From cb8d4c97e119bd76b382dcb5cc69277700456897 Mon Sep 17 00:00:00 2001
From: Mauricio Carneiro <carneiro@broadinstitute.org>
Date: Tue, 25 Sep 2012 17:13:50 -0400
Subject: [PATCH] First implementation of a generic 'bundled' Data Processing
 Pipeline for germline and cancer.

not ready for prime time yet!
---
 .../src/org/broadinstitute/sting/queue/util/QScriptUtils.scala | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/public/scala/src/org/broadinstitute/sting/queue/util/QScriptUtils.scala b/public/scala/src/org/broadinstitute/sting/queue/util/QScriptUtils.scala
index 1529d9951..f684e533f 100644
--- a/public/scala/src/org/broadinstitute/sting/queue/util/QScriptUtils.scala
+++ b/public/scala/src/org/broadinstitute/sting/queue/util/QScriptUtils.scala
@@ -57,7 +57,8 @@ object QScriptUtils {
     for (file <- fromFile(in).getLines())
       if (!file.startsWith("#") && !file.isEmpty )
         list :+= new File(file.trim())
-    list.sortWith(_.compareTo(_) < 0)
+//    list.sortWith(_.compareTo(_) < 0)
+    list
   }
 
   /**