[svn-r7717] Purpose:

new features of h5repack

Description:
added copy routine
added parsing of command line arguments



Platforms tested:
linux, solaris, IRIX

Misc. update:

1 files changed, 297 insertions, 1 deletions

diff --git a/tools/h5repack/h5repack_list.c b/tools/h5repack/h5repack_list.c
index 21ec337e..138cb5b 100644
--- a/tools/h5repack/h5repack_list.c
+++ b/tools/h5repack/h5repack_list.c
@@ -16,9 +16,10 @@
 #include <stdlib.h>
 #include <string.h>
 #include <stdio.h>
+#include "H5private.h"
 #include "h5repack.h"
 #include "h5repack_list.h"
-#include "h5diff.h"
+
 
 
 /*-------------------------------------------------------------------------
@@ -121,3 +122,298 @@ int get_objlist(char* fname, packoptions_t *options)
  return 0;
 
 }
+
+
+
+/*-------------------------------------------------------------------------
+ * Function: copy_file
+ *
+ * Purpose: duplicate all HDF5 objects in the file 
+ *
+ * Return: 0, ok, -1 no
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: October, 23, 2003
+ *
+ *-------------------------------------------------------------------------
+ */
+
+int copy_file(char* fnamein, 
+              char* fnameout,
+              packoptions_t *options)
+{
+ hid_t    fidin; 
+ hid_t    fidout; 
+ int      nobjects;
+ info_t   *info=NULL;
+
+/*-------------------------------------------------------------------------
+ * open the files 
+ *-------------------------------------------------------------------------
+ */
+
+ /* disable error reporting */
+ H5E_BEGIN_TRY {
+ 
+ /* Open the files */
+ if ((fidin=H5Fopen(fnamein,H5F_ACC_RDONLY,H5P_DEFAULT))<0 ){
+  printf("h5repack: <%s>: No such file or directory\n", fnamein );
+  exit(1);
+ }
+ if ((fidout=H5Fcreate(fnameout,H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT))<0 ){
+  printf("h5repack: <%s>: Could not create file\n", fnameout );
+  exit(1);
+ }
+ /* enable error reporting */
+ } H5E_END_TRY;
+
+
+/*-------------------------------------------------------------------------
+ * get the number of objects in the file
+ *-------------------------------------------------------------------------
+ */
+
+ if ((nobjects = H5get_object_info(fidin, NULL ))<0) {
+  printf("h5repack: <%s>: Could not obtain object list\n", fnamein );
+  return -1;
+ }
+
+/*-------------------------------------------------------------------------
+ * get the list of objects in the file
+ *-------------------------------------------------------------------------
+ */
+
+ if ((info = (info_t*) malloc( nobjects * sizeof(info_t)))==NULL){
+  printf("h5repack: <%s>: Could not allocate object list\n", fnamein );
+  return -1;
+ }
+ if (H5get_object_info(fidin, info )<0) {
+  printf("h5repack: <%s>: Could not obtain object list\n", fnamein );
+  return -1;
+ }
+
+/*-------------------------------------------------------------------------
+ * do the copy
+ *-------------------------------------------------------------------------
+ */
+ 
+  do_copy_file(fidin,fidout,nobjects,info,options);
+  
+
+
+
+/*-------------------------------------------------------------------------
+ * free
+ *-------------------------------------------------------------------------
+ */
+ H5Fclose(fidin);
+ H5Fclose(fidout);
+ info_free(info,nobjects);
+ return 0;
+
+}
+
+
+
+/*-------------------------------------------------------------------------
+ * Function: print_objlist
+ *
+ * Purpose: print list of objects in file
+ *
+ * Return: void
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: October 23, 2003
+ *
+ *-------------------------------------------------------------------------
+ */
+void print_objlist(char *filename, 
+                   int nobjects, 
+                   info_t *info )
+{
+ int i;
+
+ printf("File <%s>: # of entries = %d\n", filename, nobjects );
+ for ( i = 0; i < nobjects; i++)
+ {
+  switch ( info[i].type )
+  {
+  case H5G_GROUP:
+   printf("%s %20s\n", info[i].name, "group" );
+   break;
+  case H5G_DATASET:
+   printf("%s %20s\n", info[i].name, "dataset" );
+   break;
+  case H5G_TYPE:
+   printf("%s %20s\n", info[i].name, "datatype" );
+   break;
+  case H5G_LINK:
+   printf("%s %20s\n", info[i].name, "link" );
+   break;
+  default:
+   printf("%s %20s\n", info[i].name, "User defined object" );
+   break;
+  }
+ }
+
+}
+
+
+/*-------------------------------------------------------------------------
