WeightedSubstitutionCount.h

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// SPDX-FileCopyrightText: The Bio++ Development Group
//
// SPDX-License-Identifier: CECILL-2.1
 
#ifndef BPP_PHYL_MAPPING_WEIGHTEDSUBSTITUTIONCOUNT_H
#define BPP_PHYL_MAPPING_WEIGHTEDSUBSTITUTIONCOUNT_H
 
 
#include "SubstitutionCount.h"
 
// From bpp-seq:
#include <Bpp/Seq/Alphabet/Alphabet.h>
#include <Bpp/Seq/AlphabetIndex/AlphabetIndex2.h>
 
namespace bpp
{
class WeightedSubstitutionCount :
  public virtual SubstitutionCountInterface
{
public:
  virtual void setWeights(std::shared_ptr<const AlphabetIndex2> index) = 0;
  virtual bool hasWeights() const = 0;
  virtual std::shared_ptr<const AlphabetIndex2> getWeights() const = 0;
};
 
class AbstractWeightedSubstitutionCount :
  public virtual WeightedSubstitutionCount
{
protected:
  std::shared_ptr<const AlphabetIndex2> weights_;
 
public:
  AbstractWeightedSubstitutionCount(std::shared_ptr<const AlphabetIndex2> weights) :
    weights_(weights)
  {}
 
  AbstractWeightedSubstitutionCount(const AbstractWeightedSubstitutionCount& index) :
    weights_(index.weights_)
  {}
 
  AbstractWeightedSubstitutionCount& operator=(const AbstractWeightedSubstitutionCount& index)
  {
    weights_ = index.weights_;
 
    return *this;
  }
 
  virtual ~AbstractWeightedSubstitutionCount()
  {}
 
public:
  void setWeights(std::shared_ptr<const AlphabetIndex2> weights);
  bool hasWeights() const { return weights_.get() != 0; }
  std::shared_ptr<const AlphabetIndex2> getWeights() const { return weights_; }
 
protected:
  virtual void weightsHaveChanged() = 0;
};
} // end of namespace bpp.
#endif // BPP_PHYL_MAPPING_WEIGHTEDSUBSTITUTIONCOUNT_H