int main(int argc, char *argv[])
{
if (argc == 1) {
printf("Usage: %s par-file [block-name par-name]\n",argv[0]);
exit(0);
}
par_debug(0);
par_open(argv[1]);
par_cmdline(argc,argv);
if (argc == 4) {
char *cp = par_gets(argv[2],argv[3]);
int ival;
double dval;
char *sval = "hello world";
printf("PAR_GETS: %s.%s = \"%s\"\n",argv[2],argv[3],cp);
printf("PAR_GETI: %s.%s = \"%d\" as integer\n",
argv[2],argv[3],par_geti(argv[2],argv[3]));
printf("PAR_GETD: %s.%s = \"%g\" as double\n",
argv[2],argv[3],par_getd(argv[2],argv[3]));
free(cp);
}
par_dump(0,stdout);
par_close();
return 0;
}
int main(int argc, char *argv[])
{
int mytid;
/* int numprocs; */
int namelen;
char processor_name[MPI_MAX_PROCESSOR_NAME];
par_debug(0);
if(MPI_SUCCESS != MPI_Init(&argc,&argv))
ath_error("Error on calling MPI_Init\n");
/* Get the number of processes */
/* MPI_Comm_size(MPI_COMM_WORLD,&numprocs); */
/* Get my task id, or rank as it is called in MPI */
MPI_Comm_rank(MPI_COMM_WORLD,&mytid);
/* Get the name of the processor or machine name */
MPI_Get_processor_name(processor_name,&namelen);
printf("My task id / rank = %d on %s\n",mytid, processor_name);
/* Parent and child have different jobs */
if(mytid != 0)
printf("My Parent's task id / rank = 0\n");
else{
printf("I am the Parent\n");
if (argc == 1) {
printf("Usage: %s par-file [block-name par-name]\n",argv[0]);
exit(0);
}
par_open(argv[1]);
par_cmdline(argc,argv);
if (argc == 4) {
char *cp = par_gets(argv[2],argv[3]);
printf("PAR_GETS: %s.%s = \"%s\"\n",argv[2],argv[3],cp);
printf("PAR_GETI: %s.%s = \"%d\" as integer\n",
argv[2],argv[3],par_geti(argv[2],argv[3]));
printf("PAR_GETD: %s.%s = \"%g\" as double\n",
argv[2],argv[3],par_getd(argv[2],argv[3]));
free(cp);
}
}
par_dist_mpi(mytid,MPI_COMM_WORLD);
par_dump(0,stdout);
par_close();
MPI_Finalize();
return 0;
}
void problem_read_restart(Grid *pG, Domain *pD, FILE *fp)
{
Omega_0 = par_getd("problem","omega");
qshear = par_getd_def("problem","qshear",1.5);
StaticGravPot = ShearingBoxPot;
Ly = x2max - x2min; /* for 3D problem */
if (par_geti("grid","Nx3") == 1) {
Ly = 0.0;
}
amp = par_getd("problem","amp");
omg = sqrt(2.0*(2.0-qshear))*Omega_0;
fread(name, sizeof(char),50,fp);
return;
}
void problem_read_restart(MeshS *pM, FILE *fp)
{
DomainS *pD = (DomainS*)&(pM->Domain[0][0]);
GridS *pG = pD->Grid;
ShearingBoxPot = StratifiedDisk;
Omega_0 = par_getd("problem","omega");
qshear = par_getd_def("problem","qshear",1.5);
ipert = par_geti_def("problem","ipert",1);
x1min = pG->MinX[0];
x1max = pG->MaxX[0];
Lx = x1max - x1min;
x2min = pG->MinX[1];
x2max = pG->MaxX[1];
Ly = x2max - x2min;
x3min = pM->RootMinX[2];
x3max = pM->RootMaxX[2];
Lz = x3max - x3min;
Lg = nghost*pG->dx3; /* size of the ghost zone */
vsc1 = par_getd_def("problem","vsc1",0.05); /* in unit of iso_sound (N.B.!) */
vsc2 = par_getd_def("problem","vsc2",0.0);
vsc1 = vsc1 * Iso_csound;
vsc2 = vsc2 * Iso_csound;
Npar = (int)(sqrt(par_geti("particle","parnumgrid")));
nlis = par_geti_def("problem","nlis",pG->Nx[0]*pG->Nx[1]*pG->Nx[2]);
ntrack = par_geti_def("problem","ntrack",2000);
dump_history_enroll(hst_rho_Vx_dVy, "<rho Vx dVy>");
return;
}
static void initialize(Grid *pGrid, Domain *pD)
{
int i, is=pGrid->is, ie = pGrid->ie;
int j, js=pGrid->js, je = pGrid->je;
int k, ks=pGrid->ks, ke = pGrid->ke;
int nbuf, mpierr, nx1gh, nx2gh, nx3gh;
float kwv, kpara, kperp;
char donedrive = 0;
/* -----------------------------------------------------------
* Variables within this block are stored globally, and used
* within preprocessor macros. Don't create variables with
* these names within your function if you are going to use
* OFST(), KCOMP(), or KWVM() within the function! */
/* Get local grid size */
nx1 = (ie-is+1);
nx2 = (je-js+1);
nx3 = (ke-ks+1);
/* Get global grid size */
gnx1 = pD->ide - pD->ids + 1;
gnx2 = pD->jde - pD->jds + 1;
gnx3 = pD->kde - pD->kds + 1;
/* Get extents of local FFT grid in global coordinates */
gis=is+pGrid->idisp; gie=ie+pGrid->idisp;
gjs=js+pGrid->jdisp; gje=je+pGrid->jdisp;
gks=ks+pGrid->kdisp; gke=ke+pGrid->kdisp;
/* ----------------------------------------------------------- */
/* Get size of arrays with ghost cells */
nx1gh = nx1 + 2*nghost;
nx2gh = nx2 + 2*nghost;
nx3gh = nx3 + 2*nghost;
/* Get input parameters */
/* interval for generating new driving spectrum; also interval for
* driving when IMPULSIVE_DRIVING is used */
dtdrive = par_getd("problem","dtdrive");
#ifdef MHD
/* magnetic field strength */
beta = par_getd("problem","beta");
/* beta = isothermal pressure/magnetic pressure */
B0 = sqrt(2.0*Iso_csound2*rhobar/beta);
#endif /* MHD */
/* energy injection rate */
dedt = par_getd("problem","dedt");
/* parameters for spectrum */
ispect = par_geti("problem","ispect");
if (ispect == 1) {
expo = par_getd("problem","expo");
} else if (ispect == 2) {
kpeak = par_getd("problem","kpeak")*2.0*PI;
} else {
ath_error("Invalid value for ispect\n");
}
/* Cutoff wavenumbers of spectrum */
klow = par_getd("problem","klow"); /* in integer units */
khigh = par_getd("problem","khigh"); /* in integer units */
dkx = 2.0*PI/(pGrid->dx1*gnx1); /* convert k from integer */
/* Driven or decaying */
idrive = par_geti("problem","idrive");
if ((idrive < 0) || (idrive > 1)) ath_error("Invalid value for idrive\n");
/* If restarting with decaying turbulence, no driving necessary. */
if ((idrive == 1) && (pGrid->nstep > 0)) {
donedrive = 1;
}
if (donedrive == 0) {
/* Allocate memory for components of velocity perturbation */
if ((dv1=(Real***)calloc_3d_array(nx3gh,nx2gh,nx1gh,sizeof(Real)))==NULL) {
ath_error("[problem]: Error allocating memory for vel pert\n");
}
if ((dv2=(Real***)calloc_3d_array(nx3gh,nx2gh,nx1gh,sizeof(Real)))==NULL) {
ath_error("[problem]: Error allocating memory for vel pert\n");
}
if ((dv3=(Real***)calloc_3d_array(nx3gh,nx2gh,nx1gh,sizeof(Real)))==NULL) {
ath_error("[problem]: Error allocating memory for vel pert\n");
}
}
/* Initialize the FFT plan */
plan = ath_3d_fft_quick_plan(pGrid, pD, NULL, ATH_FFT_BACKWARD);
/* Allocate memory for FFTs */
if (donedrive == 0) {
fv1 = ath_3d_fft_malloc(plan);
fv2 = ath_3d_fft_malloc(plan);
fv3 = ath_3d_fft_malloc(plan);
}
/* Enroll outputs */
dump_history_enroll(hst_dEk,"<dE_K>");
dump_history_enroll(hst_dEb,"<dE_B>");
return;
}
void problem(DomainS *pDomain)
{
GridS *pGrid=(pDomain->Grid);
int i,il,iu,j,jl,ju,k,kl,ku;
int shk_dir; /* Shock direction: {1,2,3} -> {x1,x2,x3} */
Real x1,x2,x3;
Prim1DS Wl, Wr;
Cons1DS U1d, Ul, Ur;
Real Bxl=0.0, Bxr=0.0;
/* Parse left state read from input file: dl,pl,ul,vl,wl,bxl,byl,bzl */
Wl.d = par_getd("problem","dl");
#ifdef ADIABATIC
Wl.P = par_getd("problem","pl");
#endif
Wl.Vx = par_getd("problem","v1l");
Wl.Vy = par_getd("problem","v2l");
Wl.Vz = par_getd("problem","v3l");
#ifdef MHD
Bxl = par_getd("problem","b1l");
Wl.By = par_getd("problem","b2l");
Wl.Bz = par_getd("problem","b3l");
#endif
#if (NSCALARS > 0)
Wl.r[0] = par_getd("problem","r[0]l");
#endif
/* Parse right state read from input file: dr,pr,ur,vr,wr,bxr,byr,bzr */
Wr.d = par_getd("problem","dr");
#ifdef ADIABATIC
Wr.P = par_getd("problem","pr");
#endif
Wr.Vx = par_getd("problem","v1r");
Wr.Vy = par_getd("problem","v2r");
Wr.Vz = par_getd("problem","v3r");
#ifdef MHD
Bxr = par_getd("problem","b1r");
Wr.By = par_getd("problem","b2r");
Wr.Bz = par_getd("problem","b3r");
if (Bxr != Bxl) ath_error(0,"[shkset1d] L/R values of Bx not the same\n");
#endif
#if (NSCALARS > 0)
Wr.r[0] = par_getd("problem","r[0]r");
#endif
Ul = Prim1D_to_Cons1D(&Wl, &Bxl);
Ur = Prim1D_to_Cons1D(&Wr, &Bxr);
/* Parse shock direction */
shk_dir = par_geti("problem","shk_dir");
if (shk_dir != 1 && shk_dir != 2 && shk_dir != 3) {
ath_error("[problem]: shk_dir = %d must be either 1,2 or 3\n",shk_dir);
}
/* Set up the index bounds for initializing the grid */
iu = pGrid->ie + nghost;
il = pGrid->is - nghost;
if (pGrid->Nx[1] > 1) {
ju = pGrid->je + nghost;
jl = pGrid->js - nghost;
}
else {
ju = pGrid->je;
jl = pGrid->js;
}
if (pGrid->Nx[2] > 1) {
ku = pGrid->ke + nghost;
kl = pGrid->ks - nghost;
}
else {
ku = pGrid->ke;
kl = pGrid->ks;
}
/* Initialize the grid including the ghost cells. Discontinuity is always
* located at x=0, so xmin/xmax in input file must be set appropriately. */
switch(shk_dir) {
/*--- shock in 1-direction ---------------------------------------------------*/
case 1: /* shock in 1-direction */
for (k=kl; k<=ku; k++) {
for (j=jl; j<=ju; j++) {
for (i=il; i<=iu; i++) {
cc_pos(pGrid, i, j, k, &x1, &x2, &x3);
/* set primitive and conserved variables to be L or R state */
if (x1 <= 0.0) {
U1d = Ul;
} else {
U1d = Ur;
}
/* Initialize conserved (and with SR the primitive) variables in Grid */
pGrid->U[k][j][i].d = U1d.d;
pGrid->U[k][j][i].M1 = U1d.Mx;
pGrid->U[k][j][i].M2 = U1d.My;
pGrid->U[k][j][i].M3 = U1d.Mz;
#ifdef MHD
pGrid->B1i[k][j][i] = Bxl;
pGrid->B2i[k][j][i] = U1d.By;
pGrid->B3i[k][j][i] = U1d.Bz;
pGrid->U[k][j][i].B1c = Bxl;
pGrid->U[k][j][i].B2c = U1d.By;
pGrid->U[k][j][i].B3c = U1d.Bz;
#endif
#ifdef ADIABATIC
pGrid->U[k][j][i].E = U1d.E;
#endif
#if (NSCALARS > 0)
pGrid->U[k][j][i].s[0] = U1d.s[0];
#endif
}
}
}
break;
/*--- shock in 2-direction ---------------------------------------------------*/
case 2: /* shock in 2-direction */
for (k=kl; k<=ku; k++) {
for (j=jl; j<=ju; j++) {
for (i=il; i<=iu; i++) {
cc_pos(pGrid, i, j, k, &x1, &x2, &x3);
/* set primitive variables to be L or R state */
if (x2 <= 0.0) {
U1d = Ul;
} else {
U1d = Ur;
}
/* Initialize conserved (and with SR the primitive) variables in Grid */
pGrid->U[k][j][i].d = U1d.d;
pGrid->U[k][j][i].M1 = U1d.Mz;
pGrid->U[k][j][i].M2 = U1d.Mx;
pGrid->U[k][j][i].M3 = U1d.My;
#ifdef MHD
pGrid->B1i[k][j][i] = U1d.Bz;
pGrid->B2i[k][j][i] = Bxl;
pGrid->B3i[k][j][i] = U1d.By;
pGrid->U[k][j][i].B1c = U1d.Bz;
pGrid->U[k][j][i].B2c = Bxl;
pGrid->U[k][j][i].B3c = U1d.By;
#endif
#ifdef ADIABATIC
pGrid->U[k][j][i].E = U1d.E;
#endif
#if (NSCALARS > 0)
pGrid->U[k][j][i].s[0] = U1d.s[0];
#endif
}
}
}
break;
/*--- shock in 3-direction ---------------------------------------------------*/
case 3: /* shock in 3-direction */
for (k=kl; k<=ku; k++) {
for (j=jl; j<=ju; j++) {
for (i=il; i<=iu; i++) {
