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hdf5/tools/lib/h5tools.c
Scot Breitenfeld aec106e324 [svn-r14903] Undoing change committed in r14902.
2008-04-30 14:51:13 -05:00

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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_ref.h"
#include "h5tools_str.h"
#include "h5tools_utils.h"
#include "H5private.h"
#define SANITY_CHECK
#define ALIGN(A,Z) ((((A) + (Z) - 1) / (Z)) * (Z))
/* global variables */
int compound_data;
FILE *rawdatastream; /* should initialize to stdout but gcc moans about it */
int bin_output; /* binary output */
int bin_form; /* binary form */
/* local prototypes */
static int do_bin_output(FILE *stream, hsize_t nelmts, hid_t tid, void *_mem);
static int render_bin_output(FILE *stream, hid_t tid, void *_mem);
/* module-scoped variables */
static int h5tools_init_g; /* if h5tools lib has been initialized */
#ifdef H5_HAVE_PARALLEL
static int h5tools_mpi_init_g; /* if MPI_Init() has been called */
#endif /* H5_HAVE_PARALLEL */
/* Names of VFDs */
static const char *drivernames[]={
"sec2",
"family",
"split",
"multi",
#ifdef H5_HAVE_STREAM
"stream",
#endif /* H5_HAVE_STREAM */
#ifdef H5_HAVE_PARALLEL
"mpio",
"mpiposix"
#endif /* H5_HAVE_PARALLEL */
};
/* This enum should match the entries in the above drivers_list since they
* are indexes into the drivers_list array. */
enum {
SEC2_IDX = 0
,FAMILY_IDX
,SPLIT_IDX
,MULTI_IDX
#ifdef H5_HAVE_STREAM
,STREAM_IDX
#endif /* H5_HAVE_STREAM */
#ifdef H5_HAVE_PARALLEL
,MPIO_IDX
,MPIPOSIX_IDX
#endif /* H5_HAVE_PARALLEL */
} driver_idx;
#define NUM_DRIVERS (sizeof(drivernames) / sizeof(drivernames[0]))
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Initialize the H5 Tools library
* Description:
* This should be called before any other h5tools function is called.
* Effect of any h5tools function called before this has been called is
* undetermined.
* Return:
* None
* Programmer:
* Albert Cheng, 2000-10-31
* Modifications:
*-------------------------------------------------------------------------
*/
void
h5tools_init(void)
{
if (!h5tools_init_g) {
if (!rawdatastream)
rawdatastream = stdout;
h5tools_init_g++;
}
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Close the H5 Tools library
* Description:
* Close or release resources such as files opened by the library. This
* should be called after all other h5tools functions have been called.
* Effect of any h5tools function called after this has been called is
* undetermined.
* Return:
* None
* Programmer:
* Albert Cheng, 2000-10-31
* Modifications:
*-------------------------------------------------------------------------
*/
void
h5tools_close(void)
{
if (h5tools_init_g) {
if (rawdatastream && rawdatastream != stdout) {
if (fclose(rawdatastream))
perror("closing rawdatastream");
else
rawdatastream = NULL;
}
/* Clean up the reference path table, if it's been used */
term_ref_path_table();
/* Shut down the library */
H5close();
h5tools_init_g = 0;
}
}
/*-------------------------------------------------------------------------
* Audience: Private
* Chapter: H5Tools Library
* Purpose: Get a FAPL for a driver
* Description:
* Get a FAPL for a given VFL driver name.
* Return:
* None
* Programmer:
* Quincey Koziol, 2004-02-04
* Modifications:
* Pedro Vicente Nunes, Thursday, July 27, 2006
* Added error return conditions for the H5Pset_fapl calls
*-------------------------------------------------------------------------
*/
static hid_t
h5tools_get_fapl(hid_t fapl, const char *driver, unsigned *drivernum)
{
hid_t new_fapl; /* Copy of file access property list passed in, or new property list */
/* Make a copy of the FAPL, for the file open call to use, eventually */
if(fapl == H5P_DEFAULT) {
if((new_fapl = H5Pcreate(H5P_FILE_ACCESS)) < 0)
goto error;
} /* end if */
else {
if((new_fapl = H5Pcopy(fapl)) < 0)
goto error;
} /* end else */
/* Determine which driver the user wants to open the file with. Try
* that driver. If it can't open it, then fail. */
if(!strcmp(driver, drivernames[SEC2_IDX])) {
/* SEC2 driver */
if(H5Pset_fapl_sec2(new_fapl) < 0)
goto error;
if(drivernum)
*drivernum = SEC2_IDX;
} else if(!strcmp(driver, drivernames[FAMILY_IDX])) {
/* FAMILY Driver */
/* Set member size to be 0 to indicate the current first member size
* is the member size.
