diff --git a/java/src/org/broadinstitute/sting/queue/extensions/gatk/RodBindField.java b/java/src/org/broadinstitute/sting/queue/extensions/gatk/RodBindField.java index b98b2aa91..ea180d33c 100644 --- a/java/src/org/broadinstitute/sting/queue/extensions/gatk/RodBindField.java +++ b/java/src/org/broadinstitute/sting/queue/extensions/gatk/RodBindField.java @@ -64,9 +64,13 @@ public class RodBindField extends ArgumentField { @Override protected boolean isRequired() { return this.isRequired; } @Override public String getCommandLineAddition() { + // TODO: Stop allowing the generic "rodBind" triplets to satisfy the requirement after @Requires are fixed. + return String.format(" + optional(\" -B:%s,%s \", %s)", + /* return String.format(this.useOption() ? " + optional(\" -B:%s,%s \", %s)" : " + \" -B:%s,%s \" + %s", + */ this.trackName, this.typeName, getFieldName()); }