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946c606452
Code cleanup
Description:
Clean up miscellaneous warnings which have crept into the code.
Fix "_POSIX_C_SOURCE not defined" warning on FreeBSD.
Adjust gcc compiler flags to be more concise for production mode.
Refactor the H5O code so that there is a stronger boundary between code
in the H5O package and code in the library which just calls H5O routines.
Platforms tested:
Tested h5committest {arabica (fortran), eirene (fortran, C++)
modi4 (parallel, fortran)}
FreeBSD 4.7 (sleipnir) serial & parallel and gcc 2.95.4 & gcc 3.2.2
Misc. update:
Update MANIFEST if you add or remove any file.
662 lines
17 KiB
C
662 lines
17 KiB
C
/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
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* Copyright by the Board of Trustees of the University of Illinois. *
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* All rights reserved. *
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* *
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* This file is part of HDF5. The full HDF5 copyright notice, including *
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* terms governing use, modification, and redistribution, is contained in *
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* the files COPYING and Copyright.html. COPYING can be found at the root *
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* of the source code distribution tree; Copyright.html can be found at the *
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* root level of an installed copy of the electronic HDF5 document set and *
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* is linked from the top-level documents page. It can also be found at *
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* http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html. If you do not have *
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* access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
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* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
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/* Programmer: Robb Matzke <matzke@llnl.gov>
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* Wednesday, October 15, 1997
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*
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* Purpose: Tests various aspects of indexed raw data storage.
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*/
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#define H5F_PACKAGE /*suppress error about including H5Fpkg */
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#include "h5test.h"
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#include "H5private.h"
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#include "H5Dprivate.h"
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#include "H5Eprivate.h"
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#include "H5Iprivate.h"
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#include "H5Pprivate.h"
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#include "H5Fpkg.h"
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#include "H5Gprivate.h"
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#include "H5MMprivate.h"
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#include "H5Oprivate.h"
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#include "H5Pprivate.h"
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#include "H5Vprivate.h"
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const char *FILENAME[] = {
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"istore",
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NULL
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};
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#define TEST_SMALL 0x0001
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#define TEST_MEDIUM 0x0002
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#define TEST_LARGE 0x0004
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hsize_t align_g[3] = {50, 50, 50};
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hssize_t zero[H5O_LAYOUT_NDIMS];
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/*-------------------------------------------------------------------------
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* Function: print_array
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*
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* Purpose: Prints the values in an array
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*
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* Return: void
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*
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* Programmer: Robb Matzke
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* Friday, October 10, 1997
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*
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* Modifications:
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*
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*-------------------------------------------------------------------------
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*/
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static void
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print_array(uint8_t *array, size_t nx, size_t ny, size_t nz)
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{
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size_t i, j, k;
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for (i = 0; i < nx; i++) {
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if (nz > 1) {
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printf("i=%lu:\n", (unsigned long)i);
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} else {
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printf("%03lu:", (unsigned long)i);
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}
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for (j = 0; j < ny; j++) {
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if (nz > 1)
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printf("%03lu:", (unsigned long)j);
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for (k = 0; k < nz; k++) {
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printf(" %3d", *array++);
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}
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if (nz > 1)
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printf("\n");
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}
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printf("\n");
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}
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}
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/*-------------------------------------------------------------------------
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* Function: new_object
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*
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* Purpose: Creates a new object that refers to a indexed storage of raw
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* data. No raw data is stored.
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*
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* Return: Success: 0
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*
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* Failure: -1
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*
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* Programmer: Robb Matzke
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* Wednesday, October 15, 1997
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*
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* Modifications:
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*
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*-------------------------------------------------------------------------
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*/
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static int
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new_object(H5F_t *f, const char *name, unsigned ndims, H5G_entry_t *ent/*out*/)
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{
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H5O_layout_t layout;
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unsigned u;
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/* Create the object header */
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HDmemset(ent,0,sizeof(H5G_entry_t));
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if (H5O_create(f, H5P_DATASET_XFER_DEFAULT, 64, ent)) {
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H5_FAILED();
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puts(" H5O_create() = NULL");
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goto error;
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}
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/* create chunked storage */
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layout.type = H5D_CHUNKED;
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layout.ndims = ndims;
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for (u = 0; u < ndims; u++) {
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if (u < (int)NELMTS(align_g)) {
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layout.dim[u] = align_g[u];
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} else {
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layout.dim[u] = 2;
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}
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}
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/* Create the root of the B-tree that describes chunked storage */
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H5F_istore_create (f, H5P_DATASET_XFER_DEFAULT, &layout/*in,out*/);
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if (H5O_modify(ent, H5O_LAYOUT_ID, H5O_NEW_MESG, 0, 1, &layout, H5P_DATASET_XFER_DEFAULT) < 0) {
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H5_FAILED();
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puts(" H5O_modify istore message failure.");
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goto error;
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}
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/* Give the object header a name */
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if (H5G_insert(H5G_entof(H5G_rootof(f)), name, ent, H5P_DATASET_XFER_DEFAULT) < 0) {
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H5_FAILED();
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printf(" H5G_insert(f, name=\"%s\", ent) failed\n", name);
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goto error;
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}
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/* Close the header */
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H5O_close(ent);
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return 0;
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error:
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return -1;
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}
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/*-------------------------------------------------------------------------
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* Function: test_create
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*
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* Purpose: Creates a named object that refers to indexed storage of raw
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* data. No raw data is stored.
