[svn-r9355] This commit was manufactured by cvs2svn to create branch 'hdf5_1_6'.

8 files changed, 2559 insertions, 0 deletions

diff --git a/tools/h5jam/Dependencies b/tools/h5jam/Dependencies
new file mode 100644
index 0000000..be3a92b
--- /dev/null
+++ b/tools/h5jam/Dependencies
@@ -0,0 +1,83 @@
+## This file is machine generated on GNU systems.
+## Only temporary changes may be made here.
+
+h5jam.lo: \
+   $(top_srcdir)/tools/h5jam/h5jam.c \
+   $(top_srcdir)/src/hdf5.h \
+   $(top_srcdir)/src/H5public.h \
+   $(top_builddir)/src/H5pubconf.h \
+   $(top_srcdir)/src/H5api_adpt.h \
+   $(top_srcdir)/src/H5Apublic.h \
+   $(top_srcdir)/src/H5Ipublic.h \
+   $(top_srcdir)/src/H5ACpublic.h \
+   $(top_srcdir)/src/H5Bpublic.h \
+   $(top_srcdir)/src/H5Dpublic.h \
+   $(top_srcdir)/src/H5Epublic.h \
+   $(top_srcdir)/src/H5Epubgen.h \
+   $(top_srcdir)/src/H5Fpublic.h \
+   $(top_srcdir)/src/H5FDpublic.h \
+   $(top_srcdir)/src/H5FPpublic.h \
+   $(top_srcdir)/src/H5Gpublic.h \
+   $(top_srcdir)/src/H5Opublic.h \
+   $(top_srcdir)/src/H5HGpublic.h \
+   $(top_srcdir)/src/H5HLpublic.h \
+   $(top_srcdir)/src/H5MMpublic.h \
+   $(top_srcdir)/src/H5Ppublic.h \
+   $(top_srcdir)/src/H5Tpublic.h \
+   $(top_srcdir)/src/H5Zpublic.h \
+   $(top_srcdir)/src/H5Rpublic.h \
+   $(top_srcdir)/src/H5Spublic.h \
+   $(top_srcdir)/src/H5FDcore.h \
+   $(top_srcdir)/src/H5FDfamily.h \
+   $(top_srcdir)/src/H5FDgass.h \
+   $(top_srcdir)/src/H5FDlog.h \
+   $(top_srcdir)/src/H5FDmpi.h \
+   $(top_srcdir)/src/H5FDfphdf5.h \
+   $(top_srcdir)/src/H5FDmpio.h \
+   $(top_srcdir)/src/H5FDmpiposix.h \
+   $(top_srcdir)/src/H5FDmulti.h \
+   $(top_srcdir)/src/H5FDsec2.h \
+   $(top_srcdir)/src/H5FDsrb.h \
+   $(top_srcdir)/src/H5FDstdio.h \
+   $(top_srcdir)/src/H5FDstream.h \
+   $(top_srcdir)/tools/lib/h5tools_utils.h
+h5unjam.lo: \
+   $(top_srcdir)/tools/h5jam/h5unjam.c \
+   $(top_srcdir)/src/hdf5.h \
+   $(top_srcdir)/src/H5public.h \
+   $(top_builddir)/src/H5pubconf.h \
+   $(top_srcdir)/src/H5api_adpt.h \
+   $(top_srcdir)/src/H5Apublic.h \
+   $(top_srcdir)/src/H5Ipublic.h \
+   $(top_srcdir)/src/H5ACpublic.h \
+   $(top_srcdir)/src/H5Bpublic.h \
+   $(top_srcdir)/src/H5Dpublic.h \
+   $(top_srcdir)/src/H5Epublic.h \
+   $(top_srcdir)/src/H5Epubgen.h \
+   $(top_srcdir)/src/H5Fpublic.h \
+   $(top_srcdir)/src/H5FDpublic.h \
+   $(top_srcdir)/src/H5FPpublic.h \
+   $(top_srcdir)/src/H5Gpublic.h \
+   $(top_srcdir)/src/H5Opublic.h \
+   $(top_srcdir)/src/H5HGpublic.h \
+   $(top_srcdir)/src/H5HLpublic.h \
+   $(top_srcdir)/src/H5MMpublic.h \
+   $(top_srcdir)/src/H5Ppublic.h \
+   $(top_srcdir)/src/H5Tpublic.h \
+   $(top_srcdir)/src/H5Zpublic.h \
+   $(top_srcdir)/src/H5Rpublic.h \
+   $(top_srcdir)/src/H5Spublic.h \
+   $(top_srcdir)/src/H5FDcore.h \
+   $(top_srcdir)/src/H5FDfamily.h \
+   $(top_srcdir)/src/H5FDgass.h \
+   $(top_srcdir)/src/H5FDlog.h \
+   $(top_srcdir)/src/H5FDmpi.h \
+   $(top_srcdir)/src/H5FDfphdf5.h \
+   $(top_srcdir)/src/H5FDmpio.h \
+   $(top_srcdir)/src/H5FDmpiposix.h \
+   $(top_srcdir)/src/H5FDmulti.h \
+   $(top_srcdir)/src/H5FDsec2.h \
+   $(top_srcdir)/src/H5FDsrb.h \
+   $(top_srcdir)/src/H5FDstdio.h \
+   $(top_srcdir)/src/H5FDstream.h \
+   $(top_srcdir)/tools/lib/h5tools_utils.h
diff --git a/tools/h5jam/Makefile.in b/tools/h5jam/Makefile.in
new file mode 100644
index 0000000..ccb2018
--- /dev/null
+++ b/tools/h5jam/Makefile.in
@@ -0,0 +1,96 @@
+## HDF5 Library Makefile(.in)
+##
+## Copyright by the Board of Trustees of the University of Illinois.
+## All rights reserved.
+##
+## This file is part of HDF5.  The full HDF5 copyright notice, including
+## terms governing use, modification, and redistribution, is contained in
+## the files COPYING and Copyright.html.  COPYING can be found at the root
+## of the source code distribution tree; Copyright.html can be found at the
+## root level of an installed copy of the electronic HDF5 document set and
+## is linked from the top-level documents page.  It can also be found at
+## http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html.  If you do not have
+## access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu.
+## 
+top_srcdir=@top_srcdir@
+top_builddir=../..
+srcdir=@srcdir@
+@COMMENCE@
+
+## Add include directory to the C preprocessor flags, add -lh5tools and
+## -lhdf5 to the list of libraries.
+##
+CPPFLAGS=-I. -I$(srcdir) -I$(top_builddir)/src -I$(top_srcdir)/src  \
+         -I$(top_srcdir)/tools/lib @CPPFLAGS@
+
+## Test programs and scripts.
+##
+TEST_PROGS=
+TEST_SCRIPTS=./testh5jam.sh
+
+OTHER_PROGS=tellub h5jamgentest getub
+## These are our main targets: library and tools.
+##
+LIBTOOLS=../lib/libh5tools.la
+LIBHDF5=$(top_builddir)/src/libhdf5.la
+
+PUB_PROGS=h5jam h5unjam 
+
+PROGS=$(PUB_PROGS) $(TEST_PROGS) $(OTHER_PROGS)
+
+## Source and object files for the library; do not install
+##
+LIB_SRC=
+LIB_OBJ=$(LIB_SRC:.c=.lo)
+PUB_LIB=
+
+## Temporary files.  *.h5 are generated by jamgentest.  They should
+## copied to the testfiles/ directory if update is required.
+MOSTLYCLEAN=*.h5 *.txt
+CLEAN=
+DISTCLEAN=testh5jam.sh
+
+#### FIX AFTER HERE
+
+## Source and object files for programs...
+##
+PROG_SRC=h5jam.c h5unjam.c 
+PROG_OBJ=$(PROG_SRC:.c=.lo)
+
+PRIVATE_HDR=
+
+OTHER_SRC=tellub.c h5jamgentest.c getub.c
+OTHER_OBJ=$(OTHER_SRC:.c=.lo)
+
+## Source and object files for the tests (to be cleaned up)
+##
+TEST_SRC=
+TEST_OBJ=$(TEST_SRC:.c=.lo) $(OTHER_OBJ)
+
+## Programs have to be built before they can be tested!
+##
+check test _test: $(PROGS)
+
+## How to build the programs...They all depend on the hdf5 library and
+## the tools library compiled in this directory.
+##
+$(PROGS): $(LIBTOOLS) $(LIBHDF5)
+
+h5jam: h5jam.lo
+	@$(LT_LINK_EXE) $(CFLAGS) -o $@ h5jam.lo $(LIBTOOLS) $(LIBHDF5) $(LDFLAGS) $(LIBS)
+
+h5unjam: h5unjam.lo
+	@$(LT_LINK_EXE) $(CFLAGS) -o $@ h5unjam.lo $(LIBTOOLS) $(LIBHDF5) $(LDFLAGS) $(LIBS)
+
+h5jamgentest: h5jamgentest.lo
+	@$(LT_LINK_EXE) $(CFLAGS) -o $@ h5jamgentest.lo $(LIBTOOLS) $(LIBHDF5) $(LDFLAGS) $(LIBS)
+
+tellub: tellub.lo
+	@$(LT_LINK_EXE) $(CFLAGS) -o $@ tellub.lo $(LIBTOOLS) $(LIBHDF5) $(LDFLAGS) $(LIBS)
+
+getub: getub.lo
+	@$(LT_LINK_EXE) $(CFLAGS) -o $@ getub.lo $(LIBTOOLS) $(LIBHDF5) $(LDFLAGS) $(LIBS)
+
+check-all: check 
+
+@CONCLUDE@
diff --git a/tools/h5jam/getub.c b/tools/h5jam/getub.c
new file mode 100644
index 0000000..58e9fe8
--- /dev/null
+++ b/tools/h5jam/getub.c
@@ -0,0 +1,170 @@
+/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
+ * Copyright by the Board of Trustees of the University of Illinois.         *
+ * All rights reserved.                                                      *
+ *                                                                           *
+ * This file is part of HDF5.  The full HDF5 copyright notice, including     *
+ * terms governing use, modification, and redistribution, is contained in    *
+ * the files COPYING and Copyright.html.  COPYING can be found at the root   *
+ * of the source code distribution tree; Copyright.html can be found at the  *
+ * root level of an installed copy of the electronic HDF5 document set and   *
+ * is linked from the top-level documents page.  It can also be found at     *
+ * http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html.  If you do not have     *
+ * access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
+ * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
+
+#include <stdio.h>
+#include <fcntl.h>
+
+#ifdef H5_HAVE_UNISTD_H
+#include <unistd.h>
+#endif
+
+#include "H5private.h"
+#include "h5tools_utils.h"
+
+void parse_command_line (int argc, const char *argv[]);
+
+#define TRUE 1
+#define FALSE 0
+
+static char *progname="getub";
+char *nbytes = NULL;
+
+static const char *s_opts = "c:";	/* add more later ? */
+static struct long_options l_opts[] = {
+  {"c", require_arg, 'c'},	/* input file */
+  {NULL, 0, '\0'}
+};
+
+/*-------------------------------------------------------------------------
+ * Function:    usage
+ *
+ * Purpose:     Print the usage message 
+ *
+ * Return:      void
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+static void
+usage (const char *prog)
+{
+  fflush (stdout);
+  fprintf (stdout, "usage: %s -c nb file] \n", prog);
+  fprintf (stdout, "           print first 'nb' byts of file to stdoug.\n");
+}
+
+/*-------------------------------------------------------------------------
+ * Function:    parse_command_line
+ *
+ * Purpose:     Parse the command line for the h5dumper.
