NagaiHondaDifferentialAdhesionForce.cpp

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#include "NagaiHondaDifferentialAdhesionForce.hpp"
#include "CellLabel.hpp"

template<unsigned DIM>
NagaiHondaDifferentialAdhesionForce<DIM>::NagaiHondaDifferentialAdhesionForce()
    : NagaiHondaForce<DIM>(),
      mNagaiHondaLabelledCellLabelledCellAdhesionEnergyParameter(1.0),
      mNagaiHondaLabelledCellCellAdhesionEnergyParameter(1.0),
      mNagaiHondaLabelledCellBoundaryAdhesionEnergyParameter(1.0)
{
}

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

template<unsigned DIM>
double NagaiHondaDifferentialAdhesionForce<DIM>::GetAdhesionParameter(Node<DIM>* pNodeA,
                                                                      Node<DIM>* pNodeB,
                                                                      VertexBasedCellPopulation<DIM>& rVertexCellPopulation)
{
    // Find the indices of the elements owned by each node
    std::set<unsigned> elements_containing_nodeA = pNodeA->rGetContainingElementIndices();
    std::set<unsigned> elements_containing_nodeB = pNodeB->rGetContainingElementIndices();

    // Find common elements
    std::set<unsigned> shared_elements;
    std::set_intersection(elements_containing_nodeA.begin(),
                          elements_containing_nodeA.end(),
                          elements_containing_nodeB.begin(),
                          elements_containing_nodeB.end(),
                          std::inserter(shared_elements, shared_elements.begin()));

    // Check that the nodes have a common edge
    assert(!shared_elements.empty());

    // If the edge corresponds to a single element, then the cell is on the boundary
    if (shared_elements.size() == 1)
    {
        unsigned element_index = *(shared_elements.begin());

        // Get cell associated with this element
        CellPtr p_cell = rVertexCellPopulation.GetCellUsingLocationIndex(element_index);

        if (p_cell->template HasCellProperty<CellLabel>())
        {
            // This cell is labelled
            return this->GetNagaiHondaLabelledCellBoundaryAdhesionEnergyParameter();
        }
        else
        {
            // This cell is not labelled
            return this->GetNagaiHondaCellBoundaryAdhesionEnergyParameter();
        }
    }
    else
    {
        // Work out the number of labelled cells: 0,1 or 2
        unsigned num_labelled_cells = 0;
        for (std::set<unsigned>::iterator iter = shared_elements.begin();
             iter != shared_elements.end();
             ++iter)
        {
            unsigned element_index = *(iter);

            // Get cell associated with this element
            CellPtr p_cell = rVertexCellPopulation.GetCellUsingLocationIndex(element_index);

            if (p_cell->template HasCellProperty<CellLabel>())
            {
                num_labelled_cells++;
            }
        }

        if (num_labelled_cells == 2)
        {
            // Both cells are labelled
            return this->GetNagaiHondaLabelledCellLabelledCellAdhesionEnergyParameter();
        }
        else if (num_labelled_cells == 1)
        {
            // One cell is labelled
            return this->GetNagaiHondaLabelledCellCellAdhesionEnergyParameter();
        }
        else
        {
            // Neither cell is labelled
            assert(num_labelled_cells == 0);
            return this->GetNagaiHondaCellCellAdhesionEnergyParameter();
        }
    }
}

template<unsigned DIM>
double NagaiHondaDifferentialAdhesionForce<DIM>::GetNagaiHondaLabelledCellCellAdhesionEnergyParameter()
{
    return mNagaiHondaLabelledCellCellAdhesionEnergyParameter;
}

template<unsigned DIM>
double NagaiHondaDifferentialAdhesionForce<DIM>::GetNagaiHondaLabelledCellLabelledCellAdhesionEnergyParameter()
{
    return mNagaiHondaLabelledCellLabelledCellAdhesionEnergyParameter;
}

template<unsigned DIM>
double NagaiHondaDifferentialAdhesionForce<DIM>::GetNagaiHondaLabelledCellBoundaryAdhesionEnergyParameter()
{
    return mNagaiHondaLabelledCellBoundaryAdhesionEnergyParameter;
}

template<unsigned DIM>
void NagaiHondaDifferentialAdhesionForce<DIM>::SetNagaiHondaLabelledCellCellAdhesionEnergyParameter(double labelledCellCellAdhesionEnergyParameter)
{
    mNagaiHondaLabelledCellCellAdhesionEnergyParameter = labelledCellCellAdhesionEnergyParameter;
}

template<unsigned DIM>
void NagaiHondaDifferentialAdhesionForce<DIM>::SetNagaiHondaLabelledCellLabelledCellAdhesionEnergyParameter(double labelledCellLabelledCellAdhesionEnergyParameter)
{
    mNagaiHondaLabelledCellLabelledCellAdhesionEnergyParameter = labelledCellLabelledCellAdhesionEnergyParameter;
}

template<unsigned DIM>
void NagaiHondaDifferentialAdhesionForce<DIM>::SetNagaiHondaLabelledCellBoundaryAdhesionEnergyParameter(double labelledCellBoundaryAdhesionEnergyParameter)
{
    mNagaiHondaLabelledCellBoundaryAdhesionEnergyParameter = labelledCellBoundaryAdhesionEnergyParameter;
}

template<unsigned DIM>
void NagaiHondaDifferentialAdhesionForce<DIM>::OutputForceParameters(out_stream& rParamsFile)
{
    // Output member variables
    *rParamsFile << "\t\t\t<NagaiHondaLabelledCellLabelledCellAdhesionEnergyParameter>" << mNagaiHondaLabelledCellLabelledCellAdhesionEnergyParameter << "</NagaiHondaLabelledCellLabelledCellAdhesionEnergyParameter> \n";
    *rParamsFile << "\t\t\t<NagaiHondaLabelledCellCellAdhesionEnergyParameter>" << mNagaiHondaLabelledCellCellAdhesionEnergyParameter << "</NagaiHondaLabelledCellCellAdhesionEnergyParameter> \n";
    *rParamsFile << "\t\t\t<NagaiHondaLabelledCellBoundaryAdhesionEnergyParameter>" << mNagaiHondaLabelledCellBoundaryAdhesionEnergyParameter << "</NagaiHondaLabelledCellBoundaryAdhesionEnergyParameter> \n";

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

// Explicit instantiation

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

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