Mercurial > octave-nkf
annotate src/ov-re-sparse.cc @ 9881:b3089dba88bf
Remove HDF5 cruft for older versions of HDF5
| author | Kacper Kowalik |
|---|---|
| date | Sat, 28 Nov 2009 14:00:56 +0100 |
| parents | aabf7a8c2e57 |
| children | ac69e6f4b33d |
| rev | line source |
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| 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 | |
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187 SparseBoolMatrix |
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188 octave_sparse_matrix::sparse_bool_matrix_value (bool warn) const |
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189 { |
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190 if (matrix.any_element_is_nan ()) |
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191 error ("invalid conversion from NaN to logical"); |
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192 else if (warn && matrix.any_element_not_one_or_zero ()) |
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193 gripe_logical_conversion (); |
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194 |
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195 return mx_el_ne (matrix, 0.0); |
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196 } |
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197 |
| 5282 | 198 octave_value |
| 5322 | 199 octave_sparse_matrix::convert_to_str_internal (bool, bool, char type) const |
| 5282 | 200 { |
| 201 octave_value retval; | |
| 202 dim_vector dv = dims (); | |
| 203 octave_idx_type nel = dv.numel (); | |
| 204 | |
| 205 if (nel == 0) | |
| 206 { | |
| 207 char s = '\0'; | |
| 5322 | 208 retval = octave_value (&s, type); |
| 5282 | 209 } |
| 210 else | |
| 211 { | |
| 212 octave_idx_type nr = matrix.rows (); | |
| 213 octave_idx_type nc = matrix.cols (); | |
| 214 charNDArray chm (dv, static_cast<char> (0)); | |
| 215 | |
| 216 bool warned = false; | |
| 217 | |
| 218 for (octave_idx_type j = 0; j < nc; j++) | |
| 219 for (octave_idx_type i = matrix.cidx(j); | |
| 220 i < matrix.cidx(j+1); i++) | |
| 221 { | |
| 222 OCTAVE_QUIT; | |
| 223 | |
| 224 double d = matrix.data (i); | |
| 225 | |
| 226 if (xisnan (d)) | |
| 227 { | |
| 228 ::error ("invalid conversion from NaN to character"); | |
| 229 return retval; | |
| 230 } | |
| 231 else | |
| 232 { | |
| 233 int ival = NINT (d); | |
| 234 | |
| 235 if (ival < 0 || ival > UCHAR_MAX) | |
| 236 { | |
| 5775 | 237 // FIXME -- is there something |
| 5282 | 238 // better we could do? |
| 239 | |
| 240 ival = 0; | |
| 241 | |
| 242 if (! warned) | |
| 243 { | |
| 244 ::warning ("range error for conversion to character value"); | |
| 245 warned = true; | |
| 246 } | |
| 247 } | |
| 248 | |
| 249 chm (matrix.ridx(i) + j * nr) = | |
| 250 static_cast<char> (ival); | |
| 251 } | |
| 252 } | |
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253 |
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254 retval = octave_value (chm, type); |
| 5282 | 255 } |
| 256 | |
| 257 return retval; | |
| 258 } | |
| 259 | |
| 5164 | 260 bool |
| 261 octave_sparse_matrix::save_binary (std::ostream& os, bool&save_as_floats) | |
| 262 { | |
| 263 dim_vector d = this->dims (); | |
| 264 if (d.length() < 1) | |
| 265 return false; | |
| 266 | |
| 267 // Ensure that additional memory is deallocated | |
| 268 matrix.maybe_compress (); | |
| 269 | |
| 270 int nr = d(0); | |
| 271 int nc = d(1); | |
| 5604 | 272 int nz = nzmax (); |
| 5164 | 273 |
| 5828 | 274 int32_t itmp; |
| 5164 | 275 // Use negative value for ndims to be consistent with other formats |
| 276 itmp= -2; | |
| 5760 | 277 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 278 |
| 279 itmp= nr; | |
| 5760 | 280 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 281 |
| 282 itmp= nc; | |
| 5760 | 283 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 284 |
| 285 itmp= nz; | |
| 5760 | 286 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 287 |
| 288 save_type st = LS_DOUBLE; | |
| 289 if (save_as_floats) | |
| 290 { | |
| 291 if (matrix.too_large_for_float ()) | |
| 292 { | |
| 293 warning ("save: some values too large to save as floats --"); | |
| 294 warning ("save: saving as doubles instead"); | |
