From c71a4e1832edf1283ac7484742b12644f07745ae Mon Sep 17 00:00:00 2001
From: Andrey Sivachenko <asivache@broadinstitute.org>
Date: Tue, 16 Aug 2011 13:40:35 -0400
Subject: [PATCH] this is a bug fix; reverting in unstable and pushing from
 stable instead

---
 .../broadinstitute/sting/utils/sam/NWaySAMFileWriter.java    | 5 -----
 1 file changed, 5 deletions(-)

diff --git a/public/java/src/org/broadinstitute/sting/utils/sam/NWaySAMFileWriter.java b/public/java/src/org/broadinstitute/sting/utils/sam/NWaySAMFileWriter.java
index 70417889b..3718345a4 100644
--- a/public/java/src/org/broadinstitute/sting/utils/sam/NWaySAMFileWriter.java
+++ b/public/java/src/org/broadinstitute/sting/utils/sam/NWaySAMFileWriter.java
@@ -135,11 +135,6 @@ public class NWaySAMFileWriter implements SAMFileWriter {
     
     public void addAlignment(SAMRecord samRecord) {
         final SAMReaderID id = toolkit.getReaderIDForRead(samRecord);
-        String rg = samRecord.getStringAttribute("RG");
-        if ( rg != null ) {
-            String rg_orig = toolkit.getReadsDataSource().getOriginalReadGroupId(rg);
-            samRecord.setAttribute("RG",rg_orig);
-        }
         writerMap.get(id).addAlignment(samRecord);
     }