Mercurial > hg > octave-nkf
annotate src/ov-re-sparse.cc @ 9469:c6edba80dfae
sanity checks for loading sparse matrices
| author | John W. Eaton <jwe@octave.org> |
|---|---|
| date | Wed, 29 Jul 2009 12:15:27 -0400 |
| parents | eb63fbe60fab |
| children | bcdf878e2686 |
| rev | line source |
|---|---|
| 5164 | 1 /* |
| 2 | |
| 8920 | 3 Copyright (C) 2004, 2005, 2006, 2007, 2008 David Bateman |
| 7016 | 4 Copyright (C) 1998, 1999, 2000, 2001, 2002, 2003, 2004 Andy Adler |
| 5 | |
| 6 This file is part of Octave. | |
| 5164 | 7 |
| 8 Octave is free software; you can redistribute it and/or modify it | |
| 9 under the terms of the GNU General Public License as published by the | |
| 7016 | 10 Free Software Foundation; either version 3 of the License, or (at your |
| 11 option) any later version. | |
| 5164 | 12 |
| 13 Octave is distributed in the hope that it will be useful, but WITHOUT | |
| 14 ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or | |
| 15 FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License | |
| 16 for more details. | |
| 17 | |
| 18 You should have received a copy of the GNU General Public License | |
| 7016 | 19 along with Octave; see the file COPYING. If not, see |
| 20 <http://www.gnu.org/licenses/>. | |
| 5164 | 21 |
| 22 */ | |
| 23 | |
| 24 #ifdef HAVE_CONFIG_H | |
| 25 #include <config.h> | |
| 26 #endif | |
| 27 | |
| 28 #include <climits> | |
| 29 | |
| 30 #include <iostream> | |
| 31 #include <vector> | |
| 32 | |
|
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33 #include "lo-specfun.h" |
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34 #include "lo-mappers.h" |
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35 #include "oct-locbuf.h" |
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36 |
| 5164 | 37 #include "ov-base.h" |
| 38 #include "ov-scalar.h" | |
| 39 #include "gripes.h" | |
| 40 | |
| 41 #include "ls-hdf5.h" | |
| 42 | |
| 43 #include "ov-re-sparse.h" | |
| 44 | |
| 45 #include "ov-base-sparse.h" | |
| 46 #include "ov-base-sparse.cc" | |
| 47 | |
| 48 #include "ov-bool-sparse.h" | |
| 49 | |
| 6109 | 50 template class OCTINTERP_API octave_base_sparse<SparseMatrix>; |
| 5164 | 51 |
| 52 DEFINE_OCTAVE_ALLOCATOR (octave_sparse_matrix); | |
| 53 | |
| 6823 | 54 DEFINE_OV_TYPEID_FUNCTIONS_AND_DATA (octave_sparse_matrix, "sparse matrix", "double"); |
| 5164 | 55 |
| 5282 | 56 idx_vector |
| 57 octave_sparse_matrix::index_vector (void) const | |
| 58 { | |
| 5604 | 59 if (matrix.numel () == matrix.nnz ()) |
| 5282 | 60 return idx_vector (array_value ()); |
| 61 else | |
| 62 { | |
| 63 std::string nm = type_name (); | |
| 64 error ("%s type invalid as index value", nm.c_str ()); | |
| 65 return idx_vector (); | |
| 66 } | |
| 67 } | |
| 68 | |
| 5759 | 69 octave_base_value * |
| 5164 | 70 octave_sparse_matrix::try_narrowing_conversion (void) |
| 71 { | |
| 5759 | 72 octave_base_value *retval = 0; |
| 5164 | 73 |
| 7193 | 74 if (Vsparse_auto_mutate) |
| 5164 | 75 { |
| 7193 | 76 // Don't use numel, since it can overflow for very large matrices |
| 77 // Note that for the second test, this means it becomes approximative | |
| 78 // since it involves a cast to double to avoid issues of overflow | |
| 79 if (matrix.rows () == 1 && matrix.cols () == 1) | |
| 80 { | |
| 81 // Const copy of the matrix, so the right version of () operator used | |
| 82 const SparseMatrix tmp (matrix); | |
| 5164 | 83 |
| 7193 | 84 retval = new octave_scalar (tmp (0)); |
| 85 } | |
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86 else if (matrix.cols () > 0 && matrix.rows () > 0 |
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87 && (double (matrix.byte_size ()) > double (matrix.rows ()) |
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88 * double (matrix.cols ()) * sizeof (double))) |
| 7193 | 89 retval = new octave_matrix (matrix.matrix_value ()); |
| 5164 | 90 } |
| 91 | |
| 92 return retval; | |
| 93 } | |
| 94 | |
| 95 double | |
| 96 octave_sparse_matrix::double_value (bool) const | |
| 97 { | |
| 98 double retval = lo_ieee_nan_value (); | |
| 99 | |
| 100 if (numel () > 0) | |
| 101 { | |
| 6221 | 102 if (numel () > 1) |
| 103 gripe_implicit_conversion ("Octave:array-as-scalar", | |
| 104 "real sparse matrix", "real scalar"); | |
| 5164 | 105 |
| 106 retval = matrix (0, 0); | |
| 107 } | |
| 108 else | |
| 109 gripe_invalid_conversion ("real sparse matrix", "real scalar"); | |
| 110 | |
| 111 return retval; | |
| 112 } | |
| 113 | |
| 114 Complex | |
| 115 octave_sparse_matrix::complex_value (bool) const | |
| 116 { | |
| 117 double tmp = lo_ieee_nan_value (); | |
| 118 | |
| 119 Complex retval (tmp, tmp); | |
| 120 | |
| 5775 | 121 // FIXME -- maybe this should be a function, valid_as_scalar() |
| 5164 | 122 if (rows () > 0 && columns () > 0) |
| 123 { | |
| 6221 | 124 if (numel () > 1) |
| 125 gripe_implicit_conversion ("Octave:array-as-scalar", | |
