1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
532
533
|
/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
* 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 COPYING file, which can be found at the root of the source code *
* distribution tree, or in https://www.hdfgroup.org/licenses. *
* If you do not have access to either file, you may request a copy from *
* help@hdfgroup.org. *
* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
/* Programmer: Vailin Choi
* May 2011; updated 10/2015
*
* Purpose: Single Chunk I/O functions.
* This is used when the dataset has only 1 chunk (with or without filter):
* cur_dims[] is equal to max_dims[] is equal to the chunk dims[]
* non-filter chunk record: [address of the chunk]
* filtered chunk record: [address of the chunk, chunk size, filter mask]
*
*/
/****************/
/* Module Setup */
/****************/
#include "H5Dmodule.h" /* This source code file is part of the H5D module */
/***********/
/* Headers */
/***********/
#include "H5private.h" /* Generic Functions */
#include "H5Dpkg.h" /* Datasets */
#include "H5Eprivate.h" /* Error handling */
#include "H5FLprivate.h" /* Free Lists */
#include "H5MFprivate.h" /* File space management */
#include "H5VMprivate.h" /* Vector functions */
/****************/
/* Local Macros */
/****************/
/******************/
/* Local Typedefs */
/******************/
/********************/
/* Local Prototypes */
/********************/
/* Single Chunk Index chunking I/O ops */
static herr_t H5D__single_idx_init(const H5D_chk_idx_info_t *idx_info, const H5S_t *space,
haddr_t dset_ohdr_addr);
static herr_t H5D__single_idx_create(const H5D_chk_idx_info_t *idx_info);
static hbool_t H5D__single_idx_is_space_alloc(const H5O_storage_chunk_t *storage);
static herr_t H5D__single_idx_insert(const H5D_chk_idx_info_t *idx_info, H5D_chunk_ud_t *udata,
const H5D_t *dset);
static herr_t H5D__single_idx_get_addr(const H5D_chk_idx_info_t *idx_info, H5D_chunk_ud_t *udata);
static int H5D__single_idx_iterate(const H5D_chk_idx_info_t *idx_info, H5D_chunk_cb_func_t chunk_cb,
void *chunk_udata);
static herr_t H5D__single_idx_remove(const H5D_chk_idx_info_t *idx_info, H5D_chunk_common_ud_t *udata);
static herr_t H5D__single_idx_delete(const H5D_chk_idx_info_t *idx_info);
static herr_t H5D__single_idx_copy_setup(const H5D_chk_idx_info_t *idx_info_src,
const H5D_chk_idx_info_t *idx_info_dst);
static herr_t H5D__single_idx_size(const H5D_chk_idx_info_t *idx_info, hsize_t *size);
static herr_t H5D__single_idx_reset(H5O_storage_chunk_t *storage, hbool_t reset_addr);
static herr_t H5D__single_idx_dump(const H5O_storage_chunk_t *storage, FILE *stream);
/*********************/
/* Package Variables */
/*********************/
/* Non Index chunk I/O ops */
const H5D_chunk_ops_t H5D_COPS_SINGLE[1] = {{
FALSE, /* Single Chunk indexing doesn't current support SWMR access */
H5D__single_idx_init, /* init */
H5D__single_idx_create, /* create */
H5D__single_idx_is_space_alloc, /* is_space_alloc */
H5D__single_idx_insert, /* insert */
H5D__single_idx_get_addr, /* get_addr */
NULL, /* resize */
H5D__single_idx_iterate, /* iterate */
H5D__single_idx_remove, /* remove */
H5D__single_idx_delete, /* delete */
H5D__single_idx_copy_setup, /* copy_setup */
NULL, /* copy_shutdown */
H5D__single_idx_size, /* size */
H5D__single_idx_reset, /* reset */
H5D__single_idx_dump, /* dump */
NULL /* destroy */
}};
/*****************************/
/* Library Private Variables */
/*****************************/
/*******************/
/* Local Variables */
/*******************/
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_init
*
* Purpose: Initialize the indexing information for a dataset.
