1 #include <../src/mat/impls/aij/mpi/mpiaij.h> /*I "petscmat.h" I*/ 2 #include <petsc/private/vecimpl.h> 3 #include <petsc/private/sfimpl.h> 4 #include <petsc/private/isimpl.h> 5 #include <petscblaslapack.h> 6 #include <petscsf.h> 7 #include <petsc/private/hashmapi.h> 8 9 PetscErrorCode MatDestroy_MPIAIJ(Mat mat) 10 { 11 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 12 13 PetscFunctionBegin; 14 PetscCall(PetscLogObjectState((PetscObject)mat, "Rows=%" PetscInt_FMT ", Cols=%" PetscInt_FMT, mat->rmap->N, mat->cmap->N)); 15 PetscCall(MatStashDestroy_Private(&mat->stash)); 16 PetscCall(VecDestroy(&aij->diag)); 17 PetscCall(MatDestroy(&aij->A)); 18 PetscCall(MatDestroy(&aij->B)); 19 #if defined(PETSC_USE_CTABLE) 20 PetscCall(PetscHMapIDestroy(&aij->colmap)); 21 #else 22 PetscCall(PetscFree(aij->colmap)); 23 #endif 24 PetscCall(PetscFree(aij->garray)); 25 PetscCall(VecDestroy(&aij->lvec)); 26 PetscCall(VecScatterDestroy(&aij->Mvctx)); 27 PetscCall(PetscFree2(aij->rowvalues, aij->rowindices)); 28 PetscCall(PetscFree(aij->ld)); 29 30 PetscCall(PetscFree(mat->data)); 31 32 /* may be created by MatCreateMPIAIJSumSeqAIJSymbolic */ 33 PetscCall(PetscObjectCompose((PetscObject)mat, "MatMergeSeqsToMPI", NULL)); 34 35 PetscCall(PetscObjectChangeTypeName((PetscObject)mat, NULL)); 36 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatStoreValues_C", NULL)); 37 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatRetrieveValues_C", NULL)); 38 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatIsTranspose_C", NULL)); 39 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatMPIAIJSetPreallocation_C", NULL)); 40 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatResetPreallocation_C", NULL)); 41 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatMPIAIJSetPreallocationCSR_C", NULL)); 42 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatDiagonalScaleLocal_C", NULL)); 43 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpibaij_C", NULL)); 44 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpisbaij_C", NULL)); 45 #if defined(PETSC_HAVE_CUDA) 46 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijcusparse_C", NULL)); 47 #endif 48 #if defined(PETSC_HAVE_HIP) 49 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijhipsparse_C", NULL)); 50 #endif 51 #if defined(PETSC_HAVE_KOKKOS_KERNELS) 52 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijkokkos_C", NULL)); 53 #endif 54 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpidense_C", NULL)); 55 #if defined(PETSC_HAVE_ELEMENTAL) 56 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_elemental_C", NULL)); 57 #endif 58 #if defined(PETSC_HAVE_SCALAPACK) 59 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_scalapack_C", NULL)); 60 #endif 61 #if defined(PETSC_HAVE_HYPRE) 62 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_hypre_C", NULL)); 63 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatProductSetFromOptions_transpose_mpiaij_mpiaij_C", NULL)); 64 #endif 65 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_is_C", NULL)); 66 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatProductSetFromOptions_is_mpiaij_C", NULL)); 67 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatProductSetFromOptions_mpiaij_mpiaij_C", NULL)); 68 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatMPIAIJSetUseScalableIncreaseOverlap_C", NULL)); 69 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijperm_C", NULL)); 70 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijsell_C", NULL)); 71 #if defined(PETSC_HAVE_MKL_SPARSE) 72 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijmkl_C", NULL)); 73 #endif 74 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijcrl_C", NULL)); 75 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_is_C", NULL)); 76 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpisell_C", NULL)); 77 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatSetPreallocationCOO_C", NULL)); 78 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatSetValuesCOO_C", NULL)); 79 PetscFunctionReturn(PETSC_SUCCESS); 80 } 81 82 /* defines MatSetValues_MPI_Hash(), MatAssemblyBegin_MPI_Hash(), and MatAssemblyEnd_MPI_Hash() */ 83 #define TYPE AIJ 84 #define TYPE_AIJ 85 #include "../src/mat/impls/aij/mpi/mpihashmat.h" 86 #undef TYPE 87 #undef TYPE_AIJ 88 89 static PetscErrorCode MatGetRowIJ_MPIAIJ(Mat A, PetscInt oshift, PetscBool symmetric, PetscBool inodecompressed, PetscInt *m, const PetscInt *ia[], const PetscInt *ja[], PetscBool *done) 90 { 91 Mat B; 92 93 PetscFunctionBegin; 94 PetscCall(MatMPIAIJGetLocalMat(A, MAT_INITIAL_MATRIX, &B)); 95 PetscCall(PetscObjectCompose((PetscObject)A, "MatGetRowIJ_MPIAIJ", (PetscObject)B)); 96 PetscCall(MatGetRowIJ(B, oshift, symmetric, inodecompressed, m, ia, ja, done)); 97 PetscCall(MatDestroy(&B)); 98 PetscFunctionReturn(PETSC_SUCCESS); 99 } 100 101 static PetscErrorCode MatRestoreRowIJ_MPIAIJ(Mat A, PetscInt oshift, PetscBool symmetric, PetscBool inodecompressed, PetscInt *m, const PetscInt *ia[], const PetscInt *ja[], PetscBool *done) 102 { 103 Mat B; 104 105 PetscFunctionBegin; 106 PetscCall(PetscObjectQuery((PetscObject)A, "MatGetRowIJ_MPIAIJ", (PetscObject *)&B)); 107 PetscCall(MatRestoreRowIJ(B, oshift, symmetric, inodecompressed, m, ia, ja, done)); 108 PetscCall(PetscObjectCompose((PetscObject)A, "MatGetRowIJ_MPIAIJ", NULL)); 109 PetscFunctionReturn(PETSC_SUCCESS); 110 } 111 112 /*MC 113 MATAIJ - MATAIJ = "aij" - A matrix type to be used for sparse matrices. 114 115 This matrix type is identical to` MATSEQAIJ` when constructed with a single process communicator, 116 and `MATMPIAIJ` otherwise. As a result, for single process communicators, 117 `MatSeqAIJSetPreallocation()` is supported, and similarly `MatMPIAIJSetPreallocation()` is supported 118 for communicators controlling multiple processes. It is recommended that you call both of 119 the above preallocation routines for simplicity. 120 121 Options Database Key: 122 . -mat_type aij - sets the matrix type to `MATAIJ` during a call to `MatSetFromOptions()` 123 124 Developer Note: 125 Level: beginner 126 127 Subclasses include `MATAIJCUSPARSE`, `MATAIJPERM`, `MATAIJSELL`, `MATAIJMKL`, `MATAIJCRL`, `MATAIJKOKKOS`,and also automatically switches over to use inodes when 128 enough exist. 129 130 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MATSEQAIJ`, `MatCreateAIJ()`, `MatCreateSeqAIJ()`, `MATSEQAIJ`, `MATMPIAIJ` 131 M*/ 132 133 /*MC 134 MATAIJCRL - MATAIJCRL = "aijcrl" - A matrix type to be used for sparse matrices. 135 136 This matrix type is identical to `MATSEQAIJCRL` when constructed with a single process communicator, 137 and `MATMPIAIJCRL` otherwise. As a result, for single process communicators, 138 `MatSeqAIJSetPreallocation()` is supported, and similarly `MatMPIAIJSetPreallocation()` is supported 139 for communicators controlling multiple processes. It is recommended that you call both of 140 the above preallocation routines for simplicity. 141 142 Options Database Key: 143 . -mat_type aijcrl - sets the matrix type to `MATMPIAIJCRL` during a call to `MatSetFromOptions()` 144 145 Level: beginner 146 147 .seealso: [](ch_matrices), `Mat`, `MatCreateMPIAIJCRL`, `MATSEQAIJCRL`, `MATMPIAIJCRL`, `MATSEQAIJCRL`, `MATMPIAIJCRL` 148 M*/ 149 150 static PetscErrorCode MatBindToCPU_MPIAIJ(Mat A, PetscBool flg) 151 { 152 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 153 154 PetscFunctionBegin; 155 #if defined(PETSC_HAVE_CUDA) || defined(PETSC_HAVE_HIP) || defined(PETSC_HAVE_VIENNACL) 156 A->boundtocpu = flg; 157 #endif 158 if (a->A) PetscCall(MatBindToCPU(a->A, flg)); 159 if (a->B) PetscCall(MatBindToCPU(a->B, flg)); 160 161 /* In addition to binding the diagonal and off-diagonal matrices, bind the local vectors used for matrix-vector products. 162 * This maybe seems a little odd for a MatBindToCPU() call to do, but it makes no sense for the binding of these vectors 163 * to differ from the parent matrix. */ 164 if (a->lvec) PetscCall(VecBindToCPU(a->lvec, flg)); 165 if (a->diag) PetscCall(VecBindToCPU(a->diag, flg)); 166 167 PetscFunctionReturn(PETSC_SUCCESS); 168 } 169 170 static PetscErrorCode MatSetBlockSizes_MPIAIJ(Mat M, PetscInt rbs, PetscInt cbs) 171 { 172 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)M->data; 173 174 PetscFunctionBegin; 175 if (mat->A) { 176 PetscCall(MatSetBlockSizes(mat->A, rbs, cbs)); 177 PetscCall(MatSetBlockSizes(mat->B, rbs, 1)); 178 } 179 PetscFunctionReturn(PETSC_SUCCESS); 180 } 181 182 static PetscErrorCode MatFindNonzeroRows_MPIAIJ(Mat M, IS *keptrows) 183 { 184 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)M->data; 185 Mat_SeqAIJ *a = (Mat_SeqAIJ *)mat->A->data; 186 Mat_SeqAIJ *b = (Mat_SeqAIJ *)mat->B->data; 187 const PetscInt *ia, *ib; 188 const MatScalar *aa, *bb, *aav, *bav; 189 PetscInt na, nb, i, j, *rows, cnt = 0, n0rows; 190 PetscInt m = M->rmap->n, rstart = M->rmap->rstart; 191 192 PetscFunctionBegin; 193 *keptrows = NULL; 194 195 ia = a->i; 196 ib = b->i; 197 PetscCall(MatSeqAIJGetArrayRead(mat->A, &aav)); 198 PetscCall(MatSeqAIJGetArrayRead(mat->B, &bav)); 199 for (i = 0; i < m; i++) { 200 na = ia[i + 1] - ia[i]; 201 nb = ib[i + 1] - ib[i]; 202 if (!na && !nb) { 203 cnt++; 204 goto ok1; 205 } 206 aa = aav + ia[i]; 207 for (j = 0; j < na; j++) { 208 if (aa[j] != 0.0) goto ok1; 209 } 210 bb = bav ? bav + ib[i] : NULL; 211 for (j = 0; j < nb; j++) { 212 if (bb[j] != 0.0) goto ok1; 213 } 214 cnt++; 215 ok1:; 216 } 217 PetscCall(MPIU_Allreduce(&cnt, &n0rows, 1, MPIU_INT, MPI_SUM, PetscObjectComm((PetscObject)M))); 218 if (!n0rows) { 219 PetscCall(MatSeqAIJRestoreArrayRead(mat->A, &aav)); 220 PetscCall(MatSeqAIJRestoreArrayRead(mat->B, &bav)); 221 PetscFunctionReturn(PETSC_SUCCESS); 222 } 223 PetscCall(PetscMalloc1(M->rmap->n - cnt, &rows)); 224 cnt = 0; 225 for (i = 0; i < m; i++) { 226 na = ia[i + 1] - ia[i]; 227 nb = ib[i + 1] - ib[i]; 228 if (!na && !nb) continue; 229 aa = aav + ia[i]; 230 for (j = 0; j < na; j++) { 231 if (aa[j] != 0.0) { 232 rows[cnt++] = rstart + i; 233 goto ok2; 234 } 235 } 236 bb = bav ? bav + ib[i] : NULL; 237 for (j = 0; j < nb; j++) { 238 if (bb[j] != 0.0) { 239 rows[cnt++] = rstart + i; 240 goto ok2; 241 } 242 } 243 ok2:; 244 } 245 PetscCall(ISCreateGeneral(PetscObjectComm((PetscObject)M), cnt, rows, PETSC_OWN_POINTER, keptrows)); 246 PetscCall(MatSeqAIJRestoreArrayRead(mat->A, &aav)); 247 PetscCall(MatSeqAIJRestoreArrayRead(mat->B, &bav)); 248 PetscFunctionReturn(PETSC_SUCCESS); 249 } 250 251 static PetscErrorCode MatDiagonalSet_MPIAIJ(Mat Y, Vec D, InsertMode is) 252 { 253 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)Y->data; 254 PetscBool cong; 255 256 PetscFunctionBegin; 257 PetscCall(MatHasCongruentLayouts(Y, &cong)); 258 if (Y->assembled && cong) { 259 PetscCall(MatDiagonalSet(aij->A, D, is)); 260 } else { 261 PetscCall(MatDiagonalSet_Default(Y, D, is)); 262 } 263 PetscFunctionReturn(PETSC_SUCCESS); 264 } 265 266 static PetscErrorCode MatFindZeroDiagonals_MPIAIJ(Mat M, IS *zrows) 267 { 268 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)M->data; 269 PetscInt i, rstart, nrows, *rows; 270 271 PetscFunctionBegin; 272 *zrows = NULL; 273 PetscCall(MatFindZeroDiagonals_SeqAIJ_Private(aij->A, &nrows, &rows)); 274 PetscCall(MatGetOwnershipRange(M, &rstart, NULL)); 275 for (i = 0; i < nrows; i++) rows[i] += rstart; 276 PetscCall(ISCreateGeneral(PetscObjectComm((PetscObject)M), nrows, rows, PETSC_OWN_POINTER, zrows)); 277 PetscFunctionReturn(PETSC_SUCCESS); 278 } 279 280 static PetscErrorCode MatGetColumnReductions_MPIAIJ(Mat A, PetscInt type, PetscReal *reductions) 281 { 282 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)A->data; 283 PetscInt i, m, n, *garray = aij->garray; 284 Mat_SeqAIJ *a_aij = (Mat_SeqAIJ *)aij->A->data; 285 Mat_SeqAIJ *b_aij = (Mat_SeqAIJ *)aij->B->data; 286 PetscReal *work; 287 const PetscScalar *dummy; 288 289 PetscFunctionBegin; 290 PetscCall(MatGetSize(A, &m, &n)); 291 PetscCall(PetscCalloc1(n, &work)); 292 PetscCall(MatSeqAIJGetArrayRead(aij->A, &dummy)); 293 PetscCall(MatSeqAIJRestoreArrayRead(aij->A, &dummy)); 294 PetscCall(MatSeqAIJGetArrayRead(aij->B, &dummy)); 295 PetscCall(MatSeqAIJRestoreArrayRead(aij->B, &dummy)); 296 if (type == NORM_2) { 297 for (i = 0; i < a_aij->i[aij->A->rmap->n]; i++) work[A->cmap->rstart + a_aij->j[i]] += PetscAbsScalar(a_aij->a[i] * a_aij->a[i]); 298 for (i = 0; i < b_aij->i[aij->B->rmap->n]; i++) work[garray[b_aij->j[i]]] += PetscAbsScalar(b_aij->a[i] * b_aij->a[i]); 299 } else if (type == NORM_1) { 300 for (i = 0; i < a_aij->i[aij->A->rmap->n]; i++) work[A->cmap->rstart + a_aij->j[i]] += PetscAbsScalar(a_aij->a[i]); 301 for (i = 0; i < b_aij->i[aij->B->rmap->n]; i++) work[garray[b_aij->j[i]]] += PetscAbsScalar(b_aij->a[i]); 302 } else if (type == NORM_INFINITY) { 303 for (i = 0; i < a_aij->i[aij->A->rmap->n]; i++) work[A->cmap->rstart + a_aij->j[i]] = PetscMax(PetscAbsScalar(a_aij->a[i]), work[A->cmap->rstart + a_aij->j[i]]); 304 for (i = 0; i < b_aij->i[aij->B->rmap->n]; i++) work[garray[b_aij->j[i]]] = PetscMax(PetscAbsScalar(b_aij->a[i]), work[garray[b_aij->j[i]]]); 305 } else if (type == REDUCTION_SUM_REALPART || type == REDUCTION_MEAN_REALPART) { 306 for (i = 0; i < a_aij->i[aij->A->rmap->n]; i++) work[A->cmap->rstart + a_aij->j[i]] += PetscRealPart(a_aij->a[i]); 307 for (i = 0; i < b_aij->i[aij->B->rmap->n]; i++) work[garray[b_aij->j[i]]] += PetscRealPart(b_aij->a[i]); 308 } else if (type == REDUCTION_SUM_IMAGINARYPART || type == REDUCTION_MEAN_IMAGINARYPART) { 309 for (i = 0; i < a_aij->i[aij->A->rmap->n]; i++) work[A->cmap->rstart + a_aij->j[i]] += PetscImaginaryPart(a_aij->a[i]); 310 for (i = 0; i < b_aij->i[aij->B->rmap->n]; i++) work[garray[b_aij->j[i]]] += PetscImaginaryPart(b_aij->a[i]); 311 } else SETERRQ(PetscObjectComm((PetscObject)A), PETSC_ERR_ARG_WRONG, "Unknown reduction type"); 312 if (type == NORM_INFINITY) { 313 PetscCall(MPIU_Allreduce(work, reductions, n, MPIU_REAL, MPIU_MAX, PetscObjectComm((PetscObject)A))); 314 } else { 315 PetscCall(MPIU_Allreduce(work, reductions, n, MPIU_REAL, MPIU_SUM, PetscObjectComm((PetscObject)A))); 316 } 317 PetscCall(PetscFree(work)); 318 if (type == NORM_2) { 319 for (i = 0; i < n; i++) reductions[i] = PetscSqrtReal(reductions[i]); 320 } else if (type == REDUCTION_MEAN_REALPART || type == REDUCTION_MEAN_IMAGINARYPART) { 321 for (i = 0; i < n; i++) reductions[i] /= m; 322 } 323 PetscFunctionReturn(PETSC_SUCCESS); 324 } 325 326 static PetscErrorCode MatFindOffBlockDiagonalEntries_MPIAIJ(Mat A, IS *is) 327 { 328 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 329 IS sis, gis; 330 const PetscInt *isis, *igis; 331 PetscInt n, *iis, nsis, ngis, rstart, i; 332 333 PetscFunctionBegin; 334 PetscCall(MatFindOffBlockDiagonalEntries(a->A, &sis)); 335 PetscCall(MatFindNonzeroRows(a->B, &gis)); 336 PetscCall(ISGetSize(gis, &ngis)); 337 PetscCall(ISGetSize(sis, &nsis)); 338 PetscCall(ISGetIndices(sis, &isis)); 339 PetscCall(ISGetIndices(gis, &igis)); 340 341 PetscCall(PetscMalloc1(ngis + nsis, &iis)); 342 PetscCall(PetscArraycpy(iis, igis, ngis)); 343 PetscCall(PetscArraycpy(iis + ngis, isis, nsis)); 344 n = ngis + nsis; 345 PetscCall(PetscSortRemoveDupsInt(&n, iis)); 346 PetscCall(MatGetOwnershipRange(A, &rstart, NULL)); 347 for (i = 0; i < n; i++) iis[i] += rstart; 348 PetscCall(ISCreateGeneral(PetscObjectComm((PetscObject)A), n, iis, PETSC_OWN_POINTER, is)); 349 350 PetscCall(ISRestoreIndices(sis, &isis)); 351 PetscCall(ISRestoreIndices(gis, &igis)); 352 PetscCall(ISDestroy(&sis)); 353 PetscCall(ISDestroy(&gis)); 354 PetscFunctionReturn(PETSC_SUCCESS); 355 } 356 357 /* 358 Local utility routine that creates a mapping from the global column 359 number to the local number in the off-diagonal part of the local 360 storage of the matrix. When PETSC_USE_CTABLE is used this is scalable at 361 a slightly higher hash table cost; without it it is not scalable (each processor 362 has an order N integer array but is fast to access. 363 */ 364 PetscErrorCode MatCreateColmap_MPIAIJ_Private(Mat mat) 365 { 366 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 367 PetscInt n = aij->B->cmap->n, i; 368 369 PetscFunctionBegin; 370 PetscCheck(!n || aij->garray, PETSC_COMM_SELF, PETSC_ERR_PLIB, "MPIAIJ Matrix was assembled but is missing garray"); 371 #if defined(PETSC_USE_CTABLE) 372 PetscCall(PetscHMapICreateWithSize(n, &aij->colmap)); 373 for (i = 0; i < n; i++) PetscCall(PetscHMapISet(aij->colmap, aij->garray[i] + 1, i + 1)); 374 #else 375 PetscCall(PetscCalloc1(mat->cmap->N + 1, &aij->colmap)); 376 for (i = 0; i < n; i++) aij->colmap[aij->garray[i]] = i + 1; 377 #endif 378 PetscFunctionReturn(PETSC_SUCCESS); 379 } 380 381 #define MatSetValues_SeqAIJ_A_Private(row, col, value, addv, orow, ocol) \ 382 do { \ 383 if (col <= lastcol1) low1 = 0; \ 384 else high1 = nrow1; \ 385 lastcol1 = col; \ 386 while (high1 - low1 > 5) { \ 387 t = (low1 + high1) / 2; \ 388 if (rp1[t] > col) high1 = t; \ 389 else low1 = t; \ 390 } \ 391 for (_i = low1; _i < high1; _i++) { \ 392 if (rp1[_i] > col) break; \ 393 if (rp1[_i] == col) { \ 394 if (addv == ADD_VALUES) { \ 395 ap1[_i] += value; \ 396 /* Not sure LogFlops will slow dow the code or not */ \ 397 (void)PetscLogFlops(1.0); \ 398 } else ap1[_i] = value; \ 399 goto a_noinsert; \ 400 } \ 401 } \ 402 if (value == 0.0 && ignorezeroentries && row != col) { \ 403 low1 = 0; \ 404 high1 = nrow1; \ 405 goto a_noinsert; \ 406 } \ 407 if (nonew == 1) { \ 408 low1 = 0; \ 409 high1 = nrow1; \ 410 goto a_noinsert; \ 411 } \ 412 PetscCheck(nonew != -1, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Inserting a new nonzero at global row/column (%" PetscInt_FMT ", %" PetscInt_FMT ") into matrix", orow, ocol); \ 413 MatSeqXAIJReallocateAIJ(A, am, 1, nrow1, row, col, rmax1, aa, ai, aj, rp1, ap1, aimax, nonew, MatScalar); \ 414 N = nrow1++ - 1; \ 415 a->nz++; \ 416 high1++; \ 417 /* shift up all the later entries in this row */ \ 418 PetscCall(PetscArraymove(rp1 + _i + 1, rp1 + _i, N - _i + 1)); \ 419 PetscCall(PetscArraymove(ap1 + _i + 1, ap1 + _i, N - _i + 1)); \ 420 rp1[_i] = col; \ 421 ap1[_i] = value; \ 422 A->nonzerostate++; \ 423 a_noinsert:; \ 424 ailen[row] = nrow1; \ 425 } while (0) 426 427 #define MatSetValues_SeqAIJ_B_Private(row, col, value, addv, orow, ocol) \ 428 do { \ 429 if (col <= lastcol2) low2 = 0; \ 430 else high2 = nrow2; \ 431 lastcol2 = col; \ 432 while (high2 - low2 > 5) { \ 433 t = (low2 + high2) / 2; \ 434 if (rp2[t] > col) high2 = t; \ 435 else low2 = t; \ 436 } \ 437 for (_i = low2; _i < high2; _i++) { \ 438 if (rp2[_i] > col) break; \ 439 if (rp2[_i] == col) { \ 440 if (addv == ADD_VALUES) { \ 441 ap2[_i] += value; \ 442 (void)PetscLogFlops(1.0); \ 443 } else ap2[_i] = value; \ 444 goto b_noinsert; \ 445 } \ 446 } \ 447 if (value == 0.0 && ignorezeroentries) { \ 448 low2 = 0; \ 449 high2 = nrow2; \ 450 goto b_noinsert; \ 451 } \ 452 if (nonew == 1) { \ 453 low2 = 0; \ 454 high2 = nrow2; \ 455 goto b_noinsert; \ 456 } \ 457 PetscCheck(nonew != -1, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Inserting a new nonzero at global row/column (%" PetscInt_FMT ", %" PetscInt_FMT ") into matrix", orow, ocol); \ 458 MatSeqXAIJReallocateAIJ(B, bm, 1, nrow2, row, col, rmax2, ba, bi, bj, rp2, ap2, bimax, nonew, MatScalar); \ 459 N = nrow2++ - 1; \ 460 b->nz++; \ 461 high2++; \ 462 /* shift up all the later entries in this row */ \ 463 PetscCall(PetscArraymove(rp2 + _i + 1, rp2 + _i, N - _i + 1)); \ 464 PetscCall(PetscArraymove(ap2 + _i + 1, ap2 + _i, N - _i + 1)); \ 465 rp2[_i] = col; \ 466 ap2[_i] = value; \ 467 B->nonzerostate++; \ 468 b_noinsert:; \ 469 bilen[row] = nrow2; \ 470 } while (0) 471 472 static PetscErrorCode MatSetValuesRow_MPIAIJ(Mat A, PetscInt row, const PetscScalar v[]) 473 { 474 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)A->data; 475 Mat_SeqAIJ *a = (Mat_SeqAIJ *)mat->A->data, *b = (Mat_SeqAIJ *)mat->B->data; 476 PetscInt l, *garray = mat->garray, diag; 477 PetscScalar *aa, *ba; 478 479 PetscFunctionBegin; 480 /* code only works for square matrices A */ 481 482 /* find size of row to the left of the diagonal part */ 483 PetscCall(MatGetOwnershipRange(A, &diag, NULL)); 484 row = row - diag; 485 for (l = 0; l < b->i[row + 1] - b->i[row]; l++) { 486 if (garray[b->j[b->i[row] + l]] > diag) break; 487 } 488 if (l) { 489 PetscCall(MatSeqAIJGetArray(mat->B, &ba)); 490 PetscCall(PetscArraycpy(ba + b->i[row], v, l)); 491 PetscCall(MatSeqAIJRestoreArray(mat->B, &ba)); 492 } 493 494 /* diagonal part */ 495 if (a->i[row + 1] - a->i[row]) { 496 PetscCall(MatSeqAIJGetArray(mat->A, &aa)); 497 PetscCall(PetscArraycpy(aa + a->i[row], v + l, (a->i[row + 1] - a->i[row]))); 498 PetscCall(MatSeqAIJRestoreArray(mat->A, &aa)); 499 } 500 501 /* right of diagonal part */ 502 if (b->i[row + 1] - b->i[row] - l) { 503 PetscCall(MatSeqAIJGetArray(mat->B, &ba)); 504 PetscCall(PetscArraycpy(ba + b->i[row] + l, v + l + a->i[row + 1] - a->i[row], b->i[row + 1] - b->i[row] - l)); 505 PetscCall(MatSeqAIJRestoreArray(mat->B, &ba)); 506 } 507 PetscFunctionReturn(PETSC_SUCCESS); 508 } 509 510 PetscErrorCode MatSetValues_MPIAIJ(Mat mat, PetscInt m, const PetscInt im[], PetscInt n, const PetscInt in[], const PetscScalar v[], InsertMode addv) 511 { 512 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 513 PetscScalar value = 0.0; 514 PetscInt i, j, rstart = mat->rmap->rstart, rend = mat->rmap->rend; 515 PetscInt cstart = mat->cmap->rstart, cend = mat->cmap->rend, row, col; 516 PetscBool roworiented = aij->roworiented; 517 518 /* Some Variables required in the macro */ 519 Mat A = aij->A; 520 Mat_SeqAIJ *a = (Mat_SeqAIJ *)A->data; 521 PetscInt *aimax = a->imax, *ai = a->i, *ailen = a->ilen, *aj = a->j; 522 PetscBool ignorezeroentries = a->ignorezeroentries; 523 Mat B = aij->B; 524 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 525 PetscInt *bimax = b->imax, *bi = b->i, *bilen = b->ilen, *bj = b->j, bm = aij->B->rmap->n, am = aij->A->rmap->n; 526 MatScalar *aa, *ba; 527 PetscInt *rp1, *rp2, ii, nrow1, nrow2, _i, rmax1, rmax2, N, low1, high1, low2, high2, t, lastcol1, lastcol2; 528 PetscInt nonew; 529 MatScalar *ap1, *ap2; 530 531 PetscFunctionBegin; 532 PetscCall(MatSeqAIJGetArray(A, &aa)); 533 PetscCall(MatSeqAIJGetArray(B, &ba)); 534 for (i = 0; i < m; i++) { 535 if (im[i] < 0) continue; 536 PetscCheck(im[i] < mat->rmap->N, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Row too large: row %" PetscInt_FMT " max %" PetscInt_FMT, im[i], mat->rmap->N - 1); 537 if (im[i] >= rstart && im[i] < rend) { 538 row = im[i] - rstart; 539 lastcol1 = -1; 540 rp1 = aj ? aj + ai[row] : NULL; 541 ap1 = aa ? aa + ai[row] : NULL; 542 rmax1 = aimax[row]; 543 nrow1 = ailen[row]; 544 low1 = 0; 545 high1 = nrow1; 546 lastcol2 = -1; 547 rp2 = bj ? bj + bi[row] : NULL; 548 ap2 = ba ? ba + bi[row] : NULL; 549 rmax2 = bimax[row]; 550 nrow2 = bilen[row]; 551 low2 = 0; 552 high2 = nrow2; 553 554 for (j = 0; j < n; j++) { 555 if (v) value = roworiented ? v[i * n + j] : v[i + j * m]; 556 if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES) && im[i] != in[j]) continue; 557 if (in[j] >= cstart && in[j] < cend) { 558 col = in[j] - cstart; 559 nonew = a->nonew; 560 MatSetValues_SeqAIJ_A_Private(row, col, value, addv, im[i], in[j]); 561 } else if (in[j] < 0) { 562 continue; 563 } else { 564 PetscCheck(in[j] < mat->cmap->N, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Column too large: col %" PetscInt_FMT " max %" PetscInt_FMT, in[j], mat->cmap->N - 1); 565 if (mat->was_assembled) { 566 if (!aij->colmap) PetscCall(MatCreateColmap_MPIAIJ_Private(mat)); 567 #if defined(PETSC_USE_CTABLE) 568 PetscCall(PetscHMapIGetWithDefault(aij->colmap, in[j] + 1, 0, &col)); /* map global col ids to local ones */ 569 col--; 570 #else 571 col = aij->colmap[in[j]] - 1; 572 #endif 573 if (col < 0 && !((Mat_SeqAIJ *)(aij->B->data))->nonew) { /* col < 0 means in[j] is a new col for B */ 574 PetscCall(MatDisAssemble_MPIAIJ(mat)); /* Change aij->B from reduced/local format to expanded/global format */ 575 col = in[j]; 576 /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */ 577 B = aij->B; 578 b = (Mat_SeqAIJ *)B->data; 579 bimax = b->imax; 580 bi = b->i; 581 bilen = b->ilen; 582 bj = b->j; 583 ba = b->a; 584 rp2 = bj + bi[row]; 585 ap2 = ba + bi[row]; 586 rmax2 = bimax[row]; 587 nrow2 = bilen[row]; 588 low2 = 0; 589 high2 = nrow2; 590 bm = aij->B->rmap->n; 591 ba = b->a; 592 } else if (col < 0 && !(ignorezeroentries && value == 0.0)) { 593 if (1 == ((Mat_SeqAIJ *)(aij->B->data))->nonew) { 594 PetscCall(PetscInfo(mat, "Skipping of insertion of new nonzero location in off-diagonal portion of matrix %g(%" PetscInt_FMT ",%" PetscInt_FMT ")\n", (double)PetscRealPart(value), im[i], in[j])); 595 } else SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Inserting a new nonzero at global row/column (%" PetscInt_FMT ", %" PetscInt_FMT ") into matrix", im[i], in[j]); 596 } 597 } else col = in[j]; 598 nonew = b->nonew; 599 MatSetValues_SeqAIJ_B_Private(row, col, value, addv, im[i], in[j]); 600 } 601 } 602 } else { 603 PetscCheck(!mat->nooffprocentries, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Setting off process row %" PetscInt_FMT " even though MatSetOption(,MAT_NO_OFF_PROC_ENTRIES,PETSC_TRUE) was set", im[i]); 604 if (!aij->donotstash) { 605 mat->assembled = PETSC_FALSE; 606 if (roworiented) { 607 PetscCall(MatStashValuesRow_Private(&mat->stash, im[i], n, in, v ? v + i * n : NULL, (PetscBool)(ignorezeroentries && (addv == ADD_VALUES)))); 608 } else { 609 PetscCall(MatStashValuesCol_Private(&mat->stash, im[i], n, in, v ? v + i : NULL, m, (PetscBool)(ignorezeroentries && (addv == ADD_VALUES)))); 610 } 611 } 612 } 613 } 614 PetscCall(MatSeqAIJRestoreArray(A, &aa)); /* aa, bb might have been free'd due to reallocation above. But we don't access them here */ 615 PetscCall(MatSeqAIJRestoreArray(B, &ba)); 616 PetscFunctionReturn(PETSC_SUCCESS); 617 } 618 619 /* 620 This function sets the j and ilen arrays (of the diagonal and off-diagonal part) of an MPIAIJ-matrix. 621 The values in mat_i have to be sorted and the values in mat_j have to be sorted for each row (CSR-like). 622 No off-processor parts off the matrix are allowed here and mat->was_assembled has to be PETSC_FALSE. 623 */ 624 PetscErrorCode MatSetValues_MPIAIJ_CopyFromCSRFormat_Symbolic(Mat mat, const PetscInt mat_j[], const PetscInt mat_i[]) 625 { 626 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 627 Mat A = aij->A; /* diagonal part of the matrix */ 628 Mat B = aij->B; /* off-diagonal part of the matrix */ 629 Mat_SeqAIJ *a = (Mat_SeqAIJ *)A->data; 630 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 631 PetscInt cstart = mat->cmap->rstart, cend = mat->cmap->rend, col; 632 PetscInt *ailen = a->ilen, *aj = a->j; 633 PetscInt *bilen = b->ilen, *bj = b->j; 634 PetscInt am = aij->A->rmap->n, j; 635 PetscInt diag_so_far = 0, dnz; 636 PetscInt offd_so_far = 0, onz; 637 638 PetscFunctionBegin; 639 /* Iterate over all rows of the matrix */ 640 for (j = 0; j < am; j++) { 641 dnz = onz = 0; 642 /* Iterate over all non-zero columns of the current row */ 643 for (col = mat_i[j]; col < mat_i[j + 1]; col++) { 644 /* If column is in the diagonal */ 645 if (mat_j[col] >= cstart && mat_j[col] < cend) { 646 aj[diag_so_far++] = mat_j[col] - cstart; 647 dnz++; 648 } else { /* off-diagonal entries */ 649 bj[offd_so_far++] = mat_j[col]; 650 onz++; 651 } 652 } 653 ailen[j] = dnz; 654 bilen[j] = onz; 655 } 656 PetscFunctionReturn(PETSC_SUCCESS); 657 } 658 659 /* 660 This function sets the local j, a and ilen arrays (of the diagonal and off-diagonal part) of an MPIAIJ-matrix. 661 The values in mat_i have to be sorted and the values in mat_j have to be sorted for each row (CSR-like). 662 No off-processor parts off the matrix are allowed here, they are set at a later point by MatSetValues_MPIAIJ. 