Mark DePristo b5e843f8f0 Approaching the end for the new RodBinding system ... -- support for explicit naming of bindings (-X:name,type x) -- support for automatic naming of bindings in lists (-X:vcf foo.vcf -X:vcf bar.vcf will generate internal names X and X2) -- ParserEngineUnitTest expanded to cover all of the Rodbinding cases -- RodBindingUnitTest tests all of the low-level accessors -- Parsing engine throws UserExceptions when bad bindings are provided on the command line		2011-08-02 22:00:06 -04:00
..
R	Moved gsalib sources from private/ to public/	2011-07-27 12:29:43 -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	Approaching the end for the new RodBinding system	2011-08-02 22:00:06 -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	2011-08-02 14:21:58 -04:00
testdata	Testdata for diffObjects.	2011-07-18 10:47:03 -04:00