src/toolkit/bamtools_coverage.h

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