, including all inherited members.
| AbstractCellPopulation(AbstractMesh< ELEMENT_DIM, SPACE_DIM > &rMesh) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline, protected] |
| AbstractCellPopulation(AbstractMesh< ELEMENT_DIM, SPACE_DIM > &rMesh, std::vector< CellPtr > &rCells, const std::vector< unsigned > locationIndices=std::vector< unsigned >()) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| AbstractCentreBasedCellPopulation(AbstractMesh< ELEMENT_DIM, SPACE_DIM > &rMesh) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | [protected] |
| AbstractCentreBasedCellPopulation(AbstractMesh< ELEMENT_DIM, SPACE_DIM > &rMesh, std::vector< CellPtr > &rCells, const std::vector< unsigned > locationIndices=std::vector< unsigned >()) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| AbstractOffLatticeCellPopulation(AbstractMesh< ELEMENT_DIM, SPACE_DIM > &rMesh) | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline, protected] |
| AbstractOffLatticeCellPopulation(AbstractMesh< ELEMENT_DIM, SPACE_DIM > &rMesh, std::vector< CellPtr > &rCells, const std::vector< unsigned > locationIndices=std::vector< unsigned >()) | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| AcceptCellWriter(boost::shared_ptr< AbstractCellWriter< ELEMENT_DIM, ELEMENT_DIM > > pCellWriter, CellPtr pCell) | MeshBasedCellPopulation< DIM > | [virtual] |
| AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM >::AcceptCellWriter(boost::shared_ptr< AbstractCellWriter< ELEMENT_DIM, SPACE_DIM > > pCellWriter, CellPtr pCell)=0 | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [pure virtual] |
| AcceptPopulationCountWriter(boost::shared_ptr< AbstractCellPopulationCountWriter< ELEMENT_DIM, ELEMENT_DIM > > pPopulationCountWriter) | MeshBasedCellPopulation< DIM > | [virtual] |
| AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM >::AcceptPopulationCountWriter(boost::shared_ptr< AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM > > pPopulationCountWriter)=0 | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [pure virtual] |
| AcceptPopulationWriter(boost::shared_ptr< AbstractCellPopulationWriter< ELEMENT_DIM, ELEMENT_DIM > > pPopulationWriter) | MeshBasedCellPopulation< DIM > | [virtual] |
| AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM >::AcceptPopulationWriter(boost::shared_ptr< AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM > > pPopulationWriter)=0 | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [pure virtual] |
| AddCell(CellPtr pNewCell, const c_vector< double, DIM > &rCellDivisionVector, CellPtr pParentCell) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline] |
| MeshBasedCellPopulation< DIM >::AddCell(CellPtr pNewCell, const c_vector< double, ELEMENT_DIM > &rCellDivisionVector, CellPtr pParentCell) | MeshBasedCellPopulation< DIM > | [virtual] |
| AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM >::AddCell(CellPtr pNewCell, const c_vector< double, SPACE_DIM > &rCellDivisionVector, CellPtr pParentCell=CellPtr()) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | [virtual] |
| AddCellPopulationCountWriter() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| AddCellPopulationCountWriter(boost::shared_ptr< AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM > > pCellPopulationCountWriter) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| AddCellUsingLocationIndex(unsigned index, CellPtr pCell) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline, virtual] |
| AddCellWriter() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| AddCellWriter(boost::shared_ptr< AbstractCellWriter< ELEMENT_DIM, SPACE_DIM > > pCellWriter) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| AddNode(Node< ELEMENT_DIM > *pNewNode) | MeshBasedCellPopulation< DIM > | |
| AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM >::AddNode(Node< SPACE_DIM > *pNewNode)=0 | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [pure virtual] |
| AddPopulationWriter() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| AddPopulationWriter(boost::shared_ptr< AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM > > pPopulationWriter) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| Begin() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| boost::serialization::access class | MeshBasedCellPopulationWithGhostNodes< DIM > | [friend] |
| CalculateForceBetweenGhostNodes(const unsigned &rNodeAGlobalIndex, const unsigned &rNodeBGlobalIndex) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline] |
| CalculateRestLengths() | MeshBasedCellPopulation< DIM > | |
| CheckCellPointers() | MeshBasedCellPopulation< DIM > | |
| CloseWritersFiles() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| CreateCellPair(CellPtr pCell1, CellPtr pCell2) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| CreateOrderedPair(unsigned index1, unsigned index2) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| CreateVoronoiTessellation() | MeshBasedCellPopulation< DIM > | |
| DivideLongSprings(double springDivisionThreshold) | MeshBasedCellPopulation< DIM > | |
| End() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetAbsoluteMovementThreshold() | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetAreaBasedDampingConstantParameter() | MeshBasedCellPopulation< DIM > | |
