Chaste Commit::baa90ac2819b962188b7562f2326be23c47859a7
Toroidal2dVertexMesh Member List

This is the complete list of members for Toroidal2dVertexMesh, including all inherited members.

AbstractMesh()AbstractMesh< ELEMENT_DIM, SPACE_DIM >
AddElement(VertexElement< ELEMENT_DIM, SPACE_DIM > *pNewElement)MutableVertexMesh< 2, 2 >
AddNode(Node< 2 > *pNewNode)Toroidal2dVertexMesh
MutableVertexMesh< 2, 2 >::AddNode(Node< SPACE_DIM > *pNewNode)MutableVertexMesh< 2, 2 >
boost::serialization::accessToroidal2dVertexMeshfriend
BoundaryNodeIterator typedefAbstractMesh< ELEMENT_DIM, SPACE_DIM >
CalculateAreaOfFace(VertexElement< ELEMENT_DIM - 1, SPACE_DIM > *pFace)VertexMesh< ELEMENT_DIM, SPACE_DIM >virtual
CalculateBoundingBox(const std::vector< Node< SPACE_DIM > * > &rNodes) constAbstractMesh< ELEMENT_DIM, SPACE_DIM >protected
CalculateBoundingBox() constAbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
CalculateMaximumContainingElementsPerProcess() constAbstractMesh< ELEMENT_DIM, SPACE_DIM >
CalculateMomentsOfElement(unsigned index)VertexMesh< ELEMENT_DIM, SPACE_DIM >virtual
CalculateUnitNormalToFaceWithArea(VertexElement< ELEMENT_DIM - 1, SPACE_DIM > *pFace, c_vector< double, SPACE_DIM > &rNormal)VertexMesh< ELEMENT_DIM, SPACE_DIM >
CheckForIntersections()MutableVertexMesh< 2, 2 >protected
CheckForRosettes()MutableVertexMesh< 2, 2 >private
CheckForSwapsFromShortEdges()MutableVertexMesh< 2, 2 >protectedvirtual
CheckForT2Swaps(VertexElementMap &rElementMap)MutableVertexMesh< 2, 2 >
CheckNodeLocation(Node< 2 > *pNode)Toroidal2dVertexMesh
Clear()MutableVertexMesh< 2, 2 >virtual
ClearLocationsOfIntersectionSwaps()MutableVertexMesh< 2, 2 >
ClearLocationsOfT1Swaps()MutableVertexMesh< 2, 2 >
ClearLocationsOfT3Swaps()MutableVertexMesh< 2, 2 >
ConstructFromMeshReader(AbstractMeshReader< 2, 2 > &rMeshReader, double width, double height)Toroidal2dVertexMesh
MutableVertexMesh< 2, 2 >::ConstructFromMeshReader(AbstractMeshReader< ELEMENT_DIM, SPACE_DIM > &rMeshReader)VertexMesh< ELEMENT_DIM, SPACE_DIM >
DeleteElementPriorToReMesh(unsigned index)MutableVertexMesh< 2, 2 >
DeleteNodePriorToReMesh(unsigned index)MutableVertexMesh< 2, 2 >
DivideEdge(Node< SPACE_DIM > *pNodeA, Node< SPACE_DIM > *pNodeB)MutableVertexMesh< 2, 2 >
DivideElement(VertexElement< ELEMENT_DIM, SPACE_DIM > *pElement, unsigned nodeAIndex, unsigned nodeBIndex, bool placeOriginalElementBelow=false)MutableVertexMesh< 2, 2 >protected
DivideElementAlongGivenAxis(VertexElement< ELEMENT_DIM, SPACE_DIM > *pElement, c_vector< double, SPACE_DIM > axisOfDivision, bool placeOriginalElementBelow=false)MutableVertexMesh< 2, 2 >
DivideElementAlongShortAxis(VertexElement< ELEMENT_DIM, SPACE_DIM > *pElement, bool placeOriginalElementBelow=false)MutableVertexMesh< 2, 2 >
ElementIncludesPoint(const c_vector< double, SPACE_DIM > &rTestPoint, unsigned elementIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >protected
GenerateEdgesFromElements(std::vector< VertexElement< ELEMENT_DIM, SPACE_DIM > * > &rElements)VertexMesh< ELEMENT_DIM, SPACE_DIM >protected
GenerateVerticesFromElementCircumcentres(TetrahedralMesh< ELEMENT_DIM, SPACE_DIM > &rMesh)VertexMesh< ELEMENT_DIM, SPACE_DIM >protected
GetAreaGradientOfElementAtNode(VertexElement< ELEMENT_DIM, SPACE_DIM > *pElement, unsigned localIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetBoundaryNodeIteratorBegin() constAbstractMesh< ELEMENT_DIM, SPACE_DIM >