cc_pos(pGrid, i, j, k, &x1, &x2, &x3);
/* set primitive variables to be L or R state */
if (x3 <= 0.0) {
U1d = Ul;
} else {
U1d = Ur;
}
/* Initialize conserved (and with SR the primitive) variables in Grid */
pGrid->U[k][j][i].d = U1d.d;
pGrid->U[k][j][i].M1 = U1d.My;
pGrid->U[k][j][i].M2 = U1d.Mz;
pGrid->U[k][j][i].M3 = U1d.Mx;
#ifdef MHD
pGrid->B1i[k][j][i] = U1d.By;
pGrid->B2i[k][j][i] = U1d.Bz;
pGrid->B3i[k][j][i] = Bxl;
pGrid->U[k][j][i].B1c = U1d.By;
pGrid->U[k][j][i].B2c = U1d.Bz;
pGrid->U[k][j][i].B3c = Bxl;
#endif
#ifdef ADIABATIC
pGrid->U[k][j][i].E = U1d.E;
#endif
#if (NSCALARS > 0)
pGrid->U[k][j][i].s[0] = U1d.s[0];
#endif
}
}
}
break;
default:
ath_error("[shkset1d]: invalid shk_dir = %i\n",shk_dir);
}
return;
}
void init_mesh(MeshS *pM)
{
int nblock,num_domains,nd,nl,level,maxlevel=0,nd_this_level;
int nDim,nDim_test,dim;
int *next_domainid;
char block[80];
int ncd,ir,irefine,l,m,n,roffset;
int i,Nx[3],izones;
div_t xdiv[3]; /* divisor with quot and rem members */
Real root_xmin[3], root_xmax[3]; /* min/max of x in each dir on root grid */
int Nproc_Comm_world=1,nproc=0,next_procID;
SideS D1,D2;
DomainS *pD, *pCD;
#ifdef MPI_PARALLEL
int ierr,child_found,groupn,Nranks,Nranks0,max_rank,irank,*ranks;
MPI_Group world_group;
/* Get total # of processes, in MPI_COMM_WORLD */
ierr = MPI_Comm_size(MPI_COMM_WORLD, &Nproc_Comm_world);
#endif
/* Start by initializing some quantaties in Mesh structure */
pM->time = 0.0;
pM->nstep = 0;
pM->outfilename = par_gets("job","problem_id");
/*--- Step 1: Figure out how many levels and domains there are. --------------*/
/* read levels of each domain block in input file and calculate max level */
num_domains = par_geti("job","num_domains");
#ifndef STATIC_MESH_REFINEMENT
if (num_domains > 1)
ath_error("[init_mesh]: num_domains=%d; for num_domains > 1 configure with --enable-smr\n",num_domains);
#endif
for (nblock=1; nblock<=num_domains; nblock++){
sprintf(block,"domain%d",nblock);
if (par_exist(block,"level") == 0)
ath_error("[init_mesh]: level does not exist in block %s\n",block);
level = par_geti(block,"level");
maxlevel = MAX(maxlevel,level);
}
/* set number of levels in Mesh, and allocate DomainsPerLevel array */
pM->NLevels = maxlevel + 1; /* level counting starts at 0 */
pM->DomainsPerLevel = (int*)calloc_1d_array(pM->NLevels,sizeof(int));
if (pM->DomainsPerLevel == NULL)
ath_error("[init_mesh]: malloc returned a NULL pointer\n");
/* Now figure out how many domains there are at each level */
for (nl=0; nl<=maxlevel; nl++){
nd_this_level=0;
for (nblock=1; nblock<=num_domains; nblock++){
sprintf(block,"domain%d",nblock);
if (par_geti(block,"level") == nl) nd_this_level++;
}
/* Error if there are any levels with no domains. Else set DomainsPerLevel */
if (nd_this_level == 0) {
ath_error("[init_mesh]: Level %d has zero domains\n",nl);
} else {
pM->DomainsPerLevel[nl] = nd_this_level;
}
}
/*--- Step 2: Set up root level. --------------------------------------------*/
/* Find the <domain> block in the input file corresponding to the root level,
* and set root level properties in Mesh structure */
if (pM->DomainsPerLevel[0] != 1)
ath_error("[init_mesh]: Level 0 has %d domains\n",pM->DomainsPerLevel[0]);
for (nblock=1; nblock<=num_domains; nblock++){
sprintf(block,"domain%d",nblock);
level = par_geti(block,"level");
if (level == 0){
root_xmin[0] = par_getd(block,"x1min");
root_xmax[0] = par_getd(block,"x1max");
root_xmin[1] = par_getd(block,"x2min");
root_xmax[1] = par_getd(block,"x2max");
root_xmin[2] = par_getd(block,"x3min");
root_xmax[2] = par_getd(block,"x3max");
Nx[0] = par_geti(block,"Nx1");
Nx[1] = par_geti(block,"Nx2");
Nx[2] = par_geti(block,"Nx3");
/* number of dimensions of root level, to test against all other inputs */
nDim=0;
for (i=0; i<3; i++) if (Nx[i]>1) nDim++;
if (nDim==0) ath_error("[init_mesh] None of Nx1,Nx2,Nx3 > 1\n");
/* some error tests of root grid */
for (i=0; i<3; i++) {
if (Nx[i] < 1) {
ath_error("[init_mesh]: Nx%d in %s must be >= 1\n",(i+1),block);
}
if(root_xmax[i] < root_xmin[i]) {
ath_error("[init_mesh]: x%dmax < x%dmin in %s\n",(i+1),block);
}
}
if (nDim==1 && Nx[0]==1) {
ath_error("[init_mesh]:1D requires Nx1>1: in %s Nx1=1,Nx2=%d,Nx3=%d\n",
block,Nx[1],Nx[2]);
}
if (nDim==2 && Nx[2]>1) {ath_error(
"[init_mesh]:2D requires Nx1,Nx2>1: in %s Nx1=%d,Nx2=%d,Nx3=%d\n",
block,Nx[0],Nx[1],Nx[2]);
}
/* Now that everything is OK, set root grid properties in Mesh structure */
for (i=0; i<3; i++) {
pM->Nx[i] = Nx[i];
pM->RootMinX[i] = root_xmin[i];
pM->RootMaxX[i] = root_xmax[i];
pM->dx[i] = (root_xmax[i] - root_xmin[i])/(Real)(Nx[i]);
}
/* Set BC flags on root domain */
pM->BCFlag_ix1 = par_geti_def(block,"bc_ix1",0);
pM->BCFlag_ix2 = par_geti_def(block,"bc_ix2",0);
pM->BCFlag_ix3 = par_geti_def(block,"bc_ix3",0);
pM->BCFlag_ox1 = par_geti_def(block,"bc_ox1",0);
pM->BCFlag_ox2 = par_geti_def(block,"bc_ox2",0);
pM->BCFlag_ox3 = par_geti_def(block,"bc_ox3",0);
}
}
/*--- Step 3: Allocate and initialize domain array. --------------------------*/
/* Allocate memory and set pointers for Domain array in Mesh. Since the
* number of domains nd depends on the level nl, this is a strange array
* because it is not [nl]x[nd]. Rather it is nl pointers to nd[nl] Domains.
* Compare to the calloc_2d_array() function in ath_array.c
*/
if((pM->Domain = (DomainS**)calloc((maxlevel+1),sizeof(DomainS*))) == NULL){
ath_error("[init_mesh] failed to allocate memory for %d Domain pointers\n",
(maxlevel+1));
}
if((pM->Domain[0]=(DomainS*)calloc(num_domains,sizeof(DomainS))) == NULL){
ath_error("[init_mesh] failed to allocate memory for Domains\n");
}
for(nl=1; nl<=maxlevel; nl++)
pM->Domain[nl] = (DomainS*)((unsigned char *)pM->Domain[nl-1] +
pM->DomainsPerLevel[nl-1]*sizeof(DomainS));
/* Loop over every <domain> block in the input file, and initialize each Domain
* in the mesh hierarchy (the Domain array), including the root level Domain */
next_domainid = (int*)calloc_1d_array(pM->NLevels,sizeof(int));
for(nl=0; nl<=maxlevel; nl++) next_domainid[nl] = 0;
for (nblock=1; nblock<=num_domains; nblock++){
sprintf(block,"domain%d",nblock);
/* choose nd coordinate in Domain array for this <domain> block according
* to the order it appears in input */
nl = par_geti(block,"level");
if (next_domainid[nl] > (pM->DomainsPerLevel[nl])-1)
ath_error("[init_mesh]: Exceeded available domain ids on level %d\n",nl);
nd = next_domainid[nl];
next_domainid[nl]++;
irefine = 1;
for (ir=1;ir<=nl;ir++) irefine *= 2; /* C pow fn only takes doubles !! */
/* Initialize level, number, input <domain> block number, and total number of
* cells in this Domain */
pM->Domain[nl][nd].Level = nl;
pM->Domain[nl][nd].DomNumber = nd;
pM->Domain[nl][nd].InputBlock = nblock;
pM->Domain[nl][nd].Nx[0] = par_geti(block,"Nx1");
pM->Domain[nl][nd].Nx[1] = par_geti(block,"Nx2");
pM->Domain[nl][nd].Nx[2] = par_geti(block,"Nx3");
/* error tests: dimensions of domain */
nDim_test=0;
for (i=0; i<3; i++) if (pM->Domain[nl][nd].Nx[i]>1) nDim_test++;
if (nDim_test != nDim) {
ath_error("[init_mesh]: in %s grid is %dD, but in root level it is %dD\n",
block,nDim_test,nDim);
}
for (i=0; i<3; i++) {
if (pM->Domain[nl][nd].Nx[i] < 1) {
ath_error("[init_mesh]: %s/Nx%d = %d must be >= 1\n",
block,(i+1),pM->Domain[nl][nd].Nx[i]);
}
}
if (nDim==1 && pM->Domain[nl][nd].Nx[0]==1) {ath_error(
"[init_mesh]: 1D requires Nx1>1 but in %s Nx1=1,Nx2=%d,Nx3=%d\n",
block,pM->Domain[nl][nd].Nx[1],pM->Domain[nl][nd].Nx[2]);
}
if (nDim==2 && pM->Domain[nl][nd].Nx[2]>1) {ath_error(
"[init_mesh]:2D requires Nx1,Nx2 > 1 but in %s Nx1=%d,Nx2=%d,Nx3=%d\n",
block,pM->Domain[nl][nd].Nx[0],pM->Domain[nl][nd].Nx[1],
pM->Domain[nl][nd].Nx[2]);
}
for (i=0; i<nDim; i++) {
xdiv[i] = div(pM->Domain[nl][nd].Nx[i], irefine);
if (xdiv[i].rem != 0){
ath_error("[init_mesh]: %s/Nx%d = %d must be divisible by %d\n",
block,(i+1),pM->Domain[nl][nd].Nx[i],irefine);
}
}
/* Set cell size based on level of domain, but only if Ncell > 1 */
for (i=0; i<3; i++) {
if (pM->Domain[nl][nd].Nx[i] > 1) {
pM->Domain[nl][nd].dx[i] = pM->dx[i]/(Real)(irefine);
} else {
pM->Domain[nl][nd].dx[i] = pM->dx[i];
}
}
/* Set displacement of Domain from origin. By definition, root level has 0
* displacement, so only read for levels other than root */
for (i=0; i<3; i++) pM->Domain[nl][nd].Disp[i] = 0;
if (nl != 0) {
if (par_exist(block,"iDisp") == 0)
ath_error("[init_mesh]: iDisp does not exist in block %s\n",block);
pM->Domain[nl][nd].Disp[0] = par_geti(block,"iDisp");
/* jDisp=0 if problem is only 1D */
if (pM->Nx[1] > 1) {
if (par_exist(block,"jDisp") == 0)
ath_error("[init_mesh]: jDisp does not exist in block %s\n",block);
pM->Domain[nl][nd].Disp[1] = par_geti(block,"jDisp");
}
/* kDisp=0 if problem is only 2D */
if (pM->Nx[2] > 1) {
if (par_exist(block,"kDisp") == 0)
ath_error("[init_mesh]: kDisp does not exist in block %s\n",block);
pM->Domain[nl][nd].Disp[2] = par_geti(block,"kDisp");
}
}
for (i=0; i<nDim; i++) {
xdiv[i] = div(pM->Domain[nl][nd].Disp[i], irefine);
if (xdiv[i].rem != 0){
ath_error("[init_mesh]: %s/Disp%d = %d must be divisible by %d\n",
block,(i+1),pM->Domain[nl][nd].Disp[i],irefine);
}
}
/* Use cell size and displacement from origin to compute min/max of x1/x2/x3 on
* this domain. Ensure that if Domain touches root grid boundary, the min/max
* of this Domain are set IDENTICAL to values in root grid */
for (i=0; i<3; i++){
if (pM->Domain[nl][nd].Disp[i] == 0) {
pM->Domain[nl][nd].MinX[i] = root_xmin[i];
} else {
pM->Domain[nl][nd].MinX[i] = root_xmin[i]
+ ((Real)(pM->Domain[nl][nd].Disp[i]))*pM->Domain[nl][nd].dx[i];
}
izones= (pM->Domain[nl][nd].Disp[i] + pM->Domain[nl][nd].Nx[i])/irefine;
if(izones == pM->Nx[i]){
pM->Domain[nl][nd].MaxX[i] = root_xmax[i];
} else {
pM->Domain[nl][nd].MaxX[i] = pM->Domain[nl][nd].MinX[i]
+ ((Real)(pM->Domain[nl][nd].Nx[i]))*pM->Domain[nl][nd].dx[i];
}
pM->Domain[nl][nd].RootMinX[i] = root_xmin[i];
pM->Domain[nl][nd].RootMaxX[i] = root_xmax[i];
}
} /*---------- end loop over domain blocks in input file ------------------*/
/*--- Step 4: Check that domains on the same level are non-overlapping. ------*/
/* Compare the integer coordinates of the sides of Domains at the same level.