| 126 "real sparse matrix", "complex scalar"); | |
| 5164 | 127 |
| 128 retval = matrix (0, 0); | |
| 129 } | |
| 130 else | |
| 131 gripe_invalid_conversion ("real sparse matrix", "complex scalar"); | |
| 132 | |
| 133 return retval; | |
| 134 } | |
| 135 | |
| 136 Matrix | |
| 137 octave_sparse_matrix::matrix_value (bool) const | |
| 138 { | |
| 139 return matrix.matrix_value (); | |
| 140 } | |
| 141 | |
| 5898 | 142 boolNDArray |
| 5943 | 143 octave_sparse_matrix::bool_array_value (bool warn) const |
| 5898 | 144 { |
| 5943 | 145 NDArray m = matrix.matrix_value (); |
| 146 | |
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147 if (m.any_element_is_nan ()) |
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148 error ("invalid conversion from NaN to logical"); |
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149 else if (warn && m.any_element_not_one_or_zero ()) |
| 5943 | 150 gripe_logical_conversion (); |
| 151 | |
| 152 return boolNDArray (m); | |
| 5898 | 153 } |
| 154 | |
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155 charNDArray |
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156 octave_sparse_matrix::char_array_value (bool) const |
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157 { |
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158 charNDArray retval (dims (), 0); |
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159 octave_idx_type nc = matrix.cols (); |
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160 octave_idx_type nr = matrix.rows (); |
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161 |
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162 for (octave_idx_type j = 0; j < nc; j++) |
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163 for (octave_idx_type i = matrix.cidx(j); i < matrix.cidx(j+1); i++) |
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164 retval(matrix.ridx(i) + nr * j) = static_cast<char>(matrix.data (i)); |
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165 |
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166 return retval; |
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167 } |
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168 |
| 5164 | 169 ComplexMatrix |
| 170 octave_sparse_matrix::complex_matrix_value (bool) const | |
| 171 { | |
| 172 return ComplexMatrix (matrix.matrix_value ()); | |
| 173 } | |
| 174 | |
| 175 ComplexNDArray | |
| 176 octave_sparse_matrix::complex_array_value (bool) const | |
| 177 { | |
| 178 return ComplexNDArray (ComplexMatrix (matrix.matrix_value ())); | |
| 179 } | |
| 180 | |
| 181 NDArray | |
| 182 octave_sparse_matrix::array_value (bool) const | |
| 183 { | |
| 184 return NDArray (matrix.matrix_value ()); | |
| 185 } | |
| 186 | |
| 5282 | 187 octave_value |
| 5322 | 188 octave_sparse_matrix::convert_to_str_internal (bool, bool, char type) const |
| 5282 | 189 { |
| 190 octave_value retval; | |
| 191 dim_vector dv = dims (); | |
| 192 octave_idx_type nel = dv.numel (); | |
| 193 | |
| 194 if (nel == 0) | |
| 195 { | |
| 196 char s = '\0'; | |
| 5322 | 197 retval = octave_value (&s, type); |
| 5282 | 198 } |
| 199 else | |
| 200 { | |
| 201 octave_idx_type nr = matrix.rows (); | |
| 202 octave_idx_type nc = matrix.cols (); | |
| 203 charNDArray chm (dv, static_cast<char> (0)); | |
| 204 | |
| 205 bool warned = false; | |
| 206 | |
| 207 for (octave_idx_type j = 0; j < nc; j++) | |
| 208 for (octave_idx_type i = matrix.cidx(j); | |
| 209 i < matrix.cidx(j+1); i++) | |
| 210 { | |
| 211 OCTAVE_QUIT; | |
| 212 | |
| 213 double d = matrix.data (i); | |
| 214 | |
| 215 if (xisnan (d)) | |
| 216 { | |
| 217 ::error ("invalid conversion from NaN to character"); | |
| 218 return retval; | |
| 219 } | |
| 220 else | |
| 221 { | |
| 222 int ival = NINT (d); | |
| 223 | |
| 224 if (ival < 0 || ival > UCHAR_MAX) | |
| 225 { | |
| 5775 | 226 // FIXME -- is there something |
| 5282 | 227 // better we could do? |
| 228 | |
| 229 ival = 0; | |
| 230 | |
| 231 if (! warned) | |
| 232 { | |
| 233 ::warning ("range error for conversion to character value"); | |
| 234 warned = true; | |
| 235 } | |
| 236 } | |
| 237 | |
| 238 chm (matrix.ridx(i) + j * nr) = | |
| 239 static_cast<char> (ival); | |
| 240 } | |
| 241 } | |
| 5322 | 242 retval = octave_value (chm, true, type); |
| 5282 | 243 } |
| 244 | |
| 245 return retval; | |
| 246 } | |
| 247 | |
| 5164 | 248 bool |
| 249 octave_sparse_matrix::save_binary (std::ostream& os, bool&save_as_floats) | |
| 250 { | |
| 251 dim_vector d = this->dims (); | |
| 252 if (d.length() < 1) | |
| 253 return false; | |
| 254 | |
| 255 // Ensure that additional memory is deallocated | |
| 256 matrix.maybe_compress (); | |
| 257 | |
| 258 int nr = d(0); | |
| 259 int nc = d(1); | |
| 5604 | 260 int nz = nzmax (); |
| 5164 | 261 |
| 5828 | 262 int32_t itmp; |
| 5164 | 263 // Use negative value for ndims to be consistent with other formats |
| 264 itmp= -2; | |
