int main(int argc, char **argv)
{
SNES snes; /* nonlinear solver */
DM dm; /* problem definition */
Vec u, r; /* solution and residual */
AppCtx user; /* user-defined work context */
PetscErrorCode ierr;
ierr = PetscInitialize(&argc, &argv, NULL,help);if (ierr) return ierr;
ierr = ProcessOptions(PETSC_COMM_WORLD, &user);CHKERRQ(ierr);
ierr = PetscBagCreate(PETSC_COMM_WORLD, sizeof(Parameter), &user.bag);CHKERRQ(ierr);
ierr = SetupParameters(&user);CHKERRQ(ierr);
ierr = SNESCreate(PETSC_COMM_WORLD, &snes);CHKERRQ(ierr);
ierr = CreateMesh(PETSC_COMM_WORLD, &user, &dm);CHKERRQ(ierr);
ierr = SNESSetDM(snes, dm);CHKERRQ(ierr);
ierr = DMSetApplicationContext(dm, &user);CHKERRQ(ierr);
/* Setup problem */
ierr = PetscMalloc(2 * sizeof(void (*)(const PetscReal[], PetscScalar *, void *)), &user.exactFuncs);CHKERRQ(ierr);
ierr = SetupDiscretization(dm, &user);CHKERRQ(ierr);
ierr = DMPlexCreateClosureIndex(dm, NULL);CHKERRQ(ierr);
ierr = DMCreateGlobalVector(dm, &u);CHKERRQ(ierr);
ierr = VecDuplicate(u, &r);CHKERRQ(ierr);
ierr = DMPlexSetSNESLocalFEM(dm,&user,&user,&user);CHKERRQ(ierr);
ierr = SNESSetFromOptions(snes);CHKERRQ(ierr);
{
Parameter *param;
void *ctxs[2];
ierr = PetscBagGetData(user.bag, (void **) ¶m);CHKERRQ(ierr);
ctxs[0] = ctxs[1] = param;
ierr = DMProjectFunction(dm, 0.0, user.exactFuncs, ctxs, INSERT_ALL_VALUES, u);CHKERRQ(ierr);
ierr = PetscObjectSetName((PetscObject) u, "Exact Solution");CHKERRQ(ierr);
ierr = VecViewFromOptions(u, NULL, "-exact_vec_view");CHKERRQ(ierr);
}
ierr = DMSNESCheckFromOptions(snes, u, NULL, NULL);CHKERRQ(ierr);
ierr = VecSet(u, 0.0);CHKERRQ(ierr);
ierr = PetscObjectSetName((PetscObject) u, "Solution");CHKERRQ(ierr);
ierr = SNESSolve(snes, NULL, u);CHKERRQ(ierr);
ierr = VecViewFromOptions(u, NULL, "-sol_vec_view");CHKERRQ(ierr);
ierr = VecDestroy(&u);CHKERRQ(ierr);
ierr = VecDestroy(&r);CHKERRQ(ierr);
ierr = PetscFree(user.exactFuncs);CHKERRQ(ierr);
ierr = DMDestroy(&dm);CHKERRQ(ierr);
ierr = SNESDestroy(&snes);CHKERRQ(ierr);
ierr = PetscBagDestroy(&user.bag);CHKERRQ(ierr);
ierr = PetscFinalize();
return ierr;
}
int main(int argc,char **argv)
{
PetscErrorCode ierr;
PetscBag bag;
Parameter *params;
PetscViewer viewer;
PetscBool flg;
char filename[PETSC_MAX_PATH_LEN] = "binaryoutput";
/*
Every PETSc routine should begin with the PetscInitialize() routine.
argc, argv - These command line arguments are taken to extract the options
supplied to PETSc and options supplied to MPI.
help - When PETSc executable is invoked with the option -help,
it prints the various options that can be applied at
runtime. The user can use the "help" variable place
additional help messages in this printout.
