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
|
/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
* 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://support.hdfgroup.org/ftp/HDF5/releases. *
* If you do not have access to either file, you may request a copy from *
* help@hdfgroup.org. *
* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
#define H5Z_PACKAGE /*suppress error about including H5Zpkg */
#include "H5private.h" /* Generic Functions */
#include "H5Eprivate.h" /* Error handling */
#include "H5Fprivate.h" /* File access */
#include "H5Iprivate.h" /* IDs */
#include "H5MMprivate.h" /* Memory management */
#include "H5Oprivate.h" /* Object headers */
#include "H5Pprivate.h" /* Property lists */
#include "H5Sprivate.h" /* Dataspaces */
#include "H5Tprivate.h" /* Datatypes */
#include "H5Zpkg.h" /* Data filters */
#ifdef H5_HAVE_FILTER_SZIP
#ifdef H5_HAVE_SZLIB_H
# include "szlib.h"
#endif
/* Local function prototypes */
static htri_t H5Z_can_apply_szip(hid_t dcpl_id, hid_t type_id, hid_t space_id);
static herr_t H5Z_set_local_szip(hid_t dcpl_id, hid_t type_id, hid_t space_id);
static size_t H5Z_filter_szip (unsigned flags, size_t cd_nelmts,
const unsigned cd_values[], size_t nbytes, size_t *buf_size, void **buf);
/* This message derives from H5Z */
H5Z_class2_t H5Z_SZIP[1] = {{
H5Z_CLASS_T_VERS, /* H5Z_class_t version */
H5Z_FILTER_SZIP, /* Filter id number */
1, /* Assume encoder present: check before registering */
1, /* decoder_present flag (set to true) */
"szip", /* Filter name for debugging */
H5Z_can_apply_szip, /* The "can apply" callback */
H5Z_set_local_szip, /* The "set local" callback */
H5Z_filter_szip, /* The actual filter function */
}};
/*-------------------------------------------------------------------------
* Function: H5Z_can_apply_szip
*
* Purpose: Check the parameters for szip compression for validity and
* whether they fit a particular dataset.
*
* Note: This function currently range-checks for datatypes with
* 8-bit boundaries (8, 16, 24, etc.). It appears that the szip
* library can actually handle 1-24, 32 & 64 bit samples. If
* this becomes important, we should make the checks below more
* sophisticated and have them check for n-bit datatypes of the
* correct size, etc. - QAK
*
* Return: Success: Non-negative
* Failure: Negative
*
* Programmer: Quincey Koziol
* Monday, April 7, 2003
*
* Modifications:
*
*-------------------------------------------------------------------------
*/
static htri_t
H5Z_can_apply_szip(hid_t H5_ATTR_UNUSED dcpl_id, hid_t type_id, hid_t H5_ATTR_UNUSED space_id)
{
const H5T_t *type; /* Datatype */
unsigned dtype_size; /* Datatype's size (in bits) */
H5T_order_t dtype_order; /* Datatype's endianness order */
htri_t ret_value = TRUE; /* Return value */
FUNC_ENTER_NOAPI(FAIL)
/* Get datatype */
if(NULL == (type = H5I_object_verify(type_id, H5I_DATATYPE)))
HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not a datatype")
/* Get datatype's size, for checking the "bits-per-pixel" */
if((dtype_size = (8 * H5T_get_size(type))) == 0)
HGOTO_ERROR(H5E_PLINE, H5E_BADTYPE, FAIL, "bad datatype size")
/* Range check datatype's size */
if(dtype_size > 32 && dtype_size != 64)
HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FALSE, "invalid datatype size")
/* Get datatype's endianness order */
if((dtype_order = H5T_get_order(type)) == H5T_ORDER_ERROR)
HGOTO_ERROR(H5E_PLINE, H5E_BADTYPE, FAIL, "can't retrieve datatype endianness order")
/* Range check datatype's endianness order */
/* (Note: this may not handle non-atomic datatypes well) */
if(dtype_order != H5T_ORDER_LE && dtype_order != H5T_ORDER_BE)
HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FALSE, "invalid datatype endianness order")
done:
FUNC_LEAVE_NOAPI(ret_value)
} /* end H5Z_can_apply_szip() */
/*-------------------------------------------------------------------------
* Function: H5Z_set_local_szip
*
* Purpose: Set the "local" dataset parameters for szip compression.