| 5760 | 265 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 266 |
| 267 itmp= nr; | |
| 5760 | 268 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 269 |
| 270 itmp= nc; | |
| 5760 | 271 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 272 |
| 273 itmp= nz; | |
| 5760 | 274 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 275 |
| 276 save_type st = LS_DOUBLE; | |
| 277 if (save_as_floats) | |
| 278 { | |
| 279 if (matrix.too_large_for_float ()) | |
| 280 { | |
| 281 warning ("save: some values too large to save as floats --"); | |
| 282 warning ("save: saving as doubles instead"); | |
| 283 } | |
| 284 else | |
| 285 st = LS_FLOAT; | |
| 286 } | |
| 5775 | 287 else if (matrix.nzmax () > 8192) // FIXME -- make this configurable. |
| 5164 | 288 { |
| 289 double max_val, min_val; | |
| 290 if (matrix.all_integers (max_val, min_val)) | |
| 291 st = get_save_type (max_val, min_val); | |
| 292 } | |
| 293 | |
| 294 // add one to the printed indices to go from | |
| 295 // zero-based to one-based arrays | |
| 296 for (int i = 0; i < nc+1; i++) | |
| 297 { | |
| 298 OCTAVE_QUIT; | |
| 299 itmp = matrix.cidx(i); | |
| 5760 | 300 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 301 } |
| 302 | |
| 303 for (int i = 0; i < nz; i++) | |
| 304 { | |
| 305 OCTAVE_QUIT; | |
| 306 itmp = matrix.ridx(i); | |
| 5760 | 307 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 308 } |
| 309 | |
| 310 write_doubles (os, matrix.data(), st, nz); | |
| 311 | |
| 312 return true; | |
| 313 } | |
| 314 | |
| 315 bool | |
| 316 octave_sparse_matrix::load_binary (std::istream& is, bool swap, | |
| 317 oct_mach_info::float_format fmt) | |
| 318 { | |
| 5828 | 319 int32_t nz, nc, nr, tmp; |
| 5327 | 320 char ctmp; |
| 321 | |
| 5760 | 322 if (! is.read (reinterpret_cast<char *> (&tmp), 4)) |
| 5164 | 323 return false; |
| 324 | |
| 325 if (swap) | |
| 326 swap_bytes<4> (&tmp); | |
| 327 | |
| 328 if (tmp != -2) { | |
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329 error ("load: only 2D sparse matrices are supported"); |
| 5164 | 330 return false; |
| 331 } | |
| 332 | |
| 5760 | 333 if (! is.read (reinterpret_cast<char *> (&nr), 4)) |
| 5164 | 334 return false; |
| 5760 | 335 if (! is.read (reinterpret_cast<char *> (&nc), 4)) |
| 5164 | 336 return false; |
| 5760 | 337 if (! is.read (reinterpret_cast<char *> (&nz), 4)) |
| 5164 | 338 return false; |
| 339 | |
| 340 if (swap) | |
| 341 { | |
| 342 swap_bytes<4> (&nr); | |
| 343 swap_bytes<4> (&nc); | |
| 344 swap_bytes<4> (&nz); | |
| 345 } | |
| 346 | |
| 5275 | 347 SparseMatrix m (static_cast<octave_idx_type> (nr), |
| 348 static_cast<octave_idx_type> (nc), | |
| 349 static_cast<octave_idx_type> (nz)); | |
| 5164 | 350 |
| 351 for (int i = 0; i < nc+1; i++) | |
| 352 { | |
| 353 OCTAVE_QUIT; | |
| 5760 | 354 if (! is.read (reinterpret_cast<char *> (&tmp), 4)) |
| 5164 | 355 return false; |
| 356 if (swap) | |
| 357 swap_bytes<4> (&tmp); | |
| 358 m.xcidx(i) = tmp; | |
| 359 } | |
| 360 | |
| 361 for (int i = 0; i < nz; i++) | |
| 362 { | |
| 363 OCTAVE_QUIT; | |
| 5760 | 364 if (! is.read (reinterpret_cast<char *> (&tmp), 4)) |
| 5164 | 365 return false; |
| 366 if (swap) | |
| 367 swap_bytes<4> (&tmp); | |
| 368 m.xridx(i) = tmp; | |
| 369 } | |
| 370 | |
| 5760 | 371 if (! is.read (reinterpret_cast<char *> (&ctmp), 1)) |
| 5164 | 372 return false; |
| 373 | |
| 5760 | 374 read_doubles (is, m.xdata (), static_cast<save_type> (ctmp), nz, swap, fmt); |
| 5164 | 375 |
| 376 if (error_state || ! is) | |
| 377 return false; | |
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378 |
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379 if (! m.indices_ok ()) |
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380 return false; |
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381 |
| 5164 | 382 matrix = m; |
| 383 | |
| 384 return true; | |
| 385 } | |
| 386 | |
| 387 #if defined (HAVE_HDF5) | |
| 5900 | 388 |
| 5164 | 389 bool |
| 390 octave_sparse_matrix::save_hdf5 (hid_t loc_id, const char *name, | |
| 391 bool save_as_floats) | |
| 392 { | |
| 393 dim_vector dv = dims (); | |
| 394 int empty = save_hdf5_empty (loc_id, name, dv); | |
| 395 if (empty) | |
| 396 return (empty > 0); | |
| 397 | |
| 398 // Ensure that additional memory is deallocated | |
| 399 matrix.maybe_compress (); | |
| 400 | |
| 401 hid_t group_hid = H5Gcreate (loc_id, name, 0); | |
| 402 if (group_hid < 0) | |
| 403 return false; | |
| 404 | |
| 405 hid_t space_hid = -1, data_hid = -1; | |
| 406 bool retval = true; | |
| 407 SparseMatrix m = sparse_matrix_value (); | |
| 5351 | 408 octave_idx_type tmp; |
| 5164 | 409 hsize_t hdims[2]; |
| 410 | |
| 5760 | 411 space_hid = H5Screate_simple (0, hdims, 0); |
| 5164 | 412 if (space_hid < 0) |
| 413 { | |
| 414 H5Gclose (group_hid); | |
| 415 return false; | |
| 416 } | |
| 417 | |
| 5351 | 418 data_hid = H5Dcreate (group_hid, "nr", H5T_NATIVE_IDX, space_hid, |
| 5164 | 419 H5P_DEFAULT); |
