Merge branch 'master' of github.com:JamesEMcClure/LBPM-WIA
This commit is contained in:
James E McClure
commit
ac1222ee81
@ -1,5 +1,6 @@
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# Copy files for the tests
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ADD_LBPM_EXECUTABLE( lbpm_permeability_simulator )
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ADD_LBPM_EXECUTABLE( lbpm_nondarcy_simulator )
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ADD_LBPM_EXECUTABLE( lbpm_color_simulator )
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ADD_LBPM_EXECUTABLE( lbpm_color_macro_simulator )
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ADD_LBPM_EXECUTABLE( lbpm_sphere_pp )
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@ -233,30 +233,36 @@ int main(int argc, char **argv)
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if (rank==0){
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PORESIZE=fopen("PoreSize.hist","w");
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printf(" writing PoreSize.hist \n");
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int PoreCount=0;
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int Count;
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uint64_t PoreCount=0;
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uint64_t Count;
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double PoreVol=0.f;
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for (int idx=0; idx<NumBins; idx++){
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double BinCenter=MinPoreSize+idx*BinWidth;
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Count=GlobalHistogram[idx];
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PoreCount+=Count;
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fprintf(PORESIZE,"%i %f\n",Count,BinCenter);
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PoreVol+=Count*BinCenter*BinCenter*BinCenter;
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fprintf(PORESIZE,"%lu %f\n",Count,BinCenter);
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}
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fclose(PORESIZE);
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// Compute quartiles
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//printf("Total pores: %lu\n",PoreCount);
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double Q1,Q2,Q3,Q4;
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int Qval=PoreCount/4;
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//uint64_t Qval=PoreCount/4;
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double Qval=PoreVol*0.25;
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Q1=Q2=Q3=MinPoreSize;
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Q4=MaxPoreSize;
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Count=0;
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//printf("Volume per quartile %f\n",Qval);
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PoreVol=0.f;
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for (int idx=0; idx<NumBins; idx++){
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double BinCenter=MinPoreSize+idx*BinWidth;
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Count+=GlobalHistogram[idx];
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if (Count<Qval) Q1+=BinWidth;
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if (Count<2*Qval) Q2+=BinWidth;
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if (Count<3*Qval) Q3+=BinWidth;
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Count=GlobalHistogram[idx];
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PoreVol+=Count*BinCenter*BinCenter*BinCenter;
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if (PoreVol<Qval) Q1+=BinWidth;
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if (PoreVol<2*Qval) Q2+=BinWidth;
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if (PoreVol<3*Qval) Q3+=BinWidth;
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}
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printf("Quartiles for pore size distribution \n");
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printf("Quartiles (volumetric) for pore size distribution \n");
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printf("Q1 %f\n",Q1);
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printf("Q2 %f\n",Q2);
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printf("Q3 %f\n",Q3);
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@ -167,43 +167,6 @@ int main(int argc, char **argv)
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fclose(IDFILE);
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int count,countGlobal,totalGlobal;
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count = 0;
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for (int k=1; k<nz-1; k++){
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for (int j=1; j<ny-1; j++){
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for (int i=1; i<nx-1; i++){
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n = k*nx*ny+j*nx+i;
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if (SignDist(i,j,k) < 0.0) id[n] = 0;
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else{
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// initially saturated with wetting phase
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//id[n] = 2;
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count++;
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}
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}
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}
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}
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// total Global is the number of nodes in the pore-space
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MPI_Allreduce(&count,&totalGlobal,1,MPI_INT,MPI_SUM,comm);
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float porosity=float(totalGlobal)/(nprocx*nprocy*nprocz*(nx-2)*(ny-2)*(nz-2));
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if (rank==0) printf("Media Porosity: %f \n",porosity);
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count = 0;
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for (int k=1; k<Nz-1; k++){
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for (int j=1; j<Ny-1; j++){
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for (int i=1; i<Nx-1; i++){
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n=k*Nx*Ny+j*Nx+i;
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if (id[n] == 2){
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count++;
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}
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}
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}
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}
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MPI_Allreduce(&count,&countGlobal,1,MPI_INT,MPI_SUM,comm);
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sw= double(countGlobal)/totalGlobal;
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if (rank==0) printf("Initial saturation (from ID.xxxxx files)=%f\n",sw)
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Dm.CommInit(comm);
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int iproc = Dm.iproc;
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int jproc = Dm.jproc;
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@ -269,10 +232,30 @@ int main(int argc, char **argv)
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int Nx = nx;
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int Ny = ny;
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int Nz = nz;
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double sw=1.f;
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int GlobalNumber = 1;
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double radius,Rcrit;
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int count,countGlobal,totalGlobal;
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count = 0;
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for (int k=1; k<nz-1; k++){
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for (int j=1; j<ny-1; j++){
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for (int i=1; i<nx-1; i++){
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n = k*nx*ny+j*nx+i;
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if (SignDist(i,j,k) < 0.0) id[n] = 0;
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else{
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// initially saturated with wetting phase
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id[n] = 2;
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count++;
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}
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}
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}
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}
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// total Global is the number of nodes in the pore-space
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MPI_Allreduce(&count,&totalGlobal,1,MPI_INT,MPI_SUM,comm);
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float porosity=float(totalGlobal)/(nprocx*nprocy*nprocz*(nx-2)*(ny-2)*(nz-2));
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if (rank==0) printf("Media Porosity: %f \n",porosity);
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double radius,Rcrit_new;
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radius = 0.0;
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// Layer the inlet with NWP
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if (kproc == 0){
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@ -281,27 +264,35 @@ int main(int argc, char **argv)
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n = j*nx+i;
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// n = nx*ny + j*nx+i;
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id[n]=1;
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if (SignDist(i,j,k) > radius){
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radius=SignDist(i,j,k);
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if (SignDist(i,j,0) > radius){
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radius=SignDist(i,j,0);
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}
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}
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}
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}
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MPI_Allreduce(&radius,&Rcrit,1,MPI_DOUBLE,MPI_MAX,comm);
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int Window=int(Rcrit);
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MPI_Allreduce(&radius,&Rcrit_new,1,MPI_DOUBLE,MPI_MAX,comm);
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if (rank==0) printf("Starting morhpological drainage with critical radius = %f \n",Rcrit);
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if (rank==0) printf("Starting morhpological drainage with critical radius = %f \n",Rcrit_new);
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int imin,jmin,kmin,imax,jmax,kmax;
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// Decrease the critical radius until the target saturation is met
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double deltaR=0.05; // amount to change the radius in voxel units
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while (sw > SW){
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double deltaR=0.01; // amount to change the radius in voxel units
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double Rcrit_old;
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double sw_old=1.0; // initial WP saturation set to one
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double sw_new=1.0; // initial WP saturation set to one
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double sw_diff_old = 1.0;
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double sw_diff_new = 1.0;
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// decrease critical radius
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Rcrit -= deltaR;
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Window=int(Rcrit);
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while (sw_new > SW){
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Rcrit_old = Rcrit_new;
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Rcrit_new -= deltaR;// decrease critical radius
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sw_old = sw_new;
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sw_diff_old = sw_diff_new;
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int Window=round(Rcrit_new);
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GlobalNumber = 1;
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while (GlobalNumber != 0){
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@ -312,7 +303,7 @@ int main(int argc, char **argv)
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for(j=0; j<Ny; j++){
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for(i=0; i<Nx; i++){
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n = k*nx*ny + j*nx+i;
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if (id[n] == 1 && SignDist(i,j,k) > Rcrit){
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if (id[n] == 1 && SignDist(i,j,k) > Rcrit_new){
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// loop over the window and update
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imin=max(1,i-Window);
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jmin=max(1,j-Window);
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@ -325,7 +316,7 @@ int main(int argc, char **argv)
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for (ii=imin; ii<imax; ii++){
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int nn = kk*nx*ny+jj*nx+ii;
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double dsq = double((ii-i)*(ii-i)+(jj-j)*(jj-j)+(kk-k)*(kk-k));
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if (id[nn] == 2 && dsq <= Rcrit*Rcrit){
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if (id[nn] == 2 && dsq <= Rcrit_new*Rcrit_new){
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LocalNumber++;
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id[nn]=1;
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}
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@ -454,10 +445,36 @@ int main(int argc, char **argv)
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}
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}
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MPI_Allreduce(&count,&countGlobal,1,MPI_INT,MPI_SUM,comm);
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sw= double(countGlobal)/totalGlobal;
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if (rank==0) printf("Final saturation=%f\n",sw);
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sw_new= double(countGlobal)/totalGlobal;
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sw_diff_new = abs(sw_new-SW);
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// if (rank==0){
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// printf("Final saturation=%f\n",sw_new);
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// printf("Final critical radius=%f\n",Rcrit_new);
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//
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// }
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}
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if (sw_diff_new<sw_diff_old){
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if (rank==0){
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printf("Final saturation=%f\n",sw_new);
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printf("Final critical radius=%f\n",Rcrit_new);
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}
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}
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else{
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if (rank==0){
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printf("Final saturation=%f\n",sw_old);
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printf("Final critical radius=%f\n",Rcrit_old);
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}
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}
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// if (rank==0){
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// printf("Final saturation=%f\n",sw);
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// printf("Final critical radius=%f\n",Rcrit);
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//
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// }
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sprintf(LocalRankFilename,"ID.%05i",rank);
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FILE *ID = fopen(LocalRankFilename,"wb");
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fwrite(id,1,N,ID);
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@ -54,7 +54,8 @@ int main(int argc, char **argv)
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MPI_Comm_rank(comm,&rank);
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MPI_Comm_size(comm,&nprocs);
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double Rcrit=0.f;
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//double Rcrit_new=1.f; // Hard-coded 'Rcrit' to avoid any calculations under resolutions.
