gatk3的最后一个经典版本3.8

hanna 2ee2623926 Move non-java code out of playground. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@154 348d0f76-0448-11de-a6fe-93d51630548a		2009-03-23 19:31:38 +00:00
c	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
core/java/src/org/broadinstitute/sting	We now just warn about extra parameters, and provide more information if we fail to convert a command line parameter to the specified type from a string.	2009-03-23 19:03:59 +00:00
doc	Changed how the example walker gets run, I'm about to check in the GNU style command line args.	2009-03-22 20:10:17 +00:00
playground/java/src/org/broadinstitute/sting	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
python	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
settings	Update picard to work with new samtools.	2009-03-20 21:51:26 +00:00
shell	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
testdata	Skeleton of new directory structure.	2009-03-11 20:05:05 +00:00
build.xml	Added FourBaseCaller as a jar build target.	2009-03-21 17:59:13 +00:00
ivy.xml	Switched our code over to the new command line style (gnu style args), added the initial logger code, and added apache commons CLI to the IVY script.	2009-03-22 21:06:22 +00:00