gatk3的最后一个经典版本3.8

hanna bf7fd08810 Fix newly-introduced bug in the PluginManager/DynamicClassResolutionException ... where, when the system can't find a plugin of the correct name, the system prefers to crap all over itself and throw an unintelligible NullPointerException rather than displaying an intelligent error. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4393 348d0f76-0448-11de-a6fe-93d51630548a		2010-09-30 19:07:05 +00:00
R	Ready for integration with queue script	2010-09-24 19:46:01 +00:00
archive	Cleaning up playground utils and tests	2010-08-27 01:25:47 +00:00
c	Reduce file handle usage.	2010-01-05 18:03:01 +00:00
doc	removing the custom reflections library from the libs, and adding a release version. Hopefully this will fix the problem Menachem has been seeing with random JVM crashes. Also	2010-08-19 00:42:37 +00:00
java	Fix newly-introduced bug in the PluginManager/DynamicClassResolutionException	2010-09-30 19:07:05 +00:00
matlab	Another matlab script -- this time for making power and coverage plots over a specific gene region. Lots of fun file reading, string manipulation, and exploration of the set() function	2009-11-30 20:02:25 +00:00
packages	Fix for DoC issue with multiplexer -- will retire use of multiplexer when	2010-09-07 00:44:07 +00:00
perl	Added 'Cron' to subject for easier message filtering	2010-09-28 21:03:50 +00:00
python	clean-up the docs a little	2010-09-29 05:02:41 +00:00
ruby	accidentally commited an old tool	2010-08-25 15:42:02 +00:00
scala	Be smarter if the beagle output is set such that getParent() returns null. Up the memory limit.	2010-09-30 12:48:47 +00:00
settings	The battle is over. Picard is revved.	2010-09-03 05:28:01 +00:00
shell	Updated from SnakeYAML 1.6 to 1.7.	2010-09-22 19:47:49 +00:00
testdata	and add changes to the vcf used in testing	2010-06-25 02:56:02 +00:00
LICENSE	Adding a license to the root directory in case BOSC checks for one. Has the	2010-04-20 16:04:29 +00:00
build.xml	Enhancements to build external projects for walker sharing.	2010-09-24 21:17:16 +00:00
ivy.xml	Updated from SnakeYAML 1.6 to 1.7.	2010-09-22 19:47:49 +00:00