main page namespaces classes files
BIU home

src/biu/AllowedBasePairs.hh

Go to the documentation of this file.

#ifndef ALLOWEDBASEPAIRS_HH_
#define ALLOWEDBASEPAIRS_HH_


#include <set>
#include "Alphabet.hh"

namespace biu
{
    class AllowedBasePairs {
    private:
        typedef std::pair<Alphabet::AlphElem, Alphabet::AlphElem> BPair;
        
        std::set< BPair > allowedBasePairSet;
        
        const Alphabet* alph;
        
    public:
        AllowedBasePairs(const Alphabet* _alph, const std::string& bps);
        
        ~AllowedBasePairs();

        bool operator== (const AllowedBasePairs& abp2) const;
        bool operator!= (const AllowedBasePairs& abp2) const;
        
        bool allowedBasePair(   const Alphabet::AlphElem& first,
                                const Alphabet::AlphElem& second) const;
                                
        const Alphabet* getAlphabet() const;
        
    };  


} // namespace biu

#include "AllowedBasePairs.icc"

#endif /*ALLOWEDBASEPAIRS_HH_*/