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50c658d66d
h5repack support for H5Ocopy in the copy of objects. The old method for recreating references was dropped (references recreated in a second traversal of the file) The logic for using H5Ocopy or not is if the input DCPL has filters or non default layout OR these are requested by the user THEN use the old h5repack read / write ELSE use H5Ocopy
229 lines
7.3 KiB
C
229 lines
7.3 KiB
C
/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
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* Copyright by the Board of Trustees of the University of Illinois. *
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* All rights reserved. *
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* *
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* This file is part of HDF5. The full HDF5 copyright notice, including *
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* terms governing use, modification, and redistribution, is contained in *
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* the files COPYING and Copyright.html. COPYING can be found at the root *
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* of the source code distribution tree; Copyright.html can be found at the *
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* root level of an installed copy of the electronic HDF5 document set and *
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* is linked from the top-level documents page. It can also be found at *
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* http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html. If you do not have *
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* access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
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* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
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#include <stdlib.h>
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#include <string.h>
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#include "h5tools_utils.h"
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#include "h5repack.h"
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/* module-scoped variables */
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const char *progname = "h5repack";
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int d_status = EXIT_SUCCESS;
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/*-------------------------------------------------------------------------
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* Function: usage
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*
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* Purpose: print usage
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*
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* Return: void
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*
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*-------------------------------------------------------------------------
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*/
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static
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void usage(void)
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{
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printf("usage: h5repack -i input -o output [-h] [-v] [-f FILTER] [-l LAYOUT] [-n] [-m size] [-e file]\n");
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printf("\n");
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printf("-i input Input HDF5 File\n");
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printf("-o output Output HDF5 File\n");
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printf("[-h] Print this message\n");
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printf("[-v] Verbose mode\n");
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printf("[-n] Use a native HDF5 type when repacking. Default is the file type\n");
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printf("[-m size] Do not apply the filter to objects smaller than size\n");
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printf("[-e file] Name of file with the -f and -l options\n");
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printf("[-f FILTER] Filter type\n");
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printf("[-l LAYOUT] Layout type\n");
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printf("\n");
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printf("FILTER is a string with the format:\n");
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printf("\n");
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printf(" <list of objects>:<name of filter>=<filter parameters>\n");
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printf("\n");
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printf(" <list of objects> is a comma separated list of object names, meaning apply\n");
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printf(" compression only to those objects. If no names are specified, the filter\n");
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printf(" is applied to all objects\n");
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printf(" <name of filter> can be:\n");
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printf(" GZIP, to apply the HDF5 GZIP filter (GZIP compression)\n");
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printf(" SZIP, to apply the HDF5 SZIP filter (SZIP compression)\n");
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printf(" SHUF, to apply the HDF5 shuffle filter\n");
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printf(" FLET, to apply the HDF5 checksum filter\n");
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printf(" NBIT, to apply the HDF5 NBIT filter (NBIT compression)\n");
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printf(" SOFF, to apply the HDF5 Scale/Offset filter\n");
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printf(" NONE, to remove all filters\n");
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printf(" <filter parameters> is optional filter parameter information\n");
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printf(" GZIP=<deflation level> from 1-9\n");
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printf(" SZIP=<pixels per block,coding> pixels per block is a even number in\n");
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printf(" 2-32 and coding method is either EC or NN\n");
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printf(" SHUF (no parameter)\n");
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printf(" FLET (no parameter)\n");
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printf(" NBIT (no parameter)\n");
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printf(" SOFF=<scale_factor,scale_type> scale_factor is an integer and scale_type\n");
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printf(" is either IN or DS\n");
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printf(" NONE (no parameter)\n");
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printf("\n");
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printf("LAYOUT is a string with the format:\n");
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printf("\n");
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printf(" <list of objects>:<layout type>=<layout parameters>\n");
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printf("\n");
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printf(" <list of objects> is a comma separated list of object names, meaning that\n");
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printf(" layout information is supplied for those objects. If no names are\n");
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printf(" specified, the layout type is applied to all objects\n");
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printf(" <layout type> can be:\n");
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printf(" CHUNK, to apply chunking layout\n");
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printf(" COMPA, to apply compact layout\n");
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printf(" CONTI, to apply continuous layout\n");
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printf(" <layout parameters> is optional layout information\n");
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printf(" CHUNK=DIM[xDIM...xDIM], the chunk size of each dimension\n");
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printf(" COMPA (no parameter)\n");
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printf(" CONTI (no parameter)\n");
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printf("\n");
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printf("Examples of use:\n");
