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: robertog@matrixscience.com $ #
#       $Date: 2023-04-14 15:33:41 +0100 $ #
#   $Revision: 316087dfcebe5f2dc18d1f35fd47c9d25ab4322d | MSPARSER_REL_3_0_0-2024-09-24-0-g93ebaeb4f4 $ #
# $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_;
    };
 
#ifndef SWIG
    std::ostream& operator<<(std::ostream& out, const ms_linker_site_vector& v);
#endif
 // end of resfile_group
}   // matrix_science namespace
 
#endif // MS_LINKERSITEVECTOR_HPP
 
/*------------------------------- End of File -------------------------------*/