CellCycleModelOdeHandler.cpp

00001 /*
00002 
00003 Copyright (C) University of Oxford, 2005-2010
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 "CellCycleModelOdeHandler.hpp"
00030 
00031 CellCycleModelOdeHandler::CellCycleModelOdeHandler(double lastTime,
00032                                                    boost::shared_ptr<AbstractCellCycleModelOdeSolver> pOdeSolver)
00033     : mDt(DOUBLE_UNSET),
00034       mpOdeSystem(NULL),
00035       mpOdeSolver(pOdeSolver),
00036       mLastTime(lastTime)
00037 {
00038 }
00039 
00040 CellCycleModelOdeHandler::~CellCycleModelOdeHandler()
00041 {
00042     if (mpOdeSystem != NULL)
00043     {
00044         delete mpOdeSystem;
00045     }
00046 }
00047 
00048 void CellCycleModelOdeHandler::SetOdeSystem(AbstractOdeSystem* pOdeSystem)
00049 {
00050     mpOdeSystem = pOdeSystem;
00051 }
00052 
00053 AbstractOdeSystem* CellCycleModelOdeHandler::GetOdeSystem() const
00054 {
00055     return mpOdeSystem;
00056 }
00057 
00058 const boost::shared_ptr<AbstractCellCycleModelOdeSolver> CellCycleModelOdeHandler::GetOdeSolver() const
00059 {
00060     return mpOdeSolver;
00061 }
00062 
00063 void CellCycleModelOdeHandler::SetDt(double timeStep)
00064 {
00065     mDt = timeStep;
00066 }
00067 
00068 double CellCycleModelOdeHandler::GetDt()
00069 {
00070     if (mDt == DOUBLE_UNSET)
00071     {
00072         if (mpOdeSolver->IsAdaptive())
00073         {
00074             mDt = SimulationTime::Instance()->GetTimeStep();
00075         }
00076         else
00077         {
00078             mDt = 0.0001; // Some models need this, so let's pick a safe default
00079         }
00080     }
00081     return mDt;
00082 }
00083 
00084 bool CellCycleModelOdeHandler::SolveOdeToTime(double currentTime)
00085 {
00086     bool stopping_event_occurred = false;
00087     if (mLastTime < currentTime)
00088     {
00089         AdjustOdeParameters(currentTime);
00090     
00091         mpOdeSolver->SolveAndUpdateStateVariable(mpOdeSystem, mLastTime, currentTime, GetDt());
00092     
00093         stopping_event_occurred = mpOdeSolver->StoppingEventOccurred();
00094         if (stopping_event_occurred)
00095         {
00096             mLastTime = mpOdeSolver->GetStoppingTime();
00097         }
00098         else
00099         {
00100             mLastTime = currentTime;
00101         }
00102     }
00103     return stopping_event_occurred;
00104 }
00105 
00106 void CellCycleModelOdeHandler::AdjustOdeParameters(double currentTime)
00107 {
00108 }
00109 
00110 void CellCycleModelOdeHandler::SetLastTime(double lastTime)
00111 {
00112     mLastTime = lastTime;
00113 }
00114 
00115 void CellCycleModelOdeHandler::SetStateVariables(const std::vector<double>& rStateVariables)
00116 {
00117     assert(mpOdeSystem);
00118     mpOdeSystem->SetStateVariables(rStateVariables);
00119 }

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