void PrintSubvector(
amps_File file,
Subvector *subvector,
Subgrid *subgrid)
{
int ix, iy, iz;
int nx, ny, nz;
int i, j, k;
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
amps_Fprintf(file, "\t\tPosition(%d,%d,%d), Size (%d,%d,%d)\n",
ix, iy, iz, nx, ny, nz);
for(k = iz; k < iz + nz; k++)
for(j = iy; j < iy + ny; j++)
for(i = ix; i < ix + nx; i++)
amps_Fprintf(file, "\t\t(%d,%d,%d): %f\n", i, j, k,
*SubvectorElt(subvector, i, j, k));
}
long SizeofPFBinarySubvector(
Subvector *subvector,
Subgrid *subgrid)
{
int ix = SubgridIX(subgrid);
int iy = SubgridIY(subgrid);
int iz = SubgridIZ(subgrid);
int nx = SubgridNX(subgrid);
int ny = SubgridNY(subgrid);
int nz = SubgridNZ(subgrid);
int nx_v = SubvectorNX(subvector);
int ny_v = SubvectorNY(subvector);
int i, j, k, ai;
long size;
size = 9*amps_SizeofInt;
ai = 0;
BoxLoopI1(i,j,k,
ix,iy,iz,nx,ny,nz,
ai,nx_v,ny_v,nz_v,1,1,1,
{
size += amps_SizeofDouble;
});
/*--------------------------------------------------------------------------
* InputPorosity
*--------------------------------------------------------------------------*/
void InputPorosity(
GeomSolid * geounit,
GrGeomSolid *gr_geounit,
Vector * field)
{
/*-----------------------------------------------------------------------
* Local variables
*-----------------------------------------------------------------------*/
PFModule *this_module = ThisPFModule;
PublicXtra *public_xtra = (PublicXtra*)PFModulePublicXtra(this_module);
InstanceXtra *instance_xtra = (InstanceXtra*)PFModuleInstanceXtra(this_module);
double field_value = (public_xtra->field_value);
Grid *grid = (instance_xtra->grid);
Subgrid *subgrid;
Subvector *field_sub;
double *fieldp;
int subgrid_loop;
int i, j, k;
int ix, iy, iz;
int nx, ny, nz;
int r;
int index;
(void)geounit;
/*-----------------------------------------------------------------------
* Assign constant values to field
*-----------------------------------------------------------------------*/
/* extra variables for reading from file */
Type3 * dummy3;
dummy3 = (Type3*)(public_xtra->data);
Vector *ic_values = dummy3->ic_values;
Subvector *ic_values_sub;
double *ic_values_dat;
for (subgrid_loop = 0; subgrid_loop < GridNumSubgrids(grid); subgrid_loop++)
{
subgrid = GridSubgrid(grid, subgrid_loop);
field_sub = VectorSubvector(field, subgrid_loop);
/* new subvector from file */
ic_values_sub = VectorSubvector(ic_values, subgrid_loop);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
/* RDF: assume resolution is the same in all 3 directions */
r = SubgridRX(subgrid);
fieldp = SubvectorData(field_sub);
/* new subvector data to read from */
ic_values_dat = SubvectorData(ic_values_sub);
GrGeomInLoop(i, j, k, gr_geounit, r, ix, iy, iz, nx, ny, nz,
{
index = SubvectorEltIndex(field_sub, i, j, k);
/* now assign the value from file to field */
// fieldp[index] = field_value;
fieldp[index] = ic_values_dat[index];
});
}
double InnerProd(
Vector *x,
Vector *y)
{
Grid *grid = VectorGrid(x);
Subgrid *subgrid;
Subvector *y_sub;
Subvector *x_sub;
double *yp, *xp;
double result = 0.0;
int ix, iy, iz;
int nx, ny, nz;
int nx_v, ny_v, nz_v;
int i_s, i, j, k, iv;
amps_Invoice result_invoice;
result_invoice = amps_NewInvoice("%d", &result);
ForSubgridI(i_s, GridSubgrids(grid))
{
subgrid = GridSubgrid(grid, i_s);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
y_sub = VectorSubvector(y, i_s);
x_sub = VectorSubvector(x, i_s);
nx_v = SubvectorNX(y_sub);
ny_v = SubvectorNY(y_sub);
nz_v = SubvectorNZ(y_sub);
yp = SubvectorElt(y_sub, ix, iy, iz);
xp = SubvectorElt(x_sub, ix, iy, iz);
iv = 0;
BoxLoopI1(i, j, k, ix, iy, iz, nx, ny, nz,
iv, nx_v, ny_v, nz_v, 1, 1, 1,
{
result += yp[iv] * xp[iv];
});
void Axpy(
double alpha,
Vector *x,
Vector *y)
{
Grid *grid = VectorGrid(x);
Subgrid *subgrid;
Subvector *y_sub;
Subvector *x_sub;
double *yp, *xp;
int ix, iy, iz;
int nx, ny, nz;
int nx_v, ny_v, nz_v;
int i_s, i, j, k, iv;
ForSubgridI(i_s, GridSubgrids(grid))
{
subgrid = GridSubgrid(grid, i_s);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
y_sub = VectorSubvector(y, i_s);
x_sub = VectorSubvector(x, i_s);
nx_v = SubvectorNX(y_sub);
ny_v = SubvectorNY(y_sub);
nz_v = SubvectorNZ(y_sub);
yp = SubvectorElt(y_sub, ix, iy, iz);
xp = SubvectorElt(x_sub, ix, iy, iz);
iv = 0;
BoxLoopI1(i, j, k, ix, iy, iz, nx, ny, nz,
iv, nx_v, ny_v, nz_v, 1, 1, 1,
{
yp[iv] += alpha * xp[iv];
});
double ComputeTotalConcen(
GrGeomSolid *gr_domain,
Grid * grid,
Vector * substance)
{
Subgrid *subgrid;
double cell_volume, field_sum;
double dx, dy, dz;
Subvector *s_sub;
int i, j, k, r, ix, iy, iz, nx, ny, nz, is, ips;
int *fdir;
double *data;
amps_Invoice result_invoice;
field_sum = 0.0;
ForSubgridI(is, GridSubgrids(grid))
{
subgrid = GridSubgrid(grid, is);
s_sub = VectorSubvector(substance, is);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
dx = SubgridDX(subgrid);
dy = SubgridDY(subgrid);
dz = SubgridDZ(subgrid);
/* RDF: assume resolution is the same in all 3 directions */
r = SubgridRX(subgrid);
data = SubvectorData(s_sub);
cell_volume = dx * dy * dz;
GrGeomSurfLoop(i, j, k, fdir, gr_domain, r, ix, iy, iz, nx, ny, nz,
{
ips = SubvectorEltIndex(s_sub, i, j, k);
data[ips] = 0.0;
});
void PhaseDensity(
int phase, /* Phase */
Vector *phase_pressure, /* Vector of phase pressures at each block */
Vector *density_v, /* Vector of return densities at each block */
double *pressure_d, /* Double array of pressures */
double *density_d, /* Double array return density */
int fcn) /* Flag determining what to calculate
* fcn = CALCFCN => calculate the function value
* fcn = CALCDER => calculate the function
* derivative */
/* Module returns either a double array or Vector of densities.
* If density_v is NULL, then a double array is returned.
* This "overloading" was provided so that the density module written
* for the Richards' solver modules would be backward compatible with
* the Impes modules.
*/
{
PFModule *this_module = ThisPFModule;
PublicXtra *public_xtra = (PublicXtra *)PFModulePublicXtra(this_module);
Type0 *dummy0;
Type1 *dummy1;
Grid *grid;
Subvector *p_sub;
Subvector *d_sub;
double *pp;
double *dp;
Subgrid *subgrid;
int sg;
int ix, iy, iz;
int nx, ny, nz;
int nx_p, ny_p, nz_p;
int nx_d, ny_d, nz_d;
int i, j, k, ip, id;
switch((public_xtra -> type[phase]))
{
case 0:
{
double constant;
dummy0 = (Type0 *)(public_xtra -> data[phase]);
constant = (dummy0 -> constant);
if ( density_v != NULL)
{
grid = VectorGrid(density_v);
ForSubgridI(sg, GridSubgrids(grid))
{
subgrid = GridSubgrid(grid, sg);
d_sub = VectorSubvector(density_v, sg);
ix = SubgridIX(subgrid) - 1;
iy = SubgridIY(subgrid) - 1;
iz = SubgridIZ(subgrid) - 1;
nx = SubgridNX(subgrid) + 2;
ny = SubgridNY(subgrid) + 2;
nz = SubgridNZ(subgrid) + 2;
nx_d = SubvectorNX(d_sub);
ny_d = SubvectorNY(d_sub);
nz_d = SubvectorNZ(d_sub);
dp = SubvectorElt(d_sub, ix, iy, iz);
id = 0;
if ( fcn == CALCFCN )
{
BoxLoopI1(i, j, k, ix, iy, iz, nx, ny, nz,
id, nx_d, ny_d, nz_d, 1, 1, 1,
{
dp[id] = constant;
});
}
void ICPhaseSatur(
Vector *ic_phase_satur,
int phase,
ProblemData *problem_data)
{
PFModule *this_module = ThisPFModule;
PublicXtra *public_xtra = (PublicXtra *)PFModulePublicXtra(this_module);
Grid *grid = VectorGrid(ic_phase_satur);
Type0 *dummy0;
SubgridArray *subgrids = GridSubgrids(grid);
Subgrid *subgrid;
Subvector *ps_sub;
double *data;
int ix, iy, iz;
int nx, ny, nz;
int r;
double field_sum;
int is, i, j, k, ips;
/*-----------------------------------------------------------------------
* Initial saturation conditions for this phase
*-----------------------------------------------------------------------*/
InitVector(ic_phase_satur, 0.0);
switch((public_xtra -> type[phase]))
{
case 0:
{
int num_regions;
int *region_indices;
double *values;
GrGeomSolid *gr_solid;
double value;
int ir;
dummy0 = (Type0 *)(public_xtra -> data[phase]);
num_regions = (dummy0 -> num_regions);
region_indices = (dummy0 -> region_indices);
values = (dummy0 -> values);
for (ir = 0; ir < num_regions; ir++)
{
gr_solid = ProblemDataGrSolid(problem_data, region_indices[ir]);
value = values[ir];
ForSubgridI(is, subgrids)
{
subgrid = SubgridArraySubgrid(subgrids, is);
ps_sub = VectorSubvector(ic_phase_satur, is);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
/* RDF: assume resolution is the same in all 3 directions */
r = SubgridRX(subgrid);
data = SubvectorData(ps_sub);
GrGeomInLoop(i, j, k, gr_solid, r, ix, iy, iz, nx, ny, nz,
{
ips = SubvectorEltIndex(ps_sub, i, j, k);
data[ips] = value;
});
}
}
break;
}
void ComputeDomain(
SubgridArray *all_subgrids,
Databox *top,
Databox *bottom,
int P,
int Q,
int R)
{
int num_procs = P * Q * R;
int p;
// For each subgrid find the min/max k values
// in the active region (using top/bottom).
