diff --git a/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/SomaticIndelDetector.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/SomaticIndelDetector.java index b0c09f78e..3965a63fb 100644 --- a/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/SomaticIndelDetector.java +++ b/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/SomaticIndelDetector.java @@ -1181,10 +1181,10 @@ public class SomaticIndelDetector extends ReadWalker { if ( event_length == 0 ) { // insertion l.add( Allele.create(referencePaddingBase,true) ); - l.add( Allele.create(referencePaddingBase + call.getVariant().getBases(), false )); + l.add( Allele.create((char)referencePaddingBase + new String(call.getVariant().getBases()), false )); } else { //deletion: - l.add( Allele.create(referencePaddingBase + call.getVariant().getBases(), true )); + l.add( Allele.create((char)referencePaddingBase + new String(call.getVariant().getBases()), true )); l.add( Allele.create(referencePaddingBase,false) ); } }