CardiacElectroMechanicsProblem< DIM > Class Template Reference

#include <CardiacElectroMechanicsProblem.hpp>

Inherited by CardiacElectroMechProbRegularGeom< DIM >.

Collaboration diagram for CardiacElectroMechanicsProblem< DIM >:
Collaboration graph
[legend]

List of all members.

Public Member Functions

 CardiacElectroMechanicsProblem (ContractionModel contractionModel, TetrahedralMesh< DIM, DIM > *pElectricsMesh, QuadraticMesh< DIM > *pMechanicsMesh, std::vector< unsigned > fixedMechanicsNodes, AbstractCardiacCellFactory< DIM > *pCellFactory, double endTime, double electricsPdeTimeStep, unsigned numElecTimeStepsPerMechTimestep, double contractionModelOdeTimeStep, std::string outputDirectory)
virtual ~CardiacElectroMechanicsProblem ()
void Initialise ()
void Solve ()
double Max (std::vector< double > &vec)
void SetNoElectricsOutput ()
void SetWatchedPosition (c_vector< double, DIM > watchedLocation)
void SetVariableFibreSheetDirectionsFile (std::string orthoFile)
std::vector< c_vector< double,
DIM > > & 		rGetDeformedPosition ()

Protected Member Functions

void DetermineWatchedNodes ()
void WriteWatchedLocationData (double time, Vec voltage)

Protected Attributes

ContractionModel mContractionModel
MonodomainProblem< DIM > * mpMonodomainProblem
AbstractCardiacMechanicsAssembler
< DIM > * 		mpCardiacMechAssembler
double mEndTime
double mElectricsTimeStep
double mMechanicsTimeStep
unsigned mNumElecTimestepsPerMechTimestep
double mContractionModelOdeTimeStep
TetrahedralMesh< DIM, DIM > * mpElectricsMesh
QuadraticMesh< DIM > * mpMechanicsMesh
FineCoarseMeshPair< DIM > * mpMeshPair
std::string mOutputDirectory
std::string mDeformationOutputDirectory
bool mWriteOutput
bool mNoElectricsOutput
bool mIsWatchedLocation
c_vector< double, DIM > mWatchedLocation
unsigned mWatchedElectricsNodeIndex
unsigned mWatchedMechanicsNodeIndex
out_stream mpWatchedLocationFile
std::vector< unsigned > mFixedNodes
std::string mFibreSheetDirectionsFile

Static Protected Attributes

static const int WRITE_EVERY_NTH_TIME = 1

Friends

class TestCardiacElectroMechanicsProblem

Detailed Description

template<unsigned DIM>
class CardiacElectroMechanicsProblem< DIM >

CardiacElectroMechanicsProblem

For solving full electro-mechanical problems.

Solves a monodomain problem (diffusion plus cell models) on a (fine) electrics mesh, and a mechanics problem (finite elasticity plus contraction model) on a coarse mesh. An implicit scheme (Jon Whiteley's algorithm) be be used.

For solving problems on regular grids use CardiacElectroMechProbRegularGeom

The implicit algorithm:

Store the position in the electrics mesh of each quad point in the mechanics mesh For every time: Solve the monodomain problem (ie integrate ODEs, solve PDE) Get intracellular [Ca] at each electrics node and interpolate on each mechanics quad point Set [Ca] on each contraction model (one for each point) Solve static finite elasticity problem implicity

Note: invC is not used in the monodomain equations (code added but commented out) we have shown that this does not affect the mechanics results (might affect the electrics).

Definition at line 79 of file CardiacElectroMechanicsProblem.hpp.

Constructor & Destructor Documentation

template<unsigned DIM>
CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem ( ContractionModel  contractionModel,
TetrahedralMesh< DIM, DIM > *  pElectricsMesh,
QuadraticMesh< DIM > *  pMechanicsMesh,
std::vector< unsigned >  fixedMechanicsNodes,
AbstractCardiacCellFactory< DIM > *  pCellFactory,
double  endTime,
double  electricsPdeTimeStep,
unsigned  numElecTimeStepsPerMechTimestep,
double  contractionModelOdeTimeStep,
std::string  outputDirectory = "" 
) [inline]

Constructor.

