gatk3的最后一个经典版本3.8

Eric Banks 6eb87bf58a RTC now caches all intervals as GenomeLocs (which is expected to take < 1Gb whole genome based on back of the envelope calculations with Matt) so that 1) we don't have to worry about emitting outside of the leaves in the hierarchical reductions and 2) we can emit the intervals in sorted order which is a big performance plus for the realigner. Integration tests change only because intervals whose start=stop are now printed as chr:start instead of chr:start-stop.		2011-10-06 15:57:49 -04:00
public	RTC now caches all intervals as GenomeLocs (which is expected to take < 1Gb whole genome based on back of the envelope calculations with Matt) so that 1) we don't have to worry about emitting outside of the leaves in the hierarchical reductions and 2) we can emit the intervals in sorted order which is a big performance plus for the realigner. Integration tests change only because intervals whose start=stop are now printed as chr:start instead of chr:start-stop.	2011-10-06 15:57:49 -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	Merged bug fix from Stable into Unstable	2011-10-06 12:54:52 -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