virtual_niche.hh

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#ifndef _VIRTUALNICHEHH_
#define _VIRTUALNICHEHH_

#include <openmodeller/om.hh>

/************************************************************/
/*********************** VirtualNiche ***********************/

class VirtualNicheGenerator : public AlgorithmImpl
{
public:

  VirtualNicheGenerator();
  ~VirtualNicheGenerator();

  int initialize();
  int iterate();
  int done() const;

  Scalar getValue( const Sample& x ) const;
  int    getConvergence( Scalar * const val ) const;

protected:
  virtual void _getConfiguration( ConfigurationPtr& ) const;
  virtual void _setConfiguration( const ConstConfigurationPtr & );

private:

  void dump();

  // Probability density function for a Gaussian distribution
  Scalar pdf(Scalar avg, Scalar std, Scalar val) const;

  bool _done;  

  OccurrencesPtr _background;
  int _num_background;

  Sample _minimum;   
  Sample _maximum;   
  Sample _mean;      
  Sample _std;       
  Sample _scale;     
  Scalar _threshold; 
  Scalar _std_factor;
};


#endif //VIRTUALNICHEHH