void plotData(const parameters * p, fit_results * fr, plot_data * pd)
{
int i;
char * str=(char*)calloc(256,sizeof(char));
plotOpen=1;
handle=gnuplot_init();
printf("\nDATA PLOTS\n----------\n");
if(strcmp(p->plotMode,"1d")==0)
{
for(i=0;i<p->numVar;i++)
{
gnuplot_setstyle(handle,"points"); //set style for grid points
if(strcmp(p->dataType,"chisq")==0)
gnuplot_cmd(handle,"set ylabel 'Chisq'");
else
gnuplot_cmd(handle,"set ylabel 'Value'");
sprintf(str,"set xlabel 'Parameter %i'",i+1);
gnuplot_cmd(handle,str);
gnuplot_plot_xy(handle, pd->data[i][i], pd->data[i][p->numVar], pd->plotDataSize[i], "Data");
if(pd->axisLabelStyle[i][i]==1)
gnuplot_cmd(handle,"set format x '%%12.2E'");
if(pd->axisLabelStyle[i][p->numVar]==1)
gnuplot_cmd(handle,"set format y '%%12.2E'");
gnuplot_setstyle(handle,"lines");//set style for fit data
if(p->numVar==1)
{
gnuplot_plot_xy(handle, pd->fit[i][i], pd->fit[i][p->numVar], pd->numFitPlotPts, "Fit");
}
else
{
if(i==0)
gnuplot_plot_xy(handle, pd->fit[i][i], pd->fit[i][p->numVar], pd->numFitPtsPerVar, "Fit");
else if(i==1)
gnuplot_plot_xygrid(handle, pd->fit[i][i], pd->fit[i][p->numVar], pd->numFitPtsPerVar*pd->numFitPtsPerVar, pd->numFitPtsPerVar, pd->numFitPtsPerVar, 0, "Fit");
else if(i==2)
gnuplot_plot_xygrid(handle, pd->fit[i][i], pd->fit[i][p->numVar], pd->numFitPlotPts, pd->numFitPtsPerVar, pd->numFitPtsPerVar*pd->numFitPtsPerVar, 0, "Fit");
}
//strcpy(str,fr->fitForm[i]);//retrieve fit data functional form
//gnuplot_plot_equation(handle, str, "Fit (function)");
//plot confidence intervals
if(p->plotCI==1)
{
gnuplot_plot_xy(handle,fr->ciXVal[i],fr->ciUVal[i],CI_DIM,"Upper 1-sigma confidence band");
gnuplot_plot_xy(handle,fr->ciXVal[i],fr->ciLVal[i],CI_DIM,"Lower 1-sigma confidence band");
/*strcpy(str,fr->ciUForm[0]);
gnuplot_plot_equation(handle, str, "Upper 95% confidence band");
strcpy(str,fr->ciLForm[0]);
gnuplot_plot_equation(handle, str, "Lower 95% confidence band");
strcpy(str,fr->piUForm[0]);
gnuplot_plot_equation(handle, str, "Upper 95% prediction band");
strcpy(str,fr->piLForm[0]);
gnuplot_plot_equation(handle, str, "Lower 95% prediction band");*/
}
printf("Showing plot for parameter %i.\n",i+1);
if(p->numVar==3)
{
if(i==0)
printf("Parameter %i fixed to %Lf\nParameter %i fixed to %Lf\n",2,pd->fixedParVal[1],3,pd->fixedParVal[2]);
if(i==1)
printf("Parameter %i fixed to %Lf\nParameter %i fixed to %Lf\n",1,pd->fixedParVal[0],3,pd->fixedParVal[2]);
if(i==2)
printf("Parameter %i fixed to %Lf\nParameter %i fixed to %Lf\n",1,pd->fixedParVal[0],2,pd->fixedParVal[1]);
}
else if(p->numVar==2)
{
if(i==0)
printf("Parameter %i fixed to %Lf\n",2,pd->fixedParVal[1]);
if(i==1)
printf("Parameter %i fixed to %Lf\n",1,pd->fixedParVal[0]);
}
printf("%i data points available for plot.\n",pd->plotDataSize[i]);
if(i<(p->numVar-1))
plotPrompt(1);
else
plotPrompt(0);
gnuplot_resetplot(handle);
}
}
else if(strcmp(p->plotMode,"2d")==0)
{
if(p->numVar==3)
{
for(i=0;i<p->numVar;i++)
{
gnuplot_setstyle(handle,"points"); //set style for grid points
if(i==0)
{
gnuplot_plot_xyz(handle, pd->data[i][1], pd->data[i][2], pd->data[i][p->numVar], pd->plotDataSize[i], "Data");
if(pd->axisLabelStyle[i][1]==1)
gnuplot_cmd(handle,"set format x '%%12.2E'");
if(pd->axisLabelStyle[i][2]==1)
gnuplot_cmd(handle,"set format y '%%12.2E'");
if(pd->axisLabelStyle[i][p->numVar]==1)
gnuplot_cmd(handle,"set format z '%%12.2E'");
sprintf(str,"set xlabel 'Parameter 2'; set ylabel 'Parameter 3'");
}
else if(i==1)
{
gnuplot_plot_xyz(handle, pd->data[i][0], pd->data[i][2], pd->data[i][p->numVar], pd->plotDataSize[i], "Data");
if(pd->axisLabelStyle[i][0]==1)
gnuplot_cmd(handle,"set format x '%%12.2E'");
if(pd->axisLabelStyle[i][2]==1)
gnuplot_cmd(handle,"set format y '%%12.2E'");
if(pd->axisLabelStyle[i][p->numVar]==1)
gnuplot_cmd(handle,"set format z '%%12.2E'");
sprintf(str,"set xlabel 'Parameter 1'; set ylabel 'Parameter 3'");
}
else if(i==2)
{
gnuplot_plot_xyz(handle, pd->data[i][0], pd->data[i][1], pd->data[i][p->numVar], pd->plotDataSize[i], "Data");
if(pd->axisLabelStyle[i][0]==1)
gnuplot_cmd(handle,"set format x '%%12.2E'");
if(pd->axisLabelStyle[i][1]==1)
gnuplot_cmd(handle,"set format y '%%12.2E'");
if(pd->axisLabelStyle[i][p->numVar]==1)
gnuplot_cmd(handle,"set format z '%%12.2E'");
sprintf(str,"set xlabel 'Parameter 1'; set ylabel 'Parameter 2'");
}
if(strcmp(p->dataType,"chisq")==0)
gnuplot_cmd(handle,"set zlabel 'Chisq'");
else
gnuplot_cmd(handle,"set zlabel 'Value'");
gnuplot_cmd(handle,str);
gnuplot_setstyle(handle,"lines");
gnuplot_cmd(handle,"set grid");//set style for fit data
if(i==0)
gnuplot_plot_xyzgrid(handle, pd->fit[i][1], pd->fit[i][2], pd->fit[i][p->numVar], pd->numFitPlotPts, pd->numFitPtsPerVar*pd->numFitPtsPerVar, pd->numFitPtsPerVar, 0, "Fit");
else if(i==1)
gnuplot_plot_xyzgrid(handle, pd->fit[i][0], pd->fit[i][2], pd->fit[i][p->numVar], pd->numFitPlotPts, pd->numFitPtsPerVar, 0, pd->numFitPtsPerVar, "Fit");
else if(i==2)
gnuplot_plot_xyzgrid(handle, pd->fit[i][0], pd->fit[i][1], pd->fit[i][p->numVar], pd->numFitPtsPerVar*pd->numFitPtsPerVar, pd->numFitPtsPerVar, 0, 0, "Fit");
//strcpy(str,fr->fitForm[i]);//retrieve fit data functional form
//gnuplot_plot_equation(handle, str, "Fit (function)");
printf("Showing surface plot with parameter %i fixed to %Lf\n",i+1,pd->fixedParVal[i]);
printf("%i data points available for plot.\n",pd->plotDataSize[i]);
if(i<(p->numVar-1))
plotPrompt(1);
else
plotPrompt(0);
gnuplot_resetplot(handle);
}
}
else if(p->numVar==2)
{
gnuplot_setstyle(handle,"points"); //set style for grid points
gnuplot_plot_xyz(handle, pd->data[0][0], pd->data[0][1], pd->data[0][p->numVar], pd->plotDataSize[0], "Data");
if(pd->axisLabelStyle[0][0]==1)
gnuplot_cmd(handle,"set format x '%%12.2E'");
if(pd->axisLabelStyle[0][1]==1)
gnuplot_cmd(handle,"set format y '%%12.2E'");
if(pd->axisLabelStyle[0][p->numVar]==1)
gnuplot_cmd(handle,"set format z '%%12.2E'");
if(strcmp(p->dataType,"chisq")==0)
gnuplot_cmd(handle,"set zlabel 'Chisq'");
else
gnuplot_cmd(handle,"set zlabel 'Value'");
sprintf(str,"set xlabel 'Parameter 1'; set ylabel 'Parameter 2'");
gnuplot_cmd(handle,str);
gnuplot_setstyle(handle,"lines");
gnuplot_cmd(handle,"set grid");//set style for fit data
//gnuplot_cmd(handle,"set dgrid3d 30,30 qnorm 2");//set style for fit data
gnuplot_plot_xyzgrid(handle, pd->fit[0][0], pd->fit[0][1], pd->fit[0][p->numVar], pd->numFitPlotPts, pd->numFitPtsPerVar, 0, 0, "Fit");
//strcpy(str,fr->fitForm[0]);//retrieve fit data functional form
//gnuplot_plot_equation(handle, str, "Fit (function)");
printf("Showing surface plot.\n");
printf("%i data points available for plot.\n",pd->plotDataSize[0]);
plotPrompt(0);
gnuplot_resetplot(handle);
}
}
else if(strcmp(p->plotMode,"3d")==0)
{
if(p->numVar==3)
{
gnuplot_setstyle(handle,"points"); //set style for grid points
gnuplot_plot_xyza(handle, pd->data[0][0], pd->data[0][1], pd->data[0][2], pd->data[0][p->numVar], pd->plotDataSize[0], "Data");
if(pd->axisLabelStyle[0][0]==1)
gnuplot_cmd(handle,"set format x '%%12.2E'");
if(pd->axisLabelStyle[0][1]==1)
gnuplot_cmd(handle,"set format y '%%12.2E'");
if(pd->axisLabelStyle[0][2]==1)
gnuplot_cmd(handle,"set format z '%%12.2E'");
sprintf(str,"set xlabel 'Parameter 1'; set ylabel 'Parameter 2'; set zlabel 'Parameter 3'");
gnuplot_cmd(handle,str);
sprintf(str,"set cbrange [%f:%f]",pd->min_m,pd->max_m); //set the color bar range
gnuplot_cmd(handle,str);
if(strcmp(p->fitType,"par3")==0)
{
gnuplot_setcolor(handle,"black");
gnuplot_cmd(handle,"set pointsize 1.5");
double xVert=(double)fr->fitVert[0];
double yVert=(double)fr->fitVert[1];
double zVert=(double)fr->fitVert[2];
gnuplot_plot_xyz(handle, &xVert, &yVert, &zVert, 1, "Fit Vertex");
}
printf("Showing heatmap plot.\n");
printf("%i data points available for plot.\n",pd->plotDataSize[0]);
plotPrompt(0);
gnuplot_resetplot(handle);
}
}
else
{
printf("ERROR: The plot mode '%s' defined in the data file '%s' is not supported!\n",p->plotMode,p->filename);
exit(-1);
}
}
// >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>
Plotter::Plotter() : _plotter(NULL)
{
_plotter = gnuplot_init();
}
int main(int argc,char* argv[])
{
PlasmaData pdata(argc,argv);
FieldDataCPU fields;
pdata.Lx = 1.0;
pdata.Ly = 1.0;
pdata.Lz = 1.0;
pdata.setup();
fields.allocate(&pdata);
int nx = pdata.nx;
int ny = pdata.ny;
int nz = pdata.nz;
int nshape = 100;
float shape1[nshape];
float shape2[nshape];
float shapex[nshape];
for(int i=0;i<nshape;i++)
{
float x = i*4.0/nshape - 2.0;
shape1[i] = S1_shape(x);
shape2[i] = S2_shape(x);
shapex[i] = x;
}
gnuplot_ctrl* shape_plot = gnuplot_init();
gnuplot_plot_xy(shape_plot,shapex,shape1,nshape,"Shape 1");
gnuplot_plot_xy(shape_plot,shapex,shape2,nshape,"Shape 2");
// Setup E-field
for(int i=0;i<pdata.nx;i++)
{
for(int j=0;j<pdata.ny;j++)
{
for(int k=0;k<pdata.nz;k++)
{
float x = i*pdata.dxdi+pdata.xmin;
float y = j*pdata.dydi+pdata.ymin;
float z = k*pdata.dzdi+pdata.zmin;
fields.getE(i,j,k,0) = Ex_function(x,y+0.5*pdata.dydi,z+0.5*pdata.dzdi);
fields.getE(i,j,k,1) = Ey_function(x+0.5*pdata.dxdi,y,z+0.5*pdata.dzdi);
fields.getE(i,j,k,2) = Ez_function(x+0.5*pdata.dxdi,y+0.5*pdata.dydi,z);
fields.getB(i,j,k,0) = Ex_function(x,y,z);
fields.getB(i,j,k,1) = Ey_function(x,y,z);
fields.getB(i,j,k,2) = Ez_function(x,y,z);
//fields.getB(i,j,k,0) = 0.0;
//fields.getB(i,j,k,1) = 0.0f;
//fields.getB(i,j,k,2) = 0.0f;
// printf("fields(%i,%i,%i) = %f, %f, %f\n",i,j,k,
// fields.getE(i,j,k,0),fields.getE(i,j,k,1),fields.getE(i,j,k,2));
}
}
}
fields.init_plot();
fields.plot(&pdata,pdata.nz/2,0,0,0);
getchar();
double Ex_total = 0;
double Ey_total = 0;
double Ez_total = 0;
double Bx_total = 0;
double By_total = 0;
double Bz_total = 0;
// Setup E-field
for(int i=0;i<pdata.nx;i++)
{
for(int j=0;j<pdata.ny;j++)
{
for(int k=0;k<pdata.nz;k++)
{
float xfrac = 0.5;
float yfrac = 0.5;
float zfrac = 0.5;
float x = (xfrac + i)*pdata.dxdi+pdata.xmin;
float y = (yfrac + j)*pdata.dydi+pdata.ymin;
float z = (zfrac + k)*pdata.dzdi+pdata.zmin;
float Ex_intrp = fields.intrpE(xfrac,yfrac,zfrac,i,j,k,0,FieldData_deriv_f);
float Ey_intrp = fields.intrpE(xfrac,yfrac,zfrac,i,j,k,1,FieldData_deriv_f);
float Ez_intrp = fields.intrpE(xfrac,yfrac,zfrac,i,j,k,2,FieldData_deriv_f);
float Ex_real = Ex_function(x,y,z);
float Ey_real = Ey_function(x,y,z);
float Ez_real = Ez_function(x,y,z);
float Ex_err = fabs(Ex_real - Ex_intrp)/fabs(Ex_real);
float Ey_err = fabs(Ey_real - Ey_intrp)/fabs(Ey_real);
float Ez_err = fabs(Ez_real - Ez_intrp)/fabs(Ez_real);
float Bx_intrp = fields.intrpB(xfrac,yfrac,zfrac,i,j,k,0,FieldData_deriv_f);
float By_intrp = fields.intrpB(xfrac,yfrac,zfrac,i,j,k,1,FieldData_deriv_f);
float Bz_intrp = fields.intrpB(xfrac,yfrac,zfrac,i,j,k,2,FieldData_deriv_f);
float Bx_real = Ex_function(x,y,z);
float By_real = Ey_function(x,y,z);
