diff options
Diffstat (limited to 'tools/h5repack/h5repack.c')
| -rw-r--r-- | tools/h5repack/h5repack.c | 942 |
1 files changed, 0 insertions, 942 deletions
diff --git a/tools/h5repack/h5repack.c b/tools/h5repack/h5repack.c deleted file mode 100644 index ef2085c..0000000 --- a/tools/h5repack/h5repack.c +++ /dev/null @@ -1,942 +0,0 @@ -/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * - * 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 <stdlib.h> -#include <string.h> -#include <ctype.h> - -#include "H5private.h" -#include "h5repack.h" -#include "h5tools.h" -#include "h5tools_utils.h" - -/*------------------------------------------------------------------------- - * File: h5repack.c - * Purpose: Public API functions - *------------------------------------------------------------------------- - */ - -static int check_options(pack_opt_t *options); -static int check_objects(const char* fname, pack_opt_t *options); -static const char* get_sfilter(H5Z_filter_t filtn); -static int have_request(pack_opt_t *options); - -/*------------------------------------------------------------------------- - * Function: h5repack - * - * Purpose: locate all high-level HDF5 objects in the file - * and compress/chunk them using options - * - * Algorithm: 2 traversals are made to the file; the 1st builds a list of - * the objects, the 2nd makes a copy of them, using the options; - * the reason for the 1st traversal is to check for invalid - * object name requests - * - * Return: 0, ok, -1, fail - * - * Programmer: pvn@ncsa.uiuc.edu - * - * Date: September, 22, 2003 - * - *------------------------------------------------------------------------- - */ -int h5repack(const char* infile, const char* outfile, pack_opt_t *options) { - /* check input */ - if (check_options(options) < 0) - return -1; - - /* check for objects in input that are in the file */ - if (check_objects(infile, options) < 0) - return -1; - - /* copy the objects */ - if (copy_objects(infile, outfile, options) < 0) - return -1; - - return 0; -} - -/*------------------------------------------------------------------------- - * Function: h5repack_init - * - * Purpose: initialize options - * - * Return: 0, ok, -1, fail - * - *------------------------------------------------------------------------- - */ -int h5repack_init(pack_opt_t *options, int verbose, hbool_t latest, - H5F_file_space_type_t strategy, hsize_t threshold) { - int k, n; - - HDmemset(options, 0, sizeof(pack_opt_t)); - options->min_comp = 0; - options->verbose = verbose; - options->latest = latest; - options->layout_g = H5D_LAYOUT_ERROR; - - for (n = 0; n < H5_REPACK_MAX_NFILTERS; n++) { - options->filter_g[n].filtn = -1; - options->filter_g[n].cd_nelmts = 0; - for (k = 0; k < CD_VALUES; k++) - options->filter_g[n].cd_values[k] = 0; - } - - options->fs_strategy = strategy; - options->fs_threshold = threshold; - - return (options_table_init(&(options->op_tbl))); -} - -/*------------------------------------------------------------------------- - * Function: h5repack_end - * - * Purpose: free options table - * - *------------------------------------------------------------------------- - */ - -int h5repack_end(pack_opt_t *options) { - return options_table_free(options->op_tbl); -} - -/*------------------------------------------------------------------------- - * Function: h5repack_addfilter - * - * Purpose: add a compression -f option to table - * Example: -f dset:GZIP=6 - * - * Return: 0, ok, -1, fail - * - *------------------------------------------------------------------------- - */ -int -h5repack_addfilter(const char* str, pack_opt_t *options) -{ - obj_list_t *obj_list = NULL; /* one object list for the -f and -l option entry */ - filter_info_t filter; /* filter info for the current -f option entry */ - unsigned n_objs; /* number of objects in the current -f or -l option entry */ - int is_glb; /* is the filter global */ - - /* parse the -f option */ - if (NULL == (obj_list = parse_filter(str, &n_objs, &filter, options, &is_glb))) - return -1; - - /* if it applies to all objects */ - if (is_glb) { - int n; - - n = options->n_filter_g++; /* increase # of global filters */ - if (options->n_filter_g > H5_REPACK_MAX_NFILTERS) { - error_msg("maximum number of filters exceeded for <%s>\n", str); - HDfree(obj_list); - return -1; - } - - options->filter_g[n] = filter; - } - else - options_add_filter(obj_list, n_objs, filter, options->op_tbl); - - HDfree(obj_list); - return 0; -} - -/*------------------------------------------------------------------------- - * Function: h5repack_addlayout - * - * Purpose: add a layout option - * - * Return: 0, ok, -1, fail - * - *------------------------------------------------------------------------- - */ -int -h5repack_addlayout(const char* str, pack_opt_t *options) -{ - obj_list_t *obj_list = NULL; /*one object list for the -t and -c option entry */ - unsigned n_objs; /*number of objects in the current -t or -c option entry */ - pack_info_t pack; /*info about layout to extract from parse */ - int j; - int ret_value = -1; - - init_packobject(&pack); - - if (options->all_layout == 1) { - error_msg( "invalid layout input: 'all' option is present with other objects <%s>\n", str); - return ret_value; - } - - /* parse the layout option */ - obj_list = parse_layout(str, &n_objs, &pack, options); - if (obj_list) { - /* set layout option */ - options->layout_g = pack.layout; - - /* no individual dataset specified */ - if (options->all_layout == 1) { - if (pack.layout == H5D_CHUNKED) { - /* -2 means the NONE option, remove chunking - and set the global layout to contiguous */ - if (pack.chunk.rank == -2) - options->layout_g = H5D_CONTIGUOUS; - /* otherwise set the global chunking type */ - else { - options->chunk_g.rank = pack.chunk.rank; - for (j = 0; j < pack.chunk.rank; j++) - options->chunk_g.chunk_lengths[j] = pack.chunk.chunk_lengths[j]; - } - } - } - - /* individual dataset specified */ - if (options->all_layout == 0) - ret_value = options_add_layout(obj_list, n_objs, &pack, options->op_tbl); - - HDfree(obj_list); - ret_value = 0; - } - - return ret_value; -} - -/* Note: The below copy_named_datatype(), named_datatype_free(), copy_attr() - * were located in h5repack_copy.c as static prior to bugfix1726. - * Made shared functions as copy_attr() was needed in h5repack_refs.c. - * However copy_attr() may be obsoleted when H5Acopy is available and put back - * others to static in h5repack_copy.c. - */ -/*------------------------------------------------------------------------- - * Function: copy_named_datatype - * - * Purpose: Copies the specified datatype anonymously, and returns an open - * id for that datatype in the output file. The first time this - * is called it scans every named datatype in travt into a - * private stack, afterwards it simply scans that stack. The id - * returned must be closed after it is no longer needed. - * named_datatype_free must be called before the program exits - * to free the stack. - * - * Programmer: Neil Fortner - * - * Date: April 14, 2009 - * - *------------------------------------------------------------------------- - */ -hid_t copy_named_datatype(hid_t type_in, hid_t fidout, - named_dt_t **named_dt_head_p, trav_table_t *travt, pack_opt_t *options) { - named_dt_t *dt = *named_dt_head_p; /* Stack pointer */ - named_dt_t *dt_ret = NULL; /* Datatype to return */ - H5O_info_t oinfo; /* Object info of input dtype */ - hid_t ret_value = -1; /* The identifier of the named dtype in the out file */ - - if (H5Oget_info(type_in, &oinfo) < 0) - goto done; - - if (*named_dt_head_p) { - /* Stack already exists, search for the datatype */ - while (dt && dt->addr_in != oinfo.addr) - dt = dt->next; - - dt_ret = dt; - } - else { - /* Create the stack */ - size_t i; - - for (i = 0; i < travt->nobjs; i++) { - if (travt->objs[i].type == H5TRAV_TYPE_NAMED_DATATYPE) { - /* Push