1 #include <petsc/private/dmmbimpl.h> /*I "petscdmmoab.h" I*/ 2 #include <petsc/private/vecimpl.h> 3 4 #include <petscdmmoab.h> 5 #include <MBTagConventions.hpp> 6 7 #define USE_NATIVE_PETSCVEC 8 9 /* declare some private DMMoab specific overrides */ 10 static PetscErrorCode DMCreateVector_Moab_Private(DM dm, moab::Tag tag, const moab::Range *userrange, PetscBool is_global_vec, PetscBool destroy_tag, Vec *vec); 11 static PetscErrorCode DMVecUserDestroy_Moab(void *user); 12 static PetscErrorCode DMVecDuplicate_Moab(Vec x, Vec *y); 13 #ifdef MOAB_HAVE_MPI 14 static PetscErrorCode DMVecCreateTagName_Moab_Private(moab::Interface *mbiface, moab::ParallelComm *pcomm, char **tag_name); 15 #else 16 static PetscErrorCode DMVecCreateTagName_Moab_Private(moab::Interface *mbiface, char **tag_name); 17 #endif 18 19 /*@C 20 DMMoabCreateVector - Create a Vec from either an existing tag, or a specified tag size, and a range of entities 21 22 Collective 23 24 Input Parameters: 25 + dm - The DMMoab object being set 26 . tag - If non-zero, block size will be taken from the tag size 27 . range - If non-empty, Vec corresponds to these entities, otherwise to the entities set on the DMMoab 28 . is_global_vec - If true, this is a local representation of the Vec (including ghosts in parallel), otherwise a truly parallel one 29 - destroy_tag - If true, MOAB tag is destroyed with Vec, otherwise it is left on MOAB 30 31 Output Parameter: 32 . vec - The created vector 33 34 Level: beginner 35 36 .seealso: `VecCreate()` 37 @*/ 38 PetscErrorCode DMMoabCreateVector(DM dm, moab::Tag tag, const moab::Range *range, PetscBool is_global_vec, PetscBool destroy_tag, Vec *vec) 39 { 40 PetscFunctionBegin; 41 PetscCheck(tag || (range && !range->empty()), PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Both tag and range cannot be null."); 42 43 PetscCall(DMCreateVector_Moab_Private(dm, tag, range, is_global_vec, destroy_tag, vec)); 44 PetscFunctionReturn(PETSC_SUCCESS); 45 } 46 47 /*@C 48 DMMoabGetVecTag - Get the MOAB tag associated with this Vec 49 50 Input Parameter: 51 . vec - Vec being queried 52 53 Output Parameter: 54 . tag - Tag associated with this Vec. NULL if vec is a native PETSc Vec. 55 56 Level: beginner 57 58 .seealso: `DMMoabCreateVector()`, `DMMoabGetVecRange()` 59 @*/ 60 PetscErrorCode DMMoabGetVecTag(Vec vec, moab::Tag *tag) 61 { 62 PetscContainer moabdata; 63 Vec_MOAB *vmoab; 64 65 PetscFunctionBegin; 66 PetscAssertPointer(tag, 2); 67 68 /* Get the MOAB private data */ 69 PetscCall(PetscObjectQuery((PetscObject)vec, "MOABData", (PetscObject *)&moabdata)); 70 PetscCall(PetscContainerGetPointer(moabdata, (void **)&vmoab)); 71 72 *tag = vmoab->tag; 73 PetscFunctionReturn(PETSC_SUCCESS); 74 } 75 76 /*@C 77 DMMoabGetVecRange - Get the MOAB entities associated with this Vec 78 79 Input Parameter: 80 . vec - Vec being queried 81 82 Output Parameter: 83 . range - Entities associated with this Vec. NULL if vec is a native PETSc Vec. 84 85 Level: beginner 86 87 .seealso: `DMMoabCreateVector()`, `DMMoabGetVecTag()` 88 @*/ 89 PetscErrorCode DMMoabGetVecRange(Vec vec, moab::Range *range) 90 { 91 PetscContainer moabdata; 92 Vec_MOAB *vmoab; 93 94 PetscFunctionBegin; 95 PetscAssertPointer(range, 2); 96 97 /* Get the MOAB private data handle */ 98 PetscCall(PetscObjectQuery((PetscObject)vec, "MOABData", (PetscObject *)&moabdata)); 99 PetscCall(PetscContainerGetPointer(moabdata, (void **)&vmoab)); 100 101 *range = *vmoab->tag_range; 102 PetscFunctionReturn(PETSC_SUCCESS); 103 } 104 105 /*@C 106 DMMoabVecGetArray - Returns the writable direct access array to the local representation of MOAB tag data for the underlying vector using locally owned+ghosted range of entities 107 108 Collective 109 110 Input Parameters: 111 + dm - The DMMoab object being set 112 - vec - The Vector whose underlying data is requested 113 114 Output Parameter: 115 . array - The local data array 116 117 Level: intermediate 118 119 .seealso: `DMMoabVecRestoreArray()`, `DMMoabVecGetArrayRead()`, `DMMoabVecRestoreArrayRead()` 120 @*/ 121 PetscErrorCode DMMoabVecGetArray(DM dm, Vec vec, void *array) 122 { 123 DM_Moab *dmmoab; 124 moab::ErrorCode merr; 125 PetscInt count, i, f; 126 moab::Tag vtag; 127 PetscScalar **varray; 128 PetscScalar *marray; 129 PetscContainer moabdata; 130 Vec_MOAB *vmoab, *xmoab; 131 132 PetscFunctionBegin; 133 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 134 PetscValidHeaderSpecific(vec, VEC_CLASSID, 2); 135 PetscAssertPointer(array, 3); 136 dmmoab = (DM_Moab *)dm->data; 137 138 /* Get the Vec_MOAB struct for the original vector */ 139 PetscCall(PetscObjectQuery((PetscObject)vec, "MOABData", (PetscObject *)&moabdata)); 140 PetscCall(PetscContainerGetPointer(moabdata, (void **)&vmoab)); 141 142 /* Get the real scalar array handle */ 143 varray = reinterpret_cast<PetscScalar **>(array); 144 145 if (vmoab->is_native_vec) { 146 /* get the local representation of the arrays from Vectors */ 147 PetscCall(DMGetLocalVector(dm, &vmoab->local)); 148 PetscCall(DMGlobalToLocalBegin(dm, vec, INSERT_VALUES, vmoab->local)); 149 PetscCall(DMGlobalToLocalEnd(dm, vec, INSERT_VALUES, vmoab->local)); 150 151 /* Get the Vec_MOAB struct for the original vector */ 152 PetscCall(PetscObjectQuery((PetscObject)vmoab->local, "MOABData", (PetscObject *)&moabdata)); 153 PetscCall(PetscContainerGetPointer(moabdata, (void **)&xmoab)); 154 155 /* get the local representation of the arrays from Vectors */ 156 PetscCall(VecGhostGetLocalForm(vmoab->local, &xmoab->local)); 157 PetscCall(VecGhostUpdateBegin(vmoab->local, INSERT_VALUES, SCATTER_FORWARD)); 158 PetscCall(VecGhostUpdateEnd(vmoab->local, INSERT_VALUES, SCATTER_FORWARD)); 159 160 PetscCall(VecGetArray(xmoab->local, varray)); 161 } else { 162 /* Get the MOAB private data */ 163 PetscCall(DMMoabGetVecTag(vec, &vtag)); 164 165 #ifdef MOAB_HAVE_MPI 166 /* exchange the data into ghost cells first */ 167 merr = dmmoab->pcomm->exchange_tags(vtag, *dmmoab->vlocal); 168 MBERRNM(merr); 169 #endif 170 171 PetscCall(PetscMalloc1((dmmoab->nloc + dmmoab->nghost) * dmmoab->numFields, varray)); 172 173 /* Get the array data for local entities */ 174 merr = dmmoab->mbiface->tag_iterate(vtag, dmmoab->vlocal->begin(), dmmoab->vlocal->end(), count, reinterpret_cast<void *&>(marray), false); 175 MBERRNM(merr); 176 PetscCheck(count == dmmoab->nloc + dmmoab->nghost, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Mismatch between local vertices and tag partition for Vec. %" PetscInt_FMT " != %" PetscInt_FMT ".", count, dmmoab->nloc + dmmoab->nghost); 177 178 i = 0; 179 for (moab::Range::iterator iter = dmmoab->vlocal->begin(); iter != dmmoab->vlocal->end(); iter++) { 180 for (f = 0; f < dmmoab->numFields; f++, i++) (*varray)[dmmoab->lidmap[(PetscInt)*iter - dmmoab->seqstart] * dmmoab->numFields + f] = marray[i]; 181 //(*varray)[dmmoab->llmap[dmmoab->lidmap[((PetscInt)*iter-dmmoab->seqstart)]*dmmoab->numFields+f]]=marray[i]; 182 } 183 } 184 PetscFunctionReturn(PETSC_SUCCESS); 185 } 186 187 /*@C 188 DMMoabVecRestoreArray - Restores the writable direct access array obtained via DMMoabVecGetArray 189 190 Collective 191 192 Input Parameters: 193 + dm - The DMMoab object being set 194 . vec - The Vector whose underlying data is requested 195 - array - The local data array 196 197 Level: intermediate 198 199 .seealso: `DMMoabVecGetArray()`, `DMMoabVecGetArrayRead()`, `DMMoabVecRestoreArrayRead()` 200 @*/ 201 PetscErrorCode DMMoabVecRestoreArray(DM dm, Vec vec, void *array) 202 { 203 DM_Moab *dmmoab; 204 moab::ErrorCode merr; 205 moab::Tag vtag; 206 PetscInt count, i, f; 207 PetscScalar **varray; 208 PetscScalar *marray; 209 PetscContainer moabdata; 210 Vec_MOAB *vmoab, *xmoab; 211 212 PetscFunctionBegin; 213 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 214 PetscValidHeaderSpecific(vec, VEC_CLASSID, 2); 215 PetscAssertPointer(array, 3); 216 dmmoab = (DM_Moab *)dm->data; 217 218 /* Get the Vec_MOAB struct for the original vector */ 219 PetscCall(PetscObjectQuery((PetscObject)vec, "MOABData", (PetscObject *)&moabdata)); 220 PetscCall(PetscContainerGetPointer(moabdata, (void **)&vmoab)); 221 222 /* Get the real scalar array handle */ 223 varray = reinterpret_cast<PetscScalar **>(array); 224 225 if (vmoab->is_native_vec) { 226 /* Get the Vec_MOAB struct for the original vector */ 227 PetscCall(PetscObjectQuery((PetscObject)vmoab->local, "MOABData", (PetscObject *)&moabdata)); 228 PetscCall(PetscContainerGetPointer(moabdata, (void **)&xmoab)); 229 230 /* get the local representation of the arrays from Vectors */ 231 PetscCall(VecRestoreArray(xmoab->local, varray)); 232 PetscCall(VecGhostUpdateBegin(vmoab->local, ADD_VALUES, SCATTER_REVERSE)); 233 PetscCall(VecGhostUpdateEnd(vmoab->local, ADD_VALUES, SCATTER_REVERSE)); 234 PetscCall(VecGhostRestoreLocalForm(vmoab->local, &xmoab->local)); 235 236 /* restore local pieces */ 237 PetscCall(DMLocalToGlobalBegin(dm, vmoab->local, INSERT_VALUES, vec)); 238 PetscCall(DMLocalToGlobalEnd(dm, vmoab->local, INSERT_VALUES, vec)); 239 PetscCall(DMRestoreLocalVector(dm, &vmoab->local)); 240 } else { 241 /* Get the MOAB private data */ 242 PetscCall(DMMoabGetVecTag(vec, &vtag)); 243 244 /* Get the array data for local entities */ 245 merr = dmmoab->mbiface->tag_iterate(vtag, dmmoab->vlocal->begin(), dmmoab->vlocal->end(), count, reinterpret_cast<void *&>(marray), false); 246 MBERRNM(merr); 247 PetscCheck(count == dmmoab->nloc + dmmoab->nghost, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Mismatch between local vertices and tag partition for Vec. %" PetscInt_FMT " != %" PetscInt_FMT ".", count, dmmoab->nloc + dmmoab->nghost); 248 249 i = 0; 250 for (moab::Range::iterator iter = dmmoab->vlocal->begin(); iter != dmmoab->vlocal->end(); iter++) { 251 for (f = 0; f < dmmoab->numFields; f++, i++) marray[i] = (*varray)[dmmoab->lidmap[(PetscInt)*iter - dmmoab->seqstart] * dmmoab->numFields + f]; 252 //marray[i] = (*varray)[dmmoab->llmap[dmmoab->lidmap[((PetscInt)*iter-dmmoab->seqstart)]*dmmoab->numFields+f]]; 253 } 254 255 #ifdef