Mark DePristo f5a301fb63 Bugfix for AlignmentUtils.trimCigarByBases ... -- Previous version would trim down 2M2D2M into 2M if you asked for the first 2 bases, but this can result in incorrect alignment of the bases to the reference as the bases no longer span the full reference interval expected. Fixed and added unit tests		2013-05-03 09:32:05 -04:00
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net/sf/samtools	Delete unused FastaSequenceIndexBuilder class and accompanying test	2013-05-01 01:02:01 -04:00
org/broadinstitute/sting	Bugfix for AlignmentUtils.trimCigarByBases	2013-05-03 09:32:05 -04:00