663 Also, mat->was_assembled has to be false, otherwise the statement aj[rowstart_diag+dnz_row] = mat_j[col] - cstart; 664 would not be true and the more complex MatSetValues_MPIAIJ has to be used. 665 */ 666 PetscErrorCode MatSetValues_MPIAIJ_CopyFromCSRFormat(Mat mat, const PetscInt mat_j[], const PetscInt mat_i[], const PetscScalar mat_a[]) 667 { 668 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 669 Mat A = aij->A; /* diagonal part of the matrix */ 670 Mat B = aij->B; /* off-diagonal part of the matrix */ 671 Mat_SeqAIJ *aijd = (Mat_SeqAIJ *)(aij->A)->data, *aijo = (Mat_SeqAIJ *)(aij->B)->data; 672 Mat_SeqAIJ *a = (Mat_SeqAIJ *)A->data; 673 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 674 PetscInt cstart = mat->cmap->rstart, cend = mat->cmap->rend; 675 PetscInt *ailen = a->ilen, *aj = a->j; 676 PetscInt *bilen = b->ilen, *bj = b->j; 677 PetscInt am = aij->A->rmap->n, j; 678 PetscInt *full_diag_i = aijd->i, *full_offd_i = aijo->i; /* These variables can also include non-local elements, which are set at a later point. */ 679 PetscInt col, dnz_row, onz_row, rowstart_diag, rowstart_offd; 680 PetscScalar *aa = a->a, *ba = b->a; 681 682 PetscFunctionBegin; 683 /* Iterate over all rows of the matrix */ 684 for (j = 0; j < am; j++) { 685 dnz_row = onz_row = 0; 686 rowstart_offd = full_offd_i[j]; 687 rowstart_diag = full_diag_i[j]; 688 /* Iterate over all non-zero columns of the current row */ 689 for (col = mat_i[j]; col < mat_i[j + 1]; col++) { 690 /* If column is in the diagonal */ 691 if (mat_j[col] >= cstart && mat_j[col] < cend) { 692 aj[rowstart_diag + dnz_row] = mat_j[col] - cstart; 693 aa[rowstart_diag + dnz_row] = mat_a[col]; 694 dnz_row++; 695 } else { /* off-diagonal entries */ 696 bj[rowstart_offd + onz_row] = mat_j[col]; 697 ba[rowstart_offd + onz_row] = mat_a[col]; 698 onz_row++; 699 } 700 } 701 ailen[j] = dnz_row; 702 bilen[j] = onz_row; 703 } 704 PetscFunctionReturn(PETSC_SUCCESS); 705 } 706 707 static PetscErrorCode MatGetValues_MPIAIJ(Mat mat, PetscInt m, const PetscInt idxm[], PetscInt n, const PetscInt idxn[], PetscScalar v[]) 708 { 709 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 710 PetscInt i, j, rstart = mat->rmap->rstart, rend = mat->rmap->rend; 711 PetscInt cstart = mat->cmap->rstart, cend = mat->cmap->rend, row, col; 712 713 PetscFunctionBegin; 714 for (i = 0; i < m; i++) { 715 if (idxm[i] < 0) continue; /* negative row */ 716 PetscCheck(idxm[i] < mat->rmap->N, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Row too large: row %" PetscInt_FMT " max %" PetscInt_FMT, idxm[i], mat->rmap->N - 1); 717 PetscCheck(idxm[i] >= rstart && idxm[i] < rend, PETSC_COMM_SELF, PETSC_ERR_SUP, "Only local values currently supported, row requested %" PetscInt_FMT " range [%" PetscInt_FMT " %" PetscInt_FMT ")", idxm[i], rstart, rend); 718 row = idxm[i] - rstart; 719 for (j = 0; j < n; j++) { 720 if (idxn[j] < 0) continue; /* negative column */ 721 PetscCheck(idxn[j] < mat->cmap->N, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Column too large: col %" PetscInt_FMT " max %" PetscInt_FMT, idxn[j], mat->cmap->N - 1); 722 if (idxn[j] >= cstart && idxn[j] < cend) { 723 col = idxn[j] - cstart; 724 PetscCall(MatGetValues(aij->A, 1, &row, 1, &col, v + i * n + j)); 725 } else { 726 if (!aij->colmap) PetscCall(MatCreateColmap_MPIAIJ_Private(mat)); 727 #if defined(PETSC_USE_CTABLE) 728 PetscCall(PetscHMapIGetWithDefault(aij->colmap, idxn[j] + 1, 0, &col)); 729 col--; 730 #else 731 col = aij->colmap[idxn[j]] - 1; 732 #endif 733 if ((col < 0) || (aij->garray[col] != idxn[j])) *(v + i * n + j) = 0.0; 734 else PetscCall(MatGetValues(aij->B, 1, &row, 1, &col, v + i * n + j)); 735 } 736 } 737 } 738 PetscFunctionReturn(PETSC_SUCCESS); 739 } 740 741 static PetscErrorCode MatAssemblyBegin_MPIAIJ(Mat mat, MatAssemblyType mode) 742 { 743 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 744 PetscInt nstash, reallocs; 745 746 PetscFunctionBegin; 747 if (aij->donotstash || mat->nooffprocentries) PetscFunctionReturn(PETSC_SUCCESS); 748 749 PetscCall(MatStashScatterBegin_Private(mat, &mat->stash, mat->rmap->range)); 750 PetscCall(MatStashGetInfo_Private(&mat->stash, &nstash, &reallocs)); 751 PetscCall(PetscInfo(aij->A, "Stash has %" PetscInt_FMT " entries, uses %" PetscInt_FMT " mallocs.\n", nstash, reallocs)); 752 PetscFunctionReturn(PETSC_SUCCESS); 753 } 754 755 PetscErrorCode MatAssemblyEnd_MPIAIJ(Mat mat, MatAssemblyType mode) 756 { 757 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 758 PetscMPIInt n; 759 PetscInt i, j, rstart, ncols, flg; 760 PetscInt *row, *col; 761 PetscBool other_disassembled; 762 PetscScalar *val; 763 764 /* do not use 'b = (Mat_SeqAIJ*)aij->B->data' as B can be reset in disassembly */ 765 766 PetscFunctionBegin; 767 if (!aij->donotstash && !mat->nooffprocentries) { 768 while (1) { 769 PetscCall(MatStashScatterGetMesg_Private(&mat->stash, &n, &row, &col, &val, &flg)); 770 if (!flg) break; 771 772 for (i = 0; i < n;) { 773 /* Now identify the consecutive vals belonging to the same row */ 774 for (j = i, rstart = row[j]; j < n; j++) { 775 if (row[j] != rstart) break; 776 } 777 if (j < n) ncols = j - i; 778 else ncols = n - i; 779 /* Now assemble all these values with a single function call */ 780 PetscCall(MatSetValues_MPIAIJ(mat, 1, row + i, ncols, col + i, val + i, mat->insertmode)); 781 i = j; 782 } 783 } 784 PetscCall(MatStashScatterEnd_Private(&mat->stash)); 785 } 786 #if defined(PETSC_HAVE_DEVICE) 787 if (mat->offloadmask == PETSC_OFFLOAD_CPU) aij->A->offloadmask = PETSC_OFFLOAD_CPU; 788 /* We call MatBindToCPU() on aij->A and aij->B here, because if MatBindToCPU_MPIAIJ() is called before assembly, it cannot bind these. */ 789 if (mat->boundtocpu) { 790 PetscCall(MatBindToCPU(aij->A, PETSC_TRUE)); 791 PetscCall(MatBindToCPU(aij->B, PETSC_TRUE)); 792 } 793 #endif 794 PetscCall(MatAssemblyBegin(aij->A, mode)); 795 PetscCall(MatAssemblyEnd(aij->A, mode)); 796 797 /* determine if any processor has disassembled, if so we must 798 also disassemble ourself, in order that we may reassemble. */ 799 /* 800 if nonzero structure of submatrix B cannot change then we know that 801 no processor disassembled thus we can skip this stuff 802 */ 803 if (!((Mat_SeqAIJ *)aij->B->data)->nonew) { 804 PetscCall(MPIU_Allreduce(&mat->was_assembled, &other_disassembled, 1, MPIU_BOOL, MPI_LAND, PetscObjectComm((PetscObject)mat))); 805 if (mat->was_assembled && !other_disassembled) { /* mat on this rank has reduced off-diag B with local col ids, but globally it does not */ 806 PetscCall(MatDisAssemble_MPIAIJ(mat)); 807 } 808 } 809 if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) PetscCall(MatSetUpMultiply_MPIAIJ(mat)); 810 PetscCall(MatSetOption(aij->B, MAT_USE_INODES, PETSC_FALSE)); 811 #if defined(PETSC_HAVE_DEVICE) 812 if (mat->offloadmask == PETSC_OFFLOAD_CPU && aij->B->offloadmask != PETSC_OFFLOAD_UNALLOCATED) aij->B->offloadmask = PETSC_OFFLOAD_CPU; 813 #endif 814 PetscCall(MatAssemblyBegin(aij->B, mode)); 815 PetscCall(MatAssemblyEnd(aij->B, mode)); 816 817 PetscCall(PetscFree2(aij->rowvalues, aij->rowindices)); 818 819 aij->rowvalues = NULL; 820 821 PetscCall(VecDestroy(&aij->diag)); 822 823 /* if no new nonzero locations are allowed in matrix then only set the matrix state the first time through */ 824 if ((!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) || !((Mat_SeqAIJ *)(aij->A->data))->nonew) { 825 PetscObjectState state = aij->A->nonzerostate + aij->B->nonzerostate; 826 PetscCall(MPIU_Allreduce(&state, &mat->nonzerostate, 1, MPIU_INT64, MPI_SUM, PetscObjectComm((PetscObject)mat))); 827 } 828 #if defined(PETSC_HAVE_DEVICE) 829 mat->offloadmask = PETSC_OFFLOAD_BOTH; 830 #endif 831 PetscFunctionReturn(PETSC_SUCCESS); 832 } 833 834 static PetscErrorCode MatZeroEntries_MPIAIJ(Mat A) 835 { 836 Mat_MPIAIJ *l = (Mat_MPIAIJ *)A->data; 837 838 PetscFunctionBegin; 839 PetscCall(MatZeroEntries(l->A)); 840 PetscCall(MatZeroEntries(l->B)); 841 PetscFunctionReturn(PETSC_SUCCESS); 842 } 843 844 static PetscErrorCode MatZeroRows_MPIAIJ(Mat A, PetscInt N, const PetscInt rows[], PetscScalar diag, Vec x, Vec b) 845 { 846 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)A->data; 847 PetscObjectState sA, sB; 848 PetscInt *lrows; 849 PetscInt r, len; 850 PetscBool cong, lch, gch; 851 852 PetscFunctionBegin; 853 /* get locally owned rows */ 854 PetscCall(MatZeroRowsMapLocal_Private(A, N, rows, &len, &lrows)); 855 PetscCall(MatHasCongruentLayouts(A, &cong)); 856 /* fix right hand side if needed */ 857 if (x && b) { 858 const PetscScalar *xx; 859 PetscScalar *bb; 860 861 PetscCheck(cong, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Need matching row/col layout"); 862 PetscCall(VecGetArrayRead(x, &xx)); 863 PetscCall(VecGetArray(b, &bb)); 864 for (r = 0; r < len; ++r) bb[lrows[r]] = diag * xx[lrows[r]]; 865 PetscCall(VecRestoreArrayRead(x, &xx)); 866 PetscCall(VecRestoreArray(b, &bb)); 867 } 868 869 sA = mat->A->nonzerostate; 870 sB = mat->B->nonzerostate; 871 872 if (diag != 0.0 && cong) { 873 PetscCall(MatZeroRows(mat->A, len, lrows, diag, NULL, NULL)); 874 PetscCall(MatZeroRows(mat->B, len, lrows, 0.0, NULL, NULL)); 875 } else if (diag != 0.0) { /* non-square or non congruent layouts -> if keepnonzeropattern is false, we allow for new insertion */ 876 Mat_SeqAIJ *aijA = (Mat_SeqAIJ *)mat->A->data; 877 Mat_SeqAIJ *aijB = (Mat_SeqAIJ *)mat->B->data; 878 PetscInt nnwA, nnwB; 879 PetscBool nnzA, nnzB; 880 881 nnwA = aijA->nonew; 882 nnwB = aijB->nonew; 883 nnzA = aijA->keepnonzeropattern; 884 nnzB = aijB->keepnonzeropattern; 885 if (!nnzA) { 886 PetscCall(PetscInfo(mat->A, "Requested to not keep the pattern and add a nonzero diagonal; may encounter reallocations on diagonal block.\n")); 887 aijA->nonew = 0; 888 } 889 if (!nnzB) { 890 PetscCall(PetscInfo(mat->B, "Requested to not keep the pattern and add a nonzero diagonal; may encounter reallocations on off-diagonal block.\n")); 891 aijB->nonew = 0; 892 } 893 /* Must zero here before the next loop */ 894 PetscCall(MatZeroRows(mat->A, len, lrows, 0.0, NULL, NULL)); 895 PetscCall(MatZeroRows(mat->B, len, lrows, 0.0, NULL, NULL)); 896 for (r = 0; r < len; ++r) { 897 const PetscInt row = lrows[r] + A->rmap->rstart; 898 if (row >= A->cmap->N) continue; 899 PetscCall(MatSetValues(A, 1, &row, 1, &row, &diag, INSERT_VALUES)); 900 } 901 aijA->nonew = nnwA; 902 aijB->nonew = nnwB; 903 } else { 904 PetscCall(MatZeroRows(mat->A, len, lrows, 0.0, NULL, NULL)); 905 PetscCall(MatZeroRows(mat->B, len, lrows, 0.0, NULL, NULL)); 906 } 907 PetscCall(PetscFree(lrows)); 908 PetscCall(MatAssemblyBegin(A, MAT_FINAL_ASSEMBLY)); 909 PetscCall(MatAssemblyEnd(A, MAT_FINAL_ASSEMBLY)); 910 911 /* reduce nonzerostate */ 912 lch = (PetscBool)(sA != mat->A->nonzerostate || sB != mat->B->nonzerostate); 913 PetscCall(MPIU_Allreduce(&lch, &gch, 1, MPIU_BOOL, MPI_LOR, PetscObjectComm((PetscObject)A))); 914 if (gch) A->nonzerostate++; 915 PetscFunctionReturn(PETSC_SUCCESS); 916 } 917 918 static PetscErrorCode MatZeroRowsColumns_MPIAIJ(Mat A, PetscInt N, const PetscInt rows[], PetscScalar diag, Vec x, Vec b) 919 { 920 Mat_MPIAIJ *l = (Mat_MPIAIJ *)A->data; 921 PetscMPIInt n = A->rmap->n; 922 PetscInt i, j, r, m, len = 0; 923 PetscInt *lrows, *owners = A->rmap->range; 924 PetscMPIInt p = 0; 925 PetscSFNode *rrows; 926 PetscSF sf; 927 const PetscScalar *xx; 928 PetscScalar *bb, *mask, *aij_a; 929 Vec xmask, lmask; 930 Mat_SeqAIJ *aij = (Mat_SeqAIJ *)l->B->data; 931 const PetscInt *aj, *ii, *ridx; 932 PetscScalar *aa; 933 934 PetscFunctionBegin; 935 /* Create SF where leaves are input rows and roots are owned rows */ 936 PetscCall(PetscMalloc1(n, &lrows)); 937 for (r = 0; r < n; ++r) lrows[r] = -1; 938 PetscCall(PetscMalloc1(N, &rrows)); 939 for (r = 0; r < N; ++r) { 940 const PetscInt idx = rows[r]; 941 PetscCheck(idx >= 0 && A->rmap->N > idx, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Row %" PetscInt_FMT " out of range [0,%" PetscInt_FMT ")", idx, A->rmap->N); 942 if (idx < owners[p] || owners[p + 1] <= idx) { /* short-circuit the search if the last p owns this row too */ 943 PetscCall(PetscLayoutFindOwner(A->rmap, idx, &p)); 944 } 945 rrows[r].rank = p; 946 rrows[r].index = rows[r] - owners[p]; 947 } 948 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)A), &sf)); 949 PetscCall(PetscSFSetGraph(sf, n, N, NULL, PETSC_OWN_POINTER, rrows, PETSC_OWN_POINTER)); 950 /* Collect flags for rows to be zeroed */ 951 PetscCall(PetscSFReduceBegin(sf, MPIU_INT, (PetscInt *)rows, lrows, MPI_LOR)); 952 PetscCall(PetscSFReduceEnd(sf, MPIU_INT, (PetscInt *)rows, lrows, MPI_LOR)); 953 PetscCall(PetscSFDestroy(&sf)); 954 /* Compress and put in row numbers */ 955 for (r = 0; r < n; ++r) 956 if (lrows[r] >= 0) lrows[len++] = r; 957 /* zero diagonal part of matrix */ 958 PetscCall(MatZeroRowsColumns(l->A, len, lrows, diag, x, b)); 959 /* handle off-diagonal part of matrix */ 960 PetscCall(MatCreateVecs(A, &xmask, NULL)); 961 PetscCall(VecDuplicate(l->lvec, &lmask)); 962 PetscCall(VecGetArray(xmask, &bb)); 963 for (i = 0; i < len; i++) bb[lrows[i]] = 1; 964 PetscCall(VecRestoreArray(xmask, &bb)); 965 PetscCall(VecScatterBegin(l->Mvctx, xmask, lmask, ADD_VALUES, SCATTER_FORWARD)); 966 PetscCall(VecScatterEnd(l->Mvctx, xmask, lmask, ADD_VALUES, SCATTER_FORWARD)); 967 PetscCall(VecDestroy(&xmask)); 968 if (x && b) { /* this code is buggy when the row and column layout don't match */ 969 PetscBool cong; 970 971 PetscCall(MatHasCongruentLayouts(A, &cong)); 972 PetscCheck(cong, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Need matching row/col layout"); 973 PetscCall(VecScatterBegin(l->Mvctx, x, l->lvec, INSERT_VALUES, SCATTER_FORWARD)); 974 PetscCall(VecScatterEnd(l->Mvctx, x, l->lvec, INSERT_VALUES, SCATTER_FORWARD)); 975 PetscCall(VecGetArrayRead(l->lvec, &xx)); 976 PetscCall(VecGetArray(b, &bb)); 977 } 978 PetscCall(VecGetArray(lmask, &mask)); 979 /* remove zeroed rows of off-diagonal matrix */ 980 PetscCall(MatSeqAIJGetArray(l->B, &aij_a)); 981 ii = aij->i; 982 for (i = 0; i < len; i++) PetscCall(PetscArrayzero(aij_a + ii[lrows[i]], ii[lrows[i] + 1] - ii[lrows[i]])); 983 /* loop over all elements of off process part of matrix zeroing removed columns*/ 984 if (aij->compressedrow.use) { 985 m = aij->compressedrow.nrows; 986 ii = aij->compressedrow.i; 987 ridx = aij->compressedrow.rindex; 988 for (i = 0; i < m; i++) { 989 n = ii[i + 1] - ii[i]; 990 aj = aij->j + ii[i]; 991 aa = aij_a + ii[i]; 992 993 for (j = 0; j < n; j++) { 994 if (PetscAbsScalar(mask[*aj])) { 995 if (b) bb[*ridx] -= *aa * xx[*aj]; 996 *aa = 0.0; 997 } 998 aa++; 999 aj++; 1000 } 1001 ridx++; 1002 } 1003 } else { /* do not use compressed row format */ 1004 m = l->B->rmap->n; 1005 for (i = 0; i < m; i++) { 1006 n = ii[i + 1] - ii[i]; 1007 aj = aij->j + ii[i]; 1008 aa = aij_a + ii[i]; 1009 for (j = 0; j < n; j++) { 1010 if (PetscAbsScalar(mask[*aj])) { 1011 if (b) bb[i] -= *aa * xx[*aj]; 1012 *aa = 0.0; 1013 } 1014 aa++; 1015 aj++; 1016 } 1017 } 1018 } 1019 if (x && b) { 1020 PetscCall(VecRestoreArray(b, &bb)); 1021 PetscCall(VecRestoreArrayRead(l->lvec, &xx)); 1022 } 1023 PetscCall(MatSeqAIJRestoreArray(l->B, &aij_a)); 1024 PetscCall(VecRestoreArray(lmask, &mask)); 1025 PetscCall(VecDestroy(&lmask)); 1026 PetscCall(PetscFree(lrows)); 1027 1028 /* only change matrix nonzero state if pattern was allowed to be changed */ 1029 if (!((Mat_SeqAIJ *)(l->A->data))->keepnonzeropattern) { 1030 PetscObjectState state = l->A->nonzerostate + l->B->nonzerostate; 1031 PetscCall(MPIU_Allreduce(&state, &A->nonzerostate, 1, MPIU_INT64, MPI_SUM, PetscObjectComm((PetscObject)A))); 1032 } 1033 PetscFunctionReturn(PETSC_SUCCESS); 1034 } 1035 1036 static PetscErrorCode MatMult_MPIAIJ(Mat A, Vec xx, Vec yy) 1037 { 1038 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1039 PetscInt nt; 1040 VecScatter Mvctx = a->Mvctx; 1041 1042 PetscFunctionBegin; 1043 PetscCall(VecGetLocalSize(xx, &nt)); 1044 PetscCheck(nt == A->cmap->n, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "Incompatible partition of A (%" PetscInt_FMT ") and xx (%" PetscInt_FMT ")", A->cmap->n, nt); 1045 PetscCall(VecScatterBegin(Mvctx, xx, a->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1046 PetscUseTypeMethod(a->A, mult, xx, yy); 1047 PetscCall(VecScatterEnd(Mvctx, xx, a->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1048 PetscUseTypeMethod(a->B, multadd, a->lvec, yy, yy); 1049 PetscFunctionReturn(PETSC_SUCCESS); 1050 } 1051 1052 static PetscErrorCode MatMultDiagonalBlock_MPIAIJ(Mat A, Vec bb, Vec xx) 1053 { 1054 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1055 1056 PetscFunctionBegin; 1057 PetscCall(MatMultDiagonalBlock(a->A, bb, xx)); 1058 PetscFunctionReturn(PETSC_SUCCESS); 1059 } 1060 1061 static PetscErrorCode MatMultAdd_MPIAIJ(Mat A, Vec xx, Vec yy, Vec zz) 1062 { 1063 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1064 VecScatter Mvctx = a->Mvctx; 1065 1066 PetscFunctionBegin; 1067 PetscCall(VecScatterBegin(Mvctx, xx, a->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1068 PetscCall((*a->A->ops->multadd)(a->A, xx, yy, zz)); 1069 PetscCall(VecScatterEnd(Mvctx, xx, a->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1070 PetscCall((*a->B->ops->multadd)(a->B, a->lvec, zz, zz)); 1071 PetscFunctionReturn(PETSC_SUCCESS); 1072 } 1073 1074 static PetscErrorCode MatMultTranspose_MPIAIJ(Mat A, Vec xx, Vec yy) 1075 { 1076 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1077 1078 PetscFunctionBegin; 1079 /* do nondiagonal part */ 1080 PetscCall((*a->B->ops->multtranspose)(a->B, xx, a->lvec)); 1081 /* do local part */ 1082 PetscCall((*a->A->ops->multtranspose)(a->A, xx, yy)); 1083 /* add partial results together */ 1084 PetscCall(VecScatterBegin(a->Mvctx, a->lvec, yy, ADD_VALUES, SCATTER_REVERSE)); 1085 PetscCall(VecScatterEnd(a->Mvctx, a->lvec, yy, ADD_VALUES, SCATTER_REVERSE)); 1086 PetscFunctionReturn(PETSC_SUCCESS); 1087 } 1088 1089 static PetscErrorCode MatIsTranspose_MPIAIJ(Mat Amat, Mat Bmat, PetscReal tol, PetscBool *f) 1090 { 1091 MPI_Comm comm; 1092 Mat_MPIAIJ *Aij = (Mat_MPIAIJ *)Amat->data, *Bij = (Mat_MPIAIJ *)Bmat->data; 1093 Mat Adia = Aij->A, Bdia = Bij->A, Aoff, Boff, *Aoffs, *Boffs; 1094 IS Me, Notme; 1095 PetscInt M, N, first, last, *notme, i; 1096 PetscBool lf; 1097 PetscMPIInt size; 1098 1099 PetscFunctionBegin; 1100 /* Easy test: symmetric diagonal block */ 1101 PetscCall(MatIsTranspose(Adia, Bdia, tol, &lf)); 1102 PetscCall(MPIU_Allreduce(&lf, f, 1, MPIU_BOOL, MPI_LAND, PetscObjectComm((PetscObject)Amat))); 1103 if (!*f) PetscFunctionReturn(PETSC_SUCCESS); 1104 PetscCall(PetscObjectGetComm((PetscObject)Amat, &comm)); 1105 PetscCallMPI(MPI_Comm_size(comm, &size)); 1106 if (size == 1) PetscFunctionReturn(PETSC_SUCCESS); 1107 1108 /* Hard test: off-diagonal block. This takes a MatCreateSubMatrix. */ 1109 PetscCall(MatGetSize(Amat, &M, &N)); 1110 PetscCall(MatGetOwnershipRange(Amat, &first, &last)); 1111 PetscCall(PetscMalloc1(N - last + first, ¬me)); 1112 for (i = 0; i < first; i++) notme[i] = i; 1113 for (i = last; i < M; i++) notme[i - last + first] = i; 1114 PetscCall(ISCreateGeneral(MPI_COMM_SELF, N - last + first, notme, PETSC_COPY_VALUES, &Notme)); 1115 PetscCall(ISCreateStride(MPI_COMM_SELF, last - first, first, 1, &Me)); 1116 PetscCall(MatCreateSubMatrices(Amat, 1, &Me, &Notme, MAT_INITIAL_MATRIX, &Aoffs)); 1117 Aoff = Aoffs[0]; 1118 PetscCall(MatCreateSubMatrices(Bmat, 1, &Notme, &Me, MAT_INITIAL_MATRIX, &Boffs)); 1119 Boff = Boffs[0]; 1120 PetscCall(MatIsTranspose(Aoff, Boff, tol, f)); 1121 PetscCall(MatDestroyMatrices(1, &Aoffs)); 1122 PetscCall(MatDestroyMatrices(1, &Boffs)); 1123 PetscCall(ISDestroy(&Me)); 1124 PetscCall(ISDestroy(&Notme)); 1125 PetscCall(PetscFree(notme)); 1126 PetscFunctionReturn(PETSC_SUCCESS); 1127 } 1128 1129 static PetscErrorCode MatIsSymmetric_MPIAIJ(Mat A, PetscReal tol, PetscBool *f) 1130 { 1131 PetscFunctionBegin; 1132 PetscCall(MatIsTranspose_MPIAIJ(A, A, tol, f)); 1133 PetscFunctionReturn(PETSC_SUCCESS); 1134 } 1135 1136 static PetscErrorCode MatMultTransposeAdd_MPIAIJ(Mat A, Vec xx, Vec yy, Vec zz) 1137 { 1138 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1139 1140 PetscFunctionBegin; 1141 /* do nondiagonal part */ 1142 PetscCall((*a->B->ops->multtranspose)(a->B, xx, a->lvec)); 1143 /* do local part */ 1144 PetscCall((*a->A->ops->multtransposeadd)(a->A, xx, yy, zz)); 1145 /* add partial results together */ 1146 PetscCall(VecScatterBegin(a->Mvctx, a->lvec, zz, ADD_VALUES, SCATTER_REVERSE)); 1147 PetscCall(VecScatterEnd(a->Mvctx, a->lvec, zz, ADD_VALUES, SCATTER_REVERSE)); 1148 PetscFunctionReturn(PETSC_SUCCESS); 1149 } 1150 1151 /* 1152 This only works correctly for square matrices where the subblock A->A is the 1153 diagonal block 1154 */ 1155 static PetscErrorCode MatGetDiagonal_MPIAIJ(Mat A, Vec v) 1156 { 1157 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1158 1159 PetscFunctionBegin; 1160 PetscCheck(A->rmap->N == A->cmap->N, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Supports only square matrix where A->A is diag block"); 1161 PetscCheck(A->rmap->rstart == A->cmap->rstart && A->rmap->rend == A->cmap->rend, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "row partition must equal col partition"); 1162 PetscCall(MatGetDiagonal(a->A, v)); 1163 PetscFunctionReturn(PETSC_SUCCESS); 1164 } 1165 1166 static PetscErrorCode MatScale_MPIAIJ(Mat A, PetscScalar aa) 1167 { 1168 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1169 1170 PetscFunctionBegin; 1171 PetscCall(MatScale(a->A, aa)); 1172 PetscCall(MatScale(a->B, aa)); 1173 PetscFunctionReturn(PETSC_SUCCESS); 1174 } 1175 1176 static PetscErrorCode MatView_MPIAIJ_Binary(Mat mat, PetscViewer viewer) 1177 { 1178 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1179 Mat_SeqAIJ *A = (Mat_SeqAIJ *)aij->A->data; 1180 Mat_SeqAIJ *B = (Mat_SeqAIJ *)aij->B->data; 1181 const PetscInt *garray = aij->garray; 1182 const PetscScalar *aa, *ba; 1183 PetscInt header[4], M, N, m, rs, cs, cnt, i, ja, jb; 1184 PetscInt64 nz, hnz; 1185 PetscInt *rowlens; 1186 PetscInt *colidxs; 1187 PetscScalar *matvals; 1188 PetscMPIInt rank; 1189 1190 PetscFunctionBegin; 1191 PetscCall(PetscViewerSetUp(viewer)); 1192 1193 M = mat->rmap->N; 1194 N = mat->cmap->N; 1195 m = mat->rmap->n; 1196 rs = mat->rmap->rstart; 1197 cs = mat->cmap->rstart; 1198 nz = A->nz + B->nz; 1199 1200 /* write matrix header */ 1201 header[0] = MAT_FILE_CLASSID; 1202 header[1] = M; 1203 header[2] = N; 1204 PetscCallMPI(MPI_Reduce(&nz, &hnz, 1, MPIU_INT64, MPI_SUM, 0, PetscObjectComm((PetscObject)mat))); 1205 PetscCallMPI(MPI_Comm_rank(PetscObjectComm((PetscObject)mat), &rank)); 1206 if (rank == 0) { 1207 if (hnz > PETSC_MAX_INT) header[3] = PETSC_MAX_INT; 1208 else header[3] = (PetscInt)hnz; 1209 } 1210 PetscCall(PetscViewerBinaryWrite(viewer, header, 4, PETSC_INT)); 1211 1212 /* fill in and store row lengths */ 1213 PetscCall(PetscMalloc1(m, &rowlens)); 1214 for (i = 0; i < m; i++) rowlens[i] = A->i[i + 1] - A->i[i] + B->i[i + 1] - B->i[i]; 1215 PetscCall(PetscViewerBinaryWriteAll(viewer, rowlens, m, rs, M, PETSC_INT)); 1216 PetscCall(PetscFree(rowlens)); 1217 1218 /* fill in and store column indices */ 1219 PetscCall(PetscMalloc1(nz, &colidxs)); 1220 for (cnt = 0, i = 0; i < m; i++) { 1221 for (jb = B->i[i]; jb < B->i[i + 1]; jb++) { 1222 if (garray[B->j[jb]] > cs) break; 1223 colidxs[cnt++] = garray[B->j[jb]]; 1224 } 1225 for (ja = A->i[i]; ja < A->i[i + 1]; ja++) colidxs[cnt++] = A->j[ja] + cs; 1226 for (; jb < B->i[i + 1]; jb++) colidxs[cnt++] = garray[B->j[jb]]; 1227 } 1228 PetscCheck(cnt == nz, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Internal PETSc error: cnt = %" PetscInt_FMT " nz = %" PetscInt64_FMT, cnt, nz); 1229 PetscCall(PetscViewerBinaryWriteAll(viewer, colidxs, nz, PETSC_DETERMINE, PETSC_DETERMINE, PETSC_INT)); 1230 PetscCall(PetscFree(colidxs)); 1231 1232 /* fill in and store nonzero values */ 1233 PetscCall(MatSeqAIJGetArrayRead(aij->A, &aa)); 1234 PetscCall(MatSeqAIJGetArrayRead(aij->B, &ba)); 1235 PetscCall(PetscMalloc1(nz, &matvals)); 1236 for (cnt = 0, i = 0; i < m; i++) { 1237 for (jb = B->i[i]; jb < B->i[i + 1]; jb++) { 1238 if (garray[B->j[jb]] > cs) break; 1239 matvals[cnt++] = ba[jb]; 1240 } 1241 for (ja = A->i[i]; ja < A->i[i + 1]; ja++) matvals[cnt++] = aa[ja]; 1242 for (; jb < B->i[i + 1]; jb++) matvals[cnt++] = ba[jb]; 1243 } 1244 PetscCall(MatSeqAIJRestoreArrayRead(aij->A, &aa)); 1245 PetscCall(MatSeqAIJRestoreArrayRead(aij->B, &ba)); 1246 PetscCheck(cnt == nz, PETSC_COMM_SELF, PETSC_ERR_LIB, "Internal PETSc error: cnt = %" PetscInt_FMT " nz = %" PetscInt64_FMT, cnt, nz); 1247 PetscCall(PetscViewerBinaryWriteAll(viewer, matvals, nz, PETSC_DETERMINE, PETSC_DETERMINE, PETSC_SCALAR)); 1248 PetscCall(PetscFree(matvals)); 1249 1250 /* write block size option to the viewer's .info file */ 1251 PetscCall(MatView_Binary_BlockSizes(mat, viewer)); 1252 PetscFunctionReturn(PETSC_SUCCESS); 1253 } 1254 1255 #include <petscdraw.h> 1256 static PetscErrorCode MatView_MPIAIJ_ASCIIorDraworSocket(Mat mat, PetscViewer viewer) 1257 { 1258 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1259 PetscMPIInt rank = aij->rank, size = aij->size; 1260 PetscBool isdraw, iascii, isbinary; 1261 PetscViewer sviewer; 1262 PetscViewerFormat format; 1263 1264 PetscFunctionBegin; 1265 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERDRAW, &isdraw)); 1266 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERASCII, &iascii)); 1267 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERBINARY, &isbinary)); 1268 if (iascii) { 1269 PetscCall(PetscViewerGetFormat(viewer, &format)); 1270 if (format == PETSC_VIEWER_LOAD_BALANCE) { 1271 PetscInt i, nmax = 0, nmin = PETSC_MAX_INT, navg = 0, *nz, nzlocal = ((Mat_SeqAIJ *)(aij->A->data))->nz + ((Mat_SeqAIJ *)(aij->B->data))->nz; 1272 PetscCall(PetscMalloc1(size, &nz)); 1273 PetscCallMPI(MPI_Allgather(&nzlocal, 1, MPIU_INT, nz, 1, MPIU_INT, PetscObjectComm((PetscObject)mat))); 1274 for (i = 0; i < (PetscInt)size; i++) { 1275 nmax = PetscMax(nmax, nz[i]); 1276 nmin = PetscMin(nmin, nz[i]); 1277 navg += nz[i]; 1278 } 1279 PetscCall(PetscFree(nz)); 1280 navg = navg / size; 1281 PetscCall(PetscViewerASCIIPrintf(viewer, "Load Balance - Nonzeros: Min %" PetscInt_FMT " avg %" PetscInt_FMT " max %" PetscInt_FMT "\n", nmin, navg, nmax)); 1282 PetscFunctionReturn(PETSC_SUCCESS); 1283 } 1284 PetscCall(PetscViewerGetFormat(viewer, &format)); 1285 if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) { 1286 MatInfo info; 1287 PetscInt *inodes = NULL; 1288 1289 PetscCallMPI(MPI_Comm_rank(PetscObjectComm((PetscObject)mat), &rank)); 1290 PetscCall(MatGetInfo(mat, MAT_LOCAL, &info)); 1291 PetscCall(MatInodeGetInodeSizes(aij->A, NULL, &inodes, NULL)); 1292 PetscCall(PetscViewerASCIIPushSynchronized(viewer)); 1293 if (!inodes) { 1294 PetscCall(PetscViewerASCIISynchronizedPrintf(viewer, "[%d] Local rows %" PetscInt_FMT " nz %" PetscInt_FMT " nz alloced %" PetscInt_FMT " mem %g, not using I-node routines\n", rank, mat->rmap->n, (PetscInt)info.nz_used, (PetscInt)info.nz_allocated, 1295 (double)info.memory)); 1296 } else { 1297 PetscCall(PetscViewerASCIISynchronizedPrintf(viewer, "[%d] Local rows %" PetscInt_FMT " nz %" PetscInt_FMT " nz alloced %" PetscInt_FMT " mem %g, using I-node routines\n", rank, mat->rmap->n, (PetscInt)info.nz_used, (PetscInt)info.nz_allocated, 1298 (double)info.memory)); 1299 } 1300 PetscCall(MatGetInfo(aij->A, MAT_LOCAL, &info)); 1301 PetscCall(PetscViewerASCIISynchronizedPrintf(viewer, "[%d] on-diagonal part: nz %" PetscInt_FMT " \n", rank, (PetscInt)info.nz_used)); 1302 PetscCall(MatGetInfo(aij->B, MAT_LOCAL, &info)); 1303 PetscCall(PetscViewerASCIISynchronizedPrintf(viewer, "[%d] off-diagonal part: nz %" PetscInt_FMT " \n", rank, (PetscInt)info.nz_used)); 1304 PetscCall(PetscViewerFlush(viewer)); 1305 PetscCall(PetscViewerASCIIPopSynchronized(viewer)); 1306 PetscCall(PetscViewerASCIIPrintf(viewer, "Information on VecScatter used in matrix-vector product: \n")); 1307 PetscCall(VecScatterView(aij->Mvctx, viewer)); 1308 PetscFunctionReturn(PETSC_SUCCESS); 1309 } else if (format == PETSC_VIEWER_ASCII_INFO) { 1310 PetscInt inodecount, inodelimit, *inodes; 1311 PetscCall(MatInodeGetInodeSizes(aij->A, &inodecount, &inodes, &inodelimit)); 1312 if (inodes) { 1313 PetscCall(PetscViewerASCIIPrintf(viewer, "using I-node (on process 0) routines: found %" PetscInt_FMT " nodes, limit used is %" PetscInt_FMT "\n", inodecount, inodelimit)); 1314 } else { 1315 PetscCall(PetscViewerASCIIPrintf(viewer, "not using I-node (on process 0) routines\n")); 1316 } 1317 PetscFunctionReturn(PETSC_SUCCESS); 1318 } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) { 1319 PetscFunctionReturn(PETSC_SUCCESS); 1320 } 1321 } else if (isbinary) { 1322 if (size == 1) { 1323 PetscCall(PetscObjectSetName((PetscObject)aij->A, ((PetscObject)mat)->name)); 1324 PetscCall(MatView(aij->A, viewer)); 1325 } else { 1326 PetscCall(MatView_MPIAIJ_Binary(mat, viewer)); 1327 } 1328 PetscFunctionReturn(PETSC_SUCCESS); 1329 } else if (iascii && size == 1) { 1330 PetscCall(PetscObjectSetName((PetscObject)aij->A, ((PetscObject)mat)->name)); 1331 PetscCall(MatView(aij->A, viewer)); 1332 PetscFunctionReturn(PETSC_SUCCESS); 1333 } else if (isdraw) { 1334 PetscDraw draw; 1335 PetscBool isnull; 1336 PetscCall(PetscViewerDrawGetDraw(viewer, 0, &draw)); 1337 PetscCall(PetscDrawIsNull(draw, &isnull)); 1338 if (isnull) PetscFunctionReturn(PETSC_SUCCESS); 1339 } 1340 1341 { /* assemble the entire matrix onto first processor */ 1342 Mat A = NULL, Av; 1343 IS isrow, iscol; 1344 1345 PetscCall(ISCreateStride(PetscObjectComm((PetscObject)mat), rank == 0 ? mat->rmap->N : 0, 0, 1, &isrow)); 1346 PetscCall(ISCreateStride(PetscObjectComm((PetscObject)mat), rank == 0 ? mat->cmap->N : 0, 0, 1, &iscol)); 1347 PetscCall(MatCreateSubMatrix(mat, isrow, iscol, MAT_INITIAL_MATRIX, &A)); 1348 PetscCall(MatMPIAIJGetSeqAIJ(A, &Av, NULL, NULL)); 1349 /* The commented code uses MatCreateSubMatrices instead */ 1350 /* 1351 Mat *AA, A = NULL, Av; 1352 IS isrow,iscol; 1353 1354 PetscCall(ISCreateStride(PetscObjectComm((PetscObject)mat),rank == 0 ? mat->rmap->N : 0,0,1,&isrow)); 1355 PetscCall(ISCreateStride(PetscObjectComm((PetscObject)mat),rank == 0 ? mat->cmap->N : 0,0,1,&iscol)); 1356 PetscCall(MatCreateSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&AA)); 1357 if (rank == 0) { 1358 PetscCall(PetscObjectReference((PetscObject)AA[0])); 1359 A = AA[0]; 1360 Av = AA[0]; 1361 } 1362 PetscCall(MatDestroySubMatrices(1,&AA)); 1363 */ 1364 PetscCall(ISDestroy(&iscol)); 1365 PetscCall(ISDestroy(&isrow)); 1366 /* 1367 Everyone has to call to draw the matrix since the graphics waits are 1368 synchronized across all processors that share the PetscDraw object 1369 */ 1370 PetscCall(PetscViewerGetSubViewer(viewer, PETSC_COMM_SELF, &sviewer)); 1371 if (rank == 0) { 1372 if (((PetscObject)mat)->name) PetscCall(PetscObjectSetName((PetscObject)Av, ((PetscObject)mat)->name)); 1373 PetscCall(MatView_SeqAIJ(Av, sviewer)); 1374 } 1375 PetscCall(PetscViewerRestoreSubViewer(viewer, PETSC_COMM_SELF, &sviewer)); 1376 PetscCall(MatDestroy(&A)); 1377 } 1378 PetscFunctionReturn(PETSC_SUCCESS); 1379 } 1380 1381 PetscErrorCode MatView_MPIAIJ(Mat mat, PetscViewer viewer) 1382 { 1383 PetscBool iascii, isdraw, issocket, isbinary; 1384 1385 PetscFunctionBegin; 1386 