*/
if(H5Pset_fapl_family(new_fapl, (hsize_t)0, H5P_DEFAULT) < 0)
goto error;
if(drivernum)
*drivernum = FAMILY_IDX;
} else if(!strcmp(driver, drivernames[SPLIT_IDX])) {
/* SPLIT Driver */
if(H5Pset_fapl_split(new_fapl, "-m.h5", H5P_DEFAULT, "-r.h5", H5P_DEFAULT) < 0)
goto error;
if(drivernum)
*drivernum = SPLIT_IDX;
} else if(!strcmp(driver, drivernames[MULTI_IDX])) {
/* MULTI Driver */
if(H5Pset_fapl_multi(new_fapl, NULL, NULL, NULL, NULL, TRUE) < 0)
goto error;
if(drivernum)
*drivernum = MULTI_IDX;
#ifdef H5_HAVE_STREAM
} else if(!strcmp(driver, drivernames[STREAM_IDX])) {
/* STREAM Driver */
if(H5Pset_fapl_stream(new_fapl, NULL) < 0)
goto error;
if(drivernum)
*drivernum = STREAM_IDX;
#endif /* H5_HAVE_STREAM */
#ifdef H5_HAVE_PARALLEL
} else if(!strcmp(driver, drivernames[MPIO_IDX])) {
/* MPI-I/O Driver */
/* check if MPI has been initialized. */
if(!h5tools_mpi_init_g)
MPI_Initialized(&h5tools_mpi_init_g);
if(h5tools_mpi_init_g) {
if(H5Pset_fapl_mpio(new_fapl, MPI_COMM_WORLD, MPI_INFO_NULL) < 0)
goto error;
if(drivernum)
*drivernum = MPIO_IDX;
} /* end if */
} else if (!strcmp(driver, drivernames[MPIPOSIX_IDX])) {
/* MPI-I/O Driver */
/* check if MPI has been initialized. */
if(!h5tools_mpi_init_g)
MPI_Initialized(&h5tools_mpi_init_g);
if(h5tools_mpi_init_g) {
if(H5Pset_fapl_mpiposix(new_fapl, MPI_COMM_WORLD, TRUE) < 0)
goto error;
if(drivernum)
*drivernum = MPIPOSIX_IDX;
} /* end if */
#endif /* H5_HAVE_PARALLEL */
} else {
goto error;
}
return(new_fapl);
error:
if(new_fapl != H5P_DEFAULT)
H5Pclose(new_fapl);
return -1;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Open a file with various VFL drivers.
* Description:
* Loop through the various types of VFL drivers trying to open FNAME.
* If the HDF5 library is version 1.2 or less, then we have only the SEC2
* driver to try out. If the HDF5 library is greater than version 1.2,
* then we have the FAMILY, SPLIT, and MULTI drivers to play with (and
* the STREAM driver if H5_HAVE_STREAM is defined, that is).
*
* If DRIVER is non-NULL, then it will try to open the file with that
* driver first. We assume that the user knows what they are doing so, if
* we fail, then we won't try other file drivers.
* Return:
* On success, returns a file id for the opened file. If DRIVERNAME is
* non-null then the first DRIVERNAME_SIZE-1 characters of the driver
* name are copied into the DRIVERNAME array and null terminated.
*
* Otherwise, the function returns FAIL. If DRIVERNAME is non-null then
* the first byte is set to the null terminator.
* Programmer:
* Lost in the mists of time.
* Modifications:
* Robb Matzke, 2000-06-23
* We only have to initialize driver[] on the first call, thereby
* preventing memory leaks from repeated calls to H5Pcreate().
*
* Robb Matzke, 2000-06-23
* Added DRIVERNAME_SIZE arg to prevent overflows when writing to
* DRIVERNAME.
*
* Robb Matzke, 2000-06-23
* Added test to prevent coredump when the file could not be opened by
* any driver.
*
* Robb Matzke, 2000-06-23
* Changed name from H5ToolsFopen() so it jives better with the names we
* already have at the top of this source file.
*
* Thomas Radke, 2000-09-12
* Added Stream VFD to the driver[] array.
*
* Bill Wendling, 2001-01-10
* Changed macro behavior so that if we have a version other than 1.2.x
* (i.e., > 1.2), then we do the drivers check.
*
* Bill Wendling, 2001-07-30
* Added DRIVER parameter so that the user can specify "try this driver"
* instead of the default behaviour. If it fails to open the file with
* that driver, this will fail completely (i.e., we won't try the other
* drivers). We're assuming the user knows what they're doing. How UNIX
* of us.
*-------------------------------------------------------------------------
*/
hid_t
h5tools_fopen(const char *fname, unsigned flags, hid_t fapl, const char *driver,
char *drivername, size_t drivername_size)
{
unsigned drivernum;
hid_t fid = FAIL;
hid_t my_fapl = H5P_DEFAULT;
if(driver && *driver) {
/* Get the correct FAPL for the given driver */
if((my_fapl = h5tools_get_fapl(fapl, driver, &drivernum)) < 0)
goto done;
H5E_BEGIN_TRY {
fid = H5Fopen(fname, flags, my_fapl);
} H5E_END_TRY;
if(fid == FAIL)
goto done;
} else {
/* Try to open the file using each of the drivers */
for(drivernum = 0; drivernum < NUM_DRIVERS; drivernum++) {
/* Get the correct FAPL for the given driver */
if((my_fapl = h5tools_get_fapl(fapl, drivernames[drivernum], NULL)) < 0)
goto done;
H5E_BEGIN_TRY {
fid = H5Fopen(fname, flags, my_fapl);
} H5E_END_TRY;
if(fid != FAIL)
break;
else {
/* Close the FAPL */
H5Pclose(my_fapl);
my_fapl = H5P_DEFAULT;
} /* end else */
}
}
/* Save the driver name */
if(drivername && drivername_size) {
if(fid != FAIL) {
strncpy(drivername, drivernames[drivernum], drivername_size);
drivername[drivername_size - 1] = '\0';
} else {
/*no file opened*/
drivername[0] = '\0';
}
}
done:
if(my_fapl != H5P_DEFAULT)
H5Pclose(my_fapl);
return fid;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Count the number of columns in a string.