| GetCellAncestors() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetCellCyclePhaseCount() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetCellMutationStateCount() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetCellProliferativeTypeCount() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetCellPropertyRegistry() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetCellsUsingLocationIndex(unsigned index) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetCellUsingLocationIndex(unsigned index) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline, virtual] |
| GetCentroidOfCellPopulation() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetDampingConstant(unsigned nodeIndex) | MeshBasedCellPopulation< DIM > | [virtual] |
| GetDampingConstantMutant() | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetDampingConstantNormal() | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetGhostNodeIndices() | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline] |
| GetIdentifier() const | Identifiable | |
| GetLocationIndexUsingCell(CellPtr pCell) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetLocationOfCellCentre(CellPtr pCell) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | [virtual] |
| GetMeinekeDivisionSeparation() | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetNeighbouringLocationIndices(CellPtr pCell) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline, virtual] |
| GetNeighbouringNodeIndices(unsigned index) | MeshBasedCellPopulation< DIM > | [virtual] |
| GetNode(unsigned index) | MeshBasedCellPopulation< DIM > | [virtual] |
| GetNodeCorrespondingToCell(CellPtr pCell) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetNumAllCells() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetNumNodes() | MeshBasedCellPopulation< DIM > | [virtual] |
| GetNumRealCells() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetOutputMeshInVtk() | MeshBasedCellPopulation< DIM > | |
| GetOutputResultsForChasteVisualizer() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetRestLength(unsigned indexA, unsigned indexB) | MeshBasedCellPopulation< DIM > | |
| GetSizeOfCellPopulation() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| GetSurfaceAreaOfVoronoiElement(unsigned index) | MeshBasedCellPopulation< DIM > | |
| GetVolumeOfCell(CellPtr pCell) | MeshBasedCellPopulation< DIM > | [virtual] |
| GetVolumeOfVoronoiElement(unsigned index) | MeshBasedCellPopulation< DIM > | |
| GetVoronoiEdgeLength(unsigned index1, unsigned index2) | MeshBasedCellPopulation< DIM > | |
| GetVoronoiTessellation() | MeshBasedCellPopulation< DIM > | |
| GetWidth(const unsigned &rDimension) | MeshBasedCellPopulation< DIM > | [virtual] |
| GetWriteVtkAsPoints() | MeshBasedCellPopulation< DIM > | |
| HasWriter() const | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| InitialiseCells() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| IsCellAssociatedWithADeletedLocation(CellPtr pCell) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | [virtual] |
| IsCellAttachedToLocationIndex(unsigned index) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| IsGhostNode(unsigned index) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline, virtual] |
| IsMarkedSpring(const std::pair< CellPtr, CellPtr > &rCellPair) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| IsParticle(unsigned index) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | [virtual] |
| IsRoomToDivide(CellPtr pCell) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline, virtual] |
| mAbsoluteMovementThreshold | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mAreaBasedDampingConstantParameter | MeshBasedCellPopulation< DIM > | [protected] |
| MarkSpring(std::pair< CellPtr, CellPtr > &rCellPair) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| mCellLocationMap | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mCellPopulationCountWriters | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mCellPopulationWriters | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mCells | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mCellWriters | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mCentroid | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mDampingConstantMutant | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mDampingConstantNormal | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mDeleteMesh | MeshBasedCellPopulation< DIM > | [protected] |
| MeshBasedCellPopulation(MutableMesh< ELEMENT_DIM, ELEMENT_DIM > &rMesh, std::vector< CellPtr > &rCells, const std::vector< unsigned > locationIndices=std::vector< unsigned >(), bool deleteMesh=false, bool validate=true) | MeshBasedCellPopulation< DIM > | |
| MeshBasedCellPopulation(MutableMesh< ELEMENT_DIM, ELEMENT_DIM > &rMesh) | MeshBasedCellPopulation< DIM > | |
| MeshBasedCellPopulationWithGhostNodes(MutableMesh< DIM, DIM > &rMesh, std::vector< CellPtr > &rCells, const std::vector< unsigned > locationIndices=std::vector< unsigned >(), bool deleteMesh=false, double ghostSpringStiffness=15.0) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline] |
| MeshBasedCellPopulationWithGhostNodes(MutableMesh< DIM, DIM > &rMesh, double ghostSpringStiffness=15.0) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline] |
| mGhostSpringStiffness | MeshBasedCellPopulationWithGhostNodes< DIM > | [private] |
| mHasVariableRestLength | MeshBasedCellPopulation< DIM > | [protected] |
| mIsGhostNode | MeshBasedCellPopulationWithGhostNodes< DIM > | [private] |
| mLocationCellMap | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mMarkedSprings | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | [protected] |
| mMeinekeDivisionSeparation | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | [protected] |
