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gatk-3.8/public/java/test/org/broadinstitute/sting/gatk
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Mark DePristo 0ac4352614 LIBS can now (optionally) track the unique reads it uses from the underlying read iterator 
-- This capability is essential to provide an ordered set of used reads to downstream users of LIBS, such as ART, who want an efficient way to get the reads used in LIBS
-- Vastly expanded the multi-read, multi-sample LIBS unit tests to make sure this capability is working
-- Added createReadStream to ArtificialSAMUtils that makes it relatively easy to create multi-read, multi-sample read streams for testing
 		2013-01-11 15:17:16 -05:00
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datasources LIBS can now (optionally) track the unique reads it uses from the underlying read iterator 2013-01-11 15:17:16 -05:00
downsampling Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
executive Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
filters Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
iterators Refactor LIBS into utils.locusiterator before refactoring 2013-01-11 15:17:16 -05:00
refdata Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
report Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
samples Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
traversals Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
walkers Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
CommandLineGATKUnitTest.java Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
EngineFeaturesIntegrationTest.java Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
GenomeAnalysisEngineUnitTest.java Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
MaxRuntimeIntegrationTest.java Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00
WalkerManagerUnitTest.java Updated all JAVA file licenses accordingly 2013-01-10 17:06:41 -05:00