| 420 if (data_hid < 0) | |
| 421 { | |
| 422 H5Sclose (space_hid); | |
| 423 H5Gclose (group_hid); | |
| 424 return false; | |
| 425 } | |
| 426 | |
| 427 tmp = m.rows (); | |
| 5351 | 428 retval = H5Dwrite (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, H5P_DEFAULT, |
| 5760 | 429 &tmp) >= 0; |
| 5164 | 430 H5Dclose (data_hid); |
| 431 if (!retval) | |
| 432 { | |
| 433 H5Sclose (space_hid); | |
| 434 H5Gclose (group_hid); | |
| 435 return false; | |
| 436 } | |
| 437 | |
| 5351 | 438 data_hid = H5Dcreate (group_hid, "nc", H5T_NATIVE_IDX, space_hid, |
| 5164 | 439 H5P_DEFAULT); |
| 440 if (data_hid < 0) | |
| 441 { | |
| 442 H5Sclose (space_hid); | |
| 443 H5Gclose (group_hid); | |
| 444 return false; | |
| 445 } | |
| 446 | |
| 447 tmp = m.cols (); | |
| 5351 | 448 retval = H5Dwrite (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, H5P_DEFAULT, |
| 5760 | 449 &tmp) >= 0; |
| 5164 | 450 H5Dclose (data_hid); |
| 451 if (!retval) | |
| 452 { | |
| 453 H5Sclose (space_hid); | |
| 454 H5Gclose (group_hid); | |
| 455 return false; | |
| 456 } | |
| 457 | |
| 5351 | 458 data_hid = H5Dcreate (group_hid, "nz", H5T_NATIVE_IDX, space_hid, |
| 5164 | 459 H5P_DEFAULT); |
| 460 if (data_hid < 0) | |
| 461 { | |
| 462 H5Sclose (space_hid); | |
| 463 H5Gclose (group_hid); | |
| 464 return false; | |
| 465 } | |
| 466 | |
| 5604 | 467 tmp = m.nzmax (); |
| 5351 | 468 retval = H5Dwrite (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, H5P_DEFAULT, |
| 5760 | 469 &tmp) >= 0; |
| 5164 | 470 H5Dclose (data_hid); |
| 471 if (!retval) | |
| 472 { | |
| 473 H5Sclose (space_hid); | |
| 474 H5Gclose (group_hid); | |
| 475 return false; | |
| 476 } | |
| 477 | |
| 478 H5Sclose (space_hid); | |
| 479 | |
| 480 hdims[0] = m.cols() + 1; | |
| 481 hdims[1] = 1; | |
| 482 | |
| 483 space_hid = H5Screate_simple (2, hdims, 0); | |
| 484 | |
| 485 if (space_hid < 0) | |
| 486 { | |
| 487 H5Gclose (group_hid); | |
| 488 return false; | |
| 489 } | |
| 490 | |
| 5351 | 491 data_hid = H5Dcreate (group_hid, "cidx", H5T_NATIVE_IDX, space_hid, |
| 5164 | 492 H5P_DEFAULT); |
| 493 if (data_hid < 0) | |
| 494 { | |
| 495 H5Sclose (space_hid); | |
| 496 H5Gclose (group_hid); | |
| 497 return false; | |
| 498 } | |
| 499 | |
| 5351 | 500 octave_idx_type * itmp = m.xcidx (); |
| 501 retval = H5Dwrite (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, H5P_DEFAULT, | |
| 5760 | 502 itmp) >= 0; |
| 5164 | 503 H5Dclose (data_hid); |
| 504 if (!retval) | |
| 505 { | |
| 506 H5Sclose (space_hid); | |
| 507 H5Gclose (group_hid); | |
| 508 return false; | |
| 509 } | |
| 510 | |
| 511 H5Sclose (space_hid); | |
| 512 | |
| 5604 | 513 hdims[0] = m.nzmax (); |
| 5164 | 514 hdims[1] = 1; |
| 515 | |
| 516 space_hid = H5Screate_simple (2, hdims, 0); | |
| 517 | |
| 518 if (space_hid < 0) | |
| 519 { | |
| 520 H5Gclose (group_hid); | |
| 521 return false; | |
| 522 } | |
| 523 | |
| 5351 | 524 data_hid = H5Dcreate (group_hid, "ridx", H5T_NATIVE_IDX, space_hid, |
| 5164 | 525 H5P_DEFAULT); |
| 526 if (data_hid < 0) | |
| 527 { | |
| 528 H5Sclose (space_hid); | |
| 529 H5Gclose (group_hid); | |
| 530 return false; | |
| 531 } | |
| 532 | |
| 533 itmp = m.xridx (); | |
| 5351 | 534 retval = H5Dwrite (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, H5P_DEFAULT, |
| 5760 | 535 itmp) >= 0; |
| 5164 | 536 H5Dclose (data_hid); |
| 537 if (!retval) | |
| 538 { | |
| 539 H5Sclose (space_hid); | |
| 540 H5Gclose (group_hid); | |
| 541 return false; | |
| 542 } | |
| 543 | |
| 544 hid_t save_type_hid = H5T_NATIVE_DOUBLE; | |
| 545 | |
| 546 if (save_as_floats) | |
| 547 { | |
| 548 if (m.too_large_for_float ()) | |
| 549 { | |
| 550 warning ("save: some values too large to save as floats --"); | |
| 551 warning ("save: saving as doubles instead"); | |
| 552 } | |
| 553 else | |
| 554 save_type_hid = H5T_NATIVE_FLOAT; | |
| 555 } | |
| 556 #if HAVE_HDF5_INT2FLOAT_CONVERSIONS | |
| 557 // hdf5 currently doesn't support float/integer conversions | |
| 558 else | |
| 559 { | |
| 560 double max_val, min_val; | |
| 561 | |
| 562 if (m.all_integers (max_val, min_val)) | |
| 563 save_type_hid | |
| 564 = save_type_to_hdf5 (get_save_type (max_val, min_val)); | |
| 565 } | |
| 566 #endif /* HAVE_HDF5_INT2FLOAT_CONVERSIONS */ | |
| 567 | |
| 568 data_hid = H5Dcreate (group_hid, "data", save_type_hid, space_hid, | |
| 569 H5P_DEFAULT); | |
| 570 if (data_hid < 0) | |
| 571 { | |
| 572 H5Sclose (space_hid); | |
| 573 H5Gclose (group_hid); | |
| 574 return false; | |
| 575 } | |
| 576 | |
| 577 double * dtmp = m.xdata (); | |
| 578 retval = H5Dwrite (data_hid, H5T_NATIVE_DOUBLE, H5S_ALL, H5S_ALL, | |
| 5760 | 579 H5P_DEFAULT, dtmp) >= 0; |
| 5164 | 580 H5Dclose (data_hid); |
| 581 H5Sclose (space_hid); | |
| 582 H5Gclose (group_hid); | |
| 583 | |
| 584 return retval; | |
| 585 } | |
| 586 | |
| 587 bool | |
| 588 octave_sparse_matrix::load_hdf5 (hid_t loc_id, const char *name, | |
