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Chaste Commit::333233612e3dcc941d260418acd7b5ccdc30390e
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#include <CellwiseOdeSystemInformation.hpp>
Public Member Functions | |
CellwiseOdeSystemInformation () | |
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AbstractOdeSystemInformation () | |
virtual | ~AbstractOdeSystemInformation () |
std::string | GetSystemName () const |
std::string | GetFreeVariableName () const |
std::string | GetFreeVariableUnits () const |
void | SetDefaultInitialConditions (const std::vector< double > &rInitialConditions) |
void | SetDefaultInitialCondition (unsigned index, double initialCondition) |
std::vector< double > | GetInitialConditions () const |
const std::vector< std::string > & | rGetStateVariableNames () const |
const std::vector< std::string > & | rGetStateVariableUnits () const |
unsigned | GetStateVariableIndex (const std::string &rName) const |
bool | HasStateVariable (const std::string &rName) const |
std::string | GetStateVariableUnits (unsigned index) const |
const std::vector< std::string > & | rGetParameterNames () const |
const std::vector< std::string > & | rGetParameterUnits () const |
unsigned | GetParameterIndex (const std::string &rName) const |
bool | HasParameter (const std::string &rName) const |
std::string | GetParameterUnits (unsigned index) const |
unsigned | GetNumberOfParameters () const |
unsigned | GetAnyVariableIndex (const std::string &rName) const |
bool | HasAnyVariable (const std::string &rName) const |
std::string | GetAnyVariableUnits (unsigned index) const |
const std::vector< std::string > & | rGetDerivedQuantityNames () const |
const std::vector< std::string > & | rGetDerivedQuantityUnits () const |
unsigned | GetDerivedQuantityIndex (const std::string &rName) const |
bool | HasDerivedQuantity (const std::string &rName) const |
std::string | GetDerivedQuantityUnits (unsigned index) const |
unsigned | GetNumberOfDerivedQuantities () const |
unsigned | GetNumberOfAttributes () const |
bool | HasAttribute (const std::string &rName) const |
double | GetAttribute (const std::string &rName) const |
Protected Member Functions | |
void | Initialise () |
void | Initialise () |
void | Initialise () |
void | Initialise () |
void | Initialise () |
void | Initialise () |
void | Initialise () |
void | Initialise () |
void | Initialise () |
Additional Inherited Members | |
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std::string | mSystemName |
std::string | mFreeVariableName |
std::string | mFreeVariableUnits |
std::vector< std::string > | mVariableNames |
std::vector< std::string > | mVariableUnits |
std::vector< std::string > | mParameterNames |
std::vector< std::string > | mParameterUnits |
std::vector< std::string > | mDerivedQuantityNames |
std::vector< std::string > | mDerivedQuantityUnits |
std::map< std::string, double > | mAttributes |
std::vector< double > | mInitialConditions |
bool | mInitialised |
Concrete implementation of AbstractOdeSystemInformation designed for use where some of the system information *can* vary across instances. As with OdeSystemInformation it is templated by ODE system class, to aid developers of ODE system classes - only a specialisation of the Initialise method is required.
Note: unexpected behaviour can occur if ODE system objects are copied (via copy constructor or operator=). The AbstractOdeSystem maintains a smart pointer (boost::shared_ptr) to the system information object. Hence both the original and the copy will share the same information object.
Definition at line 53 of file CellwiseOdeSystemInformation.hpp.
CellwiseOdeSystemInformation< ODE_SYSTEM >::CellwiseOdeSystemInformation | ( | ) |
Default constructor; calls Initialise.
Designed to be used as follows by ODE system classes in their constructors: mpSystemInfo.reset(new CellwiseOdeSystemInformation<CLASS>);
Definition at line 86 of file CellwiseOdeSystemInformation.hpp.
References CellwiseOdeSystemInformation< ODE_SYSTEM >::Initialise().
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protectedvirtual |
Initialise the ODE system information.
This must be provided by subclasses.
Implements AbstractOdeSystemInformation.
Definition at line 164 of file Alarcon2004OxygenBasedCellCycleOdeSystem.cpp.
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protectedvirtual |
Generic implementation of Initialise, which does nothing.
Developers should specialise this method to their ODE system. For example,
template<> void CellwiseOdeSystemInformation<MyNewOdeSystem>::Initialise() { this->mVariableNames.push_back("Variable_1"); this->mVariableUnits.push_back("Units_1"); this->mInitialConditions.push_back(0.0);
this->mInitialised = true; }
Implements AbstractOdeSystemInformation.
Definition at line 92 of file CellwiseOdeSystemInformation.hpp.
Referenced by CellwiseOdeSystemInformation< ODE_SYSTEM >::CellwiseOdeSystemInformation().
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protectedvirtual |
Initialise the ODE system information.
This must be provided by subclasses.
Implements AbstractOdeSystemInformation.
Definition at line 86 of file DeltaNotchEdgeOdeSystem.cpp.
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protectedvirtual |
Initialise the ODE system information.
This must be provided by subclasses.
Implements AbstractOdeSystemInformation.
Definition at line 86 of file DeltaNotchInteriorOdeSystem.cpp.
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protectedvirtual |
Initialise the ODE system information.
This must be provided by subclasses.
Implements AbstractOdeSystemInformation.
Definition at line 81 of file DeltaNotchOdeSystem.cpp.
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protectedvirtual |
Initialise the ODE system information.
This must be provided by subclasses.
Implements AbstractOdeSystemInformation.
Definition at line 97 of file Goldbeter1991OdeSystem.cpp.
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protectedvirtual |
Initialise the ODE system information.
This must be provided by subclasses.
Implements AbstractOdeSystemInformation.
Definition at line 163 of file Mirams2010WntOdeSystem.cpp.
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protectedvirtual |
Initialise the ODE system information.
This must be provided by subclasses.
Implements AbstractOdeSystemInformation.
Definition at line 392 of file VanLeeuwen2009WntSwatCellCycleOdeSystem.cpp.
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protectedvirtual |
Initialise the ODE system information.
This must be provided by subclasses.
Implements AbstractOdeSystemInformation.
Definition at line 310 of file WntCellCycleOdeSystem.cpp.