* Description:
* Count the number of columns in a string. This is the number of
* characters in the string not counting line-control characters.
* Return:
* On success, returns the width of the string. Otherwise this function
* returns 0.
* Programmer:
* Robb Matzke, Tuesday, April 27, 1999
* Modifications:
*-------------------------------------------------------------------------
*/
static size_t
h5tools_ncols(const char *s)
{
register size_t i;
for (i = 0; *s; s++)
if (*s >= ' ')
i++;
return i;
}
/*-------------------------------------------------------------------------
* Audience: Public
* Chapter: H5Tools Library
* Purpose: Emit a simple prefix to STREAM.
* Description:
* If /ctx->need_prefix/ is set then terminate the current line (if
* applicable), calculate the prefix string, and display it at the start
* of a line.
* Return:
* None
* Programmer:
* Robb Matzke, Monday, April 26, 1999
* Modifications:
* Robb Matzke, 1999-09-29
* If a new prefix is printed then the current element number is set back
* to zero.
* pvn, 2004-07-08
* Added support for printing array indices:
* the indentation is printed before the prefix (printed one indentation
* level before)
*-------------------------------------------------------------------------
*/
static void
h5tools_simple_prefix(FILE *stream, const h5tool_format_t *info,
h5tools_context_t *ctx, hsize_t elmtno, int secnum)
{
h5tools_str_t prefix;
h5tools_str_t str; /*temporary for indentation */
size_t templength = 0;
int i, indentlevel = 0;
if (!ctx->need_prefix)
return;
memset(&prefix, 0, sizeof(h5tools_str_t));
memset(&str, 0, sizeof(h5tools_str_t));
/* Terminate previous line, if any */
if (ctx->cur_column) {
fputs(OPT(info->line_suf, ""), stream);
putc('\n', stream);
fputs(OPT(info->line_sep, ""), stream);
}
/* Calculate new prefix */
h5tools_str_prefix(&prefix, info, elmtno, ctx->ndims, ctx->p_min_idx,
ctx->p_max_idx, ctx);
/* Write new prefix to output */
if (ctx->indent_level >= 0) {
indentlevel = ctx->indent_level;
} else {
/*
* This is because sometimes we don't print out all the header
* info for the data (like the tattr-2.ddl example). If that happens
* the ctx->indent_level is negative so we need to skip the above and
* just print out the default indent levels.
*/
indentlevel = ctx->default_indent_level;
}
/* when printing array indices, print the indentation before the prefix
the prefix is printed one indentation level before */
if (info->pindex) {
for (i = 0; i < indentlevel-1; i++){
fputs(h5tools_str_fmt(&str, 0, info->line_indent), stream);
}
}
if (elmtno == 0 && secnum == 0 && info->line_1st)
fputs(h5tools_str_fmt(&prefix, 0, info->line_1st), stream);
else if (secnum && info->line_cont)
fputs(h5tools_str_fmt(&prefix, 0, info->line_cont), stream);
else
fputs(h5tools_str_fmt(&prefix, 0, info->line_pre), stream);
templength = h5tools_str_len(&prefix);
for (i = 0; i < indentlevel; i++){
/*we already made the indent for the array indices case */
if (!info->pindex) {
fputs(h5tools_str_fmt(&prefix, 0, info->line_indent), stream);
templength += h5tools_str_len(&prefix);
}
else {
/*we cannot count the prefix for the array indices case */
templength += h5tools_str_len(&str);
}
}
ctx->cur_column = ctx->prev_prefix_len = templength;
ctx->cur_elmt = 0;
ctx->need_prefix = 0;
/* Free string */
h5tools_str_close(&prefix);
h5tools_str_close(&str);
}
/*-------------------------------------------------------------------------
* 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:
* None
* 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, THG, 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
*-------------------------------------------------------------------------
*/
void
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)
{
unsigned char *mem = (unsigned char*)_mem;
hsize_t i; /*element counter */
char *s;
char *section; /*a section of output */
int secnum; /*section sequence number */
size_t size; /*size of each datum */
size_t ncols = 80; /*available output width */
h5tools_str_t buffer; /*string into which to render */
int multiline; /*datum was multiline */
hsize_t curr_pos; /* total data element position */
int 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)
{
do_bin_output(stream, nelmts, type, _mem);
} /* 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;
h5tools_simple_prefix(stream, info, ctx, curr_pos, 0);
for (i = 0; i < nelmts; i++, ctx->cur_elmt++, elmt_counter++) {
/* Render the element */
h5tools_str_reset(&buffer);
h5tools_str_sprint(&buffer, info, container, type, mem + i * size, ctx);
if (i + 1 < nelmts || (flags & END_OF_DATA) == 0)
h5tools_str_append(&buffer, "%s", OPT(info->elmt_suf1, ","));
s = h5tools_str_fmt(&buffer, 0, "%s");
/*
* If the element would split on multiple lines if printed at our
* current location...
