AbstractSimpleGenerationBasedCellCycleModel.cpp

00001 /*
00002 
00003 Copyright (C) University of Oxford, 2005-2011
00004 
00005 University of Oxford means the Chancellor, Masters and Scholars of the
00006 University of Oxford, having an administrative office at Wellington
00007 Square, Oxford OX1 2JD, UK.
00008 
00009 This file is part of Chaste.
00010 
00011 Chaste is free software: you can redistribute it and/or modify it
00012 under the terms of the GNU Lesser General Public License as published
00013 by the Free Software Foundation, either version 2.1 of the License, or
00014 (at your option) any later version.
00015 
00016 Chaste is distributed in the hope that it will be useful, but WITHOUT
00017 ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
00018 FITNESS FOR A PARTICULAR PURPOSE.  See the GNU Lesser General Public
00019 License for more details. The offer of Chaste under the terms of the
00020 License is subject to the License being interpreted in accordance with
00021 English Law and subject to any action against the University of Oxford
00022 being under the jurisdiction of the English Courts.
00023 
00024 You should have received a copy of the GNU Lesser General Public License
00025 along with Chaste. If not, see <http://www.gnu.org/licenses/>.
00026 
00027 */
00028 
00029 #include "AbstractSimpleGenerationBasedCellCycleModel.hpp"
00030 
00031 AbstractSimpleGenerationBasedCellCycleModel::AbstractSimpleGenerationBasedCellCycleModel()
00032     : AbstractSimpleCellCycleModel(),
00033       mGeneration(0),
00034       mMaxTransitGenerations(3) // taken from Meineke et al, 2001 (doi:10.1046/j.0960-7722.2001.00216.x)
00035 {
00036 }
00037 
00038 AbstractSimpleGenerationBasedCellCycleModel::~AbstractSimpleGenerationBasedCellCycleModel()
00039 {
00040 }
00041 
00042 void AbstractSimpleGenerationBasedCellCycleModel::ResetForDivision()
00043 {
00044     mGeneration++;
00045     if (mGeneration > mMaxTransitGenerations)
00046     {
00047         mCellProliferativeType = DIFFERENTIATED;
00048     }
00049     if (mCellProliferativeType == STEM)
00050     {
00051         mGeneration = 0;
00052     }
00053     AbstractSimpleCellCycleModel::ResetForDivision();
00054 }
00055 
00056 void AbstractSimpleGenerationBasedCellCycleModel::InitialiseDaughterCell()
00057 {
00058     /*
00059      * If the parent cell is a stem cell then its generation was reset
00060      * to zero when ResetForDivision() was called. The daughter cell's
00061      * generation must therefore be incremented here.
00062      */
00063     if (mGeneration == 0)
00064     {
00065         mGeneration = 1;
00066     }
00067     /*
00068      * In generation-based cell-cycle models, the daughter cell
00069      * is always of type transit or differentiated.
00070      */
00071     mCellProliferativeType = TRANSIT;
00072     if (mGeneration > mMaxTransitGenerations)
00073     {
00074         mCellProliferativeType = DIFFERENTIATED;
00075     }
00076     AbstractSimpleCellCycleModel::InitialiseDaughterCell();
00077 }
00078 
00079 void AbstractSimpleGenerationBasedCellCycleModel::SetGeneration(unsigned generation)
00080 {
00081     mGeneration = generation;
00082 }
00083 
00084 unsigned AbstractSimpleGenerationBasedCellCycleModel::GetGeneration() const
00085 {
00086     return mGeneration;
00087 }
00088 
00089 void AbstractSimpleGenerationBasedCellCycleModel::SetMaxTransitGenerations(unsigned maxTransitGenerations)
00090 {
00091     mMaxTransitGenerations = maxTransitGenerations;
00092 }
00093 
00094 unsigned AbstractSimpleGenerationBasedCellCycleModel::GetMaxTransitGenerations() const
00095 {
00096     return mMaxTransitGenerations;
00097 }
00098 
00099 void AbstractSimpleGenerationBasedCellCycleModel::OutputCellCycleModelParameters(out_stream& rParamsFile)
00100 {
00101     *rParamsFile << "\t\t\t<MaxTransitGenerations>" << mMaxTransitGenerations << "</MaxTransitGenerations>\n";
00102 
00103     // Call method on direct parent class
00104     AbstractSimpleCellCycleModel::OutputCellCycleModelParameters(rParamsFile);
00105 }

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