summaryrefslogtreecommitdiffstats
path: root/c++/src/H5File.cpp
blob: abcbc6bdca16ec618460bfd6d707da3b74378a11 (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
/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
 * 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://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html.  If you do not have     *
 * access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
 * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */

#ifdef OLD_HEADER_FILENAME
#include <iostream.h>
#else
#include <iostream>
#endif

#include <string>
#ifndef H5_NO_NAMESPACE
#ifndef H5_NO_STD
    using std::string;
#endif  // H5_NO_STD
#endif

#include "H5Include.h"
#include "H5Exception.h"
#include "H5IdComponent.h"
#include "H5PropList.h"
#include "H5Object.h"
#include "H5FaccProp.h"
#include "H5FcreatProp.h"
#include "H5DxferProp.h"
#include "H5DcreatProp.h"
#include "H5CommonFG.h"
#include "H5Group.h"
#include "H5AbstractDs.h"
#include "H5DataSpace.h"
#include "H5DataSet.h"
#include "H5File.h"
#include "H5Alltypes.h"

#ifndef H5_NO_NAMESPACE
namespace H5 {
#ifndef H5_NO_STD
    using std::cerr;
    using std::endl;
#endif  // H5_NO_STD
#endif

//--------------------------------------------------------------------------
// Function	H5File default constructor
///\brief	Default constructor: creates a stub H5File object.
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
H5File::H5File() : IdComponent() {}

//--------------------------------------------------------------------------
// Function:	H5File overloaded constructor
///\brief	Creates or opens an HDF5 file depending on the parameter flags.
///\param	name         - IN: Name of the file
///\param	flags        - IN: File access flags
///\param	create_plist - IN: File creation property list, used when
///		modifying default file meta-data.  Default to
///		FileCreatPropList::DEFAULT
///\param	access_plist - IN: File access property list.  Default to
///		FileCreatPropList::DEFAULT
///\par Description
///		Valid values of \a flags include:
///		\li \c H5F_ACC_TRUNC - Truncate file, if it already exists,
///				       erasing all data previously stored in
///				       the file.
///		\li \c H5F_ACC_EXCL - Fail if file already exists.
///			\c H5F_ACC_TRUNC and \c H5F_ACC_EXCL are mutually exclusive
///		\li \c H5F_ACC_DEBUG - print debug information. This flag is
///			used only by HDF5 library developers; it is neither
///			tested nor supported for use in applications.
///\par
///		For info on file creation in the case of an already-open file,
///		please refer to the \b Special \b case section in the C layer
///		Reference Manual at:
/// http://hdf.ncsa.uiuc.edu/HDF5/doc/RM_H5F.html#File-Create
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
H5File::H5File( const char* name, unsigned int flags, const FileCreatPropList& create_plist, const FileAccPropList& access_plist ) : IdComponent()
{
   p_get_file(name, flags, create_plist, access_plist);
}

//--------------------------------------------------------------------------
// Function:	H5File overloaded constructor
///\brief	This is another overloaded constructor.  It differs from the
///		above constructor only in the type of the \a name argument.
///\param	name - IN: Name of the file - \c std::string
///\param	flags - IN: File access flags
///\param	create_plist - IN: File creation property list, used when
///		modifying default file meta-data.  Default to
///		FileCreatPropList::DEFAULT
///\param	access_plist - IN: File access property list.  Default to
///		FileCreatPropList::DEFAULT
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
H5File::H5File( const string& name, unsigned int flags, const FileCreatPropList& create_plist, const FileAccPropList& access_plist ) : IdComponent()
{
   p_get_file(name.c_str(), flags, create_plist, access_plist);
}

