeature.204f49cfc7bfeabd1
uk.ac.sanger.artemis.io.GFFStreamFeature.3252cdebc63fed883
uk.ac.sanger.artemis.io.GFFStreamFeature.414a8da590033409e
uk.ac.sanger.artemis.io.GFFStreamFeature.598dec6a3f054a852
uk.ac.sanger.artemis.io.GFFStreamFeature.6db03a06e7b396e24
uk.ac.sanger.artemis.io.GFFStreamFeature.7c063c24124b952e3
uk.ac.sanger.artemis.io.GFFStreamFeature.8ac92fb61660cf6cf
uk.ac.sanger.artemis.io.GFFTest678eae35b2184a6a
uk.ac.sanger.artemis.io.GFFUtils90f014c38b7749c6
uk.ac.sanger.artemis.io.GffToEMBL93e12c0832666542
uk.ac.sanger.artemis.io.GffToEMBLTest467b3c5c0bb7e8cf
uk.ac.sanger.artemis.io.IndexFastaStreamac148ab0be499be8
uk.ac.sanger.artemis.io.IndexedGFFDocumentEntry62d258554e6ad9c4
uk.ac.sanger.artemis.io.InvalidRelationExceptione0df67de492fbc70
uk.ac.sanger.artemis.io.Key4ca6ee557dbc8186
uk.ac.sanger.artemis.io.KeyVector77d8b3c905d570a0
uk.ac.sanger.artemis.io.LineGroupb012e6dfe81f0cb8
uk.ac.sanger.artemis.io.Locationf9cfbc65a0c9113e
uk.ac.sanger.artemis.io.LocationLexer6b45fb0a8c67b391
uk.ac.sanger.artemis.io.LocationLexer.TokenEnumerationcb9e10966e3f5909
uk.ac.sanger.artemis.io.LocationParseNode6d4d5cae08dbb269
uk.ac.sanger.artemis.io.LocationParseNodeVector0fb4d72cc5f783e2
uk.ac.sanger.artemis.io.MiscLineGroup544b10849075a43b
uk.ac.sanger.artemis.io.Packingadbef8df1ef98a5c
uk.ac.sanger.artemis.io.PublicDBDocumentEntry639e00edd23c8198
uk.ac.sanger.artemis.io.PublicDBStreamFeaturefc5f4d57ddd53cb9
uk.ac.sanger.artemis.io.Qualifier13b94bc2bfaeeee6
uk.ac.sanger.artemis.io.QualifierInfoa32c47a7c5e838d1
uk.ac.sanger.artemis.io.QualifierInfoHasha90aa56a9745d013
uk.ac.sanger.artemis.io.QualifierInfoVector600780d9e4756ac4
uk.ac.sanger.artemis.io.QualifierVectore067d8f650a524d6
uk.ac.sanger.artemis.io.Range149302d3c90cf4f6
uk.ac.sanger.artemis.io.RangeVector783b492b8b39089f
uk.ac.sanger.artemis.io.RawStreamSequencef09e5b262c1e29f3
uk.ac.sanger.artemis.io.ReadEventb4329b05b058ccbe
uk.ac.sanger.artemis.io.SimpleDocumentEntry4ba5b4f22d8cb813
uk.ac.sanger.artemis.io.SimpleDocumentFeatureae9611de32d6175a
uk.ac.sanger.artemis.io.SimpleEntryInformation0deeb134fe12a7b1
uk.ac.sanger.artemis.io.StreamFeatureTable17e02c5fdab2c62b
uk.ac.sanger.artemis.io.StreamQualifier770cbe4010724b1f
uk.ac.sanger.artemis.io.StreamSequenceb208da8776660e5b
uk.ac.sanger.artemis.io.StreamSequenceFactory59a9c96042bf3de7
uk.ac.sanger.artemis.io.Utilsf206dbde90fdce0c
uk.ac.sanger.artemis.io.ValidateFeaturecf623221969a0e18
uk.ac.sanger.artemis.io.ValidateFeature.18f0aea5a22acef8f
uk.ac.sanger.artemis.io.ValidateFeature.10a0f23bc8ee2bd6ad
uk.ac.sanger.artemis.io.ValidateFeature.2947012845301b8be
uk.ac.sanger.artemis.io.ValidateFeature.38d05cb8e532ded8d
uk.ac.sanger.artemis.io.ValidateFeature.4cb8fa8f741085b67
uk.ac.sanger.artemis.io.ValidateFeature.56bb648c4a3df733b
uk.ac.sanger.artemis.io.ValidateFeature.6e7c7a042fdea756c
uk.ac.sanger.artemis.io.ValidateFeature.7423a6084d8ef12fd
uk.ac.sanger.artemis.io.ValidateFeature.87b28e61295979cc3
uk.ac.sanger.artemis.io.ValidateFeature.954d9c6787c053f8e
uk.ac.sanger.artemis.io.ValidateFeatureTest07b5ecd384ea60a5
uk.ac.sanger.artemis.plot.AGWindowAlgorithm8e6e0c07f87f1f21
uk.ac.sanger.artemis.plot.ATDeviationAlgorithmbca99edd8486276f
uk.ac.sanger.artemis.plot.Algorithm42a3e8225a194a01
uk.ac.sanger.artemis.plot.BaseAlgorithm83c43805acdc6ed5
uk.ac.sanger.artemis.plot.CSCSAlgorithm073f63d8b457ad7e
uk.ac.sanger.artemis.plot.Codon12CorrelationAlgorithm22ac877ce90bdb68
uk.ac.sanger.artemis.plot.CumulativeATSkewAlgorithm3327fa604989f968
uk.ac.sanger.artemis.plot.CumulativeGCSkewAlgorithm30d2b07381b2ef74
uk.ac.sanger.artemis.plot.EntropyAlgorithm1a9ec431b5152a20
uk.ac.sanger.artemis.plot.GCDeviationAlgorithm0b27c2b2d3fb5b28
uk.ac.sanger.artemis.plot.GCFrameAlgorithmada1ec9f7edbeefe
uk.ac.sanger.artemis.plot.GCSDWindowAlgorithmabe7957b028132bf
uk.ac.sanger.artemis.plot.GCWindowAlgorithm008f090d6f6b1e93
uk.ac.sanger.artemis.plot.ICDIAlgorithm6698d62733c47fad
uk.ac.sanger.artemis.plot.KarlinSigAlgorithmae4dee5b38ab4b5c
uk.ac.sanger.artemis.plot.LineAttributes22f7478b005c7478
uk.ac.sanger.artemis.plot.MRIAlgorithmc7903f94848f1d06
uk.ac.sanger.artemis.plot.NcAlgorithme5d95d651d9c198c
uk.ac.sanger.artemis.plot.PositionalAsymmetryAlgorithma575db6b9fda9d77
uk.ac.sanger.artemis.plot.ScaledChiAlgorithmbd73bd3bea49ab78
uk.ac.sanger.artemis.plot.UserDataAlgorithm19ad02474c1bdbcf
uk.ac.sanger.artemis.plot.UserDataAlgorithm.TabixIdxGraph55827bf39bc67b11
uk.ac.sanger.artemis.plot.UserPlotTest2aa670fd32dcb1d2
uk.ac.sanger.artemis.sequence.AminoAcidSequence02d8d284a8fed47b
uk.ac.sanger.artemis.sequence.AminoAcidSequenceTest57138de1ebf8608a
uk.ac.sanger.artemis.sequence.BasePattern5e08d5251ef9f0ca
uk.ac.sanger.artemis.sequence.Basesa922b1eb5e132bf2
uk.ac.sanger.artemis.sequence.BasesTestbb9322f9a0d8a18c
uk.ac.sanger.artemis.sequence.Marker78814e85fd3c9269
uk.ac.sanger.artemis.sequence.MarkerInternal6ddf2a5942b841c3
uk.ac.sanger.artemis.sequence.MarkerRange27867c66bd2d753b
uk.ac.sanger.artemis.sequence.SequenceChangeEvent1d40fe6c92b31fc0
uk.ac.sanger.artemis.sequence.Strand698aefa91a738291
uk.ac.sanger.artemis.util.DatabaseDocument2eb897bef045685e
uk.ac.sanger.artemis.util.Document8418f0b95f15f3ec
uk.ac.sanger.artemis.util.DocumentBlockCompressed03f10f07c3d2c05f
uk.ac.sanger.artemis.util.DocumentFactory69797be42eb4b802
uk.ac.sanger.artemis.util.FastVector2bb091d9d862a839
uk.ac.sanger.artemis.util.FileDocument53def585e0d1e111
uk.ac.sanger.artemis.util.InputStreamProgressEvent08eacab22c0b26ee
uk.ac.sanger.artemis.util.InputStreamProgressListenerVector944852616dd84597
uk.ac.sanger.artemis.util.LinePushBackReadercf302e5cc85ccb64
uk.ac.sanger.artemis.util.OutOfRangeException3b4e91fd5df11791
uk.ac.sanger.artemis.util.ProgressInputStream5dbfe7d519463c8c
uk.ac.sanger.artemis.util.StringVector42b3dea4c6fcb3ef
uk.ac.sanger.artemis.util.StringVector.174b7ec604432796f
uk.ac.sanger.artemis.util.WorkingGZIPInputStreamd050528c9eb2c7fc
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +Sessions

Sessions

This coverage report is based on execution data from the following sessions:

SessionStart TimeDump Time
mib111165i.internal.sanger.ac.uk-19ce34825-Jan-2018 15:46:1025-Jan-2018 15:46:44
mib111165i.internal.sanger.ac.uk-8837bb9025-Jan-2018 15:46:4525-Jan-2018 15:46:46
mib111165i.internal.sanger.ac.uk-76d7835025-Jan-2018 15:46:4625-Jan-2018 15:46:46
mib111165i.internal.sanger.ac.uk-2f5a1ef025-Jan-2018 15:46:4725-Jan-2018 15:46:47
mib111165i.internal.sanger.ac.uk-19decab325-Jan-2018 15:46:4725-Jan-2018 15:46:48
mib111165i.internal.sanger.ac.uk-9573b94025-Jan-2018 15:46:4825-Jan-2018 15:46:50
mib111165i.internal.sanger.ac.uk-2665b28025-Jan-2018 15:46:5125-Jan-2018 15:46:54
mib111165i.internal.sanger.ac.uk-ec471eef25-Jan-2018 15:46:5425-Jan-2018 15:46:57
mib111165i.internal.sanger.ac.uk-2d7c9c4925-Jan-2018 15:46:5825-Jan-2018 15:47:01
mib111165i.internal.sanger.ac.uk-f6d8428425-Jan-2018 15:47:0125-Jan-2018 15:47:05
mib111165i.internal.sanger.ac.uk-788569ca25-Jan-2018 15:47:0625-Jan-2018 15:47:10
mib111165i.internal.sanger.ac.uk-8c5acf5225-Jan-2018 15:47:1125-Jan-2018 15:47:16
mib111165i.internal.sanger.ac.uk-56f88fb725-Jan-2018 15:47:1725-Jan-2018 15:47:17
mib111165i.internal.sanger.ac.uk-1c0c0f8b25-Jan-2018 15:47:1725-Jan-2018 15:47:18
mib111165i.internal.sanger.ac.uk-800bec6625-Jan-2018 15:47:1825-Jan-2018 15:47:20
mib111165i.internal.sanger.ac.uk-f039eaeb25-Jan-2018 15:47:2125-Jan-2018 15:47:24
mib111165i.internal.sanger.ac.uk-3619864a25-Jan-2018 15:47:2425-Jan-2018 15:47:26
mib111165i.internal.sanger.ac.uk-f7009d025-Jan-2018 15:47:2625-Jan-2018 15:47:28
mib111165i.internal.sanger.ac.uk-6f25281325-Jan-2018 15:47:2925-Jan-2018 15:47:31
mib111165i.internal.sanger.ac.uk-b541627725-Jan-2018 15:47:3125-Jan-2018 15:47:33
mib111165i.local-9d3ef3cc30-Jan-2018 20:28:0030-Jan-2018 20:28:35
mib111165i.local-2426d5fa30-Jan-2018 20:28:3530-Jan-2018 20:28:36
mib111165i.local-68c4f0be30-Jan-2018 20:28:3630-Jan-2018 20:28:37
mib111165i.local-6608cdaa30-Jan-2018 20:28:3730-Jan-2018 20:28:38
mib111165i.local-e60c36f130-Jan-2018 20:28:3830-Jan-2018 20:28:38
mib111165i.local-d02c430230-Jan-2018 20:28:3930-Jan-2018 20:28:41
mib111165i.local-aaeccff830-Jan-2018 20:28:4130-Jan-2018 20:28:45
mib111165i.local-abfa711330-Jan-2018 20:28:4530-Jan-2018 20:28:48
mib111165i.local-d49ef77630-Jan-2018 20:28:4930-Jan-2018 20:28:51
mib111165i.internal.sanger.ac.uk-cb3b40f309-Feb-2018 14:59:2809-Feb-2018 15:00:04
mib111165i.internal.sanger.ac.uk-1042bc1109-Feb-2018 15:00:0509-Feb-2018 15:00:05
mib111165i.internal.sanger.ac.uk-24c21a7609-Feb-2018 15:00:0609-Feb-2018 15:00:06
mib111165i.internal.sanger.ac.uk-635cdf4b09-Feb-2018 15:00:0609-Feb-2018 15:00:07
mib111165i.internal.sanger.ac.uk-4d4e108509-Feb-2018 15:00:0709-Feb-2018 15:00:08
mib111165i.internal.sanger.ac.uk-e71997e909-Feb-2018 15:00:0809-Feb-2018 15:00:10
mib111165i.internal.sanger.ac.uk-988548ff09-Feb-2018 15:00:1109-Feb-2018 15:00:15
mib111165i.internal.sanger.ac.uk-1f65363009-Feb-2018 15:00:1609-Feb-2018 15:00:19
mib111165i.internal.sanger.ac.uk-9346d7e809-Feb-2018 15:00:2009-Feb-2018 15:00:23
mib111165i.internal.sanger.ac.uk-890669f09-Feb-2018 15:00:2309-Feb-2018 15:00:27
mib111165i.internal.sanger.ac.uk-b65f845809-Feb-2018 15:00:2809-Feb-2018 15:00:32
mib111165i.internal.sanger.ac.uk-591093e409-Feb-2018 15:00:3309-Feb-2018 15:00:38
mib111165i.internal.sanger.ac.uk-45ec29b509-Feb-2018 15:00:3809-Feb-2018 15:00:39
mib111165i.internal.sanger.ac.uk-204c110c09-Feb-2018 15:00:3909-Feb-2018 15:00:40
mib111165i.internal.sanger.ac.uk-7e799fc709-Feb-2018 15:00:4009-Feb-2018 15:00:42
mib111165i.internal.sanger.ac.uk-5a2abeed09-Feb-2018 15:00:4309-Feb-2018 15:00:46
mib111165i.internal.sanger.ac.uk-5a86f08309-Feb-2018 15:00:4709-Feb-2018 15:00:49
mib111165i.internal.sanger.ac.uk-c4350b1e09-Feb-2018 15:00:5009-Feb-2018 15:00:52
mib111165i.internal.sanger.ac.uk-5ac93f7a09-Feb-2018 15:00:5309-Feb-2018 15:00:55
mib111165i.internal.sanger.ac.uk-dc31e5ae09-Feb-2018 15:00:5509-Feb-2018 15:00:58
mib111165i.internal.sanger.ac.uk-cd66fe1d12-Feb-2018 09:27:5512-Feb-2018 09:28:34
mib111165i.internal.sanger.ac.uk-ece9852f12-Feb-2018 09:28:3412-Feb-2018 09:28:35
mib111165i.internal.sanger.ac.uk-1e2637a412-Feb-2018 09:28:3512-Feb-2018 09:28:36
mib111165i.internal.sanger.ac.uk-11f32a4812-Feb-2018 09:28:3612-Feb-2018 09:28:37
mib111165i.internal.sanger.ac.uk-7bf6b4ee12-Feb-2018 09:28:3712-Feb-2018 09:28:37
mib111165i.internal.sanger.ac.uk-d29eebb12-Feb-2018 09:28:3812-Feb-2018 09:28:40
mib111165i.internal.sanger.ac.uk-bad07fae12-Feb-2018 09:28:4012-Feb-2018 09:28:45
mib111165i.internal.sanger.ac.uk-9006926912-Feb-2018 09:28:4512-Feb-2018 09:28:48
mib111165i.internal.sanger.ac.uk-879af41312-Feb-2018 09:28:4912-Feb-2018 09:28:52
mib111165i.internal.sanger.ac.uk-269e6f6812-Feb-2018 09:28:5212-Feb-2018 09:28:56
mib111165i.internal.sanger.ac.uk-973a667e12-Feb-2018 09:28:5712-Feb-2018 09:29:01
mib111165i.internal.sanger.ac.uk-d541e8f812-Feb-2018 09:29:0212-Feb-2018 09:29:07
mib111165i.internal.sanger.ac.uk-72cdde6a12-Feb-2018 09:29:0812-Feb-2018 09:29:09
mib111165i.internal.sanger.ac.uk-1d28d71512-Feb-2018 09:29:0912-Feb-2018 09:29:10
mib111165i.internal.sanger.ac.uk-5ac53f3912-Feb-2018 09:29:1012-Feb-2018 09:29:12
mib111165i.internal.sanger.ac.uk-47305fcb12-Feb-2018 09:29:1212-Feb-2018 09:29:16
mib111165i.internal.sanger.ac.uk-f6e5665212-Feb-2018 09:29:1612-Feb-2018 09:29:18
mib111165i.internal.sanger.ac.uk-620df1dc12-Feb-2018 09:29:1912-Feb-2018 09:29:21
mib111165i.internal.sanger.ac.uk-2a9dc45c12-Feb-2018 09:29:2112-Feb-2018 09:29:23
mib111165i.internal.sanger.ac.uk-464fc3c712-Feb-2018 09:29:2412-Feb-2018 09:29:26
mib111165i.internal.sanger.ac.uk-dc8463fd12-Feb-2018 09:45:4412-Feb-2018 09:46:34
mib111165i.internal.sanger.ac.uk-2780106c12-Feb-2018 09:46:3512-Feb-2018 09:46:36
mib111165i.internal.sanger.ac.uk-9b64c0c612-Feb-2018 09:46:3612-Feb-2018 09:46:36
mib111165i.internal.sanger.ac.uk-1172b3af12-Feb-2018 09:46:3712-Feb-2018 09:46:37
mib111165i.internal.sanger.ac.uk-cea8a29012-Feb-2018 09:46:3712-Feb-2018 09:46:38
mib111165i.internal.sanger.ac.uk-800443a912-Feb-2018 09:46:3812-Feb-2018 09:46:40
mib111165i.internal.sanger.ac.uk-289b23be12-Feb-2018 09:46:4112-Feb-2018 09:46:49
mib111165i.internal.sanger.ac.uk-e51a199012-Feb-2018 09:46:5012-Feb-2018 09:46:53
mib111165i.internal.sanger.ac.uk-a44b3f4a12-Feb-2018 09:46:5312-Feb-2018 09:46:57
mib111165i.internal.sanger.ac.uk-e3aecfd512-Feb-2018 09:46:5712-Feb-2018 09:47:03
mib111165i.internal.sanger.ac.uk-30de2aae12-Feb-2018 09:47:0312-Feb-2018 09:47:08
mib111165i.internal.sanger.ac.uk-a52df9f312-Feb-2018 09:47:0912-Feb-2018 09:47:15
mib111165i.internal.sanger.ac.uk-c819961f12-Feb-2018 09:47:1512-Feb-2018 09:47:16
mib111165i.internal.sanger.ac.uk-32a52ec312-Feb-2018 09:47:1612-Feb-2018 09:47:17
mib111165i.internal.sanger.ac.uk-3798763f12-Feb-2018 09:47:1712-Feb-2018 09:47:19
mib111165i.internal.sanger.ac.uk-6803f8ea12-Feb-2018 09:47:2012-Feb-2018 09:47:24
mib111165i.internal.sanger.ac.uk-8292ce2c12-Feb-2018 09:47:2412-Feb-2018 09:47:26
mib111165i.internal.sanger.ac.uk-d50b0b2912-Feb-2018 09:47:2712-Feb-2018 09:47:29
mib111165i.internal.sanger.ac.uk-d5d2012112-Feb-2018 09:47:2912-Feb-2018 09:47:32
mib111165i.internal.sanger.ac.uk-696c8fdb12-Feb-2018 09:47:3312-Feb-2018 09:47:37

