Mark DePristo 7e4b9c9e6e Fix failing unit tests for VariantContextUtilsUnitTest ... -- Previous version was adding multiple samples with the same name to the variant context		2012-11-27 14:26:23 -05:00
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writer	VCF/BCF writers once again automatically write out no-call genotypes for samples in the VCFHeader but not in the VC itself	2012-09-12 06:46:26 -04:00
AlleleUnitTest.java	All integration tests and VC/Allele unit tests are passing	2012-07-27 17:03:49 -04:00
GenotypeLikelihoodsUnitTest.java	A couple of bug-fixy changes.	2012-09-11 23:01:00 -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	Bugfix for incorrect allele counting in IndelSummary	2012-08-01 15:45:12 -04:00
VariantContextTestProvider.java	Adding 80% support for multi-allelic variants	2012-11-21 17:24:59 -05:00
VariantContextUnitTest.java	Using the simple VCBuilder constructor and then subsequently trying to modify attributes was throwing a NPE. This is easily solved (without a performance hit) by initializing the attributes map to an immutable Collections.emptyMap(). Added unit test to cover this case.	2012-08-22 12:54:29 -04:00
VariantContextUtilsUnitTest.java	Fix failing unit tests for VariantContextUtilsUnitTest	2012-11-27 14:26:23 -05:00
VariantJEXLContextUnitTest.java	With the new Allele representation we can finally handle complex events (because they aren't so complex anymore). One place this manifests itself is with the strict VCF validation (ValidateVariants used to skip these events but doesn't anymore) so I've added a new test with complex events to the VV integration test.	2012-07-29 19:22:02 -04:00