YNGP_M.h

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// SPDX-FileCopyrightText: The Bio++ Development Group
//
// SPDX-License-Identifier: CECILL-2.1
 
#ifndef BPP_PHYL_MODEL_CODON_YNGP_M_H
#define BPP_PHYL_MODEL_CODON_YNGP_M_H
 
#include <Bpp/Seq/GeneticCode/GeneticCode.h>
 
#include "../AbstractBiblioMixedTransitionModel.h"
#include "../FrequencySet/CodonFrequencySet.h"
#include "../MixtureOfASubstitutionModel.h"
 
namespace bpp
{
class YNGP_M :
  public AbstractBiblioMixedTransitionModel,
  public virtual TransitionModelInterface
{
protected:
  const MixtureOfASubstitutionModel* mixedSubModelPtr_;
 
  size_t synfrom_, synto_;
 
public:
  YNGP_M(const std::string& name) :
    AbstractBiblioMixedTransitionModel(name),
    mixedSubModelPtr_(),
    synfrom_(),
    synto_()
  {}
 
  YNGP_M(const YNGP_M& mod2) :
    AbstractBiblioMixedTransitionModel(mod2),
    mixedSubModelPtr_(),
    synfrom_(mod2.synfrom_),
    synto_(mod2.synto_)
  {
    mixedSubModelPtr_ = dynamic_cast<const MixtureOfASubstitutionModel*>(&mixedModel());
  }
 
  virtual YNGP_M* clone() const override = 0;
 
  YNGP_M& operator=(const YNGP_M& mod2)
  {
    AbstractBiblioMixedTransitionModel::operator=(mod2);
 
    mixedSubModelPtr_ = dynamic_cast<const MixtureOfASubstitutionModel*>(&mixedModel());
 
    synfrom_ = mod2.synfrom_;
    synto_ = mod2.synto_;
 
    return *this;
  }
};
} // end of namespace bpp.
#endif // BPP_PHYL_MODEL_CODON_YNGP_M_H