+ *
+ * Return:      Success:    
+ *
+ *              Failure:    Exits program with EXIT_FAILURE value.
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+
+void
+parse_command_line (int argc, const char *argv[])
+{
+  int opt = FALSE;
+
+  /* parse command line options */
+  while ((opt = get_option (argc, argv, s_opts, l_opts)) != EOF)
+    {
+      switch ((char) opt)
+	{
+	case 'c':
+	  nbytes = strdup (opt_arg);
+	  break;
+	case '?':
+	default:
+	  usage (progname);
+	  exit (EXIT_FAILURE);
+	}
+    }
+
+  if (argc <= opt_ind)
+    {
+      error_msg (progname, "missing file name\n");
+      usage (progname);
+      exit (EXIT_FAILURE);
+    }
+}
+
+int
+main (int argc, const char *argv[])
+{
+  int fd;
+  unsigned int size;
+  char *filename;
+  long res;
+  char *buf;
+
+  parse_command_line (argc, argv);
+
+  if (nbytes == NULL)
+    {
+      /* missing arg */
+      error_msg (progname, "missing size\n");
+      usage (progname);
+      exit (EXIT_FAILURE);
+    }
+  if (argc <= (opt_ind))
+    {
+      error_msg (progname, "missing file name\n");
+      usage (progname);
+      exit (EXIT_FAILURE);
+    }
+  filename = strdup (argv[opt_ind]);
+
+  size = 0;
+  res = sscanf (nbytes, "%u", &size);
+  if (res == EOF)
+    {
+      /* fail */
+      error_msg (progname, "missing file name\n");
+      usage (progname);
+      exit (EXIT_FAILURE);
+    }
+
+  fd = HDopen (filename, O_RDONLY, 0);
+  if (fd < 0)
+    {
+      error_msg (progname, "can't open file %s\n", filename);
+      exit (EXIT_FAILURE);
+    }
+
+  buf = malloc ((unsigned)(size + 1));
+  if (buf == NULL)
+    {
+      close (fd);
+      exit (EXIT_FAILURE);
+    }
+
+  res = HDread (fd, buf, (unsigned)size);
+
+  if (res < size)
+    {
+      if (buf)
+	free (buf);
+      close (fd);
+      exit (EXIT_FAILURE);
+    }
+
+  HDwrite (1, buf, (unsigned)size);
+
+  if (buf)
+    free (buf);
+  close (fd);
+  return (EXIT_SUCCESS);
+}
diff --git a/tools/h5jam/h5jam.c b/tools/h5jam/h5jam.c
new file mode 100644
index 0000000..d78e28c
--- /dev/null
+++ b/tools/h5jam/h5jam.c
@@ -0,0 +1,538 @@
+/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
+ * Copyright by the Board of Trustees of the University of Illinois.         *
+ * All rights reserved.                                                      *
+ *                                                                           *
+ * This file is part of HDF5.  The full HDF5 copyright notice, including     *
+ * terms governing use, modification, and redistribution, is contained in    *
+ * the files COPYING and Copyright.html.  COPYING can be found at the root   *
+ * of the source code distribution tree; Copyright.html can be found at the  *
+ * root level of an installed copy of the electronic HDF5 document set and   *
+ * is linked from the top-level documents page.  It can also be found at     *
+ * http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html.  If you do not have     *
+ * access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
+ * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
+
+#include <stdio.h>
+#include <fcntl.h>
+#include <sys/stat.h>
+
+#ifdef H5_HAVE_UNISTD_H
+#include <unistd.h>
+#endif
+
+#include "hdf5.h"
+#include "H5private.h"
+#include "h5tools_utils.h"
+
+#define TRUE 1
+#define FALSE 0
+
+hsize_t write_pad (int, hsize_t);
+hsize_t compute_user_block_size (hsize_t);
+hsize_t copy_some_to_file (int, int, hsize_t, hsize_t, ssize_t);
+void parse_command_line (int, const char *[]);
+
+const char *progname = "jam";
+int d_status = EXIT_SUCCESS;
+int do_clobber = FALSE;
+char *output_file = NULL;
+char *input_file = NULL;
+char *ub_file = NULL;
+
+/*
+ * Command-line options: The user can specify short or long-named
+ * parameters. The long-named ones can be partially spelled. When
+ * adding more, make sure that they don't clash with each other.
+ */
+static const char *s_opts = "hi:u:o:c";	/* add more later ? */
+static struct long_options l_opts[] = {
+  {"help", no_arg, 'h'},
+  {"hel", no_arg, 'h'},
+  {"i", require_arg, 'i'},	/* input file */
+  {"u", require_arg, 'u'},	/* user block file */
+  {"o", require_arg, 'o'},	/* output file */
+  {"clobber", no_arg, 'c'},	/* clobber existing UB */
+  {"clobbe", no_arg, 'c'},
+  {"clobb", no_arg, 'c'},
+  {"clob", no_arg, 'c'},
+  {"clo", no_arg, 'c'},
+  {"cl", no_arg, 'c'},
+  {NULL, 0, '\0'}
+};
+
+/*-------------------------------------------------------------------------
+ * Function:    usage
+ *
+ * Purpose:     Print the usage message 
+ *
+ * Return:      void
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+static void
+usage (const char *prog)
+{
+  fflush (stdout);
+  fprintf (stdout,
+	   "usage: %s -u user_block_file -i h5_file [-o ofile | --clobber] \n",
+	   prog);
+  fprintf (stdout, "           Add 'user_block_file' to front of \n");
+  fprintf (stdout,
+	   "           'h5_file', pad so 'h5_file' starts on proper\n");
+  fprintf (stdout, "           byte.\n");
+  fprintf (stdout, "\n");
+  fprintf (stdout, "       %s -h \n", prog);
+  fprintf (stdout, "           Print a usage message and exit\n");
+}
+
+/*-------------------------------------------------------------------------
+ * Function:    parse_command_line
+ *
+ * Purpose:     Parse the command line for the h5dumper.
+ *
+ * Return:      Success:    
+ *
+ *              Failure:    Exits program with EXIT_FAILURE value.
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+
+void
+parse_command_line (int argc, const char *argv[])
+{
+  int opt = FALSE;
+
+  /* parse command line options */
+  while ((opt = get_option (argc, argv, s_opts, l_opts)) != EOF)
+    {
+      switch ((char) opt)
+	{
+	case 'o':
+	  output_file = strdup (opt_arg);
+	  break;
+	case 'i':
+	  input_file = strdup (opt_arg);
+	  break;
+	case 'u':
+	  ub_file = strdup (opt_arg);
+	  break;
+	case 'c':
+	  do_clobber = TRUE;
+	  break;
+	case 'h':
+	  usage (progname);
+	  exit (EXIT_SUCCESS);
+	case '?':
+	default:
+	  usage (progname);
+	  exit (EXIT_FAILURE);
+	}
+    }
+}
+
+/*-------------------------------------------------------------------------
+ * Function:    main
+ *
+ * Purpose:     HDF5 user block jammer
+ *
+ * Return:      Success:    0
+ *              Failure:    1
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+int
+main (int argc, const char *argv[])
+{
+  int ufid;
+  int h5fid;
+  int ofid;
+  void *edata;
+  H5E_auto_stack_t func;
+  hid_t ifile;
+  hid_t plist;
+  herr_t status;
+  htri_t testval;
+  hsize_t usize;
+  hsize_t h5fsize;
+  hsize_t startub;
+  hsize_t where;
+  hsize_t newubsize;
+  off_t fsize;
+  struct stat sbuf;
+  struct stat sbuf2;
+  int res;
+
+  /* Disable error reporting */
+  H5Eget_auto_stack (H5E_DEFAULT, &func, &edata);
+  H5Eset_auto_stack (H5E_DEFAULT, NULL, NULL);
+
+  parse_command_line (argc, argv);
+
+  if (ub_file == NULL)
+    {
+      /* no user block */
+      error_msg (progname, "no user block file name\n");
+      usage (progname);
+      exit (EXIT_FAILURE);
+    }
+
+  if (input_file == NULL)
+    {
+      /* no user block */
+      error_msg (progname, "no HDF5 file\n");
+      usage (progname);
+      exit (EXIT_FAILURE);
+    }
+
+  testval = H5Fis_hdf5 (input_file);
+
+  if (testval <= 0)
+    {
+      error_msg (progname, "Input HDF5 file is not HDF \"%s\"\n", input_file);
+      exit (EXIT_FAILURE);
+    }
+
+  ifile = H5Fopen (input_file, H5F_ACC_RDONLY, H5P_DEFAULT);
+
+  if (ifile < 0)
+    {
+      error_msg (progname, "Can't open input HDF5 file \"%s\"\n", input_file);
+      exit (EXIT_FAILURE);
+    }
+
+  plist = H5Fget_create_plist (ifile);
+  if (plist < 0)
+    {
+      error_msg (progname, "Can't get file creation plist for file \"%s\"\n",
+		 input_file);
+      exit (EXIT_FAILURE);
+    }
+
+  status = H5Pget_userblock (plist, &usize);
+  if (status < 0)
+    {
+      error_msg (progname, "Can't get user block for file \"%s\"\n",
+		 input_file);
+      exit (EXIT_FAILURE);
+    }
+
+  H5Pclose (plist);
+  H5Fclose (ifile);
+
+  ufid = HDopen (ub_file, O_RDONLY, 0);
+
+  if (ufid < 0)
+    {
+      error_msg (progname, "unable to open user block file \"%s\"\n",
+		 ub_file);
+      exit (EXIT_FAILURE);
+    }
+
+  res = stat (ub_file, &sbuf);
+
+  if (res < 0)
+    {
+      error_msg (progname, "Can't stat file \"%s\"\n", ub_file);
+      exit (EXIT_FAILURE);
+    }
+
+  fsize = sbuf.st_size;
+
+  h5fid = HDopen (input_file, O_RDONLY, 0);
+
+  if (h5fid < 0)
+    {
+      error_msg (progname, "unable to open HDF5 file for read \"%s\"\n",
+		 input_file);
+      exit (EXIT_FAILURE);
+    }
+
+  res = stat (input_file, &sbuf2);
+
+  if (res < 0)
+    {
+      error_msg (progname, "Can't stat file \"%s\"\n", input_file);
+      exit (EXIT_FAILURE);
+    }
+
+  h5fsize = sbuf2.st_size;
+
+  if (output_file == NULL)
+    {
+      ofid = HDopen (input_file, O_WRONLY, 0);
+
+      if (ofid < 0)
+	{
+	  error_msg (progname, "unable to open output file \"%s\"\n",
+		     output_file);
+	  exit (EXIT_FAILURE);
+	}
+    }
+  else
+    {
+      ofid = HDopen (output_file, O_WRONLY | O_CREAT | O_TRUNC, 0644);
+
+      if (ofid < 0)
+	{
+	  error_msg (progname, "unable to create output file \"%s\"\n",
+		     output_file);
+	  exit (EXIT_FAILURE);
+	}
+    }
+
+  newubsize = compute_user_block_size ((hsize_t) fsize);
+
+  startub = usize;
+
+  if (usize > 0)
+    {
+      if (do_clobber == TRUE)
+	{
+	  /* where is max of the current size or the new UB */
+	  if (usize > newubsize)
+	    {
+	      newubsize = usize;
+	    }
+	  startub = 0;		/*blast the old */
+	}
+      else
+	{
+	  /* add new ub to current ublock, pad to new offset */
+	  newubsize += usize;
+	  newubsize = compute_user_block_size ((hsize_t) newubsize);
+	}
+    }
+
+  /* copy the HDF5 from starting at usize to starting at newubsize: 
+   *  makes room at 'from' for new ub */
+  /* if no current ub, usize is 0 */
+  copy_some_to_file (h5fid, ofid, usize, newubsize,
+		     (ssize_t) (h5fsize - usize));
+
+  /* copy the old ub to the beginning of the new file */
+  if (!do_clobber)
+    {
+      where =
+	copy_some_to_file (h5fid, ofid, (hsize_t) 0, (hsize_t) 0,
+			   (ssize_t) usize);
+    }
+
+  /* copy the new ub to the end of the ub */
+  where = copy_some_to_file (ufid, ofid, (hsize_t) 0, startub, (ssize_t) - 1);
+
+  /* pad the ub */
+  where = write_pad (ofid, where);
+
+
+  close (ufid);
+  close (h5fid);
+  close (ofid);
+
+  return d_status;
+}
+
+/*-------------------------------------------------------------------------
+ * Function:    copy_some_to_file
+ *
+ * Purpose:     Copy part of the input file to output.