MOAB_HAVE_MPI 256 /* reduce the tags correctly -> should probably let the user choose how to reduce in the future 257 For all FEM residual based assembly calculations, MPI_SUM should serve well */ 258 merr = dmmoab->pcomm->reduce_tags(vtag, MPI_SUM, *dmmoab->vlocal); 259 MBERRV(dmmoab->mbiface, merr); 260 #endif 261 PetscCall(PetscFree(*varray)); 262 } 263 PetscFunctionReturn(PETSC_SUCCESS); 264 } 265 266 /*@C 267 DMMoabVecGetArrayRead - Returns the read-only direct access array to the local representation of MOAB tag data for the underlying vector using locally owned+ghosted range of entities 268 269 Collective 270 271 Input Parameters: 272 + dm - The DMMoab object being set 273 - vec - The Vector whose underlying data is requested 274 275 Output Parameter: 276 . array - The local data array 277 278 Level: intermediate 279 280 .seealso: `DMMoabVecRestoreArrayRead()`, `DMMoabVecGetArray()`, `DMMoabVecRestoreArray()` 281 @*/ 282 PetscErrorCode DMMoabVecGetArrayRead(DM dm, Vec vec, void *array) 283 { 284 DM_Moab *dmmoab; 285 moab::ErrorCode merr; 286 PetscInt count, i, f; 287 moab::Tag vtag; 288 PetscScalar **varray; 289 PetscScalar *marray; 290 PetscContainer moabdata; 291 Vec_MOAB *vmoab, *xmoab; 292 293 PetscFunctionBegin; 294 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 295 PetscValidHeaderSpecific(vec, VEC_CLASSID, 2); 296 PetscAssertPointer(array, 3); 297 dmmoab = (DM_Moab *)dm->data; 298 299 /* Get the Vec_MOAB struct for the original vector */ 300 PetscCall(PetscObjectQuery((PetscObject)vec, "MOABData", (PetscObject *)&moabdata)); 301 PetscCall(PetscContainerGetPointer(moabdata, (void **)&vmoab)); 302 303 /* Get the real scalar array handle */ 304 varray = reinterpret_cast<PetscScalar **>(array); 305 306 if (vmoab->is_native_vec) { 307 /* get the local representation of the arrays from Vectors */ 308 PetscCall(DMGetLocalVector(dm, &vmoab->local)); 309 PetscCall(DMGlobalToLocalBegin(dm, vec, INSERT_VALUES, vmoab->local)); 310 PetscCall(DMGlobalToLocalEnd(dm, vec, INSERT_VALUES, vmoab->local)); 311 312 /* Get the Vec_MOAB struct for the original vector */ 313 PetscCall(PetscObjectQuery((PetscObject)vmoab->local, "MOABData", (PetscObject *)&moabdata)); 314 PetscCall(PetscContainerGetPointer(moabdata, (void **)&xmoab)); 315 316 /* get the local representation of the arrays from Vectors */ 317 PetscCall(VecGhostGetLocalForm(vmoab->local, &xmoab->local)); 318 PetscCall(VecGhostUpdateBegin(vmoab->local, INSERT_VALUES, SCATTER_FORWARD)); 319 PetscCall(VecGhostUpdateEnd(vmoab->local, INSERT_VALUES, SCATTER_FORWARD)); 320 PetscCall(VecGetArray(xmoab->local, varray)); 321 } else { 322 /* Get the MOAB private data */ 323 PetscCall(DMMoabGetVecTag(vec, &vtag)); 324 325 #ifdef MOAB_HAVE_MPI 326 /* exchange the data into ghost cells first */ 327 merr = dmmoab->pcomm->exchange_tags(vtag, *dmmoab->vlocal); 328 MBERRNM(merr); 329 #endif 330 PetscCall(PetscMalloc1((dmmoab->nloc + dmmoab->nghost) * dmmoab->numFields, varray)); 331 332 /* Get the array data for local entities */ 333 merr = dmmoab->mbiface->tag_iterate(vtag, dmmoab->vlocal->begin(), dmmoab->vlocal->end(), count, reinterpret_cast<void *&>(marray), false); 334 MBERRNM(merr); 335 PetscCheck(count == dmmoab->nloc + dmmoab->nghost, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Mismatch between local vertices and tag partition