summaryrefslogtreecommitdiffstats
path: root/src/H5EA.c
blob: eadb9c0a2bbaee77d22a18b10fa4d000c11fafb1 (plain)
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
534
535
536
537
538
539
540
541
542
543
544
545
546
547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
579
580
581
582
583
584
585
586
587
588
589
590
591
592
593
594
595
596
597
598
599
600
601
602
603
604
605
606
607
608
609
610
611
612
613
614
615
616
617
618
619
620
621
622
623
624
625
626
627
628
629
630
631
632
633
634
635
636
637
638
639
640
641
642
643
644
645
646
647
648
649
650
651
652
653
654
655
656
657
658
659
660
661
662
663
664
665
666
667
668
669
670
671
672
673
674
675
676
677
678
679
680
681
682
683
684
685
686
687
688
689
690
691
692
693
694
695
696
697
698
699
700
701
702
703
704
705
706
707
708
709
710
711
712
713
714
715
716
717
718
719
720
721
722
723
724
725
726
727
728
729
730
731
732
733
734
735
736
737
738
739
740
741
742
743
744
745
746
747
748
749
750
751
752
753
754
755
756
757
758
759
760
761
762
763
764
765
766
767
768
769
770
771
772
773
774
775
776
777
778
779
780
781
782
783
784
785
786
787
788
789
790
791
792
793
794
795
796
797
798
799
800
801
802
803
804
805
806
807
808
809
810
811
812
813
814
815
816
817
818
819
820
821
822
823
824
825
826
827
828
829
830
831
832
833
834
835
836
837
838
839
840
841
842
843
844
845
846
847
848
849
850
851
852
853
854
855
856
857
858
859
860
861
862
863
864
865
866
867
868
869
870
871
872
873
874
875
876
877
878
879
880
881
882
883
884
885
886
887
888
889
890
891
892
893
894
895
896
897
898
899
900
901
902
903
904
905
906
907
908
909
910
911
912
913
914
915
916
917
918
919
920
921
922
923
924
925
926
927
928
929
930
931
932
933
934
935
936
937
938
939
940
941
942
943
944
945
946
947
948
949
950
951
952
953
954
955
956
957
958
959
960
961
962
963
964
965
966
967
968
969
/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
 * 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.     *
 * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */

/*-------------------------------------------------------------------------
 *
 * Created:		H5EA.c
 *			Jun 17 2008
 *			Quincey Koziol <koziol@hdfgroup.org>
 *
 * Purpose:		Implements an "extensible array" for storing elements
 *                      in an array whose high bounds can extend and shrink.
 *
 *                      Please see the documentation in:
 *                      doc/html/TechNotes/ExtensibleArray.html for a full
 *                      description of how they work, etc.
 *
 *-------------------------------------------------------------------------
 */

/**********************/
/* Module Declaration */
/**********************/

#define H5EA_MODULE


/***********************/
/* Other Packages Used */
/***********************/


/***********/
/* Headers */
/***********/
#include "H5private.h"		/* Generic Functions			*/
#include "H5Eprivate.h"		/* Error handling		  	*/
#include "H5EApkg.h"		/* Extensible Arrays			*/
#include "H5FLprivate.h"	/* Free Lists                           */
#include "H5Vprivate.h"         /* Vector functions			*/


/****************/
/* Local Macros */
/****************/


/******************/
/* Local Typedefs */
/******************/


/********************/
/* Package Typedefs */
/********************/


/********************/
/* Local Prototypes */
/********************/


/*********************/
/* Package Variables */
/*********************/

/* HDF5 API Entered variable */
/* (move to H5.c when new FUNC_ENTER macros in actual use -QAK) */
hbool_t H5_api_entered_g = FALSE;


/*****************************/
/* Library Private Variables */
/*****************************/


/*******************/
/* Local Variables */
/*******************/

/* Declare a free list to manage the H5EA_t struct */
H5FL_DEFINE_STATIC(H5EA_t);



/*-------------------------------------------------------------------------
 * Function:	H5EA_create
 *
 * Purpose:	Creates a new empty extensible array in the file.
 *
 * Return:	Pointer to earray wrapper on success
 *              NULL on failure
 *
 * Programmer:	Quincey Koziol
 *		koziol@hdfgroup.org
 *		Jun 17 2008
 *
 *-------------------------------------------------------------------------
 */
BEGIN_FUNC(PRIV, ERR,
H5EA_t *, NULL, NULL,
H5EA_create(H5F_t *f, hid_t dxpl_id, const H5EA_create_t *cparam))

    /* Local variables */
    H5EA_t *ea = NULL;          /* Pointer to new extensible array */
    H5EA_hdr_t *hdr = NULL;     /* The extensible array header information */
    haddr_t ea_addr;            /* Array header address */

#ifdef QAK
HDfprintf(stderr, "%s: Called\n", FUNC);
#endif /* QAK */

    /*
     * Check arguments.
     */
    HDassert(f);
    HDassert(cparam);

    /* Create extensible array header */
    if(HADDR_UNDEF == (ea_addr = H5EA__hdr_create(f, dxpl_id, cparam)))
	H5E_THROW(H5E_CANTINIT, "can't create extensible array header")

    /* Allocate extensible array wrapper */
    if(NULL == (ea = H5FL_MALLOC(H5EA_t)))
	H5E_THROW(H5E_CANTALLOC, "memory allocation failed for extensible array info")

    /* Lock the array header into memory */
    if(NULL == (hdr = (H5EA_hdr_t *)H5AC_protect(f, dxpl_id, H5AC_EARRAY_HDR, ea_addr, cparam->cls, NULL, H5AC_WRITE)))
	H5E_THROW(H5E_CANTPROTECT, "unable to load extensible array header")

