diff options
Diffstat (limited to 'tools/h5dump')
| -rw-r--r-- | tools/h5dump/h5dump.c | 244 | ||||
| -rw-r--r-- | tools/h5dump/testh5dump.sh.in | 11 |
2 files changed, 133 insertions, 122 deletions
diff --git a/tools/h5dump/h5dump.c b/tools/h5dump/h5dump.c index 4abc0b0..261fe15 100644 --- a/tools/h5dump/h5dump.c +++ b/tools/h5dump/h5dump.c @@ -1607,8 +1607,7 @@ dump_all_cb(hid_t group, const char *name, const H5L_info_t *linfo, void UNUSED begin_obj(dump_header_format->datasetbegin, name, dump_header_format->datasetblockbegin); indentation(indent + COL); - error_msg(h5tools_getprogname(), - "internal error (file %s:line %d)\n", + error_msg("internal error (file %s:line %d)\n", __FILE__, __LINE__); indentation(indent); end_obj(dump_header_format->datasetend, @@ -2116,8 +2115,7 @@ dump_group(hid_t gid, const char *name) if (found_obj == NULL) { indentation(indent); - error_msg("internal error (file %s:line %d)\n", - __FILE__, __LINE__); + error_msg("internal error (file %s:line %d)\n", __FILE__, __LINE__); h5tools_setstatus(EXIT_FAILURE); } else if (found_obj->displayed) { @@ -2354,14 +2352,14 @@ dump_subsetting_header(struct subset_t *sset, int dims) indentation(indent); printf("%s %s ", dump_header_format->startbegin, dump_header_format->startblockbegin); - dump_dims((hsize_t *)sset->start, dims); + dump_dims(sset->start.data, dims); printf("%s %s\n", dump_header_format->startend, dump_header_format->startblockend); indentation(indent); printf("%s %s ", dump_header_format->stridebegin, dump_header_format->strideblockbegin); - dump_dims(sset->stride, dims); + dump_dims(sset->stride.data, dims); printf("%s %s\n", dump_header_format->strideend, dump_header_format->strideblockend); @@ -2369,8 +2367,8 @@ dump_subsetting_header(struct subset_t *sset, int dims) printf("%s %s ", dump_header_format->countbegin, dump_header_format->countblockbegin); - if (sset->count) - dump_dims(sset->count, dims); + if(sset->count.data) + dump_dims(sset->count.data, dims); else printf("DEFAULT"); @@ -2381,8 +2379,8 @@ dump_subsetting_header(struct subset_t *sset, int dims) printf("%s %s ", dump_header_format->blockbegin, dump_header_format->blockblockbegin); - if (sset->block) - dump_dims(sset->block, dims); + if(sset->block.data) + dump_dims(sset->block.data, dims); else printf("DEFAULT"); @@ -3418,25 +3416,22 @@ handle_attributes(hid_t fid, const char *attr, void UNUSED * data, int UNUSED pe * semicolons (;). The lists themselves can be separated by * either commas (,) or white spaces. * - * Return: Success: hsize_t array. NULL is a valid return type if - * there aren't any elements in the array. + * Return: <none> * * Programmer: Bill Wendling * Tuesday, 6. February 2001 * - * Modifications: - * *------------------------------------------------------------------------- */ -static hsize_t * -parse_hsize_list(const char *h_list) +static void +parse_hsize_list(const char *h_list, subset_d *d) { hsize_t *p_list; const char *ptr; unsigned int size_count = 0, i = 0, last_digit = 0; if (!h_list || !*h_list || *h_list == ';') - return NULL; + return; /* count how many integers do we have */ for (ptr = h_list; ptr && *ptr && *ptr != ';' && *ptr != ']'; ptr++) @@ -3452,10 +3447,10 @@ parse_hsize_list(const char *h_list) if (size_count == 0) /* there aren't any integers to read */ - return NULL; + return; /* allocate an array for the integers in the list */ - p_list = calloc(size_count, sizeof(hsize_t)); + p_list = (hsize_t *)calloc(size_count, sizeof(hsize_t)); for (ptr = h_list; i < size_count && ptr && *ptr && *ptr != ';' && *ptr != ']'; ptr++) if(isdigit(*ptr)) { @@ -3466,8 +3461,10 @@ parse_hsize_list(const