| allDelSets() | voronoiModelBase | protected |
| anyCircumcenterTestFailed | voronoiModelBase | protected |
| AreaPeri | Simple2DCell | protected |
| AreaPeriPreferences | Simple2DCell | protected |
| Box | Simple2DCell | |
| cellDeath(int cellIndex) | voronoiModelBase | virtual |
| cellDirectorForces | Simple2DActiveCell | |
| cellDirectors | Simple2DActiveCell | |
| cellDivision(const vector< int > ¶meters, const vector< Dscalar > &dParams) | voronoiModelBase | virtual |
| cellForces | Simple2DCell | |
| celllist | voronoiModelBase | protected |
| cellMasses | Simple2DCell | |
| cellNeighborNum | Simple2DCell | |
| cellNeighbors | Simple2DCell | |
| cellPositions | Simple2DCell | |
| cellsize | voronoiModelBase | protected |
| cellType | Simple2DCell | |
| cellTypeIndexer | Simple2DCell | |
| cellVelocities | Simple2DCell | |
| cellVertexNum | Simple2DCell | |
| cellVertices | Simple2DCell | protected |
| circumcenters | voronoiModelBase | protected |
| completeRetriangulationPerformed | voronoiModelBase | protected |
| computeEnergy() | VoronoiQuadraticEnergyWithTension | virtual |
| computeForces() | VoronoiQuadraticEnergyWithTension | virtual |
| ComputeForceSetsGPU() | VoronoiQuadraticEnergyWithTension | virtual |
| computeGeometry() | Simple2DCell | virtual |
| computeGeometryCPU() | voronoiModelBase | virtual |
| computeGeometryGPU() | voronoiModelBase | virtual |
| computeKineticEnergy() | Simple2DCell | |
| computeKineticPressure() | Simple2DCell | |
| computeVoronoiForceCPU(int i) | VoronoiQuadraticEnergy | virtual |
| computeVoronoiForceSetsGPU() | VoronoiQuadraticEnergy | virtual |
| computeVoronoiSimpleTensionForceCPU(int i) | VoronoiQuadraticEnergyWithTension | virtual |
| computeVoronoiSimpleTensionForceSetsGPU() | VoronoiQuadraticEnergyWithTension | virtual |
| computeVoronoiTensionForceCPU(int i) | VoronoiQuadraticEnergyWithTension | virtual |
| computeVoronoiTensionForceSetsGPU() | VoronoiQuadraticEnergyWithTension | virtual |
| currentTime | Simple2DModel | |
| d2Areadvdr(Matrix2x2 &dvpdr, Matrix2x2 &dvmdr) | voronoiModelBase | protected |
| d2Edridrj(int i, int j, neighborType neighbor, Dscalar unstress=1.0, Dscalar stress=1.0) | VoronoiQuadraticEnergy | protected |
| d2Hdridrj(Dscalar2 rj, Dscalar2 rk, int jj) | voronoiModelBase | protected |
| d2Peridvdr(Matrix2x2 &dvdr, Matrix2x2 &dvmdr, Matrix2x2 &dvpdr, Dscalar2 vm, Dscalar2 v, Dscalar2 vp) | voronoiModelBase | protected |
| dAidrj(int i, int j) | voronoiModelBase | protected |
| delLoc | voronoiModelBase | |
| delOther | voronoiModelBase | protected |
| delSets | voronoiModelBase | protected |
| deltaT | Simple2DCell | |
| dHdri(Dscalar2 ri, Dscalar2 rj, Dscalar2 rk) | voronoiModelBase | protected |
| displacements | Simple2DCell | protected |
| dPidrj(int i, int j) | voronoiModelBase | protected |
| Dr | Simple2DActiveCell | |
| Energy | Simple2DCell | |
| enforceTopology() | voronoiModelBase | virtual |
| exclusions | voronoiModelBase | |
| external_forces | voronoiModelBase | |
| forceSets | voronoiModelBase | protected |
| forcesUpToDate | Simple2DCell | |
| fullTriangulation(bool verbose=false) | voronoiModelBase | protected |
| gamma | VoronoiQuadraticEnergyWithTension | protected |
| getCellNeighs(int idx, int &nNeighs, vector< int > &neighs) (defined in Simple2DCell) | Simple2DCell | inline |
| getCircumcenterIndices(bool secondtime=false, bool verbose=false) | voronoiModelBase | protected |
| getDelSets(int i) | voronoiModelBase | protected |
| getDynMatEntries(vector< int2 > &rcs, vector< Dscalar > &vals, Dscalar unstress=1.0, Dscalar stress=1.0) | VoronoiQuadraticEnergy | virtual |
| getForces(GPUArray< Dscalar2 > &forces) | voronoiModelBase | inlinevirtual |
| getMaxForce() | Simple2DCell | inlinevirtual |
| getNumberOfDegreesOfFreedom() | voronoiModelBase | inlinevirtual |
| getSigmaXY() | VoronoiQuadraticEnergy | virtual |