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Vailin Choi
* July, 2011
*
*-------------------------------------------------------------------------
*/
static herr_t
H5D__single_idx_init(const H5D_chk_idx_info_t *idx_info, const H5S_t H5_ATTR_UNUSED *space,
haddr_t H5_ATTR_UNUSED dset_ohdr_addr)
{
FUNC_ENTER_STATIC_NOERR
/* Check args */
HDassert(idx_info);
HDassert(idx_info->f);
HDassert(idx_info->pline);
HDassert(idx_info->layout);
HDassert(idx_info->storage);
if (idx_info->pline->nused) {
idx_info->layout->flags |= H5O_LAYOUT_CHUNK_SINGLE_INDEX_WITH_FILTER;
if (!H5F_addr_defined(idx_info->storage->idx_addr)) {
idx_info->storage->u.single.nbytes = 0;
idx_info->storage->u.single.filter_mask = 0;
}
}
else
idx_info->layout->flags = 0;
FUNC_LEAVE_NOAPI(SUCCEED)
} /* end H5D__single_idx_init() */
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_create
*
* Purpose: Set up Single Chunk Index: filtered or non-filtered
*
* Return: Non-negative on success
* Negative on failure.
*
* Programmer: Vailin Choi; July 2011
*
*-------------------------------------------------------------------------
*/
static herr_t
H5D__single_idx_create(const H5D_chk_idx_info_t *idx_info)
{
FUNC_ENTER_STATIC_NOERR
/* Check args */
HDassert(idx_info);
HDassert(idx_info->f);
HDassert(idx_info->pline);
HDassert(idx_info->layout);
HDassert(idx_info->storage);
HDassert(idx_info->layout->max_nchunks == idx_info->layout->nchunks);
HDassert(idx_info->layout->nchunks == 1);
HDassert(!H5F_addr_defined(idx_info->storage->idx_addr));
if (idx_info->pline->nused)
HDassert(idx_info->layout->flags & H5O_LAYOUT_CHUNK_SINGLE_INDEX_WITH_FILTER);
else
HDassert(!(idx_info->layout->flags & H5O_LAYOUT_CHUNK_SINGLE_INDEX_WITH_FILTER));
FUNC_LEAVE_NOAPI(SUCCEED)
} /* end H5D__single_idx_create() */
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_is_space_alloc
*
* Purpose: Query if space is allocated for the single chunk
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Vailin Choi; July 2011
*
*-------------------------------------------------------------------------
*/
static hbool_t
H5D__single_idx_is_space_alloc(const H5O_storage_chunk_t *storage)
{
FUNC_ENTER_STATIC_NOERR
/* Check args */
HDassert(storage);
FUNC_LEAVE_NOAPI((hbool_t)H5F_addr_defined(storage->idx_addr))
} /* end H5D__single_idx_is_space_alloc() */
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_insert
*
* Purpose: Allocate space for the single chunk
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Vailin Choi; July 2011
*
*-------------------------------------------------------------------------
*/
static herr_t
H5D__single_idx_insert(const H5D_chk_idx_info_t *idx_info, H5D_chunk_ud_t *udata, const H5D_t *dset)
{
herr_t ret_value = SUCCEED; /* Return value */
FUNC_ENTER_STATIC
/* Sanity checks */
HDassert(idx_info);
HDassert(idx_info->f);
HDassert(idx_info->pline);
HDassert(idx_info->layout);
HDassert(idx_info->storage);
HDassert(idx_info->layout->nchunks == 1);
HDassert(idx_info->layout->max_nchunks == 1);
HDassert(udata);
/* Set the address for the chunk */
HDassert(H5F_addr_defined(udata->chunk_block.offset));
idx_info->storage->idx_addr = udata->chunk_block.offset;
if (idx_info->pline->nused > 0) {
H5_CHECKED_ASSIGN(idx_info->storage->u.single.nbytes, uint32_t, udata->chunk_block.length, hsize_t);
idx_info->storage->u.single.filter_mask = udata->filter_mask;
} /* end if */
if (dset)
if (dset->shared->dcpl_cache.fill.alloc_time != H5D_ALLOC_TIME_EARLY || idx_info->pline->nused > 0)
/* Mark the layout dirty so that the address of the single chunk will be flushed later */
if (H5D__mark(dset, H5D_MARK_LAYOUT) < 0)
HGOTO_ERROR(H5E_DATASET, H5E_CANTSET, FAIL, "unable to mark layout as dirty")
done:
FUNC_LEAVE_NOAPI(ret_value)
} /* H5D__single_idx_insert() */
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_get_addr
*
* Purpose: Get the file address of a chunk.
* Save the retrieved information in the udata supplied.