for Vec. %" PetscInt_FMT " != %" PetscInt_FMT ".", count, dmmoab->nloc + dmmoab->nghost); 336 337 i = 0; 338 for (moab::Range::iterator iter = dmmoab->vlocal->begin(); iter != dmmoab->vlocal->end(); iter++) { 339 for (f = 0; f < dmmoab->numFields; f++, i++) (*varray)[dmmoab->lidmap[(PetscInt)*iter - dmmoab->seqstart] * dmmoab->numFields + f] = marray[i]; 340 //(*varray)[dmmoab->llmap[dmmoab->lidmap[((PetscInt)*iter-dmmoab->seqstart)]*dmmoab->numFields+f]]=marray[i]; 341 } 342 } 343 PetscFunctionReturn(PETSC_SUCCESS); 344 } 345 346 /*@C 347 DMMoabVecRestoreArrayRead - Restores the read-only direct access array obtained via DMMoabVecGetArray 348 349 Collective 350 351 Input Parameters: 352 + dm - The DMMoab object being set 353 . vec - The Vector whose underlying data is requested 354 - array - The local data array 355 356 Level: intermediate 357 358 .seealso: `DMMoabVecGetArrayRead()`, `DMMoabVecGetArray()`, `DMMoabVecRestoreArray()` 359 @*/ 360 PetscErrorCode DMMoabVecRestoreArrayRead(DM dm, Vec vec, void *array) 361 { 362 PetscScalar **varray; 363 PetscContainer moabdata; 364 Vec_MOAB *vmoab, *xmoab; 365 366 PetscFunctionBegin; 367 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 368 PetscValidHeaderSpecific(vec, VEC_CLASSID, 2); 369 PetscAssertPointer(array, 3); 370 371 /* Get the Vec_MOAB struct for the original vector */ 372 PetscCall(PetscObjectQuery((PetscObject)vec, "MOABData", (PetscObject *)&moabdata)); 373 PetscCall(PetscContainerGetPointer(moabdata, (void **)&vmoab)); 374 375 /* Get the real scalar array handle */ 376 varray = reinterpret_cast<PetscScalar **>(array); 377 378 if (vmoab->is_native_vec) { 379 /* Get the Vec_MOAB struct for the original vector */ 380 PetscCall(PetscObjectQuery((PetscObject)vmoab->local, "MOABData", (PetscObject *)&moabdata)); 381 PetscCall(PetscContainerGetPointer(moabdata, (void **)&xmoab)); 382 383 /* restore the local representation of the arrays from Vectors */ 384 PetscCall(VecRestoreArray(xmoab->local, varray)); 385 PetscCall(VecGhostRestoreLocalForm(vmoab->local, &xmoab->local)); 386 387 /* restore local pieces */ 388 PetscCall(DMRestoreLocalVector(dm, &vmoab->local)); 389 } else { 390 /* Nothing to do but just free the memory allocated before */ 391 PetscCall(PetscFree(*varray)); 392 } 393 PetscFunctionReturn(PETSC_SUCCESS); 394 } 395 396 static PetscErrorCode DMCreateVector_Moab_Private(DM dm, moab::Tag tag, const moab::Range *userrange, PetscBool is_global_vec, PetscBool destroy_tag, Vec *vec) 397 { 398 moab::ErrorCode merr; 399 PetscBool is_newtag; 400 const moab::Range *range; 401 PetscInt count, lnative_vec, gnative_vec; 402 std::string ttname; 403 PetscScalar *data_ptr, *defaultvals; 404 405 Vec_MOAB *vmoab; 406 DM_Moab *dmmoab = (DM_Moab *)dm->data; 407 #ifdef MOAB_HAVE_MPI 408 moab::ParallelComm *pcomm = dmmoab->pcomm; 409 #endif 410 moab::Interface *mbiface = dmmoab->mbiface; 411 412 PetscFunctionBegin; 413 PetscCheck(sizeof(PetscReal) == sizeof(PetscScalar), PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "MOAB tags only support Real types (Complex-type unsupported)"); 414 if (!userrange) range = dmmoab->vowned; 415 else range = userrange; 416 PetscCheck(range, PETSC_COMM_WORLD, PETSC_ERR_ARG_WRONG, "Input range cannot be empty or call DMSetUp first."); 417 418 #ifndef USE_NATIVE_PETSCVEC 419 /* If the tag data