onto the stack */ - if (NULL == (dt = (named_dt_t *) HDmalloc(sizeof(named_dt_t)))) { - goto done; - } - dt->next = *named_dt_head_p; - *named_dt_head_p = dt; - - /* Update the address and id */ - dt->addr_in = travt->objs[i].objno; - dt->id_out = -1; - - /* Check if this type is the one requested */ - if (oinfo.addr == dt->addr_in) { - HDassert(!dt_ret); - dt_ret = dt; - } /* end if */ - } /* end if */ - } /* end for */ - } /* end else */ - - /* Handle the case that the requested datatype was not found. This is - * possible if the datatype was committed anonymously in the input file. */ - if (!dt_ret) { - /* Push the new datatype onto the stack */ - if (NULL == (dt_ret = (named_dt_t *) HDmalloc(sizeof(named_dt_t)))) { - goto done; - } - dt_ret->next = *named_dt_head_p; - *named_dt_head_p = dt_ret; - - /* Update the address and id */ - dt_ret->addr_in = oinfo.addr; - dt_ret->id_out = -1; - } /* end if */ - - /* If the requested datatype does not yet exist in the output file, copy it - * anonymously */ - if (dt_ret->id_out < 0) { - if (options->use_native == 1) - dt_ret->id_out = h5tools_get_native_type(type_in); - else - dt_ret->id_out = H5Tcopy(type_in); - if (dt_ret->id_out < 0) - goto done; - if (H5Tcommit_anon(fidout, dt_ret->id_out, H5P_DEFAULT, H5P_DEFAULT) < 0) - goto done; - } /* end if */ - - /* Set return value */ - ret_value = dt_ret->id_out; - - /* Increment the ref count on id_out, because the calling function will try - * to close it */ - if(H5Iinc_ref(ret_value) < 0) { - ret_value = -1; - } - -done: - return (ret_value); -} /* end copy_named_datatype */ - -/*------------------------------------------------------------------------- - * Function: named_datatype_free - * - * Purpose: Frees the stack of named datatypes. - * - * Programmer: Neil Fortner - * - * Date: April 14, 2009 - * - *------------------------------------------------------------------------- - */ -int named_datatype_free(named_dt_t **named_dt_head_p, int ignore_err) { - named_dt_t *dt = *named_dt_head_p; - int ret_value = -1; - - while (dt) { - /* Pop the datatype off the stack and free it */ - if (H5Tclose(dt->id_out) < 0 && !ignore_err) - goto done; - dt = dt->next; - HDfree(*named_dt_head_p); - *named_dt_head_p = dt; - } /* end while */ - - ret_value = 0; - -done: - return (ret_value); -} /* end named_datatype_free */ - -/*------------------------------------------------------------------------- - * Function: copy_attr - * - * Purpose: copy attributes located in LOC_IN, which is obtained either from - * loc_id = H5Gopen2( fid, name); - * loc_id = H5Dopen2( fid, name); - * loc_id = H5Topen2( fid, name); - * - * Return: 0, ok, -1 no - * - * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu - * - * Date: October, 28, 2003 - * - *------------------------------------------------------------------------- - */ -int -copy_attr(hid_t loc_in, hid_t loc_out, named_dt_t **named_dt_head_p, - trav_table_t *travt, pack_opt_t *options) -{ - int ret_value = 0; /*no need to LEAVE() on ERROR: HERR_INIT(int, SUCCEED) */ - hid_t attr_id = -1; /* attr ID */ - hid_t attr_out = -1; /* attr ID */ - hid_t space_id = -1; /* space ID */ - hid_t ftype_id = -1; /* file type ID */ - hid_t wtype_id = -1; /* read/write type ID */ - size_t msize; /* size of type */ - void *buf = NULL; /* data buffer */ - hsize_t nelmts; /* number of elements in dataset */ - int rank; /* rank of dataset */ - htri_t is_named; /* Whether the datatype is named */ - hsize_t dims[H5S_MAX_RANK];/* dimensions of dataset */ - char name[255]; - H5O_info_t oinfo; /* object info */ - int j; - unsigned u; - hbool_t is_ref = 0; - H5T_class_t type_class = -1; - - if (H5Oget_info(loc_in, &oinfo) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Oget_info failed"); - - /*------------------------------------------------------------------------- - * copy all attributes - *------------------------------------------------------------------------- - */ - for (u = 0; u < (unsigned) oinfo.num_attrs; u++) { - /* open attribute */ - if ((attr_id = H5Aopen_by_idx(loc_in, ".", H5_INDEX_CRT_ORDER, H5_ITER_INC, (hsize_t) u, H5P_DEFAULT, H5P_DEFAULT)) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Aopen_by_idx failed"); - - /* get name */ - if (H5Aget_name(attr_id, (size_t) 255, name) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Pclose failed"); - - /* get the file datatype */ - if ((ftype_id = H5Aget_type(attr_id)) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Aget_type failed"); - - /* Check if the datatype is committed */ - if ((is_named = H5Tcommitted(ftype_id)) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Tcommitted failed"); - if (is_named && travt) { - hid_t fidout; - - /* Create out file id */ - if ((fidout = H5Iget_file_id(loc_out)) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Iget_file_id failed"); - - /* Copy named dt */ - if ((wtype_id = copy_named_datatype(ftype_id, fidout, named_dt_head_p, travt, options)) < 0) { - H5Fclose(fidout); - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "copy_named_datatype failed"); - } /* end if */ - - if (H5Fclose(fidout) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Fclose failed"); - } /* end if */ - else { - if (options->use_native == 1) - wtype_id = h5tools_get_native_type(ftype_id); - else - wtype_id = H5Tcopy(ftype_id); - } /* end else */ - - /* get the dataspace handle */ - if ((space_id = H5Aget_space(attr_id)) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Aget_space failed"); - - /* get dimensions */ - if ((rank = H5Sget_simple_extent_dims(space_id, dims, NULL)) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Sget_simple_extent_dims failed"); - - nelmts = 1; - for (j = 0; j < rank; j++) - nelmts *= dims[j]; - - if ((msize = H5Tget_size(wtype_id)) == 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Tget_size failed"); - - /*------------------------------------------------------------------------- - * object references are a special case. We cannot just copy the buffers, - * but instead we recreate the reference. - * This is done on a second sweep of the file that just copies the referenced - * objects at copy_refs_attr() - *------------------------------------------------------------------------- - */ - type_class = H5Tget_class(wtype_id); - is_ref = (type_class == H5T_REFERENCE); - if (type_class == H5T_VLEN || type_class == H5T_ARRAY) { - hid_t base_type = -1; - - base_type = H5Tget_super(ftype_id); - is_ref = (is_ref || (H5Tget_class(base_type) == H5T_REFERENCE)); - H5Tclose(base_type); - } - - if (type_class == H5T_COMPOUND) { - int nmembers = H5Tget_nmembers(wtype_id); - - for (j = 0; j < nmembers; j++) { - hid_t mtid = H5Tget_member_type(wtype_id, (unsigned) j); - H5T_class_t mtclass = H5Tget_class(mtid); - H5Tclose(mtid); - - if (mtclass == H5T_REFERENCE) { - is_ref = 1; - break; - } - } /* for (j=0; i<nmembers; j++) */ - } /* if (type_class == H5T_COMPOUND) */ - - if (is_ref) { - ; /* handled by copy_refs_attr() */ - } - else { - /*------------------------------------------------------------------------- - * read to memory - *------------------------------------------------------------------------- - */ - - buf = (void *) HDmalloc((size_t)(nelmts * msize)); - if (buf == NULL) { - error_msg("h5repack", "cannot read into memory\n"); - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "HDmalloc failed"); - } /* end if */ - if (H5Aread(attr_id, wtype_id, buf) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Aread failed"); - - /*------------------------------------------------------------------------- - * copy - *------------------------------------------------------------------------- - */ - - if ((attr_out = H5Acreate2(loc_out, name, wtype_id, space_id, H5P_DEFAULT, H5P_DEFAULT)) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Acreate2 failed"); - if (H5Awrite(attr_out, wtype_id, buf) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Awrite failed"); - - /*close*/ - if (H5Aclose(attr_out) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Aclose failed"); - - /* Check if we have VL data and string in the attribute's datatype that must - * be reclaimed */ - if (TRUE == h5tools_detect_vlen(wtype_id)) - H5Dvlen_reclaim(wtype_id, space_id, H5P_DEFAULT, buf); - HDfree(buf); - buf = NULL; - } /*H5T_REFERENCE*/ - - if (options->verbose) - printf(FORMAT_OBJ_ATTR, "attr", name); - - /*------------------------------------------------------------------------- - * close - *------------------------------------------------------------------------- - */ - - if (H5Tclose(ftype_id) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Tclose failed"); - if (H5Tclose(wtype_id) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Tclose failed"); - if (H5Sclose(space_id) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Sclose failed"); - if (H5Aclose(attr_id) < 0) - HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Aclose failed"); - } /* u */ - - return 0; - -done: - H5E_BEGIN_TRY { - if (buf) { - /* Check if we have VL data and string in the attribute's datatype that must - * be reclaimed */ - if (TRUE == h5tools_detect_vlen(wtype_id)) - H5Dvlen_reclaim(wtype_id, space_id, H5P_DEFAULT, buf); - - /* Free buf */ - HDfree(buf); - } /* end if */ - - H5Tclose(ftype_id); - H5Tclose(wtype_id); - H5Sclose(space_id); - H5Aclose(attr_id); - H5Aclose(attr_out); - } H5E_END_TRY; - - return ret_value; -} /* end copy_attr() */ - -/*------------------------------------------------------------------------- - * Function: check_options - * - * Purpose: print options, checks for invalid options - * - * Return: void, return -1 on error - * - * Programmer: pvn@ncsa.uiuc.edu - * - * Date: September, 22, 2003 - * - * Modification: - * Peter Cao, July 9, 2007 - * Add "-L, --latest" and other options to pack a file with the latest file format - * - *------------------------------------------------------------------------- - */ -static int check_options(pack_opt_t *options) { - unsigned int i; - int k, j, has_cp = 0, has_ck = 0; - char slayout[30]; - - /*------------------------------------------------------------------------- - * objects to layout - *------------------------------------------------------------------------- - */ - if (options->verbose && have_request(options) /* only print if requested */) { - printf("Objects to modify layout are...\n"); - if (options->all_layout == 1) { - switch (options->layout_g) { - case H5D_COMPACT: - strcpy(slayout, "compact"); - break; - case H5D_CONTIGUOUS: - strcpy(slayout, "contiguous"); - break; - case H5D_CHUNKED: - strcpy(slayout, "chunked"); - break; - case H5D_VIRTUAL: - strcpy(slayout, "virtual"); - break; - case H5D_LAYOUT_ERROR: - case H5D_NLAYOUTS: - error_msg("invalid layout\n"); - return -1; - default: - strcpy(slayout, "invalid layout\n"); - return -1; - } - printf(" Apply %s layout to all\n", slayout); - if (H5D_CHUNKED == options->layout_g) { - printf("with dimension ["); - for (j = 0; j < options->chunk_g.rank; j++) - printf("%d ", (int) options->chunk_g.chunk_lengths[j]); - printf("]\n"); - } - } - }/* verbose */ - - for (i = 0; i < options->op_tbl->nelems; i++) { - char* name = options->op_tbl->objs[i].path; - - if (options->op_tbl->objs[i].chunk.rank > 0) { - if (options->verbose) { - printf(" <%s> with chunk size ", name); - for (k = 0; k < options->op_tbl->objs[i].chunk.rank; k++) - printf("%d ", - (int) options->op_tbl->objs[i].chunk.chunk_lengths[k]); - printf("\n"); - } - has_ck = 1; - } - else if (options->op_tbl->objs[i].chunk.rank == -2) { - if (options->verbose) - printf(" <%s> %s\n", name, "NONE (contigous)"); - has_ck = 1; - } - } - - if (options->all_layout == 1 && has_ck) { - error_msg( - "invalid chunking input: 'all' option\ - is present with other objects\n"); - return -1; - } - - /*------------------------------------------------------------------------- - * objects to filter - *------------------------------------------------------------------------- - */ - - if (options->verbose && have_request(options) /* only print if requested */) { - printf("Objects to apply filter are...