* Print error if Domains overlap or touch. */
for (nl=maxlevel; nl>0; nl--){ /* start at highest level, and skip root */
for (nd=0; nd<(pM->DomainsPerLevel[nl])-1; nd++){
for (i=0; i<3; i++) {
D1.ijkl[i] = pM->Domain[nl][nd].Disp[i];
D1.ijkr[i] = pM->Domain[nl][nd].Disp[i] + pM->Domain[nl][nd].Nx[i];
}
for (ncd=nd+1; ncd<(pM->DomainsPerLevel[nl]); ncd++) {
for (i=0; i<3; i++) {
D2.ijkl[i] = pM->Domain[nl][ncd].Disp[i];
D2.ijkr[i] = pM->Domain[nl][ncd].Disp[i] + pM->Domain[nl][ncd].Nx[i];
}
if (D1.ijkl[0] <= D2.ijkr[0] && D1.ijkr[0] >= D2.ijkl[0] &&
D1.ijkl[1] <= D2.ijkr[1] && D1.ijkr[1] >= D2.ijkl[1] &&
D1.ijkl[2] <= D2.ijkr[2] && D1.ijkr[2] >= D2.ijkl[2]){
ath_error("Domains %d and %d at same level overlap or touch\n",
pM->Domain[nl][nd].InputBlock,pM->Domain[nl][ncd].InputBlock);
}
}
}}
/*--- Step 5: Check for illegal geometry of child/parent Domains -------------*/
for (nl=0; nl<maxlevel; nl++){
for (nd=0; nd<pM->DomainsPerLevel[nl]; nd++){
pD = (DomainS*)&(pM->Domain[nl][nd]); /* set ptr to this Domain */
for (i=0; i<3; i++) {
D1.ijkl[i] = pD->Disp[i];
D1.ijkr[i] = pD->Disp[i] + pD->Nx[i];
}
for (ncd=0; ncd<pM->DomainsPerLevel[nl+1]; ncd++){
pCD = (DomainS*)&(pM->Domain[nl+1][ncd]); /* set ptr to potential child*/
for (i=0; i<3; i++) {
D2.ijkl[i] = pCD->Disp[i]/2;
D2.ijkr[i] = 1;
if (pCD->Nx[i] > 1) D2.ijkr[i] = (pCD->Disp[i] + pCD->Nx[i])/2;
}
if (D1.ijkl[0] <= D2.ijkr[0] && D1.ijkr[0] >= D2.ijkl[0] &&
D1.ijkl[1] <= D2.ijkr[1] && D1.ijkr[1] >= D2.ijkl[1] &&
D1.ijkl[2] <= D2.ijkr[2] && D1.ijkr[2] >= D2.ijkl[2]){
/* check for child Domains that touch edge of parent (and are not at edges of
* root), extends past edge of parent, or are < nghost/2 from edge of parent */
for (dim=0; dim<nDim; dim++){
irefine = 1;
for (i=1;i<=nl;i++) irefine *= 2; /* parent refinement lev */
roffset = (pCD->Disp[dim] + pCD->Nx[dim])/(2*irefine) - pM->Nx[dim];
if (((D2.ijkl[dim] == D1.ijkl[dim]) && (pD->Disp[dim] != 0)) ||
((D2.ijkr[dim] == D1.ijkr[dim]) && (roffset != 0))) {
for (i=0; i<nDim; i++) {
D1.ijkl[i] /= irefine; /* report indices scaled to root */
D1.ijkr[i] /= irefine;
D2.ijkl[i] /= irefine;
D2.ijkr[i] /= irefine;
}
ath_error("[init_mesh] child Domain D%d[is,ie,js,je,ks,ke]=[%d %d %d %d %d %d] touches parent D%d[is,ie,js,je,ks,ke]=[%d %d %d %d %d %d]\n",
pCD->InputBlock,D2.ijkl[0],D2.ijkr[0],D2.ijkl[1],D2.ijkr[1],
D2.ijkl[2],D2.ijkr[2],pD->InputBlock,D1.ijkl[0],D1.ijkr[0],
D1.ijkl[1],D1.ijkr[1],D1.ijkl[2],D1.ijkr[2]);
}
if ((D2.ijkl[dim] < D1.ijkl[dim]) ||
(D2.ijkr[dim] > D1.ijkr[dim])) {
for (i=0; i<nDim; i++) {
D1.ijkl[i] /= irefine; /* report indices scaled to root */
D1.ijkr[i] /= irefine;
D2.ijkl[i] /= irefine;
D2.ijkr[i] /= irefine;
}
ath_error("[init_mesh] child Domain D%d[is,ie,js,je,ks,ke]=[%d %d %d %d %d %d] extends past parent D%d[is,ie,js,je,ks,ke]=[%d %d %d %d %d %d]\n",
pCD->InputBlock,D2.ijkl[0],D2.ijkr[0],D2.ijkl[1],D2.ijkr[1],
D2.ijkl[2],D2.ijkr[2],pD->InputBlock,D1.ijkl[0],D1.ijkr[0],
D1.ijkl[1],D1.ijkr[1],D1.ijkl[2],D1.ijkr[2]);
}
if (((2*(D2.ijkl[dim]-D1.ijkl[dim]) < nghost) &&
(2*(D2.ijkl[dim]-D1.ijkl[dim]) > 0 )) ||
((2*(D1.ijkr[dim]-D2.ijkr[dim]) < nghost) &&
(2*(D1.ijkr[dim]-D2.ijkr[dim]) > 0 ))) {
for (i=0; i<nDim; i++) {
D1.ijkl[i] /= irefine; /* report indices scaled to root */
D1.ijkr[i] /= irefine;
D2.ijkl[i] /= irefine;
D2.ijkr[i] /= irefine;
}
ath_error("[init_mesh] child Domain D%d[is,ie,js,je,ks,ke]=[%d %d %d %d %d %d] closer than nghost/2 to parent D%d[is,ie,js,je,ks,ke]=[%d %d %d %d %d %d]\n",
pCD->InputBlock,D2.ijkl[0],D2.ijkr[0],D2.ijkl[1],D2.ijkr[1],
D2.ijkl[2],D2.ijkr[2],pD->InputBlock,D1.ijkl[0],D1.ijkr[0],
D1.ijkl[1],D1.ijkr[1],D1.ijkl[2],D1.ijkr[2]);
}
}
}
}
}}
/*--- Step 6: Divide each Domain into Grids, and allocate to processor(s) ---*/
/* Get the number of Grids in each direction. These are given either in the
* <domain?> block in the input file, or by automatic decomposition given the
* number of processor desired for this domain. */
next_procID = 0; /* start assigning processors to Grids at ID=0 */
for (nl=0; nl<=maxlevel; nl++){
for (nd=0; nd<(pM->DomainsPerLevel[nl]); nd++){
pD = (DomainS*)&(pM->Domain[nl][nd]); /* set ptr to this Domain */
sprintf(block,"domain%d",pD->InputBlock);
#ifndef MPI_PARALLEL
for (i=0; i<3; i++) pD->NGrid[i] = 1;
#else
nproc = par_geti_def(block,"AutoWithNProc",0);
/* Read layout of Grids from input file */
if (nproc == 0){
pD->NGrid[0] = par_geti_def(block,"NGrid_x1",1);
pD->NGrid[1] = par_geti_def(block,"NGrid_x2",1);
pD->NGrid[2] = par_geti_def(block,"NGrid_x3",1);
if (pD->NGrid[0] == 0)
ath_error("[init_mesh] Cannot enter NGrid_x1=0 in %s\n",block);
if (pD->NGrid[1] == 0)
ath_error("[init_mesh] Cannot enter NGrid_x2=0 in %s\n",block);
if (pD->NGrid[2] == 0)
ath_error("[init_mesh] Cannot enter NGrid_x3=0 in %s\n",block);
}
/* Auto decompose Domain into Grids. To use this option, set "AutoWithNProc"
* to number of processors desired for this Domain */
else if (nproc > 0){
if(dom_decomp(pD->Nx[0],pD->Nx[1],pD->Nx[2],nproc,
&(pD->NGrid[0]),&(pD->NGrid[1]),&(pD->NGrid[2])))
ath_error("[init_mesh]: Error in automatic Domain decomposition\n");
/* Store the domain decomposition in the par database */
par_seti(block,"NGrid_x1","%d",pD->NGrid[0],"x1 decomp");
par_seti(block,"NGrid_x2","%d",pD->NGrid[1],"x2 decomp");
par_seti(block,"NGrid_x3","%d",pD->NGrid[2],"x3 decomp");
} else {
ath_error("[init_mesh] invalid AutoWithNProc=%d in %s\n",nproc,block);
}
#endif /* MPI_PARALLEL */
/* test for conflicts between number of grids and dimensionality */
for (i=0; i<3; i++){
if(pD->NGrid[i] > 1 && pD->Nx[i] <= 1)
ath_error("[init_mesh]: %s/NGrid_x%d = %d and Nx%d = %d\n",block,
(i+1),pD->NGrid[i],(i+1),pD->Nx[i]);
}
/* check there are more processors than Grids needed by this Domain. */
nproc = (pD->NGrid[0])*(pD->NGrid[1])*(pD->NGrid[2]);
if(nproc > Nproc_Comm_world) ath_error(
"[init_mesh]: %d Grids requested by block %s and only %d procs\n"
,nproc,block,Nproc_Comm_world);
/* Build 3D array to store data on Grids in this Domain */
if ((pD->GData = (GridsDataS***)calloc_3d_array(pD->NGrid[2],pD->NGrid[1],
pD->NGrid[0],sizeof(GridsDataS))) == NULL) ath_error(
"[init_mesh]: GData calloc returned a NULL pointer\n");
/* Divide the domain into blocks */
for (i=0; i<3; i++) {
xdiv[i] = div(pD->Nx[i], pD->NGrid[i]);
}
/* Distribute cells in Domain to Grids. Assign each Grid to a processor ID in
* the MPI_COMM_WORLD communicator. For single-processor jobs, there is only
* one ID=0, and the GData array will have only one element. */
for(n=0; n<(pD->NGrid[2]); n++){
for(m=0; m<(pD->NGrid[1]); m++){
for(l=0; l<(pD->NGrid[0]); l++){
for (i=0; i<3; i++) pD->GData[n][m][l].Nx[i] = xdiv[i].quot;
pD->GData[n][m][l].ID_Comm_world = next_procID++;
if (next_procID > ((Nproc_Comm_world)-1)) next_procID=0;
}}}
/* If the Domain is not evenly divisible put the extra cells on the first
* Grids in each direction, maintaining the load balance as much as possible */
for(n=0; n<(pD->NGrid[2]); n++){
for(m=0; m<(pD->NGrid[1]); m++){
for(l=0; l<xdiv[0].rem; l++){
pD->GData[n][m][l].Nx[0]++;
}
}
}
xdiv[0].rem=0;
for(n=0; n<(pD->NGrid[2]); n++){
for(m=0; m<xdiv[1].rem; m++) {
for(l=0; l<(pD->NGrid[0]); l++){
pD->GData[n][m][l].Nx[1]++;
}
}
}
xdiv[1].rem=0;
for(n=0; n<xdiv[2].rem; n++){
for(m=0; m<(pD->NGrid[1]); m++){
for(l=0; l<(pD->NGrid[0]); l++){
pD->GData[n][m][l].Nx[2]++;
}
}
}
xdiv[2].rem=0;
/* Initialize displacements from origin for each Grid */
for(n=0; n<(pD->NGrid[2]); n++){
for(m=0; m<(pD->NGrid[1]); m++){
pD->GData[n][m][0].Disp[0] = pD->Disp[0];
for(l=1; l<(pD->NGrid[0]); l++){
pD->GData[n][m][l].Disp[0] = pD->GData[n][m][l-1].Disp[0] +
pD->GData[n][m][l-1].Nx[0];
}
}
}
for(n=0; n<(pD->NGrid[2]); n++){
for(l=0; l<(pD->NGrid[0]); l++){
pD->GData[n][0][l].Disp[1] = pD->Disp[1];
for(m=1; m<(pD->NGrid[1]); m++){
pD->GData[n][m][l].Disp[1] = pD->GData[n][m-1][l].Disp[1] +
pD->GData[n][m-1][l].Nx[1];
}
}
}
for(m=0; m<(pD->NGrid[1]); m++){
for(l=0; l<(pD->NGrid[0]); l++){
pD->GData[0][m][l].Disp[2] = pD->Disp[2];
for(n=1; n<(pD->NGrid[2]); n++){
pD->GData[n][m][l].Disp[2] = pD->GData[n-1][m][l].Disp[2] +
pD->GData[n-1][m][l].Nx[2];
}
}
}
} /* end loop over ndomains */
} /* end loop over nlevels */
/* check that total number of Grids was partitioned evenly over total number of
* MPI processes available (equal to one for single processor jobs) */
if (next_procID != 0)
ath_error("[init_mesh]:total # of Grids != total # of MPI procs\n");
/*--- Step 7: Allocate a Grid for each Domain on this processor --------------*/
for (nl=0; nl<=maxlevel; nl++){
for (nd=0; nd<(pM->DomainsPerLevel[nl]); nd++){
pD = (DomainS*)&(pM->Domain[nl][nd]); /* set ptr to this Domain */
sprintf(block,"domain%d",pD->InputBlock);
pD->Grid = NULL;
/* Loop over GData array, and if there is a Grid assigned to this proc,
* allocate it */
for(n=0; n<(pD->NGrid[2]); n++){
for(m=0; m<(pD->NGrid[1]); m++){
for(l=0; l<(pD->NGrid[0]); l++){
if (pD->GData[n][m][l].ID_Comm_world == myID_Comm_world) {
if ((pD->Grid = (GridS*)malloc(sizeof(GridS))) == NULL)
ath_error("[init_mesh]: Failed to malloc a Grid for %s\n",block);
}
}}}
}
}
/*--- Step 8: Create an MPI Communicator for each Domain ---------------------*/
#ifdef MPI_PARALLEL
/* Allocate memory for ranks[] array */
max_rank = 0;
for (nl=0; nl<=maxlevel; nl++){
for (nd=0; nd<(pM->DomainsPerLevel[nl]); nd++){
pD = (DomainS*)&(pM->Domain[nl][nd]); /* set ptr to this Domain */
Nranks = (pD->NGrid[0])*(pD->NGrid[1])*(pD->NGrid[2]);
max_rank = MAX(max_rank, Nranks);
}}
ranks = (int*)calloc_1d_array(max_rank,sizeof(int));
/* Extract handle of group defined by MPI_COMM_WORLD communicator */
ierr = MPI_Comm_group(MPI_COMM_WORLD, &world_group);
for (nl=0; nl<=maxlevel; nl++){
