diff --git a/public/java/src/org/broadinstitute/sting/gatk/walkers/annotator/MVLikelihoodRatio.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/annotator/MVLikelihoodRatio.java index 795c430bf..8da64608f 100755 --- a/public/java/src/org/broadinstitute/sting/gatk/walkers/annotator/MVLikelihoodRatio.java +++ b/public/java/src/org/broadinstitute/sting/gatk/walkers/annotator/MVLikelihoodRatio.java @@ -33,11 +33,8 @@ public class MVLikelihoodRatio extends InfoFieldAnnotation implements Experiment public Map annotate(RefMetaDataTracker tracker, AnnotatorCompatibleWalker walker, ReferenceContext ref, Map stratifiedContexts, VariantContext vc) { if ( mendelianViolation == null ) { - if ( walker instanceof VariantAnnotator) { - if ( ((VariantAnnotator) walker).familyStr != null ) - mendelianViolation = new MendelianViolation(((VariantAnnotator)walker).familyStr, ((VariantAnnotator)walker).minGenotypeQualityP ); - else - return new HashMap(); + if ( walker instanceof VariantAnnotator && ((VariantAnnotator) walker).familyStr != null) { + mendelianViolation = new MendelianViolation(((VariantAnnotator)walker).familyStr, ((VariantAnnotator)walker).minGenotypeQualityP ); } else { throw new UserException("Mendelian violation annotation can only be used from the Variant Annotator");