Execution data for the following classes is considered in this report:

ClassId
htsjdk.samtools.AbstractBAMFileIndex08d7fac8fa40e8f9
htsjdk.samtools.AbstractBAMFileIndex.IndexFileBuffer56a26451b61ff57b
htsjdk.samtools.AbstractBAMFileIndex.MemoryMappedFileBuffer5e342fa0266991fa
htsjdk.samtools.AbstractSAMHeaderRecord76d80c73f6180b08
htsjdk.samtools.BAMFileConstantsef4c16bdd7ca9e23
htsjdk.samtools.BAMFileReaderdc4234e3cc2a82d5
htsjdk.samtools.BAMFileReader.137b3451d76ddd9f8
htsjdk.samtools.BAMFileReader.AbstractBamIteratora144d09797156e47
htsjdk.samtools.BAMFileReader.BAMFileIndexIterator54a1b6b302c2bfad
htsjdk.samtools.BAMFileReader.BAMFileIterator0addbff5a5ebb24f
htsjdk.samtools.BAMFileReader.BAMQueryFilteringIterator85b5d43ce7532443
htsjdk.samtools.BAMFileSpan419a1330c2586c31
htsjdk.samtools.BAMIndexContent2fedbc7ff616df63
htsjdk.samtools.BAMIndexMetaDatae9ea2e4b46df2110
htsjdk.samtools.BAMIndexer92eb7020686d1ec2
htsjdk.samtools.BAMIndexer.BAMIndexBuilder362c4400595c17cc
htsjdk.samtools.BAMIndexer.BAMIndexBuilder.1876dec072698b2f8
htsjdk.samtools.BAMIteratorFilter.FilteringIteratorState53bbd459b8eb623c
htsjdk.samtools.BAMIteratorFilter.IntervalComparison58f069f9501a663a
htsjdk.samtools.BAMQueryMultipleIntervalsIteratorFilter6a9c82f75e6ca7c2
htsjdk.samtools.BAMQueryMultipleIntervalsIteratorFilter.12a05b19c68f871cf
htsjdk.samtools.BAMRecord2cf1564ef07d61b5
htsjdk.samtools.BAMRecordCodec0a49e6da8882efe5
htsjdk.samtools.Bine16b02bcd6f6d075
htsjdk.samtools.BinaryBAMIndexWriter198e5d5b294828e8
htsjdk.samtools.BinaryCigarCodec0bd808a4a6bf5a5b
htsjdk.samtools.BinaryTagCodecb1190463fc64d877
htsjdk.samtools.BinningIndexBuilder0413bcf4855cc725
htsjdk.samtools.BinningIndexContent999c2a8dd2f9d66e
htsjdk.samtools.BinningIndexContent.BinListfc96e7c615a61228
htsjdk.samtools.BinningIndexContent.BinList.BinIterator811ac2cdb5357f71
htsjdk.samtools.CRAMCRAIIndexer71b250940a367c88
htsjdk.samtools.CachingBAMFileIndexc704c8415f0b23ac
htsjdk.samtools.Chunk5833047bd09481c8
htsjdk.samtools.Cigar75c5f4944c9a018d
htsjdk.samtools.Cigar.1f399f2eb286d388a
htsjdk.samtools.CigarElement770cc3d611fabef3
htsjdk.samtools.CigarOperatorc92d205b4dbb4db7
htsjdk.samtools.CustomReaderFactory9a433df17e25062d
htsjdk.samtools.DefaultSAMRecordFactoryfad61f4a2fad3433
htsjdk.samtools.Defaults4385de1727795ddd
htsjdk.samtools.FileInputResourceba051790b9ceebbf
htsjdk.samtools.FileInputResource.19495e9494d824997
htsjdk.samtools.GenomicIndexUtilc7148e56d84f41d2
htsjdk.samtools.InputResource00eed0ac84605a94
htsjdk.samtools.InputResource.Typec73f9a7fc12cc73c
htsjdk.samtools.LinearIndexc730aeab68f8f787
htsjdk.samtools.QueryInterval293305312bf3badd
htsjdk.samtools.SAMExceptiona5747de5396b7a63
htsjdk.samtools.SAMFileHeader5df609b34e4c92ae
htsjdk.samtools.SAMFileHeader.SortOrderec180923226150da
htsjdk.samtools.SAMFileSource2015605fc8f69044
htsjdk.samtools.SAMFlag490918947593a9ad
htsjdk.samtools.SAMHeaderRecordComparator4b0bd989f12d1ab3
htsjdk.samtools.SAMReadGroupRecord263365ce3ce5168f
htsjdk.samtools.SAMRecorda11267c85b83178c
htsjdk.samtools.SAMSequenceDictionary424aaa1e692294f6
htsjdk.samtools.SAMSequenceRecord892e2a68542adc53
htsjdk.samtools.SAMTaga880e842a9e92992
htsjdk.samtools.SAMTextHeaderCodec184577cc65fd1ad6
htsjdk.samtools.SAMTextHeaderCodec.1fb4a915f40b21a26
htsjdk.samtools.SAMTextHeaderCodec.HeaderRecordTypef6ee9c1ad2933463
htsjdk.samtools.SAMTextHeaderCodec.ParsedHeaderLined3adec0b84548062
htsjdk.samtools.SAMUtils19ee4b419a7f8f3d
htsjdk.samtools.SamFilesf47ed084460848c4
htsjdk.samtools.SamFlagFielda90ea78727452308
htsjdk.samtools.SamFlagField.157acbc404b2f0ce7
htsjdk.samtools.SamFlagField.216c93c9e794af262
htsjdk.samtools.SamFlagField.3a179ff6975c93fda
htsjdk.samtools.SamFlagField.4f9d414612d84cd2b
htsjdk.samtools.SamFlagField.5e2879542335dbe8b
htsjdk.samtools.SamInputResource68ac47972851fa4e
htsjdk.samtools.SamReader.AssertingIteratorf4e0dbc0e3e2e582
htsjdk.samtools.SamReader.PrimitiveSamReaderToSamReaderAdaptere2ceb1de36314576
htsjdk.samtools.SamReader.ReaderImplementation8975308a095081fc
htsjdk.samtools.SamReader.Typef5eaa76338d79c37
htsjdk.samtools.SamReader.Type.TypeImpld980986469ecb1b1
htsjdk.samtools.SamReaderFactory92265585198024f2
htsjdk.samtools.SamReaderFactory.Optiond4a2225305824def
htsjdk.samtools.SamReaderFactory.Option.14ac29678dcffe45b
htsjdk.samtools.SamReaderFactory.Option.20eb709596d96c8d9
htsjdk.samtools.SamReaderFactory.Option.3a0879b22fda6aaf1
htsjdk.samtools.SamReaderFactory.Option.40e830367287b033a
htsjdk.samtools.SamReaderFactory.Option.5fd200329e5d1159a
htsjdk.samtools.SamReaderFactory.SamReaderFactoryImpld091bce525057184
htsjdk.samtools.SamStreamsa83720e968be4528
htsjdk.samtools.TextCigarCodece8ce804196038a5a
htsjdk.samtools.TextTagCodec2934c706b1fb4a19
htsjdk.samtools.ValidationStringency9a6bd46bf1deab90
htsjdk.samtools.cram.CRAIEntryd68051896cb636ba
htsjdk.samtools.cram.CRAIEntry.1e7c3aa1051d93fd4
htsjdk.samtools.cram.CRAIEntry.295541c03971a0997
htsjdk.samtools.cram.CRAIEntry.3947a70917aded714
htsjdk.samtools.cram.CRAIIndexad46f0c18ac90f1a
htsjdk.samtools.cram.build.CramIO35ecdbc7db72f3f6
htsjdk.samtools.cram.common.CramVersionsf5ac1bb5da869645
htsjdk.samtools.cram.common.Version2462dccf474bd6f6
htsjdk.samtools.cram.encoding.NullEncoding8bad6cfde0487b26
htsjdk.samtools.cram.encoding.rans.D04600ebde3e18922ee
htsjdk.samtools.cram.encoding.rans.Decoding071d2502f62ff8e2
htsjdk.samtools.cram.encoding.rans.Decoding.AriDecodera93f88dbc378352c
htsjdk.samtools.cram.encoding.rans.Decoding.FCd51ea269cdff5ac8
htsjdk.samtools.cram.encoding.rans.Decoding.RansDecSymbolecbb70ef5c8c0f21
htsjdk.samtools.cram.encoding.rans.Frequencies1f65f07417a6c325
htsjdk.samtools.cram.encoding.rans.RANSdcbd240675a9bd45
htsjdk.samtools.cram.encoding.rans.RANS.1d93b0183b62da1cd
htsjdk.samtools.cram.encoding.rans.RANS.ORDERfb9eb9e2364a9ad1
htsjdk.samtools.cram.io.CRC32InputStream83226756333d6ce5
htsjdk.samtools.cram.io.CramArrayb111bfeaec7d9907
htsjdk.samtools.cram.io.CramIntc6ed0208623facdd
htsjdk.samtools.cram.io.ExternalCompressiond621981e500128c7
htsjdk.samtools.cram.io.ITF84c572ca6ed59b62a
htsjdk.samtools.cram.io.InputStreamUtils63620c8b6e387e8e
htsjdk.samtools.cram.io.LTF8e136e360503d1d4e
htsjdk.samtools.cram.structure.Block7ee2e596d48e520b
htsjdk.samtools.cram.structure.Block.1db4ac477e2292d3f
htsjdk.samtools.cram.structure.BlockCompressionMethod7ff80ed1c0e521a2
htsjdk.samtools.cram.structure.BlockContentType902f7a3c7e8d0923
htsjdk.samtools.cram.structure.CompressionHeaderbccf1f33c079aadf
htsjdk.samtools.cram.structure.Container4c0147df16ba9a73
htsjdk.samtools.cram.structure.ContainerHeaderIO5ef6533fd829941f
htsjdk.samtools.cram.structure.ContainerIO9eedc4b54da9f095
htsjdk.samtools.cram.structure.CramHeaderd95c1d2d323dde98
htsjdk.samtools.cram.structure.EncodingID1054ab5cf0358f2f
htsjdk.samtools.cram.structure.EncodingKey9ac44f91c5b0bad3
htsjdk.samtools.cram.structure.EncodingParamsf24fc1dc1c748d39
htsjdk.samtools.cram.structure.Slice355c0a305f5d2ecd
htsjdk.samtools.cram.structure.SliceIOb08009500b3e71d2
htsjdk.samtools.cram.structure.SliceIO.1f35c056189e2a689
htsjdk.samtools.cram.structure.SubstitutionMatrix3726278da2d7ef0e
htsjdk.samtools.cram.structure.SubstitutionMatrix.148e26ceccaca6777
htsjdk.samtools.seekablestream.SeekableFileStream3d0fb11aeef7c4b3
htsjdk.samtools.seekablestream.SeekableStream3dfae1d09e4526ef
htsjdk.samtools.seekablestream.SeekableStreamFactoryeeeb2a9ed0ef87b2
htsjdk.samtools.seekablestream.SeekableStreamFactory.DefaultSeekableStreamFactory674a1f9fa7d4b7fb
htsjdk.samtools.util.BinaryCodec86f9343a05345e49
htsjdk.samtools.util.BlockCompressedFilePointerUtil91e71d2df8b58017
htsjdk.samtools.util.BlockCompressedInputStream0880da5d33e2f4a8
htsjdk.samtools.util.BlockCompressedInputStream.DecompressedBlockc0965dcf0f6e4d37
htsjdk.samtools.util.BlockGunzipper87993edf803dba75
htsjdk.samtools.util.BufferedLineReaderb98599f97690c046
htsjdk.samtools.util.CloserUtil4cd1d2a405fcb339
htsjdk.samtools.util.CollectionUtildcee08e0a93827b1
htsjdk.samtools.util.CoordMathe456ff1505de138d
htsjdk.samtools.util.IOUtilab5740edeb010f49
htsjdk.samtools.util.Lazyfc5c03105c9a7835
htsjdk.samtools.util.Log8f79c72333f061d9
htsjdk.samtools.util.Log.LogLevelf0b6e3a6d8d6f515
htsjdk.samtools.util.RuntimeEOFExceptionafa793a28410869a
htsjdk.samtools.util.StringUtilf150b4c6ba99caaa
htsjdk.samtools.util.zip.InflaterFactoryf45bd337b7770222
junit.framework.JUnit4TestAdapterbe9b49a69db26e47
junit.framework.JUnit4TestAdapterCache70030ebcb96388e1
junit.framework.JUnit4TestCaseFacaded442017b9571597c
junit.framework.TestFailureb7100abb75ec5429
junit.framework.TestResultdeb09a359e861141
org.apache.commons.lang.StringUtils9dd94cc65aafa7e1
org.apache.commons.lang.text.StrBuilder45e79079b5701935
org.apache.log4j.AppenderSkeletonf26348e939ab2240
org.apache.log4j.Category3e5a8c841a28f2da
org.apache.log4j.CategoryKeye744a33eb8887484
org.apache.log4j.DefaultCategoryFactory082e3139fd1bb14a
org.apache.log4j.Hierarchyddc90f7b3bd1fd15
org.apache.log4j.Levelc5a192d0c7124beb
org.apache.log4j.LogManagerc97876cb065366d0
org.apache.log4j.Loggerf9abcf2059e19260
org.apache.log4j.Priority7edd384e2aef98a7
org.apache.log4j.ProvisionNodebc455b61fb9fb8fb
org.apache.log4j.helpers.Loader5a0345b13b9f522f
org.apache.log4j.helpers.LogLog6ffb35569ca50f0f
org.apache.log4j.helpers.OnlyOnceErrorHandlere679102632e1add1
org.apache.log4j.helpers.OptionConverter0fe238b7f2870ac3
org.apache.log4j.or.DefaultRenderer59627d6dc2630fb0
org.apache.log4j.or.RendererMape9e67a88bd4ea5e0
org.apache.log4j.spi.DefaultRepositorySelectorcc18666890dc3a76
org.apache.log4j.spi.LoggingEventfa7797718b30df40
org.apache.log4j.spi.RootLogger854db392cc9f1cf3
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org.apache.tools.ant.taskdefs.optional.junit.IgnoredTestResult78b5063a1b04d777
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org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunnerf87f20d834c25ff1
org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.216daa2d26ef37923
org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.33e61c0b305251e6b
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org.apache.tools.ant.taskdefs.optional.junit.SummaryJUnitResultFormatterd15df956341a6242
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Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/BamUtils.html b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/BamUtils.html index 4bc41fdb0..2c7c920b4 100644 --- a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/BamUtils.html +++ b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/BamUtils.html @@ -1 +1 @@ -BamUtils

BamUtils

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethods
Total512 of 1,32161%100 of 16840%65102101276418
countOverRange(BamView, String, int, int, int, int[][])1240%220%1212292911
calc(BamView, String, int, boolean, JProgressBar)986539%24620%1316183001
getCount(BamView, int, int, String, boolean, boolean)855137%2314%1213172901
getIndexFile(String)7117671%101458%81364501
validateSAMFile(SamReader, CRAMReferenceSequenceFile, boolean)390%20%22101011
createIndexFileFromScratch(String, File)2510981%4660%4642501
getFtpBufferSize()230%20%225511
calculateMappedReads(BamView, FeatureVector, boolean, boolean, boolean, int[], JProgressBar)1518092%31381%3933201
getFtpSocketTimeout()15834%1150%122501
count(BamView, String, int, int, boolean, boolean, boolean)47895%5964%4812101
samRecordEqualityCheck(SAMRecord, SAMRecord)43188%4866%371901
isCramFile(String)3975%n/a012601
isBamFile(String)3975%n/a012601
BamUtils()30%n/a111111
getFeatureLength(Feature)31100%2100%020601
constructIndexFilename(String)29100%4100%030601
createTempIndexFile(URL)29100%4100%030901
static {...}4100%n/a010201
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +BamUtils

