/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * Copyright by The HDF Group. * * 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 COPYING file, which can be found at the root of the source code * * distribution tree, or in https://www.hdfgroup.org/licenses. * * If you do not have access to either file, you may request a copy from * * help@hdfgroup.org. * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ #include "h5dump.h" #include "h5dump_ddl.h" #include "h5dump_xml.h" /* Name of tool */ #define PROGRAMNAME "h5dump" const char *outfname_g = NULL; static hbool_t doxml_g = FALSE; static hbool_t useschema_g = TRUE; static const char *xml_dtd_uri_g = NULL; static hbool_t use_custom_vol_g = FALSE; static hbool_t use_custom_vfd_g = FALSE; static h5tools_vol_info_t vol_info_g = {0}; static h5tools_vfd_info_t vfd_info_g = {0}; static hbool_t get_onion_revision_count = FALSE; #ifdef H5_HAVE_ROS3_VFD /* Default "anonymous" S3 configuration */ static H5FD_ros3_fapl_t ros3_fa_g = { 1, /* Structure Version */ FALSE, /* Authenticate? */ "", /* AWS Region */ "", /* Access Key ID */ "", /* Secret Access Key */ }; #endif /* H5_HAVE_ROS3_VFD */ #ifdef H5_HAVE_LIBHDFS /* "Default" HDFS configuration */ static H5FD_hdfs_fapl_t hdfs_fa_g = { 1, /* Structure Version */ "localhost", /* Namenode Name */ 0, /* Namenode Port */ "", /* Kerberos ticket cache */ "", /* User name */ 2048, /* Stream buffer size */ }; #endif /* H5_HAVE_LIBHDFS */ static H5FD_onion_fapl_info_t onion_fa_g = { H5FD_ONION_FAPL_INFO_VERSION_CURR, H5P_DEFAULT, /* backing_fapl_id */ 32, /* page_size */ H5FD_ONION_STORE_TARGET_ONION, /* store_target */ H5FD_ONION_FAPL_INFO_REVISION_ID_LATEST, 0, /* force_write_open */ 0, /* creation_flags */ "input file", /* comment */ }; /* module-scoped variables for XML option */ #define DEFAULT_XSD "http://www.hdfgroup.org/HDF5/XML/schema/HDF5-File.xsd" #define DEFAULT_DTD "http://www.hdfgroup.org/HDF5/XML/DTD/HDF5-File.dtd" /* Standard DDL output */ static const dump_functions ddl_function_table = { dump_group, dump_named_datatype, dump_dataset, dump_dataspace, dump_datatype, dump_attr_cb, dump_data}; /* XML output */ static const dump_functions xml_function_table = { xml_dump_group, xml_dump_named_datatype, xml_dump_dataset, xml_dump_dataspace, xml_dump_datatype, xml_dump_attr, xml_dump_data}; /* internal functions */ static void init_prefix(char **prfx, size_t prfx_len); /* a structure for handling the order command-line parameters come in */ struct handler_t { void (*func)(hid_t, const char *, void *, int, const char *); char *obj; struct subset_t *subset_info; }; /* * 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. */ /* The following initialization makes use of C language concatenating */ /* "xxx" "yyy" into "xxxyyy". */ static const char *s_opts = "a:b*c:d:ef:g:hik:l:m:n*o*pq:rs:t:uvw:xyz:A*BCD:E*F:G:HM:N:O*RS:VX:"; static struct h5_long_options l_opts[] = {{"attribute", require_arg, 'a'}, {"binary", optional_arg, 'b'}, {"count", require_arg, 'c'}, {"dataset", require_arg, 'd'}, {"escape", no_arg, 'e'}, {"filedriver", require_arg, 'f'}, {"group", require_arg, 'g'}, {"help", no_arg, 'h'}, {"object-ids", no_arg, 'i'}, {"block", require_arg, 'k'}, {"soft-link", require_arg, 'l'}, {"format", require_arg, 'm'}, {"contents", optional_arg, 'n'}, {"output", optional_arg, 'o'}, {"properties", no_arg, 'p'}, {"sort_by", require_arg, 'q'}, {"string", no_arg, 'r'}, {"start", require_arg, 's'}, {"datatype", require_arg, 't'}, {"use-dtd", no_arg, 'u'}, {"vds-view-first-missing", no_arg, 'v'}, {"width", require_arg, 'w'}, {"xml", no_arg, 'x'}, {"noindex", no_arg, 'y'}, {"sort_order", require_arg, 'z'}, {"onlyattr", optional_arg, 'A'}, {"superblock", no_arg, 'B'}, {"boot-block", no_arg, 'B'}, {"no-compact-subset", no_arg, 'C'}, {"xml-dtd", require_arg, 'D'}, {"enable-error-stack", optional_arg, 'E'}, {"form", require_arg, 'F'}, {"vds-gap-size", require_arg, 'G'}, {"header", no_arg, 'H'}, {"packed-bits", require_arg, 'M'}, {"any_path", require_arg, 'N'}, {"ddl", optional_arg, 'O'}, {"region", no_arg, 'R'}, {"stride", require_arg, 'S'}, {"version", no_arg, 'V'}, {"xml-ns", require_arg, 'X'}, {"s3-cred", require_arg, '$'}, {"hdfs-attrs", require_arg, '#'}, {"vol-value", require_arg, '1'}, {"vol-name", require_arg, '2'}, {"vol-info", require_arg, '3'}, {"vfd-value", require_arg, '4'}, {"vfd-name", require_arg, '5'}, {"vfd-info", require_arg, '6'}, {NULL, 0, '\0'}}; /*------------------------------------------------------------------------- * Function: leave * * Purpose: Shutdown MPI & HDF5 and call exit() * * Return: Does not return *------------------------------------------------------------------------- */ static void leave(int ret) { h5tools_close(); HDexit(ret); } /*------------------------------------------------------------------------- * Function: usage * * Purpose: Print the usage message about dumper * * Return: void *------------------------------------------------------------------------- */ static void usage(const char *prog) { FLUSHSTREAM(rawoutstream); PRINTSTREAM(rawoutstream, "usage: %s [OPTIONS] files\n", prog); PRINTVALSTREAM(rawoutstream, " OPTIONS\n"); PRINTVALSTREAM(rawoutstream, " -h, --help Print a usage message and exit\n"); PRINTVALSTREAM(rawoutstream, " -V, --version Print version number and exit\n"); PRINTVALSTREAM(rawoutstream, "--------------- Error Options ---------------\n"); PRINTVALSTREAM(rawoutstream, " --enable-error-stack Prints messages from the HDF5 error stack as they occur.\n"); PRINTVALSTREAM(rawoutstream, " Optional value 2 also prints file open errors.\n"); PRINTVALSTREAM(rawoutstream, " Default setting disables any error reporting.