hanna 3dc78855fd Command-line argument tagging is in, and the ROD system is hacked slightly to support the new syntax ... (-B:name,type file) as well as the old syntax. Also, a bonus feature: BAMs can now be tagged at the command-line, which should allow us to get rid of some of the hackier calls in GenomeAnalysisEngine. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4105 348d0f76-0448-11de-a6fe-93d51630548a		2010-08-25 03:47:57 +00:00
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BoundedReadIteratorUnitTest.java	Massive cleanup of read filtering.	2010-08-11 20:17:11 +00:00
LocusIteratorByStateUnitTest.java	Command-line argument tagging is in, and the ROD system is hacked slightly to support the new syntax	2010-08-25 03:47:57 +00:00
LocusOverflowTrackerUnitTest.java	A long overdue correction; all unit tests now end in 'UnitTest'. This was something we wanted to do for a while, and now with the performance tests coming, it was a good time to clean-up. Please label any new test appropriately: *UnitTest and *IntegrationTest are the two valid file name patterns for tests.	2010-04-08 06:14:15 +00:00
StingSAMIteratorAdapterUnitTest.java	Massive cleanup of read filtering.	2010-08-11 20:17:11 +00:00