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Vailin Choi; July 2010
*
*-------------------------------------------------------------------------
*/
static herr_t
H5D__single_idx_get_addr(const H5D_chk_idx_info_t *idx_info, H5D_chunk_ud_t *udata)
{
FUNC_ENTER_STATIC_NOERR
/* Sanity checks */
HDassert(idx_info);
HDassert(idx_info->f);
HDassert(idx_info->pline);
HDassert(idx_info->layout);
HDassert(idx_info->storage);
HDassert(idx_info->layout->nchunks == 1);
HDassert(idx_info->layout->max_nchunks == 1);
HDassert(udata);
udata->chunk_block.offset = idx_info->storage->idx_addr;
if (idx_info->layout->flags & H5O_LAYOUT_CHUNK_SINGLE_INDEX_WITH_FILTER) {
udata->chunk_block.length = idx_info->storage->u.single.nbytes;
udata->filter_mask = idx_info->storage->u.single.filter_mask;
} /* end if */
else {
udata->chunk_block.length = idx_info->layout->size;
udata->filter_mask = 0;
} /* end else */
if (!H5F_addr_defined(udata->chunk_block.offset))
udata->chunk_block.length = 0;
FUNC_LEAVE_NOAPI(SUCCEED)
} /* H5D__single_idx_get_addr() */
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_iterate
*
* Purpose: Make callback for the single chunk
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Vailin Choi; July 2010
*
*-------------------------------------------------------------------------
*/
static int
H5D__single_idx_iterate(const H5D_chk_idx_info_t *idx_info, H5D_chunk_cb_func_t chunk_cb, void *chunk_udata)
{
H5D_chunk_rec_t chunk_rec; /* generic chunk record */
int ret_value = -1; /* Return value */
FUNC_ENTER_STATIC_NOERR
/* Sanity checks */
HDassert(idx_info);
HDassert(idx_info->f);
HDassert(idx_info->pline);
HDassert(idx_info->layout);
HDassert(idx_info->storage);
HDassert(chunk_cb);
HDassert(chunk_udata);
HDassert(H5F_addr_defined(idx_info->storage->idx_addr));
/* Initialize generic chunk record */
HDmemset(&chunk_rec, 0, sizeof(chunk_rec));
chunk_rec.chunk_addr = idx_info->storage->idx_addr;
if (idx_info->layout->flags & H5O_LAYOUT_CHUNK_SINGLE_INDEX_WITH_FILTER) {
chunk_rec.nbytes = idx_info->storage->u.single.nbytes;
chunk_rec.filter_mask = idx_info->storage->u.single.filter_mask;
} /* end if */
else {
chunk_rec.nbytes = idx_info->layout->size;
chunk_rec.filter_mask = 0;
} /* end else */
/* Make "generic chunk" callback */
if ((ret_value = (*chunk_cb)(&chunk_rec, chunk_udata)) < 0)
HERROR(H5E_DATASET, H5E_CALLBACK, "failure in generic chunk iterator callback");
FUNC_LEAVE_NOAPI(ret_value)
} /* end H5D__single_idx_iterate() */
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_remove
*
* Purpose: Remove the single chunk
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Vailin Choi; July 2011
*
*-------------------------------------------------------------------------
*/
static herr_t
H5D__single_idx_remove(const H5D_chk_idx_info_t *idx_info, H5D_chunk_common_ud_t H5_ATTR_UNUSED *udata)
{
hsize_t nbytes; /* Size of all chunks */
herr_t ret_value = SUCCEED; /* Return value */
FUNC_ENTER_STATIC
/* Sanity checks */
HDassert(idx_info);
HDassert(idx_info->f);
HDassert(idx_info->pline);
HDassert(idx_info->layout);
HDassert(idx_info->storage);
HDassert(H5F_addr_defined(idx_info->storage->idx_addr));
if (idx_info->layout->flags & H5O_LAYOUT_CHUNK_SINGLE_INDEX_WITH_FILTER)
nbytes = idx_info->storage->u.single.nbytes;
else
nbytes = idx_info->layout->size;
if (H5MF_xfree(idx_info->f, H5FD_MEM_DRAW, idx_info->storage->idx_addr, nbytes) < 0)
HGOTO_ERROR(H5E_DATASET, H5E_CANTFREE, H5_ITER_ERROR, "unable to free dataset chunks")
idx_info->storage->idx_addr = HADDR_UNDEF;
done:
FUNC_LEAVE_NOAPI(ret_value)
} /* H5D__single_idx_remove() */
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_delete
*
