From be2f8478c03eee2d93220f7bcd4e9d13688ee8b1 Mon Sep 17 00:00:00 2001 From: kcibul Date: Fri, 3 Jul 2009 15:19:37 +0000 Subject: [PATCH] added supression of failure messages git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1164 348d0f76-0448-11de-a6fe-93d51630548a --- .../playground/gatk/walkers/cancer/SomaticMutationWalker.java | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/java/src/org/broadinstitute/sting/playground/gatk/walkers/cancer/SomaticMutationWalker.java b/java/src/org/broadinstitute/sting/playground/gatk/walkers/cancer/SomaticMutationWalker.java index 1ef437a77..2cf2626b1 100644 --- a/java/src/org/broadinstitute/sting/playground/gatk/walkers/cancer/SomaticMutationWalker.java +++ b/java/src/org/broadinstitute/sting/playground/gatk/walkers/cancer/SomaticMutationWalker.java @@ -47,8 +47,8 @@ public class SomaticMutationWalker extends LocusWalker { public float SKEW_LOD_THRESHOLD = 1.5f; -// @Argument(fullName = "output_failures", required = false, doc="produce output for failed sites") - public boolean OUTPUT_FAILURES = true; + @Argument(fullName = "output_failures", required = false, doc="produce output for failed sites") + public boolean OUTPUT_FAILURES = false; @Argument(fullName = "output_format", shortName = "s3", required = true, doc="Format of output: bed or maf") public String OUTPUT_FORMAT;