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() | Simple2DCell | inlinevirtual |
computeForces() | Simple2DCell | inlinevirtual |
computeGeometry() | Simple2DCell | virtual |
computeGeometryCPU() | voronoiModelBase | virtual |
computeGeometryGPU() | voronoiModelBase | virtual |
computeKineticEnergy() | Simple2DCell | |
computeKineticPressure() | Simple2DCell | |
currentTime | Simple2DModel | |
d2Areadvdr(Matrix2x2 &dvpdr, Matrix2x2 &dvmdr) | voronoiModelBase | 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 |
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) | Simple2DModel | inlinevirtual |
getForces(GPUArray< Dscalar2 > &forces) | voronoiModelBase | inlinevirtual |
getMaxForce() | Simple2DCell | inlinevirtual |
getNumberOfDegreesOfFreedom() | voronoiModelBase | inlinevirtual |
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 | |
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 |
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 | |
setTime(Dscalar time) | Simple2DModel | inlinevirtual |
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 | |
skippedFrames | voronoiModelBase | |
spatiallySortCells() | Simple2DCell | protected |
spatiallySortCellsAndCellActivity() | Simple2DActiveCell | protected |
spatiallySortVertices() | Simple2DCell | protected |
spatiallySortVerticesAndCellActivity() | Simple2DActiveCell | protected |
spatialSorting() | voronoiModelBase | protectedvirtual |
tagToIdx | Simple2DCell | |
tagToIdxVertex | Simple2DCell | |
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 | |
writeTriangulation(ofstream &outfile) | voronoiModelBase | |