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hdf5/tools/lib/h5tools_dump.c

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/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
* Copyright by The HDF Group. *
* Copyright by the Board of Trustees of the University of Illinois. *
* All rights reserved. *
* *
* This file is part of HDF5. The full HDF5 copyright notice, including *
* terms governing use, modification, and redistribution, is contained in *
* the files COPYING and Copyright.html. COPYING can be found at the root *
* of the source code distribution tree; Copyright.html can be found at the *
* root level of an installed copy of the electronic HDF5 document set and *
* is linked from the top-level documents page. It can also be found at *
* http://hdfgroup.org/HDF5/doc/Copyright.html. If you do not have *
* access to either file, you may request a copy from help@hdfgroup.org. *
* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
/*
* Programmer: Robb Matzke <matzke@llnl.gov>
* Thursday, July 23, 1998
*
* Purpose: A library for displaying the values of a dataset in a human
* readable format.
*/
#include <stdio.h>
#include <stdlib.h>
#include "h5tools.h"
#include "h5tools_dump.h"
#include "h5tools_ref.h"
#include "h5tools_utils.h"
#include "H5private.h"
h5tool_format_t h5tools_dataformat = {
0, /*raw */
"", /*fmt_raw */
"%d", /*fmt_int */
"%u", /*fmt_uint */
"%hhd", /*fmt_schar */
"%u", /*fmt_uchar */
"%d", /*fmt_short */
"%u", /*fmt_ushort */
"%ld", /*fmt_long */
"%lu", /*fmt_ulong */
NULL, /*fmt_llong */
NULL, /*fmt_ullong */
"%g", /*fmt_double */
"%g", /*fmt_float */
0, /*ascii */
0, /*str_locale */
0, /*str_repeat */
"[ ", /*arr_pre */
",", /*arr_sep */
" ]", /*arr_suf */
1, /*arr_linebreak */
"", /*cmpd_name */
",\n", /*cmpd_sep */
"{", /*cmpd_pre */
"}", /*cmpd_suf */
"\n", /*cmpd_end */
NULL, /* cmpd_listv */
", ", /*vlen_sep */
"(", /*vlen_pre */
")", /*vlen_suf */
"", /*vlen_end */
"%s", /*elmt_fmt */
",", /*elmt_suf1 */
" ", /*elmt_suf2 */
"", /*idx_n_fmt */
"", /*idx_sep */
"", /*idx_fmt */
80, /*line_ncols *//*standard default columns */
0, /*line_per_line */
"", /*line_pre */
"%s", /*line_1st */
"%s", /*line_cont */
"", /*line_suf */
"", /*line_sep */
1, /*line_multi_new */
" ", /*line_indent */
1, /*skip_first */
1, /*obj_hidefileno */
" "H5_PRINTF_HADDR_FMT, /*obj_format */
1, /*dset_hidefileno */
"DATASET %s ", /*dset_format */
"%s", /*dset_blockformat_pre */
"%s", /*dset_ptformat_pre */
"%s", /*dset_ptformat */
1, /*array indices */
1 /*escape non printable characters */
};
const h5tools_dump_header_t h5tools_standardformat = {
"standardformat", /*name */
"HDF5", /*fileebgin */
"", /*fileend */
SUPER_BLOCK, /*bootblockbegin */
"", /*bootblockend */
H5_TOOLS_GROUP, /*groupbegin */
"", /*groupend */
H5_TOOLS_DATASET, /*datasetbegin */
"", /*datasetend */
ATTRIBUTE, /*attributebegin */
"", /*attributeend */
H5_TOOLS_DATATYPE, /*datatypebegin */
"", /*datatypeend */
DATASPACE, /*dataspacebegin */
"", /*dataspaceend */
DATA, /*databegin */
"", /*dataend */
SOFTLINK, /*softlinkbegin */
"", /*softlinkend */
EXTLINK, /*extlinkbegin */
"", /*extlinkend */
UDLINK, /*udlinkbegin */
"", /*udlinkend */
SUBSET, /*subsettingbegin */
"", /*subsettingend */
START, /*startbegin */
"", /*startend */
STRIDE, /*stridebegin */
"", /*strideend */
COUNT, /*countbegin */
"", /*countend */
BLOCK, /*blockbegin */
"", /*blockend */
"{", /*fileblockbegin */
"}", /*fileblockend */
"{", /*bootblockblockbegin */
"}", /*bootblockblockend */
"{", /*groupblockbegin */
"}", /*groupblockend */
"{", /*datasetblockbegin */
"}", /*datasetblockend */
"{", /*attributeblockbegin */
"}", /*attributeblockend */
"", /*datatypeblockbegin */
"", /*datatypeblockend */
"", /*dataspaceblockbegin */
"", /*dataspaceblockend */
"{", /*datablockbegin */
"}", /*datablockend */
"{", /*softlinkblockbegin */
"}", /*softlinkblockend */
"{", /*extlinkblockbegin */
"}", /*extlinkblockend */
"{", /*udlinkblockbegin */
"}", /*udlinkblockend */
"{", /*strblockbegin */
"}", /*strblockend */
"{", /*enumblockbegin */
"}", /*enumblockend */
"{", /*structblockbegin */
"}", /*structblockend */
"{", /*vlenblockbegin */
"}", /*vlenblockend */
"{", /*subsettingblockbegin */
"}", /*subsettingblockend */
"(", /*startblockbegin */
");", /*startblockend */
"(", /*strideblockbegin */
");", /*strideblockend */
"(", /*countblockbegin */
");", /*countblockend */
"(", /*blockblockbegin */
");", /*blockblockend */
"", /*dataspacedescriptionbegin */
"", /*dataspacedescriptionend */
"(", /*dataspacedimbegin */
")", /*dataspacedimend */
"", /*virtualselectionbegin */
"", /*virtualselectionend */
"{", /*virtualselectionblockbegin */
"}", /*virtualselectionblockend */
"\"", /*virtualfilenamebeginbegin */
"\"", /*virtualfilenamebeginend */
"\"", /*virtualdatasetnamebegin */
"\"", /*virtualdtatasetnameend */
};
const h5tools_dump_header_t* h5tools_dump_header_format;
table_t *h5dump_type_table = NULL; /*type table reference for datatype dump */
/* local prototypes */
static int h5tools_print_region_data_blocks(hid_t region_id,
FILE *stream, const h5tool_format_t *info, h5tools_context_t *cur_ctx,
h5tools_str_t *buffer/*string into which to render */, size_t ncols,
unsigned ndims, hid_t type_id, hsize_t nblocks, hsize_t *ptdata);
hbool_t h5tools_dump_region_data_points(hid_t region_space, hid_t region_id,
FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx/*in,out*/,
h5tools_str_t *buffer/*string into which to render */,
hsize_t *curr_pos/*total data element position*/,
size_t ncols, hsize_t region_elmt_counter/*element counter*/,
hsize_t elmt_counter);
static int h5tools_print_region_data_points(hid_t region_space, hid_t region_id,
FILE *stream, const h5tool_format_t *info, h5tools_context_t *cur_ctx,
h5tools_str_t *buffer, size_t ncols,
unsigned ndims, hid_t type_id, hsize_t npoints, hsize_t *ptdata);
hbool_t h5tools_dump_region_data_blocks(hid_t region_space, hid_t region_id,
FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx/*in,out*/,
h5tools_str_t *buffer/*string into which to render */,
hsize_t *curr_pos/*total data element position*/,
size_t ncols, hsize_t region_elmt_counter/*element counter*/,
hsize_t elmt_counter);
void h5tools_print_dims(h5tools_str_t *buffer, hsize_t *s, int dims);
void h5tools_dump_subsetting_header(FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx, struct subset_t *sset, int dims);
static void h5tools_print_virtual_selection(hid_t vspace,
FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx/*in,out*/,
h5tools_str_t *buffer/*string into which to render */,
hsize_t *curr_pos/*total data element position*/,
size_t ncols);
void
h5tools_dump_init(void)
{
h5tools_dump_header_format = &h5tools_standardformat;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Prints NELMTS data elements to output STREAM.
* Description:
* Prints some (NELMTS) data elements to output STREAM. The elements are
* stored in _MEM as type TYPE and are printed according to the format
* described in INFO. The CTX struct contains context information shared
* between calls to this function. The FLAGS is a bit field that
* indicates whether the data supplied in this call falls at the
* beginning or end of the total data to be printed (START_OF_DATA and
* END_OF_DATA).
* Return: Success: SUCCEED
* Failure: FAIL
* Programmer:
* Robb Matzke, Monday, April 26, 1999
* Modifications:
* Robb Matzke, 1999-06-04
* The `container' argument is the optional dataset for reference types.
*
* Robb Matzke, 1999-09-29
* Understands the `per_line' property which indicates that every Nth
* element should begin a new line.
*
* Robb Matzke, LLNL, 2003-06-05
* Do not dereference the memory for a variable-length string here.
* Deref in h5tools_str_sprint() instead so recursive types are
* handled correctly.
*
* Pedro Vicente Nunes, The HDF Group, 2005-10-19
* pass to the prefix in h5tools_simple_prefix the total position
* instead of the current stripmine position i; this is necessary
* to print the array indices
* new field sm_pos in h5tools_context_t, the current stripmine element position
*-------------------------------------------------------------------------
*/
int
h5tools_dump_simple_data(FILE *stream, const h5tool_format_t *info, hid_t container,
h5tools_context_t *ctx/*in,out*/, unsigned flags,
hsize_t nelmts, hid_t type, void *_mem)
{
int ret_value = 0; /*no need to LEAVE() on ERROR: HERR_INIT(int, SUCCEED) */
unsigned char *mem = (unsigned char*) _mem;
hsize_t i; /*element counter */
size_t size; /*size of each datum */
hid_t region_space = -1;
hid_t region_id = -1;
hbool_t dimension_break = TRUE;
H5S_sel_type region_type;
size_t ncols = 80; /*available output width */
h5tools_str_t buffer; /*string into which to render */
hsize_t curr_pos = 0; /* total data element position */
hsize_t elmt_counter = 0;/*counts the # elements printed.
*I (ptl?) needed something that
*isn't going to get reset when a new
*line is formed. I'm going to use
*this var to count elements and
*break after we see a number equal
*to the ctx->size_last_dim. */
/* binary dump */
if (bin_output && (rawdatastream != NULL)) {
if (render_bin_output(rawdatastream, container, type, _mem, nelmts) < 0) {
PRINTVALSTREAM(rawoutstream, "\nError in writing binary stream\n");
}
} /* end if */
else {
/* setup */
HDmemset(&buffer, 0, sizeof(h5tools_str_t));
size = H5Tget_size(type);
if (info->line_ncols > 0)
ncols = info->line_ncols;
/* pass to the prefix in h5tools_simple_prefix the total position
* instead of the current stripmine position i; this is necessary
* to print the array indices
*/
curr_pos = ctx->sm_pos;
if (region_output && (size == H5R_DSET_REG_REF_BUF_SIZE)) {
for (i = 0; i < nelmts; i++, ctx->cur_elmt++, elmt_counter++) {
void* memref = mem + i * size;
char ref_name[1024];
/* region data */
region_id = H5Rdereference2(container, H5P_DEFAULT, H5R_DATASET_REGION, memref);
if (region_id >= 0) {
region_space = H5Rget_region(container, H5R_DATASET_REGION, memref);
if (region_space >= 0) {
if (h5tools_is_zero(memref, H5Tget_size(type))) {
ctx->need_prefix = TRUE;
h5tools_simple_prefix(rawoutstream, info, ctx, curr_pos, 0);
/* Render the region element begin */
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "NULL");
dimension_break = h5tools_render_element(rawoutstream, info,
ctx, &buffer, &curr_pos, ncols, i, elmt_counter);
}
else {
if(H5Rget_name(region_id, H5R_DATASET_REGION, memref, (char*) ref_name, (size_t)1024)<0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Rget_name failed");
ctx->need_prefix = TRUE;
h5tools_simple_prefix(rawoutstream, info, ctx, curr_pos+i, 0);
/* Render the region element begin */
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, info->dset_format, ref_name);
dimension_break = h5tools_render_element(rawoutstream, info,
ctx, &buffer, &curr_pos, ncols, i, elmt_counter);
region_type = H5Sget_select_type(region_space);
if(region_type == H5S_SEL_POINTS)
/* Print point information */
dimension_break = h5tools_dump_region_data_points(
region_space, region_id, rawoutstream, info, ctx,
&buffer, &curr_pos, ncols, i, elmt_counter);
else if(region_type == H5S_SEL_HYPERSLABS)
/* Print block information */
dimension_break = h5tools_dump_region_data_blocks(
region_space, region_id, rawoutstream, info, ctx,
&buffer, &curr_pos, ncols, i, elmt_counter);
else
HERROR(H5E_tools_g, H5E_tools_min_id_g, "invalid region type");
/* Render the region element end */
} /* end else to if (h5tools_is_zero(... */
if(H5Sclose(region_space) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Sclose failed");
} /* end if (region_space >= 0) */
else
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Rget_region failed");
if(H5Dclose(region_id) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Dclose failed");
} /* if (region_id >= 0) */
else {
/* if (region_id < 0) - could mean that no reference was written do not throw failure */
H5Epush2(H5tools_ERR_STACK_g, __FILE__, FUNC, __LINE__, H5tools_ERR_CLS_g, H5E_tools_g, H5E_tools_min_id_g, "H5Rdereference failed");
}
ctx->need_prefix = TRUE;
if(FALSE == dimension_break)
elmt_counter = 0;
} /* end for (i = 0; i < nelmts... */
} /* end if (region_output... */
else {
for (i = 0; i < nelmts; i++, ctx->cur_elmt++, elmt_counter++) {
void* memref = mem + i * size;
/* Render the data element begin*/
h5tools_str_reset(&buffer);
h5tools_str_sprint(&buffer, info, container, type, memref, ctx);
if (i + 1 < nelmts || (flags & END_OF_DATA) == 0)
h5tools_str_append(&buffer, "%s", OPT(info->elmt_suf1, ","));
dimension_break = h5tools_render_element(stream, info, ctx, &buffer,
&curr_pos, ncols, i, elmt_counter);
/* Render the data element end*/
if(FALSE == dimension_break)
elmt_counter = 0;
} /* end for (i = 0; i < nelmts... */
}
h5tools_str_close(&buffer);
}/* else bin */
return ret_value;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Print the data values from a dataset referenced by region blocks.
*
* Description:
* This is a special case subfunction to print the data in a region reference of type blocks.