for (nd=0; nd<(pM->DomainsPerLevel[nl]); nd++){
pD = (DomainS*)&(pM->Domain[nl][nd]); /* set ptr to this Domain */
/* Load integer array with ranks of processes in MPI_COMM_WORLD updating Grids
* on this Domain. The ranks of these processes in the new Comm_Domain
* communicator created below are equal to the indices of this array */
Nranks = (pD->NGrid[0])*(pD->NGrid[1])*(pD->NGrid[2]);
groupn = 0;
for(n=0; n<(pD->NGrid[2]); n++){
for(m=0; m<(pD->NGrid[1]); m++){
for(l=0; l<(pD->NGrid[0]); l++){
ranks[groupn] = pD->GData[n][m][l].ID_Comm_world;
pD->GData[n][m][l].ID_Comm_Domain = groupn;
groupn++;
}}}
/* Create a new group for this Domain; use it to create a new communicator */
ierr = MPI_Group_incl(world_group,Nranks,ranks,&(pD->Group_Domain));
ierr = MPI_Comm_create(MPI_COMM_WORLD,pD->Group_Domain,&(pD->Comm_Domain));
}}
free_1d_array(ranks);
#endif /* MPI_PARALLEL */
/*--- Step 9: Create MPI Communicators for Child and Parent Domains ----------*/
#if defined(MPI_PARALLEL) && defined(STATIC_MESH_REFINEMENT)
/* Initialize communicators to NULL, since not all Domains use them, and
* allocate memory for ranks[] array */
for (nl=0; nl<=maxlevel; nl++){
for (nd=0; nd<(pM->DomainsPerLevel[nl]); nd++){
pM->Domain[nl][nd].Comm_Parent = MPI_COMM_NULL;
pM->Domain[nl][nd].Comm_Children = MPI_COMM_NULL;
}
}
if (maxlevel > 0) {
ranks = (int*)calloc_1d_array(Nproc_Comm_world,sizeof(int));
}
/* For each Domain up to (maxlevel-1), initialize communicator with children */
for (nl=0; nl<maxlevel; nl++){
for (nd=0; nd<pM->DomainsPerLevel[nl]; nd++){
pD = (DomainS*)&(pM->Domain[nl][nd]); /* set ptr to this Domain */
child_found = 0;
/* Load integer array with ranks of processes in MPI_COMM_WORLD updating Grids
* on this Domain, in case a child Domain is found. Set IDs in Comm_Children
* communicator based on index in rank array, in case child found. If no
* child is found these ranks will never be used. */
Nranks = (pD->NGrid[0])*(pD->NGrid[1])*(pD->NGrid[2]);
groupn = 0;
for(n=0; n<(pD->NGrid[2]); n++){
for(m=0; m<(pD->NGrid[1]); m++){
for(l=0; l<(pD->NGrid[0]); l++){
ranks[groupn] = pD->GData[n][m][l].ID_Comm_world;
pD->GData[n][m][l].ID_Comm_Children = groupn;
groupn++;
}}}
/* edges of this Domain */
for (i=0; i<3; i++) {
D1.ijkl[i] = pD->Disp[i];
D1.ijkr[i] = pD->Disp[i] + pD->Nx[i];
}
/* Loop over all Domains at next level, looking for children of this Domain */
for (ncd=0; ncd<pM->DomainsPerLevel[nl+1]; ncd++){
pCD = (DomainS*)&(pM->Domain[nl+1][ncd]); /* set ptr to potential child*/
/* edges of potential child Domain */
for (i=0; i<3; i++) {
D2.ijkl[i] = pCD->Disp[i]/2;
D2.ijkr[i] = 1;
if (pCD->Nx[i] > 1) D2.ijkr[i] = (pCD->Disp[i] + pCD->Nx[i])/2;
}
if (D1.ijkl[0] < D2.ijkr[0] && D1.ijkr[0] > D2.ijkl[0] &&
D1.ijkl[1] < D2.ijkr[1] && D1.ijkr[1] > D2.ijkl[1] &&
D1.ijkl[2] < D2.ijkr[2] && D1.ijkr[2] > D2.ijkl[2]){
child_found = 1;
/* Child found. Add child processors to ranks array, but only if they are
* different from processes currently there (including parent and any previously
* found children). Set IDs associated with Comm_Parent communicator, since on
* the child Domain this is the same as the Comm_Children communicator on the
* parent Domain */
for(n=0; n<(pCD->NGrid[2]); n++){
for(m=0; m<(pCD->NGrid[1]); m++){
for(l=0; l<(pCD->NGrid[0]); l++){
irank = -1;
for (i=0; i<Nranks; i++) {
if(pCD->GData[n][m][l].ID_Comm_world == ranks[i]) irank = i;
}
if (irank == -1) {
ranks[groupn] = pCD->GData[n][m][l].ID_Comm_world;
pCD->GData[n][m][l].ID_Comm_Parent = groupn;
groupn++;
Nranks++;
} else {
pCD->GData[n][m][l].ID_Comm_Parent = ranks[irank];
}
}}}
}
}
/* After looping over all potential child Domains, create a new communicator if
* a child was found */
if (child_found == 1) {
ierr = MPI_Group_incl(world_group, Nranks, ranks, &(pD->Group_Children));
ierr = MPI_Comm_create(MPI_COMM_WORLD,pD->Group_Children,
&pD->Comm_Children);
/* Loop over children to set Comm_Parent communicators */
for (ncd=0; ncd<pM->DomainsPerLevel[nl+1]; ncd++){
pCD = (DomainS*)&(pM->Domain[nl+1][ncd]);
for (i=0; i<3; i++) {
D2.ijkl[i] = pCD->Disp[i]/2;
D2.ijkr[i] = 1;
if (pCD->Nx[i] > 1) D2.ijkr[i] = (pCD->Disp[i] + pCD->Nx[i])/2;
}
if (D1.ijkl[0] < D2.ijkr[0] && D1.ijkr[0] > D2.ijkl[0] &&
D1.ijkl[1] < D2.ijkr[1] && D1.ijkr[1] > D2.ijkl[1] &&
D1.ijkl[2] < D2.ijkr[2] && D1.ijkr[2] > D2.ijkl[2]){
pCD->Comm_Parent = pD->Comm_Children;
}
}
}
}}
#endif /* MPI_PARALLEL & STATIC_MESH_REFINEMENT */
free(next_domainid);
return;
}
void problem(DomainS *pDomain)
{
GridS *pGrid = pDomain->Grid;
int i=0,j=0,k=0;
int is,ie,js,je,ks,ke,iprob;
Real amp,drat,vflow,b0,a,sigma,x1,x2,x3;
long int iseed = -1;
is = pGrid->is; ie = pGrid->ie;
js = pGrid->js; je = pGrid->je;
ks = pGrid->ks; ke = pGrid->ke;
/* Read problem parameters */
iprob = par_geti("problem","iprob");
vflow = par_getd("problem","vflow");
drat = par_getd("problem","drat");
amp = par_getd("problem","amp");
#ifdef MHD
b0 = par_getd("problem","b0");
#endif
/* iprob=1. Two uniform streams moving at +/- vflow, random perturbations */
if (iprob == 1) {
for (k=ks; k<=ke; k++) {
for (j=js; j<=je; j++) {
for (i=is; i<=ie; i++) {
cc_pos(pGrid,i,j,k,&x1,&x2,&x3);
pGrid->U[k][j][i].d = 1.0;
pGrid->U[k][j][i].M1 = vflow + amp*(ran2(&iseed) - 0.5);
pGrid->U[k][j][i].M2 = amp*(ran2(&iseed) - 0.5);
pGrid->U[k][j][i].M3 = 0.0;
if (fabs(x2) < 0.25) {
pGrid->U[k][j][i].d = drat;
pGrid->U[k][j][i].M1 = -drat*(vflow + amp*(ran2(&iseed) - 0.5));
pGrid->U[k][j][i].M2 = drat*amp*(ran2(&iseed) - 0.5);
}
/* Pressure scaled to give a sound speed of 1 with gamma=1.4 */
#ifndef BAROTROPIC
pGrid->U[k][j][i].E = 2.5/Gamma_1
+ 0.5*(SQR(pGrid->U[k][j][i].M1) + SQR(pGrid->U[k][j][i].M2)
+ SQR(pGrid->U[k][j][i].M3))/pGrid->U[k][j][i].d;
#endif /* BAROTROPIC */
#ifdef MHD
pGrid->B1i[k][j][i] = b0;
pGrid->U[k][j][i].B1c = b0;
#ifndef BAROTROPIC
pGrid->U[k][j][i].E += 0.5*b0*b0;
#endif /* BAROTROPIC */
#endif /* MHD */
}
#ifdef MHD
pGrid->B1i[k][j][ie+1] = b0;
#endif
}
}
}
/* iprob=2. Test suggested by E. Zweibel, based on Ryu & Jones.
* Two uniform density flows with single mode perturbation
*/
if (iprob == 2) {
a = 0.05;
sigma = 0.2;
for (k=ks; k<=ke; k++) {
for (j=js; j<=je; j++) {
for (i=is; i<=ie; i++) {
cc_pos(pGrid,i,j,k,&x1,&x2,&x3);
pGrid->U[k][j][i].d = 1.0;
pGrid->U[k][j][i].M1 = vflow*tanh(x2/a);
pGrid->U[k][j][i].M2 = amp*sin(2.0*PI*x1)*exp(-(x2*x2)/(sigma*sigma));
pGrid->U[k][j][i].M3 = 0.0;
#ifndef BAROTROPIC
pGrid->U[k][j][i].E = 1.0/Gamma_1
+ 0.5*(SQR(pGrid->U[k][j][i].M1) + SQR(pGrid->U[k][j][i].M2)
+ SQR(pGrid->U[k][j][i].M3))/pGrid->U[k][j][i].d;
#endif /* BAROTROPIC */
#ifdef MHD
pGrid->B1i[k][j][i] = b0;
pGrid->U[k][j][i].B1c = b0;
#ifndef BAROTROPIC
pGrid->U[k][j][i].E += 0.5*b0*b0;
#endif /* BAROTROPIC */
#endif /* MHD */
/* Use passive scalar to keep track of the fluids, since densities are same */
#if (NSCALARS > 0)
pGrid->U[k][j][i].s[0] = 0.0;
if (x2 > 0) pGrid->U[k][j][i].s[0] = 1.0;
#endif
}
#ifdef MHD
pGrid->B1i[k][j][ie+1] = b0;
#endif
}
}
}
/* With viscosity and/or resistivity, read eta_R and nu_V */
#ifdef OHMIC
eta_Ohm = par_getd("problem","eta");
#endif
#ifdef NAVIER_STOKES
nu_V = par_getd("problem","nu");
#endif
#ifdef BRAGINSKII
nu_V = par_getd("problem","nu");
#endif
}
void problem(Grid *pGrid, Domain *pDomain)
{
int in,i,j,k;
Real x1,x2,x3;
long p;
Vector parpos, parvel;
if (par_geti("grid","Nx2") == 1) {
ath_error("[par_epicycle]: par_epicycle must work in 2D or 3D.\n");
}
/* Initialize boxsize */
x1min = par_getd("grid","x1min");
x1max = par_getd("grid","x1max");
Lx = x1max - x1min;
x2min = par_getd("grid","x2min");
x2max = par_getd("grid","x2max");
Ly = x2max - x2min; /* for 3D problem */
if (par_geti("grid","Nx3") == 1) {
Ly = 0.0;
}
/* Read initial conditions */
Omega_0 = par_getd("problem","omega");
qshear = par_getd_def("problem","qshear",1.5);
amp = par_getd("problem","amp");
omg = sqrt(2.0*(2.0-qshear))*Omega_0;
/* particle type */
if (par_geti("particle","partypes") != 1)
ath_error("[par_epicycle]: This test only allows ONE particle species!\n");
/* particle stopping time */
tstop0[0] = par_getd_def("problem","tstop",1.0e20); /* in code unit */
if (par_geti("particle","tsmode") != 3)
ath_error("[par_epicycle]: This test only allows fixed stopping time!\n");
/* particle position */
parpos = ParticlePosition(0.0);
parvel = ParticleVelocity(parpos, 0.0);
in = ParticleLocator(parpos);
pGrid->nparticle = in;
pGrid->grproperty[0].num = in;
if (pGrid->nparticle+2 > pGrid->arrsize)
particle_realloc(pGrid, pGrid->nparticle+2);
/* Now set initial conditions for the gas */
for (k=pGrid->ks; k<=pGrid->ke; k++) {
for (j=pGrid->js; j<=pGrid->je; j++) {
for (i=pGrid->is; i<=pGrid->ie; i++) {
cc_pos(pGrid,i,j,k,&x1,&x2,&x3);
pGrid->U[k][j][i].d = 1.0;
pGrid->U[k][j][i].M1 = 0.0;
pGrid->U[k][j][i].M2 = 0.0;
pGrid->U[k][j][i].M3 = 0.0;
#ifndef FARGO
if (Ly>0.0) /* 3D */
pGrid->U[k][j][i].M2 -= qshear*Omega_0*x1;
else /* 2D */
pGrid->U[k][j][i].M3 -= qshear*Omega_0*x1;
#endif
}}}
/* Now set initial conditions for the particles */
for (p=0; p<in; p++)
{
pGrid->particle[p].property = 0;
pGrid->particle[p].x1 = parpos.x1;
pGrid->particle[p].x2 = parpos.x2;
pGrid->particle[p].x3 = parpos.x3;
pGrid->particle[p].v1 = parvel.x1;
pGrid->particle[p].v2 = parvel.x2;
pGrid->particle[p].v3 = parvel.x3;
pGrid->particle[p].pos = 1; /* grid particle */
pGrid->particle[p].my_id = p;
#ifdef MPI_PARALLEL
pGrid->particle[p].init_id = pGrid->my_id;
#endif
}
/* enroll gravitational potential function, shearing sheet BC functions */
StaticGravPot = ShearingBoxPot;
if (pGrid->my_id == 0) {
/* flush output file */
sprintf(name, "%s_Traj.dat", pGrid->outfilename);
FILE *fid = fopen(name,"w");
fclose(fid);
#ifdef MPI_PARALLEL
sprintf(name, "../%s_Traj.dat", pGrid->outfilename);
