hanna c10741e9f5 Rename TraverseLociByReference to TraverseLoci to represent its new function. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@743 348d0f76-0448-11de-a6fe-93d51630548a		2009-05-18 01:31:57 +00:00
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dataSources	Switch TraverseByLoci over to new sharding system, and cleanup some code in passing read files along	2009-05-15 21:02:12 +00:00
executive	Rename TraverseLociByReference to TraverseLoci to represent its new function.	2009-05-18 01:31:57 +00:00
iterators	Switch TraverseByLoci over to new sharding system, and cleanup some code in passing read files along	2009-05-15 21:02:12 +00:00
refdata	Better interface to the tabular ROD, now makes writing files easier. Also has corresponding test files	2009-05-14 23:20:11 +00:00
traversals	Rename TraverseLociByReference to TraverseLoci to represent its new function.	2009-05-18 01:31:57 +00:00
walkers	Switch TraverseByLoci over to new sharding system, and cleanup some code in passing read files along	2009-05-15 21:02:12 +00:00
CommandLineGATK.java	Switch TraverseByLoci over to new sharding system, and cleanup some code in passing read files along	2009-05-15 21:02:12 +00:00
GATKArgumentCollection.java	Switch TraverseByLoci over to new sharding system, and cleanup some code in passing read files along	2009-05-15 21:02:12 +00:00
GenomeAnalysisEngine.java	Switch TraverseByLoci over to new sharding system, and cleanup some code in passing read files along	2009-05-15 21:02:12 +00:00
LocusContext.java	1. Added a by-interval traversal.	2009-04-24 04:33:35 +00:00
OutputTracker.java	N-way parallelism. Works for small test cases. Untested for large test cases.	2009-05-01 19:34:09 +00:00
Reads.java	Switch TraverseByLoci over to new sharding system, and cleanup some code in passing read files along	2009-05-15 21:02:12 +00:00
WalkerManager.java	Switch TraverseByLoci over to new sharding system, and cleanup some code in passing read files along	2009-05-15 21:02:12 +00:00