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERASCII, &iascii)); 1387 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERDRAW, &isdraw)); 1388 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERBINARY, &isbinary)); 1389 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERSOCKET, &issocket)); 1390 if (iascii || isdraw || isbinary || issocket) PetscCall(MatView_MPIAIJ_ASCIIorDraworSocket(mat, viewer)); 1391 PetscFunctionReturn(PETSC_SUCCESS); 1392 } 1393 1394 static PetscErrorCode MatSOR_MPIAIJ(Mat matin, Vec bb, PetscReal omega, MatSORType flag, PetscReal fshift, PetscInt its, PetscInt lits, Vec xx) 1395 { 1396 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)matin->data; 1397 Vec bb1 = NULL; 1398 PetscBool hasop; 1399 1400 PetscFunctionBegin; 1401 if (flag == SOR_APPLY_UPPER) { 1402 PetscCall((*mat->A->ops->sor)(mat->A, bb, omega, flag, fshift, lits, 1, xx)); 1403 PetscFunctionReturn(PETSC_SUCCESS); 1404 } 1405 1406 if (its > 1 || ~flag & SOR_ZERO_INITIAL_GUESS || flag & SOR_EISENSTAT) PetscCall(VecDuplicate(bb, &bb1)); 1407 1408 if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP) { 1409 if (flag & SOR_ZERO_INITIAL_GUESS) { 1410 PetscCall((*mat->A->ops->sor)(mat->A, bb, omega, flag, fshift, lits, 1, xx)); 1411 its--; 1412 } 1413 1414 while (its--) { 1415 PetscCall(VecScatterBegin(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1416 PetscCall(VecScatterEnd(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1417 1418 /* update rhs: bb1 = bb - B*x */ 1419 PetscCall(VecScale(mat->lvec, -1.0)); 1420 PetscCall((*mat->B->ops->multadd)(mat->B, mat->lvec, bb, bb1)); 1421 1422 /* local sweep */ 1423 PetscCall((*mat->A->ops->sor)(mat->A, bb1, omega, SOR_SYMMETRIC_SWEEP, fshift, lits, 1, xx)); 1424 } 1425 } else if (flag & SOR_LOCAL_FORWARD_SWEEP) { 1426 if (flag & SOR_ZERO_INITIAL_GUESS) { 1427 PetscCall((*mat->A->ops->sor)(mat->A, bb, omega, flag, fshift, lits, 1, xx)); 1428 its--; 1429 } 1430 while (its--) { 1431 PetscCall(VecScatterBegin(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1432 PetscCall(VecScatterEnd(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1433 1434 /* update rhs: bb1 = bb - B*x */ 1435 PetscCall(VecScale(mat->lvec, -1.0)); 1436 PetscCall((*mat->B->ops->multadd)(mat->B, mat->lvec, bb, bb1)); 1437 1438 /* local sweep */ 1439 PetscCall((*mat->A->ops->sor)(mat->A, bb1, omega, SOR_FORWARD_SWEEP, fshift, lits, 1, xx)); 1440 } 1441 } else if (flag & SOR_LOCAL_BACKWARD_SWEEP) { 1442 if (flag & SOR_ZERO_INITIAL_GUESS) { 1443 PetscCall((*mat->A->ops->sor)(mat->A, bb, omega, flag, fshift, lits, 1, xx)); 1444 its--; 1445 } 1446 while (its--) { 1447 PetscCall(VecScatterBegin(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1448 PetscCall(VecScatterEnd(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1449 1450 /* update rhs: bb1 = bb - B*x */ 1451 PetscCall(VecScale(mat->lvec, -1.0)); 1452 PetscCall((*mat->B->ops->multadd)(mat->B, mat->lvec, bb, bb1)); 1453 1454 /* local sweep */ 1455 PetscCall((*mat->A->ops->sor)(mat->A, bb1, omega, SOR_BACKWARD_SWEEP, fshift, lits, 1, xx)); 1456 } 1457 } else if (flag & SOR_EISENSTAT) { 1458 Vec xx1; 1459 1460 PetscCall(VecDuplicate(bb, &xx1)); 1461 PetscCall((*mat->A->ops->sor)(mat->A, bb, omega, (MatSORType)(SOR_ZERO_INITIAL_GUESS | SOR_LOCAL_BACKWARD_SWEEP), fshift, lits, 1, xx)); 1462 1463 PetscCall(VecScatterBegin(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1464 PetscCall(VecScatterEnd(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1465 if (!mat->diag) { 1466 PetscCall(MatCreateVecs(matin, &mat->diag, NULL)); 1467 PetscCall(MatGetDiagonal(matin, mat->diag)); 1468 } 1469 PetscCall(MatHasOperation(matin, MATOP_MULT_DIAGONAL_BLOCK, &hasop)); 1470 if (hasop) { 1471 PetscCall(MatMultDiagonalBlock(matin, xx, bb1)); 1472 } else { 1473 PetscCall(VecPointwiseMult(bb1, mat->diag, xx)); 1474 } 1475 PetscCall(VecAYPX(bb1, (omega - 2.0) / omega, bb)); 1476 1477 PetscCall(MatMultAdd(mat->B, mat->lvec, bb1, bb1)); 1478 1479 /* local sweep */ 1480 PetscCall((*mat->A->ops->sor)(mat->A, bb1, omega, (MatSORType)(SOR_ZERO_INITIAL_GUESS | SOR_LOCAL_FORWARD_SWEEP), fshift, lits, 1, xx1)); 1481 PetscCall(VecAXPY(xx, 1.0, xx1)); 1482 PetscCall(VecDestroy(&xx1)); 1483 } else SETERRQ(PetscObjectComm((PetscObject)matin), PETSC_ERR_SUP, "Parallel SOR not supported"); 1484 1485 PetscCall(VecDestroy(&bb1)); 1486 1487 matin->factorerrortype = mat->A->factorerrortype; 1488 PetscFunctionReturn(PETSC_SUCCESS); 1489 } 1490 1491 static PetscErrorCode MatPermute_MPIAIJ(Mat A, IS rowp, IS colp, Mat *B) 1492 { 1493 Mat aA, aB, Aperm; 1494 const PetscInt *rwant, *cwant, *gcols, *ai, *bi, *aj, *bj; 1495 PetscScalar *aa, *ba; 1496 PetscInt i, j, m, n, ng, anz, bnz, *dnnz, *onnz, *tdnnz, *tonnz, *rdest, *cdest, *work, *gcdest; 1497 PetscSF rowsf, sf; 1498 IS parcolp = NULL; 1499 PetscBool done; 1500 1501 PetscFunctionBegin; 1502 PetscCall(MatGetLocalSize(A, &m, &n)); 1503 PetscCall(ISGetIndices(rowp, &rwant)); 1504 PetscCall(ISGetIndices(colp, &cwant)); 1505 PetscCall(PetscMalloc3(PetscMax(m, n), &work, m, &rdest, n, &cdest)); 1506 1507 /* Invert row permutation to find out where my rows should go */ 1508 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)A), &rowsf)); 1509 PetscCall(PetscSFSetGraphLayout(rowsf, A->rmap, A->rmap->n, NULL, PETSC_OWN_POINTER, rwant)); 1510 PetscCall(PetscSFSetFromOptions(rowsf)); 1511 for (i = 0; i < m; i++) work[i] = A->rmap->rstart + i; 1512 PetscCall(PetscSFReduceBegin(rowsf, MPIU_INT, work, rdest, MPI_REPLACE)); 1513 PetscCall(PetscSFReduceEnd(rowsf, MPIU_INT, work, rdest, MPI_REPLACE)); 1514 1515 /* Invert column permutation to find out where my columns should go */ 1516 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)A), &sf)); 1517 PetscCall(PetscSFSetGraphLayout(sf, A->cmap, A->cmap->n, NULL, PETSC_OWN_POINTER, cwant)); 1518 PetscCall(PetscSFSetFromOptions(sf)); 1519 for (i = 0; i < n; i++) work[i] = A->cmap->rstart + i; 1520 PetscCall(PetscSFReduceBegin(sf, MPIU_INT, work, cdest, MPI_REPLACE)); 1521 PetscCall(PetscSFReduceEnd(sf, MPIU_INT, work, cdest, MPI_REPLACE)); 1522 PetscCall(PetscSFDestroy(&sf)); 1523 1524 PetscCall(ISRestoreIndices(rowp, &rwant)); 1525 PetscCall(ISRestoreIndices(colp, &cwant)); 1526 PetscCall(MatMPIAIJGetSeqAIJ(A, &aA, &aB, &gcols)); 1527 1528 /* Find out where my gcols should go */ 1529 PetscCall(MatGetSize(aB, NULL, &ng)); 1530 PetscCall(PetscMalloc1(ng, &gcdest)); 1531 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)A), &sf)); 1532 PetscCall(PetscSFSetGraphLayout(sf, A->cmap, ng, NULL, PETSC_OWN_POINTER, gcols)); 1533 PetscCall(PetscSFSetFromOptions(sf)); 1534 PetscCall(PetscSFBcastBegin(sf, MPIU_INT, cdest, gcdest, MPI_REPLACE)); 1535 PetscCall(PetscSFBcastEnd(sf, MPIU_INT, cdest, gcdest, MPI_REPLACE)); 1536 PetscCall(PetscSFDestroy(&sf)); 1537 1538 PetscCall(PetscCalloc4(m, &dnnz, m, &onnz, m, &tdnnz, m, &tonnz)); 1539 PetscCall(MatGetRowIJ(aA, 0, PETSC_FALSE, PETSC_FALSE, &anz, &ai, &aj, &done)); 1540 PetscCall(MatGetRowIJ(aB, 0, PETSC_FALSE, PETSC_FALSE, &bnz, &bi, &bj, &done)); 1541 for (i = 0; i < m; i++) { 1542 PetscInt row = rdest[i]; 1543 PetscMPIInt rowner; 1544 PetscCall(PetscLayoutFindOwner(A->rmap, row, &rowner)); 1545 for (j = ai[i]; j < ai[i + 1]; j++) { 1546 PetscInt col = cdest[aj[j]]; 1547 PetscMPIInt cowner; 1548 PetscCall(PetscLayoutFindOwner(A->cmap, col, &cowner)); /* Could build an index for the columns to eliminate this search */ 1549 if (rowner == cowner) dnnz[i]++; 1550 else onnz[i]++; 1551 } 1552 for (j = bi[i]; j < bi[i + 1]; j++) { 1553 PetscInt col = gcdest[bj[j]]; 1554 PetscMPIInt cowner; 1555 PetscCall(PetscLayoutFindOwner(A->cmap, col, &cowner)); 1556 if (rowner == cowner) dnnz[i]++; 1557 else onnz[i]++; 1558 } 1559 } 1560 PetscCall(PetscSFBcastBegin(rowsf, MPIU_INT, dnnz, tdnnz, MPI_REPLACE)); 1561 PetscCall(PetscSFBcastEnd(rowsf, MPIU_INT, dnnz, tdnnz, MPI_REPLACE)); 1562 PetscCall(PetscSFBcastBegin(rowsf, MPIU_INT, onnz, tonnz, MPI_REPLACE)); 1563 PetscCall(PetscSFBcastEnd(rowsf, MPIU_INT, onnz, tonnz, MPI_REPLACE)); 1564 PetscCall(PetscSFDestroy(&rowsf)); 1565 1566 PetscCall(MatCreateAIJ(PetscObjectComm((PetscObject)A), A->rmap->n, A->cmap->n, A->rmap->N, A->cmap->N, 0, tdnnz, 0, tonnz, &Aperm)); 1567 PetscCall(MatSeqAIJGetArray(aA, &aa)); 1568 PetscCall(MatSeqAIJGetArray(aB, &ba)); 1569 for (i = 0; i < m; i++) { 1570 PetscInt *acols = dnnz, *bcols = onnz; /* Repurpose now-unneeded arrays */ 1571 PetscInt j0, rowlen; 1572 rowlen = ai[i + 1] - ai[i]; 1573 for (j0 = j = 0; j < rowlen; j0 = j) { /* rowlen could be larger than number of rows m, so sum in batches */ 1574 for (; j < PetscMin(rowlen, j0 + m); j++) acols[j - j0] = cdest[aj[ai[i] + j]]; 1575 PetscCall(MatSetValues(Aperm, 1, &rdest[i], j - j0, acols, aa + ai[i] + j0, INSERT_VALUES)); 1576 } 1577 rowlen = bi[i + 1] - bi[i]; 1578 for (j0 = j = 0; j < rowlen; j0 = j) { 1579 for (; j < PetscMin(rowlen, j0 + m); j++) bcols[j - j0] = gcdest[bj[bi[i] + j]]; 1580 PetscCall(MatSetValues(Aperm, 1, &rdest[i], j - j0, bcols, ba + bi[i] + j0, INSERT_VALUES)); 1581 } 1582 } 1583 PetscCall(MatAssemblyBegin(Aperm, MAT_FINAL_ASSEMBLY)); 1584 PetscCall(MatAssemblyEnd(Aperm, MAT_FINAL_ASSEMBLY)); 1585 PetscCall(MatRestoreRowIJ(aA, 0, PETSC_FALSE, PETSC_FALSE, &anz, &ai, &aj, &done)); 1586 PetscCall(MatRestoreRowIJ(aB, 0, PETSC_FALSE, PETSC_FALSE, &bnz, &bi, &bj, &done)); 1587 PetscCall(MatSeqAIJRestoreArray(aA, &aa)); 1588 PetscCall(MatSeqAIJRestoreArray(aB, &ba)); 1589 PetscCall(PetscFree4(dnnz, onnz, tdnnz, tonnz)); 1590 PetscCall(PetscFree3(work, rdest, cdest)); 1591 PetscCall(PetscFree(gcdest)); 1592 if (parcolp) PetscCall(ISDestroy(&colp)); 1593 *B = Aperm; 1594 PetscFunctionReturn(PETSC_SUCCESS); 1595 } 1596 1597 static PetscErrorCode MatGetGhosts_MPIAIJ(Mat mat, PetscInt *nghosts, const PetscInt *ghosts[]) 1598 { 1599 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1600 1601 PetscFunctionBegin; 1602 PetscCall(MatGetSize(aij->B, NULL, nghosts)); 1603 if (ghosts) *ghosts = aij->garray; 1604 PetscFunctionReturn(PETSC_SUCCESS); 1605 } 1606 1607 static PetscErrorCode MatGetInfo_MPIAIJ(Mat matin, MatInfoType flag, MatInfo *info) 1608 { 1609 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)matin->data; 1610 Mat A = mat->A, B = mat->B; 1611 PetscLogDouble isend[5], irecv[5]; 1612 1613 PetscFunctionBegin; 1614 info->block_size = 1.0; 1615 PetscCall(MatGetInfo(A, MAT_LOCAL, info)); 1616 1617 isend[0] = info->nz_used; 1618 isend[1] = info->nz_allocated; 1619 isend[2] = info->nz_unneeded; 1620 isend[3] = info->memory; 1621 isend[4] = info->mallocs; 1622 1623 PetscCall(MatGetInfo(B, MAT_LOCAL, info)); 1624 1625 isend[0] += info->nz_used; 1626 isend[1] += info->nz_allocated; 1627 isend[2] += info->nz_unneeded; 1628 isend[3] += info->memory; 1629 isend[4] += info->mallocs; 1630 if (flag == MAT_LOCAL) { 1631 info->nz_used = isend[0]; 1632 info->nz_allocated = isend[1]; 1633 info->nz_unneeded = isend[2]; 1634 info->memory = isend[3]; 1635 info->mallocs = isend[4]; 1636 } else if (flag == MAT_GLOBAL_MAX) { 1637 PetscCall(MPIU_Allreduce(isend, irecv, 5, MPIU_PETSCLOGDOUBLE, MPI_MAX, PetscObjectComm((PetscObject)matin))); 1638 1639 info->nz_used = irecv[0]; 1640 info->nz_allocated = irecv[1]; 1641 info->nz_unneeded = irecv[2]; 1642 info->memory = irecv[3]; 1643 info->mallocs = irecv[4]; 1644 } else if (flag == MAT_GLOBAL_SUM) { 1645 PetscCall(MPIU_Allreduce(isend, irecv, 5, MPIU_PETSCLOGDOUBLE, MPI_SUM, PetscObjectComm((PetscObject)matin))); 1646 1647 info->nz_used = irecv[0]; 1648 info->nz_allocated = irecv[1]; 1649 info->nz_unneeded = irecv[2]; 1650 info->memory = irecv[3]; 1651 info->mallocs = irecv[4]; 1652 } 1653 info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 1654 info->fill_ratio_needed = 0; 1655 info->factor_mallocs = 0; 1656 PetscFunctionReturn(PETSC_SUCCESS); 1657 } 1658 1659 PetscErrorCode MatSetOption_MPIAIJ(Mat A, MatOption op, PetscBool flg) 1660 { 1661 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1662 1663 PetscFunctionBegin; 1664 switch (op) { 1665 case MAT_NEW_NONZERO_LOCATIONS: 1666 case MAT_NEW_NONZERO_ALLOCATION_ERR: 1667 case MAT_UNUSED_NONZERO_LOCATION_ERR: 1668 case MAT_KEEP_NONZERO_PATTERN: 1669 case MAT_NEW_NONZERO_LOCATION_ERR: 1670 case MAT_USE_INODES: 1671 case MAT_IGNORE_ZERO_ENTRIES: 1672 case MAT_FORM_EXPLICIT_TRANSPOSE: 1673 MatCheckPreallocated(A, 1); 1674 PetscCall(MatSetOption(a->A, op, flg)); 1675 PetscCall(MatSetOption(a->B, op, flg)); 1676 break; 1677 case MAT_ROW_ORIENTED: 1678 MatCheckPreallocated(A, 1); 1679 a->roworiented = flg; 1680 1681 PetscCall(MatSetOption(a->A, op, flg)); 1682 PetscCall(MatSetOption(a->B, op, flg)); 1683 break; 1684 case MAT_FORCE_DIAGONAL_ENTRIES: 1685 case MAT_SORTED_FULL: 1686 PetscCall(PetscInfo(A, "Option %s ignored\n", MatOptions[op])); 1687 break; 1688 case MAT_IGNORE_OFF_PROC_ENTRIES: 1689 a->donotstash = flg; 1690 break; 1691 /* Symmetry flags are handled directly by MatSetOption() and they don't affect preallocation */ 1692 case MAT_SPD: 1693 case MAT_SYMMETRIC: 1694 case MAT_STRUCTURALLY_SYMMETRIC: 1695 case MAT_HERMITIAN: 1696 case MAT_SYMMETRY_ETERNAL: 1697 case MAT_STRUCTURAL_SYMMETRY_ETERNAL: 1698 case MAT_SPD_ETERNAL: 1699 /* if the diagonal matrix is square it inherits some of the properties above */ 1700 break; 1701 case MAT_SUBMAT_SINGLEIS: 1702 A->submat_singleis = flg; 1703 break; 1704 case MAT_STRUCTURE_ONLY: 1705 /* The option is handled directly by MatSetOption() */ 1706 break; 1707 default: 1708 SETERRQ(PETSC_COMM_SELF, PETSC_ERR_SUP, "unknown option %d", op); 1709 } 1710 PetscFunctionReturn(PETSC_SUCCESS); 1711 } 1712 1713 PetscErrorCode MatGetRow_MPIAIJ(Mat matin, PetscInt row, PetscInt *nz, PetscInt **idx, PetscScalar **v) 1714 { 1715 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)matin->data; 1716 PetscScalar *vworkA, *vworkB, **pvA, **pvB, *v_p; 1717 PetscInt i, *cworkA, *cworkB, **pcA, **pcB, cstart = matin->cmap->rstart; 1718 PetscInt nztot, nzA, nzB, lrow, rstart = matin->rmap->rstart, rend = matin->rmap->rend; 1719 PetscInt *cmap, *idx_p; 1720 1721 PetscFunctionBegin; 1722 PetscCheck(!mat->getrowactive, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Already active"); 1723 mat->getrowactive = PETSC_TRUE; 1724 1725 if (!mat->rowvalues && (idx || v)) { 1726 /* 1727 allocate enough space to hold information from the longest row. 1728 */ 1729 Mat_SeqAIJ *Aa = (Mat_SeqAIJ *)mat->A->data, *Ba = (Mat_SeqAIJ *)mat->B->data; 1730 PetscInt max = 1, tmp; 1731 for (i = 0; i < matin->rmap->n; i++) { 1732 tmp = Aa->i[i + 1] - Aa->i[i] + Ba->i[i + 1] - Ba->i[i]; 1733 if (max < tmp) max = tmp; 1734 } 1735 PetscCall(PetscMalloc2(max, &mat->rowvalues, max, &mat->rowindices)); 1736 } 1737 1738 PetscCheck(row >= rstart && row < rend, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Only local rows"); 1739 lrow = row - rstart; 1740 1741 pvA = &vworkA; 1742 pcA = &cworkA; 1743 pvB = &vworkB; 1744 pcB = &cworkB; 1745 if (!v) { 1746 pvA = NULL; 1747 pvB = NULL; 1748 } 1749 if (!idx) { 1750 pcA = NULL; 1751 if (!v) pcB = NULL; 1752 } 1753 PetscCall((*mat->A->ops->getrow)(mat->A, lrow, &nzA, pcA, pvA)); 1754 PetscCall((*mat->B->ops->getrow)(mat->B, lrow, &nzB, pcB, pvB)); 1755 nztot = nzA + nzB; 1756 1757 cmap = mat->garray; 1758 if (v || idx) { 1759 if (nztot) { 1760 /* Sort by increasing column numbers, assuming A and B already sorted */ 1761 PetscInt imark = -1; 1762 if (v) { 1763 *v = v_p = mat->rowvalues; 1764 for (i = 0; i < nzB; i++) { 1765 if (cmap[cworkB[i]] < cstart) v_p[i] = vworkB[i]; 1766 else break; 1767 } 1768 imark = i; 1769 for (i = 0; i < nzA; i++) v_p[imark + i] = vworkA[i]; 1770 for (i = imark; i < nzB; i++) v_p[nzA + i] = vworkB[i]; 1771 } 1772 if (idx) { 1773 *idx = idx_p = mat->rowindices; 1774 if (imark > -1) { 1775 for (i = 0; i < imark; i++) idx_p[i] = cmap[cworkB[i]]; 1776 } else { 1777 for (i = 0; i < nzB; i++) { 1778 if (cmap[cworkB[i]] < cstart) idx_p[i] = cmap[cworkB[i]]; 1779 else break; 1780 } 1781 imark = i; 1782 } 1783 for (i = 0; i < nzA; i++) idx_p[imark + i] = cstart + cworkA[i]; 1784 for (i = imark; i < nzB; i++) idx_p[nzA + i] = cmap[cworkB[i]]; 1785 } 1786 } else { 1787 if (idx) *idx = NULL; 1788 if (v) *v = NULL; 1789 } 1790 } 1791 *nz = nztot; 1792 PetscCall((*mat->A->ops->restorerow)(mat->A, lrow, &nzA, pcA, pvA)); 1793 PetscCall((*mat->B->ops->restorerow)(mat->B, lrow, &nzB, pcB, pvB)); 1794 PetscFunctionReturn(PETSC_SUCCESS); 1795 } 1796 1797 PetscErrorCode MatRestoreRow_MPIAIJ(Mat mat, PetscInt row, PetscInt *nz, PetscInt **idx, PetscScalar **v) 1798 { 1799 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1800 1801 PetscFunctionBegin; 1802 PetscCheck(aij->getrowactive, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "MatGetRow() must be called first"); 1803 aij->getrowactive = PETSC_FALSE; 1804 PetscFunctionReturn(PETSC_SUCCESS); 1805 } 1806 1807 static PetscErrorCode MatNorm_MPIAIJ(Mat mat, NormType type, PetscReal *norm) 1808 { 1809 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1810 Mat_SeqAIJ *amat = (Mat_SeqAIJ *)aij->A->data, *bmat = (Mat_SeqAIJ *)aij->B->data; 1811 PetscInt i, j, cstart = mat->cmap->rstart; 1812 PetscReal sum = 0.0; 1813 const MatScalar *v, *amata, *bmata; 1814 1815 PetscFunctionBegin; 1816 if (aij->size == 1) { 1817 PetscCall(MatNorm(aij->A, type, norm)); 1818 } else { 1819 PetscCall(MatSeqAIJGetArrayRead(aij->A, &amata)); 1820 PetscCall(MatSeqAIJGetArrayRead(aij->B, &bmata)); 1821 if (type == NORM_FROBENIUS) { 1822 v = amata; 1823 for (i = 0; i < amat->nz; i++) { 1824 sum += PetscRealPart(PetscConj(*v) * (*v)); 1825 v++; 1826 } 1827 v = bmata; 1828 for (i = 0; i < bmat->nz; i++) { 1829 sum += PetscRealPart(PetscConj(*v) * (*v)); 1830 v++; 1831 } 1832 PetscCall(MPIU_Allreduce(&sum, norm, 1, MPIU_REAL, MPIU_SUM, PetscObjectComm((PetscObject)mat))); 1833 *norm = PetscSqrtReal(*norm); 1834 PetscCall(PetscLogFlops(2.0 * amat->nz + 2.0 * bmat->nz)); 1835 } else if (type == NORM_1) { /* max column norm */ 1836 PetscReal *tmp, *tmp2; 1837 PetscInt *jj, *garray = aij->garray; 1838 PetscCall(PetscCalloc1(mat->cmap->N + 1, &tmp)); 1839 PetscCall(PetscMalloc1(mat->cmap->N + 1, &tmp2)); 1840 *norm = 0.0; 1841 v = amata; 1842 jj = amat->j; 1843 for (j = 0; j < amat->nz; j++) { 1844 tmp[cstart + *jj++] += PetscAbsScalar(*v); 1845 v++; 1846 } 1847 v = bmata; 1848 jj = bmat->j; 1849 for (j = 0; j < bmat->nz; j++) { 1850 tmp[garray[*jj++]] += PetscAbsScalar(*v); 1851 v++; 1852 } 1853 PetscCall(MPIU_Allreduce(tmp, tmp2, mat->cmap->N, MPIU_REAL, MPIU_SUM, PetscObjectComm((PetscObject)mat))); 1854 for (j = 0; j < mat->cmap->N; j++) { 1855 if (tmp2[j] > *norm) *norm = tmp2[j]; 1856 } 1857 PetscCall(PetscFree(tmp)); 1858 PetscCall(PetscFree(tmp2)); 1859 PetscCall(PetscLogFlops(PetscMax(amat->nz + bmat->nz - 1, 0))); 1860 } else if (type == NORM_INFINITY) { /* max row norm */ 1861 PetscReal ntemp = 0.0; 1862 for (j = 0; j < aij->A->rmap->n; j++) { 1863 v = amata + amat->i[j]; 1864 sum = 0.0; 1865 for (i = 0; i < amat->i[j + 1] - amat->i[j]; i++) { 1866 sum += PetscAbsScalar(*v); 1867 v++; 1868 } 1869 v = bmata + bmat->i[j]; 1870 for (i = 0; i < bmat->i[j + 1] - bmat->i[j]; i++) { 1871 sum += PetscAbsScalar(*v); 1872 v++; 1873 } 1874 if (sum > ntemp) ntemp = sum; 1875 } 1876 PetscCall(MPIU_Allreduce(&ntemp, norm, 1, MPIU_REAL, MPIU_MAX, PetscObjectComm((PetscObject)mat))); 1877 PetscCall(PetscLogFlops(PetscMax(amat->nz + bmat->nz - 1, 0))); 1878 } else SETERRQ(PetscObjectComm((PetscObject)mat), PETSC_ERR_SUP, "No support for two norm"); 1879 PetscCall(MatSeqAIJRestoreArrayRead(aij->A, &amata)); 1880 PetscCall(MatSeqAIJRestoreArrayRead(aij->B, &bmata)); 1881 } 1882 PetscFunctionReturn(PETSC_SUCCESS); 1883 } 1884 1885 static PetscErrorCode MatTranspose_MPIAIJ(Mat A, MatReuse reuse, Mat *matout) 1886 { 1887 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data, *b; 1888 Mat_SeqAIJ *Aloc = (Mat_SeqAIJ *)a->A->data, *Bloc = (Mat_SeqAIJ *)a->B->data, *sub_B_diag; 1889 PetscInt M = A->rmap->N, N = A->cmap->N, ma, na, mb, nb, row, *cols, *cols_tmp, *B_diag_ilen, i, ncol, A_diag_ncol; 1890 const PetscInt *ai, *aj, *bi, *bj, *B_diag_i; 1891 Mat B, A_diag, *B_diag; 1892 const MatScalar *pbv, *bv; 1893 1894 PetscFunctionBegin; 1895 if (reuse == MAT_REUSE_MATRIX) PetscCall(MatTransposeCheckNonzeroState_Private(A, *matout)); 1896 ma = A->rmap->n; 1897 na = A->cmap->n; 1898 mb = a->B->rmap->n; 1899 nb = a->B->cmap->n; 1900 ai = Aloc->i; 1901 aj = Aloc->j; 1902 bi = Bloc->i; 1903 bj = Bloc->j; 1904 if (reuse == MAT_INITIAL_MATRIX || *matout == A) { 1905 PetscInt *d_nnz, *g_nnz, *o_nnz; 1906 PetscSFNode *oloc; 1907 PETSC_UNUSED PetscSF sf; 1908 1909 PetscCall(PetscMalloc4(na, &d_nnz, na, &o_nnz, nb, &g_nnz, nb, &oloc)); 1910 /* compute d_nnz for preallocation */ 1911 PetscCall(PetscArrayzero(d_nnz, na)); 1912 for (i = 0; i < ai[ma]; i++) d_nnz[aj[i]]++; 1913 /* compute local off-diagonal contributions */ 1914 PetscCall(PetscArrayzero(g_nnz, nb)); 1915 for (i = 0; i < bi[ma]; i++) g_nnz[bj[i]]++; 1916 /* map those to global */ 1917 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)A), &sf)); 1918 PetscCall(PetscSFSetGraphLayout(sf, A->cmap, nb, NULL, PETSC_USE_POINTER, a->garray)); 1919 PetscCall(PetscSFSetFromOptions(sf)); 1920 PetscCall(PetscArrayzero(o_nnz, na)); 1921 PetscCall(PetscSFReduceBegin(sf, MPIU_INT, g_nnz, o_nnz, MPI_SUM)); 1922 PetscCall(PetscSFReduceEnd(sf, MPIU_INT, g_nnz, o_nnz, MPI_SUM)); 1923 PetscCall(PetscSFDestroy(&sf)); 1924 1925 PetscCall(MatCreate(PetscObjectComm((PetscObject)A), &B)); 1926 PetscCall(MatSetSizes(B, A->cmap->n, A->rmap->n, N, M)); 1927 PetscCall(MatSetBlockSizes(B, PetscAbs(A->cmap->bs), PetscAbs(A->rmap->bs))); 1928 PetscCall(MatSetType(B, ((PetscObject)A)->type_name)); 1929 PetscCall(MatMPIAIJSetPreallocation(B, 0, d_nnz, 0, o_nnz)); 1930 PetscCall(PetscFree4(d_nnz, o_nnz, g_nnz, oloc)); 1931 } else { 1932 B = *matout; 1933 PetscCall(MatSetOption(B, MAT_NEW_NONZERO_ALLOCATION_ERR, PETSC_TRUE)); 1934 } 1935 1936 b = (Mat_MPIAIJ *)B->data; 1937 A_diag = a->A; 1938 B_diag = &b->A; 1939 sub_B_diag = (Mat_SeqAIJ *)(*B_diag)->data; 1940 A_diag_ncol = A_diag->cmap->N; 1941 B_diag_ilen = sub_B_diag->ilen; 1942 B_diag_i = sub_B_diag->i; 1943 1944 /* Set ilen for diagonal of B */ 1945 for (i = 0; i < A_diag_ncol; i++) B_diag_ilen[i] = B_diag_i[i + 1] - B_diag_i[i]; 1946 1947 /* Transpose the diagonal part of the matrix. In contrast to the off-diagonal part, this can be done 1948 very quickly (=without using MatSetValues), because all writes are local. */ 1949 PetscCall(MatTransposeSetPrecursor(A_diag, *B_diag)); 1950 PetscCall(MatTranspose(A_diag, MAT_REUSE_MATRIX, B_diag)); 1951 1952 /* copy over the B part */ 1953 PetscCall(PetscMalloc1(bi[mb], &cols)); 1954 PetscCall(MatSeqAIJGetArrayRead(a->B, &bv)); 1955 pbv = bv; 1956 row = A->rmap->rstart; 1957 for (i = 0; i < bi[mb]; i++) cols[i] = a->garray[bj[i]]; 1958 cols_tmp = cols; 1959 for (i = 0; i < mb; i++) { 1960 ncol = bi[i + 1] - bi[i]; 1961 PetscCall(MatSetValues(B, ncol, cols_tmp, 1, &row, pbv, INSERT_VALUES)); 1962 row++; 1963 if (pbv) pbv += ncol; 1964 if (cols_tmp) cols_tmp += ncol; 1965 } 1966 PetscCall(PetscFree(cols)); 1967 PetscCall(MatSeqAIJRestoreArrayRead(a->B, &bv)); 1968 1969 PetscCall(MatAssemblyBegin(B, MAT_FINAL_ASSEMBLY)); 1970 PetscCall(MatAssemblyEnd(B, MAT_FINAL_ASSEMBLY)); 1971 if (reuse == MAT_INITIAL_MATRIX || reuse == MAT_REUSE_MATRIX) { 1972 *matout = B; 1973 } else { 1974 PetscCall(MatHeaderMerge(A, &B)); 1975 } 1976 PetscFunctionReturn(PETSC_SUCCESS); 1977 } 1978 1979 static PetscErrorCode MatDiagonalScale_MPIAIJ(Mat mat, Vec ll, Vec rr) 1980 { 1981 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1982 Mat a = aij->A, b = aij->B; 1983 PetscInt s1, s2, s3; 1984 1985 PetscFunctionBegin; 1986 PetscCall(MatGetLocalSize(mat, &s2, &s3)); 1987 if (rr) { 1988 PetscCall(VecGetLocalSize(rr, &s1)); 1989 PetscCheck(s1 == s3, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "right vector non-conforming local size"); 1990 /* Overlap communication with computation. */ 1991 PetscCall(VecScatterBegin(aij->Mvctx, rr, aij->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1992 } 1993 if (ll) { 1994 PetscCall(VecGetLocalSize(ll, &s1)); 1995 PetscCheck(s1 == s2, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "left vector non-conforming local size"); 1996 PetscUseTypeMethod(b, diagonalscale, ll, NULL); 1997 } 1998 /* scale the diagonal block */ 1999 PetscUseTypeMethod(a, diagonalscale, ll, rr); 2000 2001 if (rr) { 2002 /* Do a scatter end and then right scale the off-diagonal block */ 2003 PetscCall(VecScatterEnd(aij->Mvctx, rr, aij->lvec, INSERT_VALUES, SCATTER_FORWARD)); 2004 PetscUseTypeMethod(b, diagonalscale, NULL, aij->lvec); 2005 } 2006 PetscFunctionReturn(PETSC_SUCCESS); 2007 } 2008 2009 static PetscErrorCode MatSetUnfactored_MPIAIJ(Mat A) 2010 { 2011 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2012 2013 PetscFunctionBegin; 2014 PetscCall(MatSetUnfactored(a->A)); 2015 PetscFunctionReturn(PETSC_SUCCESS); 2016 } 2017 2018 static PetscErrorCode MatEqual_MPIAIJ(Mat A, Mat B, PetscBool *flag) 2019 { 2020 Mat_MPIAIJ *matB = (Mat_MPIAIJ *)B->data, *matA = (Mat_MPIAIJ *)A->data; 2021 Mat a, b, c, d; 2022 PetscBool flg; 2023 2024 PetscFunctionBegin; 2025 a = matA->A; 2026 b = matA->B; 2027 c = matB->A; 2028 d = matB->B; 2029 2030 PetscCall(MatEqual(a, c, &flg)); 2031 if (flg) PetscCall(MatEqual(b, d, &flg)); 2032 PetscCall(MPIU_Allreduce(&flg, flag, 1, MPIU_BOOL, MPI_LAND, PetscObjectComm((PetscObject)A))); 2033 PetscFunctionReturn(PETSC_SUCCESS); 2034 } 2035 2036 static PetscErrorCode MatCopy_MPIAIJ(Mat A, Mat B, MatStructure str) 2037 { 2038 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2039 Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 2040 2041 PetscFunctionBegin; 2042 /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */ 2043 if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) { 2044 /* because of the column compression in the off-processor part of the matrix a->B, 2045 the number of columns in a->B and b->B may be different, hence we cannot call 2046 the MatCopy() directly on the two parts. If need be, we can provide a more 2047 efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices 2048 then copying the submatrices */ 2049 PetscCall(MatCopy_Basic(A, B, str)); 2050 } else { 2051 PetscCall(MatCopy(a->A, b->A, str)); 2052 PetscCall(MatCopy(a->B, b->B, str)); 2053 } 2054 PetscCall(PetscObjectStateIncrease((PetscObject)B)); 2055 PetscFunctionReturn(PETSC_SUCCESS); 2056 } 2057 2058 /* 2059 Computes the number of nonzeros per row needed for preallocation when X and Y 2060 have different nonzero structure. 