*/
if (info->line_multi_new == 1 &&
(ctx->cur_column + h5tools_ncols(s) +
strlen(OPT(info->elmt_suf2, " ")) +
strlen(OPT(info->line_suf, ""))) > ncols) {
if (ctx->prev_multiline) {
/*
* ... and the previous element also occupied more than one
* line, then start this element at the beginning of a line.
*/
ctx->need_prefix = TRUE;
} else if ((ctx->prev_prefix_len + h5tools_ncols(s) +
strlen(OPT(info->elmt_suf2, " ")) +
strlen(OPT(info->line_suf, ""))) <= ncols) {
/*
* ...but *could* fit on one line otherwise, then we
* should end the current line and start this element on its
* own line.
*/
ctx->need_prefix = TRUE;
}
}
/*
* We need to break after each row of a dimension---> we should
* break at the end of the each last dimension well that is the
* way the dumper did it before
*/
if (info->arr_linebreak && ctx->cur_elmt) {
if (ctx->size_last_dim && (ctx->cur_elmt % ctx->size_last_dim) == 0)
ctx->need_prefix = TRUE;
if ((hsize_t)elmt_counter == ctx->size_last_dim) {
ctx->need_prefix = TRUE;
elmt_counter = 0;
}
}
/*
* If the previous element occupied multiple lines and this element
* is too long to fit on a line then start this element at the
* beginning of the line.
*/
if (info->line_multi_new == 1 && ctx->prev_multiline &&
(ctx->cur_column + h5tools_ncols(s) +
strlen(OPT(info->elmt_suf2, " ")) +
strlen(OPT(info->line_suf, ""))) > ncols)
ctx->need_prefix = TRUE;
/*
* If too many elements have already been printed then we need to
* start a new line.
*/
if (info->line_per_line > 0 && ctx->cur_elmt >= info->line_per_line)
ctx->need_prefix = TRUE;
/*
* Each OPTIONAL_LINE_BREAK embedded in the rendered string can cause
* the data to split across multiple lines. We display the sections
* one-at a time.
*/
for (secnum = 0, multiline = 0;
(section = strtok(secnum ? NULL : s, OPTIONAL_LINE_BREAK));
secnum++) {
/*
* If the current section plus possible suffix and end-of-line
* information would cause the output to wrap then we need to
* start a new line.
*/
/*
* Added the info->skip_first because the dumper does not want
* this check to happen for the first line
*/
if ((!info->skip_first || i) &&
(ctx->cur_column + strlen(section) +
strlen(OPT(info->elmt_suf2, " ")) +
strlen(OPT(info->line_suf, ""))) > ncols)
ctx->need_prefix = 1;
/*
* Print the prefix or separate the beginning of this element
* from the previous element.
*/
if (ctx->need_prefix) {
if (secnum)
multiline++;
/* 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 + i;
h5tools_simple_prefix(stream, info, ctx, curr_pos, secnum);
} else if ((i || ctx->continuation) && secnum == 0) {
fputs(OPT(info->elmt_suf2, " "), stream);
ctx->cur_column += strlen(OPT(info->elmt_suf2, " "));
}
/* Print the section */
fputs(section, stream);
ctx->cur_column += strlen(section);
}
ctx->prev_multiline = multiline;
}
h5tools_str_close(&buffer);
}/* else bin */
}
/*-------------------------------------------------------------------------
* 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, hid_t dset,
hid_t p_type, struct subset_t *sset,
int indentlevel)
{
herr_t ret; /* the value to return */
hid_t f_space; /* file data space */
size_t i; /* counters */
size_t j; /* counters */
hsize_t n; /* counters */
hsize_t zero = 0; /* vector of zeros */
unsigned int flags; /* buffer extent flags */
hsize_t total_size[H5S_MAX_RANK];/* total size of dataset*/
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 */
h5tools_context_t ctx; /* print context */
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 */
hsize_t sm_nelmts; /* elements per stripmine*/
unsigned char *sm_buf = NULL; /* buffer for raw data */
hid_t sm_space; /* stripmine data space */
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;
hsize_t size_row_block; /* size for blocks along rows */
#if defined (SANITY_CHECK)
hsize_t total_points = 1; /* to print */
hsize_t printed_points = 0; /* printed */
#endif
ret = FAIL; /* be pessimistic */
f_space = H5Dget_space(dset);
if (f_space == FAIL)
goto done;
/*
* check that everything looks okay. the dimensionality must not be too
* great and the dimensionality of the items selected for printing must
* match the dimensionality of the dataset.