*
* Return:
* The function returns FAIL if there was an error, otherwise SUCEED
*
* Parameters Description:
* h5tools_str_t *buffer is the string into which to render
* size_t ncols
* int ndims is the number of dimensions of the region element
* hssize_t nblocks is the number of blocks in the region
*-------------------------------------------------------------------------
*/
static int
h5tools_print_region_data_blocks(hid_t region_id,
FILE *stream, const h5tool_format_t *info, h5tools_context_t *cur_ctx,
h5tools_str_t *buffer/*string into which to render */, size_t ncols,
unsigned ndims, hid_t type_id, hsize_t nblocks, hsize_t *ptdata)
{
hbool_t dimension_break = TRUE;
hsize_t *dims1 = NULL;
hsize_t *start = NULL;
hsize_t *count = NULL;
hsize_t blkndx;
hsize_t total_size[H5S_MAX_RANK];
hsize_t elmtno; /* elemnt index */
hsize_t curr_pos = 0;
unsigned int region_flags; /* buffer extent flags */
hsize_t numelem;
hsize_t numindex;
unsigned indx;
unsigned jndx;
size_t type_size;
int ret_value = SUCCEED;
hid_t mem_space = -1;
hid_t sid1 = -1;
h5tools_context_t ctx;
void *region_buf = NULL;
HDassert(info);
HDassert(cur_ctx);
HDassert(buffer);
HDassert(ptdata);
HDmemset(&ctx, 0, sizeof(ctx));
/* Get the dataspace of the dataset */
if((sid1 = H5Dget_space(region_id)) < 0)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Dget_space failed");
/* Allocate space for the dimension array */
if((dims1 = (hsize_t *) HDmalloc((size_t)(sizeof(hsize_t) * ndims))) == NULL)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "Could not allocate buffer for dims");
/* find the dimensions of each data space from the block coordinates */
numelem = 1;
for (jndx = 0; jndx < ndims; jndx++) {
dims1[jndx] = ptdata[jndx + ndims] - ptdata[jndx] + 1;
numelem = dims1[jndx] * numelem;
}
/* Create dataspace for reading buffer */
if((mem_space = H5Screate_simple((int)ndims, dims1, NULL)) < 0)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Screate_simple failed");
if((type_size = H5Tget_size(type_id)) == 0)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Tget_size failed");
if((region_buf = HDmalloc(type_size * (size_t)numelem)) == NULL)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "Could not allocate region buffer");
/* Select (x , x , ..., x ) x (y , y , ..., y ) hyperslab for reading memory dataset */
/* 1 2 n 1 2 n */
if((start = (hsize_t *) HDmalloc(sizeof(hsize_t) * ndims)) == NULL)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "Could not allocate buffer for start");
if((count = (hsize_t *) HDmalloc(sizeof(hsize_t) * ndims)) == NULL)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "Could not allocate buffer for count");
curr_pos = 0;
ctx.indent_level = cur_ctx->indent_level;
ctx.cur_column = cur_ctx->cur_column;
ctx.prev_multiline = cur_ctx->prev_multiline;
ctx.ndims = ndims;
for (blkndx = 0; blkndx < nblocks; blkndx++) {
ctx.need_prefix = TRUE;
ctx.cur_elmt = 0;
for (indx = 0; indx < ndims; indx++) {
start[indx] = ptdata[indx + blkndx * ndims * 2];
count[indx] = dims1[indx];
}
if(H5Sselect_hyperslab(sid1, H5S_SELECT_SET, start, NULL, count, NULL) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Sselect_hyperslab failed");
if(H5Dread(region_id, type_id, mem_space, sid1, H5P_DEFAULT, region_buf) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Dread failed");
ctx.indent_level++;
if(H5Sget_simple_extent_dims(mem_space, total_size, NULL) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Sget_simple_extent_dims failed");
/* assume entire data space to be printed */
for (indx = 0; indx < (unsigned)ctx.ndims; indx++)
ctx.p_min_idx[indx] = start[indx];
init_acc_pos(&ctx, total_size);
/* print the data */
region_flags = START_OF_DATA;
if (blkndx == nblocks - 1)
region_flags |= END_OF_DATA;
for (indx = 0; indx < (unsigned)ctx.ndims; indx++)
ctx.p_max_idx[indx] = dims1[indx];
curr_pos = 0;
ctx.sm_pos = blkndx * 2 * ndims;
ctx.size_last_dim = dims1[ndims-1];
h5tools_region_simple_prefix(stream, info, &ctx, curr_pos, ptdata, 0);
elmtno = 0;
for (numindex = 0; numindex < numelem; numindex++, elmtno++, ctx.cur_elmt++) {
/* Render the region data element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s", numindex ? OPTIONAL_LINE_BREAK "" : "");
h5tools_str_sprint(buffer, info, region_id, type_id,
((char*)region_buf + numindex * type_size), &ctx);
if (numindex + 1 < numelem || (region_flags & END_OF_DATA) == 0)
h5tools_str_append(buffer, "%s", OPT(info->elmt_suf1, ","));
dimension_break = h5tools_render_region_element(stream, info, &ctx, buffer, &curr_pos,
ncols, ptdata, numindex, elmtno);
/* Render the region data element end */
if(FALSE == dimension_break)
elmtno = 0;
} /* end for (numindex = 0; numindex < numelem; numindex++, elmtno++, ctx.cur_elmt++) */
ctx.indent_level--;
} /* end for (blkndx = 0; blkndx < nblocks; blkndx++) */
done:
HDfree(start);
HDfree(count);
HDfree(region_buf);
HDfree(dims1);
if(H5Sclose(mem_space) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Sclose failed");
if(H5Sclose(sid1) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Sclose failed");
return ret_value;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Print some values from a dataset referenced by region blocks.
*
* Description:
* This is a special case subfunction to dump a region reference using blocks.
*
* Return:
* The function returns False if the last dimension has been reached, otherwise True
*
* In/Out:
* h5tools_context_t *ctx
* hsize_t *curr_pos
*
* Parameters Description:
* h5tools_str_t *buffer is the string into which to render
* hsize_t curr_pos is the total data element position
* size_t ncols
* hsize_t region_elmt_counter is the region element loop counter
* hsize_t elmt_count is the data element loop counter
*-------------------------------------------------------------------------
*/
hbool_t
h5tools_dump_region_data_blocks(hid_t region_space, hid_t region_id,
FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx/*in,out*/,
h5tools_str_t *buffer/*string into which to render */,
hsize_t *curr_pos/*total data element position*/,
size_t ncols, hsize_t region_elmt_counter/*element counter*/,
hsize_t elmt_counter)
{
HERR_INIT(hbool_t, TRUE)
hbool_t dimension_break = TRUE;
hssize_t snblocks;
hsize_t nblocks;
hsize_t alloc_size;
hsize_t *ptdata = NULL;
int sndims;
unsigned ndims;
hid_t dtype = -1;
hid_t type_id = -1;
hsize_t u;
HDassert(info);
HDassert(ctx);
HDassert(buffer);
if((snblocks = H5Sget_select_hyper_nblocks(region_space)) <= 0)
H5E_THROW(dimension_break, H5E_tools_min_id_g, "H5Sget_select_hyper_nblocks failed");
nblocks = (hsize_t)snblocks;
/* Print block information */
if((sndims = H5Sget_simple_extent_ndims(region_space)) < 0)
H5E_THROW(dimension_break, H5E_tools_min_id_g, "H5Sget_simple_extent_ndims failed");
ndims = (unsigned)sndims;
/* Render the region { element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "{");
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos, ncols, region_elmt_counter, elmt_counter);
/* Render the region { element end */
ctx->indent_level++;
ctx->need_prefix = TRUE;
/* Render the region datatype info and indices element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "REGION_TYPE BLOCK ");
alloc_size = nblocks * ndims * 2 * sizeof(ptdata[0]);
HDassert(alloc_size == (hsize_t) ((size_t) alloc_size)); /*check for overflow*/
if((ptdata = (hsize_t*) HDmalloc((size_t) alloc_size)) == NULL)
{
HERROR(H5E_tools_g, H5E_tools_min_id_g, "Could not allocate buffer for ptdata");
HGOTO_DONE(dimension_break);
}
if(H5Sget_select_hyper_blocklist(region_space, (hsize_t)0, nblocks, ptdata) < 0)
HGOTO_ERROR(dimension_break, H5E_tools_min_id_g, "H5Rget_select_hyper_blocklist failed");
for(u = 0; u < nblocks; u++) {
unsigned v;
h5tools_str_append(buffer, info->dset_blockformat_pre,
u ? "," OPTIONAL_LINE_BREAK " " : "", (unsigned long)u);
/* Start coordinates and opposite corner */
for (v = 0; v < ndims; v++)
h5tools_str_append(buffer, "%s" HSIZE_T_FORMAT, v ? "," : "(",
ptdata[u * 2 * ndims + v]);
for (v = 0; v < ndims; v++)
h5tools_str_append(buffer, "%s" HSIZE_T_FORMAT, v ? "," : ")-(",
ptdata[u * 2 * ndims + v + ndims]);
h5tools_str_append(buffer, ")");
} /* end for (u = 0; u < nblocks; u++) */
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos, ncols, region_elmt_counter, elmt_counter);
/* Render the region datatype info and indices element end */
ctx->need_prefix = TRUE;
if((dtype = H5Dget_type(region_id)) < 0)
HGOTO_ERROR(dimension_break, H5E_tools_min_id_g, "H5Dget_type failed");
if((type_id = H5Tget_native_type(dtype, H5T_DIR_DEFAULT)) < 0)
HGOTO_ERROR(dimension_break, H5E_tools_min_id_g, "H5Tget_native_type failed");
/* Render the datatype element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s %s ",
h5tools_dump_header_format->datatypebegin,
h5tools_dump_header_format->datatypeblockbegin);
ctx->indent_level++;
h5tools_print_datatype(stream, buffer, info, ctx, dtype, TRUE);
ctx->indent_level--;
if (HDstrlen(h5tools_dump_header_format->datatypeblockend)) {
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->datatypeblockend);
if (HDstrlen(h5tools_dump_header_format->datatypeend))
h5tools_str_append(buffer, " ");
}
if (HDstrlen(h5tools_dump_header_format->datatypeend))
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->datatypeend);
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos, ncols, region_elmt_counter, elmt_counter);
/* Render the datatype element end */
ctx->need_prefix = TRUE;
/* Render the dataspace element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s ", h5tools_dump_header_format->dataspacebegin);
h5tools_print_dataspace(buffer, region_space);
if (HDstrlen(h5tools_dump_header_format->dataspaceblockend)) {
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->dataspaceblockend);
if (HDstrlen(h5tools_dump_header_format->dataspaceend))
h5tools_str_append(buffer, " ");
}
if (HDstrlen(h5tools_dump_header_format->dataspaceend))
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->dataspaceblockend);
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos, ncols, region_elmt_counter, elmt_counter);
/* Render the dataspace element end */
ctx->need_prefix = TRUE;
/* Render the databegin element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s %s ",
h5tools_dump_header_format->databegin,
h5tools_dump_header_format->datablockbegin);
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos, ncols, region_elmt_counter, elmt_counter);
/* Render the databegin element end */
ctx->need_prefix = TRUE;
h5tools_print_region_data_blocks(region_id, rawdatastream, info, ctx,
buffer, ncols, ndims, type_id, nblocks, ptdata);
done:
HDfree(ptdata);
if(H5Tclose(type_id) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tclose failed");
if(H5Tclose(dtype) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tclose failed");
ctx->need_prefix = TRUE;
/* Render the dataend element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s %s ",
h5tools_dump_header_format->dataend,
h5tools_dump_header_format->datablockend);
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos,
ncols, region_elmt_counter, elmt_counter);
/* Render the dataend element end */
ctx->indent_level--;
ctx->need_prefix = TRUE;
/* Render the region } element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "}");
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos,
ncols, region_elmt_counter, elmt_counter);
/* Render the region } element end */
H5_LEAVE(dimension_break)
CATCH
return ret_value;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Print the data values from a dataset referenced by region points.
*
* Description:
* This is a special case subfunction to print the data in a region reference of type points.
*
* Return:
* The function returns FAIL on error, otherwise SUCCEED
*
* Parameters Description:
* h5tools_str_t *buffer is the string into which to render
* size_t ncols
* int ndims is the number of dimensions of the region element
* hssize_t npoints is the number of points in the region
*-------------------------------------------------------------------------
*/
static int
h5tools_print_region_data_points(hid_t region_space, hid_t region_id,
FILE *stream, const h5tool_format_t *info, h5tools_context_t *cur_ctx,
h5tools_str_t *buffer, size_t ncols,
unsigned ndims, hid_t type_id, hsize_t npoints, hsize_t *ptdata)
{
hbool_t dimension_break = TRUE;
hsize_t *dims1 = NULL;
hsize_t elmtno; /* elemnt index */
hsize_t curr_pos = 0;
hsize_t total_size[H5S_MAX_RANK];
hsize_t jndx;
unsigned indx;
size_t type_size;
int ret_value = SUCCEED;
unsigned int region_flags; /* buffer extent flags */
hid_t mem_space = -1;
void *region_buf = NULL;
h5tools_context_t ctx;
HDassert(info);
HDassert(cur_ctx);
HDassert(buffer);
HDassert(ptdata);
HDassert(ndims > 0);
HDmemset(&ctx, 0, sizeof(ctx));
/* Allocate space for the dimension array */
if((dims1 = (hsize_t *) HDmalloc(sizeof(hsize_t) * ndims)) == NULL)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "Could not allocate buffer for dims");
dims1[0] = npoints;
/* Create dataspace for reading buffer */
if((mem_space = H5Screate_simple(1, dims1, NULL)) < 0)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Screate_simple failed");
if((type_size = H5Tget_size(type_id)) == 0)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Tget_size failed");
if((region_buf = HDmalloc(type_size * (size_t)npoints)) == NULL)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "Could not allocate buffer for region");
curr_pos = 0;
ctx.indent_level = cur_ctx->indent_level;
ctx.cur_column = cur_ctx->cur_column;
ctx.prev_multiline = cur_ctx->prev_multiline;
ctx.ndims = ndims;
if(H5Dread(region_id, type_id, mem_space, region_space, H5P_DEFAULT, region_buf) < 0)
HGOTO_ERROR(FAIL, H5E_tools_min_id_g, "H5Dread failed");
elmtno = 0;
for (jndx = 0; jndx < npoints; jndx++, elmtno++) {
ctx.need_prefix = TRUE;
ctx.cur_elmt = 0; /* points are always 0 */
ctx.indent_level++;
if(H5Sget_simple_extent_dims(mem_space, total_size, NULL) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Sget_simple_extent_dims failed");
/* assume entire data space to be printed */
for (indx = 0; indx < ctx.ndims; indx++)
ctx.p_min_idx[indx] = 0;
init_acc_pos(&ctx, total_size);
/* print the data */
region_flags = START_OF_DATA;
if (jndx == npoints - 1)
region_flags |= END_OF_DATA;
for (indx = 0; indx < ctx.ndims; indx++)
ctx.p_max_idx[indx] = cur_ctx->p_max_idx[indx];
ctx.sm_pos = jndx * ndims;
if (ctx.ndims > 0)
ctx.size_last_dim = ctx.p_max_idx[ctx.ndims - 1];
else
ctx.size_last_dim = 0;
curr_pos = 0; /* points requires constant 0 */
h5tools_region_simple_prefix(stream, info, &ctx, curr_pos, ptdata, 0);
/* Render the point element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s", jndx ? OPTIONAL_LINE_BREAK "" : "");
h5tools_str_sprint(buffer, info, region_id, type_id,
((char*)region_buf + jndx * type_size), &ctx);
if (jndx + 1 < npoints || (region_flags & END_OF_DATA) == 0)
h5tools_str_append(buffer, "%s", OPT(info->elmt_suf1, ","));
dimension_break = h5tools_render_region_element(stream, info, &ctx, buffer, &curr_pos,
ncols, ptdata, (hsize_t)0, elmtno);
/* Render the point element end */
if(FALSE == dimension_break)
elmtno = 0;
ctx.indent_level--;
} /* end for (jndx = 0; jndx < npoints; jndx++, elmtno++) */
done:
HDfree(region_buf);
HDfree(dims1);
if(H5Sclose(mem_space) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Sclose failed");
return ret_value;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Print some values from a dataset referenced by region points.
*
* Description:
* This is a special case subfunction to dump a region reference using points.
