FixedDurationGenerationBasedCellCycleModelCellsGenerator.cpp

00001 /*
00002 
00003 Copyright (C) University of Oxford, 2005-2009
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 #include "FixedDurationGenerationBasedCellCycleModelCellsGenerator.hpp"
00029 
00030 
00031 template<unsigned DIM>
00032 AbstractCellCycleModel* FixedDurationGenerationBasedCellCycleModelCellsGenerator<DIM>::CreateCellCycleModel()
00033 {
00034     return new FixedDurationGenerationBasedCellCycleModel();
00035 }
00036 
00037 
00038 template<unsigned DIM>
00039 double FixedDurationGenerationBasedCellCycleModelCellsGenerator<DIM>::GetTypicalTransitCellCycleTime()
00040 {
00041     return CancerParameters::Instance()->GetTransitCellG1Duration()
00042             + CancerParameters::Instance()->GetSG2MDuration();
00043 }
00044 
00045 
00046 template<unsigned DIM>
00047 double FixedDurationGenerationBasedCellCycleModelCellsGenerator<DIM>::GetTypicalStemCellCycleTime()
00048 {
00049     return CancerParameters::Instance()->GetStemCellG1Duration()
00050             + CancerParameters::Instance()->GetSG2MDuration();
00051 }
00052 
00053 
00054 template<unsigned DIM>
00055 bool FixedDurationGenerationBasedCellCycleModelCellsGenerator<DIM>::CellsCanDifferentiate()
00056 {
00057     return true;
00058 }
00059 
00060 
00061 template<unsigned DIM>
00062 void FixedDurationGenerationBasedCellCycleModelCellsGenerator<DIM>::GenerateBasic(std::vector<TissueCell>& rCells,
00063                                                            const unsigned numCells)
00064 {
00065     rCells.clear();
00066     rCells.reserve(numCells);
00067 
00068     for (unsigned i=0; i<numCells; i++)
00069     {
00070         AbstractCellCycleModel* p_cell_cycle_model = CreateCellCycleModel();
00071         TissueCell cell(STEM, HEALTHY, p_cell_cycle_model);
00072         double birth_time = 0.0 - i;
00073         cell.SetBirthTime(birth_time);
00074         rCells.push_back(cell);
00075     }
00076 }
00077 
00078 
00079 template<unsigned DIM>
00080 void FixedDurationGenerationBasedCellCycleModelCellsGenerator<DIM>::GenerateGivenLocationIndices(std::vector<TissueCell>& rCells,
00081                                                                           const std::vector<unsigned> locationIndices)
00082 {
00083     assert(!locationIndices.empty());
00084 
00085     unsigned num_cells = locationIndices.size();
00086 
00087     rCells.clear();
00088     rCells.reserve(num_cells);
00089 
00090     for (unsigned i=0; i<num_cells; i++)
00091     {
00092         AbstractCellCycleModel* p_cell_cycle_model = CreateCellCycleModel();
00093         TissueCell cell(STEM, HEALTHY, p_cell_cycle_model);
00094         double birth_time = 0.0 - locationIndices[i];
00095         cell.SetBirthTime(birth_time);
00096         rCells.push_back(cell);
00097     }
00098 }
00099 
00100 
00102 // Explicit instantiation
00104 
00105 template class FixedDurationGenerationBasedCellCycleModelCellsGenerator<1>;
00106 template class FixedDurationGenerationBasedCellCycleModelCellsGenerator<2>;
00107 template class FixedDurationGenerationBasedCellCycleModelCellsGenerator<3>;

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