+ * Function: do_copy_file
+ *
+ * Purpose: duplicate all HDF5 objects in the file 
+ *
+ * Return: 0, ok, -1 no
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: October, 23, 2003
+ *
+ *-------------------------------------------------------------------------
+ */
+
+int do_copy_file(hid_t fidin, 
+                 hid_t fidout, 
+                 int nobjects, 
+                 info_t *info,
+                 packoptions_t *options)
+{
+ hid_t     grp_id;       /* group ID */ 
+ hid_t     dset_in;      /* read dataset ID */ 
+ hid_t     dset_out;     /* write dataset ID */ 
+ hid_t     dcpl_id;      /* dataset creation property list ID */ 
+ hid_t     space_id;     /* space ID */ 
+ hid_t     ftype_id;     /* file data type ID */ 
+ hid_t     mtype_id;     /* memory data type ID */
+ size_t    msize;        /* memory size of memory type */
+ void      *buf=NULL;    /* data buffer */
+ hsize_t   nelmts;       /* number of elements in dataaset */
+ int       rank;         /* rank of dataset */
+ hsize_t   dims[32];     /* dimansions of dataset */
+ int       i, j;
+
+ for ( i = 0; i < nobjects; i++)
+ {
+  switch ( info[i].type )
+  {
+/*-------------------------------------------------------------------------
+ * H5G_GROUP
+ *-------------------------------------------------------------------------
+ */
+  case H5G_GROUP:
+   if (options->verbose)
+    printf("%s %20s\n", info[i].name, "group" );
+
+   if ((grp_id=H5Gcreate(fidout, info[i].name, 0))<0) 
+    goto error;
+   if (H5Gclose(grp_id)<0) 
+    goto error;
+
+   break;
+
+/*-------------------------------------------------------------------------
+ * H5G_DATASET
+ *-------------------------------------------------------------------------
+ */
+  case H5G_DATASET:
+   if (options->verbose)
+    printf("%s %20s\n", info[i].name, "dataset" );
+
+   if ((dset_in=H5Dopen(fidin,info[i].name))<0) 
+    goto error;
+   if ((space_id=H5Dget_space(dset_in))<0) 
+    goto error;
+   if ((ftype_id=H5Dget_type (dset_in))<0) 
+    goto error;
+   if ((dcpl_id=H5Dget_create_plist(dset_in))<0) 
+    goto error;
+   if ( (rank=H5Sget_simple_extent_ndims(space_id))<0)
+    goto error;
+   if ( H5Sget_simple_extent_dims(space_id,dims,NULL)<0)
+    goto error;
+ 
+/*-------------------------------------------------------------------------
+ * read to memory
+ *-------------------------------------------------------------------------
+ */
+   nelmts=1;
+   for (j=0; j<rank; j++) 
+    nelmts*=dims[j];
+   if ((mtype_id=H5Tget_native_type(ftype_id,H5T_DIR_DEFAULT))<0)
+    goto error;
+   if ((msize=H5Tget_size(mtype_id))<0)
+    goto error;
+   buf=(void *) HDmalloc((unsigned)(nelmts*msize));
+   if ( buf==NULL){
+    printf( "cannot read into memory\n" );
+    goto error;
+   }
+   if (H5Dread(dset_in,mtype_id,H5S_ALL,H5S_ALL,H5P_DEFAULT,buf)<0)
+    goto error;
+
+/*-------------------------------------------------------------------------
+ * create/write dataset/close
+ *-------------------------------------------------------------------------
+ */
+   if ((dset_out=H5Dcreate(fidout,info[i].name,ftype_id,space_id,dcpl_id))<0) 
+    goto error;
+   if (H5Dwrite(dset_out,mtype_id,H5S_ALL,H5S_ALL,H5P_DEFAULT,buf)<0)
+    goto error;
+
+   if (H5Tclose(ftype_id)<0) 
+    goto error;
+   if (H5Tclose(mtype_id)<0) 
+    goto error;
+   if (H5Pclose(dcpl_id)<0) 
+    goto error;
+   if (H5Sclose(space_id)<0) 
+    goto error;
+   if (H5Dclose(dset_in)<0) 
+    goto error;
+   if (H5Dclose(dset_out)<0) 
+    goto error;
+   
+   
+   break;
+
+/*-------------------------------------------------------------------------
+ * H5G_TYPE
+ *-------------------------------------------------------------------------
+ */
+  case H5G_TYPE:
+   if (options->verbose)
+    printf("%s %20s\n", info[i].name, "datatype" );
+   break;
+
+  case H5G_LINK:
+   if (options->verbose)
+    printf("%s %20s\n", info[i].name, "link" );
+   break;
+
+  default:
+   if (options->verbose)
+    printf("%s %20s\n", info[i].name, "User defined object" );
+   break;
+  }
+ }
+
+ return 0;
+ 
+error:
+ H5E_BEGIN_TRY {
+  H5Gclose(grp_id);
+  H5Pclose(dcpl_id);
+  H5Sclose(space_id);
+  H5Dclose(dset_in);
+  H5Dclose(dset_out);
+  H5Tclose(ftype_id);
+  H5Tclose(mtype_id);
+ } H5E_END_TRY;
+ return -1;
+
+}
+
+