*/
ierr = PetscInitialize(&argc,&argv,(char*)0,help);if (ierr) return ierr;
/* Create an empty bag */
ierr = PetscBagCreate(PETSC_COMM_WORLD,sizeof(Parameter),&bag);CHKERRQ(ierr);
ierr = PetscBagGetData(bag,(void**)¶ms);CHKERRQ(ierr);
/* register variables, defaults, names, help strings */
ierr = PetscBagSetName(bag,"ParameterBag","contains parameters for simulations of top-secret, dangerous physics");CHKERRQ(ierr);
ierr = PetscBagSetOptionsPrefix(bag, "pbag_");CHKERRQ(ierr);
ierr = PetscBagRegisterString(bag,¶ms->filename,PETSC_MAX_PATH_LEN,"myfile","filename","Name of secret file");CHKERRQ(ierr);
ierr = PetscBagRegisterReal (bag,¶ms->rho,3.0,"rho","Density, kg/m^3");CHKERRQ(ierr);
ierr = PetscBagRegisterScalar(bag,¶ms->W, 5.0,"W","Vertical velocity, m/sec");CHKERRQ(ierr);
ierr = PetscBagRegisterInt (bag,¶ms->Ii, 2,"modes_x","Number of modes in x-direction");CHKERRQ(ierr);
params->iarray[0] = 1;
params->iarray[1] = 2;
params->iarray[2] = 3;
ierr = PetscBagRegisterIntArray(bag,¶ms->iarray, 3,"int_array","Int array with 3 locations");CHKERRQ(ierr);
params->rarray[0] = -1.0;
params->rarray[1] = -2.0;
ierr = PetscBagRegisterRealArray(bag,¶ms->rarray, 2,"real_array","Real array with 2 locations");CHKERRQ(ierr);
ierr = PetscBagRegisterBool (bag,¶ms->T, PETSC_FALSE,"do_output","Write output file (yes/no)");CHKERRQ(ierr);
ierr = PetscBagRegisterBoolArray(bag,¶ms->Tarray, 3,"bool_array","Bool array with 3 locations");CHKERRQ(ierr);
ierr = PetscBagRegisterEnum (bag,¶ms->dt, PetscDataTypes,(PetscEnum)PETSC_INT,"dt","meaningless datatype");CHKERRQ(ierr);
ierr = PetscBagRegisterReal (bag,¶ms->pos.x1,1.0,"x1","x position");CHKERRQ(ierr);
ierr = PetscBagRegisterReal (bag,¶ms->pos.x2,1.9,"x2","y position");CHKERRQ(ierr);
ierr = PetscBagRegisterEnum (bag,¶ms->which, EnumeratedChoices, (PetscEnum)THAT, "choose","Express yourself by choosing among enumerated things");CHKERRQ(ierr);
/* This option allows loading user-provided PetscBag */
ierr = PetscOptionsGetString(NULL,NULL,"-f",filename,sizeof(filename),&flg);CHKERRQ(ierr);
if (!flg) {
/* write bag to stdio & binary file */
ierr = PetscBagView(bag,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr);
ierr = PetscViewerBinaryOpen(PETSC_COMM_WORLD,filename,FILE_MODE_WRITE,&viewer);CHKERRQ(ierr);
ierr = PetscBagView(bag,viewer);CHKERRQ(ierr);
ierr = PetscViewerDestroy(&viewer);CHKERRQ(ierr);
}
ierr = PetscMemzero(params,sizeof(Parameter));CHKERRQ(ierr);
/* load bag from file & write to stdio */
ierr = PetscViewerBinaryOpen(PETSC_COMM_WORLD,filename,FILE_MODE_READ,&viewer);CHKERRQ(ierr);
ierr = PetscBagLoad(viewer,bag);CHKERRQ(ierr);
ierr = PetscViewerDestroy(&viewer);CHKERRQ(ierr);
ierr = PetscBagSetFromOptions(bag);CHKERRQ(ierr);
ierr = PetscBagView(bag,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr);
/* reuse the parameter struct */
ierr = PetscBagGetData(bag,(void**)¶ms);CHKERRQ(ierr);
ierr = PetscPrintf(PETSC_COMM_WORLD,"The value of rho after loading is: %f\n",(double)params->rho);CHKERRQ(ierr);
/* clean up and exit */
ierr = PetscBagDestroy(&bag);CHKERRQ(ierr);
ierr = PetscFinalize();
return ierr;
}
int main(int argc,char **argv)
{
PetscErrorCode ierr;
PetscBag bag;
Parameter *params;
PetscViewer viewer;
DM da;
Vec global,local;
PetscMPIInt rank;
/*
Every PETSc routine should begin with the PetscInitialize() routine.
argc, argv - These command line arguments are taken to extract the options
supplied to PETSc and options supplied to MPI.
help - When PETSc executable is invoked with the option -help,
it prints the various options that can be applied at
runtime. The user can use the "help" variable place
additional help messages in this printout.
