Removed a utility which was there only for the platinum runs.

git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5/trunk@114 4825ed28-b72c-4eae-9704-e50c059e567d

1 files changed, 0 insertions, 571 deletions

diff --git a/src/util/hdf5_bitant_to_fullmode.c b/src/util/hdf5_bitant_to_fullmode.c
deleted file mode 100644
index 67818fb..0000000
--- a/src/util/hdf5_bitant_to_fullmode.c
+++ /dev/null
@@ -1,571 +0,0 @@
- /*@@
-   @file      hdf5_bitant_to_fullmode.c
-   @date      Thu 10 Jan 2002
-   @author    Thomas Radke
-   @desc
-              This utility program copies a Cactus HDF5 datafile turning bitant
-              mode datasets into full mode.
-   @enddesc
-   @version   $Id$
- @@*/
-
-#include "cctk.h"
-
-#include <hdf5.h>
-#include <stdio.h> 
-#include <stdlib.h>
-#include <string.h>
-#include "BetaThorns/IOHDF5Util/src/ioHDF5UtilGH.h"
-
-/* the rcs ID and its dummy function to use it */
-static const char *rcsid = "$Header$";
-CCTK_FILEVERSION(AlphaThorns_IOHDF5_hdf5_bitant_to_fullmode_c)
-
-
-/*****************************************************************************/
-/*                           macro definitions                               */
-/*****************************************************************************/
-/* uncomment the following to get some debugging output */
-/* #define IOHDF5_DEBUG  1 */
-
-/* default stencil width if no '-stencil' option was given */
-#define STENCIL          2
-
-/* macro to do an HDF5 call, check its return code, and print a warning
-   in case of an error */
-#define CHECK_ERROR(hdf5_call)                                                \
-          do                                                                  \
-          {                                                                   \
-            int _error_code = hdf5_call;                                      \
-                                                                              \
-                                                                              \
-            if (_error_code < 0)                                              \
-            {                                                                 \
-              fprintf (stderr, "WARNING: line %d: HDF5 call '%s' returned "   \
-                               "error code %d\n",                             \
-                                __LINE__, #hdf5_call, _error_code);           \
-              nerrors++;                                                      \
-            }                                                                 \
-          } while (0)
-
-
-/*****************************************************************************/
-/*                           global variables                                */
-/*****************************************************************************/
-/* NOTE: although it isn't good programming practice
-         we make these variables global for convenience
-         since they are accessed from recursively or
-         indirectly called routines which only get passed
-         a single user-supplied argument */
-static char *pathname = NULL;      /* pathname of the current object */
-static unsigned int nerrors = 0;   /* global error counter */
-static int stencil = STENCIL;      /* stencil width for reflection */
-static int flipsign = 0;           /* flag to flip the sign of reflected data */
-
-/*****************************************************************************/
-/*                           local function prototypes                       */
-/*****************************************************************************/
-static herr_t CopyObject (hid_t copy_from, const char *objectname, void *arg);
