Eric Banks 1f23d99dfa If we are subsetting alleles in the UG (either because there were too many or because some were not polymorphic), then we may need to trim the alleles (because the original VariantContext may have had to pad at the end). Thanks to Ryan for reporting this. Only one of the integration tests had even partially covered this case, so I added one that did.		2012-04-20 17:00:05 -04:00
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net/sf	Fix serious engine bug that could cause reads to be dropped under certain circumstances	2012-02-13 16:25:21 -05:00
org/broadinstitute/sting	If we are subsetting alleles in the UG (either because there were too many or because some were not polymorphic), then we may need to trim the alleles (because the original VariantContext may have had to pad at the end). Thanks to Ryan for reporting this. Only one of the integration tests had even partially covered this case, so I added one that did.	2012-04-20 17:00:05 -04:00