* Purpose: Delete raw data storage for entire dataset (i.e. the only chunk)
*
* Return: Success: Non-negative
* Failure: negative
*
* Programmer: Vailin Choi; Sept 2011
*
*-------------------------------------------------------------------------
*/
static herr_t
H5D__single_idx_delete(const H5D_chk_idx_info_t *idx_info)
{
herr_t ret_value = SUCCEED; /* Return value */
FUNC_ENTER_STATIC_NOERR
/* Sanity checks */
HDassert(idx_info);
HDassert(idx_info->f);
HDassert(idx_info->pline);
HDassert(idx_info->layout);
HDassert(idx_info->storage);
if (H5F_addr_defined(idx_info->storage->idx_addr))
ret_value = H5D__single_idx_remove(idx_info, NULL);
else
HDassert(!H5F_addr_defined(idx_info->storage->idx_addr));
FUNC_LEAVE_NOAPI(ret_value)
} /* end H5D__single_idx_delete() */
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_copy_setup
*
* Purpose: Set up any necessary information for copying the single chunk
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Vailin Choi; Sept 2011
*
*-------------------------------------------------------------------------
*/
static herr_t
H5D__single_idx_copy_setup(const H5D_chk_idx_info_t H5_ATTR_NDEBUG_UNUSED *idx_info_src,
const H5D_chk_idx_info_t * idx_info_dst)
{
herr_t ret_value = SUCCEED; /* Return value */
FUNC_ENTER_STATIC
/* Check args */
HDassert(idx_info_src);
HDassert(idx_info_src->f);
HDassert(idx_info_src->pline);
HDassert(idx_info_src->layout);
HDassert(idx_info_src->storage);
HDassert(H5F_addr_defined(idx_info_src->storage->idx_addr));
HDassert(idx_info_dst);
HDassert(idx_info_dst->f);
HDassert(idx_info_dst->pline);
HDassert(idx_info_dst->layout);
HDassert(idx_info_dst->storage);
/* Set copied metadata tag */
H5_BEGIN_TAG(H5AC__COPIED_TAG);
/* Set up information at the destination file */
if (H5D__single_idx_create(idx_info_dst) < 0)
HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "unable to initialize chunked storage")
/* Reset metadata tag */
H5_END_TAG
done:
FUNC_LEAVE_NOAPI(ret_value)
} /* end H5D__single_idx_copy_setup() */
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_size
*
* Purpose: Retrieve the amount of index storage for the chunked dataset
*
* Return: Success: Non-negative
* Failure: negative
*
* Programmer: Vailin Choi; Sept 2011
*
*-------------------------------------------------------------------------
*/
static herr_t
H5D__single_idx_size(const H5D_chk_idx_info_t H5_ATTR_UNUSED *idx_info, hsize_t *index_size)
{
FUNC_ENTER_STATIC_NOERR
/* Check args */
HDassert(index_size);
*index_size = 0;
FUNC_LEAVE_NOAPI(SUCCEED)
} /* end H5D__single_idx_size() */
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_reset
*
* Purpose: Reset indexing information.
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Vailin Choi; Sept 2011
*
*-------------------------------------------------------------------------
*/
static herr_t
H5D__single_idx_reset(H5O_storage_chunk_t *storage, hbool_t reset_addr)
{
FUNC_ENTER_STATIC_NOERR
/* Check args */
HDassert(storage);
/* Reset index info */
if (reset_addr)
storage->idx_addr = HADDR_UNDEF;
FUNC_LEAVE_NOAPI(SUCCEED)
} /* end H5D__single_idx_reset() */
/*-------------------------------------------------------------------------
* Function: H5D__single_idx_dump
*
* Purpose: Dump the address of the single chunk
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Vailin Choi; September 2011
*
*-------------------------------------------------------------------------
*/
static herr_t
H5D__single_idx_dump(const H5O_storage_chunk_t *storage, FILE *stream)
{
FUNC_ENTER_STATIC_NOERR
/* Check args */
HDassert(storage);
HDassert(stream);
HDfprintf(stream, " Address: %" PRIuHADDR "\n", storage->idx_addr);
FUNC_LEAVE_NOAPI(SUCCEED)
} /* end H5D__single_idx_dump() */
|