//--------------------------------------------------------------------------
// This function is private and contains common code between the
// constructors taking a string or a char*
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
void H5File::p_get_file(const char* name, unsigned int flags, const FileCreatPropList& create_plist, const FileAccPropList& access_plist)
{
    // These bits only set for creation, so if any of them are set,
    // create the file.
    if( flags & (H5F_ACC_CREAT|H5F_ACC_EXCL|H5F_ACC_TRUNC|H5F_ACC_DEBUG))
    {
	hid_t create_plist_id = create_plist.getId();
	hid_t access_plist_id = access_plist.getId();
	id = H5Fcreate( name, flags, create_plist_id, access_plist_id );
	if( id < 0 )  // throw an exception when open/create fail
	{
	    throw FileIException("H5File constructor", "H5Fcreate failed");
	}
    }
    // Open the file if none of the bits above are set.
    else
    {
	hid_t access_plist_id = access_plist.getId();
	id = H5Fopen( name, flags, access_plist_id );
	if( id < 0 )  // throw an exception when open/create fail
	{
	    throw FileIException("H5File constructor", "H5Fopen failed");
	}
    }
}

//--------------------------------------------------------------------------
// Function:	H5File copy constructor
///\brief	Copy constructor: makes a copy of the original
///		H5File object.
///\param	original - IN: H5File instance to copy
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
H5File::H5File( const H5File& original ) : IdComponent( original ) {}

//--------------------------------------------------------------------------
// Function:	H5File::isHdf5
///\brief	Determines whether a file in HDF5 format.
///\param	name - IN: Name of the file
///\return	true if the file is in HDF5 format, and false, otherwise
///\exception	H5::FileIException
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
bool H5File::isHdf5(const char* name )
{
   // Calls C routine H5Fis_hdf5 to determine whether the file is in
   // HDF5 format.  It returns positive value, 0, or negative value
   htri_t ret_value = H5Fis_hdf5( name );
   if( ret_value > 0 )
      return true;
   else if( ret_value == 0 )
      return false;
   else // Raise exception when H5Fis_hdf5 returns a negative value
   {
      throw FileIException("H5File::isHdf5", "H5Fis_hdf5 returned negative value");
   }
}

//--------------------------------------------------------------------------
// Function:	H5File::isHdf5
///\brief	This is an overloaded member function, provided for convenience.
///		It takes an \c std::string for \a name.
///\param	name - IN: Name of the file - \c std::string
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
bool H5File::isHdf5(const string& name )
{
   return( isHdf5( name.c_str()) );
}

//--------------------------------------------------------------------------
// Function:	openFile
///\brief	Opens an HDF5 file
///\param	name         - IN: Name of the file
///\param	flags        - IN: File access flags
///\param	access_plist - IN: File access property list.  Default to
///		FileCreatPropList::DEFAULT
///\par Description
///		Valid values of \a flags include:
///		H5F_ACC_RDWR:   Open with read/write access. If the file is
///				currently open for read-only access then it
///				will be reopened. Absence of this flag
///				implies read-only access.
///
///		H5F_ACC_RDONLY: Open with read only access. - default
///
// Programmer	Binh-Minh Ribler - Oct, 2005
//--------------------------------------------------------------------------
void H5File::openFile(const char* name, unsigned int flags, const FileAccPropList& access_plist)
{
    hid_t access_plist_id = access_plist.getId();
    id = H5Fopen (name, flags, access_plist_id);
    if (id < 0)  // throw an exception when open fails
    {
	throw FileIException("H5File::openFile", "H5Fopen failed");
    }
}

//--------------------------------------------------------------------------
// Function:	H5File::openFile
///\brief	This is an overloaded member function, provided for convenience.
///		It takes an \c std::string for \a name.
///\param	name         - IN: Name of the file - \c std::string
///\param	flags        - IN: File access flags
///\param	access_plist - IN: File access property list.  Default to
///		FileAccPropList::DEFAULT
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
void H5File::openFile(const string& name, unsigned int flags, const FileAccPropList& access_plist)
{
    openFile(name.c_str(), flags, access_plist);
}