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double Rcrit_new=0.f;
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double SW=strtod(argv[1],NULL);
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if (rank==0){
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//printf("Critical radius %f (voxels)\n",Rcrit);
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@ -330,39 +331,35 @@ int main(int argc, char **argv)
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int Nx = nx;
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int Ny = ny;
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int Nz = nz;
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double sw = 0.f;
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int GlobalNumber = 1;
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int imin,jmin,kmin,imax,jmax,kmax;
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double sw_old=1.0;
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double sw_new=1.0;
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double sw_diff_old = 1.0;
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double sw_diff_new = 1.0;
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// Increase the critical radius until the target saturation is met
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double deltaR=0.05; // amount to change the radius in voxel units
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while (sw<SW)
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{
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double Rcrit_old;
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Rcrit += deltaR;
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int Window=round(Rcrit);
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int GlobalNumber = 1;
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int imin,jmin,kmin,imax,jmax,kmax;
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Rcrit_new = maxdistGlobal;
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while (sw_new > SW)
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{
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sw_diff_old = sw_diff_new;
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sw_old = sw_new;
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Rcrit_old = Rcrit_new;
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Rcrit_new -= deltaR;
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int Window=round(Rcrit_new);
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if (Window == 0) Window = 1; // If Window = 0 at the begining, after the following process will have sw=1.0
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// and sw<Sw will be immediately broken
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int LocalNumber=0;
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// Initialization: saturate medium with wetting phase - need this for each iteraction before SW is met
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for (int k=1; k<nz-1; k++){
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for (int j=1; j<ny-1; j++){
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for (int i=1; i<nx-1; i++){
|
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n = k*nx*ny+j*nx+i;
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if (SignDist(i,j,k) < 0.0) id[n] = 0;
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else{
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// initially saturated with wetting phase
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id[n] = 2;
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}
|
||||
}
|
||||
}
|
||||
}
|
||||
for(k=0; k<Nz; k++){
|
||||
for(j=0; j<Ny; j++){
|
||||
for(i=0; i<Nx; i++){
|
||||
n = k*nx*ny + j*nx+i;
|
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if (SignDist(i,j,k) > Rcrit){
|
||||
if (SignDist(i,j,k) > Rcrit_new){
|
||||
// loop over the window and update
|
||||
imin=max(1,i-Window);
|
||||
jmin=max(1,j-Window);
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||||
@ -375,13 +372,14 @@ int main(int argc, char **argv)
|
||||
for (ii=imin; ii<imax; ii++){
|
||||
int nn = kk*nx*ny+jj*nx+ii;
|
||||
double dsq = double((ii-i)*(ii-i)+(jj-j)*(jj-j)+(kk-k)*(kk-k));
|
||||
if (id[nn] == 2 && dsq <= Rcrit*Rcrit){
|
||||
if (id[nn] == 2 && dsq <= Rcrit_new*Rcrit_new){
|
||||
LocalNumber++;
|
||||
id[nn]=1;
|
||||
}
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
}
|
||||
// move on
|
||||
}
|
||||
@ -480,23 +478,34 @@ int main(int argc, char **argv)
|
||||
}
|
||||
}
|
||||
MPI_Allreduce(&count,&countGlobal,1,MPI_INT,MPI_SUM,comm);
|
||||
sw = float(countGlobal)/totalGlobal;
|
||||
if (rank==0)
|
||||
{
|
||||
printf("Final saturation=%f\n",sw);
|
||||
printf("Final critical radius=%f\n",Rcrit);
|
||||
sw_new = float(countGlobal)/totalGlobal;
|
||||
sw_diff_new = abs(sw_new-SW);
|
||||
// for test only
|
||||
// if (rank==0){
|
||||
// printf("Final saturation=%f\n",sw_new);
|
||||
// printf("Final critical radius=%f\n",Rcrit_new);
|
||||
//
|
||||
// }
|
||||
}
|
||||
|
||||
if (sw_diff_new<sw_diff_old){
|
||||
if (rank==0){
|
||||
printf("Final saturation=%f\n",sw_new);
|
||||
printf("Final critical radius=%f\n",Rcrit_new);
|
||||
|
||||
}
|
||||
}
|
||||
// Restore the solid phase
|
||||
for (int k=1; k<nz-1; k++){
|
||||
for (int j=1; j<ny-1; j++){
|
||||
for (int i=1; i<nx-1; i++){
|
||||
n = k*nx*ny+j*nx+i;
|
||||
if (SignDist(i,j,k) < 0.0) id[n] = 0;
|
||||
}
|
||||
else{
|
||||
if (rank==0){
|
||||
printf("Final saturation=%f\n",sw_old);
|
||||
printf("Final critical radius=%f\n",Rcrit_old);
|
||||
|
||||
}
|
||||
}
|
||||
|
||||
|
||||
|
||||
|
||||
sprintf(LocalRankFilename,"ID.%05i",rank);
|
||||
FILE *ID = fopen(LocalRankFilename,"wb");
|
||||
fwrite(id,1,N,ID);
|
||||
|
||||
591
tests/lbpm_nondarcy_simulator.cpp
Normal file
591
tests/lbpm_nondarcy_simulator.cpp
Normal file
@ -0,0 +1,591 @@
|
||||
#include <stdio.h>
|
||||
#include <stdlib.h>
|
||||
#include <sys/stat.h>
|
||||
#include <iostream>
|
||||
#include <exception>
|
||||
#include <stdexcept>
|
||||
#include <fstream>
|
||||
|
||||
#include "common/ScaLBL.h"
|
||||
#include "common/Communication.h"
|
||||
#include "common/TwoPhase.h"
|
||||
#include "common/MPI_Helpers.h"