*/
memset(&ctx, 0, sizeof(ctx));
ctx.indent_level = indentlevel;
ctx.need_prefix = 1;
ctx.ndims = H5Sget_simple_extent_ndims(f_space);
if ((size_t)ctx.ndims > NELMTS(sm_size))
goto done_close;
/* 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);
ctx.size_last_dim = total_size[ctx.ndims - 1];
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++)
{
/* consider block size */
outer_count = outer_count * sset->count[ i ] * sset->block[ i ];
}
if(ctx.ndims>0)
init_acc_pos(&ctx,total_size);
/* calculate total number of points to print */
#if defined (SANITY_CHECK)
for (i = 0; i < (size_t)ctx.ndims; i++)
{
total_points *= sset->count[ i ] * sset->block[ i ];;
}
#endif
/* initialize temporary start, count and maximum start */
for (i = 0; i < (size_t)ctx.ndims; i++)
{
temp_start[ i ] = sset->start[ i ];
temp_count[ i ] = sset->count[ i ];
temp_block[ i ] = sset->block[ i ];
temp_stride[ i ] = sset->stride[ 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[ i ];
temp_count[ i ] = 1;
}
}
/* offset loop */
for (n = 0; n < outer_count; n++)
{
hsize_t row_counter = 0;
/* 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[ row_dim ] * sset->block[ 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[ row_dim ] > 1 )
temp_stride[ row_dim ] = 1;
}
/* for the 1D case */
else
{
count = 1;
}
size_row_block = sset->block[ row_dim ];
/* display loop */
for (; count > 0;
temp_start[ row_dim ] += temp_stride[ row_dim ],
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[ row_dim ] > sset->block[ row_dim ]
)
{
hsize_t increase_rows = sset->stride[ row_dim ] -
sset->block[ row_dim ];
temp_start[ row_dim ] += increase_rows;
row_counter = 0;
}
row_counter++;
/* calculate the potential number of elements we're going to print */
H5Sselect_hyperslab(f_space, H5S_SELECT_SET,
temp_start,
temp_stride,
temp_count,
temp_block);
sm_nelmts = H5Sget_select_npoints(f_space);
if (sm_nelmts == 0) {
/* nothing to print */
ret = SUCCEED;
goto done_close;
}
/*
* 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) {
sm_size[i - 1] = MIN(total_size[i - 1], H5TOOLS_BUFSIZE / sm_nbytes);
sm_nbytes *= sm_size[i - 1];
assert(sm_nbytes > 0);
}
assert(sm_nbytes == (hsize_t)((size_t)sm_nbytes)); /*check for overflow*/
sm_buf = malloc((size_t)sm_nelmts * p_type_nbytes);
sm_space = H5Screate_simple(1, &sm_nelmts, NULL);
H5Sselect_hyperslab(sm_space, H5S_SELECT_SET, &zero, NULL, &sm_nelmts, NULL);
/* read the data */
if (H5Dread(dset, p_type, sm_space, f_space, H5P_DEFAULT, sm_buf) < 0) {
H5Sclose(f_space);
H5Sclose(sm_space);
free(sm_buf);
return FAIL;
}
/* print the data */
flags = START_OF_DATA;
if (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 */
H5Sget_select_bounds(f_space,low,high);
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;
h5tools_dump_simple_data(stream, info, dset, &ctx, flags, sm_nelmts,
p_type, sm_buf);
free(sm_buf);
/* we need to jump to next line and update the index */
ctx.need_prefix = 1;
ctx.continuation++;
#if defined (SANITY_CHECK)
printed_points += sm_nelmts;
#endif
} /* count */
if (ctx.ndims > 2)
{
/* dimension for start */
current_outer_dim = (ctx.ndims - 2) -1;
/* set start to original from current_outer_dim up */
for (i = current_outer_dim + 1; i < ctx.ndims; i++)
{
temp_start[ i ] = sset->start[ i ];
}
/* increment start dimension */
do
{
reset_dim = 0;
temp_start[ current_outer_dim ]++;
if (temp_start[ current_outer_dim ] >= max_start[ current_outer_dim ])
{
temp_start[ current_outer_dim ] = sset->start[ current_outer_dim ];
/* consider block */
if ( sset->block[ current_outer_dim ] > 1 )
temp_start[ current_outer_dim ]++;
current_outer_dim--;
reset_dim = 1;
}
}
while (current_outer_dim >= 0 && reset_dim);
} /* ctx.ndims > 1 */
} /* outer_count */
#if defined (SANITY_CHECK)
assert( printed_points == total_points );
#endif
/* Terminate the output */
if (ctx.cur_column) {
fputs(OPT(info->line_suf, ""), stream);
putc('\n', stream);
fputs(OPT(info->line_sep, ""), stream);
}
ret = SUCCEED;
done_close:
H5Sclose(f_space);
done:
return ret;
}
/*-------------------------------------------------------------------------
* 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.
* Programmer:
* Robb Matzke, Thursday, July 23, 1998
* Modifications:
*-------------------------------------------------------------------------
*/
static int
h5tools_dump_simple_dset(FILE *stream, const h5tool_format_t *info, hid_t dset,
hid_t p_type, int indentlevel)
{
hid_t f_space; /* file data space */
hsize_t elmtno; /* counter */
size_t i; /* counter */
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 */
h5tools_context_t ctx; /* print context */
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; /* 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)
return FAIL;
/*
* Check that everything looks okay. The dimensionality must not be too
* great and the dimensionality of the items selected for printing must
* match the dimensionality of the dataset.
