AbstractOdeSystem.hpp

/*

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*/

#ifndef _ABSTRACTODESYSTEM_HPP_
#define _ABSTRACTODESYSTEM_HPP_

#include <vector>
#include <string>
#include <algorithm>


#include "ChasteSerialization.hpp"
#include "ChasteSerializationVersion.hpp"
#include <boost/serialization/split_member.hpp>
#include <boost/serialization/vector.hpp>
#include "ClassIsAbstract.hpp"

#include "AbstractParameterisedSystem.hpp"
#include "Exception.hpp"

class AbstractOdeSystem : public AbstractParameterisedSystem<std::vector<double> >
{
    friend class TestAbstractOdeSystem;

private:


    friend class boost::serialization::access;
    template<class Archive>
    void save(Archive & archive, const unsigned int version) const
    {
        // Despite the fact that 3 of these variables actually live in our base class,
        // we still archive them here to maintain backwards compatibility.
        // Since the N_Vector version of mStateVariables and mParameters needs converting
        // to a standard vector before archiving, this doesn't hurt too much.
        archive & mNumberOfStateVariables;
        archive & mUseAnalyticJacobian;
        archive & mStateVariables;
        archive & mParameters;

        if (version > 0)
        {
            archive & rGetParameterNames();
        }

        // This is always set up by subclass constructors, and is essentially
        // 'static' data, so shouldn't go in the archive.
        //archive &mpSystemInfo;
    }
    template<class Archive>
    void load(Archive & archive, const unsigned int version)
    {
        archive & mNumberOfStateVariables;
        archive & mUseAnalyticJacobian;
        archive & mStateVariables;
        std::vector<double> parameters;
        archive & parameters;

        if (version > 0)
        {
            std::vector<std::string> param_names;
            archive & param_names;

            CheckParametersOnLoad(parameters,param_names);
        }
        else
        {
            mParameters = parameters;
        }
    }
    BOOST_SERIALIZATION_SPLIT_MEMBER()

protected:

    bool mUseAnalyticJacobian;

public:

    AbstractOdeSystem(unsigned numberOfStateVariables);

    virtual ~AbstractOdeSystem();

    virtual void EvaluateYDerivatives(double time, const std::vector<double>& rY,
                                      std::vector<double>& rDY)=0;

    virtual bool CalculateStoppingEvent(double time, const std::vector<double>& rY);

    virtual double CalculateRootFunction(double time, const std::vector<double>& rY);

    bool GetUseAnalyticJacobian();

    const std::vector<double>& rGetConstStateVariables() const;
};

CLASS_IS_ABSTRACT(AbstractOdeSystem)
BOOST_CLASS_VERSION(AbstractOdeSystem, 1u)

#endif //_ABSTRACTODESYSTEM_HPP_