| 295 } | |
| 296 else | |
| 297 st = LS_FLOAT; | |
| 298 } | |
| 5775 | 299 else if (matrix.nzmax () > 8192) // FIXME -- make this configurable. |
| 5164 | 300 { |
| 301 double max_val, min_val; | |
| 302 if (matrix.all_integers (max_val, min_val)) | |
| 303 st = get_save_type (max_val, min_val); | |
| 304 } | |
| 305 | |
| 306 // add one to the printed indices to go from | |
| 307 // zero-based to one-based arrays | |
| 308 for (int i = 0; i < nc+1; i++) | |
| 309 { | |
| 310 OCTAVE_QUIT; | |
| 311 itmp = matrix.cidx(i); | |
| 5760 | 312 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 313 } |
| 314 | |
| 315 for (int i = 0; i < nz; i++) | |
| 316 { | |
| 317 OCTAVE_QUIT; | |
| 318 itmp = matrix.ridx(i); | |
| 5760 | 319 os.write (reinterpret_cast<char *> (&itmp), 4); |
| 5164 | 320 } |
| 321 | |
| 322 write_doubles (os, matrix.data(), st, nz); | |
| 323 | |
| 324 return true; | |
| 325 } | |
| 326 | |
| 327 bool | |
| 328 octave_sparse_matrix::load_binary (std::istream& is, bool swap, | |
| 329 oct_mach_info::float_format fmt) | |
| 330 { | |
| 5828 | 331 int32_t nz, nc, nr, tmp; |
| 5327 | 332 char ctmp; |
| 333 | |
| 5760 | 334 if (! is.read (reinterpret_cast<char *> (&tmp), 4)) |
| 5164 | 335 return false; |
| 336 | |
| 337 if (swap) | |
| 338 swap_bytes<4> (&tmp); | |
| 339 | |
| 340 if (tmp != -2) { | |
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341 error ("load: only 2D sparse matrices are supported"); |
| 5164 | 342 return false; |
| 343 } | |
| 344 | |
| 5760 | 345 if (! is.read (reinterpret_cast<char *> (&nr), 4)) |
| 5164 | 346 return false; |
| 5760 | 347 if (! is.read (reinterpret_cast<char *> (&nc), 4)) |
| 5164 | 348 return false; |
| 5760 | 349 if (! is.read (reinterpret_cast<char *> (&nz), 4)) |
| 5164 | 350 return false; |
| 351 | |
| 352 if (swap) | |
| 353 { | |
| 354 swap_bytes<4> (&nr); | |
| 355 swap_bytes<4> (&nc); | |
| 356 swap_bytes<4> (&nz); | |
| 357 } | |
| 358 | |
| 5275 | 359 SparseMatrix m (static_cast<octave_idx_type> (nr), |
| 360 static_cast<octave_idx_type> (nc), | |
| 361 static_cast<octave_idx_type> (nz)); | |
| 5164 | 362 |
| 363 for (int i = 0; i < nc+1; i++) | |
| 364 { | |
| 365 OCTAVE_QUIT; | |
| 5760 | 366 if (! is.read (reinterpret_cast<char *> (&tmp), 4)) |
| 5164 | 367 return false; |
| 368 if (swap) | |
| 369 swap_bytes<4> (&tmp); | |
| 370 m.xcidx(i) = tmp; | |
| 371 } | |
| 372 | |
| 373 for (int i = 0; i < nz; i++) | |
| 374 { | |
| 375 OCTAVE_QUIT; | |
| 5760 | 376 if (! is.read (reinterpret_cast<char *> (&tmp), 4)) |
| 5164 | 377 return false; |
| 378 if (swap) | |
| 379 swap_bytes<4> (&tmp); | |
| 380 m.xridx(i) = tmp; | |
| 381 } | |
| 382 | |
| 5760 | 383 if (! is.read (reinterpret_cast<char *> (&ctmp), 1)) |
| 5164 | 384 return false; |
| 385 | |
| 5760 | 386 read_doubles (is, m.xdata (), static_cast<save_type> (ctmp), nz, swap, fmt); |
| 5164 | 387 |
| 388 if (error_state || ! is) | |
| 389 return false; | |
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390 |
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391 if (! m.indices_ok ()) |
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392 return false; |
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393 |
| 5164 | 394 matrix = m; |
| 395 | |
| 396 return true; | |
| 397 } | |
| 398 | |
| 399 #if defined (HAVE_HDF5) | |
| 5900 | 400 |
| 5164 | 401 bool |
| 402 octave_sparse_matrix::save_hdf5 (hid_t loc_id, const char *name, | |
| 403 bool save_as_floats) | |
| 404 { | |
| 405 dim_vector dv = dims (); | |
| 406 int empty = save_hdf5_empty (loc_id, name, dv); | |
| 407 if (empty) | |
| 408 return (empty > 0); | |
| 409 | |
| 410 // Ensure that additional memory is deallocated | |
| 411 matrix.maybe_compress (); | |
| 412 | |
| 413 hid_t group_hid = H5Gcreate (loc_id, name, 0); | |
| 414 if (group_hid < 0) | |
| 415 return false; | |
| 416 | |
| 417 hid_t space_hid = -1, data_hid = -1; | |
| 418 bool retval = true; | |
| 419 SparseMatrix m = sparse_matrix_value (); | |
| 5351 | 420 octave_idx_type tmp; |
| 5164 | 421 hsize_t hdims[2]; |
| 422 | |
| 5760 | 423 space_hid = H5Screate_simple (0, hdims, 0); |
| 5164 | 424 if (space_hid < 0) |
| 425 { | |
| 426 H5Gclose (group_hid); | |
