aaron 3fb3773098 a fix for traverse dupplicates bug: GSA-202. Also removed some debugging output from FastaAltRef walker ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1912 348d0f76-0448-11de-a6fe-93d51630548a		2009-10-26 20:18:55 +00:00
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TraversalEngine.java	A bit of reorganization to help with more flexible output streams. Pushed construction of data	2009-07-29 23:00:15 +00:00
TraversalStatistics.java	Fixes for including duplicate reads in the locus traversal; now checks that the ref arg is provided when needed	2009-04-17 01:27:36 +00:00
TraverseDuplicates.java	a fix for traverse dupplicates bug: GSA-202. Also removed some debugging output from FastaAltRef walker	2009-10-26 20:18:55 +00:00
TraverseLoci.java	Enabling correct high-performance ROD walker and moved VariantEval over to it. Performance improvements in variantEval in general. See wiki for full description	2009-10-20 23:31:13 +00:00
TraverseLocusWindows.java	Framework for ROD walkers -- totally experiment and not working right now	2009-09-12 19:13:15 +00:00
TraverseReads.java	memory leak, where the Resource Pool was releasing based on the value and not the key, resulting in the resourceAssignments map growing with each additional shard	2009-10-20 00:39:42 +00:00
package.html	Package level documentation -- helps new users get acclimated to the codebase more quickly.	2009-06-17 16:27:48 +00:00