MicrovesselSolver.hpp

/*

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 */

#ifndef MICROVESSELSOLVER_HPP_
#define MICROVESSELSOLVER_HPP_

#include <vector>
#include <string>

#include "StructuralAdaptationSolver.hpp"
#include "SmartPointers.hpp"
#include "VesselNetwork.hpp"
#include "AbstractDiscreteContinuumSolver.hpp"
#include "AbstractCellPopulation.hpp"
#include "AngiogenesisSolver.hpp"
#include "RegressionSolver.hpp"

template<unsigned DIM>
class MicrovesselSolver
{
    boost::shared_ptr<VesselNetwork<DIM> > mpNetwork;

    unsigned mOutputFrequency;

    boost::shared_ptr<OutputFileHandler> mpOutputFileHandler;

    std::vector<boost::shared_ptr<AbstractDiscreteContinuumSolver<DIM> > > mDiscreteContinuumSolvers;

    boost::shared_ptr<StructuralAdaptationSolver<DIM> > mpStructuralAdaptationSolver;

    boost::shared_ptr<AngiogenesisSolver<DIM> > mpAngiogenesisSolver;

    boost::shared_ptr<RegressionSolver<DIM> > mpRegressionSolver;

    bool mDiscreteContinuumSolversHaveCompatibleGridIndexing;

    bool mUpdatePdeEachSolve;

public:

    MicrovesselSolver();

    virtual ~MicrovesselSolver();

    static boost::shared_ptr<MicrovesselSolver> Create();

    void AddDiscreteContinuumSolver(boost::shared_ptr<AbstractDiscreteContinuumSolver<DIM> > pDiscreteContinuumSolver);

    std::vector<boost::shared_ptr<AbstractDiscreteContinuumSolver<DIM> > > GetDiscreteContinuumSolvers();

    void Increment();

    void Run();

    void SetAngiogenesisSolver(boost::shared_ptr<AngiogenesisSolver<DIM> > pAngiogenesisSolver);

    void SetOutputFileHandler(boost::shared_ptr<OutputFileHandler> pFileHandler);

    void SetOutputFrequency(unsigned frequency);

    void SetUpdatePdeEachSolve(bool doUpdate);

    void SetStructuralAdaptationSolver(boost::shared_ptr<StructuralAdaptationSolver<DIM> > pStructuralAdaptationSolver);

    void SetupFromModifier(AbstractCellPopulation<DIM,DIM>& rCellPopulation,
                           units::quantity<unit::length> cellReferenceLength,
                           units::quantity<unit::concentration> cellReferenceConcentration,
                           const std::string& rDirectory);

    void Setup();

    void SetDiscreteContinuumSolversHaveCompatibleGridIndexing(bool compatibleIndexing);

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

    void SetRegressionSolver(boost::shared_ptr<RegressionSolver<DIM> > pRegressionSolver);

    void UpdateCellData(std::vector<std::string> labels);

};

#endif /* MICROVESSELSOLVER_HPP_ */