float Bz_real = Ez_function(x,y,z);
float Bx_err = fabs(Bx_real - Bx_intrp)/fabs(Bx_real);
float By_err = fabs(By_real - By_intrp)/fabs(By_real);
float Bz_err = fabs(Bz_real - Bz_intrp)/fabs(Bz_real);
Ex_total += Ex_err;
Ey_total += Ey_err;
Ez_total += Ez_err;
Bx_total += Bx_err;
By_total += By_err;
Bz_total += Bz_err;
//printf("values: x: %f / %f, y: %f / %f, z: %f / %f \n",Ex_real,Ex_intrp,Ey_intrp,Ey_real,Ez_intrp,Ez_real);
//printf("Errors: x = %e, y = %e, z = %e\n",Ex_err,Ey_err,Ez_err);
}
}
}
printf("Errors_avg: x = %e, y = %e, z = %e\n",Ex_total/(nx*ny*nz*1.0),Ey_total/(nx*ny*nz*1.0),Ez_total/(nx*ny*nz*1.0));
printf("Errors_avg: x = %e, y = %e, z = %e\n",Bx_total/(nx*ny*nz*1.0),By_total/(nx*ny*nz*1.0),Bz_total/(nx*ny*nz*1.0));
printf("Efield setup complete\n");
}
void init_plot()
{
plot_handle = gnuplot_init();
}
int main(void)
{
int i,j,k,m,seed,idx,fcluster[S+1+1],bond[N+1][NB+1],cluster_size[S+1+1][B+1];
double X[S+1+1],temperature[S+1];
char filename[20];
gnuplot_ctrl*a;
gnuplot_ctrl*b;
FILE *fp1=fopen("Iris01.dat","r"),//Αρχικό αρχείο δεδομένων-Συμπληρώνεται και στη συνάρτηση output, εάν θέλουμε να κάνουμε διστδιάστατες προβολές
*fp2=fopen("data_iris.dat","w"),//Αρχείο που δημιουργείται, με τα παραγόμενα δεδομένα (χ,Τ,cluster size κλπ)
*fp3=fopen("cluster_iris","w"),//αρχείο με πληροφορίες για τα clusters
*fp4=fopen("G.dat","w"),//αρχείο με πληροφορίες για τη συνάρτηση G
*fp5=fopen("nbors_iris.dat","r");//αρχείο γειτόνων, που παρήχθησαν από το πρόγραμμα nbors.c
/*Parameters(Παράμετροι)*/
T0=EPS; //Starting Temperature(αρχική θερμοκρασία)
Tmax=0.09; //Highest Temperature(τελική θερμοκρασία)
Tinc=(Tmax-T0)/S; //Temperature Increment(βήμα θερμοκρασίας)
th=0.5; //Threshold Value for condition [G(i,j)>th] (κατώφλι για τη συνθήκη [G(i,j)>th])
/*Read data from file(διάβασμα αρχείου)*/
/*
=============
=============
*/
//Initialise data(Αρχικοποίηση δεδομένων)
for(i=0;i<=N;i++)for(j=0;j<=DM;j++)data[i][j]=0.0;T=0.0;
for(i=0;i<=N;i++)for(j=0;j<=NB;j++){dist[i][j]=0.0;nbors[i][j]=0;}
for(i=0;i<=N;i++)for(j=0;j<=NB;j++){J[i][j]=0.0;G[i][j]=0.0;}
for(i=0;i<=S+1;i++){X[i]=0.0;fcluster[i]=0;}
for(i=0;i<=S+1;i++)for(j=0;j<=B;j++)cluster_size[i][j]=0;
for(i=0;i<=N;i++)for(j=0;j<=NB;j++)bond[i][j]=0;
for(i=0;i<=N;i++)G_max[i]=0.0;for(i=0;i<=S;i++)temperature[i]=0;
for(i=0;i<=N;i++)cluster[i]=0;
for(i=0;i<S+1;i++)a1[i]=0.0;
//Open file(Άνοιγμα αρχείου)
//File 1---------------------------------------------
if(fp1==NULL)
{
printf("Unable to open file for reading\n");
exit(1);
}
rewind(fp1);//rewinding file(τοποθέτηση δείκτη αρχείου στην αρχή)
i=1;j=1;
while(fscanf(fp1,"%lf",&data[i][j])!=EOF)
{
j++;
if(j==DM+1)
{
i++;
j=1;
}//Read data from file(Ανάγνωση δεδομένων από το αρχείο)
}
fclose(fp1);
//File 1---------------------------------------------
printf("\nReading Data Complete\n");
//open file (άνοιγμα αρχείου γειτόνων)
//File 5---------------------------------------------
if(fp5==NULL)
{
printf("\nUnable to open file for reading\n");
exit(1);
}
i=1;j=1;
while (fscanf(fp5,"%d ",&nbors[i][j])!=EOF)
{
j++;
if(j==NB+1)
{
i++;
j=1;
}
}
fclose(fp5);
printf("Reading Neighbor List File Complete\n");
//File 5---------------------------------------------
/*Calculate Interaction Matrix*/
/*============================*/
/*-----CALL interaction_matrix function to calculate the interactions between the points (Καλούμε τη συνάρτηση interaction_matrix για τον υπολογισμό των αλληλεπιδράσεων μεταξύ των σημείων )------*/
interaction_matrix(nbors,J,dist,data);
/*------ */
printf("Calculate Interaction matrix complete\n");
//Create random numbers(Δημιουργούμε τυχαίους αριθμούς)
srand48((unsigned int)time(NULL));
printf("seed =%d\n",(unsigned int) time(NULL));
seed=1083354197;
srand48(seed);
/*--------------------------------------------------------*/
for(k=1;k<=S+1;k++)//Temperature steps (Βήματα θερμοκρασίας)
{
/* Clustering Algorithm(Αλγόριθμος Ομαδοποίησης) */
T=T0+Tinc*(k-1);
X[k]=SW(q,T,nbors,bond,cluster,J,G);//χ[T] Calculation
printf("T= %f X[%d] = %f\n",T,k,X[k]);
temperature[k]=T;
/* Final Data Clusters */
fcluster[k]=final_cluster(k,q,th,nbors,bond,cluster,cluster_data,G);
printf("# of clusters[%d]=%d\n",k,fcluster[k]);
if(plot_pixelmap==1)
{
sprintf(filename,"%f",temperature[k]);
strncat(filename,".ppm",4);
output(lattice,filename);
}
/* Find Biggest Clusters */
find_ClusterSize(k,cluster,fcluster,cluster_size);
}
/*--------------------------------------------------------*/
/*Write result to file (εγγραφή αποτελεσμάτων σε αρχείο)*/
//File 2---------------------------------------------
X[2]=0.0309;
for(i=1;i<=S+1;i++)
{
fprintf(fp2,"%f %f %d ",T0+Tinc*(i-1),X[i],fcluster[i]);
for(j=1;j<=B;j++)
{
fprintf(fp2," %d ",cluster_size[i][j]);
}
fprintf(fp2,"\n");
}
fclose(fp2);
//File 2---------------------------------------------
//File 3---------------------------------------------
for(i=1;i<=N;i++)
{
for(j=1;j<=S+1;j++)
{
fprintf(fp3,"%d ",cluster_data[i][j]);
}
fprintf(fp3,"\n");
}
fclose(fp3);
//File 3---------------------------------------------
//File 4---------------------------------------------
for(i=1;i<=N;i++)
{
for(j=1;j<=NB;j++)
{
fprintf(fp4,"%f ",G[i][j]);
}
fprintf(fp4,"\n");
}
fclose(fp4);
//File 4---------------------------------------------
/*Gnuplot Graphics session - Συνεδρία γραφικών Gnuplot*/
a=gnuplot_init();
gnuplot_setstyle(a,"lines");
gnuplot_set_xlabel(a,"Boltzmann constant*temperature");
gnuplot_set_ylabel(a,"Susceptibility density");
gnuplot_cmd(a,"set terminal svg");
gnuplot_cmd(a,"set output \"Susceptibility.svg\"");
for(k=0;k<=S;k++)
{//Correction for Gnuplot, nothing important
temperature[k]=temperature[k+1];
X[k]=X[k+1];
}
gnuplot_plot_xy(a,temperature,X,(S+1),"X");//plotting X for all temperatures. (σχεδιάζουμε την χ για όλες τις θερμοκρασίες.)
gnuplot_close(a);
//---------------------------------------------------------//
b=gnuplot_init();
gnuplot_setstyle(b,"lines");
gnuplot_set_xlabel(b,"Boltzmann constant*temperature");
gnuplot_set_ylabel(b,"Cluster Size");
gnuplot_cmd(b,"set terminal svg");
gnuplot_cmd(b,"set output \"Clustersize.svg\"");
//gnuplot_cmd(b,"set xrange [0:0.08]");//optional. sets the x-axis range.
for (i=1;i<=B;i++)//For all the biggest clusters(για όλα τα μεγαλύτερα clusters)
{
for (j=1;j<=(S+1);j++)//For all temperatures (για όλες τις θερμοκρασίες)
{
a1[j]=(double)cluster_size[j][i];//keep current cluster array depending on T, to plot(κρατάμε τον τρέχοντα πίνακα για ένα συγκεκριμένο cluster για όλες τις Τ)
}
gnuplot_plot_xy(b,temperature,a1,(S+1),"cluster");//plotting current cluster curve (σχεδιάζουμε την καμπύλη του τρέχοντος cluster)
}//now we have all cluster curves in a single diagram.(έχουμε όλες τις καμπύλες cluster σε μία γραφική παράσταση)
gnuplot_close(b);
//---------------------------------------------------------//
return 0;
}
int main(int arg, char *argv[])
{
int Npoint;
//socket variable
SOCKET sock;
const char *IP="192.168.128.3";
init_TCP_client(&sock, IP, Port);
get_RP_settings(&sock);
printf("r0=%f\n",r0);
printf("rf=%f\n",rf);
printf("dec=%i\n",dec);
printf("Nline=%i\n",Nline);
printf("sector=%f\n",sector);
printf("mode_RP=%i\n",mode_RP);
int l=0;
Npoint=(int)(2.0*(rf-r0)*125.0/1.48/((double)dec));
if (Npoint>16384) {Npoint=16384;}
printf("Npoint = %i\n",Npoint);
int powd, pad_len;
if (power_two(Npoint,&powd)){powd++;}
pad_len=int_pow(2,powd);
init_table(pad_len);
float fech=125000000.0/((float)dec);
//gnuplot variable
gnuplot_ctrl * h;
double *y= (double *)malloc(Npoint*sizeof(double));
int i;
int Ymax=1.5;
//gnuplot object
h=gnuplot_init();
gnuplot_setstyle(h,"lines");
gnuplot_set_xlabel(h,"time (us)");
gnuplot_set_ylabel(h,"signal");
//gnuplot_cmd(h,"set yrange [0:%d]", 2*Ymax);
gnuplot_cmd(h,"set xrange [0:%d]",Npoint-1);
char name[30];
if (mode_RP==0)
{
int powd, pad_len;
if (power_two(Npoint,&powd)){powd++;}
pad_len=int_pow(2,powd);
double *pad=NULL;
pad=(double *)malloc(pad_len*sizeof(double));
double *env=NULL;
env=(double *)malloc(pad_len*sizeof(double));
gnuplot_cmd(h,"set yrange [-0.01:1.5]");
gnuplot_cmd(h,"set xrange [0:%d]",Npoint-1);
int16_t *buff=(int16_t *)malloc((Npoint+1)*sizeof(int16_t));
while(1)
{
if(receive_int16_TCP_client(&sock, buff, Npoint+1)==1){break;}
for (i=1 ; i<Npoint+1 ; i++){y[i-1]=(double)(buff[i])/409.6;} //divide by 409.6 to have voltage value
zero_padding(y, pad, Npoint, pad_len, 1);
envelope(pad, env, pad_len, fech, fmin, fmax, 0);
gnuplot_resetplot(h);
//gnuplot_plot_x(h, y, Npoint, "Oscillo int16_t");
gnuplot_plot_x(h, env, pad_len, "Oscillo int16_t");
//sprintf(name, "int%i.txt", l);
//writefile(y, Npoint, name);
l++;
}
free(buff);
free(pad);
free(env);
}
else if (mode_RP==1)
{
char *buff=(char *)malloc((Npoint+1)*sizeof(char));
while(1)
{
if(receive_TCP_client(&sock, buff, Npoint+1)==1){break;}
for (i=1 ; i<Npoint+1 ; i++){y[i-1]=(double)(int_converter(buff[i]));}
gnuplot_resetplot(h);
gnuplot_plot_x(h, y, Npoint, "Oscillo 256 gray");
sprintf(name, "char%i.txt", l);
//writefile(y, Npoint, name);
l++;
}
free(buff);
}
else {printf("Problem of settings\n");}
usleep(30);
close(sock);
free(y);
return 0;
}
int main(int argc, const char **argv) {
Options options(argc, argv);
Timer timer;
log_setlevel(options.getVerbosity());
/* Get the number of neutrons, bins and batches */
int num_neutrons = options.getNumNeutrons();
int num_bins = options.getNumBins();
int num_batches = options.getNumBatches();
int num_threads = options.getNumThreads();
int num_gen;
int num_alive;
log_printf(NORMAL, "Beginning two region problem with %d neutrons, "
"%d bins, %d batches, %d threads...", num_neutrons, num_bins,
num_batches, num_threads);
/* Create a handle for plotting with gnuplot */
gnuplot_ctrl* handle;
/* Create a set of plotting flux bins for each batch */
BatchBinSet* total_flux = new BatchBinSet();
BatchBinSet* fuel_flux = new BatchBinSet();
BatchBinSet* moderator_flux = new BatchBinSet();
total_flux->createBinners(1E-6, 1E7, num_bins, num_batches,
LOGARITHMIC, FLUX_ENERGY, (char*)"all");
fuel_flux->createBinners(1E-6, 1E7, num_bins, num_batches,
LOGARITHMIC, FLUX_ENERGY, (char*)"all");
moderator_flux->createBinners(1E-6, 1E7, num_bins, num_batches,
LOGARITHMIC, FLUX_ENERGY, (char*)"all");
/* Create bins to compute total fission and absorption rates */
BatchBinSet* tot_fiss_rate = new BatchBinSet();
BatchBinSet* tot_abs_rate = new BatchBinSet();
tot_fiss_rate->createBinners(1E-7, 1E7, 1, num_batches, EQUAL,
FISSION_RATE_ENERGY, (char*)"all");
tot_abs_rate->createBinners(1E-7, 1E7, 1, num_batches, EQUAL,
ABSORPTION_RATE_ENERGY, (char*)"all");
float nu_bar = 2.455; /* CASMO edit for average # neutrons per fission */
/* Create bins to compute two group cell-averaged cross-sections */
BatchBinSet* capture_2G = new BatchBinSet();