2061 */ 2062 PetscErrorCode MatAXPYGetPreallocation_MPIX_private(PetscInt m, const PetscInt *xi, const PetscInt *xj, const PetscInt *xltog, const PetscInt *yi, const PetscInt *yj, const PetscInt *yltog, PetscInt *nnz) 2063 { 2064 PetscInt i, j, k, nzx, nzy; 2065 2066 PetscFunctionBegin; 2067 /* Set the number of nonzeros in the new matrix */ 2068 for (i = 0; i < m; i++) { 2069 const PetscInt *xjj = xj + xi[i], *yjj = yj + yi[i]; 2070 nzx = xi[i + 1] - xi[i]; 2071 nzy = yi[i + 1] - yi[i]; 2072 nnz[i] = 0; 2073 for (j = 0, k = 0; j < nzx; j++) { /* Point in X */ 2074 for (; k < nzy && yltog[yjj[k]] < xltog[xjj[j]]; k++) nnz[i]++; /* Catch up to X */ 2075 if (k < nzy && yltog[yjj[k]] == xltog[xjj[j]]) k++; /* Skip duplicate */ 2076 nnz[i]++; 2077 } 2078 for (; k < nzy; k++) nnz[i]++; 2079 } 2080 PetscFunctionReturn(PETSC_SUCCESS); 2081 } 2082 2083 /* This is the same as MatAXPYGetPreallocation_SeqAIJ, except that the local-to-global map is provided */ 2084 static PetscErrorCode MatAXPYGetPreallocation_MPIAIJ(Mat Y, const PetscInt *yltog, Mat X, const PetscInt *xltog, PetscInt *nnz) 2085 { 2086 PetscInt m = Y->rmap->N; 2087 Mat_SeqAIJ *x = (Mat_SeqAIJ *)X->data; 2088 Mat_SeqAIJ *y = (Mat_SeqAIJ *)Y->data; 2089 2090 PetscFunctionBegin; 2091 PetscCall(MatAXPYGetPreallocation_MPIX_private(m, x->i, x->j, xltog, y->i, y->j, yltog, nnz)); 2092 PetscFunctionReturn(PETSC_SUCCESS); 2093 } 2094 2095 static PetscErrorCode MatAXPY_MPIAIJ(Mat Y, PetscScalar a, Mat X, MatStructure str) 2096 { 2097 Mat_MPIAIJ *xx = (Mat_MPIAIJ *)X->data, *yy = (Mat_MPIAIJ *)Y->data; 2098 2099 PetscFunctionBegin; 2100 if (str == SAME_NONZERO_PATTERN) { 2101 PetscCall(MatAXPY(yy->A, a, xx->A, str)); 2102 PetscCall(MatAXPY(yy->B, a, xx->B, str)); 2103 } else if (str == SUBSET_NONZERO_PATTERN) { /* nonzeros of X is a subset of Y's */ 2104 PetscCall(MatAXPY_Basic(Y, a, X, str)); 2105 } else { 2106 Mat B; 2107 PetscInt *nnz_d, *nnz_o; 2108 2109 PetscCall(PetscMalloc1(yy->A->rmap->N, &nnz_d)); 2110 PetscCall(PetscMalloc1(yy->B->rmap->N, &nnz_o)); 2111 PetscCall(MatCreate(PetscObjectComm((PetscObject)Y), &B)); 2112 PetscCall(PetscObjectSetName((PetscObject)B, ((PetscObject)Y)->name)); 2113 PetscCall(MatSetLayouts(B, Y->rmap, Y->cmap)); 2114 PetscCall(MatSetType(B, ((PetscObject)Y)->type_name)); 2115 PetscCall(MatAXPYGetPreallocation_SeqAIJ(yy->A, xx->A, nnz_d)); 2116 PetscCall(MatAXPYGetPreallocation_MPIAIJ(yy->B, yy->garray, xx->B, xx->garray, nnz_o)); 2117 PetscCall(MatMPIAIJSetPreallocation(B, 0, nnz_d, 0, nnz_o)); 2118 PetscCall(MatAXPY_BasicWithPreallocation(B, Y, a, X, str)); 2119 PetscCall(MatHeaderMerge(Y, &B)); 2120 PetscCall(PetscFree(nnz_d)); 2121 PetscCall(PetscFree(nnz_o)); 2122 } 2123 PetscFunctionReturn(PETSC_SUCCESS); 2124 } 2125 2126 PETSC_INTERN PetscErrorCode MatConjugate_SeqAIJ(Mat); 2127 2128 static PetscErrorCode MatConjugate_MPIAIJ(Mat mat) 2129 { 2130 PetscFunctionBegin; 2131 if (PetscDefined(USE_COMPLEX)) { 2132 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 2133 2134 PetscCall(MatConjugate_SeqAIJ(aij->A)); 2135 PetscCall(MatConjugate_SeqAIJ(aij->B)); 2136 } 2137 PetscFunctionReturn(PETSC_SUCCESS); 2138 } 2139 2140 static PetscErrorCode MatRealPart_MPIAIJ(Mat A) 2141 { 2142 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2143 2144 PetscFunctionBegin; 2145 PetscCall(MatRealPart(a->A)); 2146 PetscCall(MatRealPart(a->B)); 2147 PetscFunctionReturn(PETSC_SUCCESS); 2148 } 2149 2150 static PetscErrorCode MatImaginaryPart_MPIAIJ(Mat A) 2151 { 2152 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2153 2154 PetscFunctionBegin; 2155 PetscCall(MatImaginaryPart(a->A)); 2156 PetscCall(MatImaginaryPart(a->B)); 2157 PetscFunctionReturn(PETSC_SUCCESS); 2158 } 2159 2160 static PetscErrorCode MatGetRowMaxAbs_MPIAIJ(Mat A, Vec v, PetscInt idx[]) 2161 { 2162 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2163 PetscInt i, *idxb = NULL, m = A->rmap->n; 2164 PetscScalar *va, *vv; 2165 Vec vB, vA; 2166 const PetscScalar *vb; 2167 2168 PetscFunctionBegin; 2169 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &vA)); 2170 PetscCall(MatGetRowMaxAbs(a->A, vA, idx)); 2171 2172 PetscCall(VecGetArrayWrite(vA, &va)); 2173 if (idx) { 2174 for (i = 0; i < m; i++) { 2175 if (PetscAbsScalar(va[i])) idx[i] += A->cmap->rstart; 2176 } 2177 } 2178 2179 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &vB)); 2180 PetscCall(PetscMalloc1(m, &idxb)); 2181 PetscCall(MatGetRowMaxAbs(a->B, vB, idxb)); 2182 2183 PetscCall(VecGetArrayWrite(v, &vv)); 2184 PetscCall(VecGetArrayRead(vB, &vb)); 2185 for (i = 0; i < m; i++) { 2186 if (PetscAbsScalar(va[i]) < PetscAbsScalar(vb[i])) { 2187 vv[i] = vb[i]; 2188 if (idx) idx[i] = a->garray[idxb[i]]; 2189 } else { 2190 vv[i] = va[i]; 2191 if (idx && PetscAbsScalar(va[i]) == PetscAbsScalar(vb[i]) && idxb[i] != -1 && idx[i] > a->garray[idxb[i]]) idx[i] = a->garray[idxb[i]]; 2192 } 2193 } 2194 PetscCall(VecRestoreArrayWrite(vA, &vv)); 2195 PetscCall(VecRestoreArrayWrite(vA, &va)); 2196 PetscCall(VecRestoreArrayRead(vB, &vb)); 2197 PetscCall(PetscFree(idxb)); 2198 PetscCall(VecDestroy(&vA)); 2199 PetscCall(VecDestroy(&vB)); 2200 PetscFunctionReturn(PETSC_SUCCESS); 2201 } 2202 2203 static PetscErrorCode MatGetRowMinAbs_MPIAIJ(Mat A, Vec v, PetscInt idx[]) 2204 { 2205 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)A->data; 2206 PetscInt m = A->rmap->n, n = A->cmap->n; 2207 PetscInt cstart = A->cmap->rstart, cend = A->cmap->rend; 2208 PetscInt *cmap = mat->garray; 2209 PetscInt *diagIdx, *offdiagIdx; 2210 Vec diagV, offdiagV; 2211 PetscScalar *a, *diagA, *offdiagA; 2212 const PetscScalar *ba, *bav; 2213 PetscInt r, j, col, ncols, *bi, *bj; 2214 Mat B = mat->B; 2215 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 2216 2217 PetscFunctionBegin; 2218 /* When a process holds entire A and other processes have no entry */ 2219 if (A->cmap->N == n) { 2220 PetscCall(VecGetArrayWrite(v, &diagA)); 2221 PetscCall(VecCreateSeqWithArray(PETSC_COMM_SELF, 1, m, diagA, &diagV)); 2222 PetscCall(MatGetRowMinAbs(mat->A, diagV, idx)); 2223 PetscCall(VecDestroy(&diagV)); 2224 PetscCall(VecRestoreArrayWrite(v, &diagA)); 2225 PetscFunctionReturn(PETSC_SUCCESS); 2226 } else if (n == 0) { 2227 if (m) { 2228 PetscCall(VecGetArrayWrite(v, &a)); 2229 for (r = 0; r < m; r++) { 2230 a[r] = 0.0; 2231 if (idx) idx[r] = -1; 2232 } 2233 PetscCall(VecRestoreArrayWrite(v, &a)); 2234 } 2235 PetscFunctionReturn(PETSC_SUCCESS); 2236 } 2237 2238 PetscCall(PetscMalloc2(m, &diagIdx, m, &offdiagIdx)); 2239 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &diagV)); 2240 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &offdiagV)); 2241 PetscCall(MatGetRowMinAbs(mat->A, diagV, diagIdx)); 2242 2243 /* Get offdiagIdx[] for implicit 0.0 */ 2244 PetscCall(MatSeqAIJGetArrayRead(B, &bav)); 2245 ba = bav; 2246 bi = b->i; 2247 bj = b->j; 2248 PetscCall(VecGetArrayWrite(offdiagV, &offdiagA)); 2249 for (r = 0; r < m; r++) { 2250 ncols = bi[r + 1] - bi[r]; 2251 if (ncols == A->cmap->N - n) { /* Brow is dense */ 2252 offdiagA[r] = *ba; 2253 offdiagIdx[r] = cmap[0]; 2254 } else { /* Brow is sparse so already KNOW maximum is 0.0 or higher */ 2255 offdiagA[r] = 0.0; 2256 2257 /* Find first hole in the cmap */ 2258 for (j = 0; j < ncols; j++) { 2259 col = cmap[bj[j]]; /* global column number = cmap[B column number] */ 2260 if (col > j && j < cstart) { 2261 offdiagIdx[r] = j; /* global column number of first implicit 0.0 */ 2262 break; 2263 } else if (col > j + n && j >= cstart) { 2264 offdiagIdx[r] = j + n; /* global column number of first implicit 0.0 */ 2265 break; 2266 } 2267 } 2268 if (j == ncols && ncols < A->cmap->N - n) { 2269 /* a hole is outside compressed Bcols */ 2270 if (ncols == 0) { 2271 if (cstart) { 2272 offdiagIdx[r] = 0; 2273 } else offdiagIdx[r] = cend; 2274 } else { /* ncols > 0 */ 2275 offdiagIdx[r] = cmap[ncols - 1] + 1; 2276 if (offdiagIdx[r] == cstart) offdiagIdx[r] += n; 2277 } 2278 } 2279 } 2280 2281 for (j = 0; j < ncols; j++) { 2282 if (PetscAbsScalar(offdiagA[r]) > PetscAbsScalar(*ba)) { 2283 offdiagA[r] = *ba; 2284 offdiagIdx[r] = cmap[*bj]; 2285 } 2286 ba++; 2287 bj++; 2288 } 2289 } 2290 2291 PetscCall(VecGetArrayWrite(v, &a)); 2292 PetscCall(VecGetArrayRead(diagV, (const PetscScalar **)&diagA)); 2293 for (r = 0; r < m; ++r) { 2294 if (PetscAbsScalar(diagA[r]) < PetscAbsScalar(offdiagA[r])) { 2295 a[r] = diagA[r]; 2296 if (idx) idx[r] = cstart + diagIdx[r]; 2297 } else if (PetscAbsScalar(diagA[r]) == PetscAbsScalar(offdiagA[r])) { 2298 a[r] = diagA[r]; 2299 if (idx) { 2300 if (cstart + diagIdx[r] <= offdiagIdx[r]) { 2301 idx[r] = cstart + diagIdx[r]; 2302 } else idx[r] = offdiagIdx[r]; 2303 } 2304 } else { 2305 a[r] = offdiagA[r]; 2306 if (idx) idx[r] = offdiagIdx[r]; 2307 } 2308 } 2309 PetscCall(MatSeqAIJRestoreArrayRead(B, &bav)); 2310 PetscCall(VecRestoreArrayWrite(v, &a)); 2311 PetscCall(VecRestoreArrayRead(diagV, (const PetscScalar **)&diagA)); 2312 PetscCall(VecRestoreArrayWrite(offdiagV, &offdiagA)); 2313 PetscCall(VecDestroy(&diagV)); 2314 PetscCall(VecDestroy(&offdiagV)); 2315 PetscCall(PetscFree2(diagIdx, offdiagIdx)); 2316 PetscFunctionReturn(PETSC_SUCCESS); 2317 } 2318 2319 static PetscErrorCode MatGetRowMin_MPIAIJ(Mat A, Vec v, PetscInt idx[]) 2320 { 2321 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)A->data; 2322 PetscInt m = A->rmap->n, n = A->cmap->n; 2323 PetscInt cstart = A->cmap->rstart, cend = A->cmap->rend; 2324 PetscInt *cmap = mat->garray; 2325 PetscInt *diagIdx, *offdiagIdx; 2326 Vec diagV, offdiagV; 2327 PetscScalar *a, *diagA, *offdiagA; 2328 const PetscScalar *ba, *bav; 2329 PetscInt r, j, col, ncols, *bi, *bj; 2330 Mat B = mat->B; 2331 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 2332 2333 PetscFunctionBegin; 2334 /* When a process holds entire A and other processes have no entry */ 2335 if (A->cmap->N == n) { 2336 PetscCall(VecGetArrayWrite(v, &diagA)); 2337 PetscCall(VecCreateSeqWithArray(PETSC_COMM_SELF, 1, m, diagA, &diagV)); 2338 PetscCall(MatGetRowMin(mat->A, diagV, idx)); 2339 PetscCall(VecDestroy(&diagV)); 2340 PetscCall(VecRestoreArrayWrite(v, &diagA)); 2341 PetscFunctionReturn(PETSC_SUCCESS); 2342 } else if (n == 0) { 2343 if (m) { 2344 PetscCall(VecGetArrayWrite(v, &a)); 2345 for (r = 0; r < m; r++) { 2346 a[r] = PETSC_MAX_REAL; 2347 if (idx) idx[r] = -1; 2348 } 2349 PetscCall(VecRestoreArrayWrite(v, &a)); 2350 } 2351 PetscFunctionReturn(PETSC_SUCCESS); 2352 } 2353 2354 PetscCall(PetscCalloc2(m, &diagIdx, m, &offdiagIdx)); 2355 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &diagV)); 2356 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &offdiagV)); 2357 PetscCall(MatGetRowMin(mat->A, diagV, diagIdx)); 2358 2359 /* Get offdiagIdx[] for implicit 0.0 */ 2360 PetscCall(MatSeqAIJGetArrayRead(B, &bav)); 2361 ba = bav; 2362 bi = b->i; 2363 bj = b->j; 2364 PetscCall(VecGetArrayWrite(offdiagV, &offdiagA)); 2365 for (r = 0; r < m; r++) { 2366 ncols = bi[r + 1] - bi[r]; 2367 if (ncols == A->cmap->N - n) { /* Brow is dense */ 2368 offdiagA[r] = *ba; 2369 offdiagIdx[r] = cmap[0]; 2370 } else { /* Brow is sparse so already KNOW maximum is 0.0 or higher */ 2371 offdiagA[r] = 0.0; 2372 2373 /* Find first hole in the cmap */ 2374 for (j = 0; j < ncols; j++) { 2375 col = cmap[bj[j]]; /* global column number = cmap[B column number] */ 2376 if (col > j && j < cstart) { 2377 offdiagIdx[r] = j; /* global column number of first implicit 0.0 */ 2378 break; 2379 } else if (col > j + n && j >= cstart) { 2380 offdiagIdx[r] = j + n; /* global column number of first implicit 0.0 */ 2381 break; 2382 } 2383 } 2384 if (j == ncols && ncols < A->cmap->N - n) { 2385 /* a hole is outside compressed Bcols */ 2386 if (ncols == 0) { 2387 if (cstart) { 2388 offdiagIdx[r] = 0; 2389 } else offdiagIdx[r] = cend; 2390 } else { /* ncols > 0 */ 2391 offdiagIdx[r] = cmap[ncols - 1] + 1; 2392 if (offdiagIdx[r] == cstart) offdiagIdx[r] += n; 2393 } 2394 } 2395 } 2396 2397 for (j = 0; j < ncols; j++) { 2398 if (PetscRealPart(offdiagA[r]) > PetscRealPart(*ba)) { 2399 offdiagA[r] = *ba; 2400 offdiagIdx[r] = cmap[*bj]; 2401 } 2402 ba++; 2403 bj++; 2404 } 2405 } 2406 2407 PetscCall(VecGetArrayWrite(v, &a)); 2408 PetscCall(VecGetArrayRead(diagV, (const PetscScalar **)&diagA)); 2409 for (r = 0; r < m; ++r) { 2410 if (PetscRealPart(diagA[r]) < PetscRealPart(offdiagA[r])) { 2411 a[r] = diagA[r]; 2412 if (idx) idx[r] = cstart + diagIdx[r]; 2413 } else if (PetscRealPart(diagA[r]) == PetscRealPart(offdiagA[r])) { 2414 a[r] = diagA[r]; 2415 if (idx) { 2416 if (cstart + diagIdx[r] <= offdiagIdx[r]) { 2417 idx[r] = cstart + diagIdx[r]; 2418 } else idx[r] = offdiagIdx[r]; 2419 } 2420 } else { 2421 a[r] = offdiagA[r]; 2422 if (idx) idx[r] = offdiagIdx[r]; 2423 } 2424 } 2425 PetscCall(MatSeqAIJRestoreArrayRead(B, &bav)); 2426 PetscCall(VecRestoreArrayWrite(v, &a)); 2427 PetscCall(VecRestoreArrayRead(diagV, (const PetscScalar **)&diagA)); 2428 PetscCall(VecRestoreArrayWrite(offdiagV, &offdiagA)); 2429 PetscCall(VecDestroy(&diagV)); 2430 PetscCall(VecDestroy(&offdiagV)); 2431 PetscCall(PetscFree2(diagIdx, offdiagIdx)); 2432 PetscFunctionReturn(PETSC_SUCCESS); 2433 } 2434 2435 static PetscErrorCode MatGetRowMax_MPIAIJ(Mat A, Vec v, PetscInt idx[]) 2436 { 2437 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)A->data; 2438 PetscInt m = A->rmap->n, n = A->cmap->n; 2439 PetscInt cstart = A->cmap->rstart, cend = A->cmap->rend; 2440 PetscInt *cmap = mat->garray; 2441 PetscInt *diagIdx, *offdiagIdx; 2442 Vec diagV, offdiagV; 2443 PetscScalar *a, *diagA, *offdiagA; 2444 const PetscScalar *ba, *bav; 2445 PetscInt r, j, col, ncols, *bi, *bj; 2446 Mat B = mat->B; 2447 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 2448 2449 PetscFunctionBegin; 2450 /* When a process holds entire A and other processes have no entry */ 2451 if (A->cmap->N == n) { 2452 PetscCall(VecGetArrayWrite(v, &diagA)); 2453 PetscCall(VecCreateSeqWithArray(PETSC_COMM_SELF, 1, m, diagA, &diagV)); 2454 PetscCall(MatGetRowMax(mat->A, diagV, idx)); 2455 PetscCall(VecDestroy(&diagV)); 2456 PetscCall(VecRestoreArrayWrite(v, &diagA)); 2457 PetscFunctionReturn(PETSC_SUCCESS); 2458 } else if (n == 0) { 2459 if (m) { 2460 PetscCall(VecGetArrayWrite(v, &a)); 2461 for (r = 0; r < m; r++) { 2462 a[r] = PETSC_MIN_REAL; 2463 if (idx) idx[r] = -1; 2464 } 2465 PetscCall(VecRestoreArrayWrite(v, &a)); 2466 } 2467 PetscFunctionReturn(PETSC_SUCCESS); 2468 } 2469 2470 PetscCall(PetscMalloc2(m, &diagIdx, m, &offdiagIdx)); 2471 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &diagV)); 2472 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &offdiagV)); 2473 PetscCall(MatGetRowMax(mat->A, diagV, diagIdx)); 2474 2475 /* Get offdiagIdx[] for implicit 0.0 */ 2476 PetscCall(MatSeqAIJGetArrayRead(B, &bav)); 2477 ba = bav; 2478 bi = b->i; 2479 bj = b->j; 2480 PetscCall(VecGetArrayWrite(offdiagV, &offdiagA)); 2481 for (r = 0; r < m; r++) { 2482 ncols = bi[r + 1] - bi[r]; 2483 if (ncols == A->cmap->N - n) { /* Brow is dense */ 2484 offdiagA[r] = *ba; 2485 offdiagIdx[r] = cmap[0]; 2486 } else { /* Brow is sparse so already KNOW maximum is 0.0 or higher */ 2487 offdiagA[r] = 0.0; 2488 2489 /* Find first hole in the cmap */ 2490 for (j = 0; j < ncols; j++) { 2491 col = cmap[bj[j]]; /* global column number = cmap[B column number] */ 2492 if (col > j && j < cstart) { 2493 offdiagIdx[r] = j; /* global column number of first implicit 0.0 */ 2494 break; 2495 } else if (col > j + n && j >= cstart) { 2496 offdiagIdx[r] = j + n; /* global column number of first implicit 0.0 */ 2497 break; 2498 } 2499 } 2500 if (j == ncols && ncols < A->cmap->N - n) { 2501 /* a hole is outside compressed Bcols */ 2502 if (ncols == 0) { 2503 if (cstart) { 2504 offdiagIdx[r] = 0; 2505 } else offdiagIdx[r] = cend; 2506 } else { /* ncols > 0 */ 2507 offdiagIdx[r] = cmap[ncols - 1] + 1; 2508 if (offdiagIdx[r] == cstart) offdiagIdx[r] += n; 2509 } 2510 } 2511 } 2512 2513 for (j = 0; j < ncols; j++) { 2514 if (PetscRealPart(offdiagA[r]) < PetscRealPart(*ba)) { 2515 offdiagA[r] = *ba; 2516 offdiagIdx[r] = cmap[*bj]; 2517 } 2518 ba++; 2519 bj++; 2520 } 2521 } 2522 2523 PetscCall(VecGetArrayWrite(v, &a)); 2524 PetscCall(VecGetArrayRead(diagV, (const PetscScalar **)&diagA)); 2525 for (r = 0; r < m; ++r) { 2526 if (PetscRealPart(diagA[r]) > PetscRealPart(offdiagA[r])) { 2527 a[r] = diagA[r]; 2528 if (idx) idx[r] = cstart + diagIdx[r]; 2529 } else if (PetscRealPart(diagA[r]) == PetscRealPart(offdiagA[r])) { 2530 a[r] = diagA[r]; 2531 if (idx) { 2532 if (cstart + diagIdx[r] <= offdiagIdx[r]) { 2533 idx[r] = cstart + diagIdx[r]; 2534 } else idx[r] = offdiagIdx[r]; 2535 } 2536 } else { 2537 a[r] = offdiagA[r]; 2538 if (idx) idx[r] = offdiagIdx[r]; 2539 } 2540 } 2541 PetscCall(MatSeqAIJRestoreArrayRead(B, &bav)); 2542 PetscCall(VecRestoreArrayWrite(v, &a)); 2543 PetscCall(VecRestoreArrayRead(diagV, (const PetscScalar **)&diagA)); 2544 PetscCall(VecRestoreArrayWrite(offdiagV, &offdiagA)); 2545 PetscCall(VecDestroy(&diagV)); 2546 PetscCall(VecDestroy(&offdiagV)); 2547 PetscCall(PetscFree2(diagIdx, offdiagIdx)); 2548 PetscFunctionReturn(PETSC_SUCCESS); 2549 } 2550 2551 PetscErrorCode MatGetSeqNonzeroStructure_MPIAIJ(Mat mat, Mat *newmat) 2552 { 2553 Mat *dummy; 2554 2555 PetscFunctionBegin; 2556 PetscCall(MatCreateSubMatrix_MPIAIJ_All(mat, MAT_DO_NOT_GET_VALUES, MAT_INITIAL_MATRIX, &dummy)); 2557 *newmat = *dummy; 2558 PetscCall(PetscFree(dummy)); 2559 PetscFunctionReturn(PETSC_SUCCESS); 2560 } 2561 2562 static PetscErrorCode MatInvertBlockDiagonal_MPIAIJ(Mat A, const PetscScalar **values) 2563 { 2564 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2565 2566 PetscFunctionBegin; 2567 PetscCall(MatInvertBlockDiagonal(a->A, values)); 2568 A->factorerrortype = a->A->factorerrortype; 2569 PetscFunctionReturn(PETSC_SUCCESS); 2570 } 2571 2572 static PetscErrorCode MatSetRandom_MPIAIJ(Mat x, PetscRandom rctx) 2573 { 2574 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)x->data; 2575 2576 PetscFunctionBegin; 2577 PetscCheck(x->assembled || x->preallocated, PetscObjectComm((PetscObject)x), PETSC_ERR_ARG_WRONGSTATE, "MatSetRandom on an unassembled and unpreallocated MATMPIAIJ is not allowed"); 2578 PetscCall(MatSetRandom(aij->A, rctx)); 2579 if (x->assembled) { 2580 PetscCall(MatSetRandom(aij->B, rctx)); 2581 } else { 2582 PetscCall(MatSetRandomSkipColumnRange_SeqAIJ_Private(aij->B, x->cmap->rstart, x->cmap->rend, rctx)); 2583 } 2584 PetscCall(MatAssemblyBegin(x, MAT_FINAL_ASSEMBLY)); 2585 PetscCall(MatAssemblyEnd(x, MAT_FINAL_ASSEMBLY)); 2586 PetscFunctionReturn(PETSC_SUCCESS); 2587 } 2588 2589 static PetscErrorCode MatMPIAIJSetUseScalableIncreaseOverlap_MPIAIJ(Mat A, PetscBool sc) 2590 { 2591 PetscFunctionBegin; 2592 if (sc) A->ops->increaseoverlap = MatIncreaseOverlap_MPIAIJ_Scalable; 2593 else A->ops->increaseoverlap = MatIncreaseOverlap_MPIAIJ; 2594 PetscFunctionReturn(PETSC_SUCCESS); 2595 } 2596 2597 /*@ 2598 MatMPIAIJGetNumberNonzeros - gets the number of nonzeros in the matrix on this MPI rank 2599 2600 Not Collective 2601 2602 Input Parameter: 2603 . A - the matrix 2604 2605 Output Parameter: 2606 . nz - the number of nonzeros 2607 2608 Level: advanced 2609 2610 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ` 2611 @*/ 2612 PetscErrorCode MatMPIAIJGetNumberNonzeros(Mat A, PetscCount *nz) 2613 { 2614 Mat_MPIAIJ *maij = (Mat_MPIAIJ *)A->data; 2615 Mat_SeqAIJ *aaij = (Mat_SeqAIJ *)maij->A->data, *baij = (Mat_SeqAIJ *)maij->B->data; 2616 PetscBool isaij; 2617 2618 PetscFunctionBegin; 2619 PetscCall(PetscObjectBaseTypeCompare((PetscObject)A, MATMPIAIJ, &isaij)); 2620 PetscCheck(isaij, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Not for type %s", ((PetscObject)A)->type_name); 2621 *nz = aaij->i[A->rmap->n] + baij->i[A->rmap->n]; 2622 PetscFunctionReturn(PETSC_SUCCESS); 2623 } 2624 2625 /*@ 2626 MatMPIAIJSetUseScalableIncreaseOverlap - Determine if the matrix uses a scalable algorithm to compute the overlap 2627 2628 Collective 2629 2630 Input Parameters: 2631 + A - the matrix 2632 - sc - `PETSC_TRUE` indicates use the scalable algorithm (default is not to use the scalable algorithm) 2633 2634 Level: advanced 2635 2636 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ` 2637 @*/ 2638 PetscErrorCode MatMPIAIJSetUseScalableIncreaseOverlap(Mat A, PetscBool sc) 2639 { 2640 PetscFunctionBegin; 2641 PetscTryMethod(A, "MatMPIAIJSetUseScalableIncreaseOverlap_C", (Mat, PetscBool), (A, sc)); 2642 PetscFunctionReturn(PETSC_SUCCESS); 2643 } 2644 2645 PetscErrorCode MatSetFromOptions_MPIAIJ(Mat A, PetscOptionItems *PetscOptionsObject) 2646 { 2647 PetscBool sc = PETSC_FALSE, flg; 2648 2649 PetscFunctionBegin; 2650 PetscOptionsHeadBegin(PetscOptionsObject, "MPIAIJ options"); 2651 if (A->ops->increaseoverlap == MatIncreaseOverlap_MPIAIJ_Scalable) sc = PETSC_TRUE; 2652 PetscCall(PetscOptionsBool("-mat_increase_overlap_scalable", "Use a scalable algorithm to compute the overlap", "MatIncreaseOverlap", sc, &sc, &flg)); 2653 if (flg) PetscCall(MatMPIAIJSetUseScalableIncreaseOverlap(A, sc)); 2654 PetscOptionsHeadEnd(); 2655 PetscFunctionReturn(PETSC_SUCCESS); 2656 } 2657 2658 static PetscErrorCode MatShift_MPIAIJ(Mat Y, PetscScalar a) 2659 { 2660 Mat_MPIAIJ *maij = (Mat_MPIAIJ *)Y->data; 2661 Mat_SeqAIJ *aij = (Mat_SeqAIJ *)maij->A->data; 2662 2663 PetscFunctionBegin; 2664 if (!Y->preallocated) { 2665 PetscCall(MatMPIAIJSetPreallocation(Y, 1, NULL, 0, NULL)); 2666 } else if (!aij->nz) { /* It does not matter if diagonals of Y only partially lie in maij->A. We just need an estimated preallocation. */ 2667 PetscInt nonew = aij->nonew; 2668 PetscCall(MatSeqAIJSetPreallocation(maij->A, 1, NULL)); 2669 aij->nonew = nonew; 2670 } 2671 PetscCall(MatShift_Basic(Y, a)); 2672 PetscFunctionReturn(PETSC_SUCCESS); 2673 } 2674 2675 static PetscErrorCode MatMissingDiagonal_MPIAIJ(Mat A, PetscBool *missing, PetscInt *d) 2676 { 2677 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2678 2679 PetscFunctionBegin; 2680 PetscCheck(A->rmap->n == A->cmap->n, PETSC_COMM_SELF, PETSC_ERR_SUP, "Only works for square matrices"); 2681 PetscCall(MatMissingDiagonal(a->A, missing, d)); 2682 if (d) { 2683 PetscInt rstart; 2684 PetscCall(MatGetOwnershipRange(A, &rstart, NULL)); 2685 *d += rstart; 2686 } 2687 PetscFunctionReturn(PETSC_SUCCESS); 2688 } 2689 2690 static PetscErrorCode MatInvertVariableBlockDiagonal_MPIAIJ(Mat A, PetscInt nblocks, const PetscInt *bsizes, PetscScalar *diag) 2691 { 2692 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2693 2694 PetscFunctionBegin; 2695 PetscCall(MatInvertVariableBlockDiagonal(a->A, nblocks, bsizes, diag)); 2696 PetscFunctionReturn(PETSC_SUCCESS); 2697 } 2698 2699 static PetscErrorCode MatEliminateZeros_MPIAIJ(Mat A, PetscBool keep) 2700 { 2701 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2702 2703 PetscFunctionBegin; 2704 PetscCall(MatEliminateZeros_SeqAIJ(a->A, keep)); // possibly keep zero diagonal coefficients 2705 PetscCall(MatEliminateZeros_SeqAIJ(a->B, PETSC_FALSE)); // never keep zero diagonal coefficients 2706 PetscFunctionReturn(PETSC_SUCCESS); 2707 } 2708 2709 static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ, 2710 MatGetRow_MPIAIJ, 2711 MatRestoreRow_MPIAIJ, 2712 MatMult_MPIAIJ, 2713 /* 4*/ MatMultAdd_MPIAIJ, 2714 MatMultTranspose_MPIAIJ, 2715 MatMultTransposeAdd_MPIAIJ, 2716 NULL, 2717 NULL, 2718 NULL, 2719 /*10*/ NULL, 2720 NULL, 2721 NULL, 2722 MatSOR_MPIAIJ, 2723 MatTranspose_MPIAIJ, 2724 /*15*/ MatGetInfo_MPIAIJ, 2725 MatEqual_MPIAIJ, 2726 MatGetDiagonal_MPIAIJ, 2727 MatDiagonalScale_MPIAIJ, 2728 MatNorm_MPIAIJ, 2729 /*20*/ MatAssemblyBegin_MPIAIJ, 2730 MatAssemblyEnd_MPIAIJ, 2731 MatSetOption_MPIAIJ, 2732 MatZeroEntries_MPIAIJ, 2733 /*24*/ MatZeroRows_MPIAIJ, 2734 NULL, 2735 NULL, 2736 NULL, 2737 NULL, 2738 /*29*/ MatSetUp_MPI_Hash, 2739 NULL, 2740 NULL, 2741 MatGetDiagonalBlock_MPIAIJ, 2742 NULL, 2743 /*34*/ MatDuplicate_MPIAIJ, 2744 NULL, 2745 NULL, 2746 NULL, 2747 NULL, 2748 /*39*/ MatAXPY_MPIAIJ, 2749 MatCreateSubMatrices_MPIAIJ, 2750 MatIncreaseOverlap_MPIAIJ, 2751 MatGetValues_MPIAIJ, 2752 MatCopy_MPIAIJ, 2753 /*44*/ MatGetRowMax_MPIAIJ, 2754 MatScale_MPIAIJ, 2755 MatShift_MPIAIJ, 2756 MatDiagonalSet_MPIAIJ, 2757 MatZeroRowsColumns_MPIAIJ, 2758 /*49*/ MatSetRandom_MPIAIJ, 2759 MatGetRowIJ_MPIAIJ, 2760 MatRestoreRowIJ_MPIAIJ, 2761 NULL, 2762 NULL, 2763 /*54*/ MatFDColoringCreate_MPIXAIJ, 2764 NULL, 2765 MatSetUnfactored_MPIAIJ, 2766 MatPermute_MPIAIJ, 2767 NULL, 2768 /*59*/ MatCreateSubMatrix_MPIAIJ, 2769 MatDestroy_MPIAIJ, 2770 MatView_MPIAIJ, 2771 NULL, 2772 NULL, 2773 /*64*/ NULL, 2774 MatMatMatMultNumeric_MPIAIJ_MPIAIJ_MPIAIJ, 2775 NULL, 2776 NULL, 2777 NULL, 2778 /*69*/ MatGetRowMaxAbs_MPIAIJ, 2779 MatGetRowMinAbs_MPIAIJ, 2780 NULL, 2781 NULL, 2782 NULL, 2783 NULL, 2784 /*75*/ MatFDColoringApply_AIJ, 2785 MatSetFromOptions_MPIAIJ, 2786 NULL, 2787 NULL, 2788 MatFindZeroDiagonals_MPIAIJ, 2789 /*80*/ NULL, 2790 NULL, 2791 NULL, 2792 /*83*/ MatLoad_MPIAIJ, 2793 MatIsSymmetric_MPIAIJ, 2794 NULL, 2795 NULL, 2796 NULL, 2797 NULL, 2798 /*89*/ NULL, 2799 NULL, 2800 MatMatMultNumeric_MPIAIJ_MPIAIJ, 2801 NULL, 2802 NULL, 2803 /*94*/ MatPtAPNumeric_MPIAIJ_MPIAIJ, 2804 NULL, 2805 NULL, 2806 NULL, 2807 MatBindToCPU_MPIAIJ, 2808 /*99*/ MatProductSetFromOptions_MPIAIJ, 2809 NULL, 2810 NULL, 2811 MatConjugate_MPIAIJ, 2812 NULL, 2813 /*104*/ MatSetValuesRow_MPIAIJ, 2814 MatRealPart_MPIAIJ, 2815 MatImaginaryPart_MPIAIJ, 2816 NULL, 2817 NULL, 2818 /*109*/ NULL, 2819 NULL, 2820 MatGetRowMin_MPIAIJ, 2821 NULL, 2822 MatMissingDiagonal_MPIAIJ, 2823 /*114*/ MatGetSeqNonzeroStructure_MPIAIJ, 2824 NULL, 2825 MatGetGhosts_MPIAIJ, 2826 NULL, 2827 NULL, 2828 /*119*/ MatMultDiagonalBlock_MPIAIJ, 2829 NULL, 2830 NULL, 2831 NULL, 2832 MatGetMultiProcBlock_MPIAIJ, 2833 /*124*/ MatFindNonzeroRows_MPIAIJ, 2834 MatGetColumnReductions_MPIAIJ, 2835 MatInvertBlockDiagonal_MPIAIJ, 2836 MatInvertVariableBlockDiagonal_MPIAIJ, 2837 MatCreateSubMatricesMPI_MPIAIJ, 2838 /*129*/ NULL, 2839 NULL, 2840 NULL, 2841 MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ, 2842 NULL, 2843 /*134*/ NULL, 2844 NULL, 2845 NULL, 2846 NULL, 2847 NULL, 2848 /*139*/ MatSetBlockSizes_MPIAIJ, 2849 NULL, 2850 NULL, 2851 MatFDColoringSetUp_MPIXAIJ, 2852 MatFindOffBlockDiagonalEntries_MPIAIJ, 2853 MatCreateMPIMatConcatenateSeqMat_MPIAIJ, 2854 /*145*/ NULL, 2855 NULL, 2856 NULL, 2857 MatCreateGraph_Simple_AIJ, 2858 NULL, 2859 /*150*/ NULL, 2860 MatEliminateZeros_MPIAIJ}; 2861 2862 static PetscErrorCode MatStoreValues_MPIAIJ(Mat mat) 2863 { 2864 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 2865 2866 PetscFunctionBegin; 2867 PetscCall(MatStoreValues(aij->A)); 2868 PetscCall(MatStoreValues(aij->B)); 2869 PetscFunctionReturn(PETSC_SUCCESS); 2870 } 2871 2872 static PetscErrorCode MatRetrieveValues_MPIAIJ(Mat mat) 2873 { 2874 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 2875 2876 PetscFunctionBegin; 2877 PetscCall(MatRetrieveValues(aij->A)); 2878 PetscCall(MatRetrieveValues(aij->B)); 2879 PetscFunctionReturn(PETSC_SUCCESS); 2880 } 2881 2882 PetscErrorCode MatMPIAIJSetPreallocation_MPIAIJ(Mat B, PetscInt d_nz, const PetscInt d_nnz[], PetscInt o_nz, const PetscInt o_nnz[]) 2883 { 2884 Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 2885 PetscMPIInt size; 2886 2887 PetscFunctionBegin; 2888 if (B->hash_active) { 2889 B->ops[0] = b->cops; 2890 B->hash_active = PETSC_FALSE; 2891 } 2892 PetscCall(PetscLayoutSetUp(B->rmap)); 2893 PetscCall(PetscLayoutSetUp(B->cmap)); 2894 2895 #if defined(PETSC_USE_CTABLE) 2896 PetscCall(PetscHMapIDestroy(&b->colmap)); 2897 #else 2898 PetscCall(PetscFree(b->colmap)); 2899 #endif 2900 PetscCall(PetscFree(b->garray)); 2901 PetscCall(VecDestroy(&b->lvec)); 2902 PetscCall(VecScatterDestroy(&b->Mvctx)); 2903 2904 PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)B), &size)); 2905 PetscCall(MatDestroy(&b->B)); 2906 PetscCall(MatCreate(PETSC_COMM_SELF, &b->B)); 2907 PetscCall(MatSetSizes(b->B, B->rmap->n, size > 1 ? B->cmap->N : 0, B->rmap->n, size > 1 ? B->cmap->N : 0)); 2908 PetscCall(MatSetBlockSizesFromMats(b->B, B, B)); 2909 PetscCall(MatSetType(b->B, MATSEQAIJ)); 2910 2911 PetscCall(MatDestroy(&b->A)); 2912 PetscCall(MatCreate(PETSC_COMM_SELF, &b->A)); 2913 PetscCall(MatSetSizes(b->A, B->rmap->n, B->cmap->n, B->rmap->n, B->cmap->n)); 2914 PetscCall(MatSetBlockSizesFromMats(b->A, B, B)); 2915 PetscCall(MatSetType(b->A, MATSEQAIJ)); 2916 2917 PetscCall(MatSeqAIJSetPreallocation(b->A, d_nz, d_nnz)); 2918 PetscCall(MatSeqAIJSetPreallocation(b->B, o_nz, o_nnz)); 2919 B->preallocated = PETSC_TRUE; 2920 B->was_assembled = PETSC_FALSE; 2921 B->assembled = PETSC_FALSE; 2922 PetscFunctionReturn(PETSC_SUCCESS); 2923 } 2924 2925 static PetscErrorCode MatResetPreallocation_MPIAIJ(Mat B) 2926 { 2927 Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 2928 2929 PetscFunctionBegin; 2930 PetscValidHeaderSpecific(B, MAT_CLASSID, 1); 2931 PetscCall(PetscLayoutSetUp(B->rmap)); 2932 PetscCall(PetscLayoutSetUp(B->cmap)); 2933 2934 #if defined(PETSC_USE_CTABLE) 2935 PetscCall(PetscHMapIDestroy(&b->colmap)); 2936 #else 2937 PetscCall(PetscFree(b->colmap)); 2938 #endif 2939 PetscCall(PetscFree(b->garray)); 2940 PetscCall(VecDestroy(&b->lvec)); 2941 PetscCall(VecScatterDestroy(&b->Mvctx)); 2942 2943 PetscCall(MatResetPreallocation(b->A)); 2944 PetscCall(MatResetPreallocation(b->B)); 2945 B->preallocated = PETSC_TRUE; 2946 B->was_assembled = PETSC_FALSE; 2947 B->assembled = PETSC_FALSE; 2948 PetscFunctionReturn(PETSC_SUCCESS); 2949 } 2950 2951 PetscErrorCode MatDuplicate_MPIAIJ(Mat matin, MatDuplicateOption cpvalues, Mat *newmat) 2952 { 2953 Mat mat; 2954 Mat_MPIAIJ *a, *oldmat = (Mat_MPIAIJ *)matin->data; 2955 2956 PetscFunctionBegin; 2957 *newmat = NULL; 2958 PetscCall(MatCreate(PetscObjectComm((PetscObject)matin), &mat)); 2959 PetscCall(MatSetSizes(mat, matin->rmap->n, matin->cmap->n, matin->rmap->N, matin->cmap->N)); 2960 PetscCall(MatSetBlockSizesFromMats(mat, matin, matin)); 2961 PetscCall(MatSetType(mat, ((PetscObject)matin)->type_name)); 2962 a = (Mat_MPIAIJ *)mat->data; 2963 2964 mat->factortype = matin->factortype; 2965 mat->assembled = matin->assembled; 2966 mat->insertmode = NOT_SET_VALUES; 2967 2968 a->size = oldmat->size; 2969 a->rank = oldmat->rank; 2970 a->donotstash = oldmat->donotstash; 2971 a->roworiented = oldmat->roworiented; 2972 a->rowindices = NULL; 2973 a->rowvalues = NULL; 2974 a->getrowactive = PETSC_FALSE; 2975 2976 PetscCall(PetscLayoutReference(matin->rmap, &mat->rmap)); 2977 PetscCall(PetscLayoutReference(matin->cmap, &mat->cmap)); 2978 if (matin->hash_active) { 2979 PetscCall(MatSetUp(mat)); 2980 } else { 2981 mat->preallocated = matin->preallocated; 2982 if (oldmat->colmap) { 2983 #if defined(PETSC_USE_CTABLE) 2984 PetscCall(PetscHMapIDuplicate(oldmat->colmap, &a->colmap)); 2985 #else 2986 PetscCall(PetscMalloc1(mat->cmap->N, &a->colmap)); 2987 PetscCall(PetscArraycpy(a->colmap, oldmat->colmap, mat->cmap->N)); 2988 #endif 2989 } else a->colmap = NULL; 2990 if (oldmat->garray) { 2991 PetscInt len; 2992 len = oldmat->B->cmap->n; 2993 PetscCall(PetscMalloc1(len + 1, &a->garray)); 2994 if (len) PetscCall(PetscArraycpy(a->garray, oldmat->garray, len)); 2995 } else a->garray = NULL; 2996 2997 /* It may happen MatDuplicate is called with a non-assembled matrix 2998 In fact, MatDuplicate only requires the matrix to be preallocated 2999 This may happen inside a DMCreateMatrix_Shell */ 3000 if (oldmat->lvec) PetscCall(VecDuplicate(oldmat->lvec, &a->lvec)); 3001 if (oldmat->Mvctx) PetscCall(VecScatterCopy(oldmat->Mvctx, &a->Mvctx)); 3002 PetscCall(MatDuplicate(oldmat->A, cpvalues, &a->A)); 3003 PetscCall(MatDuplicate(oldmat->B, cpvalues, &a->B)); 3004 } 3005 PetscCall(PetscFunctionListDuplicate(((PetscObject)matin)->qlist, &((PetscObject)mat)->qlist)); 3006 *newmat = mat; 3007 PetscFunctionReturn(PETSC_SUCCESS); 3008 } 3009 3010 PetscErrorCode MatLoad_MPIAIJ(Mat newMat, PetscViewer viewer) 3011 { 3012 PetscBool isbinary, ishdf5; 3013 3014 PetscFunctionBegin; 3015 PetscValidHeaderSpecific(newMat, MAT_CLASSID, 1); 3016 PetscValidHeaderSpecific(viewer, PETSC_VIEWER_CLASSID, 2); 3017 /* force binary viewer to load .info file if it has not yet done so */ 3018 PetscCall(PetscViewerSetUp(viewer)); 3019 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERBINARY, &isbinary)); 3020 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERHDF5, &ishdf5)); 3021 if (isbinary) { 3022 PetscCall(MatLoad_MPIAIJ_Binary(newMat, viewer)); 3023 } else if (ishdf5) { 3024 #if defined(PETSC_HAVE_HDF5) 3025 PetscCall(MatLoad_AIJ_HDF5(newMat, viewer)); 3026 #else 3027 SETERRQ(PetscObjectComm((PetscObject)newMat), PETSC_ERR_SUP, "HDF5 not supported in this build.