//--------------------------------------------------------------------------
// Function:	H5File::reOpen
///\brief	Reopens this file.
///
///\exception	H5::FileIException
// Description
//		If this object has represented another HDF5 file, the previous
//		HDF5 file need to be closed first.
// Programmer	Binh-Minh Ribler - 2000
// Note:        This wrapper doesn't seem right regarding the 'id' and should
//              be investigated.  BMR - 2/20/2005
// Modification
//		Replaced resetIdComponent with decRefCount to use C library
//		ID reference counting mechanism - June 1, 2004
//--------------------------------------------------------------------------
void H5File::reOpen()
{
   // If this object has a valid id, appropriately decrement reference
   // counter and close the id.
    try {
        decRefCount();
    }
    catch (Exception close_error) {
        throw FileIException("H5File::reOpen", close_error.getDetailMsg());
    }

   // call C routine to reopen the file - Note: not sure about this
   // does id need to be closed later?  which id to be the parameter?
   id = H5Freopen( id );
   if( id < 0 ) // Raise exception when H5Freopen returns a neg value
      throw FileIException("H5File::reOpen", "H5Freopen failed");
}

//--------------------------------------------------------------------------
// Function:	H5File::reopen
///\brief	Reopens this file.
///
///\exception	H5::FileIException
///\par Description
///		This function will be replaced by the above function \c reOpen
///		in future releases.
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
void H5File::reopen()
{
   H5File::reOpen();
}

//--------------------------------------------------------------------------
// Function:	H5File::getCreatePlist
///\brief	Returns the creation property list of this file
///\return	FileCreatPropList object
///\exception	H5::FileIException
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
FileCreatPropList H5File::getCreatePlist() const
{
   hid_t create_plist_id = H5Fget_create_plist( id );

   // if H5Fget_create_plist returns a valid id, create and return
   // the FileCreatPropList object for this property list
   if( create_plist_id > 0 )
   {
      FileCreatPropList create_plist( create_plist_id );
      return( create_plist );
   }
   else
   {
      throw FileIException("H5File::getCreatePlist", "H5Fget_create_plist failed");
   }
}

//--------------------------------------------------------------------------
// Function:	H5File::getAccessPlist
///\brief	Returns the access property list of this file
///\return	FileAccPropList object
///\exception	H5::FileIException
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
FileAccPropList H5File::getAccessPlist() const
{
   hid_t access_plist_id = H5Fget_access_plist( id );

   // if H5Fget_access_plist returns a valid id, create and return
   // the FileAccPropList object for this property list
   if( access_plist_id > 0 )
   {
      FileAccPropList access_plist( access_plist_id );
      return access_plist;
   }
   else // Raise an exception
   {
      throw FileIException("H5File::getAccessPlist", "H5Fget_access_plist failed");
   }
}

//--------------------------------------------------------------------------
// Function:	H5File::getFreeSpace
///\brief	Returns the amount of free space in the file.
///\return	Amount of free space
///\exception	H5::FileIException
// Programmer   Binh-Minh Ribler - May 2004
//--------------------------------------------------------------------------
hssize_t H5File::getFreeSpace() const
{
   hssize_t free_space = H5Fget_freespace(id);
   if( free_space < 0 )
   {
      throw FileIException("H5File::getFreeSpace", "H5Fget_freespace failed");
   }
   return (free_space);
}


//--------------------------------------------------------------------------
// Function:	H5File::getObjCount
///\brief	Returns the number of opened object IDs (files, datasets,
///		groups and datatypes) in the same file.
///\param	types - Type of object to retrieve the count
///\return	Number of opened object IDs
///\exception	H5::FileIException
///\par Description
///		The valid values for \a types include:
///		\li \c H5F_OBJ_FILE	- Files only
///		\li \c H5F_OBJ_DATASET	- Datasets only
///		\li \c H5F_OBJ_GROUP	- Groups only
///		\li \c H5F_OBJ_DATATYPE	- Named datatypes only
///		\li \c H5F_OBJ_ATTR	- Attributes only
///		\li \c H5F_OBJ_ALL    - All of the above, i.e., \c H5F_OBJ_FILE
///					| \c H5F_OBJ_DATASET | \c H5F_OBJ_GROUP
///					| \c H5F_OBJ_DATATYPE | \c H5F_OBJ_ATTR
///\par
/// Multiple object types can be combined with the logical OR operator (|).
// Programmer   Binh-Minh Ribler - May 2004
//--------------------------------------------------------------------------
int H5File::getObjCount(unsigned types) const
{
   int num_objs = H5Fget_obj_count(id, types);
   if( num_objs < 0 )
   {
      throw FileIException("H5File::getObjCount", "H5Fget_obj_count failed");
   }
   return (num_objs);
}