+ *		  infid: fd of file to read
+ *		  outfid: fd of file to write
+ *		  startin: offset of where to read from infid
+ *		  startout: offset of where to write to outfid
+ *		  limit: bytes to read/write
+ *
+ *		If limit is < 0, the entire input file is copied.
+ *
+ *		Note: this routine can be used to copy within
+ *		the same file, i.e., infid and outfid can be the
+ *		same file.
+ *
+ * Return:      Success:    last byte written in the output.
+ *              Failure:    Exits program with EXIT_FAILURE value.
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+hsize_t
+copy_some_to_file (int infid, int outfid, hsize_t startin, hsize_t startout,
+		   ssize_t limit)
+{
+  char buf[1024];
+  struct stat sbuf;
+  int res;
+  ssize_t tot = 0;
+  ssize_t howmuch = 0;
+  ssize_t nchars = -1;
+/* used in assertion check
+  ssize_t ncw = -1;
+*/
+  ssize_t to;
+  ssize_t from;
+  ssize_t toend;
+  ssize_t fromend;
+
+  if (startin > startout)
+    {
+      /* this case is prohibited */
+      error_msg (progname, "copy_some_to_file: panic: startin > startout?\n");
+      exit (EXIT_FAILURE);
+    }
+
+  if (limit < 0)
+    {
+      res = fstat (infid, &sbuf);
+
+      if (res < 0)
+	{
+	  error_msg (progname, "Can't stat file \n");
+	  exit (EXIT_FAILURE);
+	}
+
+      howmuch = sbuf.st_size;
+    }
+  else
+    {
+      howmuch = limit;
+    }
+
+  if (howmuch == 0)
+    {
+      return 0;
+    }
+
+  /* assert (howmuch > 0) */
+
+  toend = (ssize_t) startout + howmuch;
+  fromend = (ssize_t) startin + howmuch;
+
+  if (howmuch > 512)
+    {
+      to = toend - 512;
+      from = fromend - 512;
+    }
+  else
+    {
+      to = toend - howmuch;
+      from = fromend - howmuch;
+    }
+
+  while (howmuch > 0)
+    {
+      HDlseek (outfid, (off_t) to, SEEK_SET);
+      HDlseek (infid, (off_t) from, SEEK_SET);
+
+      if (howmuch > 512)
+	{
+	  nchars = HDread (infid, buf, (unsigned) 512);
+	}
+      else
+	{
+	  nchars = HDread (infid, buf, howmuch);
+	}
+
+      if (nchars <= 0)
+	{
+	  printf ("huh? \n");
+	  exit (1);
+	}
+      /*ncw = */ HDwrite (outfid, buf, (unsigned) nchars);
+
+      /* assert (ncw == nchars) */
+
+      tot += nchars;
+      howmuch -= nchars;
+      if (howmuch > 512)
+	{
+	  to -= nchars;
+	  from -= nchars;
+	}
+      else
+	{
+	  to -= howmuch;
+	  from -= howmuch;
+	}
+    }
+
+  /* assert howmuch == 0 */
+  /* assert tot == limit */
+
+  return ((hsize_t) tot + (hsize_t) startout);
+}
+
+
+/*-------------------------------------------------------------------------
+ * Function:    compute_user_block_size
+ *
+ * Purpose:     Find the offset of the HDF5 header after the user block: 
+ *                 align at 0, 512, 1024, etc.
+ *			ublock_size: the size of the user block (bytes).
+ *		
+ * Return:      Success:    the location of the header == the size of the
+ *				padded user block.
+ *              Failure:    none
+ *
+ * Return:      Success:    last byte written in the output.
+ *              Failure:    Exits program with EXIT_FAILURE value.
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+hsize_t
+compute_user_block_size (hsize_t ublock_size)
+{
+  ssize_t where = 512;
+
+  if (ublock_size == 0)
+    return 0;
+
+  while (where < ublock_size)
+    {
+      where *= 2;
+    }
+
+  return (where);
+}
+
+/*
+ *  Write zeroes to fill the file from 'where' to 512, 1024, etc. bytes.
+ *
+ *  Returns the size of the padded file.
+ */
+hsize_t
+write_pad (int ofile, hsize_t where)
+{
+  unsigned int i;
+  char buf[1];
+  hsize_t psize;
+
+  buf[0] = '\0';
+
+  HDlseek (ofile, (off_t) where, SEEK_SET);
+
+  psize = compute_user_block_size (where);
+  psize -= where;
+
+  for (i = 0; i < psize; i++)
+    {
+      HDwrite (ofile, buf, 1);
+    }
+  return (where + psize);	/* the new size of the file. */
+}
diff --git a/tools/h5jam/h5jamgentest.c b/tools/h5jam/h5jamgentest.c
new file mode 100644
index 0000000..7f6342f
--- /dev/null
+++ b/tools/h5jam/h5jamgentest.c
@@ -0,0 +1,639 @@
+ /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
+ * Copyright by the Board of Trustees of the University of Illinois.         *
+ * All rights reserved.                                                      *
+ *                                                                           *
+ * This file is part of HDF5.  The full HDF5 copyright notice, including     *
+ * terms governing use, modification, and redistribution, is contained in    *
+ * the files COPYING and Copyright.html.  COPYING can be found at the root   *
+ * of the source code distribution tree; Copyright.html can be found at the  *
+ * root level of an installed copy of the electronic HDF5 document set and   *
+ * is linked from the top-level documents page.  It can also be found at     *
+ * http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html.  If you do not have     *
+ * access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
+ * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
+
+/*
+ * Generate the binary hdf5 files and user block data for the jam/unjam tests.
+ * Usage: just execute the program without any arguments will
+ * generate all the files in the local directory.
+ *
+ * If you regenerate the test files (e.g., changing some code,
+ * trying it on a new platform, ...), you need to verify the correctness
+ * of the expected output and update the corresponding *.ddl files.