Parameters:
contractionModel contraction model (see the enum "ContractionModel" for the options).
pElectricsMesh Mesh on which to solve electrics (Monodomain)
pMechanicsMesh Mesh (2nd order) on which to solve mechanics
fixedMechanicsNodes Indices of those nodes which a pinned in space
pCellFactory factory to use to create cells
endTime the end time to use
electricsPdeTimeStep timestep used in solving for the electrical activity
numElecTimeStepsPerMechTimestep number of electrics timesteps to be used in each mechanics solve
contractionModelOdeTimeStep Step size for contraction model (of active tension in cardiac cells) being used.
outputDirectory the output directory

Todo:
Cover these lines

Definition at line 169 of file CardiacElectroMechanicsProblem.cpp.

References GenericEventHandler< 7, MechanicsEventHandler >::BeginEvent(), GenericEventHandler< 13, HeartEventHandler >::Disable(), AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNumNodes(), LogFile::Instance(), HeartConfig::Instance(), CardiacElectroMechanicsProblem< DIM >::mContractionModel, CardiacElectroMechanicsProblem< DIM >::mContractionModelOdeTimeStep, CardiacElectroMechanicsProblem< DIM >::mDeformationOutputDirectory, CardiacElectroMechanicsProblem< DIM >::mElectricsTimeStep, CardiacElectroMechanicsProblem< DIM >::mEndTime, CardiacElectroMechanicsProblem< DIM >::mFibreSheetDirectionsFile, CardiacElectroMechanicsProblem< DIM >::mFixedNodes, CardiacElectroMechanicsProblem< DIM >::mIsWatchedLocation, CardiacElectroMechanicsProblem< DIM >::mMechanicsTimeStep, CardiacElectroMechanicsProblem< DIM >::mNoElectricsOutput, CardiacElectroMechanicsProblem< DIM >::mNumElecTimestepsPerMechTimestep, CardiacElectroMechanicsProblem< DIM >::mOutputDirectory, CardiacElectroMechanicsProblem< DIM >::mpCardiacMechAssembler, CardiacElectroMechanicsProblem< DIM >::mpElectricsMesh, CardiacElectroMechanicsProblem< DIM >::mpMechanicsMesh, CardiacElectroMechanicsProblem< DIM >::mpMonodomainProblem, CardiacElectroMechanicsProblem< DIM >::mWatchedElectricsNodeIndex, CardiacElectroMechanicsProblem< DIM >::mWatchedMechanicsNodeIndex, CardiacElectroMechanicsProblem< DIM >::mWriteOutput, GenericEventHandler< 7, MechanicsEventHandler >::Reset(), LogFile::Set(), HeartConfig::SetOutputDirectory(), HeartConfig::SetOutputFilenamePrefix(), and LogFile::WriteHeader().

template<unsigned DIM>
CardiacElectroMechanicsProblem< DIM >::~CardiacElectroMechanicsProblem (  )  [inline, virtual]

Delete allocated memory and close the watched location file

NOTE if SetWatchedLocation but not Initialise has been called, mpWatchedLocationFile will be uninitialised and using it will cause a seg fault. Hence the mpMechanicsMesh!=NULL it is true if Initialise has been called.

NOTE if SetWatchedLocation but not Initialise has been called, mpWatchedLocationFile will be uninitialised and using it will cause a seg fault. Hence the mpMechanicsMesh!=NULL it is true if Initialise has been called.

Definition at line 264 of file CardiacElectroMechanicsProblem.cpp.

References LogFile::Close(), CardiacElectroMechanicsProblem< DIM >::mIsWatchedLocation, CardiacElectroMechanicsProblem< DIM >::mpCardiacMechAssembler, CardiacElectroMechanicsProblem< DIM >::mpMechanicsMesh, CardiacElectroMechanicsProblem< DIM >::mpMeshPair, CardiacElectroMechanicsProblem< DIM >::mpMonodomainProblem, and CardiacElectroMechanicsProblem< DIM >::mpWatchedLocationFile.

Member Function Documentation

template<unsigned DIM>
void CardiacElectroMechanicsProblem< DIM >::DetermineWatchedNodes (  )  [inline, protected]

Determine which node is closest to the watched location

Definition at line 58 of file CardiacElectroMechanicsProblem.cpp.

References AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNode(), AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNumNodes(), CardiacElectroMechanicsProblem< DIM >::mIsWatchedLocation, CardiacElectroMechanicsProblem< DIM >::mOutputDirectory, CardiacElectroMechanicsProblem< DIM >::mpElectricsMesh, CardiacElectroMechanicsProblem< DIM >::mpMechanicsMesh, CardiacElectroMechanicsProblem< DIM >::mpWatchedLocationFile, CardiacElectroMechanicsProblem< DIM >::mWatchedElectricsNodeIndex, CardiacElectroMechanicsProblem< DIM >::mWatchedLocation, CardiacElectroMechanicsProblem< DIM >::mWatchedMechanicsNodeIndex, and OutputFileHandler::OpenOutputFile().

Referenced by CardiacElectroMechanicsProblem< DIM >::Initialise().

template<unsigned DIM>
void CardiacElectroMechanicsProblem< DIM >::Initialise (  )  [inline]

Initialise the class. Calls ConstructMeshes() and ConstructMechanicsAssembler(). Initialises the MonodomainProblem and sets up the electrics mesh to mechanics mesh data.

Definition at line 286 of file CardiacElectroMechanicsProblem.cpp.

References CardiacElectroMechanicsProblem< DIM >::DetermineWatchedNodes(), AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::Initialise(), HeartConfig::Instance(), CardiacElectroMechanicsProblem< DIM >::mContractionModel, CardiacElectroMechanicsProblem< DIM >::mDeformationOutputDirectory, CardiacElectroMechanicsProblem< DIM >::mFibreSheetDirectionsFile, CardiacElectroMechanicsProblem< DIM >::mFixedNodes, CardiacElectroMechanicsProblem< DIM >::mIsWatchedLocation, CardiacElectroMechanicsProblem< DIM >::mOutputDirectory, CardiacElectroMechanicsProblem< DIM >::mpCardiacMechAssembler, CardiacElectroMechanicsProblem< DIM >::mpElectricsMesh, CardiacElectroMechanicsProblem< DIM >::mpMechanicsMesh, CardiacElectroMechanicsProblem< DIM >::mpMeshPair, CardiacElectroMechanicsProblem< DIM >::mpMonodomainProblem, CardiacElectroMechanicsProblem< DIM >::mWriteOutput, HeartConfig::SetIntracellularConductivities(), AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::SetMesh(), and AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh().

Referenced by CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
double CardiacElectroMechanicsProblem< DIM >::Max ( std::vector< double > &  vec  )  [inline]

Short helper function - the max of a std::vector

Parameters:
vec a vector of doubles

Definition at line 601 of file CardiacElectroMechanicsProblem.cpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
std::vector< c_vector< double, DIM > > & CardiacElectroMechanicsProblem< DIM >::rGetDeformedPosition (  )  [inline]
Returns:
the current deformed position of the nodes

Definition at line 631 of file CardiacElectroMechanicsProblem.cpp.

References CardiacElectroMechanicsProblem< DIM >::mpCardiacMechAssembler.

Referenced by CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
void CardiacElectroMechanicsProblem< DIM >::SetNoElectricsOutput (  )  [inline]

Call to not write out voltages

Definition at line 612 of file CardiacElectroMechanicsProblem.cpp.

References CardiacElectroMechanicsProblem< DIM >::mNoElectricsOutput.

template<unsigned DIM>
void CardiacElectroMechanicsProblem< DIM >::SetVariableFibreSheetDirectionsFile ( std::string  orthoFile  )  [inline]

Set fibre/sheet directions for each element from a file. The file should be a .ortho file (ie each line has the fibre dir, sheet dir, normal dir for that element). The number of elements must match the number in the MECHANICS mesh!

Parameters:
orthoFile the file containing the fibre/sheet directions

Definition at line 625 of file CardiacElectroMechanicsProblem.cpp.

References CardiacElectroMechanicsProblem< DIM >::mFibreSheetDirectionsFile.

template<unsigned DIM>
void CardiacElectroMechanicsProblem< DIM >::SetWatchedPosition ( c_vector< double, DIM >  watchedLocation  )  [inline]

Set a location to be watched - for which lots of output is given. Should correspond to nodes in both meshes.

The watched file will have rows that look like: time x_pos y_pos [z_pos] voltage Ca_i_conc.

NOTE: for the Calcium - assumes LUO_RUDY IS USED

Parameters:
watchedLocation location (x,y,z) in space. Watched node is the closest to this point.