BatchBinSet* absorb_2G = new BatchBinSet();
BatchBinSet* fission_2G = new BatchBinSet();
BatchBinSet* elastic_2G = new BatchBinSet();
BatchBinSet* total_2G = new BatchBinSet();
BatchBinSet* two_group_flux = new BatchBinSet();
float two_group_E_ranges[3] = {0.0, 0.625, 1E7};
capture_2G->createBinners(two_group_E_ranges, 2, num_batches,
CAPTURE_RATE_ENERGY, (char*)"all");
absorb_2G->createBinners(two_group_E_ranges, 2, num_batches,
ABSORPTION_RATE_ENERGY, (char*)"all");
fission_2G->createBinners(two_group_E_ranges, 2, num_batches,
FISSION_RATE_ENERGY, (char*)"all");
elastic_2G->createBinners(two_group_E_ranges, 2, num_batches,
ELASTIC_RATE_ENERGY, (char*)"all");
total_2G->createBinners(two_group_E_ranges, 2, num_batches,
COLLISION_RATE_ENERGY, (char*)"all");
two_group_flux->createBinners(two_group_E_ranges, 2, num_batches,
FLUX_ENERGY, (char*)"all");
/* Create bins to compute two group isotopic cross-sections */
BatchBinSet* H1_capture_rate_2G = new BatchBinSet();
BatchBinSet* H1_elastic_rate_2G = new BatchBinSet();
BatchBinSet* O16_elastic_rate_2G = new BatchBinSet();
BatchBinSet* ZR90_elastic_rate_2G = new BatchBinSet();
BatchBinSet* U235_capture_rate_2G = new BatchBinSet();
BatchBinSet* U235_elastic_rate_2G = new BatchBinSet();
BatchBinSet* U235_fission_rate_2G = new BatchBinSet();
BatchBinSet* U238_capture_rate_2G = new BatchBinSet();
BatchBinSet* U238_elastic_rate_2G = new BatchBinSet();
BatchBinSet* U238_fission_rate_2G = new BatchBinSet();
H1_capture_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
CAPTURE_RATE_ENERGY, (char*)"H1");
H1_elastic_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
ELASTIC_RATE_ENERGY, (char*)"H1");
O16_elastic_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
ELASTIC_RATE_ENERGY, (char*)"O16");
ZR90_elastic_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
ELASTIC_RATE_ENERGY, (char*)"ZR90");
U235_capture_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
CAPTURE_RATE_ENERGY, (char*)"U235");
U235_elastic_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
ELASTIC_RATE_ENERGY, (char*)"U235");
U235_fission_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
FISSION_RATE_ENERGY, (char*)"U235");
U238_capture_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
CAPTURE_RATE_ENERGY, (char*)"U238");
U238_elastic_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
ELASTIC_RATE_ENERGY, (char*)"U238");
U238_fission_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
FISSION_RATE_ENERGY, (char*)"U238");
/* Create bins to compute moderator to fuel flux ratios */
int num_ratios = 13;
BatchBinSet* fuel_flux_ratio = new BatchBinSet();
BatchBinSet* moderator_flux_ratio = new BatchBinSet();
float flux_ratio_E_ranges[14] = {0.0, 0.1, 0.5, 1.0, 6.0, 10.0, 25.0,
50.0, 100.0, 1000.0, 10000.0, 100000.0,
500000.0, 10000000.0};
fuel_flux_ratio->createBinners(flux_ratio_E_ranges, num_ratios,
num_batches, FLUX_ENERGY, (char*)"all");
moderator_flux_ratio->createBinners(flux_ratio_E_ranges, num_ratios,
num_batches, FLUX_ENERGY, (char*)"all");
/* Create bins to compute the diffusion coefficient for three methods */
BatchBinSet* coll_rate_2G = new BatchBinSet();
BatchBinSet* transport_rate_2G = new BatchBinSet();
BatchBinSet* diffusion_rate_2G = new BatchBinSet();
coll_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
COLLISION_RATE_ENERGY, (char*)"all");
transport_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
TRANSPORT_RATE_ENERGY, (char*)"all");
diffusion_rate_2G->createBinners(two_group_E_ranges, 2, num_batches,
DIFFUSION_RATE_ENERGY, (char*)"all");
/* 2-region pin cell geometric parameters (units in cm) */
float r_fuel = 0.4096;
float r_gap = 0.4178;
float r_cladding = 0.4750;
float pitch = 1.26;
float p2 = pitch * pitch;
/* 2-region homogenized densities (g/cm^3) and enrichment */
float rho_fuel = 10.2;
float rho_cladding = 6.549;
float rho_coolant = 0.9966;
float enrichment = 0.03035;
/* Isotope number densities */
float N_A = 6.023E23; /* Avogadro's number (at / mol) */
float N_U238 = rho_fuel*N_A*(1.0 - enrichment) / ((238.0 *
(1.0 - enrichment)) + (235.0*enrichment) + (16.0*2.0));
float N_U235 = rho_fuel*N_A*enrichment / ((238.0 *
(1.0 - enrichment)) + (235.0*enrichment) + (16.0*2.0));
float N_O16 = rho_fuel*N_A*2.0 / ((238.0 *
(1.0 - enrichment)) + (235.0*enrichment) + (16.0*2.0));
float N_ZR90 = rho_cladding*N_A / 90.0;
float N_H2O = rho_coolant*N_A / 18.0;
float N_H1 = rho_coolant*N_A*2.0 / 18.0;
/* 2-region pin cell volumes (cm^3) */
float v_fuel = M_PI*r_fuel*r_fuel;
float v_gap = M_PI*(r_gap*r_gap - r_fuel*r_fuel);
float v_cladding = M_PI*(r_cladding*r_cladding - r_gap*r_gap);
float v_coolant = p2 - M_PI*r_cladding*r_cladding;
float v_moderator = v_gap + v_cladding + v_coolant;
float v_total = v_fuel + v_moderator;
/* Compute homogenized moderator number densities using volume weighting */
N_H2O *= (v_coolant / v_moderator);
N_H1 *= (v_coolant / v_moderator);
N_ZR90 *= (v_cladding / v_moderator);
/* Dancoff factor from CASMO-5 */
float dancoff = 0.277;
/* Escape cross-section */
float sigma_e = 1.0 / (2.0*r_fuel);
/* Carlvik's two-term rational model */
float A = (1.0 - dancoff) / dancoff;
float alpha1 = ((5.0*A + 6.0) - sqrt(A*A + 36.0*A + 36.0)) /
(2.0*(A+1.0));
float alpha2 = ((5.0*A + 6.0) + sqrt(A*A + 36.0*A + 36.0)) /
(2.0*(A+1.0));
float beta = (((4.0*A + 6.0) / (A + 1.0)) - alpha1) / (alpha2 - alpha1);
/* Print out the geometry parameters */
log_printf(NORMAL, "*******************************************************"
"*************************");
log_printf(NORMAL, "\t\t\t\tGeometry Parameters (cm)");
log_printf(NORMAL, "*******************************************************"
"*************************");
log_printf(NORMAL, "");
log_printf(NORMAL, "r_fuel = %f", r_fuel);
log_printf(NORMAL, "r_gap = %f", r_gap);
log_printf(NORMAL, "r_cladding = %f", r_cladding);
log_printf(NORMAL, "pitch = %f", pitch);
log_printf(NORMAL, "total cell area = %f", p2);
log_printf(NORMAL, "v_fuel = %f", v_fuel);
log_printf(NORMAL, "v_gap = %f", v_gap);
log_printf(NORMAL, "v_cladding = %f", v_cladding);
log_printf(NORMAL, "v_coolant = %f", v_coolant);
log_printf(NORMAL, "v_moderator = %f", v_moderator);
log_printf(NORMAL, "v_total = %f", v_total);
log_printf(NORMAL, "");
/* Print to the console the number densities */
log_printf(NORMAL, "*******************************************************"
"*************************");
log_printf(NORMAL, "\t\t\t\tNumber Densities (at/cm^3)");
log_printf(NORMAL, "*******************************************************"
"*************************");
log_printf(NORMAL, "");
log_printf(NORMAL, "H1:\t%1.5e", N_H1);
log_printf(NORMAL, "H2O:\t%1.5e", N_H2O);
log_printf(NORMAL, "ZR90:\t%1.5e", N_ZR90);
log_printf(NORMAL, "U235:\t%1.5e", N_U235);
log_printf(NORMAL, "U238:\t%1.5e", N_U238);
log_printf(NORMAL, "O16:\t%1.5e", N_O16);
log_printf(NORMAL, "");
/* Print to the console the collision probability parameters */
log_printf(NORMAL, "*******************************************************"
"*************************");
log_printf(NORMAL, "\t\t\tTwo Region Collision Probability Parameters");
log_printf(NORMAL, "*******************************************************"
"*************************");
log_printf(NORMAL, "");
log_printf(NORMAL, "dancoff = %f", dancoff);
log_printf(NORMAL, "sigma_e = %f", sigma_e);
log_printf(NORMAL, "A = %f", A);
log_printf(NORMAL, "alpha1 = %f", alpha1);
log_printf(NORMAL, "alpha2 = %f", alpha2);
log_printf(NORMAL, "beta = %f", beta);
log_printf(NORMAL, "");
/* Create isotopes*/
char* delim = (char*)"\t";
Isotope* H1 = new Isotope();
H1->setA(1);
H1->setIsotopeType((char*)"H1");
H1->loadXS((char*)"pendf/h-1_capture.txt", CAPTURE, delim);
H1->loadXS((char*)"pendf/h-1_elastic.txt", ELASTIC, delim);
H1->setElasticAngleType(ISOTROPIC_LAB);
H1->initializeThermalScattering(1E-6, 15, 1000, 15);
Isotope* O16 = new Isotope();
O16->setA(16);
O16->setIsotopeType((char*)"O16");
O16->loadXS((char*)"pendf/o-16_elastic.txt", ELASTIC, delim);
O16->setElasticAngleType(ISOTROPIC_LAB);
Isotope* ZR90 = new Isotope();
ZR90->setA(90);
ZR90->setIsotopeType((char*)"ZR90");
ZR90->loadXS((char*)"pendf/zr-90_elastic.txt", ELASTIC, delim);
ZR90->setElasticAngleType(ISOTROPIC_LAB);
Isotope* U235 = new Isotope();
U235->setA(235);
U235->setIsotopeType((char*)"U235");
U235->loadXS((char*)"pendf/u-235_capture.txt", CAPTURE, delim);
U235->setOneGroupElasticXS(11.4, ISOTROPIC_LAB);
U235->loadXS((char*)"pendf/u-235_fission.txt", FISSION, delim);
Isotope* U238 = new Isotope();
U238->setA(238);
U238->setIsotopeType((char*)"U238");
U238->loadXS((char*)"pendf/u-238_capture.txt", CAPTURE, delim);
U238->setOneGroupElasticXS(11.3, ISOTROPIC_LAB);
U238->loadXS((char*)"pendf/u-238_fission.txt", FISSION, delim);
/* Create Materials */
Material* moderator = new Material[num_threads];
Material* fuel = new Material[num_threads];
/* Create Regions for each thread */
Region1D* pellet = new Region1D[num_threads];
Region1D* coolant = new Region1D[num_threads];
/* Create Fissioners for each thread */
Fissioner* fissioners = new Fissioner[num_threads];
/* Create Region class objects for each thread */
for (int i=0; i < num_threads; i++) {
/* Initialize Materials for each thread with isotope clones */
moderator[i].setMaterialName((char*)"moderator");
fuel[i].setMaterialName((char*)"fuel");
moderator[i].addIsotope(ZR90->clone(), N_ZR90);
moderator[i].addIsotope(H1->clone(), N_H1);
moderator[i].addIsotope(O16->clone(), N_H2O);
moderator[i].rescaleCrossSections(1E-7, 1E7, 50000, LOGARITHMIC);
fuel[i].addIsotope(U235->clone(), N_U235);
fuel[i].addIsotope(U238->clone(), N_U238);
fuel[i].addIsotope(O16->clone(), N_O16);
fuel[i].rescaleCrossSections(1E-7, 1E7, 50000, LOGARITHMIC);
/* Set the two region collision probability parameters */
pellet[i].setRegionName((char*)"pellet");
pellet[i].setMaterial(&fuel[i]);
pellet[i].setAsFuel();
pellet[i].setOtherPinCellRegion(&coolant[i]);
pellet[i].setVolume(v_fuel);
pellet[i].setTwoRegionPinCellParams(sigma_e, beta, alpha1, alpha2);
coolant[i].setRegionName((char*)"coolant");
coolant[i].setMaterial(&moderator[i]);
coolant[i].setAsModerator();
coolant[i].setOtherPinCellRegion(&pellet[i]);
coolant[i].setVolume(v_moderator);
coolant[i].setTwoRegionPinCellParams(sigma_e, beta, alpha1, alpha2);
/* Set the fissioner class for this thread to have 10MeV maximum and
* 5000 sample bins */
fissioners[i].setEMax(10.0);
fissioners[i].setNumBins(200);
fissioners[i].buildCDF();
}
/* Run the simulation */
log_printf(NORMAL, "*******************************************************"
"*************************");
log_printf(NORMAL, "\t\t\t\tBeginning Simulation...");
log_printf(NORMAL, "*******************************************************"
"*************************");
log_printf(NORMAL, "");