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*
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* Return: Success: SUCCEED
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*
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* Failure: FAIL
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*
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* Programmer: Robb Matzke
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* Wednesday, October 15, 1997
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*
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* Modifications:
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*
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*-------------------------------------------------------------------------
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*/
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static herr_t
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test_create(H5F_t *f, const char *prefix)
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{
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H5G_entry_t handle;
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unsigned u;
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char name[256];
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TESTING("istore create");
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for (u = 1; u <= H5O_LAYOUT_NDIMS; u++) {
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HDsnprintf(name, sizeof name, "%s_%02u", prefix, u);
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if (new_object(f, name, u, &handle) < 0)
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return FAIL;
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}
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PASSED();
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return SUCCEED;
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}
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/*-------------------------------------------------------------------------
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* Function: test_extend
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*
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* Purpose: Creates an empty object and then writes to it in such a way
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* as to always extend the object's domain without creating
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* holes and without causing the object to become concave.
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*
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* Return: Success: SUCCEED
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*
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* Failure: FAIL
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*
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* Programmer: Robb Matzke
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* Wednesday, October 15, 1997
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*
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* Modifications:
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*
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*-------------------------------------------------------------------------
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*/
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static herr_t
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test_extend(H5F_t *f, const char *prefix,
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size_t nx, size_t ny, size_t nz)
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{
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H5G_entry_t handle;
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hsize_t i, j, k, ctr;
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unsigned ndims;
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uint8_t *buf = NULL, *check = NULL, *whole = NULL;
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char dims[64], s[256], name[256];
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hssize_t offset[3];
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hssize_t max_corner[3];
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hsize_t size[3];
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hsize_t whole_size[3];
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hsize_t nelmts;
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H5O_layout_t layout;
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H5P_genplist_t *dc_plist=NULL;
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if (!nz) {
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if (!ny) {
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ndims = 1;
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ny = nz = 1;
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sprintf(dims, "%lu", (unsigned long) nx);
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} else {
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ndims = 2;
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nz = 1;
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sprintf(dims, "%lux%lu", (unsigned long) nx, (unsigned long) ny);
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}
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} else {
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ndims = 3;
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sprintf(dims, "%lux%lux%lu",
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(unsigned long) nx, (unsigned long) ny, (unsigned long) nz);
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}
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sprintf(s, "Testing istore extend: %s", dims);
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printf("%-70s", s);
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buf = H5MM_malloc(nx * ny * nz);
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check = H5MM_malloc(nx * ny * nz);
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whole = H5MM_calloc(nx*ny*nz);
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/* Get the default dataset creation property list */
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if(NULL == (dc_plist = H5I_object(H5P_DATASET_CREATE_DEFAULT))) {
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printf("not a dset creation property list\n");
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goto error;
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}
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/* Build the new empty object */
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sprintf(name, "%s_%s", prefix, dims);
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if (new_object(f, name, ndims, &handle) < 0) {
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printf(" Cannot create %u-d object `%s'\n", ndims, name);
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goto error;
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}
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if (NULL == H5O_read(&handle, H5O_LAYOUT_ID, 0, &layout, H5P_DATASET_XFER_DEFAULT)) {
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H5_FAILED();
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puts(" Unable to read istore message.");
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goto error;
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}
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if (ndims != layout.ndims) {
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H5_FAILED();
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printf(" Header read error: istore.ndims != %d\n", ndims);
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goto error;
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}
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whole_size[0] = nx;
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whole_size[1] = ny;
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whole_size[2] = nz;
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max_corner[0] = 0;
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max_corner[1] = 0;
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max_corner[2] = 0;
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for (ctr = 0;
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H5V_vector_lt_s(ndims, max_corner, (hssize_t*)whole_size);
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ctr++) {
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/* Size and location */
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if (0 == ctr) {
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offset[0] = offset[1] = offset[2] = 0;
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size[0] = size[1] = size[2] = 1;