+ */
+#include <limits.h>
+
+#include "hdf5.h"
+#include "H5private.h"
+
+#define UBTXT1 "u0.txt"
+#define UBTXT2 "u10.txt"
+#define UBTXT3 "u511.txt"
+#define UBTXT4 "u512.txt"
+#define UBTXT5 "u513.txt"
+/* not used yet
+#define UBTXT6 "u1023.txt"
+#define UBTXT7 "u1024.txt"
+#define UBTXT8 "u1025.txt"
+#define UBTXT9 "u2047.txt"
+#define UBTXT10 "u2048.txt"
+#define UBTXT11 "u2049.txt"
+#define UBBIN1 "u0.dat"
+#define UBBIN2 "u10.dat"
+#define UBBIN3 "u511.dat"
+#define UBBIN4 "u512.dat"
+#define UBBIN5 "u513.dat"
+*/
+
+/* not used yet
+#define FILE1 "tnull.h5"
+#define FILE2 "tnullwithub.h5"
+*/
+/* tall is same as dumper test */
+#define FILE7 "tall.h5"
+#define FILE8 "twithub.h5"
+#define FILE9 "twithub513.h5"
+
+/*
+ * This pattern is used to fill text files
+ */
+char pattern[11] = "abcdefghij";
+
+/*-------------------------------------------------------------------------
+ * prototypes
+ *-------------------------------------------------------------------------
+ */
+
+
+#define LENSTR  50
+#define LENSTR2  11
+
+#define SPACE2_RANK 2
+#define SPACE2_DIM1 10
+#define SPACE2_DIM2 10
+
+#define SPACE1_RANK 1
+#define SPACE1_DIM1 4
+
+#define DIM1  20
+#define DIM2  10
+#define CDIM1 DIM1/2
+#define CDIM2 DIM2/2
+#define RANK  2
+
+/* Element selection information */
+#define POINT1_NPOINTS 10
+
+typedef enum{
+     RED,
+     GREEN,
+     BLUE,
+     WHITE,
+     BLACK
+} enumtype;
+
+/* Compound datatype */
+typedef struct s1_t {
+    unsigned int a;
+    unsigned int b;
+    float c;
+} s1_t;
+
+
+/* 1-D array datatype */
+#define ARRAY1_RANK 1
+#define ARRAY1_DIM1 4
+
+/* 3-D array datatype */
+#define ARRAY2_RANK 3
+#define ARRAY2_DIM1 3
+#define ARRAY2_DIM2 4
+#define ARRAY2_DIM3 5
+
+/* 2-D array datatype */
+#define ARRAY3_RANK 2
+#define ARRAY3_DIM1 6
+#define ARRAY3_DIM2 3
+
+/* VL string datatype name */
+#define VLSTR_TYPE      "vl_string_type"
+
+
+/*
+
+/ : g1  g2  attr1  attr2
+g1 : g1.1  g1.2
+g1.1 : dset1.1.1(attr1, attr2)   dset1.1.2
+g1.2 : g1.2.1
+g1.2.1 : slink
+g2 : dset2.1  dset2.2
+
+*/
+
+
+static void gent_all(void) {
+hid_t fid, group, attr, dataset, space;
+hsize_t dims[2];
+int data[2][2], dset1[10][10], dset2[20];
+char buf[60];
+int i, j;
+float dset2_1[10], dset2_2[3][5];
+
+  fid = H5Fcreate(FILE7, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT);
+
+  /* create groups */
+  group = H5Gcreate (fid, "/g1", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g2", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g1/g1.1", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g1/g1.2", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g1/g1.2/g1.2.1", 0);
+  H5Gclose(group);
+
+  /* root attributes */
+  group = H5Gopen (fid, "/");
+
+  dims[0] = 10;
+  space = H5Screate_simple(1, dims, NULL);
+  attr = H5Acreate (group, "attr1", H5T_STD_I8BE, space, H5P_DEFAULT);
+  sprintf(buf, "abcdefghi");
+  H5Awrite(attr, H5T_NATIVE_SCHAR, buf);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  dims[0] = 2; dims[1] = 2;
+  space = H5Screate_simple(2, dims, NULL);
+  attr = H5Acreate (group, "attr2", H5T_STD_I32BE, space, H5P_DEFAULT);
+  data[0][0] = 0; data[0][1] = 1; data[1][0] = 2; data[1][1] = 3;
+  H5Awrite(attr, H5T_NATIVE_INT, data);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  H5Gclose(group);
+
+  group = H5Gopen (fid, "/g1/g1.1");
+
+  /* dset1.1.1 */
+  dims[0] = 10; dims[1] = 10;
+  space = H5Screate_simple(2, dims, NULL);
+  dataset = H5Dcreate(group, "dset1.1.1", H5T_STD_I32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 10; i++)
+       for (j = 0; j < 10; j++)
+            dset1[i][j] = j*i;
+  H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset1);
+  H5Sclose(space);
+
+  /* attributes of dset1.1.1 */
+  dims[0] = 27;
+  space = H5Screate_simple(1, dims, NULL);
+  attr = H5Acreate (dataset, "attr1", H5T_STD_I8BE, space, H5P_DEFAULT);
+  sprintf(buf, "1st attribute of dset1.1.1");
+  H5Awrite(attr, H5T_NATIVE_SCHAR, buf);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  dims[0] = 27;
+  space = H5Screate_simple(1, dims, NULL);
+  attr = H5Acreate (dataset, "attr2", H5T_STD_I8BE, space, H5P_DEFAULT);
+  sprintf(buf, "2nd attribute of dset1.1.1");
+  H5Awrite(attr, H5T_NATIVE_SCHAR, buf);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  H5Dclose(dataset);
+
+  /* dset1.1.2 */
+  dims[0] = 20;
+  space = H5Screate_simple(1, dims, NULL);
+  dataset = H5Dcreate(group, "dset1.1.2", H5T_STD_I32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 20; i++)
+       dset2[i] = i;
+  H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset2);
+  H5Sclose(space);
+  H5Dclose(dataset);
+
+  H5Gclose(group);
+
+  /* soft link */
+  group = H5Gopen (fid, "/g1/g1.2/g1.2.1");
+  H5Glink (group, H5G_LINK_SOFT, "somevalue", "slink");
+  H5Gclose(group);
+
+  group = H5Gopen (fid, "/g2");
+
+  /* dset2.1 */
+  dims[0] = 10;
+  space = H5Screate_simple(1, dims, NULL);
+  dataset = H5Dcreate(group, "dset2.1", H5T_IEEE_F32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 10; i++)
+       dset2_1[i] = (float)(i*0.1+1);
+  H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset2_1);
+  H5Sclose(space);
+  H5Dclose(dataset);
+ 
+  /* dset2.2 */
+  dims[0] = 3; dims[1] = 5;
+  space = H5Screate_simple(2, dims, NULL);
+  dataset = H5Dcreate(group, "dset2.2", H5T_IEEE_F32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 3; i++)
+       for (j = 0; j < 5; j++)
+            dset2_2[i][j] = (float)((i+1)*j*0.1);
+  H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset2_2);
+  H5Sclose(space);
+  H5Dclose(dataset);
+
+  H5Gclose(group);
+
+  H5Fclose(fid);
+
+}
+
+static void gent_withub(void) {
+hid_t fid, group, attr, dataset, space;
+hid_t create_plist;
+hsize_t dims[2];
+int data[2][2], dset1[10][10], dset2[20];
+char buf[512];
+int i, j;
+float dset2_1[10], dset2_2[3][5];
+int fd;
+char *bp;
+
+  create_plist = H5Pcreate(H5P_FILE_CREATE);
+  H5Pset_userblock(create_plist,512);
+  fid = H5Fcreate(FILE8, H5F_ACC_TRUNC, create_plist, H5P_DEFAULT);
+
+  /* create groups */
+  group = H5Gcreate (fid, "/g1", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g2", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g1/g1.1", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g1/g1.2", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g1/g1.2/g1.2.1", 0);
+  H5Gclose(group);
+
+  /* root attributes */
+  group = H5Gopen (fid, "/");
+
+  dims[0] = 10;
+  space = H5Screate_simple(1, dims, NULL);
+  attr = H5Acreate (group, "attr1", H5T_STD_I8BE, space, H5P_DEFAULT);
+  sprintf(buf, "abcdefghi");
+  H5Awrite(attr, H5T_NATIVE_SCHAR, buf);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  dims[0] = 2; dims[1] = 2;
+  space = H5Screate_simple(2, dims, NULL);
+  attr = H5Acreate (group, "attr2", H5T_STD_I32BE, space, H5P_DEFAULT);
+  data[0][0] = 0; data[0][1] = 1; data[1][0] = 2; data[1][1] = 3;
+  H5Awrite(attr, H5T_NATIVE_INT, data);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  H5Gclose(group);
+
+  group = H5Gopen (fid, "/g1/g1.1");
+
+  /* dset1.1.1 */
+  dims[0] = 10; dims[1] = 10;
+  space = H5Screate_simple(2, dims, NULL);
+  dataset = H5Dcreate(group, "dset1.1.1", H5T_STD_I32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 10; i++)
+       for (j = 0; j < 10; j++)
+            dset1[i][j] = j*i;
+  H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset1);
+  H5Sclose(space);
+
+  /* attributes of dset1.1.1 */
+  dims[0] = 27;
+  space = H5Screate_simple(1, dims, NULL);
+  attr = H5Acreate (dataset, "attr1", H5T_STD_I8BE, space, H5P_DEFAULT);
+  sprintf(buf, "1st attribute of dset1.1.1");
+  H5Awrite(attr, H5T_NATIVE_SCHAR, buf);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  dims[0] = 27;
+  space = H5Screate_simple(1, dims, NULL);
+  attr = H5Acreate (dataset, "attr2", H5T_STD_I8BE, space, H5P_DEFAULT);
+  sprintf(buf, "2nd attribute of dset1.1.1");
+  H5Awrite(attr, H5T_NATIVE_SCHAR, buf);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  H5Dclose(dataset);
+
+  /* dset1.1.2 */
+  dims[0] = 20;
+  space = H5Screate_simple(1, dims, NULL);
+  dataset = H5Dcreate(group, "dset1.1.2", H5T_STD_I32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 20; i++)
+       dset2[i] = i;
+  H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset2);
+  H5Sclose(space);
+  H5Dclose(dataset);
+
+  H5Gclose(group);
+
+  /* soft link */
+  group = H5Gopen (fid, "/g1/g1.2/g1.2.1");
+  H5Glink (group, H5G_LINK_SOFT, "somevalue", "slink");
+  H5Gclose(group);
+
+  group = H5Gopen (fid, "/g2");
+
+  /* dset2.1 */
+  dims[0] = 10;
+  space = H5Screate_simple(1, dims, NULL);
+  dataset = H5Dcreate(group, "dset2.1", H5T_IEEE_F32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 10; i++)
+       dset2_1[i] = (float)(i*0.1+1);
+  H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset2_1);
+  H5Sclose(space);
+  H5Dclose(dataset);
+ 
+  /* dset2.2 */
+  dims[0] = 3; dims[1] = 5;
+  space = H5Screate_simple(2, dims, NULL);
+  dataset = H5Dcreate(group, "dset2.2", H5T_IEEE_F32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 3; i++)
+       for (j = 0; j < 5; j++)
+            dset2_2[i][j] = (float)((i+1)*j*0.1);