| 427 return false; | |
| 428 } | |
| 429 | |
| 5351 | 430 data_hid = H5Dcreate (group_hid, "nr", H5T_NATIVE_IDX, space_hid, |
| 5164 | 431 H5P_DEFAULT); |
| 432 if (data_hid < 0) | |
| 433 { | |
| 434 H5Sclose (space_hid); | |
| 435 H5Gclose (group_hid); | |
| 436 return false; | |
| 437 } | |
| 438 | |
| 439 tmp = m.rows (); | |
| 5351 | 440 retval = H5Dwrite (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, H5P_DEFAULT, |
| 5760 | 441 &tmp) >= 0; |
| 5164 | 442 H5Dclose (data_hid); |
| 443 if (!retval) | |
| 444 { | |
| 445 H5Sclose (space_hid); | |
| 446 H5Gclose (group_hid); | |
| 447 return false; | |
| 448 } | |
| 449 | |
| 5351 | 450 data_hid = H5Dcreate (group_hid, "nc", H5T_NATIVE_IDX, space_hid, |
| 5164 | 451 H5P_DEFAULT); |
| 452 if (data_hid < 0) | |
| 453 { | |
| 454 H5Sclose (space_hid); | |
| 455 H5Gclose (group_hid); | |
| 456 return false; | |
| 457 } | |
| 458 | |
| 459 tmp = m.cols (); | |
| 5351 | 460 retval = H5Dwrite (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, H5P_DEFAULT, |
| 5760 | 461 &tmp) >= 0; |
| 5164 | 462 H5Dclose (data_hid); |
| 463 if (!retval) | |
| 464 { | |
| 465 H5Sclose (space_hid); | |
| 466 H5Gclose (group_hid); | |
| 467 return false; | |
| 468 } | |
| 469 | |
| 5351 | 470 data_hid = H5Dcreate (group_hid, "nz", H5T_NATIVE_IDX, space_hid, |
| 5164 | 471 H5P_DEFAULT); |
| 472 if (data_hid < 0) | |
| 473 { | |
| 474 H5Sclose (space_hid); | |
| 475 H5Gclose (group_hid); | |
| 476 return false; | |
| 477 } | |
| 478 | |
| 5604 | 479 tmp = m.nzmax (); |
| 5351 | 480 retval = H5Dwrite (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, H5P_DEFAULT, |
| 5760 | 481 &tmp) >= 0; |
| 5164 | 482 H5Dclose (data_hid); |
| 483 if (!retval) | |
| 484 { | |
| 485 H5Sclose (space_hid); | |
| 486 H5Gclose (group_hid); | |
| 487 return false; | |
| 488 } | |
| 489 | |
| 490 H5Sclose (space_hid); | |
| 491 | |
| 492 hdims[0] = m.cols() + 1; | |
| 493 hdims[1] = 1; | |
| 494 | |
| 495 space_hid = H5Screate_simple (2, hdims, 0); | |
| 496 | |
| 497 if (space_hid < 0) | |
| 498 { | |
| 499 H5Gclose (group_hid); | |
| 500 return false; | |
| 501 } | |
| 502 | |
| 5351 | 503 data_hid = H5Dcreate (group_hid, "cidx", H5T_NATIVE_IDX, space_hid, |
| 5164 | 504 H5P_DEFAULT); |
| 505 if (data_hid < 0) | |
| 506 { | |
| 507 H5Sclose (space_hid); | |
| 508 H5Gclose (group_hid); | |
| 509 return false; | |
| 510 } | |
| 511 | |
| 5351 | 512 octave_idx_type * itmp = m.xcidx (); |
| 513 retval = H5Dwrite (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, H5P_DEFAULT, | |
| 5760 | 514 itmp) >= 0; |
| 5164 | 515 H5Dclose (data_hid); |
| 516 if (!retval) | |
| 517 { | |
| 518 H5Sclose (space_hid); | |
| 519 H5Gclose (group_hid); | |
| 520 return false; | |
| 521 } | |
| 522 | |
| 523 H5Sclose (space_hid); | |
| 524 | |
| 5604 | 525 hdims[0] = m.nzmax (); |
| 5164 | 526 hdims[1] = 1; |
| 527 | |
| 528 space_hid = H5Screate_simple (2, hdims, 0); | |
| 529 | |
| 530 if (space_hid < 0) | |
| 531 { | |
| 532 H5Gclose (group_hid); | |
| 533 return false; | |
| 534 } | |
| 535 | |
| 5351 | 536 data_hid = H5Dcreate (group_hid, "ridx", H5T_NATIVE_IDX, space_hid, |
| 5164 | 537 H5P_DEFAULT); |
| 538 if (data_hid < 0) | |
| 539 { | |
| 540 H5Sclose (space_hid); | |
| 541 H5Gclose (group_hid); | |
| 542 return false; | |
| 543 } | |
| 544 | |
| 545 itmp = m.xridx (); | |
| 5351 | 546 retval = H5Dwrite (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, H5P_DEFAULT, |
| 5760 | 547 itmp) >= 0; |
| 5164 | 548 H5Dclose (data_hid); |
| 549 if (!retval) | |
| 550 { | |
| 551 H5Sclose (space_hid); | |
| 552 H5Gclose (group_hid); | |
| 553 return false; | |
| 554 } | |
| 555 | |
| 556 hid_t save_type_hid = H5T_NATIVE_DOUBLE; | |
| 557 | |
| 558 if (save_as_floats) | |
| 559 { | |
| 560 if (m.too_large_for_float ()) | |
| 561 { | |
| 562 warning ("save: some values too large to save as floats --"); | |
| 563 warning ("save: saving as doubles instead"); | |
| 564 } | |
| 565 else | |
| 566 save_type_hid = H5T_NATIVE_FLOAT; | |
| 567 } | |
| 568 #if HAVE_HDF5_INT2FLOAT_CONVERSIONS | |
| 569 // hdf5 currently doesn't support float/integer conversions | |
| 570 else | |
| 571 { | |
| 572 double max_val, min_val; | |