| 5760 | 589 bool /* have_h5giterate_bug */) |
| 5164 | 590 { |
| 5351 | 591 octave_idx_type nr, nc, nz; |
| 5164 | 592 hid_t group_hid, data_hid, space_hid; |
| 593 hsize_t rank; | |
| 594 | |
| 595 dim_vector dv; | |
| 596 int empty = load_hdf5_empty (loc_id, name, dv); | |
| 597 if (empty > 0) | |
| 598 matrix.resize(dv); | |
| 599 if (empty) | |
| 600 return (empty > 0); | |
| 601 | |
| 602 group_hid = H5Gopen (loc_id, name); | |
| 5760 | 603 if (group_hid < 0) return false; |
| 5164 | 604 |
| 605 data_hid = H5Dopen (group_hid, "nr"); | |
| 606 space_hid = H5Dget_space (data_hid); | |
| 607 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 608 | |
| 609 if (rank != 0) | |
| 610 { | |
| 611 H5Dclose (data_hid); | |
| 612 H5Gclose (group_hid); | |
| 613 return false; | |
| 614 } | |
| 615 | |
| 5351 | 616 if (H5Dread (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, |
| 5760 | 617 H5P_DEFAULT, &nr) < 0) |
| 5164 | 618 { |
| 619 H5Dclose (data_hid); | |
| 620 H5Gclose (group_hid); | |
| 621 return false; | |
| 622 } | |
| 623 | |
| 624 H5Dclose (data_hid); | |
| 625 | |
| 626 data_hid = H5Dopen (group_hid, "nc"); | |
| 627 space_hid = H5Dget_space (data_hid); | |
| 628 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 629 | |
| 630 if (rank != 0) | |
| 631 { | |
| 632 H5Dclose (data_hid); | |
| 633 H5Gclose (group_hid); | |
| 634 return false; | |
| 635 } | |
| 636 | |
| 5351 | 637 if (H5Dread (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, |
| 5760 | 638 H5P_DEFAULT, &nc) < 0) |
| 5164 | 639 { |
| 640 H5Dclose (data_hid); | |
| 641 H5Gclose (group_hid); | |
| 642 return false; | |
| 643 } | |
| 644 | |
| 645 H5Dclose (data_hid); | |
| 646 | |
| 647 data_hid = H5Dopen (group_hid, "nz"); | |
| 648 space_hid = H5Dget_space (data_hid); | |
| 649 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 650 | |
| 651 if (rank != 0) | |
| 652 { | |
| 653 H5Dclose (data_hid); | |
| 654 H5Gclose (group_hid); | |
| 655 return false; | |
| 656 } | |
| 657 | |
| 5351 | 658 if (H5Dread (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, |
| 5760 | 659 H5P_DEFAULT, &nz) < 0) |
| 5164 | 660 { |
| 661 H5Dclose (data_hid); | |
| 662 H5Gclose (group_hid); | |
| 663 return false; | |
| 664 } | |
| 665 | |
| 666 H5Dclose (data_hid); | |
| 667 | |
| 5275 | 668 SparseMatrix m (static_cast<octave_idx_type> (nr), |
| 669 static_cast<octave_idx_type> (nc), | |
| 670 static_cast<octave_idx_type> (nz)); | |
| 5164 | 671 |
| 672 data_hid = H5Dopen (group_hid, "cidx"); | |
| 673 space_hid = H5Dget_space (data_hid); | |
| 674 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 675 | |
| 676 if (rank != 2) | |
| 677 { | |
| 678 H5Sclose (space_hid); | |
| 679 H5Dclose (data_hid); | |
| 680 H5Gclose (group_hid); | |
| 681 return false; | |
| 682 } | |
| 683 | |
| 684 OCTAVE_LOCAL_BUFFER (hsize_t, hdims, rank); | |
| 685 OCTAVE_LOCAL_BUFFER (hsize_t, maxdims, rank); | |
| 686 | |
| 687 H5Sget_simple_extent_dims (space_hid, hdims, maxdims); | |
| 688 | |
|
9469
c6edba80dfae
sanity checks for loading sparse matrices
John W. Eaton <jwe@octave.org>
parents:
8920
diff
changeset
|
689 if (static_cast<int> (hdims[0]) != nc + 1 |
|
c6edba80dfae
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parents:
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diff
changeset
|
690 || static_cast<int> (hdims[1]) != 1) |
| 5164 | 691 { |
| 692 H5Sclose (space_hid); | |
| 693 H5Dclose (data_hid); | |
| 694 H5Gclose (group_hid); | |
| 695 return false; | |
| 696 } | |
| 697 | |
| 5351 | 698 octave_idx_type *itmp = m.xcidx (); |
| 699 if (H5Dread (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, | |
| 5760 | 700 H5P_DEFAULT, itmp) < 0) |
| 5164 | 701 { |
| 702 H5Sclose (space_hid); | |
| 703 H5Dclose (data_hid); | |
| 704 H5Gclose (group_hid); | |
| 705 return false; | |
| 706 } | |
| 707 | |
| 708 H5Sclose (space_hid); | |
| 709 H5Dclose (data_hid); | |
| 710 | |
| 711 data_hid = H5Dopen (group_hid, "ridx"); | |
| 712 space_hid = H5Dget_space (data_hid); | |
| 713 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 714 | |
| 715 if (rank != 2) | |
| 716 { | |
| 717 H5Sclose (space_hid); | |
| 718 H5Dclose (data_hid); | |
| 719 H5Gclose (group_hid); | |
| 720 return false; | |
| 721 } | |
| 722 | |
| 723 H5Sget_simple_extent_dims (space_hid, hdims, maxdims); | |
| 724 | |
| 5322 | 725 if (static_cast<int> (hdims[0]) != nz || static_cast<int> (hdims[1]) != 1) |
| 5164 | 726 { |
| 727 H5Sclose (space_hid); | |
| 728 H5Dclose (data_hid); | |
| 729 H5Gclose (group_hid); | |
| 730 return false; | |
| 731 } | |
| 732 | |
| 733 itmp = m.xridx (); | |
| 5351 | 734 if (H5Dread (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, |
| 5760 | 735 H5P_DEFAULT, itmp) < 0) |
| 5164 | 736 { |
| 737 H5Sclose (space_hid); | |
| 738 H5Dclose (data_hid); | |
| 739 H5Gclose (group_hid); | |
| 740 return false; | |
| 741 } | |
| 742 | |
| 743 H5Sclose (space_hid); | |
