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-rw-r--r--tools/h5jam/h5jam.c571
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diff --git a/tools/h5jam/h5jam.c b/tools/h5jam/h5jam.c
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--- a/tools/h5jam/h5jam.c
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-/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
- * Copyright by The HDF Group. *
- * 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://hdfgroup.org/HDF5/doc/Copyright.html. If you do not have *
- * access to either file, you may request a copy from help@hdfgroup.org. *
- * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
-
-#include "hdf5.h"
-#include "H5private.h"
-#include "h5tools.h"
-#include "h5tools_utils.h"
-
-/* Name of tool */
-#define PROGRAMNAME "h5jam"
-
-herr_t write_pad(int ofile, hsize_t old_where, hsize_t *new_where);
-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 *[]);
-
-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:V"; /* 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)
-{
- HDfflush (stdout);
- HDfprintf (stdout,
- "usage: %s -i <in_file.h5> -u <in_user_file> [-o <out_file.h5>] [--clobber]\n", prog);
- HDfprintf (stdout, "\n");
- HDfprintf (stdout,
- "Adds user block to front of an HDF5 file and creates a new concatenated file.\n");
- HDfprintf (stdout, "\n");
- HDfprintf (stdout,
- "OPTIONS\n");
- HDfprintf (stdout,
- " -i in_file.h5 Specifies the input HDF5 file.\n");
- HDfprintf (stdout,
- " -u in_user_file Specifies the file to be inserted into the user block.\n");
- HDfprintf (stdout,
- " Can be any file format except an HDF5 format.\n");
- HDfprintf (stdout,
- " -o out_file.h5 Specifies the output HDF5 file.\n");
- HDfprintf (stdout,
- " If not specified, the user block will be concatenated in\n");
- HDfprintf (stdout,
- " place to the input HDF5 file.\n");
- HDfprintf (stdout,
- " --clobber Wipes out any existing user block before concatenating\n");
- HDfprintf (stdout,
- " the given user block.\n");
- HDfprintf (stdout,
- " The size of the new user block will be the larger of;\n");
- HDfprintf (stdout,
- " - the size of existing user block in the input HDF5 file\n");
- HDfprintf (stdout,
- " - the size of user block required by new input user file\n");
- HDfprintf (stdout,
- " (size = 512 x 2N, N is positive integer.)\n");
- HDfprintf (stdout, "\n");
- HDfprintf (stdout,
- " -h Prints a usage message and exits.\n");
- HDfprintf (stdout,
- " -V Prints the HDF5 library version and exits.\n");
- HDfprintf (stdout, "\n");
- HDfprintf (stdout,
- "Exit Status:\n");
- HDfprintf (stdout,
- " 0 Succeeded.\n");
- HDfprintf (stdout,
- " >0 An error occurred.\n");
-}
-
-
-/*-------------------------------------------------------------------------
- * Function: leave
- *
- * Purpose: Shutdown and call exit()
- *
- * Return: Does not return
- *
- *-------------------------------------------------------------------------
- */
-static void
-leave(int ret)
-{
- if (ub_file)
- HDfree (ub_file);
- if (input_file)
- HDfree (input_file);
- if (output_file)
- HDfree (output_file);
-
- h5tools_close();
-
- HDexit(ret);
-}
-
-/*-------------------------------------------------------------------------
- * 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 = HDstrdup (opt_arg);
- break;
- case 'i':
- input_file = HDstrdup (opt_arg);
- break;
- case 'u':
- ub_file = HDstrdup (opt_arg);
- break;
- case 'c':
- do_clobber = TRUE;
- break;
- case 'h':
- usage (h5tools_getprogname());
- leave (EXIT_SUCCESS);
- case 'V':
- print_version (h5tools_getprogname());
- leave (EXIT_SUCCESS);
- case '?':
- default:
- usage (h5tools_getprogname());