*
* Return: Success: Non-negative
* Failure: Negative
*
* Programmer: Quincey Koziol
* Monday, April 7, 2003
*
* Modifications: Used new logic to set the size of the scanline parameter.
* Now SZIP compression can be applied to the chunk
* of any shape and size with only one restriction: the number
* of elements in the chunk has to be not less than number
* of elements (pixels) in the block (cd_values[H5Z_SZIP_PARM_PPB]
* parameter).
* Elena Pourmal, July 20, 2004
*
*-------------------------------------------------------------------------
*/
static herr_t
H5Z_set_local_szip(hid_t dcpl_id, hid_t type_id, hid_t space_id)
{
H5P_genplist_t *dcpl_plist; /* Property list pointer */
const H5T_t *type; /* Datatype */
const H5S_t *ds; /* Dataspace */
unsigned flags; /* Filter flags */
size_t cd_nelmts = H5Z_SZIP_USER_NPARMS; /* Number of filter parameters */
unsigned cd_values[H5Z_SZIP_TOTAL_NPARMS]; /* Filter parameters */
hsize_t dims[H5O_LAYOUT_NDIMS]; /* Dataspace (i.e. chunk) dimensions */
int ndims; /* Number of (chunk) dimensions */
H5T_order_t dtype_order; /* Datatype's endianness order */
size_t dtype_size; /* Datatype's size (in bits) */
size_t dtype_precision; /* Datatype's precision (in bits) */
size_t dtype_offset; /* Datatype's offset (in bits) */
hsize_t scanline; /* Size of dataspace's fastest changing dimension */
herr_t ret_value = SUCCEED; /* Return value */
FUNC_ENTER_NOAPI(FAIL)
/* Get the plist structure */
if(NULL == (dcpl_plist = H5P_object_verify(dcpl_id, H5P_DATASET_CREATE)))
HGOTO_ERROR(H5E_ATOM, H5E_BADATOM, FAIL, "can't find object for ID")
/* Get datatype */
if(NULL == (type = H5I_object_verify(type_id, H5I_DATATYPE)))
HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not a datatype")
/* Get the filter's current parameters */
if(H5P_get_filter_by_id(dcpl_plist, H5Z_FILTER_SZIP, &flags, &cd_nelmts, cd_values, 0, NULL, NULL) < 0)
HGOTO_ERROR(H5E_PLINE, H5E_CANTGET, FAIL, "can't get szip parameters")
/* Get datatype's size, for checking the "bits-per-pixel" */
if((dtype_size = (8 * H5T_get_size(type))) == 0)
HGOTO_ERROR(H5E_PLINE, H5E_BADTYPE, FAIL, "bad datatype size");
/* Get datatype's precision, in case is less than full bits */
if((dtype_precision = H5T_get_precision(type)) == 0)
HGOTO_ERROR(H5E_PLINE, H5E_BADTYPE, FAIL, "bad datatype precision");
if(dtype_precision < dtype_size) {
dtype_offset = H5T_get_offset(type);
if(dtype_offset != 0)
dtype_precision = dtype_size;
} /* end if */
if(dtype_precision > 24) {
if(dtype_precision <= 32)
dtype_precision = 32;
else if(dtype_precision <= 64)
dtype_precision = 64;
} /* end if */
/* Set "local" parameter for this dataset's "bits-per-pixel" */
cd_values[H5Z_SZIP_PARM_BPP] = dtype_precision;
/* Get dataspace */
if(NULL == (ds = (H5S_t *)H5I_object_verify(space_id, H5I_DATASPACE)))
HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not a dataspace")
/* Get dimensions for dataspace */
