hanna c7e006a996 Bug fixes for interval batching in sharding system. Sharding system now batches intervals and passes ... basic tests for small and large intervals and intervals that cross bin boundaries. Currently works only with a single BAM file. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2800 348d0f76-0448-11de-a6fe-93d51630548a		2010-02-05 21:47:54 +00:00
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arguments	Looks bigger than it is:	2010-01-15 00:14:35 +00:00
contexts/variantcontext	fixing up tests. Moves are complete	2010-02-05 14:24:00 +00:00
datasources	Bug fixes for interval batching in sharding system. Sharding system now batches intervals and passes	2010-02-05 21:47:54 +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	Refactoring and migration of new allele/variantcontext/genotype code into oneoffprojects. NOT FOR USE. PlinkRod commented out due to dependence on this new, rapidly changing interface.	2010-01-26 13:53:29 +00:00
traversals	First successful test of new sharding system prototype. Can traverse over reads from a single	2010-01-15 03:35:55 +00:00
walkers	Reverting	2010-02-05 15:57:09 +00:00