    /* Point extensible array wrapper at header and bump it's ref count */
    ea->hdr = hdr;
    if(H5EA__hdr_incr(ea->hdr) < 0)
	H5E_THROW(H5E_CANTINC, "can't increment reference count on shared array header")

    /* Increment # of files using this array header */
    if(H5EA__hdr_fuse_incr(ea->hdr) < 0)
	H5E_THROW(H5E_CANTINC, "can't increment file reference count on shared array header")

    /* Set file pointer for this array open context */
    ea->f = f;

    /* Set the return value */
    ret_value = ea;

CATCH

    if(hdr && H5AC_unprotect(f, dxpl_id, H5AC_EARRAY_HDR, ea_addr, hdr, H5AC__NO_FLAGS_SET) < 0)
	H5E_THROW(H5E_CANTUNPROTECT, "unable to release extensible array header")
    if(!ret_value)
        if(ea && H5EA_close(ea, dxpl_id) < 0)
            H5E_THROW(H5E_CLOSEERROR, "unable to close extensible array")

END_FUNC(PRIV)  /* end H5EA_create() */


/*-------------------------------------------------------------------------
 * Function:	H5EA_open
 *
 * Purpose:	Opens an existing extensible array in the file.
 *
 * Return:	Pointer to array wrapper on success
 *              NULL on failure
 *
 * Programmer:	Quincey Koziol
 *		koziol@hdfgroup.org
 *		Aug 28 2008
 *
 *-------------------------------------------------------------------------
 */
BEGIN_FUNC(PRIV, ERR,
H5EA_t *, NULL, NULL,
H5EA_open(H5F_t *f, hid_t dxpl_id, haddr_t ea_addr, const H5EA_class_t *cls))

    /* Local variables */
    H5EA_t *ea = NULL;          /* Pointer to new extensible array wrapper */
    H5EA_hdr_t *hdr = NULL;     /* The extensible array header information */

    /*
     * Check arguments.
     */
    HDassert(f);
    HDassert(H5F_addr_defined(ea_addr));
    HDassert(cls);

    /* Load the array header into memory */
#ifdef QAK
HDfprintf(stderr, "%s: ea_addr = %a\n", FUNC, ea_addr);
#endif /* QAK */
    if(NULL == (hdr = (H5EA_hdr_t *)H5AC_protect(f, dxpl_id, H5AC_EARRAY_HDR, ea_addr, cls, NULL, H5AC_READ)))
        H5E_THROW(H5E_CANTPROTECT, "unable to load extensible array header, address = %llu", (unsigned long_long)ea_addr)

    /* Check for pending array deletion */
    if(hdr->pending_delete)
        H5E_THROW(H5E_CANTOPENOBJ, "can't open extensible array pending deletion")

    /* Create fractal heap info */
    if(NULL == (ea = H5FL_MALLOC(H5EA_t)))
        H5E_THROW(H5E_CANTALLOC, "memory allocation failed for extensible array info")

    /* Point extensible array wrapper at header */
    ea->hdr = hdr;
    if(H5EA__hdr_incr(ea->hdr) < 0)
        H5E_THROW(H5E_CANTINC, "can't increment reference count on shared array header")

    /* Increment # of files using this array header */
    if(H5EA__hdr_fuse_incr(ea->hdr) < 0)
        H5E_THROW(H5E_CANTINC, "can't increment file reference count on shared array header")

    /* Set file pointer for this array open context */
    ea->f = f;

    /* Set the return value */
    ret_value = ea;

CATCH

    if(hdr && H5AC_unprotect(f, dxpl_id, H5AC_EARRAY_HDR, ea_addr, hdr, H5AC__NO_FLAGS_SET) < 0)
        H5E_THROW(H5E_CANTUNPROTECT, "unable to release extensible array header")
    if(!ret_value)
        if(ea && H5EA_close(ea, dxpl_id) < 0)
            H5E_THROW(H5E_CLOSEERROR, "unable to close extensible array")

END_FUNC(PRIV)  /* end H5EA_open() */


/*-------------------------------------------------------------------------
 * Function:	H5EA_get_nelmts
 *
 * Purpose:	Query the current number of elements in array
 *
 * Return:	SUCCEED/FAIL
 *
 * Programmer:	Quincey Koziol
 *		koziol@hdfgroup.org
 *		Aug 21 2008
 *
 *-------------------------------------------------------------------------
 */
BEGIN_FUNC(PRIV, NOERR,
herr_t, SUCCEED, -,
H5EA_get_nelmts(const H5EA_t *ea, hsize_t *nelmts))

    /* Local variables */

#ifdef QAK
HDfprintf(stderr, "%s: Called\n", FUNC);
#endif /* QAK */

    /*
     * Check arguments.
     */
    HDassert(ea);
    HDassert(nelmts);

    /* Retrieve the max. index set */
    *nelmts = ea->hdr->stats.max_idx_set;

END_FUNC(PRIV)  /* end H5EA_get_nelmts() */


/*-------------------------------------------------------------------------
 * Function:	H5EA_get_addr
 *
 * Purpose:	Query the address of the array
 *
 * Return:	SUCCEED/FAIL
 *
 * Programmer:	Quincey Koziol
 *		koziol@hdfgroup.org
 *		Aug 21 2008
 *
 *-------------------------------------------------------------------------
 */
BEGIN_FUNC(PRIV, NOERR,
herr_t, SUCCEED, -,
H5EA_get_addr(const H5EA_t *ea, haddr_t *addr))

    /* Local variables */

#ifdef QAK
HDfprintf(stderr, "%s: Called\n", FUNC);
#endif /* QAK */

    /*
     * Check arguments.
     */
    HDassert(ea);
    HDassert(ea->hdr);
    HDassert(addr);

