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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commandline	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
datasources/pipeline	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
gatk	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
jna	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
utils	Moved around private walkers into appropriate directories in private gatk.walkers. Moved a few public walkers into private qc package, and some private qc walkers into the public directory. Removed several obviously broken and/or unused walkers.	2011-06-30 14:59:58 -04:00
BaseTest.java	Fixing broken paths to the testdata directory throughout the codebase.	2011-06-29 17:36:47 -04:00
StingTextReporter.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
WalkerTest.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00