Matt Hanna 4fa5045e84 Abandoning classfileset/rootfileset approach due to difficulting managing ... classloading of bcel*.jar/ant-apache-bcel*.jar. Switching instead to manually specifying a minimal set of packages/classes to include in the vcf.jar via build.xml, and adding a unit test which creates a limited classloader only aware of vcf.jar and tribble.jar and tries to use it to load the core classes in the vcf jar. Hopefully third time's the charm.		2011-10-06 12:49:51 -04:00
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AlleleUnitTest.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
GenotypeLikelihoodsUnitTest.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
VCFJarClassLoadingUnitTest.java	Abandoning classfileset/rootfileset approach due to difficulting managing	2011-10-06 12:49:51 -04:00
VariantContextIntegrationTest.java	More tools moved over. Fixed the VariantContextIntegrationTest which was not useful because the md5s were all removed. In the future, instead of removing md5s (putting it in 'parameterization' mode), you should instead use @Test{enabled=false} since it's easier to track.	2011-08-10 14:24:40 -04:00
VariantContextUnitTest.java	Fixing up and refactoring usage of indel categories. On a variant context, isInsertion() and isDeletion() are now removed because behavior before was wrong in case of multiallelic sites. Now, methods isSimpleInsertion() and isSimpleDeletion() will return true only if sites are biallelic. For multiallelic sites, isComplex() will return true in all cases.	2011-08-18 16:17:38 -04:00
VariantJEXLContextUnitTest.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00