StochasticDurationGenerationBasedCellCycleModel.cpp

/*

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*/

#include "StochasticDurationGenerationBasedCellCycleModel.hpp"
#include "Exception.hpp"

StochasticDurationGenerationBasedCellCycleModel::StochasticDurationGenerationBasedCellCycleModel()
{
}

AbstractCellCycleModel* StochasticDurationGenerationBasedCellCycleModel::CreateCellCycleModel()
{
    // Create a new cell-cycle model
    StochasticDurationGenerationBasedCellCycleModel* p_model = new StochasticDurationGenerationBasedCellCycleModel();

    /*
     * Set each member variable of the new cell-cycle model that inherits
     * its value from the parent.
     *
     * Note 1: some of the new cell-cycle model's member variables (namely
     * mBirthTime, mCurrentCellCyclePhase, mReadyToDivide) will already have been
     * correctly initialized in its constructor.
     *
     * Note 2: one or more of the new cell-cycle model's member variables
     * may be set/overwritten as soon as InitialiseDaughterCell() is called on
     * the new cell-cycle model.
     *
     * Note 3: the member variable mDimension remains unset, since this cell-cycle
     * model does not need to know the spatial dimension, so if we were to call
     * SetDimension() on the new cell-cycle model an exception would be triggered;
     * hence we do not set this member variable.
     */
    p_model->SetBirthTime(mBirthTime);
    p_model->SetMinimumGapDuration(mMinimumGapDuration);
    p_model->SetStemCellG1Duration(mStemCellG1Duration);
    p_model->SetTransitCellG1Duration(mTransitCellG1Duration);
    p_model->SetSDuration(mSDuration);
    p_model->SetG2Duration(mG2Duration);
    p_model->SetMDuration(mMDuration);
    p_model->SetGeneration(mGeneration);
    p_model->SetMaxTransitGenerations(mMaxTransitGenerations);

    return p_model;
}

void StochasticDurationGenerationBasedCellCycleModel::SetG1Duration()
{
    RandomNumberGenerator* p_gen = RandomNumberGenerator::Instance();

    assert(mpCell != NULL);

    switch (mpCell->GetCellProliferativeType())
    {
        case STEM:
            mG1Duration = GetStemCellG1Duration() + 4*p_gen->ranf(); // U[14,18] for default parameters (mStemCellG1Duration) according to Meineke
            break;
        case TRANSIT:
            mG1Duration = GetTransitCellG1Duration() + 2*p_gen->ranf(); // U[4,6] for default parameters (mTransitG1CellDuration) according to Meineke
            break;
        case DIFFERENTIATED:
            mG1Duration = DBL_MAX;
            break;
        default:
            NEVER_REACHED;
    }
}

void StochasticDurationGenerationBasedCellCycleModel::OutputCellCycleModelParameters(out_stream& rParamsFile)
{
    // No new parameters to output

    // Call method on direct parent class
    AbstractSimpleGenerationBasedCellCycleModel::OutputCellCycleModelParameters(rParamsFile);
}

// Serialization for Boost >= 1.36
#include "SerializationExportWrapperForCpp.hpp"
CHASTE_CLASS_EXPORT(StochasticDurationGenerationBasedCellCycleModel)