diff --git a/public/java/src/org/broadinstitute/sting/utils/sam/ArtificialSAMUtils.java b/public/java/src/org/broadinstitute/sting/utils/sam/ArtificialSAMUtils.java index 2dcdd5ce6..b6b671360 100755 --- a/public/java/src/org/broadinstitute/sting/utils/sam/ArtificialSAMUtils.java +++ b/public/java/src/org/broadinstitute/sting/utils/sam/ArtificialSAMUtils.java @@ -146,7 +146,7 @@ public class ArtificialSAMUtils { if( (refIndex == SAMRecord.NO_ALIGNMENT_REFERENCE_INDEX && alignmentStart != SAMRecord.NO_ALIGNMENT_START) || (refIndex != SAMRecord.NO_ALIGNMENT_REFERENCE_INDEX && alignmentStart == SAMRecord.NO_ALIGNMENT_START) ) throw new ReviewedStingException("Invalid alignment start for artificial read, start = " + alignmentStart); - SAMRecord record = new SAMRecord(header); + SAMRecord record = new GATKSamRecord(header); record.setReadName(name); record.setReferenceIndex(refIndex); record.setAlignmentStart(alignmentStart);