VesselNetworkCellPopulationInteractor.cpp

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#include "VesselNetworkCellPopulationInteractor.hpp"

template<unsigned DIM>
VesselNetworkCellPopulationInteractor<DIM>::VesselNetworkCellPopulationInteractor() :
        mpNetwork()
{

}

template<unsigned DIM>
VesselNetworkCellPopulationInteractor<DIM>::~VesselNetworkCellPopulationInteractor()
{

}

template<unsigned DIM>
void VesselNetworkCellPopulationInteractor<DIM>::LabelVesselsInCellPopulation(AbstractCellPopulation<DIM>& rCellPopulation,  units::quantity<unit::length> cellLengthScale,
                                  boost::shared_ptr<AbstractCellMutationState> pTipMutationState,
                                  boost::shared_ptr<AbstractCellMutationState> pStalkState,
                                  double threshold)
{
    for (typename AbstractCellPopulation<DIM>::Iterator cell_iter = rCellPopulation.Begin();cell_iter != rCellPopulation.End();++cell_iter)
    {
        DimensionalChastePoint<DIM> cell_location = DimensionalChastePoint<DIM>(rCellPopulation.GetLocationOfCellCentre(*cell_iter), cellLengthScale);
        boost::shared_ptr<VesselNode<DIM> > p_nearest_node = mpNetwork->GetNearestNode(cell_location);
        units::quantity<unit::length> node_distance = p_nearest_node->GetDistance(cell_location);
        std::pair<boost::shared_ptr<VesselSegment<DIM> >, units::quantity<unit::length> > segment_distance_pair = mpNetwork->GetNearestSegment(cell_location);
        if (segment_distance_pair.second < threshold * cellLengthScale || node_distance < threshold * cellLengthScale)
        {
            if(p_nearest_node->IsMigrating())
            {
                cell_iter->SetMutationState(pTipMutationState);
            }
            else
            {
                cell_iter->SetMutationState(pStalkState);
            }
        }
    }
}

template<unsigned DIM>
void VesselNetworkCellPopulationInteractor<DIM>::PartitionNetworkOverCells(AbstractCellPopulation<DIM>& rCellPopulation,  units::quantity<unit::length> cellLengthScale,
                                                                           double threshold)
{
    // Loop through each cell add get its location. If the centre falls along a vessel, split the vessel at that location

    for (typename AbstractCellPopulation<DIM>::Iterator cell_iter = rCellPopulation.Begin();cell_iter != rCellPopulation.End();++cell_iter)
    {
        DimensionalChastePoint<DIM> cell_location = DimensionalChastePoint<DIM>(rCellPopulation.GetLocationOfCellCentre(*cell_iter), cellLengthScale);
        boost::shared_ptr<VesselNode<DIM> > p_nearest_node = mpNetwork->GetNearestNode(cell_location);
        units::quantity<unit::length> node_distance = p_nearest_node->GetDistance(cell_location);

        std::pair<boost::shared_ptr<VesselSegment<DIM> >, units::quantity<unit::length> > segment_distance_pair = mpNetwork->GetNearestSegment(cell_location);
        if (segment_distance_pair.second < threshold*cellLengthScale || node_distance < threshold*cellLengthScale)
        {
            if (node_distance >= threshold*cellLengthScale)
            {
                boost::shared_ptr<Vessel<DIM> > pVessel = segment_distance_pair.first->GetVessel();
                pVessel->DivideSegment(cell_location);
                pVessel->UpdateNodes();
            }
            mpNetwork->UpdateNodes();
            mpNetwork->UpdateSegments();
            mpNetwork->UpdateVesselNodes();
        }
    }
}

template<unsigned DIM>
void VesselNetworkCellPopulationInteractor<DIM>::KillNonVesselOverlappingCells(AbstractCellPopulation<DIM>& rCellPopulation,  units::quantity<unit::length> cellLengthScale,
                                                                               double threshold)
{
    for (typename AbstractCellPopulation<DIM>::Iterator cell_iter = rCellPopulation.Begin();cell_iter != rCellPopulation.End();++cell_iter)
    {
        DimensionalChastePoint<DIM> cell_location = DimensionalChastePoint<DIM>(rCellPopulation.GetLocationOfCellCentre(*cell_iter), cellLengthScale);
        boost::shared_ptr<VesselNode<DIM> > p_nearest_node = mpNetwork->GetNearestNode(cell_location);
        units::quantity<unit::length> node_distance = p_nearest_node->GetDistance(cell_location);

        std::pair<boost::shared_ptr<VesselSegment<DIM> >, units::quantity<unit::length> > segment_distance_pair = mpNetwork->GetNearestSegment(cell_location);
        if (segment_distance_pair.second > threshold*cellLengthScale and node_distance > threshold*cellLengthScale)
        {
            cell_iter->Kill();
        }
    }
    rCellPopulation.RemoveDeadCells();
}

template<unsigned DIM>
void VesselNetworkCellPopulationInteractor<DIM>::KillOverlappingVesselCells(AbstractCellPopulation<DIM>& rCellPopulation,  units::quantity<unit::length> cellLengthScale,
                                                                            double threshold)
{
    for (typename AbstractCellPopulation<DIM>::Iterator cell_iter = rCellPopulation.Begin();cell_iter != rCellPopulation.End();++cell_iter)
    {
        DimensionalChastePoint<DIM> cell_location = DimensionalChastePoint<DIM>(rCellPopulation.GetLocationOfCellCentre(*cell_iter), cellLengthScale);
        boost::shared_ptr<VesselNode<DIM> > p_nearest_node = mpNetwork->GetNearestNode(cell_location);
        units::quantity<unit::length> node_distance = p_nearest_node->GetDistance(cell_location);

        std::pair<boost::shared_ptr<VesselSegment<DIM> >, units::quantity<unit::length> > segment_distance_pair = mpNetwork->GetNearestSegment(cell_location);
        if (segment_distance_pair.second < threshold*cellLengthScale or node_distance < threshold*cellLengthScale)
        {
            cell_iter->Kill();
        }
    }
    rCellPopulation.RemoveDeadCells();
}

template<unsigned DIM>
void VesselNetworkCellPopulationInteractor<DIM>::SetVesselNetwork(boost::shared_ptr<VesselNetwork<DIM> > pNetwork)
{
    mpNetwork = pNetwork;
}

// Explicit instantiation
template class VesselNetworkCellPopulationInteractor<2> ;
template class VesselNetworkCellPopulationInteractor<3> ;