| 744 H5Dclose (data_hid); | |
| 745 | |
| 746 data_hid = H5Dopen (group_hid, "data"); | |
| 747 space_hid = H5Dget_space (data_hid); | |
| 748 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 749 | |
| 750 if (rank != 2) | |
| 751 { | |
| 752 H5Sclose (space_hid); | |
| 753 H5Dclose (data_hid); | |
| 754 H5Gclose (group_hid); | |
| 755 return false; | |
| 756 } | |
| 757 | |
| 758 H5Sget_simple_extent_dims (space_hid, hdims, maxdims); | |
| 759 | |
| 5322 | 760 if (static_cast<int> (hdims[0]) != nz || static_cast<int> (hdims[1]) != 1) |
| 5164 | 761 { |
| 762 H5Sclose (space_hid); | |
| 763 H5Dclose (data_hid); | |
| 764 H5Gclose (group_hid); | |
| 765 return false; | |
| 766 } | |
| 767 | |
| 768 double *dtmp = m.xdata (); | |
|
9469
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|
769 bool retval = false; |
| 5164 | 770 if (H5Dread (data_hid, H5T_NATIVE_DOUBLE, H5S_ALL, H5S_ALL, |
|
9469
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parents:
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|
771 H5P_DEFAULT, dtmp) >= 0 |
|
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diff
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|
772 && m.indices_ok ()) |
| 5164 | 773 { |
|
9469
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parents:
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diff
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|
774 retval = true; |
|
c6edba80dfae
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parents:
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diff
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|
775 matrix = m; |
| 5164 | 776 } |
| 777 | |
| 778 H5Sclose (space_hid); | |
| 779 H5Dclose (data_hid); | |
| 780 H5Gclose (group_hid); | |
| 781 | |
|
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|
782 return retval; |
| 5164 | 783 } |
| 5900 | 784 |
| 5164 | 785 #endif |
| 786 | |
| 5900 | 787 mxArray * |
| 788 octave_sparse_matrix::as_mxArray (void) const | |
| 789 { | |
| 6686 | 790 mwSize nz = nzmax(); |
| 791 mwSize nr = rows(); | |
| 792 mwSize nc = columns(); | |
| 5903 | 793 mxArray *retval = new mxArray (mxDOUBLE_CLASS, nr, nc, nz, mxREAL); |
| 794 double *pr = static_cast<double *> (retval->get_data ()); | |
| 6686 | 795 mwIndex *ir = retval->get_ir(); |
| 796 mwIndex *jc = retval->get_jc(); | |
| 5903 | 797 |
| 6686 | 798 for (mwIndex i = 0; i < nz; i++) |
| 5903 | 799 { |
| 800 pr[i] = matrix.data(i); | |
| 801 ir[i] = matrix.ridx(i); | |
| 802 } | |
| 803 | |
| 6686 | 804 for (mwIndex i = 0; i < nc + 1; i++) |
| 5903 | 805 jc[i] = matrix.cidx(i); |
| 806 | |
| 807 return retval; | |
| 5900 | 808 } |
| 809 | |
|
7503
8c32f95c2639
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|
810 static bool |
|
8c32f95c2639
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|
811 any_element_less_than (const SparseMatrix& a, double val) |
|
8c32f95c2639
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parents:
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diff
changeset
|
812 { |
|
8c32f95c2639
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parents:
7193
diff
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|
813 octave_idx_type len = a.nnz (); |
|
8c32f95c2639
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parents:
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changeset
|
814 |
|
8c32f95c2639
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changeset
|
815 if (val > 0. && len != a.numel ()) |
|
8c32f95c2639
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|
816 return true; |
|
8c32f95c2639
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David Bateman <dbateman@free.fr>
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|
817 |
|
8c32f95c2639
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changeset
|
818 for (octave_idx_type i = 0; i < len; i++) |
|
8c32f95c2639
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|
819 { |
|
8c32f95c2639
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|
820 OCTAVE_QUIT; |
|
8c32f95c2639
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|
821 |
|
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diff
changeset
|
822 if (a.data(i) < val) |
|
8c32f95c2639
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|
823 return true; |
|
8c32f95c2639
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David Bateman <dbateman@free.fr>
parents:
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diff
changeset
|
824 } |
|
8c32f95c2639
convert mapper functions to new format
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changeset
|
825 |
|
8c32f95c2639
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David Bateman <dbateman@free.fr>
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changeset
|
826 return false; |
|
8c32f95c2639
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diff
changeset
|
827 } |
|
8c32f95c2639