\n"); PRINTVALSTREAM(rawoutstream, "--------------- File Options ---------------\n"); PRINTVALSTREAM(rawoutstream, " -n, --contents Print a list of the file contents and exit\n"); PRINTVALSTREAM(rawoutstream, " Optional value 1 also prints attributes.\n"); PRINTVALSTREAM(rawoutstream, " -B, --superblock Print the content of the super block\n"); PRINTVALSTREAM(rawoutstream, " -H, --header Print the header only; no data is displayed\n"); PRINTVALSTREAM(rawoutstream, " -f D, --filedriver=D Specify which driver to open the file with\n"); PRINTVALSTREAM(rawoutstream, " -o F, --output=F Output raw data into file F\n"); PRINTVALSTREAM(rawoutstream, " -b B, --binary=B Binary file output, of form B\n"); PRINTVALSTREAM(rawoutstream, " -O F, --ddl=F Output ddl text into file F\n"); PRINTVALSTREAM(rawoutstream, " Use blank(empty) filename F to suppress ddl display\n"); PRINTVALSTREAM(rawoutstream, " --s3-cred= Supply S3 authentication information to \"ros3\" vfd.\n"); PRINTVALSTREAM(rawoutstream, " :: \"(,,)\"\n"); PRINTVALSTREAM(rawoutstream, " If absent or -> \"(,,)\", no authentication.\n"); PRINTVALSTREAM(rawoutstream, " Has no effect if filedriver is not \"ros3\".\n"); PRINTVALSTREAM(rawoutstream, " --hdfs-attrs= Supply configuration information for HDFS file access.\n"); PRINTVALSTREAM(rawoutstream, " For use with \"--filedriver=hdfs\"\n"); PRINTVALSTREAM(rawoutstream, " :: (,,\n"); PRINTVALSTREAM(rawoutstream, " ,,\n"); PRINTVALSTREAM(rawoutstream, " )\n"); PRINTVALSTREAM(rawoutstream, " Any absent attribute will use a default value.\n"); PRINTVALSTREAM(rawoutstream, " --vol-value Value (ID) of the VOL connector to use for opening the\n"); PRINTVALSTREAM(rawoutstream, " HDF5 file specified\n"); PRINTVALSTREAM(rawoutstream, " --vol-name Name of the VOL connector to use for opening the\n"); PRINTVALSTREAM(rawoutstream, " HDF5 file specified\n"); PRINTVALSTREAM(rawoutstream, " --vol-info VOL-specific info to pass to the VOL connector used for\n"); PRINTVALSTREAM(rawoutstream, " opening the HDF5 file specified\n"); PRINTVALSTREAM(rawoutstream, " --vfd-value Value (ID) of the VFL driver to use for opening the\n"); PRINTVALSTREAM(rawoutstream, " HDF5 file specified\n"); PRINTVALSTREAM(rawoutstream, " --vfd-name Name of the VFL driver to use for opening the\n"); PRINTVALSTREAM(rawoutstream, " HDF5 file specified\n"); PRINTVALSTREAM(rawoutstream, " --vfd-info VFD-specific info to pass to the VFL driver used for\n"); PRINTVALSTREAM(rawoutstream, " opening the HDF5 file specified\n"); PRINTVALSTREAM(rawoutstream, "--------------- Object Options ---------------\n"); PRINTVALSTREAM(rawoutstream, " -a P, --attribute=P Print the specified attribute\n"); PRINTVALSTREAM(rawoutstream, " If an attribute name contains a slash (/), escape the\n"); PRINTVALSTREAM(rawoutstream, " slash with a preceding backslash (\\).\n"); PRINTVALSTREAM(rawoutstream, " (See example section below.)\n"); PRINTVALSTREAM(rawoutstream, " -d P, --dataset=P Print the specified dataset\n"); PRINTVALSTREAM(rawoutstream, " -g P, --group=P Print the specified group and all members\n"); PRINTVALSTREAM(rawoutstream, " -l P, --soft-link=P Print the value(s) of the specified soft link\n"); PRINTVALSTREAM(rawoutstream, " -t P, --datatype=P Print the specified named datatype\n"); PRINTVALSTREAM( rawoutstream, " -N P, --any_path=P Print any attribute, dataset, group, datatype, or link that matches P\n"); PRINTVALSTREAM(rawoutstream, " P can be the absolute path or just a relative path.\n"); PRINTVALSTREAM(rawoutstream, " -A, --onlyattr Print the header and value of attributes\n"); PRINTVALSTREAM(rawoutstream, " Optional value 0 suppresses printing attributes.\n"); PRINTVALSTREAM(rawoutstream, " --vds-view-first-missing Set the VDS bounds to first missing mapped elements.\n"); PRINTVALSTREAM(rawoutstream, " --vds-gap-size=N Set the missing file gap size, N=non-negative integers\n"); PRINTVALSTREAM(rawoutstream, "--------------- Object Property Options ---------------\n"); PRINTVALSTREAM(rawoutstream, " -i, --object-ids Print the object ids\n"); PRINTVALSTREAM(rawoutstream, " -p, --properties Print dataset filters, storage layout and fill value\n"); PRINTVALSTREAM(rawoutstream, " -M L, --packedbits=L Print packed bits as unsigned integers, using mask\n"); PRINTVALSTREAM(rawoutstream, " format L for an integer dataset specified with\n"); PRINTVALSTREAM(rawoutstream, " option -d. L is a list of offset,length values,\n"); PRINTVALSTREAM(rawoutstream, " separated by commas. Offset is the beginning bit in\n"); PRINTVALSTREAM(rawoutstream, " the data value and length is the number of bits of\n"); PRINTVALSTREAM(rawoutstream, " the mask.\n"); PRINTVALSTREAM(rawoutstream, " -R, --region Print dataset pointed by region references\n"); PRINTVALSTREAM(rawoutstream, "--------------- Formatting Options ---------------\n"); PRINTVALSTREAM(rawoutstream, " -e, --escape Escape non printing characters\n"); PRINTVALSTREAM(rawoutstream, " -r, --string Print 1-byte integer datasets as ASCII\n"); PRINTVALSTREAM(rawoutstream, " -y, --noindex Do not print array indices with the data\n"); PRINTVALSTREAM(rawoutstream, " -m T, --format=T Set the floating point output format\n"); PRINTVALSTREAM(rawoutstream, " -q Q, --sort_by=Q Sort groups and attributes by index Q\n"); PRINTVALSTREAM(rawoutstream, " -z Z, --sort_order=Z Sort groups and attributes by order Z\n"); PRINTVALSTREAM(rawoutstream, " --no-compact-subset Disable compact form of subsetting and allow the use\n"); PRINTVALSTREAM(rawoutstream, " of \"[\" in dataset names.\n"); PRINTVALSTREAM(rawoutstream, " -w N, --width=N Set the number of columns of output. A value of 0 (zero)\n"); PRINTVALSTREAM(rawoutstream, " sets the number of columns to the maximum (65535).\n"); PRINTVALSTREAM(rawoutstream, " Default width is 80 columns.