gatk3的最后一个经典版本3.8

Mauricio Carneiro a52e3c7e15 Revert "Bug fix for RR: don't let the softclip start position be less than 1" ... this introduced a bug in reduce reads by de-activating it's hard clipping of the out of bounds soft-clips (specially in the MT). DEV-322 #resolve #time 4m This reverts commit 42acfd9d0bccfc0411944c342a5b889f5feae736.		2012-12-12 13:09:39 -05:00
licensing	Final final final version of the license.	2012-07-20 18:00:02 -04:00
protected/java	ReduceReads is now scattered by contig	2012-12-10 15:25:27 -05:00
public	Revert "Bug fix for RR: don't let the softclip start position be less than 1"	2012-12-12 13:09:39 -05:00
settings	Final r119 tribble jar	2012-11-02 14:30:33 -04:00
.gitignore	adding some directories to gitignore	2012-09-27 11:09:41 -04:00
build.xml	Refactored entire NA12878KB to allow us to easily build a na12878kb.jar for IGV integration	2012-11-29 14:38:09 -05:00
intellij_example.tar.bz2	Removed the intellij files from the root and made an example package for new users. This allows users to start at the same page and then change it as they see fit without interfering with the repo (thanks guillermo!)	2012-09-27 11:04:56 -04:00
ivy.xml	Use build jars in test classpaths by default	2012-11-28 22:57:04 -05:00