// Reset the subgrid to reflect this vertical extent.
for(p = 0; p < num_procs; p++)
{
int s_i;
ForSubgridI(s_i, all_subgrids)
{
Subgrid* subgrid = SubgridArraySubgrid(all_subgrids, s_i);
int process = SubgridProcess(subgrid);
if(process == p) {
int i;
int j;
int ix = SubgridIX(subgrid);
int iy = SubgridIY(subgrid);
int iz = SubgridIZ(subgrid);
int nx = SubgridNX(subgrid);
int ny = SubgridNY(subgrid);
int nz = SubgridNZ(subgrid);
int patch_top = iz;
int patch_bottom = iz + nz;
for (j = iy; j < iy+ ny; ++j)
{
for (i = ix; i < ix + nx; ++i)
{
int k_top = *(DataboxCoeff(top, i, j, 0));
if ( k_top >= 0 ) {
patch_top = max(patch_top, k_top);
}
int k_bottom = *(DataboxCoeff(bottom, i, j, 0));
if ( k_bottom >= 0 ) {
patch_bottom = min(patch_bottom, k_bottom);
}
}
}
// adjust grid to include 2 pad cells
patch_top = min(patch_top+2, iz + nz - 1);
patch_bottom = max(patch_bottom-2, iz);
// adjust for ghost cells, need to have patches
// that extend in height to the neighbor patches.
//
// There is a more efficient way to compute all this but
// since these are 2d arrays it should be reasonably quick.
// Not a single loop since we don't need to pad these values.
ix = max(0, ix -1);
nx = min(DataboxNx(top) - ix, nx + 2 - ix);
iy = max(0, iy -1);
ny = min(DataboxNy(top) - iy, ny + 2 - iy);
for (j = iy; j < iy+ ny; ++j)
{
for (i = ix; i < ix + nx; ++i)
{
int k_top = *(DataboxCoeff(top, i, j, 0));
if ( k_top >= 0 ) {
patch_top = max(patch_top, k_top);
}
int k_bottom = *(DataboxCoeff(bottom, i, j, 0));
if ( k_bottom >= 0 ) {
patch_bottom = min(patch_bottom, k_bottom);
}
}
}
SubgridIZ(subgrid) = patch_bottom;
SubgridNZ(subgrid) = (patch_top - SubgridIZ(subgrid)) + 1;
}
}
}
void OverlandSum(ProblemData *problem_data,
Vector *pressure, /* Current pressure values */
double dt,
Vector *overland_sum)
{
GrGeomSolid *gr_domain = ProblemDataGrDomain(problem_data);
double dx, dy, dz;
int i, j, r, is;
int ix, iy, iz;
int nx, ny;
Subgrid *subgrid;
Grid *grid = VectorGrid(pressure);
Vector *slope_x = ProblemDataTSlopeX(problem_data);
Vector *slope_y = ProblemDataTSlopeY(problem_data);
Vector *mannings = ProblemDataMannings(problem_data);
Vector *top = ProblemDataIndexOfDomainTop(problem_data);
Subvector *overland_sum_subvector;
Subvector *slope_x_subvector;
Subvector *slope_y_subvector;
Subvector *mannings_subvector;
Subvector *pressure_subvector;
Subvector *top_subvector;
int index_overland_sum;
int index_slope_x;
int index_slope_y;
int index_mannings;
int index_pressure;
int index_top;
double *overland_sum_ptr;
double *slope_x_ptr;
double *slope_y_ptr;
double *mannings_ptr;
double *pressure_ptr;
double *top_ptr;
int ipatch;
BCStruct *bc_struct;
BCPressureData *bc_pressure_data = ProblemDataBCPressureData(problem_data);
int num_patches = BCPressureDataNumPatches(bc_pressure_data);
bc_struct = NewBCStruct(GridSubgrids(grid),
gr_domain,
num_patches,
BCPressureDataPatchIndexes(bc_pressure_data),
BCPressureDataBCTypes(bc_pressure_data),
NULL);
if (num_patches > 0)
{
for (ipatch = 0; ipatch < num_patches; ipatch++)
{
switch(BCPressureDataType(bc_pressure_data,ipatch))
{
case 7:
{
ForSubgridI(is, GridSubgrids(grid))
{
subgrid = GridSubgrid(grid, is);
overland_sum_subvector = VectorSubvector(overland_sum, is);
slope_x_subvector = VectorSubvector(slope_x, is);
slope_y_subvector = VectorSubvector(slope_y, is);
mannings_subvector = VectorSubvector(mannings, is);
pressure_subvector = VectorSubvector(pressure, is);
top_subvector = VectorSubvector(top, is);
r = SubgridRX(subgrid);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
dx = SubgridDX(subgrid);
dy = SubgridDY(subgrid);
dz = SubgridDZ(subgrid);
overland_sum_ptr = SubvectorData(overland_sum_subvector);
slope_x_ptr = SubvectorData(slope_x_subvector);
slope_y_ptr = SubvectorData(slope_y_subvector);
mannings_ptr = SubvectorData(mannings_subvector);
pressure_ptr = SubvectorData(pressure_subvector);
top_ptr = SubvectorData(top_subvector);
int state;
const int inactive = -1;
const int active = 1;
for(i = ix; i < ix + nx; i++)
{
j = iy - 1;
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
int k = (int)top_ptr[index_top];
if( k < 0 ) {
state = inactive;
} else {
state = active;
}
while( j < iy + ny) {
if( state == inactive) {
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
k = (int)top_ptr[index_top];
while( k < 0 && j <= iy + ny) {
j++;
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
k = (int)top_ptr[index_top];
}
// If still in interior
if( j < iy + ny) {
if ( k >=0 ) {
// inactive to active
index_slope_y = SubvectorEltIndex(slope_y_subvector, i, j, 0);
// sloping to inactive active from active
if( slope_y_ptr[index_slope_y] > 0) {
index_pressure = SubvectorEltIndex(pressure_subvector, i, j, k);
if(pressure_ptr[index_pressure] > 0)
{
index_overland_sum = SubvectorEltIndex(overland_sum_subvector, i, j, 0);
index_mannings = SubvectorEltIndex(mannings_subvector, i, j, 0);
overland_sum_ptr[index_overland_sum] +=
(sqrt( fabs(slope_y_ptr[index_slope_y]) ) / mannings_ptr[index_mannings] ) *
pow(pressure_ptr[index_pressure], 5.0 / 3.0) * dx * dt;
}
}
}
state = active;
}
} else {
index_top = SubvectorEltIndex(top_subvector, i, j+1, 0);
k = (int)top_ptr[index_top];
while( k >= 0 && j <= iy + ny) {
j++;
index_top = SubvectorEltIndex(top_subvector, i, j+1, 0);
k = (int)top_ptr[index_top];
}
// If still in interior
if( j < iy + ny) {
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
k = (int)top_ptr[index_top];
// active to inactive
index_slope_y = SubvectorEltIndex(slope_y_subvector, i, j, 0);
// sloping from active to inactive
if( slope_y_ptr[index_slope_y] < 0) {
index_pressure = SubvectorEltIndex(pressure_subvector, i, j, k);
if(pressure_ptr[index_pressure] > 0)
{
index_overland_sum = SubvectorEltIndex(overland_sum_subvector, i, j, 0);
index_mannings = SubvectorEltIndex(mannings_subvector, i, j, 0);
overland_sum_ptr[index_overland_sum] +=
(sqrt( fabs(slope_y_ptr[index_slope_y]) ) / mannings_ptr[index_mannings] ) *
pow(pressure_ptr[index_pressure], 5.0 / 3.0) * dx * dt;
}
}
}
state = inactive;
}
j++;
}
}
#if 0
for(i = ix; i < ix + nx; i++)
{
for(j = iy; j < iy + ny; j++)
{
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
int k = (int)top_ptr[index_top];
if ( !(k < 0))
{
/*
Compute runnoff if slope is running off of active region
*/
index_overland_sum = SubvectorEltIndex(overland_sum_subvector, i, j, 0);
index_slope_x = SubvectorEltIndex(slope_x_subvector, i, j, 0);
index_slope_y = SubvectorEltIndex(slope_y_subvector, i, j, 0);
index_mannings = SubvectorEltIndex(mannings_subvector, i, j, 0);
index_pressure = SubvectorEltIndex(pressure_subvector, i, j, k);
if( slope_y_ptr[index_slope_y] > 0 )
{
if(pressure_ptr[index_pressure] > 0)
{
overland_sum_ptr[index_overland_sum] +=
(sqrt( fabs(slope_y_ptr[index_slope_y]) ) / mannings_ptr[index_mannings] ) *
pow(pressure_ptr[index_pressure], 5.0 / 3.0) * dx * dt;
}
}
/*
Loop until going back outside of active area
*/
while( (j + 1 < iy + ny) && !(top_ptr[SubvectorEltIndex(top_subvector, i, j+1, 0)] < 0) )
{
j++;
}
/*
Found either domain boundary or outside of active area.
