From f4c06bb4ce175adfdd842b85df40218083f79275 Mon Sep 17 00:00:00 2001
From: ebanks <ebanks@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Tue, 5 Apr 2011 15:11:28 +0000
Subject: [PATCH] Traversal now says 'done with mapped reads' instead of 'done'
 so we don't confuse users when there are a lot of unmapped reads left to
 process.

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5577 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../broadinstitute/sting/gatk/traversals/TraversalEngine.java   | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/traversals/TraversalEngine.java b/java/src/org/broadinstitute/sting/gatk/traversals/TraversalEngine.java
index 2be70585d..359bbe6b3 100755
--- a/java/src/org/broadinstitute/sting/gatk/traversals/TraversalEngine.java
+++ b/java/src/org/broadinstitute/sting/gatk/traversals/TraversalEngine.java
@@ -288,7 +288,7 @@ public abstract class TraversalEngine<M,T,WalkerType extends Walker<M,T>,Provide
 //                    else
 //                        logger.info(String.format("Processing %s", common));
                     logger.info(String.format("%15s        %5.2e %s     %s     %4.1f%%      %s  %s",
-                            loc == null ? "done" : loc, nRecords*1.0, elapsed, unitRate,
+                            loc == null ? "done with mapped reads" : loc, nRecords*1.0, elapsed, unitRate,
                             100*fractionGenomeTargetCompleted, estTotalRuntime, timeToCompletion));
 
                 }