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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R	Moving some of the released R scripts into public from private	2011-06-30 14:55:25 -04:00
chainFiles	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
doc	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
java	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
packages	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
scala	Added an optional argument -bt <num_threads> for BWA to run multithreaded.	2011-06-30 14:41:57 -04:00
testdata	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00