gatk-3.8

Author	SHA1	Message	Date
David Roazen	ea6e718cb8	SnpEff 2.0.5 support. Re-enabled SnpEff in the HybridSelectionPipeline. For now, we recommend only running with the GRCh37.64 database.	2012-01-03 15:18:36 -05:00
David Roazen	68b2a0968c	Updating the HybridSelectionPipeline for SnpEff 2.0.4 RC3 This will have to be done again when the 2.0.4 release becomes official, but it's necessary to do now in order to re-enable the pipeline tests.	2011-11-17 14:46:12 -05:00
Khalid Shakir	b090751f62	Fixed Ant / PluginManager issue where reflections was picking up all class files under current working directory due to "." in jar manifest classpaths. Updates to HybridSelectionPipeline: - Added annotations back via snpEff - Minor updates to VQSR paths and lowered memory	2011-09-27 14:33:57 -04:00