gatk3的最后一个经典版本3.8

ebanks 13d4692d2e 1. Added a by-interval traversal. ... 2. Added a shell for the indel cleaner walker (it's currently being used to test the interval traversal). 3. Fixed small bug in downsampling (make sure to downsample the offsets too) 4. GenomeAnalysisTK.execute => anyone object to my change to "instanceof" instead of trying to catch a ClassCastException (yuck)? git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@524 348d0f76-0448-11de-a6fe-93d51630548a		2009-04-24 04:33:35 +00:00
c	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
doc	Updated the hello world document to reflect system changes.	2009-04-22 23:25:15 +00:00
java	1. Added a by-interval traversal.	2009-04-24 04:33:35 +00:00
python	Support for indexBAM command	2009-04-22 19:39:07 +00:00
settings	Latest version of sam.	2009-04-15 21:02:25 +00:00
shell	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
testdata	Better validation scripts	2009-04-16 23:18:00 +00:00
build.xml	Added the base test case, fixed the rest of the test cases to follow suit. Added more verbose output to ant for junit tests.	2009-04-14 17:11:38 +00:00
ivy.xml	Added castor dependency.	2009-04-07 22:27:39 +00:00