RadialCellDataDistributionWriter.cpp

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*/

#include "RadialCellDataDistributionWriter.hpp"
#include "MeshBasedCellPopulation.hpp"
#include "CaBasedCellPopulation.hpp"
#include "NodeBasedCellPopulation.hpp"
#include "PottsBasedCellPopulation.hpp"
#include "VertexBasedCellPopulation.hpp"

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
RadialCellDataDistributionWriter<ELEMENT_DIM, SPACE_DIM>::RadialCellDataDistributionWriter()
    : AbstractCellPopulationWriter<ELEMENT_DIM, SPACE_DIM>("radial_dist.dat"),
      mVariableName(""),
      mNumRadialBins(UNSIGNED_UNSET)
{
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void RadialCellDataDistributionWriter<ELEMENT_DIM, SPACE_DIM>::VisitAnyPopulation(AbstractCellPopulation<SPACE_DIM, SPACE_DIM>* pCellPopulation)
{
    // Calculate the centre of the cell population
    c_vector<double, SPACE_DIM> centre = pCellPopulation->GetCentroidOfCellPopulation();

    // Calculate the distance between each node and the centre of the cell population, as well as the maximum of these
    std::map<double, CellPtr> radius_cell_map;
    double max_distance_from_centre = 0.0;
    for (typename AbstractCellPopulation<SPACE_DIM, SPACE_DIM>::Iterator cell_iter = pCellPopulation->Begin();
         cell_iter != pCellPopulation->End();
         ++cell_iter)
    {
        double distance = norm_2(pCellPopulation->GetLocationOfCellCentre(*cell_iter) - centre);
        radius_cell_map[distance] = *cell_iter;

        if (distance > max_distance_from_centre)
        {
            max_distance_from_centre = distance;
        }
    }

    // Create vector of radius intervals
    std::vector<double> radius_intervals;
    for (unsigned i=0; i<mNumRadialBins; i++)
    {
        double upper_radius = max_distance_from_centre*((double) i+1)/((double) mNumRadialBins);
        radius_intervals.push_back(upper_radius);
    }

    // Calculate PDE solution in each radial interval
    double lower_radius = 0.0;
    for (unsigned i=0; i<mNumRadialBins; i++)
    {
        unsigned counter = 0;
        double average_solution = 0.0;

        for (std::map<double, CellPtr>::iterator iter = radius_cell_map.begin(); iter != radius_cell_map.end(); ++iter)
        {
            if (iter->first > lower_radius && iter->first <= radius_intervals[i])
            {
                average_solution += (iter->second)->GetCellData()->GetItem(mVariableName);
                counter++;
            }
        }
        if (counter != 0)
        {
            average_solution /= (double) counter;
        }

        // Write results to file
        *this->mpOutStream << radius_intervals[i] << " " << average_solution << " ";
        lower_radius = radius_intervals[i];
    }
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void RadialCellDataDistributionWriter<ELEMENT_DIM, SPACE_DIM>::Visit(MeshBasedCellPopulation<ELEMENT_DIM, SPACE_DIM>* pCellPopulation)
{
    // Calculate the centre of the cell population
    c_vector<double, SPACE_DIM> centre = pCellPopulation->GetCentroidOfCellPopulation();

    // Calculate the distance between each node and the centre of the cell population, as well as the maximum of these
    std::map<double, CellPtr> radius_cell_map;
    double max_distance_from_centre = 0.0;
    for (typename AbstractCellPopulation<ELEMENT_DIM, SPACE_DIM>::Iterator cell_iter = pCellPopulation->Begin();
         cell_iter != pCellPopulation->End();
         ++cell_iter)
    {
        double distance = norm_2(pCellPopulation->GetLocationOfCellCentre(*cell_iter) - centre);
        radius_cell_map[distance] = *cell_iter;

        if (distance > max_distance_from_centre)
        {
            max_distance_from_centre = distance;
        }
    }

    // Create vector of radius intervals
    std::vector<double> radius_intervals;
    for (unsigned i=0; i<mNumRadialBins; i++)
    {
        double upper_radius = max_distance_from_centre*((double) i+1)/((double) mNumRadialBins);
        radius_intervals.push_back(upper_radius);
    }

    // Calculate PDE solution in each radial interval
    double lower_radius = 0.0;
    for (unsigned i=0; i<mNumRadialBins; i++)
    {
        unsigned counter = 0;
        double average_solution = 0.0;

        for (std::map<double, CellPtr>::iterator iter = radius_cell_map.begin(); iter != radius_cell_map.end(); ++iter)
        {
            if (iter->first > lower_radius && iter->first <= radius_intervals[i])
            {
                average_solution += (iter->second)->GetCellData()->GetItem(mVariableName);
                counter++;
            }
        }
        if (counter != 0)
        {
            average_solution /= (double) counter;
        }

        // Write results to file
        *this->mpOutStream << radius_intervals[i] << " " << average_solution << " ";
        lower_radius = radius_intervals[i];
    }
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void RadialCellDataDistributionWriter<ELEMENT_DIM, SPACE_DIM>::Visit(CaBasedCellPopulation<SPACE_DIM>* pCellPopulation)
{
    VisitAnyPopulation(pCellPopulation);
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void RadialCellDataDistributionWriter<ELEMENT_DIM, SPACE_DIM>::Visit(NodeBasedCellPopulation<SPACE_DIM>* pCellPopulation)
{
    VisitAnyPopulation(pCellPopulation);
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void RadialCellDataDistributionWriter<ELEMENT_DIM, SPACE_DIM>::Visit(PottsBasedCellPopulation<SPACE_DIM>* pCellPopulation)
{
    VisitAnyPopulation(pCellPopulation);
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void RadialCellDataDistributionWriter<ELEMENT_DIM, SPACE_DIM>::Visit(VertexBasedCellPopulation<SPACE_DIM>* pCellPopulation)
{
    VisitAnyPopulation(pCellPopulation);
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void RadialCellDataDistributionWriter<ELEMENT_DIM, SPACE_DIM>::SetVariableName(std::string variableName)
{
    mVariableName = variableName;
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
std::string RadialCellDataDistributionWriter<ELEMENT_DIM, SPACE_DIM>::GetVariableName() const
{
    return mVariableName;
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void RadialCellDataDistributionWriter<ELEMENT_DIM, SPACE_DIM>::SetNumRadialBins(unsigned numRadialBins)
{
    mNumRadialBins = numRadialBins;
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
unsigned RadialCellDataDistributionWriter<ELEMENT_DIM, SPACE_DIM>::GetNumRadialBins() const
{
    return mNumRadialBins;
}

// Explicit instantiation
template class RadialCellDataDistributionWriter<1,1>;
template class RadialCellDataDistributionWriter<1,2>;
template class RadialCellDataDistributionWriter<2,2>;
template class RadialCellDataDistributionWriter<1,3>;
template class RadialCellDataDistributionWriter<2,3>;
template class RadialCellDataDistributionWriter<3,3>;

#include "SerializationExportWrapperForCpp.hpp"
// Declare identifier for the serializer
EXPORT_TEMPLATE_CLASS_ALL_DIMS(RadialCellDataDistributionWriter)