hanna dc748d9c9c Integrate more feedback on command-line argument system. Focus on help ... formatter: separate required from optional but otherwise keep ordering the same, reorder GATK arguments by usage. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@764 348d0f76-0448-11de-a6fe-93d51630548a		2009-05-20 19:01:25 +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/org/broadinstitute/sting	Integrate more feedback on command-line argument system. Focus on help	2009-05-20 19:01:25 +00:00
test/org/broadinstitute/sting	Added some code to change the instrumentation for tests.	2009-05-20 05:15:27 +00:00