Mark DePristo d5dd3b23db Rev picard to get optimized tribble feature reads ... -- The previous version of TribbleIndexedFeatureReader.query() would open a RandomAccessFile each time the GATK crossed a shard boundary. When running with -L wex.intervals (or any time there were lots of intervals) we'd be opening and closing enormous numbers of files, radically slowing down the GATK. With these patched versions of Tribble we see something like the following performance improvements: SelectVariants with -L wex.intervals on my local machine against non-local file pre-patch => 3 hours post-patch => 30 seconds		2013-08-02 10:31:36 -04:00
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helpTemplates	Added function to gatkdocs to specify what VCF field an annotation goes in (INFO or FORMAT)	2013-07-26 15:51:30 -04:00
repository	Rev picard to get optimized tribble feature reads	2013-08-02 10:31:36 -04:00
ivysettings.properties	Moved build.xml, ivy.xml and settings to root of Sting repository.	2009-03-18 19:13:19 +00:00
ivysettings.xml	Updated google reflections due to stale slf4j version conflicting with other projects also trying to use Queue as a component.	2012-10-16 02:22:30 -04:00