From 2a04e0d378f00b30cba104f5c444d313ab158501 Mon Sep 17 00:00:00 2001
From: asivache <asivache@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Mon, 7 Feb 2011 17:08:50 +0000
Subject: [PATCH] Explicitly set logger's level to info - otherwise samtools is
 too chatty

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5209 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../src/org/broadinstitute/sting/playground/tools/SortROD.java | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

diff --git a/java/src/org/broadinstitute/sting/playground/tools/SortROD.java b/java/src/org/broadinstitute/sting/playground/tools/SortROD.java
index 229d3be60..3516863ef 100644
--- a/java/src/org/broadinstitute/sting/playground/tools/SortROD.java
+++ b/java/src/org/broadinstitute/sting/playground/tools/SortROD.java
@@ -43,7 +43,6 @@ import java.io.*;
 import java.util.*;
 
 import net.sf.samtools.util.SortingCollection;
-import net.sf.samtools.SAMSequenceDictionary;
 import net.sf.picard.reference.ReferenceSequenceFile;
 import net.sf.picard.reference.ReferenceSequenceFileFactory;
 
@@ -69,7 +68,7 @@ public class SortROD {
      */
     public static void main(String[] args) {
         BasicConfigurator.configure();
-
+        logger.setLevel(org.apache.log4j.Level.INFO);
         // check yourself before you wreck yourself - we require one arg, the input file
         if (args.length != 3 )
             printUsage();