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hdf5/tools/h5jam/h5unjam.c
Jonathan Kim d7a07d62a4 [svn-r23228] Purpose: 
Revert back one of the coverity updates from previous checkin. "r20457: Coverity issue 691" in previous svn log.  Only revert the change about using "STDOUT_FILENO".

Description:
    Using "STDOUT_FILENO" caused error on Windows. On unix it's defined in <unistd.h>, but not in Windows.  After a little discussion with Allen, he remembered how the similar case were handled for h5dump redirecting those streams. (in h5dump.c) However it would requires more attention to apply, so this issue is entered as a separate task in jira HDDFV-8306.

    
Tested: 
    jam (linux32-LE), koala (linux64-LE), ostrich (linuxppc64-BE), fred (mac64-LE)
2013-02-05 11:09:45 -05:00

445 lines
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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 "h5unjam"
#define TRUE 1
#define FALSE 0
#define COPY_BUF_SIZE 1024
hsize_t write_pad( int , hsize_t );
hsize_t compute_pad( hsize_t );
herr_t copy_to_file( int , int , ssize_t, ssize_t );
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:V";
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)
{
HDfflush(stdout);
HDfprintf(stdout,
"usage: %s -i <in_file.h5> [-o <out_file.h5> ] [-u <out_user_file> | --delete]\n", prog);
HDfprintf(stdout, "\n");
HDfprintf(stdout,
"Splits user file and HDF5 file into two files: user block data and HDF5 data.\n");
HDfprintf(stdout, "\n");
HDfprintf(stdout,
"OPTIONS\n");
HDfprintf(stdout,
" -i in_file.h5 Specifies the HDF5 as input. If the input HDF5 file\n");
HDfprintf(stdout,
" contains no user block, exit with an error message.\n");
HDfprintf(stdout,
" -o out_file.h5 Specifies output HDF5 file without a user block.\n");
HDfprintf(stdout,
" If not specified, the user block will be removed from the\n");
HDfprintf(stdout,
" input HDF5 file.\n");
HDfprintf(stdout,
" -u out_user_file\n");
HDfprintf(stdout,
" Specifies the output file containing the data from the\n");
HDfprintf(stdout,
" user block.\n");
HDfprintf(stdout,
" Cannot be used with --delete option.\n");
HDfprintf(stdout,
" --delete Remove the user block from the input HDF5 file. The content\n");
HDfprintf(stdout,
" of the user block is discarded.\n");
HDfprintf(stdout,
" Cannot be used with the -u option.\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,
" If neither --delete nor -u is specified, the user block from the input file\n");
HDfprintf(stdout,
" will be displayed to stdout.\n");
HDfprintf(stdout, "\n");
HDfprintf(stdout,
"Exit Status:\n");
HDfprintf(stdout,
" 0 Succeeded.\n");
HDfprintf(stdout,
" >0 An error occurred.\n");
}
/*-------------------------------------------------------------------------
* Function: parse_command_line
*
* Purpose: Parse the command line for the h5dumper.
*
* Return: Success: EXIT_SUCCESS;
*
* Failure: Exits function with EXIT_FAILURE value.
*
*-------------------------------------------------------------------------
*/
static int
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 'd':
do_delete = TRUE;
break;
case 'h':
usage(h5tools_getprogname());
h5tools_setstatus(EXIT_SUCCESS);
goto done;
case 'V':
print_version (h5tools_getprogname());
h5tools_setstatus(EXIT_SUCCESS);
goto done;
case '?':
default:
usage(h5tools_getprogname());
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
}
return EXIT_SUCCESS;
done:
if(input_file)
HDfree(input_file);
if(output_file)
HDfree(output_file);
if(ub_file)
HDfree(ub_file);
return 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 = -1;
int ufid = -1;
int h5fid = -1;
void *edata;
H5E_auto2_t func;
hid_t ifile = -1;
hid_t plist = -1;
off_t fsize;
hsize_t usize;
htri_t testval;
herr_t status;
int res;
h5_stat_t sbuf;
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();
if(EXIT_FAILURE == parse_command_line(argc, argv))
goto done;
if (input_file == NULL) {
/* no user block */
error_msg("missing arguemnt for HDF5 file input.\n");
help_ref_msg(stderr);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
testval = H5Fis_hdf5(input_file);
if (testval <= 0) {
error_msg("Input HDF5 file \"%s\" is not HDF\n", input_file);