timer.start();
omp_set_num_threads(num_threads);
#pragma omp parallel shared(total_flux, fuel_flux, moderator_flux,\
fuel_flux_ratio, moderator_flux_ratio,\
tot_fiss_rate, tot_abs_rate, U235_capture_rate_2G,\
U235_elastic_rate_2G, U235_fission_rate_2G,\
U238_capture_rate_2G, U238_elastic_rate_2G,\
U238_fission_rate_2G, H1_capture_rate_2G,\
H1_elastic_rate_2G, O16_elastic_rate_2G,\
ZR90_elastic_rate_2G, fuel, moderator, \
pellet, coolant, fissioners)
{
/* Loop over batches */
#pragma omp for private(num_gen, num_alive)
for (int b=0; b < num_batches; b++) {
int thread_num = omp_get_thread_num();
log_printf(NORMAL, "Batch: %d\tThread: %d", b, thread_num);
/* Set the binns for this batch */
pellet[thread_num].clearBinners();
pellet[thread_num].addBinner(total_flux->getBinner(b));
pellet[thread_num].addBinner(fuel_flux->getBinner(b));
pellet[thread_num].addBinner(fuel_flux_ratio->getBinner(b));
pellet[thread_num].addBinner(tot_fiss_rate->getBinner(b));
pellet[thread_num].addBinner(tot_abs_rate->getBinner(b));
pellet[thread_num].addBinner(U235_capture_rate_2G->getBinner(b));
pellet[thread_num].addBinner(U235_elastic_rate_2G->getBinner(b));
pellet[thread_num].addBinner(U235_fission_rate_2G->getBinner(b));
pellet[thread_num].addBinner(U238_capture_rate_2G->getBinner(b));
pellet[thread_num].addBinner(U238_elastic_rate_2G->getBinner(b));
pellet[thread_num].addBinner(U238_fission_rate_2G->getBinner(b));
pellet[thread_num].addBinner(O16_elastic_rate_2G->getBinner(b));
pellet[thread_num].addBinner(two_group_flux->getBinner(b));
pellet[thread_num].addBinner(coll_rate_2G->getBinner(b));
pellet[thread_num].addBinner(transport_rate_2G->getBinner(b));
pellet[thread_num].addBinner(diffusion_rate_2G->getBinner(b));
pellet[thread_num].addBinner(capture_2G->getBinner(b));
pellet[thread_num].addBinner(fission_2G->getBinner(b));
pellet[thread_num].addBinner(absorb_2G->getBinner(b));
pellet[thread_num].addBinner(elastic_2G->getBinner(b));
pellet[thread_num].addBinner(total_2G->getBinner(b));
coolant[thread_num].clearBinners();
coolant[thread_num].addBinner(total_flux->getBinner(b));
coolant[thread_num].addBinner(moderator_flux->getBinner(b));
coolant[thread_num].addBinner(moderator_flux_ratio->getBinner(b));
coolant[thread_num].addBinner(tot_fiss_rate->getBinner(b));
coolant[thread_num].addBinner(tot_abs_rate->getBinner(b));
coolant[thread_num].addBinner(H1_capture_rate_2G->getBinner(b));
coolant[thread_num].addBinner(H1_elastic_rate_2G->getBinner(b));
coolant[thread_num].addBinner(O16_elastic_rate_2G->getBinner(b));
coolant[thread_num].addBinner(ZR90_elastic_rate_2G->getBinner(b));
coolant[thread_num].addBinner(two_group_flux->getBinner(b));
coolant[thread_num].addBinner(coll_rate_2G->getBinner(b));
coolant[thread_num].addBinner(transport_rate_2G->getBinner(b));
coolant[thread_num].addBinner(diffusion_rate_2G->getBinner(b));
coolant[thread_num].addBinner(capture_2G->getBinner(b));
coolant[thread_num].addBinner(fission_2G->getBinner(b));
coolant[thread_num].addBinner(absorb_2G->getBinner(b));
coolant[thread_num].addBinner(elastic_2G->getBinner(b));
coolant[thread_num].addBinner(total_2G->getBinner(b));
/* Initialize all neutrons for this batch and add them to slab 1 */
for (int n=0; n < num_neutrons; n++) {
neutron* new_neutron = initializeNewNeutron();
new_neutron->_x = 0.0;
new_neutron->_mu = (float(rand()) / RAND_MAX) * 2.0 - 1.0;
new_neutron->_energy = fissioners[thread_num].emitNeutroneV();
pellet[thread_num].addNeutron(new_neutron);
}
/* Loop over all neutrons until they are all dead */
num_gen = 1;
num_alive = num_neutrons;
while (num_alive > 0) {
log_printf(DEBUG, "batch = %d, thread = %d, gen = %d, "
"num_alive = %d", b, thread_num, num_gen, num_alive);
num_gen++;
num_alive = 0;
/* Transfer neutrons between regions based on
* two region collision probabilities */
pellet[thread_num].twoRegionNeutronTransferral();
coolant[thread_num].twoRegionNeutronTransferral();
/* Update each region's vector of neutrons with those
* neutrons which were just transferred */
pellet[thread_num].initializeTransferredNeutrons();
coolant[thread_num].initializeTransferredNeutrons();
/* Move neutrons within each region */
pellet[thread_num].moveNeutrons();
coolant[thread_num].moveNeutrons();
num_alive = pellet[thread_num].getNumNeutrons() +
coolant[thread_num].getNumNeutrons();
}
}
}
log_printf(NORMAL, "");
/* Stop the timer record the timing split for this simulation */
timer.stop();
timer.recordSplit("Pset 4 time (sec)");
/* Compute batch statistics for total flux and flux in fuel, moderator */
total_flux->computeScaledBatchStatistics(num_neutrons*v_total);
fuel_flux->computeScaledBatchStatistics(num_neutrons*v_fuel);
moderator_flux->computeScaledBatchStatistics(num_neutrons*v_moderator);
/* Compute batch statistics for total fission and absorption rates */
tot_fiss_rate->computeScaledBatchStatistics(num_neutrons*v_total);
tot_abs_rate->computeScaledBatchStatistics(num_neutrons*v_total);
/* Compute batch statistics for cell-averaged macro cross-sections */
capture_2G->computeScaledBatchStatistics(num_neutrons*v_total);
fission_2G->computeScaledBatchStatistics(num_neutrons*v_total);
absorb_2G->computeScaledBatchStatistics(num_neutrons*v_total);
elastic_2G->computeScaledBatchStatistics(num_neutrons*v_total);
total_2G->computeScaledBatchStatistics(num_neutrons*v_total);
/* Compute batch statistics for one group cross-sections */
H1_capture_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
H1_elastic_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
O16_elastic_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
ZR90_elastic_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
U235_capture_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
U235_elastic_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
U235_fission_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
U238_capture_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
U238_elastic_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
U238_fission_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
two_group_flux->computeScaledBatchStatistics(num_neutrons*v_total);
coll_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
transport_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
diffusion_rate_2G->computeScaledBatchStatistics(num_neutrons*v_total);
/* Compute k-infinity */
float fiss_rate_mu = tot_fiss_rate->getBatchMu()[0];
float fiss_rate_var = tot_fiss_rate->getBatchVariance()[0];
float abs_rate_mu = tot_abs_rate->getBatchMu()[0];
float abs_rate_var = tot_abs_rate->getBatchVariance()[0];
float k_inf = fiss_rate_mu * nu_bar / abs_rate_mu;
float k_inf_var = (fiss_rate_mu*fiss_rate_mu)*abs_rate_var +
(abs_rate_mu*abs_rate_mu)*fiss_rate_var +
fiss_rate_var*abs_rate_var;
float k_inf_std_dev = sqrt(k_inf_var);
/* Compute moderator to fuel flux ratios */
fuel_flux_ratio->computeScaledBatchStatistics(num_neutrons*v_fuel);
moderator_flux_ratio->computeScaledBatchStatistics(num_neutrons*v_moderator);
fuel_flux_ratio->computeScaledBatchStatistics(num_neutrons*v_fuel);
moderator_flux_ratio->computeScaledBatchStatistics(num_neutrons*v_moderator);
/* Print to the console the total fission rate */
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "\t\t\tTotal Fission Rate (Batch Statistics)");
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(NORMAL, "");
log_printf(RESULT, "Tot fission rate = %1.8f\t\tVariance = %1.8f",
tot_fiss_rate->getBatchMu()[0],
tot_fiss_rate->getBatchVariance()[0]);
log_printf(RESULT, "Tot absorption rate = %f\t\tVariance = %f",
tot_abs_rate->getBatchMu()[0],
tot_abs_rate->getBatchVariance()[0]);
log_printf(RESULT, "k_inf = %f\t\tvariance = %1.8f \t\t 2 sigma = %1.8f", k_inf,
k_inf_var, k_inf_std_dev);
log_printf(RESULT, "");
/* Print to the console the moderator/fuel flux ratios */
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "\t\t\t\tModerator/Fuel Flux Ratios");
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "");
float ratio;
for (int i=1; i < num_ratios+1; i++) {
ratio = moderator_flux_ratio->getBatchMu()[i-1] /
fuel_flux_ratio->getBatchMu()[i-1];
log_printf(RESULT, "[%2.e eV - %2.e eV]:\t%f",
flux_ratio_E_ranges[i-1], flux_ratio_E_ranges[i], ratio);
}
log_printf(RESULT, "");
/* Print to the console the cell-averaged fast to thermal flux ratio */
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "\t\t\tCell-Averaged Fast-to-Thermal Flux Ratio");
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "");
double* two_group_flux_mu = two_group_flux->getBatchMu();
double flux1 = two_group_flux_mu[0];
double flux2 = two_group_flux_mu[1];
log_printf(RESULT, "Ratio = %f", flux2 / flux1);
log_printf(RESULT, "");
/* Print to the console the two group macroscopic cross-sections */
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "\t\tTwo Group Macroscopic Cross-Sections (cm^-1)");
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "");
float xs1, xs2;
log_printf(RESULT, "\t\t\t[%1.1f eV - %1.3f eV]\t[%1.3f eV - %1.1e eV]",
two_group_flux->getBinner(0)->getBinEdges()[0],
two_group_flux->getBinner(0)->getBinEdges()[1],
two_group_flux->getBinner(0)->getBinEdges()[1],
two_group_flux->getBinner(0)->getBinEdges()[2]);
/* H1 capture */
xs1 = H1_capture_rate_2G->getBatchMu()[0] / flux1;
xs2 = H1_capture_rate_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "H1 Capture: \t\t%f\t\t%f", xs1, xs2);
/* H1 elastic */
xs1 = H1_elastic_rate_2G->getBatchMu()[0] / flux1;
xs2 = H1_elastic_rate_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "H1 Elastic: \t\t%f\t\t%f", xs1, xs2);
/* O16 elastic */
xs1 = O16_elastic_rate_2G->getBatchMu()[0] / flux1;
xs2 = O16_elastic_rate_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "O16 Elastic: \t\t%f\t\t%f", xs1, xs2);
/* ZR90 elastic */
xs1 = ZR90_elastic_rate_2G->getBatchMu()[0] / flux1;
xs2 = ZR90_elastic_rate_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "ZR90 Elastic: \t\t%f\t\t%f", xs1, xs2);
/* U235 capture */
xs1 = U235_capture_rate_2G->getBatchMu()[0] / flux1;
xs2 = U235_capture_rate_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "U235 Capture: \t\t%f\t\t%f", xs1, xs2);
/* U235 elastic */
xs1 = U235_elastic_rate_2G->getBatchMu()[0] / flux1;
xs2 = U235_elastic_rate_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "U235 Elastic: \t\t%f\t\t%f", xs1, xs2);
/* U235 fission */
xs1 = U235_fission_rate_2G->getBatchMu()[0] / flux1;
xs2 = U235_fission_rate_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "U235 Fission: \t\t%f\t\t%f", xs1, xs2);
/* U238 capture */
xs1 = U238_capture_rate_2G->getBatchMu()[0] / flux1;
xs2 = U238_capture_rate_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "U238 Capture: \t\t%f\t\t%f", xs1, xs2);
/* U238 elastic */
xs1 = U238_elastic_rate_2G->getBatchMu()[0] / flux1;