BamUtils

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethods
Total505 of 1,32161%98 of 16841%65102101276418
countOverRange(BamView, String, int, int, int, int[][])1240%220%1212292911
calc(BamView, String, int, boolean, JProgressBar)986539%24620%1316183001
getCount(BamView, int, int, String, boolean, boolean)855137%2314%1213172901
getIndexFile(String)6418374%81666%81364501
validateSAMFile(SamReader, CRAMReferenceSequenceFile, boolean)390%20%22101011
createIndexFileFromScratch(String, File)2510981%4660%4642501
getFtpBufferSize()230%20%225511
calculateMappedReads(BamView, FeatureVector, boolean, boolean, boolean, int[], JProgressBar)1518092%31381%3933201
getFtpSocketTimeout()15834%1150%122501
count(BamView, String, int, int, boolean, boolean, boolean)47895%5964%4812101
samRecordEqualityCheck(SAMRecord, SAMRecord)43188%4866%371901
isCramFile(String)3975%n/a012601
isBamFile(String)3975%n/a012601
BamUtils()30%n/a111111
getFeatureLength(Feature)31100%2100%020601
constructIndexFilename(String)29100%4100%030601
createTempIndexFile(URL)29100%4100%030901
static {...}4100%n/a010201
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/BamView$41.html b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/BamView$41.html index 3962a3ccf..97dae4c43 100644 --- a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/BamView$41.html +++ b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/BamView$41.html @@ -1 +1 @@ -BamView.new SequenceComboBox() {...}

BamView.new SequenceComboBox() {...}

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethods
Total24 of 3122%2 of 20%235612
update(IndexReferenceEvent)240%20%225511
{...}7100%n/a010101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +BamView.new SequenceComboBox() {...}

BamView.new SequenceComboBox() {...}

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethods
Total51 of 5812%2 of 20%23101112
update(IndexReferenceEvent)510%20%22101011
{...}7100%n/a010101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/index.html b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/index.html index 792567abb..ac5120c65 100644 --- a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/index.html +++ b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/index.html @@ -1 +1 @@ -uk.ac.sanger.artemis.components.alignment

uk.ac.sanger.artemis.components.alignment

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total21,860 of 25,50014%1,948 of 2,1449%1,5111,6414,4485,207477568125153
BamView7,4421,56217%866909%5365781,4481,7996610001
CoveragePanel1,675925%1700%110114316342252901
LookSeqPanel1,1680%340%3636236236191911
MappedReads.CalculateNewFeatures7960%1100%60601561565511
BamUtils51280961%1006840%6510210127641801
MappedReads.CalculateMappedReads5020%360%212187873311
FileSelectionDialog48116625%321633%2733951326901
LineAttributes47522532%234%202410112081201
SnpPanel4506%340%212274834501
RunSamTools4280%380%2929107107101011
SAMRecordFilter4230%240%161696964411
SAMRecordList4200%260%191987876611
GroupBamFrame41323035%320%2425901418901
ReadGroupsFrame3480%180%131376764411
BamView.CreateFeatures3310%240%131368681111
MappedReads3230%140%131370706611
BamView.PopupListener3171%340%212260614501
BamOSXAdapter2830%260%23236969101011
PopupMessageFrame.PopupThread2230%80%101054546611
PrintBamView2020%0%6660604411
ReadCountDialog1638835%101458%111642612401
BamView.Ruler1510%80%7729293311
MappedReads.CalculateTotalMappedReads1360%0%5524242211
AbstractGraphPanel13429%140%131530446801
CRAMReferenceSequenceFile1250%0%111135359911
AbstractGraphPanel.new ActionListener() {...}1214%0%3425261201
BamView.new ActionListener() {...}1140%100%7724242211
LookSeqPanel.new SwingWorker() {...}880%80%6617172211
BamFrame830%80%111125257711
SAMRecordList.new KeyAdapter() {...}810%110%8816162211
BamView.new ActionListener() {...}0%0%4415152211
BamView.PopupListener.new ActionListener() {...}0%0%4413132211
SAMRecordFlagConjunctionPredicate0%100%9922224411
LineAttributes.new ActionListener() {...}0%0%4410102211
SAMRecordList.new MouseAdapter() {...}0%0%4411112211
FileSelectionDialog.new ActionListener() {...}0%0%5513132211
PrintBamView.new ActionListener() {...}0%0%4411112211
BamView.PopupListener.new ActionListener() {...}0%0%3310102211
BamView.new ActionListener() {...}0%0%3310102211
SAMRecordSequenceString0%0%8816166611
BamView.new MouseMotionListener() {...}16%80%6714152301
LookSeqPanel.new MouseAdapter() {...}0%80%6611112211
BamView.new ActionListener() {...}0%0%5512122211
SAMRecordComparator0%120%8816162211
BamView.new ActionListener() {...}0%100%7710102211
BamView.PopupListener.5.new Runnable() {...}0%n/a22552211
SAMRecordPositionComparator0%0%4412122211
BamView.new ItemListener() {...}0%0%33772211
BamView.new SwingWorker() {...}0%0%3311112211
LineStyleListRenderer0%n/a3312123311
GroupBamFrame.new ItemListener() {...}0%0%44992211
BamView.new ActionListener() {...}0%0%3310102211
BamView.new ActionListener() {...}0%0%3310102211
BamView.new ActionListener() {...}0%80%66882211
BamOSXAdapter.new BamOSXAdapter() {...}0%0%33992211
ReadGroupsFrame.new ActionListener() {...}0%n/a22772211
LineAttributes.new ItemListener() {...}0%n/a22552211
ReadGroupsFrame.new ItemListener() {...}0%0%33662211
BamView.new ActionListener() {...}0%0%33992211
BamView.new ActionListener() {...}0%0%33662211
AbstractGraphPanel.PopupListener13%0%6712134501
SnpPanel.new ActionListener() {...}13%0%239101201
BamView.new KeyAdapter() {...}0%0%55992211
BamView.new ActionListener() {...}0%0%44992211
PairedReadComparator0%0%4410102211
LineAttributes.new ActionListener() {...}0%0%33662211
AbstractGraphPanel.2.new ActionListener() {...}0%0%44442211
CoveragePanel.new ActionListener() {...}0%0%44442211
BamView.PopupListener.new ActionListener() {...}0%n/a22662211
PopupMessageFrame63%n/a359243501
MappedReads.CalculateMappedReads.new ActionListener() {...}0%n/a22442211
BamView.new ActionListener() {...}0%0%33882211
BamView.new ActionListener() {...}0%0%33662211
ReadCountDialog.new ActionListener() {...}0%0%44882211
ReadGroupsFrame.new ActionListener() {...}0%0%44442211
BamView.new ActionListener() {...}0%0%33772211
LookSeqPanel.new ActionListener() {...}0%n/a22552211
LookSeqPanel.new ActionListener() {...}0%n/a22552211
LookSeqPanel.new ActionListener() {...}0%n/a22552211
BamView.new ActionListener() {...}0%n/a22772211
CoveragePanel.new ActionListener() {...}18%0%23891201
BamView.new ActionListener() {...}0%n/a22662211
BamView.new ActionListener() {...}0%0%33662211
GroupBamFrame.new ActionListener() {...}25%0%34671201
AbstractGraphPanel.new MouseMotionListener() {...}18%0%459102301
BamView.new AdjustmentListener() {...}0%0%44772211
BamView.new ActionListener() {...}0%0%33552211
BamView.new Runnable() {...}0%0%33772211
FileSelectionDialog.new FileFilter() {...}0%0%66773311
LineAttributes.new ChangeListener() {...}0%n/a22332211
BamView.new SequenceComboBox() {...}22%0%23561201
CoveragePanel.HeatMapLn0%n/a22772211
SAMRecordFilter.new KeyAdapter() {...}0%0%33442211
ReadCountDialog.new ActionListener() {...}0%n/a22772211
BamView.new ActionListener() {...}0%0%33552211
BamView.new ActionListener() {...}0%0%33552211
BamView.new ActionListener() {...}0%0%33442211
BamView.new ActionListener() {...}0%0%33442211
SAMRecordFilter.new ActionListener() {...}0%n/a22332211
SAMRecordFilter.new ActionListener() {...}0%n/a22332211
BamView.BamReadTask69%n/a035180301
BamView.new ActionListener() {...}0%0%33662211
ReadCountDialog.new ActionListener() {...}0%n/a22552211
BamView.new ActionListener() {...}0%n/a22442211
BamView.PopupListener.new ActionListener() {...}0%n/a22332211
LookSeqPanel.new ActionListener() {...}0%n/a22332211
LookSeqPanel.new ActionListener() {...}0%n/a22332211
LookSeqPanel.new ActionListener() {...}0%n/a22332211
LookSeqPanel.new ActionListener() {...}0%n/a22332211
LookSeqPanel.new ActionListener() {...}0%n/a22332211
LookSeqPanel.new ActionListener() {...}0%n/a22332211
LookSeqPanel.new ActionListener() {...}0%n/a22332211
LookSeqPanel.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}36%0%23561201
BamView.new ActionListener() {...}0%n/a22442211
BamView.new ActionListener() {...}0%n/a22332211
FileSelectionDialog.new ActionListener() {...}0%n/a22332211
SAMRecordMapQPredicate0%0%33662211
BamView.PopupListener.new Runnable() {...}0%n/a22332211
FileSelectionDialog.new ActionListener() {...}0%n/a22442211
SAMRecordList.new SwingWorker() {...}0%n/a22552211
SAMRecordList.new ActionListener() {...}0%n/a22332211
SAMRecordList.new WindowAdapter() {...}0%n/a22332211
BamView.new ChangeListener() {...}39%n/a12341201
BamView.new ActionListener() {...}0%n/a22442211
BamView.new Runnable() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
RunSamTools.StdoutHandler0%n/a22552211
RunSamTools.StderrHandler0%n/a22552211
BamViewRecord0%n/a11551111
MappedReads.CalculateNewFeatures.MarkerObj0%n/a11441111
SAMRecordFlagPredicate14692%60%3102160501
GroupBamFrame.2.new Runnable() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
ReadGroupsFrame.new ActionListener() {...}0%n/a22332211
SAMRecordFilter.new ActionListener() {...}0%n/a22332211
ReadCount68%50%12290101
LookSeqPanel.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
SAMRecordList.new AdjustmentListener() {...}0%n/a22332211
GroupBamFrame.new ActionListener() {...}52%n/a12231201
CoveragePanel.new ActionListener() {...}42%n/a12341201
GroupBamFrame.new FocusAdapter() {...}60%n/a12231201
BamView.PairedRead0%n/a11111111
GroupBamFrame.new ActionListener() {...}54%n/a12231201
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +uk.ac.sanger.artemis.components.alignment

uk.ac.sanger.artemis.components.alignment

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total21,880 of 25,52714%1,946 of 2,1449%1,5111,6414,4535,212477568125153
BamView7,4421,56217%866909%5365781,4481,7996610001
CoveragePanel1,675925%1700%110114316342252901
LookSeqPanel1,1680%340%3636236236191911
MappedReads.CalculateNewFeatures7960%1100%60601561565511
BamUtils50581661%987041%6510210127641801
MappedReads.CalculateMappedReads5020%360%212187873311
FileSelectionDialog48116625%321633%2733951326901
LineAttributes47522532%234%202410112081201
SnpPanel4506%340%212274834501
RunSamTools4280%380%2929107107101011
SAMRecordFilter4230%240%161696964411
SAMRecordList4200%260%191987876611
GroupBamFrame41323035%320%2425901418901
ReadGroupsFrame3480%180%131376764411
BamView.CreateFeatures3310%240%131368681111
MappedReads3230%140%131370706611
BamView.PopupListener3171%340%212260614501
BamOSXAdapter2830%260%23236969101011
PopupMessageFrame.PopupThread2230%80%101054546611
PrintBamView2020%0%6660604411
ReadCountDialog1638835%101458%111642612401
BamView.Ruler1510%80%7729293311
MappedReads.CalculateTotalMappedReads1360%0%5524242211
AbstractGraphPanel13429%140%131530446801
CRAMReferenceSequenceFile1250%0%111135359911
AbstractGraphPanel.new ActionListener() {...}1214%0%3425261201
BamView.new ActionListener() {...}1140%100%7724242211
LookSeqPanel.new SwingWorker() {...}880%80%6617172211
BamFrame830%80%111125257711
SAMRecordList.new KeyAdapter() {...}810%110%8816162211
BamView.new ActionListener() {...}0%0%4415152211
BamView.PopupListener.new ActionListener() {...}0%0%4413132211
SAMRecordFlagConjunctionPredicate0%100%9922224411
LineAttributes.new ActionListener() {...}0%0%4410102211
SAMRecordList.new MouseAdapter() {...}0%0%4411112211
FileSelectionDialog.new ActionListener() {...}0%0%5513132211
PrintBamView.new ActionListener() {...}0%0%4411112211
BamView.PopupListener.new ActionListener() {...}0%0%3310102211
BamView.new ActionListener() {...}0%0%3310102211
SAMRecordSequenceString0%0%8816166611
BamView.new MouseMotionListener() {...}16%80%6714152301
LookSeqPanel.new MouseAdapter() {...}0%80%6611112211
BamView.new ActionListener() {...}0%0%5512122211
SAMRecordComparator0%120%8816162211
BamView.new ActionListener() {...}0%100%7710102211
BamView.new SequenceComboBox() {...}12%0%2310111201
BamView.PopupListener.5.new Runnable() {...}0%n/a22552211
SAMRecordPositionComparator0%0%4412122211
BamView.new ItemListener() {...}0%0%33772211
BamView.new SwingWorker() {...}0%0%3311112211
LineStyleListRenderer0%n/a3312123311
GroupBamFrame.new ItemListener() {...}0%0%44992211
BamView.new ActionListener() {...}0%0%3310102211
BamView.new ActionListener() {...}0%0%3310102211
BamView.new ActionListener() {...}0%80%66882211
BamOSXAdapter.new BamOSXAdapter() {...}0%0%33992211
ReadGroupsFrame.new ActionListener() {...}0%n/a22772211
LineAttributes.new ItemListener() {...}0%n/a22552211
ReadGroupsFrame.new ItemListener() {...}0%0%33662211
BamView.new ActionListener() {...}0%0%33992211
BamView.new ActionListener() {...}0%0%33662211
AbstractGraphPanel.PopupListener13%0%6712134501
SnpPanel.new ActionListener() {...}13%0%239101201
BamView.new KeyAdapter() {...}0%0%55992211
BamView.new ActionListener() {...}0%0%44992211
PairedReadComparator0%0%4410102211
LineAttributes.new ActionListener() {...}0%0%33662211
AbstractGraphPanel.2.new ActionListener() {...}0%0%44442211
CoveragePanel.new ActionListener() {...}0%0%44442211
BamView.PopupListener.new ActionListener() {...}0%n/a22662211
PopupMessageFrame63%n/a359243501
MappedReads.CalculateMappedReads.new ActionListener() {...}0%n/a22442211
BamView.new ActionListener() {...}0%0%33882211
BamView.new ActionListener() {...}0%0%33662211
ReadCountDialog.new ActionListener() {...}0%0%44882211
ReadGroupsFrame.new ActionListener() {...}0%0%44442211
BamView.new ActionListener() {...}0%0%33772211
LookSeqPanel.new ActionListener() {...}0%n/a22552211
LookSeqPanel.new ActionListener() {...}0%n/a22552211
LookSeqPanel.new ActionListener() {...}0%n/a22552211
BamView.new ActionListener() {...}0%n/a22772211
CoveragePanel.new ActionListener() {...}18%0%23891201
BamView.new ActionListener() {...}0%n/a22662211
BamView.new ActionListener() {...}0%0%33662211
GroupBamFrame.new ActionListener() {...}25%0%34671201
AbstractGraphPanel.new MouseMotionListener() {...}18%0%459102301
BamView.new AdjustmentListener() {...}0%0%44772211
BamView.new ActionListener() {...}0%0%33552211
BamView.new Runnable() {...}0%0%33772211
FileSelectionDialog.new FileFilter() {...}0%0%66773311
LineAttributes.new ChangeListener() {...}0%n/a22332211
CoveragePanel.HeatMapLn0%n/a22772211
SAMRecordFilter.new KeyAdapter() {...}0%0%33442211
ReadCountDialog.new ActionListener() {...}0%n/a22772211
BamView.new ActionListener() {...}0%0%33552211
BamView.new ActionListener() {...}0%0%33552211
BamView.new ActionListener() {...}0%0%33442211
BamView.new ActionListener() {...}0%0%33442211
SAMRecordFilter.new ActionListener() {...}0%n/a22332211
SAMRecordFilter.new ActionListener() {...}0%n/a22332211
BamView.BamReadTask69%n/a035180301
BamView.new ActionListener() {...}0%0%33662211
ReadCountDialog.new ActionListener() {...}0%n/a22552211
BamView.new ActionListener() {...}0%n/a22442211
BamView.PopupListener.new ActionListener() {...}0%n/a22332211
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LookSeqPanel.new ActionListener() {...}0%n/a22332211
LookSeqPanel.new ActionListener() {...}0%n/a22332211
LookSeqPanel.new ActionListener() {...}0%n/a22332211
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LookSeqPanel.new ActionListener() {...}0%n/a22332211
LookSeqPanel.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}36%0%23561201
BamView.new ActionListener() {...}0%n/a22442211
BamView.new ActionListener() {...}0%n/a22332211
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SAMRecordMapQPredicate0%0%33662211
BamView.PopupListener.new Runnable() {...}0%n/a22332211
FileSelectionDialog.new ActionListener() {...}0%n/a22442211
SAMRecordList.new SwingWorker() {...}0%n/a22552211
SAMRecordList.new ActionListener() {...}0%n/a22332211
SAMRecordList.new WindowAdapter() {...}0%n/a22332211
BamView.new ChangeListener() {...}39%n/a12341201
BamView.new ActionListener() {...}0%n/a22442211
BamView.new Runnable() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
RunSamTools.StdoutHandler0%n/a22552211
RunSamTools.StderrHandler0%n/a22552211
BamViewRecord0%n/a11551111
MappedReads.CalculateNewFeatures.MarkerObj0%n/a11441111
SAMRecordFlagPredicate14692%60%3102160501
GroupBamFrame.2.new Runnable() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
ReadGroupsFrame.new ActionListener() {...}0%n/a22332211
SAMRecordFilter.new ActionListener() {...}0%n/a22332211
ReadCount68%50%12290101
LookSeqPanel.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
BamView.new ActionListener() {...}0%n/a22332211
SAMRecordList.new AdjustmentListener() {...}0%n/a22332211
GroupBamFrame.new ActionListener() {...}52%n/a12231201
CoveragePanel.new ActionListener() {...}42%n/a12341201
GroupBamFrame.new FocusAdapter() {...}60%n/a12231201
BamView.PairedRead0%n/a11111111
GroupBamFrame.new ActionListener() {...}54%n/a12231201
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/index.source.html b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/index.source.html index e54ca75c4..f74e3a87b 100644 --- a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/index.source.html +++ b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components.alignment/index.source.html @@ -1 +1 @@ -uk.ac.sanger.artemis.components.alignment