//--------------------------------------------------------------------------
// Function:	H5File::getObjCount
///\brief	This is an overloaded member function, provided for convenience.
///		It takes no parameter and returns the object count of all
///		object types.
///\return	Number of opened object IDs
///\exception	H5::FileIException
// Programmer   Binh-Minh Ribler - May 2004
//--------------------------------------------------------------------------
int H5File::getObjCount() const
{
   int num_objs = H5Fget_obj_count(id, H5F_OBJ_ALL);
   if( num_objs < 0 )
   {
      throw FileIException("H5File::getObjCount", "H5Fget_obj_count failed");
   }
   return (num_objs);
}

//--------------------------------------------------------------------------
// Function:	H5File::getObjIDs
///\brief	Retrieves a list of opened object IDs (files, datasets,
///		groups and datatypes) in the same file.
///\param	types    - Type of object to retrieve the count
///\param	max_objs - Maximum number of object identifiers to place
///			   into obj_id_list.
///\param	oid_list - List of open object identifiers
///\exception	H5::FileIException
///\par Description
///		The valid values for \a types include:
///		\li \c H5F_OBJ_FILE	- Files only
///		\li \c H5F_OBJ_DATASET	- Datasets only
///		\li \c H5F_OBJ_GROUP	- Groups only
///		\li \c H5F_OBJ_DATATYPE	- Named datatypes only
///		\li \c H5F_OBJ_ATTR	- Attributes only
///		\li \c H5F_OBJ_ALL    - All of the above, i.e., \c H5F_OBJ_FILE
///					| \c H5F_OBJ_DATASET | \c H5F_OBJ_GROUP
///					| \c H5F_OBJ_DATATYPE | \c H5F_OBJ_ATTR
///\par
/// Multiple object types can be combined with the logical OR operator (|).
//
// Notes: will do the overload for this one after hearing from Quincey???
// Programmer   Binh-Minh Ribler - May 2004
//--------------------------------------------------------------------------
void H5File::getObjIDs(unsigned types, int max_objs, hid_t *oid_list) const
{
   herr_t ret_value = H5Fget_obj_ids(id, types, max_objs, oid_list);
   if( ret_value < 0 )
   {
      throw FileIException("H5File::getObjIDs", "H5Fget_obj_ids failed");
   }
}

//--------------------------------------------------------------------------
// Function:	H5File::getVFDHandle
///\brief	Returns the pointer to the file handle of the low-level file
///		driver.
///\param	fapl        - File access property list
///\param	file_handle - Pointer to the file handle being used by
///			      the low-level virtual file driver
///\exception	H5::FileIException
///\par Description
///		For the \c FAMILY or \c MULTI drivers, \a fapl should be
///		defined through the property list functions:
///		\c FileAccPropList::setFamilyOffset for the \c FAMILY driver
///		and \c FileAccPropList::setMultiType for the \c MULTI driver.
///
///		The obtained file handle is dynamic and is valid only while
///		the file remains open; it will be invalid if the file is
///		closed and reopened or opened during a subsequent session.
// Programmer   Binh-Minh Ribler - May 2004
//--------------------------------------------------------------------------
void H5File::getVFDHandle(FileAccPropList& fapl, void **file_handle) const
{
   hid_t fapl_id = fapl.getId();
   herr_t ret_value = H5Fget_vfd_handle(id, fapl_id, file_handle);
   if( ret_value < 0 )
   {
      throw FileIException("H5File::getVFDHandle", "H5Fget_vfd_handle failed");
   }
}

