Mark DePristo 526b524c3c CombineVariants with new RodBinding. Bugfix ... -- CombineVariants now uses the new RodBinding syntax, -V / --variants. Passed all integration tests on first run -- Exposed gapping bug in the List<RodBinding<T>> system now fixed. ParserEngine now has a addRodBinding() that is called by RodBindingArgumentTypeDescriptor when it encounters each RodBinding. This allows the system to work with collection types that are recursively parsed by the system.		2011-08-07 20:16:51 -04:00
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R	GATKReport v0.2:	2011-08-03 00:24:47 -04:00
c	Reinitialize random seed in the bwa bindings from the fixed seed stored in the	2011-07-22 13:41:53 -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	CombineVariants with new RodBinding. Bugfix	2011-08-07 20:16:51 -04:00
packages	Added edu.mit.broad.picard to Queue packaged jar.	2011-07-23 14:40:29 -04:00
perl	Moving these supported perl scripts to public	2011-07-01 17:26:25 -04:00
scala	Merge branch 'master' into rodRefactor	2011-08-04 12:48:56 -04:00
testdata	Testdata for diffObjects.	2011-07-18 10:47:03 -04:00