| 573 | |
| 574 if (m.all_integers (max_val, min_val)) | |
| 575 save_type_hid | |
| 576 = save_type_to_hdf5 (get_save_type (max_val, min_val)); | |
| 577 } | |
| 578 #endif /* HAVE_HDF5_INT2FLOAT_CONVERSIONS */ | |
| 579 | |
| 580 data_hid = H5Dcreate (group_hid, "data", save_type_hid, space_hid, | |
| 581 H5P_DEFAULT); | |
| 582 if (data_hid < 0) | |
| 583 { | |
| 584 H5Sclose (space_hid); | |
| 585 H5Gclose (group_hid); | |
| 586 return false; | |
| 587 } | |
| 588 | |
| 589 double * dtmp = m.xdata (); | |
| 590 retval = H5Dwrite (data_hid, H5T_NATIVE_DOUBLE, H5S_ALL, H5S_ALL, | |
| 5760 | 591 H5P_DEFAULT, dtmp) >= 0; |
| 5164 | 592 H5Dclose (data_hid); |
| 593 H5Sclose (space_hid); | |
| 594 H5Gclose (group_hid); | |
| 595 | |
| 596 return retval; | |
| 597 } | |
| 598 | |
| 599 bool | |
|
9881
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Remove HDF5 cruft for older versions of HDF5
Kacper Kowalik
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9852
diff
changeset
|
600 octave_sparse_matrix::load_hdf5 (hid_t loc_id, const char *name) |
| 5164 | 601 { |
| 5351 | 602 octave_idx_type nr, nc, nz; |
| 5164 | 603 hid_t group_hid, data_hid, space_hid; |
| 604 hsize_t rank; | |
| 605 | |
| 606 dim_vector dv; | |
| 607 int empty = load_hdf5_empty (loc_id, name, dv); | |
| 608 if (empty > 0) | |
| 609 matrix.resize(dv); | |
| 610 if (empty) | |
| 611 return (empty > 0); | |
| 612 | |
| 613 group_hid = H5Gopen (loc_id, name); | |
| 5760 | 614 if (group_hid < 0) return false; |
| 5164 | 615 |
| 616 data_hid = H5Dopen (group_hid, "nr"); | |
| 617 space_hid = H5Dget_space (data_hid); | |
| 618 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 619 | |
| 620 if (rank != 0) | |
| 621 { | |
| 622 H5Dclose (data_hid); | |
| 623 H5Gclose (group_hid); | |
| 624 return false; | |
| 625 } | |
| 626 | |
| 5351 | 627 if (H5Dread (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, |
| 5760 | 628 H5P_DEFAULT, &nr) < 0) |
| 5164 | 629 { |
| 630 H5Dclose (data_hid); | |
| 631 H5Gclose (group_hid); | |
| 632 return false; | |
| 633 } | |
| 634 | |
| 635 H5Dclose (data_hid); | |
| 636 | |
| 637 data_hid = H5Dopen (group_hid, "nc"); | |
| 638 space_hid = H5Dget_space (data_hid); | |
| 639 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 640 | |
| 641 if (rank != 0) | |
| 642 { | |
| 643 H5Dclose (data_hid); | |
| 644 H5Gclose (group_hid); | |
| 645 return false; | |
| 646 } | |
| 647 | |
| 5351 | 648 if (H5Dread (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, |
| 5760 | 649 H5P_DEFAULT, &nc) < 0) |
| 5164 | 650 { |
| 651 H5Dclose (data_hid); | |
| 652 H5Gclose (group_hid); | |
| 653 return false; | |
| 654 } | |
| 655 | |
| 656 H5Dclose (data_hid); | |
| 657 | |
| 658 data_hid = H5Dopen (group_hid, "nz"); | |
| 659 space_hid = H5Dget_space (data_hid); | |
| 660 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 661 | |
| 662 if (rank != 0) | |
| 663 { | |
| 664 H5Dclose (data_hid); | |
| 665 H5Gclose (group_hid); | |
| 666 return false; | |
| 667 } | |
| 668 | |
| 5351 | 669 if (H5Dread (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, |
| 5760 | 670 H5P_DEFAULT, &nz) < 0) |
| 5164 | 671 { |
| 672 H5Dclose (data_hid); | |
| 673 H5Gclose (group_hid); | |
| 674 return false; | |
| 675 } | |
| 676 | |
| 677 H5Dclose (data_hid); | |
| 678 | |
| 5275 | 679 SparseMatrix m (static_cast<octave_idx_type> (nr), |
| 680 static_cast<octave_idx_type> (nc), | |
| 681 static_cast<octave_idx_type> (nz)); | |
| 5164 | 682 |
| 683 data_hid = H5Dopen (group_hid, "cidx"); | |
| 684 space_hid = H5Dget_space (data_hid); | |
| 685 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 686 | |
| 687 if (rank != 2) | |
| 688 { | |
| 689 H5Sclose (space_hid); | |
| 690 H5Dclose (data_hid); | |
| 691 H5Gclose (group_hid); | |
| 692 return false; | |
| 693 } | |
| 694 | |
| 695 OCTAVE_LOCAL_BUFFER (hsize_t, hdims, rank); | |
| 696 OCTAVE_LOCAL_BUFFER (hsize_t, maxdims, rank); | |
| 697 | |
| 698 H5Sget_simple_extent_dims (space_hid, hdims, maxdims); | |
| 699 | |
|
9469
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sanity checks for loading sparse matrices
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parents:
