AbstractDiscreteContinuumLinearEllipticPde.hpp

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#ifndef ABSTRACTDISCRETECONTINUUMLINEARELLIPTICPDE_HPP_
#define ABSTRACTDISCRETECONTINUUMLINEARELLIPTICPDE_HPP_

#include <string>
#include "ChastePoint.hpp"
#include "UblasIncludes.hpp"
#include "SmartPointers.hpp"
#include "UblasVectorInclude.hpp"
#include "AbstractLinearEllipticPde.hpp"
#include "DiscreteSource.hpp"
#include "GeometryTools.hpp"
#include "RegularGrid.hpp"
#include "DiscreteContinuumMesh.hpp"
#include "UnitCollection.hpp"

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM = ELEMENT_DIM>
class AbstractDiscreteContinuumLinearEllipticPde : public AbstractLinearEllipticPde<ELEMENT_DIM, SPACE_DIM>
{
    using AbstractLinearEllipticPde<ELEMENT_DIM, SPACE_DIM>::ComputeLinearInUCoeffInSourceTerm;

protected:

    c_matrix<double, SPACE_DIM, SPACE_DIM> mDiffusionTensor;

    units::quantity<unit::diffusivity> mDiffusivity;

    units::quantity<unit::concentration_flow_rate> mConstantInUTerm;

    std::vector<boost::shared_ptr<DiscreteSource<SPACE_DIM> > > mDiscreteSources;

    boost::shared_ptr<RegularGrid<SPACE_DIM> > mpRegularGrid;

    boost::shared_ptr<DiscreteContinuumMesh<ELEMENT_DIM, SPACE_DIM> > mpMesh;

    bool mUseRegularGrid;

    std::vector<units::quantity<unit::concentration_flow_rate> > mDiscreteConstantSourceStrengths;

    units::quantity<unit::concentration> mReferenceConcentration;

public:

    AbstractDiscreteContinuumLinearEllipticPde();

    virtual ~AbstractDiscreteContinuumLinearEllipticPde();

    void AddDiscreteSource(boost::shared_ptr<DiscreteSource<SPACE_DIM> > pDiscreteSource);

    double ComputeConstantInUSourceTerm(const ChastePoint<SPACE_DIM>& rX, Element<ELEMENT_DIM, SPACE_DIM>* pElement);

    units::quantity<unit::concentration_flow_rate> ComputeConstantInUSourceTerm(unsigned gridIndex=0);

    c_matrix<double, SPACE_DIM, SPACE_DIM> ComputeDiffusionTerm(const ChastePoint<SPACE_DIM>&);

    units::quantity<unit::diffusivity> ComputeIsotropicDiffusionTerm();

    virtual units::quantity<unit::rate> ComputeLinearInUCoeffInSourceTerm(unsigned gridIndex=0) = 0;

    std::vector<boost::shared_ptr<DiscreteSource<SPACE_DIM> > > GetDiscreteSources();

    void SetContinuumConstantInUTerm(units::quantity<unit::concentration_flow_rate> constantInUTerm);

    void SetIsotropicDiffusionConstant(units::quantity<unit::diffusivity> diffusivity);

    void SetRegularGrid(boost::shared_ptr<RegularGrid<SPACE_DIM> > pRegularGrid);

    void SetMesh(boost::shared_ptr<DiscreteContinuumMesh<ELEMENT_DIM, SPACE_DIM> > pMesh);

    void SetReferenceConcentration(units::quantity<unit::concentration> referenceConcentration);

    void SetUseRegularGrid(bool useRegularGrid);

    virtual void UpdateDiscreteSourceStrengths();

};

#endif /*ABSTRACTDISCRETECONTINUUMLINEARELLIPTICPDE_HPP_*/