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5 Commits (cd5d42618fb8e207dd2452e2a6313eec46f421fe)

Author SHA1 Message Date
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
aaron 7467ec2fd6 updating the reflections library; Matt found a problem where the reflections library doesn't sort out non-java objects from the classpath (affects only OS X so far). I'll push back the changes to 
the reflections library people.


git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3307 348d0f76-0448-11de-a6fe-93d51630548a
 2010-05-06 02:08:41 +00:00
aaron 64c5f287c5 fixes for edge-cases when using reflections to find classes outside of the main jar. Will push as a patch to reflections 
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3264 348d0f76-0448-11de-a6fe-93d51630548a
 2010-04-27 17:46:46 +00:00
aaron f6468f9143 a fix for a bug we've worked around in the reflections package: previously it didn't find classes that weren't in the main jar. Fixed in this version. 
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3261 348d0f76-0448-11de-a6fe-93d51630548a
 2010-04-27 04:49:49 +00:00
hanna b43925c01e Switched to Reflections (http://code.google.com/p/reflections/) project for 
inspecting the source tree and loading walkers, rather than trying to roll
our own by hand.


git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1286 348d0f76-0448-11de-a6fe-93d51630548a
 2009-07-21 18:32:22 +00:00