gatk3的最后一个经典版本3.8

Mauricio Carneiro 367f0c0ac1 Split class names into stratification and metrics ... Calling everything statistics was very confusing. Diagnose Targets stratifies the data three ways: Interval, Sample and Locus. Each stratification then has it's own set of metrics (plugin system) to calculate -- LocusMetric, SampleMetric, IntervalMetric. Metrics are generalized by the Metric interface. (for generic access) Stratifications are generalized by the AbstractStratification abstract class. (to aggressively limit code duplication)		2013-04-24 14:15:49 -04:00
licensing	Removing the symlink from the private license file	2013-02-09 12:57:44 -05:00
protected	Split class names into stratification and metrics	2013-04-24 14:15:49 -04:00
public	Minor: bump up the amount of cached log10 data in MathUtils so that Monkol can actually call 50K samples.	2013-04-19 08:39:08 -04:00
settings	Don't allow users to specify keys and IDs that contain angle brackets or equals signs (not allowed in VCF spec).	2013-04-05 00:52:32 -04:00
.gitignore	Fixing the licensing scripts	2013-01-26 13:42:49 -05:00
build.xml	Disable Contracts for Java for tests	2013-04-04 11:56:17 -04:00
intellij_example.tar.bz2	Removed the intellij files from the root and made an example package for new users. This allows users to start at the same page and then change it as they see fit without interfering with the repo (thanks guillermo!)	2012-09-27 11:04:56 -04:00
ivy.xml	Brought all of ReduceReads to fastutils	2013-02-23 22:53:23 -05:00