CellSrnModel.cpp

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*/
 
#include "CellSrnModel.hpp"
 
CellSrnModel::CellSrnModel(const CellSrnModel &rModel)
    : AbstractSrnModel(rModel),
      mpInteriorSrnModel(nullptr)
{
    /*
     * Edge SRN vector should be empty in the newly created cell. They are added in
     * VertexBasedPopulation::UpdateSrnAfterBirthOrDeath().
     *
     * Copy interior SRN to the new cell. Interior SRN should have custom implementation
     * of a new interior SRN creation after cell division.
     */
    if (rModel.mpInteriorSrnModel != nullptr)
    {
        this->SetInteriorSrnModel(boost::shared_ptr<AbstractSrnModel>(rModel.GetInteriorSrn()->CreateSrnModel()));
    }
    mIsEdgeBasedModel = rModel.HasEdgeModel();
    for (auto iter : rModel.mEdgeSrnModels)
    {
        mEdgeSrnModels.push_back(boost::shared_ptr<AbstractSrnModel>(iter->CreateSrnModel()));
    }
}
 
CellSrnModel::CellSrnModel()
{
    mpInteriorSrnModel = nullptr;
}
 
CellSrnModel::~CellSrnModel()
{
}
 
void CellSrnModel::Initialise()
{
    for (auto iter : mEdgeSrnModels)
    {
        iter->Initialise();
    }
 
    if (mpInteriorSrnModel != nullptr)
    {
        mpInteriorSrnModel->Initialise();
    }
}
 
void CellSrnModel::ResetForDivision()
{
    /*
     * Making sure that we are at the current time.
     * SimulateToCurrentTime() MUST have been called before in Cell::ReadyToDivide() method
     * so that SRN models should already be simulated up to the current time.
     */
    assert(mSimulatedToTime == SimulationTime::Instance()->GetTime());
 
    /*
     * Note that edge models follow different rules since the number and the state of edge SRNs
     * after cell divisions depends on local topology. That is custom behavior of edge SRN models
     * is important to implement correctly.
     */
    for (auto iter : mEdgeSrnModels)
    {
        iter->ResetForDivision();
    }
 
    if (mpInteriorSrnModel != nullptr)
    {
        mpInteriorSrnModel->ResetForDivision();
    }
}
 
void CellSrnModel::SimulateToCurrentTime()
{
    for (auto iter : mEdgeSrnModels)
    {
        iter->SimulateToCurrentTime();
    }
    if (mpInteriorSrnModel != nullptr)
    {
        mpInteriorSrnModel->SimulateToCurrentTime();
    }
 
    mSimulatedToTime = mEdgeSrnModels[0]->GetSimulatedToTime();
}
 
AbstractSrnModel* CellSrnModel::CreateSrnModel()
{
    return new CellSrnModel(*this);
}
 
void CellSrnModel::AddEdgeSrn(std::vector<AbstractSrnModelPtr> edgeSrns)
{
    mIsEdgeBasedModel = true;
    mEdgeSrnModels.clear();
    for (unsigned i=0; i<edgeSrns.size(); ++i)
    {
        edgeSrns[i]->SetEdgeModelIndicator(true);
    }
    mEdgeSrnModels = edgeSrns;
}
 
void CellSrnModel::AddEdgeSrnModel(AbstractSrnModelPtr pEdgeSrn)
{
    mIsEdgeBasedModel = true;
    pEdgeSrn->SetEdgeModelIndicator(true);
    pEdgeSrn->SetEdgeLocalIndex(mEdgeSrnModels.size());
    mEdgeSrnModels.push_back(pEdgeSrn);
}
 
unsigned CellSrnModel::GetNumEdgeSrn() const
{
    return mEdgeSrnModels.size();
}
 
AbstractSrnModelPtr CellSrnModel::GetEdgeSrn(unsigned index) const
{
    assert(index < mEdgeSrnModels.size());
    return mEdgeSrnModels[index];
}
 
const std::vector<AbstractSrnModelPtr>& CellSrnModel::GetEdges() const
{
    return mEdgeSrnModels;
}
 
void CellSrnModel::SetInteriorSrnModel(AbstractSrnModelPtr pInteriorSrn)
{
    mpInteriorSrnModel = pInteriorSrn;
}
 
AbstractSrnModelPtr CellSrnModel::GetInteriorSrn() const
{
    return mpInteriorSrnModel;
}
 
void CellSrnModel::SetCell(CellPtr pCell)
{
    AbstractSrnModel::SetCell(pCell);
 
    // Make a copy of all SRN models inside the system
    for (auto iter : mEdgeSrnModels)
    {
        iter->SetCell(pCell);
    }
 
    if (mpInteriorSrnModel != nullptr)
    {
        mpInteriorSrnModel->SetCell(pCell);
    }
}
 
// Declare identifier for the serializer
#include "SerializationExportWrapperForCpp.hpp"
CHASTE_CLASS_EXPORT(CellSrnModel)