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src/sam/record.jl

@@ -321,16 +321,16 @@ function alignlength(record::Record)::Int
     len = 0  # operation length
     for i in record.cigar
         c = record.data[i]
-        if c ∈ UInt8('0'):UInt8('9')
+        if in(c, UInt8('0'):UInt8('9'))
             len = len * 10 + (c - UInt8('0'))
-        else
+            continue
+        end
         op = convert(BioAlignments.Operation, Char(c))
-            if BioAlignments.ismatchop(op) || BioAlignments.isdeleteop(op)
+        if BioAlignments.ismatchop(op) || BioAlignments.isdeleteop(op) #Note: reference consuming ops ('M', 'D', 'N', '=', 'X').
             ret += len
         end
         len = 0
     end
-    end
     return ret
 end