Definition at line 618 of file CardiacElectroMechanicsProblem.cpp.

References CardiacElectroMechanicsProblem< DIM >::mIsWatchedLocation, and CardiacElectroMechanicsProblem< DIM >::mWatchedLocation.

template<unsigned DIM>
void CardiacElectroMechanicsProblem< DIM >::Solve (  )  [inline]

Solve the electromechanics problem

Definition at line 360 of file CardiacElectroMechanicsProblem.cpp.

References Hdf5DataWriter::AdvanceAlongUnlimitedDimension(), TimeStepper::AdvanceOneTimeStep(), PetscTools::Barrier(), GenericEventHandler< 7, MechanicsEventHandler >::BeginEvent(), Hdf5DataWriter::Close(), MonodomainProblem< ELEMENT_DIM, SPACE_DIM >::CreateAssembler(), AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::CreateInitialCondition(), GenericEventHandler< 7, MechanicsEventHandler >::EndEvent(), AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::GetElement(), TimeStepper::GetNextTime(), AbstractElement< ELEMENT_DIM, SPACE_DIM >::GetNodeGlobalIndex(), AbstractElement< ELEMENT_DIM, SPACE_DIM >::GetNumNodes(), AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNumNodes(), HeartConfig::GetOutputDirectory(), AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::GetPde(), TimeStepper::GetTime(), CardiacElectroMechanicsProblem< DIM >::Initialise(), AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::InitialiseWriter(), HeartConfig::Instance(), LogFile::Instance(), TimeStepper::IsTimeAtEnd(), CardiacElectroMechanicsProblem< DIM >::Max(), CardiacElectroMechanicsProblem< DIM >::mContractionModelOdeTimeStep, CardiacElectroMechanicsProblem< DIM >::mElectricsTimeStep, CardiacElectroMechanicsProblem< DIM >::mEndTime, CardiacElectroMechanicsProblem< DIM >::mIsWatchedLocation, CardiacElectroMechanicsProblem< DIM >::mMechanicsTimeStep, CardiacElectroMechanicsProblem< DIM >::mNoElectricsOutput, CardiacElectroMechanicsProblem< DIM >::mNumElecTimestepsPerMechTimestep, CardiacElectroMechanicsProblem< DIM >::mOutputDirectory, CardiacElectroMechanicsProblem< DIM >::mpCardiacMechAssembler, CardiacElectroMechanicsProblem< DIM >::mpElectricsMesh, CardiacElectroMechanicsProblem< DIM >::mpMechanicsMesh, CardiacElectroMechanicsProblem< DIM >::mpMeshPair, CardiacElectroMechanicsProblem< DIM >::mpMonodomainProblem, AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::mpWriter, CardiacElectroMechanicsProblem< DIM >::mWriteOutput, HeartConfig::Reset(), CardiacElectroMechanicsProblem< DIM >::rGetDeformedPosition(), CmguiMeshWriter< DIM, DIM >::SetAdditionalFieldNames(), AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::SetBoundaryConditionsContainer(), AbstractDynamicAssemblerMixin< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::SetInitialCondition(), HeartConfig::SetOutputDirectory(), AbstractDynamicAssemblerMixin< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::SetTimes(), AbstractDynamicAssemblerMixin< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::Solve(), HeartConfig::Write(), CardiacElectroMechanicsProblem< DIM >::WRITE_EVERY_NTH_TIME, CmguiDeformedSolutionsWriter< DIM >::WriteCmguiScript(), CmguiDeformedSolutionsWriter< DIM >::WriteDeformationPositions(), LogFile::WriteElapsedTime(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh(), CmguiDeformedSolutionsWriter< DIM >::WriteInitialMesh(), MonodomainProblem< ELEMENT_DIM, SPACE_DIM >::WriteOneStep(), and CardiacElectroMechanicsProblem< DIM >::WriteWatchedLocationData().

template<unsigned DIM>
void CardiacElectroMechanicsProblem< DIM >::WriteWatchedLocationData ( double  time,
Vec  voltage 
) [inline, protected]

Write info (x, y, V, and Ca) for the watched node. Note: the Ca is written, but this ASSUMES LUO-RUDY IS USED

Parameters:
time Time-step now, to write out
voltage Vm vector (this is Monodomain)

Todo:
Improve efficiency of this method?

