IsolatedLabelledCellKiller.cpp

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*/

#include "IsolatedLabelledCellKiller.hpp"
#include "VertexBasedCellPopulation.hpp"
#include "CellLabel.hpp"

template<unsigned DIM>
IsolatedLabelledCellKiller<DIM>::IsolatedLabelledCellKiller(AbstractCellPopulation<DIM>* pCellPopulation)
    : AbstractCellKiller<DIM>(pCellPopulation)
{
    if (dynamic_cast<VertexBasedCellPopulation<DIM>*>(pCellPopulation) == nullptr)
    {
        EXCEPTION("IsolatedLabelledCellKiller only works with a VertexBasedCellPopulation.");
    }
}

template<unsigned DIM>
void IsolatedLabelledCellKiller<DIM>::CheckAndLabelCellsForApoptosisOrDeath()
{
    MutableVertexMesh<DIM, DIM>& vertex_mesh = static_cast<VertexBasedCellPopulation<DIM>*>(this->mpCellPopulation)->rGetMesh();

    unsigned num_labelled_cells = this->mpCellPopulation->GetCellPropertyRegistry()->template Get<CellLabel>()->GetCellCount();

    // If there is more than one labelled cell...
    if (num_labelled_cells > 1)
    {
        // Iterate over cell population
        for (typename AbstractCellPopulation<DIM>::Iterator cell_iter = this->mpCellPopulation->Begin();
             cell_iter != this->mpCellPopulation->End();
             ++cell_iter)
        {
            // Only consider cells with the CellLabel property
            if (cell_iter->template HasCellProperty<CellLabel>())
            {
                // Get the element index corresponding to this cell
                unsigned elem_index = this->mpCellPopulation->GetLocationIndexUsingCell(*cell_iter);

                // Get the set of neighbouring element indices
                std::set<unsigned> neighbouring_elem_indices = vertex_mesh.GetNeighbouringElementIndices(elem_index);

                // Check if any of the corresponding cells have the CellLabel property...
                unsigned num_labelled_neighbours = 0;
                for (std::set<unsigned>::iterator elem_iter = neighbouring_elem_indices.begin();
                     elem_iter != neighbouring_elem_indices.end();
                     ++elem_iter)
                {
                    if (this->mpCellPopulation->GetCellUsingLocationIndex(*elem_iter)->template HasCellProperty<CellLabel>())
                    {
                        num_labelled_neighbours++;
                    }
                }

                // ...and if none do, then kill this cell
                if (num_labelled_neighbours == 0)
                {
                    cell_iter->Kill();
                }
            }
        }
    }
}

template<unsigned DIM>
void IsolatedLabelledCellKiller<DIM>::OutputCellKillerParameters(out_stream& rParamsFile)
{
    // There are no member variables, so just call method on direct parent class
    AbstractCellKiller<DIM>::OutputCellKillerParameters(rParamsFile);
}

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

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