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CubeMesh Member List

This is the complete list of members for CubeMesh, including all inherited members.

ABUTXCubeMeshstatic
ABUTYCubeMeshstatic
ABUTZCubeMeshstatic
addRow(unsigned int index, const vector< double > &entry, const vector< unsigned int > &colIndex)MeshCompt
addStoich(Id stoich)CubeMesh
alwaysDiffuse_CubeMeshprivate
assignVoxels(vector< pair< unsigned int, unsigned int > > &intersect, double xmin, double xmax, double ymin, double ymax, double zmin, double zmax) const CubeMesh
buildDefaultMesh(const Eref &e, double volume, unsigned int numEntries)ChemCompt
buildJunction(ChemCompt *other, vector< VoxelJunction > &ret)ChemCompt
buildMesh(Id geom, double x, double y, double z)CubeMesh
buildStencil()CubeMesh
ChemCompt()ChemCompt
clearExtendedMeshEntryVolume()MeshComptvirtual
compareMeshSpacing(const CubeMesh *other) const CubeMesh
CubeMesh()CubeMesh
defineIntersection(const CubeMesh *other, double &xmin, double &xmax, double &ymin, double &ymax, double &zmin, double &zmax) const CubeMesh
deriveM2sFromS2m()CubeMesh
deriveS2mFromM2s()CubeMesh
distance(double x, double y, double z)ChemComptstatic
dx_CubeMeshprivate
dy_CubeMeshprivate
dz_CubeMeshprivate
EMPTYCubeMeshstatic
extendedMeshEntryVolume(unsigned int fid) const CubeMeshvirtual
extendStencil(const ChemCompt *other, const vector< VoxelJunction > &vj)MeshComptvirtual
fillSpaceToMeshLookup()CubeMesh
fillThreeDimSurface()CubeMesh
fillTwoDimSurface()CubeMesh
flipRet(vector< VoxelJunction > &ret) const ChemCompt
getAlwaysDiffuse() const CubeMesh
getChildConcs(const Eref &e, vector< double > &childConcs) const ChemCompt
getCoordinates(unsigned int fid) const CubeMeshvirtual
getCoords(const Eref &e) const CubeMesh
getDiffusionArea(unsigned int fid) const CubeMeshvirtual
getDiffusionScaling(unsigned int fid) const CubeMeshvirtual
getDimensions() const ChemCompt
getDx() const CubeMesh
getDy() const CubeMesh
getDz() const CubeMesh
getEntireVolume(const Eref &e) const ChemCompt
getIsMembraneBound() const ChemCompt
getIsToroid() const CubeMesh
getMeshDimensions(unsigned int fid) const CubeMeshvirtual
getMeshEntryVolume(unsigned int fid) const CubeMeshvirtual
getMeshToSpace() const CubeMesh
getMeshType(unsigned int fid) const CubeMeshvirtual
getMethod() const ChemCompt
getNeighbors(unsigned int fid) const MeshComptvirtual
getNumEntries() const ChemCompt
getNx() const CubeMesh
getNy() const CubeMesh
getNz() const CubeMesh
getOneVoxelVolume(const Eref &e, unsigned int voxel) const ChemCompt
getParentVoxel() const CubeMeshvirtual
getPreserveNumEntries() const CubeMesh
getSpaceToMesh() const CubeMesh
getStencil() const MeshCompt
getStencilIndex(unsigned int row) const ChemCompt
getStencilRate(unsigned int row) const ChemCompt
getStencilRow(unsigned int meshIndex, const double **entry, const unsigned int **colIndex) const MeshComptvirtual
getSurface() const CubeMesh
getVoxelArea() const CubeMeshvirtual
getVoxelLength() const CubeMeshvirtual
getVoxelMidpoint() const ChemCompt
getVoxelVolume() const ChemCompt
getX0() const CubeMesh
getX1() const CubeMesh
getY0() const CubeMesh
getY1() const CubeMesh
getZ0() const CubeMesh
getZ1() const CubeMesh
handleNodeInfo(const Eref &e, unsigned int numNodes, unsigned int numThreads)ChemCompt
indexToSpace(unsigned int index, double &x, double &y, double &z) const CubeMeshvirtual
initCinfo()CubeMeshstatic