|
||||
|
||||
//#define WRITE_SURFACES
|
||||
|
||||
/*
|
||||
* Simulator for two-phase flow in porous media
|
||||
* James E. McClure 2013-2014
|
||||
*/
|
||||
|
||||
using namespace std;
|
||||
|
||||
//*************************************************************************
|
||||
// Steady State Single-Phase LBM to generate non-Darcy curves
|
||||
//*************************************************************************
|
||||
|
||||
int main(int argc, char **argv)
|
||||
{
|
||||
std::string help("--help");
|
||||
std::string arg1("");
|
||||
if (argc > 1) arg1=argv[1];
|
||||
if (help.compare(arg1) == 0){
|
||||
printf("********************************************************** \n");
|
||||
printf("Pore-scale lattice Boltzmann simulator for non-Darcy flow in porous media \n \n");
|
||||
printf("Simulate non-Darcy flow in porous media \n");
|
||||
printf(" MPI-based lattice Boltzmann simulator \n");
|
||||
printf(" Multi-relaxation time (MRT) D3Q19 \n \n");
|
||||
printf(" Launch with MPI (e.g.) \n \n");
|
||||
printf(" mpirun -np $NUMPROCS $LBPM_WIA_DIR/lbpm_nondarcy_simulator \n \n");
|
||||
printf("**********CITATION********** \n");
|
||||
printf(" Dye, A.L., McClure, J.E., Gray, W.G. and C.T. Miller\n");
|
||||
printf(" Description of Non-Darcy Flows in Porous Medium Systems \n");
|
||||
printf(" Physical Review E 87 (3), 033012 \n \n");
|
||||
printf("**********INPUT********** \n");
|
||||
printf("1. Domain.in (describes the simulation domain and domain decomposition) \n");
|
||||
printf(" ----(e.g. Domain.in)-----\n");
|
||||
printf(" nprocx nprocy nprocz (process grid)\n");
|
||||
printf(" Nx Ny Nz (local sub-domain)\n");
|
||||
printf(" Lx Ly Lz (physical domain size) \n");
|
||||
printf(" --------------------------\n");
|
||||
printf("2. SignDist.xxxxx (Distance map of porespace) \n");
|
||||
printf(" - one file for each MPI process \n");
|
||||
printf(" - double precision values \n");
|
||||
printf(" - dimensions are [Nx+2,Ny+2,Nz+2] (include halo)\n \n");
|
||||
//printf("3. parameters for LBM are hard-coded! \n \n");
|
||||
printf("**********OUTPUT********** \n");
|
||||
printf("1. nondary.csv - list of averaged quantities obtained from steady-state flow fields\n");
|
||||
printf(" - D32 - Sauter mean grain diamter \n");
|
||||
printf(" - vx - average velocity in the x-direction \n");
|
||||
printf(" - vy - average velocity in the y-direction \n");
|
||||
printf(" - vz - average velocity in the z-direction \n");
|
||||
printf(" - Fx - body force applied in the x-direction \n");
|
||||
printf(" - Fy - body force applied in the y-direction \n");
|
||||
printf(" - Fz - body force applied in the z-direction \n");
|
||||
printf(" - Fo - Gallilei number \n");
|
||||
printf(" - Re - Reynolds number \n");
|
||||
printf("********************************************************** \n");
|
||||
/*printf("*******DIMENSIONLESS FORCHEIMER EQUATION********\n");
|
||||
printf(" - force = |F| (total magnitude of force) \n");
|
||||
printf(" - velocity = F dot v / |F| (flow velocity aligned with force) \n");
|
||||
printf(" - Fo = density*D32^3*(density*force) / (viscosity^2) \n");
|
||||
printf(" - Re = density*D32*velocity / viscosity \n");
|
||||
printf(" - Fo = a*Re + b*Re^2 \n");
|
||||
*/
|
||||
// *************************************************************************
|
||||
|
||||
}
|
||||
else {
|
||||
|
||||
//*****************************************
|
||||
// ***** MPI STUFF ****************
|
||||
//*****************************************
|
||||
// Initialize MPI
|
||||
int rank,nprocs;
|
||||
MPI_Init(&argc,&argv);
|
||||
MPI_Comm comm = MPI_COMM_WORLD;
|
||||
MPI_Comm_rank(comm,&rank);
|
||||
MPI_Comm_size(comm,&nprocs);
|
||||
{
|
||||
// parallel domain size (# of sub-domains)
|
||||
int nprocx,nprocy,nprocz;
|
||||
int iproc,jproc,kproc;
|
||||
//*****************************************
|
||||
// MPI ranks for all 18 neighbors
|
||||
//**********************************
|
||||
int rank_x,rank_y,rank_z,rank_X,rank_Y,rank_Z;
|
||||
int rank_xy,rank_XY,rank_xY,rank_Xy;
|
||||
int rank_xz,rank_XZ,rank_xZ,rank_Xz;
|
||||
int rank_yz,rank_YZ,rank_yZ,rank_Yz;
|
||||
//**********************************
|
||||
MPI_Request req1[18],req2[18];
|
||||
MPI_Status stat1[18],stat2[18];
|
||||
|
||||
double REYNOLDS_NUMBER = 100.f;
|
||||
if (argc > 1){
|
||||
REYNOLDS_NUMBER=strtod(argv[1],NULL);
|
||||
}
|
||||
if (rank == 0){
|
||||
printf("********************************************************\n");
|
||||
printf("Simulating Single Phase Non-Darcy Curve, Re < %f \n",REYNOLDS_NUMBER);
|
||||
printf("********************************************************\n");
|
||||
}
|
||||
|
||||
// Variables that specify the computational domain
|
||||
string FILENAME;
|
||||
int Nx,Ny,Nz; // local sub-domain size
|
||||
int nspheres; // number of spheres in the packing
|
||||
double Lx,Ly,Lz; // Domain length
|
||||
double D = 1.0; // reference length for non-dimensionalization
|
||||
// Color Model parameters
|
||||
int timestepMax, interval;
|
||||
double tau,Fx,Fy,Fz,tol,err;
|
||||
double din,dout;
|
||||
bool pBC,Restart;
|
||||
int i,j,k,n;
|
||||
|
||||
int RESTART_INTERVAL=20000;
|
||||
|
||||
if (rank==0){
|
||||
|
||||
//.......................................................................
|
||||
// Reading the domain information file
|
||||
//.......................................................................
|
||||
ifstream domain("Domain.in");
|
||||
domain >> nprocx;
|
||||
domain >> nprocy;
|
||||
domain >> nprocz;
|
||||
domain >> Nx;
|
||||
domain >> Ny;
|
||||
domain >> Nz;
|
||||
domain >> nspheres;
|
||||
domain >> Lx;
|
||||
domain >> Ly;
|
||||
domain >> Lz;
|
||||
//.......................................................................
|
||||
|
||||
/*
|
||||
* Set simulation parameters internally
|
||||
*/
|
||||
tau=1.f;
|
||||
Fx = 0.f;
|
||||
Fy = 0.f;
|
||||
Fz = 1.0e-7;
|
||||
pBC = 0;
|
||||
din = 1.0;
|
||||
dout = 1.0;
|
||||
timestepMax = nprocz*Nz*100;
|
||||
interval = 500;
|
||||
tol = 1.0e-4;
|
||||
|
||||
|
||||
}
|
||||
// **************************************************************
|
||||
// Broadcast simulation parameters from rank 0 to all other procs
|
||||
MPI_Barrier(comm);
|
||||
//.................................................
