| AbstractCellPopulation(AbstractMesh< ELEMENT_DIM, SPACE_DIM > &rMesh) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| AbstractCellPopulation(AbstractMesh< ELEMENT_DIM, SPACE_DIM > &rMesh, std::vector< CellPtr > &rCells, const std::vector< unsigned > locationIndices=std::vector< unsigned >()) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| AbstractOffLatticeCellPopulation(AbstractMesh< ELEMENT_DIM, ELEMENT_DIM > &rMesh) | AbstractOffLatticeCellPopulation< DIM > | protected |
| AbstractOffLatticeCellPopulation(AbstractMesh< ELEMENT_DIM, ELEMENT_DIM > &rMesh, std::vector< CellPtr > &rCells, const std::vector< unsigned > locationIndices=std::vector< unsigned >()) | AbstractOffLatticeCellPopulation< DIM > | |
| AcceptCellWriter(boost::shared_ptr< AbstractCellWriter< DIM, DIM > > pCellWriter, CellPtr pCell) | VertexBasedCellPopulation< DIM > | virtual |
| AbstractOffLatticeCellPopulation< DIM >::AcceptCellWriter(boost::shared_ptr< AbstractCellWriter< ELEMENT_DIM, SPACE_DIM > > pCellWriter, CellPtr pCell)=0 | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | pure virtual |
| AcceptCellWritersAcrossPopulation() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protectedvirtual |
| AcceptPopulationCountWriter(boost::shared_ptr< AbstractCellPopulationCountWriter< DIM, DIM > > pPopulationCountWriter) | VertexBasedCellPopulation< DIM > | virtual |
| AbstractOffLatticeCellPopulation< DIM >::AcceptPopulationCountWriter(boost::shared_ptr< AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM > > pPopulationCountWriter)=0 | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | pure virtual |
| AcceptPopulationWriter(boost::shared_ptr< AbstractCellPopulationWriter< DIM, DIM > > pPopulationWriter) | VertexBasedCellPopulation< DIM > | virtual |
| AbstractOffLatticeCellPopulation< DIM >::AcceptPopulationWriter(boost::shared_ptr< AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM > > pPopulationWriter)=0 | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | pure virtual |
| AddCell(CellPtr pNewCell, CellPtr pParentCell=CellPtr()) | VertexBasedCellPopulation< DIM > | virtual |
| AddCellIdOfT2Swap(unsigned idOfT2Swap) | VertexBasedCellPopulation< DIM > | |
| AddCellPopulationCountWriter() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | inline |
| AddCellPopulationCountWriter(boost::shared_ptr< AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM > > pCellPopulationCountWriter) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | inline |
| AddCellUsingLocationIndex(unsigned index, CellPtr pCell) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | virtual |
| AddCellWriter() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | inline |
| AddCellWriter(boost::shared_ptr< AbstractCellWriter< ELEMENT_DIM, SPACE_DIM > > pCellWriter) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | inline |
| AddLocationOfT2Swap(c_vector< double, DIM > locationOfT2Swap) | VertexBasedCellPopulation< DIM > | |
| AddNode(Node< DIM > *pNewNode) | VertexBasedCellPopulation< DIM > | |
| AbstractOffLatticeCellPopulation< DIM >::AddNode(Node< ELEMENT_DIM > *pNewNode)=0 | AbstractOffLatticeCellPopulation< DIM > | pure virtual |
| AddPopulationWriter() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | inline |
| AddPopulationWriter(boost::shared_ptr< AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM > > pPopulationWriter) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | inline |
| Begin() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| boost::serialization::access (defined in VertexBasedCellPopulation< DIM >) | VertexBasedCellPopulation< DIM > | friend |
| CheckForStepSizeException(unsigned nodeIndex, c_vector< double, DIM > &rDisplacement, double dt) | VertexBasedCellPopulation< DIM > | virtual |
| AbstractOffLatticeCellPopulation< DIM >::CheckForStepSizeException(unsigned nodeIndex, c_vector< double, ELEMENT_DIM > &rDisplacement, double dt)=0 | AbstractOffLatticeCellPopulation< DIM > | pure virtual |
| ClearLocationsAndCellIdsOfT2Swaps() | VertexBasedCellPopulation< DIM > | |
| CloseWritersFiles() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| CreateOrderedPair(unsigned index1, unsigned index2) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| End() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetAbsoluteMovementThreshold() | AbstractOffLatticeCellPopulation< DIM > | |
| GetCellAncestors() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetCellCyclePhaseCount() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetCellDataItemAtPdeNode(unsigned pdeNodeIndex, std::string &rVariableName, bool dirichletBoundaryConditionApplies=false, double dirichletBoundaryValue=0.0) | VertexBasedCellPopulation< DIM > | virtual |
