Eric Banks 761347b8d5 The VariantContext utility method used by SelectVariants wasn't checking the filter status (unfiltered vs. passing filters) and always returned a VC that was passing filters. This is fixed and the md5 from the VCF Streaming test has been re-updated.		2011-06-30 15:26:09 -04:00
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annotator	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
beagle	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
coverage	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
fasta	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
filters	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
genotyper	Updated md5's from previous checkin	2011-06-29 13:37:15 -04:00
indels	Updated to reflect dbsnp conversion fix	2011-06-30 11:55:56 -04:00
phasing	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
qc	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
recalibration	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
sequenom	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
varianteval	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
variantrecalibration	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
variantutils	The VariantContext utility method used by SelectVariants wasn't checking the filter status (unfiltered vs. passing filters) and always returned a VC that was passing filters. This is fixed and the md5 from the VCF Streaming test has been re-updated.	2011-06-30 15:26:09 -04:00
BAQIntegrationTest.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
ClipReadsWalkersIntegrationTest.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
PileupWalkerIntegrationTest.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
PrintReadsIntegrationTest.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
PrintReadsWalkerUnitTest.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00