//--------------------------------------------------------------------------
// Function:	H5File::getVFDHandle
///\brief	This is an overloaded member function, provided for convenience.
///		It differs from the above function only in what arguments it
///		accepts.
///\param	file_handle - Pointer to the file handle being used by
///			      the low-level virtual file driver
///\exception	H5::FileIException
// Programmer   Binh-Minh Ribler - May 2004
//--------------------------------------------------------------------------
void H5File::getVFDHandle(void **file_handle) const
{
   herr_t ret_value = H5Fget_vfd_handle(id, H5P_DEFAULT, file_handle);
   if( ret_value < 0 )
   {
      throw FileIException("H5File::getVFDHandle", "H5Fget_vfd_handle failed");
   }
}

//--------------------------------------------------------------------------
// Function:	H5File::getFileName
///\brief	Gets the name of this file.
///\return	File name
///\exception	H5::IdComponentException
// Programmer	Binh-Minh Ribler - Jul, 2004
//--------------------------------------------------------------------------
string H5File::getFileName() const
{
   try {
      return(p_get_file_name());
   }
   catch (IdComponentException E) {
      throw FileIException("H5File::getFileName", E.getDetailMsg());
   }
}

//--------------------------------------------------------------------------
// Function:	H5File::Reference
///\brief	Creates a reference to an Hdf5 object or a dataset region.
///\param	name - IN: Name of the object to be referenced
///\param	dataspace - IN: Dataspace with selection
///\param	ref_type - IN: Type of reference; default to \c H5R_DATASET_REGION
///\return	A reference
///\exception	H5::IdComponentException
///\par Description
///		Note that name must be an absolute path to the object in the file.
// Programmer	Binh-Minh Ribler - May, 2004
//--------------------------------------------------------------------------
void* H5File::Reference(const char* name, DataSpace& dataspace, H5R_type_t ref_type) const
{
   try {
      return(p_reference(name, dataspace.getId(), ref_type));
   }
   catch (IdComponentException E) {
      throw FileIException("H5File::Reference", E.getDetailMsg());
   }
}

//--------------------------------------------------------------------------
// Function:	H5File::Reference
///\brief	This is an overloaded function, provided for your convenience.
///		It differs from the above function in that it only creates
///		a reference to an HDF5 object, not to a dataset region.
///\param	name - IN: Name of the object to be referenced
///\return	A reference
///\exception	H5::IdComponentException
///\par Description
//		This function passes H5R_OBJECT and -1 to the protected
//		function for it to pass to the C API H5Rcreate
//		to create a reference to the named object.
///\par
///		Note that, for H5File, name must be an absolute path to the
///		object in the file.
// Programmer	Binh-Minh Ribler - May, 2004
//--------------------------------------------------------------------------
void* H5File::Reference(const char* name) const
{
   try {
      return(p_reference(name, -1, H5R_OBJECT));
   }
   catch (IdComponentException E) {
      throw FileIException("H5File::Reference", E.getDetailMsg());
   }
}

//--------------------------------------------------------------------------
// Function:	H5File::Reference
///\brief	This is an overloaded function, provided for your convenience.
///		It differs from the above function in that it takes an
///		\c std::string for the object's name.
///\param	name - IN: Name of the object to be referenced - \c std::string
// Programmer	Binh-Minh Ribler - May, 2004
//--------------------------------------------------------------------------
void* H5File::Reference(const string& name) const
{
   return(Reference(name.c_str()));
}

//--------------------------------------------------------------------------
// Function:	H5File::getObjType
///\brief	Retrieves the type of object that an object reference points to.
///\param	ref      - IN: Reference to query
///\param	ref_type - IN: Type of reference to query
///\return	Object type, which can be one of the following:
///		\li \c H5G_LINK    - Object is a symbolic link.
///		\li \c H5G_GROUP   - Object is a group.
///		\li \c H5G_DATASET - Object is a dataset.
///		\li \c H5G_TYPE    - Object is a named datatype
///\exception	H5::IdComponentException
// Programmer	Binh-Minh Ribler - May, 2004
//--------------------------------------------------------------------------
H5G_obj_t H5File::getObjType(void *ref, H5R_type_t ref_type) const
{
   try {
      return(p_get_obj_type(ref, ref_type));
   }
   catch (IdComponentException E) {
      throw FileIException("H5File::getObjType", E.getDetailMsg());
   }
}