-static herr_t CopyAttribute (hid_t src, const char *attr_name, void *arg);
-static void FixBoundingBox (hid_t object);
-
-
- /*@@
-   @routine    main
-   @date       Thu 10 Jan 2002
-   @author     Thomas Radke
-   @desc
-               Main routine of the HDF5 bitant-to-full converter
-   @enddesc
-
-   @calls      CopyObject
-
-   @var        argc
-   @vdesc      number of command line arguments
-   @vtype      int
-   @vio        in
-   @endvar
-   @var        argv
-   @vdesc      command line arguments
-   @vtype      char *[]
-   @vio        in
-   @endvar
-
-   @returntype int
-   @returndesc
-               0 for success, negative return values indicate an error
-   @endreturndesc
-@@*/
-int main (int argc, char *argv[])
-{
-  int i, j;
-  hid_t infile, outfile;
-
-
-  /* check for the options */
-  for (i = 1; i < argc; i++)
-  {
-    if (argv[i][0] == '-')
-    {
-      if (strncmp (argv[i], "-stencil=", 9) == 0)
-      {
-        stencil = atoi (argv[i] + 9);
-      }
-      else if (strcmp (argv[i], "-flipsign") == 0)
-      {
-        flipsign = 1;
-      }
-      else
-      {
-        fprintf (stderr, "WARNING: unknown option '%s'\n", argv[i]);
-      }
-
-      for (j = i + 1; j < argc; j++)
-      {
-        argv[j-1] = argv[j];
-      }
-      argc--;
-    }
-  }
-
-  /* give some help if called with incorrect number of parameters */
-  if (argc != 3)
-  {
-    fprintf (stderr, "Usage: %s [-stencil=<N>] [-flipsign] <bitant_infile> "
-                     "<fullmode_outfile>\n", argv[0]);
-    fprintf (stderr, "   eg, %s alp.h5 alp_fullmode.h5\n\n", argv[0]);
-    return (0);
-  }
-
-  H5E_BEGIN_TRY
-  {
-    /* open the bitant mode file */
-    infile = H5Fopen (argv[1], H5F_ACC_RDONLY, H5P_DEFAULT);
-    if (infile < 0)
-    {
-      fprintf (stderr, "ERROR: Cannot open HDF5 input file '%s' !\n\n",argv[1]);
-      return (-1);
-    }
-
-    /* create output file */
-    outfile = H5Fcreate (argv[2], H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT);
-    if (outfile < 0)
-    {
-      fprintf (stderr, "ERROR: Cannot create HDF5 output file '%s' !\n\n",
-               argv[2]);
-      return (-1);
-    }
-  } H5E_END_TRY
-
-  printf ("\n  ------------------------------------------\n"
-            "  Cactus 4 HDF5 bitant-to-fullmode Converter\n"
-            "  ------------------------------------------\n"
-            "  Using stencil width of %d for reflection...\n", stencil);
-
-  /* do the copying by iterating over all objects */
-  pathname = "";
-  CHECK_ERROR (H5Giterate (infile, "/", NULL, CopyObject, &outfile));
-
-  /* finally, close all open files */
-  CHECK_ERROR (H5Fclose (infile));
-  CHECK_ERROR (H5Fclose (outfile));
-
-  /* report status */
-  if (nerrors == 0)
-  {
-    printf ("\n\n   *** All Cactus data successfully converted. ***\n\n");
-  }
-  else
-  {
-    fprintf (stderr, "\n\n   *** WARNING: %d errors occured during "
-                     "conversion. ***\n\n", nerrors);
-  }
-
-  return (0);
-}
-
-
-/*****************************************************************************/
-/*                           local routines                                  */
-/*****************************************************************************/
- /*@@
-   @routine    CopyObject
-   @date       Thu 10 Jan 2002
-   @author     Thomas Radke
-   @desc
-               Iterator recursively called by H5Giterate() for every object
-               in the input file
-               It copies the current object or, if the object is a 3D dataset,
-               reflects the data in the z-plane before copying.
-   @enddesc
-
-   @calls      CopyAttribute
-
-   @var        from
-   @vdesc      identifier for the group the current object belongs to
-   @vtype      hid_t
