gatk3的最后一个经典版本3.8

Mark DePristo 9b0ab4e941 Cleanup IndependentAllelesDiploidExactAFCalc ... -- Remove capability to truncate genotype likelihoods -- this wasn't used and isn't really useful after all -- Added lots of contracts and docs, still more to come. -- Created a default makeMaxLikelihoods function in ReferenceDiploidExactAFCalc and DiploidExactAFCalc so that multiple subclasses don't just do the default thing -- Generalized reference bi-allelic model in IndependentAllelesDiploidExactAFCalc so that in principle any bi-allelic reference model can be used.		2012-10-16 08:11:06 -04:00
licensing	Revert unintentional license change	2012-08-09 17:10:47 -04:00
protected/java	Cleanup IndependentAllelesDiploidExactAFCalc	2012-10-16 08:11:06 -04:00
public	Cleanup IndependentAllelesDiploidExactAFCalc	2012-10-16 08:11:06 -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	Proper error handling in NanoScheduler	2012-09-19 17:03:13 -04:00
ivy.xml	Updating cofoja to the latest version	2012-08-09 16:36:18 -04:00