\n"); PRINTVALSTREAM(rawoutstream, "--------------- XML Options ---------------\n"); PRINTVALSTREAM(rawoutstream, " -x, --xml Output in XML using Schema\n"); PRINTVALSTREAM(rawoutstream, " -u, --use-dtd Output in XML using DTD\n"); PRINTVALSTREAM(rawoutstream, " -D U, --xml-dtd=U Use the DTD or schema at U\n"); PRINTVALSTREAM(rawoutstream, " -X S, --xml-ns=S (XML Schema) Use qualified names n the XML\n"); PRINTVALSTREAM(rawoutstream, " \":\": no namespace, default: \"hdf5:\"\n"); PRINTVALSTREAM(rawoutstream, " E.g., to dump a file called \"-f\", use h5dump -- -f\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, "--------------- Subsetting Options ---------------\n"); PRINTVALSTREAM(rawoutstream, " Subsetting is available by using the following options with a dataset\n"); PRINTVALSTREAM(rawoutstream, " option. Subsetting is done by selecting a hyperslab from the data.\n"); PRINTVALSTREAM(rawoutstream, " Thus, the options mirror those for performing a hyperslab selection.\n"); PRINTVALSTREAM( rawoutstream, " One of the START, COUNT, STRIDE, or BLOCK parameters are mandatory if you do subsetting.\n"); PRINTVALSTREAM(rawoutstream, " The STRIDE, COUNT, and BLOCK parameters are optional and will default to 1 in\n"); PRINTVALSTREAM(rawoutstream, " each dimension. START is optional and will default to 0 in each dimension.\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " -s START, --start=START Offset of start of subsetting selection\n"); PRINTVALSTREAM(rawoutstream, " -S STRIDE, --stride=STRIDE Hyperslab stride\n"); PRINTVALSTREAM(rawoutstream, " -c COUNT, --count=COUNT Number of blocks to include in selection\n"); PRINTVALSTREAM(rawoutstream, " -k BLOCK, --block=BLOCK Size of block in hyperslab\n"); PRINTVALSTREAM( rawoutstream, " START, COUNT, STRIDE, and BLOCK - is a list of integers the number of which are equal to the\n"); PRINTVALSTREAM(rawoutstream, " number of dimensions in the dataspace being queried\n"); PRINTVALSTREAM(rawoutstream, " (Alternate compact form of subsetting is described in the Reference Manual)\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, "--------------- Option Argument Conventions ---------------\n"); PRINTVALSTREAM(rawoutstream, " D - is the file driver to use in opening the file. Acceptable values\n"); PRINTVALSTREAM( rawoutstream, " are \"sec2\", \"family\", \"split\", \"multi\", \"direct\", and \"stream\". Without\n"); PRINTVALSTREAM(rawoutstream, " the file driver flag, the file will be opened with each driver in\n"); PRINTVALSTREAM(rawoutstream, " turn and in the order specified above until one driver succeeds\n"); PRINTVALSTREAM(rawoutstream, " in opening the file.\n"); PRINTVALSTREAM(rawoutstream, " See examples below for family, split, and multi driver special file name usage.\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " F - is a filename.\n"); PRINTVALSTREAM(rawoutstream, " P - is the full path from the root group to the object.\n"); PRINTVALSTREAM(rawoutstream, " N - is an integer greater than 1.\n"); PRINTVALSTREAM(rawoutstream, " T - is a string containing the floating point format, e.g '%%.3f'\n"); PRINTVALSTREAM(rawoutstream, " U - is a URI reference (as defined in [IETF RFC 2396],\n"); PRINTVALSTREAM(rawoutstream, " updated by [IETF RFC 2732])\n"); PRINTVALSTREAM(rawoutstream, " B - is the form of binary output: NATIVE for a memory type, FILE for the\n"); PRINTVALSTREAM(rawoutstream, " file type, LE or BE for pre-existing little or big endian types.\n"); PRINTVALSTREAM(rawoutstream, " Must be used with -o (output file) and it is recommended that\n"); PRINTVALSTREAM(rawoutstream, " -d (dataset) is used. B is an optional argument, defaults to NATIVE\n"); PRINTVALSTREAM(rawoutstream, " Q - is the sort index type. It can be \"creation_order\" or \"name\" (default)\n"); PRINTVALSTREAM(rawoutstream, " Z - is the sort order type. It can be \"descending\" or \"ascending\" (default)\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, "--------------- Examples ---------------\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " 1) Attribute foo of the group /bar_none in file quux.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " h5dump -a /bar_none/foo quux.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " Attribute \"high/low\" of the group /bar_none in the file quux.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " h5dump -a \"/bar_none/high\\/low\" quux.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " 2) Selecting a subset from dataset /foo in file quux.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " h5dump -d /foo -s \"0,1\" -S \"1,1\" -c \"2,3\" -k \"2,2\" quux.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " 3) Saving dataset 'dset' in file quux.h5 to binary file 'out.bin'\n"); PRINTVALSTREAM(rawoutstream, " using a little-endian type\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " h5dump -d /dset -b LE -o out.bin quux.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " 4) Display two packed bits (bits 0-1 and bits 4-6) in the dataset /dset\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " h5dump -d /dset -M 0,1,4,3 quux.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " 5) Dataset foo in files file1.h5 file2.h5 file3.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " h5dump -d /foo file1.h5 file2.h5 file3.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " 6) Dataset foo in split files splitfile-m.h5 splitfile-r.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " h5dump -d /foo -f split splitfile\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM( rawoutstream, " 7) Dataset foo in multi files mf-s.h5, mf-b.h5, mf-r.h5, mf-g.h5, mf-l.h5 and mf-o.