if((ndims = H5S_get_simple_extent_dims(ds, dims, NULL)) < 0)
HGOTO_ERROR(H5E_PLINE, H5E_CANTGET, FAIL, "unable to get dataspace dimensions")
/* Set "local" parameter for this dataset's "pixels-per-scanline" */
/* (Use the chunk's fastest changing dimension size) */
HDassert(ndims > 0);
scanline = dims[ndims - 1];
/* Adjust scanline if it is smaller than number of pixels per block or
if it is bigger than maximum pixels per scanline, or there are more than
SZ_MAX_BLOCKS_PER_SCANLINE blocks per scanline */
/* Check the pixels per block against the 'scanline' size */
if(scanline < cd_values[H5Z_SZIP_PARM_PPB]) {
hssize_t npoints; /* Number of points in the dataspace */
/* Get number of elements for the dataspace; use
total number of elements in the chunk to define the new 'scanline' size */
if((npoints = H5S_GET_EXTENT_NPOINTS(ds)) < 0)
HGOTO_ERROR(H5E_PLINE, H5E_CANTGET, FAIL, "unable to get number of points in the dataspace")
if(npoints < cd_values[H5Z_SZIP_PARM_PPB])
HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "pixels per block greater than total number of elements in the chunk")
scanline = MIN((cd_values[H5Z_SZIP_PARM_PPB] * SZ_MAX_BLOCKS_PER_SCANLINE), npoints);
}
else {
if(scanline <= SZ_MAX_PIXELS_PER_SCANLINE)
scanline = MIN((cd_values[H5Z_SZIP_PARM_PPB] * SZ_MAX_BLOCKS_PER_SCANLINE), scanline);
else
scanline = cd_values[H5Z_SZIP_PARM_PPB] * SZ_MAX_BLOCKS_PER_SCANLINE;
} /* end else */
/* Assign the final value to the scanline */
H5_CHECKED_ASSIGN(cd_values[H5Z_SZIP_PARM_PPS], unsigned, scanline, hsize_t);
/* Get datatype's endianness order */
if((dtype_order = H5T_get_order(type)) == H5T_ORDER_ERROR)
HGOTO_ERROR(H5E_PLINE, H5E_BADTYPE, FAIL, "bad datatype endianness order")
/* Set the correct endianness flag for szip */
/* (Note: this may not handle non-atomic datatypes well) */
cd_values[H5Z_SZIP_PARM_MASK] &= ~(SZ_LSB_OPTION_MASK|SZ_MSB_OPTION_MASK);
switch(dtype_order) {
case H5T_ORDER_LE: /* Little-endian byte order */
cd_values[H5Z_SZIP_PARM_MASK] |= SZ_LSB_OPTION_MASK;
break;
case H5T_ORDER_BE: /* Big-endian byte order */
cd_values[H5Z_SZIP_PARM_MASK] |= SZ_MSB_OPTION_MASK;
break;
default:
HGOTO_ERROR(H5E_PLINE, H5E_BADTYPE, FAIL, "bad datatype endianness order")
} /* end switch */
/* Modify the filter's parameters for this dataset */
if(H5P_modify_filter(dcpl_plist, H5Z_FILTER_SZIP, flags, H5Z_SZIP_TOTAL_NPARMS, cd_values) < 0)
HGOTO_ERROR(H5E_PLINE, H5E_CANTSET, FAIL, "can't set local szip parameters")
done:
FUNC_LEAVE_NOAPI(ret_value)
} /* end H5Z_set_local_szip() */
/*-------------------------------------------------------------------------
* Function: H5Z_filter_szip
*
* Purpose: Implement an I/O filter around the 'rice' algorithm in
* libsz
*
* Return: Success: Size of buffer filtered
* Failure: 0
*
* Programmer: Kent Yang
* Tuesday, April 1, 2003
*
* Modifications:
* Quincey Koziol, April 2, 2003
* Cleaned up code.