*/
ierr = PetscInitialize(&argc,&argv,(char*)0,help);if (ierr) return ierr;
/* Create a DMDA and an associated vector */
ierr = DMDACreate2d(PETSC_COMM_WORLD, DM_BOUNDARY_NONE, DM_BOUNDARY_NONE,DMDA_STENCIL_BOX,10,10,PETSC_DECIDE,PETSC_DECIDE,2,1,NULL,NULL,&da);CHKERRQ(ierr);
ierr = DMSetFromOptions(da);CHKERRQ(ierr);
ierr = DMSetUp(da);CHKERRQ(ierr);
ierr = DMCreateGlobalVector(da,&global);CHKERRQ(ierr);
ierr = DMCreateLocalVector(da,&local);CHKERRQ(ierr);
ierr = VecSet(global,-1.0);CHKERRQ(ierr);
ierr = DMGlobalToLocalBegin(da,global,INSERT_VALUES,local);CHKERRQ(ierr);
ierr = DMGlobalToLocalEnd(da,global,INSERT_VALUES,local);CHKERRQ(ierr);
ierr = MPI_Comm_rank(PETSC_COMM_WORLD,&rank);CHKERRQ(ierr);
ierr = VecScale(local,rank+1);CHKERRQ(ierr);
ierr = DMLocalToGlobalBegin(da,local,ADD_VALUES,global);CHKERRQ(ierr);
ierr = DMLocalToGlobalEnd(da,local,ADD_VALUES,global);CHKERRQ(ierr);
/* Create an empty bag */
ierr = PetscBagCreate(PETSC_COMM_WORLD,sizeof(Parameter),&bag);CHKERRQ(ierr);
ierr = PetscBagGetData(bag,(void**)¶ms);CHKERRQ(ierr);
/* fill bag: register variables, defaults, names, help strings */
ierr = PetscBagSetName(bag,"ParameterBag","contains problem parameters");CHKERRQ(ierr);
ierr = PetscBagRegisterString(bag,¶ms->filename,PETSC_MAX_PATH_LEN,"output_file","filename","Name of secret file");CHKERRQ(ierr);
ierr = PetscBagRegisterReal (bag,¶ms->ra,1.0,"param_1","The first parameter");CHKERRQ(ierr);
ierr = PetscBagRegisterInt (bag,¶ms->ia,5,"param_2","The second parameter");CHKERRQ(ierr);
ierr = PetscBagRegisterBool (bag,¶ms->ta,PETSC_TRUE,"do_output","Write output file (true/false)");CHKERRQ(ierr);
/*
Write output file with PETSC_VIEWER_BINARY_MATLAB format
NOTE: the output generated with this viewer can be loaded into
MATLAB using $PETSC_DIR/share/petsc/matlab/PetscReadBinaryMatlab.m
*/
ierr = PetscViewerBinaryOpen(PETSC_COMM_WORLD,params->filename,FILE_MODE_WRITE,&viewer);CHKERRQ(ierr);
ierr = PetscViewerPushFormat(viewer,PETSC_VIEWER_BINARY_MATLAB);CHKERRQ(ierr);
ierr = PetscBagView(bag,viewer);CHKERRQ(ierr);
ierr = DMDASetFieldName(da,0,"field1");CHKERRQ(ierr);
ierr = DMDASetFieldName(da,1,"field2");CHKERRQ(ierr);
ierr = PetscObjectSetName((PetscObject)global,"da1");CHKERRQ(ierr);
ierr = VecView(global,viewer);CHKERRQ(ierr);
ierr = PetscViewerPopFormat(viewer);CHKERRQ(ierr);
ierr = PetscViewerDestroy(&viewer);CHKERRQ(ierr);
/* clean up and exit */
ierr = PetscBagDestroy(&bag);CHKERRQ(ierr);
ierr = DMDestroy(&da);CHKERRQ(ierr);
ierr = VecDestroy(&local);CHKERRQ(ierr);
ierr = VecDestroy(&global);CHKERRQ(ierr);
ierr = PetscFinalize();
return ierr;
}
int main(int argc,char **argv)
/*-----------------------------------------------------------------------*/
{
DMMG *dmmg; /* multilevel grid structure */
AppCtx *user; /* user-defined work context */
Parameter *param;
GridInfo grid;
int ierr,result;
MPI_Comm comm;
DA da;
PetscInitialize(&argc,&argv,(char *)0,help);
comm = PETSC_COMM_WORLD;
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Set up the problem parameters.