*
* Return:
* The function returns False if the last dimension has been reached, otherwise True
*
* In/Out:
* h5tools_context_t *ctx
* hsize_t *curr_pos
*
* Parameters Description:
* h5tools_str_t *buffer is the string into which to render
* hsize_t curr_pos is the total data element position
* size_t ncols
* hsize_t region_elmt_counter is the region element loop counter
* hsize_t elmt_count is the data element loop counter
*-------------------------------------------------------------------------
*/
hbool_t
h5tools_dump_region_data_points(hid_t region_space, hid_t region_id,
FILE *stream, const h5tool_format_t *info, h5tools_context_t *ctx,
h5tools_str_t *buffer, hsize_t *curr_pos, size_t ncols, hsize_t region_elmt_counter,
hsize_t elmt_counter) {
HERR_INIT(hbool_t, TRUE)
hbool_t dimension_break = TRUE;
hssize_t snpoints;
hsize_t npoints;
hsize_t alloc_size;
hsize_t *ptdata;
int sndims;
unsigned ndims;
hsize_t indx;
hid_t dtype = -1;
hid_t type_id = -1;
HDassert(info);
HDassert(ctx);
HDassert(buffer);
if((snpoints = H5Sget_select_elem_npoints(region_space)) <= 0)
H5E_THROW(dimension_break, H5E_tools_min_id_g, "H5Sget_select_elem_npoints failed");
npoints = (hsize_t)snpoints;
/* Allocate space for the dimension array */
if((sndims = H5Sget_simple_extent_ndims(region_space)) < 0)
H5E_THROW(dimension_break, H5E_tools_min_id_g, "H5Sget_simple_extent_ndims failed");
ndims = (unsigned)sndims;
/* Render the region { element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "{");
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos, ncols, region_elmt_counter, elmt_counter);
/* Render the region { element end */
/* Render the region datatype info and indices element begin */
h5tools_str_reset(buffer);
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_str_append(buffer, "REGION_TYPE POINT ");
alloc_size = npoints * ndims * sizeof(ptdata[0]);
HDassert(alloc_size == (hsize_t) ((size_t) alloc_size)); /*check for overflow*/
if(NULL == (ptdata = (hsize_t *)HDmalloc((size_t) alloc_size)))
HGOTO_ERROR(dimension_break, H5E_tools_min_id_g, "Could not allocate buffer for ptdata");
if(H5Sget_select_elem_pointlist(region_space, (hsize_t) 0, npoints, ptdata) < 0)
HGOTO_ERROR(dimension_break, H5E_tools_min_id_g, "H5Sget_select_elem_pointlist failed");
for (indx = 0; indx < npoints; indx++) {
unsigned loop_indx;
h5tools_str_append(buffer, info->dset_ptformat_pre,
indx ? "," OPTIONAL_LINE_BREAK " " : "", (unsigned long) indx);
for (loop_indx = 0; loop_indx < ndims; loop_indx++)
h5tools_str_append(buffer, "%s" HSIZE_T_FORMAT, loop_indx ? "," : "(",
ptdata[indx * ndims + loop_indx]);
h5tools_str_append(buffer, ")");
} /* end for (indx = 0; indx < npoints; indx++) */
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos, ncols, region_elmt_counter, elmt_counter);
/* Render the region datatype info and indices element end */
ctx->need_prefix = TRUE;
if((dtype = H5Dget_type(region_id)) < 0)
HGOTO_ERROR(dimension_break, H5E_tools_min_id_g, "H5Dget_type failed");
if((type_id = H5Tget_native_type(dtype, H5T_DIR_DEFAULT)) < 0)
HGOTO_ERROR(dimension_break, H5E_tools_min_id_g, "H5Tget_native_type failed");
/* Render the datatype element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s %s ",
h5tools_dump_header_format->datatypebegin,
h5tools_dump_header_format->datatypeblockbegin);
ctx->indent_level++;
h5tools_print_datatype(stream, buffer, info, ctx, dtype, TRUE);
ctx->indent_level--;
if (HDstrlen(h5tools_dump_header_format->datatypeblockend)) {
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->datatypeblockend);
if (HDstrlen(h5tools_dump_header_format->datatypeend))
h5tools_str_append(buffer, " ");
}
if (HDstrlen(h5tools_dump_header_format->datatypeend))
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->datatypeend);
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos, ncols, region_elmt_counter, elmt_counter);
/* Render the datatype element end */
ctx->need_prefix = TRUE;
/* Render the dataspace element begin */
h5tools_str_reset(buffer);
ctx->need_prefix = TRUE;
h5tools_str_append(buffer, "%s ", h5tools_dump_header_format->dataspacebegin);
h5tools_print_dataspace(buffer, region_space);
if (HDstrlen(h5tools_dump_header_format->dataspaceblockend)) {
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->dataspaceblockend);
if (HDstrlen(h5tools_dump_header_format->dataspaceend))
h5tools_str_append(buffer, " ");
}
if (HDstrlen(h5tools_dump_header_format->dataspaceend))
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->dataspaceblockend);
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos, ncols, region_elmt_counter, elmt_counter);
/* Render the dataspace element end */
ctx->need_prefix = TRUE;
/* Render the databegin element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s %s ",
h5tools_dump_header_format->databegin,
h5tools_dump_header_format->datablockbegin);
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos, ncols, region_elmt_counter, elmt_counter);
ctx->need_prefix = TRUE;
h5tools_print_region_data_points(region_space, region_id,
rawdatastream, info, ctx, buffer, ncols, ndims, type_id, npoints, ptdata);
done:
HDfree(ptdata);
if(type_id > 0 && H5Tclose(type_id) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tclose failed");
if(dtype > 0 && H5Tclose(dtype) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tclose failed");
ctx->need_prefix = TRUE;
/* Render the dataend element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s %s ",
h5tools_dump_header_format->dataend,
h5tools_dump_header_format->datablockend);
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos,
ncols, region_elmt_counter, elmt_counter);
/* Render the dataend element end*/
ctx->indent_level--;
ctx->need_prefix = TRUE;
/* Render the region } element begin */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "}");
dimension_break = h5tools_render_element(stream, info, ctx, buffer, curr_pos,
ncols, region_elmt_counter, elmt_counter);
/* Render the region } element end */
H5_LEAVE(dimension_break)
CATCH
return ret_value;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: print out the data for a subset of a dataset.
* Description:
*
* Select a hyperslab from the dataset DSET using the parameters
* specified in SSET. Dump this out to STREAM.
*
* Hyperslabs select "count" blocks of size "block", spaced "stride" elements
* from each other, starting at coordinate "start".
*
* Return:
* On success, return SUCCEED. Otherwise, the function returns FAIL.
*
* Algorithm
*
* The parameters from SSET are translated into temporary
* variables so that 1 row is printed at a time (getting the coordinate indices
* at each row).
* We define the stride, count and block to be 1 in the row dimension to achieve
* this and advance until all points are printed.
*
* The element position is obtained from the matrix according to:
* Given an index I(z,y,x) its position from the beginning of an array
* of sizes A(size_z, size_y,size_x) is given by
* Position of I(z,y,x) = index_z * size_y * size_x
* + index_y * size_x
* + index_x
*
*-------------------------------------------------------------------------
*/
static herr_t
h5tools_print_simple_subset(FILE *stream, const h5tool_format_t *info, h5tools_context_t *ctx,
hid_t dset, hid_t p_type, struct subset_t *sset,
hid_t f_space, hsize_t hyperslab_count,
hsize_t *temp_start,/* start inside offset count loop */
hsize_t *temp_count,/* count inside offset count loop */
hsize_t *temp_block,/* block size used in loop */
hsize_t *temp_stride,/* stride size used in loop */
hsize_t *total_size,/* total size of dataset */
unsigned int row_dim/* index of row_counter dimension */)
{
HERR_INIT(herr_t, SUCCEED)
size_t i; /* counters */
size_t j; /* counters */
hsize_t zero[1] = {0}; /* vector of zeros */
unsigned int flags; /* buffer extent flags */
hsize_t elmtno; /* elemnt index */
hsize_t low[H5S_MAX_RANK]; /* low bound of hyperslab */
hsize_t high[H5S_MAX_RANK]; /* higher bound of hyperslab */
size_t p_type_nbytes; /* size of memory type */
hsize_t sm_size[H5S_MAX_RANK]; /* stripmine size */
hsize_t sm_nbytes; /* bytes per stripmine */
hssize_t ssm_nelmts; /* elements per stripmine*/
hsize_t sm_nelmts; /* elements per stripmine*/
unsigned char *sm_buf = NULL; /* buffer for raw data */
hid_t sm_space = -1; /* stripmine data space */
hsize_t size_row_block; /* size for blocks along rows */
hsize_t row_counter = 0;
/* VL data special information */
unsigned int vl_data = 0; /* contains VL datatypes */
if ((size_t) ctx->ndims > NELMTS(sm_size))
H5E_THROW(FAIL, H5E_tools_min_id_g, "ndims and sm_size comparision failed");
if (ctx->ndims > 0)
init_acc_pos(ctx, total_size);
size_row_block = sset->block.data[row_dim];
/* Check if we have VL data in the dataset's datatype */
if (h5tools_detect_vlen(p_type) == TRUE)
vl_data = TRUE;
/* display loop */
for (; hyperslab_count > 0; temp_start[row_dim] += temp_stride[row_dim], hyperslab_count--) {
/* jump rows if size of block exceeded
cases where block > 1 only and stride > block */
if (size_row_block > 1
&& row_counter == size_row_block
&& sset->stride.data[row_dim] > sset->block.data[row_dim]) {
hsize_t increase_rows = sset->stride.data[row_dim] - sset->block.data[row_dim];
temp_start[row_dim] += increase_rows;
row_counter = 0;
}
row_counter++;
/* calculate the potential number of elements we're going to print */
if(H5Sselect_hyperslab(f_space, H5S_SELECT_SET, temp_start, temp_stride, temp_count, temp_block) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sselect_hyperslab failed");
if((ssm_nelmts = H5Sget_select_npoints(f_space)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sget_select_npoints failed");
sm_nelmts = (hsize_t)ssm_nelmts;
if (sm_nelmts > 0) {
/*
* determine the strip mine size and allocate a buffer. the strip mine is
* a hyperslab whose size is manageable.
*/
if((sm_nbytes = p_type_nbytes = H5Tget_size(p_type)) == 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tget_size failed");
if (ctx->ndims > 0)
for (i = ctx->ndims; i > 0; --i) {
hsize_t size = H5TOOLS_BUFSIZE / sm_nbytes;
if (size == 0) /* datum size > H5TOOLS_BUFSIZE */
size = 1;
sm_size[i - 1] = MIN(total_size[i - 1], size);
sm_nbytes *= sm_size[i - 1];
HDassert(sm_nbytes > 0);
}
HDassert(sm_nbytes == (hsize_t) ((size_t) sm_nbytes)); /*check for overflow*/
if(NULL == (sm_buf = (unsigned char *)HDmalloc((size_t) sm_nelmts * p_type_nbytes)))
H5E_THROW(FAIL, H5E_tools_min_id_g, "Could not allocate buffer for strip-mine");
if((sm_space = H5Screate_simple(1, &sm_nelmts, NULL)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Screate_simple failed");
if(H5Sselect_hyperslab(sm_space, H5S_SELECT_SET, zero, NULL, &sm_nelmts, NULL) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sselect_hyperslab failed");
/* read the data */
if(H5Dread(dset, p_type, sm_space, f_space, H5P_DEFAULT, sm_buf) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Dread failed");
/* print the data */
flags = START_OF_DATA;
if (hyperslab_count == 1)
flags |= END_OF_DATA;
for (i = 0; i < ctx->ndims; i++)
ctx->p_max_idx[i] = ctx->p_min_idx[i] + MIN(total_size[i], sm_size[i]);
/* print array indices. get the lower bound of the hyperslab and calulate
the element position at the start of hyperslab */
if(H5Sget_select_bounds(f_space, low, high) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sget_select_bounds failed");
elmtno = 0;
for (i = 0; i < (size_t) ctx->ndims - 1; i++) {
hsize_t offset = 1; /* accumulation of the previous dimensions */
for (j = i + 1; j < (size_t) ctx->ndims; j++)
offset *= total_size[j];
elmtno += low[i] * offset;
}
elmtno += low[ctx->ndims - 1];
/* initialize the current stripmine position; this is necessary to print the array
indices */
ctx->sm_pos = elmtno;
ctx->need_prefix = TRUE;
if(h5tools_dump_simple_data(stream, info, dset, ctx, flags, sm_nelmts, p_type, sm_buf) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "h5tools_dump_simple_data failed");
/* Reclaim any VL memory, if necessary */
if (vl_data)
H5Dvlen_reclaim(p_type, sm_space, H5P_DEFAULT, sm_buf);
if(H5Sclose(sm_space) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sclose failed");
if(sm_buf)
HDfree(sm_buf);
sm_buf = NULL;
}
else
H5E_THROW(SUCCEED, H5E_tools_min_id_g, "nothing to print");
ctx->continuation++;
} /* hyperslab_count loop */
CATCH
if(sm_buf)
HDfree(sm_buf);
return ret_value;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: print out the data for a subset of a dataset.
* Description:
*
* Select a hyperslab from the dataset DSET using the parameters
* specified in SSET. Dump this out to STREAM.
*
* Hyperslabs select "count" blocks of size "block", spaced "stride" elements
* from each other, starting at coordinate "start".
*
* Return:
* On success, return SUCCEED. Otherwise, the function returns FAIL.
*
* Algorithm
*
* The parameters from SSET are translated into temporary
* variables so that 1 row is printed at a time (getting the coordinate indices
* at each row).
* We define the stride, count and block to be 1 in the row dimension to achieve
* this and advance until all points are printed.