uk.ac.sanger.artemis.components.alignment

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total21,860 of 25,50014%1,948 of 2,1449%1,5111,6414,4485,207477568125153
BamView.java9,9261,64814%1,037907%7367861,9572,3241802225360
MappedReads.java1,8020%1660%102102345345191966
CoveragePanel.java1,7701045%1760%119125338366313725
LookSeqPanel.java1,5430%500%727230630647471515
LineAttributes.java69222524%293%3438137156192356
SAMRecordList.java6250%410%3939127127181877
FileSelectionDialog.java60316621%441626%4248121158151845
GroupBamFrame.java51526333%400%3641112163162127
BamUtils.java51280961%1006840%6510210127641801
SAMRecordFilter.java4980%260%2525109109121255
SnpPanel.java4877%360%232583935702
ReadGroupsFrame.java4660%240%24249393121255
RunSamTools.java4540%380%3333117117141433
AbstractGraphPanel.java35417%300%30358097152015
BamOSXAdapter.java3230%280%26267878121222
PrintBamView.java2680%0%101071716622
PopupMessageFrame.java25618%0%1315637891112
ReadCountDialog.java23826%141450%1924597881034
CRAMReferenceSequenceFile.java1250%0%111135359911
BamFrame.java0%0%111125257711
SAMRecordFlagConjunctionPredicate.java0%100%9922224411
SAMRecordSequenceString.java0%0%8816166611
SAMRecordComparator.java0%120%8816162211
SAMRecordPositionComparator.java0%0%4412122211
PairedReadComparator.java0%0%4410102211
SAMRecordMapQPredicate.java0%0%33662211
BamViewRecord.java0%n/a11551111
SAMRecordFlagPredicate.java14692%60%3102160501
ReadCount.java68%50%12290101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +uk.ac.sanger.artemis.components.alignment

uk.ac.sanger.artemis.components.alignment

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total21,880 of 25,52714%1,946 of 2,1449%1,5111,6414,4535,212477568125153
BamView.java9,9531,64814%1,037907%7367861,9622,3291802225360
MappedReads.java1,8020%1660%102102345345191966
CoveragePanel.java1,7701045%1760%119125338366313725
LookSeqPanel.java1,5430%500%727230630647471515
LineAttributes.java69222524%293%3438137156192356
SAMRecordList.java6250%410%3939127127181877
FileSelectionDialog.java60316621%441626%4248121158151845
GroupBamFrame.java51526333%400%3641112163162127
BamUtils.java50581661%987041%6510210127641801
SAMRecordFilter.java4980%260%2525109109121255
SnpPanel.java4877%360%232583935702
ReadGroupsFrame.java4660%240%24249393121255
RunSamTools.java4540%380%3333117117141433
AbstractGraphPanel.java35417%300%30358097152015
BamOSXAdapter.java3230%280%26267878121222
PrintBamView.java2680%0%101071716622
PopupMessageFrame.java25618%0%1315637891112
ReadCountDialog.java23826%141450%1924597881034
CRAMReferenceSequenceFile.java1250%0%111135359911
BamFrame.java0%0%111125257711
SAMRecordFlagConjunctionPredicate.java0%100%9922224411
SAMRecordSequenceString.java0%0%8816166611
SAMRecordComparator.java0%120%8816162211
SAMRecordPositionComparator.java0%0%4412122211
PairedReadComparator.java0%0%4410102211
SAMRecordMapQPredicate.java0%0%33662211
BamViewRecord.java0%n/a11551111
SAMRecordFlagPredicate.java14692%60%3102160501
ReadCount.java68%50%12290101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/ActMain.html b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/ActMain.html index abd7e3c36..6fb26bdeb 100644 --- a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/ActMain.html +++ b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/ActMain.html @@ -1 +1 @@ -ActMain

ActMain

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethods
Total133 of 1330%8 of 80%1010383866
ActMain()450%20%22101011
main(String[])440%40%33151511
makeMultiComparator(JFrame, InputStreamProgressListener, Object[])190%n/a115511
makeOpenDialog()190%20%225511
exit()30%n/a112211
static {...}30%n/a111111
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +ActMain

ActMain

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethods
Total217 of 2170%22 of 220%1818555577
validateStartupArguments(String[])1060%160%99242411
ActMain()450%20%22101011
main(String[])220%20%228811
makeMultiComparator(JFrame, InputStreamProgressListener, Object[])190%n/a115511
makeOpenDialog()190%20%225511
exit()30%n/a112211
static {...}30%n/a111111
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/index.html b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/index.html index 48d1d80b0..3df305cc5 100644 --- a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/index.html +++ b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/index.html @@ -1 +1 @@ -uk.ac.sanger.artemis.components

uk.ac.sanger.artemis.components

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total83,162 of 96,50913%7,424 of 7,9977%6,0016,58318,90121,8852,0852,542476717
EditMenu4,9531,11518%528325%3153281,2681,538394801
FeatureDisplay4,7492,56035%88523921%6207481,2901,9689617101
AlignmentViewer3,6080%4340%276276769769595911
FeatureEdit2,6470%2530%165165602602373711
AddMenu2,48828710%2193%133137593656202401
MultiComparator1,9440%1040%7575437437232311
ViewMenu1,80076729%1432514%103114340513253001
Splash1,750703%1623%107112377393262801
BasePlot1,5761096%1781%109114352387192401
Navigator1,5750%1240%8080372372181811
Selector1,5200%740%45453493498811
EntryGroupInfoDisplay1,4400%840%5353249249111111
PrintArtemis1,4270%1160%7070310310121211
UserDefinedQualifiers1,3930%1200%7979324324191911
FeaturePopup1,2940%820%5454257257131311
PrintACT1,2420%1200%7070233233101011
FeatureInfo1,2350%540%4545264264171711
FeatureList1,16446328%1684019%119137292406233301
WriteMenu1,14737524%1160%7476290370131501
EntryEdit1,1411,80361%1464824%117136281681263901
Plot1,13015612%1163%8286243280222601
ContigTool1,0550%840%6868235235262611
ArtemisMain1,0400%980%6363273273141411
TransferAnnotationTool1,00754134%854333%587823532761401
SelectMenu88231226%873%6469229299192401
FindAndReplace8810%440%28282072076611
EntryFileDialog7803%973%55571781894601
ProjectProperty77065545%642628%426116730781601
SelectionMenu7325%7810%6371148162182201
SelectionViewer7080%640%38381301306611
QualifierTextArea6940%720%5858146146222211
RunBlastAtNCBI6620%300%22221401407711
GraphMenu66120423%761415%485515320061001
SelectionInfoDisplay62610714%924%51571331623901
EntryEdit.new ActionListener() {...}6110%460%24251291301201
FileViewer5910%460%4343147147202011
QualifierEditor5260%280%17171251253311
AlignMatchViewer4920%240%16161041044411
FeaturePlotGroup4580%240%2222105105101011
FeaturePlot4440%520%4444115115171711
SequenceViewer4180%260%2525119119121211
ComparatorGlue4110%200%3030113113202011
ComparatorDialog3950%260%18181001004411
EntryGroupPanel3949%780%535712213661001
Plot.new MouseAdapter() {...}3911%200%111271721201
ActMain.new SwingWorker() {...}3680%280%181889894411
RunMenu35211123%416%232866942601
ProjectProperty.LaunchActionListener3351%440%293067684501
ActPanelResizer3120%120%101058584411
FeatureEdit.new ActionListener() {...}2910%280%161657572211
OSXAdapter2830%260%23236969101011
Selector.new ActionListener() {...}2830%260%151535352211
RunPfamSearchThread2700%240%161660604411
FeatureListFrame2690%0%7754543311
AlignmentViewer.ColorChooserShades2620%120%111152525511
ScoreChanger2570%n/a3351513311
ProcessWatcher2560%120%121256566611
ValidateViewer2530%340%232364646611
ListSelectionPanel2420%120%111152525511
BasePlotGroup23835760%4716%33425913171401
MarkerRangeRequesterEvent2350%300%191959594411
FindAndReplace.new ActionListener() {...}2260%260%151539392211
Splash.new ItemListener() {...}2150%180%111134342211
Selector.new FeaturePredicate() {...}2040%300%171738382211
ValidateViewer.new ActionListener() {...}2020%180%111143432211
FeatureBaseViewer1970%140%141443437711
TextFieldSink1940%160%18186060101011
EntryHeaderEdit1940%160%18185454101011
QualifierChoice1890%320%212156565511
UserDefinedQualifiers.new ActionListener() {...}1850%160%101028282211
GotoMenu17621254%220%20235611591201
ShortCut17417%1016%81237482601
FindAndReplace.new ActionListener() {...}1710%140%9931312211
TextRequester1670%0%7738386611
Splash.new JPanel() {...}1660%0%5534344411
FeatureEdit.new ActionListener() {...}1640%0%7733332211
DbfetchEntrySource1607030%1818%131941554801
KeyChoice1560%120%151542429911
TransferAnnotationTool.new ActionListener() {...}1550%120%8830302211
ComparatorGlue.new DisplayAdjustmentListener() {...}1540%140%9931312211
ComparatorGlue.new DisplayAdjustmentListener() {...}1540%140%9931312211
ContigTool.new MouseAdapter() {...}1520%180%121231313311
RunMenu.new ActionListener() {...}1490%0%4426262211
FeaturePopup.new ActionListener() {...}1460%0%4430302211
WriteMenu.new TextRequesterListener() {...}1450%0%6637372211
WriteMenu.new TextRequesterListener() {...}1450%0%6637372211
GraphMenu.new ActionListener() {...}1430%n/a2229292211
Plot.3.new ActionListener() {...}1430%100%7724242211
FeatureAminoAcidViewer1390%0%111136367711
MessageDialog1370%0%5529294411
Plot.3.new ActionListener() {...}1370%0%3322222211
ActMain1330%0%101038386611
ReadFeaturesActionListener1325%0%3429321201
EntryEdit.new ItemListener() {...}1320%100%7723232211
ListDialog1320%0%5529294411
EntryEdit.CommitButton1290%160%141434346611
FeatureDisplay.new MouseAdapter() {...}1286%140%101129313401
EntryGroupMenu12722463%2323%182331844801
AddMenu.new ActionListener() {...}1260%0%5522222211
FeatureViewer1250%0%9932326611
ProjectProperty.new DocumentListener() {...}1240%0%9919195511
NonModalDialog1210%0%3326261111
EditMenu.new ActionListener() {...}1184%0%4526271201
GotoMenu.new TextRequesterListener() {...}1180%0%5531312211
ComparatorDialog.new ActionListener() {...}1170%100%7722222211
TextDialog1170%n/a2222222211
ViewMenu.new ActionListener() {...}11513%0%2312131201
ChoiceFrame1150%0%4423233311
EntryGroupDisplay.new SequenceComboBox() {...}1130%0%4421212211
ProjectProperty.new ActionListener() {...}1100%0%6614142211
FeatureEdit.11.new SwingWorker() {...}1080%0%5522222211
EntryFileDialog.new FileFilter() {...}1070%140%101015153311
AlignmentViewer.AlignMatchComparator1070%140%9928282211
EntryGroupDisplay10614457%1627%1723306561101
AlignmentViewer.new ActionListener() {...}1060%0%6622222211
SelectMenu.new FeaturePredicate() {...}1050%340%191919192211
InputStreamProgressDialog980%n/a3320203311
FeaturePopup.new ActionListener() {...}950%120%8819192211
ProjectProperty.LaunchActionListener.new Runnable() {...}930%100%7715152211
EntryEdit.new SwingWorker() {...}917545%35%6918330201
SelectMenu.new ActionListener() {...}900%100%7718182211
EditMenu.new ActionListener() {...}876%0%4525261201
EntryEdit.new ActionListener() {...}866%0%3416171201
TransferAnnotationTool.new ActionListener() {...}840%0%6616162211
ProjectProperty.new ActionListener() {...}830%0%4410102211
SearchResultViewer.new ActionListener() {...}820%0%3314142211
ScoreScrollbar820%100%101020205511
ViewMenu.new FeaturePredicate() {...}800%140%9921212211
ProgressThread800%0%4420203311
SelectMenu.new MarkerRangeRequesterListener() {...}800%0%3322222211
KeyChooser790%n/a4419194411
FileDialogEntrySource7714%0%81118245801
SequenceComboBox7335%100%91120304601
EntryEdit.new ActionListener() {...}7319%0%3416181201
AddMenu.new TextRequesterListener() {...}730%0%4418182211
LogViewer727%0%13142629101101
QualifierEditor.new ActionListener() {...}720%0%5515152211
SearchResultViewer710%0%3319192211
MessageFrame710%n/a2215152211
PrintArtemis.new ActionListener() {...}690%0%4411112211
PrintACT.new ActionListener() {...}690%0%4411112211
FeaturePopup.new ActionListener() {...}670%0%5515152211
EntryEdit.new ActionListener() {...}658%0%2318191201
BasePlot.new PlotMouseListener() {...}658%0%6721224501
TransferAnnotationTool.new ActionListener() {...}640%0%5511112211
BioJavaEntrySource640%n/a7714147711
Splash.new ItemListener() {...}640%0%6614142211
FeatureDisplay.new FeaturePredicate() {...}630%120%8813132211
MarkerRangeRequester630%0%6620205511
FindAndReplace.new ActionListener() {...}630%0%5511112211
AddMenu.new ActionListener() {...}6216%0%4514151201
ViewMenu.new FeaturePredicate() {...}620%0%6615152211
EntryFileDialog.new FileFilter() {...}610%0%7710103311
EntryFileDialog.new FileFilter() {...}610%0%7710103311
EntryEdit.CommitButton.new ActionListener() {...}0%0%44882211
EntryEdit.27.new ActionListener() {...}0%0%4410102211
EntryEdit.27.new ActionListener() {...}0%0%4410102211
UserDefinedQualifiers.ComboMouseListener0%0%6614143311
EntryEdit.new ActionListener() {...}9%0%3412131201
ArtemisMain.new SwingWorker() {...}0%0%4416162211
EntryGroupMenu.new ActionListener() {...}13%0%4512131201
FeatureDisplay.new FeaturePredicate() {...}0%100%7712122211
FeatureEdit.new ActionListener() {...}0%0%4416162211
FeatureDisplay.new SwingWorker() {...}0%0%3312122211
ProgressBarFrame0%n/a1114141111
EditMenu.new TextRequesterListener() {...}0%0%4416162211
StickyFileChooser5%0%6718193401
FeatureDisplay.new SwingWorker() {...}0%0%3312122211
ActPanelResizer.new ChangeListener() {...}0%n/a22992211
ActPanelResizer.new ActionListener() {...}0%n/a22882211
ZoomScrollBar45%10%8914253401
ZoomScrollBar.new MouseMotionListener() {...}0%0%7713133311
Utilities7457%25%91217325801
RunMenu.new ActionListener() {...}21%0%4515161201
EditMenu.new ActionListener() {...}10%0%3416171201
MultiComparator.new SwingWorker() {...}0%n/a22992211
Plot.3.new ActionListener() {...}0%0%3312122211
UserDefinedQualifiers.new ActionListener() {...}0%0%3311112211
Splash.new ItemListener() {...}0%0%4414142211
UserDefinedQualifiers.OboFileFilter0%0%6611113311
ViewMenu.new ActionListener() {...}26%n/a129101201
FeatureEdit.11.1.new FeaturePredicate() {...}0%120%8810102211
UserDefinedQualifiers.new MenuListener() {...}0%0%5511114411
FindAndReplace.new ActionListener() {...}0%0%3310102211
AddMenu.new TextRequesterListener() {...}0%0%3311112211
ViewMenu.new ItemListener() {...}0%0%33772211
TransferFeaturePredicate6859%50%61211290301
ProjectProperty.new ActionListener() {...}0%0%33662211
SelectMenu.new ActionListener() {...}0%n/a4412124411
FindAndReplace.new ActionListener() {...}0%n/a22662211
FeaturePopup.new ActionListener() {...}0%0%4410102211
ListSelectionPanel.new ActionListener() {...}0%0%33992211
FeatureList.new MouseAdapter() {...}16%0%3412141201
FeaturePopup.new ItemListener() {...}0%0%44882211
FeaturePopup.new ItemListener() {...}0%0%44882211
TransferAnnotationTool.new ActionListener() {...}0%0%55992211
InputStreamProgressDialog.new InputStreamProgressListener() {...}0%0%5510103311
ComparatorDialog.new ActionListener() {...}0%0%3312122211
ViewMenu.new ActionListener() {...}0%n/a22662211
ExternalProgramOptions0%0%3311111111
FeaturePopup.new ItemListener() {...}0%0%55992211
FeaturePopup.new ItemListener() {...}0%0%55992211
FeatureEdit.new ItemListener() {...}0%0%4410102211
AddMenu.new Comparator() {...}6%0%4513141201
EntryEdit.CommitButton.new MouseAdapter() {...}0%0%33662211
TransferableContig0%0%8814147711
Plot.3.new ActionListener() {...}0%0%33772211
UserDefinedQualifiers.new ActionListener() {...}0%n/a22442211
UserDefinedQualifiers.new ActionListener() {...}0%n/a22442211
FeatureDisplay.new AdjustmentListener() {...}24%16%359120201
FeatureDisplay.new FeaturePredicate() {...}0%120%88882211
Navigator.new ItemListener() {...}0%0%66662211
Navigator.new ItemListener() {...}0%0%66662211
ViewMenu.new FeaturePredicate() {...}0%0%5511112211
OSXAdapter.new OSXAdapter() {...}0%0%33992211
ListSelectionPanel.new ActionListener() {...}0%0%33992211
EditMenu.new Runnable() {...}0%n/a22552211
SegmentBorder9971%37%479320301
GraphMenu.new ActionListener() {...}23%0%3411121201
TransferAnnotationTool.new ActionListener() {...}0%0%44662211
WriteMenu.new ActionListener() {...}13%0%2313141201
ViewMenu.new FeaturePredicate() {...}0%100%7711112211
LogReadListener24%0%246111301
AlignmentViewer.new SelectionChangeListener() {...}0%0%44992211
AlignmentViewer.new SelectionChangeListener() {...}0%0%44992211
EntryEdit.27.new ItemListener() {...}0%0%4411112211
Splash.new InputStreamProgressListener() {...}0%0%44883311
FeaturePopup.new ItemListener() {...}0%0%33772211
FeaturePopup.new ItemListener() {...}0%0%33772211
MultiComparator.new ActionListener() {...}0%n/a22332211
EntryEdit.1.new Runnable() {...}0%n/a22662211
EntryGroupMenu.new TextRequesterListener() {...}0%0%55882211
Plot.new MouseMotionAdapter() {...}14%0%3410111201
AlignmentViewer.new ActionListener() {...}0%n/a22882211
AddMenu.new ActionListener() {...}0%n/a22772211
AlignmentViewer.new MouseMotionAdapter() {...}0%0%55992211
AlignmentViewer.new ActionListener() {...}0%0%33882211
ViewMenu.new FeaturePredicate() {...}0%0%55882211
ActMain.new ActionListener() {...}0%0%33772211
SwingWorker54%16%61015283701
GotoMenu.new ActionListener() {...}26%0%45791201
UserDefinedQualifiers.4.new ActionListener() {...}0%n/a22662211
YesNoDialog0%0%4411113311
ProgressBarFrame.new SwingWorker() {...}0%0%33772211
EntryEdit.new SwingWorker() {...}0%0%33662211
SelectMenu.new ActionListener() {...}0%n/a22662211
SelectMenu.new ItemListener() {...}0%n/a22662211
MultiComparator.new ActionListener() {...}0%n/a22662211
FeatureDisplay.new Comparator() {...}8%0%5611121201
EditMenu.new ItemListener() {...}0%n/a22662211
FeatureEdit.new ActionListener() {...}0%0%55992211
FeatureEdit.new ActionListener() {...}0%n/a22882211
MultiComparator.new ActionListener() {...}0%0%33552211
MultiComparator.new ActionListener() {...}0%0%33552211
ComboBoxRenderer0%0%33882211
FileViewer.new ComponentAdapter() {...}0%n/a33773311
RunMenu.new ActionListener() {...}23%0%23891201
EntryEdit.new ActionListener() {...}23%0%34671201
FeatureDisplay.new MouseMotionAdapter() {...}16%0%45671201
ProjectProperty.new ActionListener() {...}0%0%44442211
AlignmentViewer.new ActionListener() {...}0%0%33772211
AlignmentViewer.new ActionListener() {...}0%0%33772211
ContigTool.new KeyAdapter() {...}0%0%5511112211
AlignMatchViewer.new ItemListener() {...}0%0%33772211
AlignMatchViewer.new ItemListener() {...}0%0%33772211
AlignMatchViewer.new ItemListener() {...}0%0%33772211
AlignMatchViewer.new ItemListener() {...}0%0%33772211
RunMenu.new ActionListener() {...}23%0%23891201
AlignmentViewer.new ActionListener() {...}0%n/a22662211
FeatureEdit.new ItemListener() {...}0%n/a22662211
SelectionMenu.new ItemListener() {...}0%0%33442211
SelectionMenu.new ItemListener() {...}0%0%33442211
EntryEdit.new ItemListener() {...}30%0%23781201
ContigTool.PopupListener0%0%55994411
AlignMatchViewer.new ListSelectionListener() {...}0%n/a22662211
MultiComparator.new ActionListener() {...}0%0%33662211
ProjectProperty.TypeComparator0%0%44882211
EntryEditVector0%n/a55665511
QualifierPanel.new ActionListener() {...}30%0%23671201
EntryEdit.new ActionListener() {...}25%0%34561201
EntryEdit.new ActionListener() {...}25%0%34561201
EntryEdit.new ActionListener() {...}0%n/a22552211
ContigTool.new ActionListener() {...}0%n/a22552211
ContigTool.new ActionListener() {...}0%n/a22552211
AddMenu.new ActionListener() {...}0%n/a22662211
Plot.3.new ItemListener() {...}0%n/a22552211
ValidateViewer.new FeatureChangeListener() {...}0%0%33772211
Splash.new ItemListener() {...}0%0%33662211
GraphMenu.new ActionListener() {...}25%n/a12781201
AlignMatchViewer.new Comparator() {...}0%0%44882211
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SaveEntryActionListener33%n/a12241201
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GotoMenu.new ActionListener() {...}60%n/a12231201
GotoMenu.new ActionListener() {...}60%n/a12231201
EntryEdit.new WindowAdapter() {...}60%n/a12231201
WriteMenu.new ActionListener() {...}60%n/a12231201
WriteMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
EditMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
AddMenu.new ActionListener() {...}60%n/a12231201
AddMenu.new ActionListener() {...}60%n/a12231201
AddMenu.new ActionListener() {...}60%n/a12231201
ViewMenu.new ActionListener() {...}60%n/a12231201
EditMenu.new ActionListener() {...}60%n/a12231201
EditMenu.new ActionListener() {...}60%n/a12231201
EditMenu.new ActionListener() {...}60%n/a12231201
EditMenu.new ActionListener() {...}60%n/a12231201
EditMenu.new ActionListener() {...}60%n/a12231201
EditMenu.new ActionListener() {...}60%n/a12231201
EditMenu.new ActionListener() {...}60%n/a12231201
EditMenu.new ActionListener() {...}60%n/a12231201
EntryGroupMenu.new ActionListener() {...}60%n/a12231201
IndexReferenceEvent0%n/a11221111
ProjectProperty.new ActionListener() {...}75%n/a12231201
QualifierPanel.new ItemListener() {...}98%75%261100201
CanvasPanel100%n/a070140701
SelectionSubMenu100%50%13070201
ZoomScrollBar.new AdjustmentListener() {...}100%n/a02030201
SwingWorker.ThreadVar100%n/a03030301
SwingWorker.new Runnable() {...}100%n/a02020201
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +uk.ac.sanger.artemis.components

