kshakir 4f51a02dea Changed logging level to default at INFO instead of WARN. ... Changes to StingUtils command line for use in Queue, replacing Queue's use of property files. Updates to walkers used in existing QScripts to add @Input/@Output. RMD used in @Required/@Allows now has a new default equal to "any" type. New QueueGATKExtensions.jar generator for auto wrapping walkers as Queue CommandLineFunctions. Added hooks to modify the functions that perform the Scattering and Gathering (setting their jar files, other arguments, etc.) Removed dependency on BroadCore by porting LSF job submitter to scala. Ivy now pulls down module dependencies from maven. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3984 348d0f76-0448-11de-a6fe-93d51630548a		2010-08-09 16:42:48 +00:00
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depristo	Changed logging level to default at INFO instead of WARN.	2010-08-09 16:42:48 +00:00
rpoplin	Changed logging level to default at INFO instead of WARN.	2010-08-09 16:42:48 +00:00
UnifiedGenotyperExample.scala	Changed logging level to default at INFO instead of WARN.	2010-08-09 16:42:48 +00:00
fullCallingPipeline.q	Changed logging level to default at INFO instead of WARN.	2010-08-09 16:42:48 +00:00
recalibrate.scala	Changed logging level to default at INFO instead of WARN.	2010-08-09 16:42:48 +00:00