hanna e313eeede8 Push command-line expansions, such as BAM list unpacking and -B tag parsing, out ... into the CommandLine* classes. This makes it easier for external functionality (such as the VCF streamer) to use GenomeAnalysisEngine directly. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4897 348d0f76-0448-11de-a6fe-93d51630548a		2010-12-22 19:00:17 +00:00
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config	Provide a default logger, some config settings, and some doc updates.	2009-04-29 02:06:05 +00:00
src	Push command-line expansions, such as BAM list unpacking and -B tag parsing, out	2010-12-22 19:00:17 +00:00
test	Push command-line expansions, such as BAM list unpacking and -B tag parsing, out	2010-12-22 19:00:17 +00:00