uk.ac.sanger.artemis.components

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total83,246 of 96,59313%7,438 of 8,0117%6,0096,59118,91821,9022,0862,543476717
EditMenu4,9531,11518%528325%3153281,2681,538394801
FeatureDisplay4,7492,56035%88523921%6207481,2901,9689617101
AlignmentViewer3,6080%4340%276276769769595911
FeatureEdit2,6470%2530%165165602602373711
AddMenu2,48828710%2193%133137593656202401
MultiComparator1,9440%1040%7575437437232311
ViewMenu1,80076729%1432514%103114340513253001
Splash1,750703%1623%107112377393262801
BasePlot1,5761096%1781%109114352387192401
Navigator1,5750%1240%8080372372181811
Selector1,5200%740%45453493498811
EntryGroupInfoDisplay1,4400%840%5353249249111111
PrintArtemis1,4270%1160%7070310310121211
UserDefinedQualifiers1,3930%1200%7979324324191911
FeaturePopup1,2940%820%5454257257131311
PrintACT1,2420%1200%7070233233101011
FeatureInfo1,2350%540%4545264264171711
FeatureList1,16446328%1684019%119137292406233301
WriteMenu1,14737524%1160%7476290370131501
EntryEdit1,1411,80361%1464824%117136281681263901
Plot1,13015612%1163%8286243280222601
ContigTool1,0550%840%6868235235262611
ArtemisMain1,0400%980%6363273273141411
TransferAnnotationTool1,00754134%854333%587823532761401
SelectMenu88231226%873%6469229299192401
FindAndReplace8810%440%28282072076611
EntryFileDialog7803%973%55571781894601
ProjectProperty77065545%642628%426116730781601
SelectionMenu7325%7810%6371148162182201
SelectionViewer7080%640%38381301306611
QualifierTextArea6940%720%5858146146222211
RunBlastAtNCBI6620%300%22221401407711
GraphMenu66120423%761415%485515320061001
SelectionInfoDisplay62610714%924%51571331623901
EntryEdit.new ActionListener() {...}6110%460%24251291301201
FileViewer5910%460%4343147147202011
QualifierEditor5260%280%17171251253311
AlignMatchViewer4920%240%16161041044411
FeaturePlotGroup4580%240%2222105105101011
FeaturePlot4440%520%4444115115171711
SequenceViewer4180%260%2525119119121211
ComparatorGlue4110%200%3030113113202011
ComparatorDialog3950%260%18181001004411
EntryGroupPanel3949%780%535712213661001
Plot.new MouseAdapter() {...}3911%200%111271721201
ActMain.new SwingWorker() {...}3680%280%181889894411
RunMenu35211123%416%232866942601
ProjectProperty.LaunchActionListener3351%440%293067684501
ActPanelResizer3120%120%101058584411
FeatureEdit.new ActionListener() {...}2910%280%161657572211
OSXAdapter2830%260%23236969101011
Selector.new ActionListener() {...}2830%260%151535352211
RunPfamSearchThread2700%240%161660604411
FeatureListFrame2690%0%7754543311
AlignmentViewer.ColorChooserShades2620%120%111152525511
ScoreChanger2570%n/a3351513311
ProcessWatcher2560%120%121256566611
ValidateViewer2530%340%232364646611
ListSelectionPanel2420%120%111152525511
BasePlotGroup23835760%4716%33425913171401
MarkerRangeRequesterEvent2350%300%191959594411
FindAndReplace.new ActionListener() {...}2260%260%151539392211
ActMain2170%220%181855557711
Splash.new ItemListener() {...}2150%180%111134342211
Selector.new FeaturePredicate() {...}2040%300%171738382211
ValidateViewer.new ActionListener() {...}2020%180%111143432211
FeatureBaseViewer1970%140%141443437711
TextFieldSink1940%160%18186060101011
EntryHeaderEdit1940%160%18185454101011
QualifierChoice1890%320%212156565511
UserDefinedQualifiers.new ActionListener() {...}1850%160%101028282211
GotoMenu17621254%220%20235611591201
ShortCut17417%1016%81237482601
FindAndReplace.new ActionListener() {...}1710%140%9931312211
TextRequester1670%0%7738386611
Splash.new JPanel() {...}1660%0%5534344411
FeatureEdit.new ActionListener() {...}1640%0%7733332211
DbfetchEntrySource1607030%1818%131941554801
KeyChoice1560%120%151542429911
TransferAnnotationTool.new ActionListener() {...}1550%120%8830302211
ComparatorGlue.new DisplayAdjustmentListener() {...}1540%140%9931312211
ComparatorGlue.new DisplayAdjustmentListener() {...}1540%140%9931312211
ContigTool.new MouseAdapter() {...}1520%180%121231313311
RunMenu.new ActionListener() {...}1490%0%4426262211
FeaturePopup.new ActionListener() {...}1460%0%4430302211
WriteMenu.new TextRequesterListener() {...}1450%0%6637372211
WriteMenu.new TextRequesterListener() {...}1450%0%6637372211
GraphMenu.new ActionListener() {...}1430%n/a2229292211
Plot.3.new ActionListener() {...}1430%100%7724242211
FeatureAminoAcidViewer1390%0%111136367711
MessageDialog1370%0%5529294411
Plot.3.new ActionListener() {...}1370%0%3322222211
ReadFeaturesActionListener1325%0%3429321201
EntryEdit.new ItemListener() {...}1320%100%7723232211
ListDialog1320%0%5529294411
EntryEdit.CommitButton1290%160%141434346611
FeatureDisplay.new MouseAdapter() {...}1286%140%101129313401
EntryGroupMenu12722463%2323%182331844801
AddMenu.new ActionListener() {...}1260%0%5522222211
FeatureViewer1250%0%9932326611
ProjectProperty.new DocumentListener() {...}1240%0%9919195511
NonModalDialog1210%0%3326261111
EditMenu.new ActionListener() {...}1184%0%4526271201
GotoMenu.new TextRequesterListener() {...}1180%0%5531312211
ComparatorDialog.new ActionListener() {...}1170%100%7722222211
TextDialog1170%n/a2222222211
ViewMenu.new ActionListener() {...}11513%0%2312131201
ChoiceFrame1150%0%4423233311
EntryGroupDisplay.new SequenceComboBox() {...}1130%0%4421212211
ProjectProperty.new ActionListener() {...}1100%0%6614142211
FeatureEdit.11.new SwingWorker() {...}1080%0%5522222211
EntryFileDialog.new FileFilter() {...}1070%140%101015153311
AlignmentViewer.AlignMatchComparator1070%140%9928282211
EntryGroupDisplay10614457%1627%1723306561101
AlignmentViewer.new ActionListener() {...}1060%0%6622222211
SelectMenu.new FeaturePredicate() {...}1050%340%191919192211
InputStreamProgressDialog980%n/a3320203311
FeaturePopup.new ActionListener() {...}950%120%8819192211
ProjectProperty.LaunchActionListener.new Runnable() {...}930%100%7715152211
EntryEdit.new SwingWorker() {...}917545%35%6918330201
SelectMenu.new ActionListener() {...}900%100%7718182211
EditMenu.new ActionListener() {...}876%0%4525261201
EntryEdit.new ActionListener() {...}866%0%3416171201
TransferAnnotationTool.new ActionListener() {...}840%0%6616162211
ProjectProperty.new ActionListener() {...}830%0%4410102211
SearchResultViewer.new ActionListener() {...}820%0%3314142211
ScoreScrollbar820%100%101020205511
ViewMenu.new FeaturePredicate() {...}800%140%9921212211
ProgressThread800%0%4420203311
SelectMenu.new MarkerRangeRequesterListener() {...}800%0%3322222211
KeyChooser790%n/a4419194411
FileDialogEntrySource7714%0%81118245801
SequenceComboBox7335%100%91120304601
EntryEdit.new ActionListener() {...}7319%0%3416181201
AddMenu.new TextRequesterListener() {...}730%0%4418182211
LogViewer727%0%13142629101101
QualifierEditor.new ActionListener() {...}720%0%5515152211
SearchResultViewer710%0%3319192211
MessageFrame710%n/a2215152211
PrintArtemis.new ActionListener() {...}690%0%4411112211
PrintACT.new ActionListener() {...}690%0%4411112211
FeaturePopup.new ActionListener() {...}670%0%5515152211
EntryEdit.new ActionListener() {...}658%0%2318191201
BasePlot.new PlotMouseListener() {...}658%0%6721224501
TransferAnnotationTool.new ActionListener() {...}640%0%5511112211
BioJavaEntrySource640%n/a7714147711
Splash.new ItemListener() {...}640%0%6614142211
FeatureDisplay.new FeaturePredicate() {...}630%120%8813132211
MarkerRangeRequester630%0%6620205511
FindAndReplace.new ActionListener() {...}630%0%5511112211
AddMenu.new ActionListener() {...}6216%0%4514151201
ViewMenu.new FeaturePredicate() {...}620%0%6615152211
EntryFileDialog.new FileFilter() {...}610%0%7710103311
EntryFileDialog.new FileFilter() {...}610%0%7710103311
EntryEdit.CommitButton.new ActionListener() {...}0%0%44882211
EntryEdit.27.new ActionListener() {...}0%0%4410102211
EntryEdit.27.new ActionListener() {...}0%0%4410102211
UserDefinedQualifiers.ComboMouseListener0%0%6614143311
EntryEdit.new ActionListener() {...}9%0%3412131201
ArtemisMain.new SwingWorker() {...}0%0%4416162211
EntryGroupMenu.new ActionListener() {...}13%0%4512131201
FeatureDisplay.new FeaturePredicate() {...}0%100%7712122211
FeatureEdit.new ActionListener() {...}0%0%4416162211
FeatureDisplay.new SwingWorker() {...}0%0%3312122211
ProgressBarFrame0%n/a1114141111
EditMenu.new TextRequesterListener() {...}0%0%4416162211
StickyFileChooser5%0%6718193401
FeatureDisplay.new SwingWorker() {...}0%0%3312122211
ActPanelResizer.new ChangeListener() {...}0%n/a22992211
ActPanelResizer.new ActionListener() {...}0%n/a22882211
ZoomScrollBar45%10%8914253401
ZoomScrollBar.new MouseMotionListener() {...}0%0%7713133311
Utilities7457%25%91217325801
RunMenu.new ActionListener() {...}21%0%4515161201
EditMenu.new ActionListener() {...}10%0%3416171201
MultiComparator.new SwingWorker() {...}0%n/a22992211
Plot.3.new ActionListener() {...}0%0%3312122211
UserDefinedQualifiers.new ActionListener() {...}0%0%3311112211
Splash.new ItemListener() {...}0%0%4414142211
UserDefinedQualifiers.OboFileFilter0%0%6611113311
ViewMenu.new ActionListener() {...}26%n/a129101201
FeatureEdit.11.1.new FeaturePredicate() {...}0%120%8810102211
UserDefinedQualifiers.new MenuListener() {...}0%0%5511114411
FindAndReplace.new ActionListener() {...}0%0%3310102211
AddMenu.new TextRequesterListener() {...}0%0%3311112211
ViewMenu.new ItemListener() {...}0%0%33772211
TransferFeaturePredicate6859%50%61211290301
ProjectProperty.new ActionListener() {...}0%0%33662211
SelectMenu.new ActionListener() {...}0%n/a4412124411
FindAndReplace.new ActionListener() {...}0%n/a22662211
FeaturePopup.new ActionListener() {...}0%0%4410102211
ListSelectionPanel.new ActionListener() {...}0%0%33992211
FeatureList.new MouseAdapter() {...}16%0%3412141201
FeaturePopup.new ItemListener() {...}0%0%44882211
FeaturePopup.new ItemListener() {...}0%0%44882211
TransferAnnotationTool.new ActionListener() {...}0%0%55992211
InputStreamProgressDialog.new InputStreamProgressListener() {...}0%0%5510103311
ComparatorDialog.new ActionListener() {...}0%0%3312122211
ViewMenu.new ActionListener() {...}0%n/a22662211
ExternalProgramOptions0%0%3311111111
FeaturePopup.new ItemListener() {...}0%0%55992211
FeaturePopup.new ItemListener() {...}0%0%55992211
FeatureEdit.new ItemListener() {...}0%0%4410102211
AddMenu.new Comparator() {...}6%0%4513141201
EntryEdit.CommitButton.new MouseAdapter() {...}0%0%33662211
TransferableContig0%0%8814147711
Plot.3.new ActionListener() {...}0%0%33772211
UserDefinedQualifiers.new ActionListener() {...}0%n/a22442211
UserDefinedQualifiers.new ActionListener() {...}0%n/a22442211
FeatureDisplay.new AdjustmentListener() {...}24%16%359120201
FeatureDisplay.new FeaturePredicate() {...}0%120%88882211
Navigator.new ItemListener() {...}0%0%66662211
Navigator.new ItemListener() {...}0%0%66662211
ViewMenu.new FeaturePredicate() {...}0%0%5511112211
OSXAdapter.new OSXAdapter() {...}0%0%33992211
ListSelectionPanel.new ActionListener() {...}0%0%33992211
EditMenu.new Runnable() {...}0%n/a22552211
SegmentBorder9971%37%479320301
GraphMenu.new ActionListener() {...}23%0%3411121201
TransferAnnotationTool.new ActionListener() {...}0%0%44662211
WriteMenu.new ActionListener() {...}13%0%2313141201
ViewMenu.new FeaturePredicate() {...}0%100%7711112211
LogReadListener24%0%246111301
AlignmentViewer.new SelectionChangeListener() {...}0%0%44992211
AlignmentViewer.new SelectionChangeListener() {...}0%0%44992211
EntryEdit.27.new ItemListener() {...}0%0%4411112211
Splash.new InputStreamProgressListener() {...}0%0%44883311
FeaturePopup.new ItemListener() {...}0%0%33772211
FeaturePopup.new ItemListener() {...}0%0%33772211
MultiComparator.new ActionListener() {...}0%n/a22332211
EntryEdit.1.new Runnable() {...}0%n/a22662211
EntryGroupMenu.new TextRequesterListener() {...}0%0%55882211
Plot.new MouseMotionAdapter() {...}14%0%3410111201
AlignmentViewer.new ActionListener() {...}0%n/a22882211
AddMenu.new ActionListener() {...}0%n/a22772211
AlignmentViewer.new MouseMotionAdapter() {...}0%0%55992211
AlignmentViewer.new ActionListener() {...}0%0%33882211
ViewMenu.new FeaturePredicate() {...}0%0%55882211
ActMain.new ActionListener() {...}0%0%33772211
SwingWorker54%16%61015283701
GotoMenu.new ActionListener() {...}26%0%45791201
UserDefinedQualifiers.4.new ActionListener() {...}0%n/a22662211
YesNoDialog0%0%4411113311
ProgressBarFrame.new SwingWorker() {...}0%0%33772211
EntryEdit.new SwingWorker() {...}0%0%33662211
SelectMenu.new ActionListener() {...}0%n/a22662211