- leave (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 = -1;
- int h5fid = -1;
- int ofid = -1;
- void *edata;
- H5E_auto2_t func;
- hid_t ifile = -1;
- hid_t plist = -1;
- herr_t status;
- htri_t testval;
- hsize_t usize;
- hsize_t h5fsize;
- hsize_t startub;
- hsize_t where;
- hsize_t newubsize;
- off_t fsize;
- h5_stat_t sbuf;
- h5_stat_t sbuf2;
- int res;
-
- h5tools_setprogname(PROGRAMNAME);
- h5tools_setstatus(EXIT_SUCCESS);
-
- /* Disable error reporting */
- H5Eget_auto2(H5E_DEFAULT, &func, &edata);
- H5Eset_auto2(H5E_DEFAULT, NULL, NULL);
-
- /* Initialize h5tools lib */
- h5tools_init();
-
- parse_command_line (argc, argv);
-
- if (ub_file == NULL) {
- /* no user block */
- error_msg("missing arguemnt for -u <user_file>.\n");
- help_ref_msg(stderr);
- leave (EXIT_FAILURE);
- }
-
- testval = H5Fis_hdf5 (ub_file);
-
- if (testval > 0) {
- error_msg("-u <user_file> cannot be HDF5 file, but it appears to be an HDF5 file.\n");
- help_ref_msg(stderr);
- leave (EXIT_FAILURE);
- }
-
- if (input_file == NULL) {
- error_msg("missing arguemnt for -i <HDF5 file>.\n");
- help_ref_msg(stderr);
- leave (EXIT_FAILURE);
- }
-
- testval = H5Fis_hdf5 (input_file);
-
- if (testval <= 0) {
- error_msg("Input HDF5 file \"%s\" is not HDF5 format.\n", input_file);
- help_ref_msg(stderr);
- leave (EXIT_FAILURE);
- }
-
- ifile = H5Fopen (input_file, H5F_ACC_RDONLY, H5P_DEFAULT);
-
- if (ifile < 0) {
- error_msg("Can't open input HDF5 file \"%s\"\n", input_file);
- leave (EXIT_FAILURE);
- }
-
- plist = H5Fget_create_plist (ifile);
- if (plist < 0) {
- error_msg("Can't get file creation plist for file \"%s\"\n", input_file);
- H5Fclose(ifile);
- leave (EXIT_FAILURE);
- }
-
- status = H5Pget_userblock (plist, &usize);
- if (status < 0) {
- error_msg("Can't get user block for file \"%s\"\n", input_file);
- H5Pclose(plist);
- H5Fclose(ifile);
- leave (EXIT_FAILURE);
- }
-
- H5Pclose(plist);
- H5Fclose(ifile);
-
- ufid = HDopen(ub_file, O_RDONLY, 0);
- if(ufid < 0) {
- error_msg("unable to open user block file \"%s\"\n", ub_file);
- leave (EXIT_FAILURE);
- }
-
- res = HDfstat(ufid, &sbuf);
- if(res < 0) {
- error_msg("Can't stat file \"%s\"\n", ub_file);
- HDclose (ufid);
- leave (EXIT_FAILURE);
- }
-
- fsize = (off_t)sbuf.st_size;
-
- h5fid = HDopen(input_file, O_RDONLY, 0);
- if(h5fid < 0) {
- error_msg("unable to open HDF5 file for read \"%s\"\n", input_file);
- HDclose (ufid);
- leave (EXIT_FAILURE);
- }
-
- res = HDfstat(h5fid, &sbuf2);
- if(res < 0) {
- error_msg("Can't stat file \"%s\"\n", input_file);
- HDclose (h5fid);
- HDclose (ufid);
- leave (EXIT_FAILURE);
- }
-
- h5fsize = (hsize_t)sbuf2.st_size;
-
- if (output_file == NULL) {
- ofid = HDopen (input_file, O_WRONLY, 0);
-
- if (ofid < 0) {
- error_msg("unable to open output file \"%s\"\n", output_file);
- HDclose (h5fid);
- HDclose (ufid);
- leave (EXIT_FAILURE);
- }
- }
- else {
- ofid = HDopen (output_file, O_WRONLY | O_CREAT | O_TRUNC, 0644);
-
- if (ofid < 0) {
- error_msg("unable to create output file \"%s\"\n", output_file);
- HDclose (h5fid);
- HDclose (ufid);
- leave (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 */
- if(write_pad(ofid, where, &where) < 0) {
- error_msg("Can't pad file \"%s\"\n", output_file);
- HDclose (h5fid);
- HDclose (ufid);
- HDclose (ofid);
- leave (EXIT_FAILURE);
- } /* end if */
-
- if(ub_file)
- HDfree (ub_file);
- if(input_file)
- HDfree (input_file);
- if(output_file)
- HDfree (output_file);
-
- if(ufid >= 0)
- HDclose (ufid);
- if(h5fid >= 0)
- HDclose (h5fid);
- if(ofid >= 0)
- HDclose (ofid);
-
- return h5tools_getstatus();
-}
-
-/*-------------------------------------------------------------------------
- * 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.