-   @vio        in
-   @endvar
-   @var        objectname
-   @vdesc      name of the current object
-   @vtype      const char *
-   @vio        in
-   @endvar
-   @var        _to
-   @vdesc      user-supplied argument indicating the output object identifier
-   @vtype      hid_t
-   @vio        in
-   @endvar
-
-   @returntype int
-   @returndesc
-               0 - continue the iteration for following group objects
-               1 - short-curcuit, no further iteration of this group
-   @endreturndesc
-@@*/
-static herr_t CopyObject (hid_t from,
-                          const char *objectname,
-                          void *_to)
-{
-  hid_t to, datatype, dataspace_from, dataspace_to;
-  H5G_stat_t objectinfo;
-  char *current_pathname;
-  int i, offset, xyplane_size, ndims, is_simple;
-  size_t objectsize, datatypesize;
-  hsize_t dims[4];
-  char *data;
-
-
-  /* build the full pathname for the current to object to process */
-  current_pathname = pathname;
-  pathname = (char *) malloc (strlen (current_pathname) +
-                              strlen (objectname) + 2);
-  sprintf (pathname, "%s/%s", current_pathname, objectname);
-
-  /* get the output object identifier */
-  to = *(hid_t *) _to;
-
-  /* check the type of the current object */
-  CHECK_ERROR (H5Gget_objinfo (from, objectname, 0, &objectinfo));
-  if (objectinfo.type == H5G_GROUP)
-  {
-    printf ("  copying group '%s'\n", pathname);
-
-    CHECK_ERROR (from = H5Gopen (from, objectname));
-    CHECK_ERROR (to = H5Gcreate (to, objectname, 0));
-    /* iterate over all objects in the (first) input file */
-    CHECK_ERROR (H5Giterate (from, ".", NULL, CopyObject, &to));
-    CHECK_ERROR (H5Aiterate (from, NULL, CopyAttribute, &to));
-    FixBoundingBox (to);
-    CHECK_ERROR (H5Gclose (to));
-    CHECK_ERROR (H5Gclose (from));
-  }
-  else if (objectinfo.type == H5G_DATASET)
-  {
-    CHECK_ERROR (from = H5Dopen (from, objectname));
-    CHECK_ERROR (datatype = H5Dget_type (from));
-    if (H5Tget_class (datatype) == H5T_FLOAT)
-    {
-      CHECK_ERROR (H5Tclose (datatype));
-      CHECK_ERROR (datatype = H5Tcopy (H5T_NATIVE_FLOAT));
-    }
-    CHECK_ERROR (dataspace_from = H5Dget_space (from));
-    CHECK_ERROR (is_simple = H5Sis_simple (dataspace_from));
-    CHECK_ERROR (ndims = H5Sget_simple_extent_ndims (dataspace_from));
-    if (is_simple && ndims == 3)
-    {
-      printf ("  reflecting dataset '%s'\n", pathname);
-      CHECK_ERROR (H5Sget_simple_extent_dims (dataspace_from, dims, NULL));
-      /* save the bitant zmax and compute the fullgrid zmax */
-      dims[3] = dims[0] - stencil;
-      dims[0] = 2 * dims[3];
-      CHECK_ERROR (dataspace_to = H5Screate_simple (3, dims, NULL));
-    }
-    else
-    {
-      printf ("  copying dataset '%s'\n", pathname);
-      CHECK_ERROR (dataspace_to = H5Scopy (dataspace_from));
-    }
-    CHECK_ERROR (to = H5Dcreate (to, objectname, datatype, dataspace_to,
-                                 H5P_DEFAULT));
-    datatypesize = objectsize = H5Tget_size (datatype);
-    xyplane_size = 0;
-    if (is_simple)
-    {
-      objectsize *= H5Sget_simple_extent_npoints (dataspace_from);
-    }
-    if (objectsize > 0)
-    {
-      if (is_simple && ndims == 3)
-      {
-        xyplane_size = dims[1] * dims[2] * datatypesize;
-        offset = (dims[3] - stencil) * xyplane_size;
-        objectsize += offset;
-      }
-      else
-      {
-        offset = 0;
-      }
-      data = (char *) malloc (objectsize);
-      CHECK_ERROR (H5Dread (from, datatype, H5S_ALL, H5S_ALL, H5P_DEFAULT,
-                            data + offset));
-      if (is_simple && ndims == 3)
-      {
-        /* copy the +z xy planes into the -z xy planes */
-        for (i = stencil + 1; i <= (int) dims[3]; i++)
