AbstractDiscreteContinuumSolver.hpp

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#ifndef ABSTRACTDISCRETECONTINUUMSOLVER_HPP_
#define ABSTRACTDISCRETECONTINUUMSOLVER_HPP_

#include <vector>
#include <string>
#include "OutputFileHandler.hpp"
#include "VesselNetwork.hpp"
#include "AbstractCellPopulation.hpp"
#include "AbstractDiscreteContinuumLinearEllipticPde.hpp"
#include "AbstractDiscreteContinuumNonLinearEllipticPde.hpp"
#include "DiscreteContinuumBoundaryCondition.hpp"
#include "RegularGrid.hpp"
#include "DiscreteContinuumMesh.hpp"
#include "UnitCollection.hpp"

template<unsigned DIM>
class AbstractDiscreteContinuumSolver
{

protected:

    boost::shared_ptr<VesselNetwork<DIM> > mpNetwork;

    AbstractCellPopulation<DIM>* mpCellPopulation;

    units::quantity<unit::length> mCellPopulationReferenceLength;

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

    boost::shared_ptr<OutputFileHandler> mpOutputFileHandler;

    std::string mFilename;

    std::string mLabel;

    bool IsSetupForSolve;

    bool mWriteSolution;

    boost::shared_ptr<AbstractDiscreteContinuumLinearEllipticPde<DIM, DIM> > mpPde;

    boost::shared_ptr<AbstractDiscreteContinuumNonLinearEllipticPde<DIM, DIM> > mpNonLinearPde;

    std::vector<boost::shared_ptr<DiscreteContinuumBoundaryCondition<DIM> > > mBoundaryConditions;

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

    std::vector<double> mSolution;

    std::vector<units::quantity<unit::concentration> > mConcentrations;

    bool mHasRegularGrid;

    bool mHasUnstructuredGrid;

public:

    AbstractDiscreteContinuumSolver();

    virtual ~AbstractDiscreteContinuumSolver();

    void AddBoundaryCondition(boost::shared_ptr<DiscreteContinuumBoundaryCondition<DIM> > pBoundaryCondition);

    bool CellPopulationIsSet();

    virtual std::vector<units::quantity<unit::concentration> > GetConcentrations();

    virtual std::vector<units::quantity<unit::concentration> > GetConcentrations(boost::shared_ptr<RegularGrid<DIM> > pGrid) = 0;

    virtual std::vector<units::quantity<unit::concentration> > GetConcentrations(const std::vector<DimensionalChastePoint<DIM> >& rSamplePoints) = 0;

    virtual std::vector<units::quantity<unit::concentration> > GetConcentrations(boost::shared_ptr<DiscreteContinuumMesh<DIM> > pMesh) = 0;

    const std::string& GetLabel();

    boost::shared_ptr<AbstractDiscreteContinuumNonLinearEllipticPde<DIM, DIM> > GetNonLinearPde();

    boost::shared_ptr<AbstractDiscreteContinuumLinearEllipticPde<DIM, DIM> > GetPde();

    units::quantity<unit::concentration> GetReferenceConcentration();

    virtual std::vector<double> GetSolution();

    virtual std::vector<double> GetSolution(const std::vector<DimensionalChastePoint<DIM> >& rSamplePoints) = 0;

    virtual std::vector<double> GetSolution(boost::shared_ptr<RegularGrid<DIM> > pGrid) = 0;

    virtual std::vector<double> GetSolution(boost::shared_ptr<DiscreteContinuumMesh<DIM> > pMesh) = 0;

    bool HasRegularGrid();

    bool HasUnstructuredGrid();

    void SetCellPopulation(AbstractCellPopulation<DIM>& rCellPopulation,
                           units::quantity<unit::length> cellPopulationReferenceLength,
                           units::quantity<unit::concentration> cellPopulationReferenceConcentration);

    void SetFileHandler(boost::shared_ptr<OutputFileHandler> pOutputFileHandler);

    void SetFileName(const std::string& rFilename);

    void SetLabel(const std::string& rLabel);

    void SetPde(boost::shared_ptr<AbstractDiscreteContinuumLinearEllipticPde<DIM, DIM> > pPde);

    void SetNonLinearPde(boost::shared_ptr<AbstractDiscreteContinuumNonLinearEllipticPde<DIM, DIM> > pPde);

    virtual void Setup() = 0;

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

    void SetVesselNetwork(boost::shared_ptr<VesselNetwork<DIM> > pNetwork);

    void SetWriteSolution(bool write=true);

    virtual void Solve() = 0;

    virtual void Update() = 0;

    virtual void UpdateCellData() = 0;

    virtual void UpdateSolution(const std::vector<double>& rData);

    virtual void UpdateSolution(const std::vector<units::quantity<unit::concentration> >& rData);

    virtual void Write() = 0;
};

#endif /* ABSTRACTDISCRETECONTINUUMSOLVER_HPP_ */