fix: Add QNAME in pair identification

samtools · Sep 22, 2017 · 20ad2c9 · 20ad2c9 · yfarjoun · Sep 22, 2017
1 parent 7843453
commit 20ad2c9
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/src/main/java/htsjdk/samtools/SAMRecord.java b/src/main/java/htsjdk/samtools/SAMRecord.java
@@ -338,6 +338,7 @@ private boolean hasReferenceName() {
      */
     public boolean isPair(final SAMRecord record) {
         return record != null
+                && this.getReadName().equals(record.getReferenceName())
                 && this.getMateAlignmentStart() == record.getAlignmentStart()
                 && record.getMateAlignmentStart() == this.getAlignmentStart()
                 && !NO_ALIGNMENT_REFERENCE_NAME.equals(this.getMateReferenceName())