Compute runnoff if slope is running off of active region.
*/
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
k = (int)top_ptr[index_top];
index_overland_sum = SubvectorEltIndex(overland_sum_subvector, i, j, 0);
index_slope_x = SubvectorEltIndex(slope_x_subvector, i, j, 0);
index_slope_y = SubvectorEltIndex(slope_y_subvector, i, j, 0);
index_mannings = SubvectorEltIndex(mannings_subvector, i, j, 0);
index_pressure = SubvectorEltIndex(pressure_subvector, i, j, k);
if( slope_y_ptr[index_slope_y] < 0 )
{
if(pressure_ptr[index_pressure] > 0)
{
overland_sum_ptr[index_overland_sum] +=
(sqrt( fabs(slope_y_ptr[index_slope_y]) ) / mannings_ptr[index_mannings] ) *
pow(pressure_ptr[index_pressure], 5.0 / 3.0) * dx * dt;
}
}
}
}
}
#endif
for(j = iy; j < iy + ny; j++)
{
i = ix - 1;
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
int k = (int)top_ptr[index_top];
if( k < 0 ) {
state = inactive;
} else {
state = active;
}
while( i < ix + nx) {
if( state == inactive) {
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
k = (int)top_ptr[index_top];
while( k < 0 && i <= ix + nx) {
i++;
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
k = (int)top_ptr[index_top];
}
// If still in interior
if( i < ix + nx) {
if ( k >=0 ) {
// inactive to active
index_slope_x = SubvectorEltIndex(slope_x_subvector, i, j, 0);
// sloping to inactive active from active
if( slope_x_ptr[index_slope_x] > 0) {
index_pressure = SubvectorEltIndex(pressure_subvector, i, j, k);
if(pressure_ptr[index_pressure] > 0)
{
index_overland_sum = SubvectorEltIndex(overland_sum_subvector, i, j, 0);
index_mannings = SubvectorEltIndex(mannings_subvector, i, j, 0);
overland_sum_ptr[index_overland_sum] +=
(sqrt( fabs(slope_x_ptr[index_slope_x]) ) / mannings_ptr[index_mannings] ) *
pow(pressure_ptr[index_pressure], 5.0 / 3.0) * dy * dt;
}
}
}
state = active;
}
} else {
index_top = SubvectorEltIndex(top_subvector, i+1, j, 0);
k = (int)top_ptr[index_top];
while( k >= 0 && i <= ix + nx) {
i++;
index_top = SubvectorEltIndex(top_subvector, i+1, j, 0);
k = (int)top_ptr[index_top];
}
// If still in interior
if( i < ix + nx) {
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
k = (int)top_ptr[index_top];
// active to inactive
index_slope_x = SubvectorEltIndex(slope_x_subvector, i, j, 0);
// sloping from active to inactive
if( slope_x_ptr[index_slope_x] < 0) {
index_pressure = SubvectorEltIndex(pressure_subvector, i, j, k);
if(pressure_ptr[index_pressure] > 0)
{
index_overland_sum = SubvectorEltIndex(overland_sum_subvector, i, j, 0);
index_mannings = SubvectorEltIndex(mannings_subvector, i, j, 0);
overland_sum_ptr[index_overland_sum] +=
(sqrt( fabs(slope_x_ptr[index_slope_x]) ) / mannings_ptr[index_mannings] ) *
pow(pressure_ptr[index_pressure], 5.0 / 3.0) * dy * dt;
}
}
}
state = inactive;
}
i++;
}
}
#if 0
for(j = iy; j < iy + ny; j++)
{
for(i = ix; i < ix + nx; i++)
{
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
int k = (int)top_ptr[index_top];
if ( !(k < 0))
{
/*
Compute runnoff if slope is running off of active region
*/
index_overland_sum = SubvectorEltIndex(overland_sum_subvector, i, j, 0);
index_slope_x = SubvectorEltIndex(slope_x_subvector, i, j, 0);
index_slope_y = SubvectorEltIndex(slope_y_subvector, i, j, 0);
index_mannings = SubvectorEltIndex(mannings_subvector, i, j, 0);
index_pressure = SubvectorEltIndex(pressure_subvector, i, j, k);
if( slope_x_ptr[index_slope_x] > 0 )
{
if(pressure_ptr[index_pressure] > 0)
{
overland_sum_ptr[index_overland_sum] +=
(sqrt( fabs(slope_x_ptr[index_slope_y]) ) / mannings_ptr[index_mannings] ) *
pow(pressure_ptr[index_pressure], 5.0 / 3.0) * dy * dt;
}
}
/*
Loop until going back outside of active area
*/
while( (i + 1 < ix + nx) && !(top_ptr[SubvectorEltIndex(top_subvector, i+1, j, 0)] < 0) )
{
i++;
}
/*
Found either domain boundary or outside of active area.
Compute runnoff if slope is running off of active region.
*/
index_top = SubvectorEltIndex(top_subvector, i, j, 0);
k = (int)top_ptr[index_top];
index_overland_sum = SubvectorEltIndex(overland_sum_subvector, i, j, 0);
index_slope_x = SubvectorEltIndex(slope_x_subvector, i, j, 0);
index_slope_y = SubvectorEltIndex(slope_y_subvector, i, j, 0);
index_mannings = SubvectorEltIndex(mannings_subvector, i, j, 0);
index_pressure = SubvectorEltIndex(pressure_subvector, i, j, k);
if( slope_x_ptr[index_slope_x] < 0 )
{
if(pressure_ptr[index_pressure] > 0)
{
overland_sum_ptr[index_overland_sum] +=
(sqrt( fabs(slope_x_ptr[index_slope_x]) ) / mannings_ptr[index_mannings] ) *
pow(pressure_ptr[index_pressure], 5.0 / 3.0) * dy * dt;
}
}
}
}
}
#endif
}
}
}
}
}
void PFMG(
Vector *soln,
Vector *rhs,
double tol,
int zero)
{
(void)zero;
#ifdef HAVE_HYPRE
PFModule *this_module = ThisPFModule;
InstanceXtra *instance_xtra = (InstanceXtra*)PFModuleInstanceXtra(this_module);
PublicXtra *public_xtra = (PublicXtra*)PFModulePublicXtra(this_module);
HYPRE_StructMatrix hypre_mat = instance_xtra->hypre_mat;
HYPRE_StructVector hypre_b = instance_xtra->hypre_b;
HYPRE_StructVector hypre_x = instance_xtra->hypre_x;
HYPRE_StructSolver hypre_pfmg_data = instance_xtra->hypre_pfmg_data;
Grid *grid = VectorGrid(rhs);
Subgrid *subgrid;
int sg;
Subvector *rhs_sub;
Subvector *soln_sub;
double *rhs_ptr;
double *soln_ptr;
double value;
int index[3];
int ix, iy, iz;
int nx, ny, nz;
int nx_v, ny_v, nz_v;
int i, j, k;
int iv;
int num_iterations;
double rel_norm;
/* Copy rhs to hypre_b vector. */
BeginTiming(public_xtra->time_index_copy_hypre);
ForSubgridI(sg, GridSubgrids(grid))
{
subgrid = SubgridArraySubgrid(GridSubgrids(grid), sg);
rhs_sub = VectorSubvector(rhs, sg);
rhs_ptr = SubvectorData(rhs_sub);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
nx_v = SubvectorNX(rhs_sub);
ny_v = SubvectorNY(rhs_sub);
nz_v = SubvectorNZ(rhs_sub);
iv = SubvectorEltIndex(rhs_sub, ix, iy, iz);
BoxLoopI1(i, j, k, ix, iy, iz, nx, ny, nz,
iv, nx_v, ny_v, nz_v, 1, 1, 1,
{
index[0] = i;
index[1] = j;
index[2] = k;
HYPRE_StructVectorSetValues(hypre_b, index, rhs_ptr[iv]);
});
void LBInitializeBC(
Lattice * lattice,
Problem * problem,
ProblemData *problem_data)
{
/*------------------------------------------------------------*
* Local variables
*------------------------------------------------------------*/
/* Lattice variables */
Grid *grid = (lattice->grid);
Vector *pressure = (lattice->pressure);
Vector *perm = (lattice->perm);
CharVector *cellType = (lattice->cellType);
double time = (lattice->t);
/* Structures */
BCPressureData *bc_pressure_data = ProblemDataBCPressureData(problem_data);
TimeCycleData *time_cycle_data;
SubgridArray *subgrids = GridSubgrids(grid);
GrGeomSolid *gr_domain;
/* Patch variables */
double ***values;
double *patch_values = NULL;
int *fdir;
/* Grid parameters */
Subgrid *subgrid;
int nx, ny, nz;
int ix, iy, iz;
int nx_v, ny_v, nz_v;
/* Indices and counters */
int num_patches;
int num_phases;
int ipatch, is, i, j, k, ival;
