ms_linker_site_vector.hpp

/*
##############################################################################
# file: ms_linker_site_vector.hpp                                            #
# 'msparser' toolkit                                                         #
# A vector of ms_linker_site objects                                         #
##############################################################################
# COPYRIGHT NOTICE                                                           #
# Copyright 1998-2018 Matrix Science Limited  All Rights Reserved.           #
#                                                                            #
##############################################################################
#     $Author: villek@matrixscience.com $ #
#       $Date: 2020-01-23 19:01:43 +0000 $ #
#   $Revision: 319ea315661ca493dc5ff56750ff3ee780e76da0 | MSPARSER_REL_2_8_1-0-gea32989045 $ #
# $NoKeywords::                                                            $ #
##############################################################################
*/

#ifndef MS_LINKERSITEVECTOR_HPP
#define MS_LINKERSITEVECTOR_HPP


// Includes from the standard template library
#include <vector>
#include <list>

namespace matrix_science {
    class ms_linker_site;
}

namespace matrix_science {


    class MS_MASCOTRESFILE_API ms_linker_site_vector
    {
        public:
            ms_linker_site_vector();

#ifndef SWIG

            ms_linker_site_vector(const std::vector<ms_linker_site> &v, const int alphaVarModsLen, const int betaVarModsLen);

            ms_linker_site_vector(const std::list<ms_linker_site> &v, const int alphaVarModsLen, const int betaVarModsLen);
#endif

            ms_linker_site_vector(const ms_linker_site_vector& src);

            ~ms_linker_site_vector();

#ifndef SWIG

            ms_linker_site_vector& operator=(const ms_linker_site_vector& right);
            
            const std::vector<ms_linker_site>& toVector() const;
#endif

            void copyFrom(const ms_linker_site_vector *src);

            void append(const ms_linker_site_vector & src);

            int size() const;

            bool empty() const;

            void push(const ms_linker_site &linkerSite);

            ms_linker_site pop();

            ms_linker_site get(int idx) const;

            void set(int idx, const ms_linker_site &linkerSite);

            void clear();

            void swap(ms_linker_site_vector &right);

            bool containsVarModIdx(int idx) const;

            int getVarModIdxOfLinkedSite(const ms_peptide::PSM psmComponent, const int i) const;

            int getAlphaVarModsStrLength() const;

            int getBetaVarModsStrLength() const;

            void setVarModsStrLengths(const int alphaVarModsLen, const int betaVarModsLen);

            std::string stringify() const;

        private:
            std::vector<ms_linker_site> data_;
            int alphaVarModsLen_, betaVarModsLen_;
    }; // end of resfile_group
}   // matrix_science namespace

#endif // MS_LINKERSITEVECTOR_HPP

/*------------------------------- End of File -------------------------------*/