    /* Retrieve the address of the extensible array's header */
    *addr = ea->hdr->addr;

END_FUNC(PRIV)  /* end H5EA_get_addr() */


/*-------------------------------------------------------------------------
 * Function:	H5EA_set
 *
 * Purpose:	Set an element of an extensible array
 *
 * Return:	SUCCEED/FAIL
 *
 * Programmer:	Quincey Koziol
 *		koziol@hdfgroup.org
 *		Sep  9 2008
 *
 *-------------------------------------------------------------------------
 */
BEGIN_FUNC(PRIV, ERR,
herr_t, SUCCEED, FAIL,
H5EA_set(const H5EA_t *ea, hid_t dxpl_id, hsize_t idx, const void *elmt))

    /* Local variables */
    H5EA_hdr_t *hdr = ea->hdr;          /* Header for EA */
    H5EA_iblock_t *iblock = NULL;       /* Pointer to index block for EA */
    H5EA_sblock_t *sblock = NULL;       /* Pointer to super block for EA */
    H5EA_dblock_t *dblock = NULL;       /* Pointer to data block for EA */
    H5EA_dblk_page_t *dblk_page = NULL; /* Pointer to data block page for EA */
    unsigned iblock_cache_flags = H5AC__NO_FLAGS_SET;   /* Flags to unprotecting index block */
    unsigned sblock_cache_flags = H5AC__NO_FLAGS_SET;   /* Flags to unprotecting super block */
    unsigned dblock_cache_flags = H5AC__NO_FLAGS_SET;   /* Flags to unprotecting data block */
    unsigned dblk_page_cache_flags = H5AC__NO_FLAGS_SET;   /* Flags to unprotecting data block page */
    hbool_t hdr_dirty = FALSE;          /* Whether header information changed */

#ifdef QAK
HDfprintf(stderr, "%s: Called\n", FUNC);
HDfprintf(stderr, "%s: Index %Hu\n", FUNC, idx);
#endif /* QAK */

    /*
     * Check arguments.
     */
    HDassert(ea);
    HDassert(ea->hdr);

    /* Set the shared array header's file context for this operation */
    hdr->f = ea->f;

    /* Check if we should create the index block */
    if(!H5F_addr_defined(hdr->idx_blk_addr)) {
#ifdef QAK
HDfprintf(stderr, "%s: Index block address not defined!\n", FUNC, idx);
#endif /* QAK */
        /* Create the index block */
        hdr->idx_blk_addr = H5EA__iblock_create(hdr, dxpl_id);
        if(!H5F_addr_defined(hdr->idx_blk_addr))
            H5E_THROW(H5E_CANTCREATE, "unable to create index block")

        /* Increment count of elements "realized" */
        hdr->stats.nelmts += hdr->cparam.idx_blk_elmts;

        /* Mark the header dirty */
        hdr_dirty = TRUE;
    } /* end if */
#ifdef QAK
HDfprintf(stderr, "%s: Index block address is: %a\n", FUNC, hdr->idx_blk_addr);
#endif /* QAK */

    /* Protect index block */
    if(NULL == (iblock = H5EA__iblock_protect(hdr, dxpl_id, H5AC_WRITE)))
        H5E_THROW(H5E_CANTPROTECT, "unable to protect extensible array index block, address = %llu", (unsigned long_long)hdr->idx_blk_addr)

    /* Check if element is in index block */
    if(idx < hdr->cparam.idx_blk_elmts) {
        /* Set element in index block */
        HDmemcpy(((uint8_t *)iblock->elmts) + (hdr->cparam.cls->nat_elmt_size * idx), elmt, hdr->cparam.cls->nat_elmt_size);
        iblock_cache_flags |= H5AC__DIRTIED_FLAG;
    } /* end if */
    else {
        unsigned sblk_idx;      /* Which superblock does this index fall in? */
        size_t dblk_idx;        /* Data block index */
        hsize_t elmt_idx;       /* Offset of element in super block */

        /* Get super block index where element is located */
        sblk_idx = H5EA__dblock_sblk_idx(hdr, idx);
#ifdef QAK
HDfprintf(stderr, "%s: sblk_idx = %u, iblock->nsblks = %Zu\n", FUNC, sblk_idx, iblock->nsblks);
#endif /* QAK */

        /* Adjust index to offset in super block */
        elmt_idx = idx - (hdr->cparam.idx_blk_elmts + hdr->sblk_info[sblk_idx].start_idx);
#ifdef QAK
HDfprintf(stderr, "%s: after adjusting for super block elements, elmt_idx = %Hu\n", FUNC, elmt_idx);
#endif /* QAK */

        /* Check for data block containing element address in the index block */
        if(sblk_idx < iblock->nsblks) {
#ifdef QAK
HDfprintf(stderr, "%s: Element in data block pointed to by address in index block\n", FUNC);
#endif /* QAK */
            /* Compute the data block index in index block */
            dblk_idx = (size_t)(hdr->sblk_info[sblk_idx].start_dblk + (elmt_idx / hdr->sblk_info[sblk_idx].dblk_nelmts));
#ifdef QAK
HDfprintf(stderr, "%s: dblk_idx = %u, iblock->ndblk_addrs = %Zu\n", FUNC, dblk_idx, iblock->ndblk_addrs);
#endif /* QAK */
            HDassert(dblk_idx < iblock->ndblk_addrs);

            /* Check if the data block has been allocated on disk yet */
            if(!H5F_addr_defined(iblock->dblk_addrs[dblk_idx])) {
                haddr_t dblk_addr;        /* Address of data block created */
                hsize_t dblk_off;         /* Offset of data block in array */