|
||||
MPI_Bcast(&tau,1,MPI_DOUBLE,0,comm);
|
||||
//MPI_Bcast(&pBC,1,MPI_LOGICAL,0,comm);
|
||||
// MPI_Bcast(&Restart,1,MPI_LOGICAL,0,comm);
|
||||
MPI_Bcast(&din,1,MPI_DOUBLE,0,comm);
|
||||
MPI_Bcast(&dout,1,MPI_DOUBLE,0,comm);
|
||||
MPI_Bcast(&Fx,1,MPI_DOUBLE,0,comm);
|
||||
MPI_Bcast(&Fy,1,MPI_DOUBLE,0,comm);
|
||||
MPI_Bcast(&Fz,1,MPI_DOUBLE,0,comm);
|
||||
MPI_Bcast(×tepMax,1,MPI_INT,0,comm);
|
||||
MPI_Bcast(&interval,1,MPI_INT,0,comm);
|
||||
MPI_Bcast(&tol,1,MPI_DOUBLE,0,comm);
|
||||
// Computational domain
|
||||
MPI_Bcast(&Nx,1,MPI_INT,0,comm);
|
||||
MPI_Bcast(&Ny,1,MPI_INT,0,comm);
|
||||
MPI_Bcast(&Nz,1,MPI_INT,0,comm);
|
||||
MPI_Bcast(&nprocx,1,MPI_INT,0,comm);
|
||||
MPI_Bcast(&nprocy,1,MPI_INT,0,comm);
|
||||
MPI_Bcast(&nprocz,1,MPI_INT,0,comm);
|
||||
MPI_Bcast(&nspheres,1,MPI_INT,0,comm);
|
||||
MPI_Bcast(&Lx,1,MPI_DOUBLE,0,comm);
|
||||
MPI_Bcast(&Ly,1,MPI_DOUBLE,0,comm);
|
||||
MPI_Bcast(&Lz,1,MPI_DOUBLE,0,comm);
|
||||
//.................................................
|
||||
MPI_Barrier(comm);
|
||||
|
||||
RESTART_INTERVAL=interval;
|
||||
// **************************************************************
|
||||
// **************************************************************
|
||||
double rlxA = 1.f/tau;
|
||||
double rlxB = 8.f*(2.f-rlxA)/(8.f-rlxA);
|
||||
|
||||
|
||||
if (nprocs != nprocx*nprocy*nprocz){
|
||||
printf("nprocx = %i \n",nprocx);
|
||||
printf("nprocy = %i \n",nprocy);
|
||||
printf("nprocz = %i \n",nprocz);
|
||||
INSIST(nprocs == nprocx*nprocy*nprocz,"Fatal error in processor count!");
|
||||
}
|
||||
|
||||
if (rank==0){
|
||||
printf("********************************************************\n");
|
||||
printf("tau = %f \n", tau);
|
||||
printf("Force(x) = %f \n", Fx);
|
||||
printf("Force(y) = %f \n", Fy);
|
||||
printf("Force(z) = %f \n", Fz);
|
||||
printf("Sub-domain size = %i x %i x %i\n",Nx,Ny,Nz);
|
||||
printf("Process grid = %i x %i x %i\n",nprocx,nprocy,nprocz);
|
||||
printf("********************************************************\n");
|
||||
}
|
||||
|
||||
double viscosity=(tau-0.5)/3.0;
|
||||
// Initialized domain and averaging framework for Two-Phase Flow
|
||||
int BC=pBC;
|
||||
Domain Dm(Nx,Ny,Nz,rank,nprocx,nprocy,nprocz,Lx,Ly,Lz,BC);
|
||||
TwoPhase Averages(Dm);
|
||||
|
||||
InitializeRanks( rank, nprocx, nprocy, nprocz, iproc, jproc, kproc,
|
||||
rank_x, rank_y, rank_z, rank_X, rank_Y, rank_Z,
|
||||
rank_xy, rank_XY, rank_xY, rank_Xy, rank_xz, rank_XZ, rank_xZ, rank_Xz,
|
||||
rank_yz, rank_YZ, rank_yZ, rank_Yz );
|
||||
|
||||
MPI_Barrier(comm);
|
||||
|
||||
Nx += 2; Ny += 2; Nz += 2;
|
||||
|
||||
int N = Nx*Ny*Nz;
|
||||
int dist_mem_size = N*sizeof(double);
|
||||
|
||||
//.......................................................................
|
||||
if (rank == 0) printf("Read input media... \n");
|
||||
//.......................................................................
|
||||
|
||||
//.......................................................................
|
||||
// Filenames used
|
||||
char LocalRankString[8];
|
||||
char LocalRankFilename[40];
|
||||
char LocalRestartFile[40];
|
||||
char tmpstr[10];
|
||||
sprintf(LocalRankString,"%05d",rank);
|
||||
sprintf(LocalRankFilename,"%s%s","ID.",LocalRankString);
|
||||
sprintf(LocalRestartFile,"%s%s","Restart.",LocalRankString);
|
||||
|
||||
// printf("Local File Name = %s \n",LocalRankFilename);
|
||||
// .......... READ THE INPUT FILE .......................................
|
||||
// char value;
|
||||
char *id;
|
||||
id = new char[N];
|
||||
int sum = 0;
|
||||
double sum_local;
|
||||
double iVol_global = 1.0/(1.0*(Nx-2)*(Ny-2)*(Nz-2)*nprocs);
|
||||
if (pBC) iVol_global = 1.0/(1.0*(Nx-2)*nprocx*(Ny-2)*nprocy*((Nz-2)*nprocz-6));
|
||||
double porosity, pore_vol;
|
||||
//...........................................................................
|
||||
if (rank == 0) cout << "Reading in domain from signed distance function..." << endl;
|
||||
|
||||
//.......................................................................
|
||||
sprintf(LocalRankString,"%05d",rank);
|
||||
// sprintf(LocalRankFilename,"%s%s","ID.",LocalRankString);
|
||||
// WriteLocalSolidID(LocalRankFilename, id, N);
|
||||
sprintf(LocalRankFilename,"%s%s","SignDist.",LocalRankString);
|
||||
ReadBinaryFile(LocalRankFilename, Averages.SDs.data(), N);
|
||||
MPI_Barrier(comm);
|
||||
if (rank == 0) cout << "Domain set." << endl;
|
||||
|
||||
//.......................................................................
|
||||
// Assign the phase ID field based on the signed distance
|
||||
//.......................................................................