*
* The element position is obtained from the matrix according to:
* Given an index I(z,y,x) its position from the beginning of an array
* of sizes A(size_z, size_y,size_x) is given by
* Position of I(z,y,x) = index_z * size_y * size_x
* + index_y * size_x
* + index_x
*
*-------------------------------------------------------------------------
*/
static herr_t
h5tools_display_simple_subset(FILE *stream, const h5tool_format_t *info, h5tools_context_t *ctx,
hid_t dset, hid_t p_type, struct subset_t *sset,
hid_t f_space, hsize_t *total_size)
{
size_t i; /* counters */
hsize_t n; /* counters */
hsize_t count; /* hyperslab count */
hsize_t outer_count; /* offset count */
unsigned int row_dim; /* index of row_counter dimension */
int current_outer_dim; /* dimension for start */
hsize_t temp_start[H5S_MAX_RANK];/* temporary start inside offset count loop */
hsize_t max_start[H5S_MAX_RANK]; /* maximum start inside offset count loop */
hsize_t temp_count[H5S_MAX_RANK];/* temporary count inside offset count loop */
hsize_t temp_block[H5S_MAX_RANK];/* temporary block size used in loop */
hsize_t temp_stride[H5S_MAX_RANK];/* temporary stride size used in loop */
int reset_dim;
herr_t ret_value = SUCCEED;
if (ctx->ndims == 1)
row_dim = 0;
else
row_dim = ctx->ndims - 2;
/* get the offset count */
outer_count = 1;
if (ctx->ndims > 2)
for (i = 0; i < (size_t) ctx->ndims - 2; i++) {
/* block size is handled by containing h5tools_print_simple_subset call */
outer_count = outer_count * sset->count.data[i];
}
/* initialize temporary start, count and maximum start */
for (i = 0; i < ctx->ndims; i++) {
temp_start[i] = sset->start.data[i];
temp_count[i] = sset->count.data[i];
temp_block[i] = sset->block.data[i];
temp_stride[i] = sset->stride.data[i];
max_start[i] = 0;
}
if (ctx->ndims > 2) {
for (i = 0; i < (size_t) ctx->ndims - 2; i++) {
max_start[i] = temp_start[i] + sset->count.data[i] * sset->stride.data[i];
temp_count[i] = 1;
}
}
/* offset loop */
for (n = 0; n < outer_count; n++) {
/* number of read iterations in inner loop, read by rows, to match 2D display */
if (ctx->ndims > 1) {
/* count is the number of iterations to display all the rows,
the block size count times */
count = sset->count.data[row_dim] * sset->block.data[row_dim];
/* always 1 row_counter at a time, that is a block of size 1, 1 time */
temp_count[row_dim] = 1;
temp_block[row_dim] = 1;
/* advance 1 row_counter at a time */
if (sset->block.data[row_dim] > 1)
temp_stride[row_dim] = 1;
}
/* for the 1D case */
else {
count = 1;
}
h5tools_print_simple_subset(stream, info, ctx, dset, p_type, sset,
f_space, count, temp_start, temp_count,
temp_block, temp_stride, total_size, row_dim);
if (ctx->ndims > 2) {
/* dimension for start */
current_outer_dim = (int)(ctx->ndims - 2) - 1;
/* set start to original from current_outer_dim up */
for (i = (size_t)(current_outer_dim + 1); i < ctx->ndims; i++)
temp_start[i] = sset->start.data[i];
/* increment start dimension */
do {
reset_dim = 0;
temp_start[current_outer_dim] += sset->stride.data[current_outer_dim];
if (temp_start[current_outer_dim] >= max_start[current_outer_dim]) {
temp_start[current_outer_dim] = sset->start.data[current_outer_dim];
current_outer_dim--;
reset_dim = 1;
}
} while (current_outer_dim >= 0 && reset_dim);
} /* ctx.ndims > 1 */
} /* outer_count */
return ret_value;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Dump out a subset of a dataset.
* Description:
*
* Select a hyperslab from the dataset DSET using the parameters
* specified in SSET. Dump this out to STREAM.
*
* Hyperslabs select "count" blocks of size "block", spaced "stride" elements
* from each other, starting at coordinate "start".
*
* Return:
* On success, return SUCCEED. Otherwise, the function returns FAIL.
*
* Original programmer:
* Bill Wendling, Wednesday, March 07, 2001
*
* Rewritten with modified algorithm by:
* Pedro Vicente, Wednesday, January 16, 2008, contributions from Quincey Koziol
*
* Algorithm
*
* In a inner loop, the parameters from SSET are translated into temporary
* variables so that 1 row is printed at a time (getting the coordinate indices
* at each row).
* We define the stride, count and block to be 1 in the row dimension to achieve
* this and advance until all points are printed.
* An outer loop for cases where dimensionality is greater than 2D is made.
* In each iteration, the 2D block is displayed in the inner loop. The remaining
* slower dimensions above the first 2 are incremented one at a time in the outer loop
*
* The element position is obtained from the matrix according to:
* Given an index I(z,y,x) its position from the beginning of an array
* of sizes A(size_z, size_y,size_x) is given by
* Position of I(z,y,x) = index_z * size_y * size_x
* + index_y * size_x
* + index_x
*
*-------------------------------------------------------------------------
*/
static herr_t
h5tools_dump_simple_subset(FILE *stream, const h5tool_format_t *info, h5tools_context_t *ctx, hid_t dset,
hid_t p_type, struct subset_t *sset)
{
HERR_INIT(herr_t, SUCCEED)
int sndims;
hid_t f_space = -1; /* file data space */
size_t i; /* counters */
hsize_t total_size[H5S_MAX_RANK];/* total size of dataset*/
if((f_space = H5Dget_space(dset)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Dget_space failed");
if((sndims = H5Sget_simple_extent_ndims(f_space)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sget_simple_extent_ndims failed");
ctx->ndims = (unsigned)sndims;
/* assume entire data space to be printed */
if (ctx->ndims > 0)
for (i = 0; i < (size_t) ctx->ndims; i++)
ctx->p_min_idx[i] = 0;
if(H5Sget_simple_extent_dims(f_space, total_size, NULL) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sget_simple_extent_dims failed");
ctx->size_last_dim = total_size[ctx->ndims - 1];
/* Set the compound datatype field list for display */
ctx->cmpd_listv = info->cmpd_listv;
h5tools_display_simple_subset(stream, info, ctx, dset, p_type, sset, f_space, total_size);
CATCH
if(f_space >= 0 && H5Sclose(f_space) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sclose failed");
return ret_value;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Print some values from a dataset with a simple data space.
* Description:
* This is a special case of h5tools_dump_dset(). This function only
* intended for dumping datasets -- it does strip mining and some other
* things which are unnecessary for smaller objects such as attributes
* (to print small objects like attributes simply read the attribute and
* call h5tools_dump_simple_mem()).
* Return:
* On success, the function returns SUCCEED. Otherwise, the function
* returns FAIL.
*-------------------------------------------------------------------------
*/
static int
h5tools_dump_simple_dset(FILE *stream, const h5tool_format_t *info, h5tools_context_t *ctx,
hid_t dset, hid_t p_type)
{
HERR_INIT(herr_t, SUCCEED)
hid_t f_space = -1; /* file data space */
hsize_t elmtno; /* counter */
size_t i; /* counter */
int sndims; /* rank of dataspace */
int carry; /* counter carry value */
hsize_t zero[8]; /* vector of zeros */
unsigned int flags; /* buffer extent flags */
hsize_t total_size[H5S_MAX_RANK]; /* total size of dataset*/
/* Print info */
size_t p_type_nbytes; /* size of memory type */
hsize_t p_nelmts; /* total selected elmts */
/* Stripmine info */
hsize_t sm_size[H5S_MAX_RANK]; /* stripmine size */
hsize_t sm_nbytes; /* bytes per stripmine */
hsize_t sm_nelmts; /* elements per stripmine*/
unsigned char *sm_buf = NULL; /* buffer for raw data */
hid_t sm_space = -1; /* stripmine data space */
/* Hyperslab info */
hsize_t hs_offset[H5S_MAX_RANK]; /* starting offset */
hsize_t hs_size[H5S_MAX_RANK]; /* size this pass */
hsize_t hs_nelmts; /* elements in request */
/* VL data special information */
unsigned int vl_data = 0; /* contains VL datatypes */
f_space = H5Dget_space(dset);
if (f_space == FAIL)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Dget_space failed");
sndims = H5Sget_simple_extent_ndims(f_space);
if(sndims < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Dget_simple_extent_ndims failed");
ctx->ndims = (unsigned)sndims;
if ((size_t)ctx->ndims > NELMTS(sm_size))
H5E_THROW(FAIL, H5E_tools_min_id_g, "ctx->ndims > NELMTS(sm_size) failed");
/* Assume entire data space to be printed */
if (ctx->ndims > 0)
for (i = 0; i < (size_t)ctx->ndims; i++)
ctx->p_min_idx[i] = 0;
H5Sget_simple_extent_dims(f_space, total_size, NULL);
/* calculate the number of elements we're going to print */
p_nelmts = 1;
if (ctx->ndims > 0) {
for (i = 0; i < ctx->ndims; i++)
p_nelmts *= total_size[i];
ctx->size_last_dim = (total_size[ctx->ndims - 1]);
} /* end if */
else
ctx->size_last_dim = 0;
if (p_nelmts == 0) {
H5_LEAVE(SUCCEED); /* nothing to print */
}
/* Check if we have VL data in the dataset's datatype */
if (h5tools_detect_vlen(p_type) == TRUE)
vl_data = TRUE;
/*
* Determine the strip mine size and allocate a buffer. The strip mine is
* a hyperslab whose size is manageable.
*/
sm_nbytes = p_type_nbytes = H5Tget_size(p_type);
if (ctx->ndims > 0) {
for (i = ctx->ndims; i > 0; --i) {
hsize_t size = H5TOOLS_BUFSIZE / sm_nbytes;
if ( size == 0) /* datum size > H5TOOLS_BUFSIZE */
size = 1;
sm_size[i - 1] = MIN(total_size[i - 1], size);
sm_nbytes *= sm_size[i - 1];
HDassert(sm_nbytes > 0);
}
}
if(!sm_nbytes)
goto done;
HDassert(sm_nbytes == (hsize_t)((size_t)sm_nbytes)); /*check for overflow*/
sm_buf = (unsigned char *)HDmalloc((size_t)sm_nbytes);
sm_nelmts = sm_nbytes / p_type_nbytes;
sm_space = H5Screate_simple(1, &sm_nelmts, NULL);
if (ctx->ndims > 0)
init_acc_pos(ctx, total_size);
/* The stripmine loop */
HDmemset(hs_offset, 0, sizeof hs_offset);
HDmemset(zero, 0, sizeof zero);
for (elmtno = 0; elmtno < p_nelmts; elmtno += hs_nelmts) {
/* Calculate the hyperslab size */
if (ctx->ndims > 0) {
for (i = 0, hs_nelmts = 1; i < ctx->ndims; i++) {
hs_size[i] = MIN(total_size[i] - hs_offset[i], sm_size[i]);
ctx->p_max_idx[i] = ctx->p_min_idx[i] + hs_size[i];
hs_nelmts *= hs_size[i];
}
H5Sselect_hyperslab(f_space, H5S_SELECT_SET, hs_offset, NULL, hs_size, NULL);
H5Sselect_hyperslab(sm_space, H5S_SELECT_SET, zero, NULL, &hs_nelmts, NULL);
}
else {
H5Sselect_all(f_space);
H5Sselect_all(sm_space);
hs_nelmts = 1;
}
/* Read the data */
if (H5Dread(dset, p_type, sm_space, f_space, H5P_DEFAULT, sm_buf) < 0) {
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Dread failed");
}
/* Print the data */
flags = (elmtno == 0) ? START_OF_DATA : 0;
flags |= ((elmtno + hs_nelmts) >= p_nelmts) ? END_OF_DATA : 0;
/* initialize the current stripmine position; this is necessary to print the array
indices */
ctx->sm_pos = elmtno;
if(h5tools_dump_simple_data(stream, info, dset, ctx, flags, hs_nelmts, p_type, sm_buf) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "h5tools_dump_simple_data failed");
/* Reclaim any VL memory, if necessary */
if (vl_data)
H5Dvlen_reclaim(p_type, sm_space, H5P_DEFAULT, sm_buf);
/* Calculate the next hyperslab offset */
for (i = ctx->ndims, carry = 1; i > 0 && carry; --i) {
ctx->p_min_idx[i - 1] = ctx->p_max_idx[i - 1];
hs_offset[i - 1] += hs_size[i - 1];
if (hs_offset[i - 1] == total_size[i - 1])
hs_offset[i - 1] = 0;
else
carry = 0;
}
ctx->continuation++;
}
CATCH
if(sm_buf)
HDfree(sm_buf);
done:
if(sm_space >= 0 && H5Sclose(sm_space) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sclose failed");
if(f_space >= 0 && H5Sclose(f_space) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sclose failed");
return ret_value;
}
/*-------------------------------------------------------------------------
* Function: h5tools_dump_simple_mem
*
* Purpose: Print some values from memory with a simple data space.
* This is a special case of h5tools_dump_mem().
*
* Return: Success: SUCCEED
* Failure: FAIL
*
*-------------------------------------------------------------------------
*/
static int
h5tools_dump_simple_mem(FILE *stream, const h5tool_format_t *info, h5tools_context_t *ctx, hid_t obj_id,
hid_t type, hid_t space, void *mem)
{
HERR_INIT(herr_t, SUCCEED)
int sndims; /* rank of dataspace */
unsigned i; /*counters */
hsize_t nelmts; /*total selected elmts */
sndims = H5Sget_simple_extent_ndims(space);
if(sndims < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Dget_simple_extent_ndims failed");
ctx->ndims = (unsigned)sndims;
if ((size_t) ctx->ndims > NELMTS(ctx->p_min_idx))
H5E_THROW(FAIL, H5E_tools_min_id_g, "ctx->ndims > NELMTS(ctx->p_min_idx) failed");
/* Assume entire data space to be printed */
for (i = 0; i < ctx->ndims; i++)
ctx->p_min_idx[i] = 0;
H5Sget_simple_extent_dims(space, ctx->p_max_idx, NULL);
for (i = 0, nelmts = 1; ctx->ndims != 0 && i < ctx->ndims; i++)
nelmts *= ctx->p_max_idx[i] - ctx->p_min_idx[i];
if (nelmts == 0)
H5_LEAVE(SUCCEED); /* nothing to print */
if (ctx->ndims > 0) {
HDassert(ctx->p_max_idx[ctx->ndims - 1] == (hsize_t) ((int) ctx->p_max_idx[ctx->ndims - 1]));
ctx->size_last_dim = ctx->p_max_idx[ctx->ndims - 1];
} /* end if */
else
ctx->size_last_dim = 0;
if (ctx->ndims > 0)
init_acc_pos(ctx, ctx->p_max_idx);
if(h5tools_dump_simple_data(stream, info, obj_id, ctx, START_OF_DATA | END_OF_DATA, nelmts, type, mem) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "h5tools_dump_simple_data failed");
CATCH
return ret_value;
}
/*-------------------------------------------------------------------------
* Function: h5tools_dump_dset
*
* Purpose: Print some values from a dataset DSET to the file STREAM
* after converting all types to P_TYPE (which should be a
* native type). If P_TYPE is a negative value then it will be
* computed from the dataset type using only native types.
*
* Note: This function is intended only for datasets since it does
* some things like strip mining which are unnecessary for
* smaller objects such as attributes. The easiest way to print
* small objects is to read the object into memory and call
* h5tools_dump_mem().
*
* Return: Success: SUCCEED
* Failure: FAIL
*
* Modifications:
* Robb Matzke, 1999-06-07
* If info->raw is set then the memory datatype will be the same
* as the file datatype.
*
* Bill Wendling, 2001-02-27
* Renamed to ``h5tools_dump_dset'' and added the subsetting
* parameter.
*
*-------------------------------------------------------------------------
*/
int
h5tools_dump_dset(FILE *stream, const h5tool_format_t *info, h5tools_context_t *ctx,
hid_t dset, struct subset_t *sset)
{
hid_t f_space = -1;
hid_t p_type = -1;
hid_t f_type = -1;
H5S_class_t space_type;
int status = FAIL;
h5tool_format_t info_dflt;
/* Use default values */
if (!stream)
stream = rawoutstream;
if (!info) {
HDmemset(&info_dflt, 0, sizeof info_dflt);
info = &info_dflt;
}
f_type = H5Dget_type(dset);
if (f_type < 0)
goto done;
if (info->raw || bin_form == 1)
p_type = H5Tcopy(f_type);
else if (bin_form == 2)
p_type = h5tools_get_little_endian_type(f_type);
else if (bin_form == 3)
p_type = h5tools_get_big_endian_type(f_type);
else
p_type = h5tools_get_native_type(f_type);
if (p_type < 0)
goto done;
/* Check the data space */
f_space = H5Dget_space(dset);
if (f_space < 0)
goto done;
space_type = H5Sget_simple_extent_type(f_space);
/* Print the data */
if (space_type == H5S_SIMPLE || space_type == H5S_SCALAR) {
if(!sset)
status = h5tools_dump_simple_dset(rawdatastream, info, ctx, dset, p_type);
else
status = h5tools_dump_simple_subset(rawdatastream, info, ctx, dset, p_type, sset);
}
else
/* space is H5S_NULL */
status = SUCCEED;
done:
if (f_type > 0)
H5Tclose(f_type);
if (p_type > 0)
H5Tclose(p_type);
if (f_space > 0)
H5Sclose(f_space);
return status;
}
/*-------------------------------------------------------------------------
* Function: h5tools_dump_mem
*
* Purpose: Displays the data contained in MEM. MEM must have the
* specified data TYPE and SPACE. Currently only simple data
* spaces are allowed and only the `all' selection.