SelectMenu.new ItemListener() {...}0%n/a22662211
MultiComparator.new ActionListener() {...}0%n/a22662211
FeatureDisplay.new Comparator() {...}8%0%5611121201
EditMenu.new ItemListener() {...}0%n/a22662211
FeatureEdit.new ActionListener() {...}0%0%55992211
FeatureEdit.new ActionListener() {...}0%n/a22882211
MultiComparator.new ActionListener() {...}0%0%33552211
MultiComparator.new ActionListener() {...}0%0%33552211
ComboBoxRenderer0%0%33882211
FileViewer.new ComponentAdapter() {...}0%n/a33773311
RunMenu.new ActionListener() {...}23%0%23891201
EntryEdit.new ActionListener() {...}23%0%34671201
FeatureDisplay.new MouseMotionAdapter() {...}16%0%45671201
ProjectProperty.new ActionListener() {...}0%0%44442211
AlignmentViewer.new ActionListener() {...}0%0%33772211
AlignmentViewer.new ActionListener() {...}0%0%33772211
ContigTool.new KeyAdapter() {...}0%0%5511112211
AlignMatchViewer.new ItemListener() {...}0%0%33772211
AlignMatchViewer.new ItemListener() {...}0%0%33772211
AlignMatchViewer.new ItemListener() {...}0%0%33772211
AlignMatchViewer.new ItemListener() {...}0%0%33772211
RunMenu.new ActionListener() {...}23%0%23891201
AlignmentViewer.new ActionListener() {...}0%n/a22662211
FeatureEdit.new ItemListener() {...}0%n/a22662211
SelectionMenu.new ItemListener() {...}0%0%33442211
SelectionMenu.new ItemListener() {...}0%0%33442211
EntryEdit.new ItemListener() {...}30%0%23781201
ContigTool.PopupListener0%0%55994411
AlignMatchViewer.new ListSelectionListener() {...}0%n/a22662211
MultiComparator.new ActionListener() {...}0%0%33662211
ProjectProperty.TypeComparator0%0%44882211
EntryEditVector0%n/a55665511
QualifierPanel.new ActionListener() {...}30%0%23671201
EntryEdit.new ActionListener() {...}25%0%34561201
EntryEdit.new ActionListener() {...}25%0%34561201
EntryEdit.new ActionListener() {...}0%n/a22552211
ContigTool.new ActionListener() {...}0%n/a22552211
ContigTool.new ActionListener() {...}0%n/a22552211
AddMenu.new ActionListener() {...}0%n/a22662211
Plot.3.new ItemListener() {...}0%n/a22552211
ValidateViewer.new FeatureChangeListener() {...}0%0%33772211
Splash.new ItemListener() {...}0%0%33662211
GraphMenu.new ActionListener() {...}25%n/a12781201
AlignMatchViewer.new Comparator() {...}0%0%44882211
AlignMatchViewer.new Comparator() {...}0%0%4410102211
AlignMatchViewer.new Comparator() {...}0%0%44882211
AlignMatchViewer.new Comparator() {...}0%0%4410102211
ArtemisMain.new ActionListener() {...}0%0%33552211
SelectMenu.new MarkerRangeRequesterListener() {...}0%n/a22662211
FindAndReplace.new ActionListener() {...}0%0%33552211
FindAndReplace.new ActionListener() {...}0%0%33552211
Splash.new ActionListener() {...}0%0%33772211
FeatureListFrame.new WindowAdapter() {...}0%n/a22662211
SelectMenu.new ActionListener() {...}26%0%23671201
EntryGroupDisplay.new ItemListener() {...}19%0%23671201
SelectMenu.new ActionListener() {...}19%n/a12451201
EntryGroupMenu.new ItemListener() {...}19%0%23671201
FeaturePopup.22.new ActionListener() {...}0%0%33442211
Splash.new ItemListener() {...}0%0%33662211
Splash.new ItemListener() {...}0%0%33662211
EntryEdit.new ItemListener() {...}33%0%23671201
EditMenu.new ActionListener() {...}27%n/a12781201
FeatureEdit.new ActionListener() {...}0%0%44772211
SelectMenu.new ItemListener() {...}0%n/a22552211
SelectMenu.new ActionListener() {...}0%n/a22552211
ViewMenu.new ActionListener() {...}43%0%23451201
EntryGroupMenu.new ActionListener() {...}20%0%23451201
AlignmentViewer.new ActionListener() {...}0%0%33552211
AlignmentViewer.new ActionListener() {...}0%0%33552211
ViewMenu.new FeaturePredicate() {...}0%0%44772211
EditMenu.3.new WindowAdapter() {...}0%n/a22442211
ListSelectionPanel.new ActionListener() {...}0%0%33442211
Plot.3.new ActionListener() {...}0%n/a22332211
DisplayAdjustmentEvent66%n/a31082331001
EntryEdit.new ActionListener() {...}21%n/a12561201
PrintArtemis.new ActionListener() {...}0%0%33442211
PrintArtemis.new ActionListener() {...}0%0%33442211
PrintArtemis.new ActionListener() {...}0%0%33442211
PrintArtemis.new ActionListener() {...}0%0%33442211
PrintArtemis.new ActionListener() {...}0%0%33442211
PrintArtemis.new ActionListener() {...}0%0%33442211
PrintArtemis.new ActionListener() {...}0%0%33442211
PrintArtemis.new ActionListener() {...}0%0%33442211
PrintArtemis.new ActionListener() {...}0%0%33442211
TextDialog.new KeyAdapter() {...}0%0%33552211
PrintACT.new ActionListener() {...}0%0%33442211
FeatureEdit.new ActionListener() {...}0%n/a22442211
QualifierTextArea.new SwingWorker() {...}0%n/a22552211
Selector.new ItemListener() {...}0%0%44552211
Selector.new ItemListener() {...}0%0%44552211
Selector.new ItemListener() {...}0%0%44552211
Plot.3.new ItemListener() {...}0%n/a22442211
EditMenu.new ActionListener() {...}0%n/a22442211
AlignmentViewer.new MouseAdapter() {...}0%0%33552211
ViewMenu.new FeaturePredicate() {...}0%0%44662211
ViewMenu.new FeaturePredicate() {...}0%0%44662211
AlignmentViewer.new ItemListener() {...}0%0%33552211
FeatureEdit.new WindowAdapter() {...}0%0%33662211
ArtemisMain.new Runnable() {...}0%n/a22552211
ExternalProgramOptions.new TextRequesterListener() {...}0%0%33552211
FeaturePopup.new ItemListener() {...}0%n/a22442211
FeaturePopup.new ItemListener() {...}0%n/a22442211
FeaturePopup.new ItemListener() {...}0%n/a22442211
FeaturePopup.new ItemListener() {...}0%n/a22442211
FeaturePopup.new ItemListener() {...}0%n/a22442211
FeaturePopup.new ItemListener() {...}0%n/a22442211
FeatureEdit.new ActionListener() {...}0%n/a22332211
ScoreChanger.new ScoreChangeListener() {...}0%n/a22332211
ScoreChanger.new ScoreChangeListener() {...}0%n/a22332211
FeaturePopup.22.new ActionListener() {...}0%n/a22332211
AlignmentViewer.new ItemListener() {...}0%n/a22442211
AlignmentViewer.new ItemListener() {...}0%n/a22442211
FeaturePopup.new ItemListener() {...}0%n/a22442211
FeaturePopup.new ItemListener() {...}0%n/a22442211
FeaturePopup.new ItemListener() {...}0%n/a22442211
FeaturePopup.new ItemListener() {...}0%n/a22442211
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TextDialog.new ActionListener() {...}0%n/a22442211
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EditMenu.new ActionListener() {...}40%n/a12341201
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FeaturePopup.new ActionListener() {...}0%n/a22442211
PrintArtemis.new ActionListener() {...}0%n/a22332211
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ViewMenu.new ActionListener() {...}45%n/a12231201
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FeatureEdit.new ActionListener() {...}0%n/a22332211
Plot.3.new ActionListener() {...}0%n/a22332211
FileViewer.new ActionListener() {...}0%n/a22332211
ProjectProperty.new ActionListener() {...}60%n/a12231201
ViewMenu.new ActionListener() {...}47%n/a12231201
AddMenu.new ActionListener() {...}47%n/a12231201
AddMenu.new ActionListener() {...}47%n/a12231201
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EntryGroupDisplay.new MouseAdapter() {...}47%0%23341201
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EditMenu.new ActionListener() {...}37%n/a12231201
SaveEntryAsSubmissionActionListener33%n/a12241201
SaveEntryAsActionListener33%n/a12241201
SaveEntryActionListener33%n/a12241201
SaveEntryAsEMBLActionListener33%n/a12241201
SaveEntryAsGFFActionListener33%n/a12241201
SaveEntryAsGenbankActionListener33%n/a12241201
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ChoiceFrame.new ActionListener() {...}0%n/a22332211
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Selector.new ActionListener() {...}0%n/a22332211
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SequenceViewer.new ActionListener() {...}0%n/a22332211
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QualifierEditor.new ActionListener() {...}0%n/a22332211
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InputStreamProgressDialog.new WindowAdapter() {...}0%n/a22332211
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MessageDialog.new ActionListener() {...}0%n/a22332211
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MessageDialog.new KeyAdapter() {...}0%n/a22332211
TextRequester.new ActionListener() {...}0%n/a22332211
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ScoreChangeEvent0%n/a22442211
MultiComparator.new WindowAdapter() {...}0%n/a22332211
MultiComparator.new ActionListener() {...}0%n/a22332211
MultiComparator.new ActionListener() {...}0%n/a22332211
UserDefinedQualifiers.new ActionListener() {...}0%n/a22332211
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FeatureViewer.new WindowAdapter() {...}0%n/a22332211
EntryEdit.27.new ActionListener() {...}0%n/a22332211
AlignMatchViewer.new ActionListener() {...}0%n/a22332211
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Navigator.new ActionListener() {...}0%n/a22332211
Navigator.new WindowAdapter() {...}0%n/a22332211
Navigator.new ActionListener() {...}0%n/a22332211
ComparatorDialog.new WindowAdapter() {...}0%n/a22332211
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NonModalDialog.new ActionListener() {...}0%n/a22332211
EntryHeaderEdit.new WindowAdapter() {...}0%n/a22332211
ValidateViewer.new ItemListener() {...}0%n/a22332211
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FileViewer.new ActionListener() {...}0%n/a22332211
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AlignmentEvent0%n/a22442211
Plot.new ComponentAdapter() {...}42%n/a12341201
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AddMenu.new ActionListener() {...}56%n/a12231201
EntryGroupMenu.new ActionListener() {...}56%n/a12231201
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EntryEdit.new ActionListener() {...}60%n/a12231201
ProjectProperty.new ActionListener() {...}60%n/a12231201
EntryActionListener60%n/a23262301
EntryGroupMenu.new ActionListener() {...}60%n/a12231201
EntryEdit.new ActionListener() {...}50%n/a12231201
ViewMenu.new ActionListener() {...}50%n/a12231201
ViewMenu.new ActionListener() {...}50%n/a12231201
ViewMenu.new ActionListener() {...}50%n/a12231201
EditMenu.new ActionListener() {...}50%n/a12231201
QualifierPanel23997%75%392601501
EntryGroupPanel.new KeyAdapter() {...}54%n/a12231201
WriteMenu.new ActionListener() {...}54%n/a12231201
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GotoMenu.new ActionListener() {...}54%n/a12231201
FeatureDisplay.new KeyAdapter() {...}54%n/a12231201
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WriteMenu.new ActionListener() {...}54%n/a12231201
WriteMenu.new ActionListener() {...}54%n/a12231201
WriteMenu.new ActionListener() {...}54%n/a12231201
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ViewMenu.new ActionListener() {...}54%n/a12231201
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GotoMenu.new ActionListener() {...}69%n/a12231201
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EntryEdit.new ActionListener() {...}60%n/a12231201
EntryEdit.new ActionListener() {...}60%n/a12231201
EntryEdit.new ActionListener() {...}60%n/a12231201
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ProjectProperty.new ActionListener() {...}60%n/a12231201
GotoMenu.new ActionListener() {...}60%n/a12231201
GotoMenu.new ActionListener() {...}60%n/a12231201
GotoMenu.new ActionListener() {...}60%n/a12231201
GotoMenu.new ActionListener() {...}60%n/a12231201
EntryEdit.new WindowAdapter() {...}60%n/a12231201
WriteMenu.new ActionListener() {...}60%n/a12231201
WriteMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
SelectMenu.new ActionListener() {...}60%n/a12231201
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SelectMenu.new ActionListener() {...}60%n/a12231201
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ViewMenu.new ActionListener() {...}60%n/a12231201
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CanvasPanel100%n/a070140701
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SwingWorker.new Runnable() {...}100%n/a02020201
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/index.source.html b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/index.source.html index 9e8fef349..fffc4cc61 100644 --- a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/index.source.html +++ b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.components/index.source.html @@ -1 +1 @@ -uk.ac.sanger.artemis.components

