BppOAlignmentReaderFormat.h

Go to the documentation of this file.

// SPDX-FileCopyrightText: The Bio++ Development Group
//
// SPDX-License-Identifier: CECILL-2.1
 
#ifndef BPP_SEQ_IO_BPPOALIGNMENTREADERFORMAT_H
#define BPP_SEQ_IO_BPPOALIGNMENTREADERFORMAT_H
 
 
#include "IoSequenceFactory.h"
 
namespace bpp
{
class BppOAlignmentReaderFormat :
  public virtual IOFormat
{
private:
  std::map<std::string, std::string> unparsedArguments_;
  int warningLevel_;
 
public:
  BppOAlignmentReaderFormat(int warningLevel) :
    unparsedArguments_(), warningLevel_(warningLevel) {}
  virtual ~BppOAlignmentReaderFormat() {}
 
public:
  const std::string getFormatName() const { return "BppO"; }
 
  const std::string getFormatDescription() const { return "Bpp Options format."; }
 
  const std::string getDataType() const { return "Alignment reader"; }
 
  std::unique_ptr<IAlignment> read(const std::string& description);
 
  std::unique_ptr<IProbabilisticAlignment> readProbabilistic(const std::string& description);
 
  virtual const std::map<std::string, std::string>& getUnparsedArguments() const { return unparsedArguments_; }
};
} // end of namespace bpp.
#endif // BPP_SEQ_IO_BPPOALIGNMENTREADERFORMAT_H