#else
sprintf(name, "%s_Traj.dat", pGrid->outfilename);
#endif
}
#ifdef MPI_PARALLEL
MPI_Bcast(name,50,MPI_CHAR,0,MPI_COMM_WORLD);
#endif
return;
}
void problem(DomainS *pDomain)
{
GridS *pGrid = pDomain->Grid;
int i,j,k,ks,pt,tsmode;
long p,q;
Real ScaleHg,tsmin,tsmax,tscrit,amin,amax,Hparmin,Hparmax;
Real *ep,*ScaleHpar,epsum,mratio,pwind,rhoaconv,etavk;
Real *epsilon,*uxNSH,*uyNSH,**wxNSH,**wyNSH;
Real rhog,h,x1,x2,x3,t,x1p,x2p,x3p,zmin,zmax,dx3_1,b;
long int iseed = myID_Comm_world; /* Initialize on the first call to ran2 */
if (pDomain->Nx[2] == 1) {
ath_error("[par_strat3d]: par_strat3d only works for 3D problem.\n");
}
#ifdef MPI_PARALLEL
if (pDomain->NGrid[2] > 2) {
ath_error(
"[par_strat3d]: The z-domain can not be decomposed into more than 2 grids\n");
}
#endif
/* Initialize boxsize */
x1min = pGrid->MinX[0];
x1max = pGrid->MaxX[0];
Lx = x1max - x1min;
x2min = pGrid->MinX[1];
x2max = pGrid->MaxX[1];
Ly = x2max - x2min;
x3min = par_getd("domain1","x3min");
x3max = par_getd("domain1","x3max");
Lz = x3max - x3min;
Lg = nghost*pGrid->dx3; /* size of the ghost zone */
ks = pGrid->ks;
/* Read initial conditions */
Omega_0 = par_getd("problem","omega");
qshear = par_getd_def("problem","qshear",1.5);
ipert = par_geti_def("problem","ipert",1);
vsc1 = par_getd_def("problem","vsc1",0.05); /* in unit of iso_sound (N.B.!) */
vsc2 = par_getd_def("problem","vsc2",0.0);
vsc1 = vsc1 * Iso_csound;
vsc2 = vsc2 * Iso_csound;
ScaleHg = Iso_csound/Omega_0;
/* particle number */
Npar = (long)(par_geti("particle","parnumgrid"));
pGrid->nparticle = Npar*npartypes;
for (i=0; i<npartypes; i++)
grproperty[i].num = Npar;
if (pGrid->nparticle+2 > pGrid->arrsize)
particle_realloc(pGrid, pGrid->nparticle+2);
ep = (Real*)calloc_1d_array(npartypes, sizeof(Real));
ScaleHpar = (Real*)calloc_1d_array(npartypes, sizeof(Real));
epsilon = (Real*)calloc_1d_array(npartypes, sizeof(Real));
wxNSH = (Real**)calloc_2d_array(pGrid->Nx[2]+1, npartypes,sizeof(Real));
wyNSH = (Real**)calloc_2d_array(pGrid->Nx[2]+1, npartypes,sizeof(Real));
uxNSH = (Real*)calloc_1d_array(pGrid->Nx[2]+1, sizeof(Real));
uyNSH = (Real*)calloc_1d_array(pGrid->Nx[2]+1, sizeof(Real));
/* particle stopping time */
tsmode = par_geti("particle","tsmode");
if (tsmode == 3) {/* fixed stopping time */
tsmin = par_getd("problem","tsmin"); /* in code unit */
tsmax = par_getd("problem","tsmax");
tscrit= par_getd("problem","tscrit");
for (i=0; i<npartypes; i++) {
tstop0[i] = tsmin*exp(i*log(tsmax/tsmin)/MAX(npartypes-1,1.0));
grproperty[i].rad = tstop0[i];
/* use fully implicit integrator for well coupled particles */
if (tstop0[i] < tscrit) grproperty[i].integrator = 3;
}
}
else {
amin = par_getd("problem","amin");
amax = par_getd("problem","amax");
for (i=0; i<npartypes; i++)
grproperty[i].rad = amin*exp(i*log(amax/amin)/MAX(npartypes-1,1.0));
if (tsmode <= 2) {/* Epstein/General regime */
/* conversion factor for rhoa */
rhoaconv = par_getd_def("problem","rhoaconv",1.0);
for (i=0; i<npartypes; i++)
grrhoa[i]=grproperty[i].rad*rhoaconv;
}
if (tsmode == 1) /* General drag formula */
alamcoeff = par_getd("problem","alamcoeff");
}
/* particle scale height */
Hparmax = par_getd("problem","hparmax"); /* in unit of gas scale height */
Hparmin = par_getd("problem","hparmin");
for (i=0; i<npartypes; i++)
ScaleHpar[i] = Hparmax*
exp(-i*log(Hparmax/Hparmin)/MAX(npartypes-1,1.0));
#ifdef FEEDBACK
mratio = par_getd_def("problem","mratio",0.0); /* total mass fraction */
pwind = par_getd_def("problem","pwind",0.0); /* power law index */
if (mratio < 0.0)
ath_error("[par_strat2d]: mratio must be positive!\n");
epsum = 0.0;
for (i=0; i<npartypes; i++)
{
ep[i] = pow(grproperty[i].rad,pwind); epsum += ep[i];
}
for (i=0; i<npartypes; i++)
{
ep[i] = mratio*ep[i]/epsum;
grproperty[i].m = sqrt(2.0*PI)*ScaleHg/Lz*ep[i]*
pGrid->Nx[0]*pGrid->Nx[1]*pGrid->Nx[2]/Npar;
}
#else
mratio = 0.0;
for (i=0; i<npartypes; i++)
ep[i] = 0.0;
#endif
/* NSH equilibrium */
for (k=pGrid->ks; k<=pGrid->ke+1; k++) {
h = pGrid->MinX[2] + (k-pGrid->ks)*pGrid->dx3;
q = k - ks;
etavk = fabs(vsc1+vsc2*SQR(h));
for (i=0; i<npartypes; i++) {
epsilon[i] = ep[i]/ScaleHpar[i]*exp(-0.5*SQR(h/ScaleHg)
*(SQR(1.0/ScaleHpar[i])-1.0))/erf(Lz/(sqrt(8.0)*ScaleHpar[i]*ScaleHg));
if (tsmode != 3)
tstop0[i] = get_ts(pGrid,i,exp(-0.5*SQR(h/ScaleHg)),Iso_csound,etavk);
}
MultiNSH(npartypes, tstop0, epsilon, etavk,
&uxNSH[q], &uyNSH[q], wxNSH[q], wyNSH[q]);
}
/* Now set initial conditions for the gas */
for (k=pGrid->ks; k<=pGrid->ke; k++) {
for (j=pGrid->js; j<=pGrid->je; j++) {
for (i=pGrid->is; i<=pGrid->ie; i++) {
cc_pos(pGrid,i,j,k,&x1,&x2,&x3);
rhog = exp(-0.5*SQR(x3/ScaleHg));
pGrid->U[k][j][i].d = rhog;
if (ipert != 1) {/* NSH velocity */
pGrid->U[k][j][i].M1 = 0.5*rhog*(uxNSH[k-ks]+uxNSH[k-ks+1]);
pGrid->U[k][j][i].M2 = 0.5*rhog*(uyNSH[k-ks]+uyNSH[k-ks+1]);
} else {
pGrid->U[k][j][i].M1 = 0.0;
pGrid->U[k][j][i].M2 = 0.0;
}
pGrid->U[k][j][i].M3 = 0.0;
#ifndef FARGO
pGrid->U[k][j][i].M2 -= qshear*rhog*Omega_0*x1;
#endif
}}}
/* Now set initial conditions for the particles */
p = 0;
dx3_1 = 1.0/pGrid->dx3;
zmin = pGrid->MinX[2];
zmax = pGrid->MaxX[2];
for (q=0; q<Npar; q++) {
for (pt=0; pt<npartypes; pt++) {
x1p = x1min + Lx*ran2(&iseed);
x2p = x2min + Ly*ran2(&iseed);
x3p = ScaleHpar[pt]*ScaleHg*Normal(&iseed);
while ((x3p >= zmax) || (x3p < zmin))
x3p = ScaleHpar[pt]*ScaleHg*Normal(&iseed);
pGrid->particle[p].property = pt;
pGrid->particle[p].x1 = x1p;
pGrid->particle[p].x2 = x2p;
pGrid->particle[p].x3 = x3p;
if (ipert != 1) {/* NSH velocity */
cellk(pGrid, x3p, dx3_1, &k, &b);
k = k-pGrid->ks; b = b - pGrid->ks;
pGrid->particle[p].v1 = (k+1-b)*wxNSH[k][pt]+(b-k)*wxNSH[k+1][pt];
pGrid->particle[p].v2 = (k+1-b)*wyNSH[k][pt]+(b-k)*wyNSH[k+1][pt];
} else {
pGrid->particle[p].v1 = 0.0;
pGrid->particle[p].v2 = vsc1+vsc2*SQR(x2p);
}
pGrid->particle[p].v3 = 0.0;
#ifndef FARGO
pGrid->particle[p].v2 -= qshear*Omega_0*x1p;
#endif
pGrid->particle[p].pos = 1; /* grid particle */
pGrid->particle[p].my_id = p;
#ifdef MPI_PARALLEL
pGrid->particle[p].init_id = myID_Comm_world;
#endif
p++;
}}
/* enroll gravitational potential function, shearing sheet BC functions */
ShearingBoxPot = StratifiedDisk;
dump_history_enroll(hst_rho_Vx_dVy, "<rho Vx dVy>");
/* set the # of the particles in list output
* (by default, output 1 particle per cell)
*/
nlis = par_geti_def("problem","nlis",pGrid->Nx[0]*pGrid->Nx[1]*pGrid->Nx[2]);
/* set the number of particles to keep track of */
ntrack = par_geti_def("problem","ntrack",2000);
/* set the threshold particle density */
dpar_thresh = par_geti_def("problem","dpar_thresh",10.0);
/* finalize */
free(ep); free(ScaleHpar);
free(epsilon);
free_2d_array(wxNSH); free_2d_array(wyNSH);
free(uxNSH); free(uyNSH);
return;
}
void problem(Grid *pGrid, Domain *pDomain)
{
int i,j,k;
long p,in;
if (par_geti("grid","Nx1") == 1 || par_geti("grid","Nx2") == 1) {
ath_error("[par_fric]: this test only works with Nx1 & Nx2 > 1\n");
}
/* Initialize boxsize */
x1min = par_getd("grid","x1min");
x1max = par_getd("grid","x1max");
x2min = par_getd("grid","x2min");
x2max = par_getd("grid","x2max");
x3min = par_getd("grid","x3min");
x3max = par_getd("grid","x3max");
x1c = 0.5*(x1min+x1max);
x2c = 0.5*(x2min+x2max);
x3c = 0.5*(x3min+x3max);
/* Read initial conditions for the gas */
v01 = par_getd("problem","v1");
v02 = par_getd("problem","v2");
v03 = par_getd("problem","v3");
/* particle type */
if (par_geti("particle","partypes") != 1)
ath_error("[par_fric]: number of particle types must be 1!\n");
/* particle stopping time */
tstop0 = par_getd("problem","tstop"); /* in code unit */
if (par_geti("particle","tsmode") != 3)
ath_error("[par_fric]: This test works only for fixed stopping time!\n");
/* initial particle position */
in = ParticleLocator(x1c, x2c, x3c);
pGrid->nparticle = in;
pGrid->grproperty[0].num = in;
if (pGrid->nparticle+2 > pGrid->arrsize)
particle_realloc(pGrid, pGrid->nparticle+2);
/* Now set initial conditions for the gas */
for (k=pGrid->ks; k<=pGrid->ke; k++) {
for (j=pGrid->js; j<=pGrid->je; j++) {
for (i=pGrid->is; i<=pGrid->ie; i++) {
pGrid->U[k][j][i].d = 1.0;
pGrid->U[k][j][i].M1 = 0.0;
pGrid->U[k][j][i].M2 = 0.0;
pGrid->U[k][j][i].M3 = 0.0;
}}}
/* Now set initial conditions for the particles */
for (p=0; p<in; p++)
{
pGrid->particle[p].property = 0;
pGrid->particle[p].x1 = x1c;
pGrid->particle[p].x2 = x2c;
pGrid->particle[p].x3 = x3c;
pGrid->particle[p].v1 = v01;
pGrid->particle[p].v2 = v02;
pGrid->particle[p].v3 = v03;
pGrid->particle[p].pos = 1; /* grid particle */
pGrid->particle[p].my_id = p;
#ifdef MPI_PARALLEL
pGrid->particle[p].init_id = pGrid->my_id;
#endif
}
if (pGrid->my_id == 0) {
/* flush output file */
sprintf(name, "%s_Err.dat", pGrid->outfilename);
FILE *fid = fopen(name,"w");
fclose(fid);
#ifdef MPI_PARALLEL
sprintf(name, "../%s_Err.dat", pGrid->outfilename);
#else
sprintf(name, "%s_Err.dat", pGrid->outfilename);
#endif
}
#ifdef MPI_PARALLEL
MPI_Bcast(name,50,MPI_CHAR,0,MPI_COMM_WORLD);
#endif
return;
}
void problem(Grid *pGrid, Domain *pDomain)
{
int i=0,j=0,k=0;
int is,ie,js,je,ks,ke,n,wavedir,nwave,samp;
Real x1,x2,x3,x1max,x1min,x2max,x2min,amp,vflow,kw;
#ifdef PARTICLES
long p;
int Npar,ip,jp;
Real x1p,x2p,x3p,x1l,x1u,x2l,x2u;
Real par_amp, factor2;
#endif
if ((par_geti("grid","Nx2") == 1) || (par_geti("grid","Nx3") > 1)) {
ath_error("[par_linearwave1d]: par_linearwave1d must work in 2D grid.\n");
}
is = pGrid->is; ie = pGrid->ie;
js = pGrid->js; je = pGrid->je;
ks = pGrid->ks; ke = pGrid->ke;
/* Read initial conditions */
amp = par_getd("problem","amp");
wavedir = par_geti("problem","wavedir");
vflow = par_getd("problem","vflow");
nwave = par_geti("problem","nwave");
samp = par_geti("problem","sample");