\nPlease reconfigure using --download-hdf5"); 3028 #endif 3029 } else { 3030 SETERRQ(PetscObjectComm((PetscObject)newMat), PETSC_ERR_SUP, "Viewer type %s not yet supported for reading %s matrices", ((PetscObject)viewer)->type_name, ((PetscObject)newMat)->type_name); 3031 } 3032 PetscFunctionReturn(PETSC_SUCCESS); 3033 } 3034 3035 PetscErrorCode MatLoad_MPIAIJ_Binary(Mat mat, PetscViewer viewer) 3036 { 3037 PetscInt header[4], M, N, m, nz, rows, cols, sum, i; 3038 PetscInt *rowidxs, *colidxs; 3039 PetscScalar *matvals; 3040 3041 PetscFunctionBegin; 3042 PetscCall(PetscViewerSetUp(viewer)); 3043 3044 /* read in matrix header */ 3045 PetscCall(PetscViewerBinaryRead(viewer, header, 4, NULL, PETSC_INT)); 3046 PetscCheck(header[0] == MAT_FILE_CLASSID, PetscObjectComm((PetscObject)viewer), PETSC_ERR_FILE_UNEXPECTED, "Not a matrix object in file"); 3047 M = header[1]; 3048 N = header[2]; 3049 nz = header[3]; 3050 PetscCheck(M >= 0, PetscObjectComm((PetscObject)viewer), PETSC_ERR_FILE_UNEXPECTED, "Matrix row size (%" PetscInt_FMT ") in file is negative", M); 3051 PetscCheck(N >= 0, PetscObjectComm((PetscObject)viewer), PETSC_ERR_FILE_UNEXPECTED, "Matrix column size (%" PetscInt_FMT ") in file is negative", N); 3052 PetscCheck(nz >= 0, PETSC_COMM_SELF, PETSC_ERR_FILE_UNEXPECTED, "Matrix stored in special format on disk, cannot load as MPIAIJ"); 3053 3054 /* set block sizes from the viewer's .info file */ 3055 PetscCall(MatLoad_Binary_BlockSizes(mat, viewer)); 3056 /* set global sizes if not set already */ 3057 if (mat->rmap->N < 0) mat->rmap->N = M; 3058 if (mat->cmap->N < 0) mat->cmap->N = N; 3059 PetscCall(PetscLayoutSetUp(mat->rmap)); 3060 PetscCall(PetscLayoutSetUp(mat->cmap)); 3061 3062 /* check if the matrix sizes are correct */ 3063 PetscCall(MatGetSize(mat, &rows, &cols)); 3064 PetscCheck(M == rows && N == cols, PETSC_COMM_SELF, PETSC_ERR_FILE_UNEXPECTED, "Matrix in file of different sizes (%" PetscInt_FMT ", %" PetscInt_FMT ") than the input matrix (%" PetscInt_FMT ", %" PetscInt_FMT ")", M, N, rows, cols); 3065 3066 /* read in row lengths and build row indices */ 3067 PetscCall(MatGetLocalSize(mat, &m, NULL)); 3068 PetscCall(PetscMalloc1(m + 1, &rowidxs)); 3069 PetscCall(PetscViewerBinaryReadAll(viewer, rowidxs + 1, m, PETSC_DECIDE, M, PETSC_INT)); 3070 rowidxs[0] = 0; 3071 for (i = 0; i < m; i++) rowidxs[i + 1] += rowidxs[i]; 3072 if (nz != PETSC_MAX_INT) { 3073 PetscCall(MPIU_Allreduce(&rowidxs[m], &sum, 1, MPIU_INT, MPI_SUM, PetscObjectComm((PetscObject)viewer))); 3074 PetscCheck(sum == nz, PetscObjectComm((PetscObject)viewer), PETSC_ERR_FILE_UNEXPECTED, "Inconsistent matrix data in file: nonzeros = %" PetscInt_FMT ", sum-row-lengths = %" PetscInt_FMT, nz, sum); 3075 } 3076 3077 /* read in column indices and matrix values */ 3078 PetscCall(PetscMalloc2(rowidxs[m], &colidxs, rowidxs[m], &matvals)); 3079 PetscCall(PetscViewerBinaryReadAll(viewer, colidxs, rowidxs[m], PETSC_DETERMINE, PETSC_DETERMINE, PETSC_INT)); 3080 PetscCall(PetscViewerBinaryReadAll(viewer, matvals, rowidxs[m], PETSC_DETERMINE, PETSC_DETERMINE, PETSC_SCALAR)); 3081 /* store matrix indices and values */ 3082 PetscCall(MatMPIAIJSetPreallocationCSR(mat, rowidxs, colidxs, matvals)); 3083 PetscCall(PetscFree(rowidxs)); 3084 PetscCall(PetscFree2(colidxs, matvals)); 3085 PetscFunctionReturn(PETSC_SUCCESS); 3086 } 3087 3088 /* Not scalable because of ISAllGather() unless getting all columns. */ 3089 static PetscErrorCode ISGetSeqIS_Private(Mat mat, IS iscol, IS *isseq) 3090 { 3091 IS iscol_local; 3092 PetscBool isstride; 3093 PetscMPIInt lisstride = 0, gisstride; 3094 3095 PetscFunctionBegin; 3096 /* check if we are grabbing all columns*/ 3097 PetscCall(PetscObjectTypeCompare((PetscObject)iscol, ISSTRIDE, &isstride)); 3098 3099 if (isstride) { 3100 PetscInt start, len, mstart, mlen; 3101 PetscCall(ISStrideGetInfo(iscol, &start, NULL)); 3102 PetscCall(ISGetLocalSize(iscol, &len)); 3103 PetscCall(MatGetOwnershipRangeColumn(mat, &mstart, &mlen)); 3104 if (mstart == start && mlen - mstart == len) lisstride = 1; 3105 } 3106 3107 PetscCall(MPIU_Allreduce(&lisstride, &gisstride, 1, MPI_INT, MPI_MIN, PetscObjectComm((PetscObject)mat))); 3108 if (gisstride) { 3109 PetscInt N; 3110 PetscCall(MatGetSize(mat, NULL, &N)); 3111 PetscCall(ISCreateStride(PETSC_COMM_SELF, N, 0, 1, &iscol_local)); 3112 PetscCall(ISSetIdentity(iscol_local)); 3113 PetscCall(PetscInfo(mat, "Optimizing for obtaining all columns of the matrix; skipping ISAllGather()\n")); 3114 } else { 3115 PetscInt cbs; 3116 PetscCall(ISGetBlockSize(iscol, &cbs)); 3117 PetscCall(ISAllGather(iscol, &iscol_local)); 3118 PetscCall(ISSetBlockSize(iscol_local, cbs)); 3119 } 3120 3121 *isseq = iscol_local; 3122 PetscFunctionReturn(PETSC_SUCCESS); 3123 } 3124 3125 /* 3126 Used by MatCreateSubMatrix_MPIAIJ_SameRowColDist() to avoid ISAllGather() and global size of iscol_local 3127 (see MatCreateSubMatrix_MPIAIJ_nonscalable) 3128 3129 Input Parameters: 3130 + mat - matrix 3131 . isrow - parallel row index set; its local indices are a subset of local columns of `mat`, 3132 i.e., mat->rstart <= isrow[i] < mat->rend 3133 - iscol - parallel column index set; its local indices are a subset of local columns of `mat`, 3134 i.e., mat->cstart <= iscol[i] < mat->cend 3135 3136 Output Parameters: 3137 + isrow_d - sequential row index set for retrieving mat->A 3138 . iscol_d - sequential column index set for retrieving mat->A 3139 . iscol_o - sequential column index set for retrieving mat->B 3140 - garray - column map; garray[i] indicates global location of iscol_o[i] in `iscol` 3141 */ 3142 static PetscErrorCode ISGetSeqIS_SameColDist_Private(Mat mat, IS isrow, IS iscol, IS *isrow_d, IS *iscol_d, IS *iscol_o, const PetscInt *garray[]) 3143 { 3144 Vec x, cmap; 3145 const PetscInt *is_idx; 3146 PetscScalar *xarray, *cmaparray; 3147 PetscInt ncols, isstart, *idx, m, rstart, *cmap1, count; 3148 Mat_MPIAIJ *a = (Mat_MPIAIJ *)mat->data; 3149 Mat B = a->B; 3150 Vec lvec = a->lvec, lcmap; 3151 PetscInt i, cstart, cend, Bn = B->cmap->N; 3152 MPI_Comm comm; 3153 VecScatter Mvctx = a->Mvctx; 3154 3155 PetscFunctionBegin; 3156 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 3157 PetscCall(ISGetLocalSize(iscol, &ncols)); 3158 3159 /* (1) iscol is a sub-column vector of mat, pad it with '-1.' to form a full vector x */ 3160 PetscCall(MatCreateVecs(mat, &x, NULL)); 3161 PetscCall(VecSet(x, -1.0)); 3162 PetscCall(VecDuplicate(x, &cmap)); 3163 PetscCall(VecSet(cmap, -1.0)); 3164 3165 /* Get start indices */ 3166 PetscCallMPI(MPI_Scan(&ncols, &isstart, 1, MPIU_INT, MPI_SUM, comm)); 3167 isstart -= ncols; 3168 PetscCall(MatGetOwnershipRangeColumn(mat, &cstart, &cend)); 3169 3170 PetscCall(ISGetIndices(iscol, &is_idx)); 3171 PetscCall(VecGetArray(x, &xarray)); 3172 PetscCall(VecGetArray(cmap, &cmaparray)); 3173 PetscCall(PetscMalloc1(ncols, &idx)); 3174 for (i = 0; i < ncols; i++) { 3175 xarray[is_idx[i] - cstart] = (PetscScalar)is_idx[i]; 3176 cmaparray[is_idx[i] - cstart] = i + isstart; /* global index of iscol[i] */ 3177 idx[i] = is_idx[i] - cstart; /* local index of iscol[i] */ 3178 } 3179 PetscCall(VecRestoreArray(x, &xarray)); 3180 PetscCall(VecRestoreArray(cmap, &cmaparray)); 3181 PetscCall(ISRestoreIndices(iscol, &is_idx)); 3182 3183 /* Get iscol_d */ 3184 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, ncols, idx, PETSC_OWN_POINTER, iscol_d)); 3185 PetscCall(ISGetBlockSize(iscol, &i)); 3186 PetscCall(ISSetBlockSize(*iscol_d, i)); 3187 3188 /* Get isrow_d */ 3189 PetscCall(ISGetLocalSize(isrow, &m)); 3190 rstart = mat->rmap->rstart; 3191 PetscCall(PetscMalloc1(m, &idx)); 3192 PetscCall(ISGetIndices(isrow, &is_idx)); 3193 for (i = 0; i < m; i++) idx[i] = is_idx[i] - rstart; 3194 PetscCall(ISRestoreIndices(isrow, &is_idx)); 3195 3196 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, m, idx, PETSC_OWN_POINTER, isrow_d)); 3197 PetscCall(ISGetBlockSize(isrow, &i)); 3198 PetscCall(ISSetBlockSize(*isrow_d, i)); 3199 3200 /* (2) Scatter x and cmap using aij->Mvctx to get their off-process portions (see MatMult_MPIAIJ) */ 3201 PetscCall(VecScatterBegin(Mvctx, x, lvec, INSERT_VALUES, SCATTER_FORWARD)); 3202 PetscCall(VecScatterEnd(Mvctx, x, lvec, INSERT_VALUES, SCATTER_FORWARD)); 3203 3204 PetscCall(VecDuplicate(lvec, &lcmap)); 3205 3206 PetscCall(VecScatterBegin(Mvctx, cmap, lcmap, INSERT_VALUES, SCATTER_FORWARD)); 3207 PetscCall(VecScatterEnd(Mvctx, cmap, lcmap, INSERT_VALUES, SCATTER_FORWARD)); 3208 3209 /* (3) create sequential iscol_o (a subset of iscol) and isgarray */ 3210 /* off-process column indices */ 3211 count = 0; 3212 PetscCall(PetscMalloc1(Bn, &idx)); 3213 PetscCall(PetscMalloc1(Bn, &cmap1)); 3214 3215 PetscCall(VecGetArray(lvec, &xarray)); 3216 PetscCall(VecGetArray(lcmap, &cmaparray)); 3217 for (i = 0; i < Bn; i++) { 3218 if (PetscRealPart(xarray[i]) > -1.0) { 3219 idx[count] = i; /* local column index in off-diagonal part B */ 3220 cmap1[count] = (PetscInt)PetscRealPart(cmaparray[i]); /* column index in submat */ 3221 count++; 3222 } 3223 } 3224 PetscCall(VecRestoreArray(lvec, &xarray)); 3225 PetscCall(VecRestoreArray(lcmap, &cmaparray)); 3226 3227 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, count, idx, PETSC_COPY_VALUES, iscol_o)); 3228 /* cannot ensure iscol_o has same blocksize as iscol! */ 3229 3230 PetscCall(PetscFree(idx)); 3231 *garray = cmap1; 3232 3233 PetscCall(VecDestroy(&x)); 3234 PetscCall(VecDestroy(&cmap)); 3235 PetscCall(VecDestroy(&lcmap)); 3236 PetscFunctionReturn(PETSC_SUCCESS); 3237 } 3238 3239 /* isrow and iscol have same processor distribution as mat, output *submat is a submatrix of local mat */ 3240 PetscErrorCode MatCreateSubMatrix_MPIAIJ_SameRowColDist(Mat mat, IS isrow, IS iscol, MatReuse call, Mat *submat) 3241 { 3242 Mat_MPIAIJ *a = (Mat_MPIAIJ *)mat->data, *asub; 3243 Mat M = NULL; 3244 MPI_Comm comm; 3245 IS iscol_d, isrow_d, iscol_o; 3246 Mat Asub = NULL, Bsub = NULL; 3247 PetscInt n; 3248 3249 PetscFunctionBegin; 3250 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 3251 3252 if (call == MAT_REUSE_MATRIX) { 3253 /* Retrieve isrow_d, iscol_d and iscol_o from submat */ 3254 PetscCall(PetscObjectQuery((PetscObject)*submat, "isrow_d", (PetscObject *)&isrow_d)); 3255 PetscCheck(isrow_d, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "isrow_d passed in was not used before, cannot reuse"); 3256 3257 PetscCall(PetscObjectQuery((PetscObject)*submat, "iscol_d", (PetscObject *)&iscol_d)); 3258 PetscCheck(iscol_d, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "iscol_d passed in was not used before, cannot reuse"); 3259 3260 PetscCall(PetscObjectQuery((PetscObject)*submat, "iscol_o", (PetscObject *)&iscol_o)); 3261 PetscCheck(iscol_o, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "iscol_o passed in was not used before, cannot reuse"); 3262 3263 /* Update diagonal and off-diagonal portions of submat */ 3264 asub = (Mat_MPIAIJ *)(*submat)->data; 3265 PetscCall(MatCreateSubMatrix_SeqAIJ(a->A, isrow_d, iscol_d, PETSC_DECIDE, MAT_REUSE_MATRIX, &asub->A)); 3266 PetscCall(ISGetLocalSize(iscol_o, &n)); 3267 if (n) PetscCall(MatCreateSubMatrix_SeqAIJ(a->B, isrow_d, iscol_o, PETSC_DECIDE, MAT_REUSE_MATRIX, &asub->B)); 3268 PetscCall(MatAssemblyBegin(*submat, MAT_FINAL_ASSEMBLY)); 3269 PetscCall(MatAssemblyEnd(*submat, MAT_FINAL_ASSEMBLY)); 3270 3271 } else { /* call == MAT_INITIAL_MATRIX) */ 3272 const PetscInt *garray; 3273 PetscInt BsubN; 3274 3275 /* Create isrow_d, iscol_d, iscol_o and isgarray (replace isgarray with array?) */ 3276 PetscCall(ISGetSeqIS_SameColDist_Private(mat, isrow, iscol, &isrow_d, &iscol_d, &iscol_o, &garray)); 3277 3278 /* Create local submatrices Asub and Bsub */ 3279 PetscCall(MatCreateSubMatrix_SeqAIJ(a->A, isrow_d, iscol_d, PETSC_DECIDE, MAT_INITIAL_MATRIX, &Asub)); 3280 PetscCall(MatCreateSubMatrix_SeqAIJ(a->B, isrow_d, iscol_o, PETSC_DECIDE, MAT_INITIAL_MATRIX, &Bsub)); 3281 3282 /* Create submatrix M */ 3283 PetscCall(MatCreateMPIAIJWithSeqAIJ(comm, Asub, Bsub, garray, &M)); 3284 3285 /* If Bsub has empty columns, compress iscol_o such that it will retrieve condensed Bsub from a->B during reuse */ 3286 asub = (Mat_MPIAIJ *)M->data; 3287 3288 PetscCall(ISGetLocalSize(iscol_o, &BsubN)); 3289 n = asub->B->cmap->N; 3290 if (BsubN > n) { 3291 /* This case can be tested using ~petsc/src/tao/bound/tutorials/runplate2_3 */ 3292 const PetscInt *idx; 3293 PetscInt i, j, *idx_new, *subgarray = asub->garray; 3294 PetscCall(PetscInfo(M, "submatrix Bn %" PetscInt_FMT " != BsubN %" PetscInt_FMT ", update iscol_o\n", n, BsubN)); 3295 3296 PetscCall(PetscMalloc1(n, &idx_new)); 3297 j = 0; 3298 PetscCall(ISGetIndices(iscol_o, &idx)); 3299 for (i = 0; i < n; i++) { 3300 if (j >= BsubN) break; 3301 while (subgarray[i] > garray[j]) j++; 3302 3303 if (subgarray[i] == garray[j]) { 3304 idx_new[i] = idx[j++]; 3305 } else SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "subgarray[%" PetscInt_FMT "]=%" PetscInt_FMT " cannot < garray[%" PetscInt_FMT "]=%" PetscInt_FMT, i, subgarray[i], j, garray[j]); 3306 } 3307 PetscCall(ISRestoreIndices(iscol_o, &idx)); 3308 3309 PetscCall(ISDestroy(&iscol_o)); 3310 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, n, idx_new, PETSC_OWN_POINTER, &iscol_o)); 3311 3312 } else if (BsubN < n) { 3313 SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Columns of Bsub (%" PetscInt_FMT ") cannot be smaller than B's (%" PetscInt_FMT ")", BsubN, asub->B->cmap->N); 3314 } 3315 3316 PetscCall(PetscFree(garray)); 3317 *submat = M; 3318 3319 /* Save isrow_d, iscol_d and iscol_o used in processor for next request */ 3320 PetscCall(PetscObjectCompose((PetscObject)M, "isrow_d", (PetscObject)isrow_d)); 3321 PetscCall(ISDestroy(&isrow_d)); 3322 3323 PetscCall(PetscObjectCompose((PetscObject)M, "iscol_d", (PetscObject)iscol_d)); 3324 PetscCall(ISDestroy(&iscol_d)); 3325 3326 PetscCall(PetscObjectCompose((PetscObject)M, "iscol_o", (PetscObject)iscol_o)); 3327 PetscCall(ISDestroy(&iscol_o)); 3328 } 3329 PetscFunctionReturn(PETSC_SUCCESS); 3330 } 3331 3332 PetscErrorCode MatCreateSubMatrix_MPIAIJ(Mat mat, IS isrow, IS iscol, MatReuse call, Mat *newmat) 3333 { 3334 IS iscol_local = NULL, isrow_d; 3335 PetscInt csize; 3336 PetscInt n, i, j, start, end; 3337 PetscBool sameRowDist = PETSC_FALSE, sameDist[2], tsameDist[2]; 3338 MPI_Comm comm; 3339 3340 PetscFunctionBegin; 3341 /* If isrow has same processor distribution as mat, 3342 call MatCreateSubMatrix_MPIAIJ_SameRowDist() to avoid using a hash table with global size of iscol */ 3343 if (call == MAT_REUSE_MATRIX) { 3344 PetscCall(PetscObjectQuery((PetscObject)*newmat, "isrow_d", (PetscObject *)&isrow_d)); 3345 if (isrow_d) { 3346 sameRowDist = PETSC_TRUE; 3347 tsameDist[1] = PETSC_TRUE; /* sameColDist */ 3348 } else { 3349 PetscCall(PetscObjectQuery((PetscObject)*newmat, "SubIScol", (PetscObject *)&iscol_local)); 3350 if (iscol_local) { 3351 sameRowDist = PETSC_TRUE; 3352 tsameDist[1] = PETSC_FALSE; /* !sameColDist */ 3353 } 3354 } 3355 } else { 3356 /* Check if isrow has same processor distribution as mat */ 3357 sameDist[0] = PETSC_FALSE; 3358 PetscCall(ISGetLocalSize(isrow, &n)); 3359 if (!n) { 3360 sameDist[0] = PETSC_TRUE; 3361 } else { 3362 PetscCall(ISGetMinMax(isrow, &i, &j)); 3363 PetscCall(MatGetOwnershipRange(mat, &start, &end)); 3364 if (i >= start && j < end) sameDist[0] = PETSC_TRUE; 3365 } 3366 3367 /* Check if iscol has same processor distribution as mat */ 3368 sameDist[1] = PETSC_FALSE; 3369 PetscCall(ISGetLocalSize(iscol, &n)); 3370 if (!n) { 3371 sameDist[1] = PETSC_TRUE; 3372 } else { 3373 PetscCall(ISGetMinMax(iscol, &i, &j)); 3374 PetscCall(MatGetOwnershipRangeColumn(mat, &start, &end)); 3375 if (i >= start && j < end) sameDist[1] = PETSC_TRUE; 3376 } 3377 3378 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 3379 PetscCall(MPIU_Allreduce(&sameDist, &tsameDist, 2, MPIU_BOOL, MPI_LAND, comm)); 3380 sameRowDist = tsameDist[0]; 3381 } 3382 3383 if (sameRowDist) { 3384 if (tsameDist[1]) { /* sameRowDist & sameColDist */ 3385 /* isrow and iscol have same processor distribution as mat */ 3386 PetscCall(MatCreateSubMatrix_MPIAIJ_SameRowColDist(mat, isrow, iscol, call, newmat)); 3387 PetscFunctionReturn(PETSC_SUCCESS); 3388 } else { /* sameRowDist */ 3389 /* isrow has same processor distribution as mat */ 3390 if (call == MAT_INITIAL_MATRIX) { 3391 PetscBool sorted; 3392 PetscCall(ISGetSeqIS_Private(mat, iscol, &iscol_local)); 3393 PetscCall(ISGetLocalSize(iscol_local, &n)); /* local size of iscol_local = global columns of newmat */ 3394 PetscCall(ISGetSize(iscol, &i)); 3395 PetscCheck(n == i, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "n %" PetscInt_FMT " != size of iscol %" PetscInt_FMT, n, i); 3396 3397 PetscCall(ISSorted(iscol_local, &sorted)); 3398 if (sorted) { 3399 /* MatCreateSubMatrix_MPIAIJ_SameRowDist() requires iscol_local be sorted; it can have duplicate indices */ 3400 PetscCall(MatCreateSubMatrix_MPIAIJ_SameRowDist(mat, isrow, iscol, iscol_local, MAT_INITIAL_MATRIX, newmat)); 3401 PetscFunctionReturn(PETSC_SUCCESS); 3402 } 3403 } else { /* call == MAT_REUSE_MATRIX */ 3404 IS iscol_sub; 3405 PetscCall(PetscObjectQuery((PetscObject)*newmat, "SubIScol", (PetscObject *)&iscol_sub)); 3406 if (iscol_sub) { 3407 PetscCall(MatCreateSubMatrix_MPIAIJ_SameRowDist(mat, isrow, iscol, NULL, call, newmat)); 3408 PetscFunctionReturn(PETSC_SUCCESS); 3409 } 3410 } 3411 } 3412 } 3413 3414 /* General case: iscol -> iscol_local which has global size of iscol */ 3415 if (call == MAT_REUSE_MATRIX) { 3416 PetscCall(PetscObjectQuery((PetscObject)*newmat, "ISAllGather", (PetscObject *)&iscol_local)); 3417 PetscCheck(iscol_local, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Submatrix passed in was not used before, cannot reuse"); 3418 } else { 3419 if (!iscol_local) PetscCall(ISGetSeqIS_Private(mat, iscol, &iscol_local)); 3420 } 3421 3422 PetscCall(ISGetLocalSize(iscol, &csize)); 3423 PetscCall(MatCreateSubMatrix_MPIAIJ_nonscalable(mat, isrow, iscol_local, csize, call, newmat)); 3424 3425 if (call == MAT_INITIAL_MATRIX) { 3426 PetscCall(PetscObjectCompose((PetscObject)*newmat, "ISAllGather", (PetscObject)iscol_local)); 3427 PetscCall(ISDestroy(&iscol_local)); 3428 } 3429 PetscFunctionReturn(PETSC_SUCCESS); 3430 } 3431 3432 /*@C 3433 MatCreateMPIAIJWithSeqAIJ - creates a `MATMPIAIJ` matrix using `MATSEQAIJ` matrices that contain the "diagonal" 3434 and "off-diagonal" part of the matrix in CSR format. 3435 3436 Collective 3437 3438 Input Parameters: 3439 + comm - MPI communicator 3440 . A - "diagonal" portion of matrix 3441 . B - "off-diagonal" portion of matrix, may have empty columns, will be destroyed by this routine 3442 - garray - global index of `B` columns 3443 3444 Output Parameter: 3445 . mat - the matrix, with input `A` as its local diagonal matrix 3446 3447 Level: advanced 3448 3449 Notes: 3450 See `MatCreateAIJ()` for the definition of "diagonal" and "off-diagonal" portion of the matrix. 3451 3452 `A` becomes part of output mat, `B` is destroyed by this routine. The user cannot use `A` and `B` anymore. 3453 3454 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MATSEQAIJ`, `MatCreateMPIAIJWithSplitArrays()` 3455 @*/ 3456 PetscErrorCode MatCreateMPIAIJWithSeqAIJ(MPI_Comm comm, Mat A, Mat B, const PetscInt garray[], Mat *mat) 3457 { 3458 Mat_MPIAIJ *maij; 3459 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data, *bnew; 3460 PetscInt *oi = b->i, *oj = b->j, i, nz, col; 3461 const PetscScalar *oa; 3462 Mat Bnew; 3463 PetscInt m, n, N; 3464 MatType mpi_mat_type; 3465 3466 PetscFunctionBegin; 3467 PetscCall(MatCreate(comm, mat)); 3468 PetscCall(MatGetSize(A, &m, &n)); 3469 PetscCheck(m == B->rmap->N, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Am %" PetscInt_FMT " != Bm %" PetscInt_FMT, m, B->rmap->N); 3470 PetscCheck(PetscAbs(A->rmap->bs) == PetscAbs(B->rmap->bs), PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "A row bs %" PetscInt_FMT " != B row bs %" PetscInt_FMT, A->rmap->bs, B->rmap->bs); 3471 /* remove check below; When B is created using iscol_o from ISGetSeqIS_SameColDist_Private(), its bs may not be same as A */ 3472 /* PetscCheck(A->cmap->bs == B->cmap->bs,PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"A column bs %" PetscInt_FMT " != B column bs %" PetscInt_FMT,A->cmap->bs,B->cmap->bs); */ 3473 3474 /* Get global columns of mat */ 3475 PetscCall(MPIU_Allreduce(&n, &N, 1, MPIU_INT, MPI_SUM, comm)); 3476 3477 PetscCall(MatSetSizes(*mat, m, n, PETSC_DECIDE, N)); 3478 /* Determine the type of MPI matrix that should be created from the type of matrix A, which holds the "diagonal" portion. */ 3479 PetscCall(MatGetMPIMatType_Private(A, &mpi_mat_type)); 3480 PetscCall(MatSetType(*mat, mpi_mat_type)); 3481 3482 if (A->rmap->bs > 1 || A->cmap->bs > 1) PetscCall(MatSetBlockSizes(*mat, A->rmap->bs, A->cmap->bs)); 3483 maij = (Mat_MPIAIJ *)(*mat)->data; 3484 3485 (*mat)->preallocated = PETSC_TRUE; 3486 3487 PetscCall(PetscLayoutSetUp((*mat)->rmap)); 3488 PetscCall(PetscLayoutSetUp((*mat)->cmap)); 3489 3490 /* Set A as diagonal portion of *mat */ 3491 maij->A = A; 3492 3493 nz = oi[m]; 3494 for (i = 0; i < nz; i++) { 3495 col = oj[i]; 3496 oj[i] = garray[col]; 3497 } 3498 3499 /* Set Bnew as off-diagonal portion of *mat */ 3500 PetscCall(MatSeqAIJGetArrayRead(B, &oa)); 3501 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, m, N, oi, oj, (PetscScalar *)oa, &Bnew)); 3502 PetscCall(MatSeqAIJRestoreArrayRead(B, &oa)); 3503 bnew = (Mat_SeqAIJ *)Bnew->data; 3504 bnew->maxnz = b->maxnz; /* allocated nonzeros of B */ 3505 maij->B = Bnew; 3506 3507 PetscCheck(B->rmap->N == Bnew->rmap->N, PETSC_COMM_SELF, PETSC_ERR_PLIB, "BN %" PetscInt_FMT " != BnewN %" PetscInt_FMT, B->rmap->N, Bnew->rmap->N); 3508 3509 b->singlemalloc = PETSC_FALSE; /* B arrays are shared by Bnew */ 3510 b->free_a = PETSC_FALSE; 3511 b->free_ij = PETSC_FALSE; 3512 PetscCall(MatDestroy(&B)); 3513 3514 bnew->singlemalloc = PETSC_TRUE; /* arrays will be freed by MatDestroy(&Bnew) */ 3515 bnew->free_a = PETSC_TRUE; 3516 bnew->free_ij = PETSC_TRUE; 3517 3518 /* condense columns of maij->B */ 3519 PetscCall(MatSetOption(*mat, MAT_NO_OFF_PROC_ENTRIES, PETSC_TRUE)); 3520 PetscCall(MatAssemblyBegin(*mat, MAT_FINAL_ASSEMBLY)); 3521 PetscCall(MatAssemblyEnd(*mat, MAT_FINAL_ASSEMBLY)); 3522 PetscCall(MatSetOption(*mat, MAT_NO_OFF_PROC_ENTRIES, PETSC_FALSE)); 3523 PetscCall(MatSetOption(*mat, MAT_NEW_NONZERO_LOCATION_ERR, PETSC_TRUE)); 3524 PetscFunctionReturn(PETSC_SUCCESS); 3525 } 3526 3527 extern PetscErrorCode MatCreateSubMatrices_MPIAIJ_SingleIS_Local(Mat, PetscInt, const IS[], const IS[], MatReuse, PetscBool, Mat *); 3528 3529 PetscErrorCode MatCreateSubMatrix_MPIAIJ_SameRowDist(Mat mat, IS isrow, IS iscol, IS iscol_local, MatReuse call, Mat *newmat) 3530 { 3531 PetscInt i, m, n, rstart, row, rend, nz, j, bs, cbs; 3532 PetscInt *ii, *jj, nlocal, *dlens, *olens, dlen, olen, jend, mglobal; 3533 Mat_MPIAIJ *a = (Mat_MPIAIJ *)mat->data; 3534 Mat M, Msub, B = a->B; 3535 MatScalar *aa; 3536 Mat_SeqAIJ *aij; 3537 PetscInt *garray = a->garray, *colsub, Ncols; 3538 PetscInt count, Bn = B->cmap->N, cstart = mat->cmap->rstart, cend = mat->cmap->rend; 3539 IS iscol_sub, iscmap; 3540 const PetscInt *is_idx, *cmap; 3541 PetscBool allcolumns = PETSC_FALSE; 3542 MPI_Comm comm; 3543 3544 PetscFunctionBegin; 3545 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 3546 if (call == MAT_REUSE_MATRIX) { 3547 PetscCall(PetscObjectQuery((PetscObject)*newmat, "SubIScol", (PetscObject *)&iscol_sub)); 3548 PetscCheck(iscol_sub, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "SubIScol passed in was not used before, cannot reuse"); 3549 PetscCall(ISGetLocalSize(iscol_sub, &count)); 3550 3551 PetscCall(PetscObjectQuery((PetscObject)*newmat, "Subcmap", (PetscObject *)&iscmap)); 3552 PetscCheck(iscmap, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Subcmap passed in was not used before, cannot reuse"); 3553 3554 PetscCall(PetscObjectQuery((PetscObject)*newmat, "SubMatrix", (PetscObject *)&Msub)); 3555 PetscCheck(Msub, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Submatrix passed in was not used before, cannot reuse"); 3556 3557 PetscCall(MatCreateSubMatrices_MPIAIJ_SingleIS_Local(mat, 1, &isrow, &iscol_sub, MAT_REUSE_MATRIX, PETSC_FALSE, &Msub)); 3558 3559 } else { /* call == MAT_INITIAL_MATRIX) */ 3560 PetscBool flg; 3561 3562 PetscCall(ISGetLocalSize(iscol, &n)); 3563 PetscCall(ISGetSize(iscol, &Ncols)); 3564 3565 /* (1) iscol -> nonscalable iscol_local */ 3566 /* Check for special case: each processor gets entire matrix columns */ 3567 PetscCall(ISIdentity(iscol_local, &flg)); 3568 if (flg && n == mat->cmap->N) allcolumns = PETSC_TRUE; 3569 PetscCall(MPIU_Allreduce(MPI_IN_PLACE, &allcolumns, 1, MPIU_BOOL, MPI_LAND, PetscObjectComm((PetscObject)mat))); 3570 if (allcolumns) { 3571 iscol_sub = iscol_local; 3572 PetscCall(PetscObjectReference((PetscObject)iscol_local)); 3573 PetscCall(ISCreateStride(PETSC_COMM_SELF, n, 0, 1, &iscmap)); 3574 3575 } else { 3576 /* (2) iscol_local -> iscol_sub and iscmap. Implementation below requires iscol_local be sorted, it can have duplicate indices */ 3577 PetscInt *idx, *cmap1, k; 3578 PetscCall(PetscMalloc1(Ncols, &idx)); 3579 PetscCall(PetscMalloc1(Ncols, &cmap1)); 3580 PetscCall(ISGetIndices(iscol_local, &is_idx)); 3581 count = 0; 3582 k = 0; 3583 for (i = 0; i < Ncols; i++) { 3584 j = is_idx[i]; 3585 if (j >= cstart && j < cend) { 3586 /* diagonal part of mat */ 3587 idx[count] = j; 3588 cmap1[count++] = i; /* column index in submat */ 3589 } else if (Bn) { 3590 /* off-diagonal part of mat */ 3591 if (j == garray[k]) { 3592 idx[count] = j; 3593 cmap1[count++] = i; /* column index in submat */ 3594 } else if (j > garray[k]) { 3595 while (j > garray[k] && k < Bn - 1) k++; 3596 if (j == garray[k]) { 3597 idx[count] = j; 3598 cmap1[count++] = i; /* column index in submat */ 3599 } 3600 } 3601 } 3602 } 3603 PetscCall(ISRestoreIndices(iscol_local, &is_idx)); 3604 3605 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, count, idx, PETSC_OWN_POINTER, &iscol_sub)); 3606 PetscCall(ISGetBlockSize(iscol, &cbs)); 3607 PetscCall(ISSetBlockSize(iscol_sub, cbs)); 3608 3609 PetscCall(ISCreateGeneral(PetscObjectComm((PetscObject)iscol_local), count, cmap1, PETSC_OWN_POINTER, &iscmap)); 3610 } 3611 3612 /* (3) Create sequential Msub */ 3613 PetscCall(MatCreateSubMatrices_MPIAIJ_SingleIS_Local(mat, 1, &isrow, &iscol_sub, MAT_INITIAL_MATRIX, allcolumns, &Msub)); 3614 } 3615 3616 PetscCall(ISGetLocalSize(iscol_sub, &count)); 3617 aij = (Mat_SeqAIJ *)(Msub)->data; 3618 ii = aij->i; 3619 PetscCall(ISGetIndices(iscmap, &cmap)); 3620 3621 /* 3622 m - number of local rows 3623 Ncols - number of columns (same on all processors) 3624 rstart - first row in new global matrix generated 3625 */ 3626 PetscCall(MatGetSize(Msub, &m, NULL)); 3627 3628 if (call == MAT_INITIAL_MATRIX) { 3629 /* (4) Create parallel newmat */ 3630 PetscMPIInt rank, size; 3631 PetscInt csize; 3632 3633 PetscCallMPI(MPI_Comm_size(comm, &size)); 3634 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 3635 3636 /* 3637 Determine the number of non-zeros in the diagonal and off-diagonal 3638 portions of the matrix in order to do correct preallocation 3639 */ 3640 3641 /* first get start and end of "diagonal" columns */ 3642 PetscCall(ISGetLocalSize(iscol, &csize)); 3643 if (csize == PETSC_DECIDE) { 3644 PetscCall(ISGetSize(isrow, &mglobal)); 3645 if (mglobal == Ncols) { /* square matrix */ 3646 nlocal = m; 3647 } else { 3648 nlocal = Ncols / size + ((Ncols % size) > rank); 3649 } 3650 } else { 3651 nlocal = csize; 3652 } 3653 PetscCallMPI(MPI_Scan(&nlocal, &rend, 1, MPIU_INT, MPI_SUM, comm)); 3654 rstart = rend - nlocal; 3655 PetscCheck(rank != size - 1 || rend == Ncols, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "Local column sizes %" PetscInt_FMT " do not add up to total number of columns %" PetscInt_FMT, rend, Ncols); 3656 3657 /* next, compute all the lengths */ 3658 jj = aij->j; 3659 PetscCall(PetscMalloc1(2 * m + 1, &dlens)); 3660 olens = dlens + m; 3661 for (i = 0; i < m; i++) { 3662 jend = ii[i + 1] - ii[i]; 3663 olen = 0; 3664 dlen = 0; 3665 for (j = 0; j < jend; j++) { 3666 if (cmap[*jj] < rstart || cmap[*jj] >= rend) olen++; 3667 else dlen++; 3668 jj++; 3669 } 3670 olens[i] = olen; 3671 dlens[i] = dlen; 3672 } 3673 3674 PetscCall(ISGetBlockSize(isrow, &bs)); 3675 PetscCall(ISGetBlockSize(iscol, &cbs)); 3676 3677 PetscCall(MatCreate(comm, &M)); 3678 PetscCall(MatSetSizes(M, m, nlocal, PETSC_DECIDE, Ncols)); 3679 PetscCall(MatSetBlockSizes(M, bs, cbs)); 3680 PetscCall(MatSetType(M, ((PetscObject)mat)->type_name)); 3681 PetscCall(MatMPIAIJSetPreallocation(M, 0, dlens, 0, olens)); 3682 PetscCall(PetscFree(dlens)); 3683 3684 } else { /* call == MAT_REUSE_MATRIX */ 3685 M = *newmat; 3686 PetscCall(MatGetLocalSize(M, &i, NULL)); 3687 PetscCheck(i == m, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "Previous matrix must be same size/layout as request"); 3688 PetscCall(MatZeroEntries(M)); 3689 /* 3690 The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 3691 rather than the slower MatSetValues(). 