-        {
-          memcpy (data + offset - (i-stencil)*xyplane_size,
-                  data + offset + (i+stencil-1)*xyplane_size,
-                  xyplane_size);
-        }
-      }
-
-      /* flip the sign of the reflected elements */
-      if (flipsign)
-      {
-        if (H5Tget_class (datatype) == H5T_FLOAT)
-        {
-          printf ("    negating reflected data\n");
-          for (i = offset/sizeof (float) - 1; i >= 0; i--)
-          {
-            ((float *) data)[i] = -((float *) data)[i];
-          }
-        }
-        else
-        {
-          fprintf (stderr, "Warning: can only flip sign for datasets of "
-                           "floating-point datatype\n");
-        }
-      }
-      CHECK_ERROR (H5Dwrite (to, datatype, H5S_ALL, H5S_ALL, H5P_DEFAULT,data));
-      free (data);
-    }
-    CHECK_ERROR (H5Aiterate (from, NULL, CopyAttribute, &to));
-    if (is_simple && ndims == 3)
-    {
-      FixBoundingBox (to);
-    }
-    CHECK_ERROR (H5Dclose (to));
-    CHECK_ERROR (H5Dclose (from));
-    CHECK_ERROR (H5Sclose (dataspace_to));
-    CHECK_ERROR (H5Sclose (dataspace_from));
-    CHECK_ERROR (H5Tclose (datatype));
-  }
-  else
-  {
-    fprintf (stderr, "WARNING: Found object '%s' which is not neither a "
-                     "group nor a dataset ! Object will not be copied.\n",
-                     pathname);
-    nerrors++;
-  }
-
-  /* reset the pathname */
-  free (pathname);
-  pathname = current_pathname;
-
-  return (0);
-}
-
-
- /*@@
-   @routine    CopyAttribute
-   @date       Thu 10 Jan 2002
-   @author     Thomas Radke
-   @desc
-               Iterator recursively called by H5Aiterate() for every attribute
-               of an object (dataset or group)
-   @enddesc
-
-   @var        from
-   @vdesc      identifier for the group or dataset to read the attribute from
-   @vtype      hid_t
-   @vio        in
-   @endvar
-   @var        attrname
-   @vdesc      name of the current attribute
-   @vtype      const char *
-   @vio        in
-   @endvar
-   @var        _to
-   @vdesc      user-supplied argument indicating the group or dataset
-               to copy the attribute to
-   @vtype      hid_t
-   @vio        in
-   @endvar
-
-   @returntype int
-   @returndesc
-               0 - continue the iteration for following attributes
-   @endreturndesc
-@@*/
-static herr_t CopyAttribute (hid_t from,
-                             const char *attrname,
-                             void *_to)
-{
-  hid_t attr, datatype, dataspace, to;
-  size_t attrsize;
-  void *value;
-
-
-  /* get the target group/dataset identifier */
-  to = *(hid_t *) _to;
-
-  /* open the attribute given by its name, get type, dataspace, and value
-     and just copy it */
-  CHECK_ERROR (attr = H5Aopen_name (from, attrname));
-  CHECK_ERROR (datatype = H5Aget_type (attr));
-  CHECK_ERROR (dataspace = H5Aget_space (attr));
-  attrsize = H5Tget_size (datatype);
-  if (H5Sis_simple (dataspace) > 0)
-  {
-    attrsize *= H5Sget_simple_extent_npoints (dataspace);
-  }
-  if (attrsize > 0)
-  {
-    value = malloc (attrsize);
-    CHECK_ERROR (H5Aread (attr, datatype, value));
-    CHECK_ERROR (H5Aclose (attr));
-    CHECK_ERROR (attr = H5Acreate (to, attrname, datatype, dataspace,
-                                   H5P_DEFAULT));
-    CHECK_ERROR (H5Awrite (attr, datatype, value));
-    free (value);
-  }
-  CHECK_ERROR (H5Aclose (attr));
-  CHECK_ERROR (H5Sclose (dataspace));
-  CHECK_ERROR (H5Tclose (datatype));
-
-  return (0);
-}
-
-
- /*@@
-   @routine    FixBoundingBox
-   @date       Mon 18 Feb 2002
-   @author     Thomas Radke
-   @desc
-               Fix the "global_size", "min_ext", and "origin" attributes
-               if found in the object (dataset or group) given.