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diff
changeset
|
700 if (static_cast<int> (hdims[0]) != nc + 1 |
|
c6edba80dfae
sanity checks for loading sparse matrices
John W. Eaton <jwe@octave.org>
parents:
8920
diff
changeset
|
701 || static_cast<int> (hdims[1]) != 1) |
| 5164 | 702 { |
| 703 H5Sclose (space_hid); | |
| 704 H5Dclose (data_hid); | |
| 705 H5Gclose (group_hid); | |
| 706 return false; | |
| 707 } | |
| 708 | |
| 5351 | 709 octave_idx_type *itmp = m.xcidx (); |
| 710 if (H5Dread (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, | |
| 5760 | 711 H5P_DEFAULT, itmp) < 0) |
| 5164 | 712 { |
| 713 H5Sclose (space_hid); | |
| 714 H5Dclose (data_hid); | |
| 715 H5Gclose (group_hid); | |
| 716 return false; | |
| 717 } | |
| 718 | |
| 719 H5Sclose (space_hid); | |
| 720 H5Dclose (data_hid); | |
| 721 | |
| 722 data_hid = H5Dopen (group_hid, "ridx"); | |
| 723 space_hid = H5Dget_space (data_hid); | |
| 724 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 725 | |
| 726 if (rank != 2) | |
| 727 { | |
| 728 H5Sclose (space_hid); | |
| 729 H5Dclose (data_hid); | |
| 730 H5Gclose (group_hid); | |
| 731 return false; | |
| 732 } | |
| 733 | |
| 734 H5Sget_simple_extent_dims (space_hid, hdims, maxdims); | |
| 735 | |
| 5322 | 736 if (static_cast<int> (hdims[0]) != nz || static_cast<int> (hdims[1]) != 1) |
| 5164 | 737 { |
| 738 H5Sclose (space_hid); | |
| 739 H5Dclose (data_hid); | |
| 740 H5Gclose (group_hid); | |
| 741 return false; | |
| 742 } | |
| 743 | |
| 744 itmp = m.xridx (); | |
| 5351 | 745 if (H5Dread (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL, |
| 5760 | 746 H5P_DEFAULT, itmp) < 0) |
| 5164 | 747 { |
| 748 H5Sclose (space_hid); | |
| 749 H5Dclose (data_hid); | |
| 750 H5Gclose (group_hid); | |
| 751 return false; | |
| 752 } | |
| 753 | |
| 754 H5Sclose (space_hid); | |
| 755 H5Dclose (data_hid); | |
| 756 | |
| 757 data_hid = H5Dopen (group_hid, "data"); | |
| 758 space_hid = H5Dget_space (data_hid); | |
| 759 rank = H5Sget_simple_extent_ndims (space_hid); | |
| 760 | |
| 761 if (rank != 2) | |
| 762 { | |
| 763 H5Sclose (space_hid); | |
| 764 H5Dclose (data_hid); | |
| 765 H5Gclose (group_hid); | |
| 766 return false; | |
| 767 } | |
| 768 | |
| 769 H5Sget_simple_extent_dims (space_hid, hdims, maxdims); | |
| 770 | |
| 5322 | 771 if (static_cast<int> (hdims[0]) != nz || static_cast<int> (hdims[1]) != 1) |
| 5164 | 772 { |
| 773 H5Sclose (space_hid); | |
| 774 H5Dclose (data_hid); | |
| 775 H5Gclose (group_hid); | |
| 776 return false; | |
| 777 } | |
| 778 | |
| 779 double *dtmp = m.xdata (); | |
|
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John W. Eaton <jwe@octave.org>
parents:
8920
diff
changeset
|
780 bool retval = false; |
| 5164 | 781 if (H5Dread (data_hid, H5T_NATIVE_DOUBLE, H5S_ALL, H5S_ALL, |
|
9469
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sanity checks for loading sparse matrices
John W. Eaton <jwe@octave.org>
parents:
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diff
changeset
|
782 H5P_DEFAULT, dtmp) >= 0 |
|
c6edba80dfae
sanity checks for loading sparse matrices
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parents:
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diff
changeset
|
783 && m.indices_ok ()) |
| 5164 | 784 { |
|
9469
c6edba80dfae
sanity checks for loading sparse matrices
John W. Eaton <jwe@octave.org>
parents:
8920
diff
changeset
|
785 retval = true; |
|
c6edba80dfae
sanity checks for loading sparse matrices
John W. Eaton <jwe@octave.org>
parents:
8920
diff
changeset
|
786 matrix = m; |
| 5164 | 787 } |
| 788 | |
| 789 H5Sclose (space_hid); | |
| 790 H5Dclose (data_hid); | |
| 791 H5Gclose (group_hid); | |
| 792 | |
|
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diff
changeset
|
793 return retval; |
| 5164 | 794 } |
| 5900 | 795 |
| 5164 | 796 #endif |
| 797 | |
| 5900 | 798 mxArray * |
| 799 octave_sparse_matrix::as_mxArray (void) const | |
| 800 { | |
| 6686 | 801 mwSize nz = nzmax(); |
| 802 mwSize nr = rows(); | |
| 803 mwSize nc = columns(); | |
| 5903 | 804 mxArray *retval = new mxArray (mxDOUBLE_CLASS, nr, nc, nz, mxREAL); |
| 805 double *pr = static_cast<double *> (retval->get_data ()); | |