int cycle_number, interval_number;
int r;
/* Physical variables and coefficients */
Subvector *sub_p;
double *pp;
Subvector *sub_perm;
double *permp;
Subcharvector *sub_cellType;
char *cellTypep;
double rho_g;
/* Communications */
VectorUpdateCommHandle *handle;
/*--------------------------
* Initializations
*--------------------------*/
rho_g = ProblemGravity(problem) * RHO;
num_patches = BCPressureDataNumPatches(bc_pressure_data);
gr_domain = ProblemDataGrDomain(problem_data);
num_phases = BCPressureDataNumPhases(bc_pressure_data);
if (num_patches > 0)
{
time_cycle_data = BCPressureDataTimeCycleData(bc_pressure_data);
values = ctalloc(double **, num_patches);
for (ipatch = 0; ipatch < num_patches; ipatch++)
{
values[ipatch] = ctalloc(double *, SubgridArraySize(subgrids));
cycle_number = BCPressureDataCycleNumber(bc_pressure_data, ipatch);
interval_number = TimeCycleDataComputeIntervalNumber(problem, time,
time_cycle_data, cycle_number);
switch (BCPressureDataType(bc_pressure_data, ipatch))
{
case 0:
{
BCPressureType0 *bc_pressure_type0;
GeomSolid *ref_solid;
double z, dz2;
double **elevations;
int ref_patch, iel;
bc_pressure_type0 = (BCPressureType0*)BCPressureDataIntervalValue(
bc_pressure_data, ipatch, interval_number);
ref_solid = ProblemDataSolid(problem_data,
BCPressureType0RefSolid(bc_pressure_type0));
ref_patch = BCPressureType0RefPatch(bc_pressure_type0);
/* Calculate elevations at (x,y) points on reference patch. */
elevations = CalcElevations(ref_solid, ref_patch, subgrids, problem_data);
ForSubgridI(is, subgrids)
{
/* subgrid = GridSubgrid(grid, is); */
subgrid = SubgridArraySubgrid(subgrids, is);
sub_p = VectorSubvector(pressure, is);
sub_perm = VectorSubvector(perm, is);
sub_cellType = CharVectorSubcharvector(cellType, is);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
/* RDF: assume resolution is the same in all 3 directions */
r = SubgridRX(subgrid);
pp = SubvectorData(sub_p);
permp = SubvectorData(sub_perm);
cellTypep = SubcharvectorData(sub_cellType);
nx_v = SubvectorNX(sub_p);
ny_v = SubvectorNY(sub_p);
nz_v = SubvectorNZ(sub_p);
values[ipatch][is] = patch_values;
dz2 = RealSpaceDZ(0) / 2.0;
GrGeomPatchLoop(i, j, k, fdir, gr_domain, ipatch,
r, ix, iy, iz, nx, ny, nz,
{
ival = SubvectorEltIndex(sub_p, i, j, k);
iel = (i - ix) + (j - iy) * nx;
z = RealSpaceZ(k, 0) + fdir[2] * dz2;
pp[ival] = BCPressureType0Value(bc_pressure_type0)
- rho_g * (z - elevations[is][iel]);
cellTypep[ival] = 0;
});
tfree(elevations[is]);
} /* End subgrid loop */
tfree(elevations);
break;
}
case 1:
{
BCPressureType1 *bc_pressure_type1;
int num_points;
double x, y, z, dx2, dy2, dz2;
double unitx, unity, line_min, line_length, xy, slope;
int ip;
bc_pressure_type1 = (BCPressureType1*)BCPressureDataIntervalValue(bc_pressure_data, ipatch, interval_number);
ForSubgridI(is, subgrids)
{
/* subgrid = GridSubgrid(grid, is); */
subgrid = SubgridArraySubgrid(subgrids, is);
sub_p = VectorSubvector(pressure, is);
sub_perm = VectorSubvector(perm, is);
sub_cellType = CharVectorSubcharvector(cellType, is);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
/* RDF: assume resolution is the same in all 3 directions */
r = SubgridRX(subgrid);
pp = SubvectorData(sub_p);
permp = SubvectorData(sub_perm);
cellTypep = SubcharvectorData(sub_cellType);
nx_v = SubvectorNX(sub_p);
ny_v = SubvectorNY(sub_p);
nz_v = SubvectorNZ(sub_p);
values[ipatch][is] = patch_values;
dx2 = RealSpaceDX(0) / 2.0;
dy2 = RealSpaceDY(0) / 2.0;
dz2 = RealSpaceDZ(0) / 2.0;
/* compute unit direction vector for piecewise linear line */
unitx = BCPressureType1XUpper(bc_pressure_type1) - BCPressureType1XLower(bc_pressure_type1);
unity = BCPressureType1YUpper(bc_pressure_type1) - BCPressureType1YLower(bc_pressure_type1);
line_length = sqrt(unitx * unitx + unity * unity);
unitx /= line_length;
unity /= line_length;
line_min = BCPressureType1XLower(bc_pressure_type1) * unitx
+ BCPressureType1YLower(bc_pressure_type1) * unity;
GrGeomPatchLoop(i, j, k, fdir, gr_domain, ipatch,
r, ix, iy, iz, nx, ny, nz,
{
ival = SubvectorEltIndex(sub_p, i, j, k);
x = RealSpaceX(i, 0) + fdir[0] * dx2;
y = RealSpaceY(j, 0) + fdir[1] * dy2;
z = RealSpaceZ(k, 0) + fdir[2] * dz2;
/* project center of BC face onto piecewise line */
xy = (x * unitx + y * unity - line_min) / line_length;
/* find two neighboring points */
ip = 1;
/* Kludge; this needs to be fixed. */
num_points = 2;
for (; ip < (num_points - 1); ip++)
{
if (xy < BCPressureType1Point(bc_pressure_type1, ip))
break;
}
/* compute the slope */
slope = ((BCPressureType1Value(bc_pressure_type1, ip) - BCPressureType1Value(bc_pressure_type1, (ip - 1)))
/ (BCPressureType1Point(bc_pressure_type1, ip) - BCPressureType1Point(bc_pressure_type1, (ip - 1))));
pp[ival] = BCPressureType1Value(bc_pressure_type1, ip - 1)
+ slope * (xy - BCPressureType1Point(
bc_pressure_type1, ip - 1))
- rho_g * z;
cellTypep[ival] = 0;
});
} /* End subgrid loop */
void XSlope(
ProblemData *problem_data,
Vector * x_slope,
Vector * dummy)
{
PFModule *this_module = ThisPFModule;
PublicXtra *public_xtra = (PublicXtra*)PFModulePublicXtra(this_module);
InstanceXtra *instance_xtra = (InstanceXtra*)PFModuleInstanceXtra(this_module);
Grid *grid3d = instance_xtra->grid3d;
GrGeomSolid *gr_solid, *gr_domain;
Type0 *dummy0;
Type1 *dummy1;
Type2 *dummy2;
Type3 *dummy3;
VectorUpdateCommHandle *handle;
SubgridArray *subgrids = GridSubgrids(grid3d);
Subgrid *subgrid;
Subvector *ps_sub;
Subvector *sx_values_sub;
double *data;
double *psdat, *sx_values_dat;
//double slopex[60][32][392];
int ix, iy, iz;
int nx, ny, nz;
int r;
int is, i, j, k, ips, ipicv;
double time = 0.0;
(void)dummy;
/*-----------------------------------------------------------------------
* Put in any user defined sources for this phase
*-----------------------------------------------------------------------*/
InitVectorAll(x_slope, 0.0);
switch ((public_xtra->type))
{
case 0:
{
int num_regions;
int *region_indices;
double *values;
double x, y, z;
double value;
int ir;
dummy0 = (Type0*)(public_xtra->data);
num_regions = (dummy0->num_regions);
region_indices = (dummy0->region_indices);
values = (dummy0->values);
for (ir = 0; ir < num_regions; ir++)
{
gr_solid = ProblemDataGrSolid(problem_data, region_indices[ir]);
value = values[ir];
ForSubgridI(is, subgrids)
{
subgrid = SubgridArraySubgrid(subgrids, is);
ps_sub = VectorSubvector(x_slope, is);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
/* RDF: assume resolution is the same in all 3 directions */
r = SubgridRX(subgrid);
/*
* TODO
* SGS this does not match the loop in nl_function_eval. That
* loop is going over more than the inner geom locations. Is that
* important? Originally the x_slope array was not being allocated
* by ctalloc, just alloc and unitialized memory reads were being
* caused. Switched that to be ctalloc to init to 0 to "hack" a
* fix but is this really a sign of deeper indexing problems?
