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 // All rights reserved.
   5 // ---------------------------------------------------------------------------
   6 // Last modified: 7 April 2011
   7 // ---------------------------------------------------------------------------
   8 // Prints alignment count for BAM file(s)
   9 // ***************************************************************************
  10
  11 #ifndef BAMTOOLS_COUNT_H
  12 #define BAMTOOLS_COUNT_H
  13
  14 #include "bamtools_tool.h"
  15
  16 namespace BamTools {
  17
  18 class CountTool : public AbstractTool {
  19
  20     public:
  21         CountTool(void);
  22         ~CountTool(void);
  23
  24     public:
  25         int Help(void);
  26         int Run(int argc, char* argv[]);
  27
  28     private:
  29         struct CountSettings;
  30         CountSettings* m_settings;
  31
  32         struct CountToolPrivate;
  33         CountToolPrivate* m_impl;
  34 };
  35
  36 } // namespace BamTools
  37
  38 #endif // BAMTOOLS_COUNT_H