AbstractOffLatticeCellPopulation.hpp

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*/
 
#ifndef ABSTRACTOFFLATTICECELLPOPULATION_HPP_
#define ABSTRACTOFFLATTICECELLPOPULATION_HPP_
 
#include "AbstractCellPopulation.hpp"
 
#ifdef DOXYGEN_CHASTE_ISSUE_199 // See https://github.com/Chaste/Chaste/issues/199
template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
#else
template<unsigned ELEMENT_DIM, unsigned SPACE_DIM = ELEMENT_DIM>
#endif
class AbstractOffLatticeCellPopulation : public AbstractCellPopulation<ELEMENT_DIM,SPACE_DIM>
{
private:
 
    friend class boost::serialization::access;
    template<class Archive>
    void serialize(Archive & archive, const unsigned int version)
    {
        archive & boost::serialization::base_object<AbstractCellPopulation<ELEMENT_DIM, SPACE_DIM> >(*this);
        archive & mDampingConstantNormal;
        archive & mDampingConstantMutant;
        archive & mAbsoluteMovementThreshold;
    }
 
protected:
    double mDampingConstantNormal;
 
    double mDampingConstantMutant;
 
    double mAbsoluteMovementThreshold;
 
    std::vector<std::pair<Node<SPACE_DIM>*, Node<SPACE_DIM>*> > mNodePairs = {};
 
    AbstractOffLatticeCellPopulation(AbstractMesh<ELEMENT_DIM, SPACE_DIM>& rMesh);
 
public:
 
    AbstractOffLatticeCellPopulation( AbstractMesh<ELEMENT_DIM, SPACE_DIM>& rMesh,
                                    std::vector<CellPtr>& rCells,
                                    const std::vector<unsigned> locationIndices=std::vector<unsigned>());
 
    virtual unsigned AddNode(Node<SPACE_DIM>* pNewNode)=0;
 
    virtual void SetNode(unsigned nodeIndex, ChastePoint<SPACE_DIM>& rNewLocation)=0;
 
    virtual void UpdateNodeLocations(double dt);
 
    virtual void CheckForStepSizeException(unsigned nodeIndex, c_vector<double,SPACE_DIM>& rDisplacement, double dt)=0;
 
    virtual double GetDampingConstant(unsigned nodeIndex)=0;
 
    void SetDampingConstantNormal(double dampingConstantNormal);
 
    void SetDampingConstantMutant(double dampingConstantMutant);
 
    void SetAbsoluteMovementThreshold(double absoluteMovementThreshold);
 
    double GetAbsoluteMovementThreshold();
 
    double GetDampingConstantNormal();
 
    double GetDampingConstantMutant();
 
    [[nodiscard]] virtual const std::vector<std::pair<Node<SPACE_DIM>*, Node<SPACE_DIM>*> >& rGetNodePairs() const;
 
    [[nodiscard]] virtual std::vector<std::pair<Node<SPACE_DIM>*, Node<SPACE_DIM>*> >& rGetModifiableNodePairs();
 
    virtual void OutputCellPopulationParameters(out_stream& rParamsFile);
};
 
#endif /*ABSTRACTOFFLATTICECELLPOPULATION_HPP_*/