Fixed regression: improper @SQ line ordering in SamHeader output

[bamtools.git] / src / toolkit / bamtools_resolve.cpp

diff --git a/src/toolkit/bamtools_resolve.cpp b/src/toolkit/bamtools_resolve.cpp
index e38ad10d72860f7c59d897ed548ee5903f612789..cb42f5b4243322fbc026c6c2b25610f4b02bf0ed 100644 (file)
--- a/src/toolkit/bamtools_resolve.cpp
+++ b/src/toolkit/bamtools_resolve.cpp
@@ -1,9 +1,8 @@
 // ***************************************************************************
 // bamtools_resolve.cpp (c) 2011
 // Marth Lab, Department of Biology, Boston College
-// All rights reserved.
 // ---------------------------------------------------------------------------
-// Last modified: 6 July 2011
+// Last modified: 14 October 2011
 // ---------------------------------------------------------------------------
 // Resolves paired-end reads (marking the IsProperPair flag as needed).
 // ***************************************************************************
@@ -760,8 +759,8 @@ void ResolveTool::StatsFileWriter::WriteOptions(ResolveTool::ResolveSettings* se
 
     m_stream << OPTIONS_TOKEN << endl
              << OPTION_CONFIDENCEINTERVAL   << EQUAL_CHAR << settings->ConfidenceInterval << endl
-             << OPTION_MINIMUMMAPQUALITY    << EQUAL_CHAR << settings->MinimumMapQuality << endl
              << OPTION_FORCEMARKREADGROUPS  << EQUAL_CHAR << boolalpha << settings->HasForceMarkReadGroups << endl
+             << OPTION_MINIMUMMAPQUALITY    << EQUAL_CHAR << settings->MinimumMapQuality << endl
              << OPTION_UNUSEDMODELTHRESHOLD << EQUAL_CHAR << settings->UnusedModelThreshold << endl
              << endl;
 }