                /* Create data block */
                dblk_off = hdr->sblk_info[sblk_idx].start_idx + (dblk_idx * hdr->sblk_info[sblk_idx].dblk_nelmts);
                dblk_addr = H5EA__dblock_create(hdr, dxpl_id, dblk_off, hdr->sblk_info[sblk_idx].dblk_nelmts);
                if(!H5F_addr_defined(dblk_addr))
                    H5E_THROW(H5E_CANTCREATE, "unable to create extensible array data block")

                /* Set data block address in index block */
                iblock->dblk_addrs[dblk_idx] = dblk_addr;
                iblock_cache_flags |= H5AC__DIRTIED_FLAG;

                /* Increment count of elements "realized" and actual data blocks created */
                hdr->stats.ndata_blks++;
                hdr->stats.nelmts += hdr->sblk_info[sblk_idx].dblk_nelmts;
                hdr_dirty = TRUE;
            } /* end if */

            /* Protect data block */
            if(NULL == (dblock = H5EA__dblock_protect(hdr, dxpl_id, iblock->dblk_addrs[dblk_idx], hdr->sblk_info[sblk_idx].dblk_nelmts, H5AC_WRITE)))
                H5E_THROW(H5E_CANTPROTECT, "unable to protect extensible array data block, address = %llu", (unsigned long_long)iblock->dblk_addrs[dblk_idx])

            /* Adjust index to offset in data block */
            elmt_idx %= hdr->sblk_info[sblk_idx].dblk_nelmts;

            /* Set element in data block */
            HDmemcpy(((uint8_t *)dblock->elmts) + (hdr->cparam.cls->nat_elmt_size * elmt_idx), elmt, hdr->cparam.cls->nat_elmt_size);
            dblock_cache_flags |= H5AC__DIRTIED_FLAG;
        } /* end if */
        else {
            unsigned sblk_off;  /* Offset of super block in index block array of super blocks */
            void *elmts;        /* Buffer for elements */

            /* Calculate offset of super block in index block's array */
            sblk_off = sblk_idx - iblock->nsblks;

            /* Check if the super block has been allocated on disk yet */
            if(!H5F_addr_defined(iblock->sblk_addrs[sblk_off])) {
                haddr_t sblk_addr;        /* Address of data block created */

                /* Create super block */
                sblk_addr = H5EA__sblock_create(hdr, dxpl_id, sblk_idx);
#ifdef QAK
HDfprintf(stderr, "%s: New super block address is: %a\n", FUNC, sblk_addr);
#endif /* QAK */
                if(!H5F_addr_defined(sblk_addr))
                    H5E_THROW(H5E_CANTCREATE, "unable to create extensible array super block")

                /* Set super block address in index block */
                iblock->sblk_addrs[sblk_off] = sblk_addr;
                iblock_cache_flags |= H5AC__DIRTIED_FLAG;

                /* Increment count of actual super blocks created */
                hdr->stats.nsuper_blks++;
                hdr_dirty = TRUE;
            } /* end if */

            /* Protect super block */
            if(NULL == (sblock = H5EA__sblock_protect(hdr, dxpl_id, iblock->sblk_addrs[sblk_off], sblk_idx, H5AC_WRITE)))
                H5E_THROW(H5E_CANTPROTECT, "unable to protect extensible array super block, address = %llu", (unsigned long_long)iblock->sblk_addrs[sblk_off])

            /* Compute the data block index in super block */
            dblk_idx = (size_t)(elmt_idx / sblock->dblk_nelmts);
#ifdef QAK
HDfprintf(stderr, "%s: dblk_idx = %u, sblock->ndblks = %Zu\n", FUNC, dblk_idx, sblock->ndblks);
#endif /* QAK */
            HDassert(dblk_idx < sblock->ndblks);

            /* Check if the data block has been allocated on disk yet */
            if(!H5F_addr_defined(sblock->dblk_addrs[dblk_idx])) {
                haddr_t dblk_addr;        /* Address of data block created */
                hsize_t dblk_off;         /* Offset of data block in array */

                /* Create data block */
                dblk_off = hdr->sblk_info[sblk_idx].start_idx + (dblk_idx * hdr->sblk_info[sblk_idx].dblk_nelmts);
                dblk_addr = H5EA__dblock_create(hdr, dxpl_id, dblk_off, sblock->dblk_nelmts);
                if(!H5F_addr_defined(dblk_addr))
                    H5E_THROW(H5E_CANTCREATE, "unable to create extensible array data block")

                /* Set data block address in index block */
                sblock->dblk_addrs[dblk_idx] = dblk_addr;
                sblock_cache_flags |= H5AC__DIRTIED_FLAG;

                /* Increment count of elements "realized" and actual data blocks created */
                hdr->stats.ndata_blks++;
                hdr->stats.nelmts += hdr->sblk_info[sblk_idx].dblk_nelmts;
                hdr_dirty = TRUE;
            } /* end if */

#ifdef QAK
if(sblock->dblk_npages)
    HDfprintf(stderr, "%s: Check 1.0: elmt_idx = %Hu\n", FUNC, elmt_idx);
#endif /* QAK */
            /* Adjust index to offset in data block */
            elmt_idx %= sblock->dblk_nelmts;
#ifdef QAK
if(sblock->dblk_npages)
    HDfprintf(stderr, "%s: Check 2.0: elmt_idx = %Hu\n", FUNC, elmt_idx);
#endif /* QAK */

            /* Check if the data block is paged */
            if(sblock->dblk_npages) {
                haddr_t dblk_page_addr;         /* Address of data block page */
                size_t page_idx;                /* Index of page within data block */
                size_t page_init_idx;           /* Index of 'page init' bit */

