CvodeAdaptor.hpp

/*

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*/

#ifdef CHASTE_CVODE
#ifndef _CVODEADAPTOR_HPP_
#define _CVODEADAPTOR_HPP_

#include <vector>

#include "ChasteSerialization.hpp"
#include <boost/serialization/base_object.hpp>

#include "AbstractIvpOdeSolver.hpp"
#include "OdeSolution.hpp"

// CVODE headers
#include <cvode/cvode.h>
#include <nvector/nvector_serial.h>


void CvodeErrorHandler(int errorCode, const char *module, const char *function,
                       char *message, void* pData);
// Note: declared here since it's also used by AbstractCvodeCell.


typedef struct CvodeData_ {
    std::vector<realtype>* pY;
    AbstractOdeSystem* pSystem;
} CvodeData;

class CvodeAdaptor : public AbstractIvpOdeSolver
{
private:
    friend class boost::serialization::access;
    template<class Archive>
    void serialize(Archive & archive, const unsigned int version)
    {
        archive & boost::serialization::base_object<AbstractIvpOdeSolver>(*this);
        archive & mRelTol;
        archive & mAbsTol;
        archive & mLastInternalStepSize;
        archive & mMaxSteps;
        archive & mCheckForRoots;
        // All other member variables given values on each call.
    }

    void* mpCvodeMem;

    CvodeData mData;

    double mRelTol;

    double mAbsTol;

    double mLastInternalStepSize;

    long int mMaxSteps;

    bool mCheckForRoots;

    N_Vector mLastSolutionState;

    double mLastSolutionTime;

    bool mAutoReset;

    bool mForceMinimalReset;

    void RecordStoppingPoint(double stopTime, N_Vector yEnd);

protected:

    void SetupCvode(AbstractOdeSystem* pOdeSystem,
                    std::vector<double>& rInitialY,
                    double startTime, double maxStep);

    void FreeCvodeMemory();

    void CvodeError(int flag, const char * msg);

public:

    CvodeAdaptor(double relTol=1e-4, double absTol=1e-6);

    ~CvodeAdaptor();

    void SetTolerances(double relTol=1e-4, double absTol=1e-6);

    double GetRelativeTolerance();

    double GetAbsoluteTolerance();

    double GetLastStepSize();

    void SetAutoReset(bool autoReset);

    void SetMinimalReset(bool minimalReset);

    void ResetSolver();

    OdeSolution Solve(AbstractOdeSystem* pOdeSystem,
                      std::vector<double>& rYValues,
                      double startTime,
                      double endTime,
                      double maxStep,
                      double timeSampling);

    void Solve(AbstractOdeSystem* pOdeSystem,
               std::vector<double>& rYValues,
               double startTime,
               double endTime,
               double maxStep);

    void CheckForStoppingEvents();

    void SetMaxSteps(long int numSteps);

    long int GetMaxSteps();

};

#include "SerializationExportWrapper.hpp"
CHASTE_CLASS_EXPORT(CvodeAdaptor)

#endif // _CVODEADAPTOR_HPP_
#endif // CHASTE_CVODE