|
||||
for (k=0;k<Nz;k++){
|
||||
for (j=0;j<Ny;j++){
|
||||
for (i=0;i<Nx;i++){
|
||||
n = k*Nx*Ny+j*Nx+i;
|
||||
id[n] = 0;
|
||||
}
|
||||
}
|
||||
}
|
||||
sum=0;
|
||||
pore_vol = 0.0;
|
||||
for ( k=1;k<Nz-1;k++){
|
||||
for ( j=1;j<Ny-1;j++){
|
||||
for ( i=1;i<Nx-1;i++){
|
||||
n = k*Nx*Ny+j*Nx+i;
|
||||
if (Averages.SDs(n) > 0.0){
|
||||
id[n] = 2;
|
||||
}
|
||||
// compute the porosity (actual interface location used)
|
||||
if (Averages.SDs(n) > 0.0){
|
||||
sum++;
|
||||
}
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
// Set up kstart, kfinish so that the reservoirs are excluded from averaging
|
||||
int kstart,kfinish;
|
||||
kstart = 1;
|
||||
kfinish = Nz-1;
|
||||
if (pBC && kproc==0) kstart = 4;
|
||||
if (pBC && kproc==nprocz-1) kfinish = Nz-4;
|
||||
|
||||
// Compute the pore volume
|
||||
sum_local = 0.0;
|
||||
for ( k=kstart;k<kfinish;k++){
|
||||
for ( j=1;j<Ny-1;j++){
|
||||
for ( i=1;i<Nx-1;i++){
|
||||
n = k*Nx*Ny+j*Nx+i;
|
||||
if (id[n] > 0){
|
||||
sum_local += 1.0;
|
||||
}
|
||||
}
|
||||
}
|
||||
}
|
||||
MPI_Allreduce(&sum_local,&pore_vol,1,MPI_DOUBLE,MPI_SUM,comm);
|
||||
// MPI_Allreduce(&sum_local,&porosity,1,MPI_DOUBLE,MPI_SUM,comm);
|
||||
porosity = pore_vol*iVol_global;
|
||||
if (rank==0) printf("Media porosity = %f \n",porosity);
|
||||
//.........................................................
|
||||
// If pressure boundary conditions are applied remove solid
|
||||
if (pBC && kproc == 0){
|
||||
for (k=0; k<3; k++){
|
||||
for (j=0;j<Ny;j++){
|
||||
for (i=0;i<Nx;i++){
|
||||
n = k*Nx*Ny+j*Nx+i;
|
||||
id[n] = 1;
|
||||
Averages.SDs(n) = max(Averages.SDs(n),1.0*(2.5-k));
|
||||
}
|
||||
}
|
||||
}
|
||||
}
|
||||
if (pBC && kproc == nprocz-1){
|
||||
for (k=Nz-3; k<Nz; k++){
|
||||
for (j=0;j<Ny;j++){
|
||||
for (i=0;i<Nx;i++){
|
||||
n = k*Nx*Ny+j*Nx+i;
|
||||
id[n] = 2;
|
||||
Averages.SDs(n) = max(Averages.SDs(n),1.0*(k-Nz+2.5));
|
||||
}
|
||||
}
|
||||
}
|
||||
}
|
||||
//.........................................................
|
||||
// don't perform computations at the eight corners
|
||||
id[0] = id[Nx-1] = id[(Ny-1)*Nx] = id[(Ny-1)*Nx + Nx-1] = 0;
|
||||
id[(Nz-1)*Nx*Ny] = id[(Nz-1)*Nx*Ny+Nx-1] = id[(Nz-1)*Nx*Ny+(Ny-1)*Nx] = id[(Nz-1)*Nx*Ny+(Ny-1)*Nx + Nx-1] = 0;
|
||||
//.........................................................
|
||||
// Initialize communication structures in averaging domain
|
||||
for (i=0; i<Dm.Nx*Dm.Ny*Dm.Nz; i++) Dm.id[i] = id[i];
|
||||
Dm.CommInit(comm);
|
||||
|
||||
//...........................................................................
|
||||
if (rank==0) printf ("Create ScaLBL_Communicator \n");
|
||||
// Create a communicator for the device
|
||||
ScaLBL_Communicator ScaLBL_Comm(Dm);
|
||||
|
||||
//...........device phase ID.................................................
|
||||
if (rank==0) printf ("Copying phase ID to device \n");
|
||||
char *ID;
|
||||
AllocateDeviceMemory((void **) &ID, N); // Allocate device memory
|
||||
// Copy to the device
|
||||
CopyToDevice(ID, id, N);
|
||||
//...........................................................................
|
||||
|
||||
//...........................................................................
|
||||
// MAIN VARIABLES ALLOCATED HERE
|
||||
//...........................................................................
|
||||
// LBM variables
|
||||
if (rank==0) printf ("Allocating distributions \n");
|
||||
//......................device distributions.................................
|
||||
double *f_even,*f_odd;
|
||||
//...........................................................................
|
||||
AllocateDeviceMemory((void **) &f_even, 10*dist_mem_size); // Allocate device memory
|
||||
AllocateDeviceMemory((void **) &f_odd, 9*dist_mem_size); // Allocate device memory
|
||||
//...........................................................................
|
||||
double *Velocity, *Pressure, *dvcSignDist;
|
||||
//...........................................................................
|
||||
AllocateDeviceMemory((void **) &Pressure, dist_mem_size);
|
||||
AllocateDeviceMemory((void **) &dvcSignDist, dist_mem_size);
|
||||
AllocateDeviceMemory((void **) &Velocity, 3*dist_mem_size);
|
||||
//...........................................................................
|
||||
|
||||
// Copy signed distance for device initialization
|
||||
CopyToDevice(dvcSignDist, Averages.SDs.data(), dist_mem_size);
|
||||
//...........................................................................
|
||||
|
||||
int logcount = 0; // number of surface write-outs
|
||||
|
||||
//...........................................................................
|
||||
// MAIN VARIABLES INITIALIZED HERE
|
||||
//...........................................................................
|
||||
//...........................................................................
|
||||
if (rank==0) printf("Setting the distributions, size = %i\n", N);
|
||||
//...........................................................................
|
||||
InitD3Q19(ID, f_even, f_odd, Nx, Ny, Nz);
|
||||
//......................................................................
|
||||
|
||||
//.......................................................................
|
||||
// Finalize setup for averaging domain
|
||||
//Averages.SetupCubes(Dm);
|
||||
Averages.UpdateSolid();
|
||||
// Initialize two phase flow variables (all wetting phase)
|
||||
for (k=0;k<Nz;k++){
|
||||
for (j=0;j<Ny;j++){
|
||||
for (i=0;i<Nx;i++){
|
||||
n=k*Nx*Ny+j*Nx+i;
|
||||
Averages.Phase(i,j,k) = -1.0;
|
||||
Averages.SDn(i,j,k) = Averages.Phase(i,j,k);
|
||||
Averages.Phase_tplus(i,j,k) = Averages.SDn(i,j,k);
|
||||
Averages.Phase_tminus(i,j,k) = Averages.SDn(i,j,k);
|
||||
Averages.DelPhi(i,j,k) = 0.0;
|
||||
Averages.Press(i,j,k) = 0.0;
|
||||
Averages.Vel_x(i,j,k) = 0.0;
|
||||
Averages.Vel_y(i,j,k) = 0.0;
|
||||
Averages.Vel_z(i,j,k) = 0.0;
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
//.......................................................................
|
||||
|
||||
if (rank==0 && pBC){
|
||||
printf("Setting inlet pressure = %f \n", din);
|
||||
printf("Setting outlet pressure = %f \n", dout);
|
||||
}
|
||||
if (pBC && kproc == 0) {
|
||||
PressureBC_inlet(f_even,f_odd,din,Nx,Ny,Nz);
|
||||
}
|
||||
|
||||
if (pBC && kproc == nprocz-1){
|
||||
PressureBC_outlet(f_even,f_odd,dout,Nx,Ny,Nz,Nx*Ny*(Nz-2));
|
||||
}
|
||||
|
||||
int timestep = 0;
|
||||
if (rank==0) printf("********************************************************\n");
|
||||
if (rank==0) printf("No. of timesteps: %i \n", timestepMax);
|
||||
|
||||
//.......create and start timer............
|
||||
double starttime,stoptime,cputime;
|
||||
MPI_Barrier(comm);
|
||||
starttime = MPI_Wtime();
|
||||
//.........................................
