Mark DePristo 6c2555885c Caching getSimpleName() in VariantEval is a big performance improvement ... -- Removed the SimpleMetricsByAC table, as one should just use the AlleleCount Stratefication and the upcoming VariantSummary table		2011-11-23 08:34:05 -05:00
..
alignment	GATKSAMRecord refactor	2011-11-03 15:43:26 -04:00
analyzecovariates	No more hunting down R "resources". As a tradeoff Rscript cannot be specified on the commandline and will be found in the environment path.	2011-10-27 14:17:07 -04:00
commandline	For BAM and Reviewed errors we now check the error message to see if it's actually a 'too many open files' problem and, if so, we generate a User Error instead.	2011-11-22 10:50:22 -05:00
gatk	Caching getSimpleName() in VariantEval is a big performance improvement	2011-11-23 08:34:05 -05:00
jna	Updates to JobRunners from the Queue developer community and from running the WholeGenomePipeline:	2011-08-22 15:13:27 -04:00
pipeline	Cleanup of the utils.broad package.	2011-07-01 20:47:03 -04:00
queue	Fixed Queue's tagging of RodBindings.	2011-08-21 02:34:20 -04:00
utils	Final performance optimization for GenotypesContext	2011-11-22 17:19:30 -05:00