+  H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset2_2);
+  H5Sclose(space);
+  H5Dclose(dataset);
+
+  H5Gclose(group);
+
+  H5Fclose(fid);
+
+
+	fd = HDopen(FILE8,O_RDWR, 0);
+	if (fd < 0) {
+		/* panic */
+	}
+	/* fill buf with pattern */
+	memset(buf,'\0',512);
+	bp = buf;
+	for (i = 0; i < strlen(pattern); i++) {
+		*bp++ = pattern[i%10];	
+	}
+
+	HDwrite(fd,buf,512);
+
+	close(fd);
+}
+
+static void gent_withub513(void) {
+hid_t fid, group, attr, dataset, space;
+hid_t create_plist;
+hsize_t dims[2];
+int data[2][2], dset1[10][10], dset2[20];
+char buf[1023];
+int i, j;
+float dset2_1[10], dset2_2[3][5];
+int fd;
+char *bp;
+
+  create_plist = H5Pcreate(H5P_FILE_CREATE);
+  H5Pset_userblock(create_plist,1024);
+  fid = H5Fcreate(FILE9, H5F_ACC_TRUNC, create_plist, H5P_DEFAULT);
+
+  /* create groups */
+  group = H5Gcreate (fid, "/g1", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g2", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g1/g1.1", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g1/g1.2", 0);
+  H5Gclose(group);
+
+  group = H5Gcreate (fid, "/g1/g1.2/g1.2.1", 0);
+  H5Gclose(group);
+
+  /* root attributes */
+  group = H5Gopen (fid, "/");
+
+  dims[0] = 10;
+  space = H5Screate_simple(1, dims, NULL);
+  attr = H5Acreate (group, "attr1", H5T_STD_I8BE, space, H5P_DEFAULT);
+  sprintf(buf, "abcdefghi");
+  H5Awrite(attr, H5T_NATIVE_SCHAR, buf);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  dims[0] = 2; dims[1] = 2;
+  space = H5Screate_simple(2, dims, NULL);
+  attr = H5Acreate (group, "attr2", H5T_STD_I32BE, space, H5P_DEFAULT);
+  data[0][0] = 0; data[0][1] = 1; data[1][0] = 2; data[1][1] = 3;
+  H5Awrite(attr, H5T_NATIVE_INT, data);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  H5Gclose(group);
+
+  group = H5Gopen (fid, "/g1/g1.1");
+
+  /* dset1.1.1 */
+  dims[0] = 10; dims[1] = 10;
+  space = H5Screate_simple(2, dims, NULL);
+  dataset = H5Dcreate(group, "dset1.1.1", H5T_STD_I32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 10; i++)
+       for (j = 0; j < 10; j++)
+            dset1[i][j] = j*i;
+  H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset1);
+  H5Sclose(space);
+
+  /* attributes of dset1.1.1 */
+  dims[0] = 27;
+  space = H5Screate_simple(1, dims, NULL);
+  attr = H5Acreate (dataset, "attr1", H5T_STD_I8BE, space, H5P_DEFAULT);
+  sprintf(buf, "1st attribute of dset1.1.1");
+  H5Awrite(attr, H5T_NATIVE_SCHAR, buf);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  dims[0] = 27;
+  space = H5Screate_simple(1, dims, NULL);
+  attr = H5Acreate (dataset, "attr2", H5T_STD_I8BE, space, H5P_DEFAULT);
+  sprintf(buf, "2nd attribute of dset1.1.1");
+  H5Awrite(attr, H5T_NATIVE_SCHAR, buf);
+  H5Sclose(space);
+  H5Aclose(attr);
+
+  H5Dclose(dataset);
+
+  /* dset1.1.2 */
+  dims[0] = 20;
+  space = H5Screate_simple(1, dims, NULL);
+  dataset = H5Dcreate(group, "dset1.1.2", H5T_STD_I32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 20; i++)
+       dset2[i] = i;
+  H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset2);
+  H5Sclose(space);
+  H5Dclose(dataset);
+
+  H5Gclose(group);
+
+  /* soft link */
+  group = H5Gopen (fid, "/g1/g1.2/g1.2.1");
+  H5Glink (group, H5G_LINK_SOFT, "somevalue", "slink");
+  H5Gclose(group);
+
+  group = H5Gopen (fid, "/g2");
+
+  /* dset2.1 */
+  dims[0] = 10;
+  space = H5Screate_simple(1, dims, NULL);
+  dataset = H5Dcreate(group, "dset2.1", H5T_IEEE_F32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 10; i++)
+       dset2_1[i] = (float)(i*0.1+1);
+  H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset2_1);
+  H5Sclose(space);
+  H5Dclose(dataset);
+ 
+  /* dset2.2 */
+  dims[0] = 3; dims[1] = 5;
+  space = H5Screate_simple(2, dims, NULL);
+  dataset = H5Dcreate(group, "dset2.2", H5T_IEEE_F32BE, space, H5P_DEFAULT);
+  for (i = 0; i < 3; i++)
+       for (j = 0; j < 5; j++)
+            dset2_2[i][j] = (float)((i+1)*j*0.1);
+  H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset2_2);
+  H5Sclose(space);
+  H5Dclose(dataset);
+
+  H5Gclose(group);
+
+  H5Fclose(fid);
+
+
+	fd = HDopen(FILE9,O_RDWR, 0);
+	if (fd < 0) {
+		/* panic */
+	}
+	/* fill buf with pattern */
+	memset(buf,'\0',1024);
+	bp = buf;
+	for (i = 0; i < 513; i++) {
+		*bp++ = pattern[i%10];	
+	}
+
+	HDwrite(fd,buf,1024);
+
+	close(fd);
+}
+
+void
+create_textfile(char *name, off_t size) {
+char *buf;
+int fd;
+int i;
+char *bp;
+
+	fd = creat(name,0777);
+	if (fd < 0) {
+		/* panic */
+	}
+	buf = calloc(size,1);
+	if (buf == NULL) {
+		/* panic */
+	}
+	/* fill buf with pattern */
+	bp = buf;
+	for (i = 0; i < size; i++) {
+		*bp++ = pattern[i%10];	
+	}
+
+	
+	HDwrite(fd,buf,size);
+
+	close(fd);
+}
+
+#ifdef notdef
+/* not used yet */
+void
+create_binfile(char *name, off_t size) {
+char *buf;
+int fd;
+int i;
+char *bp;
+
+	fd = creat(name,0777);
+	if (fd < 0) {
+		/* panic */
+	}
+	buf = calloc(size,1);
+	if (buf == NULL) {
+		/* panic */
+	}
+	/* fill buf with pattern */
+	bp = buf;
+	for (i = 0; i < size; i++) {
+		*bp++ = (char) i & 0xff;	
+	}
+	
+	HDwrite(fd,buf,size);
+
+	close(fd);
+}
+#endif
+
+/*-------------------------------------------------------------------------
+ * Function: main
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+int main(void)
+{
+
+/*
+create_textfile(UBTXT1,0);
+*/
+create_textfile(UBTXT2,10);
+create_textfile(UBTXT3,511);
+create_textfile(UBTXT4,512);
+create_textfile(UBTXT5,513);
+/*
+create_textfile(UBTXT6,1023);
+create_textfile(UBTXT7,1024);
+create_textfile(UBTXT8,1025);
+create_textfile(UBTXT9,2047);
+create_textfile(UBTXT10,2048);
+create_textfile(UBTXT11,2049);
+
+create_binfile(UBBIN1,0);
+create_binfile(UBBIN2,10);
+create_binfile(UBBIN3,511);
+create_binfile(UBBIN4,512);
+create_binfile(UBBIN5,513);
+
+*/
+    gent_all();
+    gent_withub();
+    gent_withub513();
+
+    return 0;
+}
diff --git a/tools/h5jam/h5unjam.c b/tools/h5jam/h5unjam.c
new file mode 100644
index 0000000..20378e5
--- /dev/null
+++ b/tools/h5jam/h5unjam.c
@@ -0,0 +1,317 @@
+/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
+ * Copyright by the Board of Trustees of the University of Illinois.         *
+ * All rights reserved.                                                      *
+ *                                                                           *
+ * This file is part of HDF5.  The full HDF5 copyright notice, including     *
+ * terms governing use, modification, and redistribution, is contained in    *
+ * the files COPYING and Copyright.html.  COPYING can be found at the root   *
+ * of the source code distribution tree; Copyright.html can be found at the  *
+ * root level of an installed copy of the electronic HDF5 document set and   *
+ * is linked from the top-level documents page.  It can also be found at     *
+ * http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html.  If you do not have     *
+ * access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
+ * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
+
+#include <stdio.h>
+#include <sys/types.h>
+#include <fcntl.h>
+#include <sys/stat.h>
+
+#ifdef H5_HAVE_UNISTD_H
+#include <unistd.h>
+#endif
+
+#include "hdf5.h"
+#include "H5private.h"
+#include "h5tools_utils.h"
+
+#define TRUE 1
+#define FALSE 0
+
+hsize_t write_pad( int , hsize_t );
+hsize_t compute_pad( hsize_t );
+hsize_t copy_to_file( int , int , ssize_t, ssize_t );
+
+const char  *progname = "unjam";
+int          d_status = EXIT_SUCCESS;
+int do_delete = FALSE;
+char *output_file = NULL;
+char *input_file = NULL;
+char *ub_file = NULL;
+
+/*
+ * Command-line options: The user can specify short or long-named
+ * parameters. The long-named ones can be partially spelled. When
+ * adding more, make sure that they don't clash with each other.
+ */
+static const char *s_opts = "hu:i:o:d";
+static struct long_options l_opts[] = {
+    { "help", no_arg, 'h' },
+    { "hel", no_arg, 'h' },
+  {"i", require_arg, 'i'},	/* input file */
+  {"u", require_arg, 'u'},	/* user block file */
+  {"o", require_arg, 'o'},	/* output file */
+  {"delete", no_arg, 'd'},	/* delete ub */
+  {"delet", no_arg, 'd'},
+  {"dele", no_arg, 'd'},
+  {"del", no_arg, 'd'},
+  {"de", no_arg, 'd'},	
+    { NULL, 0, '\0' }
+};
+
+/*-------------------------------------------------------------------------
+ * Function:    usage
+ *
+ * Purpose:     Print the usage message 
+ *
+ * Return:      void
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+static void
+usage(const char *prog)
+{
+    fflush(stdout);
+    fprintf(stdout, "usage: %s -i h5_file -o user_block_file_out -o h5_file_out [-d | --delete]\n", prog);
+    fprintf(stdout, "           Extract user block from 'h5_file' into 'user_block_file'\n");
+    fprintf(stdout, "           and HDF5 file into 'h5_file_out'\n");
+
+    fprintf(stdout, "       %s -h\n",prog);
+    fprintf(stdout, "           Print a usage message and exit\n");
+}
+
+/*-------------------------------------------------------------------------
+ * Function:    parse_command_line
+ *
+ * Purpose:     Parse the command line for the h5dumper.
+ *
+ * Return:      Success:    
+ *
+ *              Failure:    Exits program with EXIT_FAILURE value.
