Closed bolosky closed 2 years ago
The alternate form of CIGAR strings that you get by using -= (where identical bases have an = CIGAR code and SNVs have an X rather than both being included in M) causes CIGAR string validation to fail when writing SAM output (but not BAM).
Fixed in 2.0.1
The alternate form of CIGAR strings that you get by using -= (where identical bases have an = CIGAR code and SNVs have an X rather than both being included in M) causes CIGAR string validation to fail when writing SAM output (but not BAM).