VolumeTrackedOffLatticeSimulation.cpp

/*

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*/

#include "VolumeTrackedOffLatticeSimulation.hpp"
#include "MeshBasedCellPopulation.hpp"

template<unsigned DIM>
VolumeTrackedOffLatticeSimulation<DIM>::VolumeTrackedOffLatticeSimulation(AbstractCellPopulation<DIM>& rCellPopulation,
                                                      bool deleteCellPopulationInDestructor,
                                                      bool initialiseCells)
    : OffLatticeSimulation<DIM>(rCellPopulation, deleteCellPopulationInDestructor, initialiseCells)
{
}

template<unsigned DIM>
VolumeTrackedOffLatticeSimulation<DIM>::~VolumeTrackedOffLatticeSimulation()
{
}

template<unsigned DIM>
void VolumeTrackedOffLatticeSimulation<DIM>::SetupSolve()
{
    /*
     * We must update CellData in SetupSolve(), otherwise it will not have been
     * fully initialised by the time we enter the main time loop.
     */
    UpdateCellData();
}

template<unsigned DIM>
void VolumeTrackedOffLatticeSimulation<DIM>::UpdateAtEndOfTimeStep()
{
    UpdateCellData();
}

template<unsigned DIM>
void VolumeTrackedOffLatticeSimulation<DIM>::UpdateCellData()
{
    // Make sure the cell population is updated
    this->mrCellPopulation.Update();

    if (dynamic_cast<MeshBasedCellPopulation<DIM>*>(&(this->mrCellPopulation)))
    {
        static_cast<MeshBasedCellPopulation<DIM>*>(&(this->mrCellPopulation))->CreateVoronoiTessellation();
    }

    // Iterate over cell population
    for (typename AbstractCellPopulation<DIM>::Iterator cell_iter = this->mrCellPopulation.Begin();
         cell_iter != this->mrCellPopulation.End();
         ++cell_iter)
    {
        // Get the volume of this cell
        double cell_volume = this->mrCellPopulation.GetVolumeOfCell(*cell_iter);

        // Store the cell's volume in CellData
        cell_iter->GetCellData()->SetItem("volume", cell_volume);
    }
}

// Explicit instantiation

template class VolumeTrackedOffLatticeSimulation<1>;
template class VolumeTrackedOffLatticeSimulation<2>;
template class VolumeTrackedOffLatticeSimulation<3>;

// Serialization for Boost >= 1.36
#include "SerializationExportWrapperForCpp.hpp"
EXPORT_TEMPLATE_CLASS_SAME_DIMS(VolumeTrackedOffLatticeSimulation)