xs2 = U238_elastic_rate_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "U238 Elastic: \t\t%f\t\t%f", xs1, xs2);
/* U238 fission */
xs1 = U238_fission_rate_2G->getBatchMu()[0] / flux1;
xs2 = U238_fission_rate_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "U238 Fission: \t\t%f\t\t%f", xs1, xs2);
log_printf(RESULT, "");
/* Print to the console the two group macroscopic cross-sections */
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "\tTwo Group Cell-Averaged Macroscopic "
"Cross-Sections (cm^-1)");
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "");
log_printf(RESULT, "\t\t\t[%1.1f eV - %1.3f eV]\t[%1.3f eV - %1.1e eV]",
two_group_flux->getBinner(0)->getBinEdges()[0],
two_group_flux->getBinner(0)->getBinEdges()[1],
two_group_flux->getBinner(0)->getBinEdges()[1],
two_group_flux->getBinner(0)->getBinEdges()[2]);
/* Flux */
log_printf(RESULT, "Flux: \t\t\t%f\t\t%f", flux1, flux2);
/* Capture */
xs1 = capture_2G->getBatchMu()[0] / flux1;
xs2 = capture_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "Capture: \t\t\t%f\t\t%f", xs1, xs2);
/* Fission */
xs1 = fission_2G->getBatchMu()[0] / flux1;
xs2 = fission_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "Fission: \t\t\t%f\t\t%f", xs1, xs2);
/* Absorption */
xs1 = absorb_2G->getBatchMu()[0] / flux1;
xs2 = absorb_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "Absorb: \t\t\t%f\t\t%f", xs1, xs2);
/* Elastic */
xs1 = elastic_2G->getBatchMu()[0] / flux1;
xs2 = elastic_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "Elastic: \t\t\t%f\t\t%f", xs1, xs2);
/* Total */
xs1 = total_2G->getBatchMu()[0] / flux1;
xs2 = total_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "Total: \t\t\t%f\t\t%f", xs1, xs2);
log_printf(RESULT, "");
/* Print to the console the two group macroscopic cross-sections */
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "\t\t\tTwo Group Diffusion Coefficients");
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "");
log_printf(RESULT, "\t\t\t[%1.1f eV - %1.3f eV]\t[%1.3f eV - %1.1e eV]",
two_group_flux->getBinner(0)->getBinEdges()[0],
two_group_flux->getBinner(0)->getBinEdges()[1],
two_group_flux->getBinner(0)->getBinEdges()[1],
two_group_flux->getBinner(0)->getBinEdges()[2]);
float sigma_t1, sigma_t2;
float sigma_tr1, sigma_tr2;
float D1, D2;
sigma_t1 = coll_rate_2G->getBatchMu()[0] / flux1;
sigma_t2 = coll_rate_2G->getBatchMu()[1] / flux2;
D1 = 1.0 / (3.0 * sigma_t1);
D2 = 1.0 / (3.0 * sigma_t2);
log_printf(RESULT, "1/(3*sigma_t):\t\t%f\t\t%f", D1, D2);
sigma_tr1 = transport_rate_2G->getBatchMu()[0] / flux1;
sigma_tr2 = transport_rate_2G->getBatchMu()[1] / flux2;
D1 = 1.0 / (3.0 * sigma_tr1);
D2 = 1.0 / (3.0 * sigma_tr2);
log_printf(RESULT, "1/(3*sigma_tr):\t\t%f\t\t%f", D1, D2);
D1 = diffusion_rate_2G->getBatchMu()[0] / flux1;
D2 = diffusion_rate_2G->getBatchMu()[1] / flux2;
log_printf(RESULT, "Diff coeff:\t\t%f\t\t%f", D1, D2);
log_printf(RESULT, "");
/* Plot the total neutron flux */
handle = gnuplot_init();
gnuplot_set_xlabel(handle, (char*)"Energy (eV)");
gnuplot_set_ylabel(handle, (char*)"flux");
gnuplot_set_xrange(handle, 0.005, 1E7);
gnuplot_cmd(handle, (char*)"set logscale xy");
gnuplot_cmd(handle, (char*)"set title \"Normalized Flux\"");
gnuplot_setstyle(handle, (char*)"lines");
gnuplot_plot_xy(handle, total_flux->getBinner(0)->getBinCenters(),
total_flux->getBatchMu(), num_bins, (char*)"Total Flux");
gnuplot_plot_xy(handle, fuel_flux->getBinner(0)->getBinCenters(),
fuel_flux->getBatchMu(), num_bins, (char*)"Fuel Flux");
gnuplot_saveplot(handle, (char*)"flux");
gnuplot_plot_xy(handle, moderator_flux->getBinner(0)->getBinCenters(),
moderator_flux->getBatchMu(), num_bins, (char*)"Moderator Flux");
gnuplot_close(handle);
/* Free all allocated memory */
delete [] pellet;
delete [] coolant;
delete [] fissioners;
delete [] moderator;
delete [] fuel;
delete total_flux;
delete fuel_flux;
delete moderator_flux;
delete tot_fiss_rate;
delete tot_abs_rate;
delete fuel_flux_ratio;
delete moderator_flux_ratio;
delete H1_capture_rate_2G;
delete H1_elastic_rate_2G;
delete O16_elastic_rate_2G;
delete U235_capture_rate_2G;
delete U235_elastic_rate_2G;
delete U235_fission_rate_2G;
delete U238_capture_rate_2G;
delete U238_elastic_rate_2G;
delete U238_fission_rate_2G;
delete ZR90_elastic_rate_2G;
delete two_group_flux;
delete coll_rate_2G;
delete transport_rate_2G;
delete diffusion_rate_2G;
delete H1;
delete O16;
delete ZR90;
delete U235;
delete U238;
log_printf(RESULT, "*******************************************************"
"*************************");
log_printf(RESULT, "\t\t\t\tTiming Results");
log_printf(RESULT, "*******************************************************"
"*************************");
timer.printSplits();
}
int main(int arg, char *argv[])
{
//socket variable
int sock;
struct sockaddr_in sin;
char buff[BuffLength];
const char *IP="192.168.128.3";
//gnuplot variable
gnuplot_ctrl * h; //handler of gnuplot session
int i, j, line;
double *x = NULL;
double *y = NULL;
double **z = (double **)malloc(Nline*sizeof(double *));
for (i=0 ; i<Nline ; i++)
{
x=malloc((BuffLength-1)*sizeof(double));
y=malloc(Nline*sizeof(double));
z[i]=malloc((BuffLength-1)*sizeof(double));
}
init_xy(x,y);
//Create socket
sock=socket(AF_INET, SOCK_STREAM, 0);
if (sock==-1)
{
perror("socket()");
exit(errno);
}
sin.sin_addr.s_addr=inet_addr(IP);
sin.sin_family=AF_INET;
sin.sin_port=htons(Port);
if (connect(sock, (struct sockaddr *) &sin, sizeof(sin))==-1)
{
perror("connect()");
exit(errno);
}
printf("Connected\n");
//gnuplot object
h=gnuplot_init();
gnuplot_surf_gray(h, x, y, z, BuffLength-1, Nline, "test");
while(1)
{
if(recv(sock, buff, BuffLength, MSG_WAITALL)==0)
{
printf("Server closed\n");
break;
}
for (i=0 ; i<Nline ; i++)
{
line=(int)(buff[0]);
for (j=0 ; j<BuffLength-1 ; j++)
{
z[line][j]=(double)(buff[j+1]);
}
}
gnuplot_surf_gray(h, x, y, z, BuffLength-1, Nline,"test");
}
writefile(x,y,z,Nline,BuffLength-1);
close(sock);
gnuplot_close(h);
free(x);
free(y);
free(z);
return 0;
}
int main(int arg, char *argv[])
{
//socket variable
int sock;
struct sockaddr_in sin;
char buff[BuffLength]={0};
const char *IP="192.168.128.3";
//gnuplot variable
gnuplot_ctrl * h; //handler of gnuplot session
printf("gnuctrl done\n");
int i, j, line;
int **z = (int **)malloc(Nline*sizeof(int *));
for (i=0 ; i<Nline ; i++)
{
z[i]=(int *)malloc((BuffLength-1)*sizeof(int));
}
printf("z init finish\n");
//Create socket
sock=socket(AF_INET, SOCK_STREAM, 0);
if (sock==-1)
{
perror("socket()");
exit(errno);
}
sin.sin_addr.s_addr=inet_addr(IP);
sin.sin_family=AF_INET;
sin.sin_port=htons(Port);
printf("define socket\n");
if (connect(sock, (struct sockaddr *) &sin, sizeof(sin))==-1)
{
perror("connect()");
exit(errno);
}
printf("Connected\n");
//gnuplot object
h=gnuplot_init();
gnuplot_cmd(h,"set pm3d map");
gnuplot_cmd(h,"set palette gray");
int k=0, l=1;;
while(l)
{
for (i=0 ; i<Nline ; i++)
{
if(recv(sock, buff, BuffLength, MSG_WAITALL)==0)
{
printf("Server closed\n");
i=Nline+1;
l=0;
break;
}
if (i<Nline+2)
{
line=(int)(buff[0])-1;
printf("line number %d\n",line);
for (j=0 ; j<BuffLength-1 ; j++)
{
z[line][j]=(int)(buff[j+1]);
}
}
}
printf("image number %d\n",k);
k++;
gnuplot_matrix(h, z, BuffLength-1, Nline);
}
close(sock);
gnuplot_close(h);
free(z);
return 0;
}
/**
* Testsuite:
* Generates random symbols and calls the module ....
* @param ...
* @param ...
* @param ... */
int main(int argc, char **argv)
{
struct timespec tdata[3];
gnuplot_ctrl *plot;
char tmp[64];
int ret, i, j;
float *tmp_f;
_Complex float *tmp_c;
double *plot_buff_r;
double *plot_buff_c;
allocate_memory();
parameters = NULL;
parse_paramters(argc, argv);
if (generate_input_signal(input_data, input_lengths)) {
printf("Error generating input signal\n");
exit(1);
}
for (i=0;i<nof_input_itf;i++) {
if (!input_lengths[i]) {
printf("Warning, input interface %d has zero length\n",i);
}
}
if (initialize()) {
printf("Error initializing\n");
exit(1); /* the reason for exiting should be printed out beforehand */
}
#ifndef _ALOE_OLD_SKELETON
for (i=0;i<nof_input_itf;i++) {
input_ptr[i] = &input_data[i*input_max_samples*input_sample_sz];
}
for (i=0;i<nof_output_itf;i++) {
output_ptr[i] = &output_data[i*output_max_samples*output_sample_sz];
}
clock_gettime(CLOCK_MONOTONIC,&tdata[1]);
ret = work(input_ptr, output_ptr);
clock_gettime(CLOCK_MONOTONIC,&tdata[2]);
#else
clock_gettime(CLOCK_MONOTONIC,&tdata[1]);
ret = work(input_data, output_data);
clock_gettime(CLOCK_MONOTONIC,&tdata[2]);
#endif
stop();
if (ret == -1) {
printf("Error running\n");
exit(-1);
}
get_time_interval(tdata);
for (i=0;i<nof_output_itf;i++) {
if (!output_lengths[i]) {
output_lengths[i] = ret;
}
if (!output_lengths[i]) {
printf("Warning output interface %d has zero length\n",i);
}
}
printf("\nExecution time: %d ns.\n", (int) tdata[0].tv_nsec);
printf("FINISHED\n");
if (use_gnuplot) {
for (i=0;i<nof_input_itf;i++) {
plot_buff_r = malloc(sizeof(double)*input_lengths[i]);
plot_buff_c = malloc(sizeof(double)*input_lengths[i]);
if (input_sample_sz == sizeof(float)) {
tmp_f = (float*) &input_data[i*input_max_samples];
for (j=0;j<input_lengths[i];j++) {
plot_buff_r[j] = (double) tmp_f[j];
}
plot = gnuplot_init() ;
gnuplot_setstyle(plot,"lines");
snprintf(tmp,64,"input_%d",i);
gnuplot_plot_x(plot, plot_buff_r,
get_input_samples(i), tmp);
free(plot_buff_r);
} else if (input_sample_sz == sizeof(_Complex float)) {
tmp_c = (_Complex float*) &input_data[i*input_max_samples];
for (j=0;j<input_lengths[i];j++) {
plot_buff_r[j] = (double) __real__ tmp_c[j];
plot_buff_c[j] = (double) __imag__ tmp_c[j];
}
plot = gnuplot_init() ;
gnuplot_setstyle(plot,"lines");
snprintf(tmp,64,"input_real_%d",i);
gnuplot_plot_x(plot, plot_buff_r,
get_input_samples(i), tmp);
plot = gnuplot_init() ;
gnuplot_setstyle(plot,"lines");
snprintf(tmp,64,"input_imag_%d",i);
gnuplot_plot_x(plot, plot_buff_c,
get_input_samples(i), tmp);
free(plot_buff_r);
free(plot_buff_c);
}
}
for (i=0;i<nof_output_itf;i++) {
plot_buff_r = malloc(sizeof(double)*output_lengths[i]);
plot_buff_c = malloc(sizeof(double)*output_lengths[i]);
if (output_sample_sz == sizeof(float)) {
tmp_f = (float*) &output_data[i*output_max_samples];
for (j=0;j<output_lengths[i];j++) {
plot_buff_r[j] = (double) __real__ tmp_f[j];
}
plot = gnuplot_init() ;
gnuplot_setstyle(plot,"lines");
snprintf(tmp,64,"output_%d",i);
gnuplot_plot_x(plot, plot_buff_r,
output_lengths[i], tmp);
free(plot_buff_r);
} else if (output_sample_sz == sizeof(_Complex float)) {
tmp_c = (_Complex float*) &output_data[i*output_max_samples];
for (j=0;j<output_lengths[i];j++) {
plot_buff_r[j] = (double) __real__ tmp_c[j];
plot_buff_c[j] = (double) __imag__ tmp_c[j];
}
plot = gnuplot_init() ;
gnuplot_setstyle(plot,"lines");
snprintf(tmp,64,"output_real_%d",i);