3692 */ 3693 M->was_assembled = PETSC_TRUE; 3694 M->assembled = PETSC_FALSE; 3695 } 3696 3697 /* (5) Set values of Msub to *newmat */ 3698 PetscCall(PetscMalloc1(count, &colsub)); 3699 PetscCall(MatGetOwnershipRange(M, &rstart, NULL)); 3700 3701 jj = aij->j; 3702 PetscCall(MatSeqAIJGetArrayRead(Msub, (const PetscScalar **)&aa)); 3703 for (i = 0; i < m; i++) { 3704 row = rstart + i; 3705 nz = ii[i + 1] - ii[i]; 3706 for (j = 0; j < nz; j++) colsub[j] = cmap[jj[j]]; 3707 PetscCall(MatSetValues_MPIAIJ(M, 1, &row, nz, colsub, aa, INSERT_VALUES)); 3708 jj += nz; 3709 aa += nz; 3710 } 3711 PetscCall(MatSeqAIJRestoreArrayRead(Msub, (const PetscScalar **)&aa)); 3712 PetscCall(ISRestoreIndices(iscmap, &cmap)); 3713 3714 PetscCall(MatAssemblyBegin(M, MAT_FINAL_ASSEMBLY)); 3715 PetscCall(MatAssemblyEnd(M, MAT_FINAL_ASSEMBLY)); 3716 3717 PetscCall(PetscFree(colsub)); 3718 3719 /* save Msub, iscol_sub and iscmap used in processor for next request */ 3720 if (call == MAT_INITIAL_MATRIX) { 3721 *newmat = M; 3722 PetscCall(PetscObjectCompose((PetscObject)(*newmat), "SubMatrix", (PetscObject)Msub)); 3723 PetscCall(MatDestroy(&Msub)); 3724 3725 PetscCall(PetscObjectCompose((PetscObject)(*newmat), "SubIScol", (PetscObject)iscol_sub)); 3726 PetscCall(ISDestroy(&iscol_sub)); 3727 3728 PetscCall(PetscObjectCompose((PetscObject)(*newmat), "Subcmap", (PetscObject)iscmap)); 3729 PetscCall(ISDestroy(&iscmap)); 3730 3731 if (iscol_local) { 3732 PetscCall(PetscObjectCompose((PetscObject)(*newmat), "ISAllGather", (PetscObject)iscol_local)); 3733 PetscCall(ISDestroy(&iscol_local)); 3734 } 3735 } 3736 PetscFunctionReturn(PETSC_SUCCESS); 3737 } 3738 3739 /* 3740 Not great since it makes two copies of the submatrix, first an SeqAIJ 3741 in local and then by concatenating the local matrices the end result. 3742 Writing it directly would be much like MatCreateSubMatrices_MPIAIJ() 3743 3744 This requires a sequential iscol with all indices. 3745 */ 3746 PetscErrorCode MatCreateSubMatrix_MPIAIJ_nonscalable(Mat mat, IS isrow, IS iscol, PetscInt csize, MatReuse call, Mat *newmat) 3747 { 3748 PetscMPIInt rank, size; 3749 PetscInt i, m, n, rstart, row, rend, nz, *cwork, j, bs, cbs; 3750 PetscInt *ii, *jj, nlocal, *dlens, *olens, dlen, olen, jend, mglobal; 3751 Mat M, Mreuse; 3752 MatScalar *aa, *vwork; 3753 MPI_Comm comm; 3754 Mat_SeqAIJ *aij; 3755 PetscBool colflag, allcolumns = PETSC_FALSE; 3756 3757 PetscFunctionBegin; 3758 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 3759 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 3760 PetscCallMPI(MPI_Comm_size(comm, &size)); 3761 3762 /* Check for special case: each processor gets entire matrix columns */ 3763 PetscCall(ISIdentity(iscol, &colflag)); 3764 PetscCall(ISGetLocalSize(iscol, &n)); 3765 if (colflag && n == mat->cmap->N) allcolumns = PETSC_TRUE; 3766 PetscCall(MPIU_Allreduce(MPI_IN_PLACE, &allcolumns, 1, MPIU_BOOL, MPI_LAND, PetscObjectComm((PetscObject)mat))); 3767 3768 if (call == MAT_REUSE_MATRIX) { 3769 PetscCall(PetscObjectQuery((PetscObject)*newmat, "SubMatrix", (PetscObject *)&Mreuse)); 3770 PetscCheck(Mreuse, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Submatrix passed in was not used before, cannot reuse"); 3771 PetscCall(MatCreateSubMatrices_MPIAIJ_SingleIS_Local(mat, 1, &isrow, &iscol, MAT_REUSE_MATRIX, allcolumns, &Mreuse)); 3772 } else { 3773 PetscCall(MatCreateSubMatrices_MPIAIJ_SingleIS_Local(mat, 1, &isrow, &iscol, MAT_INITIAL_MATRIX, allcolumns, &Mreuse)); 3774 } 3775 3776 /* 3777 m - number of local rows 3778 n - number of columns (same on all processors) 3779 rstart - first row in new global matrix generated 3780 */ 3781 PetscCall(MatGetSize(Mreuse, &m, &n)); 3782 PetscCall(MatGetBlockSizes(Mreuse, &bs, &cbs)); 3783 if (call == MAT_INITIAL_MATRIX) { 3784 aij = (Mat_SeqAIJ *)(Mreuse)->data; 3785 ii = aij->i; 3786 jj = aij->j; 3787 3788 /* 3789 Determine the number of non-zeros in the diagonal and off-diagonal 3790 portions of the matrix in order to do correct preallocation 3791 */ 3792 3793 /* first get start and end of "diagonal" columns */ 3794 if (csize == PETSC_DECIDE) { 3795 PetscCall(ISGetSize(isrow, &mglobal)); 3796 if (mglobal == n) { /* square matrix */ 3797 nlocal = m; 3798 } else { 3799 nlocal = n / size + ((n % size) > rank); 3800 } 3801 } else { 3802 nlocal = csize; 3803 } 3804 PetscCallMPI(MPI_Scan(&nlocal, &rend, 1, MPIU_INT, MPI_SUM, comm)); 3805 rstart = rend - nlocal; 3806 PetscCheck(rank != size - 1 || rend == n, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "Local column sizes %" PetscInt_FMT " do not add up to total number of columns %" PetscInt_FMT, rend, n); 3807 3808 /* next, compute all the lengths */ 3809 PetscCall(PetscMalloc1(2 * m + 1, &dlens)); 3810 olens = dlens + m; 3811 for (i = 0; i < m; i++) { 3812 jend = ii[i + 1] - ii[i]; 3813 olen = 0; 3814 dlen = 0; 3815 for (j = 0; j < jend; j++) { 3816 if (*jj < rstart || *jj >= rend) olen++; 3817 else dlen++; 3818 jj++; 3819 } 3820 olens[i] = olen; 3821 dlens[i] = dlen; 3822 } 3823 PetscCall(MatCreate(comm, &M)); 3824 PetscCall(MatSetSizes(M, m, nlocal, PETSC_DECIDE, n)); 3825 PetscCall(MatSetBlockSizes(M, bs, cbs)); 3826 PetscCall(MatSetType(M, ((PetscObject)mat)->type_name)); 3827 PetscCall(MatMPIAIJSetPreallocation(M, 0, dlens, 0, olens)); 3828 PetscCall(PetscFree(dlens)); 3829 } else { 3830 PetscInt ml, nl; 3831 3832 M = *newmat; 3833 PetscCall(MatGetLocalSize(M, &ml, &nl)); 3834 PetscCheck(ml == m, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "Previous matrix must be same size/layout as request"); 3835 PetscCall(MatZeroEntries(M)); 3836 /* 3837 The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 3838 rather than the slower MatSetValues(). 3839 */ 3840 M->was_assembled = PETSC_TRUE; 3841 M->assembled = PETSC_FALSE; 3842 } 3843 PetscCall(MatGetOwnershipRange(M, &rstart, &rend)); 3844 aij = (Mat_SeqAIJ *)(Mreuse)->data; 3845 ii = aij->i; 3846 jj = aij->j; 3847 3848 /* trigger copy to CPU if needed */ 3849 PetscCall(MatSeqAIJGetArrayRead(Mreuse, (const PetscScalar **)&aa)); 3850 for (i = 0; i < m; i++) { 3851 row = rstart + i; 3852 nz = ii[i + 1] - ii[i]; 3853 cwork = jj; 3854 jj += nz; 3855 vwork = aa; 3856 aa += nz; 3857 PetscCall(MatSetValues_MPIAIJ(M, 1, &row, nz, cwork, vwork, INSERT_VALUES)); 3858 } 3859 PetscCall(MatSeqAIJRestoreArrayRead(Mreuse, (const PetscScalar **)&aa)); 3860 3861 PetscCall(MatAssemblyBegin(M, MAT_FINAL_ASSEMBLY)); 3862 PetscCall(MatAssemblyEnd(M, MAT_FINAL_ASSEMBLY)); 3863 *newmat = M; 3864 3865 /* save submatrix used in processor for next request */ 3866 if (call == MAT_INITIAL_MATRIX) { 3867 PetscCall(PetscObjectCompose((PetscObject)M, "SubMatrix", (PetscObject)Mreuse)); 3868 PetscCall(MatDestroy(&Mreuse)); 3869 } 3870 PetscFunctionReturn(PETSC_SUCCESS); 3871 } 3872 3873 static PetscErrorCode MatMPIAIJSetPreallocationCSR_MPIAIJ(Mat B, const PetscInt Ii[], const PetscInt J[], const PetscScalar v[]) 3874 { 3875 PetscInt m, cstart, cend, j, nnz, i, d, *ld; 3876 PetscInt *d_nnz, *o_nnz, nnz_max = 0, rstart, ii; 3877 const PetscInt *JJ; 3878 PetscBool nooffprocentries; 3879 Mat_MPIAIJ *Aij = (Mat_MPIAIJ *)B->data; 3880 3881 PetscFunctionBegin; 3882 PetscCheck(Ii[0] == 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Ii[0] must be 0 it is %" PetscInt_FMT, Ii[0]); 3883 3884 PetscCall(PetscLayoutSetUp(B->rmap)); 3885 PetscCall(PetscLayoutSetUp(B->cmap)); 3886 m = B->rmap->n; 3887 cstart = B->cmap->rstart; 3888 cend = B->cmap->rend; 3889 rstart = B->rmap->rstart; 3890 3891 PetscCall(PetscCalloc2(m, &d_nnz, m, &o_nnz)); 3892 3893 if (PetscDefined(USE_DEBUG)) { 3894 for (i = 0; i < m; i++) { 3895 nnz = Ii[i + 1] - Ii[i]; 3896 JJ = J ? J + Ii[i] : NULL; 3897 PetscCheck(nnz >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Local row %" PetscInt_FMT " has a negative %" PetscInt_FMT " number of columns", i, nnz); 3898 PetscCheck(!nnz || !(JJ[0] < 0), PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Row %" PetscInt_FMT " starts with negative column index %" PetscInt_FMT, i, JJ[0]); 3899 PetscCheck(!nnz || !(JJ[nnz - 1] >= B->cmap->N), PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Row %" PetscInt_FMT " ends with too large a column index %" PetscInt_FMT " (max allowed %" PetscInt_FMT ")", i, JJ[nnz - 1], B->cmap->N); 3900 } 3901 } 3902 3903 for (i = 0; i < m; i++) { 3904 nnz = Ii[i + 1] - Ii[i]; 3905 JJ = J ? J + Ii[i] : NULL; 3906 nnz_max = PetscMax(nnz_max, nnz); 3907 d = 0; 3908 for (j = 0; j < nnz; j++) { 3909 if (cstart <= JJ[j] && JJ[j] < cend) d++; 3910 } 3911 d_nnz[i] = d; 3912 o_nnz[i] = nnz - d; 3913 } 3914 PetscCall(MatMPIAIJSetPreallocation(B, 0, d_nnz, 0, o_nnz)); 3915 PetscCall(PetscFree2(d_nnz, o_nnz)); 3916 3917 for (i = 0; i < m; i++) { 3918 ii = i + rstart; 3919 PetscCall(MatSetValues_MPIAIJ(B, 1, &ii, Ii[i + 1] - Ii[i], J ? J + Ii[i] : NULL, v ? v + Ii[i] : NULL, INSERT_VALUES)); 3920 } 3921 nooffprocentries = B->nooffprocentries; 3922 B->nooffprocentries = PETSC_TRUE; 3923 PetscCall(MatAssemblyBegin(B, MAT_FINAL_ASSEMBLY)); 3924 PetscCall(MatAssemblyEnd(B, MAT_FINAL_ASSEMBLY)); 3925 B->nooffprocentries = nooffprocentries; 3926 3927 /* count number of entries below block diagonal */ 3928 PetscCall(PetscFree(Aij->ld)); 3929 PetscCall(PetscCalloc1(m, &ld)); 3930 Aij->ld = ld; 3931 for (i = 0; i < m; i++) { 3932 nnz = Ii[i + 1] - Ii[i]; 3933 j = 0; 3934 while (j < nnz && J[j] < cstart) j++; 3935 ld[i] = j; 3936 if (J) J += nnz; 3937 } 3938 3939 PetscCall(MatSetOption(B, MAT_NEW_NONZERO_LOCATION_ERR, PETSC_TRUE)); 3940 PetscFunctionReturn(PETSC_SUCCESS); 3941 } 3942 3943 /*@ 3944 MatMPIAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in `MATAIJ` format 3945 (the default parallel PETSc format). 3946 3947 Collective 3948 3949 Input Parameters: 3950 + B - the matrix 3951 . i - the indices into j for the start of each local row (starts with zero) 3952 . j - the column indices for each local row (starts with zero) 3953 - v - optional values in the matrix 3954 3955 Level: developer 3956 3957 Notes: 3958 The `i`, `j`, and `v` arrays ARE copied by this routine into the internal format used by PETSc; 3959 thus you CANNOT change the matrix entries by changing the values of `v` after you have 3960 called this routine. Use `MatCreateMPIAIJWithSplitArrays()` to avoid needing to copy the arrays. 3961 3962 The `i` and `j` indices are 0 based, and `i` indices are indices corresponding to the local `j` array. 3963 3964 The format which is used for the sparse matrix input, is equivalent to a 3965 row-major ordering.. i.e for the following matrix, the input data expected is 3966 as shown 3967 3968 .vb 3969 1 0 0 3970 2 0 3 P0 3971 ------- 3972 4 5 6 P1 3973 3974 Process0 [P0] rows_owned=[0,1] 3975 i = {0,1,3} [size = nrow+1 = 2+1] 3976 j = {0,0,2} [size = 3] 3977 v = {1,2,3} [size = 3] 3978 3979 Process1 [P1] rows_owned=[2] 3980 i = {0,3} [size = nrow+1 = 1+1] 3981 j = {0,1,2} [size = 3] 3982 v = {4,5,6} [size = 3] 3983 .ve 3984 3985 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatCreateAIJ()`, 3986 `MatCreateSeqAIJWithArrays()`, `MatCreateMPIAIJWithSplitArrays()` 3987 @*/ 3988 PetscErrorCode MatMPIAIJSetPreallocationCSR(Mat B, const PetscInt i[], const PetscInt j[], const PetscScalar v[]) 3989 { 3990 PetscFunctionBegin; 3991 PetscTryMethod(B, "MatMPIAIJSetPreallocationCSR_C", (Mat, const PetscInt[], const PetscInt[], const PetscScalar[]), (B, i, j, v)); 3992 PetscFunctionReturn(PETSC_SUCCESS); 3993 } 3994 3995 /*@C 3996 MatMPIAIJSetPreallocation - Preallocates memory for a sparse parallel matrix in `MATMPIAIJ` format 3997 (the default parallel PETSc format). For good matrix assembly performance 3998 the user should preallocate the matrix storage by setting the parameters 3999 `d_nz` (or `d_nnz`) and `o_nz` (or `o_nnz`). 4000 4001 Collective 4002 4003 Input Parameters: 4004 + B - the matrix 4005 . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 4006 (same value is used for all local rows) 4007 . d_nnz - array containing the number of nonzeros in the various rows of the 4008 DIAGONAL portion of the local submatrix (possibly different for each row) 4009 or `NULL` (`PETSC_NULL_INTEGER` in Fortran), if `d_nz` is used to specify the nonzero structure. 4010 The size of this array is equal to the number of local rows, i.e 'm'. 4011 For matrices that will be factored, you must leave room for (and set) 4012 the diagonal entry even if it is zero. 4013 . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 4014 submatrix (same value is used for all local rows). 4015 - o_nnz - array containing the number of nonzeros in the various rows of the 4016 OFF-DIAGONAL portion of the local submatrix (possibly different for 4017 each row) or `NULL` (`PETSC_NULL_INTEGER` in Fortran), if `o_nz` is used to specify the nonzero 4018 structure. The size of this array is equal to the number 4019 of local rows, i.e 'm'. 4020 4021 Example Usage: 4022 Consider the following 8x8 matrix with 34 non-zero values, that is 4023 assembled across 3 processors. Lets assume that proc0 owns 3 rows, 4024 proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 4025 as follows 4026 4027 .vb 4028 1 2 0 | 0 3 0 | 0 4 4029 Proc0 0 5 6 | 7 0 0 | 8 0 4030 9 0 10 | 11 0 0 | 12 0 4031 ------------------------------------- 4032 13 0 14 | 15 16 17 | 0 0 4033 Proc1 0 18 0 | 19 20 21 | 0 0 4034 0 0 0 | 22 23 0 | 24 0 4035 ------------------------------------- 4036 Proc2 25 26 27 | 0 0 28 | 29 0 4037 30 0 0 | 31 32 33 | 0 34 4038 .ve 4039 4040 This can be represented as a collection of submatrices as 4041 .vb 4042 A B C 4043 D E F 4044 G H I 4045 .ve 4046 4047 Where the submatrices A,B,C are owned by proc0, D,E,F are 4048 owned by proc1, G,H,I are owned by proc2. 4049 4050 The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 4051 The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 4052 The 'M','N' parameters are 8,8, and have the same values on all procs. 4053 4054 The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 4055 submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 4056 corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 4057 Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 4058 part as `MATSEQAIJ` matrices. For example, proc1 will store [E] as a `MATSEQAIJ` 4059 matrix, ans [DF] as another `MATSEQAIJ` matrix. 4060 4061 When `d_nz`, `o_nz` parameters are specified, `d_nz` storage elements are 4062 allocated for every row of the local diagonal submatrix, and `o_nz` 4063 storage locations are allocated for every row of the OFF-DIAGONAL submat. 4064 One way to choose `d_nz` and `o_nz` is to use the max nonzerors per local 4065 rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 4066 In this case, the values of `d_nz`, `o_nz` are 4067 .vb 4068 proc0 dnz = 2, o_nz = 2 4069 proc1 dnz = 3, o_nz = 2 4070 proc2 dnz = 1, o_nz = 4 4071 .ve 4072 We are allocating `m`*(`d_nz`+`o_nz`) storage locations for every proc. This 4073 translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 4074 for proc3. i.e we are using 12+15+10=37 storage locations to store 4075 34 values. 4076 4077 When `d_nnz`, `o_nnz` parameters are specified, the storage is specified 4078 for every row, corresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 4079 In the above case the values for `d_nnz`, `o_nnz` are 4080 .vb 4081 proc0 d_nnz = [2,2,2] and o_nnz = [2,2,2] 4082 proc1 d_nnz = [3,3,2] and o_nnz = [2,1,1] 4083 proc2 d_nnz = [1,1] and o_nnz = [4,4] 4084 .ve 4085 Here the space allocated is sum of all the above values i.e 34, and 4086 hence pre-allocation is perfect. 4087 4088 Level: intermediate 4089 4090 Notes: 4091 If the *_nnz parameter is given then the *_nz parameter is ignored 4092 4093 The `MATAIJ` format, also called compressed row storage (CSR), is compatible with standard Fortran 4094 storage. The stored row and column indices begin with zero. 4095 See [Sparse Matrices](sec_matsparse) for details. 4096 4097 The parallel matrix is partitioned such that the first m0 rows belong to 4098 process 0, the next m1 rows belong to process 1, the next m2 rows belong 4099 to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 4100 4101 The DIAGONAL portion of the local submatrix of a processor can be defined 4102 as the submatrix which is obtained by extraction the part corresponding to 4103 the rows r1-r2 and columns c1-c2 of the global matrix, where r1 is the 4104 first row that belongs to the processor, r2 is the last row belonging to 4105 the this processor, and c1-c2 is range of indices of the local part of a 4106 vector suitable for applying the matrix to. This is an mxn matrix. In the 4107 common case of a square matrix, the row and column ranges are the same and 4108 the DIAGONAL part is also square. The remaining portion of the local 4109 submatrix (mxN) constitute the OFF-DIAGONAL portion. 4110 4111 If `o_nnz` and `d_nnz` are specified, then `o_nz` and `d_nz` are ignored. 4112 4113 You can call `MatGetInfo()` to get information on how effective the preallocation was; 4114 for example the fields mallocs,nz_allocated,nz_used,nz_unneeded; 4115 You can also run with the option `-info` and look for messages with the string 4116 malloc in them to see if additional memory allocation was needed. 4117 4118 .seealso: [](ch_matrices), `Mat`, [Sparse Matrices](sec_matsparse), `MATMPIAIJ`, `MATAIJ`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatCreateAIJ()`, `MatMPIAIJSetPreallocationCSR()`, 4119 `MatGetInfo()`, `PetscSplitOwnership()` 4120 @*/ 4121 PetscErrorCode MatMPIAIJSetPreallocation(Mat B, PetscInt d_nz, const PetscInt d_nnz[], PetscInt o_nz, const PetscInt o_nnz[]) 4122 { 4123 PetscFunctionBegin; 4124 PetscValidHeaderSpecific(B, MAT_CLASSID, 1); 4125 PetscValidType(B, 1); 4126 PetscTryMethod(B, "MatMPIAIJSetPreallocation_C", (Mat, PetscInt, const PetscInt[], PetscInt, const PetscInt[]), (B, d_nz, d_nnz, o_nz, o_nnz)); 4127 PetscFunctionReturn(PETSC_SUCCESS); 4128 } 4129 4130 /*@ 4131 MatCreateMPIAIJWithArrays - creates a `MATMPIAIJ` matrix using arrays that contain in standard 4132 CSR format for the local rows. 4133 4134 Collective 4135 4136 Input Parameters: 4137 + comm - MPI communicator 4138 . m - number of local rows (Cannot be `PETSC_DECIDE`) 4139 . n - This value should be the same as the local size used in creating the 4140 x vector for the matrix-vector product y = Ax. (or `PETSC_DECIDE` to have 4141 calculated if N is given) For square matrices n is almost always m. 4142 . M - number of global rows (or `PETSC_DETERMINE` to have calculated if m is given) 4143 . N - number of global columns (or `PETSC_DETERMINE` to have calculated if n is given) 4144 . i - row indices; that is i[0] = 0, i[row] = i[row-1] + number of elements in that row of the matrix 4145 . j - column indices 4146 - a - optional matrix values 4147 4148 Output Parameter: 4149 . mat - the matrix 4150 4151 Level: intermediate 4152 4153 Notes: 4154 The `i`, `j`, and `a` arrays ARE copied by this routine into the internal format used by PETSc; 4155 thus you CANNOT change the matrix entries by changing the values of a[] after you have 4156 called this routine. Use `MatCreateMPIAIJWithSplitArrays()` to avoid needing to copy the arrays. 4157 4158 The `i` and `j` indices are 0 based, and `i` indices are indices corresponding to the local `j` array. 4159 4160 The format which is used for the sparse matrix input, is equivalent to a 4161 row-major ordering.. i.e for the following matrix, the input data expected is 4162 as shown 4163 4164 Once you have created the matrix you can update it with new numerical values using MatUpdateMPIAIJWithArrays 4165 .vb 4166 1 0 0 4167 2 0 3 P0 4168 ------- 4169 4 5 6 P1 4170 4171 Process0 [P0] rows_owned=[0,1] 4172 i = {0,1,3} [size = nrow+1 = 2+1] 4173 j = {0,0,2} [size = 3] 4174 v = {1,2,3} [size = 3] 4175 4176 Process1 [P1] rows_owned=[2] 4177 i = {0,3} [size = nrow+1 = 1+1] 4178 j = {0,1,2} [size = 3] 4179 v = {4,5,6} [size = 3] 4180 .ve 4181 4182 .seealso: [](ch_matrices), `Mat`, `MATMPIAIK`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatMPIAIJSetPreallocationCSR()`, 4183 `MATMPIAIJ`, `MatCreateAIJ()`, `MatCreateMPIAIJWithSplitArrays()`, `MatUpdateMPIAIJWithArrays()` 4184 @*/ 4185 PetscErrorCode MatCreateMPIAIJWithArrays(MPI_Comm comm, PetscInt m, PetscInt n, PetscInt M, PetscInt N, const PetscInt i[], const PetscInt j[], const PetscScalar a[], Mat *mat) 4186 { 4187 PetscFunctionBegin; 4188 PetscCheck(!i || !i[0], PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "i (row indices) must start with 0"); 4189 PetscCheck(m >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "local number of rows (m) cannot be PETSC_DECIDE, or negative"); 4190 PetscCall(MatCreate(comm, mat)); 4191 PetscCall(MatSetSizes(*mat, m, n, M, N)); 4192 /* PetscCall(MatSetBlockSizes(M,bs,cbs)); */ 4193 PetscCall(MatSetType(*mat, MATMPIAIJ)); 4194 PetscCall(MatMPIAIJSetPreallocationCSR(*mat, i, j, a)); 4195 PetscFunctionReturn(PETSC_SUCCESS); 4196 } 4197 4198 /*@ 4199 MatUpdateMPIAIJWithArrays - updates a `MATMPIAIJ` matrix using arrays that contain in standard 4200 CSR format for the local rows. Only the numerical values are updated the other arrays must be identical to what was passed 4201 from `MatCreateMPIAIJWithArrays()` 4202 4203 Deprecated: Use `MatUpdateMPIAIJWithArray()` 4204 4205 Collective 4206 4207 Input Parameters: 4208 + mat - the matrix 4209 . m - number of local rows (Cannot be `PETSC_DECIDE`) 4210 . n - This value should be the same as the local size used in creating the 4211 x vector for the matrix-vector product y = Ax. (or `PETSC_DECIDE` to have 4212 calculated if N is given) For square matrices n is almost always m. 4213 . M - number of global rows (or `PETSC_DETERMINE` to have calculated if m is given) 4214 . N - number of global columns (or `PETSC_DETERMINE` to have calculated if n is given) 4215 . Ii - row indices; that is Ii[0] = 0, Ii[row] = Ii[row-1] + number of elements in that row of the matrix 4216 . J - column indices 4217 - v - matrix values 4218 4219 Level: deprecated 4220 4221 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatMPIAIJSetPreallocationCSR()`, 4222 `MatCreateAIJ()`, `MatCreateMPIAIJWithSplitArrays()`, `MatUpdateMPIAIJWithArray()` 4223 @*/ 4224 PetscErrorCode MatUpdateMPIAIJWithArrays(Mat mat, PetscInt m, PetscInt n, PetscInt M, PetscInt N, const PetscInt Ii[], const PetscInt J[], const PetscScalar v[]) 4225 { 4226 PetscInt nnz, i; 4227 PetscBool nooffprocentries; 4228 Mat_MPIAIJ *Aij = (Mat_MPIAIJ *)mat->data; 4229 Mat_SeqAIJ *Ad = (Mat_SeqAIJ *)Aij->A->data; 4230 PetscScalar *ad, *ao; 4231 PetscInt ldi, Iii, md; 4232 const PetscInt *Adi = Ad->i; 4233 PetscInt *ld = Aij->ld; 4234 4235 PetscFunctionBegin; 4236 PetscCheck(Ii[0] == 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "i (row indices) must start with 0"); 4237 PetscCheck(m >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "local number of rows (m) cannot be PETSC_DECIDE, or negative"); 4238 PetscCheck(m == mat->rmap->n, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Local number of rows cannot change from call to MatUpdateMPIAIJWithArrays()"); 4239 PetscCheck(n == mat->cmap->n, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Local number of columns cannot change from call to MatUpdateMPIAIJWithArrays()"); 4240 4241 PetscCall(MatSeqAIJGetArrayWrite(Aij->A, &ad)); 4242 PetscCall(MatSeqAIJGetArrayWrite(Aij->B, &ao)); 4243 4244 for (i = 0; i < m; i++) { 4245 nnz = Ii[i + 1] - Ii[i]; 4246 Iii = Ii[i]; 4247 ldi = ld[i]; 4248 md = Adi[i + 1] - Adi[i]; 4249 PetscCall(PetscArraycpy(ao, v + Iii, ldi)); 4250 PetscCall(PetscArraycpy(ad, v + Iii + ldi, md)); 4251 PetscCall(PetscArraycpy(ao + ldi, v + Iii + ldi + md, nnz - ldi - md)); 4252 ad += md; 4253 ao += nnz - md; 4254 } 4255 nooffprocentries = mat->nooffprocentries; 4256 mat->nooffprocentries = PETSC_TRUE; 4257 PetscCall(MatSeqAIJRestoreArrayWrite(Aij->A, &ad)); 4258 PetscCall(MatSeqAIJRestoreArrayWrite(Aij->B, &ao)); 4259 PetscCall(PetscObjectStateIncrease((PetscObject)Aij->A)); 4260 PetscCall(PetscObjectStateIncrease((PetscObject)Aij->B)); 4261 PetscCall(PetscObjectStateIncrease((PetscObject)mat)); 4262 PetscCall(MatAssemblyBegin(mat, MAT_FINAL_ASSEMBLY)); 4263 PetscCall(MatAssemblyEnd(mat, MAT_FINAL_ASSEMBLY)); 4264 mat->nooffprocentries = nooffprocentries; 4265 PetscFunctionReturn(PETSC_SUCCESS); 4266 } 4267 4268 /*@ 4269 MatUpdateMPIAIJWithArray - updates an `MATMPIAIJ` matrix using an array that contains the nonzero values 4270 4271 Collective 4272 4273 Input Parameters: 4274 + mat - the matrix 4275 - v - matrix values, stored by row 4276 4277 Level: intermediate 4278 4279 Note: 4280 The matrix must have been obtained with `MatCreateMPIAIJWithArrays()` or `MatMPIAIJSetPreallocationCSR()` 4281 4282 .seealso: [](ch_matrices), `Mat`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatMPIAIJSetPreallocationCSR()`, 4283 `MATMPIAIJ`, `MatCreateAIJ()`, `MatCreateMPIAIJWithSplitArrays()`, `MatUpdateMPIAIJWithArrays()` 4284 @*/ 4285 PetscErrorCode MatUpdateMPIAIJWithArray(Mat mat, const PetscScalar v[]) 4286 { 4287 PetscInt nnz, i, m; 4288 PetscBool nooffprocentries; 4289 Mat_MPIAIJ *Aij = (Mat_MPIAIJ *)mat->data; 4290 Mat_SeqAIJ *Ad = (Mat_SeqAIJ *)Aij->A->data; 4291 Mat_SeqAIJ *Ao = (Mat_SeqAIJ *)Aij->B->data; 4292 PetscScalar *ad, *ao; 4293 const PetscInt *Adi = Ad->i, *Adj = Ao->i; 4294 PetscInt ldi, Iii, md; 4295 PetscInt *ld = Aij->ld; 4296 4297 PetscFunctionBegin; 4298 m = mat->rmap->n; 4299 4300 PetscCall(MatSeqAIJGetArrayWrite(Aij->A, &ad)); 4301 PetscCall(MatSeqAIJGetArrayWrite(Aij->B, &ao)); 4302 Iii = 0; 4303 for (i = 0; i < m; i++) { 4304 nnz = Adi[i + 1] - Adi[i] + Adj[i + 1] - Adj[i]; 4305 ldi = ld[i]; 4306 md = Adi[i + 1] - Adi[i]; 4307 PetscCall(PetscArraycpy(ao, v + Iii, ldi)); 4308 PetscCall(PetscArraycpy(ad, v + Iii + ldi, md)); 4309 PetscCall(PetscArraycpy(ao + ldi, v + Iii + ldi + md, nnz - ldi - md)); 4310 ad += md; 4311 ao += nnz - md; 4312 Iii += nnz; 4313 } 4314 nooffprocentries = mat->nooffprocentries; 4315 mat->nooffprocentries = PETSC_TRUE; 4316 PetscCall(MatSeqAIJRestoreArrayWrite(Aij->A, &ad)); 4317 PetscCall(MatSeqAIJRestoreArrayWrite(Aij->B, &ao)); 4318 PetscCall(PetscObjectStateIncrease((PetscObject)Aij->A)); 4319 PetscCall(PetscObjectStateIncrease((PetscObject)Aij->B)); 4320 PetscCall(PetscObjectStateIncrease((PetscObject)mat)); 4321 PetscCall(MatAssemblyBegin(mat, MAT_FINAL_ASSEMBLY)); 4322 PetscCall(MatAssemblyEnd(mat, MAT_FINAL_ASSEMBLY)); 4323 mat->nooffprocentries = nooffprocentries; 4324 PetscFunctionReturn(PETSC_SUCCESS); 4325 } 4326 4327 /*@C 4328 MatCreateAIJ - Creates a sparse parallel matrix in `MATAIJ` format 4329 (the default parallel PETSc format). For good matrix assembly performance 4330 the user should preallocate the matrix storage by setting the parameters 4331 `d_nz` (or `d_nnz`) and `o_nz` (or `o_nnz`). 4332 4333 Collective 4334 4335 Input Parameters: 4336 + comm - MPI communicator 4337 . m - number of local rows (or `PETSC_DECIDE` to have calculated if M is given) 4338 This value should be the same as the local size used in creating the 4339 y vector for the matrix-vector product y = Ax. 4340 . n - This value should be the same as the local size used in creating the 4341 x vector for the matrix-vector product y = Ax. (or `PETSC_DECIDE` to have 4342 calculated if N is given) For square matrices n is almost always m. 4343 . M - number of global rows (or `PETSC_DETERMINE` to have calculated if m is given) 4344 . N - number of global columns (or `PETSC_DETERMINE` to have calculated if n is given) 4345 . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 4346 (same value is used for all local rows) 4347 . d_nnz - array containing the number of nonzeros in the various rows of the 4348 DIAGONAL portion of the local submatrix (possibly different for each row) 4349 or `NULL`, if `d_nz` is used to specify the nonzero structure. 4350 The size of this array is equal to the number of local rows, i.e 'm'. 4351 . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 4352 submatrix (same value is used for all local rows). 4353 - o_nnz - array containing the number of nonzeros in the various rows of the 4354 OFF-DIAGONAL portion of the local submatrix (possibly different for 4355 each row) or `NULL`, if `o_nz` is used to specify the nonzero 4356 structure. The size of this array is equal to the number 4357 of local rows, i.e 'm'. 4358 4359 Output Parameter: 4360 . A - the matrix 4361 4362 Options Database Keys: 4363 + -mat_no_inode - Do not use inodes 4364 . -mat_inode_limit <limit> - Sets inode limit (max limit=5) 4365 - -matmult_vecscatter_view <viewer> - View the vecscatter (i.e., communication pattern) used in `MatMult()` of sparse parallel matrices. 4366 See viewer types in manual of `MatView()`. Of them, ascii_matlab, draw or binary cause the vecscatter be viewed as a matrix. 4367 Entry (i,j) is the size of message (in bytes) rank i sends to rank j in one `MatMult()` call. 4368 4369 Level: intermediate 4370 4371 Notes: 4372 It is recommended that one use `MatCreateFromOptions()` or the `MatCreate()`, `MatSetType()` and/or `MatSetFromOptions()`, 4373 MatXXXXSetPreallocation() paradigm instead of this routine directly. 4374 [MatXXXXSetPreallocation() is, for example, `MatSeqAIJSetPreallocation()`] 4375 4376 If the *_nnz parameter is given then the *_nz parameter is ignored 4377 4378 The `m`,`n`,`M`,`N` parameters specify the size of the matrix, and its partitioning across 4379 processors, while `d_nz`,`d_nnz`,`o_nz`,`o_nnz` parameters specify the approximate 4380 storage requirements for this matrix. 4381 4382 If `PETSC_DECIDE` or `PETSC_DETERMINE` is used for a particular argument on one 4383 processor than it must be used on all processors that share the object for 4384 that argument. 4385 4386 The user MUST specify either the local or global matrix dimensions 4387 (possibly both). 