GetBoundaryNodeIteratorEnd() constAbstractMesh< ELEMENT_DIM, SPACE_DIM >
GetCellRearrangementRatio() constMutableVertexMesh< 2, 2 >
GetCellRearrangementThreshold() constMutableVertexMesh< 2, 2 >
GetCentroidOfElement(unsigned index)VertexMesh< ELEMENT_DIM, SPACE_DIM >virtual
GetCheckForInternalIntersections() constMutableVertexMesh< 2, 2 >
GetCheckForT3Swaps() constMutableVertexMesh< 2, 2 >
GetDelaunayNodeIndexCorrespondingToVoronoiElementIndex(unsigned elementIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetDistanceBetweenNodes(unsigned indexA, unsigned indexB)AbstractMesh< ELEMENT_DIM, SPACE_DIM >
GetDistanceForT3SwapChecking() constMutableVertexMesh< 2, 2 >
GetDistributedVectorFactory()AbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
GetEdge(unsigned index) constVertexMesh< ELEMENT_DIM, SPACE_DIM >
GetEdgeLength(unsigned elementIndex1, unsigned elementIndex2)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetElement(unsigned index) constVertexMesh< ELEMENT_DIM, SPACE_DIM >
GetElementIteratorBegin(bool skipDeletedElements=true)VertexMesh< ELEMENT_DIM, SPACE_DIM >inline
GetElementIteratorEnd()VertexMesh< ELEMENT_DIM, SPACE_DIM >inline
GetElongationShapeFactorOfElement(unsigned elementIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetFace(unsigned index) constVertexMesh< ELEMENT_DIM, SPACE_DIM >
GetLastT2SwapLocation()MutableVertexMesh< 2, 2 >
GetLocalIndexForElementEdgeClosestToPoint(const c_vector< double, SPACE_DIM > &rTestPoint, unsigned elementIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >protected
GetLocationsOfIntersectionSwaps()MutableVertexMesh< 2, 2 >
GetLocationsOfT1Swaps()MutableVertexMesh< 2, 2 >
GetLocationsOfT3Swaps()MutableVertexMesh< 2, 2 >
GetMeshFileBaseName() constAbstractMesh< ELEMENT_DIM, SPACE_DIM >
GetMeshForVtk()Toroidal2dVertexMeshvirtual
GetNearestNodeIndex(const ChastePoint< SPACE_DIM > &rTestPoint)AbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
GetNeighbouringElementIndices(unsigned elementIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetNeighbouringNodeIndices(unsigned nodeIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetNeighbouringNodeNotAlsoInElement(unsigned nodeIndex, unsigned elemIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetNextEdgeGradientOfElementAtNode(VertexElement< ELEMENT_DIM, SPACE_DIM > *pElement, unsigned localIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetNode(unsigned index) constAbstractMesh< ELEMENT_DIM, SPACE_DIM >
GetNodeFromPrePermutationIndex(unsigned index) constAbstractMesh< ELEMENT_DIM, SPACE_DIM >
GetNodeIteratorBegin(bool skipDeletedNodes=true)AbstractMesh< ELEMENT_DIM, SPACE_DIM >inline
GetNodeIteratorEnd()AbstractMesh< ELEMENT_DIM, SPACE_DIM >inline
GetNodeOrHaloNode(unsigned index) constAbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
GetNumAllElements() constVertexMesh< ELEMENT_DIM, SPACE_DIM >
GetNumAllNodes() constAbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
GetNumBoundaryNodes() constAbstractMesh< ELEMENT_DIM, SPACE_DIM >
GetNumEdges() constVertexMesh< ELEMENT_DIM, SPACE_DIM >
GetNumElements() constMutableVertexMesh< 2, 2 >virtual
GetNumFaces() constVertexMesh< ELEMENT_DIM, SPACE_DIM >virtual
GetNumNodeAttributes() constAbstractMesh< ELEMENT_DIM, SPACE_DIM >
GetNumNodes() constMutableVertexMesh< 2, 2 >virtual
GetOperationRecorder()MutableVertexMesh< 2, 2 >