                /* Compute page index */
                page_idx = (size_t)elmt_idx / hdr->dblk_page_nelmts;

                /* Compute 'page init' index */
                page_init_idx = (dblk_idx * sblock->dblk_npages) + page_idx;

                /* Adjust index to offset in data block page */
                elmt_idx %= hdr->dblk_page_nelmts;

                /* Compute data block page address */
                dblk_page_addr = sblock->dblk_addrs[dblk_idx] +
                        H5EA_DBLOCK_PREFIX_SIZE(sblock) + 
                        (page_idx * sblock->dblk_page_size);
#ifdef QAK
HDfprintf(stderr, "%s: sblock->addr = %a\n", FUNC, sblock->addr);
HDfprintf(stderr, "%s: sblock->dblk_addrs[%Zu] = %a\n", FUNC, dblk_idx, sblock->dblk_addrs[dblk_idx]);
HDfprintf(stderr, "%s: H5EA_DBLOCK_PREFIX_SIZE(sblock) = %u\n", FUNC, (unsigned)H5EA_DBLOCK_PREFIX_SIZE(sblock));
HDfprintf(stderr, "%s: sblock->page_init[%Zu] = %t\n", FUNC, page_init_idx, H5V_bit_get(sblock->page_init, page_init_idx));
HDfprintf(stderr, "%s: page_idx = %Zu, elmt_idx = %Hu, dblk_page_addr = %a\n", FUNC, page_idx, elmt_idx, dblk_page_addr);
HDfprintf(stderr, "%s: sblock->dblk_page_size = %Zu\n", FUNC, sblock->dblk_page_size);
#endif /* QAK */

                /* Check if page has been initialized yet */
                if(!H5V_bit_get(sblock->page_init, page_init_idx)) {
                    /* Create the data block page */
                    if(H5EA__dblk_page_create(hdr, dxpl_id, dblk_page_addr) < 0)
                        H5E_THROW(H5E_CANTCREATE, "unable to create data block page")

                    /* Mark data block page as initialized in super block */
                    H5V_bit_set(sblock->page_init, page_init_idx, TRUE);
                    sblock_cache_flags |= H5AC__DIRTIED_FLAG;
                } /* end if */

                /* Protect data block page */
                if(NULL == (dblk_page = H5EA__dblk_page_protect(hdr, dxpl_id, dblk_page_addr, H5AC_WRITE)))
                    H5E_THROW(H5E_CANTPROTECT, "unable to protect extensible array data block page, address = %llu", (unsigned long_long)dblk_page_addr)

                /* Set pointer to elements */
                elmts = dblk_page->elmts;
            } /* end if */
            else {
                /* Protect data block */
                if(NULL == (dblock = H5EA__dblock_protect(hdr, dxpl_id, sblock->dblk_addrs[dblk_idx], sblock->dblk_nelmts, H5AC_WRITE)))
                    H5E_THROW(H5E_CANTPROTECT, "unable to protect extensible array data block, address = %llu", (unsigned long_long)sblock->dblk_addrs[dblk_idx])

                /* Set pointer to elements */
                elmts = dblock->elmts;
            } /* end else */

            /* Set element in data block */
            HDmemcpy(((uint8_t *)elmts) + (hdr->cparam.cls->nat_elmt_size * elmt_idx), elmt, hdr->cparam.cls->nat_elmt_size);

            /* Mark data block/data block page as dirty now */
            if(sblock->dblk_npages)
                dblk_page_cache_flags |= H5AC__DIRTIED_FLAG;
            else
                dblock_cache_flags |= H5AC__DIRTIED_FLAG;
        } /* end else */
    } /* end else */

    /* Update max. element set in array, if appropriate */
#ifdef QAK
HDfprintf(stderr, "%s: idx = %Hu, hdr->stats.max_idx_set = %Hu\n", FUNC, idx, hdr->stats.max_idx_set);
#endif /* QAK */
    if(idx >= hdr->stats.max_idx_set) {
        hdr->stats.max_idx_set = idx + 1;
        hdr_dirty = TRUE;
    } /* end if */

CATCH
    /* Check for header modified */
    if(hdr_dirty)
        if(H5EA__hdr_modified(hdr) < 0)
            H5E_THROW(H5E_CANTMARKDIRTY, "unable to mark extensible array header as modified")

    /* Release resources */
    if(iblock && H5EA__iblock_unprotect(iblock, dxpl_id, iblock_cache_flags) < 0)
        H5E_THROW(H5E_CANTUNPROTECT, "unable to release extensible array index block")
    if(sblock && H5EA__sblock_unprotect(sblock, dxpl_id, sblock_cache_flags) < 0)
        H5E_THROW(H5E_CANTUNPROTECT, "unable to release extensible array super block")
    if(dblock && H5EA__dblock_unprotect(dblock, dxpl_id, dblock_cache_flags) < 0)
        H5E_THROW(H5E_CANTUNPROTECT, "unable to release extensible array data block")
    if(dblk_page && H5EA__dblk_page_unprotect(dblk_page, dxpl_id, dblk_page_cache_flags) < 0)
        H5E_THROW(H5E_CANTUNPROTECT, "unable to release extensible array data block page")

END_FUNC(PRIV)  /* end H5EA_set() */


/*-------------------------------------------------------------------------
 * Function:	H5EA_get
 *
 * Purpose:	Get an element of an extensible array
 *
 * Return:	SUCCEED/FAIL
 *
 * Programmer:	Quincey Koziol
 *		koziol@hdfgroup.org
 *		Sep 11 2008
 *
 *-------------------------------------------------------------------------
 */
BEGIN_FUNC(PRIV, ERR,
herr_t, SUCCEED, FAIL,
H5EA_get(const H5EA_t *ea, hid_t dxpl_id, hsize_t idx, void *elmt))