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " h5dump -d /foo -f multi mf\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " 8) Dataset foo in family files fam00000.h5 fam00001.h5 and fam00002.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); PRINTVALSTREAM(rawoutstream, " h5dump -d /foo -f family fam%%05d.h5\n"); PRINTVALSTREAM(rawoutstream, "\n"); } /*------------------------------------------------------------------------- * Function: table_list_add * * Purpose: Add a new set of tables * * Return: index of added table on success, -1 on failure *------------------------------------------------------------------------- */ ssize_t table_list_add(hid_t oid, unsigned long file_no) { size_t idx; /* Index of table to use */ find_objs_t info; /* Allocate space if necessary */ if (table_list.nused == table_list.nalloc) { h5dump_table_items_t *tmp_ptr; table_list.nalloc = MAX(1, table_list.nalloc * 2); if (NULL == (tmp_ptr = (h5dump_table_items_t *)HDrealloc( table_list.tables, table_list.nalloc * sizeof(table_list.tables[0])))) return -1; table_list.tables = tmp_ptr; } /* end if */ /* Append it */ idx = table_list.nused++; table_list.tables[idx].fileno = file_no; table_list.tables[idx].oid = oid; if (H5Iinc_ref(oid) < 0) { table_list.nused--; return -1; } if (init_objs(oid, &info, &table_list.tables[idx].group_table, &table_list.tables[idx].dset_table, &table_list.tables[idx].type_table) < 0) { H5Idec_ref(oid); table_list.nused--; return -1; } #ifdef H5DUMP_DEBUG dump_tables(&info); #endif /* H5DUMP_DEBUG */ return ((ssize_t)idx); } /* end table_list_add() */ /*------------------------------------------------------------------------- * Function: table_list_visited * * Purpose: Check if a table already exists for the specified fileno * * Return: The index of the matching table, or -1 if no matches found *------------------------------------------------------------------------- */ H5_ATTR_PURE ssize_t table_list_visited(unsigned long file_no) { size_t u; /* Local index variable */ /* Look for table */ for (u = 0; u < table_list.nused; u++) /* Check for fileno value already in array */ if (table_list.tables[u].fileno == file_no) return ((ssize_t)u); /* Didn't find table */ return (-1); } /* end table_list_visited() */ /*------------------------------------------------------------------------- * Function: table_list_free * * Purpose: Frees the table list * * Return: void *------------------------------------------------------------------------- */ static void table_list_free(void) { size_t u; /* Local index variable */ /* Iterate over tables */ for (u = 0; u < table_list.nused; u++) { /* Release object id */ if (H5Idec_ref(table_list.tables[u].oid) < 0) h5tools_setstatus(EXIT_FAILURE); /* Free each table */ free_table(table_list.tables[u].group_table); free_table(table_list.tables[u].dset_table); free_table(table_list.tables[u].type_table); } /* Free the table list */ HDfree(table_list.tables); table_list.tables = NULL; table_list.nalloc = table_list.nused = 0; } /* end table_list_free() */ /*------------------------------------------------------------------------- * Function: set_binary_form * * Purpose: set the binary form of output by translating from a string input * parameter to a integer return value * * Return: integer form of binary output or -1 if none found *------------------------------------------------------------------------- */ static int set_binary_form(const char *form) { int bform = -1; if (HDstrcmp(form, "NATIVE") == 0 || HDstrcmp(form, "MEMORY") == 0) { /* native form */ bform = 0; } else if (HDstrcmp(form, "FILE") == 0) /* file type form */ bform = 1; else if (HDstrcmp(form, "LE") == 0) /* convert to little endian */ bform = 2; else if (HDstrcmp(form, "BE") == 0) /* convert to big endian */ bform = 3; return bform; } /*------------------------------------------------------------------------- * Function: set_sort_by * * Purpose: set the "by" form of sorting by translating from a string input * parameter to a H5_index_t return value * current sort values are [creation_order | name] * * Return: H5_index_t form of sort or H5_INDEX_UNKNOWN if none found *------------------------------------------------------------------------- */ static H5_index_t set_sort_by(const char *form) { H5_index_t idx_type = H5_INDEX_UNKNOWN; if (HDstrcmp(form, "name") == 0) /* H5_INDEX_NAME */ idx_type = H5_INDEX_NAME; else if (HDstrcmp(form, "creation_order") == 0) /* H5_INDEX_CRT_ORDER */ idx_type = H5_INDEX_CRT_ORDER; return idx_type; } /*------------------------------------------------------------------------- * Function: set_sort_order * * Purpose: set the order of sorting by translating from a string input * parameter to a H5_iter_order_t return value * current order values are [ascending | descending ] * * Return: H5_iter_order_t form of order or H5_ITER_UNKNOWN if none found *------------------------------------------------------------------------- */ static H5_iter_order_t set_sort_order(const char *form) { H5_iter_order_t iter_order = H5_ITER_UNKNOWN; if (HDstrcmp(form, "ascending") == 0) /* H5_ITER_INC */ iter_order = H5_ITER_INC; else if (HDstrcmp(form, "descending") == 0) /* H5_ITER_DEC */ iter_order = H5_ITER_DEC; return iter_order; } /*------------------------------------------------------------------------- * Function: parse_mask_list * * Purpose: Parse a list of comma or space separated integers and fill * the packed_bits list and counter. The string being passed into this function * should be at the start of the list you want to parse. * * Return: Success: SUCCEED * Failure: FAIL *------------------------------------------------------------------------- */ static int parse_mask_list(const char *h_list) { int soffset_value; unsigned offset_value; int slength_value; unsigned length_value; unsigned long long temp_mask; const char *ptr = NULL; /* sanity check */ if (h_list) { HDmemset(packed_mask, 0, sizeof(packed_mask)); packed_bits_num = 0; /* scan in pair of offset,length separated by commas. */ ptr = h_list; while (*ptr) { /* scan for an offset which is an unsigned int */ if (!HDisdigit(*ptr)) { error_msg("Bad mask list(%s)\n", h_list); return FAIL; } soffset_value = HDatoi(ptr); offset_value = (unsigned)soffset_value; if (soffset_value < 0 || offset_value >= PACKED_BITS_SIZE_MAX) { error_msg("Packed Bit offset value(%d) must be between 0 and %u\n", soffset_value, (unsigned)(PACKED_BITS_SIZE_MAX - 1)); return FAIL; } /* skip to end of integer */ while (HDisdigit(*++ptr)) ; /* Look for the common separator */ if (*ptr++ != ',') { error_msg("Bad mask list(%s), missing expected comma separator.