ms_libraryoptions.hpp

/*
##############################################################################
# file: ms_parserule.hpp                                                     #
# 'msparser' toolkit                                                         #
# Represents LibraryOptions section of mascot.dat file                       #
##############################################################################
# COPYRIGHT NOTICE                                                           #
# Copyright 1998-2016 Matrix Science Limited  All Rights Reserved.           #
#                                                                            #
##############################################################################
#    $Archive:: /Mowse/ms_mascotresfile/include/ms_parserule.hpp           $ #
#     $Author: villek@matrixscience.com $ #
#       $Date: 2018-07-30 16:23:53 +0100 $ #
#   $Revision: 1b450440f9c97e1e41d0fc6016a27d68951d4532 | MSPARSER_REL_2_8_1-0-gea32989045 $ #
# $NoKeywords::                                                            $ #
##############################################################################
*/

#ifndef MS_LIBRARYOPTIONS_HPP
#define MS_LIBRARYOPTIONS_HPP



#include <string>
#include <map>

namespace matrix_science {


    class MS_MASCOTRESFILE_API ms_libraryoptions : public ms_customproperty
    {
        friend class ms_datfile;
    public:
        ms_libraryoptions();

        ms_libraryoptions(const ms_libraryoptions& src);

        ~ms_libraryoptions();
        
        void defaultValues();

        void copyFrom(const ms_libraryoptions* right);

#ifndef SWIG

        ms_libraryoptions& operator=(const ms_libraryoptions& right);
#endif


        bool isSectionAvailable() const;

        void setSectionAvailable(const bool value);

        double getToleranceInPPM(const char * spectralLibraryName) const;

        void setToleranceInPPM(const char * spectralLibraryName, double tolerance);

        double getToleranceInDa(const char * spectralLibraryName) const;

        void setToleranceInDa(const char * spectralLibraryName, double tolerance);

        std::string getReferenceFasta(const char * spectralLibraryName) const;

        std::string getReferenceFastaTaxonomyTitle(const char * spectralLibraryName) const;

        void setReferenceFasta(const char * spectralLibraryName, const char * fastaDatabaseName, const char * taxonomyTitle);

        void dropSpectralLibrary(const char * spectralLibraryName);

        int getNumberOfLibraries() const;

        std::string getLibraryName(const int num) const;

#ifdef SUPPRESS_MS_CUSTOMPROPERTY_INHERITANCE
#include "suppress_ms_customproperty.hpp"
#endif

    private:
        bool sectionAvailable_;
        struct sl_info_t {
        public:
            std::string referenceFastaDB;
            std::string referenceFastaTaxonomyTitle;
            double tolInPPM;
            double tolInDa;
        };
        typedef std::map<std::string, sl_info_t> slInfoMap_t;
        slInfoMap_t slInfoMap_;
    }; // end of config_group
} // namespace matrix_science

#endif // MS_LIBRARYOPTIONS_HPP

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