|
||||
|
||||
double D32,vawx,vawy,vawz,Fo,Re,velocity,err1D,mag_force,vel_prev;
|
||||
FILE * NONDARCY;
|
||||
if (rank == 0){
|
||||
NONDARCY = fopen("nondarcy.csv","a");
|
||||
fprintf(NONDARCY,"D32 Fx Fy Fz vx vy vz Re Fo\n");
|
||||
}
|
||||
|
||||
Re = 0.f;
|
||||
// Generate a bunch of points until sufficiently high Re is obtained
|
||||
while (Re < REYNOLDS_NUMBER){
|
||||
// Increase the external force and simulate to steady state
|
||||
Fz = 2.0*Fz;
|
||||
|
||||
err = vel_prev = 1.0;
|
||||
if (rank==0) printf("Begin timesteps: error tolerance is %f \n", tol);
|
||||
//************ MAIN ITERATION LOOP ***************************************/
|
||||
while (timestep < timestepMax && err > tol ){
|
||||
|
||||
//*************************************************************************
|
||||
// Fused Color Gradient and Collision
|
||||
//*************************************************************************
|
||||
MRT( ID,f_even,f_odd,rlxA,rlxB,Fx,Fy,Fz,Nx,Ny,Nz);
|
||||
//*************************************************************************
|
||||
|
||||
//*************************************************************************
|
||||
// Pack and send the D3Q19 distributions
|
||||
ScaLBL_Comm.SendD3Q19(f_even, f_odd);
|
||||
//*************************************************************************
|
||||
// Swap the distributions for momentum transport
|
||||
//*************************************************************************
|
||||
SwapD3Q19(ID, f_even, f_odd, Nx, Ny, Nz);
|
||||
//*************************************************************************
|
||||
// Wait for communications to complete and unpack the distributions
|
||||
ScaLBL_Comm.RecvD3Q19(f_even, f_odd);
|
||||
//*************************************************************************
|
||||
|
||||
if (pBC && kproc == 0) {
|
||||
PressureBC_inlet(f_even,f_odd,din,Nx,Ny,Nz);
|
||||
}
|
||||
|
||||
if (pBC && kproc == nprocz-1){
|
||||
PressureBC_outlet(f_even,f_odd,dout,Nx,Ny,Nz,Nx*Ny*(Nz-2));
|
||||
}
|
||||
//...................................................................................
|
||||
DeviceBarrier();
|
||||
MPI_Barrier(comm);
|
||||
|
||||
// Timestep completed!
|
||||
timestep++;
|
||||
|
||||
|
||||
if (rank==0){
|
||||
// write out csv file
|
||||
printf("D32 Fx Fy Fz vx vy vz err1d Fo Re K err\n");
|
||||
}
|
||||
|
||||
if (timestep%500 == 0){
|
||||
//...........................................................................
|
||||
// Copy the data for for the analysis timestep
|
||||
//...........................................................................
|
||||
// Copy the phase from the GPU -> CPU
|
||||
//...........................................................................
|
||||
DeviceBarrier();
|
||||
ComputePressureD3Q19(ID,f_even,f_odd,Pressure,Nx,Ny,Nz);
|
||||
ComputeVelocityD3Q19(ID,f_even,f_odd,Velocity,Nx,Ny,Nz);
|
||||
CopyToHost(Averages.Press.data(),Pressure,N*sizeof(double));
|
||||
CopyToHost(Averages.Vel_x.data(),&Velocity[0],N*sizeof(double));
|
||||
CopyToHost(Averages.Vel_y.data(),&Velocity[N],N*sizeof(double));
|
||||
CopyToHost(Averages.Vel_z.data(),&Velocity[2*N],N*sizeof(double));
|
||||
|
||||
// Way more work than necessary -- this is just to get the solid interfacial area!!
|
||||
Averages.Initialize();
|
||||
Averages.UpdateMeshValues();
|
||||
Averages.ComputeLocal();
|
||||
Averages.Reduce();
|
||||
|
||||
vawx = -Averages.vaw_global(0);
|
||||
vawy = -Averages.vaw_global(1);
|
||||
vawz = -Averages.vaw_global(2);
|
||||
|
||||
// Compute local measures
|
||||
err = Re; // previous Reynolds number
|
||||
D32 = 6.0*(Dm.Volume-Averages.vol_w_global)/Averages.As_global;
|
||||
mag_force = sqrt(Fx*Fx+Fy*Fy+Fz*Fz);
|
||||
Fo = D32*D32*D32*mag_force/viscosity/viscosity;
|
||||
// .... 1-D flow should be aligned with force ...
|
||||
velocity = vawx*Fx/mag_force + vawy*Fy/mag_force + vawz*Fz/mag_force;
|
||||
err1D = fabs(velocity-sqrt(vawx*vawx+vawy*vawy+vawz*vawz))/velocity;
|
||||
//.......... Computation of the Reynolds number Re ..............
|
||||
Re = D32*velocity/viscosity;
|
||||
err = fabs(Re-err);
|
||||
|
||||
if (rank==0){
|
||||
// ************* DIMENSIONLESS FORCHEIMER EQUATION *************************
|
||||
// Dye, A.L., McClure, J.E., Gray, W.G. and C.T. Miller
|
||||
// Description of Non-Darcy Flows in Porous Medium Systems
|
||||
// Physical Review E 87 (3), 033012
|
||||
// Fo := density*D32^3*(density*force) / (viscosity^2)
|
||||
// Re := density*D32*velocity / viscosity
|
||||
// Fo = a*Re + b*Re^2
|
||||
// *************************************************************************
|
||||
printf("%f ",D32);
|
||||
printf("%.5g,%.5g,%.5g ",Fx,Fy,Fz);
|
||||
printf("%.5g,%.5g,%.5g ",vawx,vawy,vawz);
|
||||
printf("%.5g ",err1D);
|
||||
printf("%5g ", Fo);
|
||||
printf("%.5g ", Re);
|
||||
printf("%.5g ", Re/Fo);
|
||||
printf("%.5g\n", err);
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
// Write steady state variables to csv file
|
||||
if (rank==0){
|
||||
fprintf(NONDARCY,"%.5g %.5g %.5g %.5g %.5g %.5g %.5g %.5g %.5g\n",D32,Fx,Fy,Fz,vawx,vawy,vawz,Re,Fo);
|
||||
fflush(NONDARCY);
|
||||
}
|
||||
}
|
||||
//************************************************************************/
