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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. *
* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
#ifndef H5REPACK_H__
#define H5REPACK_H__
#include "hdf5.h"
#include "h5trav.h"
#define H5FOPENERROR "unable to open file"
#define PFORMAT "%-7s %-7s %-7s\n" /*chunk info, compression info, name*/
#define PFORMAT1 "%-7s %-7s %-7s" /*chunk info, compression info, name*/
#define MAX_NC_NAME 256 /* max length of a name */
#define MAX_VAR_DIMS 32 /* max per variable dimensions */
/*-------------------------------------------------------------------------
* data structures for command line options
*-------------------------------------------------------------------------
*/
/* a list of names */
typedef struct {
char obj[MAX_NC_NAME];
} obj_list_t;
/*
the type of filter and additional parameter
type can be one of the filters
H5Z_FILTER_NONE 0, uncompress if compressed
H5Z_FILTER_DEFLATE 1 , deflation like gzip
H5Z_FILTER_SHUFFLE 2 , shuffle the data
H5Z_FILTER_FLETCHER32 3 , letcher32 checksum of EDC
H5Z_FILTER_SZIP 4 , szip compression
H5Z_FILTER_NBIT 5 , nbit compression
H5Z_FILTER_SCALEOFFSET 6 , scaleoffset compression
*/
#define CDVALUES 2
typedef struct {
H5Z_filter_t filtn; /* filter identification number */
int cd_values[CDVALUES]; /* filter client data values */
} filter_info_t;
/* chunk lengths along each dimension and rank */
typedef struct {
hsize_t chunk_lengths[MAX_VAR_DIMS];
int rank;
} chunk_info_t;
/* we currently define a maximum value for the filters array,
that corresponds to the current library filters */
#define H5_REPACK_MAX_NFILTERS 6
/* information for one object, contains PATH, CHUNK info and FILTER info */
typedef struct {
char path[MAX_NC_NAME]; /* name of object */
filter_info_t filter[H5_REPACK_MAX_NFILTERS]; /* filter array */
int nfilters; /* current number of filters */
H5D_layout_t layout; /* layout information */
chunk_info_t chunk; /* chunk information */
hid_t refobj_id; /* object ID, references */
} pack_info_t;
/* store a table of all objects */
typedef struct {
unsigned int size;
unsigned int nelems;
pack_info_t *objs;
} pack_opttbl_t;
/*-------------------------------------------------------------------------
* command line options
*-------------------------------------------------------------------------
*/
/* all the above, ready to go to the hrepack call */
typedef struct {
pack_opttbl_t *op_tbl; /*table with all -c and -f options */
int all_layout; /*apply the layout to all objects */
int all_filter; /*apply the filter to all objects */
filter_info_t filter_g; /*global filter INFO for the ALL case */
chunk_info_t chunk_g; /*global chunk INFO for the ALL case */
H5D_layout_t layout_g; /*global layout information for the ALL case */
int verbose; /*verbose mode */
hsize_t threshold; /*minimum size to compress, in bytes */
int use_native; /*use a native type in write */
int latest; /*pack file with the latest file format */
int grp_compact; /* Set the maximum number of links to store as header messages in the group */
int grp_indexed; /* Set the minimum number of links to store in the indexed format */
int msg_size[8]; /* Minumum size of shared messages: dataspace,
datatype, fill value, filter pipleline, attribute */
} pack_opt_t;
/*-------------------------------------------------------------------------
* public functions
*-------------------------------------------------------------------------
*/
#ifdef __cplusplus
extern "C" {
#endif
int h5repack (const char* infile, const char* outfile, pack_opt_t *options);
int h5repack_addfilter (const char* str, pack_opt_t *options);
int h5repack_addlayout (const char* str, pack_opt_t *options);
int h5repack_init (pack_opt_t *options, int verbose);
int h5repack_end (pack_opt_t *options);
int h5repack_verify (const char *fname,pack_opt_t *options);
int h5repack_cmpdcpl (const char *fname1,
const char *fname2);
#ifdef __cplusplus
}
#endif
/*-------------------------------------------------------------------------
* private functions
*-------------------------------------------------------------------------
*/
int check_objects(const char* fname,
pack_opt_t *options);
int copy_objects(const char* fnamein,
const char* fnameout,
pack_opt_t *options);
int do_copy_refobjs(hid_t fidin,
hid_t fidout,
trav_table_t *travt,
pack_opt_t *options); /* repack options */
void read_info(const char *filename,pack_opt_t *options);
void init_packobject(pack_info_t *obj);
int print_filters(hid_t dcpl_id);
int have_request(pack_opt_t *options);
/*-------------------------------------------------------------------------
* filters
*-------------------------------------------------------------------------
*/
int apply_filters(const char* name, /* object name from traverse list */
int rank, /* rank of dataset */
hsize_t *dims, /* dimensions of dataset */
hid_t dcpl_id, /* (IN,OUT) dataset creation property list */
pack_opt_t *options, /* repack options */
int *has_filter); /* (OUT) object NAME has a filter */
int has_filter(hid_t dcpl_id,
H5Z_filter_t filtnin);
int can_read(const char* name, /* object name from traverse list */
hid_t dcpl_id, /* dataset creation property list */
pack_opt_t *options); /* repack options */
/*-------------------------------------------------------------------------
* layout functions
*-------------------------------------------------------------------------
*/
int has_layout(hid_t dcpl_id,
pack_info_t *obj);
int layout_this(hid_t dcpl_id, /* DCPL from input object */
const char* name, /* object name from traverse list */
pack_opt_t *options, /* repack options */
pack_info_t *pack /*OUT*/) /* object to apply layout */;
int apply_layout(hid_t dcpl_id,
pack_info_t *pack); /* info about object */
/*-------------------------------------------------------------------------
* options table
*-------------------------------------------------------------------------
*/
int options_table_init( pack_opttbl_t **tbl );
int options_table_free( pack_opttbl_t *table );
int options_add_layout( obj_list_t *obj_list,
int n_objs,
pack_info_t *pack,
pack_opttbl_t *table );
int options_add_filter ( obj_list_t *obj_list,
int n_objs,
filter_info_t filt,
pack_opttbl_t *table );
pack_info_t* options_get_object( const char *path,
pack_opttbl_t *table);
/*-------------------------------------------------------------------------
* parse functions
*-------------------------------------------------------------------------
*/
obj_list_t* parse_filter(const char *str,
int *n_objs,
filter_info_t *filt,
pack_opt_t *options);
obj_list_t* parse_layout(const char *str,
int *n_objs,
pack_info_t *pack, /* info about object */
pack_opt_t *options);
const char* get_sfilter (H5Z_filter_t filtn);
int parse_number(char *str);
#endif /* H5REPACK_H__ */
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