4388 4389 The parallel matrix is partitioned across processors such that the 4390 first m0 rows belong to process 0, the next m1 rows belong to 4391 process 1, the next m2 rows belong to process 2 etc.. where 4392 m0,m1,m2,.. are the input parameter 'm'. i.e each processor stores 4393 values corresponding to [m x N] submatrix. 4394 4395 The columns are logically partitioned with the n0 columns belonging 4396 to 0th partition, the next n1 columns belonging to the next 4397 partition etc.. where n0,n1,n2... are the input parameter 'n'. 4398 4399 The DIAGONAL portion of the local submatrix on any given processor 4400 is the submatrix corresponding to the rows and columns m,n 4401 corresponding to the given processor. i.e diagonal matrix on 4402 process 0 is [m0 x n0], diagonal matrix on process 1 is [m1 x n1] 4403 etc. The remaining portion of the local submatrix [m x (N-n)] 4404 constitute the OFF-DIAGONAL portion. The example below better 4405 illustrates this concept. 4406 4407 For a square global matrix we define each processor's diagonal portion 4408 to be its local rows and the corresponding columns (a square submatrix); 4409 each processor's off-diagonal portion encompasses the remainder of the 4410 local matrix (a rectangular submatrix). 4411 4412 If `o_nnz`, `d_nnz` are specified, then `o_nz`, and `d_nz` are ignored. 4413 4414 When calling this routine with a single process communicator, a matrix of 4415 type `MATSEQAIJ` is returned. If a matrix of type `MATMPIAIJ` is desired for this 4416 type of communicator, use the construction mechanism 4417 .vb 4418 MatCreate(..., &A); 4419 MatSetType(A, MATMPIAIJ); 4420 MatSetSizes(A, m, n, M, N); 4421 MatMPIAIJSetPreallocation(A, ...); 4422 .ve 4423 4424 By default, this format uses inodes (identical nodes) when possible. 4425 We search for consecutive rows with the same nonzero structure, thereby 4426 reusing matrix information to achieve increased efficiency. 4427 4428 Example Usage: 4429 Consider the following 8x8 matrix with 34 non-zero values, that is 4430 assembled across 3 processors. Lets assume that proc0 owns 3 rows, 4431 proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 4432 as follows 4433 4434 .vb 4435 1 2 0 | 0 3 0 | 0 4 4436 Proc0 0 5 6 | 7 0 0 | 8 0 4437 9 0 10 | 11 0 0 | 12 0 4438 ------------------------------------- 4439 13 0 14 | 15 16 17 | 0 0 4440 Proc1 0 18 0 | 19 20 21 | 0 0 4441 0 0 0 | 22 23 0 | 24 0 4442 ------------------------------------- 4443 Proc2 25 26 27 | 0 0 28 | 29 0 4444 30 0 0 | 31 32 33 | 0 34 4445 .ve 4446 4447 This can be represented as a collection of submatrices as 4448 4449 .vb 4450 A B C 4451 D E F 4452 G H I 4453 .ve 4454 4455 Where the submatrices A,B,C are owned by proc0, D,E,F are 4456 owned by proc1, G,H,I are owned by proc2. 4457 4458 The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 4459 The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 4460 The 'M','N' parameters are 8,8, and have the same values on all procs. 4461 4462 The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 4463 submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 4464 corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 4465 Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 4466 part as `MATSEQAIJ` matrices. For example, proc1 will store [E] as a `MATSEQAIJ` 4467 matrix, ans [DF] as another SeqAIJ matrix. 4468 4469 When `d_nz`, `o_nz` parameters are specified, `d_nz` storage elements are 4470 allocated for every row of the local diagonal submatrix, and `o_nz` 4471 storage locations are allocated for every row of the OFF-DIAGONAL submat. 4472 One way to choose `d_nz` and `o_nz` is to use the max nonzerors per local 4473 rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 4474 In this case, the values of `d_nz`,`o_nz` are 4475 .vb 4476 proc0 dnz = 2, o_nz = 2 4477 proc1 dnz = 3, o_nz = 2 4478 proc2 dnz = 1, o_nz = 4 4479 .ve 4480 We are allocating m*(`d_nz`+`o_nz`) storage locations for every proc. This 4481 translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 4482 for proc3. i.e we are using 12+15+10=37 storage locations to store 4483 34 values. 4484 4485 When `d_nnz`, `o_nnz` parameters are specified, the storage is specified 4486 for every row, corresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 4487 In the above case the values for d_nnz,o_nnz are 4488 .vb 4489 proc0 d_nnz = [2,2,2] and o_nnz = [2,2,2] 4490 proc1 d_nnz = [3,3,2] and o_nnz = [2,1,1] 4491 proc2 d_nnz = [1,1] and o_nnz = [4,4] 4492 .ve 4493 Here the space allocated is sum of all the above values i.e 34, and 4494 hence pre-allocation is perfect. 4495 4496 .seealso: [](ch_matrices), `Mat`, [Sparse Matrix Creation](sec_matsparse), `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatMPIAIJSetPreallocationCSR()`, 4497 `MATMPIAIJ`, `MatCreateMPIAIJWithArrays()` 4498 @*/ 4499 PetscErrorCode MatCreateAIJ(MPI_Comm comm, PetscInt m, PetscInt n, PetscInt M, PetscInt N, PetscInt d_nz, const PetscInt d_nnz[], PetscInt o_nz, const PetscInt o_nnz[], Mat *A) 4500 { 4501 PetscMPIInt size; 4502 4503 PetscFunctionBegin; 4504 PetscCall(MatCreate(comm, A)); 4505 PetscCall(MatSetSizes(*A, m, n, M, N)); 4506 PetscCallMPI(MPI_Comm_size(comm, &size)); 4507 if (size > 1) { 4508 PetscCall(MatSetType(*A, MATMPIAIJ)); 4509 PetscCall(MatMPIAIJSetPreallocation(*A, d_nz, d_nnz, o_nz, o_nnz)); 4510 } else { 4511 PetscCall(MatSetType(*A, MATSEQAIJ)); 4512 PetscCall(MatSeqAIJSetPreallocation(*A, d_nz, d_nnz)); 4513 } 4514 PetscFunctionReturn(PETSC_SUCCESS); 4515 } 4516 4517 /*MC 4518 MatMPIAIJGetSeqAIJF90 - Returns the local pieces of this distributed matrix 4519 4520 Synopsis: 4521 MatMPIAIJGetSeqAIJF90(Mat A, Mat Ad, Mat Ao, {PetscInt, pointer :: colmap(:)},integer ierr) 4522 4523 Not Collective 4524 4525 Input Parameter: 4526 . A - the `MATMPIAIJ` matrix 4527 4528 Output Parameters: 4529 + Ad - the diagonal portion of the matrix 4530 . Ao - the off-diagonal portion of the matrix 4531 . colmap - An array mapping local column numbers of `Ao` to global column numbers of the parallel matrix 4532 - ierr - error code 4533 4534 Level: advanced 4535 4536 Note: 4537 Use `MatMPIAIJRestoreSeqAIJF90()` when you no longer need access to the matrices and `colmap` 4538 4539 .seealso: [](ch_matrices), `Mat`, [](sec_fortranarrays), `Mat`, `MATMPIAIJ`, `MatMPIAIJGetSeqAIJ()`, `MatMPIAIJRestoreSeqAIJF90()` 4540 M*/ 4541 4542 /*MC 4543 MatMPIAIJRestoreSeqAIJF90 - call after `MatMPIAIJGetSeqAIJF90()` when you no longer need access to the matrices and `colmap` 4544 4545 Synopsis: 4546 MatMPIAIJRestoreSeqAIJF90(Mat A, Mat Ad, Mat Ao, {PetscInt, pointer :: colmap(:)},integer ierr) 4547 4548 Not Collective 4549 4550 Input Parameters: 4551 + A - the `MATMPIAIJ` matrix 4552 . Ad - the diagonal portion of the matrix 4553 . Ao - the off-diagonal portion of the matrix 4554 . colmap - An array mapping local column numbers of `Ao` to global column numbers of the parallel matrix 4555 - ierr - error code 4556 4557 Level: advanced 4558 4559 .seealso: [](ch_matrices), `Mat`, [](sec_fortranarrays), `Mat`, `MATMPIAIJ`, `MatMPIAIJGetSeqAIJ()`, `MatMPIAIJGetSeqAIJF90()` 4560 M*/ 4561 4562 /*@C 4563 MatMPIAIJGetSeqAIJ - Returns the local pieces of this distributed matrix 4564 4565 Not Collective 4566 4567 Input Parameter: 4568 . A - The `MATMPIAIJ` matrix 4569 4570 Output Parameters: 4571 + Ad - The local diagonal block as a `MATSEQAIJ` matrix 4572 . Ao - The local off-diagonal block as a `MATSEQAIJ` matrix 4573 - colmap - An array mapping local column numbers of `Ao` to global column numbers of the parallel matrix 4574 4575 Level: intermediate 4576 4577 Note: 4578 The rows in `Ad` and `Ao` are in [0, Nr), where Nr is the number of local rows on this process. The columns 4579 in `Ad` are in [0, Nc) where Nc is the number of local columns. The columns are `Ao` are in [0, Nco), where Nco is 4580 the number of nonzero columns in the local off-diagonal piece of the matrix `A`. The array colmap maps these 4581 local column numbers to global column numbers in the original matrix. 4582 4583 Fortran Notes: 4584 `MatMPIAIJGetSeqAIJ()` Fortran binding is deprecated (since PETSc 3.19), use `MatMPIAIJGetSeqAIJF90()` 4585 4586 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatMPIAIJGetSeqAIJF90()`, `MatMPIAIJRestoreSeqAIJF90()`, `MatMPIAIJGetLocalMat()`, `MatMPIAIJGetLocalMatCondensed()`, `MatCreateAIJ()`, `MATSEQAIJ` 4587 @*/ 4588 PetscErrorCode MatMPIAIJGetSeqAIJ(Mat A, Mat *Ad, Mat *Ao, const PetscInt *colmap[]) 4589 { 4590 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 4591 PetscBool flg; 4592 4593 PetscFunctionBegin; 4594 PetscCall(PetscStrbeginswith(((PetscObject)A)->type_name, MATMPIAIJ, &flg)); 4595 PetscCheck(flg, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "This function requires a MATMPIAIJ matrix as input"); 4596 if (Ad) *Ad = a->A; 4597 if (Ao) *Ao = a->B; 4598 if (colmap) *colmap = a->garray; 4599 PetscFunctionReturn(PETSC_SUCCESS); 4600 } 4601 4602 PetscErrorCode MatCreateMPIMatConcatenateSeqMat_MPIAIJ(MPI_Comm comm, Mat inmat, PetscInt n, MatReuse scall, Mat *outmat) 4603 { 4604 PetscInt m, N, i, rstart, nnz, Ii; 4605 PetscInt *indx; 4606 PetscScalar *values; 4607 MatType rootType; 4608 4609 PetscFunctionBegin; 4610 PetscCall(MatGetSize(inmat, &m, &N)); 4611 if (scall == MAT_INITIAL_MATRIX) { /* symbolic phase */ 4612 PetscInt *dnz, *onz, sum, bs, cbs; 4613 4614 if (n == PETSC_DECIDE) PetscCall(PetscSplitOwnership(comm, &n, &N)); 4615 /* Check sum(n) = N */ 4616 PetscCall(MPIU_Allreduce(&n, &sum, 1, MPIU_INT, MPI_SUM, comm)); 4617 PetscCheck(sum == N, PETSC_COMM_SELF, PETSC_ERR_ARG_INCOMP, "Sum of local columns %" PetscInt_FMT " != global columns %" PetscInt_FMT, sum, N); 4618 4619 PetscCallMPI(MPI_Scan(&m, &rstart, 1, MPIU_INT, MPI_SUM, comm)); 4620 rstart -= m; 4621 4622 MatPreallocateBegin(comm, m, n, dnz, onz); 4623 for (i = 0; i < m; i++) { 4624 PetscCall(MatGetRow_SeqAIJ(inmat, i, &nnz, &indx, NULL)); 4625 PetscCall(MatPreallocateSet(i + rstart, nnz, indx, dnz, onz)); 4626 PetscCall(MatRestoreRow_SeqAIJ(inmat, i, &nnz, &indx, NULL)); 4627 } 4628 4629 PetscCall(MatCreate(comm, outmat)); 4630 PetscCall(MatSetSizes(*outmat, m, n, PETSC_DETERMINE, PETSC_DETERMINE)); 4631 PetscCall(MatGetBlockSizes(inmat, &bs, &cbs)); 4632 PetscCall(MatSetBlockSizes(*outmat, bs, cbs)); 4633 PetscCall(MatGetRootType_Private(inmat, &rootType)); 4634 PetscCall(MatSetType(*outmat, rootType)); 4635 PetscCall(MatSeqAIJSetPreallocation(*outmat, 0, dnz)); 4636 PetscCall(MatMPIAIJSetPreallocation(*outmat, 0, dnz, 0, onz)); 4637 MatPreallocateEnd(dnz, onz); 4638 PetscCall(MatSetOption(*outmat, MAT_NO_OFF_PROC_ENTRIES, PETSC_TRUE)); 4639 } 4640 4641 /* numeric phase */ 4642 PetscCall(MatGetOwnershipRange(*outmat, &rstart, NULL)); 4643 for (i = 0; i < m; i++) { 4644 PetscCall(MatGetRow_SeqAIJ(inmat, i, &nnz, &indx, &values)); 4645 Ii = i + rstart; 4646 PetscCall(MatSetValues(*outmat, 1, &Ii, nnz, indx, values, INSERT_VALUES)); 4647 PetscCall(MatRestoreRow_SeqAIJ(inmat, i, &nnz, &indx, &values)); 4648 } 4649 PetscCall(MatAssemblyBegin(*outmat, MAT_FINAL_ASSEMBLY)); 4650 PetscCall(MatAssemblyEnd(*outmat, MAT_FINAL_ASSEMBLY)); 4651 PetscFunctionReturn(PETSC_SUCCESS); 4652 } 4653 4654 static PetscErrorCode MatDestroy_MPIAIJ_SeqsToMPI(void *data) 4655 { 4656 Mat_Merge_SeqsToMPI *merge = (Mat_Merge_SeqsToMPI *)data; 4657 4658 PetscFunctionBegin; 4659 if (!merge) PetscFunctionReturn(PETSC_SUCCESS); 4660 PetscCall(PetscFree(merge->id_r)); 4661 PetscCall(PetscFree(merge->len_s)); 4662 PetscCall(PetscFree(merge->len_r)); 4663 PetscCall(PetscFree(merge->bi)); 4664 PetscCall(PetscFree(merge->bj)); 4665 PetscCall(PetscFree(merge->buf_ri[0])); 4666 PetscCall(PetscFree(merge->buf_ri)); 4667 PetscCall(PetscFree(merge->buf_rj[0])); 4668 PetscCall(PetscFree(merge->buf_rj)); 4669 PetscCall(PetscFree(merge->coi)); 4670 PetscCall(PetscFree(merge->coj)); 4671 PetscCall(PetscFree(merge->owners_co)); 4672 PetscCall(PetscLayoutDestroy(&merge->rowmap)); 4673 PetscCall(PetscFree(merge)); 4674 PetscFunctionReturn(PETSC_SUCCESS); 4675 } 4676 4677 #include <../src/mat/utils/freespace.h> 4678 #include <petscbt.h> 4679 4680 PetscErrorCode MatCreateMPIAIJSumSeqAIJNumeric(Mat seqmat, Mat mpimat) 4681 { 4682 MPI_Comm comm; 4683 Mat_SeqAIJ *a = (Mat_SeqAIJ *)seqmat->data; 4684 PetscMPIInt size, rank, taga, *len_s; 4685 PetscInt N = mpimat->cmap->N, i, j, *owners, *ai = a->i, *aj; 4686 PetscInt proc, m; 4687 PetscInt **buf_ri, **buf_rj; 4688 PetscInt k, anzi, *bj_i, *bi, *bj, arow, bnzi, nextaj; 4689 PetscInt nrows, **buf_ri_k, **nextrow, **nextai; 4690 MPI_Request *s_waits, *r_waits; 4691 MPI_Status *status; 4692 const MatScalar *aa, *a_a; 4693 MatScalar **abuf_r, *ba_i; 4694 Mat_Merge_SeqsToMPI *merge; 4695 PetscContainer container; 4696 4697 PetscFunctionBegin; 4698 PetscCall(PetscObjectGetComm((PetscObject)mpimat, &comm)); 4699 PetscCall(PetscLogEventBegin(MAT_Seqstompinum, seqmat, 0, 0, 0)); 4700 4701 PetscCallMPI(MPI_Comm_size(comm, &size)); 4702 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 4703 4704 PetscCall(PetscObjectQuery((PetscObject)mpimat, "MatMergeSeqsToMPI", (PetscObject *)&container)); 4705 PetscCheck(container, PetscObjectComm((PetscObject)mpimat), PETSC_ERR_PLIB, "Mat not created from MatCreateMPIAIJSumSeqAIJSymbolic"); 4706 PetscCall(PetscContainerGetPointer(container, (void **)&merge)); 4707 PetscCall(MatSeqAIJGetArrayRead(seqmat, &a_a)); 4708 aa = a_a; 4709 4710 bi = merge->bi; 4711 bj = merge->bj; 4712 buf_ri = merge->buf_ri; 4713 buf_rj = merge->buf_rj; 4714 4715 PetscCall(PetscMalloc1(size, &status)); 4716 owners = merge->rowmap->range; 4717 len_s = merge->len_s; 4718 4719 /* send and recv matrix values */ 4720 PetscCall(PetscObjectGetNewTag((PetscObject)mpimat, &taga)); 4721 PetscCall(PetscPostIrecvScalar(comm, taga, merge->nrecv, merge->id_r, merge->len_r, &abuf_r, &r_waits)); 4722 4723 PetscCall(PetscMalloc1(merge->nsend + 1, &s_waits)); 4724 for (proc = 0, k = 0; proc < size; proc++) { 4725 if (!len_s[proc]) continue; 4726 i = owners[proc]; 4727 PetscCallMPI(MPI_Isend(aa + ai[i], len_s[proc], MPIU_MATSCALAR, proc, taga, comm, s_waits + k)); 4728 k++; 4729 } 4730 4731 if (merge->nrecv) PetscCallMPI(MPI_Waitall(merge->nrecv, r_waits, status)); 4732 if (merge->nsend) PetscCallMPI(MPI_Waitall(merge->nsend, s_waits, status)); 4733 PetscCall(PetscFree(status)); 4734 4735 PetscCall(PetscFree(s_waits)); 4736 PetscCall(PetscFree(r_waits)); 4737 4738 /* insert mat values of mpimat */ 4739 PetscCall(PetscMalloc1(N, &ba_i)); 4740 PetscCall(PetscMalloc3(merge->nrecv, &buf_ri_k, merge->nrecv, &nextrow, merge->nrecv, &nextai)); 4741 4742 for (k = 0; k < merge->nrecv; k++) { 4743 buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 4744 nrows = *(buf_ri_k[k]); 4745 nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 4746 nextai[k] = buf_ri_k[k] + (nrows + 1); /* points to the next i-structure of k-th recved i-structure */ 4747 } 4748 4749 /* set values of ba */ 4750 m = merge->rowmap->n; 4751 for (i = 0; i < m; i++) { 4752 arow = owners[rank] + i; 4753 bj_i = bj + bi[i]; /* col indices of the i-th row of mpimat */ 4754 bnzi = bi[i + 1] - bi[i]; 4755 PetscCall(PetscArrayzero(ba_i, bnzi)); 4756 4757 /* add local non-zero vals of this proc's seqmat into ba */ 4758 anzi = ai[arow + 1] - ai[arow]; 4759 aj = a->j + ai[arow]; 4760 aa = a_a + ai[arow]; 4761 nextaj = 0; 4762 for (j = 0; nextaj < anzi; j++) { 4763 if (*(bj_i + j) == aj[nextaj]) { /* bcol == acol */ 4764 ba_i[j] += aa[nextaj++]; 4765 } 4766 } 4767 4768 /* add received vals into ba */ 4769 for (k = 0; k < merge->nrecv; k++) { /* k-th received message */ 4770 /* i-th row */ 4771 if (i == *nextrow[k]) { 4772 anzi = *(nextai[k] + 1) - *nextai[k]; 4773 aj = buf_rj[k] + *(nextai[k]); 4774 aa = abuf_r[k] + *(nextai[k]); 4775 nextaj = 0; 4776 for (j = 0; nextaj < anzi; j++) { 4777 if (*(bj_i + j) == aj[nextaj]) { /* bcol == acol */ 4778 ba_i[j] += aa[nextaj++]; 4779 } 4780 } 4781 nextrow[k]++; 4782 nextai[k]++; 4783 } 4784 } 4785 PetscCall(MatSetValues(mpimat, 1, &arow, bnzi, bj_i, ba_i, INSERT_VALUES)); 4786 } 4787 PetscCall(MatSeqAIJRestoreArrayRead(seqmat, &a_a)); 4788 PetscCall(MatAssemblyBegin(mpimat, MAT_FINAL_ASSEMBLY)); 4789 PetscCall(MatAssemblyEnd(mpimat, MAT_FINAL_ASSEMBLY)); 4790 4791 PetscCall(PetscFree(abuf_r[0])); 4792 PetscCall(PetscFree(abuf_r)); 4793 PetscCall(PetscFree(ba_i)); 4794 PetscCall(PetscFree3(buf_ri_k, nextrow, nextai)); 4795 PetscCall(PetscLogEventEnd(MAT_Seqstompinum, seqmat, 0, 0, 0)); 4796 PetscFunctionReturn(PETSC_SUCCESS); 4797 } 4798 4799 PetscErrorCode MatCreateMPIAIJSumSeqAIJSymbolic(MPI_Comm comm, Mat seqmat, PetscInt m, PetscInt n, Mat *mpimat) 4800 { 4801 Mat B_mpi; 4802 Mat_SeqAIJ *a = (Mat_SeqAIJ *)seqmat->data; 4803 PetscMPIInt size, rank, tagi, tagj, *len_s, *len_si, *len_ri; 4804 PetscInt **buf_rj, **buf_ri, **buf_ri_k; 4805 PetscInt M = seqmat->rmap->n, N = seqmat->cmap->n, i, *owners, *ai = a->i, *aj = a->j; 4806 PetscInt len, proc, *dnz, *onz, bs, cbs; 4807 PetscInt k, anzi, *bi, *bj, *lnk, nlnk, arow, bnzi; 4808 PetscInt nrows, *buf_s, *buf_si, *buf_si_i, **nextrow, **nextai; 4809 MPI_Request *si_waits, *sj_waits, *ri_waits, *rj_waits; 4810 MPI_Status *status; 4811 PetscFreeSpaceList free_space = NULL, current_space = NULL; 4812 PetscBT lnkbt; 4813 Mat_Merge_SeqsToMPI *merge; 4814 PetscContainer container; 4815 4816 PetscFunctionBegin; 4817 PetscCall(PetscLogEventBegin(MAT_Seqstompisym, seqmat, 0, 0, 0)); 4818 4819 /* make sure it is a PETSc comm */ 4820 PetscCall(PetscCommDuplicate(comm, &comm, NULL)); 4821 PetscCallMPI(MPI_Comm_size(comm, &size)); 4822 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 4823 4824 PetscCall(PetscNew(&merge)); 4825 PetscCall(PetscMalloc1(size, &status)); 4826 4827 /* determine row ownership */ 4828 PetscCall(PetscLayoutCreate(comm, &merge->rowmap)); 4829 PetscCall(PetscLayoutSetLocalSize(merge->rowmap, m)); 4830 PetscCall(PetscLayoutSetSize(merge->rowmap, M)); 4831 PetscCall(PetscLayoutSetBlockSize(merge->rowmap, 1)); 4832 PetscCall(PetscLayoutSetUp(merge->rowmap)); 4833 PetscCall(PetscMalloc1(size, &len_si)); 4834 PetscCall(PetscMalloc1(size, &merge->len_s)); 4835 4836 m = merge->rowmap->n; 4837 owners = merge->rowmap->range; 4838 4839 /* determine the number of messages to send, their lengths */ 4840 len_s = merge->len_s; 4841 4842 len = 0; /* length of buf_si[] */ 4843 merge->nsend = 0; 4844 for (proc = 0; proc < size; proc++) { 4845 len_si[proc] = 0; 4846 if (proc == rank) { 4847 len_s[proc] = 0; 4848 } else { 4849 len_si[proc] = owners[proc + 1] - owners[proc] + 1; 4850 len_s[proc] = ai[owners[proc + 1]] - ai[owners[proc]]; /* num of rows to be sent to [proc] */ 4851 } 4852 if (len_s[proc]) { 4853 merge->nsend++; 4854 nrows = 0; 4855 for (i = owners[proc]; i < owners[proc + 1]; i++) { 4856 if (ai[i + 1] > ai[i]) nrows++; 4857 } 4858 len_si[proc] = 2 * (nrows + 1); 4859 len += len_si[proc]; 4860 } 4861 } 4862 4863 /* determine the number and length of messages to receive for ij-structure */ 4864 PetscCall(PetscGatherNumberOfMessages(comm, NULL, len_s, &merge->nrecv)); 4865 PetscCall(PetscGatherMessageLengths2(comm, merge->nsend, merge->nrecv, len_s, len_si, &merge->id_r, &merge->len_r, &len_ri)); 4866 4867 /* post the Irecv of j-structure */ 4868 PetscCall(PetscCommGetNewTag(comm, &tagj)); 4869 PetscCall(PetscPostIrecvInt(comm, tagj, merge->nrecv, merge->id_r, merge->len_r, &buf_rj, &rj_waits)); 4870 4871 /* post the Isend of j-structure */ 4872 PetscCall(PetscMalloc2(merge->nsend, &si_waits, merge->nsend, &sj_waits)); 4873 4874 for (proc = 0, k = 0; proc < size; proc++) { 4875 if (!len_s[proc]) continue; 4876 i = owners[proc]; 4877 PetscCallMPI(MPI_Isend(aj + ai[i], len_s[proc], MPIU_INT, proc, tagj, comm, sj_waits + k)); 4878 k++; 4879 } 4880 4881 /* receives and sends of j-structure are complete */ 4882 if (merge->nrecv) PetscCallMPI(MPI_Waitall(merge->nrecv, rj_waits, status)); 4883 if (merge->nsend) PetscCallMPI(MPI_Waitall(merge->nsend, sj_waits, status)); 4884 4885 /* send and recv i-structure */ 4886 PetscCall(PetscCommGetNewTag(comm, &tagi)); 4887 PetscCall(PetscPostIrecvInt(comm, tagi, merge->nrecv, merge->id_r, len_ri, &buf_ri, &ri_waits)); 4888 4889 PetscCall(PetscMalloc1(len + 1, &buf_s)); 4890 buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 4891 for (proc = 0, k = 0; proc < size; proc++) { 4892 if (!len_s[proc]) continue; 4893 /* form outgoing message for i-structure: 4894 buf_si[0]: nrows to be sent 4895 [1:nrows]: row index (global) 4896 [nrows+1:2*nrows+1]: i-structure index 4897 */ 4898 nrows = len_si[proc] / 2 - 1; 4899 buf_si_i = buf_si + nrows + 1; 4900 buf_si[0] = nrows; 4901 buf_si_i[0] = 0; 4902 nrows = 0; 4903 for (i = owners[proc]; i < owners[proc + 1]; i++) { 4904 anzi = ai[i + 1] - ai[i]; 4905 if (anzi) { 4906 buf_si_i[nrows + 1] = buf_si_i[nrows] + anzi; /* i-structure */ 4907 buf_si[nrows + 1] = i - owners[proc]; /* local row index */ 4908 nrows++; 4909 } 4910 } 4911 PetscCallMPI(MPI_Isend(buf_si, len_si[proc], MPIU_INT, proc, tagi, comm, si_waits + k)); 4912 k++; 4913 buf_si += len_si[proc]; 4914 } 4915 4916 if (merge->nrecv) PetscCallMPI(MPI_Waitall(merge->nrecv, ri_waits, status)); 4917 if (merge->nsend) PetscCallMPI(MPI_Waitall(merge->nsend, si_waits, status)); 4918 4919 PetscCall(PetscInfo(seqmat, "nsend: %d, nrecv: %d\n", merge->nsend, merge->nrecv)); 4920 for (i = 0; i < merge->nrecv; i++) PetscCall(PetscInfo(seqmat, "recv len_ri=%d, len_rj=%d from [%d]\n", len_ri[i], merge->len_r[i], merge->id_r[i])); 4921 4922 PetscCall(PetscFree(len_si)); 4923 PetscCall(PetscFree(len_ri)); 4924 PetscCall(PetscFree(rj_waits)); 4925 PetscCall(PetscFree2(si_waits, sj_waits)); 4926 PetscCall(PetscFree(ri_waits)); 4927 PetscCall(PetscFree(buf_s)); 4928 PetscCall(PetscFree(status)); 4929 4930 /* compute a local seq matrix in each processor */ 4931 /* allocate bi array and free space for accumulating nonzero column info */ 4932 PetscCall(PetscMalloc1(m + 1, &bi)); 4933 bi[0] = 0; 4934 4935 /* create and initialize a linked list */ 4936 nlnk = N + 1; 4937 PetscCall(PetscLLCreate(N, N, nlnk, lnk, lnkbt)); 4938 4939 /* initial FreeSpace size is 2*(num of local nnz(seqmat)) */ 4940 len = ai[owners[rank + 1]] - ai[owners[rank]]; 4941 PetscCall(PetscFreeSpaceGet(PetscIntMultTruncate(2, len) + 1, &free_space)); 4942 4943 current_space = free_space; 4944 4945 /* determine symbolic info for each local row */ 4946 PetscCall(PetscMalloc3(merge->nrecv, &buf_ri_k, merge->nrecv, &nextrow, merge->nrecv, &nextai)); 4947 4948 for (k = 0; k < merge->nrecv; k++) { 4949 buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 4950 nrows = *buf_ri_k[k]; 4951 nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 4952 nextai[k] = buf_ri_k[k] + (nrows + 1); /* points to the next i-structure of k-th recved i-structure */ 4953 } 4954 4955 MatPreallocateBegin(comm, m, n, dnz, onz); 4956 len = 0; 4957 for (i = 0; i < m; i++) { 4958 bnzi = 0; 4959 /* add local non-zero cols of this proc's seqmat into lnk */ 4960 arow = owners[rank] + i; 4961 anzi = ai[arow + 1] - ai[arow]; 4962 aj = a->j + ai[arow]; 4963 PetscCall(PetscLLAddSorted(anzi, aj, N, &nlnk, lnk, lnkbt)); 4964 bnzi += nlnk; 4965 /* add received col data into lnk */ 4966 for (k = 0; k < merge->nrecv; k++) { /* k-th received message */ 4967 if (i == *nextrow[k]) { /* i-th row */ 4968 anzi = *(nextai[k] + 1) - *nextai[k]; 4969 aj = buf_rj[k] + *nextai[k]; 4970 PetscCall(PetscLLAddSorted(anzi, aj, N, &nlnk, lnk, lnkbt)); 4971 bnzi += nlnk; 4972 nextrow[k]++; 4973 nextai[k]++; 4974 } 4975 } 4976 if (len < bnzi) len = bnzi; /* =max(bnzi) */ 4977 4978 /* if free space is not available, make more free space */ 4979 if (current_space->local_remaining < bnzi) PetscCall(PetscFreeSpaceGet(PetscIntSumTruncate(bnzi, current_space->total_array_size), ¤t_space)); 4980 /* copy data into free space, then initialize lnk */ 4981 PetscCall(PetscLLClean(N, N, bnzi, lnk, current_space->array, lnkbt)); 4982 PetscCall(MatPreallocateSet(i + owners[rank], bnzi, current_space->array, dnz, onz)); 4983 4984 current_space->array += bnzi; 4985 current_space->local_used += bnzi; 4986 current_space->local_remaining -= bnzi; 4987 4988 bi[i + 1] = bi[i] + bnzi; 4989 } 4990 4991 PetscCall(PetscFree3(buf_ri_k, nextrow, nextai)); 4992 4993 PetscCall(PetscMalloc1(bi[m] + 1, &bj)); 4994 PetscCall(PetscFreeSpaceContiguous(&free_space, bj)); 4995 PetscCall(PetscLLDestroy(lnk, lnkbt)); 4996 4997 /* create symbolic parallel matrix B_mpi */ 4998 PetscCall(MatGetBlockSizes(seqmat, &bs, &cbs)); 4999 PetscCall(MatCreate(comm, &B_mpi)); 5000 if (n == PETSC_DECIDE) { 5001 PetscCall(MatSetSizes(B_mpi, m, n, PETSC_DETERMINE, N)); 5002 } else { 5003 PetscCall(MatSetSizes(B_mpi, m, n, PETSC_DETERMINE, PETSC_DETERMINE)); 5004 } 5005 PetscCall(MatSetBlockSizes(B_mpi, bs, cbs)); 5006 PetscCall(MatSetType(B_mpi, MATMPIAIJ)); 5007 PetscCall(MatMPIAIJSetPreallocation(B_mpi, 0, dnz, 0, onz)); 5008 MatPreallocateEnd(dnz, onz); 5009 PetscCall(MatSetOption(B_mpi, MAT_NEW_NONZERO_ALLOCATION_ERR, PETSC_FALSE)); 5010 5011 /* B_mpi is not ready for use - assembly will be done by MatCreateMPIAIJSumSeqAIJNumeric() */ 5012 B_mpi->assembled = PETSC_FALSE; 5013 merge->bi = bi; 5014 merge->bj = bj; 5015 merge->buf_ri = buf_ri; 5016 merge->buf_rj = buf_rj; 5017 merge->coi = NULL; 5018 merge->coj = NULL; 5019 merge->owners_co = NULL; 5020 5021 PetscCall(PetscCommDestroy(&comm)); 5022 5023 /* attach the supporting struct to B_mpi for reuse */ 5024 PetscCall(PetscContainerCreate(PETSC_COMM_SELF, &container)); 5025 PetscCall(PetscContainerSetPointer(container, merge)); 5026 PetscCall(PetscContainerSetUserDestroy(container, MatDestroy_MPIAIJ_SeqsToMPI)); 5027 PetscCall(PetscObjectCompose((PetscObject)B_mpi, "MatMergeSeqsToMPI", (PetscObject)container)); 5028 PetscCall(PetscContainerDestroy(&container)); 5029 *mpimat = B_mpi; 5030 5031 PetscCall(PetscLogEventEnd(MAT_Seqstompisym, seqmat, 0, 0, 0)); 5032 PetscFunctionReturn(PETSC_SUCCESS); 5033 } 5034 5035 /*@C 5036 MatCreateMPIAIJSumSeqAIJ - Creates a `MATMPIAIJ` matrix by adding sequential 5037 matrices from each processor 5038 5039 Collective 5040 5041 Input Parameters: 5042 + comm - the communicators the parallel matrix will live on 5043 . seqmat - the input sequential matrices 5044 . m - number of local rows (or `PETSC_DECIDE`) 5045 . n - number of local columns (or `PETSC_DECIDE`) 5046 - scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5047 5048 Output Parameter: 5049 . mpimat - the parallel matrix generated 5050 5051 Level: advanced 5052 5053 Note: 5054 The dimensions of the sequential matrix in each processor MUST be the same. 5055 The input seqmat is included into the container "Mat_Merge_SeqsToMPI", and will be 5056 destroyed when mpimat is destroyed. Call `PetscObjectQuery()` to access seqmat. 5057 5058 .seealso: [](ch_matrices), `Mat`, `MatCreateAIJ()` 5059 @*/ 5060 PetscErrorCode MatCreateMPIAIJSumSeqAIJ(MPI_Comm comm, Mat seqmat, PetscInt m, PetscInt n, MatReuse scall, Mat *mpimat) 5061 { 5062 PetscMPIInt size; 5063 5064 PetscFunctionBegin; 5065 PetscCallMPI(MPI_Comm_size(comm, &size)); 5066 if (size == 1) { 5067 PetscCall(PetscLogEventBegin(MAT_Seqstompi, seqmat, 0, 0, 0)); 5068 if (scall == MAT_INITIAL_MATRIX) { 5069 PetscCall(MatDuplicate(seqmat, MAT_COPY_VALUES, mpimat)); 5070 } else { 5071 PetscCall(MatCopy(seqmat, *mpimat, SAME_NONZERO_PATTERN)); 5072 } 5073 PetscCall(PetscLogEventEnd(MAT_Seqstompi, seqmat, 0, 0, 0)); 5074 PetscFunctionReturn(PETSC_SUCCESS); 5075 } 5076 PetscCall(PetscLogEventBegin(MAT_Seqstompi, seqmat, 0, 0, 0)); 5077 if (scall == MAT_INITIAL_MATRIX) PetscCall(MatCreateMPIAIJSumSeqAIJSymbolic(comm, seqmat, m, n, mpimat)); 5078 PetscCall(MatCreateMPIAIJSumSeqAIJNumeric(seqmat, *mpimat)); 5079 PetscCall(PetscLogEventEnd(MAT_Seqstompi, seqmat, 0, 0, 0)); 5080 PetscFunctionReturn(PETSC_SUCCESS); 5081 } 5082 5083 /*@ 5084 MatAIJGetLocalMat - Creates a `MATSEQAIJ` from a `MATAIJ` matrix. 5085 5086 Not Collective 5087 5088 Input Parameter: 5089 . A - the matrix 5090 5091 Output Parameter: 5092 . A_loc - the local sequential matrix generated 5093 5094 Level: developer 5095 5096 Notes: 5097 The matrix is created by taking `A`'s local rows and putting them into a sequential matrix 5098 with `mlocal` rows and `n` columns. Where `mlocal` is obtained with `MatGetLocalSize()` and 5099 `n` is the global column count obtained with `MatGetSize()` 5100 5101 In other words combines the two parts of a parallel `MATMPIAIJ` matrix on each process to a single matrix. 5102 5103 For parallel matrices this creates an entirely new matrix. If the matrix is sequential it merely increases the reference count. 5104 5105 Destroy the matrix with `MatDestroy()` 5106 5107 .seealso: [](ch_matrices), `Mat`, `MatMPIAIJGetLocalMat()` 5108 @*/ 5109 PetscErrorCode MatAIJGetLocalMat(Mat A, Mat *A_loc) 5110 { 5111 PetscBool mpi; 5112 5113 PetscFunctionBegin; 5114 PetscCall(PetscObjectTypeCompare((PetscObject)A, MATMPIAIJ, &mpi)); 5115 if (mpi) { 5116 PetscCall(MatMPIAIJGetLocalMat(A, MAT_INITIAL_MATRIX, A_loc)); 5117 } else { 5118 *A_loc = A; 5119 PetscCall(PetscObjectReference((PetscObject)*A_loc)); 5120 } 5121 PetscFunctionReturn(PETSC_SUCCESS); 5122 } 5123 5124 /*@ 5125 MatMPIAIJGetLocalMat - Creates a `MATSEQAIJ` from a `MATMPIAIJ` matrix. 5126 5127 Not Collective 5128 5129 Input Parameters: 5130 + A - the matrix 5131 - scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5132 5133 Output Parameter: 5134 . A_loc - the local sequential matrix generated 5135 5136 Level: developer 5137 5138 Notes: 5139 The matrix is created by taking all `A`'s local rows and putting them into a sequential 5140 matrix with `mlocal` rows and `n` columns.