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gatk-3.8/public/java/test/org/broadinstitute/sting/utils/variantcontext
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Eric Banks 99b15b2b3a Final checkpoint: all tests pass. Note that there were bugs in the PoolGenotypeLikelihoodsUnitTest that needed fixing and eventually led to my needing to disable one of the tests (with a note for Guillermo to look into it). Also note that while I have moved over the GATK to use the new non-null representation of Alleles, I didn't remove all of the now-superfluous code throughout to do padding checking on merges; we'll need to do this on a subsequent push. 2012-07-29 01:07:59 -04:00
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writer Allele refactoring checkpoint 2: all code finally compiles, AD and STR annotations are fixed, and most of the UG integration tests pass. 2012-07-26 23:27:11 -04:00
AlleleUnitTest.java All integration tests and VC/Allele unit tests are passing 2012-07-27 17:03:49 -04:00
GenotypeLikelihoodsUnitTest.java Bugfixes to G count types in VCF header 2012-06-26 15:28:34 -04:00
GenotypeUnitTest.java Genotype filters are now just Strings, not Set<String> 2012-06-30 11:22:47 -04:00
GenotypesContextUnitTest.java Efficient Genotype object Intermediate commit 2012-06-14 16:42:24 -04:00
VCFJarClassLoadingUnitTest.java Remove reference dependence in BCF2Codec 2012-07-25 08:56:38 -04:00
VariantContextBenchmark.java Cleanup Genotypes 2012-06-14 16:42:36 -04:00
VariantContextTestProvider.java Allele refactoring checkpoint 2: all code finally compiles, AD and STR annotations are fixed, and most of the UG integration tests pass. 2012-07-26 23:27:11 -04:00
VariantContextUnitTest.java All integration tests and VC/Allele unit tests are passing 2012-07-27 17:03:49 -04:00
VariantContextUtilsUnitTest.java Final checkpoint: all tests pass. Note that there were bugs in the PoolGenotypeLikelihoodsUnitTest that needed fixing and eventually led to my needing to disable one of the tests (with a note for Guillermo to look into it). Also note that while I have moved over the GATK to use the new non-null representation of Alleles, I didn't remove all of the now-superfluous code throughout to do padding checking on merges; we'll need to do this on a subsequent push. 2012-07-29 01:07:59 -04:00
VariantJEXLContextUnitTest.java Killing the final versions of old new VariantContext interface 2011-11-18 21:32:43 -05:00