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|
828 |
|
8c32f95c2639
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|
829 static bool |
|
8c32f95c2639
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changeset
|
830 any_element_greater_than (const SparseMatrix& a, double val) |
|
8c32f95c2639
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diff
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831 { |
|
8c32f95c2639
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David Bateman <dbateman@free.fr>
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7193
diff
changeset
|
832 octave_idx_type len = a.nnz (); |
|
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|
833 |
|
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changeset
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834 if (val < 0. && len != a.numel ()) |
|
8c32f95c2639
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changeset
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835 return true; |
|
8c32f95c2639
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David Bateman <dbateman@free.fr>
parents:
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diff
changeset
|
836 |
|
8c32f95c2639
convert mapper functions to new format
David Bateman <dbateman@free.fr>
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diff
changeset
|
837 for (octave_idx_type i = 0; i < len; i++) |
|
8c32f95c2639
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David Bateman <dbateman@free.fr>
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diff
changeset
|
838 { |
|
8c32f95c2639
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David Bateman <dbateman@free.fr>
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diff
changeset
|
839 OCTAVE_QUIT; |
|
8c32f95c2639
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David Bateman <dbateman@free.fr>
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|
840 |
|
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changeset
|
841 if (a.data(i) > val) |
|
8c32f95c2639
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|
842 return true; |
|
8c32f95c2639
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David Bateman <dbateman@free.fr>
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|
843 } |
|
8c32f95c2639
convert mapper functions to new format
David Bateman <dbateman@free.fr>
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changeset
|
844 |
|
8c32f95c2639
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David Bateman <dbateman@free.fr>
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diff
changeset
|
845 return false; |
|
8c32f95c2639
convert mapper functions to new format
David Bateman <dbateman@free.fr>
parents:
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diff
changeset
|
846 } |
|
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changeset
|
847 |
|
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changeset
|
848 #define SPARSE_MAPPER(MAP, AMAP, FCN) \ |
|
8c32f95c2639
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David Bateman <dbateman@free.fr>
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|
849 octave_value \ |
|
8c32f95c2639
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changeset
|
850 octave_sparse_matrix::MAP (void) const \ |
|
8c32f95c2639
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851 { \ |
|
8c32f95c2639
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changeset
|
852 static AMAP dmap = FCN; \ |
|
8c32f95c2639
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diff
changeset
|
853 return matrix.map (dmap); \ |
|
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854 } |
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855 |
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856 #define CD_SPARSE_MAPPER(MAP, RFCN, CFCN, L1, L2) \ |
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857 octave_value \ |
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858 octave_sparse_matrix::MAP (void) const \ |
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859 { \ |
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860 static SparseMatrix::dmapper dmap = RFCN; \ |
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861 static SparseMatrix::cmapper cmap = CFCN; \ |
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862 \ |
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863 return (any_element_less_than (matrix, L1) \ |
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864 ? octave_value (matrix.map (cmap)) \ |
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865 : (any_element_greater_than (matrix, L2) \ |
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866 ? octave_value (matrix.map (cmap)) \ |
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867 : octave_value (matrix.map (dmap)))); \ |
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868 } |
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869 |