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nelmts = 1;
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} else {
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for (i=0, nelmts=1; i<(size_t)ndims; i++) {
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if (ctr % ndims == i) {
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offset[i] = max_corner[i];
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size[i] = MIN(1, whole_size[i] - offset[i]);
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} else {
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offset[i] = 0;
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size[i] = max_corner[i];
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}
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nelmts *= size[i];
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}
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}
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#if 0
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if (0 == ctr)
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printf("\n");
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printf(" Insert: ctr=%d, corner=(%d", ctr, offset[0]);
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if (ndims > 1)
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printf(",%d", offset[1]);
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if (ndims > 2)
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printf(",%d", offset[2]);
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printf("), size=(%d", size[0]);
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if (ndims > 1)
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printf(",%d", size[1]);
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if (ndims > 2)
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printf(",%d", size[2]);
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printf("), %d element%s", nelmts, 1 == nelmts ? "" : "s");
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if (0 == nelmts)
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printf(" *SKIPPED*");
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printf("\n");
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#endif
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/* Fill the source array */
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if (0 == nelmts) continue;
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memset(buf, (signed)(128+ctr), (size_t)nelmts);
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/* Write to disk */
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if (H5F_arr_write(f, H5P_DATASET_XFER_DEFAULT, &layout, dc_plist, size,
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size, zero, offset, buf)<0) {
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H5_FAILED();
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printf(" Write failed: ctr=%lu\n", (unsigned long)ctr);
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goto error;
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}
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/* Read from disk */
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memset(check, 0xff, (size_t)nelmts);
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if (H5F_arr_read(f, H5P_DATASET_XFER_DEFAULT, &layout, dc_plist, size,
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size, zero, offset, check)<0) {
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H5_FAILED();
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printf(" Read failed: ctr=%lu\n", (unsigned long)ctr);
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goto error;
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}
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if (memcmp(buf, check, (size_t)nelmts)) {
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H5_FAILED();
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printf(" Read check failed: ctr=%lu\n", (unsigned long)ctr);
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printf(" Wrote:\n");
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print_array(buf, (size_t)size[0], (size_t)size[1],
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(size_t)size[2]);
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printf(" Read:\n");
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print_array(check, (size_t)size[0], (size_t)size[1],
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(size_t)size[2]);
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goto error;
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}
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/* Write to `whole' buffer for later checking */
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H5V_hyper_copy(ndims, size,
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whole_size, offset, whole, /*dst*/
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size, H5V_ZERO, buf); /*src*/
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/* Update max corner */
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for (i=0; i<(size_t)ndims; i++) {
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max_corner[i] = MAX(max_corner[i], offset[i]+(hssize_t)size[i]);
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}
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}
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/* Now read the entire array back out and check it */
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memset(buf, 0xff, nx * ny * nz);
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if (H5F_arr_read(f, H5P_DATASET_XFER_DEFAULT, &layout, dc_plist, whole_size,
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whole_size, zero, zero, buf)<0) {
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H5_FAILED();
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puts(" Read failed for whole array.");
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goto error;
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}
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for (i=0; i<nx; i++) {
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for (j=0; j<ny; j++) {
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for (k=0; k<nz; k++) {
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if (whole[i*ny*nz + j*nz + k] != buf[i*ny*nz + j*nz + k]) {
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H5_FAILED();
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printf(" Check failed at i=%lu", (unsigned long)i);
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if (ndims > 1) {
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printf(", j=%lu", (unsigned long)j);
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}
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if (ndims > 2) {
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printf(", k=%lu", (unsigned long)k);
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}
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printf("\n Check array is:\n");
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print_array(whole, nx, ny, nz);
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printf(" Value read is:\n");
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print_array(buf, nx, ny, nz);
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goto error;
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}
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}
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}
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}
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H5MM_xfree(buf);
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H5MM_xfree(check);
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H5MM_xfree(whole);
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PASSED();
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return SUCCEED;
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error:
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H5MM_xfree(buf);
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H5MM_xfree(check);
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H5MM_xfree(whole);
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return FAIL;
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}
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/*-------------------------------------------------------------------------
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* Function: test_sparse
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*
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* Purpose: Creates a sparse matrix consisting of NBLOCKS randomly placed
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* blocks each of size NX,NY,NZ.