\n", h_list); return FAIL; } /* scan for a length which is a positive int */ if (!HDisdigit(*ptr)) { error_msg("Bad mask list(%s)\n", h_list); return FAIL; } slength_value = HDatoi(ptr); if (slength_value <= 0) { error_msg("Packed Bit length value(%d) must be positive.\n", slength_value); return FAIL; } length_value = (unsigned)slength_value; if ((offset_value + length_value) > PACKED_BITS_SIZE_MAX) { error_msg("Packed Bit offset+length value(%u) too large. Max is %u\n", offset_value + length_value, (unsigned)PACKED_BITS_SIZE_MAX); return FAIL; } /* skip to end of int */ while (HDisdigit(*++ptr)) ; /* store the offset,length pair */ if (packed_bits_num >= PACKED_BITS_MAX) { /* too many requests */ error_msg("Too many masks requested (max. %d). Mask list(%s)\n", PACKED_BITS_MAX, h_list); return FAIL; } packed_offset[packed_bits_num] = offset_value; packed_length[packed_bits_num] = length_value; /* create the bit mask by left shift 1's by length, then negate it. */ /* After packed_mask is calculated, packed_length is not needed but */ /* keep it for debug purpose. */ temp_mask = ~0ULL; if (length_value < (int)(8 * sizeof(unsigned long long))) { temp_mask = temp_mask << length_value; packed_mask[packed_bits_num] = ~temp_mask; } else packed_mask[packed_bits_num] = temp_mask; packed_bits_num++; /* skip a possible comma separator */ if (*ptr == ',') { if (!(*++ptr)) { /* unexpected end of string */ error_msg("Bad mask list(%s), unexpected end of string.\n", h_list); return FAIL; } } } if (packed_bits_num > PACKED_BITS_MAX) { error_msg("Maximum number of packed bits exceeded\n"); return FAIL; } if (packed_bits_num == 0) { /* got no masks! */ error_msg("Bad mask list(%s)\n", h_list); return FAIL; } return SUCCEED; } else { error_msg("Bad mask list argument\n"); return FAIL; } } /*------------------------------------------------------------------------- * Function: free_handler * * Purpose: Convenience function to free the handler_t structures. Needs a * length variable (LEN) to know how many in the array it needs * to free * * Return: Nothing *------------------------------------------------------------------------- */ static void free_handler(struct handler_t *hand, int len) { int i; if (hand) { for (i = 0; i < len; i++) { if (hand[i].obj) { HDfree(hand[i].obj); hand[i].obj = NULL; } if (hand[i].subset_info) { if (hand[i].subset_info->start.data) HDfree(hand[i].subset_info->start.data); if (hand[i].subset_info->stride.data) HDfree(hand[i].subset_info->stride.data); if (hand[i].subset_info->count.data) HDfree(hand[i].subset_info->count.data); if (hand[i].subset_info->block.data) HDfree(hand[i].subset_info->block.data); HDfree(hand[i].subset_info); hand[i].subset_info = NULL; } } HDfree(hand); } } /*------------------------------------------------------------------------- * Function: parse_command_line * * Purpose: Parse the command line for the h5dumper. * * Return: Success: A pointer to an array of handler_t structures. * These contain all the information needed to dump * the necessary object. * Failure: Exits program with EXIT_FAILURE value. *------------------------------------------------------------------------- */ static struct handler_t * parse_command_line(int argc, const char *const *argv) { struct handler_t *hand = NULL; struct handler_t *last_dset = NULL; int i; int opt; int last_was_dset = FALSE; /* no arguments */ if (argc == 1) { usage(h5tools_getprogname()); goto error; } /* this will be plenty big enough to hold the info */ if ((hand = (struct handler_t *)HDcalloc((size_t)argc, sizeof(struct handler_t))) == NULL) { goto error; } /* parse command line options */ while ((opt = H5_get_option(argc, argv, s_opts, l_opts)) != EOF) { parse_start: switch ((char)opt) { case 'R': dump_opts.display_region = TRUE; region_output = TRUE; break; case 'B': dump_opts.display_bb = TRUE; last_was_dset = FALSE; break; case 'n': dump_opts.display_fi = TRUE; last_was_dset = FALSE; if (H5_optarg != NULL) h5trav_set_verbose(HDatoi(H5_optarg)); break; case 'p': dump_opts.display_dcpl = TRUE; break; case 'y': dump_opts.display_ai = FALSE; break; case 'e': dump_opts.display_escape = TRUE; break; case 'H': dump_opts.display_data = FALSE; dump_opts.display_attr_data = FALSE; last_was_dset = FALSE; break; case 'A': if (H5_optarg != NULL) { if (0 == HDatoi(H5_optarg)) dump_opts.include_attrs = FALSE; } else { dump_opts.display_data = FALSE; dump_opts.display_attr_data = TRUE; last_was_dset = FALSE; } break; case 'i': dump_opts.display_oid = TRUE; last_was_dset = FALSE; break; case 'r': dump_opts.display_char = TRUE; break; case 'V': print_version(h5tools_getprogname()); free_handler(hand, argc); hand = NULL; h5tools_setstatus(EXIT_SUCCESS); goto done; break; case 'w': { int sh5tools_nCols = HDatoi(H5_optarg); if (sh5tools_nCols <= 0) h5tools_nCols = 65535; else h5tools_nCols = (unsigned)sh5tools_nCols; last_was_dset = FALSE; } break; case 