CryptSimulation1d.hpp

/*

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*/

#ifndef CRYPTSIMULATION1D_HPP_
#define CRYPTSIMULATION1D_HPP_

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

#include <cmath>
#include <ctime>
#include <iostream>

#include "WntConcentration.hpp"
#include "CryptSimulationBoundaryCondition.hpp"
#include "OffLatticeSimulation.hpp"
#include "MeshBasedCellPopulation.hpp"

class CryptSimulation1d : public OffLatticeSimulation<1>
{
    // Allow tests to access private members to test private functions
    friend class TestCryptSimulation1d;

private:

    friend class boost::serialization::access;
    template<class Archive>
    void serialize(Archive & archive, const unsigned int version)
    {
        archive & boost::serialization::base_object<OffLatticeSimulation<1> >(*this);

        SerializableSingleton<WntConcentration<1> >* p_wnt_wrapper = WntConcentration<1>::Instance()->GetSerializationWrapper();
        archive & p_wnt_wrapper;
    }

    MeshBasedCellPopulation<1>* mpStaticCastCellPopulation;

    c_vector<double, 1> CalculateCellDivisionVector(CellPtr pParentCell);

public:

    CryptSimulation1d(AbstractCellPopulation<1>& rCellPopulation,
                      bool deleteCellPopulationInDestructor=false,
                      bool initialiseCells=true);

    virtual ~CryptSimulation1d();

    void OutputSimulationParameters(out_stream& rParamsFile);
};

// Declare identifier for the serializer
#include "SerializationExportWrapper.hpp"
CHASTE_CLASS_EXPORT(CryptSimulation1d)

namespace boost
{
namespace serialization
{
template<class Archive>
inline void save_construct_data(
    Archive & ar, const CryptSimulation1d * t, const BOOST_PFTO unsigned int file_version)
{
    // Save data required to construct instance
    const AbstractCellPopulation<1>* p_cell_population = &(t->rGetCellPopulation());
    ar & p_cell_population;
}

template<class Archive>
inline void load_construct_data(
    Archive & ar, CryptSimulation1d * t, const unsigned int file_version)
{
    // Retrieve data from archive required to construct new instance
    AbstractCellPopulation<1>* p_cell_population;
    ar & p_cell_population;

    // Invoke inplace constructor to initialise instance, last two variables set extra
    // member variables to be deleted as they are loaded from archive and to not initialise sells.
    ::new(t)CryptSimulation1d(*p_cell_population, true, false);
}
}
} // namespace

#endif /*CRYPTSIMULATION1D_HPP_*/