Definition at line 142 of file CardiacElectroMechanicsProblem.cpp.

References CardiacElectroMechanicsProblem< DIM >::mIsWatchedLocation, CardiacElectroMechanicsProblem< DIM >::mpCardiacMechAssembler, CardiacElectroMechanicsProblem< DIM >::mpWatchedLocationFile, CardiacElectroMechanicsProblem< DIM >::mWatchedElectricsNodeIndex, and CardiacElectroMechanicsProblem< DIM >::mWatchedMechanicsNodeIndex.

Referenced by CardiacElectroMechanicsProblem< DIM >::Solve().

Member Data Documentation

template<unsigned DIM>
ContractionModel CardiacElectroMechanicsProblem< DIM >::mContractionModel [protected]

Contraction model (from enumeration)

Definition at line 86 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), and CardiacElectroMechanicsProblem< DIM >::Initialise().

template<unsigned DIM>
double CardiacElectroMechanicsProblem< DIM >::mContractionModelOdeTimeStep [protected]

Timestep to use when solving contraction models

Definition at line 101 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), and CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
std::string CardiacElectroMechanicsProblem< DIM >::mDeformationOutputDirectory [protected]

Deformation output-sub-directory

Definition at line 114 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), and CardiacElectroMechanicsProblem< DIM >::Initialise().

template<unsigned DIM>
double CardiacElectroMechanicsProblem< DIM >::mElectricsTimeStep [protected]

The electrics timestep.

Definition at line 95 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), and CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
double CardiacElectroMechanicsProblem< DIM >::mEndTime [protected]

End time. The start time is assumed to be 0.0

Definition at line 93 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), and CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
std::string CardiacElectroMechanicsProblem< DIM >::mFibreSheetDirectionsFile [protected]

.ortho file from which to read element-wise fibre-sheet-normal-directions

Definition at line 137 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechanicsProblem< DIM >::Initialise(), and CardiacElectroMechanicsProblem< DIM >::SetVariableFibreSheetDirectionsFile().

template<unsigned DIM>
std::vector<unsigned> CardiacElectroMechanicsProblem< DIM >::mFixedNodes [protected]

Nodes for which the deformation is fixed to zero

Definition at line 135 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechProbRegularGeom< DIM >::CardiacElectroMechProbRegularGeom(), and CardiacElectroMechanicsProblem< DIM >::Initialise().

template<unsigned DIM>
bool CardiacElectroMechanicsProblem< DIM >::mIsWatchedLocation [protected]

Whether any location has been set to be watched (lots of output for that location

Definition at line 124 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechanicsProblem< DIM >::DetermineWatchedNodes(), CardiacElectroMechanicsProblem< DIM >::Initialise(), CardiacElectroMechanicsProblem< DIM >::SetWatchedPosition(), CardiacElectroMechanicsProblem< DIM >::Solve(), CardiacElectroMechanicsProblem< DIM >::WriteWatchedLocationData(), and CardiacElectroMechanicsProblem< DIM >::~CardiacElectroMechanicsProblem().

template<unsigned DIM>
double CardiacElectroMechanicsProblem< DIM >::mMechanicsTimeStep [protected]

The mechanics timestep. Needs to be a multiple of the electrics timestep

Definition at line 97 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), and CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
bool CardiacElectroMechanicsProblem< DIM >::mNoElectricsOutput [protected]

Whether to not write out voltages

Definition at line 118 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechanicsProblem< DIM >::SetNoElectricsOutput(), and CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
unsigned CardiacElectroMechanicsProblem< DIM >::mNumElecTimestepsPerMechTimestep [protected]

The number of electrics timesteps per mechanics timestep

Definition at line 99 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), and CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
std::string CardiacElectroMechanicsProblem< DIM >::mOutputDirectory [protected]

Output directory, relative to TEST_OUTPUT

Definition at line 112 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechanicsProblem< DIM >::DetermineWatchedNodes(), CardiacElectroMechanicsProblem< DIM >::Initialise(), and CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
AbstractCardiacMechanicsAssembler<DIM>* CardiacElectroMechanicsProblem< DIM >::mpCardiacMechAssembler [protected]