GetPerimeterGradientOfElementAtNode(VertexElement< ELEMENT_DIM, SPACE_DIM > *pElement, unsigned localIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetPreviousEdgeGradientOfElementAtNode(VertexElement< ELEMENT_DIM, SPACE_DIM > *pElement, unsigned localIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetProtorosetteFormationProbability() constMutableVertexMesh< 2, 2 >
GetProtorosetteResolutionProbabilityPerTimestep() constMutableVertexMesh< 2, 2 >
GetRosetteRankOfElement(unsigned index)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetRosetteResolutionProbabilityPerTimestep() constMutableVertexMesh< 2, 2 >
GetShortAxisOfElement(unsigned index)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetSurfaceAreaOfElement(unsigned index)VertexMesh< ELEMENT_DIM, SPACE_DIM >virtual
GetT2Threshold() constMutableVertexMesh< 2, 2 >
GetVectorFromAtoB(const c_vector< double, 2 > &rLocation1, const c_vector< double, 2 > &rLocation2)Toroidal2dVertexMesh
MutableVertexMesh< 2, 2 >::GetVectorFromAtoB(const c_vector< double, SPACE_DIM > &rLocationA, const c_vector< double, SPACE_DIM > &rLocationB)VertexMesh< ELEMENT_DIM, SPACE_DIM >virtual
GetVolumeOfElement(unsigned index)VertexMesh< ELEMENT_DIM, SPACE_DIM >virtual
GetVoronoiElementIndexCorrespondingToDelaunayNodeIndex(unsigned nodeIndex)VertexMesh< ELEMENT_DIM, SPACE_DIM >
GetWidth(const unsigned &rDimension) constToroidal2dVertexMeshvirtual
HandleHighOrderJunctions(Node< SPACE_DIM > *pNodeA, Node< SPACE_DIM > *pNodeB)MutableVertexMesh< 2, 2 >privatevirtual
IdentifySwapType(Node< SPACE_DIM > *pNodeA, Node< SPACE_DIM > *pNodeB)MutableVertexMesh< 2, 2 >protectedvirtual
IsMeshChanging() constAbstractMesh< ELEMENT_DIM, SPACE_DIM >
IsMeshOnDisk() constAbstractMesh< ELEMENT_DIM, SPACE_DIM >
IsNearExistingNodes(c_vector< double, SPACE_DIM > newNodeLocation, std::vector< Node< SPACE_DIM > * > nodesToCheck, double minClearance)VertexMesh< ELEMENT_DIM, SPACE_DIM >
load(Archive &archive, const unsigned int version)VertexMesh< ELEMENT_DIM, SPACE_DIM >inlineprotected
mBoundaryNodesAbstractMesh< ELEMENT_DIM, SPACE_DIM >protected
mCellRearrangementRatioMutableVertexMesh< 2, 2 >protected
mCellRearrangementThresholdMutableVertexMesh< 2, 2 >protected
mCheckForInternalIntersectionsMutableVertexMesh< 2, 2 >protected
mCheckForT3SwapsMutableVertexMesh< 2, 2 >protected
mDeletedElementIndicesMutableVertexMesh< 2, 2 >protected
mDeletedNodeIndicesMutableVertexMesh< 2, 2 >protected
mDistanceForT3SwapCheckingMutableVertexMesh< 2, 2 >protected
mEdgeHelperVertexMesh< ELEMENT_DIM, SPACE_DIM >protected
mElementsVertexMesh< ELEMENT_DIM, SPACE_DIM >protected
mFacesVertexMesh< ELEMENT_DIM, SPACE_DIM >protected
mHeightToroidal2dVertexMeshprivate
mLastT2SwapLocationMutableVertexMesh< 2, 2 >protected
mLocationsOfIntersectionSwapsMutableVertexMesh< 2, 2 >protected
mMeshChangesDuringSimulationAbstractMesh< ELEMENT_DIM, SPACE_DIM >protected
mMeshFileBaseNameAbstractMesh< ELEMENT_DIM, SPACE_DIM >protected
mNodePermutationAbstractMesh< ELEMENT_DIM, SPACE_DIM >protected
mNodesAbstractMesh< ELEMENT_DIM, SPACE_DIM >protected
mOperationRecorderMutableVertexMesh< 2, 2 >protected
mpDelaunayMeshVertexMesh< ELEMENT_DIM, SPACE_DIM >protected
mpDistributedVectorFactoryAbstractMesh< ELEMENT_DIM, SPACE_DIM >protected
mpMeshForVtkToroidal2dVertexMeshprivate
mProtorosetteFormationProbabilityMutableVertexMesh< 2, 2 >protected
