From 96db1477d4ddabf836dbd926bed1aa04fa75965a Mon Sep 17 00:00:00 2001
From: kiran <kiran@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Thu, 23 Apr 2009 17:46:08 +0000
Subject: [PATCH] I meant for default lod threshold to be 5.0, not 0.0.

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@507 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../sting/playground/gatk/walkers/SingleSampleGenotyper.java    | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/playground/gatk/walkers/SingleSampleGenotyper.java b/java/src/org/broadinstitute/sting/playground/gatk/walkers/SingleSampleGenotyper.java
index e11ad1341..f2df6f908 100644
--- a/java/src/org/broadinstitute/sting/playground/gatk/walkers/SingleSampleGenotyper.java
+++ b/java/src/org/broadinstitute/sting/playground/gatk/walkers/SingleSampleGenotyper.java
@@ -21,7 +21,7 @@ public class SingleSampleGenotyper extends LocusWalker<AlleleFrequencyEstimate,
     @Argument(fullName="metrics",required=true)
     public String metricsFileName;
 
-    @Argument(fullName="lodThreshold",shortName="lod",required=false,defaultValue="0.0")
+    @Argument(fullName="lodThreshold",shortName="lod",required=false,defaultValue="5.0")
     public Double lodThreshold;
 
     @Argument(fullName="fourBaseMode",required=false,defaultValue="false")