gnuplot_plot_x(plot, plot_buff_r,
output_lengths[i], tmp);
plot = gnuplot_init() ;
gnuplot_setstyle(plot,"lines");
snprintf(tmp,64,"output_imag_%d",i);
gnuplot_plot_x(plot, plot_buff_c,
output_lengths[i], tmp);
free(plot_buff_r);
free(plot_buff_c);
}
}
printf("Type ctrl+c to exit\n");fflush(stdout);
free_memory();
pause();
/* make sure we exit here */
exit(1);
}
free_memory();
return 0;
}
int main(int arg, char *argv[])
{
//socket variable
SOCKET sock;
const char *IP="192.168.128.3";
init_TCP_client(&sock, IP, Port);
get_RP_settings(&sock);
printf("x0=%f\n",x0);
printf("xf=%f\n",xf);
printf("dec=%i\n",dec);
printf("Nline=%i\n",Nline);
printf("sector=%f\n",sector);
printf("mode_RP=%i\n",mode_RP);
char name[50];
Npoint=(int)(2.0*(xf-x0)*125.0/1.48/((double)dec));
if (Npoint>16384){Npoint=16384;}
printf("Npoint = %i\n",Npoint);
int powd, pad_len;
if (power_two(Npoint,&powd)){powd++;}
pad_len=int_pow(2,powd);
init_table(pad_len);
//gnuplot variable
gnuplot_ctrl * h;
int i, j;
double **x = NULL;
double **y = NULL;
int **z = (int **)malloc(Nline*sizeof(int *));
double *tmp = (double *)malloc(Npoint*sizeof(int));
double *tmp2 = (double *)malloc(pad_len*sizeof(double));
double **env = (double **)malloc(Nline*sizeof(double *));
double *pad = (double *)malloc(pad_len*sizeof(double));
x = malloc(Nline*sizeof(double *));
y = malloc(Nline*sizeof(double *));
for (i=0 ; i<Nline ; i++)
{
x[i]=malloc((Npoint)*sizeof(double));
y[i]=malloc((Npoint)*sizeof(double));
z[i]=malloc((Npoint)*sizeof(int));
env[i]=(double *)malloc(pad_len*sizeof(double));
if (env[i]==NULL) {printf("boulet!");}
for (j=0 ; j<pad_len ; j++) {env[i][j]=0.0;}
}
init_xy(x,y);
//gnuplot object
h=gnuplot_init();
gnuplot_cmd(h, "set pm3d map");
gnuplot_cmd(h, "set palette gray");
int k=1, line=0, l=0, temp;
if (mode_RP==0)
{
int16_t *buff=(int16_t *)malloc((Npoint+1)*sizeof(int16_t));
float fech, f0, fm;
fech=125000000.0/dec;
f0=3500000.0;
fm=6500000.0;
i=0;
j=0;
while (1)
{
receive_int16_TCP_client(&sock, buff, Npoint+1);
j=i;
i=(int)buff[0];
if (j==63 && i==64) {break;}
if (j==2 && i==1) {break;}
}
while(k)
{
temp=l/10;
for (i=0 ; i<Nline ; i++)
{
if (receive_int16_TCP_client(&sock, buff, Npoint+1)==1)
{
i=Nline+2;
k=0;
break;
}
if(i<Nline+2)
{
line=(int)buff[0]-1;
for (j=0 ; j<Npoint ; j++) {tmp[j]=(double)buff[j+1];}
zero_padding(tmp, pad, Npoint, pad_len, 1);
tmp2=env[line];
envelope(pad, tmp2, pad_len, fech, f0, fm, 0);
if (temp*10==l) {z[line]=tmp[j];}
//for (j=0 ; j<Npoint ; j++) {z[line][j]=(int)env[j];}
}
}
gnuplot_matrix_double(h, env, Npoint, Nline);
if (temp*10==l)
{
sprintf(name, "int%i.txt", l);
writefile_double(env, Nline, Npoint, name);
}
l++;
}
free(buff);
}
else if (mode_RP==1)
{
char *buff=(char *)malloc((Npoint+1)*sizeof(char));
while(k)
{
for (i=0 ; i<Nline ; i++)
{
if (receive_TCP_client(&sock, buff, Npoint+1)==1)
{
i=Nline+2;
k=0;
break;
}
if(i<Nline+2)
{
line=int_converter(buff[0])-1;
for (j=0 ; j<Npoint ; j++) {z[line][j]=int_converter(buff[j+1]);}
}
}
gnuplot_matrix(h, z, Npoint, Nline);
temp=l/10;
if (temp*10==l)
{
sprintf(name, "char%i.txt", l);
writefile(z, Nline, Npoint, name);
}
l++;
}
free(buff);
}
else {printf("problem with RP settings\n");}
/*int k=1, line=0, l=0;
while(k)
{
for (i=0 ; i<Nline ; i++)
{
if (receive_TCP_client(&sock, buff, Npoint+1)==1)
{
i=Nline+2;
k=0;
break;
}
if (i<Nline+2)
{
line=int_converter(buff[0])-1;
for (j=0 ; j<Npoint-1 ; j++)
{
//z[line][j]=(int)buff[j+1];
z[line][j]=int_converter(buff[j+1]);
}
}
}
gnuplot_matrix(h, z, Npoint, Nline);
//sprintf(name, "main%i.txt",l);
//writefile(z, Nline, Npoint, name);
l++;
}*/
usleep(30);
close(sock);
free(x);
free(y);
free(z);
free(env);
free(pad);
return 0;
}
int main(int argc, char *argv[])
{
gnuplot_ctrl * h1,
* h2,
* h3,
* h4 ;
double x[NPOINTS] ;
double y[NPOINTS] ;
int i ;
/*
* Initialize the gnuplot handle
*/
printf("*** example of gnuplot control through C ***\n") ;
h1 = gnuplot_init() ;
/*
* Slopes
*/
gnuplot_setstyle(h1, "lines") ;
printf("*** plotting slopes\n") ;
printf("y = x\n") ;
gnuplot_plot_slope(h1, 1.0, 0.0, "unity slope") ;
sleep(SLEEP_LGTH) ;
printf("y = 2*x\n") ;
gnuplot_plot_slope(h1, 2.0, 0.0, "y=2x") ;
sleep(SLEEP_LGTH) ;
printf("y = -x\n") ;
gnuplot_plot_slope(h1, -1.0, 0.0, "y=-x") ;
sleep(SLEEP_LGTH) ;
/*
* Equations
*/
gnuplot_resetplot(h1) ;
printf("\n\n") ;
printf("*** various equations\n") ;
printf("y = sin(x)\n") ;
gnuplot_plot_equation(h1, "sin(x)", "sine") ;
sleep(SLEEP_LGTH) ;
printf("y = log(x)\n") ;
gnuplot_plot_equation(h1, "log(x)", "logarithm") ;
sleep(SLEEP_LGTH) ;
printf("y = sin(x)*cos(2*x)\n") ;
gnuplot_plot_equation(h1, "sin(x)*cos(2*x)", "sine product") ;
sleep(SLEEP_LGTH) ;
/*
* Styles
*/
gnuplot_resetplot(h1) ;
printf("\n\n") ;
printf("*** showing styles\n") ;
printf("sine in points\n") ;
gnuplot_setstyle(h1, "points") ;
gnuplot_plot_equation(h1, "sin(x)", "sine") ;
sleep(SLEEP_LGTH) ;
printf("sine in impulses\n") ;
gnuplot_setstyle(h1, "impulses") ;
gnuplot_plot_equation(h1, "sin(x)", "sine") ;
sleep(SLEEP_LGTH) ;
printf("sine in steps\n") ;
gnuplot_setstyle(h1, "steps") ;
gnuplot_plot_equation(h1, "sin(x)", "sine") ;
sleep(SLEEP_LGTH) ;
/*
* User defined 1d and 2d point sets
*/
gnuplot_resetplot(h1) ;
gnuplot_setstyle(h1, "impulses") ;
printf("\n\n") ;
printf("*** user-defined lists of doubles\n") ;
for (i=0 ; i<NPOINTS ; i++) {
x[i] = (double)i*i ;
}
gnuplot_plot_x(h1, x, NPOINTS, "user-defined doubles") ;
sleep(SLEEP_LGTH) ;
printf("*** user-defined lists of points\n");
for (i=0 ; i<NPOINTS ; i++) {
x[i] = (double)i ;
y[i] = (double)i * (double)i ;
}
gnuplot_resetplot(h1) ;
gnuplot_setstyle(h1, "points") ;
gnuplot_plot_xy(h1, x, y, NPOINTS, "user-defined points") ;
sleep(SLEEP_LGTH) ;
/*
* Multiple output screens
*/
printf("\n\n") ;
printf("*** multiple output windows\n") ;
gnuplot_resetplot(h1) ;
gnuplot_setstyle(h1, "lines") ;
h2 = gnuplot_init() ;
gnuplot_setstyle(h2, "lines") ;
h3 = gnuplot_init() ;
gnuplot_setstyle(h3, "lines") ;
h4 = gnuplot_init() ;
gnuplot_setstyle(h4, "lines") ;
printf("window 1: sin(x)\n") ;
gnuplot_plot_equation(h1, "sin(x)", "sin(x)") ;
sleep(SLEEP_LGTH) ;
printf("window 2: x*sin(x)\n") ;
gnuplot_plot_equation(h2, "x*sin(x)", "x*sin(x)") ;
sleep(SLEEP_LGTH) ;
printf("window 3: log(x)/x\n") ;
gnuplot_plot_equation(h3, "log(x)/x", "log(x)/x");
sleep(SLEEP_LGTH) ;
printf("window 4: sin(x)/x\n") ;
gnuplot_plot_equation(h4, "sin(x)/x", "sin(x)/x") ;
sleep(SLEEP_LGTH) ;
/*
* close gnuplot handles
*/
printf("\n\n") ;
printf("*** end of gnuplot example\n") ;
gnuplot_close(h1) ;
gnuplot_close(h2) ;
gnuplot_close(h3) ;
gnuplot_close(h4) ;
return 0 ;
}
void TwoStream_Initializer::initialize_fields(FieldData** fields,
HOMoments** moments,
ParallelInfo* myinfo)
{
int tid = myinfo->tid;
// Setup E-field
for(int k=0;k<pdata->nz;k++)
{
for(int j=0;j<pdata->ny;j++)
{
for(int i=0;i<pdata->nx;i++)
{
realkind x = i*pdata->dxdi+pdata->xmin;
//realkind y = j*pdata->dydi+pdata->ymin;
//realkind z = k*pdata->dzdi+pdata->zmin;
realkind Ex = -alpha*sin(x/kt)*(kt);
fields[tid+1] -> getE(i,j,k,0) = Ex/epsilon_naught;
fields[tid+1] -> getE(i,j,k,1) = 0;
fields[tid+1] -> getE(i,j,k,2) = 0;
fields[tid+1] -> getB(i,j,k,0) = 0;
fields[tid+1] -> getB(i,j,k,1) = 0;
fields[tid+1] -> getB(i,j,k,2) = 0;
fields[0] -> getE(i,j,k,0) = Ex/epsilon_naught;
fields[0] -> getE(i,j,k,1) = 0;
fields[0] -> getE(i,j,k,2) = 0;
fields[0] -> getB(i,j,k,0) = 0;
fields[0] -> getB(i,j,k,1) = 0;
fields[0] -> getB(i,j,k,2) = 0;
// printf("fields(%i,%i,%i) = %f, %f, %f\n",i,j,k,
// fields.getE(i,j,k,0),fields.getE(i,j,k,1),fields.getE(i,j,k,2));
}
}
}
if(myinfo->myid_mpi == 0)
{
realkind gamma;
gamma = pi_const * powf(pdata->omega_pe,3.0f);
if(pdata->plot_flag)
{
plot = gnuplot_init();
kenergy_plot = gnuplot_init();
Tenergy_plot = gnuplot_init();
charge_cons_plot = gnuplot_init();
}
Energy_array = (float*)malloc(2*pdata->nsteps*sizeof(float));
kEnergy_array = (float*)malloc(2*pdata->nsteps*sizeof(float));
TEnergy_array = (float*)malloc(2*pdata->nsteps*sizeof(float));
charge_cons_array = (float*)malloc(2*pdata->nsteps*sizeof(float));
max_array = (float*)malloc(2*pdata->nsteps*sizeof(float));
max_t_array = (float*)malloc(2*pdata->nsteps*sizeof(float));
nplot = 0;
nmax_array = 0;
kE0 = moments[0] -> evaluate_energy();
kEnergy_array[0] = kE0;
E0 = fields[0] -> evaluate_energy();
Energy_array[0] = (E0);
TEnergy_array[0] =0;
max_t_array[0] = 0;
charge_cons_array[0] = 0;
nplot++;
if(pdata->plot_flag) gnuplot_cmd(plot,"set log y");
//gnuplot_cmd(kenergy_plot,"set log y");
}
}
int main(int argc, char *argv[])
{
FILE *inputfiles,*posting_file;
int i=0;
char *fileinput,*stemming_file,*posting_filename;
if(argc < 2)
{
printf("\nIncorrect Usage. ./keywordengine <filelist.txt>\n");
return 0;
}
if((inputfiles=fopen(argv[1],"r+"))==NULL)
{
printf("\nCould not open %s. Exiting\n",argv[1]);
exit(0);
}
if((posting_file=fopen("../output/posting_list_file_input.txt","w"))==NULL)
{
printf("\nFatal Error! Could not open/create posting_list_file_input.txt. Check output directory.\nErrorcode : %d\n",errno);
exit(0);
}
int after_stemming=0;
int before_stemming=0;
double ratio=0.0;
double array[20];
for(i=0; i<20; i++)
{
array[i]=0;
}
while(!feof(inputfiles))
{
fileinput=(char *)malloc(sizeof(char)*FILENAME);
fscanf(inputfiles,"%s\n",fileinput);
stemming_file=(char *)malloc(sizeof(char)*(strlen(fileinput)+8));
strcpy(stemming_file,"output_");
strcat(stemming_file,fileinput);
posting_filename=(char *)malloc(sizeof(char)*(strlen(stemming_file)+6));
strcpy(posting_filename,"stem_");
strcat(posting_filename,stemming_file);
fprintf(posting_file,"%s\n",posting_filename);
/* Tokenise and remove stopwords */
getwords(fileinput);
/* Add to postings list */
initialize();
before_stemming=add_document_to_postingslist(stemming_file);
/* Apply Porter's Stemmer */
stemmer(stemming_file);
/* Add to postings list */
initialize();
after_stemming=add_document_to_postingslist(posting_filename);
ratio=(double)after_stemming/before_stemming;
//printf("\nbefore=%d and after=%d Ratio= %lf\n",before_stemming,after_stemming,ratio);
if(0 <= ratio && 0.05 > ratio )
array[0]++;
else if(0.75 <= ratio && 0.765 > ratio )
array[1]++;
else if(0.765 <= ratio && 0.780 > ratio )
array[2]++;
else if(0.780 <= ratio && 0.795 > ratio )
array[3]++;
else if(0.795 <= ratio && 0.810 > ratio )
array[4]++;
else if(0.810 <= ratio && 0.825 > ratio )
array[5]++;
else if(0.825 <= ratio && 0.840 > ratio )
array[6]++;
else if(0.840 <= ratio && 0.855 > ratio )
array[7]++;
else if(0.855 <= ratio && 0.870 > ratio )
array[8]++;
else if(0.870 <= ratio && 0.885 > ratio )
array[9]++;
else if(0.885 <= ratio && 0.9 > ratio )
array[10]++;
else if(0.9 <= ratio && 0.915 > ratio )
array[11]++;
else if(0.915 <= ratio && 0.930 > ratio )
array[12]++;
else if(0.930 <= ratio && 0.945 > ratio )
