SloughingCellKiller.cpp

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*/
#include "SloughingCellKiller.hpp"
#include "AbstractCentreBasedCellPopulation.hpp"
#include "Exception.hpp"

template<unsigned DIM>
SloughingCellKiller<DIM>::SloughingCellKiller(AbstractCellPopulation<DIM>* pCrypt, double sloughHeight, bool sloughSides, double sloughWidth)
    : AbstractCellKiller<DIM>(pCrypt),
      mSloughSides(sloughSides)
{
    assert(sloughHeight > 0.0);
    mSloughHeight = sloughHeight;

    assert(sloughWidth > 0.0);
    mSloughWidth = sloughWidth;
}

template<unsigned DIM>
bool SloughingCellKiller<DIM>::GetSloughSides() const
{
    return mSloughSides;
}

template<unsigned DIM>
double SloughingCellKiller<DIM>::GetSloughHeight() const
{
    return mSloughHeight;
}

template<unsigned DIM>
double SloughingCellKiller<DIM>::GetSloughWidth() const
{
    return mSloughWidth;
}

template<unsigned DIM>
void SloughingCellKiller<DIM>::CheckAndLabelCellsForApoptosisOrDeath()
{
    switch (DIM)
    {
        case 1:
        {
            for (typename AbstractCellPopulation<DIM>::Iterator cell_iter = this->mpCellPopulation->Begin();
                 cell_iter != this->mpCellPopulation->End();
                 ++cell_iter)
            {
                double x = this->mpCellPopulation->GetLocationOfCellCentre(*cell_iter)[0];

                if (x > mSloughHeight)
                {
                    cell_iter->Kill();
                }
            }
            break;
        }
        case 2:
        {
            for (typename AbstractCellPopulation<DIM>::Iterator cell_iter = this->mpCellPopulation->Begin();
                 cell_iter != this->mpCellPopulation->End();
                 ++cell_iter)
            {
                c_vector<double, 2> location;
                location = this->mpCellPopulation->GetLocationOfCellCentre(*cell_iter);
                double x = location[0];
                double y = location[1];

                if ((y>mSloughHeight) || (mSloughSides && ((x<0.0) || (x>mSloughWidth))))
                {
                    cell_iter->Kill();
                }
            }
            break;
        }
        case 3:
        {
            EXCEPTION("SloughingCellKiller is not yet implemented in 3D");
            break;
        }
        default:
            // This can't happen
            NEVER_REACHED;
    }
}

template<unsigned DIM>
void SloughingCellKiller<DIM>::OutputCellKillerParameters(out_stream& rParamsFile)
{
    *rParamsFile << "\t\t\t<SloughLength>" << mSloughHeight << "</SloughLength>\n";
    *rParamsFile << "\t\t\t<SloughSides>" << mSloughSides << "</SloughSides>\n";
    *rParamsFile << "\t\t\t<SloughWidth>" << mSloughWidth << "</SloughWidth>\n";

    // Call method on direct parent class
    AbstractCellKiller<DIM>::OutputCellKillerParameters(rParamsFile);
}

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

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