| mNodePairs | MeshBasedCellPopulation< DIM > | [protected] |
| mOutputMeshInVtk | MeshBasedCellPopulation< DIM > | [protected] |
| mOutputResultsForChasteVisualizer | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| MoveCellInLocationMap(CellPtr pCell, unsigned old_index, unsigned new_index) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| mpCellPropertyRegistry | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mpMutableMesh | MeshBasedCellPopulation< DIM > | [protected] |
| mpVoronoiTessellation | MeshBasedCellPopulation< DIM > | [protected] |
| mpVtkMetaFile | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mrMesh | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [protected] |
| mSpringRestLengths | MeshBasedCellPopulation< DIM > | [protected] |
| mUseAreaBasedDampingConstant | MeshBasedCellPopulation< DIM > | [protected] |
| mWriteVtkAsPoints | MeshBasedCellPopulation< DIM > | [protected] |
| OpenWritersFiles(OutputFileHandler &rOutputFileHandler) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline, virtual] |
| OutputCellPopulationInfo(out_stream &rParamsFile) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| OutputCellPopulationParameters(out_stream &rParamsFile) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline, virtual] |
| RemoveCellUsingLocationIndex(unsigned index, CellPtr pCell) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline, virtual] |
| RemoveDeadCells() | MeshBasedCellPopulation< DIM > | [virtual] |
| rGetCells() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| rGetGhostNodes() | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline] |
| rGetMesh() | MeshBasedCellPopulation< DIM > | |
| rGetMesh() const | MeshBasedCellPopulation< DIM > | |
| rGetNodePairs() | MeshBasedCellPopulation< DIM > | [virtual] |
| serialize(Archive &archive, const unsigned int version) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline, private] |
| SetAbsoluteMovementThreshold(double absoluteMovementThreshold) | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| SetAreaBasedDampingConstant(bool useAreaBasedDampingConstant) | MeshBasedCellPopulation< DIM > | |
| SetAreaBasedDampingConstantParameter(double areaBasedDampingConstantParameter) | MeshBasedCellPopulation< DIM > | |
| SetCellAncestorsToLocationIndices() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| SetCellUsingLocationIndex(unsigned index, CellPtr pCell) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| SetDampingConstantMutant(double dampingConstantMutant) | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| SetDampingConstantNormal(double dampingConstantNormal) | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| SetDataOnAllCells(const std::string &dataName, double dataValue) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| SetDefaultCellMutationStateAndProliferativeTypeOrdering() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| SetGhostNodes(const std::set< unsigned > &rGhostNodeIndices) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline, private] |
| SetMeinekeDivisionSeparation(double divisionSeparation) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| SetNode(unsigned nodeIndex, ChastePoint< ELEMENT_DIM > &rNewLocation) | MeshBasedCellPopulation< DIM > | |
| AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM >::SetNode(unsigned nodeIndex, ChastePoint< SPACE_DIM > &rNewLocation)=0 | AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > | [pure virtual] |
| SetOutputMeshInVtk(bool outputMeshInVtk) | MeshBasedCellPopulation< DIM > | |
| SetOutputResultsForChasteVisualizer(bool outputResultsForChasteVisualizer) | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline] |
| SetRestLength(unsigned indexA, unsigned indexB, double restLength) | MeshBasedCellPopulation< DIM > | |
| SetWriteVtkAsPoints(bool writeVtkAsPoints) | MeshBasedCellPopulation< DIM > | |
| SpringsBegin() | MeshBasedCellPopulation< DIM > | |
| SpringsEnd() | MeshBasedCellPopulation< DIM > | |
| TessellateIfNeeded() | MeshBasedCellPopulation< DIM > | |
| TestMeshBasedCellPopulationWithGhostNodes class | MeshBasedCellPopulationWithGhostNodes< DIM > | [friend] |
| UnmarkSpring(std::pair< CellPtr, CellPtr > &rCellPair) | AbstractCentreBasedCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| Update(bool hasHadBirthsOrDeaths=true) | MeshBasedCellPopulation< DIM > | [virtual] |
| UpdateCellProcessLocation() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline, virtual] |
| UpdateGhostNodesAfterReMesh(NodeMap &rMap) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline, virtual] |
| UpdateGhostPositions(double dt) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline] |
| UpdateNodeLocations(double dt) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline, virtual] |
| UseAreaBasedDampingConstant() | MeshBasedCellPopulation< DIM > | |
| Validate() | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline, private, virtual] |
| WriteResultsToFiles(const std::string &rDirectory) | MeshBasedCellPopulation< DIM > | [virtual] |
| WriteVtkResultsToFile(const std::string &rDirectory) | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline, virtual] |
| ~AbstractCellPopulation() | AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > | [inline, virtual] |
| ~Identifiable() | Identifiable | [virtual] |
| ~MeshBasedCellPopulation() | MeshBasedCellPopulation< DIM > | [virtual] |
| ~MeshBasedCellPopulationWithGhostNodes() | MeshBasedCellPopulationWithGhostNodes< DIM > | [inline, virtual] |