The mechanics assembler

Definition at line 90 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechanicsProblem< DIM >::Initialise(), CardiacElectroMechanicsProblem< DIM >::rGetDeformedPosition(), CardiacElectroMechanicsProblem< DIM >::Solve(), CardiacElectroMechanicsProblem< DIM >::WriteWatchedLocationData(), and CardiacElectroMechanicsProblem< DIM >::~CardiacElectroMechanicsProblem().

template<unsigned DIM>
TetrahedralMesh<DIM,DIM>* CardiacElectroMechanicsProblem< DIM >::mpElectricsMesh [protected]

The mesh for the electrics

Definition at line 104 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechProbRegularGeom< DIM >::CardiacElectroMechProbRegularGeom(), CardiacElectroMechanicsProblem< DIM >::DetermineWatchedNodes(), CardiacElectroMechanicsProblem< DIM >::Initialise(), and CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
QuadraticMesh<DIM>* CardiacElectroMechanicsProblem< DIM >::mpMechanicsMesh [protected]

The mesh for the mechanics

Definition at line 106 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechProbRegularGeom< DIM >::CardiacElectroMechProbRegularGeom(), CardiacElectroMechanicsProblem< DIM >::DetermineWatchedNodes(), CardiacElectroMechanicsProblem< DIM >::Initialise(), CardiacElectroMechanicsProblem< DIM >::Solve(), and CardiacElectroMechanicsProblem< DIM >::~CardiacElectroMechanicsProblem().

template<unsigned DIM>
FineCoarseMeshPair<DIM>* CardiacElectroMechanicsProblem< DIM >::mpMeshPair [protected]

Class wrapping both meshes, useful for transferring information

Definition at line 109 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::Initialise(), CardiacElectroMechanicsProblem< DIM >::Solve(), and CardiacElectroMechanicsProblem< DIM >::~CardiacElectroMechanicsProblem().

template<unsigned DIM>
MonodomainProblem<DIM>* CardiacElectroMechanicsProblem< DIM >::mpMonodomainProblem [protected]

The cardiac problem class

Definition at line 88 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechanicsProblem< DIM >::Initialise(), CardiacElectroMechanicsProblem< DIM >::Solve(), and CardiacElectroMechanicsProblem< DIM >::~CardiacElectroMechanicsProblem().

template<unsigned DIM>
out_stream CardiacElectroMechanicsProblem< DIM >::mpWatchedLocationFile [protected]

File where watched location info is written

Definition at line 132 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::DetermineWatchedNodes(), CardiacElectroMechanicsProblem< DIM >::WriteWatchedLocationData(), and CardiacElectroMechanicsProblem< DIM >::~CardiacElectroMechanicsProblem().

template<unsigned DIM>
unsigned CardiacElectroMechanicsProblem< DIM >::mWatchedElectricsNodeIndex [protected]

The node in the electrics mesh corresponding to the watched location

Definition at line 128 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechanicsProblem< DIM >::DetermineWatchedNodes(), and CardiacElectroMechanicsProblem< DIM >::WriteWatchedLocationData().

template<unsigned DIM>
c_vector<double,DIM> CardiacElectroMechanicsProblem< DIM >::mWatchedLocation [protected]

The watched location if there is one

Definition at line 126 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::DetermineWatchedNodes(), and CardiacElectroMechanicsProblem< DIM >::SetWatchedPosition().

template<unsigned DIM>
unsigned CardiacElectroMechanicsProblem< DIM >::mWatchedMechanicsNodeIndex [protected]

The node in the mechanics mesh corresponding to the watched location

Definition at line 130 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechanicsProblem< DIM >::DetermineWatchedNodes(), and CardiacElectroMechanicsProblem< DIM >::WriteWatchedLocationData().

template<unsigned DIM>
bool CardiacElectroMechanicsProblem< DIM >::mWriteOutput [protected]

Whether to write any output

Definition at line 116 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::CardiacElectroMechanicsProblem(), CardiacElectroMechanicsProblem< DIM >::Initialise(), and CardiacElectroMechanicsProblem< DIM >::Solve().

template<unsigned DIM>
const int CardiacElectroMechanicsProblem< DIM >::WRITE_EVERY_NTH_TIME = 1 [static, protected]

when to write output

Definition at line 121 of file CardiacElectroMechanicsProblem.hpp.

Referenced by CardiacElectroMechanicsProblem< DIM >::Solve().

The documentation for this class was generated from the following files:
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