VolumeTrackingModifier.cpp

/*

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*/

#include "VolumeTrackingModifier.hpp"
#include "MeshBasedCellPopulation.hpp"

template<unsigned DIM>
VolumeTrackingModifier<DIM>::VolumeTrackingModifier()
    : AbstractCellBasedSimulationModifier<DIM>()
{
}

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

template<unsigned DIM>
void VolumeTrackingModifier<DIM>::UpdateAtEndOfTimeStep(AbstractCellPopulation<DIM,DIM>& rCellPopulation)
{
    UpdateCellData(rCellPopulation);
}

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

template<unsigned DIM>
void VolumeTrackingModifier<DIM>::UpdateCellData(AbstractCellPopulation<DIM,DIM>& rCellPopulation)
{
    // Make sure the cell population is updated
    rCellPopulation.Update();

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

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

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

template<unsigned DIM>
void VolumeTrackingModifier<DIM>::OutputSimulationModifierParameters(out_stream& rParamsFile)
{
    // No parameters to output, so just call method on direct parent class
    AbstractCellBasedSimulationModifier<DIM>::OutputSimulationModifierParameters(rParamsFile);
}

// Explicit instantiation
template class VolumeTrackingModifier<1>;
template class VolumeTrackingModifier<2>;
template class VolumeTrackingModifier<3>;

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