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = PetscMalloc(sizeof(AppCtx),&user);
CHKERRQ(ierr);
ierr = PetscBagCreate(comm,sizeof(Parameter),&(user->bag));
CHKERRQ(ierr);
user->grid = &grid;
ierr = SetParams(user);
CHKERRQ(ierr);
ierr = ReportParams(user);
CHKERRQ(ierr);
ierr = PetscBagGetData(user->bag,(void**)¶m);
CHKERRQ(ierr);
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Create distributed array multigrid object (DMMG) to manage parallel grid and vectors
for principal unknowns (x) and governing residuals (f)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = DMMGCreate(comm,grid.mglevels,user,&dmmg);
CHKERRQ(ierr);
ierr = DACreate2d(comm,grid.periodic,grid.stencil,grid.ni,grid.nj,PETSC_DECIDE,PETSC_DECIDE,grid.dof,grid.stencil_width,0,0,&da);
CHKERRQ(ierr);
ierr = DMMGSetDM(dmmg,(DM)da);
CHKERRQ(ierr);
ierr = DADestroy(da);
CHKERRQ(ierr);
ierr = DAGetInfo(da,PETSC_NULL,PETSC_NULL,PETSC_NULL,PETSC_NULL,&(param->pi),&(param->pj),PETSC_NULL,PETSC_NULL,PETSC_NULL,PETSC_NULL,PETSC_NULL);
CHKERRQ(ierr);
REG_INTG(user->bag,¶m->pi,param->pi ,"procs_x","<DO NOT SET> Processors in the x-direction");
REG_INTG(user->bag,¶m->pj,param->pj ,"procs_y","<DO NOT SET> Processors in the y-direction");
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Create user context, set problem data, create vector data structures.
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = DAGetGlobalVector(da, &(user->Xold));
CHKERRQ(ierr);
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Initialize and solve the nonlinear system
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = Initialize(dmmg);
CHKERRQ(ierr);
ierr = DoSolve(dmmg);
CHKERRQ(ierr);
if (param->verify) result = param->verify_result;
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Free work space.