//--------------------------------------------------------------------------
// Function:	H5File::getRegion
///\brief	Retrieves a dataspace with the region pointed to selected.
///\param	ref      - IN: Reference to get region of
///\param	ref_type - IN: Type of reference to get region of - default
///\return	DataSpace instance
///\exception	H5::IdComponentException
// Programmer	Binh-Minh Ribler - May, 2004
//--------------------------------------------------------------------------
DataSpace H5File::getRegion(void *ref, H5R_type_t ref_type) const
{
   try {
      DataSpace dataspace(p_get_region(ref, ref_type));
      return(dataspace);
   }
   catch (IdComponentException E) {
      throw FileIException("H5File::getRegion", E.getDetailMsg());
   }
}

//--------------------------------------------------------------------------
// Function:	H5File::getFileSize
///\brief	Returns the file size of the HDF5 file.
///\return	File size
///\exception	H5::FileIException
///\par Description
///		This function is called after an existing file is opened in
///		order to learn the true size of the underlying file.
// Programmer   Raymond Lu - June 24, 2004
//--------------------------------------------------------------------------
hsize_t H5File::getFileSize() const
{
   hsize_t file_size;
   herr_t ret_value = H5Fget_filesize(id, &file_size);
   if (ret_value < 0)
   {
      throw FileIException("H5File::getFileSize", "H5Fget_filesize failed");
   }
   return (file_size);
}

//--------------------------------------------------------------------------
// Function:	H5File::getLocId
// Purpose:	Get the id of this file
// Description
//		This function is a redefinition of CommonFG::getLocId.  It
//		is used by CommonFG member functions to get the file id.
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
hid_t H5File::getLocId() const
{
   return( getId() );
}

//--------------------------------------------------------------------------
// Function:	H5File::close
///\brief	Closes this HDF5 file.
///
///\exception	H5::FileIException
// Programmer	Binh-Minh Ribler - Mar 9, 2005
//--------------------------------------------------------------------------
void H5File::close()
{
   herr_t ret_value = H5Fclose( id );
   if( ret_value < 0 )
   {
      throw FileIException("H5File::close", "H5Fclose failed");
   }
   // reset the id because the file that it represents is now closed
   id = 0;
}

//--------------------------------------------------------------------------
// Function:	H5File::throwException
///\brief	Throws file exception - initially implemented for CommonFG
///\param	func_name - Name of the function where failure occurs
///\param	msg       - Message describing the failure
///\exception	H5::FileIException
// Description
// 		This function is used in CommonFG implementation so that
//		proper exception can be thrown for file or group.  The
//		argument func_name is a member of CommonFG and "H5File::"
//		will be inserted to indicate the function called is an
//		implementation of H5File.
// Programmer	Binh-Minh Ribler - 2000
//--------------------------------------------------------------------------
void H5File::throwException(const string func_name, const string msg) const
{
   string full_name = func_name;
   full_name.insert(0, "H5File::");
   throw FileIException(full_name, msg);
}

//--------------------------------------------------------------------------
// Function:	H5File destructor
///\brief	Properly terminates access to this file.
// Programmer	Binh-Minh Ribler - 2000
// Modification
//		Replaced resetIdComponent with decRefCount to use C library
//		ID reference counting mechanism - June 1, 2004
//--------------------------------------------------------------------------
H5File::~H5File()
{
   // The HDF5 file id will be closed properly
    try {
        decRefCount();
    }
    catch (Exception close_error) {
        cerr << "H5File::~H5File - " << close_error.getDetailMsg() << endl;
    }
}

#ifndef H5_NO_NAMESPACE
} // end namespace
#endif