*/
/* @RMM: todo. the looping to set slopes only goes over interior nodes
* not ALL nodes (including ghost) as in nl fn eval and now the overland eval
* routines. THis is fine in the KW approximation which only needs interior values
* but for diffusive wave and for the terrain following grid (which uses the surface
* topo slopes as subsurface slopes) this can cuase bddy problems. */
data = SubvectorData(ps_sub);
GrGeomInLoop(i, j, k, gr_solid, r, ix, iy, iz, nx, ny, nz,
{
ips = SubvectorEltIndex(ps_sub, i, j, 0);
x = RealSpaceX(i, SubgridRX(subgrid));
//data[ips] = sin(x)/8.0 + (1/8)*pow(x,-(7/8)) +sin(x/5.0)/(5.0*8.0);
data[ips] = value;
});
}
}
break;
} /* End case 0 */
void PGSRF(
GeomSolid * geounit,
GrGeomSolid *gr_geounit,
Vector * field,
RFCondData * cdata)
{
/*-----------------*
* Local variables *
*-----------------*/
PFModule *this_module = ThisPFModule;
PublicXtra *public_xtra = (PublicXtra*)PFModulePublicXtra(this_module);
InstanceXtra *instance_xtra = (InstanceXtra*)PFModuleInstanceXtra(this_module);
/* Input parameters (see PGSRFNewPublicXtra() below) */
double lambdaX = (public_xtra->lambdaX);
double lambdaY = (public_xtra->lambdaY);
double lambdaZ = (public_xtra->lambdaZ);
double mean = (public_xtra->mean);
double sigma = (public_xtra->sigma);
int dist_type = (public_xtra->dist_type);
double low_cutoff = (public_xtra->low_cutoff);
double high_cutoff = (public_xtra->high_cutoff);
int max_search_rad = (public_xtra->max_search_rad);
int max_npts = (public_xtra->max_npts);
int max_cpts = (public_xtra->max_cpts);
Vector *tmpRF = NULL;
/* Conditioning data */
int nc = (cdata->nc);
double *x = (cdata->x);
double *y = (cdata->y);
double *z = (cdata->z);
double *v = (cdata->v);
/* Grid parameters */
Grid *grid = (instance_xtra->grid);
Subgrid *subgrid;
Subvector *sub_field;
Subvector *sub_tmpRF;
int NX, NY, NZ;
/* Subgrid parameters */
int nx, ny, nz;
double dx, dy, dz;
int nx_v, ny_v, nz_v;
int nx_v2, ny_v2, nz_v2;
int nxG, nyG, nzG;
/* Counters, indices, flags */
int gridloop;
int i, j, k, n, m;
int ii, jj, kk;
int i2, j2, k2;
int imin, jmin, kmin;
int rpx, rpy, rpz;
int npts;
int index1, index2, index3;
/* Spatial variables */
double *fieldp;
double *tmpRFp;
int iLx, iLy, iLz; /* Correlation length in terms of grid points */
int iLxp1, iLyp1, iLzp1; /* One more than each of the above */
int nLx, nLy, nLz; /* Size of correlation neighborhood in grid pts. */
int iLxyz; /* iLxyz = iLx*iLy*iLz */
int nLxyz; /* nLxyz = nLx*nLy*nLz */
int ix, iy, iz;
int ref;
int ix2, iy2, iz2;
int i_search, j_search, k_search;
int ci_search, cj_search, ck_search;
double X0, Y0, Z0;
/* Variables used in kriging algorithm */
double cmean, csigma; /* Conditional mean and std. dev. from kriging */
double A;
double *A_sub; /* Sub-covariance matrix for external cond pts */
double *A11; /* Submatrix; note that A11 is 1-dim */
double **A12, **A21, **A22;/* Submatrices for external conditioning data */
double **M; /* Used as a temporary matrix */
double *b; /* Covariance vector for conditioning points */
double *b_tmp, *b2;
double *w, *w_tmp; /* Solution vector to Aw=b */
int *ixx, *iyy, *izz;
double *value;
int di, dj, dk;
double uni, gau;
double ***cov;
int ierr;
/* Conditioning data variables */
int cpts; /* N cond pts for a single simulated node */
double *cval; /* Values for cond data for single node */
/* Communications */
VectorUpdateCommHandle *handle;
int update_mode;
/* Miscellaneous variables */
int **rand_path;
char ***marker;
int p, r, modulus;
double a1, a2, a3;
double cx, cy, cz;
double sum;
// FIXME Shouldn't we get this from numeric_limits?
double Tiny = 1.0e-12;
(void)geounit;
/*-----------------------------------------------------------------------
* Allocate temp vectors
*-----------------------------------------------------------------------*/
tmpRF = NewVectorType(instance_xtra->grid, 1, max_search_rad, vector_cell_centered);
/*-----------------------------------------------------------------------
* Start sequential Gaussian simulator algorithm
*-----------------------------------------------------------------------*/
/* Begin timing */
BeginTiming(public_xtra->time_index);
/* initialize random number generators */
SeedRand(public_xtra->seed);
/* For now, we will assume that all subgrids have the same uniform spacing */
subgrid = GridSubgrid(grid, 0);
dx = SubgridDX(subgrid);
dy = SubgridDY(subgrid);
dz = SubgridDZ(subgrid);
/* Size of search neighborhood through which random path must be defined */
iLx = (int)(lambdaX / dx);
iLy = (int)(lambdaY / dy);
iLz = (int)(lambdaZ / dz);
/* For computational efficiency, we'll limit the
* size of the search neighborhood. */
if (iLx > max_search_rad)
iLx = max_search_rad;
if (iLy > max_search_rad)
iLy = max_search_rad;
if (iLz > max_search_rad)
iLz = max_search_rad;
iLxp1 = iLx + 1;
iLyp1 = iLy + 1;
iLzp1 = iLz + 1;
iLxyz = iLxp1 * iLyp1 * iLzp1;
/* Define the size of a correlation neighborhood */
nLx = 2 * iLx + 1;
nLy = 2 * iLy + 1;
nLz = 2 * iLz + 1;
nLxyz = nLx * nLy * nLz;
/*------------------------
* Define a random path through the points in this subgrid.
* The random path generation procedure of Srivastava and
* Gomez has been adopted in this subroutine. A linear
* congruential generator of the form: r(i) = 5*r(i-1)+1 mod(2**n)
* has a cycle length of 2**n. By choosing the smallest power of
* 2 that is still larger than the total number of points to be
* simulated, the method ensures that all indices will be
* generated once and only once.
*------------------------*/
rand_path = talloc(int*, iLxyz);
for (i = 0; i < iLxyz; i++)
rand_path[i] = talloc(int, 3);
modulus = 2;
while (modulus < iLxyz + 1)
modulus *= 2;
/* Compute a random starting node */
p = (int)Rand();
r = 1 + p * (iLxyz - 1);
k = (r - 1) / (iLxp1 * iLyp1);
j = (r - 1 - iLxp1 * iLyp1 * k) / iLxp1;
i = (r - 1) - (k * iLyp1 + j) * iLxp1;
rand_path[0][2] = k;
rand_path[0][1] = j;
rand_path[0][0] = i;
/* Determine the next nodes */
for (n = 1; n < iLxyz; n++)
{
r = (5 * r + 1) % modulus;
while ((r < 1) || (r > iLxyz))
r = (5 * r + 1) % modulus;
k = ((r - 1) / (iLxp1 * iLyp1));
j = (((r - 1) - iLxp1 * iLyp1 * k) / iLxp1);
i = (r - 1) - (k * iLyp1 + j) * iLxp1;
rand_path[n][0] = i;
rand_path[n][1] = j;
rand_path[n][2] = k;
}
/*-----------------------------------------------------------------------
* Compute correlation lookup table
*-----------------------------------------------------------------------*/
/* First compute a covariance lookup table */
cov = talloc(double**, nLx);
for (i = 0; i < nLx; i++)
{
cov[i] = talloc(double*, nLy);
for (j = 0; j < nLy; j++)
cov[i][j] = ctalloc(double, nLz);
}
/* Note that in the construction of the covariance matrix
* the max_search_rad is not used. Covariance depends upon
* the correlation lengths, lambdaX/Y/Z, and the grid spacing.
* The max_search_rad can be longer or shorter than the correlation
* lengths. The bigger the search radius, the more accurately
* the random field will match the correlation structure of the
* covariance function. But the run time will increase greatly
* as max_search_rad gets bigger because of the kriging matrix
* that must be solved (see below).
*/
cx = 0.0;
cy = 0.0;
cz = 0.0;
if (lambdaX != 0.0)
cx = dx * dx / (lambdaX * lambdaX);
if (lambdaY != 0.0)
cy = dy * dy / (lambdaY * lambdaY);
if (lambdaZ != 0.0)
cz = dz * dz / (lambdaZ * lambdaZ);
for (k = 0; k < nLz; k++)
for (j = 0; j < nLy; j++)
for (i = 0; i < nLx; i++)
{
a1 = i * i * cx;
a2 = j * j * cy;
a3 = k * k * cz;
cov[i][j][k] = exp(-sqrt(a1 + a2 + a3));
}
/* Allocate memory for variables that will be used in kriging */
A11 = ctalloc(double, nLxyz * nLxyz);
A_sub = ctalloc(double, nLxyz * nLxyz);
A12 = ctalloc(double*, nLxyz);
A21 = ctalloc(double*, nLxyz);
A22 = ctalloc(double*, nLxyz);
M = ctalloc(double*, nLxyz);
for (i = 0; i < nLxyz; i++)
{
A12[i] = ctalloc(double, nLxyz);
A21[i] = ctalloc(double, nLxyz);
A22[i] = ctalloc(double, nLxyz);
M[i] = ctalloc(double, nLxyz);
}
b = ctalloc(double, nLxyz);
b2 = ctalloc(double, nLxyz);
b_tmp = ctalloc(double, nLxyz);
w = ctalloc(double, nLxyz);
w_tmp = ctalloc(double, nLxyz);
value = ctalloc(double, nLxyz);
cval = ctalloc(double, nLxyz);
ixx = ctalloc(int, nLxyz);
iyy = ctalloc(int, nLxyz);
izz = ctalloc(int, nLxyz);
/* Allocate space for the "marker" used to keep track of which
* points in a representative correlation box have been simulated
* already.
