hanna 52ab9f2417 Feature parity between LocusIteratorByState, DownsamplingLocusIteratorByState, including pushing mrl / ... the LocusOverflowTracker into LocusIteratorByState. Note that the 'Matt Hanna exception', is still enabled because I haven't yet validated the performance of the DownsamplingLocusIteratorByState when running without downsampling. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3496 348d0f76-0448-11de-a6fe-93d51630548a		2010-06-07 22:58:21 +00:00
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config	Provide a default logger, some config settings, and some doc updates.	2009-04-29 02:06:05 +00:00
src/org/broadinstitute/sting	Feature parity between LocusIteratorByState, DownsamplingLocusIteratorByState, including pushing mrl /	2010-06-07 22:58:21 +00:00
test/org/broadinstitute/sting	JEXL2 upgrade. Improvements to JEXL processing including dynamically resolving variable -> value bindings instead of up front adding them to a map. Performance improvements and code cleanup throughout.	2010-06-07 00:33:02 +00:00