// Marth Lab, Department of Biology, Boston College
// All rights reserved.
// ---------------------------------------------------------------------------
-// Last modified: 7 September 2010
+// Last modified: 19 November 2010
// ---------------------------------------------------------------------------
// Parses command line arguments and creates a help menu
// ---------------------------------------------------------------------------
// * (BamTools namespace, added stdin/stdout) (DB)
// ***************************************************************************
-#include "bamtools_options.h"
+#include <utils/bamtools_options.h>
+using namespace BamTools;
+
#include <cstdio>
#include <cstdlib>
#include <cstring>
#include <iomanip>
#include <sstream>
using namespace std;
-using namespace BamTools;
string Options::m_programName; // the program name
string Options::m_description; // the main description