AbstractOdeSrnModel(const AbstractOdeSrnModel &rModel) | AbstractOdeSrnModel | protected |
AbstractOdeSrnModel(unsigned stateSize, boost::shared_ptr< AbstractCellCycleModelOdeSolver > pOdeSolver=boost::shared_ptr< AbstractCellCycleModelOdeSolver >()) | AbstractOdeSrnModel | |
AbstractSrnModel(const AbstractSrnModel &rModel) | AbstractSrnModel | protected |
AbstractSrnModel() | AbstractSrnModel | |
AddMergedEdgeSrn(AbstractSrnModel *pMergedEdgeSrn) | DeltaNotchEdgeSrnModel | virtual |
AddShrunkEdgeSrn(AbstractSrnModel *pShrunkEdgeSrn) | DeltaNotchEdgeSrnModel | virtual |
AddShrunkEdgeToInterior(AbstractSrnModel *pShrunkEdgeSrn) | AbstractSrnModel | virtual |
AddSrnQuantities(AbstractSrnModel *pOtherSrn, const double scale=1.0) | DeltaNotchEdgeSrnModel | virtual |
AdjustOdeParameters(double currentTime) | CellCycleModelOdeHandler | protectedvirtual |
boost::serialization::access | DeltaNotchEdgeSrnModel | friend |
CellCycleModelOdeHandler(const CellCycleModelOdeHandler &rHandler) | CellCycleModelOdeHandler | protected |
CellCycleModelOdeHandler(double lastTime=SimulationTime::Instance() ->GetTime(), boost::shared_ptr< AbstractCellCycleModelOdeSolver > pOdeSolver=boost::shared_ptr< AbstractCellCycleModelOdeSolver >()) | CellCycleModelOdeHandler | |
CreateSrnModel() | DeltaNotchEdgeSrnModel | virtual |
DeltaNotchEdgeSrnModel(const DeltaNotchEdgeSrnModel &rModel) | DeltaNotchEdgeSrnModel | protected |
DeltaNotchEdgeSrnModel(boost::shared_ptr< AbstractCellCycleModelOdeSolver > pOdeSolver=boost::shared_ptr< AbstractCellCycleModelOdeSolver >()) | DeltaNotchEdgeSrnModel | |
GetCell() | AbstractSrnModel | |
GetDelta() | DeltaNotchEdgeSrnModel | |
GetDt() | CellCycleModelOdeHandler | |
GetEdgeLocalIndex() | AbstractSrnModel | |
GetIdentifier() const | Identifiable | |
GetInteriorDelta() const | DeltaNotchEdgeSrnModel | |
GetInteriorNotch() const | DeltaNotchEdgeSrnModel | |
GetNeighbouringDelta() const | DeltaNotchEdgeSrnModel | |
GetNotch() | DeltaNotchEdgeSrnModel | |
GetOdeSolver() const | CellCycleModelOdeHandler | |
GetOdeSystem() const | CellCycleModelOdeHandler | |
GetProteinConcentrations() const | CellCycleModelOdeHandler | |
GetSimulatedToTime() const | AbstractSrnModel | |
HasEdgeModel() const | AbstractSrnModel | |
Initialise() | DeltaNotchEdgeSrnModel | virtual |
AbstractOdeSrnModel::Initialise(AbstractOdeSystem *pOdeSystem) | AbstractOdeSrnModel | protected |
InitialiseDaughterCell() | DeltaNotchEdgeSrnModel | virtual |
mDt | CellCycleModelOdeHandler | protected |
mEdgeLocalIndex | AbstractSrnModel | protected |
mFinishedRunningOdes | CellCycleModelOdeHandler | protected |
mInitialConditions | AbstractOdeSrnModel | protected |
mIsEdgeBasedModel | AbstractSrnModel | protected |
mLastTime | CellCycleModelOdeHandler | protected |
mpCell | AbstractSrnModel | protected |
mpOdeSolver | CellCycleModelOdeHandler | protected |
mpOdeSystem | CellCycleModelOdeHandler | protected |
mSimulatedToTime | AbstractSrnModel | protected |
mStateSize | AbstractOdeSrnModel | protected |
AbstractSrnModel::operator=(const AbstractSrnModel &) | AbstractSrnModel | private |
OutputSrnModelInfo(out_stream &rParamsFile) | AbstractSrnModel | |
OutputSrnModelParameters(out_stream &rParamsFile) | DeltaNotchEdgeSrnModel | virtual |
ResetForDivision() | AbstractOdeSrnModel | virtual |
ScaleSrnVariables(const double theta) | AbstractOdeSrnModel | virtual |
serialize(Archive &archive, const unsigned int version) | DeltaNotchEdgeSrnModel | inlineprivate |
SetCell(CellPtr pCell) | AbstractSrnModel | virtual |
SetDelta(double value) | DeltaNotchEdgeSrnModel | |
SetDt(double timeStep) | CellCycleModelOdeHandler | |
SetEdgeLocalIndex(unsigned index) | AbstractSrnModel | |
SetEdgeModelIndicator(const bool isEdgeModel) | AbstractSrnModel | |
SetInitialConditions(std::vector< double > initialConditions) | AbstractOdeSrnModel | |
SetLastTime(double lastTime) | CellCycleModelOdeHandler | |
SetNotch(double value) | DeltaNotchEdgeSrnModel | |
SetOdeSystem(AbstractOdeSystem *pOdeSystem) | CellCycleModelOdeHandler | |
SetProteinConcentrationsForTestsOnly(double lastTime, std::vector< double > proteinConcentrations) | CellCycleModelOdeHandler | |
SetSimulatedToTime(double simulatedToTime) | AbstractSrnModel | |
SetStateVariables(const std::vector< double > &rStateVariables) | CellCycleModelOdeHandler | |
SimulateToCurrentTime() | DeltaNotchEdgeSrnModel | virtual |
SolveOdeToTime(double currentTime) | CellCycleModelOdeHandler | protected |
SplitEdgeSrn(const double relativePosition) | DeltaNotchEdgeSrnModel | virtual |
TidyTemplatedExportIdentifier(std::string identifier) const | Identifiable | private |
UpdateDeltaNotch() | DeltaNotchEdgeSrnModel | |
~AbstractOdeSrnModel() | AbstractOdeSrnModel | virtual |
~AbstractSrnModel() | AbstractSrnModel | virtual |
~CellCycleModelOdeHandler() | CellCycleModelOdeHandler | virtual |
~Identifiable() | Identifiable | virtual |