help_ref_msg (stderr);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
ifile = H5Fopen(input_file, H5F_ACC_RDONLY , H5P_DEFAULT);
if (ifile < 0) {
error_msg("Can't open input HDF5 file \"%s\"\n", input_file);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
plist = H5Fget_create_plist(ifile);
if (plist < 0) {
error_msg("Can't get file creation plist for file \"%s\"\n", input_file);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
status = H5Pget_userblock(plist, & usize);
if (status < 0) {
error_msg("Can't get user block for file \"%s\"\n", input_file);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
status = H5Pclose(plist);
HDassert(status >= 0);
status = H5Fclose(ifile);
HDassert(status >= 0);
if (usize == 0) {
/* no user block to remove: message? */
error_msg("\"%s\" has no user block: no change to file\n", input_file);
h5tools_setstatus(EXIT_SUCCESS);
goto done;
}
ifid = HDopen(input_file,O_RDONLY,0);
if(ifid < 0) {
error_msg("unable to open input HDF5 file \"%s\"\n", input_file);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
res = HDfstat(ifid, &sbuf);
if(res < 0) {
error_msg("Can't stat file \"%s\"\n", input_file);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
fsize = sbuf.st_size;
if (do_delete && (ub_file != NULL)) {
error_msg("??\"%s\"\n", ub_file);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
if (ub_file == NULL) {
/* write to sdtout */
ufid = HDdup(1);
}
else {
ufid = HDopen(ub_file,O_WRONLY|O_CREAT|O_TRUNC, 0644 );
if (ufid < 0) {
error_msg("unable to open user block file for output\"%s\"\n", ub_file);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
}
if (output_file == NULL) {
h5fid = HDopen(input_file,O_WRONLY, 0);
if (h5fid < 0) {
error_msg("unable to open output HDF5 file \"%s\"\n", input_file);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
}
else {
h5fid = HDopen(output_file,O_WRONLY|O_CREAT|O_TRUNC, 0644 );
if (h5fid < 0) {
error_msg("unable to open output HDF5 file \"%s\"\n", output_file);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
}
/* copy from 0 to 'usize - 1' into ufid */
if (!do_delete) {
if(copy_to_file(ifid, ufid, 0, (ssize_t) usize) < 0) {
error_msg("unable to copy user block to output file \"%s\"\n", ub_file);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
}
/* copy from usize to end of file into h5fid,
* starting at end of user block if present
*/
if(copy_to_file(ifid, h5fid, (ssize_t) usize, (ssize_t)(fsize - (ssize_t)usize)) < 0) {
error_msg("unable to copy hdf5 data to output file \"%s\"\n", output_file);
h5tools_setstatus(EXIT_FAILURE);
goto done;
}
done:
if(input_file)
HDfree(input_file);
if(output_file)
HDfree(output_file);
if(ub_file) {
HDfree(ub_file);
if(ufid >= 0)
status = HDclose(ufid);
HDassert(status >= 0);
}
if(h5fid >= 0) {
status = HDclose(h5fid);
HDassert(status >= 0);
}
if(ifid >= 0) {
status = HDclose(ifid);
HDassert(status >= 0);
}
return h5tools_getstatus();
}
/*
* Copy 'how_much' bytes from the input file to the output file,
* starting at byte 'where' in the input file.
*
* Returns 0 on success, -1 on failure.
*/
herr_t
copy_to_file( int infid, int ofid, ssize_t where, ssize_t how_much )
{
static char buf[COPY_BUF_SIZE];
off_t to;
off_t from;
ssize_t nchars = -1;
ssize_t wnchars = -1;
herr_t ret_value = 0;
/* nothing to copy */
if(how_much <= 0)
goto done;
from = where;
to = 0;
while(how_much > 0) {
/* Seek to correct position in input file */
HDlseek(infid,from,SEEK_SET);
/* Read data to buffer */
if (how_much > COPY_BUF_SIZE)
nchars = HDread(infid,buf,(unsigned)COPY_BUF_SIZE);
else
nchars = HDread(infid,buf,(unsigned)how_much);
if(nchars < 0) {
ret_value = -1;
goto done;
} /* end if */
/* Seek to correct position in output file */
HDlseek(ofid,to,SEEK_SET);
/* Update positions/size */
how_much -= nchars;
from += nchars;
to += nchars;
/* Write nchars bytes to output file */
wnchars = nchars;
while(nchars > 0) {
wnchars = HDwrite(ofid,buf,(unsigned)nchars);
if(wnchars < 0) {
ret_value = -1;
goto done;
} /* end if */
nchars -= wnchars;
} /* end while */
} /* end while */
done:
return ret_value;
} /* end copy_to_file */
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