*/
marker = talloc(char**, (3 * iLx + 1));
marker += iLx;
for (i = -iLx; i <= 2 * iLx; i++)
{
marker[i] = talloc(char*, (3 * iLy + 1));
marker[i] += iLy;
for (j = -iLy; j <= 2 * iLy; j++)
{
marker[i][j] = ctalloc(char, (3 * iLz + 1));
marker[i][j] += iLz;
for (k = -iLz; k <= 2 * iLz; k++)
marker[i][j][k] = 0;
}
}
/* Convert the cutoff values to a gaussian if they're lognormal on input */
if ((dist_type == 1) || (dist_type == 3))
{
if (low_cutoff <= 0.0)
{
low_cutoff = Tiny;
}
else
{
low_cutoff = (log(low_cutoff / mean)) / sigma;
}
if (high_cutoff <= 0.0)
{
high_cutoff = DBL_MAX;
}
else
{
high_cutoff = (log(high_cutoff / mean)) / sigma;
}
}
/*--------------------------------------------------------------------
* Start pGs algorithm
*--------------------------------------------------------------------*/
for (gridloop = 0; gridloop < GridNumSubgrids(grid); gridloop++)
{
subgrid = GridSubgrid(grid, gridloop);
sub_tmpRF = VectorSubvector(tmpRF, gridloop);
sub_field = VectorSubvector(field, gridloop);
tmpRFp = SubvectorData(sub_tmpRF);
fieldp = SubvectorData(sub_field);
X0 = RealSpaceX(0, SubgridRX(subgrid));
Y0 = RealSpaceY(0, SubgridRY(subgrid));
Z0 = RealSpaceZ(0, SubgridRZ(subgrid));
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
NX = ix + nx;
NY = iy + ny;
NZ = iz + nz;
/* RDF: assume resolution is the same in all 3 directions */
ref = SubgridRX(subgrid);
nx_v = SubvectorNX(sub_field);
ny_v = SubvectorNY(sub_field);
nz_v = SubvectorNZ(sub_field);
nx_v2 = SubvectorNX(sub_tmpRF);
ny_v2 = SubvectorNY(sub_tmpRF);
nz_v2 = SubvectorNZ(sub_tmpRF);
/* Initialize tmpRF vector */
GrGeomInLoop(i, j, k, gr_geounit, ref, ix, iy, iz, nx, ny, nz,
{
index2 = SubvectorEltIndex(sub_tmpRF, i, j, k);
tmpRFp[index2] = 0.0;
});
/* Convert conditioning data to N(0,1) distribution if
* it's assumed to be lognormal. Then copy it into tmpRFp */
if ((dist_type == 1) || (dist_type == 3))
{
for (n = 0; n < nc; n++)
{
i = (int)((x[n] - X0) / dx + 0.5);
j = (int)((y[n] - Y0) / dy + 0.5);
k = (int)((z[n] - Z0) / dz + 0.5);
if ((ix - max_search_rad <= i && i <= ix + nx + max_search_rad) &&
(iy - max_search_rad <= j && j <= iy + ny + max_search_rad) &&
(iz - max_search_rad <= k && k <= iz + nz + max_search_rad))
{
index2 = SubvectorEltIndex(sub_tmpRF, i, j, k);
if (v[n] <= 0.0)
tmpRFp[index2] = Tiny;
else
tmpRFp[index2] = (log(v[n] / mean)) / sigma;
}
}
}
/* Otherwise, shift data to N(0,1) distribution */
else
{
for (n = 0; n < nc; n++)
{
i = (int)((x[n] - X0) / dx + 0.5);
j = (int)((y[n] - Y0) / dy + 0.5);
k = (int)((z[n] - Z0) / dz + 0.5);
if ((ix - max_search_rad <= i && i <= ix + nx + max_search_rad) &&
(iy - max_search_rad <= j && j <= iy + ny + max_search_rad) &&
(iz - max_search_rad <= k && k <= iz + nz + max_search_rad))
{
index2 = SubvectorEltIndex(sub_tmpRF, i, j, k);
tmpRFp[index2] = (v[n] - mean) / sigma;
}
}
}
/* Set the search radii in each direction. If the maximum
* number of points in a neighborhood is exceeded, these limits
* will be reduced. */
i_search = iLx;
j_search = iLy;
k_search = iLz;
/* Compute values at all points using all templates */
for (n = 0; n < iLxyz; n++)
{
/* Update the ghost layer before proceeding */
if (n > 0)
{
/* First reset max_search_radius */
max_search_rad = i_search;
if (j_search > max_search_rad)
max_search_rad = j_search;
if (k_search > max_search_rad)
max_search_rad = k_search;
/* Reset the comm package based on the new max_search_radius */
if (max_search_rad == 1)
update_mode = VectorUpdatePGS1;
else if (max_search_rad == 2)
update_mode = VectorUpdatePGS2;
else if (max_search_rad == 3)
update_mode = VectorUpdatePGS3;
else
update_mode = VectorUpdatePGS4;
handle = InitVectorUpdate(tmpRF, update_mode);
FinalizeVectorUpdate(handle);
}
rpx = rand_path[n][0];
rpy = rand_path[n][1];
rpz = rand_path[n][2];
ix2 = rpx; while (ix2 < ix)
ix2 += iLxp1;
iy2 = rpy; while (iy2 < iy)
iy2 += iLyp1;
iz2 = rpz; while (iz2 < iz)
iz2 += iLzp1;
/* This if clause checks to see if there are, in fact,
* any points at all in this subgrid, for this
* particular region. Note that each value of n in the
* above n-loop corresponds to a different region. */
if ((ix2 < ix + nx) && (iy2 < iy + ny) && (iz2 < iz + nz))
{
/*
* Construct the input matrix and vector for kriging,
* solve the linear system, and compute csigma.
* These depend only on the spatial distribution of
* conditioning data, not on the actual values of
* the data. Only the conditional mean (cmean) depends
* on actual values, so it must be computed for every
* point. Thus, it's found within the pgs_Boxloop below.
* The size of the linear system that must be solved here
* will be no larger than (2r+1)^3, where r=max_search_rad.
* It is clear from this why it is necessary to limit
* the size of the search radius.
*/
/* Here the marker array indicates which points within
* the search radius have been simulated already. This
* spatial pattern of conditioning points will be the
* same for every point in the current template. Thus,
* this system can be solved once *outside* of the
* GrGeomInLoop2 below. */
npts = 9999;
while (npts > max_npts)
{
m = 0;
/* Count the number of points in search ellipse */
for (k = rpz - k_search; k <= rpz + k_search; k++)
for (j = rpy - j_search; j <= rpy + j_search; j++)
for (i = rpx - i_search; i <= rpx + i_search; i++)
{
if (marker[i][j][k])
{
ixx[m] = i;
iyy[m] = j;
izz[m++] = k;
}
}
npts = m;
/* If npts is too large, reduce the size of the
* search ellipse one axis at a time. */
if (npts > max_npts)
{
/* If i_search is the biggest, reduce it by one. */
if ((i_search >= j_search) && (i_search >= k_search))
{
i_search--;
}
/* Or, if j_search is the biggest, reduce it by one. */
else if ((j_search >= i_search) && (j_search >= k_search))
{
j_search--;
}
/* Otherwise, reduce k_search by one. */
else
{
k_search--;
}
}
}
m = 0;
for (j = 0; j < npts; j++)
{
di = abs(rpx - ixx[j]);
dj = abs(rpy - iyy[j]);
dk = abs(rpz - izz[j]);
b[j] = cov[di][dj][dk];
for (i = 0; i < npts; i++)
{
di = abs(ixx[i] - ixx[j]);
dj = abs(iyy[i] - iyy[j]);
dk = abs(izz[i] - izz[j]);
A11[m++] = cov[di][dj][dk];
}
}
/* Solve the linear system */
for (i = 0; i < npts; i++)
w[i] = b[i];
if (npts > 0)
{
dpofa_(A11, &npts, &npts, &ierr);
dposl_(A11, &npts, &npts, w);
}
/* Compute the conditional standard deviation for the RV
* to be simulated. */
csigma = 0.0;
for (i = 0; i < npts; i++)
csigma += w[i] * b[i];
csigma = sqrt(cov[0][0][0] - csigma);
/* The following loop hits every point in the current
* region. That is, it skips by max_search_rad+1
* through the subgrid. In this way, all the points
* in this loop may simulated simultaneously; each is
* outside the search radius of all the others. */
nxG = (nx + ix);
nyG = (ny + iy);
nzG = (nz + iz);
for (k = iz2; k < nzG; k += iLzp1)
for (j = iy2; j < nyG; j += iLyp1)
for (i = ix2; i < nxG; i += iLxp1)
{
index1 = SubvectorEltIndex(sub_field, i, j, k);
index2 = SubvectorEltIndex(sub_tmpRF, i, j, k);
/* Only simulate points in this geounit and that don't
* already have a value. If a node already has a value,
* it was assigned as external conditioning data,
* so we don't need to simulate it. */
if (fabs(tmpRFp[index2]) < Tiny)
{
/* Condition the random variable */
m = 0;
cpts = 0;
for (kk = -k_search; kk <= k_search; kk++)
for (jj = -j_search; jj <= j_search; jj++)
for (ii = -i_search; ii <= i_search; ii++)
{
value[m] = 0.0;
index3 = SubvectorEltIndex(sub_tmpRF, i + ii, j + jj, k + kk);
if (marker[ii + rpx][jj + rpy][kk + rpz])
{
value[m++] = tmpRFp[index3];
}
/* In this case, there is a value at this point,
* but it wasn't simulated yet (as indicated by the
* fact that the marker has no place for it). Thus,
* it must be external conditioning data. */
else if (fabs(tmpRFp[index3]) > Tiny)
{
ixx[npts + cpts] = rpx + ii;
iyy[npts + cpts] = rpy + jj;
izz[npts + cpts] = rpz + kk;
cval[cpts++] = tmpRFp[index3];
}
}
/* If cpts is too large, reduce the size of the
* search neighborhood, one axis at a time. */
/* Define the size of the search neighborhood */
ci_search = i_search;
cj_search = j_search;
ck_search = k_search;
while (cpts > max_cpts)
{
/* If ci_search is the biggest, reduce it by one. */
if ((ci_search >= cj_search) && (ci_search >= ck_search))
ci_search--;
/* Or, if cj_search is the biggest, reduce it by one. */
else if ((cj_search >= ci_search) && (cj_search >= ck_search))
cj_search--;
/* Otherwise, reduce ck_search by one. */
else
ck_search--;
/* Now recount the conditioning data points */
m = 0;
cpts = 0;
for (kk = -ck_search; kk <= ck_search; kk++)
for (jj = -cj_search; jj <= cj_search; jj++)
for (ii = -ci_search; ii <= ci_search; ii++)
{
index3 = SubvectorEltIndex(sub_tmpRF, i + ii, j + jj, k + kk);
if (!(marker[rpx + ii][rpy + jj][rpz + kk]) &&
(fabs(tmpRFp[index3]) > Tiny))
{
ixx[npts + cpts] = rpx + ii;
iyy[npts + cpts] = rpy + jj;
izz[npts + cpts] = rpz + kk;
cval[cpts++] = tmpRFp[index3];
}
}
}
for (i2 = 0; i2 < npts; i2++)
w_tmp[i2] = w[i2];
/*--------------------------------------------------
* Conditioning to external data is done here.