*
* Return: Success: SUCCEED
* Failure: FAIL
*
*-------------------------------------------------------------------------
*/
int
h5tools_dump_mem(FILE *stream, const h5tool_format_t *info, h5tools_context_t *ctx,
hid_t obj_id, hid_t type, hid_t space, void *mem)
{
HERR_INIT(int, SUCCEED)
h5tool_format_t info_dflt;
/* Use default values */
if (!stream)
stream = rawoutstream;
if (!info) {
HDmemset(&info_dflt, 0, sizeof(info_dflt));
info = &info_dflt;
}
/* Check the data space */
if (H5Sis_simple(space) <= 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sis_simple failed")
H5_LEAVE(h5tools_dump_simple_mem(rawattrstream, info, ctx, obj_id, type, space, mem))
CATCH
return ret_value;
}
/*-------------------------------------------------------------------------
* Function: print_datatype
*
* Purpose: print the datatype - do not prefix.
*
* Return: void
*
* In/Out: h5tools_str_t *buffer
* h5tools_context_t *ctx
*
*-------------------------------------------------------------------------
*/
int
h5tools_print_datatype(FILE *stream, h5tools_str_t *buffer, const h5tool_format_t *info,
h5tools_context_t *ctx, hid_t type, int object_search)
{
HERR_INIT(int, SUCCEED)
char *mname;
hid_t mtype = -1;
hid_t str_type = -1;
hid_t super = -1;
hid_t tmp_type = -1;
int snmembers;
int sndims;
unsigned nmembers;
unsigned i;
size_t size = 0;
size_t ncols = 80; /*available output width */
hsize_t dims[H5TOOLS_DUMP_MAX_RANK];
hsize_t curr_pos = 0; /* total data element position */
H5T_str_t str_pad;
H5T_cset_t cset;
H5T_order_t order;
H5T_class_t type_class;
H5T_sign_t sign; /* sign scheme value */
htri_t is_vlstr = FALSE;
const char *sign_s = NULL; /* sign scheme string */
const char *order_s = NULL; /* byte order string */
if((type_class = H5Tget_class(type)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tget_class failed");
if (object_search && H5Tcommitted(type) > 0) {
H5O_info_t oinfo;
obj_t *obj = NULL; /* Found object */
H5Oget_info(type, &oinfo);
obj = search_obj(h5dump_type_table, oinfo.addr);
if(obj) {
if(!obj->recorded) {
h5tools_str_append(buffer,"\"/#"H5_PRINTF_HADDR_FMT"\"", obj->objno);
}
else
h5tools_str_append(buffer, "\"%s\"", obj->objname);
}
else {
error_msg("unknown committed type.\n");
h5tools_setstatus(EXIT_FAILURE);
}
return ret_value;
}
if (info->line_ncols > 0)
ncols = info->line_ncols;
switch (type_class) {
case H5T_INTEGER:
if (H5Tequal(type, H5T_STD_I8BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_I8BE");
}
else if (H5Tequal(type, H5T_STD_I8LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_I8LE");
}
else if (H5Tequal(type, H5T_STD_I16BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_I16BE");
}
else if (H5Tequal(type, H5T_STD_I16LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_I16LE");
}
else if (H5Tequal(type, H5T_STD_I32BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_I32BE");
}
else if (H5Tequal(type, H5T_STD_I32LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_I32LE");
}
else if (H5Tequal(type, H5T_STD_I64BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_I64BE");
}
else if (H5Tequal(type, H5T_STD_I64LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_I64LE");
}
else if (H5Tequal(type, H5T_STD_U8BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_U8BE");
}
else if (H5Tequal(type, H5T_STD_U8LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_U8LE");
}
else if (H5Tequal(type, H5T_STD_U16BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_U16BE");
}
else if (H5Tequal(type, H5T_STD_U16LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_U16LE");
}
else if (H5Tequal(type, H5T_STD_U32BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_U32BE");
}
else if (H5Tequal(type, H5T_STD_U32LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_U32LE");
}
else if (H5Tequal(type, H5T_STD_U64BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_U64BE");
}
else if (H5Tequal(type, H5T_STD_U64LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_U64LE");
}
else if (H5Tequal(type, H5T_NATIVE_SCHAR) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_SCHAR");
}
else if (H5Tequal(type, H5T_NATIVE_UCHAR) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_UCHAR");
}
else if (H5Tequal(type, H5T_NATIVE_SHORT) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_SHORT");
}
else if (H5Tequal(type, H5T_NATIVE_USHORT) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_USHORT");
}
else if (H5Tequal(type, H5T_NATIVE_INT) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_INT");
}
else if (H5Tequal(type, H5T_NATIVE_UINT) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_UINT");
}
else if (H5Tequal(type, H5T_NATIVE_LONG) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_LONG");
}
else if (H5Tequal(type, H5T_NATIVE_ULONG) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_ULONG");
}
else if (H5Tequal(type, H5T_NATIVE_LLONG) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_LLONG");
}
else if (H5Tequal(type, H5T_NATIVE_ULLONG) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_ULLONG");
}
else {
/* byte order */
if (H5Tget_size(type) > 1) {
order = H5Tget_order(type);
if (H5T_ORDER_LE == order) {
order_s = " little-endian";
}
else if (H5T_ORDER_BE == order) {
order_s = " big-endian";
}
else if (H5T_ORDER_VAX == order) {
order_s = " mixed-endian";
}
else {
order_s = " unknown-byte-order";
}
}
else {
order_s = "";
}
/* sign */
if ((sign = H5Tget_sign(type)) >= 0) {
if (H5T_SGN_NONE == sign) {
sign_s = " unsigned";
}
else if (H5T_SGN_2 == sign) {
sign_s = "";
}
else {
sign_s = " unknown-sign";
}
}
else {
sign_s = " unknown-sign";
}
/* print size, order, and sign */
h5tools_str_append(buffer, "%lu-bit%s%s integer",
(unsigned long) (8 * H5Tget_size(type)), order_s, sign_s);
}
break;
case H5T_FLOAT:
if (H5Tequal(type, H5T_IEEE_F32BE) == TRUE) {
h5tools_str_append(buffer, "H5T_IEEE_F32BE");
}
else if (H5Tequal(type, H5T_IEEE_F32LE) == TRUE) {
h5tools_str_append(buffer, "H5T_IEEE_F32LE");
}
else if (H5Tequal(type, H5T_IEEE_F64BE) == TRUE) {
h5tools_str_append(buffer, "H5T_IEEE_F64BE");
}
else if (H5Tequal(type, H5T_IEEE_F64LE) == TRUE) {
h5tools_str_append(buffer, "H5T_IEEE_F64LE");
}
else if (H5Tequal(type, H5T_VAX_F32) == TRUE) {
h5tools_str_append(buffer, "H5T_VAX_F32");
}
else if (H5Tequal(type, H5T_VAX_F64) == TRUE) {
h5tools_str_append(buffer, "H5T_VAX_F64");
}
else if (H5Tequal(type, H5T_NATIVE_FLOAT) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_FLOAT");
}
else if (H5Tequal(type, H5T_NATIVE_DOUBLE) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_DOUBLE");
#if H5_SIZEOF_LONG_DOUBLE !=0
}
else if (H5Tequal(type, H5T_NATIVE_LDOUBLE) == TRUE) {
h5tools_str_append(buffer, "H5T_NATIVE_LDOUBLE");
#endif
}
else {
/* byte order */
if (H5Tget_size(type) > 1) {
order = H5Tget_order(type);
if (H5T_ORDER_LE == order) {
order_s = " little-endian";
}
else if (H5T_ORDER_BE == order) {
order_s = " big-endian";
}
else if (H5T_ORDER_VAX == order) {
order_s = " mixed-endian";
}
else {
order_s = " unknown-byte-order";
}
}
else {
order_s = "";
}
/* print size and byte order */
h5tools_str_append(buffer, "%lu-bit%s floating-point",
(unsigned long) (8 * H5Tget_size(type)), order_s);
}
break;
case H5T_TIME:
h5tools_str_append(buffer, "H5T_TIME: not yet implemented");
break;
case H5T_STRING:
/* Make a copy of type in memory in case when TYPE is on disk, the size
* will be bigger than in memory. This makes it easier to compare
* types in memory. */
tmp_type = H5Tcopy(type);
size = H5Tget_size(tmp_type);
str_pad = H5Tget_strpad(tmp_type);
cset = H5Tget_cset(tmp_type);
is_vlstr = H5Tis_variable_str(tmp_type);
curr_pos = ctx->cur_column;
h5tools_str_append(buffer, "H5T_STRING %s", h5tools_dump_header_format->strblockbegin);
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
if (is_vlstr)
h5tools_str_append(buffer, "%s H5T_VARIABLE;", STRSIZE);
else
h5tools_str_append(buffer, "%s %d;", STRSIZE, (int) size);
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s ", STRPAD);
switch (str_pad) {
case H5T_STR_NULLTERM:
h5tools_str_append(buffer, "H5T_STR_NULLTERM;");
break;
case H5T_STR_NULLPAD:
h5tools_str_append(buffer, "H5T_STR_NULLPAD;");
break;
case H5T_STR_SPACEPAD:
h5tools_str_append(buffer, "H5T_STR_SPACEPAD;");
break;
case H5T_STR_RESERVED_3:
case H5T_STR_RESERVED_4:
case H5T_STR_RESERVED_5:
case H5T_STR_RESERVED_6:
case H5T_STR_RESERVED_7:
case H5T_STR_RESERVED_8:
case H5T_STR_RESERVED_9:
case H5T_STR_RESERVED_10:
case H5T_STR_RESERVED_11:
case H5T_STR_RESERVED_12:
case H5T_STR_RESERVED_13:
case H5T_STR_RESERVED_14:
case H5T_STR_RESERVED_15:
h5tools_str_append(buffer, "H5T_STR_UNKNOWN;");
break;
case H5T_STR_ERROR:
h5tools_str_append(buffer, "H5T_STR_ERROR;");
break;
default:
h5tools_str_append(buffer, "ERROR;");
break;
}
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s ", CSET);
switch (cset) {
case H5T_CSET_ASCII:
h5tools_str_append(buffer, "H5T_CSET_ASCII;");
break;
case H5T_CSET_UTF8:
h5tools_str_append(buffer, "H5T_CSET_UTF8;");
break;
case H5T_CSET_RESERVED_2:
case H5T_CSET_RESERVED_3:
case H5T_CSET_RESERVED_4:
case H5T_CSET_RESERVED_5:
case H5T_CSET_RESERVED_6:
case H5T_CSET_RESERVED_7:
case H5T_CSET_RESERVED_8:
case H5T_CSET_RESERVED_9:
case H5T_CSET_RESERVED_10:
case H5T_CSET_RESERVED_11:
case H5T_CSET_RESERVED_12:
case H5T_CSET_RESERVED_13:
case H5T_CSET_RESERVED_14:
case H5T_CSET_RESERVED_15:
h5tools_str_append(buffer, "H5T_CSET_UNKNOWN;");
break;
case H5T_CSET_ERROR:
h5tools_str_append(buffer, "H5T_CSET_ERROR;");
break;
default:
h5tools_str_append(buffer, "ERROR;");
break;
}
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
str_type = H5Tcopy(H5T_C_S1);
if (is_vlstr)
H5Tset_size(str_type, H5T_VARIABLE);
else
H5Tset_size(str_type, size);
H5Tset_cset(str_type, cset);
H5Tset_strpad(str_type, str_pad);
h5tools_str_append(buffer, "%s ", CTYPE);
/* Check C variable-length string first. Are the two types equal? */
if (H5Tequal(tmp_type, str_type)) {
h5tools_str_append(buffer, "H5T_C_S1;");
goto found_string_type;
}
/* Change the endianness and see if they're equal. */
order = H5Tget_order(tmp_type);
if(order == H5T_ORDER_LE) {
if(H5Tset_order(str_type, H5T_ORDER_LE) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tset_order failed");
} /* end if */
else if(order == H5T_ORDER_BE) {
if(H5Tset_order(str_type, H5T_ORDER_BE) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tset_order failed");
} /* end if */
if(H5Tequal(tmp_type, str_type)) {
h5tools_str_append(buffer, "H5T_C_S1;");
goto found_string_type;
}
/* If not equal to C variable-length string, check Fortran type. */
if(H5Tclose(str_type) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tclose failed");
str_type = H5Tcopy(H5T_FORTRAN_S1);
H5Tset_cset(str_type, cset);
H5Tset_size(str_type, size);
H5Tset_strpad(str_type, str_pad);
/* Are the two types equal? */
if (H5Tequal(tmp_type, str_type)) {
h5tools_str_append(buffer, "H5T_FORTRAN_S1;");
goto found_string_type;
}
/* Change the endianness and see if they're equal. */
order = H5Tget_order(tmp_type);
if(order == H5T_ORDER_LE) {
if(H5Tset_order(str_type, H5T_ORDER_LE) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tset_order failed");
} /* end if */
else if(order == H5T_ORDER_BE) {
if(H5Tset_order(str_type, H5T_ORDER_BE) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tset_order failed");
} /* end if */
if(H5Tequal(tmp_type, str_type)) {
h5tools_str_append(buffer, "H5T_FORTRAN_S1;");
goto found_string_type;
}
/* Type doesn't match any of above. */
h5tools_str_append(buffer, "unknown_one_character_type;");
found_string_type:
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
if(H5Tclose(str_type) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tclose failed");
if(H5Tclose(tmp_type) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tclose failed");
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->strblockend);
break;
case H5T_BITFIELD:
if (H5Tequal(type, H5T_STD_B8BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_B8BE");
}
else if (H5Tequal(type, H5T_STD_B8LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_B8LE");
}
else if (H5Tequal(type, H5T_STD_B16BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_B16BE");
}
else if (H5Tequal(type, H5T_STD_B16LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_B16LE");
}
else if (H5Tequal(type, H5T_STD_B32BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_B32BE");
}
else if (H5Tequal(type, H5T_STD_B32LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_B32LE");
}
else if (H5Tequal(type, H5T_STD_B64BE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_B64BE");
}
else if (H5Tequal(type, H5T_STD_B64LE) == TRUE) {
h5tools_str_append(buffer, "H5T_STD_B64LE");
}
else {
h5tools_str_append(buffer, "undefined bitfield");
}
break;
case H5T_OPAQUE:
h5tools_str_append(buffer, "H5T_OPAQUE %s", h5tools_dump_header_format->structblockbegin);
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level++;
{
char *ttag;
if(NULL == (ttag = H5Tget_tag(type)))
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tget_tag failed");
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "OPAQUE_TAG \"%s\";", ttag);
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
H5free_memory(ttag);
}
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->structblockend);
break;
case H5T_COMPOUND:
if((snmembers = H5Tget_nmembers(type)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tget_nmembers failed");
nmembers = (unsigned)snmembers;
h5tools_str_append(buffer, "H5T_COMPOUND %s", h5tools_dump_header_format->structblockbegin);
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level++;
for (i = 0; i < nmembers; i++) {
mname = H5Tget_member_name(type, i);
if((mtype = H5Tget_member_type(type, i)) >= 0) {
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
h5tools_print_datatype(stream, buffer, info, ctx, mtype, TRUE);
h5tools_str_append(buffer, " \"%s\";", mname);
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
if(H5Tclose(mtype) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tclose failed");
}
else
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tget_member_type failed");
H5free_memory(mname);
}
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->structblockend);
break;
case H5T_REFERENCE:
h5tools_str_append(buffer, "H5T_REFERENCE");
if (H5Tequal(type, H5T_STD_REF_DSETREG) == TRUE) {
h5tools_str_append(buffer, " { H5T_STD_REF_DSETREG }");
}
else {
h5tools_str_append(buffer, " { H5T_STD_REF_OBJECT }");
}
break;
case H5T_ENUM:
if((super = H5Tget_super(type)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tget_super failed");
h5tools_str_append(buffer, "H5T_ENUM %s", h5tools_dump_header_format->enumblockbegin);
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
h5tools_print_datatype(stream, buffer, info, ctx, super, TRUE);
if(H5Tclose(super) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tclose failed");
h5tools_str_append(buffer, ";");
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
h5tools_print_enum(stream, buffer, info, ctx, type);
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->enumblockend);
break;
case H5T_VLEN:
if((super = H5Tget_super(type)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tget_super failed");
h5tools_str_append(buffer, "H5T_VLEN %s ", h5tools_dump_header_format->vlenblockbegin);
h5tools_print_datatype(stream, buffer, info, ctx, super, TRUE);
if(H5Tclose(super) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tclose failed");
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->vlenblockend);
break;
case H5T_ARRAY:
h5tools_str_append(buffer, "H5T_ARRAY { ");
/* Get array information */
if((sndims = H5Tget_array_ndims(type)) >= 0) {
unsigned ndims = (unsigned)sndims;
if(H5Tget_array_dims2(type, dims) >= 0) {
/* Print array dimensions */
for (i = 0; i < ndims; i++)
h5tools_str_append(buffer, "[" HSIZE_T_FORMAT "]", dims[i]);
h5tools_str_append(buffer, " ");
}
else
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tget_array_dims2 failed");
}
else
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tget_array_ndims failed");
/* Get array base type */
if((super = H5Tget_super(type)) >= 0) {
/* Print base type */
h5tools_print_datatype(stream, buffer, info, ctx, super, TRUE);
/* Close array base type */
if(H5Tclose(super) < 0)
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tclose failed");
}
else
HERROR(H5E_tools_g, H5E_tools_min_id_g, "H5Tget_super failed");
h5tools_str_append(buffer, " }");
break;
case H5T_NO_CLASS:
case H5T_NCLASSES:
default:
h5tools_str_append(buffer, "unknown datatype");
break;
}
CATCH
return ret_value;
}
/*-------------------------------------------------------------------------
* Function: print_dataspace
*
* Purpose: print the dataspace.