*/
memset(&ctx, 0, sizeof(ctx));
ctx.indent_level = indentlevel;
ctx.need_prefix = 1;
ctx.ndims = H5Sget_simple_extent_ndims(f_space);
if ((size_t)ctx.ndims > NELMTS(sm_size)) {
H5Sclose(f_space);
return FAIL;
}
/* 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) {
/* nothing to print */
H5Sclose(f_space);
return SUCCEED;
}
/* Check if we have VL data in the dataset's datatype */
if (H5Tdetect_class(p_type, H5T_VLEN) == 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) {
sm_size[i - 1] = MIN(total_size[i - 1], H5TOOLS_BUFSIZE / sm_nbytes);
sm_nbytes *= sm_size[i - 1];
assert(sm_nbytes > 0);
}
}
assert(sm_nbytes == (hsize_t)((size_t)sm_nbytes)); /*check for overflow*/
sm_buf = malloc((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 */
memset(hs_offset, 0, sizeof hs_offset);
memset(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) {
H5Sclose(f_space);
H5Sclose(sm_space);
free(sm_buf);
return FAIL;
}
/* 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;
h5tools_dump_simple_data(stream, info, dset, &ctx, flags, hs_nelmts,
p_type, sm_buf);
/* 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++;
}
/* Terminate the output */
if (ctx.cur_column) {
fputs(OPT(info->line_suf, ""), stream);
putc('\n', stream);
fputs(OPT(info->line_sep, ""), stream);
}
H5Sclose(sm_space);
H5Sclose(f_space);
free(sm_buf);
return SUCCEED;
}
/*-------------------------------------------------------------------------
* 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
*
* Programmer: Robb Matzke
* Thursday, July 23, 1998
*
* Modifications:
*
*-------------------------------------------------------------------------
*/
static int
h5tools_dump_simple_mem(FILE *stream, const h5tool_format_t *info, hid_t obj_id,
hid_t type, hid_t space, void *mem, int indentlevel)
{
int i; /*counters */
hsize_t nelmts; /*total selected elmts */
h5tools_context_t ctx; /*printing context */
/*
* Check that everything looks okay. The dimensionality must not be too
* great and the dimensionality of the items selected for printing must
* match the dimensionality of the dataset.
*/
memset(&ctx, 0, sizeof(ctx));
ctx.ndims = H5Sget_simple_extent_ndims(space);
if ((size_t)ctx.ndims > NELMTS(ctx.p_min_idx))
return FAIL;
ctx.indent_level = indentlevel;
ctx.need_prefix = 1;
/* 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)
return SUCCEED; /*nothing to print*/
if(ctx.ndims>0) {
assert(ctx.p_max_idx[ctx.ndims - 1]==(hsize_t)((int)ctx.p_max_idx[ctx.ndims - 1]));
ctx.size_last_dim = (int)(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);
/* Print it */
h5tools_dump_simple_data(stream, info, obj_id, &ctx,
START_OF_DATA | END_OF_DATA, nelmts, type, mem);
/* Terminate the output */
if (ctx.cur_column) {
fputs(OPT(info->line_suf, ""), stream);
putc('\n', stream);
fputs(OPT(info->line_sep, ""), stream);
}
return SUCCEED;
}
/*-------------------------------------------------------------------------
* 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
*
* Programmer: Robb Matzke
* Thursday, July 23, 1998
*
* 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, hid_t dset, hid_t _p_type,
struct subset_t *sset, int indentlevel)
{
hid_t f_space;
hid_t p_type = _p_type;
hid_t f_type;
H5S_class_t space_type;
int status = FAIL;
h5tool_format_t info_dflt;
/* Use default values */
if (!stream)
stream = stdout;
if (!info) {
memset(&info_dflt, 0, sizeof info_dflt);
info = &info_dflt;
}
if (p_type < 0) {
f_type = H5Dget_type(dset);
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);
H5Tclose(f_type);
if (p_type < 0)
goto done;
}
/* Check the data space */
f_space = H5Dget_space(dset);
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, dset, p_type,
indentlevel);
else
status = h5tools_dump_simple_subset(rawdatastream, info, dset, p_type,
sset, indentlevel);
} else /* space is H5S_NULL */
status = SUCCEED;
/* Close the dataspace */
H5Sclose(f_space);
done:
if (p_type != _p_type)
H5Tclose(p_type);
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
*
* Programmer: Robb Matzke
* Wednesday, January 20, 1999
*
* Modifications:
*
*-------------------------------------------------------------------------
*/
int
h5tools_dump_mem(FILE *stream, const h5tool_format_t *info, hid_t obj_id, hid_t type,
hid_t space, void *mem, int indentlevel)
{
h5tool_format_t info_dflt;
/* Use default values */
if (!stream)
stream = stdout;
if (!info) {
memset(&info_dflt, 0, sizeof(info_dflt));
info = &info_dflt;
}
/* Check the data space */
if (H5Sis_simple(space) <= 0)
return -1;
return h5tools_dump_simple_mem(stream, info, obj_id, type, space, mem,
indentlevel);
}
/*-------------------------------------------------------------------------
* Function: init_acc_pos
*
* Purpose: initialize accumulator and matrix position
