diff --git a/java/src/org/broadinstitute/sting/playground/gatk/walkers/variantoptimizer/AnnotationDataManager.java b/java/src/org/broadinstitute/sting/playground/gatk/walkers/variantoptimizer/AnnotationDataManager.java index 8c8ecf599..bcedfc156 100755 --- a/java/src/org/broadinstitute/sting/playground/gatk/walkers/variantoptimizer/AnnotationDataManager.java +++ b/java/src/org/broadinstitute/sting/playground/gatk/walkers/variantoptimizer/AnnotationDataManager.java @@ -61,7 +61,7 @@ public class AnnotationDataManager { } // else, process all samples // Loop over each annotation in the vcf record - final Map infoField = vc.getAttributes(); + final Map infoField = new HashMap(vc.getAttributes()); infoField.put("QUAL", ((Double)vc.getPhredScaledQual()).toString() ); // add QUAL field to annotations for( Map.Entry annotation : infoField.entrySet() ) {