| getSurfaceTension() | VoronoiQuadraticEnergyWithTension | inline |
| GlobalFixes | voronoiModelBase | |
| globalOnly | voronoiModelBase | protected |
| globalTriangulationCGAL(bool verbose=false) | voronoiModelBase | protected |
| GPUcompute | Simple2DCell | protected |
| idxToTag | Simple2DCell | protected |
| idxToTagVertex | Simple2DCell | protected |
| initializeCellSorting() | Simple2DCell | protected |
| initializeSimple2DActiveCell(int n) | Simple2DActiveCell | |
| initializeSimple2DCell(int n) | Simple2DCell | |
| initializeVertexSorting() | Simple2DCell | protected |
| initializeVoronoiModelBase(int n) | voronoiModelBase | |
| initializeVoronoiQuadraticEnergy(int n) | VoronoiQuadraticEnergy | |
| itt | Simple2DCell | protected |
| ittVertex | Simple2DCell | protected |
| KA | Simple2DCell | protected |
| KineticEnergy | Simple2DCell | |
| KP | Simple2DCell | protected |
| localTopologyUpdates | voronoiModelBase | |
| Moduli | Simple2DCell | protected |
| Motility | Simple2DActiveCell | |
| moveDegreesOfFreedom(GPUArray< Dscalar2 > &displacements, Dscalar scale=1.) | voronoiModelBase | virtual |
| movePoints(GPUArray< Dscalar2 > &displacements, Dscalar scale) | voronoiModelBase | |
| movePointsCPU(GPUArray< Dscalar2 > &displacements, Dscalar scale) | voronoiModelBase | |
| n_idx | Simple2DCell | |
| Ncells | Simple2DCell | |
| NeedsFixing | voronoiModelBase | protected |
| NeighIdxNum | voronoiModelBase | protected |
| NeighIdxs | voronoiModelBase | protected |
| neighMax | voronoiModelBase | protected |
| neighMaxChange | voronoiModelBase | protected |
| noise | Simple2DCell | protected |
| NumCircumCenters | voronoiModelBase | protected |
| Nvertices | Simple2DCell | |
| particleExclusions | voronoiModelBase | protected |
| readTriangulation(ifstream &infile) | voronoiModelBase | |
| reIndexCellArray(GPUArray< int > &array) | Simple2DCell | protected |
| reIndexCellArray(GPUArray< Dscalar > &array) | Simple2DCell | protected |
| reIndexCellArray(GPUArray< Dscalar2 > &array) | Simple2DCell | protected |
| reIndexVertexArray(GPUArray< int > &array) | Simple2DCell | protected |
| reIndexVertexArray(GPUArray< Dscalar > &array) | Simple2DCell | protected |
| reIndexVertexArray(GPUArray< Dscalar2 > &array) | Simple2DCell | protected |
| repair | voronoiModelBase | protected |
| repairTriangulation(vector< int > &fixlist) | voronoiModelBase | protected |
| reportAP(bool verbose=false) | Simple2DCell | inline |
| reportCellInfo() | VoronoiQuadraticEnergy | |
| reportForces(bool verbose) | VoronoiQuadraticEnergy | |
| reportMeanCellForce(bool verbose) | Simple2DCell | virtual |
| reportMeanP() | Simple2DCell | |
| reportMeanVertexForce(bool verbose=false) | Simple2DCell | inline |
| reportq() | Simple2DCell | virtual |
| reportVarAP() | Simple2DCell | |
| reportVarq() | Simple2DCell | |
| repPerFrame | voronoiModelBase | |
| Reproducible | Simple2DCell | protected |
| resetDelLocPoints() | voronoiModelBase | |
| resetLists() | voronoiModelBase | protected |
| resizeAndReset() | voronoiModelBase | protected |
| returnAreaPeri() | Simple2DCell | inlinevirtual |
| returnAreaPeriPreferences() | Simple2DCell | inlinevirtual |
| returnBox() | Simple2DCell | inlinevirtual |
| returnForces() | voronoiModelBase | inlinevirtual |
| returnItt() | Simple2DCell | inlinevirtual |
| returnMasses() | Simple2DCell | inlinevirtual |
| returnModuli() | Simple2DCell | inlinevirtual |
| returnOtherData() | Simple2DCell | inlinevirtual |
| returnPositions() | Simple2DCell | inlinevirtual |
| returnVelocities() | Simple2DCell | inlinevirtual |
| setBox(BoxPtr _box) | Simple2DCell | inline |
| setCellDirectorsRandomly() | Simple2DActiveCell | |
| setCellMotility(vector< Dscalar > &v0s, vector< Dscalar > &drs) | Simple2DActiveCell | |
| setCellPositions(vector< Dscalar2 > newCellPositions) | Simple2DCell | |
| setCellPositionsRandomly() | Simple2DCell | |
