gatk3的最后一个经典版本3.8

Mark DePristo d1ba17df5d Fixed nasty bug in BCF2 writer for case where all genotypes are missing ... -- Previous code was looking for a -1 result from maxPloidy() but the result as actually 0, so instead of writing a diploid no call we were actually writing "unavailable" genotypes, and failing the BCF == VCF test in integration tests. Fixed.		2012-09-12 06:46:27 -04:00
licensing	Revert unintentional license change	2012-08-09 17:10:47 -04:00
protected/java	Fix GSA-535: storing likelihoods in allele map was busted when running HaplotypeCaller, only the last likelihood of a haplotype was being stored, as opposed to the max likelihood of all haplotypes mapping to an allele	2012-09-11 11:01:26 -04:00
public	Fixed nasty bug in BCF2 writer for case where all genotypes are missing	2012-09-12 06:46:27 -04:00
settings	Updating cofoja to the latest version	2012-08-09 16:36:18 -04:00
.gitignore	a few more useful git ignores	2012-09-01 11:08:36 -04:00
build.xml	More memory for gatkdocs and extracthelp targets	2012-09-05 15:45:22 -04:00
ivy.xml	Updating cofoja to the latest version	2012-08-09 16:36:18 -04:00