*
*-------------------------------------------------------------------------
*/
static size_t
H5Z_filter_szip (unsigned flags, size_t cd_nelmts, const unsigned cd_values[],
size_t nbytes, size_t *buf_size, void **buf)
{
size_t ret_value = 0; /* Return value */
size_t size_out = 0; /* Size of output buffer */
unsigned char *outbuf = NULL; /* Pointer to new output buffer */
unsigned char *newbuf = NULL; /* Pointer to input buffer */
SZ_com_t sz_param; /* szip parameter block */
FUNC_ENTER_NOAPI(0)
/* Sanity check to make certain that we haven't drifted out of date with
* the mask options from the szlib.h header */
HDassert(H5_SZIP_ALLOW_K13_OPTION_MASK==SZ_ALLOW_K13_OPTION_MASK);
HDassert(H5_SZIP_CHIP_OPTION_MASK==SZ_CHIP_OPTION_MASK);
HDassert(H5_SZIP_EC_OPTION_MASK==SZ_EC_OPTION_MASK);
HDassert(H5_SZIP_LSB_OPTION_MASK==SZ_LSB_OPTION_MASK);
HDassert(H5_SZIP_MSB_OPTION_MASK==SZ_MSB_OPTION_MASK);
HDassert(H5_SZIP_NN_OPTION_MASK==SZ_NN_OPTION_MASK);
HDassert(H5_SZIP_RAW_OPTION_MASK==SZ_RAW_OPTION_MASK);
/* Check arguments */
if (cd_nelmts!=4)
HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, 0, "invalid deflate aggression level")
/* Copy the filter parameters into the szip parameter block */
H5_CHECKED_ASSIGN(sz_param.options_mask, int, cd_values[H5Z_SZIP_PARM_MASK], unsigned);
H5_CHECKED_ASSIGN(sz_param.bits_per_pixel, int, cd_values[H5Z_SZIP_PARM_BPP], unsigned);
H5_CHECKED_ASSIGN(sz_param.pixels_per_block, int, cd_values[H5Z_SZIP_PARM_PPB], unsigned);
H5_CHECKED_ASSIGN(sz_param.pixels_per_scanline, int, cd_values[H5Z_SZIP_PARM_PPS], unsigned);
/* Input; uncompress */
if (flags & H5Z_FLAG_REVERSE) {
uint32_t stored_nalloc; /* Number of bytes the compressed block will expand into */
size_t nalloc; /* Number of bytes the compressed block will expand into */
/* Get the size of the uncompressed buffer */
newbuf = *buf;
UINT32DECODE(newbuf,stored_nalloc);
H5_CHECKED_ASSIGN(nalloc, size_t, stored_nalloc, uint32_t);
/* Allocate space for the uncompressed buffer */
if(NULL==(outbuf = H5MM_malloc(nalloc)))
HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, 0, "memory allocation failed for szip decompression")
/* Decompress the buffer */
size_out=nalloc;
if(SZ_BufftoBuffDecompress(outbuf, &size_out, newbuf, nbytes-4, &sz_param) != SZ_OK)
HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, 0, "szip_filter: decompression failed")
HDassert(size_out==nalloc);
/* Free the input buffer */
H5MM_xfree(*buf);
/* Set return values */
*buf = outbuf;
outbuf = NULL;
*buf_size = nalloc;
ret_value = nalloc;
}
/* Output; compress */
else {
unsigned char *dst = NULL; /* Temporary pointer to new output buffer */
/* Allocate space for the compressed buffer & header (assume data won't get bigger) */
if(NULL==(dst=outbuf = H5MM_malloc(nbytes+4)))
HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, 0, "unable to allocate szip destination buffer")
/* Encode the uncompressed length */
H5_CHECK_OVERFLOW(nbytes,size_t,uint32_t);
UINT32ENCODE(dst,nbytes);
/* Compress the buffer */
size_out = nbytes;
if(SZ_OK!= SZ_BufftoBuffCompress(dst, &size_out, *buf, nbytes, &sz_param))
HGOTO_ERROR(H5E_PLINE, H5E_CANTINIT, 0, "overflow")
HDassert(size_out<=nbytes);
/* Free the input buffer */
H5MM_xfree(*buf);
/* Set return values */
*buf = outbuf;
outbuf = NULL;
*buf_size = size_out+4;
ret_value = size_out+4;
}
done:
if(outbuf)
H5MM_xfree(outbuf);
FUNC_LEAVE_NOAPI(ret_value)
}
#endif /* H5_HAVE_FILTER_SZIP */
|
