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gatk-3.8/public/java/test/org/broadinstitute/sting/utils/variantcontext
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Mark DePristo 549293b6f7 Bugfixes towards final BCF2 implementation 
-- MLAC and MLAF in PoolCaller now use standard MLE_AC and MLE_AF
-- VCFDiffableReader disables onTheFly fixing of VCF header fields so comparisons are easier when headers are changing
-- Flag fields with FLAG_KEY=0 are parsed as though FLAG_KEY were entirely absent in AbstractVCFCodec to fix bug where FLAG_KEY=0 was being translated into FLAG_KEY in output VCF, making a false flag value a true one
-- Fix the GT field value in VariantContextTestProviders so it isn't fixed 1000s of times during testing
-- Keys whose value is null are put into the VariantContext info attributes now
 		2012-06-21 15:17:21 -04:00
..
writer Bugfixes for VCFWriterUnitTest and TestProvider to deal with stricter VCFWriter behavior 2012-06-21 15:16:26 -04:00
AlleleUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
GenotypeLikelihoodsUnitTest.java Efficient Genotype object Intermediate commit 2012-06-14 16:42:24 -04:00
GenotypeUnitTest.java Cleanup Genotypes 2012-06-14 16:42:36 -04:00
GenotypesContextUnitTest.java Efficient Genotype object Intermediate commit 2012-06-14 16:42:24 -04:00
VCFJarClassLoadingUnitTest.java Don't try to share BCF2 yet 2012-05-24 10:57:06 -04:00
VariantContextBenchmark.java Cleanup Genotypes 2012-06-14 16:42:36 -04:00
VariantContextTestProvider.java Bugfixes towards final BCF2 implementation 2012-06-21 15:17:21 -04:00
VariantContextUnitTest.java Efficient Genotype object Intermediate commit 2012-06-14 16:42:24 -04:00
VariantContextUtilsUnitTest.java Finalizing new Genotype object and associated routines 2012-06-14 16:42:25 -04:00
VariantJEXLContextUnitTest.java Killing the final versions of old new VariantContext interface 2011-11-18 21:32:43 -05:00