- *
- *-------------------------------------------------------------------------
- */
-hsize_t
-copy_some_to_file(int infid, int outfid, hsize_t startin, hsize_t startout,
- ssize_t limit)
-{
- char buf[1024];
- h5_stat_t sbuf;
- int res;
- ssize_t tot = 0;
- ssize_t howmuch = 0;
- ssize_t nchars = -1;
- ssize_t to;
- ssize_t from;
- ssize_t toend;
- ssize_t fromend;
-
- if(startin > startout) {
- /* this case is prohibited */
- error_msg("copy_some_to_file: panic: startin > startout?\n");
- exit (EXIT_FAILURE);
- } /* end if */
-
- if(limit < 0) {
- res = HDfstat(infid, &sbuf);
- if(res < 0) {
- error_msg("Can't stat file \n");
- HDexit(EXIT_FAILURE);
- } /* end if */
-
- howmuch = (ssize_t)sbuf.st_size;
- } else {
- howmuch = limit;
- } /* end if */
-
- if(0 == howmuch)
- return 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;
- } /* end if */
-
- 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, (unsigned)howmuch);
- } /* end if */
-
- if (nchars <= 0) {
- error_msg("Read error \n");
- HDexit(EXIT_FAILURE);
- } /* end if */
-
- if(HDwrite (outfid, buf, (unsigned) nchars) < 0) {
- error_msg("Write error \n");
- HDexit(EXIT_FAILURE);
- }
-
- tot += nchars;
- howmuch -= nchars;
- if(howmuch > 512) {
- to -= nchars;
- from -= nchars;
- } else {
- to -= howmuch;
- from -= howmuch;
- } /* end if */
- } /* end while */
-
- return (hsize_t)tot + (hsize_t)startout;
-} /* end copy_some_to_file() */
-
-
-/*-------------------------------------------------------------------------
- * 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.
- *-------------------------------------------------------------------------
- */
-H5_ATTR_CONST hsize_t
-compute_user_block_size(hsize_t ublock_size)
-{
- hsize_t where = 512;
-
- if(0 == ublock_size)
- return 0;
-
- while(where < ublock_size)
- where *= 2;
-
- return where;
-} /* end compute_user_block_size() */
-
-/*
- * Write zeroes to fill the file from 'where' to 512, 1024, etc. bytes.
- *
- * Sets new_where to the size of the padded file and
- * returns SUCCEED/FAIL.
- */
-herr_t
-write_pad(int ofile, hsize_t old_where, hsize_t *new_where)
-{
- unsigned int i;
- char buf[1];
- hsize_t psize;
-
- HDassert(new_where);
-
- buf[0] = '\0';
-
- HDlseek(ofile, (off_t)old_where, SEEK_SET);
-
- psize = compute_user_block_size(old_where);
- psize -= old_where;
-
- for(i = 0; i < psize; i++)
- if(HDwrite(ofile, buf, 1) < 0)
- return FAIL;
-
- /* Set the new size of the file. */
- *new_where = old_where + psize;
-
- return SUCCEED;
-} /* end write_pad() */
-
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