*--------------------------------------------------*/
if (cpts > 0)
{
/* Compute the submatrices */
for (j2 = 0; j2 < npts + cpts; j2++)
{
di = abs(rpx - ixx[j2]);
dj = abs(rpy - iyy[j2]);
dk = abs(rpz - izz[j2]);
b[j2] = cov[di][dj][dk];
for (i2 = 0; i2 < npts + cpts; i2++)
{
di = abs(ixx[i2] - ixx[j2]);
dj = abs(iyy[i2] - iyy[j2]);
dk = abs(izz[i2] - izz[j2]);
A = cov[di][dj][dk];
if (i2 < npts && j2 >= npts)
A12[i2][j2 - npts] = A;
if (i2 >= npts && j2 < npts)
A21[i2 - npts][j2] = A;
if (i2 >= npts && j2 >= npts)
A22[i2 - npts][j2 - npts] = A;
}
}
/* Compute b2' = b2 - A21 * A11_inv * b1 and augment b1 */
for (i2 = 0; i2 < cpts; i2++)
b2[i2] = b[i2 + npts];
for (i2 = 0; i2 < npts; i2++)
b_tmp[i2] = b[i2];
dposl_(A11, &npts, &npts, b_tmp);
for (i2 = 0; i2 < cpts; i2++)
{
sum = 0.0;
for (j2 = 0; j2 < npts; j2++)
{
sum += A21[i2][j2] * b_tmp[j2];
}
b2[i2] -= sum;
}
for (i2 = 0; i2 < cpts; i2++)
b[i2 + npts] = b2[i2];
/* Compute A22' = A22 - A21 * A11_inv * A12 */
for (j2 = 0; j2 < cpts; j2++)
for (i2 = 0; i2 < npts; i2++)
M[j2][i2] = A12[i2][j2];
if (npts > 0)
{
for (i2 = 0; i2 < cpts; i2++)
dposl_(A11, &npts, &npts, M[i2]);
}
for (j2 = 0; j2 < cpts; j2++)
for (i2 = 0; i2 < cpts; i2++)
{
sum = 0.0;
for (k2 = 0; k2 < npts; k2++)
sum += A21[i2][k2] * M[j2][k2];
A22[i2][j2] -= sum;
}
m = 0;
for (j2 = 0; j2 < cpts; j2++)
for (i2 = 0; i2 < cpts; i2++)
A_sub[m++] = A22[i2][j2];
/* Compute x2 where A22*x2 = b2' */
dpofa_(A_sub, &cpts, &cpts, &ierr);
dposl_(A_sub, &cpts, &cpts, b2);
/* Compute w_tmp where A11*w_tmp = (b1 - A12*b2) */
if (npts > 0)
{
for (i2 = 0; i2 < npts; i2++)
{
sum = 0.0;
for (k2 = 0; k2 < cpts; k2++)
sum += A12[i2][k2] * b2[k2];
w_tmp[i2] = b[i2] - sum;
}
dposl_(A11, &npts, &npts, w_tmp);
}
/* Fill in the rest of w_tmp with b2 */
for (i2 = npts; i2 < npts + cpts; i2++)
{
w_tmp[i2] = b2[i2];
value[i2] = cval[i2 - npts];
}
/* Recompute csigma */
csigma = 0.0;
for (i2 = 0; i2 < npts + cpts; i2++)
csigma += w_tmp[i2] * b[i2];
csigma = sqrt(cov[0][0][0] - csigma);
}
/*--------------------------------------------------
* End of external conditioning
*--------------------------------------------------*/
cmean = 0.0;
for (m = 0; m < npts + cpts; m++)
cmean += w_tmp[m] * value[m];
/* uni = fieldp[index1]; */
uni = Rand();
gauinv_(&uni, &gau, &ierr);
tmpRFp[index2] = csigma * gau + cmean;
/* Cutoff tail values if required */
if (dist_type > 1)
{
if (tmpRFp[index2] < low_cutoff)
tmpRFp[index2] = low_cutoff;
if (tmpRFp[index2] > high_cutoff)
tmpRFp[index2] = high_cutoff;
}
} /* if( abs(tmpRFp[index2]) < Tiny ) */
}
/* end of triple for-loops over i,j,k */
/* Update the marker vector */
imin = rpx - iLxp1; if (imin < -iLx)
imin += iLxp1;
jmin = rpy - iLyp1; if (jmin < -iLy)
jmin += iLyp1;
kmin = rpz - iLzp1; if (kmin < -iLz)
kmin += iLzp1;
for (kk = kmin; kk <= 2 * iLz; kk += iLzp1)
for (jj = jmin; jj <= 2 * iLy; jj += iLyp1)
for (ii = imin; ii <= 2 * iLx; ii += iLxp1)
{
marker[ii][jj][kk] = 1;
}
} /* if(...) */
} /* n loop */
/* Make log-normal if requested. Note that low
* and high cutoffs are already accomplished. */
if ((dist_type == 1) || (dist_type == 3))
{
GrGeomInLoop(i, j, k, gr_geounit, ref, ix, iy, iz, nx, ny, nz,
{
index1 = SubvectorEltIndex(sub_field, i, j, k);
index2 = SubvectorEltIndex(sub_tmpRF, i, j, k);
fieldp[index1] = mean * exp((sigma) * tmpRFp[index2]);
});
void ComputeTop(Problem * problem, /* General problem information */
ProblemData *problem_data /* Contains geometry information for the problem */
)
{
GrGeomSolid *gr_solid = ProblemDataGrDomain(problem_data);
Vector *top = ProblemDataIndexOfDomainTop(problem_data);
Vector *perm_x = ProblemDataPermeabilityX(problem_data);
Grid *grid2d = VectorGrid(top);
SubgridArray *grid2d_subgrids = GridSubgrids(grid2d);
/* use perm grid as top is 2D and want to loop over Z */
Grid *grid3d = VectorGrid(perm_x);
SubgridArray *grid3d_subgrids = GridSubgrids(grid3d);
double *top_data;
int index;
VectorUpdateCommHandle *handle;
(void)problem;
InitVectorAll(top, -1);
// PFVConstInit(-1, top);
int is;
ForSubgridI(is, grid3d_subgrids)
{
Subgrid *grid2d_subgrid = SubgridArraySubgrid(grid2d_subgrids, is);
Subgrid *grid3d_subgrid = SubgridArraySubgrid(grid3d_subgrids, is);
Subvector *top_subvector = VectorSubvector(top, is);
int grid3d_ix = SubgridIX(grid3d_subgrid);
int grid3d_iy = SubgridIY(grid3d_subgrid);
int grid3d_iz = SubgridIZ(grid3d_subgrid);
int grid2d_iz = SubgridIZ(grid2d_subgrid);
int grid3d_nx = SubgridNX(grid3d_subgrid);
int grid3d_ny = SubgridNY(grid3d_subgrid);
int grid3d_nz = SubgridNZ(grid3d_subgrid);
int grid3d_r = SubgridRX(grid3d_subgrid);
top_data = SubvectorData(top_subvector);
int i, j, k;
GrGeomInLoop(i, j, k,
gr_solid, grid3d_r,
grid3d_ix, grid3d_iy, grid3d_iz,
grid3d_nx, grid3d_ny, grid3d_nz,
{
index = SubvectorEltIndex(top_subvector, i, j, grid2d_iz);
if (top_data[index] < k)
{
top_data[index] = k;
}
});
void PermeabilityFace(
Vector *zperm,
Vector *permeability)
{
PFModule *this_module = ThisPFModule;
InstanceXtra *instance_xtra = (InstanceXtra *)PFModuleInstanceXtra(this_module);
PublicXtra *public_xtra = (PublicXtra *)PFModulePublicXtra(this_module);
Grid *z_grid = (instance_xtra -> z_grid);
VectorUpdateCommHandle *handle;
SubgridArray *subgrids;
Subgrid *subgrid;
Subvector *subvector_pc, *subvector_pf;
int ix, iy, iz;
int nx, ny, nz;
double dx, dy, dz;
int nx_pc, ny_pc, nz_pc;
int nx_pf, ny_pf, nz_pf;
int pci, pfi;
int sg, i, j, k;
int flopest;
double *pf, *pc_l, *pc_u;
/*-----------------------------------------------------------------------
* Begin timing
*-----------------------------------------------------------------------*/
BeginTiming(public_xtra -> time_index);
/*-----------------------------------------------------------------------
* exchange boundary data for cell permeability values
*-----------------------------------------------------------------------*/
handle = InitVectorUpdate(permeability, VectorUpdateAll);
FinalizeVectorUpdate(handle);
/*-----------------------------------------------------------------------
* compute the z-face permeabilities for each subgrid
*-----------------------------------------------------------------------*/
subgrids = GridSubgrids(z_grid);
ForSubgridI(sg, subgrids)
{
