diff --git a/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/SomaticIndelDetectorWalker.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/SomaticIndelDetectorWalker.java index 7e8985e03..b2d30235a 100644 --- a/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/SomaticIndelDetectorWalker.java +++ b/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/SomaticIndelDetectorWalker.java @@ -482,6 +482,7 @@ public class SomaticIndelDetectorWalker extends ReadWalker { " Read length="+read.getReadLength()+"; cigar="+read.getCigarString()+"; start="+ read.getAlignmentStart()+"; end="+read.getAlignmentEnd()+ "; window start (after trying to accomodate the read)="+normal_context.getStart()+"; window end="+normal_context.getStop()); + return 1; } }