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+
+void
+parse_command_line(int argc, const char *argv[])
+{
+    int                 opt  = FALSE;
+
+    /* parse command line options */
+    while ((opt = get_option(argc, argv, s_opts, l_opts)) != EOF) {
+        switch ((char)opt) {
+	case 'o':
+	  output_file = strdup (opt_arg);
+	  break;
+	case 'i':
+	  input_file = strdup (opt_arg);
+	  break;
+	case 'u':
+	  ub_file = strdup (opt_arg);
+	  break;
+	case 'd':
+	  do_delete = TRUE;
+	  break;
+        case 'h':
+            usage(progname);
+            exit(EXIT_SUCCESS);
+        case '?':
+        default:
+            usage(progname);
+            exit(EXIT_FAILURE);
+        }
+    }
+
+    /* check for file name to be processed */
+/*
+    if (argc <= opt_ind+2) {
+        error_msg(progname, "missing file name\n");
+        usage(progname);
+        exit(EXIT_FAILURE);
+    }
+*/
+}
+
+/*-------------------------------------------------------------------------
+ * Function:    main
+ *
+ * Purpose:     HDF5 user block unjammer
+ *
+ * Return:      Success:    0
+ *              Failure:    1
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+int
+main(int argc, const char *argv[])
+{
+    int   ifid;
+    int   ufid;
+    int   h5fid;
+    void               *edata;
+    H5E_auto_stack_t          func;
+    hid_t               ifile;
+    off_t fsize;
+    hsize_t usize;
+    htri_t testval;
+    herr_t status;
+    hid_t plist;
+    int res;
+    struct stat sbuf;
+
+    /* Disable error reporting */
+    H5Eget_auto_stack(H5E_DEFAULT, &func, &edata);
+    H5Eset_auto_stack(H5E_DEFAULT, NULL, NULL);
+
+    parse_command_line(argc, argv);
+
+    testval = H5Fis_hdf5(input_file);
+
+    if (testval <= 0) {
+        error_msg(progname, "Input HDF5 file is not HDF \"%s\"\n", input_file);
+        exit(EXIT_FAILURE);
+    }
+
+    ifile = H5Fopen(input_file, H5F_ACC_RDONLY , H5P_DEFAULT);
+
+    if (ifile < 0) {
+        error_msg(progname, "Can't open input HDF5 file \"%s\"\n", input_file);
+        exit(EXIT_FAILURE);
+    }
+
+    plist = H5Fget_create_plist(ifile);
+    if (plist < 0) {
+        error_msg(progname, "Can't get file creation plist for file \"%s\"\n", input_file);
+        exit(EXIT_FAILURE);
+    }
+
+    status =  H5Pget_userblock(plist, & usize  );
+    if (status < 0) {
+        error_msg(progname, "Can't get user block for file \"%s\"\n", input_file);
+        exit(EXIT_FAILURE);
+    }
+
+    if (usize == 0) {
+	/* no user block to remove: message? */
+        error_msg(progname, "\"%s\" has no user block: no change to file\n", input_file);
+        exit(EXIT_SUCCESS);
+	
+    }
+
+    res = stat(input_file, &sbuf);
+
+    if (res < 0) {
+        error_msg(progname, "Can't stat file \"%s\"\n", input_file);
+        exit(EXIT_FAILURE);
+    }
+
+    fsize = sbuf.st_size;
+
+    ifid = HDopen(input_file,O_RDONLY,0);
+
+    if (ifid < 0) {
+        error_msg(progname, "unable to open input HDF5 file \"%s\"\n", input_file);
+        exit(EXIT_FAILURE);
+    }
+
+    if (do_delete && (ub_file != NULL)) {
+            error_msg(progname, "??\"%s\"\n", ub_file);
+            exit(EXIT_FAILURE);
+    }
+
+    if (ub_file == NULL) {
+	/* write to sdtout */
+	ufid = dup(1);
+    } else {
+        ufid = HDopen(ub_file,O_WRONLY|O_CREAT|O_TRUNC, 0644 );
+
+        if (ufid < 0) {
+            error_msg(progname, "unable to open user block file for output\"%s\"\n", ub_file);
+            exit(EXIT_FAILURE);
+        }
+    }
+
+    if (output_file == NULL) {
+        h5fid = HDopen(input_file,O_WRONLY, 0);
+
+        if (h5fid < 0) {
+            error_msg(progname, "unable to open output HDF5 file \"%s\"\n", input_file);
+            exit(EXIT_FAILURE);
+        }
+    } else {
+        h5fid = open(output_file,O_WRONLY|O_CREAT|O_TRUNC, 0644 );
+
+        if (h5fid < 0) {
+            error_msg(progname, "unable to open output HDF5 file \"%s\"\n", output_file);
+            exit(EXIT_FAILURE);
+        }
+    }
+
+
+    /* copy from 0 to 'usize - 1' into ufid */ 
+    if (!do_delete) {
+	    copy_to_file( ifid, ufid, 0, (ssize_t) usize);
+    }
+
+    /* copy from usize to end of file into h5fid, 
+     * starting at end of user block if present
+     */ 
+    copy_to_file( ifid, h5fid, (ssize_t) usize, (fsize - (ssize_t)usize) );
+
+
+    close(ufid);
+    close(h5fid);
+    close(ifid);
+
+    return d_status;
+}
+
+/*
+ *  Copy 'how_much' bytes from the input file to the output file, 
+ *  starting at byte 'where' in the input file.
+ *  
+ *  Returns the size of the output file.
+ */
+hsize_t 
+copy_to_file( int infid, int ofid, ssize_t where, ssize_t how_much ) {
+	char buf[1024];
+	off_t to;
+	off_t from;
+	ssize_t nchars = -1;
+
+
+	if (how_much <= 0) {
+		/* nothing to copy */
+		return(where);
+	}
+	from = where;
+	to = 0;
+
+	while( how_much > 0) {
+		HDlseek(infid,from,SEEK_SET);
+		if (how_much > 512) {
+			nchars = HDread(infid,buf,(unsigned)512);
+		} else {
+			nchars = HDread(infid,buf,(unsigned)how_much);
+		}
+		HDlseek(ofid,to,SEEK_SET);
+		HDwrite(ofid,buf,(unsigned)nchars);
+		how_much -= nchars;
+		from += nchars;
+		to += nchars;
+	}
+
+	return (where+how_much);
+}
diff --git a/tools/h5jam/tellub.c b/tools/h5jam/tellub.c
new file mode 100644
index 0000000..ab88f4d
--- /dev/null
+++ b/tools/h5jam/tellub.c
@@ -0,0 +1,189 @@
+/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
+ * Copyright by the Board of Trustees of the University of Illinois.         *
+ * All rights reserved.                                                      *
+ *                                                                           *
+ * This file is part of HDF5.  The full HDF5 copyright notice, including     *
+ * terms governing use, modification, and redistribution, is contained in    *
+ * the files COPYING and Copyright.html.  COPYING can be found at the root   *
+ * of the source code distribution tree; Copyright.html can be found at the  *
+ * root level of an installed copy of the electronic HDF5 document set and   *
+ * is linked from the top-level documents page.  It can also be found at     *
+ * http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html.  If you do not have     *
+ * access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
+ * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
+
+#include <stdio.h>
+
+#ifdef H5_HAVE_UNISTD_H
+#include <unistd.h>
+#endif
+
+#include "hdf5.h"
+#include "H5private.h"
+#include "h5tools_utils.h"
+
+#define TRUE 1
+#define FALSE 0
+
+const char *progname = "tellub";
+
+/*
+ * Command-line options: The user can specify short or long-named
+ * parameters. The long-named ones can be partially spelled. When
+ * adding more, make sure that they don't clash with each other.
+ */
+static const char *s_opts = "h";
+static struct long_options l_opts[] = {
+  {"help", no_arg, 'h'},
+  {"hel", no_arg, 'h'},
+  {NULL, 0, '\0'}
+};
+
+/*-------------------------------------------------------------------------
+ * Function:    usage
+ *
+ * Purpose:     Print the usage message 
+ *
+ * Return:      void
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+static void
+usage (const char *prog)
+{
+  fflush (stdout);
+  fprintf (stdout, "usage: %s h5_file\n", prog);
+  fprintf (stdout,
+	   "           Check that h5_fil is HDF5 file and print size of user block \n");
+  fprintf (stdout, "       %s -h\n", prog);
+  fprintf (stdout, "           Print a usage message and exit\n");
+}
+
+/*-------------------------------------------------------------------------
+ * Function:    parse_command_line
+ *
+ * Purpose:     Parse the command line for the h5dumper.
+ *
+ * Return:      Success:    
+ *
+ *              Failure:    Exits program with EXIT_FAILURE value.
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+
+void
+parse_command_line (int argc, const char *argv[])
+{
+  int opt = FALSE;
+
+  /* parse command line options */
+  while ((opt = get_option (argc, argv, s_opts, l_opts)) != EOF)
+    {
+      switch ((char) opt)
+	{
+	case 'h':
+	  usage (progname);
+	  exit (EXIT_SUCCESS);
+	case '?':
+	default:
+	  usage (progname);
+	  exit (EXIT_FAILURE);
+	}
+    }
+
+  /* check for file name to be processed */
+  if (argc <= opt_ind)
+    {
+      error_msg (progname, "missing file name\n");
+      usage (progname);
+      exit (EXIT_FAILURE);
+    }
+}
+
+/*-------------------------------------------------------------------------
+ * Function:    main
+ *
+ * Purpose:     HDF5 user block unjammer
+ *
+ * Return:      Success:    0
+ *              Failure:    1
+ *
+ * Programmer:  
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+void
+main (int argc, const char *argv[])
+{
+  char *ifname;
+  void *edata;
+  H5E_auto_stack_t func;
+  hid_t ifile;
+  hsize_t usize;
+  htri_t testval;
+  herr_t status;
+  hid_t plist;
+
+  /* Disable error reporting */
+  H5Eget_auto_stack(H5E_DEFAULT, &func, &edata);
+  H5Eset_auto_stack(H5E_DEFAULT, NULL, NULL);
+
+  parse_command_line (argc, argv);
+
+  if (argc <= (opt_ind))
+    {
+      error_msg (progname, "missing file name\n");
+      usage (progname);
+      exit (EXIT_FAILURE);
+    }
+
+  ifname = strdup (argv[opt_ind]);
+
+  testval = H5Fis_hdf5 (ifname);
+
+  if (testval <= 0)
+    {
+      error_msg (progname, "Input HDF5 file is not HDF \"%s\"\n", ifname);
+      exit (EXIT_FAILURE);
+    }
+
+  ifile = H5Fopen (ifname, H5F_ACC_RDONLY, H5P_DEFAULT);
+
+  if (ifile < 0)
+    {
+      error_msg (progname, "Can't open input HDF5 file \"%s\"\n", ifname);
+      exit (EXIT_FAILURE);
+    }
+
+  plist = H5Fget_create_plist (ifile);
+  if (plist < 0)
+    {
+      error_msg (progname, "Can't get file creation plist for file \"%s\"\n",
+		 ifname);
+      exit (EXIT_FAILURE);
+    }
+
+  status = H5Pget_userblock (plist, &usize);
+  if (status < 0)
+    {
+      error_msg (progname, "Can't get user block for file \"%s\"\n", ifname);
+      exit (EXIT_FAILURE);
+    }
+
+  printf ("%ld\n", (long) usize);
+
+  H5Pclose (plist);
+  H5Fclose (ifile);
+
+  exit (EXIT_SUCCESS);
+}
diff --git a/tools/h5jam/testh5jam.sh.in b/tools/h5jam/testh5jam.sh.in
new file mode 100644
index 0000000..88e9a7c
--- /dev/null
+++ b/tools/h5jam/testh5jam.sh.in
@@ -0,0 +1,527 @@
+#! /bin/sh
+#
+# Copyright by the Board of Trustees of the University of Illinois.
