Chaste  Release::2018.1
AbstractVanLeeuwen2009WntSwatCellCycleModel.cpp
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35 
36 #include "UblasIncludes.hpp"
37 #include "AbstractVanLeeuwen2009WntSwatCellCycleModel.hpp"
38 #include "TransitCellProliferativeType.hpp"
39 #include "DifferentiatedCellProliferativeType.hpp"
40 
41 AbstractVanLeeuwen2009WntSwatCellCycleModel::AbstractVanLeeuwen2009WntSwatCellCycleModel(boost::shared_ptr<AbstractCellCycleModelOdeSolver> pOdeSolver)
43 {
44 }
45 
48 {
49  /*
50  * The member variables mDivideTime and mG2PhaseStartTime are
51  * initialized in the AbstractOdeBasedPhaseBasedCellCycleModel
52  * constructor.
53  *
54  * The member variables mCurrentCellCyclePhase, mG1Duration,
55  * mMinimumGapDuration, mStemCellG1Duration, mTransitCellG1Duration,
56  * mSDuration, mG2Duration and mMDuration are initialized in the
57  * AbstractPhaseBasedCellCycleModel constructor.
58  *
59  * The member variables mBirthTime, mReadyToDivide and mDimension
60  * are initialized in the AbstractCellCycleModel constructor.
61  */
62 }
63 
65 {
66  assert(mpOdeSystem != nullptr);
67  assert(mpCell != nullptr);
68  double beta_catenin_level = mpOdeSystem->rGetStateVariables()[16]
72 
73  // For mitogenic stimulus of 1/25.0 in Wnt equations
74  if (beta_catenin_level < 10.188)
75  {
76  /*
77  * This method is usually called within a CellBasedSimulation, after the CellPopulation
78  * has called CellPropertyRegistry::TakeOwnership(). This means that were we to call
79  * CellPropertyRegistry::Instance() here when setting the CellProliferativeType, we
80  * would be creating a new CellPropertyRegistry. In this case the cell proliferative
81  * type counts, as returned by AbstractCellPopulation::GetCellProliferativeTypeCount(),
82  * would be incorrect. We must therefore access the CellProliferativeType via the cell's
83  * CellPropertyCollection.
84  */
85  boost::shared_ptr<AbstractCellProperty> p_diff_type =
86  mpCell->rGetCellPropertyCollection().GetCellPropertyRegistry()->Get<DifferentiatedCellProliferativeType>();
87  mpCell->SetCellProliferativeType(p_diff_type);
88  }
89  else
90  {
91  boost::shared_ptr<AbstractCellProperty> p_transit_type =
92  mpCell->rGetCellPropertyCollection().GetCellPropertyRegistry()->Get<TransitCellProliferativeType>();
93  mpCell->SetCellProliferativeType(p_transit_type);
94  }
95 }
96 
98 {
99  assert(mpOdeSystem == nullptr);
100  assert(mpCell != nullptr);
101 
102  double wnt_level = GetWntLevel();
103 
104  InitialiseOdeSystem(wnt_level, mpCell->GetMutationState());
105 
107 
109 }
110 
112 {
113  // Pass this time step's Wnt stimulus into the solver as a constant over this timestep.
115 
116  // Use the cell's current mutation status as another input
117  static_cast<VanLeeuwen2009WntSwatCellCycleOdeSystem*>(mpOdeSystem)->SetMutationState(mpCell->GetMutationState());
118 }
119 
121 {
123 }
124 
126 {
130 }
131 
133 {
134  return mpOdeSystem->rGetStateVariables()[16] +
138 }
139 
141 {
142  // No new parameters to output, so just call method on direct parent class
144 }
AbstractVanLeeuwen2009WntSwatCellCycleModel(const AbstractVanLeeuwen2009WntSwatCellCycleModel &rModel)
virtual void InitialiseOdeSystem(double wntConcentration, boost::shared_ptr< AbstractCellMutationState > pMutationState)=0
virtual void OutputCellCycleModelParameters(out_stream &rParamsFile)
void SetStateVariables(const VECTOR &rStateVariables)