| GetCellIdsOfT2Swaps() | VertexBasedCellPopulation< DIM > | |
| GetCellMutationStateCount() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetCellProliferativeTypeCount() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetCellPropertyRegistry() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetCellsUsingLocationIndex(unsigned index) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetCellUsingLocationIndex(unsigned index) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | virtual |
| GetCentroidOfCellPopulation() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetDampingConstant(unsigned nodeIndex) | VertexBasedCellPopulation< DIM > | virtual |
| GetDampingConstantMutant() | AbstractOffLatticeCellPopulation< DIM > | |
| GetDampingConstantNormal() | AbstractOffLatticeCellPopulation< DIM > | |
| GetDefaultTimeStep() | VertexBasedCellPopulation< DIM > | virtual |
| GetElement(unsigned elementIndex) | VertexBasedCellPopulation< DIM > | |
| GetElementCorrespondingToCell(CellPtr pCell) | VertexBasedCellPopulation< DIM > | |
| GetIdentifier() const | Identifiable | |
| GetLocationIndexUsingCell(CellPtr pCell) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetLocationOfCellCentre(CellPtr pCell) | VertexBasedCellPopulation< DIM > | virtual |
| GetLocationsOfT2Swaps() | VertexBasedCellPopulation< DIM > | |
| GetNeighbouringLocationIndices(CellPtr pCell) | VertexBasedCellPopulation< DIM > | virtual |
| GetNeighbouringNodeIndices(unsigned index) | VertexBasedCellPopulation< DIM > | virtual |
| GetNode(unsigned index) | VertexBasedCellPopulation< DIM > | virtual |
| GetNumAllCells() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetNumElements() | VertexBasedCellPopulation< DIM > | |
| GetNumNodes() | VertexBasedCellPopulation< DIM > | virtual |
| GetNumRealCells() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetOutputCellRearrangementLocations() | VertexBasedCellPopulation< DIM > | |
| GetOutputResultsForChasteVisualizer() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetRestrictVertexMovementBoolean() | VertexBasedCellPopulation< DIM > | |
| GetRosetteRankOfCell(CellPtr pCell) | VertexBasedCellPopulation< DIM > | |
| GetSizeOfCellPopulation() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| GetTetrahedralMeshForPdeModifier() | VertexBasedCellPopulation< DIM > | virtual |
| GetVertexBasedDivisionRule() | VertexBasedCellPopulation< DIM > | |
| GetVolumeOfCell(CellPtr pCell) | VertexBasedCellPopulation< DIM > | virtual |
| GetWidth(const unsigned &rDimension) | VertexBasedCellPopulation< DIM > | virtual |
| HasWriter() const | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | inline |
| InitialiseCells() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| IsCellAssociatedWithADeletedLocation(CellPtr pCell) | VertexBasedCellPopulation< DIM > | virtual |
| IsCellAttachedToLocationIndex(unsigned index) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | virtual |
| IsPdeNodeAssociatedWithNonApoptoticCell(unsigned pdeNodeIndex) | VertexBasedCellPopulation< DIM > | virtual |
| IsRoomToDivide(CellPtr pCell) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | virtual |
| mAbsoluteMovementThreshold | AbstractOffLatticeCellPopulation< DIM > | protected |
| mCellIdsOfT2Swaps | VertexBasedCellPopulation< DIM > | private |
| mCellLocationMap | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| mCellPopulationCountWriters | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| mCellPopulationWriters | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| mCells | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| mCellWriters | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| mCentroid | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| mDampingConstantMutant | AbstractOffLatticeCellPopulation< DIM > | protected |
| mDampingConstantNormal | AbstractOffLatticeCellPopulation< DIM > | protected |
| mDeleteMesh | VertexBasedCellPopulation< DIM > | private |
| mLocationCellMap | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| mLocationsOfT2Swaps | VertexBasedCellPopulation< DIM > | private |
| mOutputCellRearrangementLocations | VertexBasedCellPopulation< DIM > | private |
| mOutputResultsForChasteVisualizer | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| MoveCellInLocationMap(CellPtr pCell, unsigned old_index, unsigned new_index) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| mpCellPropertyRegistry | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| mpMutableVertexMesh | VertexBasedCellPopulation< DIM > | private |
