1: /*
  2:    Demonstrates using the HDF5 viewer with a DMDA Vec
  3:  - create a global vector containing a gauss profile (exp(-x^2-y^2))
  4:  - write the global vector in a hdf5 file

  6:    The resulting file gauss.h5 can be viewed with Visit (an open source visualization package)
  7:    Or with some versions of MATLAB with data=hdfread('gauss.h5','pressure'); mesh(data);

  9:    The file storage of the vector is independent of the number of processes used.
 10:  */

 12:  #include <petscdm.h>
 13:  #include <petscdmda.h>
 14:  #include <petscsys.h>
 15:  #include <petscviewerhdf5.h>

 17: static char help[] = "Test to write HDF5 file from PETSc DMDA Vec.\n\n";

 19: int main(int argc,char **argv)
 20: {
 22:   DM             da2D;
 23:   PetscInt       i,j,ixs, ixm, iys, iym;
 24:   PetscViewer    H5viewer;
 25:   PetscScalar    xm    = -1.0, xp=1.0;
 26:   PetscScalar    ym    = -1.0, yp=1.0;
 27:   PetscScalar    value = 1.0,dx,dy;
 28:   PetscInt       Nx    = 40, Ny=40;
 29:   Vec            gauss,input;
 30:   PetscScalar    **gauss_ptr;
 31:   PetscReal      norm;
 32:   const char     *vecname;

 34:   dx=(xp-xm)/(Nx-1);
 35:   dy=(yp-ym)/(Ny-1);

 37:   /* Initialize the Petsc context */
 38:   PetscInitialize(&argc,&argv,(char*)0,help);if (ierr) return ierr;
 39:   DMDACreate2d(PETSC_COMM_WORLD, DM_BOUNDARY_NONE, DM_BOUNDARY_NONE,DMDA_STENCIL_STAR,Nx,Ny,PETSC_DECIDE,PETSC_DECIDE,1,1,NULL,NULL,&da2D);
 40:   DMSetFromOptions(da2D);
 41:   DMSetUp(da2D);

 43:   /* Set the coordinates */
 44:   DMDASetUniformCoordinates(da2D, 0.0, 1.0, 0.0, 1.0, 0.0, 0.0);

 46:   /* Declare gauss as a DMDA component */
 47:   DMCreateGlobalVector(da2D,&gauss);
 48:   PetscObjectSetName((PetscObject) gauss, "pressure");

 50:   /* Initialize vector gauss with a constant value (=1) */
 51:   VecSet(gauss,value);

 53:   /* Get the coordinates of the corners for each process */
 54:   DMDAGetCorners(da2D, &ixs, &iys, 0, &ixm, &iym, 0);

 56:   /* Build the gaussian profile (exp(-x^2-y^2)) */
 57:   DMDAVecGetArray(da2D,gauss,&gauss_ptr);
 58:   for (j=iys; j<iys+iym; j++) {
 59:     for (i=ixs; i<ixs+ixm; i++) {
 60:       gauss_ptr[j][i]=PetscExpScalar(-(xm+i*dx)*(xm+i*dx)-(ym+j*dy)*(ym+j*dy));
 61:     }
 62:   }
 63:   DMDAVecRestoreArray(da2D,gauss,&gauss_ptr);

 65:   /* Create the HDF5 viewer */
 66:   PetscViewerHDF5Open(PETSC_COMM_WORLD,"gauss.h5",FILE_MODE_WRITE,&H5viewer);
 67:   PetscViewerSetFromOptions(H5viewer);

 69:   /* Write the H5 file */
 70:   VecView(gauss,H5viewer);

 72:   /* Close the viewer */
 73:   PetscViewerDestroy(&H5viewer);

 75:   VecDuplicate(gauss,&input);
 76:   PetscObjectGetName((PetscObject)gauss,&vecname);
 77:   PetscObjectSetName((PetscObject)input,vecname);

 79:   /* Create the HDF5 viewer for reading */
 80:   PetscViewerHDF5Open(PETSC_COMM_WORLD,"gauss.h5",FILE_MODE_READ,&H5viewer);
 81:   PetscViewerSetFromOptions(H5viewer);
 82:   VecLoad(input,H5viewer);
 83:   PetscViewerDestroy(&H5viewer);

 85:   VecAXPY(input,-1.0,gauss);
 86:   VecNorm(input,NORM_2,&norm);
 87:   if (norm > 1.e-6) SETERRQ(PETSC_COMM_WORLD,PETSC_ERR_PLIB,"Vec read in does not match vector written out");

 89:   VecDestroy(&input);
 90:   VecDestroy(&gauss);
 91:   DMDestroy(&da2D);
 92:   PetscFinalize();
 93:   return ierr;
 94: }


 97: /*TEST

 99:       build:
100:          requires: hdf5 !define(PETSC_USE_CXXCOMPLEX)

102:       test:
103:          nsize: 4

105:       test:
106:          nsize: 4
107:          suffix: 2
108:          args: -viewer_hdf5_base_dimension2
109:          output_file: output/ex10_1.out

111:       test:
112:          nsize: 4
113:          suffix: 3
114:          args: -viewer_hdf5_sp_output
115:          output_file: output/ex10_1.out

117: TEST*/