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printf("\n");
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printf("1) h5repack -v -i file1 -o file2 -f GZIP=1\n");
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printf("\n");
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printf(" GZIP compression with level 1 to all objects\n");
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printf("\n");
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printf("2) h5repack -v -i file1 -o file2 -f A:SZIP=8,NN\n");
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printf("\n");
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printf(" SZIP compression with 8 pixels per block and NN coding method to object A\n");
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printf("\n");
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printf("3) h5repack -v -i file1 -o file2 -l A,B:CHUNK=20x10 -f C,D,F:NONE\n");
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printf("\n");
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printf(" Chunked layout, with a layout size of 20x10, to objects A and B\n");
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printf(" and remove filters to objects C, D, F\n");
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printf("\n");
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}
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/*-------------------------------------------------------------------------
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* Function: main
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*
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* Purpose: h5repack main program
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*
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* Return: 1, error, 0, no error
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*
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* Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
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*
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* Date: May 9, 2003
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*
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* Comments:
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*
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* Modifications:
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* July 2004: Introduced the extra EC or NN option for SZIP
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* October 2006: Added a new switch -n, that allows to write the dataset
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* using a native type. The default to write is the file type.
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*
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*-------------------------------------------------------------------------
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*/
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int main(int argc, char **argv)
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{
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char *infile = NULL;
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char *outfile = NULL;
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pack_opt_t options; /*the global options */
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int i, ret;
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/* initialize options */
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h5repack_init (&options,0);
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if (argc<2)
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{
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usage();
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exit(1);
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}
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for ( i = 1; i < argc; i++)
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{
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if (strcmp(argv[i], "-h") == 0) {
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usage();
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exit(0);
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}
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if (strcmp(argv[i], "-i") == 0) {
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infile = argv[++i];
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}
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else if (strcmp(argv[i], "-o") == 0) {
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outfile = argv[++i];
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}
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else if (strcmp(argv[i], "-v") == 0) {
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options.verbose = 1;
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}
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else if (strcmp(argv[i], "-f") == 0) {
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/* add the -f filter option */
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if (h5repack_addfilter(argv[i+1],&options)<0)
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{
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error_msg(progname, "in parsing filter\n");
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exit(1);
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}
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/* jump to next */
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++i;
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}
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else if (strcmp(argv[i], "-l") == 0) {
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/* parse the -l layout option */
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if (h5repack_addlayout(argv[i+1],&options)<0)
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{
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error_msg(progname, "in parsing layout\n");
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exit(1);
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}
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/* jump to next */
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++i;
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}
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else if (strcmp(argv[i], "-m") == 0) {
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options.threshold = parse_number(argv[i+1]);
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if ((int)options.threshold==-1) {
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error_msg(progname, "invalid treshold size <%s>\n",argv[i+1]);
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exit(1);
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}
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++i;
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}
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else if (strcmp(argv[i], "-e") == 0) {
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read_info(argv[++i],&options);
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}
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else if (strcmp(argv[i], "-n") == 0) {
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options.use_native = 1;
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}
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else if (argv[i][0] == '-') {
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error_msg(progname, " - is not a valid argument\n");
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usage();
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exit(1);
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}
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}
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if (infile == NULL || outfile == NULL)
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{
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error_msg(progname, "file names missing\n");
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usage();
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exit(1);
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}
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/* pack it */
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ret=h5repack(infile,outfile,&options);
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/* free tables */
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h5repack_end(&options);
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if (ret==-1)
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return 1;
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else
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return 0;
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}
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