| 6686 | 806 mwIndex *ir = retval->get_ir(); |
| 807 mwIndex *jc = retval->get_jc(); | |
| 5903 | 808 |
| 6686 | 809 for (mwIndex i = 0; i < nz; i++) |
| 5903 | 810 { |
| 811 pr[i] = matrix.data(i); | |
| 812 ir[i] = matrix.ridx(i); | |
| 813 } | |
| 814 | |
| 6686 | 815 for (mwIndex i = 0; i < nc + 1; i++) |
| 5903 | 816 jc[i] = matrix.cidx(i); |
| 817 | |
| 818 return retval; | |
| 5900 | 819 } |
| 820 | |
|
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
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diff
changeset
|
821 octave_value |
|
f80c566bc751
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parents:
9689
diff
changeset
|
822 octave_sparse_matrix::map (unary_mapper_t umap) const |
|
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convert mapper functions to new format
David Bateman <dbateman@free.fr>
parents:
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diff
changeset
|
823 { |
|
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parents:
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diff
changeset
|
824 switch (umap) |
|
f80c566bc751
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parents:
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diff
changeset
|
825 { |
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parents:
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diff
changeset
|
826 case umap_imag: |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
|
827 return SparseMatrix (matrix.rows (), matrix.cols (), 0.0); |
|
7503
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convert mapper functions to new format
David Bateman <dbateman@free.fr>
parents:
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diff
changeset
|
828 |
|
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parents:
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diff
changeset
|
829 case umap_real: |
|
f80c566bc751
improve unary mapper system
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parents:
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diff
changeset
|
830 case umap_conj: |
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
|
831 return matrix; |
|
7503
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convert mapper functions to new format
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parents:
7193
diff
changeset
|
832 |
|
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parents:
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diff
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|
833 // Mappers handled specially. |
|
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parents:
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diff
changeset
|
834 #define ARRAY_METHOD_MAPPER(UMAP, FCN) \ |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
|
835 case umap_ ## UMAP: \ |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
|
836 return octave_value (matrix.FCN ()) |
|
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improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
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diff
changeset
|
837 |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
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diff
changeset
|
838 ARRAY_METHOD_MAPPER (abs, abs); |
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f80c566bc751
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Jaroslav Hajek <highegg@gmail.com>
parents:
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|
839 |
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parents:
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diff
changeset
|
840 #define ARRAY_MAPPER(UMAP, TYPE, FCN) \ |
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f80c566bc751
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parents:
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diff
changeset
|
841 case umap_ ## UMAP: \ |
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improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
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diff
changeset
|
842 return octave_value (matrix.map<TYPE> (FCN)) |
|
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convert mapper functions to new format
