From 6033ea3962a4e59c8e497b9151c09dad29078ada Mon Sep 17 00:00:00 2001
From: tfenne <tfenne@tfenne.com>
Date: Mon, 9 Jan 2017 16:24:41 -0500
Subject: [PATCH] Fix sorting of lifted intervals in LiftOverIntervalList

---
 src/main/java/picard/util/LiftOverIntervalList.java | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

diff --git a/src/main/java/picard/util/LiftOverIntervalList.java b/src/main/java/picard/util/LiftOverIntervalList.java
index 5d5f3f8dc..a78a4da7b 100644
--- a/src/main/java/picard/util/LiftOverIntervalList.java
+++ b/src/main/java/picard/util/LiftOverIntervalList.java
@@ -120,8 +120,7 @@ protected int doWork() {
             }
         }
 
-        toIntervals.sorted();
-        toIntervals.write(OUTPUT);
+        toIntervals.sorted().write(OUTPUT);
         return anyFailed ? 1 : 0;
     }
 }