    /* Local variables */
    H5EA_hdr_t *hdr = ea->hdr;          /* Header for EA */
    H5EA_iblock_t *iblock = NULL;       /* Pointer to index block for EA */
    H5EA_sblock_t *sblock = NULL;       /* Pointer to super block for EA */
    H5EA_dblock_t *dblock = NULL;       /* Pointer to data block for EA */
    H5EA_dblk_page_t *dblk_page = NULL; /* Pointer to data block page for EA */

#ifdef QAK
HDfprintf(stderr, "%s: Called\n", FUNC);
HDfprintf(stderr, "%s: Index %Hu\n", FUNC, idx);
#endif /* QAK */

    /*
     * Check arguments.
     */
    HDassert(ea);
    HDassert(ea->hdr);

    /* Set the shared array header's file context for this operation */
    hdr->f = ea->f;

    /* Check for element beyond max. element in array */
    if(idx >= hdr->stats.max_idx_set) {
#ifdef QAK
HDfprintf(stderr, "%s: Element beyond max. index set, hdr->stats.max_idx_set = %Hu, idx = %Hu\n", FUNC, hdr->stats.max_idx_set, idx);
#endif /* QAK */
        /* Call the class's 'fill' callback */
        if((hdr->cparam.cls->fill)(elmt, (size_t)1) < 0)
            H5E_THROW(H5E_CANTSET, "can't set element to class's fill value")
    } /* end if */
    else {
#ifdef QAK
HDfprintf(stderr, "%s: Index block address is: %a\n", FUNC, hdr->idx_blk_addr);
#endif /* QAK */

        /* Protect index block */
        if(NULL == (iblock = H5EA__iblock_protect(hdr, dxpl_id, H5AC_READ)))
            H5E_THROW(H5E_CANTPROTECT, "unable to protect extensible array index block, address = %llu", (unsigned long_long)hdr->idx_blk_addr)

        /* Check if element is in index block */
        if(idx < hdr->cparam.idx_blk_elmts) {
            /* Get element from index block */
            HDmemcpy(elmt, ((uint8_t *)iblock->elmts) + (hdr->cparam.cls->nat_elmt_size * idx), hdr->cparam.cls->nat_elmt_size);
        } /* end if */
        else {
            unsigned sblk_idx;      /* Which superblock does this index fall in? */
            size_t dblk_idx;            /* Data block index */
            hsize_t elmt_idx;       /* Offset of element in super block */

            /* Get super block index where element is located */
            sblk_idx = H5EA__dblock_sblk_idx(hdr, idx);

            /* Adjust index to offset in super block */
            elmt_idx = idx - (hdr->cparam.idx_blk_elmts + hdr->sblk_info[sblk_idx].start_idx);
#ifdef QAK
HDfprintf(stderr, "%s: after adjusting for super block elements, elmt_idx = %Hu\n", FUNC, elmt_idx);
#endif /* QAK */

            /* Check for data block containing element address in the index block */
            if(sblk_idx < iblock->nsblks) {
#ifdef QAK
HDfprintf(stderr, "%s: Element in data block pointed to by address in index block\n", FUNC);
#endif /* QAK */
                /* Compute the data block index in index block */
                dblk_idx = (size_t)(hdr->sblk_info[sblk_idx].start_dblk + (elmt_idx / hdr->sblk_info[sblk_idx].dblk_nelmts));
#ifdef QAK
HDfprintf(stderr, "%s: dblk_idx = %u\n", FUNC, dblk_idx);
#endif /* QAK */
                HDassert(dblk_idx < iblock->ndblk_addrs);

                /* Check if the data block has been allocated on disk yet */
                if(!H5F_addr_defined(iblock->dblk_addrs[dblk_idx])) {
                    /* Call the class's 'fill' callback */
                    if((hdr->cparam.cls->fill)(elmt, (size_t)1) < 0)
                        H5E_THROW(H5E_CANTSET, "can't set element to class's fill value")
                } /* end if */
                else {
                    /* Protect data block */
                    if(NULL == (dblock = H5EA__dblock_protect(hdr, dxpl_id, iblock->dblk_addrs[dblk_idx], hdr->sblk_info[sblk_idx].dblk_nelmts, H5AC_READ)))
                        H5E_THROW(H5E_CANTPROTECT, "unable to protect extensible array data block, address = %llu", (unsigned long_long)iblock->dblk_addrs[dblk_idx])

                    /* Adjust index to offset in data block */
                    elmt_idx %= hdr->sblk_info[sblk_idx].dblk_nelmts;

                    /* Retrieve element from data block */
                    HDmemcpy(elmt, ((uint8_t *)dblock->elmts) + (hdr->cparam.cls->nat_elmt_size * elmt_idx), hdr->cparam.cls->nat_elmt_size);
                } /* end else */
            } /* end if */
            else {
                unsigned sblk_off;          /* Offset of super block in index block array of super blocks */

                /* Calculate offset of super block in index block's array */
                sblk_off = sblk_idx - iblock->nsblks;

                /* Check if the super block has been allocated on disk yet */
                if(!H5F_addr_defined(iblock->sblk_addrs[sblk_off])) {
                    /* Call the class's 'fill' callback */
                    if((hdr->cparam.cls->fill)(elmt, (size_t)1) < 0)
                        H5E_THROW(H5E_CANTSET, "can't set element to class's fill value")
                } /* end if */
                else {
                    /* Protect super block */
                    if(NULL == (sblock = H5EA__sblock_protect(hdr, dxpl_id, iblock->sblk_addrs[sblk_off], sblk_idx, H5AC_READ)))
                        H5E_THROW(H5E_CANTPROTECT, "unable to protect extensible array super block, address = %llu", (unsigned long_long)iblock->sblk_addrs[sblk_off])

