sbml/SbmlWriter.h

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/*******************************************************************
 * File:            SbmlWriter.h
 * Description:      
 * Author:          
 * E-mail:          
 ********************************************************************/
/**********************************************************************
** This program is part of 'MOOSE', the
** Messaging Object Oriented Simulation Environment,
** also known as GENESIS 3 base code.
**           copyright (C) 2003-2007 Upinder S. Bhalla. and NCBS
** It is made available under the terms of the
** GNU Lesser General Public License version 2.1
** See the file COPYING.LIB for the full notice.
**********************************************************************/

#ifndef _SBMLWRITER_H
#define _SBMLWRITER_H
#ifdef USE_SBML
#include <sbml/SBMLTypes.h>

class SbmlWriter
{
        
    public:
        SbmlWriter() {;}
        ~SbmlWriter() {;}
        int write( string filename, string location );
#ifdef USE_SBML
        void createModel( string filename, SBMLDocument& doc ,string target);
        bool validateModel(SBMLDocument* sbmlDoc );
        bool writeModel( const SBMLDocument* sbmlDoc, const string& filename );
         
    private:
        vector < string >nameList_;
        Model* cremodel_;   
        string nameString( string str );
        string nameString1( string str );
        string changeName( string parent,string child );
        string idBeginWith(string name );
        string cleanNameId( Id itrid,int index);
        string parmUnit( double rct_order );
        void getSubPrd(Reaction* rec,string type,string enztype,Id itrRE, int index,ostringstream& rate_law,double &rct_order,bool w, string re_enClass);
        void getModifier(ModifierSpeciesReference* mspr,vector < Id> mod, int index,ostringstream& rate_law,double &rct_order,bool w);
        void printParameters( KineticLaw* kl,string k,double kvalue,string unit );
        string findNotes(Id itr);
        string getGroupinfo(Id itr);
#endif
};
//extern const Cinfo* initCinfo();
#endif //USE_SBML
#endif // _SBMLWRITER_H

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