hanna 553d39bb00 Clean up the code a bit following the introduction of reduceByInterval. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2887 348d0f76-0448-11de-a6fe-93d51630548a		2010-02-25 01:20:22 +00:00
..
arguments	Looks bigger than it is:	2010-01-15 00:14:35 +00:00
contexts/variantcontext	should never commit without running intergration tests.	2010-02-12 23:42:37 +00:00
datasources	Clean up the code a bit following the introduction of reduceByInterval.	2010-02-25 01:20:22 +00:00
executive	Added IterableLocusContextQueue and test. Cleaned up tests, adding BaseTest where it didn't exist. Enhanced test runner to run only classes ending in ...Test.java, so that utility classes can sit alongside the tests but won't be run by JUnit.	2009-05-13 21:32:05 +00:00
io	Fix for problem where err stream remapped to output stream in certain cases, (hopefully) completing Matt's hat trick of fail. Thanks, unit tests.	2009-09-16 08:33:56 +00:00
iterators	some very old tests relied on cancer data that got moved. Reset one to use data in the validation directory, the other to the artificial sam utils (the best approach).	2010-02-02 23:13:10 +00:00
refdata	starting on RODs for Reads: made RODRecordList implement list<RODatum> (so we can sub in fake lists during testing), and removed unnecessary generic-ness. Removed BrokenRODSimulator, which isn't being used.	2010-02-24 22:11:53 +00:00
traversals	Reduce by interval alterations to interface with new sharding system. This checkin with be followed by a	2010-02-25 00:16:50 +00:00
walkers	Reduce by interval alterations to interface with new sharding system. This checkin with be followed by a	2010-02-25 00:16:50 +00:00