'N': dump_opts.display_all = 0; for (i = 0; i < argc; i++) if (!hand[i].func) { hand[i].func = handle_paths; hand[i].obj = HDstrdup(H5_optarg); break; } last_was_dset = FALSE; break; case 'a': dump_opts.display_all = 0; for (i = 0; i < argc; i++) if (!hand[i].func) { hand[i].func = handle_attributes; hand[i].obj = HDstrdup(H5_optarg); break; } last_was_dset = FALSE; break; case 'd': dump_opts.display_all = 0; for (i = 0; i < argc; i++) if (!hand[i].func) { hand[i].func = handle_datasets; hand[i].obj = HDstrdup(H5_optarg); if (!dump_opts.disable_compact_subset) hand[i].subset_info = parse_subset_params(hand[i].obj); last_dset = &hand[i]; break; } last_was_dset = TRUE; break; case 'f': vfd_info_g.type = VFD_BY_NAME; vfd_info_g.u.name = H5_optarg; use_custom_vfd_g = TRUE; #ifdef H5_HAVE_ROS3_VFD if (0 == HDstrcmp(vfd_info_g.u.name, drivernames[ROS3_VFD_IDX])) if (!vfd_info_g.info) vfd_info_g.info = &ros3_fa_g; #endif #ifdef H5_HAVE_LIBHDFS if (0 == HDstrcmp(vfd_info_g.u.name, drivernames[HDFS_VFD_IDX])) if (!vfd_info_g.info) vfd_info_g.info = &hdfs_fa_g; #endif break; case 'g': dump_opts.display_all = 0; for (i = 0; i < argc; i++) if (!hand[i].func) { hand[i].func = handle_groups; hand[i].obj = HDstrdup(H5_optarg); break; } last_was_dset = FALSE; break; case 'l': dump_opts.display_all = 0; for (i = 0; i < argc; i++) if (!hand[i].func) { hand[i].func = handle_links; hand[i].obj = HDstrdup(H5_optarg); break; } last_was_dset = FALSE; break; case 't': dump_opts.display_all = 0; for (i = 0; i < argc; i++) if (!hand[i].func) { hand[i].func = handle_datatypes; hand[i].obj = HDstrdup(H5_optarg); break; } last_was_dset = FALSE; break; case 'O': if (h5tools_set_output_file(H5_optarg, 0) < 0) { usage(h5tools_getprogname()); goto error; } break; case 'o': if (bin_output) { if (h5tools_set_data_output_file(H5_optarg, 1) < 0) { usage(h5tools_getprogname()); goto error; } } else { if (dump_opts.display_attr_data && !dump_opts.display_data) { if (h5tools_set_attr_output_file(H5_optarg, 0) < 0) { usage(h5tools_getprogname()); goto error; } } if (dump_opts.display_data || dump_opts.display_all) { if (h5tools_set_data_output_file(H5_optarg, 0) < 0) { usage(h5tools_getprogname()); goto error; } } } dump_opts.usingdasho = TRUE; last_was_dset = FALSE; outfname_g = H5_optarg; break; case 'b': if (H5_optarg != NULL) { if ((bin_form = set_binary_form(H5_optarg)) < 0) { /* failed to set binary form */ usage(h5tools_getprogname()); goto error; } } bin_output = TRUE; if (outfname_g != NULL) { if (h5tools_set_data_output_file(outfname_g, 1) < 0) { /* failed to set output file */ usage(h5tools_getprogname()); goto error; } last_was_dset = FALSE; } break; case 'q': if ((sort_by = set_sort_by(H5_optarg)) < 0) { /* failed to set "sort by" form */ usage(h5tools_getprogname()); goto error; } break; case 'z': if ((sort_order = set_sort_order(H5_optarg)) < 0) { /* failed to set "sort order" form */ usage(h5tools_getprogname()); goto error; } break; case 'M': if (!last_was_dset) { error_msg("option \"-%c\" can only be used after --dataset option\n", opt); goto error; } if (parse_mask_list(H5_optarg) != SUCCEED) { usage(h5tools_getprogname()); goto error; } dump_opts.display_packed_bits = TRUE; break; case 'v': dump_opts.display_vds_first = TRUE; break; case 'G': dump_opts.vds_gap_size = HDatoi(H5_optarg); if (dump_opts.vds_gap_size < 0) { usage(h5tools_getprogname()); goto error; } break; /** begin XML parameters **/ case 'x': /* select XML output */ doxml_g = TRUE; useschema_g = TRUE; h5tools_dump_header_format = NULL; dump_function_table = &xml_function_table; h5tools_nCols = 0; break; case 'u': doxml_g = TRUE; useschema_g = FALSE; xmlnsprefix = ""; h5tools_dump_header_format = NULL; dump_function_table = &xml_function_table; h5tools_nCols = 0; break; case 'D': /* specify alternative XML DTD or schema */ /* To Do: check format of this value? */ xml_dtd_uri_g = H5_optarg; h5tools_nCols = 0; break; case 'm': /* specify alternative floating point printing format */ fp_format = H5_optarg; h5tools_nCols = 0; break; case 'X': /* specify XML namespace (default="hdf5:"), or none */ /* To Do: check format of this value? */ if (!useschema_g) { usage(h5tools_getprogname()); goto error; } if (HDstrcmp(H5_optarg, ":") == 0) xmlnsprefix = ""; else xmlnsprefix = H5_optarg; h5tools_nCols = 0; break; /** end XML parameters **/ /** begin subsetting parameters **/ case 's': case 'S': case 'c': case 'k': { struct subset_t *s; if (!last_was_dset) { error_msg("option \"-%c\" can only be used after --dataset option\n", opt); goto error; } if (last_dset->subset_info) { /* * This overrides the "terse" syntax if they actually mixed * the two. */ s = last_dset->subset_info; } else { last_dset->subset_info = s = (struct subset_t *)HDcalloc(1, sizeof(struct subset_t)); } /* * slightly convoluted, but...we are only interested in options * for subsetting: "--start", "--stride", "--count", and "--block" * which can come in any order. If we run out of parameters (EOF) * or run into one which isn't a subsetting parameter (NOT s, S, * c, or K), then we exit the do-while look, set the subset_info * to the structure we've been filling. If we've reached the end * of the options, we exit the parsing (goto parse_end) otherwise, * since we've "read" the next option, we need to parse it. So we * jump to the beginning of the switch statement (goto parse_start). */ do { switch ((char)opt) { case 's': if (s->start.data) { HDfree(s->start.data); s->start.data = NULL; } parse_hsize_list(H5_optarg, &s->start); break; case 'S': if (s->stride.data) { HDfree(s->stride.data); s->stride.data = NULL; } parse_hsize_list(H5_optarg, &s->stride); break; case 'c': if (s->count.data) { HDfree(s->count.data); s->count.data = NULL; } parse_hsize_list(H5_optarg, &s->count); break; case 'k': if (s->block.data) { HDfree(s->block.data); s->block.data = NULL; } parse_hsize_list(H5_optarg, &s->block); break; default: goto end_collect; } } while ((opt = H5_get_option(argc, argv, s_opts, l_opts)) != EOF); end_collect: last_was_dset = FALSE; if (opt != EOF) goto parse_start; else goto parse_end; } /** end subsetting parameters **/ case 'E': if (H5_optarg != NULL) enable_error_stack = HDatoi(H5_optarg); else enable_error_stack = 1; break; case 'C': dump_opts.disable_compact_subset = TRUE; break; case 'h': usage(h5tools_getprogname()); free_handler(hand, argc); hand = NULL; h5tools_setstatus(EXIT_SUCCESS); goto done; case '$': #ifdef H5_HAVE_ROS3_VFD if (h5tools_parse_ros3_fapl_tuple(H5_optarg, ',', &ros3_fa_g) < 0) { error_msg("failed to parse S3 VFD credential info\n"); usage(h5tools_getprogname()); free_handler(hand, argc); hand = NULL; h5tools_setstatus(EXIT_FAILURE); goto done; } vfd_info_g.info = &ros3_fa_g; #else error_msg("Read-Only S3 VFD not enabled.\n"); h5tools_setstatus(EXIT_FAILURE); goto done; #endif break; case '#': #ifdef H5_HAVE_LIBHDFS if (h5tools_parse_hdfs_fapl_tuple(H5_optarg, ',', &hdfs_fa_g) < 0) { error_msg("failed to parse HDFS VFD configuration info\n"); usage(h5tools_getprogname()); free_handler(hand, argc); hand = NULL; h5tools_setstatus(EXIT_FAILURE); goto done; } vfd_info_g.info = &hdfs_fa_g; #else error_msg("HDFS VFD not enabled.\n"); h5tools_setstatus(EXIT_FAILURE); goto done; #endif break; case '1': vol_info_g.type = VOL_BY_VALUE; vol_info_g.u.value = (H5VL_class_value_t)HDatoi(H5_optarg); use_custom_vol_g = TRUE; break; case '2': vol_info_g.type = VOL_BY_NAME; vol_info_g.u.name = H5_optarg; use_custom_vol_g = TRUE; break; case '3': vol_info_g.info_string = H5_optarg; break; case '4': vfd_info_g.type = VFD_BY_VALUE; vfd_info_g.u.value = (H5FD_class_value_t)HDatoi(H5_optarg); use_custom_vfd_g = TRUE; break; case '5': vfd_info_g.type = VFD_BY_NAME; vfd_info_g.u.name = H5_optarg; use_custom_vfd_g = TRUE; break; case '6': vfd_info_g.info = (const void *)H5_optarg; break; case '?': default: usage(h5tools_getprogname()); goto error; } } /* If the file uses the onion VFD, get the revision number */ if (vfd_info_g.u.name && !HDstrcmp(vfd_info_g.u.name, "onion")) { if (vfd_info_g.info) { if (!HDstrcmp(vfd_info_g.info, "revision_count")) get_onion_revision_count = TRUE; else { errno = 0; onion_fa_g.revision_num = HDstrtoull(vfd_info_g.info, NULL, 10); if (errno == ERANGE) { HDprintf("Invalid onion revision specified\n"); goto error; } HDprintf("Using revision %" PRIu64 "\n", onion_fa_g.revision_num); } } else onion_fa_g.revision_num = 0; vfd_info_g.info = &onion_fa_g; } parse_end: /* check for file name to be processed */ if (argc <= H5_optind) { error_msg("missing file name\n"); usage(h5tools_getprogname()); goto error; } done: return hand; error: if (hand) { free_handler(hand, argc); hand = NULL; } h5tools_setstatus(EXIT_FAILURE); return hand; } /*------------------------------------------------------------------------- * Function: main * * Purpose: HDF5 dumper * * Return: Success: 0 * Failure: 1 *------------------------------------------------------------------------- */ int main(int argc, char *argv[]) { hid_t fid = H5I_INVALID_HID; hid_t gid = H5I_INVALID_HID; hid_t fapl_id = H5P_DEFAULT; H5O_info2_t oi; struct handler_t *hand = NULL; int i; unsigned u; char *fname = NULL; h5tools_setprogname(PROGRAMNAME); h5tools_setstatus(EXIT_SUCCESS); h5tools_dump_header_format = &h5tools_standardformat; dump_function_table = &ddl_function_table; dump_indent = 0; /* Initialize h5tools lib */ h5tools_init(); if ((hand = parse_command_line(argc, (const char *const *)argv)) == NULL) { goto done; } if (bin_output && outfname_g == NULL) { error_msg("binary output requires a file name, use -o \n"); h5tools_setstatus(EXIT_FAILURE); goto done; } /* Check for conflicting options */ if (doxml_g) { if (!dump_opts.display_all) { error_msg("option \"%s\" not available for XML\n", "to display selected objects"); h5tools_setstatus(EXIT_FAILURE); goto done; } else if (dump_opts.display_bb) { error_msg("option \"%s\" not available for XML\n", "--boot-block"); h5tools_setstatus(EXIT_FAILURE); goto done; } else if (dump_opts.display_oid == 1) { error_msg("option \"%s\" not available for XML\n", "--object-ids"); h5tools_setstatus(EXIT_FAILURE); goto done; } else if (dump_opts.display_char == TRUE) { error_msg("option \"%s\" not available for XML\n", "--string"); h5tools_setstatus(EXIT_FAILURE); goto done; } else if (dump_opts.usingdasho) { error_msg("option \"%s\" not available for XML\n", "--output"); h5tools_setstatus(EXIT_FAILURE); goto done; } } else { if (xml_dtd_uri_g) { warn_msg("option \"%s\" only applies with XML: %s\n", "--xml-dtd", xml_dtd_uri_g); } } if (argc <= H5_optind) { error_msg("missing file name\n"); usage(h5tools_getprogname()); h5tools_setstatus(EXIT_FAILURE); goto done; } /* enable error reporting if command line option */ h5tools_error_report(); /* Initialize indexing options */ h5trav_set_index(sort_by, sort_order); if (use_custom_vol_g || use_custom_vfd_g) { if ((fapl_id = h5tools_get_fapl(H5P_DEFAULT, use_custom_vol_g ? &vol_info_g : NULL, use_custom_vfd_g ? &vfd_info_g : NULL)) < 0) { error_msg("unable to create FAPL for file access\n"); h5tools_setstatus(EXIT_FAILURE); goto done; } } while (H5_optind < argc) { fname = HDstrdup(argv[H5_optind++]); /* A short cut to get the revision count of an onion file without opening the file */ if (get_onion_revision_count && H5FD_ONION == H5Pget_driver(fapl_id)) { uint64_t revision_count = 0; if (H5FDonion_get_revision_count(fname, fapl_id, &revision_count) < 0) { error_msg("unable to create FAPL for file