is in a single sequence, use PETSc native vector since tag_iterate isn't useful anymore */ 420 lnative_vec = (range->psize() - 1); 421 #else 422 lnative_vec = 1; /* NOTE: Testing PETSc vector: will force to create native vector all the time */ 423 // lnative_vec=0; /* NOTE: Testing MOAB vector: will force to create MOAB tag_iterate based vector all the time */ 424 #endif 425 426 #ifdef MOAB_HAVE_MPI 427 PetscCallMPI(MPIU_Allreduce(&lnative_vec, &gnative_vec, 1, MPI_INT, MPI_MAX, ((PetscObject)dm)->comm)); 428 #else 429 gnative_vec = lnative_vec; 430 #endif 431 432 /* Create the MOAB internal data object */ 433 PetscCall(PetscNew(&vmoab)); 434 vmoab->is_native_vec = (gnative_vec > 0 ? PETSC_TRUE : PETSC_FALSE); 435 436 if (!vmoab->is_native_vec) { 437 merr = moab::MB_SUCCESS; 438 if (tag != 0) merr = mbiface->tag_get_name(tag, ttname); 439 if (!ttname.length() || merr != moab::MB_SUCCESS) { 440 /* get the new name for the anonymous MOABVec -> the tag_name will be destroyed along with Tag */ 441 char *tag_name = NULL; 442 #ifdef MOAB_HAVE_MPI 443 PetscCall(DMVecCreateTagName_Moab_Private(mbiface, pcomm, &tag_name)); 444 #else 445 PetscCall(DMVecCreateTagName_Moab_Private(mbiface, &tag_name)); 446 #endif 447 is_newtag = PETSC_TRUE; 448 449 /* Create the default value for the tag (all zeros) */ 450 PetscCall(PetscCalloc1(dmmoab->numFields, &defaultvals)); 451 452 /* Create the tag */ 453 merr = mbiface->tag_get_handle(tag_name, dmmoab->numFields, moab::MB_TYPE_DOUBLE, tag, moab::MB_TAG_DENSE | moab::MB_TAG_CREAT, defaultvals); 454 MBERRNM(merr); 455 PetscCall(PetscFree(tag_name)); 456 PetscCall(PetscFree(defaultvals)); 457 } else { 458 /* Make sure the tag data is of type "double" */ 459 moab::DataType tag_type; 460 merr = mbiface->tag_get_data_type(tag, tag_type); 461 MBERRNM(merr); 462 PetscCheck(tag_type == moab::MB_TYPE_DOUBLE, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Tag data type must be MB_TYPE_DOUBLE"); 463 is_newtag = destroy_tag; 464 } 465 466 vmoab->tag = tag; 467 vmoab->new_tag = is_newtag; 468 } 469 vmoab->mbiface = mbiface; 470 #ifdef MOAB_HAVE_MPI 471 vmoab->pcomm = pcomm; 472 #endif 473 vmoab->is_global_vec = is_global_vec; 474 vmoab->tag_size = dmmoab->bs; 475 476 if (vmoab->is_native_vec) { 477 /* Create the PETSc Vector directly and attach our functions accordingly */ 478 if (!is_global_vec) { 479 /* This is an MPI Vector with ghosted padding */ 480 PetscCall(VecCreateGhostBlock(((PetscObject)dm)->comm, dmmoab->bs, dmmoab->numFields * dmmoab->nloc, dmmoab->numFields * dmmoab->n, dmmoab->nghost, &dmmoab->gsindices[dmmoab->nloc], vec)); 481 } else { 482 /* This is an MPI/SEQ Vector */ 483 PetscCall(VecCreate(((PetscObject)dm)->comm, vec)); 484 PetscCall(VecSetSizes(*vec, dmmoab->numFields * dmmoab->nloc, PETSC_DECIDE)); 485 PetscCall(VecSetBlockSize(*vec, dmmoab->bs)); 486 PetscCall(VecSetType(*vec, VECMPI)); 487 } 488 } else { 489 /* Call tag_iterate. This will cause MOAB to allocate memory for the 490 tag data if it hasn't already happened */ 491 merr = mbiface->tag_iterate(tag, range->begin(), range->end(), count, (void *&)data_ptr); 492 MBERRNM(merr); 493 494 /* set the reference for vector range */ 495 vmoab->tag_range = new moab::Range(*range); 496 merr = mbiface->tag_get_length(tag, dmmoab->numFields); 497 MBERRNM(merr); 498 499 /* Create the PETSc Vector 