gatk3的最后一个经典版本3.8

Guillermo del Angel 15e26fec04 Many cosmetic fixes to pool caller (not done yet): better docs, some code reorganization, change iterator inside PoolGenotypeLikelihoods so that we store conformations and convert to/from PL vectors in the same order as the non-pool case (it used to be flipped), to maintain better legibility. Improved unit tests (not done yet)		2012-04-04 15:08:19 -04:00
public	Wow, symbolic alleles were all busted internally and this finally bubbled up after my previous commit. For some reason we were inconsistently forcing allele trimming/padding if one was present. Not anymore.	2012-04-04 13:47:59 -04:00
settings	Rev. tribble to fix BED codec bug in tribble 51	2012-01-17 16:40:26 -05:00
.gitignore	Minor additions to the shared .gitignore file, now that Mark has checked one in.	2011-10-26 12:24:28 -04:00
LICENSE	Updated license year	2012-03-27 14:32:02 -04:00
build.xml	Bug fix to previous UnifiedGenotyperEngine refactoring, removed debug code	2012-03-25 10:20:21 -04:00
ivy.xml	S3 upload now directly creates the XML report in memory and puts that in S3	2012-01-29 15:14:58 -05:00