access\n"); h5tools_setstatus(EXIT_FAILURE); goto done; } HDprintf("The number of revisions for the onion file is %" PRIu64 "\n", revision_count); goto done; } else fid = h5tools_fopen(fname, H5F_ACC_RDONLY, fapl_id, (fapl_id != H5P_DEFAULT), NULL, 0); if (fid < 0) { error_msg("unable to open file \"%s\"\n", fname); h5tools_setstatus(EXIT_FAILURE); goto done; } /* allocate and initialize internal data structure */ init_prefix(&prefix, prefix_len); /* Prepare to find objects that might be targets of a reference */ fill_ref_path_table(fid); if (doxml_g) { /* initialize XML */ /* reset prefix! */ HDstrcpy(prefix, ""); /* make sure the URI is initialized to something */ if (xml_dtd_uri_g == NULL) { if (useschema_g) { xml_dtd_uri_g = DEFAULT_XSD; } else { xml_dtd_uri_g = DEFAULT_DTD; xmlnsprefix = ""; } } else { if (useschema_g && HDstrcmp(xmlnsprefix, "") != 0) { error_msg( "Cannot set Schema URL for a qualified namespace--use -X or -U option with -D \n"); h5tools_setstatus(EXIT_FAILURE); goto done; } } } /* Get object info for root group */ if (H5Oget_info_by_name3(fid, "/", &oi, H5O_INFO_BASIC, H5P_DEFAULT) < 0) { error_msg("internal error (file %s:line %d)\n", __FILE__, __LINE__); h5tools_setstatus(EXIT_FAILURE); goto done; } /* Initialize object tables */ if (table_list_add(fid, oi.fileno) < 0) { error_msg("internal error (file %s:line %d)\n", __FILE__, __LINE__); h5tools_setstatus(EXIT_FAILURE); goto done; } group_table = table_list.tables[0].group_table; dset_table = table_list.tables[0].dset_table; type_table = table_list.tables[0].type_table; /* does there exist unnamed committed datatype */ for (u = 0; u < type_table->nobjs; u++) if (!type_table->objs[u].recorded) { unamedtype = 1; break; } /* end if */ /* start to dump - display file header information */ if (!doxml_g) { begin_obj(h5tools_dump_header_format->filebegin, fname, h5tools_dump_header_format->fileblockbegin); } else { PRINTVALSTREAM(rawoutstream, "\n"); /* alternative first element, depending on schema or DTD. */ if (useschema_g) { if (HDstrcmp(xmlnsprefix, "") == 0) { PRINTSTREAM(rawoutstream, "\n", xml_dtd_uri_g); } else { /* TO DO: make -url option work in this case (may need new option) */ char *ns; char *indx; ns = HDstrdup(xmlnsprefix); indx = HDstrrchr(ns, (int)':'); if (indx) *indx = '\0'; PRINTSTREAM(rawoutstream, "<%sHDF5-File xmlns:%s=\"http://hdfgroup.org/HDF5/XML/schema/HDF5-File.xsd\" " "xmlns:xsi=\"http://www.w3.org/2001/XMLSchema-instance\" " "xsi:schemaLocation=\"http://hdfgroup.org/HDF5/XML/schema/HDF5-File " "http://www.hdfgroup.org/HDF5/XML/schema/HDF5-File.xsd\">\n", xmlnsprefix, ns); HDfree(ns); } } else { PRINTSTREAM(rawoutstream, "\n", xml_dtd_uri_g); PRINTVALSTREAM(rawoutstream, "\n"); } } if (!doxml_g) { if (dump_opts.display_fi) { PRINTVALSTREAM(rawoutstream, "\n"); dump_fcontents(fid); end_obj(h5tools_dump_header_format->fileend, h5tools_dump_header_format->fileblockend); PRINTVALSTREAM(rawoutstream, "\n"); goto done; } if (dump_opts.display_bb) dump_fcpl(fid); } if (dump_opts.display_all) { if ((gid = H5Gopen2(fid, "/", H5P_DEFAULT)) < 0) { error_msg("unable to open root group\n"); h5tools_setstatus(EXIT_FAILURE); } else { if (!doxml_g) dump_indent += COL; dump_function_table->dump_group_function(gid, "/"); if (!doxml_g) dump_indent -= COL; PRINTVALSTREAM(rawoutstream, "\n"); } if (H5Gclose(gid) < 0) { error_msg("unable to close root group\n"); h5tools_setstatus(EXIT_FAILURE); } } else { /* Note: this option is not supported for XML */ if (doxml_g) { error_msg("internal error (file %s:line %d)\n", __FILE__, __LINE__); h5tools_setstatus(EXIT_FAILURE); goto done; } /* end if */ for (i = 0; i < argc; i++) { if (hand[i].func) { hand[i].func(fid, hand[i].obj, hand[i].subset_info, 1, NULL); } } PRINTVALSTREAM(rawoutstream, "\n"); } if (!doxml_g) { end_obj(h5tools_dump_header_format->fileend, h5tools_dump_header_format->fileblockend); PRINTVALSTREAM(rawoutstream, "\n"); } else { PRINTSTREAM(rawoutstream, "\n", xmlnsprefix); } /* Free tables for objects */ table_list_free(); if (fid >= 0) if (H5Fclose(fid) < 0) h5tools_setstatus(EXIT_FAILURE); if (prefix) { HDfree(prefix); prefix = NULL; } if (fname) { HDfree(fname); fname = NULL; } } /* end while */ if (hand) free_handler(hand, argc); /* To Do: clean up XML table */ leave(h5tools_getstatus()); done: /* Free tables for objects */ table_list_free(); if (fapl_id != H5P_DEFAULT && 0 < H5Pclose(fapl_id)) { error_msg("Can't close fapl entry\n"); h5tools_setstatus(EXIT_FAILURE); } if (fid >= 0) if (H5Fclose(fid) < 0) h5tools_setstatus(EXIT_FAILURE); if (prefix) { HDfree(prefix); prefix = NULL; } if (fname) { HDfree(fname); fname = NULL; } if (hand) free_handler(hand, argc); /* To Do: clean up XML table */ leave(h5tools_getstatus()); } /* main */ /*------------------------------------------------------------------------- * Function: init_prefix * * Purpose: allocate and initialize prefix * * Return: void * *------------------------------------------------------------------------- */ static void init_prefix(char **prfx, size_t prfx_len) { if (prfx_len > 0) *prfx = (char *)HDcalloc(prfx_len, 1); else error_msg("unable to allocate prefix buffer\n"); } /*------------------------------------------------------------------------- * Function: add_prefix * * Purpose: Add object to prefix * * Return: void * *------------------------------------------------------------------------- */ void add_prefix(char **prfx, size_t *prfx_len, const char *name) { size_t new_len = HDstrlen(*prfx) + HDstrlen(name) + 2; /* Check if we need more space */ if (*prfx_len <= new_len) { *prfx_len = new_len + 1; *prfx = (char *)HDrealloc(*prfx, *prfx_len); } /* Append object name to prefix */ HDstrcat(HDstrcat(*prfx, "/"), name); } /* end add_prefix */