Eric Banks 9826192854 Added contracts, docs, and tests for several methods in AlignmentUtils. There are over 74K tests being run now for this class! ... * AlignmentUtils.getMismatchCount() * AlignmentUtils.calcAlignmentByteArrayOffset() * AlignmentUtils.readToAlignmentByteArray(). * AlignmentUtils.leftAlignIndel()		2013-02-07 13:04:24 -05:00
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AlignmentUtilsUnitTest.java	Added contracts, docs, and tests for several methods in AlignmentUtils. There are over 74K tests being run now for this class!	2013-02-07 13:04:24 -05:00
ArtificialBAMBuilderUnitTest.java	Last manual license update (hopefully)	2013-01-18 16:13:07 -05:00
ArtificialPatternedSAMIteratorUnitTest.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
ArtificialSAMFileWriterUnitTest.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
ArtificialSAMQueryIteratorUnitTest.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
ArtificialSAMUtilsUnitTest.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
ArtificialSingleSampleReadStreamUnitTest.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
GATKSAMRecordUnitTest.java	PileupElement and LIBS cleanup	2013-01-11 15:17:17 -05:00
MisencodedBaseQualityUnitTest.java	Need to reset the static counter before tests are run or else we won't be deterministic.	2013-02-05 10:41:46 -05:00
ReadUtilsUnitTest.java	Move BaseUtils back to the GATK by request, along with associated utility methods	2013-01-30 13:09:44 -05:00