From: Alec Wysoker
Picard release 1.77
10 September 2012
- CleanSam.java: Add additional clean-up: set MAPQ to 0 if a read is
- MergeBamAlignment.java: Add option ALIGNER_PROPER_PAIR_FLAGS to
MergeBamAlignment to tell it to keep the aligner's notion of proper pair
flag rather than overwriting it with MergeBamAlignment's notion.