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*
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* Return: Success: SUCCEED
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*
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* Failure: FAIL
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*
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* Programmer: Robb Matzke
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* Wednesday, October 22, 1997
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*
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* Modifications:
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*
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*-------------------------------------------------------------------------
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*/
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static herr_t
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test_sparse(H5F_t *f, const char *prefix, size_t nblocks,
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size_t nx, size_t ny, size_t nz)
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{
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unsigned ndims;
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hsize_t ctr;
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char dims[64], s[256], name[256];
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hssize_t offset[3];
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hsize_t size[3], total = 0;
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H5G_entry_t handle;
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H5O_layout_t layout;
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uint8_t *buf = NULL;
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H5P_genplist_t *dc_plist=NULL;
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if (!nz) {
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if (!ny) {
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ndims = 1;
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ny = nz = 1;
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sprintf(dims, "%lu", (unsigned long) nx);
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} else {
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ndims = 2;
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nz = 1;
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sprintf(dims, "%lux%lu", (unsigned long) nx, (unsigned long) ny);
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}
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} else {
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ndims = 3;
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sprintf(dims, "%lux%lux%lu",
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(unsigned long) nx, (unsigned long) ny, (unsigned long) nz);
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}
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sprintf(s, "Testing istore sparse: %s", dims);
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printf("%-70s", s);
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buf = H5MM_malloc(nx * ny * nz);
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/* Get the default dataset creation property list */
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if(NULL == (dc_plist = H5I_object(H5P_DATASET_CREATE_DEFAULT))) {
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printf("not a dset creation property list\n");
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goto error;
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}
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/* Build the new empty object */
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sprintf(name, "%s_%s", prefix, dims);
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if (new_object(f, name, ndims, &handle) < 0) {
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printf(" Cannot create %u-d object `%s'\n", ndims, name);
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goto error;
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}
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if (NULL == H5O_read(&handle, H5O_LAYOUT_ID, 0, &layout, H5P_DATASET_XFER_DEFAULT)) {
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H5_FAILED();
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printf(" Unable to read istore message\n");
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goto error;
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}
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for (ctr=0; ctr<nblocks; ctr++) {
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offset[0] = rand() % 1000000;
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offset[1] = rand() % 1000000;
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offset[2] = rand() % 1000000;
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size[0] = nx;
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size[1] = ny;
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size[2] = nz;
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memset(buf, (signed)(128+ctr), nx * ny * nz);
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/* write to disk */
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if (H5F_arr_write(f, H5P_DATASET_XFER_DEFAULT, &layout, dc_plist, size,
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size, zero, offset, buf)<0) {
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H5_FAILED();
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printf(" Write failed: ctr=%lu\n", (unsigned long)ctr);
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printf(" offset=(%lu", (unsigned long) (offset[0]));
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if (ndims > 1)
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printf(",%lu", (unsigned long) (offset[1]));
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||
if (ndims > 2)
|
||
printf(",%lu", (unsigned long) (offset[2]));
|
||
printf("), size=(%lu", (unsigned long) (size[0]));
|
||
if (ndims > 1)
|
||
printf(",%lu", (unsigned long) (size[1]));
|
||
if (ndims > 2)
|
||
printf(",%lu", (unsigned long) (size[2]));
|
||
printf(")\n");
|
||
goto error;
|
||
}
|
||
total += nx * ny * nz;
|
||
#if 0
|
||
printf("ctr: ctr=%d, total=%lu\n", ctr, (unsigned long) total);
|
||
#endif
|
||
|
||
/* We don't test reading yet.... */
|
||
}
|
||
|
||
H5MM_xfree(buf);
|
||
PASSED();
|
||
return SUCCEED;
|
||
|
||
error:
|
||
H5MM_xfree(buf);
|
||
return FAIL;
|
||
}
|
||
|
||
|
||
/*-------------------------------------------------------------------------
|
||
* Function: main
|
||
*
|
||
* Purpose: Tests indexed storage stuff.