x1min = par_getd("grid","x1min");
x1max = par_getd("grid","x1max");
x2min = par_getd("grid","x2min");
x2max = par_getd("grid","x2max");
if (wavedir == 1)
kw = 2.0*(PI)*nwave/(x1max-x1min);
else if (wavedir == 2)
kw = 2.0*(PI)*nwave/(x2max-x2min);
/* Now set initial conditions to wave solution */
for (k=ks; k<=ke; k++) {
for (j=js; j<=je; j++) {
for (i=is; i<=ie; i++) {
cc_pos(pGrid,i,j,k,&x1,&x2,&x3);
switch(wavedir){
case 1:
pGrid->U[k][j][i].d = 1.0+amp*sin(kw*x1);
pGrid->U[k][j][i].M1 = pGrid->U[k][j][i].d*
(vflow+amp*Iso_csound*sin(kw*x1));
pGrid->U[k][j][i].M2 = 0.0;
break;
case 2:
pGrid->U[k][j][i].d = 1.0+amp*sin(kw*x2);
pGrid->U[k][j][i].M1 = 0.0;
pGrid->U[k][j][i].M2 = pGrid->U[k][j][i].d*
(vflow+amp*Iso_csound*sin(kw*x2));
break;
default:
ath_error("[par_linearwave1d]: wavedir must be either 1 or 2!\n");
}
pGrid->U[k][j][i].M3 = 0.0;
#if (NSCALARS > 0)
if (samp == 1)
for (n=0; n<NSCALARS; n++)
pGrid->U[k][j][i].s[n] = pGrid->U[k][j][i].d;
else
for (n=0; n<NSCALARS; n++)
pGrid->U[k][j][i].s[n] = 1.0;
#endif
}}}
/* Read initial conditions for the particles */
#ifdef PARTICLES
/* basic parameters */
if (par_geti("particle","partypes") != 1)
ath_error("[par_linwave1d]: This test only allows ONE particle species!\n");
Npar = (int)(sqrt(par_geti("particle","parnumcell")));
pGrid->nparticle = Npar*Npar*pGrid->Nx1*pGrid->Nx2;
pGrid->grproperty[0].num = pGrid->nparticle;
if (pGrid->nparticle+2 > pGrid->arrsize)
particle_realloc(pGrid, pGrid->nparticle+2);
/* particle stopping time */
tstop0[0] = par_getd_def("problem","tstop",0.0); /* in code unit */
if (par_geti("particle","tsmode") != 3)
ath_error("[par_linwave1d]: This test only allows fixed stopping time!\n");
/* particle perturbation amplitude */
switch(wavedir){
case 1:
par_amp = amp*kw*pGrid->dx1/sin(kw*pGrid->dx1);
factor2 = 0.5*tan(kw*pGrid->dx1)/(kw*pGrid->dx1);
break;
case 2:
par_amp = amp*kw*pGrid->dx2/sin(kw*pGrid->dx2);
factor2 = 0.5*tan(kw*pGrid->dx2)/(kw*pGrid->dx2);
break;
default:
ath_error("[par_linearwave1d]: wavedir must be either 1 or 2!\n");
}
//par_amp=amp;
//factor2 = 0.5;
/* Now set initial conditions for the particles */
p = 0;
x3p = pGrid->x3_0 + (pGrid->ks+pGrid->kdisp)*pGrid->dx3;
for (j=pGrid->js; j<=pGrid->je; j++)
{
x2l = pGrid->x2_0 + (j+pGrid->jdisp)*pGrid->dx2;
x2u = pGrid->x2_0 + ((j+pGrid->jdisp)+1.0)*pGrid->dx2;
for (i=pGrid->is; i<=pGrid->ie; i++)
{
x1l = pGrid->x1_0 + (i + pGrid->idisp)*pGrid->dx1;
x1u = pGrid->x1_0 + ((i + pGrid->idisp) + 1.0)*pGrid->dx1;
for (ip=0;ip<Npar;ip++)
{
x1p = x1l+(x1u-x1l)/Npar*(ip+0.5);
for (jp=0;jp<Npar;jp++)
{
x2p = x2l+(x2u-x2l)/Npar*(jp+0.5);
pGrid->particle[p].property = 0;
switch(wavedir){
case 1:
pGrid->particle[p].x1 = x1p;
if (samp == 1) {
pGrid->particle[p].x1 += par_amp*cos(kw*x1p)/kw
- factor2*SQR(par_amp)*sin(2.0*kw*x1p)/kw;
}
pGrid->particle[p].x2 = x2p;
pGrid->particle[p].v1 = vflow+amp*Iso_csound*sin(kw*x1p);
pGrid->particle[p].v2 = 0.0;
break;
case 2:
pGrid->particle[p].x1 = x1p;
pGrid->particle[p].x2 = x2p;
if (samp == 1) {
pGrid->particle[p].x2 += par_amp*cos(kw*x2p)/kw
- factor2*SQR(par_amp)*sin(2.0*kw*x2p)/kw;
}
pGrid->particle[p].v1 = 0.0;
pGrid->particle[p].v2 = vflow+amp*Iso_csound*sin(kw*x2p);
break;
default:
ath_error("[par_linearwave1d]: wavedir must be either 1 or 2!\n");
}
pGrid->particle[p].x3 = x3p;
pGrid->particle[p].v3 = 0.0;
pGrid->particle[p].pos = GetPosition(&pGrid->particle[p]);
pGrid->particle[p].my_id = p;
#ifdef MPI_PARALLEL
pGrid->particle[p].init_id = pGrid->my_id;
#endif
p += 1;
}
}
}
}
#endif /* PARTICLES */
return;
}
void Userwork_after_loop(Grid *pGrid, Domain *pDomain)
{
int i=0,j=0,k=0;
int is,ie,js,je,ks,ke,n,wavedir,nwave,samp;
Real x1,x2,x3,x1max,x1min,x2max,x2min,amp,vflow,kw;
Real time,omega,SolGasd,SolLagd;
char *fname;
is = pGrid->is; ie = pGrid->ie;
js = pGrid->js; je = pGrid->je;
ks = pGrid->ks; ke = pGrid->ke;
/* Read initial conditions */
amp = par_getd("problem","amp");
wavedir = par_geti("problem","wavedir");
vflow = par_getd("problem","vflow");
nwave = par_geti("problem","nwave");
samp = par_geti("problem","sample");
x1min = par_getd("grid","x1min");
x1max = par_getd("grid","x1max");
x2min = par_getd("grid","x2min");
x2max = par_getd("grid","x2max");
/* calculate dispersion relation */
if (wavedir == 1)
kw = 2.0*(PI)*nwave/(x1max-x1min);
else if (wavedir == 2)
kw = 2.0*(PI)*nwave/(x2max-x2min);
time = pGrid->time;
omega = kw*Iso_csound;
/* Bin particles to grid */
particle_to_grid(pGrid, pDomain, property_all);
/* Print error to file "Par_LinWave-errors.#.dat", where #=wavedir */
fname = ath_fname(NULL,"Par_LinWave1d-errors",1,wavedir,NULL,"dat");
/* Open output file in write mode */
FILE *fid = fopen(fname,"w");
/* Calculate the error and output */
switch(wavedir){
case 1:
fprintf(fid, "%f %d\n", time, ie-is+1);
for (i=is; i<=ie; i++) {
/* calculate analytic solution */
cc_pos(pGrid,i,js,ks,&x1,&x2,&x3);
SolGasd = 1.0+amp*sin(kw*(x1-vflow*time)-omega*time);
if (samp == 1)
SolLagd = SolGasd;
else
SolLagd = SolGasd-amp*sin(kw*(x1-vflow*time));
/* output */
fprintf(fid,"%f ",x1);
fprintf(fid,"%e %e %e ",pGrid->U[ks][js][i].d-1.0,
SolGasd-1.0,pGrid->U[ks][js][i].d-SolGasd);
fprintf(fid,"%e %e %e ",pG->Coup[ks][js][i].grid_d-1.0,
SolLagd-1.0,pG->Coup[ks][js][i].grid_d-SolLagd);
#if (NSCALARS > 0)
for (n=0; n<NSCALARS; n++)
fprintf(fid,"%e %e ",pGrid->U[ks][js][i].s[n]-1.0,
pGrid->U[ks][js][i].s[n]-SolLagd);
#endif
fprintf(fid,"\n");
}
break;
case 2:
fprintf(fid, "%f %d\n", time, je-js+1);
for (j=js; j<=je; j++) {
/* calculate analytic solution */
cc_pos(pGrid,is,j,ks,&x1,&x2,&x3);
SolGasd = 1.0+amp*sin(kw*(x2-vflow*time)-omega*time);
if (samp == 1)
SolLagd = SolGasd;
else
SolLagd = SolGasd-amp*sin(kw*(x2-vflow*time));
/* output */
fprintf(fid,"%f ",x2);
fprintf(fid,"%e %e %e ",pGrid->U[ks][j][is].d-1.0,
SolGasd-1.0,pGrid->U[ks][j][is].d-SolGasd);
fprintf(fid,"%e %e %e ",pG->Coup[ks][j][is].grid_d-1.0,
SolLagd-1.0,pG->Coup[ks][j][is].grid_d-SolLagd);
#if (NSCALARS > 0)
for (n=0; n<NSCALARS; n++)
fprintf(fid,"%e %e ",pGrid->U[ks][j][is].s[n]-1.0,
pGrid->U[ks][j][is].s[n]-SolLagd);
#endif
fprintf(fid,"\n");
}
break;
}
fclose(fid);
return;
}
/* problem: */
void problem(DomainS *pDomain)
{
GridS *pG = pDomain->Grid;
int i,j,k;
int is,ie,il,iu,js,je,jl,ju,ks,ke,kl,ku;
int nx1,nx2,nx3;
Real x1,x2,x3;
Real xs,vs,v,pgas0,pgas,alpha,beta,a,b,converged;
is = pG->is; ie = pG->ie; nx1 = ie-is+1;
js = pG->js; je = pG->je; nx2 = je-js+1;
ks = pG->ks; ke = pG->ke; nx3 = ke-ks+1;
il = is-nghost*(nx1>1); iu = ie+nghost*(nx1>1); nx1 = iu-il+1;
jl = js-nghost*(nx2>1); ju = je+nghost*(nx2>1); nx2 = ju-jl+1;
kl = ks-nghost*(nx3>1); ku = ke+nghost*(nx3>1); nx3 = ku-kl+1;
#ifdef MHD
ath_error("[cylwindrot]: This problem only works in hydro!\n");
#endif
#ifndef CYLINDRICAL
ath_error("[cylwindrot]: This problem only works in cylindrical!\n");
#endif
if (nx1==1) {
ath_error("[cylwindrot]: This problem can only be run in 2D or 3D!\n");
}
else if (nx2==1 && nx3>1) {
ath_error("[cylwindrot]: Only (R,phi) can be used in 2D!\n");
}
/* Allocate memory for solution */
if ((RootSoln = (ConsS***)calloc_3d_array(nx3,nx2,nx1,sizeof(ConsS))) == NULL)
ath_error("[cylwindrot]: Error allocating memory for solution\n");
ang_mom = par_getd("problem","ang_mom");
c_infty = par_getd("problem","c_infty");
vz0 = par_getd("problem","vz0");
iprob = par_geti("problem","iprob");
printf("gamma = %f,\t ang_mom = %f,\t c_infty = %f\n", Gamma, ang_mom, c_infty);
beta = 2.0*Gamma_1/(Gamma+1.0);
xs = (3.0-Gamma+sqrt(SQR(Gamma-3.0)-16.0*SQR(ang_mom)))/4.0;
lambda_s = 1.0/Gamma_1*pow(xs,beta)+pow(xs,beta-1.0)-0.5*SQR(ang_mom)*pow(xs,beta-2.0);
lambda_s = pow(lambda_s/(0.5+1.0/Gamma_1),1.0/beta);
vs = c_infty*pow(lambda_s/xs,0.5*beta);
printf("xs = %13.10f,\t lambda_s = %13.10f,\t vs = %13.10f\n", xs, lambda_s, vs);
// Compute 1D wind/accretion solution
for (i=il; i<=iu; i++) {
cc_pos(pG,i,j,k,&x1,&x2,&x3);
memset(&(pG->U[ks][js][i]),0.0,sizeof(ConsS));
vs = pow(lambda_s/x1,0.5*beta);
switch(iprob) {
case 1: /* Wind */
if (x1 < xs) {
a = TINY_NUMBER; b = vs;
}
else {
a = vs; b = HUGE_NUMBER;
}
break;
case 2: /* Accretion */
if (x1 < xs) {
a = vs; b = HUGE_NUMBER;
}
else {
a = TINY_NUMBER; b = vs;
}
break;
default: ath_error("[cylwindrot]: Not an accepted problem number!\n");
}
converged = bisection(myfunc,a,b,x1,&v);
if (!converged) ath_error("[cylwindrot]: Bisection did not converge!\n");
pG->U[ks][js][i].d = lambda_s/(x1*v);
pG->U[ks][js][i].M1 = lambda_s/x1;
if (iprob==2)
pG->U[ks][js][i].M1 *= -1.0;
pG->U[ks][js][i].M2 = pG->U[ks][js][i].d*ang_mom/x1;
pG->U[ks][js][i].M3 = pG->U[ks][js][i].d*vz0;
/* Initialize total energy */
#ifndef ISOTHERMAL
pgas0 = 1.0/Gamma;
pgas = pgas0*pow(pG->U[ks][js][i].d,Gamma);
pG->U[ks][js][i].E = pgas/Gamma_1
+ 0.5*(SQR(pG->U[ks][js][i].M1) + SQR(pG->U[ks][js][i].M2) + SQR(pG->U[ks][js][i].M3))/pG->U[ks][js][i].d;
#endif /* ISOTHERMAL */
}
/* Copy 1D solution and save */
for (k=kl; k<=ku; k++) {
for (j=jl; j<=ju; j++) {
for (i=il; i<=iu; i++) {
pG->U[k][j][i] = pG->U[ks][js][i];
RootSoln[k][j][i] = pG->U[ks][js][i];
}
}
}
StaticGravPot = grav_pot;
bvals_mhd_fun(pDomain,left_x1,do_nothing_bc);
bvals_mhd_fun(pDomain,right_x1,do_nothing_bc);
return;
}
void problem(DomainS *pDomain)
{
GridS *pGrid = pDomain->Grid;
int i=0,j=0,k=0;
int is,ie,js,je,ks,ke,iprob;
long int iseed = -1;
Real amp,x1,x2,x3,lx,ly,lz,rhoh,L_rot,fact;
#ifdef MHD
Real b0,angle;
#endif
int ixs, jxs, kxs;
is = pGrid->is; ie = pGrid->ie;
js = pGrid->js; je = pGrid->je;
ks = pGrid->ks; ke = pGrid->ke;
lx = pDomain->RootMaxX[0] - pDomain->RootMinX[0];
ly = pDomain->RootMaxX[1] - pDomain->RootMinX[1];
lz = pDomain->RootMaxX[2] - pDomain->RootMinX[2];
/* Ensure a different initial random seed for each process in an MPI calc. */