\n"); - if (options->all_filter == 1) { - for (k = 0; k < options->n_filter_g; k++) { - H5Z_filter_t filtn = options->filter_g[k].filtn; - switch (filtn) { - case H5Z_FILTER_NONE: - printf(" Uncompress all\n"); - break; - case H5Z_FILTER_SHUFFLE: - case H5Z_FILTER_FLETCHER32: - printf(" All with %s\n", get_sfilter(filtn)); - break; - case H5Z_FILTER_SZIP: - case H5Z_FILTER_DEFLATE: - printf(" All with %s, parameter %d\n", get_sfilter(filtn), - options->filter_g[k].cd_values[0]); - break; - default: - printf(" User Defined %d\n", filtn); - break; - } /* k */ - }; - } - } /* verbose */ - - for (i = 0; i < options->op_tbl->nelems; i++) { - pack_info_t pack = options->op_tbl->objs[i]; - char* name = pack.path; - - for (j = 0; j < pack.nfilters; j++) { - if (options->verbose) { - printf(" <%s> with %s filter\n", name, - get_sfilter(pack.filter[j].filtn)); - } - - has_cp = 1; - - } /* j */ - } /* i */ - - if (options->all_filter == 1 && has_cp) { - error_msg( - "invalid compression input: 'all' option\ - is present with other objects\n"); - return -1; - } - - /*------------------------------------------------------------------------- - * check options for the latest format - *------------------------------------------------------------------------- - */ - - if (options->grp_compact < 0) { - error_msg( - "invalid maximum number of links to store as header messages\n"); - return -1; - } - if (options->grp_indexed < 0) { - error_msg( - "invalid minimum number of links to store in the indexed format\n"); - return -1; - } - if (options->grp_indexed > options->grp_compact) { - error_msg( - "minimum indexed size is greater than the maximum compact size\n"); - return -1; - } - for (i = 0; i < 8; i++) { - if (options->msg_size[i] < 0) { - error_msg("invalid shared message size\n"); - return -1; - } - } - - /*-------------------------------------------------------------------------------- - * verify new user userblock options; file name must be present - *--------------------------------------------------------------------------------- - */ - if (options->ublock_filename != NULL && options->ublock_size == 0) { - if (options->verbose) { - printf( - "Warning: user block size missing for file %s. Assigning a default size of 1024...\n", - options->ublock_filename); - options->ublock_size = 1024; - } - } - - if (options->ublock_filename == NULL && options->ublock_size != 0) { - error_msg("file name missing for user block\n", - options->ublock_filename); - return -1; - } - - /*-------------------------------------------------------------------------------- - * verify alignment options; threshold is zero default but alignment not - *--------------------------------------------------------------------------------- - */ - - if (options->alignment == 0 && options->threshold != 0) { - error_msg("alignment for H5Pset_alignment missing\n"); - return -1; - } - - return 0; -} - -/*------------------------------------------------------------------------- - * Function: check_objects - * - * Purpose: locate all HDF5 objects in the file and compare with user - * supplied list - * - * Return: 0, ok, -1 no - * - * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu - * - * Date: September, 23, 2003 - * - *------------------------------------------------------------------------- - */ -static int check_objects(const char* fname, pack_opt_t *options) { - hid_t fid; - unsigned int i; - trav_table_t *travt = NULL; - - /* nothing to do */ - if (options->op_tbl->nelems == 0) - return 0; - - /*------------------------------------------------------------------------- - * open the file - *------------------------------------------------------------------------- - */ - if ((fid = h5tools_fopen(fname, H5F_ACC_RDONLY, H5P_DEFAULT, NULL, NULL, 0)) - < 0) { - printf("<%s>: %s\n", fname, H5FOPENERROR); - return -1; - } - - /*------------------------------------------------------------------------- - * get the list of objects in the file - *------------------------------------------------------------------------- - */ - - /* init table */ - trav_table_init(&travt); - - /* get the list of objects in the file */ - if (h5trav_gettable(fid, travt) < 0) - goto out; - - /*------------------------------------------------------------------------- - * compare with user supplied list - *------------------------------------------------------------------------- - */ - - if (options->verbose) - printf("Opening file <%s>. Searching for objects to modify...\n", - fname); - - for (i = 0; i < options->op_tbl->nelems; i++) { - char* name = options->op_tbl->objs[i].path; - if (options->verbose) - printf(" <%s>", name); - - /* the input object names are present in the file and are valid */ - if (h5trav_getindext(name, travt) < 0) { - error_msg("%s Could not find <%s> in file <%s>. Exiting...\n", - (options->verbose ? "\n" : ""), name, fname); - goto out; - } - if (options->verbose) - printf("...Found\n"); - - /* check for extra filter conditions */ - switch (options->op_tbl->objs[i].filter->filtn) { - /* chunk size must be smaller than pixels per block */ - case H5Z_FILTER_SZIP: - { - int j; - hsize_t csize = 1; - unsigned ppb = options->op_tbl->objs[i].filter->cd_values[0]; - hsize_t dims[H5S_MAX_RANK]; - int rank; - hid_t did; - hid_t sid; - - if (options->op_tbl->objs[i].chunk.rank > 0) { - rank = options->op_tbl->objs[i].chunk.rank; - for (j = 0; j < rank; j++) - csize *= options->op_tbl->objs[i].chunk.chunk_lengths[j]; - } - else { - if ((did = H5Dopen2(fid, name, H5P_DEFAULT)) < 0) - goto out; - if ((sid = H5Dget_space(did)) < 0) - goto out; - if ((rank = H5Sget_simple_extent_ndims(sid)) < 0) - goto out; - HDmemset(dims, 0, sizeof dims); - if (H5Sget_simple_extent_dims(sid, dims, NULL) < 0) - goto out; - for (j = 0; j < rank; j++) - csize *= dims[j]; - if (H5Sclose(sid) < 0) - goto out; - if (H5Dclose(did) < 0) - goto out; - } - - if (csize < ppb) { - printf( - " <warning: SZIP settins, chunk size is smaller than pixels per block>\n"); - goto out; - } - } - break; - default: - break; - } - } /* i */ - - /*------------------------------------------------------------------------- - * close - *------------------------------------------------------------------------- - */ - H5Fclose(fid); - trav_table_free(travt); - return 0; - -out: - H5Fclose(fid); - trav_table_free(travt); - return -1; -} - -/*------------------------------------------------------------------------- - * Function: have_request - * - * Purpose: check if a filter or layout was requested - * - * Return: 1 yes, 0 no - * - * Date: May, 24, 2007 - * - *------------------------------------------------------------------------- - */ -static int have_request(pack_opt_t *options) { - - if (options->all_filter || options->all_layout || options->op_tbl->nelems) - return 1; - - return 0; - -} - -/*------------------------------------------------------------------------- - * Function: get_sfilter - * - * Purpose: return the filter as a string name - * - * Return: name of filter, exit on error - * - *------------------------------------------------------------------------- - */ - -static const char* get_sfilter(H5Z_filter_t filtn) { - if (filtn == H5Z_FILTER_NONE) - return "NONE"; - else if (filtn == H5Z_FILTER_DEFLATE) - return "GZIP"; - else if (filtn == H5Z_FILTER_SZIP) - return "SZIP"; - else if (filtn == H5Z_FILTER_SHUFFLE) - return "SHUFFLE"; - else if (filtn == H5Z_FILTER_FLETCHER32) - return "FLETCHER32"; - else if (filtn == H5Z_FILTER_NBIT) - return "NBIT"; - else if (filtn == H5Z_FILTER_SCALEOFFSET) - return "SOFF"; - else - return "UD"; -} - |