mProtorosetteResolutionProbabilityPerTimestepMutableVertexMesh< 2, 2 >protected
mRosetteResolutionProbabilityPerTimestepMutableVertexMesh< 2, 2 >protected
mT2ThresholdMutableVertexMesh< 2, 2 >protected
mTrackMeshOperationsMutableVertexMesh< 2, 2 >protected
MutableVertexMesh(std::vector< Node< SPACE_DIM > * > nodes, std::vector< VertexElement< ELEMENT_DIM, SPACE_DIM > * > vertexElements, double cellRearrangementThreshold=0.01, double t2Threshold=0.001, double cellRearrangementRatio=1.5, double protorosetteFormationProbability=0.0, double protorosetteResolutionProbabilityPerTimestep=0.0, double rosetteResolutionProbabilityPerTimestep=0.0)MutableVertexMesh< 2, 2 >
MutableVertexMesh()MutableVertexMesh< 2, 2 >
mVoronoiElementIndexMapVertexMesh< ELEMENT_DIM, SPACE_DIM >protected
mWidthToroidal2dVertexMeshprivate
PerformIntersectionSwap(Node< SPACE_DIM > *pNode, unsigned elementIndex)MutableVertexMesh< 2, 2 >private
PerformNodeMerge(Node< SPACE_DIM > *pNodeA, Node< SPACE_DIM > *pNodeB)MutableVertexMesh< 2, 2 >
PerformProtorosetteResolution(Node< SPACE_DIM > *pProtorosetteNode)MutableVertexMesh< 2, 2 >private
PerformRosetteRankDecrease(Node< SPACE_DIM > *pRosetteNode)MutableVertexMesh< 2, 2 >private
PerformRosetteRankIncrease(Node< SPACE_DIM > *pNodeA, Node< SPACE_DIM > *pNodeB)MutableVertexMesh< 2, 2 >private
PerformT1Swap(Node< SPACE_DIM > *pNodeA, Node< SPACE_DIM > *pNodeB, std::set< unsigned > &rElementsContainingNodes)MutableVertexMesh< 2, 2 >private
PerformT2Swap(VertexElement< ELEMENT_DIM, SPACE_DIM > &rElement)MutableVertexMesh< 2, 2 >private
PerformT3Swap(Node< SPACE_DIM > *pNode, unsigned elementIndex)MutableVertexMesh< 2, 2 >private
PerformVoidRemoval(Node< SPACE_DIM > *pNodeA, Node< SPACE_DIM > *pNodeB, Node< SPACE_DIM > *pNodeC)MutableVertexMesh< 2, 2 >private
PermuteNodes()AbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
ReadNodesPerProcessorFile(const std::string &rNodesPerProcessorFile)AbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
RefreshMesh()AbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
ReMesh(VertexElementMap &rElementMap)MutableVertexMesh< 2, 2 >virtual
ReMesh()MutableVertexMesh< 2, 2 >
RemoveDeletedNodes()MutableVertexMesh< 2, 2 >
RemoveDeletedNodesAndElements(VertexElementMap &rElementMap)MutableVertexMesh< 2, 2 >
rGetEdgeHelper() constVertexMesh< ELEMENT_DIM, SPACE_DIM >
rGetNodePermutation() constAbstractMesh< ELEMENT_DIM, SPACE_DIM >
Rotate(c_matrix< double, SPACE_DIM, SPACE_DIM > rotationMatrix)AbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
Rotate(c_vector< double, 3 > axis, double angle)AbstractMesh< ELEMENT_DIM, SPACE_DIM >
Rotate(double theta)AbstractMesh< ELEMENT_DIM, SPACE_DIM >
RotateX(const double theta)AbstractMesh< ELEMENT_DIM, SPACE_DIM >
RotateY(const double theta)AbstractMesh< ELEMENT_DIM, SPACE_DIM >
RotateZ(const double theta)AbstractMesh< ELEMENT_DIM, SPACE_DIM >
save(Archive &archive, const unsigned int version) constVertexMesh< ELEMENT_DIM, SPACE_DIM >inlineprotected
Scale(const double xFactor=1.0, const double yFactor=1.0, const double zFactor=1.0)AbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
serialize(Archive &archive, const unsigned int version)Toroidal2dVertexMeshinlineprivate
SetCellRearrangementRatio(double cellRearrangementRatio)MutableVertexMesh< 2, 2 >
SetCellRearrangementThreshold(double cellRearrangementThreshold)MutableVertexMesh< 2, 2 >