|
||
*
|
||
* Return: Success: exit(0)
|
||
*
|
||
* Failure: exit(non-zero)
|
||
*
|
||
* Programmer: Robb Matzke
|
||
* Wednesday, October 15, 1997
|
||
*
|
||
* Modifications:
|
||
*
|
||
*-------------------------------------------------------------------------
|
||
*/
|
||
int
|
||
main(int argc, char *argv[])
|
||
{
|
||
hid_t fapl=-1, file=-1, fcpl=-1;
|
||
H5F_t *f;
|
||
herr_t status;
|
||
int nerrors = 0;
|
||
unsigned size_of_test;
|
||
char filename[1024];
|
||
|
||
/* Parse arguments or assume `small' */
|
||
if (1 == argc) {
|
||
size_of_test = TEST_SMALL;
|
||
} else {
|
||
int i;
|
||
for (i = 1, size_of_test = 0; i < argc; i++) {
|
||
if (!strcmp(argv[i], "small")) {
|
||
size_of_test |= TEST_SMALL;
|
||
} else if (!strcmp(argv[i], "medium")) {
|
||
size_of_test |= TEST_MEDIUM;
|
||
} else if (!strcmp(argv[i], "large")) {
|
||
size_of_test |= TEST_LARGE;
|
||
} else {
|
||
printf("unrecognized argument: %s\n", argv[i]);
|
||
#if 0
|
||
exit(1);
|
||
#endif
|
||
}
|
||
}
|
||
}
|
||
printf("Test sizes: ");
|
||
if (size_of_test & TEST_SMALL)
|
||
printf(" SMALL");
|
||
if (size_of_test & TEST_MEDIUM)
|
||
printf(" MEDIUM");
|
||
if (size_of_test & TEST_LARGE)
|
||
printf(" LARGE");
|
||
printf("\n");
|
||
|
||
/* Reset library */
|
||
h5_reset();
|
||
fapl = h5_fileaccess();
|
||
|
||
/* Use larger file addresses... */
|
||
fcpl = H5Pcreate(H5P_FILE_CREATE);
|
||
H5Pset_sizes(fcpl, 8, 0);
|
||
|
||
/* Create the test file */
|
||
h5_fixname(FILENAME[0], fapl, filename, sizeof filename);
|
||
if ((file=H5Fcreate(filename, H5F_ACC_TRUNC, fcpl, fapl))<0 ||
|
||
NULL==(f=H5I_object(file))) {
|
||
printf("Cannot create file %s; test aborted\n", filename);
|
||
exit(1);
|
||
}
|
||
|
||
/*
|
||
* For testing file families, fool the library into thinking it already
|
||
* allocated a whole bunch of data.
|
||
*/
|
||
if (H5FD_FAMILY==H5Pget_driver(fapl)) {
|
||
haddr_t addr;
|
||
addr = 8 * ((uint64_t)1<<30); /*8 GB */
|
||
if (H5FDset_eoa(f->shared->lf, addr)<0) {
|
||
printf("Cannot create large file family\n");
|
||
exit(1);
|
||
}
|
||
}
|
||
|
||
/*
|
||
* Creation test: Creates empty objects with various raw data sizes
|
||
* and alignments.
|
||
*/
|
||
status = test_create(f, "create");
|
||
nerrors += status < 0 ? 1 : 0;
|
||
|
||
if (size_of_test & TEST_SMALL) {
|
||
status = test_extend(f, "extend", 10, 0, 0);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
status = test_extend(f, "extend", 10, 10, 0);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
status = test_extend(f, "extend", 10, 10, 10);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
}
|
||
if (size_of_test & TEST_MEDIUM) {
|
||
status = test_extend(f, "extend", 10000, 0, 0);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
status = test_extend(f, "extend", 2500, 10, 0);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
status = test_extend(f, "extend", 10, 400, 10);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
}
|
||
if (size_of_test & TEST_SMALL) {
|
||
status = test_sparse(f, "sparse", 100, 5, 0, 0);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
status = test_sparse(f, "sparse", 100, 3, 4, 0);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
status = test_sparse(f, "sparse", 100, 2, 3, 4);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
}
|
||
if (size_of_test & TEST_MEDIUM) {
|
||
status = test_sparse(f, "sparse", 1000, 30, 0, 0);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
status = test_sparse(f, "sparse", 2000, 7, 3, 0);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
status = test_sparse(f, "sparse", 2000, 4, 2, 3);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
}
|
||
if (size_of_test & TEST_LARGE) {
|
||
status = test_sparse(f, "sparse", 800, 50, 50, 50);
|
||
nerrors += status < 0 ? 1 : 0;
|
||
}
|
||
|
||
/* Close the test file and exit */
|
||
H5Pclose(fcpl);
|
||
H5Fclose(file);
|
||
|
||
if (nerrors) {
|
||
printf("***** %d I-STORE TEST%s FAILED! *****\n",
|
||
nerrors, 1 == nerrors ? "" : "S");
|
||
exit(1);
|
||
}
|
||
|
||
printf("All i-store tests passed.\n");
|
||
h5_cleanup(FILENAME, fapl);
|
||
return 0;
|
||
}
|