500 Query MOAB mesh to check if there are any ghosted entities 501 -> if we do, create a ghosted vector to map correctly to the same layout 502 -> else, create a non-ghosted parallel vector */ 503 if (!is_global_vec) { 504 /* This is an MPI Vector with ghosted padding */ 505 PetscCall(VecCreateGhostBlockWithArray(((PetscObject)dm)->comm, dmmoab->bs, dmmoab->numFields * dmmoab->nloc, dmmoab->numFields * dmmoab->n, dmmoab->nghost, &dmmoab->gsindices[dmmoab->nloc], data_ptr, vec)); 506 } else { 507 /* This is an MPI Vector without ghosted padding */ 508 PetscCall(VecCreateMPIWithArray(((PetscObject)dm)->comm, dmmoab->bs, dmmoab->numFields * range->size(), PETSC_DECIDE, data_ptr, vec)); 509 } 510 } 511 PetscCall(VecSetFromOptions(*vec)); 512 513 /* create a container and store the internal MOAB data for faster access based on Entities etc */ 514 PetscCall(PetscObjectContainerCompose((PetscObject)*vec, "MOABData", vmoab, DMVecUserDestroy_Moab)); 515 (*vec)->ops->duplicate = DMVecDuplicate_Moab; 516 517 /* Vector created, manually set local to global mapping */ 518 if (dmmoab->ltog_map) PetscCall(VecSetLocalToGlobalMapping(*vec, dmmoab->ltog_map)); 519 520 /* set the DM reference to the vector */ 521 PetscCall(VecSetDM(*vec, dm)); 522 PetscFunctionReturn(PETSC_SUCCESS); 523 } 524 525 /* DMVecCreateTagName_Moab_Private 526 * 527 * Creates a unique tag name that will be shared across processes. If 528 * pcomm is NULL, then this is a serial vector. A unique tag name 529 * will be returned in tag_name in either case. 530 * 531 * The tag names have the format _PETSC_VEC_N where N is some integer. 532 * 533 * NOTE: The tag_name is allocated in this routine; The user needs to free 534 * the character array. 535 */ 536 #ifdef MOAB_HAVE_MPI 537 PetscErrorCode DMVecCreateTagName_Moab_Private(moab::Interface *mbiface, moab::ParallelComm *pcomm, char **tag_name) 538 #else 539 static PetscErrorCode DMVecCreateTagName_Moab_Private(moab::Interface *mbiface, char **tag_name) 540 #endif 541 { 542 moab::ErrorCode mberr; 543 PetscInt n, global_n; 544 moab::Tag indexTag; 545 546 PetscFunctionBegin; 547 const char *PVEC_PREFIX = "__PETSC_VEC_"; 548 PetscCall(PetscMalloc1(PETSC_MAX_PATH_LEN, tag_name)); 549 550 moab::EntityHandle rootset = mbiface->get_root_set(); 551 552 /* Check to see if there are any PETSc vectors defined */ 553 /* Create a tag in MOAB mesh to index and keep track of number of Petsc vec tags */ 554 mberr = mbiface->tag_get_handle("__PETSC_VECS__", 1, moab::MB_TYPE_INTEGER, indexTag, moab::MB_TAG_SPARSE | moab::MB_TAG_CREAT, 0); 555 MBERRNM(mberr); 556 mberr = mbiface->tag_get_data(indexTag, &rootset, 1, &n); 557 if (mberr == moab::MB_TAG_NOT_FOUND) n = 0; /* this is the first temporary vector */ 558 else MBERRNM(mberr); 559 560 /* increment the new value of n */ 561 ++n; 562 563 #ifdef MOAB_HAVE_MPI 564 /* Make sure that n is consistent across all processes */ 565 PetscCallMPI(MPIU_Allreduce(&n, &global_n, 1, MPI_INT, MPI_MAX, pcomm->comm())); 566 #else 567 global_n = n; 568 #endif 569 570 /* Set the new name accordingly and return */ 571 PetscCall(PetscSNPrintf(*tag_name, PETSC_MAX_PATH_LEN - 1, "%s_%" PetscInt_FMT, PVEC_PREFIX, global_n)); 572 mberr = mbiface->tag_set_data(indexTag, &rootset, 1, (const void *)&global_n); 573 MBERRNM(mberr); 574 PetscFunctionReturn(PETSC_SUCCESS); 575 } 576 577 PETSC_EXTERN PetscErrorCode DMCreateGlobalVector_Moab(DM dm, Vec *gvec) 578 { 579 DM_Moab *dmmoab = (DM_Moab *)dm->data; 580 581 PetscFunctionBegin; 582 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 583 PetscAssertPointer(gvec, 2); 584 PetscCall(DMCreateVector_Moab_Private(dm, NULL, dmmoab->vowned, PETSC_TRUE, PETSC_TRUE, gvec)); 585 PetscFunctionReturn(PETSC_SUCCESS); 586 } 587 588 PETSC_EXTERN PetscErrorCode DMCreateLocalVector_Moab(DM dm, Vec *lvec) 589 { 590 DM_Moab *dmmoab = (DM_Moab *)dm->data; 591 592 PetscFunctionBegin; 593 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 594 PetscAssertPointer(lvec, 2); 595 PetscCall(DMCreateVector_Moab_Private(dm, NULL, dmmoab->vlocal, PETSC_FALSE, PETSC_TRUE, lvec)); 596 PetscFunctionReturn(PETSC_SUCCESS); 597 } 598 599 static PetscErrorCode DMVecDuplicate_Moab(Vec x, Vec *y) 600 { 601 DM dm; 602 PetscContainer moabdata; 603 Vec_MOAB *vmoab; 604 605 PetscFunctionBegin; 606 PetscValidHeaderSpecific(x, VEC_CLASSID, 1); 607 PetscAssertPointer(y, 2); 608 609 /* Get the Vec_MOAB struct for the original vector */ 610 PetscCall(PetscObjectQuery((PetscObject)x, "MOABData", (PetscObject *)&moabdata)); 611 PetscCall(PetscContainerGetPointer(moabdata, (void **)&vmoab)); 612 613 PetscCall(VecGetDM(x, &dm)); 614 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 615 616 PetscCall(DMCreateVector_Moab_Private(dm, NULL, vmoab->tag_range, vmoab->is_global_vec, PETSC_TRUE, y)); 617 PetscCall(VecSetDM(*y, dm)); 618 PetscFunctionReturn(PETSC_SUCCESS); 619 } 620 621 static PetscErrorCode DMVecUserDestroy_Moab(void *user) 622 { 623 Vec_MOAB *vmoab = (Vec_MOAB *)user; 624 moab::ErrorCode merr; 625 626 PetscFunctionBegin; 627 if (vmoab->new_tag && vmoab->tag) { 628 /* Tag was created via a call to VecDuplicate, delete the underlying tag in MOAB */ 629 merr = vmoab->mbiface->tag_delete(vmoab->tag); 630 MBERRNM(merr); 631 } 632 delete vmoab->tag_range; 633 vmoab->tag = NULL; 634 vmoab->mbiface = NULL; 635 #ifdef MOAB_HAVE_MPI 636 vmoab->pcomm = NULL; 637 #endif 638 PetscCall(PetscFree(vmoab)); 639 PetscFunctionReturn(PETSC_SUCCESS); 640 } 641 642 PETSC_EXTERN PetscErrorCode DMGlobalToLocalBegin_Moab(DM dm, Vec g, InsertMode mode, Vec l) 643 { 644 DM_Moab *dmmoab = (DM_Moab *)dm->data; 645 646 PetscFunctionBegin; 647 PetscCall(VecScatterBegin(dmmoab->ltog_sendrecv, g, l, mode, SCATTER_REVERSE)); 648 PetscFunctionReturn(PETSC_SUCCESS); 649 } 650 651 PETSC_EXTERN PetscErrorCode DMGlobalToLocalEnd_Moab(DM dm, Vec g, InsertMode mode, Vec l) 652 { 653 DM_Moab *dmmoab = (DM_Moab *)dm->data; 654 655 PetscFunctionBegin; 656 PetscCall(VecScatterEnd(dmmoab->ltog_sendrecv, g, l, mode, SCATTER_REVERSE)); 657 PetscFunctionReturn(PETSC_SUCCESS); 658 } 659 660 PETSC_EXTERN PetscErrorCode DMLocalToGlobalBegin_Moab(DM dm, Vec l, InsertMode mode, Vec g) 661 { 662 DM_Moab *dmmoab = (DM_Moab *)dm->data; 663 664 PetscFunctionBegin; 665 PetscCall(VecScatterBegin(dmmoab->ltog_sendrecv, l, g, mode, SCATTER_FORWARD)); 666 PetscFunctionReturn(PETSC_SUCCESS); 667 } 668 669 PETSC_EXTERN PetscErrorCode DMLocalToGlobalEnd_Moab(DM dm, Vec l, InsertMode mode, Vec g) 670 { 671 DM_Moab *dmmoab = (DM_Moab *)dm->data; 672 673 PetscFunctionBegin; 674 PetscCall(VecScatterEnd(dmmoab->ltog_sendrecv, l, g, mode, SCATTER_FORWARD)); 675 PetscFunctionReturn(PETSC_SUCCESS); 676 } 677