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870 static double |
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871 xconj (double x) |
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872 { |
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873 return x; |
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874 } |
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875 |
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876 SPARSE_MAPPER (erf, SparseMatrix::dmapper, ::erf) |
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877 SPARSE_MAPPER (erfc, SparseMatrix::dmapper, ::erfc) |
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878 SPARSE_MAPPER (gamma, SparseMatrix::dmapper, xgamma) |
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879 CD_SPARSE_MAPPER (lgamma, xlgamma, xlgamma, 0.0, octave_Inf) |
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880 SPARSE_MAPPER (abs, SparseMatrix::dmapper, ::fabs) |
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881 SPARSE_MAPPER (acos, SparseMatrix::dmapper, ::acos) |
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882 CD_SPARSE_MAPPER (acosh, ::acosh, ::acosh, 1.0, octave_Inf) |
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883 SPARSE_MAPPER (angle, SparseMatrix::dmapper, ::arg) |
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884 SPARSE_MAPPER (arg, SparseMatrix::dmapper, ::arg) |
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885 CD_SPARSE_MAPPER (asin, ::asin, ::asin, -1.0, 1.0) |
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886 SPARSE_MAPPER (asinh, SparseMatrix::dmapper, ::asinh) |
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887 SPARSE_MAPPER (atan, SparseMatrix::dmapper, ::atan) |
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888 CD_SPARSE_MAPPER (atanh, ::atanh, ::atanh, -1.0, 1.0) |
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889 SPARSE_MAPPER (ceil, SparseMatrix::dmapper, ::ceil) |
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890 SPARSE_MAPPER (conj, SparseMatrix::dmapper, xconj) |
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891 SPARSE_MAPPER (cos, SparseMatrix::dmapper, ::cos) |
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892 SPARSE_MAPPER (cosh, SparseMatrix::dmapper, ::cosh) |
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893 SPARSE_MAPPER (exp, SparseMatrix::dmapper, ::exp) |
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894 SPARSE_MAPPER (expm1, SparseMatrix::dmapper, ::expm1) |
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895 SPARSE_MAPPER (fix, SparseMatrix::dmapper, ::fix) |
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896 SPARSE_MAPPER (floor, SparseMatrix::dmapper, ::floor) |
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897 SPARSE_MAPPER (imag, SparseMatrix::dmapper, ::imag) |
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898 CD_SPARSE_MAPPER (log, ::log, std::log, 0.0, octave_Inf) |
| 7740 | 899 CD_SPARSE_MAPPER (log2, xlog2, xlog2, 0.0, octave_Inf) |
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900 CD_SPARSE_MAPPER (log10, ::log10, std::log10, 0.0, octave_Inf) |
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901 CD_SPARSE_MAPPER (log1p, ::log1p, ::log1p, 0.0, octave_Inf) |
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902 SPARSE_MAPPER (real, SparseMatrix::dmapper, ::real) |
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903 SPARSE_MAPPER (round, SparseMatrix::dmapper, xround) |
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904 SPARSE_MAPPER (roundb, SparseMatrix::dmapper, xroundb) |
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905 SPARSE_MAPPER (signum, SparseMatrix::dmapper, ::signum) |
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906 SPARSE_MAPPER (sin, SparseMatrix::dmapper, ::sin) |
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907 SPARSE_MAPPER (sinh, SparseMatrix::dmapper, ::sinh) |
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908 CD_SPARSE_MAPPER (sqrt, ::sqrt, std::sqrt, 0.0, octave_Inf) |
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909 SPARSE_MAPPER (tan, SparseMatrix::dmapper, ::tan) |
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910 SPARSE_MAPPER (tanh, SparseMatrix::dmapper, ::tanh) |
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911 SPARSE_MAPPER (finite, SparseMatrix::bmapper, xfinite) |
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912 SPARSE_MAPPER (isinf, SparseMatrix::bmapper, xisinf) |
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913 SPARSE_MAPPER (isna, SparseMatrix::bmapper, octave_is_NA) |
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914 SPARSE_MAPPER (isnan, SparseMatrix::bmapper, xisnan) |
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915 |
| 5164 | 916 /* |
| 917 ;;; Local Variables: *** | |
| 918 ;;; mode: C++ *** | |
| 919 ;;; End: *** | |
| 920 */ |