gatk3的最后一个经典版本3.8

Ryan Poplin af0d16e741 Adding context dependent gap penalty code into the haplotype likelihood model. Adding ContextCovariate to indel CountCovariates for use in generating k-mer quality tables. Bug fix: make sure to clear the assembly graphs between active regions.		2011-09-28 08:51:50 -04:00
public	Merged bug fix from Stable into Unstable	2011-09-27 20:35:18 -04:00
settings	Merged bug fix from Stable into Unstable	2011-09-27 14:34:39 -04:00
LICENSE	One last test...	2011-06-28 19:18:17 -04:00
build.xml	To work around potential problem with invalid javax.mail 1.4.1 in ivy cache, added explicit javax.mail 1.4.4 along with build.xml code to remove 1.4.1.	2011-09-20 00:14:35 -04:00
ivy.xml	Fixed Ant / PluginManager issue where reflections was picking up all class files under current working directory due to "." in jar manifest classpaths.	2011-09-27 14:33:57 -04:00