|
||||
fclose(NONDARCY);
|
||||
DeviceBarrier();
|
||||
MPI_Barrier(comm);
|
||||
stoptime = MPI_Wtime();
|
||||
if (rank==0) printf("-------------------------------------------------------------------\n");
|
||||
// Compute the walltime per timestep
|
||||
cputime = (stoptime - starttime)/timestep;
|
||||
// Performance obtained from each node
|
||||
double MLUPS = double(Nx*Ny*Nz)/cputime/1000000;
|
||||
|
||||
if (rank==0) printf("********************************************************\n");
|
||||
if (rank==0) printf("CPU time = %f \n", cputime);
|
||||
if (rank==0) printf("Lattice update rate (per core)= %f MLUPS \n", MLUPS);
|
||||
MLUPS *= nprocs;
|
||||
if (rank==0) printf("Lattice update rate (total)= %f MLUPS \n", MLUPS);
|
||||
if (rank==0) printf("********************************************************\n");
|
||||
|
||||
NULL_USE(RESTART_INTERVAL);
|
||||
}
|
||||
// ****************************************************
|
||||
MPI_Barrier(comm);
|
||||
MPI_Finalize();
|
||||
// ****************************************************
|
||||
}
|
||||
}
|
||||
@ -114,41 +114,47 @@ inline double Eikonal(DoubleArray &Distance, char *ID, Domain &Dm, int timesteps
|
||||
Dyp = Distance(i,j+1,k) - Distance(i,j,k) + 0.5*Dyyp;
|
||||
Dzp = Distance(i,j,k+1) - Distance(i,j,k) + 0.5*Dzzp;
|
||||
|
||||
|
||||
Dxm = Distance(i,j,k) - Distance(i-1,j,k) + 0.5*Dxxm;
|
||||
Dym = Distance(i,j,k) - Distance(i,j-1,k) + 0.5*Dyym;
|
||||
Dzm = Distance(i,j,k) - Distance(i,j,k-1) + 0.5*Dzzm;
|
||||
*/
|
||||
Dxp = Distance(i+1,j,k);
|
||||
Dyp = Distance(i,j+1,k);
|
||||
Dzp = Distance(i,j,k+1);
|
||||
Dxp = Distance(i+1,j,k)- Distance(i,j,k) - 0.5*Dxxp;
|
||||
Dyp = Distance(i,j+1,k)- Distance(i,j,k) - 0.5*Dyyp;
|
||||
Dzp = Distance(i,j,k+1)- Distance(i,j,k) - 0.5*Dzzp;
|
||||
|
||||
Dxm = Distance(i-1,j,k);
|
||||
Dym = Distance(i,j-1,k);
|
||||
Dzm = Distance(i,j,k-1);
|
||||
Dxm = Distance(i,j,k) - Distance(i-1,j,k) + 0.5*Dxxm;
|
||||
Dym = Distance(i,j,k) - Distance(i,j-1,k) + 0.5*Dyym;
|
||||
Dzm = Distance(i,j,k) - Distance(i,j,k-1) + 0.5*Dzzm;
|
||||
|
||||
// Compute upwind derivatives for Godunov Hamiltonian
|
||||
if (sign < 0.0){
|
||||
if (Dxp > Dxm) Dx = Dxp - Distance(i,j,k) + 0.5*Dxxp;
|
||||
else Dx = Distance(i,j,k) - Dxm + 0.5*Dxxm;
|
||||
if (Dxp + Dxm > 0.f) Dx = Dxp*Dxp;
|
||||
else Dx = Dxm*Dxm;
|
||||
|
||||
if (Dyp > Dym) Dy = Dyp - Distance(i,j,k) + 0.5*Dyyp;
|
||||
else Dy = Distance(i,j,k) - Dym + 0.5*Dyym;
|
||||
if (Dyp + Dym > 0.f) Dy = Dyp*Dyp;
|
||||
else Dy = Dym*Dym;
|
||||
|
||||
if (Dzp > Dzm) Dz = Dzp - Distance(i,j,k) + 0.5*Dzzp;
|
||||
else Dz = Distance(i,j,k) - Dzm + 0.5*Dzzm;
|
||||
if (Dzp + Dzm > 0.f) Dz = Dzp*Dzp;
|
||||
else Dz = Dzm*Dzm;
|
||||
}
|
||||
else{
|
||||
if (Dxp < Dxm) Dx = Dxp - Distance(i,j,k) + 0.5*Dxxp;
|
||||
else Dx = Distance(i,j,k) - Dxm + 0.5*Dxxm;
|
||||
|
||||
if (Dyp < Dym) Dy = Dyp - Distance(i,j,k) + 0.5*Dyyp;
|
||||
else Dy = Distance(i,j,k) - Dym + 0.5*Dyym;
|
||||
if (Dxp + Dxm < 0.f) Dx = Dxp*Dxp;
|
||||
else Dx = Dxm*Dxm;
|
||||
|
||||
if (Dzp < Dzm) Dz = Dzp - Distance(i,j,k) + 0.5*Dzzp;
|
||||
else Dz = Distance(i,j,k) - Dzm + 0.5*Dzzm;
|
||||
if (Dyp + Dym < 0.f) Dy = Dyp*Dyp;
|
||||
else Dy = Dym*Dym;
|
||||
|
||||
if (Dzp + Dzm < 0.f) Dz = Dzp*Dzp;
|
||||
else Dz = Dzm*Dzm;
|
||||
}
|
||||
|
||||
norm=sqrt(Dx*Dx+Dy*Dy+Dz*Dz);
|
||||
//Dx = max(Dxp*Dxp,Dxm*Dxm);
|
||||
//Dy = max(Dyp*Dyp,Dym*Dym);
|
||||
//Dz = max(Dzp*Dzp,Dzm*Dzm);
|
||||
|
||||
norm=sqrt(Dx + Dy + Dz);
|
||||
if (norm > 1.0) norm=1.0;
|
||||
|
||||
Distance(i,j,k) += dt*sign*(1.0 - norm);
|
||||
@ -194,8 +200,6 @@ int main(int argc, char **argv)
|
||||
int Nx,Ny,Nz;
|
||||
int i,j,k,n;
|
||||
int BC=0;
|
||||
char Filename[40];
|
||||
int xStart,yStart,zStart;
|
||||
// char fluidValue,solidValue;
|
||||
|
||||
std::vector<char> solidValues;
|
||||
@ -215,15 +219,6 @@ int main(int argc, char **argv)
|
||||
domain >> Ly;
|
||||
domain >> Lz;
|
||||
|
||||
ifstream image("Segmented.in");
|
||||
image >> Filename; // Name of data file containing segmented data
|
||||
image >> Nx; // size of the binary file
|
||||
image >> Ny;
|
||||
image >> Nz;
|
||||
image >> xStart; // offset for the starting voxel
|
||||
image >> yStart;
|
||||
image >> zStart;
|
||||
|
||||
}
|
||||
MPI_Barrier(comm);
|
||||
// Computational domain
|
||||
@ -264,41 +259,17 @@ int main(int argc, char **argv)
|
||||
readID=fread(Dm.id,1,N,ID);
|
||||
if (readID != size_t(N)) printf("lbpm_segmented_pp: Error reading ID \n");
|
||||
fclose(ID);
|
||||
// make sure communication
|
||||
// Set up layers in x direction
|
||||
for (k=0; k<nz; k++){
|
||||
for (j=0; j<ny; j++){
|
||||
Dm.id[k*nx*ny+j*nx]=1;
|
||||
Dm.id[k*nx*ny+j*nx+nx-1] = 1;
|
||||
}
|
||||
}
|
||||
|
||||
for (k=0; k<nz; k++){
|
||||
for (i=0; i<nx; i++){
|
||||
Dm.id[k*nx*ny+i]=1;
|
||||
Dm.id[k*nx*ny+(ny-1)*nx+i] = 1;
|
||||
}
|
||||
}
|
||||
|
||||
for (j=0; j<ny; j++){
|
||||
for (i=0; i<nx; i++){
|
||||
Dm.id[j*nx+i]=1;
|
||||
Dm.id[nx*ny*(nz-1)+j*nx+i] = 1;
|
||||
}
|
||||
}
|
||||
|
||||
// Initialize the domain and communication
|
||||
|
||||
nx+=2; ny+=2; nz+=2;
|
||||
int count = 0;
|
||||
N=nx*ny*nz;
|
||||
|
||||
char *id;