*
* Return: void
*
* Programmer: pvn
*
* Modifications:
*
*-------------------------------------------------------------------------
*/
void init_acc_pos(h5tools_context_t *ctx, hsize_t *dims)
{
int i;
assert(ctx->ndims);
ctx->acc[ctx->ndims-1]=1;
for(i=(ctx->ndims-2); i>=0; i--)
{
ctx->acc[i]=ctx->acc[i+1] * dims[i+1];
}
for ( i = 0; i < ctx->ndims; i++)
ctx->pos[i]=0;
}
/*-------------------------------------------------------------------------
* Function: do_bin_output
*
* Purpose: Dump memory buffer to a binary file stream
*
* Return: Success: SUCCEED
* Failure: FAIL
*
* Programmer: Pedro Vicente Nunes
* Friday, June 2, 2006
*
* Modifications:
*
*-------------------------------------------------------------------------
*/
static
int do_bin_output(FILE *stream, hsize_t nelmts, hid_t tid, void *_mem)
{
unsigned char *mem = (unsigned char*)_mem;
size_t size; /* datum size */
hsize_t i; /* element counter */
size = H5Tget_size(tid);
for (i = 0; i < nelmts; i++)
{
if (render_bin_output(stream,tid,mem + i * size)<0)
{
printf("\nError in writing binary stream\n");
return FAIL;
}
}
return SUCCEED;
}
/*-------------------------------------------------------------------------
* Function: render_bin_output
*
* Purpose: Write one element of memory buffer to a binary file stream
*
* Return: Success: SUCCEED
* Failure: FAIL
*
* Programmer: Pedro Vicente Nunes
* Friday, June 2, 2006
*
* Modifications:
*
*-------------------------------------------------------------------------
*/
static
int render_bin_output(FILE *stream, hid_t tid, void *_mem)
{
unsigned char *mem = (unsigned char*)_mem;
size_t size; /* datum size */
float tempfloat;
double tempdouble;
unsigned long_long tempullong;
long_long templlong;
unsigned long tempulong;
long templong;
unsigned int tempuint;
int tempint;
unsigned short tempushort;
short tempshort;
unsigned char tempuchar;
char tempschar;
#if H5_SIZEOF_LONG_DOUBLE !=0
long double templdouble;
#endif
#ifdef DEBUG_H5DUMP_BIN
static char fmt_llong[8], fmt_ullong[8];
if (!fmt_llong[0]) {
sprintf(fmt_llong, "%%%sd", H5_PRINTF_LL_WIDTH);
sprintf(fmt_ullong, "%%%su", H5_PRINTF_LL_WIDTH);
}
#endif
size = H5Tget_size(tid);
if (H5Tequal(tid, H5T_NATIVE_FLOAT))
{
memcpy(&tempfloat, mem, sizeof(float));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%g ", tempfloat);
#else
if (1 != fwrite(&tempfloat, size, 1, stream))
return FAIL;
#endif
}
else if (H5Tequal(tid, H5T_NATIVE_DOUBLE))
{
memcpy(&tempdouble, mem, sizeof(double));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%g ", tempdouble);
#else
if (1 != fwrite(&tempdouble, size, 1, stream))
return FAIL;
#endif
}
#if H5_SIZEOF_LONG_DOUBLE !=0
else if (H5Tequal(tid, H5T_NATIVE_LDOUBLE))
{
memcpy(&templdouble, mem, sizeof(long double));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%Lf ", templdouble);
#else
if (1 != fwrite(&templdouble, size, 1, stream))
return FAIL;
#endif
}
#endif
else if (H5T_STRING == H5Tget_class(tid))
{
unsigned int i;
H5T_str_t pad;
char *s;
pad = H5Tget_strpad(tid);
if(H5Tis_variable_str(tid))
{
s = *(char**)mem;
if(s!=NULL)
size = HDstrlen(s);
}
else
{
s = (char *)mem;
size = H5Tget_size(tid);
}
for (i=0; i<size && (s[i] || pad!=H5T_STR_NULLTERM); i++)
{
memcpy(&tempuchar, &s[i], sizeof(unsigned char));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%d", tempuchar);
#else
if (1 != fwrite(&tempuchar, size, 1, stream))
return FAIL;
#endif
} /* i */
}
else if (H5Tequal(tid, H5T_NATIVE_INT))
{
memcpy(&tempint, mem, sizeof(int));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%d ", tempint);
#else
if (1 != fwrite(&tempint, size, 1, stream))
return FAIL;
#endif
}
else if (H5Tequal(tid, H5T_NATIVE_UINT))
{
memcpy(&tempuint, mem, sizeof(unsigned int));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%u ", tempuint);
#else
if (1 != fwrite(&tempuint, size, 1, stream))
return FAIL;
#endif
}
else if (H5Tequal(tid, H5T_NATIVE_SCHAR))
{
memcpy(&tempschar, mem, sizeof(char));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%d ", tempschar);
#else
if (1 != fwrite(&tempschar, size, 1, stream))
return FAIL;
#endif
}
else if (H5Tequal(tid, H5T_NATIVE_UCHAR))
{
memcpy(&tempuchar, mem, sizeof(unsigned char));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%u ", tempuchar);
#else
if (1 != fwrite(&tempuchar, size, 1, stream))
return FAIL;
#endif
}
else if (H5Tequal(tid, H5T_NATIVE_SHORT))
{
memcpy(&tempshort, mem, sizeof(short));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%d ", tempshort);
#else
if (1 != fwrite(&tempshort, size, 1, stream))
return FAIL;
#endif
}
else if (H5Tequal(tid, H5T_NATIVE_USHORT))
{
memcpy(&tempushort, mem, sizeof(unsigned short));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%u ", tempushort);
