| 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::access | Toroidal2dVertexMesh | friend |
| BoundaryNodeIterator typedef | AbstractMesh< 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) const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| CalculateBoundingBox() const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | virtual |
| CalculateMaximumContainingElementsPerProcess() const | AbstractMesh< 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() const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetBoundaryNodeIteratorEnd() const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetCellRearrangementRatio() const | MutableVertexMesh< 2, 2 > | |
| GetCellRearrangementThreshold() const | MutableVertexMesh< 2, 2 > | |
| GetCentroidOfElement(unsigned index) | VertexMesh< ELEMENT_DIM, SPACE_DIM > | virtual |
| GetCheckForInternalIntersections() const | MutableVertexMesh< 2, 2 > | |
| GetCheckForT3Swaps() const | MutableVertexMesh< 2, 2 > | |
| GetDelaunayNodeIndexCorrespondingToVoronoiElementIndex(unsigned elementIndex) | VertexMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetDistanceBetweenNodes(unsigned indexA, unsigned indexB) | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetDistanceForT3SwapChecking() const | MutableVertexMesh< 2, 2 > | |
| GetDistributedVectorFactory() | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | virtual |
| GetEdge(unsigned index) const | VertexMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetEdgeLength(unsigned elementIndex1, unsigned elementIndex2) | VertexMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetElement(unsigned index) const | VertexMesh< 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) const | VertexMesh< 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() const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetMeshForVtk() | Toroidal2dVertexMesh | virtual |
| 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) const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetNodeFromPrePermutationIndex(unsigned index) const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetNodeIteratorBegin(bool skipDeletedNodes=true) | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | inline |
| GetNodeIteratorEnd() | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | inline |
| GetNodeOrHaloNode(unsigned index) const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | virtual |
| GetNumAllElements() const | VertexMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetNumAllNodes() const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | virtual |
| GetNumBoundaryNodes() const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetNumEdges() const | VertexMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetNumElements() const | MutableVertexMesh< 2, 2 > | virtual |
| GetNumFaces() const | VertexMesh< ELEMENT_DIM, SPACE_DIM > | virtual |
| GetNumNodeAttributes() const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetNumNodes() const | MutableVertexMesh< 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() const | MutableVertexMesh< 2, 2 > | |
| GetProtorosetteResolutionProbabilityPerTimestep() const | MutableVertexMesh< 2, 2 > | |
| GetRosetteRankOfElement(unsigned index) | VertexMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetRosetteResolutionProbabilityPerTimestep() const | MutableVertexMesh< 2, 2 > | |
| GetShortAxisOfElement(unsigned index) | VertexMesh< ELEMENT_DIM, SPACE_DIM > | |
| GetSurfaceAreaOfElement(unsigned index) | VertexMesh< ELEMENT_DIM, SPACE_DIM > | virtual |
| GetT2Threshold() const | MutableVertexMesh< 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) const | Toroidal2dVertexMesh | virtual |
| 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() const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | |
| IsMeshOnDisk() const | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | |
| load(Archive &archive, const unsigned int version) | VertexMesh< ELEMENT_DIM, SPACE_DIM > | inlineprotected |
| mBoundaryNodes | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| mCellRearrangementRatio | MutableVertexMesh< 2, 2 > | protected |
| mCellRearrangementThreshold | MutableVertexMesh< 2, 2 > | protected |
| mCheckForInternalIntersections | MutableVertexMesh< 2, 2 > | protected |
| mCheckForT3Swaps | MutableVertexMesh< 2, 2 > | protected |
| mDeletedElementIndices | MutableVertexMesh< 2, 2 > | protected |
| mDeletedNodeIndices | MutableVertexMesh< 2, 2 > | protected |
| mDistanceForT3SwapChecking | MutableVertexMesh< 2, 2 > | protected |
| mEdgeHelper | VertexMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| mElements | VertexMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| mFaces | VertexMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| mHeight | Toroidal2dVertexMesh | private |
| mLastT2SwapLocation | MutableVertexMesh< 2, 2 > | protected |
| mLocationsOfIntersectionSwaps | MutableVertexMesh< 2, 2 > | protected |
| mMeshChangesDuringSimulation | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| mMeshFileBaseName | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| mNodePermutation | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| mNodes | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| mOperationRecorder | MutableVertexMesh< 2, 2 > | protected |
| mpDelaunayMesh | VertexMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| mpDistributedVectorFactory | AbstractMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| mpMeshForVtk | Toroidal2dVertexMesh | private |
| mProtorosetteFormationProbability | MutableVertexMesh< 2, 2 > | protected |
| mProtorosetteResolutionProbabilityPerTimestep | MutableVertexMesh< 2, 2 > | protected |
| mRosetteResolutionProbabilityPerTimestep | MutableVertexMesh< 2, 2 > | protected |
| mT2Threshold | MutableVertexMesh< 2, 2 > | protected |
| mTrackMeshOperations | MutableVertexMesh< 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 > | |
| mVoronoiElementIndexMap | VertexMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| mWidth | Toroidal2dVertexMesh | private |
| 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() const | VertexMesh< ELEMENT_DIM, SPACE_DIM > | |
| rGetNodePermutation() const | AbstractMesh< 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) const | VertexMesh< 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) | Toroidal2dVertexMesh | inlineprivate |
| 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) const | VertexMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| SolveElementMapping(unsigned index) const | VertexMesh< ELEMENT_DIM, SPACE_DIM > | protected |
| SolveNodeMapping(unsigned index) const | VertexMesh< ELEMENT_DIM, SPACE_DIM > | protectedvirtual |
| TestToroidal2dVertexMesh (defined in Toroidal2dVertexMesh) | Toroidal2dVertexMesh | friend |
| 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) | 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 |
1.9.8