PhylipDistanceMatrixFormat.h

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// SPDX-FileCopyrightText: The Bio++ Development Group
//
// SPDX-License-Identifier: CECILL-2.1
 
#ifndef BPP_PHYL_IO_PHYLIPDISTANCEMATRIXFORMAT_H
#define BPP_PHYL_IO_PHYLIPDISTANCEMATRIXFORMAT_H
 
 
#include "IoDistanceMatrix.h"
 
namespace bpp
{
class PhylipDistanceMatrixFormat :
  public AbstractIDistanceMatrix,
  public AbstractODistanceMatrix
{
private:
  bool extended_;
 
public:
  PhylipDistanceMatrixFormat(bool extended = false) : extended_(extended) {}
  virtual ~PhylipDistanceMatrixFormat() {}
 
public:
  const std::string getFormatName() const { return "Phylip"; }
 
  const std::string getFormatDescription() const {  return "Multiline space-delimited columns."; }
 
  std::unique_ptr<DistanceMatrix> readDistanceMatrix(const std::string& path) const
  {
    return AbstractIDistanceMatrix::readDistanceMatrix(path);
  }
 
  std::unique_ptr<DistanceMatrix> readDistanceMatrix(std::istream& in) const;
 
  void writeDistanceMatrix(const DistanceMatrix& dist, const std::string& path, bool overwrite = true) const
  {
    AbstractODistanceMatrix::writeDistanceMatrix(dist, path, overwrite);
  }
 
  void writeDistanceMatrix(const DistanceMatrix& dist, std::ostream& out) const;
};
} // end of namespace bpp.
#endif // BPP_PHYL_IO_PHYLIPDISTANCEMATRIXFORMAT_H