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = DARestoreGlobalVector(da, &(user->Xold));
CHKERRQ(ierr);
ierr = PetscBagDestroy(user->bag);
CHKERRQ(ierr);
ierr = PetscFree(user);
CHKERRQ(ierr);
ierr = DMMGDestroy(dmmg);
CHKERRQ(ierr);
ierr = PetscFinalize();
CHKERRQ(ierr);
return result;
}
PETSC_EXTERN void PETSC_STDCALL petscbagcreate_(MPI_Fint * comm,size_t *bagsize,PetscBag *bag, int *__ierr ){
*__ierr = PetscBagCreate(
MPI_Comm_f2c(*(comm)),*bagsize,bag);
}
int main(int argc,char **argv)
{
DM da;
SNES snes; /* nonlinear solver */
AppCtx *user; /* user-defined work context */
PetscBag bag;
PetscInt its; /* iterations for convergence */
PetscMPIInt size;
SNESConvergedReason reason;
PetscErrorCode ierr;
PetscReal lambda_max = 6.81, lambda_min = 0.0, error;
Vec x;
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Initialize program
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
PetscInitialize(&argc,&argv,(char*)0,help);
ierr = MPI_Comm_size(PETSC_COMM_WORLD,&size);CHKERRQ(ierr);
if (size != 1) SETERRQ(PETSC_COMM_WORLD,PETSC_ERR_SUP,"Example only works for one process.");
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Initialize problem parameters
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = PetscBagCreate(PETSC_COMM_WORLD, sizeof(AppCtx), &bag);CHKERRQ(ierr);
ierr = PetscBagGetData(bag, (void**) &user);CHKERRQ(ierr);
ierr = PetscBagSetName(bag, "params", "Parameters for SNES example 4");CHKERRQ(ierr);
ierr = PetscBagRegisterReal(bag, &user->alpha, 1.0, "alpha", "Linear coefficient");CHKERRQ(ierr);
ierr = PetscBagRegisterReal(bag, &user->lambda, 6.0, "lambda", "Nonlinear coefficient");CHKERRQ(ierr);
ierr = PetscBagSetFromOptions(bag);CHKERRQ(ierr);
ierr = PetscOptionsGetReal(NULL,"-alpha",&user->alpha,NULL);CHKERRQ(ierr);
ierr = PetscOptionsGetReal(NULL,"-lambda",&user->lambda,NULL);CHKERRQ(ierr);
if (user->lambda > lambda_max || user->lambda < lambda_min) SETERRQ3(PETSC_COMM_SELF,1,"Lambda %g is out of range [%g, %g]", (double)user->lambda, (double)lambda_min, (double)lambda_max);
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Create multilevel DM data structure (SNES) to manage hierarchical solvers
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = SNESCreate(PETSC_COMM_WORLD,&snes);CHKERRQ(ierr);
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Create distributed array (DMDA) to manage parallel grid and vectors
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = DMDACreate2d(PETSC_COMM_WORLD, DM_BOUNDARY_NONE, DM_BOUNDARY_NONE,DMDA_STENCIL_BOX,-3,-3,PETSC_DECIDE,PETSC_DECIDE,3,1,NULL,NULL,&da);CHKERRQ(ierr);
ierr = DMDASetFieldName(da, 0, "ooblek");CHKERRQ(ierr);
ierr = DMSetApplicationContext(da,user);CHKERRQ(ierr);
ierr = SNESSetDM(snes, (DM) da);CHKERRQ(ierr);
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Set the discretization functions
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = DMDASNESSetFunctionLocal(da,INSERT_VALUES,(PetscErrorCode (*)(DMDALocalInfo*,void*,void*,void*))FormFunctionLocal,user);CHKERRQ(ierr);
ierr = DMDASNESSetJacobianLocal(da,(PetscErrorCode (*)(DMDALocalInfo*,void*,Mat,Mat,void*))FormJacobianLocal,user);CHKERRQ(ierr);
ierr = SNESSetFromOptions(snes);CHKERRQ(ierr);
ierr = SNESSetComputeInitialGuess(snes, FormInitialGuess,NULL);CHKERRQ(ierr);
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Solve nonlinear system
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = SNESSolve(snes,NULL,NULL);CHKERRQ(ierr);
ierr = SNESGetIterationNumber(snes,&its);CHKERRQ(ierr);
ierr = SNESGetConvergedReason(snes, &reason);CHKERRQ(ierr);
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = PetscPrintf(PETSC_COMM_WORLD,"Number of SNES iterations = %D, %s\n",its,SNESConvergedReasons[reason]);CHKERRQ(ierr);
ierr = DMDestroy(&da);CHKERRQ(ierr);
ierr = SNESGetDM(snes,&da);CHKERRQ(ierr);
ierr = SNESGetSolution(snes,&x);CHKERRQ(ierr);
ierr = L_2Error(da, x, &error, user);CHKERRQ(ierr);
ierr = PetscPrintf(PETSC_COMM_WORLD,"L_2 error in the solution: %g\n", (double)error);CHKERRQ(ierr);
/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Free work space. All PETSc objects should be destroyed when they
are no longer needed.
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
ierr = SNESDestroy(&snes);CHKERRQ(ierr);
ierr = PetscBagDestroy(&bag);CHKERRQ(ierr);
ierr = PetscFinalize();
PetscFunctionReturn(0);
}