+# All rights reserved.
+#
+# This file is part of HDF5.  The full HDF5 copyright notice, including
+# terms governing use, modification, and redistribution, is contained in
+# the files COPYING and Copyright.html.  COPYING can be found at the root
+# of the source code distribution tree; Copyright.html can be found at the
+# root level of an installed copy of the electronic HDF5 document set and
+# is linked from the top-level documents page.  It can also be found at
+# http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html.  If you do not have
+# access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu.
+#
+# Tests for the h5dump tool
+
+# Determine which filters are available
+USE_FILTER_SZIP="@USE_FILTER_SZIP@"
+USE_FILTER_DEFLATE="@USE_FILTER_DEFLATE@"
+USE_FILTER_SHUFFLE="@USE_FILTER_SHUFFLE@"
+USE_FILTER_FLETCHER32="@USE_FILTER_FLETCHER32@"
+
+DUMPER=h5dump               # The dumper to use
+DUMPER_BIN=`pwd`/../$DUMPER    # The path of the dumper binary
+JAM=h5jam                     # Tool to test
+UNJAM=h5unjam                     # Tool to test
+JAM_BIN=`pwd`    # The path of the jam binary
+UNJAM_BIN=`pwd`    # The path of the jam binary
+
+CMP='cmp -s'
+DIFF='diff -c'
+AWK='awk'
+
+nerrors=0
+verbose=yes
+
+# The build (current) directory might be different than the source directory.
+if test -z "$srcdir"; then
+   srcdir=.
+fi
+TESTFILES="$srcdir/../testfiles"
+
+#test -d ../testfiles || mkdir ../testfiles
+
+# Print a line-line message left justified in a field of 70 characters
+# beginning with the word "Testing".
+#
+TESTING() {
+   SPACES="                                                               "
+   echo "Testing $* $SPACES" | cut -c1-70 | tr -d '\012'
+}
+
+# Print a line-line message left justified in a field of 70 characters
+# beginning with the word "Compare".
+#
+COMPARE() {
+   SPACES="                                                               "
+   echo "Compare $* $SPACES" | cut -c1-70 | tr -d '\012'
+}
+
+# Print a "SKIP" message
+SKIP() {
+ TESTING $JAM $@
+ echo  " -SKIP-"
+}
+
+# 
+#  COMPARE_FILES a.h5 b.h5
+#    Compare two files, skipping the first line.  This is used to 
+#    compare the output of the dumper, skipping the file name which
+#    is different.
+#    The result is stored in 'compval'.
+#
+cmpval=0;
+COMPARE_FILES() {
+	$AWK 'NR > 1' $1 > $1.cmp
+	$AWK 'NR > 1' $2 > $2.cmp
+ 	$CMP $1.cmp $2.cmp 
+ 	cmpval=$?
+        rm -f $1.cmp $2.cmp
+}
+
+#  CLEANUP files
+#     Clean up named files.
+CLEANUP() {
+   if test -z "$HDF5_NOCLEANUP"; then
+	for i in $*
+	do
+		rm -f $i
+	done
+   fi
+}
+
+#  SETUP file tocopy
+#    Clone a standard input file in the test directory
+#
+SETUP() {
+	cp $1 $2
+}
+
+#
+#  CHECKFILE orig.h5 compar.h5
+#     Check that the test file is the same as an original.
+#     The two files are dumped with the dumper, and the output
+#     compared with COMPARE_FILES.
+#     If the files are the same, the test reports " PASSED",
+#     otherwise, it reports "*FAILED*"
+CHECKFILE() {
+   expected="`dirname $2`/`basename $2 .h5`.out"
+   expected_err="`dirname $2`/`basename $2 .h5`.err"
+   actual="`basename $1 .h5`.out"
+   actual_err="`basename $1 .h5`.err"
+
+   $RUNSERIAL $DUMPER_BIN/$DUMPER $1 >$expected 2>$expected_err
+   cat $expected_err >> $expected
+
+   # dump the test file
+   COMPARE $2 to $1
+   $RUNSERIAL $DUMPER_BIN/$DUMPER $2 >$actual 2>$actual_err
+   cat $actual_err >> $actual
+
+   # compare the two files (ignore line 1)
+   COMPARE_FILES $actual $expected
+   if [ "$cmpval" = 0 ] ; then
+      echo " PASSED"
+   else
+      echo "*FAILED*"
+      echo "    Expected result (*.ddl) differs from actual result (*.out)"
+      nerrors="`expr $nerrors + 1`"
+      test yes = "$verbose" && $DIFF $expected $actual |sed 's/^/    /'
+   fi
+
+   # Clean up output files
+   if test -z "$HDF5_NOCLEANUP"; then
+      rm -f $actual $actual_err
+      rm -f $expected $expected_err
+   fi
+}
+
+#
+# CHECK_UB file.h5 user_block_file origfile.h5 
+#
+#   Check the user block in 'file.h5' is the same as
+#   'user_block' (allowing for padding).
+#
+#   If the original file had a user block before the test
+#   then 'compare.h5' is passed.  The user block must be extracted
+#   and the test file compared to:
+#      cat compare_ub user_block_file.
+#
+#   This test uses './getub' to extract the user block from 
+#   'file.h5', which is compared to the file described above.
+#
+#   The result is set in variable 'result1'.
+#
+result1=0;
+CHECK_UB_1() {
+	hfile="$1"
+	ufile="$2"
+
+	# check for third argument (the original file)
+	origfile="";
+	if [ -n "$3" ];
+	then
+		origfile="$3"
+	fi
+
+	# find the length of the user block to check
+	s1=`cat $ufile | wc -c | sed -e 's/ //g'`
+	if [ "$s1" = "0" ];
+	then
+		echo "File "$ufile" is empty"
+		result1=1;
+	fi
+
+	# Get the size of the original user block, if any.
+	if [ -n "$origfile" ];
+	then
+		# 'tellub' calls H5Fget_user_block to get the size
+		#  of the user block
+		s2=`$JAM_BIN/tellub $origfile`
+		if [ "$s2" = "0" ];
+		then
+			size=$s1;
+			cmpfile=$ufile
+		else
+			cmpfile="tt2"
+			size=`expr $s2 + $s1`
+			./getub -c $s2 $origfile > $cmpfile
+			cat $ufile >> $cmpfile
+		fi
+	else
+		# assume no user block
+		s2="0"
+		size=$s1;
+		cmpfile=$ufile
+	fi
+
+	# Extract 'size' bytes from the front of 'hfile'
+	# Compare to 'cmpfile', result is set in result1
+	tfile="tt1"
+	./getub -c $size $hfile > $tfile
+	res=`cmp $cmpfile $tfile`
+	if [ "$?" != "0" ];
+	then
+		echo $res
+		result1=1;
+	else
+		result1=0;
+	fi
+
+	# clean up
+	rm -f  $tfile
+	if [ "$s2" != "0" ] ;
+	then
+		rm -f $cmpfile
+	fi
+}
+
+
+#  CHECK_NOUB file.h5
+#
+#  Check that 'file.h5' has no user block.
+#  Setst result2 to 1 if there is a user block (fail), 0 if none (pass)
+
+result2=0;
+
+CHECK_NOUB() {
+	hfile="$1"
+
+	# call 'ubsize' to get the size of the user block
+	ubsize=`$JAM_BIN/tellub $hfile`
+
+	if [ "$?" != "0" ];
+	then
+		# error
+		result2=1;
+	else
+	if [ "$ubsize" = "0" ];
+	then
+		# pass
+		result2=0;
+	else
+		# fail
+		result2=1;
+	fi
+	fi
+}
+
+#  JAMTEST user_block file.h5 [--clobber] [ofile.h5]
+#
+#    Test the 'jam' tool:
+#      1. figure out the input and output, and the comparision
+#         that will be done.