                    /* Compute the data block index in super block */
                    dblk_idx = (size_t)(elmt_idx / sblock->dblk_nelmts);
#ifdef QAK
HDfprintf(stderr, "%s: dblk_idx = %u, sblock->ndblks = %Zu\n", FUNC, dblk_idx, sblock->ndblks);
#endif /* QAK */
                    HDassert(dblk_idx < sblock->ndblks);

                    /* Check if the data block has been allocated on disk yet */
                    if(!H5F_addr_defined(sblock->dblk_addrs[dblk_idx])) {
                        /* Call the class's 'fill' callback */
                        if((hdr->cparam.cls->fill)(elmt, (size_t)1) < 0)
                            H5E_THROW(H5E_CANTSET, "can't set element to class's fill value")
                    } /* end if */
                    else {
                        void *elmts;        /* Buffer for elements */

#ifdef QAK
if(sblock->dblk_npages)
    HDfprintf(stderr, "%s: Check 1.0: elmt_idx = %Hu\n", FUNC, elmt_idx);
#endif /* QAK */
                        /* Adjust index to offset in data block */
                        elmt_idx %= sblock->dblk_nelmts;
#ifdef QAK
if(sblock->dblk_npages)
    HDfprintf(stderr, "%s: Check 2.0: elmt_idx = %Hu\n", FUNC, elmt_idx);
#endif /* QAK */

                        /* Check if the data block is paged */
                        if(sblock->dblk_npages) {
                            size_t page_idx;                /* Index of page within data block */
                            size_t page_init_idx;           /* Index of 'page init' bit */

                            /* Compute page index */
                            page_idx = (size_t)elmt_idx / hdr->dblk_page_nelmts;

                            /* Compute 'page init' index */
                            page_init_idx = (dblk_idx * sblock->dblk_npages) + page_idx;

#ifdef QAK
HDfprintf(stderr, "%s: sblock->addr = %a\n", FUNC, sblock->addr);
HDfprintf(stderr, "%s: sblock->dblk_addrs[%Zu] = %a\n", FUNC, dblk_idx, sblock->dblk_addrs[dblk_idx]);
HDfprintf(stderr, "%s: H5EA_DBLOCK_PREFIX_SIZE(sblock) = %u\n", FUNC, (unsigned)H5EA_DBLOCK_PREFIX_SIZE(sblock));
HDfprintf(stderr, "%s: sblock->page_init[%Zu] = %t\n", FUNC, page_init_idx, H5V_bit_get(sblock->page_init, page_init_idx));
HDfprintf(stderr, "%s: page_idx = %Zu\n", FUNC, page_idx);
HDfprintf(stderr, "%s: sblock->dblk_page_size = %Zu\n", FUNC, sblock->dblk_page_size);
#endif /* QAK */

                            /* Check if page has been initialized yet */
                            if(!H5V_bit_get(sblock->page_init, page_init_idx)) {
                                /* Call the class's 'fill' callback */
                                if((hdr->cparam.cls->fill)(elmt, (size_t)1) < 0)
                                    H5E_THROW(H5E_CANTSET, "can't set element to class's fill value")

                                /* We've retrieved the value, leave now */
                                H5_LEAVE(SUCCEED)
                            } /* end if */
                            else {
                                haddr_t dblk_page_addr;     /* Address of data block page */

                                /* Adjust index to offset in data block page */
                                elmt_idx %= hdr->dblk_page_nelmts;

                                /* Compute data block page address */
                                dblk_page_addr = sblock->dblk_addrs[dblk_idx] +
                                        H5EA_DBLOCK_PREFIX_SIZE(sblock) +
                                        (page_idx * sblock->dblk_page_size);
#ifdef QAK
HDfprintf(stderr, "%s: elmt_idx = %Hu, dblk_page_addr = %a\n", FUNC, elmt_idx, dblk_page_addr);
#endif /* QAK */

                                /* Protect data block page */
                                if(NULL == (dblk_page = H5EA__dblk_page_protect(hdr, dxpl_id, dblk_page_addr, H5AC_READ)))
                                    H5E_THROW(H5E_CANTPROTECT, "unable to protect extensible array data block page, address = %llu", (unsigned long_long)dblk_page_addr)

                                /* Set pointer to elements */
                                elmts = dblk_page->elmts;
                            } /* end else */
                        } /* end if */
                        else {
                            /* Protect data block */
                            if(NULL == (dblock = H5EA__dblock_protect(hdr, dxpl_id, sblock->dblk_addrs[dblk_idx], sblock->dblk_nelmts, H5AC_READ)))
                                H5E_THROW(H5E_CANTPROTECT, "unable to protect extensible array data block, address = %llu", (unsigned long_long)sblock->dblk_addrs[dblk_idx])

                            /* Set pointer to elements */
                            elmts = dblock->elmts;
                        } /* end else */

                        /* Retrieve element from data block */
                        HDmemcpy(elmt, ((uint8_t *)elmts) + (hdr->cparam.cls->nat_elmt_size * elmt_idx), hdr->cparam.cls->nat_elmt_size);
                    } /* end else */
                } /* end else */
            } /* end else */
        } /* end else */
    } /* end else */