| setCellPreferences(vector< Dscalar2 > &AreaPeriPreferences) | Simple2DCell | |
| setCellPreferencesUniform(Dscalar A0, Dscalar P0) | Simple2DCell | |
| setCellType(vector< int > &types) | Simple2DCell | |
| setCellTypeUniform(int i) | Simple2DCell | |
| setCellVelocitiesMaxwellBoltzmann(Dscalar T) | Simple2DCell | |
| setCPU(bool global=true) | voronoiModelBase | inlinevirtual |
| Simple2DActiveCell::setCPU() | Simple2DCell | inlinevirtual |
| setDeltaT(Dscalar dt) | Simple2DCell | inline |
| setExclusions(vector< int > &exes) | voronoiModelBase | |
| setGPU() | Simple2DCell | inlinevirtual |
| setModuliUniform(Dscalar newKA, Dscalar newKP) | Simple2DCell | |
| setSurfaceTension(Dscalar g) | VoronoiQuadraticEnergyWithTension | inline |
| setSurfaceTension(vector< Dscalar > gammas) | VoronoiQuadraticEnergyWithTension | |
| setTime(Dscalar time) | Simple2DModel | inlinevirtual |
| setUseSurfaceTension(bool use_tension) | VoronoiQuadraticEnergyWithTension | inline |
| setv0Dr(Dscalar v0new, Dscalar drnew) | Simple2DActiveCell | virtual |
| setVertexPositions(vector< Dscalar2 > newVertexPositions) | Simple2DCell | |
| setVertexTopologyFromCells(vector< vector< int > > cellVertexIndices) | Simple2DCell | |
| setVertexVelocitiesMaxwellBoltzmann(Dscalar T) | Simple2DCell | |
| Simple2DActiveCell() | Simple2DActiveCell | |
| Simple2DCell() | Simple2DCell | |
| simpleTension | VoronoiQuadraticEnergyWithTension | protected |
| skippedFrames | voronoiModelBase | |
| spatiallySortCells() | Simple2DCell | protected |
| spatiallySortCellsAndCellActivity() | Simple2DActiveCell | protected |
| spatiallySortVertices() | Simple2DCell | protected |
| spatiallySortVerticesAndCellActivity() | Simple2DActiveCell | protected |
| spatialSorting() | voronoiModelBase | protectedvirtual |
| SPVDatabaseNetCDF (defined in VoronoiQuadraticEnergyWithTension) | VoronoiQuadraticEnergyWithTension | friend |
| sumForceSets() | VoronoiQuadraticEnergy | |
| sumForceSetsWithExclusions() | VoronoiQuadraticEnergy | |
| SumForcesGPU() | VoronoiQuadraticEnergy | |
| tagToIdx | Simple2DCell | |
| tagToIdxVertex | Simple2DCell | |
| Tension | VoronoiQuadraticEnergyWithTension | protected |
| tensionMatrix | VoronoiQuadraticEnergyWithTension | protected |
| testAndRepairTriangulation(bool verb=false) | voronoiModelBase | protected |
| testTriangulation() | voronoiModelBase | protected |
| testTriangulationCPU() | voronoiModelBase | protected |
| Timestep | Simple2DCell | |
| timestep | voronoiModelBase | protected |
| tti | Simple2DCell | protected |
| ttiVertex | Simple2DCell | protected |
| updateCellList() | voronoiModelBase | |
| updateNeighIdxs() | voronoiModelBase | |
| v0 | Simple2DActiveCell | |
| vertexCellNeighbors | Simple2DCell | |
| vertexForces | Simple2DCell | |
| vertexMasses | Simple2DCell | |
| vertexMax | Simple2DCell | protected |
| vertexNeighbors | Simple2DCell | |
| vertexPositions | Simple2DCell | |
| vertexVelocities | Simple2DCell | |
| vicsekOrderParameter(Dscalar2 &vParallel, Dscalar2 &vPerpendicular) | Simple2DActiveCell | inline |
| vicsekOrderParameterDirector(Dscalar2 &vParallel, Dscalar2 &vPerpendicular) | Simple2DActiveCell | inline |
| voroCur | Simple2DCell | protected |
| voroLastNext | Simple2DCell | protected |
| voronoiModelBase() | voronoiModelBase | |
| VoronoiQuadraticEnergy(int n, bool reprod=false) | VoronoiQuadraticEnergy | |
| VoronoiQuadraticEnergy(int n, Dscalar A0, Dscalar P0, bool reprod=false) | VoronoiQuadraticEnergy | |
| VoronoiQuadraticEnergy() | VoronoiQuadraticEnergy | inline |
| VoronoiQuadraticEnergyWithTension(int n, bool reprod=false) | VoronoiQuadraticEnergyWithTension | inline |
| VoronoiQuadraticEnergyWithTension(int n, Dscalar A0, Dscalar P0, bool reprod=false) | VoronoiQuadraticEnergyWithTension | inline |
| writeTriangulation(ofstream &outfile) | voronoiModelBase | |
1.8.13