#else
if (1 != fwrite(&tempushort, size, 1, stream))
return FAIL;
#endif
}
else if (H5Tequal(tid, H5T_NATIVE_LONG))
{
memcpy(&templong, mem, sizeof(long));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%ld ", templong);
#else
if (1 != fwrite(&templong, size, 1, stream))
return FAIL;
#endif
}
else if (H5Tequal(tid, H5T_NATIVE_ULONG))
{
memcpy(&tempulong, mem, sizeof(unsigned long));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%lu ", tempulong);
#else
if (1 != fwrite(&tempulong, size, 1, stream))
return FAIL;
#endif
}
else if (H5Tequal(tid, H5T_NATIVE_LLONG))
{
memcpy(&templlong, mem, sizeof(long_long));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, fmt_llong, templlong);
#else
if (1 != fwrite(&templlong, size, 1, stream))
return FAIL;
#endif
}
else if (H5Tequal(tid, H5T_NATIVE_ULLONG))
{
memcpy(&tempullong, mem, sizeof(unsigned long_long));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, fmt_ullong, tempullong);
#else
if (1 != fwrite(&tempullong, size, 1, stream))
return FAIL;
#endif
}
else if (H5Tequal(tid, H5T_NATIVE_HSSIZE))
{
if (sizeof(hssize_t) == sizeof(int))
{
memcpy(&tempint, mem, sizeof(int));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%d ", tempint);
#else
if (1 != fwrite(&tempint, size, 1, stream))
return FAIL;
#endif
}
else if (sizeof(hssize_t) == sizeof(long))
{
memcpy(&templong, mem, sizeof(long));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%ld ", templong);
#else
if (1 != fwrite(&templong, size, 1, stream))
return FAIL;
#endif
}
else
{
memcpy(&templlong, mem, sizeof(long_long));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, fmt_llong, templlong);
#else
if (1 != fwrite(&templlong, size, 1, stream))
return FAIL;
#endif
}
}
else if (H5Tequal(tid, H5T_NATIVE_HSIZE))
{
if (sizeof(hsize_t) == sizeof(int))
{
memcpy(&tempuint, mem, sizeof(unsigned int));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%u ", tempuint);
#else
if (1 != fwrite(&tempuint, size, 1, stream))
return FAIL;
#endif
}
else if (sizeof(hsize_t) == sizeof(long))
{
memcpy(&tempulong, mem, sizeof(unsigned long));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%lu ", tempulong);
#else
if (1 != fwrite(&tempulong, size, 1, stream))
return FAIL;
#endif
}
else
{
memcpy(&tempullong, mem, sizeof(unsigned long_long));
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, fmt_ullong, tempullong);
#else
if (1 != fwrite(&tempullong, size, 1, stream))
return FAIL;
#endif
}
}
else if (H5Tget_class(tid) == H5T_COMPOUND)
{
unsigned j;
hid_t memb;
unsigned nmembs;
size_t offset;
nmembs = H5Tget_nmembers(tid);
for (j = 0; j < nmembs; j++)
{
offset = H5Tget_member_offset(tid, j);
memb = H5Tget_member_type(tid, j);
if (render_bin_output(stream,memb,mem + offset)<0)
return FAIL;
H5Tclose(memb);
}
}
else if (H5Tget_class(tid) == H5T_ENUM)
{
unsigned int i;
if (1==size)
{
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "0x%02x", mem[0]);
#else
if (1 != fwrite(&mem[0], size, 1, stream))
return FAIL;
#endif
}
else
{
for (i = 0; i < size; i++)
{
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%s%02x", i?":":"", mem[i]);
#else
if (1 != fwrite(&mem[i], sizeof(char), 1, stream))
return FAIL;
#endif
} /*i*/
}/*else 1 */
}
else if (H5Tget_class(tid) == H5T_ARRAY)
{
int k, ndims;
hsize_t i, dims[H5S_MAX_RANK], temp_nelmts, nelmts;
hid_t memb;
/* get the array's base datatype for each element */
memb = H5Tget_super(tid);
size = H5Tget_size(memb);
ndims = H5Tget_array_ndims(tid);
H5Tget_array_dims2(tid, dims);
assert(ndims >= 1 && ndims <= H5S_MAX_RANK);
/* calculate the number of array elements */
for (k = 0, nelmts = 1; k < ndims; k++)
{
temp_nelmts = nelmts;
temp_nelmts *= dims[k];
nelmts = (size_t)temp_nelmts;
}
/* dump the array element */
for (i = 0; i < nelmts; i++)
{
if (render_bin_output(stream,memb,mem + i * size)<0)
return FAIL;
}
H5Tclose(memb);
}
else if (H5Tget_class(tid) == H5T_VLEN)
{
unsigned int i;
hsize_t nelmts;
hid_t memb;
/* get the VL sequences's base datatype for each element */
memb = H5Tget_super(tid);
size = H5Tget_size(memb);
/* Get the number of sequence elements */
nelmts = ((hvl_t *)mem)->len;
for (i = 0; i < nelmts; i++)
{
/* dump the array element */
if (render_bin_output(stream,memb,((char *)(((hvl_t *)mem)->p)) + i * size)<0)
return FAIL;
}
H5Tclose(memb);
}
else
{
size_t i;
if (1==size)
{
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "0x%02x", mem[0]);
#else
if (1 != fwrite(&mem[0], size, 1, stream))
return FAIL;
#endif
}
else
{
for (i = 0; i < size; i++)
{
#ifdef DEBUG_H5DUMP_BIN
fprintf(stream, "%s%02x", i?":":"", mem[i]);
#else
if (1 != fwrite(&mem[i], sizeof(char), 1, stream))
return FAIL;
#endif
} /*i*/
}/*else 1 */
}
return SUCCEED;
}
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