uk.ac.sanger.artemis.components

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total83,162 of 96,50913%7,424 of 7,9977%6,0016,58318,90121,8852,0852,542476717
EditMenu.java5,7311,33718%548325%3734221,4551,76187132643
FeatureDisplay.java5,3232,63133%96424220%6828201,4202,117117202715
AlignmentViewer.java4,5770%4980%3573579849841081082424
FeatureEdit.java3,6260%3320%24524581681677772121
EntryEdit.java3,2532,12039%2875315%2523077361,192891371348
AddMenu.java3,02439511%2432%1731917137784866722
ViewMenu.java2,7401,15129%231259%200240531732781121242
Splash.java2,478702%2042%16316853154761631617
MultiComparator.java2,3590%1160%12112152052063632121
FeaturePopup.java2,3110%1340%14814846546581813535
Selector.java2,2700%1520%12012048048044441919
Plot.java2,0961807%1562%13013842246350581217
UserDefinedQualifiers.java1,9510%1520%12212241541546461313
Navigator.java1,8260%1520%12012041641644441414
PrintArtemis.java1,7270%1380%10710736636638381414
ProjectProperty.java1,67971229%1522614%1171423224653650815
BasePlot.java1,6411156%1821%115121373409232902
WriteMenu.java1,57150124%1340%1081314175183861224
FindAndReplace.java1,5690%960%787833033030301313
TransferAnnotationTool.java1,48491538%1366432%1011383305082038611
SelectMenu.java1,48042022%1352%1231433644495474925
EntryGroupInfoDisplay.java1,4720%860%6060256256171744
PrintACT.java1,3660%1260%8383257257202066
ContigTool.java1,3510%1090%9898302302434388
FeatureInfo.java1,2610%540%4949270270212133
ArtemisMain.java1,2430%1060%878732232234341111
FeatureList.java1,22847227%1724018%124143308424263713
EntryFileDialog.java1,0092%1272%7981213224131534
GraphMenu.java89324321%801414%5667207258122016
SelectionMenu.java8217%8510%7383164185243035
AlignMatchViewer.java7980%480%565619019032321515
ComparatorGlue.java7550%480%5454184184303066
QualifierTextArea.java7340%740%6363155155262633
SelectionViewer.java7180%640%40401321328822
FileViewer.java7080%520%6161177177353588
RunBlastAtNCBI.java6620%300%22221401407711
RunMenu.java64814418%575%4048130161111837
SelectionInfoDisplay.java64212916%924%526013717141202
QualifierEditor.java6400%330%3030147147131366
ComparatorDialog.java5970%380%3434143143141466
ActMain.java5550%380%3535140140161655
ValidateViewer.java5390%560%4646125125181877
FeaturePlotGroup.java5130%240%3030116116181855
SequenceViewer.java4820%300%3737136136222266
FeaturePlot.java4440%520%4444115115171711
ActPanelResizer.java4340%120%16167676101044
EntryGroupPanel.java39910%780%545912413971202
ListSelectionPanel.java3690%180%22227777131355
GotoMenu.java36127843%340%37491091692032111
FeatureListFrame.java3310%0%131370709944
ScoreChanger.java3270%n/a13136363131366
OSXAdapter.java3230%280%26267878121222
EntryGroupMenu.java28626948%3915%344566119122218
RunPfamSearchThread.java2700%240%161660604411
ProcessWatcher.java2560%120%121256566611
EntryGroupDisplay.java25415938%2420%25335996101714
BasePlotGroup.java23835760%4716%33425913171401
MarkerRangeRequesterEvent.java2350%300%191959594411
TextFieldSink.java2100%180%21216565121222
FeatureBaseViewer.java2070%140%161646469922
EntryHeaderEdit.java2040%160%20205656121222
TextRequester.java2010%0%14144545121244
QualifierChoice.java1890%320%212156565511
ShortCut.java17417%16%81237482601
TextDialog.java1720%0%9932328844
MessageDialog.java1670%0%11113838101044
ListDialog.java1650%0%9935358833
InputStreamProgressDialog.java1630%0%12123636101044
DbfetchEntrySource.java1607030%1818%131941554801
KeyChoice.java1560%120%151542429911
SearchResultViewer.java1530%0%6633334422
FeatureAminoAcidViewer.java1490%0%131338389922
ChoiceFrame.java1350%0%8827277733
FeatureViewer.java1350%0%111135358822
NonModalDialog.java1310%0%5529293322
ZoomScrollBar.java11035%175%151827416913
KeyChooser.java1090%n/a10102828101044
MessageFrame.java910%n/a6619196633
ProgressBarFrame.java900%0%4421213322
LogViewer.java886%0%15163033121312
SequenceComboBox.java8235%0%101322335802
ScoreScrollbar.java820%0%101020205511
ProgressThread.java800%0%4420203311
FileDialogEntrySource.java7714%0%81118245801
ExternalProgramOptions.java0%0%6615153322
BioJavaEntrySource.java0%n/a7714147711
MarkerRangeRequester.java0%0%6620205511
StickyFileChooser.java5%0%6718193401
Utilities.java7457%25%91217325801
TransferableContig.java0%0%8814147711
SwingWorker.java8668%16%617153731404
SegmentBorder.java9971%37%479320301
LogReadListener.java24%0%246111301
YesNoDialog.java0%0%4411113311
EntryEditVector.java0%n/a55665511
DisplayAdjustmentEvent.java66%n/a31082331001
TextRequesterEvent.java0%n/a33663311
ProcessWatcherEvent.java0%n/a33663311
ScoreChangeEvent.java0%n/a22442211
AlignmentEvent.java0%n/a22442211
EntryActionListener.java60%n/a23262301
IndexReferenceEvent.java0%n/a11221111
CanvasPanel.java100%n/a070140701
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +uk.ac.sanger.artemis.components

uk.ac.sanger.artemis.components

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total83,246 of 96,59313%7,438 of 8,0117%6,0096,59118,91821,9022,0862,543476717
EditMenu.java5,7311,33718%548325%3734221,4551,76187132643
FeatureDisplay.java5,3232,63133%96424220%6828201,4202,117117202715
AlignmentViewer.java4,5770%4980%3573579849841081082424
FeatureEdit.java3,6260%3320%24524581681677772121
EntryEdit.java3,2532,12039%2875315%2523077361,192891371348
AddMenu.java3,02439511%2432%1731917137784866722
ViewMenu.java2,7401,15129%231259%200240531732781121242
Splash.java2,478702%2042%16316853154761631617
MultiComparator.java2,3590%1160%12112152052063632121
FeaturePopup.java2,3110%1340%14814846546581813535
Selector.java2,2700%1520%12012048048044441919
Plot.java2,0961807%1562%13013842246350581217
UserDefinedQualifiers.java1,9510%1520%12212241541546461313
Navigator.java1,8260%1520%12012041641644441414
PrintArtemis.java1,7270%1380%10710736636638381414
ProjectProperty.java1,67971229%1522614%1171423224653650815
BasePlot.java1,6411156%1821%115121373409232902
WriteMenu.java1,57150124%1340%1081314175183861224
FindAndReplace.java1,5690%960%787833033030301313
TransferAnnotationTool.java1,48491538%1366432%1011383305082038611
SelectMenu.java1,48042022%1352%1231433644495474925
EntryGroupInfoDisplay.java1,4720%860%6060256256171744
PrintACT.java1,3660%1260%8383257257202066
ContigTool.java1,3510%1090%9898302302434388
FeatureInfo.java1,2610%540%4949270270212133
ArtemisMain.java1,2430%1060%878732232234341111
FeatureList.java1,22847227%1724018%124143308424263713
EntryFileDialog.java1,0092%1272%7981213224131534
GraphMenu.java89324321%801414%5667207258122016
SelectionMenu.java8217%8510%7383164185243035
AlignMatchViewer.java7980%480%565619019032321515
ComparatorGlue.java7550%480%5454184184303066
QualifierTextArea.java7340%740%6363155155262633
SelectionViewer.java7180%640%40401321328822
FileViewer.java7080%520%6161177177353588
RunBlastAtNCBI.java6620%300%22221401407711
RunMenu.java64814418%575%4048130161111837
SelectionInfoDisplay.java64212916%924%526013717141202
QualifierEditor.java6400%330%3030147147131366
ActMain.java6390%520%4343157157171755
ComparatorDialog.java5970%380%3434143143141466
ValidateViewer.java5390%560%4646125125181877
FeaturePlotGroup.java5130%240%3030116116181855
SequenceViewer.java4820%300%3737136136222266
FeaturePlot.java4440%520%4444115115171711
ActPanelResizer.java4340%120%16167676101044
EntryGroupPanel.java39910%780%545912413971202
ListSelectionPanel.java3690%180%22227777131355
GotoMenu.java36127843%340%37491091692032111
FeatureListFrame.java3310%0%131370709944
ScoreChanger.java3270%n/a13136363131366
OSXAdapter.java3230%280%26267878121222
EntryGroupMenu.java28626948%3915%344566119122218
RunPfamSearchThread.java2700%240%161660604411
ProcessWatcher.java2560%120%121256566611
EntryGroupDisplay.java25415938%2420%25335996101714
BasePlotGroup.java23835760%4716%33425913171401
MarkerRangeRequesterEvent.java2350%300%191959594411
TextFieldSink.java2100%180%21216565121222
FeatureBaseViewer.java2070%140%161646469922
EntryHeaderEdit.java2040%160%20205656121222
TextRequester.java2010%0%14144545121244
QualifierChoice.java1890%320%212156565511
ShortCut.java17417%16%81237482601
TextDialog.java1720%0%9932328844
MessageDialog.java1670%0%11113838101044
ListDialog.java1650%0%9935358833
InputStreamProgressDialog.java1630%0%12123636101044
DbfetchEntrySource.java1607030%1818%131941554801
KeyChoice.java1560%120%151542429911
SearchResultViewer.java1530%0%6633334422
FeatureAminoAcidViewer.java1490%0%131338389922
ChoiceFrame.java1350%0%8827277733
FeatureViewer.java1350%0%111135358822
NonModalDialog.java1310%0%5529293322
ZoomScrollBar.java11035%175%151827416913
KeyChooser.java1090%n/a10102828101044
MessageFrame.java910%n/a6619196633
ProgressBarFrame.java900%0%4421213322
LogViewer.java886%0%15163033121312
SequenceComboBox.java8235%0%101322335802
ScoreScrollbar.java820%0%101020205511
ProgressThread.java800%0%4420203311
FileDialogEntrySource.java7714%0%81118245801
ExternalProgramOptions.java0%0%6615153322
BioJavaEntrySource.java0%n/a7714147711
MarkerRangeRequester.java0%0%6620205511
StickyFileChooser.java5%0%6718193401
Utilities.java7457%25%91217325801
TransferableContig.java0%0%8814147711
SwingWorker.java8668%16%617153731404
SegmentBorder.java9971%37%479320301
LogReadListener.java24%0%246111301
YesNoDialog.java0%0%4411113311
EntryEditVector.java0%n/a55665511
DisplayAdjustmentEvent.java66%n/a31082331001
TextRequesterEvent.java0%n/a33663311
ProcessWatcherEvent.java0%n/a33663311
ScoreChangeEvent.java0%n/a22442211
AlignmentEvent.java0%n/a22442211
EntryActionListener.java60%n/a23262301
IndexReferenceEvent.java0%n/a11221111
CanvasPanel.java100%n/a070140701
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/FeatureTable.html b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/FeatureTable.html index bc3c61f67..027b9bbbf 100644 --- a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/FeatureTable.html +++ b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/FeatureTable.html @@ -1 +1 @@ -FeatureTable

FeatureTable

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethods
Total19 of 18189%6 of 2272%722660111
getFeatureAtIndex(int)105484%4866%4732201
contains(Feature)50%n/a111111
indexOf(Feature)22592%1583%1411101
remove(Feature)21890%1150%121601
getAllFeatures()20100%2100%020701
FeatureTable()17100%n/a010501
add(Feature)12100%n/a010401
getFeaturesInRange(Range)5100%n/a010101
getFeatureCount()4100%n/a010101
features()4100%n/a010101
getFeatures()3100%n/a010101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +FeatureTable

FeatureTable

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethods
Total19 of 18189%5 of 2277%622660111
getFeatureAtIndex(int)105484%3975%3732201
contains(Feature)50%n/a111111
indexOf(Feature)22592%1583%1411101
remove(Feature)21890%1150%121601
getAllFeatures()20100%2100%020701
FeatureTable()17100%n/a010501
add(Feature)12100%n/a010401
getFeaturesInRange(Range)5100%n/a010101
getFeatureCount()4100%n/a010101
features()4100%n/a010101
getFeatures()3100%n/a010101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/LineGroup.html b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/LineGroup.html index 7a4858844..6eb107c8b 100644 --- a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/LineGroup.html +++ b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/LineGroup.html @@ -1 +1 @@ -LineGroup

LineGroup

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethods
Total118 of 52077%64 of 13753%528730133113
getLineType(String)4412373%273757%2033104201
readNextLineGroup(LinePushBackReader, Entry)296268%91257%91772501
looksLikeBinary(String)173366%12633%81031001
getGenbankType(String)132161%5550%464901
isMSPcrunchLine(String)71365%4233%342601
writeStartOfGFFEntry(Writer)40%n/a112211
isBlastLine(String)21083%2250%231301
getRestOfLine(String)21083%1150%121401
static {...}82100%n/a0101801
isGFFLine(String)24100%4660%460501
countChars(String, char)17100%2100%020601
writeEndOfEMBLEntry(Writer)4100%n/a010201
LineGroup()3100%n/a010101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +LineGroup

LineGroup

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethods
Total118 of 52577%64 of 13753%528730134113
getLineType(String)4412373%273757%2033104201
readNextLineGroup(LinePushBackReader, Entry)296268%91257%91772501
looksLikeBinary(String)173366%12633%81031001
getGenbankType(String)132161%5550%464901
isMSPcrunchLine(String)71365%4233%342601
writeStartOfGFFEntry(Writer)40%n/a112211
isBlastLine(String)21083%2250%231301
getRestOfLine(String)21083%1150%121401
static {...}87100%n/a0101901
isGFFLine(String)24100%4660%460501
countChars(String, char)17100%2100%020601
writeEndOfEMBLEntry(Writer)4100%n/a010201
LineGroup()3100%n/a010101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/index.html b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/index.html index 8efdf6738..3f2fec6b0 100644 --- a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/index.html +++ b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/index.html @@ -1 +1 @@ -uk.ac.sanger.artemis.io

uk.ac.sanger.artemis.io

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total21,239 of 34,72038%2,920 of 4,48634%2,2973,2904,9358,2525491,02043121
IndexedGFFDocumentEntry2,5890%3400%218220581585485001
ValidateFeature1,52770431%2608925%159207317451133001
ChadoCanonicalGene1,48762229%2026624%135183372518254901
GFFDocumentEntry1,05490046%12711547%9113924547391801
ReadAndWriteEntry9220%1480%8484202202101011
DatabaseInferredFeature8800%980%6262189189131311
GFFStreamFeature8471,48963%13413049%116177197513194501
BioJavaFeature6740%620%5656176176252511
PublicDBDocumentEntry61693360%11412652%8313914436841901
SimpleDocumentEntry61599061%10412654%8815713038394201
MSPcrunchStreamFeature5970%400%28281371378811
IndexFastaStream503417%4648%4546117126202101
Location47785764%8612659%6713810232653201
BioJavaEntry4760%160%4242134134343411
LocationParseNode45980063%8511056%7513611630363001
FuzzyRange458357%8555%565897105111301
BlastStreamFeature4520%120%131395957711
GffToEMBL43311621%66810%3942931212501
GenbankTblOutputStream4280%720%414195955511
GenbankStreamSequence3780%400%31319696111111
PublicDBStreamFeature30345760%434953%33607021701401
UI2990%240%23236767111111
SimpleDocumentFeature28530151%295163%24654213622501
SimpleEntryInformation28231853%555349%42767916762201
RawStreamSequence28027149%492735%34515612961301
StreamQualifier23637161%416762%38644914521001
PartialSequence2120%130%26266161181811
QualifierLazyLoading1940%240%25255252131311
BioJavaSequence1920%170%24246262141411
Range17310337%291127%2033356131301
DocumentEntryAutosaveThread1736%240%131543491301
DocumentEntryFactory1684521%36512%252841553501
DatabaseDocumentEntry1380%160%161633338811
LocationLexer.TokenEnumeration13224364%243357%204026821901
LineGroup11840277%647353%52873013311301
IndexedGFFDocumentEntry.IndexGFFFeatureEnumeration1160%120%101027274411
GFFUtils11211550%241436%172226561301
ReadOnlyEmblStreamFeature1020%160%171735359911
GFF3AttributeBuilder7442485%93378%1238169451701
FeatureComparator6713065%182457%112423600301
GenbankStreamFeature640%n/a6614146611
GFFStreamFeature.new GFF3AttributeAggregator() {...}638%120%7811121201
GFFStreamFeature.new GFF3AttributeAggregator() {...}609%120%7812131201
GFFStreamFeature.new GFF3AttributeAggregator() {...}609%120%7812131201
KeyVector5813%80%6813172401
BetweenRange580%60%7712124411
IndexedGFFDocumentEntry.IndexContig560%60%7713134411
RangeVector5415%60%5711162401
GFFStreamFeature.new GFF3AttributeAggregator() {...}5410%80%5610111201
UI.UIMode480%n/a44444411
GFFStreamFeature.new GFF3AttributeAggregator() {...}4711%100%679101201
GenbankMisc430%60%5511112211
MSPcrunchDocumentEntry420%40%8811116611
BlastDocumentEntry420%40%8811116611
GFFStreamFeature.new GFF3AttributeAggregator() {...}4013%100%67891201
GFFStreamFeature.new GFF3AttributeAggregator() {...}3813%80%56781201
GFFStreamFeature.new GFF3AttributeAggregator() {...}3713%100%67781201
StreamSequenceFactory353650%10637%81210211301
EmblStreamSequence3335491%103075%11311010521101
EmblStreamFeature333148%n/a166141601
Packing328873%7750%71210193501
ReadOnlyEntry320%n/a10101010101011
LocationParseException310%n/a22442211
QualifierInfoHash304057%40%486172601
GFFEntryInformation2922088%16100%0118720301
UIEraserThread290%0%4413133311
QualifierInfo2815985%31986%52163731001
LowerInteger260%n/a44884411
UpperInteger260%n/a44884411
GenbankDocumentEntry260%n/a44884411
ReadFormatException240%n/a44994411
ReadAndWriteEntry.new InputStreamProgressListener() {...}240%0%44773311
QualifierInfoVector232350%n/a377143701
FeatureTree.new ComparableFeature() {...}222351%n/a15201521152001
IndexedGFFDocumentEntry.ContigCompare220%40%44662211
EmblDocumentEntry2454%3350%575132401
FeatureTable16289%61672%72266011101
FastaStreamSequence4067%50%596174801
DatabaseStreamFeature0%n/a33663311
StreamFeatureTable54%50%257171301
ValidateFeature.new FeaturePredicate() {...}15%40%34451201
ValidateFeature.new FeaturePredicate() {...}15%40%34341201
ChadoCanonicalGene.RangeComparator0%n/a22442211
IndexedGFFDocumentEntry.new FeatureVector() {...}0%n/a33333311
QualifierVector10488%31381%3164351801
InvalidRelationException50%n/a245102401
Key4779%375%3113172901
StreamSequence64098%75688%754515702101
ValidateFeature.new FeaturePredicate() {...}37%0%23121201
ValidateFeature.new FeaturePredicate() {...}23%0%23121201
InvalidKeyException0%n/a22442211
InvalidQualifierException0%n/a22442211
SimpleDocumentEntry.new FeatureEnumeration() {...}0%n/a33333311
MiscLineGroup2674%n/a264122601
ValidateFeature.new FeaturePredicate() {...}25%0%23341201
ValidateFeature.new FeaturePredicate() {...}25%0%23121201
ValidateFeature.new FeaturePredicate() {...}25%0%23121201
ValidateFeature.new FeaturePredicate() {...}25%0%23121201
Qualifier12894%1487%31933911101
ValidateFeature.new FeaturePredicate() {...}50%n/a12121201
QualifierInfoException0%n/a11221111
QualifierParseException0%n/a11221111
ReadEvent70%n/a12141201
EntryStreamEvent0%n/a11221111
OutOfDateException0%n/a11221111
BlastEntryInformation0%n/a11111111
MSPcrunchEntryInformation0%n/a11111111
FeatureTree18898%1487%2171480901
GFF3AttributeBuilder.new Comparator() {...}90%375%14160201
ValidateFeature.new FeaturePredicate() {...}4897%6100%050130201
FeatureHeader3897%583%151140201
GFF3Encoder84100%n/a04050401
GFF3AttributeBuilder.new GFF3AttributeAggregator() {...}43100%3770%37090201
FeatureTree.FeatureEnumerator100%n/a03050301
LocationLexer100%n/a02040201
EMBLObject100%n/a03050301
FeatureVector100%n/a02030201
LocationParseNodeVector100%n/a02030201
EmblMisc100%n/a02040201
GFFMisc100%n/a01020101
EntryInformationException100%n/a01020101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +uk.ac.sanger.artemis.io

