biophysics/MarkovGslSolver.h

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/**********************************************************************
** This program is part of 'MOOSE', the
** Messaging Object Oriented Simulation Environment.
**           Copyright (C) 2003-2011 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 _MARKOVGSLSOLVER_H
#define _MARKOVGSLSOLVER_H

// Class : MarkovGslSolver
// Author : Vishaka Datta S, 2011, NCBS.
//
// The GslIntegrator class in ksolve deals with a system whose coefficients stay
// constant. In the case of a Markov channel, the coefficients of the system
// vary with time. 
//
// This makes it necessary for the system to keep track of changes in the system
// matrix, which is implemented by the message handler. 

class MarkovGslSolver
{
    public:
        MarkovGslSolver();
        ~MarkovGslSolver();

// Field function definitions
        bool getIsInitialized() const;
        string getMethod() const;
        void setMethod( string method );
        double getRelativeAccuracy() const;
        void setRelativeAccuracy( double value );
        double getAbsoluteAccuracy() const;
        void setAbsoluteAccuracy( double value );
        double getInternalDt() const;
        void setInternalDt( double value );

// Dest function definitions

        void process( const Eref& e, ProcPtr info );
        void reinit( const Eref& e, ProcPtr info );

        void init( vector< double > );
        void handleQ( vector< vector< double > > );

        static const Cinfo* initCinfo();
    private:
        bool isInitialized_;
        string method_;
        double absAccuracy_;
        double relAccuracy_;
        double internalStepSize_;
        double* stateGsl_;

        //The following four variables should be members of any solver class that
        //will be implmented.
        unsigned int nVars_;
        vector< double > state_;
        vector< double > initialState_;
        vector< vector< double > > Q_;

        const gsl_odeiv_step_type* gslStepType_;
        gsl_odeiv_step* gslStep_;
        gsl_odeiv_control* gslControl_;
        gsl_odeiv_evolve* gslEvolve_;
        gsl_odeiv_system gslSys_;

        static int evalSystem( double, const double*, double*, void* );
};
#endif 

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