+#      2. call 'jam' with the appropriate arguments
+#      3. check the user block is correct in the output (Check_UB)
+#    If the user block is correct, print "PASSED", else "*FAILED*"
+JAMTEST() {
+	ufile="$1"
+	ifile="$2"
+	compare_test=""   # the file to test
+	compare_orig=""   # the comparison to test against
+	cleanup=""
+
+	# sort out the arguments for the test and the check
+	do_clobber="no"
+	if [ "$3" = "--clobber" ];
+	then
+		#  clobber overwrites any existing user block
+		do_clobber="yes"
+		clobber="--clobber"
+		compare_orig=""
+		if [ -z "$4" ];
+		then
+			# output goes to infile, compare ubfile to infile
+			ofile=""
+			compare_test="$ifile"
+		else
+			# output goes to $4,  compare ofile to ubfile
+			ofile="$4"
+			compare_test="$ofile"
+		fi
+	else
+		clobber=""
+		# add user block to existing ub, if any 
+		if [ -z "$3" ];
+		then
+			# output goes to infile, compare ubfile to infile
+			ofile=""
+			compare_test="$ifile"
+			cp $ifile xxofile.h5
+			compare_orig="xxofile.h5"
+			cleanup="$cleanup $compare_orig"
+		else
+			# output goes to $4,  compare ofile to ubfile
+			ofile="$3"
+			compare_test="$ofile"
+			compare_orig="$ifile"
+		fi
+	fi
+
+	# call 'jam' with the appropriate arguments
+	if [ -n "$ofile" ];
+	then
+		TESTING h5jam -u `basename $ufile` -i `basename $ifile` -o `basename $ofile` $clobber
+		$JAM_BIN/$JAM -u $ufile -i $ifile -o $ofile $clobber
+	else
+		TESTING jam -u `basename $ufile` -i `basename $ifile` $clobber
+		$JAM_BIN/$JAM -u $ufile -i $ifile $clobber
+	fi
+
+	#echo "CHECK_UB_1 $compare_test $ufile $compare_orig"
+	CHECK_UB_1 $compare_test $ufile $compare_orig
+
+	if [ "$result1" = "0" ] ;
+	then
+		echo " PASSED"
+	else
+		echo " *FAILED*"
+      		nerrors="`expr $nerrors + 1`"
+	fi
+ 	CLEANUP $cleanup
+}
+	
+# UNJAMTEST  file.h5 [- | --delete] ofile
+#
+#  Test the 'unjam' tool
+#
+###fix the working directory here and in jamtest
+UNJAMTEST () {
+	infile="$1"
+	ofile="$3"
+	if [ "$2" = "-" ];
+	then
+		uofile="uofile"
+		TESTING h5unjam -i `basename $infile` -o `basename $ofile` "> "`basename $uofile`
+		$JAM_BIN/$UNJAM -i $infile -o $ofile > $uofile
+	else
+	if [ "$2" = "--delete" ];
+	then
+		uofile="none"
+		TESTING h5unjam -i `basename $infile` -o `basename $ofile` --delete
+		$JAM_BIN/$UNJAM  -i $infile -o $ofile --delete 
+
+	else
+		uofile="$2"
+		TESTING h5unjam -i `basename $infile` -u `basename $uofile` -o `basename $ofile`
+		$JAM_BIN/$UNJAM  -i $infile -u $uofile -o $ofile
+	fi
+	fi
+
+	result1=0
+	result2=0
+	cleanup=""
+	if [ "$uofile" != "none" ];
+	then
+		# sets result1
+		CHECK_UB_1 $infile $uofile
+		CLEANUP $uofile
+	fi
+
+	# sets result2
+	CHECK_NOUB $ofile
+
+	if [ "$result1" = "0" -a "$result2" = "0" ];
+	then
+		echo " PASSED"
+	else
+		echo " *FAILED*"
+	      nerrors="`expr $nerrors + 1`"
+	fi
+}
+
+
+##############################################################################
+##############################################################################
+###			  T H E   T E S T S                                ###
+##############################################################################
+##############################################################################
+
+JAMTEST $TESTFILES/u10.txt $TESTFILES/tall.h5 ta2.h5
+CHECKFILE $TESTFILES/tall.h5 ta2.h5
+CLEANUP ta2.h5
+JAMTEST $TESTFILES/u511.txt $TESTFILES/tall.h5 ta3.h5
+CHECKFILE $TESTFILES/tall.h5 ta3.h5
+CLEANUP ta3.h5
+JAMTEST $TESTFILES/u512.txt $TESTFILES/tall.h5 ta4.h5
+CHECKFILE $TESTFILES/tall.h5 ta4.h5
+CLEANUP ta4.h5
+JAMTEST $TESTFILES/u513.txt $TESTFILES/tall.h5 ta5.h5
+CHECKFILE $TESTFILES/tall.h5 ta5.h5
+CLEANUP ta5.h5
+
+SETUP $TESTFILES/tall.h5 ta.h5
+JAMTEST $TESTFILES/u10.txt ta.h5 
+CHECKFILE $TESTFILES/tall.h5 ta.h5
+SETUP $TESTFILES/tall.h5 ta.h5
+JAMTEST $TESTFILES/u511.txt ta.h5 
+CHECKFILE $TESTFILES/tall.h5 ta.h5
+SETUP $TESTFILES/tall.h5 ta.h5
+JAMTEST $TESTFILES/u512.txt ta.h5 
+CHECKFILE $TESTFILES/tall.h5 ta.h5
+SETUP $TESTFILES/tall.h5 ta.h5
+JAMTEST $TESTFILES/u513.txt ta.h5 
+CHECKFILE $TESTFILES/tall.h5 ta.h5
+CLEANUP ta.h5
+
+JAMTEST $TESTFILES/u10.txt $TESTFILES/twithub.h5 tax2.h5
+CHECKFILE $TESTFILES/tall.h5 tax2.h5
+CLEANUP tax2.h5
+JAMTEST $TESTFILES/u511.txt $TESTFILES/twithub.h5 tax3.h5
+CHECKFILE $TESTFILES/tall.h5 tax3.h5
+CLEANUP tax3.h5
+JAMTEST $TESTFILES/u512.txt $TESTFILES/twithub.h5 tax4.h5
+CHECKFILE $TESTFILES/tall.h5 tax4.h5
+CLEANUP tax4.h5
+JAMTEST $TESTFILES/u513.txt $TESTFILES/twithub.h5 tax5.h5
+CHECKFILE $TESTFILES/tall.h5 tax5.h5
+CLEANUP tax5.h5
+
+JAMTEST $TESTFILES/u10.txt $TESTFILES/twithub513.h5 tax6.h5
+CHECKFILE $TESTFILES/tall.h5 tax6.h5
+CLEANUP tax6.h5
+JAMTEST $TESTFILES/u511.txt $TESTFILES/twithub513.h5 tax7.h5
+CHECKFILE $TESTFILES/tall.h5 tax7.h5
+CLEANUP tax7.h5
+JAMTEST $TESTFILES/u512.txt $TESTFILES/twithub513.h5 tax8.h5
+CHECKFILE $TESTFILES/tall.h5 tax8.h5
+CLEANUP tax8.h5
+JAMTEST $TESTFILES/u513.txt $TESTFILES/twithub513.h5 tax9.h5
+CHECKFILE $TESTFILES/tall.h5 tax9.h5
+CLEANUP tax9.h5
+
+JAMTEST $TESTFILES/u10.txt $TESTFILES/twithub.h5 --clobber taz2.h5 
+CHECKFILE $TESTFILES/tall.h5 taz2.h5
+CLEANUP taz2.h5
+JAMTEST $TESTFILES/u511.txt $TESTFILES/twithub.h5 --clobber taz3.h5
+CHECKFILE $TESTFILES/tall.h5 taz3.h5
+CLEANUP taz3.h5
+JAMTEST $TESTFILES/u512.txt $TESTFILES/twithub.h5 --clobber taz4.h5 
+CHECKFILE $TESTFILES/tall.h5 taz4.h5
+CLEANUP taz4.h5
+JAMTEST $TESTFILES/u513.txt $TESTFILES/twithub.h5 --clobber taz5.h5 
+CHECKFILE $TESTFILES/tall.h5 taz5.h5
+CLEANUP taz5.h5
+
+JAMTEST $TESTFILES/u10.txt $TESTFILES/twithub513.h5 --clobber taz6.h5 
+CHECKFILE $TESTFILES/tall.h5 taz6.h5
+CLEANUP taz6.h5
+JAMTEST $TESTFILES/u511.txt $TESTFILES/twithub513.h5 --clobber taz7.h5
+CHECKFILE $TESTFILES/tall.h5 taz7.h5
+CLEANUP taz7.h5
+JAMTEST $TESTFILES/u512.txt $TESTFILES/twithub513.h5 --clobber taz8.h5 
+CHECKFILE $TESTFILES/tall.h5 taz8.h5
+CLEANUP taz8.h5
+JAMTEST $TESTFILES/u513.txt $TESTFILES/twithub513.h5 --clobber taz9.h5 
+CHECKFILE $TESTFILES/tall.h5 taz9.h5
+CLEANUP taz9.h5
+
+SETUP $TESTFILES/twithub.h5 tay2.h5
+JAMTEST $TESTFILES/u10.txt tay2.h5 --clobber
+CHECKFILE $TESTFILES/tall.h5 tay2.h5
+CLEANUP tay2.h5
+SETUP $TESTFILES/twithub.h5 tay3.h5
+JAMTEST $TESTFILES/u511.txt tay3.h5 --clobber
+CHECKFILE $TESTFILES/tall.h5 tay3.h5
+CLEANUP tay3.h5
+SETUP $TESTFILES/twithub.h5 tay4.h5
+JAMTEST $TESTFILES/u512.txt tay4.h5 --clobber
+CHECKFILE $TESTFILES/tall.h5 tay4.h5
+CLEANUP tay4.h5
+SETUP $TESTFILES/twithub.h5 tay5.h5
+JAMTEST $TESTFILES/u513.txt tay5.h5 --clobber
+CHECKFILE $TESTFILES/tall.h5 tay5.h5
+CLEANUP tay5.h5
+
+SETUP $TESTFILES/twithub513.h5 tay6.h5
+JAMTEST $TESTFILES/u10.txt tay6.h5 --clobber
+CHECKFILE $TESTFILES/tall.h5 tay6.h5
+CLEANUP tay6.h5
+SETUP $TESTFILES/twithub513.h5 tay7.h5
+JAMTEST $TESTFILES/u511.txt tay7.h5 --clobber
+CHECKFILE $TESTFILES/tall.h5 tay7.h5
+CLEANUP tay7.h5
+SETUP $TESTFILES/twithub513.h5 tay8.h5
+JAMTEST $TESTFILES/u512.txt tay8.h5 --clobber
+CHECKFILE $TESTFILES/tall.h5 tay8.h5
+CLEANUP tay8.h5
+SETUP $TESTFILES/twithub513.h5 tay9.h5
+JAMTEST $TESTFILES/u513.txt tay9.h5 --clobber
+CHECKFILE $TESTFILES/tall.h5 tay9.h5
+CLEANUP tay9.h5
+
+SETUP $TESTFILES/twithub.h5 tai1.h5
+UNJAMTEST tai1.h5 o10.txt taa1.h5
+CHECKFILE $TESTFILES/tall.h5 taa1.h5
+CLEANUP taa1.h5 tai1.h5 o10.txt
+SETUP $TESTFILES/twithub513.h5 tai2.h5
+UNJAMTEST tai2.h5 o512.txt taa2.h5
+CHECKFILE $TESTFILES/tall.h5 taa2.h5
+CLEANUP taa2.h5 tai2.h5 o512.txt
+
+SETUP $TESTFILES/twithub.h5 tai3.h5
+UNJAMTEST tai3.h5 - taa3.h5
+CHECKFILE $TESTFILES/tall.h5 taa3.h5
+CLEANUP taa3.h5 tai3.h5
+SETUP $TESTFILES/twithub513.h5 tai4.h5
+UNJAMTEST tai4.h5 - taa4.h5
+CHECKFILE $TESTFILES/tall.h5 taa4.h5
+CLEANUP taa4.h5 tai4.h5
+
+SETUP $TESTFILES/twithub.h5 taj2.h5
+UNJAMTEST taj2.h5 --delete tac2.h5
+CHECKFILE $TESTFILES/tall.h5 tac2.h5
+CLEANUP tac2.h5 taj2.h5
+SETUP $TESTFILES/twithub513.h5 taj3.h5
+UNJAMTEST taj3.h5 --delete tac3.h5
+CHECKFILE $TESTFILES/tall.h5 tac3.h5
+CLEANUP tac3.h5 taj3.h5
+
+
+
+if test $nerrors -eq 0 ; then
+   echo "All $JAM tests passed."
+fi
+
+exit $nerrors