From aab160372a63bcca13c8e8740f0351a3cf5b164a Mon Sep 17 00:00:00 2001
From: Ryan Poplin <rpoplin@broadinstitute.org>
Date: Mon, 28 Jan 2013 11:26:01 -0500
Subject: [PATCH] No need to sort the BQSR tables by default.

---
 .../broadinstitute/sting/utils/recalibration/RecalUtils.java    | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/protected/java/src/org/broadinstitute/sting/utils/recalibration/RecalUtils.java b/protected/java/src/org/broadinstitute/sting/utils/recalibration/RecalUtils.java
index e8fc713f1..34aa5abc7 100644
--- a/protected/java/src/org/broadinstitute/sting/utils/recalibration/RecalUtils.java
+++ b/protected/java/src/org/broadinstitute/sting/utils/recalibration/RecalUtils.java
@@ -310,7 +310,7 @@ public class RecalUtils {
                 if(sortByCols) {
                     reportTable = new GATKReportTable("RecalTable" + reportTableIndex++, "", columnNames.size(), GATKReportTable.TableSortingWay.SORT_BY_COLUMN);
                 } else {
-                    reportTable = new GATKReportTable("RecalTable" + reportTableIndex++, "", columnNames.size());
+                    reportTable = new GATKReportTable("RecalTable" + reportTableIndex++, "", columnNames.size(), GATKReportTable.TableSortingWay.DO_NOT_SORT);
                 }
                 for (final Pair<String, String> columnName : columnNames)
                     reportTable.addColumn(columnName.getFirst(), columnName.getSecond());