innerBuildDefaultMesh(const Eref &e, double volume, unsigned int numEntries)CubeMeshvirtual
innerGetDimensions() const CubeMeshvirtual
innerGetNumEntries() const CubeMeshvirtual
innerGetStencilRate(unsigned int row) const MeshComptvirtual
innerHandleNodeInfo(const Eref &e, unsigned int numNodes, unsigned int numThreads)CubeMeshvirtual
innerHandleRequestMeshStats(const Eref &e, const SrcFinfo2< unsigned int, vector< double > > *meshStatsFinfo)CubeMesh
innerResetStencil()MeshComptvirtual
innerSetCoords(const vector< double > &v)CubeMesh
innerSetNumEntries(unsigned int n)CubeMeshvirtual
isInsideCuboid(double x, double y, double z) const CubeMesh
isInsideSpheroid(double x, double y, double z) const CubeMesh
isToroid_CubeMeshprivate
lookupEntry(unsigned int index)ChemCompt
m2s_CubeMeshprivate
matchAllEntries(const CubeMesh *other, vector< VoxelJunction > &ret) const CubeMesh
matchCubeMeshEntries(const CubeMesh *other, vector< VoxelJunction > &ret) const CubeMesh
matchCylMeshEntries(const ChemCompt *other, vector< VoxelJunction > &ret) const CubeMesh
matchMeshEntries(const ChemCompt *other, vector< VoxelJunction > &ret) const CubeMeshvirtual
MeshCompt()MeshCompt
MULTICubeMeshstatic
nearest(double x, double y, double z, unsigned int &index) const CubeMeshvirtual
neighbor(unsigned int spaceIndex, int dx, int dy, int dz) const CubeMesh
numDims() const CubeMesh
nx_CubeMeshprivate
ny_CubeMeshprivate
nz_CubeMeshprivate
preserveNumEntries_CubeMeshprivate
resetStencil()ChemCompt
s2m_CubeMeshprivate
setAlwaysDiffuse(bool v)CubeMesh
setChildConcs(const Eref &e, const vector< double > &childConcs, unsigned int start) const ChemCompt
setCoords(const Eref &e, vector< double > v)CubeMesh
setDiffScale(const CubeMesh *other, vector< VoxelJunction > &ret) const CubeMesh
setDx(double v)CubeMesh
setDy(double v)CubeMesh
setDz(double v)CubeMesh
setEntireVolume(const Eref &e, double volume)ChemCompt
setIsMembraneBound(bool v)ChemCompt
setIsToroid(bool v)CubeMesh
setJunctionVol(const CubeMesh *other, vector< VoxelJunction > &ret) const CubeMesh
setMeshEntryVolume(unsigned int fid, double volume)ChemComptvirtual
setMeshToSpace(vector< unsigned int > v)CubeMesh
setMethod(string method)ChemCompt
setNumEntries(unsigned int num)ChemCompt
setNx(unsigned int v)CubeMesh
setNy(unsigned int v)CubeMesh
setNz(unsigned int v)CubeMesh
setOneVoxelVolume(const Eref &e, unsigned int voxel, double volume)ChemCompt
setPreserveNumEntries(bool v)CubeMesh
setSpaceToMesh(vector< unsigned int > v)CubeMesh
setStencilSize(unsigned int numRows, unsigned int numCols)MeshCompt
setSurface(vector< unsigned int > v)CubeMesh
setVolumeNotRates(double volume)ChemCompt
setX0(double v)CubeMesh
setX1(double v)CubeMesh
setY0(double v)CubeMesh
setY1(double v)CubeMesh
setZ0(double v)CubeMesh
setZ1(double v)CubeMesh
spaceToIndex(double x, double y, double z) const CubeMesh
SURFACECubeMeshstatic
surface() const CubeMesh
surface_CubeMeshprivate
transmitChange(const Eref &e, double oldvol)CubeMesh
updateCoords()CubeMesh
updateM2s()CubeMesh
updateS2m()CubeMesh
vGetEntireVolume() const CubeMeshvirtual
vGetVoxelMidpoint() const CubeMeshvirtual
vGetVoxelVolume() const CubeMeshvirtual
voxelVolOut()ChemComptstatic
vSetVolumeNotRates(double volume)CubeMeshvirtual
x0_CubeMeshprivate
x1_CubeMeshprivate
y0_CubeMeshprivate
y1_CubeMeshprivate
z0_CubeMeshprivate
z1_CubeMeshprivate
~ChemCompt()ChemComptvirtual
~CubeMesh()CubeMesh
~MeshCompt()MeshCompt