|
||||
id = new char [N];
|
||||
TwoPhase Averages(Dm);
|
||||
// DoubleArray Distance(nx,ny,nz);
|
||||
// DoubleArray Phase(nx,ny,nz);
|
||||
// DoubleArray Distance(nx,ny,nz);
|
||||
// DoubleArray Phase(nx,ny,nz);
|
||||
|
||||
int count = 0;
|
||||
// Solve for the position of the solid phase
|
||||
for (k=0;k<nz;k++){
|
||||
for (j=0;j<ny;j++){
|
||||
@ -316,7 +287,7 @@ int main(int argc, char **argv)
|
||||
for (i=0;i<nx;i++){
|
||||
n=k*nx*ny+j*nx+i;
|
||||
// Initialize distance to +/- 1
|
||||
Averages.SDs(i,j,k) = 2.0*id[n]-1.0;
|
||||
Averages.SDs(i,j,k) = 2.0*double(id[n])-1.0;
|
||||
}
|
||||
}
|
||||
}
|
||||
@ -333,116 +304,9 @@ int main(int argc, char **argv)
|
||||
|
||||
sprintf(LocalRankFilename,"SignDist.%05i",rank);
|
||||
FILE *DIST = fopen(LocalRankFilename,"wb");
|
||||
fwrite(Averages.SDs.data(),8,Averages.SDs.length(),DIST);
|
||||
fwrite(Averages.SDs.data(),8,N,DIST);
|
||||
fclose(DIST);
|
||||
|
||||
/* // Solve for the position of the non-wetting phase
|
||||
for (k=0;k<nz;k++){
|
||||
for (j=0;j<ny;j++){
|
||||
for (i=0;i<nx;i++){
|
||||
n = k*nx*ny+j*nx+i;
|
||||
// Initialize the non-wetting phase
|
||||
if (Dm.id[n] == 1) id[n] = 1;
|
||||
else id[n] = 0;
|
||||
}
|
||||
}
|
||||
}
|
||||
// Initialize the signed distance function
|
||||
for (k=0;k<nz;k++){
|
||||
for (j=0;j<ny;j++){
|
||||
for (i=0;i<nx;i++){
|
||||
n=k*nx*ny+j*nx+i;
|
||||
// Initialize distance to +/- 1
|
||||
Averages.Phase(i,j,k) = 2.0*id[n]-1.0;
|
||||
}
|
||||
}
|
||||
}
|
||||
MeanFilter(Averages.Phase);
|
||||
|
||||
if (rank==0) printf("Initialized non-wetting phase -- Converting to Signed Distance function \n");
|
||||
SSO(Averages.Phase,id,Dm,100);
|
||||
|
||||
for (k=0;k<nz;k++){
|
||||
for (j=0;j<ny;j++){
|
||||
for (i=0;i<nx;i++){
|
||||
n=k*nx*ny+j*nx+i;
|
||||
Averages.Phase(i,j,k) -= 1.0;
|
||||
// Initialize distance to +/- 1
|
||||
// Dilation of the non-wetting phase
|
||||
Averages.SDn(i,j,k) = -Averages.Phase(i,j,k);
|
||||
Averages.Phase(i,j,k) = Averages.SDn(i,j,k);
|
||||
Averages.Phase_tplus(i,j,k) = Averages.SDn(i,j,k);
|
||||
Averages.Phase_tminus(i,j,k) = Averages.SDn(i,j,k);
|
||||
Averages.DelPhi(i,j,k) = 0.0;
|
||||
Averages.Press(i,j,k) = 0.0;
|
||||
Averages.Vel_x(i,j,k) = 0.0;
|
||||
Averages.Vel_y(i,j,k) = 0.0;
|
||||
Averages.Vel_z(i,j,k) = 0.0;
|
||||
if (Averages.SDs(i,j,k) > 0.0){
|
||||
if (Averages.Phase(i,j,k) > 0.0){
|
||||
Dm.id[n] = 2;
|
||||
}
|
||||
else{
|
||||
Dm.id[n] = 1;
|
||||
}
|
||||
}
|
||||
else{
|
||||
Dm.id[n] = 0;
|
||||
}
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
// Create the MeshDataStruct
|
||||
fillHalo<double> fillData(Dm.Comm,Dm.rank_info,Nx-2,Ny-2,Nz-2,1,1,1,0,1);
|
||||
std::vector<IO::MeshDataStruct> meshData(1);
|
||||
meshData[0].meshName = "domain";
|
||||
meshData[0].mesh = std::shared_ptr<IO::DomainMesh>( new IO::DomainMesh(Dm.rank_info,Nx-2,Ny-2,Nz-2,Lx,Ly,Lz) );
|
||||
std::shared_ptr<IO::Variable> PhaseVar( new IO::Variable() );
|
||||
std::shared_ptr<IO::Variable> SolidVar( new IO::Variable() );
|
||||
std::shared_ptr<IO::Variable> BlobIDVar( new IO::Variable() );
|
||||
PhaseVar->name = "Fluid";
|
||||
PhaseVar->type = IO::VolumeVariable;
|
||||
PhaseVar->dim = 1;
|
||||
PhaseVar->data.resize(Nx-2,Ny-2,Nz-2);
|
||||
meshData[0].vars.push_back(PhaseVar);
|
||||
SolidVar->name = "Solid";
|
||||
SolidVar->type = IO::VolumeVariable;
|
||||
SolidVar->dim = 1;
|
||||
SolidVar->data.resize(Nx-2,Ny-2,Nz-2);
|
||||
meshData[0].vars.push_back(SignDistVar);
|
||||
BlobIDVar->name = "BlobID";
|
||||
BlobIDVar->type = IO::VolumeVariable;
|
||||
BlobIDVar->dim = 1;
|
||||
BlobIDVar->data.resize(Nx-2,Ny-2,Nz-2);
|
||||
meshData[0].vars.push_back(BlobIDVar);
|
||||
|
||||
fillData.copy(Averages.SDn,PhaseVar->data);
|
||||
fillData.copy(Averages.SDs,SolidVar->data);
|
||||
fillData.copy(Averages.Label_NWP,BlobIDVar->data);
|
||||
IO::writeData( 0, meshData, 2, comm );
|
||||
|
||||
// sprintf(LocalRankFilename,"Phase.%05i",rank);
|
||||
// FILE *PHASE = fopen(LocalRankFilename,"wb");
|
||||
// fwrite(Averages.Phase.get(),8,Averages.Phase.length(),PHASE);
|
||||
// fclose(PHASE);
|
||||
|
||||
double beta = 0.95;
|
||||
if (rank==0) printf("initializing the system \n");
|
||||
Averages.UpdateSolid();
|
||||
Averages.UpdateMeshValues();
|
||||
Dm.CommunicateMeshHalo(Averages.Phase);
|
||||
Dm.CommunicateMeshHalo(Averages.SDn);
|
||||
Dm.CommunicateMeshHalo(Averages.SDs);
|
||||
|
||||
int timestep=5;
|
||||
Averages.Initialize();
|
||||
if (rank==0) printf("computing phase components \n");
|
||||
Averages.ComponentAverages();
|
||||
if (rank==0) printf("sorting phase components \n");
|
||||
Averages.SortBlobs();
|
||||
Averages.PrintComponents(timestep);
|
||||
*/
|
||||
}
|
||||
MPI_Barrier(comm);
|
||||
MPI_Finalize();
|
||||
|
||||
@ -1,5 +1,7 @@
|
||||
#!/usr/bin/env python
|
||||
|
||||
# TODO: double check the issue of the "view of the array" for all the following functions
|
||||
# make sure it is the copy of the array, not the view of the array is used for any
|
||||
# subprocesses.
|
||||
import numpy as np
|
||||
import scipy.stats as stats
|
||||
import scipy.ndimage.morphology as morphology
|
||||
|
||||
Loading…
Reference in New Issue
Block a user