char *h_list) /* scroll to end of integer */ ptr++; } - - return p_list; + d->data = p_list; + d->len = size_count; + + return; } /*------------------------------------------------------------------------- @@ -3499,8 +3496,8 @@ parse_subset_params(char *dset) if (brace > slash) { *brace++ = '\0'; - s = calloc(1, sizeof(struct subset_t)); - s->start = parse_hsize_list(brace); + s = (struct subset_t *)calloc(1, sizeof(struct subset_t)); + parse_hsize_list(brace, &s->start); while (*brace && *brace != ';') brace++; @@ -3508,7 +3505,7 @@ parse_subset_params(char *dset) if (*brace) brace++; - s->stride = parse_hsize_list(brace); + parse_hsize_list(brace, &s->stride); while (*brace && *brace != ';') brace++; @@ -3516,7 +3513,7 @@ parse_subset_params(char *dset) if (*brace) brace++; - s->count = parse_hsize_list(brace); + parse_hsize_list(brace, &s->count); while (*brace && *brace != ';') brace++; @@ -3524,7 +3521,7 @@ parse_subset_params(char *dset) if (*brace) brace++; - s->block = parse_hsize_list(brace); + parse_hsize_list(brace, &s->block); } } @@ -3576,79 +3573,83 @@ handle_datasets(hid_t fid, const char *dset, void *data, int pe, const char *dis } /* end if */ if(sset) { - if(!sset->start || !sset->stride || !sset->count || !sset->block) { + unsigned int i; + hid_t sid = H5Dget_space(dsetid); + unsigned int ndims = H5Sget_simple_extent_ndims(sid); + + H5Sclose(sid); + + if(!sset->start.data || !sset->stride.data || !sset->count.data || !sset->block.data) { /* they didn't specify a ``stride'' or ``block''. default to 1 in all * dimensions */ - hid_t sid = H5Dget_space(dsetid); - unsigned int ndims = H5Sget_simple_extent_ndims(sid); - - if(!sset->start) + if(!sset->start.data) { /* default to (0, 0, ...) for the start coord */ - sset->start = calloc(ndims, sizeof(hsize_t)); - - if(!sset->stride) { - unsigned int i; - - sset->stride = calloc(ndims, sizeof(hsize_t)); + sset->start.data = (hsize_t *)calloc(ndims, sizeof(hsize_t)); + sset->start.len = ndims; + } + if(!sset->stride.data) { + sset->stride.data = (hsize_t *)calloc(ndims, sizeof(hsize_t)); + sset->stride.len = ndims; for (i = 0; i < ndims; i++) - sset->stride[i] = 1; + sset->stride.data[i] = 1; } - if (!sset->count) { - unsigned int i; - - - sset->count = calloc(ndims, sizeof(hsize_t)); - + if(!sset->count.data) { + sset->count.data = (hsize_t *)calloc(ndims, sizeof(hsize_t)); + sset->count.len = ndims; for (i = 0; i < ndims; i++) - sset->count[i] = 1; + sset->count.data[i] = 1; } - if (!sset->block) { - unsigned int i; - - sset->block = calloc(ndims, sizeof(hsize_t)); - + if(!sset->block.data) { + sset->block.data = (hsize_t *)calloc(ndims, sizeof(hsize_t)); + sset->block.len = ndims; for (i = 0; i < ndims; i++) - sset->block[i] = 1; + sset->block.data[i] = 1; } - - H5Sclose(sid); } - } - - - /*------------------------------------------------------------------------- - * check for block overlap - *------------------------------------------------------------------------- - */ - - if(sset) - { - hid_t sid = H5Dget_space(dsetid); - unsigned int ndims = H5Sget_simple_extent_ndims(sid); - unsigned int i; - for ( i = 0; i < ndims; i++) - { - if ( sset->count[i] > 1 ) - { - - if ( sset->stride[i] < sset->block[i] ) - { + /*------------------------------------------------------------------------- + * check for dimension overflow + *------------------------------------------------------------------------- + */ + if(sset->start.len > ndims) { + error_msg("number of start dims (%u) exceed dataset dims (%u)\n", sset->start.len, ndims); + h5tools_setstatus(EXIT_FAILURE); + return; + } + if(sset->stride.len > ndims) { + error_msg("number of stride dims (%u) exceed dataset dims (%u)\n", sset->stride.len, ndims); + h5tools_setstatus(EXIT_FAILURE); + return; + } + if(sset->count.len > ndims) { + error_msg("number of count dims (%u) exceed dataset dims (%u)\n", sset->count.len, ndims); + h5tools_setstatus(EXIT_FAILURE); + return; + } + if(sset->block.len > ndims) { + error_msg("number of block dims (%u) exceed dataset dims (%u)\n", sset->block.len, ndims); + h5tools_setstatus(EXIT_FAILURE); + return; + } + + /*------------------------------------------------------------------------- + * check for block overlap + *------------------------------------------------------------------------- + */ + for(i = 0; i < ndims; i++) { + if(sset->count.data[i] > 1) { + if(sset->stride.data[i] < sset->block.data[i]) { error_msg("wrong subset selection; blocks overlap\n"); h5tools_setstatus(EXIT_FAILURE); return; + } /* end if */ + } /* end if */ + } /* end for */ + } /* end if */ - } - - } - - } - H5Sclose(sid); - - } H5Oget_info(dsetid, &oinfo); if(oinfo.rc > 1 || hit_elink) { @@ -3726,7 +3727,7 @@ handle_groups(hid_t fid, const char *group, void UNUSED * data, int pe, const ch if(prefix_len <= new_len) { prefix_len = new_len; - prefix = HDrealloc(prefix, prefix_len); + prefix = (char *)HDrealloc(prefix, prefix_len); } /* end if */ HDstrcpy(prefix, group); @@ -3764,7 +3765,7 @@ handle_links(hid_t fid, const char *links, void UNUSED * data, int UNUSED pe, co error_msg("\"%s\" is a hard link\n", links); h5tools_setstatus(EXIT_FAILURE); } else { - char *buf = HDmalloc(linfo.u.val_size); + char *buf = (char *)HDmalloc(linfo.u.val_size); switch(linfo.type) { case H5L_TYPE_SOFT: /* Soft link */ @@ -3938,7 +3939,7 @@ parse_command_line(int argc, const char *argv[]) } /* this will be plenty big enough to hold the info */ - hand = calloc((size_t)argc, sizeof(struct handler_t)); + hand = (struct handler_t *)calloc((size_t)argc, sizeof(struct handler_t)); /* parse command line options */ while ((opt = get_option(argc, argv, s_opts, l_opts)) != EOF) { @@ -4010,7 +4011,7 @@ parse_start: hand[i].func = handle_datasets; hand[i].obj = HDstrdup(opt_arg); hand[i].subset_info = parse_subset_params(hand[i].obj); - last_dset = hand; + last_dset = &hand[i]; break; } @@ -4163,8 +4164,7 @@ parse_start: struct subset_t *s; if (!last_was_dset) { - error_msg(h5tools_getprogname(), - "option `-%c' can only be used after --dataset option\n", + error_msg("option `-%c' can only be used after --dataset option\n", opt); leave(EXIT_FAILURE); } @@ -4176,7 +4176,7 @@ parse_start: */ s = last_dset->subset_info; } else { - last_dset->subset_info = s = calloc(1, sizeof(struct subset_t)); + last_dset->subset_info = s = (struct subset_t *)calloc(1, sizeof(struct subset_t)); } /* @@ -4192,10 +4192,10 @@ parse_start: */ do { switch ((char)opt) { - case 's': free(s->start); s->start = parse_hsize_list(opt_arg); break; - case 'S': free(s->stride); s->stride = parse_hsize_list(opt_arg); break; - case 'c': free(s->count); s->count = parse_hsize_list(opt_arg); break; - case 'k': free(s->block); s->block = parse_hsize_list(opt_arg); break; + case 's': free(s->start.data); parse_hsize_list(opt_arg, &s->start); break; + case 'S': free(s->stride.data); parse_hsize_list(opt_arg, &s->stride); break; + case 'c': free(s->count.data); parse_hsize_list(opt_arg, &s->count); break; + case 'k': free(s->block.data); parse_hsize_list(opt_arg, &s->block); break; default: goto end_collect; } } while ((opt = get_option(argc, argv, s_opts, l_opts)) != EOF); @@ -4256,10 +4256,10 @@ free_handler(struct handler_t *hand, int len) free(hand[i].obj); if (hand[i].subset_info) { - free(hand[i].subset_info->start); - free(hand[i].subset_info->stride); - free(hand[i].subset_info->count); - free(hand[i].subset_info->block); + free(hand[i].subset_info->start.data); + free(hand[i].subset_info->stride.data); + free(hand[i].subset_info->count.data); + free(hand[i].subset_info->block.data); free(hand[i].subset_info); } } @@ -4588,8 +4588,8 @@ print_enum(hid_t type) dst_size = H5Tget_size(type); /* Get the names and raw values of all members */ - name = calloc(nmembs, sizeof(char *)); - value = calloc(nmembs, MAX(H5Tget_size(type), dst_size)); + name = (char **)calloc(nmembs, sizeof(char *)); + value = (unsigned char *)calloc(nmembs, MAX(H5Tget_size(type), dst_size)); for (i = 0; i < nmembs; i++) { name[i] = H5Tget_member_name(type, i); @@ -4749,7 +4749,7 @@ xml_escape_the_name(const char *str) return HDstrdup(str); cp = str; - rcp = ncp = HDmalloc(len + extra + 1); + rcp = ncp = (char *)HDmalloc(len + extra + 1); if (!ncp) return NULL; /* ?? */ @@ -4838,7 +4838,7 @@ xml_escape_the_string(const char *str, int slen) } cp = str; - rcp = ncp = calloc((len + extra + 1), sizeof(char)); + rcp = ncp = (char *)calloc((len + extra + 1), sizeof(char)); if (ncp == NULL) return NULL; /* ?? */ @@ -4930,7 +4930,7 @@ xml_print_datatype(hid_t type, unsigned in_group) /* This should be defined somewhere else */ /* These 2 cases are handled the same right now, but probably will have something different eventually */ - char * dtxid = malloc(100); + char * dtxid = (char *)malloc(100); xml_name_to_XID(found_obj->objname, dtxid, 100, 1); if (!found_obj->recorded) { @@ -5290,7 +5290,7 @@ xml_dump_datatype(hid_t type) if(found_obj) { /* Shared datatype, must be entered as an object */ /* These 2 cases are the same now, but may change */ - char * dtxid = malloc(100); + char * dtxid = (char *)malloc(100); xml_name_to_XID(found_obj->objname, dtxid, 100, 1); if (!found_obj->recorded) { @@ -5669,14 +5669,14 @@ xml_dump_named_datatype(hid_t type, const char *name) char *t_prefix; char *t_name; - tmp = HDmalloc(HDstrlen(prefix) + HDstrlen(name) + 2); + tmp = (char *)HDmalloc(HDstrlen(prefix) + HDstrlen(name) + 2); HDstrcpy(tmp, prefix); HDstrcat(tmp, "/"); HDstrcat(tmp, name); indentation(indent); - dtxid = HDmalloc(100); - parentxid = HDmalloc(100); + dtxid = (char *)HDmalloc(100); + parentxid = (char *)HDmalloc(100); t_tmp = xml_escape_the_name(tmp); t_prefix = xml_escape_the_name(prefix); t_name = xml_escape_the_name(name); @@ -5824,7 +5824,7 @@ xml_dump_group(hid_t gid, const char *name) isRoot = 1; tmp = HDstrdup("/"); } else { - tmp = HDmalloc(HDstrlen(prefix) + HDstrlen(name) + 2); + tmp = (char *)HDmalloc(HDstrlen(prefix) + HDstrlen(name) + 2); HDstrcpy(tmp, prefix); par = HDstrdup(tmp); cp = HDstrrchr(par, '/'); @@ -5854,11 +5854,11 @@ xml_dump_group(hid_t gid, const char *name) h5tools_setstatus(EXIT_FAILURE); } else { char *t_name = xml_escape_the_name(name); - char *grpxid = malloc(100); - char *parentxid = malloc(100); + char *grpxid = (char *)malloc(100); + char *parentxid = (char *)malloc(100); if(found_obj->displayed) { - char *ptrstr = malloc(100); + char *ptrstr = (char *)malloc(100); /* already seen: enter a groupptr */ if(isRoot) { @@ -5960,8 +5960,8 @@ xml_dump_group(hid_t gid, const char *name) /* only link -- must be first time! */ char *t_name = xml_escape_the_name(name); - char *grpxid = malloc(100); - char *parentxid = malloc(100); + char *grpxid = (char *)malloc(100); + char *parentxid = (char *)malloc(100); if(isRoot) { xml_name_to_XID("/", grpxid, 100, 1); @@ -6078,7 +6078,7 @@ xml_print_refs(hid_t did, int source) ssiz = H5Sget_simple_extent_npoints(space); ssiz *= H5Tget_size(type); - buf = calloc((size_t)ssiz, sizeof(char)); + buf = (char *)calloc((size_t)ssiz, sizeof(char)); if(buf == NULL) return FAIL; e = H5Dread(did, H5T_STD_REF_OBJ, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf); @@ -6092,7 +6092,7 @@ xml_print_refs(hid_t did, int source) ssiz = H5Sget_simple_extent_npoints(space); ssiz *= H5Tget_size(type); - buf = calloc((size_t)ssiz, sizeof(char)); + buf = (char *)calloc((size_t)ssiz, sizeof(char)); if (buf == NULL) { free(buf); return FAIL; @@ -6213,7 +6213,7 @@ xml_print_strs(hid_t did, int source) tsiz = H5Tget_size(type); bp = (char*)buf; if(!is_vlstr) - onestring = (char *) calloc(tsiz, sizeof(char)); + onestring = (char *)calloc(tsiz, sizeof(char)); for (i = 0; i < ssiz; i++) { if(is_vlstr) { @@ -6486,10 +6486,10 @@ xml_dump_dataset(hid_t did, const char *name, struct subset_t UNUSED * sset) char *tmp; char *t_name, *t_tmp, *t_prefix; unsigned attr_crt_order_flags; - char *rstr = HDmalloc(100); - char *pstr = HDmalloc(100); + char *rstr = (char *)HDmalloc(100); + char *pstr = (char *)HDmalloc(100); - tmp = HDmalloc(HDstrlen(prefix) + HDstrlen(name) + 2); + tmp = (char *)HDmalloc(HDstrlen(prefix) + HDstrlen(name) + 2); HDstrcpy(tmp, prefix); HDstrcat(tmp, "/"); HDstrcat(tmp, name); @@ -6521,7 +6521,7 @@ xml_dump_dataset(hid_t did, const char *name, struct subset_t UNUSED * sset) /* Print information about storage layout */ if(H5D_CHUNKED == H5Pget_layout(dcpl)) { maxdims = H5Sget_simple_extent_ndims(space); - chsize = (hsize_t *) malloc(maxdims * sizeof(hsize_t)); + chsize = (hsize_t *)malloc(maxdims * sizeof(hsize_t)); indent += COL; indentation(indent); printf("<%sStorageLayout>\n",xmlnsprefix); @@ -6804,8 +6804,8 @@ xml_print_enum(hid_t type) } /* Get the names and raw values of all members */ - name = calloc(nmembs, sizeof(char *)); - value = calloc(nmembs, MAX(H5Tget_size(type), dst_size)); + name = (char **)calloc(nmembs, sizeof(char *)); + value = (unsigned char *)calloc(nmembs, MAX(H5Tget_size(type), dst_size)); for (i = 0; i < nmembs; i++) { name[i] = H5Tget_member_name(type, i); @@ -6989,7 +6989,7 @@ static void init_prefix(char **prfx, size_t prfx_len) { HDassert(prfx_len > 0); - *prfx = HDcalloc(prfx_len, 1); + *prfx = (char *)HDcalloc(prfx_len, 1); } @@ -7010,7 +7010,7 @@ add_prefix(char **prfx, size_t *prfx_len, const char *name) /* Check if we need more space */ if(*prfx_len <= new_len) { *prfx_len = new_len + 1; - *prfx = HDrealloc(*prfx, *prfx_len); + *prfx = (char *)HDrealloc(*prfx, *prfx_len); } /* Append object name to prefix */ diff --git a/tools/h5dump/testh5dump.sh.in b/tools/h5dump/testh5dump.sh.in index 78b7757..9c28ed9 100644 --- a/tools/h5dump/testh5dump.sh.in +++ b/tools/h5dump/testh5dump.sh.in @@ -421,6 +421,12 @@ TOOLTEST tindicessub3.ddl -d 3d -s 0,1,2 -S 1,3,3 -c 2,2,2 -k 1,2,2 taindices. # 4D case TOOLTEST tindicessub4.ddl -d 4d -s 0,0,1,2 -c 2,2,3,2 -S 1,1,3,3 -k 1,1,2,2 taindices.h5 +#Exceed the dimensions for subsetting +TOOLTEST1 texceedsubstart.ddl -d 1d -s 1,3 taindices.h5 +TOOLTEST1 texceedsubcount.ddl -d 1d -c 1,3 taindices.h5 +TOOLTEST1 texceedsubstride.ddl -d 1d -S 1,3 taindices.h5 +TOOLTEST1 texceedsubblock.ddl -d 1d -k 1,3 taindices.h5 + # tests for filters # SZIP @@ -528,6 +534,11 @@ TOOLTEST tattrregR.ddl -R tattrreg.h5 TOOLTEST2 tbinregR.exp -d /Dataset1 -s 0 -y -o $TESTDIR/tbinregR.txt tdatareg.h5 +# Clean up text output files +if test -z "$HDF5_NOCLEANUP"; then + rm -f $TESTDIR/tbinregR.txt +fi + # tests for group creation order # "1" tracked, "2" name, root tracked TOOLTEST tordergr1.ddl --group=1 --sort_by=creation_order --sort_order=ascending tordergr.h5 |