CATCH
    if(iblock && H5EA__iblock_unprotect(iblock, dxpl_id, H5AC__NO_FLAGS_SET) < 0)
        H5E_THROW(H5E_CANTUNPROTECT, "unable to release extensible array index block")
    if(sblock && H5EA__sblock_unprotect(sblock, dxpl_id, H5AC__NO_FLAGS_SET) < 0)
        H5E_THROW(H5E_CANTUNPROTECT, "unable to release extensible array super block")
    if(dblock && H5EA__dblock_unprotect(dblock, dxpl_id, H5AC__NO_FLAGS_SET) < 0)
        H5E_THROW(H5E_CANTUNPROTECT, "unable to release extensible array data block")
    if(dblk_page && H5EA__dblk_page_unprotect(dblk_page, dxpl_id, H5AC__NO_FLAGS_SET) < 0)
        H5E_THROW(H5E_CANTUNPROTECT, "unable to release extensible array data block page")

END_FUNC(PRIV)  /* end H5EA_set() */


/*-------------------------------------------------------------------------
 * Function:	H5EA_close
 *
 * Purpose:	Close an extensible array
 *
 * Return:	SUCCEED/FAIL
 *
 * Programmer:	Quincey Koziol
 *		koziol@hdfgroup.org
 *		Aug 21 2008
 *
 *-------------------------------------------------------------------------
 */
BEGIN_FUNC(PRIV, ERR,
herr_t, SUCCEED, FAIL,
H5EA_close(H5EA_t *ea, hid_t dxpl_id))

    /* Local variables */
    hbool_t pending_delete = FALSE;     /* Whether the array is pending deletion */
    haddr_t ea_addr = HADDR_UNDEF;      /* Address of array (for deletion) */

#ifdef QAK
HDfprintf(stderr, "%s: Called\n", FUNC);
#endif /* QAK */

    /*
     * Check arguments.
     */
    HDassert(ea);

    /* Decrement file reference & check if this is the last open extensible array using the shared array header */
    if(0 == H5EA__hdr_fuse_decr(ea->hdr)) {
        /* Set the shared array header's file context for this operation */
        ea->hdr->f = ea->f;

        /* Shut down anything that can't be put in the header's 'flush' callback */

        /* Check for pending array deletion */
        if(ea->hdr->pending_delete) {
            /* Set local info, so array deletion can occur after decrementing the
             *  header's ref count
             */
            pending_delete = TRUE;
            ea_addr = ea->hdr->addr;
        } /* end if */
    } /* end if */

    /* Decrement the reference count on the array header */
    /* (don't put in H5EA_hdr_fuse_decr() as the array header may be evicted
     *  immediately -QAK)
     */
    if(H5EA__hdr_decr(ea->hdr) < 0)
        H5E_THROW(H5E_CANTDEC, "can't decrement reference count on shared array header")

    /* Check for pending array deletion */
    if(pending_delete) {
        H5EA_hdr_t *hdr;            /* Another pointer to extensible array header */

        /* Lock the array header into memory */
        if(NULL == (hdr = (H5EA_hdr_t *)H5AC_protect(ea->f, dxpl_id, H5AC_EARRAY_HDR, ea_addr, NULL, NULL, H5AC_WRITE)))
            H5E_THROW(H5E_CANTLOAD, "unable to load extensible array header")

        /* Set the shared array header's file context for this operation */
        hdr->f = ea->f;

        /* Delete array, starting with header (unprotects header) */
        if(H5EA__hdr_delete(hdr, dxpl_id) < 0)
            H5E_THROW(H5E_CANTDELETE, "unable to delete extensible array")
    } /* end if */

    /* Release the extensible array wrapper */
    (void)H5FL_FREE(H5EA_t, ea);

CATCH

END_FUNC(PRIV)  /* end H5EA_close() */


/*-------------------------------------------------------------------------
 * Function:	H5EA_delete
 *
 * Purpose:	Delete an extensible array
 *
 * Return:	SUCCEED/FAIL
 *
 * Programmer:	Quincey Koziol
 *		koziol@hdfgroup.org
 *		Aug 28 2008
 *
 *-------------------------------------------------------------------------
 */
BEGIN_FUNC(PRIV, ERR,
herr_t, SUCCEED, FAIL,
H5EA_delete(H5F_t *f, hid_t dxpl_id, haddr_t ea_addr))

    /* Local variables */
    H5EA_hdr_t *hdr = NULL;             /* The fractal heap header information */

    /*
     * Check arguments.
     */
    HDassert(f);
    HDassert(H5F_addr_defined(ea_addr));

    /* Lock the array header into memory */
#ifdef QAK
HDfprintf(stderr, "%s: ea_addr = %a\n", FUNC, ea_addr);
#endif /* QAK */
    if(NULL == (hdr = (H5EA_hdr_t *)H5AC_protect(f, dxpl_id, H5AC_EARRAY_HDR, ea_addr, NULL, NULL, H5AC_WRITE)))
        H5E_THROW(H5E_CANTPROTECT, "unable to protect extensible array header, address = %llu", (unsigned long_long)ea_addr)

    /* Check for files using shared array header */
    if(hdr->file_rc)
        hdr->pending_delete = TRUE;
    else {
        /* Set the shared array header's file context for this operation */
        hdr->f = f;

        /* Delete array now, starting with header (unprotects header) */
        if(H5EA__hdr_delete(hdr, dxpl_id) < 0)
            H5E_THROW(H5E_CANTDELETE, "unable to delete extensible array")
        hdr = NULL;
    } /* end if */

CATCH

    /* Unprotect the header, if an error occurred */
    if(hdr && H5AC_unprotect(f, dxpl_id, H5AC_EARRAY_HDR, ea_addr, hdr, H5AC__NO_FLAGS_SET) < 0)
        H5E_THROW(H5E_CANTUNPROTECT, "unable to release extensible array header")

END_FUNC(PRIV)  /* end H5EA_delete() */