ixs = pGrid->Disp[0];
jxs = pGrid->Disp[1];
kxs = pGrid->Disp[2];
iseed = -1 - (ixs + pDomain->Nx[0]*(jxs + pDomain->Nx[1]*kxs));
/* Read perturbation amplitude, problem switch, background density */
amp = par_getd("problem","amp");
iprob = par_geti("problem","iprob");
rhoh = par_getd_def("problem","rhoh",3.0);
/* Distance over which field is rotated */
L_rot = par_getd_def("problem","L_rot",0.0);
/* Read magnetic field strength, angle [should be in degrees, 0 is along +ve
* X-axis (no rotation)] */
#ifdef MHD
b0 = par_getd("problem","b0");
angle = par_getd("problem","angle");
angle = (angle/180.)*PI;
#endif
/* 2D PROBLEM --------------------------------------------------------------- */
/* Initialize two fluids with interface at y=0.0. Pressure scaled to give a
* sound speed of 1 at the interface in the light (lower, d=1) fluid
* Perturb V2 using single (iprob=1) or multiple (iprob=2) mode
*/
if (pGrid->Nx[2] == 1) {
for (k=ks; k<=ke; k++) {
for (j=js; j<=je; j++) {
for (i=is; i<=ie; i++) {
cc_pos(pGrid,i,j,k,&x1,&x2,&x3);
pGrid->U[k][j][i].d = 1.0;
pGrid->U[k][j][i].E = (1.0/Gamma - 0.1*x2)/Gamma_1;
pGrid->U[k][j][i].M1 = 0.0;
if (iprob == 1) {
pGrid->U[k][j][i].M2 = amp/4.0*
(1.0+cos(2.0*PI*x1/lx))*(1.0+cos(2.0*PI*x2/ly));
}
else {
pGrid->U[k][j][i].M2 = amp*(ran2(&iseed) - 0.5)*
(1.0+cos(2.0*PI*x2/ly));
}
pGrid->U[k][j][i].M3 = 0.0;
if (x2 > 0.0) {
pGrid->U[k][j][i].d = 2.0;
pGrid->U[k][j][i].M2 *= 2.0;
pGrid->U[k][j][i].E = (1.0/Gamma - 0.2*x2)/Gamma_1;
}
pGrid->U[k][j][i].E+=0.5*SQR(pGrid->U[k][j][i].M2)/pGrid->U[k][j][i].d;
#ifdef MHD
pGrid->B1i[k][j][i] = b0;
pGrid->U[k][j][i].B1c = b0;
pGrid->U[k][j][i].E += 0.5*b0*b0;
#endif
}
#ifdef MHD
pGrid->B1i[k][j][ie+1] = b0;
#endif
}
}
/* Enroll gravitational potential to give acceleration in y-direction for 2D
* Use special boundary condition routines. In 2D, gravity is in the
* y-direction, so special boundary conditions needed for x2
*/
StaticGravPot = grav_pot2;
if (pDomain->Disp[1] == 0) bvals_mhd_fun(pDomain, left_x2, reflect_ix2);
if (pDomain->MaxX[1] == pDomain->RootMaxX[1])
bvals_mhd_fun(pDomain, right_x2, reflect_ox2);
} /* end of 2D initialization */
/* 3D PROBLEM ----------------------------------------------------------------*/
/* Initialize two fluids with interface at z=0.0
* Pressure scaled to give a sound speed of 1 at the interface
* in the light (lower, d=1) fluid
* iprob = 1 -- Perturb V3 using single mode
* iprob = 2 -- Perturb V3 using multiple mode
* iprob = 3 -- B in light fluid only, with multimode perturbation
* iprob = 4 -- B rotated by "angle" at interface, multimode perturbation
*/
if (pGrid->Nx[2] > 1) {
for (k=ks; k<=ke; k++) {
for (j=js; j<=je; j++) {
for (i=is; i<=ie; i++) {
cc_pos(pGrid,i,j,k,&x1,&x2,&x3);
pGrid->U[k][j][i].d = 1.0;
pGrid->U[k][j][i].E = (1.0/Gamma - 0.1*x3)/Gamma_1;
pGrid->U[k][j][i].M1 = 0.0;
pGrid->U[k][j][i].M2 = 0.0;
if (iprob == 1) {
pGrid->U[k][j][i].M3 = amp/8.0*(1.0+cos(2.0*PI*x1/lx))*
(1.0+cos(2.0*PI*x2/ly))*(1.0+cos(2.0*PI*x3/lz));
}
else {
pGrid->U[k][j][i].M3 = amp*(ran2(&iseed) - 0.5)*
(1.0+cos(2.0*PI*x3/lz));
}
if (x3 > 0.0) {
pGrid->U[k][j][i].d = rhoh;
pGrid->U[k][j][i].M3 *= rhoh;
pGrid->U[k][j][i].E = (1.0/Gamma - 0.1*rhoh*x3)/Gamma_1;
}
pGrid->U[k][j][i].E+=0.5*SQR(pGrid->U[k][j][i].M3)/pGrid->U[k][j][i].d;
#ifdef MHD
switch(iprob){
case 3: /* B only in light fluid, do not add B^2 to E, total P const */
if (x3 <= 0.0) {
pGrid->B1i[k][j][i] = b0;
if (i == ie) pGrid->B1i[k][j][ie+1] = b0;
pGrid->U[k][j][i].B1c = b0;
}
break;
case 4: /* discontinuous rotation of B by angle at interface */
if (x3 <= 0.0) {
pGrid->B1i[k][j][i] = b0;
if (i == ie) pGrid->B1i[k][j][ie+1] = b0;
pGrid->U[k][j][i].B1c = b0;
pGrid->U[k][j][i].E += 0.5*b0*b0;
}
else {
pGrid->B1i[k][j][i] = b0*cos(angle);
pGrid->B2i[k][j][i] = b0*sin(angle);
if (i == ie) pGrid->B1i[k][j][ie+1] = b0*cos(angle);
if (j == je) pGrid->B2i[k][je+1][i] = b0*sin(angle);
pGrid->U[k][j][i].B1c = b0*cos(angle);
pGrid->U[k][j][i].B2c = b0*sin(angle);
pGrid->U[k][j][i].E += 0.5*b0*b0;
}
break;
case 5: /* rotation of B by angle over distance L_rot at interface */
if (x3 <= (-L_rot/2.0)) {
pGrid->B1i[k][j][i] = b0;
if (i == ie) pGrid->B1i[k][j][ie+1] = b0;
pGrid->U[k][j][i].B1c = b0;
pGrid->U[k][j][i].E += 0.5*b0*b0;
}
else if (x3 >= (L_rot/2.0)) {
pGrid->B1i[k][j][i] = b0*cos(angle);
pGrid->B2i[k][j][i] = b0*sin(angle);
if (i == ie) pGrid->B1i[k][j][ie+1] = b0*cos(angle);
if (j == je) pGrid->B2i[k][je+1][i] = b0*sin(angle);
pGrid->U[k][j][i].B1c = b0*cos(angle);
pGrid->U[k][j][i].B2c = b0*sin(angle);
pGrid->U[k][j][i].E += 0.5*b0*b0;
}
else {
fact = ((L_rot/2.0)+x3)/L_rot;
pGrid->B1i[k][j][i] = b0*cos(fact*angle);
pGrid->B2i[k][j][i] = b0*sin(fact*angle);
if (i == ie) pGrid->B1i[k][j][ie+1] = b0*cos(fact*angle);
if (j == je) pGrid->B2i[k][je+1][i] = b0*sin(fact*angle);
pGrid->U[k][j][i].B1c = b0*cos(fact*angle);
pGrid->U[k][j][i].B2c = b0*sin(fact*angle);
pGrid->U[k][j][i].E += 0.5*b0*b0;
}
break;
default:
pGrid->B1i[k][j][i] = b0;
if (i == ie) pGrid->B1i[k][j][ie+1] = b0;
pGrid->U[k][j][i].B1c = b0;
pGrid->U[k][j][i].E += 0.5*b0*b0;
}
#endif
}
}
}
/* Enroll gravitational potential to give accn in z-direction for 3D
* Use special boundary condition routines. In 3D, gravity is in the
* z-direction, so special boundary conditions needed for x3
*/
StaticGravPot = grav_pot3;
//if (pDomain->Disp[2] == 0) bvals_mhd_fun(pDomain, left_x3, reflect_ix3);
//if (pDomain->MaxX[2] == pDomain->RootMaxX[2])
// bvals_mhd_fun(pDomain, right_x3, reflect_ox3);
} /* end of 3D initialization */
return;
}
void problem(DomainS *pDomain)
{
GridS *pGrid=(pDomain->Grid);
int i,il,iu,j,jl,ju,k,kl,ku;
int is,ie,js,je,ks,ke,nx1,nx2,nx3;
int shk_dir; /* Shock direction: {1,2,3} -> {x1,x2,x3} */
Real ang_2, ang_3; /* Rotation angles about the y and z' axis */
Real sin_a2, cos_a2, sin_a3, cos_a3;
Real x1,x2,x3;
Prim1DS Wl, Wr;
Cons1DS U1d, Ul, Ur;
Real Bxl=0.0, Bxr=0.0, Bxb=0.0;
/* speeds of shock, contact, head and foot of rarefaction for Sod test */
/* speeds of slow/fast shocks, Alfven wave and contact in RJ2a test */
Real tlim;
int err_test;
Real r,xs,xc,xf,xh,vs,vc,vf,vh;
Real xfp,xrp,xsp,xsm,xrm,xfm,vfp,vrp,vsp,vsm,vrm,vfm;
Real d0,v0,Mx,My,Mz,E0,r0,Bx,By,Bz;
#if (NSCALARS > 0)
int n;
#endif
is = pGrid->is; ie = pGrid->ie;
js = pGrid->js; je = pGrid->je;
ks = pGrid->ks; ke = pGrid->ke;
nx1 = (ie-is)+1 + 2*nghost;
nx2 = (je-js)+1 + 2*nghost;
nx3 = (ke-ks)+1 + 2*nghost;
printf("here1\n");
if (pDomain->Level == 0){
if ((RootSoln = (ConsS***)calloc_3d_array(nx3,nx2,nx1,sizeof(ConsS)))
== NULL) ath_error("[problem]: Error alloc memory for RootSoln\n");
}
/* Parse left state read from input file: dl,pl,ul,vl,wl,bxl,byl,bzl */
Wl.d = par_getd("problem","dl");
#ifdef ADIABATIC
Wl.P = par_getd("problem","pl");
#endif
Wl.Vx = par_getd("problem","v1l");
Wl.Vy = par_getd("problem","v2l");
Wl.Vz = par_getd("problem","v3l");
#ifdef MHD
Bxl = par_getd("problem","b1l");
Wl.By = par_getd("problem","b2l");
Wl.Bz = par_getd("problem","b3l");
#endif
#if (NSCALARS > 0)
Wl.r[0] = par_getd("problem","r0l");
#endif
/* Parse right state read from input file: dr,pr,ur,vr,wr,bxr,byr,bzr */
Wr.d = par_getd("problem","dr");
#ifdef ADIABATIC
Wr.P = par_getd("problem","pr");
#endif
Wr.Vx = par_getd("problem","v1r");
Wr.Vy = par_getd("problem","v2r");
Wr.Vz = par_getd("problem","v3r");
#ifdef MHD
Bxr = par_getd("problem","b1r");
Wr.By = par_getd("problem","b2r");
Wr.Bz = par_getd("problem","b3r");
if (Bxr != Bxl) ath_error(0,"[shkset1d] L/R values of Bx not the same\n");
#endif
#if (NSCALARS > 0)
Wr.r[0] = par_getd("problem","r0r");
#endif
printf("here2\n");
#ifdef SAC_INTEGRATOR
Ul = Prim1D_to_Cons1D(&Wl, &Bxl,&Bxb);
Ur = Prim1D_to_Cons1D(&Wr, &Bxr,&Bxb);
#elif defined SMAUG_INTEGRATOR
Ul = Prim1D_to_Cons1D(&Wl, &Bxl,&Bxb);
Ur = Prim1D_to_Cons1D(&Wr, &Bxr,&Bxb);
#else
Ul = Prim1D_to_Cons1D(&Wl, &Bxl);
Ur = Prim1D_to_Cons1D(&Wr, &Bxr);
#endif
printf("here3\n");
/* Parse shock direction */
shk_dir = par_geti("problem","shk_dir");
if (shk_dir != 1 && shk_dir != 2 && shk_dir != 3) {
ath_error("[problem]: shk_dir = %d must be either 1,2 or 3\n",shk_dir);
}
/* Set up the index bounds for initializing the grid */
iu = pGrid->ie + nghost;
il = pGrid->is - nghost;
if (pGrid->Nx[1] > 1) {
ju = pGrid->je + nghost;
jl = pGrid->js - nghost;
}
else {
ju = pGrid->je;
jl = pGrid->js;
}
if (pGrid->Nx[2] > 1) {
ku = pGrid->ke + nghost;
kl = pGrid->ks - nghost;
}
else {
ku = pGrid->ke;
kl = pGrid->ks;
}
printf("here4\n");
/* Initialize the grid including the ghost cells. Discontinuity is always
* located at x=0, so xmin/xmax in input file must be set appropriately. */
switch(shk_dir) {
/*--- shock in 1-direction ---------------------------------------------------*/
case 1: /* shock in 1-direction */
ang_2 = 0.0;
ang_3 = 0.0;
for (k=kl; k<=ku; k++) {
for (j=jl; j<=ju; j++) {
for (i=il; i<=iu; i++) {
cc_pos(pGrid, i, j, k, &x1, &x2, &x3);
/* set primitive and conserved variables to be L or R state */
if (x1 <= 0.0) {
U1d = Ul;
} else {
U1d = Ur;
}
/* Initialize conserved (and with SR the primitive) variables in Grid */
pGrid->U[k][j][i].d = U1d.d;
pGrid->U[k][j][i].M1 = U1d.Mx;
pGrid->U[k][j][i].M2 = U1d.My;
pGrid->U[k][j][i].M3 = U1d.Mz;
#ifdef MHD
pGrid->B1i[k][j][i] = Bxl;
pGrid->B2i[k][j][i] = U1d.By;
pGrid->B3i[k][j][i] = U1d.Bz;
pGrid->U[k][j][i].B1c = Bxl;
pGrid->U[k][j][i].B2c = U1d.By;
pGrid->U[k][j][i].B3c = U1d.Bz;
#endif
#ifdef ADIABATIC
pGrid->U[k][j][i].E = U1d.E;
#endif
#if (NSCALARS > 0)
pGrid->U[k][j][i].s[0] = U1d.s[0];
#endif
}
}
}
break;
/*--- shock in 2-direction ---------------------------------------------------*/
case 2: /* shock in 2-direction */
ang_2 = 0.0;
ang_3 = PI/2.0;
for (k=kl; k<=ku; k++) {
for (j=jl; j<=ju; j++) {