array[13]++;
else if(0.945 <= ratio && 0.960 > ratio )
array[14]++;
else if(0.960 <= ratio && 0.975 > ratio )
array[15]++;
else if(0.975 <= ratio && 0.990 > ratio )
array[16]++;
else if(0.990 <= ratio && 1.05 > ratio )
array[17]++;
else if(1.05 <= ratio && 1.20 > ratio )
array[18]++;
else if(1.20 <= ratio && 1.35 >= ratio )
array[19]++;
i++;
free(fileinput);
fileinput=NULL;
}
fclose(posting_file);
fclose(inputfiles);
gnuplot_ctrl *h1;
h1 = gnuplot_init() ;
gnuplot_setstyle(h1, "lines");
gnuplot_set_xlabel(h1, "Compression");
gnuplot_set_ylabel(h1, "Frequency");
gnuplot_plot_x(h1, array ,20, "Ratio Graph") ;
getchar();
/*Closing the files*/
gnuplot_close(h1);
return 0;
}
int main(int argc,char* argv[])
{
PlasmaData pdata(argc,argv);
gnuplot_ctrl* plot;
gnuplot_ctrl* plot_anim;
plot = gnuplot_init();
plot_anim = gnuplot_init();
gnuplot_setstyle(plot,"lines");
gnuplot_setstyle(plot_anim,"points");
gnuplot_cmd(plot_anim,"set term gif animate nooptimize size 1280,1280 xffffffff");
gnuplot_cmd(plot_anim,"set output \"particles.gif\"");
gnuplot_cmd(plot_anim,"set xrange [-1:1]");
gnuplot_cmd(plot_anim,"set yrange [-1:1]");
float xmin = 0;
float ymin = 0;
float zmin = 0;
float Lx = 5.0;
float Ly = 5.0;
float Lz = 5.0;
int nx = 64;
int ny = 64;
int nz = 64;
int nspecies = 1;
const float dt = 0.01;
const float dtau0 = 0.1;
const int nptcls = 500;
const int steps = 200;
int iptcl[nptcls];
float Ey = 5.0;
float Bz = 100.0;
pdata.nx = nx;
pdata.ny = ny;
pdata.nz = nz;
pdata.Lx = Lx;
pdata.Ly = Ly;
pdata.Lz = Lz;
pdata.xmin = xmin;
pdata.ymin = ymin;
pdata.zmin = zmin;
pdata.epsilon_a = 1.0e-4;
pdata.epsilon_r = 1.0e-10;
pdata.dt = dt;
pdata.niter_max = 20;
pdata.nSubcycle_max = 1000;
pdata.Bmag_avg = 1.0;
pdata.ndimensions = 3;
pdata.setup();
FieldDataCPU fields;
ParticleListCPU particles;
HOMoments* moments;
int numprocs = omp_get_num_procs();
moments = (HOMoments*)malloc(numprocs*sizeof(HOMoments));
for(int i=0;i<numprocs;i++)
{
moments[i] = *new HOMoments(&pdata);
}
float x_plot[nptcls][steps];
float y_plot[nptcls][steps];
float gx_plot[nptcls][steps];
float gy_plot[nptcls][steps];
float error_array[nptcls];
//float x_plot_a[nptcls];
//float y_plot_a[nptcls];
fields.allocate(&pdata);
particles.allocate(nptcls);
fields.dx = pdata.dxdi;
fields.dy = pdata.dydi;
fields.dz = pdata.dzdi;
particles.ispecies = 0;
for(int i=0;i<nptcls;i++)
{
iptcl[i] = i;
particles.px[i] = rand()%10000/10000.0;
particles.py[i] = rand()%10000/10000.0;
particles.pz[i] = 0.5;
particles.ix[i] = nx/2;
particles.iy[i] = ny/2;
particles.iz[i] = nz/2;
particles.vx[i] = 0.5*(2*(rand()%10000))/10000.0 + 0.5;
particles.vy[i] = 0.5*(2*(rand()%10000))/10000.0 + 0.5;
particles.vz[i] = 0.0* (rand()%50000 / 50000.0f - 0.5);
error_array[i] = 0;
}
// Setup E-field
for(int i=0;i<nx;i++)
{
for(int j=0;j<ny;j++)
{
for(int k=0;k<nz;k++)
{
float x = i*pdata.dxdi+xmin;
float y = j*pdata.dydi+ymin;
float z = k*pdata.dzdi+zmin;
float Ex = -1.0*x;
fields.getE(i,j,k,0) = 0;
fields.getE(i,j,k,1) = Ey;
fields.getE(i,j,k,2) = 0;
fields.getB(i,j,k,0) = 0;
fields.getB(i,j,k,1) = 0;
fields.getB(i,j,k,2) = Bz;
// printf("fields(%i,%i,%i) = %f, %f, %f\n",i,j,k,
// fields.getE(i,j,k,0),fields.getE(i,j,k,1),fields.getE(i,j,k,2));
}
}
}
fields.q2m[0] = 1.0;
printf("Efield setup complete\n");
float time;
double avg_error = 0.0;
int n_error = 0;
CPUTimer timer;
moments->init_plot();
timer.start();
for(int i=0;i<steps;i++)
{
//time = dtau0*(i);
//moments.set_vals(0);
particles.push(&pdata,&fields,moments);
printf("finished step %i\n",i);
for(int j=0;j<nptcls;j++)
{
float px,py,gx,gy;
float rl;
float vx,vy,vxy,vz,vxyz;
float vgx,vgy;
float verror;
px = (particles.px[j] + particles.ix[j])*pdata.dxdi + pdata.xmin;
py = (particles.py[j] + particles.iy[j])*pdata.dydi + pdata.ymin;
vx = particles.vx[j];
vy = particles.vy[j];
vz = particles.vz[j];
vxy = sqrt(vx*vx+vy*vy);
vxyz = sqrt(vxy*vxy + vz*vz);
rl = vxy/Bz;
gx = vy*Bz/sqrt(vx*Bz*vx*Bz + vy*Bz*vy*Bz)*rl + px;
gy = -vx*Bz/sqrt(vx*Bz*vx*Bz + vy*Bz*vy*Bz)*rl + py;
x_plot[j][i] = px;
y_plot[j][i] = py;
gx_plot[j][i] = gx;
gy_plot[j][i] = gy;
if(i >= 1)
{
vgx = (gx_plot[j][i] - gx_plot[j][0])/(dt*(i));
vgy = (gy_plot[j][i] - gy_plot[j][0])/(dt*(i));
verror = fabs(Ey/Bz - vgx)/(Ey/Bz);
error_array[j] = fmax(error_array[j],verror);
avg_error += verror;
n_error ++;
// printf("true[%i] v = %e, %e actual v = %e, %e, error = %e\n",
// j,Ey/Bz,0.0f,vgx,vgy,verror);
}
}
//if((i+1)%64 == 0)
//gnuplot_resetplot(plot_anim);
/*
float diff_avg = 0.0;
for(int j=0;j<nptcls;j++)
{
x_plot[j][i] = (particles.px[j] + particles.ix[j])*pdata.dxdi + pdata.xmin;
y_plot[j][i] = (particles.py[j] + particles.iy[j])*pdata.dydi + pdata.ymin;
//printf("particle %i with position %f, %f\n",j,x_plot[j][i],y_plot[j][i]);
// x_plot_a[j] = x_plot[j][i];
// y_plot_a[j] = y_plot[j][i];
}
*/
//avg_error += diff_avg / steps;
//gnuplot_plot_xy(plot_anim,x_plot_a,y_plot_a,nptcls,NULL);
}
timer.stop();
printf("average error = %e \n",avg_error/((float)n_error));
printf("Run did %f particles per second\n",nptcls*steps/(timer.diff()*1.0e-3));
for(int j=0;j<nptcls;j++)
{
if(error_array[j] >= 1.0e-2)
gnuplot_plot_xy(plot,x_plot[j],y_plot[j],steps,NULL);
}
//moments->plot(nz/2,0,HOMoments_currentx);
printf("Press 'Enter' to continue\n");
getchar();
moments->close_plot();
gnuplot_close(plot);
gnuplot_close(plot_anim);
}
int main(int argc, char **argv)
{
gnuplot_ctrl *gam;
char kcode;
int exit_flag = 1;
gam = gnuplot_init();
gnuplot_setstyle(gam, "lines");
plot_bezier(gam);
// gnuplot_plot_slope(gam, 2.0, 0.0, "y=2x");
while(1){
switch(getkey()){
case 'x':
exit_flag = 0;
break;
case 'a':
gnuplot_resetplot(gam);
gnuplot_plot_equation(gam, "log(x)", "logarithm") ;
break;
case '=':
gnuplot_resetplot(gam);
bez_adj(gam, target, COARSE, PLUS);
plot_bezier(gam);
break;
case '-':
gnuplot_resetplot(gam);
bez_adj(gam, target, COARSE, MINUS);
plot_bezier(gam);
break;
case '+':
gnuplot_resetplot(gam);
bez_adj(gam, target, FINE, PLUS);
plot_bezier(gam);
break;
case '_':
gnuplot_resetplot(gam);
bez_adj(gam, target, FINE, MINUS);
plot_bezier(gam);
break;
case '1':
target = YONE;
printf("\nset YONE as adjust target: %f\n", yone);
break;
case '2':
target = YTWO;
printf("\nset YTWO as adjust target: %f\n", ytwo);
break;
case '3':
target = XONE;
printf("\nset XONE as adjust target: %f\n", xone);
break;
case '4':
target = XTWO;
printf("\nset XTWO as adjust target: %f\n", xtwo);
break;
default:
break;
}
if (!exit_flag)
break;
usleep(500*1000);
}
print_curve();
gnuplot_close(gam);
return 0;
}
int main()
{
if (graph)
{
g = gnuplot_init();
h = gnuplot_init();
}
/*
n = 3;
cost[0][0] = 2;
cost[0][1] = 1;
cost[0][2] = 3;
cost[1][0] = 7;
cost[1][1] = 4;
cost[1][2] = 3;
cost[2][0] = 3;
cost[2][1] = 0;
cost[2][2] = 0;
*/
// Worst case:
n = 3;
cost[0][0] = 11; // x = 11, e = 1, k = 2, l = 2
cost[0][1] = 10;
cost[1][0] = 9;
cost[1][1] = 7;
cost[0][2] = 2;
cost[1][2] = 3;
cost[2][0] = 30;
cost[2][1] = 40;
cost[2][2] = 39;
for (int i = 0; i < n; i++)
{
for (int j = 0; j < n; j++)
{
printf("%d\t", cost[i][j]);
}
printf("\n");
}
printf("\n");
hungarian();
for (int i = 0; i < n; i++)
printf("%d\t", lx[i]);
printf("\n\n");
for (int i = 0; i < n; i++)
{
for (int j = 0; j < n; j++)
{
if (xy[i] == j)
printf("%d\t", 1);
else
printf("%d\t", 0);
}
printf("| %d\n", ly[i]);
}
printf("\n");
printf("Slack: ");
for (int i = 0; i < n; i++)
printf("%d\t", slack[i]);
printf("\n");
printf("Slackx: ");
for (int i = 0; i < n; i++)
printf("%d\t", slackx[i]);
printf("\n");
if (g != NULL)
gnuplot_close(g);
if (h != NULL)
gnuplot_close(h);
return 0;
}
void
consensus (void *space, Uint *consensus, Uint len, IntSequence *query,
Uint seedlen, void* info) {
Uint i,j;
char *constr;
double sum, norm;
double *consensus_double;
double *seedprobability;
imbissinfo *imbiss;
IntSequence *consensusSequence;
gnuplot_ctrl *h;
imbiss = (imbissinfo*) info;
seedprobability = ALLOCMEMORY(space, NULL, double, len);
for (i=0; i < len; i++) {
for (sum=0.0, j=0; j < seedlen; j++) {
sum += imbiss->score[(Uint) query->sequence[i+j]];
}
seedprobability[i] = log10(imbiss->K*2500000*seedlen*
exp(-(double)imbiss->lambda*sum));
}
consensusSequence = initSequence(space);
consensusSequence->sequence = consensus;
consensusSequence->length = len;
constr = printSequence(space, consensusSequence, 60);
printf("%s\n", constr);
FREEMEMORY(space, constr);
consensus_double = ALLOCMEMORY(space, NULL, double, len);
h = gnuplot_init();
gnuplot_setstyle(h, "lines");
sum = 0;
for(i=0; i < len; i++) {
sum += consensus[i];
}
for(i=0; i < len; i++) {
norm = consensus[i];
norm = (norm > 0) ? norm : 1;
consensus_double[i] = log10(norm);
/* log10(imbiss->K*3000000*len*exp(-(double)consensus[i]));
if (consensus_double[i] < -400) consensus_double[i]=-400;*/
}
gnuplot_cmd(h, "set title 'IMBISS - seed statistics' -28,0 font'Helvetica,15'");
gnuplot_cmd(h, "set label '%s' at screen 0.12,0.92 font 'Helvetica,12'", imbiss->query->strings[0].str);
gnuplot_cmd(h, "set label 'seed length: %d' at graph 0.05,0.95 font 'Helvetica, 12'", seedlen);
gnuplot_set_xlabel(h, "query sequence residue");
gnuplot_set_ylabel(h, "log");
gnuplot_plot_x(h, consensus_double, len, "log(number of matches)");
gnuplot_plot_x(h, seedprobability, len, "log(Kmn*e^{lambda*score(seed)})");
FREEMEMORY(space, seedprobability);
FREEMEMORY(space, consensus_double);
FREEMEMORY(space, consensusSequence);
}
int main(int argc,char **argv)
{
MYSQL mysql;
FILE *file;
MYSQL_RES *Gene_Result,*NFI_Result,*ZDR_Result;
MYSQL_ROW *Gene_Row,*NFI_Row,*ZDR_Row;
MYSQL_ROW_OFFSET *NFI_Rollback,*ZDR_Rollback;
gnuplot_ctrl *g;
char Order[32],query[4000],NFI_Table1[100],NFI_Table2[100],ZDR_Table1[100],ZDR_Table2[100],Gene_Table1[100],Gene_Table2[100];
int GenOrd,NfiOrd,ZdrOrd;
long int i,MinDist,MaxDist,GeneCount1,GeneCount2,NfiZdrGenes1,NfiZdrGenes2,GenePos,NfiStart,NfiStop,NfiBst,ZdrStart,ZdrStop,ZdrBst,NFIPos,ZDRPos;
double NfiMin,NfiMax,NfiStp,NfiCut,ZdrMin,ZdrMax,ZdrStp,ZdrCut,GenePerc1,GenePerc2,MinDiff,MaxDiff;
double *NfiScores1,*NfiScores2,*ZdrScores1,*ZdrScores2;
if(argc!=16)
return printf("usage: %s Fasta_File1 Gene_File1 Fasta_File2 Gene_File2 Order MinDist MaxDist NfiMin NfiMax NfiStep ZdrMax ZdrMin ZdrStep OutFile Plot\n",argv[0]);
sprintf(query,argv[1]);
for(i=0;i<100;i++)
switch(query[i])
{
case '.': query[i]='_'; break;
case '/': sprintf(query,&query[i+1],100);
i=0;
}
sprintf(NFI_Table1,"NFI_DNA.%s_nfihunt_classeq",query);
sprintf(ZDR_Table1,"Z_DNA.%s_zhunt_classeq",query);
sprintf(query,argv[2]);
for(i=0;i<100;i++)
switch(query[i])
{
case '.': query[i]='_'; break;
case '/': sprintf(query,&query[i+1]);
i=0;
}
sprintf(Gene_Table1,"Genomes.%s",query);
sprintf(query,argv[3]);
for(i=0;i<100;i++)
switch(query[i])
{
case '.': query[i]='_'; break;
