gatk3的最后一个经典版本3.8

Guillermo del Angel 67e5c3ff9f Solved major scalability problem in pool caller - exact model may have been linear but computing pool GL's was O(n^p) where p was max # of alleles (4 in SNP discovery mode). Linearized approach follows exact AF model with queue of AC conformations to add - may refactor code to eliminate duplication later, as linear multiallelic pool AF model will use same approach. TBD: how to print PL's with -Infinity value, right now since we never cap PL printing we end up with big nonsense numbers in those positions and vcf's look ugly. Calling MT in CEU trio with pool size = 100 goes from 2 days to 55 minutes (sic)		2012-05-11 10:05:09 -04:00
licensing	Remove old licensing	2012-04-25 12:23:08 -04:00
public	Merge branch 'master' of ssh://nickel.broadinstitute.org/humgen/gsa-scr1/gsa-engineering/git/unstable	2012-05-10 13:09:10 -04:00
settings	Rev. tribble to v101 with another putative open file leak fix	2012-05-04 15:40:41 -04:00
.gitignore	Minor additions to the shared .gitignore file, now that Mark has checked one in.	2011-10-26 12:24:28 -04:00
build.xml	Rev'ing Tribble from 53 to 94	2012-05-03 07:31:47 -04:00
ivy.xml	Minor cleanup before push	2012-05-01 14:16:44 -04:00