for (i=il; i<=iu; i++) {
cc_pos(pGrid, i, j, k, &x1, &x2, &x3);
/* set primitive variables to be L or R state */
if (x2 <= 0.0) {
U1d = Ul;
} else {
U1d = Ur;
}
/* Initialize conserved (and with SR the primitive) variables in Grid */
pGrid->U[k][j][i].d = U1d.d;
pGrid->U[k][j][i].M1 = -U1d.My;
pGrid->U[k][j][i].M2 = U1d.Mx;
pGrid->U[k][j][i].M3 = U1d.Mz;
#ifdef MHD
pGrid->B1i[k][j][i] = -U1d.By;
pGrid->B2i[k][j][i] = Bxl;
pGrid->B3i[k][j][i] = U1d.Bz;
pGrid->U[k][j][i].B1c = -U1d.By;
pGrid->U[k][j][i].B2c = Bxl;
pGrid->U[k][j][i].B3c = U1d.Bz;
#endif
#ifdef ADIABATIC
pGrid->U[k][j][i].E = U1d.E;
#endif
#if (NSCALARS > 0)
pGrid->U[k][j][i].s[0] = U1d.s[0];
#endif
}
}
}
break;
/*--- shock in 3-direction ---------------------------------------------------*/
case 3: /* shock in 3-direction */
ang_2 = PI/2.0;
ang_3 = 0.0;
for (k=kl; k<=ku; k++) {
for (j=jl; j<=ju; j++) {
for (i=il; i<=iu; i++) {
cc_pos(pGrid, i, j, k, &x1, &x2, &x3);
/* set primitive variables to be L or R state */
if (x3 <= 0.0) {
U1d = Ul;
} else {
U1d = Ur;
}
/* Initialize conserved (and with SR the primitive) variables in Grid */
pGrid->U[k][j][i].d = U1d.d;
pGrid->U[k][j][i].M1 = -U1d.Mz;
pGrid->U[k][j][i].M2 = U1d.My;
pGrid->U[k][j][i].M3 = U1d.Mx;
#ifdef MHD
pGrid->B1i[k][j][i] = -U1d.Bz;
pGrid->B2i[k][j][i] = U1d.By;
pGrid->B3i[k][j][i] = Bxl;
pGrid->U[k][j][i].B1c = -U1d.Bz;
pGrid->U[k][j][i].B2c = U1d.By;
pGrid->U[k][j][i].B3c = Bxl;
#endif
#ifdef ADIABATIC
pGrid->U[k][j][i].E = U1d.E;
#endif
#if (NSCALARS > 0)
pGrid->U[k][j][i].s[0] = U1d.s[0];
#endif
}
}
}
break;
default:
ath_error("[shkset1d]: invalid shk_dir = %i\n",shk_dir);
}
/* Compute Analytic solution for Sod and RJ4a tests, if required */
tlim = par_getd("time","tlim");
err_test = par_getd_def("problem","error_test",0);
if (err_test == 1) {
sin_a3 = sin(ang_3);
cos_a3 = cos(ang_3);
sin_a2 = sin(ang_2);
cos_a2 = cos(ang_2);
/* wave speeds for Sod test */
#ifdef HYDRO
vs = 1.7522; xs = vs*tlim;
vc = 0.92745; xc = vc*tlim;
vf = -0.07027; xf = vf*tlim;
vh = -1.1832; xh = vh*tlim;
#endif /* HYDRO */
/* wave speeds for RJ2a test */
#ifdef MHD
vfp = 2.2638; xfp = vfp*tlim;
vrp = (0.53432 + 1.0/sqrt(PI*1.309)); xrp = vrp*tlim;
vsp = (0.53432 + 0.48144/1.309); xsp = vsp*tlim;
vc = 0.57538; xc = vc*tlim;
vsm = (0.60588 - 0.51594/1.4903); xsm = vsm*tlim;
vrm = (0.60588 - 1.0/sqrt(PI*1.4903)); xrm = vrm*tlim;
vfm = (1.2 - 2.3305/1.08); xfm = vfm*tlim;
#endif /* MHD */
for (k=ks; k<=ke; k++) {
for (j=js; j<=je; j++) {
for (i=is; i<=ie; i++) {
cc_pos(pGrid,i,j,k,&x1,&x2,&x3);
r = cos_a2*(x1*cos_a3 + x2*sin_a3) + x3*sin_a2;
/* Sod solution */
#ifdef HYDRO
My = Mz = 0.0;
if (r > xs) {
d0 = 0.125;
Mx = 0.0;
E0 = 0.25;
r0 = 0.0;
} else if (r > xc) {
d0 = 0.26557;
Mx = 0.92745*d0;
E0 = 0.87204;
r0 = 0.0;
} else if (r > xf) {
d0 = 0.42632;
Mx = 0.92745*d0;
E0 = 0.94118;
r0 = 1.0;
} else if (r > xh) {
v0 = 0.92745*(r-xh)/(xf-xh);
d0 = 0.42632*pow((1.0+0.20046*(0.92745-v0)),5);
E0 = (0.30313*pow((1.0+0.20046*(0.92745-v0)),7))/0.4 + 0.5*d0*v0*v0;
r0 = 1.0;
Mx = v0*d0;
} else {
d0 = 1.0;
Mx = 0.0;
E0 = 2.5;
r0 = 1.0;
}
#endif /* HYDRO */
/* RJ2a solution (Dai & Woodward 1994 Tables Ia and Ib) */
#ifdef MHD
Bx = 2.0/sqrt(4.0*PI);
if (r > xfp) {
d0 = 1.0;
Mx = 0.0;
My = 0.0;
Mz = 0.0;
By = 4.0/sqrt(4.0*PI);
Bz = 2.0/sqrt(4.0*PI);
E0 = 1.0/Gamma_1 + 0.5*((Mx*Mx+My*My+Mz*Mz)/d0 + (Bx*Bx+By*By+Bz*Bz));
r0 = 0.0;
} else if (r > xrp) {
d0 = 1.3090;
Mx = 0.53432*d0;
My = -0.094572*d0;
Mz = -0.047286*d0;
By = 5.3452/sqrt(4.0*PI);
Bz = 2.6726/sqrt(4.0*PI);
E0 = 1.5844/Gamma_1 + 0.5*((Mx*Mx+My*My+Mz*Mz)/d0 + (Bx*Bx+By*By+Bz*Bz));
r0 = 0.0;
} else if (r > xsp) {
d0 = 1.3090;
Mx = 0.53432*d0;
My = -0.18411*d0;
Mz = 0.17554*d0;
By = 5.7083/sqrt(4.0*PI);
Bz = 1.7689/sqrt(4.0*PI);
E0 = 1.5844/Gamma_1 + 0.5*((Mx*Mx+My*My+Mz*Mz)/d0 + (Bx*Bx+By*By+Bz*Bz));
r0 = 0.0;
} else if (r > xc) {
d0 = 1.4735;
Mx = 0.57538*d0;
My = 0.047601*d0;
Mz = 0.24734*d0;
By = 5.0074/sqrt(4.0*PI);
Bz = 1.5517/sqrt(4.0*PI);
E0 = 1.9317/Gamma_1 + 0.5*((Mx*Mx+My*My+Mz*Mz)/d0 + (Bx*Bx+By*By+Bz*Bz));
r0 = 0.0;
} else if (r > xsm) {
d0 = 1.6343;
Mx = 0.57538*d0;
My = 0.047601*d0;
Mz = 0.24734*d0;
By = 5.0074/sqrt(4.0*PI);
Bz = 1.5517/sqrt(4.0*PI);
E0 = 1.9317/Gamma_1 + 0.5*((Mx*Mx+My*My+Mz*Mz)/d0 + (Bx*Bx+By*By+Bz*Bz));
r0 = 1.0;
} else if (r > xrm) {
d0 = 1.4903;
Mx = 0.60588*d0;
My = 0.22157*d0;
Mz = 0.30125*d0;
By = 5.5713/sqrt(4.0*PI);
Bz = 1.7264/sqrt(4.0*PI);
E0 = 1.6558/Gamma_1 + 0.5*((Mx*Mx+My*My+Mz*Mz)/d0 + (Bx*Bx+By*By+Bz*Bz));
r0 = 1.0;
} else if (r > xfm) {
d0 = 1.4903;
Mx = 0.60588*d0;
My = 0.11235*d0;
Mz = 0.55686*d0;
By = 5.0987/sqrt(4.0*PI);
Bz = 2.8326/sqrt(4.0*PI);
E0 = 1.6558/Gamma_1 + 0.5*((Mx*Mx+My*My+Mz*Mz)/d0 + (Bx*Bx+By*By+Bz*Bz));
r0 = 1.0;
} else {
d0 = 1.08;
Mx = 1.2*d0;
My = 0.01*d0;
Mz = 0.5*d0;
By = 3.6/sqrt(4.0*PI);
Bz = 2.0/sqrt(4.0*PI);
E0 = 0.95/Gamma_1 + 0.5*((Mx*Mx+My*My+Mz*Mz)/d0 + (Bx*Bx+By*By+Bz*Bz));
r0 = 1.0;
}
#endif /* MHD */
RootSoln[k][j][i].d = d0;
RootSoln[k][j][i].M1 = Mx*cos_a2*cos_a3 - My*sin_a3 - Mz*sin_a2*cos_a3;
RootSoln[k][j][i].M2 = Mx*cos_a2*sin_a3 + My*cos_a3 - Mz*sin_a2*sin_a3;
RootSoln[k][j][i].M3 = Mx*sin_a2 + Mz*cos_a2;
#ifdef MHD
RootSoln[k][j][i].B1c = Bx*cos_a2*cos_a3 - By*sin_a3 - Bz*sin_a2*cos_a3;
RootSoln[k][j][i].B2c = Bx*cos_a2*sin_a3 + By*cos_a3 - Bz*sin_a2*sin_a3;
RootSoln[k][j][i].B3c = Bx*sin_a2 + Bz*cos_a2;
#endif /* MHD */
#ifndef ISOTHERMAL
RootSoln[k][j][i].E = E0;
#endif /* ISOTHERMAL */
#if (NSCALARS > 0)
for (n=0; n<NSCALARS; n++) RootSoln[k][j][i].s[n] = r0*d0;
#endif
}
}}
} /* end calculation of analytic (root) solution */
return;
}
void problem(DomainS *pDomain)
{
GridS *pGrid = pDomain->Grid;
int i=0,j=0,k=0;
int is,ie,js,je,ks,ke,iprob;
Real amp,drat,vflow,b0,a,sigma,x1,x2,x3;
long int iseed = -1;
static int frst=1; /* flag so new history variables enrolled only once */
is = pGrid->is; ie = pGrid->ie;
js = pGrid->js; je = pGrid->je;
ks = pGrid->ks; ke = pGrid->ke;
/* Read problem parameters */
iprob = par_geti("problem","iprob");
vflow = par_getd("problem","vflow");
drat = par_getd("problem","drat");
amp = par_getd("problem","amp");
#ifdef MHD
b0 = par_getd("problem","b0");
#endif
/* iprob=1. Two uniform streams moving at +/- vflow, random perturbations */
if (iprob == 1) {
for (k=ks; k<=ke; k++) {
for (j=js; j<=je; j++) {
for (i=is; i<=ie; i++) {
cc_pos(pGrid,i,j,k,&x1,&x2,&x3);
pGrid->U[k][j][i].d = 1.0;
pGrid->U[k][j][i].M1 = vflow + amp*(ran2(&iseed) - 0.5);
pGrid->U[k][j][i].M2 = amp*(ran2(&iseed) - 0.5);
pGrid->U[k][j][i].M3 = 0.0;
if (fabs(x2) < 0.25) {
pGrid->U[k][j][i].d = drat;
pGrid->U[k][j][i].M1 = -drat*(vflow + amp*(ran2(&iseed) - 0.5));
pGrid->U[k][j][i].M2 = drat*amp*(ran2(&iseed) - 0.5);
}
/* Pressure scaled to give a sound speed of 1 with gamma=1.4 */
#ifndef BAROTROPIC
pGrid->U[k][j][i].E = 2.5/Gamma_1
+ 0.5*(SQR(pGrid->U[k][j][i].M1) + SQR(pGrid->U[k][j][i].M2)
+ SQR(pGrid->U[k][j][i].M3))/pGrid->U[k][j][i].d;
#endif /* BAROTROPIC */
#ifdef MHD
pGrid->B1i[k][j][i] = b0;
pGrid->U[k][j][i].B1c = b0;
#ifndef BAROTROPIC
pGrid->U[k][j][i].E += 0.5*b0*b0;
#endif /* BAROTROPIC */
#endif /* MHD */
}
#ifdef MHD
pGrid->B1i[k][j][ie+1] = b0;
#endif
}
}
}
/* iprob=2. Test suggested by E. Zweibel, based on Ryu & Jones.
* Two uniform density flows with single mode perturbation
*/
if (iprob == 2) {
a = 0.05;
sigma = 0.2;
for (k=ks; k<=ke; k++) {
for (j=js; j<=je; j++) {
for (i=is; i<=ie; i++) {
cc_pos(pGrid,i,j,k,&x1,&x2,&x3);
pGrid->U[k][j][i].d = 1.0;
pGrid->U[k][j][i].M1 = vflow*tanh(x2/a);
pGrid->U[k][j][i].M2 = amp*sin(2.0*PI*x1)*exp(-(x2*x2)/(sigma*sigma));
pGrid->U[k][j][i].M3 = 0.0;
#ifndef BAROTROPIC
pGrid->U[k][j][i].E = 1.0/Gamma_1
+ 0.5*(SQR(pGrid->U[k][j][i].M1) + SQR(pGrid->U[k][j][i].M2)
+ SQR(pGrid->U[k][j][i].M3))/pGrid->U[k][j][i].d;
#endif /* BAROTROPIC */
#ifdef MHD
pGrid->B1i[k][j][i] = b0;
pGrid->U[k][j][i].B1c = b0;
#ifndef BAROTROPIC
pGrid->U[k][j][i].E += 0.5*b0*b0;
#endif /* BAROTROPIC */
#endif /* MHD */
/* Use passive scalar to keep track of the fluids, since densities are same */
#if (NSCALARS > 0)
pGrid->U[k][j][i].s[0] = 0.0;
if (x2 > 0) pGrid->U[k][j][i].s[0] = 1.0;
#endif
}
#ifdef MHD
pGrid->B1i[k][j][ie+1] = b0;
#endif
}
}
}
/* iprob=3. Test in SR paper, based on iprob=2
*/
if (iprob == 3) {
a = 0.01;
sigma = 0.1;
for (k=ks; k<=ke; k++) {
for (j=js; j<=je; j++) {
for (i=is; i<=ie; i++) {
cc_pos(pGrid,i,j,k,&x1,&x2,&x3);
pGrid->U[k][j][i].d = 0.505 + 0.495*tanh((fabs(x2)-0.5)/a);
pGrid->U[k][j][i].M1 = vflow*tanh((fabs(x2)-0.5)/a);
pGrid->U[k][j][i].M2 = amp*vflow*sin(2.0*PI*x1)
*exp(-((fabs(x2)-0.5)*(fabs(x2)-0.5))/(sigma*sigma));
if (x2 < 0.0) pGrid->U[k][j][i].M2 *= -1.0;
pGrid->U[k][j][i].M1 *= pGrid->U[k][j][i].d;
pGrid->U[k][j][i].M2 *= pGrid->U[k][j][i].d;
pGrid->U[k][j][i].M3 = 0.0;
#ifndef BAROTROPIC
pGrid->U[k][j][i].E = 1.0/Gamma_1
+ 0.5*(SQR(pGrid->U[k][j][i].M1) + SQR(pGrid->U[k][j][i].M2)
+ SQR(pGrid->U[k][j][i].M3))/pGrid->U[k][j][i].d;
#endif /* BAROTROPIC */
#ifdef MHD
pGrid->B1i[k][j][i] = b0;
pGrid->U[k][j][i].B1c = b0;
#ifndef BAROTROPIC
pGrid->U[k][j][i].E += 0.5*b0*b0;
#endif /* BAROTROPIC */
#endif /* MHD */
}
#ifdef MHD
pGrid->B1i[k][j][ie+1] = b0;
#endif
}
}
}
/* With viscosity and/or resistivity, read diffusion coeffs */
#ifdef RESISTIVITY
eta_Ohm = par_getd_def("problem","eta_O",0.0);
Q_Hall = par_getd_def("problem","Q_H",0.0);
Q_AD = par_getd_def("problem","Q_AD",0.0);
#endif
#ifdef VISCOSITY
nu_iso = par_getd_def("problem","nu_iso",0.0);
nu_aniso = par_getd_def("problem","nu_aniso",0.0);
#endif
/* enroll new history variables, only once */
if (frst == 1) {
#ifdef MHD
dump_history_enroll(hst_Bx, "<Bx>");
dump_history_enroll(hst_By, "<By>");
dump_history_enroll(hst_Bz, "<Bz>");
#endif /* MHD */
frst = 0;
}
}