*
* Return: void
*
* In/Out: h5tools_str_t *buffer
* h5tools_context_t *ctx
*
*-------------------------------------------------------------------------
*/
int
h5tools_print_dataspace(h5tools_str_t *buffer, hid_t space)
{
HERR_INIT(int, SUCCEED)
hsize_t size[H5TOOLS_DUMP_MAX_RANK];
hsize_t maxsize[H5TOOLS_DUMP_MAX_RANK];
int ndims = -1;
H5S_class_t space_type = -1;
int i;
if((ndims = H5Sget_simple_extent_dims(space, size, maxsize)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sget_simple_extent_dims failed");
if((space_type = H5Sget_simple_extent_type(space)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Sget_simple_extent_type failed");
switch(space_type) {
case H5S_SCALAR:
/* scalar dataspace */
h5tools_str_append(buffer, "%s %s", h5tools_dump_header_format->dataspacedescriptionbegin, S_SCALAR);
break;
case H5S_SIMPLE:
/* simple dataspace */
h5tools_str_append(buffer, "%s %s { %s " HSIZE_T_FORMAT,
h5tools_dump_header_format->dataspacedescriptionbegin, S_SIMPLE,
h5tools_dump_header_format->dataspacedimbegin, size[0]);
for(i = 1; i < ndims; i++)
h5tools_str_append(buffer, ", " HSIZE_T_FORMAT, size[i]);
h5tools_str_append(buffer, " %s / ", h5tools_dump_header_format->dataspacedimend);
if(maxsize[0] == H5S_UNLIMITED)
h5tools_str_append(buffer, "%s %s",
h5tools_dump_header_format->dataspacedimbegin, "H5S_UNLIMITED");
else
h5tools_str_append(buffer, "%s " HSIZE_T_FORMAT,
h5tools_dump_header_format->dataspacedimbegin, maxsize[0]);
for(i = 1; i < ndims; i++)
if(maxsize[i] == H5S_UNLIMITED)
h5tools_str_append(buffer, ", %s", "H5S_UNLIMITED");
else
h5tools_str_append(buffer, ", " HSIZE_T_FORMAT, maxsize[i]);
h5tools_str_append(buffer, " %s }", h5tools_dump_header_format->dataspacedimend);
break;
case H5S_NULL:
/* null dataspace */
h5tools_str_append(buffer, "%s %s", h5tools_dump_header_format->dataspacedescriptionbegin, S_NULL);
break;
case H5S_NO_CLASS:
default:
h5tools_str_append(buffer, "%s unknown dataspace %s\n", BEGIN, END);
break;
} /* end switch */
CATCH
return ret_value;
}
/*-------------------------------------------------------------------------
* Function: print_enum
*
* Purpose: prints the enum data
*
* Return: void
*
* In/Out: h5tools_str_t *buffer
* h5tools_context_t *ctx
*
*-----------------------------------------------------------------------*/
int
h5tools_print_enum(FILE *stream, h5tools_str_t *buffer, const h5tool_format_t *info,
h5tools_context_t *ctx, hid_t type)
{
HERR_INIT(int, SUCCEED)
char **name = NULL; /*member names */
unsigned char *value = NULL; /*value array */
unsigned char *copy = NULL; /*a pointer to value array */
unsigned i;
unsigned nmembs = 0; /*number of members */
int snmembs;
hid_t super = -1; /*enum base integer type */
hid_t native = -1; /*native integer datatype */
H5T_sign_t sign_type; /*sign of value type */
size_t type_size; /*value type size */
size_t dst_size; /*destination value type size */
size_t ncols = 80; /*available output width */
hsize_t curr_pos = 0; /* total data element position */
if (info->line_ncols > 0)
ncols = info->line_ncols;
if((snmembs = H5Tget_nmembers(type)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tget_nmembers failed");
nmembs = (unsigned)snmembs;
HDassert(nmembs > 0);
if((super = H5Tget_super(type)) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tget_super failed");
if((type_size = H5Tget_size(type)) <= 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tget_size(type) failed");
/*
* Determine what datatype to use for the native values. To simplify
* things we entertain three possibilities:
* 1. long long -- the largest native signed integer
* 2. unsigned long long -- the largest native unsigned integer
* 3. raw format
*/
if(type_size <= sizeof(long long)) {
dst_size = sizeof(long long);
if((sign_type = H5Tget_sign(type))<0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tget_sign failed");
if(H5T_SGN_NONE == sign_type)
native = H5T_NATIVE_ULLONG;
else
native = H5T_NATIVE_LLONG;
} /* end if */
else
dst_size = type_size;
/* Get the names and raw values of all members */
if(NULL == (name = (char **)HDcalloc((size_t)nmembs, sizeof(char *))))
H5E_THROW(FAIL, H5E_tools_min_id_g, "Could not allocate buffer for member name");
if(NULL == (value = (unsigned char *)HDcalloc((size_t)nmembs, MAX(type_size, dst_size))))
H5E_THROW(FAIL, H5E_tools_min_id_g, "Could not allocate buffer for member value");
for (i = 0; i < nmembs; i++) {
name[i] = H5Tget_member_name(type, i);
if(H5Tget_member_value(type, i, value + i * type_size) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tget_member_value failed");
}
/* Convert values to native datatype */
if (native > 0)
if(H5Tconvert(super, native, (size_t)nmembs, value, NULL, H5P_DEFAULT) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "H5Tconvert failed");
/*
* Sort members by increasing value
* ***not implemented yet***
*/
/* Print members */
for (i = 0; i < nmembs; i++) {
int nchars; /*number of output characters */
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "\"%s\"", name[i]);
nchars = (int)HDstrlen(name[i]);
h5tools_str_append(buffer, "%*s ", MAX(0, 16 - nchars), "");
if (native < 0) {
size_t j;
h5tools_str_append(buffer, "0x");
for (j = 0; j < dst_size; j++)
h5tools_str_append(buffer, "%02x", value[i * dst_size + j]);
}
else if (H5T_SGN_NONE == H5Tget_sign(native)) {
/*On SGI Altix(cobalt), wrong values were printed out with "value+i*dst_size"
*strangely, unless use another pointer "copy".*/
copy = value + i * dst_size;
h5tools_str_append(buffer, HSIZE_T_FORMAT, *((unsigned long long *) ((void *) copy)));
}
else {
/*On SGI Altix(cobalt), wrong values were printed out with "value+i*dst_size"
*strangely, unless use another pointer "copy".*/
copy = value + i * dst_size;
h5tools_str_append(buffer, "%" H5_PRINTF_LL_WIDTH "d", *((long long *) ((void *) copy)));
}
h5tools_str_append(buffer, ";");
h5tools_render_element(stream, info, ctx, buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
}
CATCH
if(name) {
/* Release resources */
for(i = 0; i < nmembs; i++)
if(name[i])
H5free_memory(name[i]);
HDfree(name);
} /* end if */
if(value)
HDfree(value);
if(super >= 0 && H5Tclose(super) < 0)
H5E_THROW(FAIL, H5E_tools_min_id_g, "Could not close datatype's super class");
if(0 == nmembs)
h5tools_str_append(buffer, "\n<empty>");
return ret_value;
}
/*-------------------------------------------------------------------------
* Function: dump_datatype
*
* Purpose: Dump the datatype. Datatype can be HDF5 predefined
* atomic datatype or committed/transient datatype.
*
* Return: void
*
* In/Out: h5tools_context_t *ctx
*-------------------------------------------------------------------------
*/
void
h5tools_dump_datatype(FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx, hid_t type)
{
h5tools_str_t buffer; /* string into which to render */
size_t ncols = 80; /* available output width */
hsize_t curr_pos = ctx->sm_pos; /* total data element position */
/* pass to the prefix in h5tools_simple_prefix the total position
* instead of the current stripmine position i; this is necessary
* to print the array indices
*/
/* setup */
HDmemset(&buffer, 0, sizeof(h5tools_str_t));
if (info->line_ncols > 0)
ncols = info->line_ncols;
ctx->need_prefix = TRUE;
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s ",
h5tools_dump_header_format->datatypebegin,
h5tools_dump_header_format->datatypeblockbegin);
h5tools_print_datatype(stream, &buffer, info, ctx, type, TRUE);
if (HDstrlen(h5tools_dump_header_format->datatypeblockend)) {
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->datatypeblockend);
if (HDstrlen(h5tools_dump_header_format->datatypeend))
h5tools_str_append(&buffer, " ");
}
if (HDstrlen(h5tools_dump_header_format->datatypeend))
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->datatypeend);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
h5tools_str_close(&buffer);
}
/*-------------------------------------------------------------------------
* Function: dump_dataspace
*
* Purpose: Dump the dataspace.
*
* Return: void
*
* In/Out: h5tools_context_t *ctx
*-------------------------------------------------------------------------
*/
void
h5tools_dump_dataspace(FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx, hid_t type)
{
h5tools_str_t buffer; /* string into which to render */
size_t ncols = 80; /* available output width */
hsize_t curr_pos = ctx->sm_pos; /* total data element position */
/* pass to the prefix in h5tools_simple_prefix the total position
* instead of the current stripmine position i; this is necessary
* to print the array indices
*/
/* setup */
HDmemset(&buffer, 0, sizeof(h5tools_str_t));
if (info->line_ncols > 0)
ncols = info->line_ncols;
ctx->need_prefix = TRUE;
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s ",
h5tools_dump_header_format->dataspacebegin);
h5tools_print_dataspace(&buffer, type);
if (HDstrlen(h5tools_dump_header_format->dataspaceblockend)) {
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->dataspaceblockend);
if (HDstrlen(h5tools_dump_header_format->dataspaceend))
h5tools_str_append(&buffer, " ");
}
if (HDstrlen(h5tools_dump_header_format->dataspaceend))
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->dataspaceend);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
h5tools_str_close(&buffer);
}
/*-------------------------------------------------------------------------
* Function: dump_oid
*
* Purpose: Dump the oid.
*
* Return: void
*
* In/Out: h5tools_context_t *ctx
*-------------------------------------------------------------------------
*/
void
h5tools_dump_oid(FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx, hid_t oid)
{
h5tools_str_t buffer; /* string into which to render */
size_t ncols = 80; /* available output width */
hsize_t curr_pos = ctx->sm_pos; /* total data element position */
/* pass to the prefix in h5tools_simple_prefix the total position
* instead of the current stripmine position i; this is necessary
* to print the array indices
*/
/* setup */
HDmemset(&buffer, 0, sizeof(h5tools_str_t));
if (info->line_ncols > 0)
ncols = info->line_ncols;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s %d %s", OBJID, BEGIN, oid, END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
h5tools_str_close(&buffer);
}
/*-------------------------------------------------------------------------
* Function: print_virtual_selection
*
* Purpose: Print the virtual dataset selection.
