Mark DePristo a783f19ab1 Fix for potential HaplotypeCaller bug in annotation ordering ... -- Annotations were being called on VariantContext that might needed to be trimmed. Simply inverted the order of operations so trimming occurs before the annotations are added. -- Minor cleanup of call to PairHMM in LikelihoodCalculationEngine		2013-03-20 22:54:35 -04:00
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src/org/broadinstitute/sting	Fix for potential HaplotypeCaller bug in annotation ordering	2013-03-20 22:54:35 -04:00
test/org/broadinstitute/sting	Merge pull request #120 from broadinstitute/aw_reduce_reads_clear_name_cache	2013-03-20 19:47:42 -07:00