src/toolkit/bamtools_count.h

   1 // ***************************************************************************
   2 // bamtools_count.h (c) 2010 Derek Barnett, Erik Garrison
   3 // Marth Lab, Department of Biology, Boston College
   4 // ---------------------------------------------------------------------------
   5 // Last modified: 7 April 2011
   6 // ---------------------------------------------------------------------------
   7 // Prints alignment count for BAM file(s)
   8 // ***************************************************************************
   9
  10 #ifndef BAMTOOLS_COUNT_H
  11 #define BAMTOOLS_COUNT_H
  12
  13 #include "bamtools_tool.h"
  14
  15 namespace BamTools {
  16
  17 class CountTool : public AbstractTool {
  18
  19     public:
  20         CountTool(void);
  21         ~CountTool(void);
  22
  23     public:
  24         int Help(void);
  25         int Run(int argc, char* argv[]);
  26
  27     private:
  28         struct CountSettings;
  29         CountSettings* m_settings;
  30
  31         struct CountToolPrivate;
  32         CountToolPrivate* m_impl;
  33 };
  34
  35 } // namespace BamTools
  36
  37 #endif // BAMTOOLS_COUNT_H