*
* Return: void
*-------------------------------------------------------------------------
*/
static void
h5tools_print_virtual_selection(hid_t vspace,
FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx/*in,out*/,
h5tools_str_t *buffer/*string into which to render */,
hsize_t *curr_pos/*total data element position*/,
size_t ncols)
{
switch(H5Sget_select_type(vspace)) {
case H5S_SEL_NONE: /* Nothing selected */
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, *curr_pos, 0);
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s", VDS_NONE);
break;
case H5S_SEL_POINTS: /* Sequence of points selected */
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s %s ", VDS_POINT, h5tools_dump_header_format->virtualselectionblockbegin);
h5tools_str_dump_space_points(buffer, vspace, info);
h5tools_str_append(buffer, " %s", h5tools_dump_header_format->virtualselectionblockend);
break;
case H5S_SEL_HYPERSLABS: /* "New-style" hyperslab selection defined */
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, *curr_pos, 0);
h5tools_str_reset(buffer);
if (H5Sis_regular_hyperslab(vspace)) {
h5tools_str_append(buffer, "%s %s ", VDS_REG_HYPERSLAB, h5tools_dump_header_format->virtualselectionblockbegin);
h5tools_render_element(stream, info, ctx, buffer, curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
h5tools_str_reset(buffer);
h5tools_str_dump_space_slabs(buffer, vspace, info, ctx);
}
else {
h5tools_str_append(buffer, "%s %s ", VDS_IRR_HYPERSLAB, h5tools_dump_header_format->virtualselectionblockbegin);
h5tools_render_element(stream, info, ctx, buffer, curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, *curr_pos, 0);
h5tools_str_reset(buffer);
h5tools_str_dump_space_blocks(buffer, vspace, info);
ctx->indent_level--;
}
h5tools_render_element(stream, info, ctx, buffer, curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, *curr_pos, 0);
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s", h5tools_dump_header_format->virtualselectionblockend);
break;
case H5S_SEL_ALL: /* Entire extent selected */
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, *curr_pos, 0);
h5tools_str_reset(buffer);
h5tools_str_append(buffer, "%s", VDS_ALL);
break;
case H5S_SEL_ERROR:
case H5S_SEL_N:
default:
h5tools_str_append(buffer, "Unknown Selection");
}
h5tools_render_element(stream, info, ctx, buffer, curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
}
/*-------------------------------------------------------------------------
* Function: dump_fill_value
*
* Purpose: prints the fill value
*
* Return: void
*-------------------------------------------------------------------------
*/
void
h5tools_print_fill_value(h5tools_str_t *buffer/*in,out*/, const h5tool_format_t *info, h5tools_context_t *ctx/*in,out*/, hid_t dcpl, hid_t type_id, hid_t obj_id)
{
size_t size;
hid_t n_type;
void *buf = NULL;
n_type = h5tools_get_native_type(type_id);
size = H5Tget_size(n_type);
buf = HDmalloc(size);
H5Pget_fill_value(dcpl, n_type, buf);
h5tools_str_sprint(buffer, info, obj_id, n_type, buf, ctx);
H5Tclose(n_type);
if (buf)
HDfree (buf);
}
/*-------------------------------------------------------------------------
* Function: dump_dcpl
*
* Purpose: prints several dataset create property list properties
*
* Return: void
*-------------------------------------------------------------------------
*/
void
h5tools_dump_dcpl(FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx, hid_t dcpl_id, hid_t type_id, hid_t obj_id)
{
int nfilters; /* number of filters */
int rank; /* rank */
int i;
unsigned j;
unsigned filt_flags; /* filter flags */
unsigned cd_values[20]; /* filter client data values */
unsigned szip_options_mask;
unsigned szip_pixels_per_block;
H5Z_filter_t filtn; /* filter identification number */
H5D_fill_value_t fvstatus;
H5D_alloc_time_t at;
H5D_fill_time_t ft;
H5D_layout_t stl;
size_t ncols = 80; /* available output width */
size_t cd_nelmts; /* filter client number of values */
off_t offset; /* offset of external file */
char f_name[256]; /* filter name */
char name[256]; /* external or virtual file name */
hsize_t chsize[64]; /* chunk size in elements */
hsize_t size; /* size of external file */
hsize_t storage_size;
hsize_t curr_pos = 0; /* total data element position */
h5tools_str_t buffer; /* string into which to render */
/* setup */
HDmemset(&buffer, 0, sizeof(h5tools_str_t));
if (info->line_ncols > 0)
ncols = info->line_ncols;
storage_size = H5Dget_storage_size(obj_id);
nfilters = H5Pget_nfilters(dcpl_id);
HDstrcpy(f_name,"\0");
/*-------------------------------------------------------------------------
* STORAGE_LAYOUT
*-------------------------------------------------------------------------
*/
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s", STORAGE_LAYOUT, BEGIN);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
stl = H5Pget_layout(dcpl_id);
switch (stl) {
case H5D_CHUNKED:
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s ", CHUNKED);
rank = H5Pget_chunk(dcpl_id, (int) NELMTS(chsize), chsize);
h5tools_str_append(&buffer, "%s " HSIZE_T_FORMAT, h5tools_dump_header_format->dataspacedimbegin, chsize[0]);
for(i = 1; i < rank; i++)
h5tools_str_append(&buffer, ", " HSIZE_T_FORMAT, chsize[i]);
h5tools_str_append(&buffer, " %s", h5tools_dump_header_format->dataspacedimend);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
/* if there are filters, print a compression ratio */
if (nfilters) {
hsize_t dims[H5S_MAX_RANK];
hsize_t nelmts = 1;
double ratio = 0;
int ok = 0;
hid_t tid = H5Dget_type(obj_id);
hid_t sid = H5Dget_space(obj_id);
size_t datum_size = H5Tget_size(tid);
int ndims = H5Sget_simple_extent_dims(sid, dims, NULL);
/* only print the compression ratio for these filters */
for (i = 0; i < nfilters && !ok; i++) {
cd_nelmts = NELMTS(cd_values);
filtn = H5Pget_filter2(dcpl_id, (unsigned) i, &filt_flags, &cd_nelmts, cd_values, sizeof(f_name),
f_name, NULL);
ok = (filtn >= 0);
}
if(ndims && ok) {
hsize_t uncomp_size;
for(i = 0; i < ndims; i++) {
nelmts *= dims[i];
}
uncomp_size = nelmts * datum_size;
/* compression ratio = uncompressed size / compressed size */
if(storage_size != 0)
ratio = (double) uncomp_size / (double) storage_size;
h5tools_str_append(&buffer, "SIZE " HSIZE_T_FORMAT" (%.3f:1 COMPRESSION)", storage_size, ratio);
}
else
h5tools_str_append(&buffer, "SIZE " HSIZE_T_FORMAT, storage_size);
H5Sclose(sid);
H5Tclose(tid);
}
else {
h5tools_str_append(&buffer, "SIZE " HSIZE_T_FORMAT, storage_size);
}
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->indent_level--;
break;
case H5D_COMPACT:
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", COMPACT);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "SIZE " HSIZE_T_FORMAT, storage_size);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->indent_level--;
break;
case H5D_CONTIGUOUS:
{
int next;
next = H5Pget_external_count(dcpl_id);
/*-------------------------------------------------------------------------
* EXTERNAL_FILE
*-------------------------------------------------------------------------
*/
ctx->indent_level++;
if (next) {
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", CONTIGUOUS);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s", EXTERNAL, BEGIN);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->indent_level++;
for (j = 0; j < (unsigned) next; j++) {
H5Pget_external(dcpl_id, j, sizeof(name), name, &offset, &size);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "FILENAME %s SIZE " HSIZE_T_FORMAT, name, size);
h5tools_str_append(&buffer, " OFFSET %ld", offset);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
}
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
}
else {
haddr_t ioffset;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", CONTIGUOUS);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer,"SIZE " HSIZE_T_FORMAT, storage_size);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
ioffset = H5Dget_offset(obj_id);
h5tools_str_append(&buffer, "OFFSET "H5_PRINTF_HADDR_FMT, ioffset);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
}
ctx->indent_level--;
}
break;
case H5D_VIRTUAL:
{
char dsetname[256]; /* virtual datset name */
size_t vmaps;
H5Pget_virtual_count(dcpl_id, &vmaps);
if (vmaps) {
size_t next;
ssize_t ssize_out;
ctx->indent_level++;
for (next = 0; next < (unsigned) vmaps; next++) {
hid_t virtual_vspace = H5Pget_virtual_vspace(dcpl_id, next);
hid_t virtual_srcspace = H5Pget_virtual_srcspace(dcpl_id, next);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %ld %s ", VDS_MAPPING, next, BEGIN);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s", VDS_VIRTUAL, BEGIN);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->indent_level++;
h5tools_print_virtual_selection(virtual_vspace, stream, info, ctx, &buffer, &curr_pos, (size_t) ncols);
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s", VDS_SOURCE, BEGIN);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->indent_level++;
ssize_out = H5Pget_virtual_filename(dcpl_id, next, NULL, 0);
HDassert(ssize_out > 0);
HDassert((size_t)ssize_out < sizeof(name));
H5Pget_virtual_filename(dcpl_id, next, name, sizeof(name));
ssize_out = H5Pget_virtual_dsetname(dcpl_id, next, NULL, 0);
HDassert(ssize_out > 0);
HDassert((size_t)ssize_out < sizeof(name));
H5Pget_virtual_dsetname(dcpl_id, next, dsetname, sizeof(dsetname));
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s", VDS_SRC_FILE, h5tools_dump_header_format->virtualfilenamebegin);
h5tools_str_append(&buffer, "%s", name);
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->virtualfilenameend);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s", VDS_SRC_DATASET, h5tools_dump_header_format->virtualdatasetnamebegin);
h5tools_str_append(&buffer, "%s", dsetname);
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->virtualdatasetnameend);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
h5tools_print_virtual_selection(virtual_srcspace, stream, info, ctx, &buffer, &curr_pos, (size_t) ncols);
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
}
ctx->indent_level--;
}
}
break;
case H5D_LAYOUT_ERROR:
case H5D_NLAYOUTS:
default:
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", "Unknown layout");
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t) ncols, (hsize_t) 0, (hsize_t) 0);
}/*switch*/
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
/*-------------------------------------------------------------------------
* FILTERS
*-------------------------------------------------------------------------
*/
if (H5D_VIRTUAL != stl) {
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s", FILTERS, BEGIN);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level++;
if(nfilters) {
for(i = 0; i < nfilters; i++) {
cd_nelmts = NELMTS(cd_values);
filtn = H5Pget_filter2(dcpl_id, (unsigned)i, &filt_flags, &cd_nelmts,
cd_values, sizeof(f_name), f_name, NULL);
if(filtn < 0)
continue; /* nothing to print for invalid filter */
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
switch(filtn) {
case H5Z_FILTER_DEFLATE:
h5tools_str_append(&buffer, "%s %s %s %d %s", DEFLATE, BEGIN, DEFLATE_LEVEL, cd_values[0], END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
break;
case H5Z_FILTER_SHUFFLE:
h5tools_str_append(&buffer, "%s", SHUFFLE);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
break;
case H5Z_FILTER_FLETCHER32:
h5tools_str_append(&buffer, "%s", FLETCHER32);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
break;
case H5Z_FILTER_SZIP:
szip_options_mask = cd_values[0];;
szip_pixels_per_block = cd_values[1];
h5tools_str_append(&buffer, "%s %s", SZIP, BEGIN);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "PIXELS_PER_BLOCK %d", szip_pixels_per_block);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
if(szip_options_mask & H5_SZIP_CHIP_OPTION_MASK)
h5tools_str_append(&buffer, "MODE %s", "HARDWARE");
else if(szip_options_mask & H5_SZIP_ALLOW_K13_OPTION_MASK)
h5tools_str_append(&buffer, "MODE %s", "K13");
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
if(szip_options_mask & H5_SZIP_EC_OPTION_MASK)
h5tools_str_append(&buffer, "CODING %s", "ENTROPY");
else if(szip_options_mask & H5_SZIP_NN_OPTION_MASK)
h5tools_str_append(&buffer, "CODING %s", "NEAREST NEIGHBOUR");
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
if(szip_options_mask & H5_SZIP_LSB_OPTION_MASK)
h5tools_str_append(&buffer, "BYTE_ORDER %s", "LSB");
else if(szip_options_mask & H5_SZIP_MSB_OPTION_MASK)
h5tools_str_append(&buffer, "BYTE_ORDER %s", "MSB");
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
if(szip_options_mask & H5_SZIP_RAW_OPTION_MASK) {
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "HEADER %s", "RAW");
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
}
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
break;
case H5Z_FILTER_NBIT:
h5tools_str_append(&buffer, "%s", NBIT);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
break;
case H5Z_FILTER_SCALEOFFSET:
h5tools_str_append(&buffer, "%s %s %s %d %s", SCALEOFFSET, BEGIN, SCALEOFFSET_MINBIT, cd_values[0], END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
break;
default:
h5tools_str_append(&buffer, "%s %s", "USER_DEFINED_FILTER", BEGIN);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "FILTER_ID %d", filtn);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
if(f_name[0] != '\0') {
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "COMMENT %s", f_name);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
}
if (cd_nelmts) {
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s ","PARAMS", BEGIN);
for (j=0; j<cd_nelmts; j++)
h5tools_str_append(&buffer, "%d ", cd_values[j]);
h5tools_str_append(&buffer, "%s", END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
}
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s",END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
break;
}/*switch*/
} /*i*/
}/*nfilters*/
else {
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "NONE");
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
}
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s",END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
} /* end if (H5D_VIRTUAL != stl) */
/*-------------------------------------------------------------------------
* FILLVALUE
*-------------------------------------------------------------------------
*/
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s", FILLVALUE, BEGIN);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "FILL_TIME ");
H5Pget_fill_time(dcpl_id, &ft);
switch(ft) {
case H5D_FILL_TIME_ALLOC:
h5tools_str_append(&buffer, "%s", "H5D_FILL_TIME_ALLOC");
break;
case H5D_FILL_TIME_NEVER:
h5tools_str_append(&buffer, "%s", "H5D_FILL_TIME_NEVER");
break;
case H5D_FILL_TIME_IFSET:
h5tools_str_append(&buffer, "%s", "H5D_FILL_TIME_IFSET");
break;
case H5D_FILL_TIME_ERROR:
default:
HDassert(0);
break;
}
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s ", "VALUE ");
H5Pfill_value_defined(dcpl_id, &fvstatus);
switch (fvstatus) {
case H5D_FILL_VALUE_UNDEFINED:
h5tools_str_append(&buffer, "%s", "H5D_FILL_VALUE_UNDEFINED");
break;
case H5D_FILL_VALUE_DEFAULT:
h5tools_str_append(&buffer, "%s", "H5D_FILL_VALUE_DEFAULT");
break;
case H5D_FILL_VALUE_USER_DEFINED:
ctx->indent_level--;
h5tools_print_fill_value(&buffer, info, ctx, dcpl_id, type_id, obj_id);
ctx->indent_level++;
break;
case H5D_FILL_VALUE_ERROR:
default:
HDassert(0);
break;
}
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
/*-------------------------------------------------------------------------
* ALLOCATION_TIME
*-------------------------------------------------------------------------
*/
if (H5D_VIRTUAL != stl) {
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "ALLOCATION_TIME %s", BEGIN);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
H5Pget_alloc_time(dcpl_id, &at);
switch(at) {
case H5D_ALLOC_TIME_EARLY:
h5tools_str_append(&buffer, "%s", "H5D_ALLOC_TIME_EARLY");
break;
case H5D_ALLOC_TIME_INCR:
h5tools_str_append(&buffer, "%s", "H5D_ALLOC_TIME_INCR");
break;
case H5D_ALLOC_TIME_LATE:
h5tools_str_append(&buffer, "%s", "H5D_ALLOC_TIME_LATE");
break;
case H5D_ALLOC_TIME_ERROR:
case H5D_ALLOC_TIME_DEFAULT:
default:
HDassert(0);
break;
}
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s", END);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
} /* end if (H5D_VIRTUAL != stl) */
h5tools_str_close(&buffer);
}
/*-------------------------------------------------------------------------
* Function: dump_comment
*
* Purpose: prints the comment for the the object name
*
* Return: void
*
*-------------------------------------------------------------------------
*/
void
h5tools_dump_comment(FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx, hid_t obj_id)
{
char *comment = NULL;
ssize_t cmt_bufsize = -1;
size_t buf_size = 0;
size_t ncols = 80; /* available output width */
h5tools_str_t buffer; /* string into which to render */
hsize_t curr_pos = ctx->sm_pos; /* total data element position */
/* pass to the prefix in h5tools_simple_prefix the total position
* instead of the current stripmine position i; this is necessary
* to print the array indices
*/
/* setup */
HDmemset(&buffer, 0, sizeof(h5tools_str_t));
if (info->line_ncols > 0)
ncols = info->line_ncols;
cmt_bufsize = H5Oget_comment(obj_id, comment, buf_size);
/* call H5Oget_comment again with the correct value.