David Bateman <dbateman@free.fr>
parents:
7193
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changeset
|
843 |
|
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improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
|
844 ARRAY_MAPPER (acos, Complex, rc_acos); |
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f80c566bc751
improve unary mapper system
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parents:
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diff
changeset
|
845 ARRAY_MAPPER (acosh, Complex, rc_acosh); |
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parents:
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diff
changeset
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846 ARRAY_MAPPER (angle, double, ::arg); |
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parents:
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diff
changeset
|
847 ARRAY_MAPPER (arg, double, ::arg); |
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Jaroslav Hajek <highegg@gmail.com>
parents:
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848 ARRAY_MAPPER (asin, Complex, rc_asin); |
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
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849 ARRAY_MAPPER (asinh, double, ::asinh); |
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
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diff
changeset
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850 ARRAY_MAPPER (atan, double, ::atan); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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851 ARRAY_MAPPER (atanh, Complex, rc_atanh); |
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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852 ARRAY_MAPPER (erf, double, ::erf); |
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9835
1bb1ed717d2f
implement built-in erfinv
Jaroslav Hajek <highegg@gmail.com>
parents:
9813
diff
changeset
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853 ARRAY_MAPPER (erfinv, double, ::erfinv); |
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9812
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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854 ARRAY_MAPPER (erfc, double, ::erfc); |
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f80c566bc751
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parents:
9689
diff
changeset
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855 ARRAY_MAPPER (gamma, double, xgamma); |
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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856 ARRAY_MAPPER (lgamma, Complex, rc_lgamma); |
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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857 ARRAY_MAPPER (ceil, double, ::ceil); |
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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858 ARRAY_MAPPER (cos, double, ::cos); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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859 ARRAY_MAPPER (cosh, double, ::cosh); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
|
860 ARRAY_MAPPER (exp, double, ::exp); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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861 ARRAY_MAPPER (expm1, double, ::expm1); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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862 ARRAY_MAPPER (fix, double, ::fix); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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863 ARRAY_MAPPER (floor, double, ::floor); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
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changeset
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864 ARRAY_MAPPER (log, Complex, rc_log); |
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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865 ARRAY_MAPPER (log2, Complex, rc_log2); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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866 ARRAY_MAPPER (log10, Complex, rc_log10); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