case '/': sprintf(query,&query[i+1],100);
i=0;
}
sprintf(NFI_Table2,"NFI_DNA.%s_nfihunt_classeq",query);
sprintf(ZDR_Table2,"Z_DNA.%s_zhunt_classeq",query);
sprintf(query,argv[4]);
for(i=0;i<100;i++)
switch(query[i])
{
case '.': query[i]='_'; break;
case '/': sprintf(query,&query[i+1],100);
i=0;
}
sprintf(Gene_Table2,"Genomes.%s",query);
sprintf(Order,argv[5]);
MinDist=atoi(argv[6]);
MaxDist=atoi(argv[7]);
NfiMin=atof(argv[8]);
NfiMax=atof(argv[9]);
NfiStp=atof(argv[10]);
ZdrMax=atof(argv[11]);
ZdrMin=atof(argv[12]);
ZdrStp=atof(argv[13]);
if(argc==15||strcmp(argv[15],"-r"))
{
if(!(strstr(Order,"T")&&strstr(Order,"N")&&strstr(Order,"Z")&&strlen(Order)==3))
return printf("Improper Order format '%s'\n",Order);
GenOrd=strstr(Order,"T")-Order;
NfiOrd=strstr(Order,"N")-Order;
ZdrOrd=strstr(Order,"Z")-Order;
mysql_apps_logon(&mysql);
fprintf(stderr,"Populating internal table 1\n");
sprintf(query,"select start_site,strand,gene_num,gene_name from %s order by start_site",Gene_Table1);
printf(mysql_query(&mysql,query)?strcat(strcat(query,"\n"),strcat(mysql_error(&mysql),"\n\n")):"");
Gene_Result=mysql_store_result(&mysql);
GeneCount1=mysql_num_rows(Gene_Result);
sprintf(query,"select position,nfiscore from %s where nfiscore>=%f order by position",NFI_Table1,NfiMin);
printf(mysql_query(&mysql,query)?strcat(strcat(query,"\n"),strcat(mysql_error(&mysql),"\n\n")):"");
NFI_Result=mysql_store_result(&mysql);
sprintf(query,"select position,deltalinking from %s where deltalinking<=%f order by position",ZDR_Table1,ZdrMax);
printf(mysql_query(&mysql,query)?strcat(strcat(query,"\n"),strcat(mysql_error(&mysql),"\n\n")):"");
ZDR_Result=mysql_store_result(&mysql);
NfiScores1=(double*)malloc(GeneCount1*sizeof(double));
ZdrScores1=(double*)malloc(GeneCount1*sizeof(double));
NFI_Rollback=mysql_row_tell(NFI_Result);
ZDR_Rollback=mysql_row_tell(ZDR_Result);
for(i=0;i<GeneCount1;i++)
{
Gene_Row=mysql_fetch_row(Gene_Result);
if(atoi(Gene_Row[0])-GenePos<=2000)
{
mysql_row_seek(NFI_Result,NFI_Rollback);
mysql_row_seek(ZDR_Result,ZDR_Rollback);
}
GenePos=atoi(Gene_Row[0]);
sprintf(query,Gene_Row[1]);
switch(query[0])
{
case '+': GenOrd=abs(GenOrd);
NfiOrd=abs(NfiOrd);
ZdrOrd=abs(ZdrOrd);
break;
case '-': GenOrd=-abs(GenOrd);
NfiOrd=-abs(NfiOrd);
ZdrOrd=-abs(ZdrOrd);
break;
default: return fprintf(stderr,"Invalid Gene Strand '%s\n'",Gene_Row[1]);
}
NfiStart=GenOrd<NfiOrd?(GenePos+1):(GenePos-1000);
NfiStop=GenOrd<NfiOrd?(GenePos+1000):(GenePos-1);
NfiBst=GenePos+100000;
NfiScores1[i]=-100;
while(NFI_Row=mysql_fetch_row(NFI_Result),NFIPos=NFI_Row?atoi(NFI_Row[0]):NfiStop+1,NFIPos<=NfiStop)
if(NFIPos>=NfiStart&&NfiScores1[i]<=atoi(NFI_Row[1]))
{
if(NfiScores1[i]<atoi(NFI_Row[1])||abs(atoi(NFI_Row[0])-GenePos)<abs(NfiBst-GenePos))
{
NfiBst=atoi(NFI_Row[0]);
NfiScores1[i]=atoi(NFI_Row[1]);
}
}
ZdrStart=NfiOrd<ZdrOrd?(NfiBst+MinDist):(NfiBst-MaxDist);
ZdrStop=NfiOrd<ZdrOrd?(NfiBst+MaxDist):(NfiBst-MinDist);
ZdrStart=(GenOrd<ZdrOrd&&GenePos>ZdrStart)?GenePos:ZdrStart;
ZdrStart=(GenOrd>ZdrOrd&&GenePos<ZdrStart)?GenePos:ZdrStart;
ZdrStop=(GenOrd<ZdrOrd&&GenePos>ZdrStop)?GenePos:ZdrStop;
ZdrStop=(GenOrd>ZdrOrd&&GenePos<ZdrStop)?GenePos:ZdrStop;
ZdrBst=GenePos+100000;
ZdrScores1[i]=100;
while(ZDR_Row=mysql_fetch_row(ZDR_Result),ZDRPos=ZDR_Row?atoi(ZDR_Row[0]):ZdrStop+1,ZDRPos<=ZdrStop)
if(ZDRPos>=ZdrStart&&ZdrScores1[i]>=atoi(ZDR_Row[1]))
{
if(ZdrScores1[i]>atoi(ZDR_Row[1])||abs(atoi(ZDR_Row[0])-NfiBst)<abs(ZdrBst-NfiBst))
{
ZdrBst=atoi(ZDR_Row[0]);
ZdrScores1[i]=atof(ZDR_Row[1]);
}
}
printf("%3s %d %-16s %4d %4.0f %4d %4.2f %4d\n",Gene_Row[2],GenePos,Gene_Row[3],NfiBst-GenePos,NfiScores1[i],ZdrBst-GenePos,ZdrScores1[i],NfiBst-ZdrBst);
}
mysql_free_result(Gene_Result);
mysql_free_result(NFI_Result);
mysql_free_result(ZDR_Result);
fprintf(stderr,"Populating internal table 2\n");
sprintf(query,"select start_site,strand from %s order by start_site",Gene_Table2);
printf(mysql_query(&mysql,query)?strcat(strcat(query,"\n"),strcat(mysql_error(&mysql),"\n\n")):"");
Gene_Result=mysql_store_result(&mysql);
GeneCount2=mysql_num_rows(Gene_Result);
sprintf(query,"select position,nfiscore from %s where nfiscore>=%f order by position",NFI_Table2,NfiMin);
printf(mysql_query(&mysql,query)?strcat(strcat(query,"\n"),strcat(mysql_error(&mysql),"\n\n")):"");
NFI_Result=mysql_store_result(&mysql);
sprintf(query,"select position,deltalinking from %s where deltalinking<=%f order by position",ZDR_Table2,ZdrMax);
printf(mysql_query(&mysql,query)?strcat(strcat(query,"\n"),strcat(mysql_error(&mysql),"\n\n")):"");
ZDR_Result=mysql_store_result(&mysql);
NfiScores2=(double*)malloc(GeneCount2*sizeof(double));
ZdrScores2=(double*)malloc(GeneCount2*sizeof(double));
NFI_Rollback=mysql_row_tell(NFI_Result);
ZDR_Rollback=mysql_row_tell(ZDR_Result);
for(i=0;i<GeneCount2;i++)
{
Gene_Row=mysql_fetch_row(Gene_Result);
if(atoi(Gene_Row[0])-GenePos<=2000)
{
mysql_row_seek(NFI_Result,NFI_Rollback);
mysql_row_seek(ZDR_Result,ZDR_Rollback);
}
GenePos=atoi(Gene_Row[0]);
sprintf(query,Gene_Row[1]);
switch(query[0])
{
case '+': GenOrd=abs(GenOrd);
NfiOrd=abs(NfiOrd);
ZdrOrd=abs(ZdrOrd);
break;
case '-': GenOrd=-abs(GenOrd);
NfiOrd=-abs(NfiOrd);
ZdrOrd=-abs(ZdrOrd);
break;
default: return fprintf(stderr,"Invalid Gene Strand '%s\n'",Gene_Row[1]);
}
NfiStart=GenOrd<NfiOrd?(GenePos+1):(GenePos-1000);
NfiStop=GenOrd<NfiOrd?(GenePos+1000):(GenePos-1);
NfiBst=GenePos+100000;
NfiScores2[i]=-100;
while(NFI_Row=mysql_fetch_row(NFI_Result),NFIPos=NFI_Row?atoi(NFI_Row[0]):NfiStop+1,NFIPos<=NfiStop)
if(NFIPos>=NfiStart&&NfiScores2[i]<=atoi(NFI_Row[1]))
{
if(NfiScores2[i]<atoi(NFI_Row[1])||abs(atoi(NFI_Row[0])-GenePos)<abs(NfiBst-GenePos))
{
NfiBst=atoi(NFI_Row[0]);
NfiScores2[i]=atoi(NFI_Row[1]);
}
}
ZdrStart=NfiOrd<ZdrOrd?(NfiBst+MinDist):(NfiBst-MaxDist);
ZdrStop=NfiOrd<ZdrOrd?(NfiBst+MaxDist):(NfiBst-MinDist);
ZdrStart=(GenOrd<ZdrOrd&&GenePos>ZdrStart)?GenePos:ZdrStart;
ZdrStart=(GenOrd>ZdrOrd&&GenePos<ZdrStart)?GenePos:ZdrStart;
ZdrStop=(GenOrd<ZdrOrd&&GenePos>ZdrStop)?GenePos:ZdrStop;
ZdrStop=(GenOrd>ZdrOrd&&GenePos<ZdrStop)?GenePos:ZdrStop;
ZdrBst=GenePos+100000;
ZdrScores2[i]=100;
while(ZDR_Row=mysql_fetch_row(ZDR_Result),ZDRPos=ZDR_Row?atoi(ZDR_Row[0]):ZdrStop+1,ZDRPos<=ZdrStop)
if(ZDRPos>=ZdrStart&&ZdrScores2[i]>=atoi(ZDR_Row[1]))
{
if(ZdrScores2[i]>atoi(ZDR_Row[1])||abs(atoi(ZDR_Row[0])-NfiBst)<abs(ZdrBst-NfiBst))
{
ZdrBst=atoi(ZDR_Row[0]);
ZdrScores2[i]=atof(ZDR_Row[1]);
}
}
}
mysql_free_result(Gene_Result);
mysql_free_result(NFI_Result);
mysql_free_result(ZDR_Result);
mysql_close(&mysql);
FILE *OutFile=fopen(argv[14],"w");
if(!OutFile)
return printf("Could not write to file '%s'\n",argv[14]);
fprintf(stderr,"Generating results\n");
MinDiff=100;
MaxDiff=0;
for(ZdrCut=ZdrMax;ZdrCut>=ZdrMin;ZdrCut-=ZdrStp)
{
for(NfiCut=NfiMin;NfiCut<=NfiMax;NfiCut+=NfiStp)
{
NfiZdrGenes1=0;
for(i=0;i<GeneCount1;i++)
if(NfiScores1[i]>=NfiCut&&ZdrScores1[i]<=ZdrCut)
NfiZdrGenes1++;
NfiZdrGenes2=0;
for(i=0;i<GeneCount2;i++)
if(NfiScores2[i]>=NfiCut&&ZdrScores2[i]<=ZdrCut)
NfiZdrGenes2++;
GenePerc1=(100.0*NfiZdrGenes1)/GeneCount1;
GenePerc2=(100.0*NfiZdrGenes2)/GeneCount2;
fprintf(OutFile,"%f %f %f %f %f\n",NfiCut,ZdrCut,GenePerc1-GenePerc2,GenePerc1,GenePerc2);
fflush(OutFile);
MinDiff=MinDiff>GenePerc1-GenePerc2?GenePerc1-GenePerc2:MinDiff;
MaxDiff=MaxDiff<GenePerc1-GenePerc2?GenePerc1-GenePerc2:MaxDiff;
}
}
fclose(OutFile);
}
if(argc>15)
{
sprintf(NFI_Table1,NFI_Table1+8);
NFI_Table1[strlen(NFI_Table1)-8]='\0';
sprintf(NFI_Table2,NFI_Table2+8);
NFI_Table2[strlen(NFI_Table2)-8]='\0';
g=gnuplot_init();
sprintf(query,"set title \"%% Difference Between %s and %s of TSS w/(NFI + Z-DNA-12bps)\\n",NFI_Table1,NFI_Table2);
for(i=0;i<argc;i++)
{
strcat(query,argv[i]);
strcat(query," ");
}
strcat(query,"\"");
gnuplot_cmd(g,query);
sprintf(query,"set dgrid3d %.0f,%.0f,8",(ZdrMax-ZdrMin)/ZdrStp,(NfiMax-NfiMin)/NfiStp);
gnuplot_cmd(g,query);
sprintf(query,"set xrange [%f:%f]",NfiMin,NfiMax);
sprintf(query,"set yrange [%f:%f]",ZdrMin,ZdrMax);
gnuplot_cmd(g,query);
if(!strcmp(argv[15],"-r"))
{
sprintf(query,"set zrange [*:*]");
gnuplot_cmd(g,query);
sprintf(query,"set cntrparam levels incremental -10,1,10");
gnuplot_cmd(g,query);
}
else
{
sprintf(query,"set zrange [%f:%f]",MinDiff,MaxDiff);
gnuplot_cmd(g,query);
sprintf(query,"set cntrparam levels incremental %.0f,%d,%.0f",MinDiff,1+(int)((MaxDiff-MinDiff)/10),MaxDiff);
gnuplot_cmd(g,query);
}
sprintf(query,"call 'Format/%s.format'",argv[0]);
gnuplot_cmd(g,query);
sprintf(query,"sp '%s' u 1:2:3 notitle",argv[14]);
//sprintf(query,"sp '%s' w l lw 2",argv[14]);
gnuplot_cmd(g,query);
printf("Hit Enter to continue\n");
getchar();
}
return 0;
}
void ParticleListCPUSorted::allocate(PlasmaData* pdata,int nptcls_in)
{
//printf("Allocating Particle List on the CPU\n");
if(pdata->plot_flag)
plot = gnuplot_init();
//gnuplot_cmd(plot,"set pointsize 0.1");
// Allocate memory for particles
nptcls_allocated = nptcls_in;
nptcls = nptcls_in;
num_cores = pdata->num_cores;
// Allocate realkind arrays
for(int i=0;i<ParticleList_nfloats;i++)
{
*get_float(i) = (realkind*)malloc(nptcls_allocated*sizeof(realkind));
}
// Allocate int arrays
for(int i=0;i<ParticleList_nints;i++)
{
*get_int(i) = (int*)malloc(nptcls_allocated*sizeof(realkind));
}
buffer = (realkind*)malloc(nptcls_allocated*sizeof(realkind));
num_subcycles = (int*)malloc(nptcls_allocated*sizeof(realkind));
memset(num_subcycles,0,nptcls_allocated*sizeof(int));
num_piccard = (realkind*)malloc(nptcls_allocated*sizeof(double));
memset(num_piccard,0,nptcls_allocated*sizeof(double));
num_piccard2 = (realkind*)malloc(nptcls_allocated*sizeof(double));
memset(num_piccard2,0,nptcls_allocated*sizeof(double));
// allocate short ints for cluster id's
cluster_id = (int*)malloc(nptcls_allocated*sizeof(int));
ptcl_index = (int*)malloc(nptcls_allocated*sizeof(int));
piccard_timer = (CPUTimer*)malloc(pdata->num_cores*sizeof(CPUTimer));
accel_timer = (CPUTimer*)malloc(pdata->num_cores*sizeof(CPUTimer));
tally_timer = (CPUTimer*)malloc(pdata->num_cores*sizeof(CPUTimer));
crossing_timer = (CPUTimer*)malloc(pdata->num_cores*sizeof(CPUTimer));
dtau_est_timer = (CPUTimer*)malloc(pdata->num_cores*sizeof(CPUTimer));
tally_timer2 = (CPUTimer*)malloc(pdata->num_cores*sizeof(CPUTimer));
load_store_timer = (CPUTimer*)malloc(pdata->num_cores*sizeof(CPUTimer));
int tid;
omp_set_num_threads(pdata->num_cores);
#pragma omp parallel private(tid) default(shared) num_threads(pdata->num_cores)
{
tid = omp_get_thread_num();
piccard_timer[tid] = *(new CPUTimer());
accel_timer[tid] = *(new CPUTimer());
tally_timer[tid] = *(new CPUTimer());
crossing_timer[tid] = *(new CPUTimer());
dtau_est_timer[tid] = *(new CPUTimer());
tally_timer2[tid] = *(new CPUTimer());
load_store_timer[tid] = *(new CPUTimer());
}
push_timer = new CPUTimer();
}