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gatk-3.8/public/java/test/org/broadinstitute/sting/utils
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David Roazen d647ea4fdc Long-delayed change to CachingIndexedFastaSequenceFile. Made the cache 
non-static to avoid problems when multiple references are used within the same
thread (eg., during integration tests). This should kill the intermittent
IndelRealignerIntegrationTest failures.
 		2011-07-01 16:04:30 -04:00
..
baq Moved around private walkers into appropriate directories in private gatk.walkers. Moved a few public walkers into private qc package, and some private qc walkers into the public directory. Removed several obviously broken and/or unused walkers. 2011-06-30 14:59:58 -04:00
bed Fixing broken paths to the testdata directory throughout the codebase. 2011-06-29 17:36:47 -04:00
broad Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
codecs Fixing broken paths to the testdata directory throughout the codebase. 2011-06-29 17:36:47 -04:00
collections Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
fasta Long-delayed change to CachingIndexedFastaSequenceFile. Made the cache 2011-07-01 16:04:30 -04:00
genotype Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
interval Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
pileup Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
report Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
sam Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
text Fixing broken paths to the testdata directory throughout the codebase. 2011-06-29 17:36:47 -04:00
threading Fixing broken paths to the testdata directory throughout the codebase. 2011-06-29 17:36:47 -04:00
variantcontext Wrong package; this should have been moved when VC got moved in from Tribble 2011-06-29 14:56:02 -04:00
BaseUtilsUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
GenomeLocParserUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
GenomeLocSortedSetUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
GenomeLocUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
MWUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
MathUtilsUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
PathUtilsUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
ReadUtilsUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
ReservoirDownsamplerUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
SimpleTimerUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
UtilsUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00