uk.ac.sanger.artemis.io

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total21,239 of 34,72538%2,919 of 4,48634%2,2963,2904,9358,2535491,02043121
IndexedGFFDocumentEntry2,5890%3400%218220581585485001
ValidateFeature1,52770431%2608925%159207317451133001
ChadoCanonicalGene1,48762229%2026624%135183372518254901
GFFDocumentEntry1,05490046%12711547%9113924547391801
ReadAndWriteEntry9220%1480%8484202202101011
DatabaseInferredFeature8800%980%6262189189131311
GFFStreamFeature8471,48963%13413049%116177197513194501
BioJavaFeature6740%620%5656176176252511
PublicDBDocumentEntry61693360%11412652%8313914436841901
SimpleDocumentEntry61599061%10412654%8815713038394201
MSPcrunchStreamFeature5970%400%28281371378811
IndexFastaStream503417%4648%4546117126202101
Location47785764%8612659%6713810232653201
BioJavaEntry4760%160%4242134134343411
LocationParseNode45980063%8511056%7513611630363001
FuzzyRange458357%8555%565897105111301
BlastStreamFeature4520%120%131395957711
GffToEMBL43311621%66810%3942931212501
GenbankTblOutputStream4280%720%414195955511
GenbankStreamSequence3780%400%31319696111111
PublicDBStreamFeature30345760%434953%33607021701401
UI2990%240%23236767111111
SimpleDocumentFeature28530151%295163%24654213622501
SimpleEntryInformation28231853%555349%42767916762201
RawStreamSequence28027149%492735%34515612961301
StreamQualifier23637161%416762%38644914521001
PartialSequence2120%130%26266161181811
QualifierLazyLoading1940%240%25255252131311
BioJavaSequence1920%170%24246262141411
Range17310337%291127%2033356131301
DocumentEntryAutosaveThread1736%240%131543491301
DocumentEntryFactory1684521%36512%252841553501
DatabaseDocumentEntry1380%160%161633338811
LocationLexer.TokenEnumeration13224364%243357%204026821901
LineGroup11840777%647353%52873013411301
IndexedGFFDocumentEntry.IndexGFFFeatureEnumeration1160%120%101027274411
GFFUtils11211550%241436%172226561301
ReadOnlyEmblStreamFeature1020%160%171735359911
GFF3AttributeBuilder7442485%93378%1238169451701
FeatureComparator6713065%182457%112423600301
GenbankStreamFeature640%n/a6614146611
GFFStreamFeature.new GFF3AttributeAggregator() {...}638%120%7811121201
GFFStreamFeature.new GFF3AttributeAggregator() {...}609%120%7812131201
GFFStreamFeature.new GFF3AttributeAggregator() {...}609%120%7812131201
KeyVector5813%80%6813172401
BetweenRange580%60%7712124411
IndexedGFFDocumentEntry.IndexContig560%60%7713134411
RangeVector5415%60%5711162401
GFFStreamFeature.new GFF3AttributeAggregator() {...}5410%80%5610111201
UI.UIMode480%n/a44444411
GFFStreamFeature.new GFF3AttributeAggregator() {...}4711%100%679101201
GenbankMisc430%60%5511112211
MSPcrunchDocumentEntry420%40%8811116611
BlastDocumentEntry420%40%8811116611
GFFStreamFeature.new GFF3AttributeAggregator() {...}4013%100%67891201
GFFStreamFeature.new GFF3AttributeAggregator() {...}3813%80%56781201
GFFStreamFeature.new GFF3AttributeAggregator() {...}3713%100%67781201
StreamSequenceFactory353650%10637%81210211301
EmblStreamSequence3335491%103075%11311010521101
EmblStreamFeature333148%n/a166141601
Packing328873%7750%71210193501
ReadOnlyEntry320%n/a10101010101011
LocationParseException310%n/a22442211
QualifierInfoHash304057%40%486172601
GFFEntryInformation2922088%16100%0118720301
UIEraserThread290%0%4413133311
QualifierInfo2815985%31986%52163731001
LowerInteger260%n/a44884411
UpperInteger260%n/a44884411
GenbankDocumentEntry260%n/a44884411
ReadFormatException240%n/a44994411
ReadAndWriteEntry.new InputStreamProgressListener() {...}240%0%44773311
QualifierInfoVector232350%n/a377143701
FeatureTree.new ComparableFeature() {...}222351%n/a15201521152001
IndexedGFFDocumentEntry.ContigCompare220%40%44662211
EmblDocumentEntry2454%3350%575132401
FeatureTable16289%51777%62266011101
FastaStreamSequence4067%50%596174801
DatabaseStreamFeature0%n/a33663311
StreamFeatureTable54%50%257171301
ValidateFeature.new FeaturePredicate() {...}15%40%34451201
ValidateFeature.new FeaturePredicate() {...}15%40%34341201
ChadoCanonicalGene.RangeComparator0%n/a22442211
IndexedGFFDocumentEntry.new FeatureVector() {...}0%n/a33333311
QualifierVector10488%31381%3164351801
InvalidRelationException50%n/a245102401
Key4779%375%3113172901
StreamSequence64098%75688%754515702101
ValidateFeature.new FeaturePredicate() {...}37%0%23121201
ValidateFeature.new FeaturePredicate() {...}23%0%23121201
InvalidKeyException0%n/a22442211
InvalidQualifierException0%n/a22442211
SimpleDocumentEntry.new FeatureEnumeration() {...}0%n/a33333311
MiscLineGroup2674%n/a264122601
ValidateFeature.new FeaturePredicate() {...}25%0%23341201
ValidateFeature.new FeaturePredicate() {...}25%0%23121201
ValidateFeature.new FeaturePredicate() {...}25%0%23121201
ValidateFeature.new FeaturePredicate() {...}25%0%23121201
Qualifier12894%1487%31933911101
ValidateFeature.new FeaturePredicate() {...}50%n/a12121201
QualifierInfoException0%n/a11221111
QualifierParseException0%n/a11221111
ReadEvent70%n/a12141201
EntryStreamEvent0%n/a11221111
OutOfDateException0%n/a11221111
BlastEntryInformation0%n/a11111111
MSPcrunchEntryInformation0%n/a11111111
FeatureTree18898%1487%2171480901
GFF3AttributeBuilder.new Comparator() {...}90%375%14160201
ValidateFeature.new FeaturePredicate() {...}4897%6100%050130201
FeatureHeader3897%583%151140201
GFF3Encoder84100%n/a04050401
GFF3AttributeBuilder.new GFF3AttributeAggregator() {...}43100%3770%37090201
FeatureTree.FeatureEnumerator100%n/a03050301
LocationLexer100%n/a02040201
EMBLObject100%n/a03050301
FeatureVector100%n/a02030201
LocationParseNodeVector100%n/a02030201
EmblMisc100%n/a02040201
GFFMisc100%n/a01020101
EntryInformationException100%n/a01020101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file diff --git a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/index.source.html b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/index.source.html index aa7a04b9d..8379d436e 100644 --- a/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/index.source.html +++ b/test/coverage-report/jacoco-manual-tests/uk.ac.sanger.artemis.io/index.source.html @@ -1 +1 @@ -uk.ac.sanger.artemis.io

uk.ac.sanger.artemis.io

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total21,239 of 34,72038%2,920 of 4,48634%2,2973,2904,9358,2525491,02043121
IndexedGFFDocumentEntry.java2,7980%3620%242244629633616345
ValidateFeature.java1,62278532%2809525%1782403334882250011
ChadoCanonicalGene.java1,50362229%2026624%137185376522275112
GFFStreamFeature.java1,2461,53755%21613037%165234273589276109
GFFDocumentEntry.java1,05490046%12711547%9113924547391801
ReadAndWriteEntry.java9460%1500%8888209209131322
DatabaseInferredFeature.java8800%980%6262189189131311
BioJavaFeature.java6740%620%5656176176252511
SimpleDocumentEntry.java62599061%10412654%91160132385124512
PublicDBDocumentEntry.java61693360%11412652%8313914436841901
MSPcrunchStreamFeature.java5970%400%28281371378811
IndexFastaStream.java503417%4648%4546117126202101
Location.java47785764%8612659%6713810232653201
BioJavaEntry.java4760%160%4242134134343411
LocationParseNode.java45980063%8511056%7513611630363001
FuzzyRange.java458357%8555%565897105111301
BlastStreamFeature.java4520%120%131395957711
GffToEMBL.java43311621%66810%3942931212501
GenbankTblOutputStream.java4280%720%414195955511
GenbankStreamSequence.java3780%400%31319696111111
UI.java3470%240%27277171151522
PublicDBStreamFeature.java30345760%434953%33607021701401
SimpleDocumentFeature.java28530151%295163%24654213622501
SimpleEntryInformation.java28231853%555349%42767916762201
RawStreamSequence.java28027149%492735%34515612961301
StreamQualifier.java23637161%416762%38644914521001
PartialSequence.java2120%130%26266161181811
QualifierLazyLoading.java1940%240%25255252131311
BioJavaSequence.java1920%170%24246262141411
Range.java17310337%291127%2033356131301
DocumentEntryAutosaveThread.java1736%240%131543491301
DocumentEntryFactory.java1684521%36512%252841553501
DatabaseDocumentEntry.java1380%160%161633338811
LocationLexer.java13225665%243357%2042268611102
LineGroup.java11840277%647353%52873013311301
GFFUtils.java11211550%241436%172226561301
ReadOnlyEmblStreamFeature.java1020%160%171735359911
GFF3AttributeBuilder.java7648786%134376%16491710752103
FeatureComparator.java6713065%182457%112423600301
GenbankStreamFeature.java640%n/a6614146611
KeyVector.java5813%80%6813172401
BetweenRange.java580%60%7712124411
RangeVector.java5415%60%5711162401
GenbankMisc.java430%60%5511112211
MSPcrunchDocumentEntry.java420%40%8811116611
BlastDocumentEntry.java420%40%8811116611
StreamSequenceFactory.java353650%10637%81210211301
EmblStreamSequence.java3335491%103075%11311010521101
EmblStreamFeature.java333148%n/a166141601
Packing.java328873%7750%71210193501
ReadOnlyEntry.java320%n/a10101010101011
LocationParseException.java310%n/a22442211
QualifierInfoHash.java304057%40%486172601
GFFEntryInformation.java2922088%16100%0118720301
UIEraserThread.java290%0%4413133311
QualifierInfo.java2815985%1986%52163731001
UpperInteger.java260%n/a44884411
GenbankDocumentEntry.java260%n/a44884411
LowerInteger.java260%n/a44884411
FeatureTree.java2423090%1487%17401673153203
ReadFormatException.java240%n/a44994411
QualifierInfoVector.java50%n/a377143701
EmblDocumentEntry.java2454%50%575132401
FeatureTable.java16289%61672%72266011101
FastaStreamSequence.java4067%50%596174801
DatabaseStreamFeature.java0%n/a33663311
StreamFeatureTable.java54%50%257171301
QualifierVector.java10488%1381%3164351801
InvalidRelationException.java50%n/a245102401
Key.java4779%75%3113172901
StreamSequence.java64098%75688%754515702101
InvalidQualifierException.java0%n/a22442211
InvalidKeyException.java0%n/a22442211
MiscLineGroup.java2674%n/a264122601
Qualifier.java12894%1487%31933911101
QualifierInfoException.java0%n/a11221111
QualifierParseException.java0%n/a11221111
ReadEvent.java70%n/a12141201
EntryStreamEvent.java0%n/a11221111
OutOfDateException.java0%n/a11221111
BlastEntryInformation.java0%n/a11111111
MSPcrunchEntryInformation.java0%n/a11111111
FeatureHeader.java3897%583%151140201
GFF3Encoder.java84100%n/a04050401
EMBLObject.java100%n/a03050301
LocationParseNodeVector.java100%n/a02030201
FeatureVector.java100%n/a02030201
EmblMisc.java100%n/a02040201
GFFMisc.java100%n/a01020101
EntryInformationException.java100%n/a01020101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file +uk.ac.sanger.artemis.io

uk.ac.sanger.artemis.io

ElementMissed InstructionsCov.Missed BranchesCov.MissedCxtyMissedLinesMissedMethodsMissedClasses
Total21,239 of 34,72538%2,919 of 4,48634%2,2963,2904,9358,2535491,02043121
IndexedGFFDocumentEntry.java2,7980%3620%242244629633616345
ValidateFeature.java1,62278532%2809525%1782403334882250011
ChadoCanonicalGene.java1,50362229%2026624%137185376522275112
GFFStreamFeature.java1,2461,53755%21613037%165234273589276109
GFFDocumentEntry.java1,05490046%12711547%9113924547391801
ReadAndWriteEntry.java9460%1500%8888209209131322
DatabaseInferredFeature.java8800%980%6262189189131311
BioJavaFeature.java6740%620%5656176176252511
SimpleDocumentEntry.java62599061%10412654%91160132385124512
PublicDBDocumentEntry.java61693360%11412652%8313914436841901
MSPcrunchStreamFeature.java5970%400%28281371378811
IndexFastaStream.java503417%4648%4546117126202101
Location.java47785764%8612659%6713810232653201
BioJavaEntry.java4760%160%4242134134343411
LocationParseNode.java45980063%8511056%7513611630363001
FuzzyRange.java458357%8555%565897105111301
BlastStreamFeature.java4520%120%131395957711
GffToEMBL.java43311621%66810%3942931212501
GenbankTblOutputStream.java4280%720%414195955511
GenbankStreamSequence.java3780%400%31319696111111
UI.java3470%240%27277171151522
PublicDBStreamFeature.java30345760%434953%33607021701401
SimpleDocumentFeature.java28530151%295163%24654213622501
SimpleEntryInformation.java28231853%555349%42767916762201
RawStreamSequence.java28027149%492735%34515612961301
StreamQualifier.java23637161%416762%38644914521001
PartialSequence.java2120%130%26266161181811
QualifierLazyLoading.java1940%240%25255252131311
BioJavaSequence.java1920%170%24246262141411
Range.java17310337%291127%2033356131301
DocumentEntryAutosaveThread.java1736%240%131543491301
DocumentEntryFactory.java1684521%36512%252841553501
DatabaseDocumentEntry.java1380%160%161633338811
LocationLexer.java13225665%243357%2042268611102
LineGroup.java11840777%647353%52873013411301
GFFUtils.java11211550%241436%172226561301
ReadOnlyEmblStreamFeature.java1020%160%171735359911
GFF3AttributeBuilder.java7648786%134376%16491710752103
FeatureComparator.java6713065%182457%112423600301
GenbankStreamFeature.java640%n/a6614146611
KeyVector.java5813%80%6813172401
BetweenRange.java580%60%7712124411
RangeVector.java5415%60%5711162401
GenbankMisc.java430%60%5511112211
MSPcrunchDocumentEntry.java420%40%8811116611
BlastDocumentEntry.java420%40%8811116611
StreamSequenceFactory.java353650%10637%81210211301
EmblStreamSequence.java3335491%103075%11311010521101
EmblStreamFeature.java333148%n/a166141601
Packing.java328873%7750%71210193501
ReadOnlyEntry.java320%n/a10101010101011
LocationParseException.java310%n/a22442211
QualifierInfoHash.java304057%40%486172601
GFFEntryInformation.java2922088%16100%0118720301
UIEraserThread.java290%0%4413133311
QualifierInfo.java2815985%1986%52163731001
UpperInteger.java260%n/a44884411
GenbankDocumentEntry.java260%n/a44884411
LowerInteger.java260%n/a44884411
FeatureTree.java2423090%1487%17401673153203
ReadFormatException.java240%n/a44994411
QualifierInfoVector.java50%n/a377143701
EmblDocumentEntry.java2454%50%575132401
FeatureTable.java16289%51777%62266011101
FastaStreamSequence.java4067%50%596174801
DatabaseStreamFeature.java0%n/a33663311
StreamFeatureTable.java54%50%257171301
QualifierVector.java10488%1381%3164351801
InvalidRelationException.java50%n/a245102401
Key.java4779%75%3113172901
StreamSequence.java64098%75688%754515702101
InvalidQualifierException.java0%n/a22442211
InvalidKeyException.java0%n/a22442211
MiscLineGroup.java2674%n/a264122601
Qualifier.java12894%1487%31933911101
QualifierInfoException.java0%n/a11221111
QualifierParseException.java0%n/a11221111
ReadEvent.java70%n/a12141201
EntryStreamEvent.java0%n/a11221111
OutOfDateException.java0%n/a11221111
BlastEntryInformation.java0%n/a11111111
MSPcrunchEntryInformation.java0%n/a11111111
FeatureHeader.java3897%583%151140201
GFF3Encoder.java84100%n/a04050401
EMBLObject.java100%n/a03050301
LocationParseNodeVector.java100%n/a02030201
FeatureVector.java100%n/a02030201
EmblMisc.java100%n/a02040201
GFFMisc.java100%n/a01020101
EntryInformationException.java100%n/a01020101
Created with JaCoCo 0.7.9.201702052155
\ No newline at end of file