subgrid = SubgridArraySubgrid(subgrids, sg);
subvector_pc = VectorSubvector(permeability, sg);
subvector_pf = VectorSubvector(zperm, sg);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
dx = SubgridDX(subgrid);
dy = SubgridDY(subgrid);
dz = SubgridDZ(subgrid);
nx_pc = SubvectorNX(subvector_pc);
ny_pc = SubvectorNY(subvector_pc);
nz_pc = SubvectorNZ(subvector_pc);
nx_pf = SubvectorNX(subvector_pf);
ny_pf = SubvectorNY(subvector_pf);
nz_pf = SubvectorNZ(subvector_pf);
flopest = nx_pf * ny_pf * nz_pf;
pc_l = SubvectorElt(subvector_pc, ix ,iy ,iz-1);
pc_u = SubvectorElt(subvector_pc, ix ,iy ,iz );
pf = SubvectorElt(subvector_pf, ix ,iy ,iz);
pci = 0; pfi = 0;
BoxLoopI2(i,j,k,
ix,iy,iz,nx,ny,nz,
pci,nx_pc,ny_pc,nz_pc,1,1,1,
pfi,nx_pf,ny_pf,nz_pf,1,1,1,
{
pf[pfi] = Mean( pc_l[pci], pc_u[pci] );
});
void PFVLinearSum(
/* LinearSum : z = a * x + b * y */
double a,
Vector *x,
double b,
Vector *y,
Vector *z)
{
double c;
Vector *v1, *v2;
int test;
Grid *grid = VectorGrid(x);
Subgrid *subgrid;
Subvector *x_sub;
Subvector *y_sub;
Subvector *z_sub;
double *yp, *xp, *zp;
int ix, iy, iz;
int nx, ny, nz;
int nx_x, ny_x, nz_x;
int nx_y, ny_y, nz_y;
int nx_z, ny_z, nz_z;
int sg, i, j, k, i_x, i_y, i_z;
if ((b == ONE) && (z == y)) /* BLAS usage: axpy y <- ax+y */
{
PFVAxpy(a, x, y);
return;
}
if ((a == ONE) && (z == x)) /* BLAS usage: axpy x <- by+x */
{
PFVAxpy(b, y, x);
return;
}
/* Case: a == b == 1.0 */
if ((a == ONE) && (b == ONE))
{
PFVSum(x, y, z);
return;
}
/* Cases: (1) a == 1.0, b = -1.0, (2) a == -1.0, b == 1.0 */
if ((test = ((a == ONE) && (b == -ONE))) || ((a == -ONE) && (b == ONE)))
{
v1 = test ? y : x;
v2 = test ? x : y;
PFVDiff(v2, v1, z);
return;
}
/* Cases: (1) a == 1.0, b == other or 0.0, (2) a == other or 0.0, b == 1.0 */
/* if a or b is 0.0, then user should have called N_VScale */
if ((test = (a == ONE)) || (b == ONE))
{
c = test ? b : a;
v1 = test ? y : x;
v2 = test ? x : y;
PFVLin1(c, v1, v2, z);
return;
}
/* Cases: (1) a == -1.0, b != 1.0, (2) a != 1.0, b == -1.0 */
if ((test = (a == -ONE)) || (b == -ONE))
{
c = test ? b : a;
v1 = test ? y : x;
v2 = test ? x : y;
PFVLin2(c, v1, v2, z);
return;
}
/* Case: a == b */
/* catches case both a and b are 0.0 - user should have called N_VConst */
if (a == b)
{
PFVScaleSum(a, x, y, z);
return;
}
/* Case: a == -b */
if (a == -b)
{
PFVScaleDiff(a, x, y, z);
return;
}
/* Do all cases not handled above:
* (1) a == other, b == 0.0 - user should have called N_VScale
* (2) a == 0.0, b == other - user should have called N_VScale
* (3) a,b == other, a !=b, a != -b */
ForSubgridI(sg, GridSubgrids(grid))
{
subgrid = GridSubgrid(grid, sg);
z_sub = VectorSubvector(z, sg);
x_sub = VectorSubvector(x, sg);
y_sub = VectorSubvector(y, sg);
ix = SubgridIX(subgrid);
iy = SubgridIY(subgrid);
iz = SubgridIZ(subgrid);
nx = SubgridNX(subgrid);
ny = SubgridNY(subgrid);
nz = SubgridNZ(subgrid);
nx_x = SubvectorNX(x_sub);
ny_x = SubvectorNY(x_sub);
nz_x = SubvectorNZ(x_sub);
nx_y = SubvectorNX(y_sub);
ny_y = SubvectorNY(y_sub);
nz_y = SubvectorNZ(y_sub);
nx_z = SubvectorNX(z_sub);
ny_z = SubvectorNY(z_sub);
nz_z = SubvectorNZ(z_sub);
zp = SubvectorElt(z_sub, ix, iy, iz);
xp = SubvectorElt(x_sub, ix, iy, iz);
yp = SubvectorElt(y_sub, ix, iy, iz);
i_x = 0;
i_y = 0;
i_z = 0;
BoxLoopI3(i, j, k, ix, iy, iz, nx, ny, nz,
i_x, nx_x, ny_x, nz_x, 1, 1, 1,
i_y, nx_y, ny_y, nz_y, 1, 1, 1,
i_z, nx_z, ny_z, nz_z, 1, 1, 1,
{
zp[i_z] = a * xp[i_x] + b * yp[i_y];
});
GrGeomExtentArray *GrGeomCreateExtentArray(
SubgridArray *subgrids,
int xl_ghost,
int xu_ghost,
int yl_ghost,
int yu_ghost,
int zl_ghost,
int zu_ghost)
{
Background *bg = GlobalsBackground;
GrGeomExtentArray *extent_array;
GrGeomExtents *extents;
int size;
Subgrid *subgrid;
int ref;
int bg_ix, bg_iy, bg_iz;
int bg_nx, bg_ny, bg_nz;
int is;
size = SubgridArraySize(subgrids);
extents = ctalloc(GrGeomExtents, size);
ForSubgridI(is, subgrids)
{
subgrid = SubgridArraySubgrid(subgrids, is);
/* compute background grid extents on MaxRefLevel index space */
ref = (int)pow(2.0, GlobalsMaxRefLevel);
bg_ix = BackgroundIX(bg) * ref;
bg_iy = BackgroundIY(bg) * ref;
bg_iz = BackgroundIZ(bg) * ref;
bg_nx = BackgroundNX(bg) * ref;
bg_ny = BackgroundNY(bg) * ref;
bg_nz = BackgroundNZ(bg) * ref;
ref = (int)Pow2(GlobalsMaxRefLevel);
/*------------------------------------------
* set the lower extent values
*------------------------------------------*/
if (xl_ghost > -1)
{
xl_ghost = pfmax(xl_ghost, 1);
GrGeomExtentsIXLower(extents[is]) =
(SubgridIX(subgrid) - xl_ghost) * ref;
}
else
{
GrGeomExtentsIXLower(extents[is]) = bg_ix;
}
if (yl_ghost > -1)
{
yl_ghost = pfmax(yl_ghost, 1);
GrGeomExtentsIYLower(extents[is]) =
(SubgridIY(subgrid) - yl_ghost) * ref;
}
else
{
GrGeomExtentsIYLower(extents[is]) = bg_iy;
}
if (zl_ghost > -1)
{
zl_ghost = pfmax(zl_ghost, 1);
GrGeomExtentsIZLower(extents[is]) =
(SubgridIZ(subgrid) - zl_ghost) * ref;
}
else
{
GrGeomExtentsIZLower(extents[is]) = bg_iz;
}
/*------------------------------------------
* set the upper extent values
*------------------------------------------*/
if (xu_ghost > -1)
{
xu_ghost = pfmax(xu_ghost, 1);
GrGeomExtentsIXUpper(extents[is]) =
(SubgridIX(subgrid) + SubgridNX(subgrid) + xu_ghost) * ref - 1;
}
else
{
GrGeomExtentsIXUpper(extents[is]) = bg_ix + bg_nx - 1;
}
if (yu_ghost > -1)
{
yu_ghost = pfmax(yu_ghost, 1);
GrGeomExtentsIYUpper(extents[is]) =
(SubgridIY(subgrid) + SubgridNY(subgrid) + yu_ghost) * ref - 1;
}
else
{
GrGeomExtentsIYUpper(extents[is]) = bg_iy + bg_ny - 1;
}
if (zu_ghost > -1)
{
zu_ghost = pfmax(zu_ghost, 1);
GrGeomExtentsIZUpper(extents[is]) =
(SubgridIZ(subgrid) + SubgridNZ(subgrid) + zu_ghost) * ref - 1;
}
else
{
GrGeomExtentsIZUpper(extents[is]) = bg_iz + bg_nz - 1;
}
/*------------------------------------------
* convert to "octree coordinates"
*------------------------------------------*/
/* Moved into the loop by SGS 7/8/98, was lying outside the is
* loop which was an error (accessing invalid array elements)
*/
GrGeomExtentsIXLower(extents[is]) -= bg_ix;
GrGeomExtentsIYLower(extents[is]) -= bg_iy;
GrGeomExtentsIZLower(extents[is]) -= bg_iz;
GrGeomExtentsIXUpper(extents[is]) -= bg_ix;
GrGeomExtentsIYUpper(extents[is]) -= bg_iy;
GrGeomExtentsIZUpper(extents[is]) -= bg_iz;
}