| mpVertexBasedDivisionRule | VertexBasedCellPopulation< DIM > | private |
| mpVtkMetaFile | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| mRestrictVertexMovement | VertexBasedCellPopulation< DIM > | private |
| mrMesh | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | protected |
| OpenWritersFiles(OutputFileHandler &rOutputFileHandler) | VertexBasedCellPopulation< DIM > | virtual |
| OutputCellPopulationInfo(out_stream &rParamsFile) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| OutputCellPopulationParameters(out_stream &rParamsFile) | VertexBasedCellPopulation< DIM > | virtual |
| RemoveCellUsingLocationIndex(unsigned index, CellPtr pCell) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | virtual |
| RemoveDeadCells() | VertexBasedCellPopulation< DIM > | virtual |
| rGetCells() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| rGetMesh() | VertexBasedCellPopulation< DIM > | |
| rGetMesh() const | VertexBasedCellPopulation< DIM > | |
| serialize(Archive &archive, const unsigned int version) | VertexBasedCellPopulation< DIM > | inlineprivate |
| SetAbsoluteMovementThreshold(double absoluteMovementThreshold) | AbstractOffLatticeCellPopulation< DIM > | |
| SetCellAncestorsToLocationIndices() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| SetCellUsingLocationIndex(unsigned index, CellPtr pCell) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| SetDampingConstantMutant(double dampingConstantMutant) | AbstractOffLatticeCellPopulation< DIM > | |
| SetDampingConstantNormal(double dampingConstantNormal) | AbstractOffLatticeCellPopulation< DIM > | |
| SetDataOnAllCells(const std::string &rDataName, double dataValue) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| SetDefaultCellMutationStateAndProliferativeTypeOrdering() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| SetNode(unsigned index, ChastePoint< DIM > &rNewLocation) | VertexBasedCellPopulation< DIM > | |
| AbstractOffLatticeCellPopulation< DIM >::SetNode(unsigned nodeIndex, ChastePoint< ELEMENT_DIM > &rNewLocation)=0 | AbstractOffLatticeCellPopulation< DIM > | pure virtual |
| AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM >::SetNode(unsigned nodeIndex, ChastePoint< SPACE_DIM > &rNewLocation)=0 | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | pure virtual |
| SetOutputCellRearrangementLocations(bool outputCellRearrangementLocations) | VertexBasedCellPopulation< DIM > | |
| SetOutputResultsForChasteVisualizer(bool outputResultsForChasteVisualizer) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | |
| SetRestrictVertexMovementBoolean(bool restrictVertexMovement) | VertexBasedCellPopulation< DIM > | |
| SetVertexBasedDivisionRule(boost::shared_ptr< AbstractVertexBasedDivisionRule< DIM > > pVertexBasedDivisionRule) | VertexBasedCellPopulation< DIM > | |
| SimulationSetupHook(AbstractCellBasedSimulation< DIM, DIM > *pSimulation) | VertexBasedCellPopulation< DIM > | virtual |
| AbstractOffLatticeCellPopulation< DIM >::SimulationSetupHook(AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM > *pSimulation) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | virtual |
| TestVertexBasedDivisionRules class | VertexBasedCellPopulation< DIM > | friend |
| Update(bool hasHadBirthsOrDeaths=true) | VertexBasedCellPopulation< DIM > | virtual |
| UpdateCellProcessLocation() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | virtual |
| UpdateNodeLocations(double dt) | AbstractOffLatticeCellPopulation< DIM > | virtual |
| Validate() | VertexBasedCellPopulation< DIM > | privatevirtual |
| VertexBasedCellPopulation(MutableVertexMesh< DIM, DIM > &rMesh, std::vector< CellPtr > &rCells, bool deleteMesh=false, bool validate=true, const std::vector< unsigned > locationIndices=std::vector< unsigned >()) | VertexBasedCellPopulation< DIM > | |
| VertexBasedCellPopulation(MutableVertexMesh< DIM, DIM > &rMesh) | VertexBasedCellPopulation< DIM > | |
| WriteDataToVisualizerSetupFile(out_stream &pVizSetupFile) | VertexBasedCellPopulation< DIM > | virtual |
| WriteResultsToFiles(const std::string &rDirectory) | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | virtual |
| WriteVtkResultsToFile(const std::string &rDirectory) | VertexBasedCellPopulation< DIM > | privatevirtual |
| ~AbstractCellPopulation() | AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > | virtual |
| ~Identifiable() | Identifiable | virtual |
| ~VertexBasedCellPopulation() | VertexBasedCellPopulation< DIM > | virtual |
1.8.11