diff --git a/java/src/org/broadinstitute/sting/playground/gatk/walkers/SomaticMutationWalker.java b/java/src/org/broadinstitute/sting/playground/gatk/walkers/SomaticMutationWalker.java index 56b4f7372..e72199b8f 100644 --- a/java/src/org/broadinstitute/sting/playground/gatk/walkers/SomaticMutationWalker.java +++ b/java/src/org/broadinstitute/sting/playground/gatk/walkers/SomaticMutationWalker.java @@ -75,8 +75,8 @@ public class SomaticMutationWalker extends LocusWalker { public int MIN_MUTANT_SUM = 100; - @Argument(fullName = "output_failures", required = false, doc="produce output for failed sites") - public boolean OUTPUT_FAILURES = false; +// @Argument(fullName = "output_failures", required = false, doc="produce output for failed sites") + public boolean OUTPUT_FAILURES = true; public boolean bedOutput = true;