-   @enddesc
-
-   @var        object
-   @vdesc      identifier for the group or dataset to fix the attributes
-   @vtype      hid_t
-   @vio        inout
-   @endvar
-@@*/
-static void FixBoundingBox (hid_t object)
-{
-  hid_t attr, datatype, dataspace;
-  double delta[3], min_ext[3], max_ext[3];
-  int global_size[3], do_it;
-
-
-  /* try to read the "global_size" and "max_ext" attributes */
-  H5E_BEGIN_TRY
-  {
-    attr = H5Aopen_name (object, "global_size");
-    do_it = attr >= 0;
-    if (do_it)
-    {
-      CHECK_ERROR (datatype = H5Aget_type (attr));
-      CHECK_ERROR (dataspace = H5Aget_space (attr));
-      if (H5Tget_class (datatype) == H5T_INTEGER &&
-          H5Sis_simple (dataspace) > 0 &&
-          H5Sget_simple_extent_npoints (dataspace) == 3)
-      {
-        CHECK_ERROR (H5Aread (attr, H5T_NATIVE_INT, global_size));
-        global_size[2] = 2 * (global_size[2] - stencil);
-        CHECK_ERROR (H5Awrite (attr, H5T_NATIVE_INT, global_size));
-      }
-      else
-      {
-        do_it = 0;
-      }
-      CHECK_ERROR (H5Aclose (attr));
-      CHECK_ERROR (H5Sclose (dataspace));
-      CHECK_ERROR (H5Tclose (datatype));
-    }
-
-    if (do_it)
-    {
-      attr = H5Aopen_name (object, "max_ext");
-      do_it = attr >= 0;
-    }
-    if (do_it)
-    {
-      CHECK_ERROR (datatype = H5Aget_type (attr));
-      CHECK_ERROR (dataspace = H5Aget_space (attr));
-      if (H5Tget_class (datatype) == H5T_FLOAT &&
-          H5Sis_simple (dataspace) > 0 &&
-          H5Sget_simple_extent_npoints (dataspace) == 3)
-      {
-        CHECK_ERROR (H5Aread (attr, H5T_NATIVE_DOUBLE, max_ext));
-      }
-      else
-      {
-        do_it = 0;
-      }
-      CHECK_ERROR (H5Aclose (attr));
-      CHECK_ERROR (H5Sclose (dataspace));
-      CHECK_ERROR (H5Tclose (datatype));
-    }
-  } H5E_END_TRY;
-
-  /* now fix the "min_ext", "origin", and "delta" attributes */
-  if (do_it)
-  {
-    CHECK_ERROR (attr = H5Aopen_name (object, "min_ext"));
-    if (attr >= 0)
-    {
-      CHECK_ERROR (datatype = H5Aget_type (attr));
-      CHECK_ERROR (dataspace = H5Aget_space (attr));
-      if (H5Tget_class (datatype) == H5T_FLOAT &&
-          H5Sis_simple (dataspace) > 0 &&
-          H5Sget_simple_extent_npoints (dataspace) == 3)
-      {
-        CHECK_ERROR (H5Aread (attr, H5T_NATIVE_DOUBLE, min_ext));
-        min_ext[2] = -max_ext[2];
-        CHECK_ERROR (H5Awrite (attr, H5T_NATIVE_DOUBLE, min_ext));
-      }
-      CHECK_ERROR (H5Aclose (attr));
-      CHECK_ERROR (H5Sclose (dataspace));
-      CHECK_ERROR (H5Tclose (datatype));
-    }
-
-    CHECK_ERROR (attr = H5Aopen_name (object, "origin"));
-    if (attr >= 0)
-    {
-      CHECK_ERROR (datatype = H5Aget_type (attr));
-      CHECK_ERROR (dataspace = H5Aget_space (attr));
-      if (H5Tget_class (datatype) == H5T_FLOAT &&
-          H5Sis_simple (dataspace) > 0 &&
-          H5Sget_simple_extent_npoints (dataspace) == 3)
-      {
-        CHECK_ERROR (H5Aread (attr, H5T_NATIVE_DOUBLE, min_ext));
-        min_ext[2] = -max_ext[2];
-        CHECK_ERROR (H5Awrite (attr, H5T_NATIVE_DOUBLE, min_ext));
-      }
-      CHECK_ERROR (H5Aclose (attr));
-      CHECK_ERROR (H5Sclose (dataspace));
-      CHECK_ERROR (H5Tclose (datatype));
-    }
-
-    CHECK_ERROR (attr = H5Aopen_name (object, "delta"));
-    if (attr >= 0)
-    {
-      CHECK_ERROR (datatype = H5Aget_type (attr));
-      CHECK_ERROR (dataspace = H5Aget_space (attr));
-      if (H5Tget_class (datatype) == H5T_FLOAT &&
-          H5Sis_simple (dataspace) > 0 &&
-          H5Sget_simple_extent_npoints (dataspace) == 3)
-      {
-        CHECK_ERROR (H5Aread (attr, H5T_NATIVE_DOUBLE, delta));
-        delta[2] = (max_ext[2] - min_ext[2]) / (global_size[2] + 1);
-        CHECK_ERROR (H5Awrite (attr, H5T_NATIVE_DOUBLE, delta));
-      }
-      CHECK_ERROR (H5Aclose (attr));
-      CHECK_ERROR (H5Sclose (dataspace));
-      CHECK_ERROR (H5Tclose (datatype));
-    }
-  }
-}