From 234da1cfa68fa6ea6616ffeb293f3a53c4d5388b Mon Sep 17 00:00:00 2001
From: Erik Garrison <erik.garrison@bc.edu>
Date: Wed, 9 Jun 2010 11:46:46 -0400
Subject: [PATCH 1/1] added warning for duplicate @RG tag in header

---
 BamMultiReader.cpp | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/BamMultiReader.cpp b/BamMultiReader.cpp
index 92911c9..e284eca 100644
--- a/BamMultiReader.cpp
+++ b/BamMultiReader.cpp
@@ -249,6 +249,8 @@ const string BamMultiReader::GetHeaderText(void) const {
                     mergedHeader.append(headerLine.c_str() );
                     mergedHeader.append(1, '\n');
                     readGroups[readGroup] = true;
+                } else {
+                    cerr << "WARNING: duplicate @RG tag entry in BAM header " << readGroup << endl;
                 }
             }
 
-- 
2.39.2