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gatk-3.8/java/test/org/broadinstitute/sting/gatk
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ebanks d896d03554 Moving VF to vcf 4.0. Still need to fix genotype filters. 
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3777 348d0f76-0448-11de-a6fe-93d51630548a
 		2010-07-13 11:39:51 +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 Nearly finalize merging capabilities for CombineVariants. Support for dealing with inconsistent indel alleles at loci. Improvements to Allele and removal of addAllele to MutableGenotype. We are close to being able to merge all of 1000 genomes -- snps and indels -- into a single combined vcf 2010-07-02 13:32:33 +00:00
datasources IndexedFastaSequenceFile is now in Picard; transitioning to that implementation. 2010-07-01 04:40:31 +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 IndexedFastaSequenceFile is now in Picard; transitioning to that implementation. 2010-07-01 04:40:31 +00:00
refdata updating unit test for previous fix 2010-07-12 03:23:53 +00:00
traversals IndexedFastaSequenceFile is now in Picard; transitioning to that implementation. 2010-07-01 04:40:31 +00:00
walkers Moving VF to vcf 4.0. Still need to fix genotype filters. 2010-07-13 11:39:51 +00:00