gatk3的最后一个经典版本3.8

Mark DePristo 30f441d385 Finalizing GATK2 license text		2012-07-18 16:07:47 -04:00
licensing	Finalizing GATK2 license text	2012-07-18 16:07:47 -04:00
protected/java	Enabled a whole other bunch of integration tests for BQSRv2. While I was there I also changed the default context size for indels to 3 (from 8) since that's what works best in the current implementation (as suggested by Ryan). At this point, all of the new core tools (ReduceReads, BQSRv2, HaplotypeCaller, UG extensions) have been moved over to protected and should be stable. Looks like we are pretty much ready for GATK 2.0!	2012-07-17 23:36:43 -04:00
public	Improvements to the validation report of VariantEval	2012-07-18 16:07:47 -04:00
settings	Rev tribble to 110. Log is:	2012-06-26 15:28:32 -04:00
.gitignore	Minor additions to the shared .gitignore file, now that Mark has checked one in.	2011-10-26 12:24:28 -04:00
build.xml	Change committest target to allow inheritance of properties	2012-07-18 12:45:51 -04:00
ivy.xml	Navel -> GXDB	2012-06-28 13:38:00 -04:00