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changeset
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867 ARRAY_MAPPER (log1p, Complex, rc_log1p); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
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changeset
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868 ARRAY_MAPPER (round, double, xround); |
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
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changeset
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869 ARRAY_MAPPER (roundb, double, xroundb); |
|
f80c566bc751
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parents:
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changeset
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870 ARRAY_MAPPER (signum, double, ::signum); |
|
f80c566bc751
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Jaroslav Hajek <highegg@gmail.com>
parents:
9689
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changeset
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871 ARRAY_MAPPER (sin, double, ::sin); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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872 ARRAY_MAPPER (sinh, double, ::sinh); |
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f80c566bc751
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parents:
9689
diff
changeset
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873 ARRAY_MAPPER (sqrt, Complex, rc_sqrt); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
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changeset
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874 ARRAY_MAPPER (tan, double, ::tan); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
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changeset
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875 ARRAY_MAPPER (tanh, double, ::tanh); |
|
f80c566bc751
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parents:
9689
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changeset
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876 ARRAY_MAPPER (isnan, bool, xisnan); |
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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877 ARRAY_MAPPER (isna, bool, octave_is_NA); |
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f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
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changeset
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878 ARRAY_MAPPER (isinf, bool, xisinf); |
|
f80c566bc751
improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
diff
changeset
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879 ARRAY_MAPPER (finite, bool, xfinite); |
|
7503
8c32f95c2639
convert mapper functions to new format
David Bateman <dbateman@free.fr>
parents:
7193
diff
changeset
|
880 |
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improve unary mapper system
Jaroslav Hajek <highegg@gmail.com>
parents:
9689
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changeset
|
881 default: // Attempt to go via dense matrix. |
|
9813
8fa32b527d9a
improve & partially revert previous change
Jaroslav Hajek <highegg@gmail.com>
parents:
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changeset
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882 return octave_base_sparse<SparseMatrix>::map (umap); |
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883 } |
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David Bateman <dbateman@free.fr>
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|
884 } |
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8c32f95c2639
convert mapper functions to new format
David Bateman <dbateman@free.fr>
parents:
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changeset
|
885 |
|
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convert mapper functions to new format
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changeset
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886 |
| 5164 | 887 /* |
| 888 ;;; Local Variables: *** | |
| 889 ;;; mode: C++ *** | |
| 890 ;;; End: *** | |
| 891 */ |