SequenceSimulator.h

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// SPDX-FileCopyrightText: The Bio++ Development Group
//
// SPDX-License-Identifier: CECILL-2.1
 
#ifndef BPP_PHYL_SIMULATION_SEQUENCESIMULATOR_H
#define BPP_PHYL_SIMULATION_SEQUENCESIMULATOR_H
 
 
// From bpp-core:
#include <Bpp/Clonable.h>
 
// From bpp-seq:
#include <Bpp/Seq/Container/SiteContainer.h>
 
#include "SiteSimulator.h"
 
namespace bpp
{
class SequenceSimulatorInterface :
  public virtual Clonable
{
public:
  SequenceSimulatorInterface() {}
  virtual ~SequenceSimulatorInterface() {}
 
  SequenceSimulatorInterface* clone() const override = 0;
 
public:
  virtual std::unique_ptr<SiteContainerInterface> simulate(size_t numberOfSites) const = 0;
 
  virtual const SiteSimulatorInterface& siteSimulator(size_t pos) const = 0;
 
  virtual std::vector<std::string> getSequenceNames() const = 0;
 
  virtual std::shared_ptr<const Alphabet> getAlphabet() const = 0;
 
  virtual const Alphabet& alphabet() const = 0;
 
  virtual void outputInternalSequences(bool inter) = 0;
};
} // end of namespace bpp.
#endif // BPP_PHYL_SIMULATION_SEQUENCESIMULATOR_H