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gatk-3.8/public/java/test/org/broadinstitute/sting/utils/sam
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David Roazen cb84a6473f Downsampling: experimental engine integration 
-Off by default; engine fork isolates new code paths from old code paths,
so no integration tests change yet

-Experimental implementation is currently BROKEN due to a serious issue
involving file spans. No one can/should use the experimental features
until I've patched this issue.

-There are temporarily two independent versions of LocusIteratorByState.
Anyone changing one version should port the change to the other (if possible),
and anyone adding unit tests for one version should add the same unit tests
for the other (again, if possible). This situation will hopefully be extremely
temporary, and last only until the experimental implementation is proven.
 		2012-09-06 15:03:27 -04:00
..
AlignmentUtilsUnitTest.java Bug fix for: https://getsatisfaction.com/gsa/topics/problem_with_indelrealigner_and_l_unmapped 2012-04-27 09:58:38 -04:00
ArtificialPatternedSAMIteratorUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
ArtificialSAMFileWriterUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
ArtificialSAMQueryIteratorUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
ArtificialSAMUtilsUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
ArtificialSingleSampleReadStreamUnitTest.java Downsampling: experimental engine integration 2012-09-06 15:03:27 -04:00
GATKSAMRecordUnitTest.java BitSet implementation of the on-the-fly recalibration using the CSV format file. 2012-03-16 13:02:15 -04:00
ReadUtilsUnitTest.java Unit tests for GATKSAMRecord class 2012-01-26 17:06:36 -05:00