• Throw exception in MergeBamAlignments if UNMAPPED_BAM has mapped reads (#1394)
• Order the MarkDuplicatesMetric file (#1398)
• Remove unnecessary import of com.sun.xml.internal class (#1401)
• Propagate errors from threads and add error logging (#1393)
• Fixes a bug in the determination of the distance to the second nearest barcode. (#1395)
• • typo (#1392)
• Revert UpdateVcfSequenceDictionary handles stdout logic and repair test