IoSequenceFactory.h

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// SPDX-FileCopyrightText: The Bio++ Development Group
//
// SPDX-License-Identifier: CECILL-2.1
 
#ifndef BPP_SEQ_IO_IOSEQUENCEFACTORY_H
#define BPP_SEQ_IO_IOSEQUENCEFACTORY_H
 
 
#include "../Alphabet/Alphabet.h"
#include "ISequence.h"
#include "OSequence.h"
 
namespace bpp
{
class IoSequenceFactory
{
public:
  static const std::string FASTA_FORMAT;
  static const std::string MASE_FORMAT;
  static const std::string CLUSTAL_FORMAT;
  static const std::string DCSE_FORMAT;
  static const std::string PHYLIP_FORMAT_INTERLEAVED;
  static const std::string PHYLIP_FORMAT_SEQUENTIAL;
  static const std::string PAML_FORMAT_INTERLEAVED;
  static const std::string PAML_FORMAT_SEQUENTIAL;
  static const std::string GENBANK_FORMAT;
  static const std::string NEXUS_FORMAT;
 
public:
  IoSequenceFactory() {}
  virtual ~IoSequenceFactory() {}
 
  virtual std::unique_ptr<ISequence> createReader(const std::string& format);
 
  virtual std::unique_ptr<IAlignment> createAlignmentReader(const std::string& format);
 
  virtual std::unique_ptr<OSequence> createWriter(const std::string& format);
 
  virtual std::unique_ptr<OAlignment> createAlignmentWriter(const std::string& format);
};
} // end of namespace bpp.
#endif // BPP_SEQ_IO_IOSEQUENCEFACTORY_H