sequence.hh

#ifndef LOCARNA_SEQUENCE_HH
#define LOCARNA_SEQUENCE_HH
 
#ifdef HAVE_CONFIG_H
#include <config.h>
#endif
 
#include <vector>
#include "multiple_alignment.hh"
 
namespace LocARNA {
 
    class Sequence : public MultipleAlignment {
    public:
 
        Sequence() : MultipleAlignment() {}
 
        Sequence(const std::string &name, const std::string &sequence)
            : MultipleAlignment(name, sequence) {}
 
        static
        Sequence &
        view(MultipleAlignment &ma) {
            return static_cast<Sequence &>(ma);
        }
 
        static
        const Sequence &
        view(const MultipleAlignment &ma) {
            return static_cast<const Sequence &>(ma);
        }
 
        AliColumn
        operator[](size_type col_index) const {
            return column(col_index);
        }
 
        std::vector<std::string>
        names() const;
    };
 
} // end namespace LocARNA
 
#endif