* If the call to H5Oget_comment returned an error, skip this block */
if (cmt_bufsize > 0) {
comment = (char *)HDmalloc((size_t)(cmt_bufsize+1)); /* new_size including null terminator */
if(comment) {
cmt_bufsize = H5Oget_comment(obj_id, comment, (size_t)cmt_bufsize);
if(cmt_bufsize > 0) {
comment[cmt_bufsize] = '\0'; /* necessary because null char is not returned */
ctx->need_prefix = TRUE;
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "COMMENT \"%s\"", comment);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
h5tools_str_close(&buffer);
} /* end if */
HDfree(comment);
}
}
} /* end dump_comment() */
/*-------------------------------------------------------------------------
* Function: dump_attribute
*
* Purpose: Dump the attribute.
*
* Return: void
*
* In/Out: h5tools_context_t *ctx
*-------------------------------------------------------------------------
*/
void
h5tools_dump_attribute(FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx, const char *attr_name, hid_t attr_id,
int display_index, int display_char)
{
h5tools_str_t buffer; /* string into which to render */
size_t ncols = 80; /* available output width */
hsize_t curr_pos = ctx->sm_pos; /* total data element position */
/* pass to the prefix in h5tools_simple_prefix the total position
* instead of the current stripmine position i; this is necessary
* to print the array indices
*/
/* setup */
HDmemset(&buffer, 0, sizeof(h5tools_str_t));
if (info->line_ncols > 0)
ncols = info->line_ncols;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s \"%s\" %s",
h5tools_dump_header_format->attributebegin, attr_name,
h5tools_dump_header_format->attributeblockbegin);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
if(attr_id < 0) {
error_msg("unable to open attribute \"%s\"\n", attr_name);
}
else {
hid_t type, space;
ctx->indent_level++;
type = H5Aget_type(attr_id);
h5tools_dump_datatype(stream, info, ctx, type);
space = H5Aget_space(attr_id);
h5tools_dump_dataspace(stream, info, ctx, space);
if(oid_output)
h5tools_dump_oid(stream, info, ctx, attr_id);
if(data_output || attr_data_output)
h5tools_dump_data(stream, info, ctx, attr_id, FALSE, NULL, display_index, display_char);
ctx->indent_level--;
H5Tclose(type);
H5Sclose(space);
H5Aclose(attr_id);
}
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(&buffer);
if (HDstrlen(h5tools_dump_header_format->attributeblockend)) {
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->attributeblockend);
if (HDstrlen(h5tools_dump_header_format->attributeend))
h5tools_str_append(&buffer, " ");
}
if (HDstrlen(h5tools_dump_header_format->attributeend))
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->attributeend);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
h5tools_str_close(&buffer);
}
/*-------------------------------------------------------------------------
* Function: dump_dims
*
* Purpose: Dump the dimensions handed to it in a comma separated list
*
* Return: void
*
* Programmer: Bill Wendling
* Tuesday, 27. February 2001
*
* Modifications:
*
*-------------------------------------------------------------------------
*/
void
h5tools_print_dims(h5tools_str_t *buffer, hsize_t *s, int dims)
{
int i;
for (i = 0; i < dims; i++) {
h5tools_str_append(buffer, HSIZE_T_FORMAT, s[i]);
if (i + 1 != dims)
h5tools_str_append(buffer, ", ");
}
}
/*-------------------------------------------------------------------------
* Function: print_packed_bits
*
* Purpose: Prints the packed bits offset and length
*
* Return: void
*
*-------------------------------------------------------------------------
*/
void
h5tools_print_packed_bits(h5tools_str_t *buffer, hid_t type)
{
unsigned packed_bits_size = 0;
hid_t n_type = h5tools_get_native_type(type);
if(H5Tget_class(n_type) == H5T_INTEGER) {
if(H5Tequal(n_type, H5T_NATIVE_SCHAR) == TRUE)
packed_bits_size = 8 * sizeof(char);
else if(H5Tequal(n_type, H5T_NATIVE_UCHAR) == TRUE)
packed_bits_size = 8 * sizeof(unsigned char);
else if(H5Tequal(n_type, H5T_NATIVE_SHORT) == TRUE)
packed_bits_size = 8 * sizeof(short);
else if(H5Tequal(n_type, H5T_NATIVE_USHORT) == TRUE)
packed_bits_size = 8 * sizeof(unsigned short);
else if(H5Tequal(n_type, H5T_NATIVE_INT) == TRUE)
packed_bits_size = 8 * sizeof(int);
else if(H5Tequal(n_type, H5T_NATIVE_UINT) == TRUE)
packed_bits_size = 8 * sizeof(unsigned int);
else if(H5Tequal(n_type, H5T_NATIVE_LONG) == TRUE)
packed_bits_size = 8 * sizeof(long);
else if(H5Tequal(n_type, H5T_NATIVE_ULONG) == TRUE)
packed_bits_size = 8 * sizeof(unsigned long);
else if(H5Tequal(n_type, H5T_NATIVE_LLONG) == TRUE)
packed_bits_size = 8 * sizeof(long long);
else if(H5Tequal(n_type, H5T_NATIVE_ULLONG) == TRUE)
packed_bits_size = 8 * sizeof(unsigned long long);
else
error_msg("Packed Bit not valid for this datatype");
}
if((packed_bits_size > 0) && (packed_data_offset + packed_data_length) > packed_bits_size) {
error_msg("Packed Bit offset+length value(%u) too large. Max is %d\n", packed_data_offset + packed_data_length, packed_bits_size);
packed_data_mask = 0;
};
h5tools_str_append(buffer, "%s %s=%u %s=%u", PACKED_BITS, PACKED_OFFSET, packed_data_offset, PACKED_LENGTH, packed_data_length);
}
/*-------------------------------------------------------------------------
* Function: dump_subsetting_header
*
* Purpose: Dump the subsetting header like specified in the DDL.
*
* Return: void
*
* Programmer: Bill Wendling
* Tuesday, 27. February 2001
*
* Modifications:
*
*-------------------------------------------------------------------------
*/
void
h5tools_dump_subsetting_header(FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx, struct subset_t *sset, int dims)
{
h5tools_str_t buffer; /* string into which to render */
hsize_t curr_pos = 0; /* total data element position */
size_t ncols = 80; /* available output width */
/* setup */
HDmemset(&buffer, 0, sizeof(h5tools_str_t));
if (info->line_ncols > 0)
ncols = info->line_ncols;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s", h5tools_dump_header_format->subsettingbegin, h5tools_dump_header_format->subsettingblockbegin);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level++;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s ", h5tools_dump_header_format->startbegin, h5tools_dump_header_format->startblockbegin);
h5tools_print_dims(&buffer, sset->start.data, dims);
h5tools_str_append(&buffer, "%s %s", h5tools_dump_header_format->startend, h5tools_dump_header_format->startblockend);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s ", h5tools_dump_header_format->stridebegin, h5tools_dump_header_format->strideblockbegin);
h5tools_print_dims(&buffer, sset->stride.data, dims);
h5tools_str_append(&buffer, "%s %s", h5tools_dump_header_format->strideend, h5tools_dump_header_format->strideblockend);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s ", h5tools_dump_header_format->countbegin, h5tools_dump_header_format->countblockbegin);
if(sset->count.data)
h5tools_print_dims(&buffer, sset->count.data, dims);
else
h5tools_str_append(&buffer, "DEFAULT");
h5tools_str_append(&buffer, "%s %s", h5tools_dump_header_format->countend, h5tools_dump_header_format->countblockend);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, info, ctx, (hsize_t)0, 0);
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s ", h5tools_dump_header_format->blockbegin, h5tools_dump_header_format->blockblockbegin);
if(sset->block.data)
h5tools_print_dims(&buffer, sset->block.data, dims);
else
h5tools_str_append(&buffer, "DEFAULT");
h5tools_str_append(&buffer, "%s %s", h5tools_dump_header_format->blockend, h5tools_dump_header_format->blockblockend);
h5tools_render_element(stream, info, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
ctx->indent_level--;
h5tools_str_close(&buffer);
}
/*-------------------------------------------------------------------------
* Function: dump_data
*
* Purpose: Dump attribute or dataset data
*
* Return: void
*
*-------------------------------------------------------------------------
*/
void
h5tools_dump_data(FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx, hid_t obj_id, int obj_data, struct subset_t *sset,
int display_index, int display_char)
{
H5S_class_t space_type;
int ndims;
int i;
hid_t space;
hid_t type;
hid_t p_type;
hsize_t size[64];
hsize_t alloc_size;
hsize_t nelmts = 1;
int status = -1;
void *buf = NULL;
h5tools_str_t buffer; /* string into which to render */
hsize_t curr_pos = 0; /* total data element position */
size_t ncols = 80; /* available output width */
h5tool_format_t string_dataformat;
h5tool_format_t outputformat;
/* setup */
HDmemset(&buffer, 0, sizeof(h5tools_str_t));
if (info->line_ncols > 0)
ncols = info->line_ncols;
outputformat = *info;
string_dataformat = *info;
/* print the matrix indices */
string_dataformat.pindex = display_index;
/* do not print indices for regions */
if(obj_data) {
hid_t f_type = H5Dget_type(obj_id);
if (H5Tequal(f_type, H5T_STD_REF_DSETREG)) {
/* For the region option, correct the display of indices */
if (region_output) {
if (!string_dataformat.pindex) {
string_dataformat.idx_fmt = "";
string_dataformat.idx_n_fmt = "";
string_dataformat.idx_sep = "";
string_dataformat.line_pre = "";
}
}
else
string_dataformat.pindex = 0;
}
H5Tclose(f_type);
}
if (string_dataformat.pindex) {
string_dataformat.idx_fmt = "(%s): ";
string_dataformat.idx_n_fmt = HSIZE_T_FORMAT;
string_dataformat.idx_sep = ",";
string_dataformat.line_pre = "%s";
}
info = &string_dataformat;
if (sset && obj_data) {
hid_t f_space = H5Dget_space(obj_id);
h5tools_dump_subsetting_header(stream, &outputformat, ctx, sset, H5Sget_simple_extent_ndims(f_space));
H5Sclose(f_space);
ctx->indent_level++;
}
ctx->need_prefix = TRUE;
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "%s %s", h5tools_dump_header_format->databegin, h5tools_dump_header_format->datablockbegin);
h5tools_render_element(stream, &outputformat, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
/* Print all the values. */
if(obj_data) {
h5tools_context_t datactx = *ctx; /* print context */
hid_t f_type = H5Dget_type(obj_id);
if((display_char && H5Tget_size(f_type) == 1) && (H5Tget_class(f_type) == H5T_INTEGER)) {
/*
* Print 1-byte integer data as an ASCII character string
* instead of integers if the `-r' or `--string' command-line
* option was given.
*
* We don't want to modify the global dataformat, so make a
* copy of it instead.
*/
string_dataformat = *info;
string_dataformat.idx_fmt = "\"";
info = &string_dataformat;
datactx.indent_level++;
datactx.need_prefix = TRUE;
h5tools_simple_prefix(stream, info, &datactx, (hsize_t)0, 0);
string_dataformat = *info;
string_dataformat.idx_fmt = "\"";
string_dataformat.line_multi_new = 1;
string_dataformat.str_repeat = 8;
string_dataformat.ascii = TRUE;
string_dataformat.elmt_suf1 = "";
string_dataformat.elmt_suf2 = "";
string_dataformat.line_suf = "\"";
info = &string_dataformat;
}
else
datactx.need_prefix = TRUE;
status = h5tools_dump_dset(stream, info, &datactx, obj_id, sset);
if((display_char && H5Tget_size(f_type) == 1) && (H5Tget_class(f_type) == H5T_INTEGER)) {
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "\"");
h5tools_render_element(stream, &outputformat, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
}
H5Tclose(f_type);
}
else {
h5tools_context_t datactx = *ctx; /* print context */
/* need to call h5tools_dump_mem for the attribute data */
space = H5Aget_space(obj_id);
space_type = H5Sget_simple_extent_type(space);
if(space_type == H5S_NULL || space_type == H5S_NO_CLASS) {
status = SUCCEED;
}
else {
/* VL data special information */
unsigned int vl_data = 0; /* contains VL datatypes */
type = H5Aget_type(obj_id);
p_type = h5tools_get_native_type(type);
ndims = H5Sget_simple_extent_dims(space, size, NULL);
/* Check if we have VL data in the dataset's datatype */
if (h5tools_detect_vlen(p_type) == TRUE)
vl_data = TRUE;
for (i = 0; i < ndims; i++)
nelmts *= size[i];
alloc_size = nelmts * MAX(H5Tget_size(type), H5Tget_size(p_type));
HDassert(alloc_size == (hsize_t)((size_t)alloc_size)); /*check for overflow*/
if(alloc_size) {
buf = HDmalloc((size_t)alloc_size);
HDassert(buf);
if (H5Aread(obj_id, p_type, buf) >= 0) {
if (display_char && H5Tget_size(type) == 1 && H5Tget_class(type) == H5T_INTEGER) {
/*
* Print 1-byte integer data as an ASCII character string
* instead of integers if the `-r' or `--string' command-line
* option was given.
*
* We don't want to modify the global dataformat, so make a
* copy of it instead.
*/
string_dataformat = *info;
string_dataformat.idx_fmt = "\"";
info = &string_dataformat;
datactx.indent_level++;
datactx.need_prefix = TRUE;
h5tools_simple_prefix(stream, info, &datactx, (hsize_t)0, 0);
string_dataformat = *info;
string_dataformat.idx_fmt = "\"";
string_dataformat.line_multi_new = 1;
string_dataformat.str_repeat = 8;
string_dataformat.ascii = TRUE;
string_dataformat.elmt_suf1 = "";
string_dataformat.elmt_suf2 = "";
string_dataformat.line_suf = "\"";
info = &string_dataformat;
}
else
datactx.need_prefix = TRUE;
}
status = h5tools_dump_mem(stream, info, &datactx, obj_id, p_type, space, buf);
if (display_char && H5Tget_size(type) == 1 && H5Tget_class(type) == H5T_INTEGER) {
h5tools_str_reset(&buffer);
h5tools_str_append(&buffer, "\"");
h5tools_render_element(stream, &outputformat, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
}
/* Reclaim any VL memory, if necessary */
if (vl_data)
H5Dvlen_reclaim(p_type, space, H5P_DEFAULT, buf);
HDfree(buf);
}
else
status = SUCCEED;
H5Tclose(p_type);
H5Tclose(type);
}
H5Sclose(space);
}
if (status == FAIL) {
error_msg("unable to print data\n");
h5tools_setstatus(EXIT_FAILURE);
}
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, &outputformat, ctx, (hsize_t)0, 0);
h5tools_str_reset(&buffer);
if(HDstrlen(h5tools_dump_header_format->datablockend)) {
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->datablockend);
if(HDstrlen(h5tools_dump_header_format->dataend))
h5tools_str_append(&buffer, " ");
}
if(HDstrlen(h5tools_dump_header_format->dataend))
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->dataend);
h5tools_render_element(stream, &outputformat, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
if (sset && obj_data) {
ctx->indent_level--;
ctx->need_prefix = TRUE;
h5tools_simple_prefix(stream, &outputformat, ctx, (hsize_t)0, 0);
h5tools_str_reset(&buffer);
if(HDstrlen(h5tools_dump_header_format->subsettingblockend)) {
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->subsettingblockend);
if(HDstrlen(h5tools_dump_header_format->subsettingend))
h5tools_str_append(&buffer, " ");
}
if(HDstrlen(h5tools_dump_header_format->subsettingend))
h5tools_str_append(&buffer, "%s", h5tools_dump_header_format->subsettingend);
h5tools_render_element(stream, &outputformat, ctx, &buffer, &curr_pos, (size_t)ncols, (hsize_t)0, (hsize_t)0);
}
h5tools_str_close(&buffer);
}
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