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gatk-3.8/java/test/org/broadinstitute/sting/gatk
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aaron 32f324a009 incremental changes to the VCF4 codec, including allele clipping down to the minimum reference allele; adding unit testing for certain aspects of the parsing. Not ready for prime-time yet. 
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3604 348d0f76-0448-11de-a6fe-93d51630548a
 		2010-06-22 06:31:05 +00:00
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arguments Experimental versions of downsampler and Ryan's deduper are now available either 2010-05-19 05:40:05 +00:00
contexts/variantcontext JEXL2 upgrade. Improvements to JEXL processing including dynamically resolving variable -> value bindings instead of up front adding them to a map. Performance improvements and code cleanup throughout. 2010-06-07 00:33:02 +00:00
datasources Merging the sharding-specific inherited classes down into the base. 2010-06-17 22:36:13 +00:00
executive 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
filters 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
io 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
iterators First pass at eliminating the old sharding system. Classes required for the original sharding system 2010-06-17 20:17:31 +00:00
refdata incremental changes to the VCF4 codec, including allele clipping down to the minimum reference allele; adding unit testing for certain aspects of the parsing. Not ready for prime-time yet. 2010-06-22 06:31:05 +00:00
traversals Merging the sharding-specific inherited classes down into the base. 2010-06-17 22:36:13 +00:00
walkers Switching over DownsamplingLocusIteratorByState -> LocusIteratorByState. Some operations 2010-06-21 02:11:42 +00:00