SetCheckForInternalIntersections(bool checkForInternalIntersections)MutableVertexMesh< 2, 2 >
SetCheckForT3Swaps(bool checkForT3Swaps)MutableVertexMesh< 2, 2 >
SetDistanceForT3SwapChecking(double distanceForT3SwapChecking)MutableVertexMesh< 2, 2 >
SetDistributedVectorFactory(DistributedVectorFactory *pFactory)AbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
SetElementOwnerships()AbstractMesh< ELEMENT_DIM, SPACE_DIM >protectedvirtual
SetHeight(double height)Toroidal2dVertexMesh
SetMeshHasChangedSinceLoading()AbstractMesh< ELEMENT_DIM, SPACE_DIM >
SetMeshOperationTracking(const bool track)MutableVertexMesh< 2, 2 >
SetNode(unsigned nodeIndex, ChastePoint< 2 > point)Toroidal2dVertexMesh
MutableVertexMesh< 2, 2 >::SetNode(unsigned nodeIndex, ChastePoint< SPACE_DIM > point)MutableVertexMesh< 2, 2 >virtual
SetProtorosetteFormationProbability(double protorosetteFormationProbability)MutableVertexMesh< 2, 2 >
SetProtorosetteResolutionProbabilityPerTimestep(double protorosetteResolutionProbabilityPerTimestep)MutableVertexMesh< 2, 2 >
SetRosetteResolutionProbabilityPerTimestep(double rosetteResolutionProbabilityPerTimestep)MutableVertexMesh< 2, 2 >
SetT2Threshold(double t2Threshold)MutableVertexMesh< 2, 2 >
SetWidth(double width)Toroidal2dVertexMesh
SolveBoundaryElementMapping(unsigned index) constVertexMesh< ELEMENT_DIM, SPACE_DIM >protected
SolveElementMapping(unsigned index) constVertexMesh< ELEMENT_DIM, SPACE_DIM >protected
SolveNodeMapping(unsigned index) constVertexMesh< ELEMENT_DIM, SPACE_DIM >protectedvirtual
TestToroidal2dVertexMesh (defined in Toroidal2dVertexMesh)Toroidal2dVertexMeshfriend
Toroidal2dVertexMesh(double width, double height, std::vector< Node< 2 > * > nodes, std::vector< VertexElement< 2, 2 > * > vertexElements, double cellRearrangementThreshold=0.01, double t2Threshold=0.001)Toroidal2dVertexMesh
Toroidal2dVertexMesh()Toroidal2dVertexMesh
Toroidal2dVertexMesh(Toroidal2dMesh &rMesh, bool isBounded=false)Toroidal2dVertexMesh
Translate(const c_vector< double, SPACE_DIM > &rDisplacement)AbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
Translate(const double xMovement=0.0, const double yMovement=0.0, const double zMovement=0.0)AbstractMesh< ELEMENT_DIM, SPACE_DIM >
VertexMesh(std::vector< Node< SPACE_DIM > * > nodes, std::vector< VertexElement< ELEMENT_DIM, SPACE_DIM > * > vertexElements)VertexMesh< ELEMENT_DIM, SPACE_DIM >
VertexMesh(std::vector< Node< SPACE_DIM > * > nodes, std::vector< VertexElement< ELEMENT_DIM - 1, SPACE_DIM > * > faces, std::vector< VertexElement< ELEMENT_DIM, SPACE_DIM > * > vertexElements)VertexMesh< ELEMENT_DIM, SPACE_DIM >
VertexMesh(TetrahedralMesh< 2, 2 > &rMesh, bool isPeriodic=false, bool isBounded=false, bool scaleBoundByEdgeLength=true, double maxDelaunayEdgeLength=DBL_MAX, bool offsetNewBoundaryNodes=false)VertexMesh< ELEMENT_DIM, SPACE_DIM >
VertexMesh(TetrahedralMesh< 3, 3 > &rMesh)VertexMesh< ELEMENT_DIM, SPACE_DIM >
VertexMesh()VertexMesh< ELEMENT_DIM, SPACE_DIM >
WidenEdgeOrCorrectIntersectionLocationIfNecessary(unsigned indexA, unsigned indexB, c_vector< double, 2 > intersection)MutableVertexMesh< 2, 2 >private
~AbstractMesh()AbstractMesh< ELEMENT_DIM, SPACE_DIM >virtual
~MutableVertexMesh()MutableVertexMesh< 2, 2 >virtual
~Toroidal2dVertexMesh()Toroidal2dVertexMesh
~VertexMesh()VertexMesh< ELEMENT_DIM, SPACE_DIM >virtual