`mlocal` is the row count obtained with 5141 `MatGetLocalSize()` and `n` is the global column count obtained with `MatGetSize()`. 5142 5143 In other words combines the two parts of a parallel `MATMPIAIJ` matrix on each process to a single matrix. 5144 5145 When `A` is sequential and `MAT_INITIAL_MATRIX` is requested, the matrix returned is the diagonal part of `A` (which contains the entire matrix), 5146 with its reference count increased by one. Hence changing values of `A_loc` changes `A`. If `MAT_REUSE_MATRIX` is requested on a sequential matrix 5147 then `MatCopy`(Adiag,*`A_loc`,`SAME_NONZERO_PATTERN`) is called to fill `A_loc`. Thus one can preallocate the appropriate sequential matrix `A_loc` 5148 and then call this routine with `MAT_REUSE_MATRIX`. In this case, one can modify the values of `A_loc` without affecting the original sequential matrix. 5149 5150 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatGetOwnershipRange()`, `MatMPIAIJGetLocalMatCondensed()`, `MatMPIAIJGetLocalMatMerge()` 5151 @*/ 5152 PetscErrorCode MatMPIAIJGetLocalMat(Mat A, MatReuse scall, Mat *A_loc) 5153 { 5154 Mat_MPIAIJ *mpimat = (Mat_MPIAIJ *)A->data; 5155 Mat_SeqAIJ *mat, *a, *b; 5156 PetscInt *ai, *aj, *bi, *bj, *cmap = mpimat->garray; 5157 const PetscScalar *aa, *ba, *aav, *bav; 5158 PetscScalar *ca, *cam; 5159 PetscMPIInt size; 5160 PetscInt am = A->rmap->n, i, j, k, cstart = A->cmap->rstart; 5161 PetscInt *ci, *cj, col, ncols_d, ncols_o, jo; 5162 PetscBool match; 5163 5164 PetscFunctionBegin; 5165 PetscCall(PetscStrbeginswith(((PetscObject)A)->type_name, MATMPIAIJ, &match)); 5166 PetscCheck(match, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Requires MATMPIAIJ matrix as input"); 5167 PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)A), &size)); 5168 if (size == 1) { 5169 if (scall == MAT_INITIAL_MATRIX) { 5170 PetscCall(PetscObjectReference((PetscObject)mpimat->A)); 5171 *A_loc = mpimat->A; 5172 } else if (scall == MAT_REUSE_MATRIX) { 5173 PetscCall(MatCopy(mpimat->A, *A_loc, SAME_NONZERO_PATTERN)); 5174 } 5175 PetscFunctionReturn(PETSC_SUCCESS); 5176 } 5177 5178 PetscCall(PetscLogEventBegin(MAT_Getlocalmat, A, 0, 0, 0)); 5179 a = (Mat_SeqAIJ *)(mpimat->A)->data; 5180 b = (Mat_SeqAIJ *)(mpimat->B)->data; 5181 ai = a->i; 5182 aj = a->j; 5183 bi = b->i; 5184 bj = b->j; 5185 PetscCall(MatSeqAIJGetArrayRead(mpimat->A, &aav)); 5186 PetscCall(MatSeqAIJGetArrayRead(mpimat->B, &bav)); 5187 aa = aav; 5188 ba = bav; 5189 if (scall == MAT_INITIAL_MATRIX) { 5190 PetscCall(PetscMalloc1(1 + am, &ci)); 5191 ci[0] = 0; 5192 for (i = 0; i < am; i++) ci[i + 1] = ci[i] + (ai[i + 1] - ai[i]) + (bi[i + 1] - bi[i]); 5193 PetscCall(PetscMalloc1(1 + ci[am], &cj)); 5194 PetscCall(PetscMalloc1(1 + ci[am], &ca)); 5195 k = 0; 5196 for (i = 0; i < am; i++) { 5197 ncols_o = bi[i + 1] - bi[i]; 5198 ncols_d = ai[i + 1] - ai[i]; 5199 /* off-diagonal portion of A */ 5200 for (jo = 0; jo < ncols_o; jo++) { 5201 col = cmap[*bj]; 5202 if (col >= cstart) break; 5203 cj[k] = col; 5204 bj++; 5205 ca[k++] = *ba++; 5206 } 5207 /* diagonal portion of A */ 5208 for (j = 0; j < ncols_d; j++) { 5209 cj[k] = cstart + *aj++; 5210 ca[k++] = *aa++; 5211 } 5212 /* off-diagonal portion of A */ 5213 for (j = jo; j < ncols_o; j++) { 5214 cj[k] = cmap[*bj++]; 5215 ca[k++] = *ba++; 5216 } 5217 } 5218 /* put together the new matrix */ 5219 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, am, A->cmap->N, ci, cj, ca, A_loc)); 5220 /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 5221 /* Since these are PETSc arrays, change flags to free them as necessary. */ 5222 mat = (Mat_SeqAIJ *)(*A_loc)->data; 5223 mat->free_a = PETSC_TRUE; 5224 mat->free_ij = PETSC_TRUE; 5225 mat->nonew = 0; 5226 } else if (scall == MAT_REUSE_MATRIX) { 5227 mat = (Mat_SeqAIJ *)(*A_loc)->data; 5228 ci = mat->i; 5229 cj = mat->j; 5230 PetscCall(MatSeqAIJGetArrayWrite(*A_loc, &cam)); 5231 for (i = 0; i < am; i++) { 5232 /* off-diagonal portion of A */ 5233 ncols_o = bi[i + 1] - bi[i]; 5234 for (jo = 0; jo < ncols_o; jo++) { 5235 col = cmap[*bj]; 5236 if (col >= cstart) break; 5237 *cam++ = *ba++; 5238 bj++; 5239 } 5240 /* diagonal portion of A */ 5241 ncols_d = ai[i + 1] - ai[i]; 5242 for (j = 0; j < ncols_d; j++) *cam++ = *aa++; 5243 /* off-diagonal portion of A */ 5244 for (j = jo; j < ncols_o; j++) { 5245 *cam++ = *ba++; 5246 bj++; 5247 } 5248 } 5249 PetscCall(MatSeqAIJRestoreArrayWrite(*A_loc, &cam)); 5250 } else SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Invalid MatReuse %d", (int)scall); 5251 PetscCall(MatSeqAIJRestoreArrayRead(mpimat->A, &aav)); 5252 PetscCall(MatSeqAIJRestoreArrayRead(mpimat->B, &bav)); 5253 PetscCall(PetscLogEventEnd(MAT_Getlocalmat, A, 0, 0, 0)); 5254 PetscFunctionReturn(PETSC_SUCCESS); 5255 } 5256 5257 /*@ 5258 MatMPIAIJGetLocalMatMerge - Creates a `MATSEQAIJ` from a `MATMPIAIJ` matrix by taking all its local rows and putting them into a sequential matrix with 5259 mlocal rows and n columns. Where n is the sum of the number of columns of the diagonal and off-diagonal part 5260 5261 Not Collective 5262 5263 Input Parameters: 5264 + A - the matrix 5265 - scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5266 5267 Output Parameters: 5268 + glob - sequential `IS` with global indices associated with the columns of the local sequential matrix generated (can be `NULL`) 5269 - A_loc - the local sequential matrix generated 5270 5271 Level: developer 5272 5273 Note: 5274 This is different from `MatMPIAIJGetLocalMat()` since the first columns in the returning matrix are those associated with the diagonal 5275 part, then those associated with the off-diagonal part (in its local ordering) 5276 5277 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatGetOwnershipRange()`, `MatMPIAIJGetLocalMat()`, `MatMPIAIJGetLocalMatCondensed()` 5278 @*/ 5279 PetscErrorCode MatMPIAIJGetLocalMatMerge(Mat A, MatReuse scall, IS *glob, Mat *A_loc) 5280 { 5281 Mat Ao, Ad; 5282 const PetscInt *cmap; 5283 PetscMPIInt size; 5284 PetscErrorCode (*f)(Mat, MatReuse, IS *, Mat *); 5285 5286 PetscFunctionBegin; 5287 PetscCall(MatMPIAIJGetSeqAIJ(A, &Ad, &Ao, &cmap)); 5288 PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)A), &size)); 5289 if (size == 1) { 5290 if (scall == MAT_INITIAL_MATRIX) { 5291 PetscCall(PetscObjectReference((PetscObject)Ad)); 5292 *A_loc = Ad; 5293 } else if (scall == MAT_REUSE_MATRIX) { 5294 PetscCall(MatCopy(Ad, *A_loc, SAME_NONZERO_PATTERN)); 5295 } 5296 if (glob) PetscCall(ISCreateStride(PetscObjectComm((PetscObject)Ad), Ad->cmap->n, Ad->cmap->rstart, 1, glob)); 5297 PetscFunctionReturn(PETSC_SUCCESS); 5298 } 5299 PetscCall(PetscObjectQueryFunction((PetscObject)A, "MatMPIAIJGetLocalMatMerge_C", &f)); 5300 PetscCall(PetscLogEventBegin(MAT_Getlocalmat, A, 0, 0, 0)); 5301 if (f) { 5302 PetscCall((*f)(A, scall, glob, A_loc)); 5303 } else { 5304 Mat_SeqAIJ *a = (Mat_SeqAIJ *)Ad->data; 5305 Mat_SeqAIJ *b = (Mat_SeqAIJ *)Ao->data; 5306 Mat_SeqAIJ *c; 5307 PetscInt *ai = a->i, *aj = a->j; 5308 PetscInt *bi = b->i, *bj = b->j; 5309 PetscInt *ci, *cj; 5310 const PetscScalar *aa, *ba; 5311 PetscScalar *ca; 5312 PetscInt i, j, am, dn, on; 5313 5314 PetscCall(MatGetLocalSize(Ad, &am, &dn)); 5315 PetscCall(MatGetLocalSize(Ao, NULL, &on)); 5316 PetscCall(MatSeqAIJGetArrayRead(Ad, &aa)); 5317 PetscCall(MatSeqAIJGetArrayRead(Ao, &ba)); 5318 if (scall == MAT_INITIAL_MATRIX) { 5319 PetscInt k; 5320 PetscCall(PetscMalloc1(1 + am, &ci)); 5321 PetscCall(PetscMalloc1(ai[am] + bi[am], &cj)); 5322 PetscCall(PetscMalloc1(ai[am] + bi[am], &ca)); 5323 ci[0] = 0; 5324 for (i = 0, k = 0; i < am; i++) { 5325 const PetscInt ncols_o = bi[i + 1] - bi[i]; 5326 const PetscInt ncols_d = ai[i + 1] - ai[i]; 5327 ci[i + 1] = ci[i] + ncols_o + ncols_d; 5328 /* diagonal portion of A */ 5329 for (j = 0; j < ncols_d; j++, k++) { 5330 cj[k] = *aj++; 5331 ca[k] = *aa++; 5332 } 5333 /* off-diagonal portion of A */ 5334 for (j = 0; j < ncols_o; j++, k++) { 5335 cj[k] = dn + *bj++; 5336 ca[k] = *ba++; 5337 } 5338 } 5339 /* put together the new matrix */ 5340 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, am, dn + on, ci, cj, ca, A_loc)); 5341 /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 5342 /* Since these are PETSc arrays, change flags to free them as necessary. */ 5343 c = (Mat_SeqAIJ *)(*A_loc)->data; 5344 c->free_a = PETSC_TRUE; 5345 c->free_ij = PETSC_TRUE; 5346 c->nonew = 0; 5347 PetscCall(MatSetType(*A_loc, ((PetscObject)Ad)->type_name)); 5348 } else if (scall == MAT_REUSE_MATRIX) { 5349 PetscCall(MatSeqAIJGetArrayWrite(*A_loc, &ca)); 5350 for (i = 0; i < am; i++) { 5351 const PetscInt ncols_d = ai[i + 1] - ai[i]; 5352 const PetscInt ncols_o = bi[i + 1] - bi[i]; 5353 /* diagonal portion of A */ 5354 for (j = 0; j < ncols_d; j++) *ca++ = *aa++; 5355 /* off-diagonal portion of A */ 5356 for (j = 0; j < ncols_o; j++) *ca++ = *ba++; 5357 } 5358 PetscCall(MatSeqAIJRestoreArrayWrite(*A_loc, &ca)); 5359 } else SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Invalid MatReuse %d", (int)scall); 5360 PetscCall(MatSeqAIJRestoreArrayRead(Ad, &aa)); 5361 PetscCall(MatSeqAIJRestoreArrayRead(Ao, &aa)); 5362 if (glob) { 5363 PetscInt cst, *gidx; 5364 5365 PetscCall(MatGetOwnershipRangeColumn(A, &cst, NULL)); 5366 PetscCall(PetscMalloc1(dn + on, &gidx)); 5367 for (i = 0; i < dn; i++) gidx[i] = cst + i; 5368 for (i = 0; i < on; i++) gidx[i + dn] = cmap[i]; 5369 PetscCall(ISCreateGeneral(PetscObjectComm((PetscObject)Ad), dn + on, gidx, PETSC_OWN_POINTER, glob)); 5370 } 5371 } 5372 PetscCall(PetscLogEventEnd(MAT_Getlocalmat, A, 0, 0, 0)); 5373 PetscFunctionReturn(PETSC_SUCCESS); 5374 } 5375 5376 /*@C 5377 MatMPIAIJGetLocalMatCondensed - Creates a `MATSEQAIJ` matrix from an `MATMPIAIJ` matrix by taking all its local rows and NON-ZERO columns 5378 5379 Not Collective 5380 5381 Input Parameters: 5382 + A - the matrix 5383 . scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5384 . row - index set of rows to extract (or `NULL`) 5385 - col - index set of columns to extract (or `NULL`) 5386 5387 Output Parameter: 5388 . A_loc - the local sequential matrix generated 5389 5390 Level: developer 5391 5392 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatGetOwnershipRange()`, `MatMPIAIJGetLocalMat()` 5393 @*/ 5394 PetscErrorCode MatMPIAIJGetLocalMatCondensed(Mat A, MatReuse scall, IS *row, IS *col, Mat *A_loc) 5395 { 5396 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 5397 PetscInt i, start, end, ncols, nzA, nzB, *cmap, imark, *idx; 5398 IS isrowa, iscola; 5399 Mat *aloc; 5400 PetscBool match; 5401 5402 PetscFunctionBegin; 5403 PetscCall(PetscObjectTypeCompare((PetscObject)A, MATMPIAIJ, &match)); 5404 PetscCheck(match, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Requires MATMPIAIJ matrix as input"); 5405 PetscCall(PetscLogEventBegin(MAT_Getlocalmatcondensed, A, 0, 0, 0)); 5406 if (!row) { 5407 start = A->rmap->rstart; 5408 end = A->rmap->rend; 5409 PetscCall(ISCreateStride(PETSC_COMM_SELF, end - start, start, 1, &isrowa)); 5410 } else { 5411 isrowa = *row; 5412 } 5413 if (!col) { 5414 start = A->cmap->rstart; 5415 cmap = a->garray; 5416 nzA = a->A->cmap->n; 5417 nzB = a->B->cmap->n; 5418 PetscCall(PetscMalloc1(nzA + nzB, &idx)); 5419 ncols = 0; 5420 for (i = 0; i < nzB; i++) { 5421 if (cmap[i] < start) idx[ncols++] = cmap[i]; 5422 else break; 5423 } 5424 imark = i; 5425 for (i = 0; i < nzA; i++) idx[ncols++] = start + i; 5426 for (i = imark; i < nzB; i++) idx[ncols++] = cmap[i]; 5427 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, ncols, idx, PETSC_OWN_POINTER, &iscola)); 5428 } else { 5429 iscola = *col; 5430 } 5431 if (scall != MAT_INITIAL_MATRIX) { 5432 PetscCall(PetscMalloc1(1, &aloc)); 5433 aloc[0] = *A_loc; 5434 } 5435 PetscCall(MatCreateSubMatrices(A, 1, &isrowa, &iscola, scall, &aloc)); 5436 if (!col) { /* attach global id of condensed columns */ 5437 PetscCall(PetscObjectCompose((PetscObject)aloc[0], "_petsc_GetLocalMatCondensed_iscol", (PetscObject)iscola)); 5438 } 5439 *A_loc = aloc[0]; 5440 PetscCall(PetscFree(aloc)); 5441 if (!row) PetscCall(ISDestroy(&isrowa)); 5442 if (!col) PetscCall(ISDestroy(&iscola)); 5443 PetscCall(PetscLogEventEnd(MAT_Getlocalmatcondensed, A, 0, 0, 0)); 5444 PetscFunctionReturn(PETSC_SUCCESS); 5445 } 5446 5447 /* 5448 * Create a sequential AIJ matrix based on row indices. a whole column is extracted once a row is matched. 5449 * Row could be local or remote.The routine is designed to be scalable in memory so that nothing is based 5450 * on a global size. 5451 * */ 5452 static PetscErrorCode MatCreateSeqSubMatrixWithRows_Private(Mat P, IS rows, Mat *P_oth) 5453 { 5454 Mat_MPIAIJ *p = (Mat_MPIAIJ *)P->data; 5455 Mat_SeqAIJ *pd = (Mat_SeqAIJ *)(p->A)->data, *po = (Mat_SeqAIJ *)(p->B)->data, *p_oth; 5456 PetscInt plocalsize, nrows, *ilocal, *oilocal, i, lidx, *nrcols, *nlcols, ncol; 5457 PetscMPIInt owner; 5458 PetscSFNode *iremote, *oiremote; 5459 const PetscInt *lrowindices; 5460 PetscSF sf, osf; 5461 PetscInt pcstart, *roffsets, *loffsets, *pnnz, j; 5462 PetscInt ontotalcols, dntotalcols, ntotalcols, nout; 5463 MPI_Comm comm; 5464 ISLocalToGlobalMapping mapping; 5465 const PetscScalar *pd_a, *po_a; 5466 5467 PetscFunctionBegin; 5468 PetscCall(PetscObjectGetComm((PetscObject)P, &comm)); 5469 /* plocalsize is the number of roots 5470 * nrows is the number of leaves 5471 * */ 5472 PetscCall(MatGetLocalSize(P, &plocalsize, NULL)); 5473 PetscCall(ISGetLocalSize(rows, &nrows)); 5474 PetscCall(PetscCalloc1(nrows, &iremote)); 5475 PetscCall(ISGetIndices(rows, &lrowindices)); 5476 for (i = 0; i < nrows; i++) { 5477 /* Find a remote index and an owner for a row 5478 * The row could be local or remote 5479 * */ 5480 owner = 0; 5481 lidx = 0; 5482 PetscCall(PetscLayoutFindOwnerIndex(P->rmap, lrowindices[i], &owner, &lidx)); 5483 iremote[i].index = lidx; 5484 iremote[i].rank = owner; 5485 } 5486 /* Create SF to communicate how many nonzero columns for each row */ 5487 PetscCall(PetscSFCreate(comm, &sf)); 5488 /* SF will figure out the number of nonzero columns for each row, and their 5489 * offsets 5490 * */ 5491 PetscCall(PetscSFSetGraph(sf, plocalsize, nrows, NULL, PETSC_OWN_POINTER, iremote, PETSC_OWN_POINTER)); 5492 PetscCall(PetscSFSetFromOptions(sf)); 5493 PetscCall(PetscSFSetUp(sf)); 5494 5495 PetscCall(PetscCalloc1(2 * (plocalsize + 1), &roffsets)); 5496 PetscCall(PetscCalloc1(2 * plocalsize, &nrcols)); 5497 PetscCall(PetscCalloc1(nrows, &pnnz)); 5498 roffsets[0] = 0; 5499 roffsets[1] = 0; 5500 for (i = 0; i < plocalsize; i++) { 5501 /* diagonal */ 5502 nrcols[i * 2 + 0] = pd->i[i + 1] - pd->i[i]; 5503 /* off-diagonal */ 5504 nrcols[i * 2 + 1] = po->i[i + 1] - po->i[i]; 5505 /* compute offsets so that we relative location for each row */ 5506 roffsets[(i + 1) * 2 + 0] = roffsets[i * 2 + 0] + nrcols[i * 2 + 0]; 5507 roffsets[(i + 1) * 2 + 1] = roffsets[i * 2 + 1] + nrcols[i * 2 + 1]; 5508 } 5509 PetscCall(PetscCalloc1(2 * nrows, &nlcols)); 5510 PetscCall(PetscCalloc1(2 * nrows, &loffsets)); 5511 /* 'r' means root, and 'l' means leaf */ 5512 PetscCall(PetscSFBcastBegin(sf, MPIU_2INT, nrcols, nlcols, MPI_REPLACE)); 5513 PetscCall(PetscSFBcastBegin(sf, MPIU_2INT, roffsets, loffsets, MPI_REPLACE)); 5514 PetscCall(PetscSFBcastEnd(sf, MPIU_2INT, nrcols, nlcols, MPI_REPLACE)); 5515 PetscCall(PetscSFBcastEnd(sf, MPIU_2INT, roffsets, loffsets, MPI_REPLACE)); 5516 PetscCall(PetscSFDestroy(&sf)); 5517 PetscCall(PetscFree(roffsets)); 5518 PetscCall(PetscFree(nrcols)); 5519 dntotalcols = 0; 5520 ontotalcols = 0; 5521 ncol = 0; 5522 for (i = 0; i < nrows; i++) { 5523 pnnz[i] = nlcols[i * 2 + 0] + nlcols[i * 2 + 1]; 5524 ncol = PetscMax(pnnz[i], ncol); 5525 /* diagonal */ 5526 dntotalcols += nlcols[i * 2 + 0]; 5527 /* off-diagonal */ 5528 ontotalcols += nlcols[i * 2 + 1]; 5529 } 5530 /* We do not need to figure the right number of columns 5531 * since all the calculations will be done by going through the raw data 5532 * */ 5533 PetscCall(MatCreateSeqAIJ(PETSC_COMM_SELF, nrows, ncol, 0, pnnz, P_oth)); 5534 PetscCall(MatSetUp(*P_oth)); 5535 PetscCall(PetscFree(pnnz)); 5536 p_oth = (Mat_SeqAIJ *)(*P_oth)->data; 5537 /* diagonal */ 5538 PetscCall(PetscCalloc1(dntotalcols, &iremote)); 5539 /* off-diagonal */ 5540 PetscCall(PetscCalloc1(ontotalcols, &oiremote)); 5541 /* diagonal */ 5542 PetscCall(PetscCalloc1(dntotalcols, &ilocal)); 5543 /* off-diagonal */ 5544 PetscCall(PetscCalloc1(ontotalcols, &oilocal)); 5545 dntotalcols = 0; 5546 ontotalcols = 0; 5547 ntotalcols = 0; 5548 for (i = 0; i < nrows; i++) { 5549 owner = 0; 5550 PetscCall(PetscLayoutFindOwnerIndex(P->rmap, lrowindices[i], &owner, NULL)); 5551 /* Set iremote for diag matrix */ 5552 for (j = 0; j < nlcols[i * 2 + 0]; j++) { 5553 iremote[dntotalcols].index = loffsets[i * 2 + 0] + j; 5554 iremote[dntotalcols].rank = owner; 5555 /* P_oth is seqAIJ so that ilocal need to point to the first part of memory */ 5556 ilocal[dntotalcols++] = ntotalcols++; 5557 } 5558 /* off-diagonal */ 5559 for (j = 0; j < nlcols[i * 2 + 1]; j++) { 5560 oiremote[ontotalcols].index = loffsets[i * 2 + 1] + j; 5561 oiremote[ontotalcols].rank = owner; 5562 oilocal[ontotalcols++] = ntotalcols++; 5563 } 5564 } 5565 PetscCall(ISRestoreIndices(rows, &lrowindices)); 5566 PetscCall(PetscFree(loffsets)); 5567 PetscCall(PetscFree(nlcols)); 5568 PetscCall(PetscSFCreate(comm, &sf)); 5569 /* P serves as roots and P_oth is leaves 5570 * Diag matrix 5571 * */ 5572 PetscCall(PetscSFSetGraph(sf, pd->i[plocalsize], dntotalcols, ilocal, PETSC_OWN_POINTER, iremote, PETSC_OWN_POINTER)); 5573 PetscCall(PetscSFSetFromOptions(sf)); 5574 PetscCall(PetscSFSetUp(sf)); 5575 5576 PetscCall(PetscSFCreate(comm, &osf)); 5577 /* off-diagonal */ 5578 PetscCall(PetscSFSetGraph(osf, po->i[plocalsize], ontotalcols, oilocal, PETSC_OWN_POINTER, oiremote, PETSC_OWN_POINTER)); 5579 PetscCall(PetscSFSetFromOptions(osf)); 5580 PetscCall(PetscSFSetUp(osf)); 5581 PetscCall(MatSeqAIJGetArrayRead(p->A, &pd_a)); 5582 PetscCall(MatSeqAIJGetArrayRead(p->B, &po_a)); 5583 /* operate on the matrix internal data to save memory */ 5584 PetscCall(PetscSFBcastBegin(sf, MPIU_SCALAR, pd_a, p_oth->a, MPI_REPLACE)); 5585 PetscCall(PetscSFBcastBegin(osf, MPIU_SCALAR, po_a, p_oth->a, MPI_REPLACE)); 5586 PetscCall(MatGetOwnershipRangeColumn(P, &pcstart, NULL)); 5587 /* Convert to global indices for diag matrix */ 5588 for (i = 0; i < pd->i[plocalsize]; i++) pd->j[i] += pcstart; 5589 PetscCall(PetscSFBcastBegin(sf, MPIU_INT, pd->j, p_oth->j, MPI_REPLACE)); 5590 /* We want P_oth store global indices */ 5591 PetscCall(ISLocalToGlobalMappingCreate(comm, 1, p->B->cmap->n, p->garray, PETSC_COPY_VALUES, &mapping)); 5592 /* Use memory scalable approach */ 5593 PetscCall(ISLocalToGlobalMappingSetType(mapping, ISLOCALTOGLOBALMAPPINGHASH)); 5594 PetscCall(ISLocalToGlobalMappingApply(mapping, po->i[plocalsize], po->j, po->j)); 5595 PetscCall(PetscSFBcastBegin(osf, MPIU_INT, po->j, p_oth->j, MPI_REPLACE)); 5596 PetscCall(PetscSFBcastEnd(sf, MPIU_INT, pd->j, p_oth->j, MPI_REPLACE)); 5597 /* Convert back to local indices */ 5598 for (i = 0; i < pd->i[plocalsize]; i++) pd->j[i] -= pcstart; 5599 PetscCall(PetscSFBcastEnd(osf, MPIU_INT, po->j, p_oth->j, MPI_REPLACE)); 5600 nout = 0; 5601 PetscCall(ISGlobalToLocalMappingApply(mapping, IS_GTOLM_DROP, po->i[plocalsize], po->j, &nout, po->j)); 5602 PetscCheck(nout == po->i[plocalsize], comm, PETSC_ERR_ARG_INCOMP, "n %" PetscInt_FMT " does not equal to nout %" PetscInt_FMT " ", po->i[plocalsize], nout); 5603 PetscCall(ISLocalToGlobalMappingDestroy(&mapping)); 5604 /* Exchange values */ 5605 PetscCall(PetscSFBcastEnd(sf, MPIU_SCALAR, pd_a, p_oth->a, MPI_REPLACE)); 5606 PetscCall(PetscSFBcastEnd(osf, MPIU_SCALAR, po_a, p_oth->a, MPI_REPLACE)); 5607 PetscCall(MatSeqAIJRestoreArrayRead(p->A, &pd_a)); 5608 PetscCall(MatSeqAIJRestoreArrayRead(p->B, &po_a)); 5609 /* Stop PETSc from shrinking memory */ 5610 for (i = 0; i < nrows; i++) p_oth->ilen[i] = p_oth->imax[i]; 5611 PetscCall(MatAssemblyBegin(*P_oth, MAT_FINAL_ASSEMBLY)); 5612 PetscCall(MatAssemblyEnd(*P_oth, MAT_FINAL_ASSEMBLY)); 5613 /* Attach PetscSF objects to P_oth so that we can reuse it later */ 5614 PetscCall(PetscObjectCompose((PetscObject)*P_oth, "diagsf", (PetscObject)sf)); 5615 PetscCall(PetscObjectCompose((PetscObject)*P_oth, "offdiagsf", (PetscObject)osf)); 5616 PetscCall(PetscSFDestroy(&sf)); 5617 PetscCall(PetscSFDestroy(&osf)); 5618 PetscFunctionReturn(PETSC_SUCCESS); 5619 } 5620 5621 /* 5622 * Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns of local A 5623 * This supports MPIAIJ and MAIJ 5624 * */ 5625 PetscErrorCode MatGetBrowsOfAcols_MPIXAIJ(Mat A, Mat P, PetscInt dof, MatReuse reuse, Mat *P_oth) 5626 { 5627 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data, *p = (Mat_MPIAIJ *)P->data; 5628 Mat_SeqAIJ *p_oth; 5629 IS rows, map; 5630 PetscHMapI hamp; 5631 PetscInt i, htsize, *rowindices, off, *mapping, key, count; 5632 MPI_Comm comm; 5633 PetscSF sf, osf; 5634 PetscBool has; 5635 5636 PetscFunctionBegin; 5637 PetscCall(PetscObjectGetComm((PetscObject)A, &comm)); 5638 PetscCall(PetscLogEventBegin(MAT_GetBrowsOfAocols, A, P, 0, 0)); 5639 /* If it is the first time, create an index set of off-diag nonzero columns of A, 5640 * and then create a submatrix (that often is an overlapping matrix) 5641 * */ 5642 if (reuse == MAT_INITIAL_MATRIX) { 5643 /* Use a hash table to figure out unique keys */ 5644 PetscCall(PetscHMapICreateWithSize(a->B->cmap->n, &hamp)); 5645 PetscCall(PetscCalloc1(a->B->cmap->n, &mapping)); 5646 count = 0; 5647 /* Assume that a->g is sorted, otherwise the following does not make sense */ 5648 for (i = 0; i < a->B->cmap->n; i++) { 5649 key = a->garray[i] / dof; 5650 PetscCall(PetscHMapIHas(hamp, key, &has)); 5651 if (!has) { 5652 mapping[i] = count; 5653 PetscCall(PetscHMapISet(hamp, key, count++)); 5654 } else { 5655 /* Current 'i' has the same value the previous step */ 5656 mapping[i] = count - 1; 5657 } 5658 } 5659 PetscCall(ISCreateGeneral(comm, a->B->cmap->n, mapping, PETSC_OWN_POINTER, &map)); 5660 PetscCall(PetscHMapIGetSize(hamp, &htsize)); 5661 PetscCheck(htsize == count, comm, PETSC_ERR_ARG_INCOMP, " Size of hash map %" PetscInt_FMT " is inconsistent with count %" PetscInt_FMT, htsize, count); 5662 PetscCall(PetscCalloc1(htsize, &rowindices)); 5663 off = 0; 5664 PetscCall(PetscHMapIGetKeys(hamp, &off, rowindices)); 5665 PetscCall(PetscHMapIDestroy(&hamp)); 5666 PetscCall(PetscSortInt(htsize, rowindices)); 5667 PetscCall(ISCreateGeneral(comm, htsize, rowindices, PETSC_OWN_POINTER, &rows)); 5668 /* In case, the matrix was already created but users want to recreate the matrix */ 5669 PetscCall(MatDestroy(P_oth)); 5670 PetscCall(MatCreateSeqSubMatrixWithRows_Private(P, rows, P_oth)); 5671 PetscCall(PetscObjectCompose((PetscObject)*P_oth, "aoffdiagtopothmapping", (PetscObject)map)); 5672 PetscCall(ISDestroy(&map)); 5673 PetscCall(ISDestroy(&rows)); 5674 } else if (reuse == MAT_REUSE_MATRIX) { 5675 /* If matrix was already created, we simply update values using SF objects 5676 * that as attached to the matrix earlier. 5677 */ 5678 const PetscScalar *pd_a, *po_a; 5679 5680 PetscCall(PetscObjectQuery((PetscObject)*P_oth, "diagsf", (PetscObject *)&sf)); 5681 PetscCall(PetscObjectQuery((PetscObject)*P_oth, "offdiagsf", (PetscObject *)&osf)); 5682 PetscCheck(sf && osf, comm, PETSC_ERR_ARG_NULL, "Matrix is not initialized yet"); 5683 p_oth = (Mat_SeqAIJ *)(*P_oth)->data; 5684 /* Update values in place */ 5685 PetscCall(MatSeqAIJGetArrayRead(p->A, &pd_a)); 5686 PetscCall(MatSeqAIJGetArrayRead(p->B, &po_a)); 5687 PetscCall(PetscSFBcastBegin(sf, MPIU_SCALAR, pd_a, p_oth->a, MPI_REPLACE)); 5688 PetscCall(PetscSFBcastBegin(osf, MPIU_SCALAR, po_a, p_oth->a, MPI_REPLACE)); 5689 PetscCall(PetscSFBcastEnd(sf, MPIU_SCALAR, pd_a, p_oth->a, MPI_REPLACE)); 5690 PetscCall(PetscSFBcastEnd(osf, MPIU_SCALAR, po_a, p_oth->a, MPI_REPLACE)); 5691 PetscCall(MatSeqAIJRestoreArrayRead(p->A, &pd_a)); 5692 PetscCall(MatSeqAIJRestoreArrayRead(p->B, &po_a)); 5693 } else SETERRQ(comm, PETSC_ERR_ARG_UNKNOWN_TYPE, "Unknown reuse type"); 5694 PetscCall(PetscLogEventEnd(MAT_GetBrowsOfAocols, A, P, 0, 0)); 5695 PetscFunctionReturn(PETSC_SUCCESS); 5696 } 5697 5698 /*@C 5699 MatGetBrowsOfAcols - Returns `IS` that contain rows of `B` that equal to nonzero columns of local `A` 5700 5701 Collective 5702 5703 Input Parameters: 5704 + A - the first matrix in `MATMPIAIJ` format 5705 . B - the second matrix in `MATMPIAIJ` format 5706 - scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5707 5708 Output Parameters: 5709 + rowb - On input index sets of rows of B to extract (or `NULL`), modified on output 5710 . colb - On input index sets of columns of B to extract (or `NULL`), modified on output 5711 - B_seq - the sequential matrix generated 5712 5713 Level: developer 5714 5715 .seealso: `Mat`, `MATMPIAIJ`, `IS`, `MatReuse` 5716 @*/ 5717 PetscErrorCode MatGetBrowsOfAcols(Mat A, Mat B, MatReuse scall, IS *rowb, IS *colb, Mat *B_seq) 5718 { 5719 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 5720 PetscInt *idx, i, start, ncols, nzA, nzB, *cmap, imark; 5721 IS isrowb, iscolb; 5722 Mat *bseq = NULL; 5723 5724 PetscFunctionBegin; 5725 PetscCheck(A->cmap->rstart == B->rmap->rstart && A->cmap->rend == B->rmap->rend, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "Matrix local dimensions are incompatible, (%" PetscInt_FMT ", %" PetscInt_FMT ") != (%" PetscInt_FMT ",%" PetscInt_FMT ")", 5726 A->cmap->rstart, A->cmap->rend, B->rmap->rstart, B->rmap->rend); 5727 PetscCall(PetscLogEventBegin(MAT_GetBrowsOfAcols, A, B, 0, 0)); 5728 5729 if (scall == MAT_INITIAL_MATRIX) { 5730 start = A->cmap->rstart; 5731 cmap = a->garray; 5732 nzA = a->A->cmap->n; 5733 nzB = a->B->cmap->n; 5734 PetscCall(PetscMalloc1(nzA + nzB, &idx)); 5735 ncols = 0; 5736 for (i = 0; i < nzB; i++) { /* row < local row index */ 5737 if (cmap[i] < start) idx[ncols++] = cmap[i]; 5738 else break; 5739 } 5740 imark = i; 5741 for (i = 0; i < nzA; i++) idx[ncols++] = start + i; /* local rows */ 5742 for (i = imark; i < nzB; i++) idx[ncols++] = cmap[i]; /* row > local row index */ 5743 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, ncols, idx, PETSC_OWN_POINTER, &isrowb)); 5744 PetscCall(ISCreateStride(PETSC_COMM_SELF, B->cmap->N, 0, 1, &iscolb)); 5745 } else { 5746 PetscCheck(rowb && colb, PETSC_COMM_SELF, PETSC_ERR_SUP, "IS rowb and colb must be provided for MAT_REUSE_MATRIX"); 5747 isrowb = *rowb; 5748 iscolb = *colb; 5749 PetscCall(PetscMalloc1(1, &bseq)); 5750 bseq[0] = *B_seq; 5751 } 5752 PetscCall(MatCreateSubMatrices(B, 1, &isrowb, &iscolb, scall, &bseq)); 5753 *B_seq = bseq[0]; 5754 PetscCall(PetscFree(bseq)); 5755 if (!rowb) { 5756 PetscCall(ISDestroy(&isrowb)); 5757 } else { 5758 *rowb = isrowb; 5759 } 5760 if (!colb) { 5761 PetscCall(ISDestroy(&iscolb)); 5762 } else { 5763 *colb = iscolb; 5764 } 5765 PetscCall(PetscLogEventEnd(MAT_GetBrowsOfAcols, A, B, 0, 0)); 5766 PetscFunctionReturn(PETSC_SUCCESS); 5767 } 5768 5769 /* 5770 MatGetBrowsOfAoCols_MPIAIJ - Creates a `MATSEQAIJ` matrix by taking rows of B that equal to nonzero columns 5771 of the OFF-DIAGONAL portion of local A 5772 5773 Collective 5774 5775 Input Parameters: 5776 + A,B - the matrices in `MATMPIAIJ` format 5777 - scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5778 5779 Output Parameter: 5780 + startsj_s - starting point in B's sending j-arrays, saved for MAT_REUSE (or NULL) 5781 . startsj_r - starting point in B's receiving j-arrays, saved for MAT_REUSE (or NULL) 5782 . bufa_ptr - array for sending matrix values, saved for MAT_REUSE (or NULL) 5783 - B_oth - the sequential matrix generated with size aBn=a->B->cmap->n by B->cmap->N 5784 5785 Developer Note: 5786 This directly accesses information inside the VecScatter associated with the matrix-vector product 5787 for this matrix. This is not desirable.. 5788 5789 Level: developer 5790 5791 */ 5792 PetscErrorCode MatGetBrowsOfAoCols_MPIAIJ(Mat A, Mat B, MatReuse scall, PetscInt **startsj_s, PetscInt **startsj_r, MatScalar **bufa_ptr, Mat *B_oth) 5793 { 5794 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 5795 Mat_SeqAIJ *b_oth; 5796 VecScatter ctx; 5797 MPI_Comm comm; 5798 const PetscMPIInt *rprocs, *sprocs; 5799 const PetscInt *srow, *rstarts, *sstarts; 5800 PetscInt *rowlen, *bufj, *bufJ, ncols = 0, aBn = a->B->cmap->n, row, *b_othi, *b_othj, *rvalues = NULL, *svalues = NULL, *cols, sbs, rbs; 5801 PetscInt i, j, k = 0, l, ll, nrecvs, nsends, nrows, *rstartsj = NULL, *sstartsj, len; 5802 PetscScalar *b_otha, *bufa, *bufA, *vals = NULL; 5803 MPI_Request *reqs = NULL, *rwaits = NULL, *swaits = NULL; 5804 PetscMPIInt size, tag, rank, nreqs; 5805 5806 PetscFunctionBegin; 5807 PetscCall(PetscObjectGetComm((PetscObject)A, &comm)); 5808 PetscCallMPI(MPI_Comm_size(comm, &size)); 5809 5810 PetscCheck(A->cmap->rstart == B->rmap->rstart && A->cmap->rend == B->rmap->rend, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "Matrix local dimensions are incompatible, (%" PetscInt_FMT ", %" PetscInt_FMT ") != (%" PetscInt_FMT ",%" PetscInt_FMT ")", 5811 A->cmap->rstart, A->cmap->rend, B->rmap->rstart, B->rmap->rend); 5812 PetscCall(PetscLogEventBegin(MAT_GetBrowsOfAocols, A, B, 0, 0)); 5813 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 5814 5815 if (size == 1) { 5816 startsj_s = NULL; 5817 bufa_ptr = NULL; 5818 *B_oth = NULL; 5819 PetscFunctionReturn(PETSC_SUCCESS); 5820 } 5821 5822 ctx = a->Mvctx; 5823 tag = ((PetscObject)ctx)->tag; 5824 5825 PetscCall(VecScatterGetRemote_Private(ctx, PETSC_TRUE /*send*/, &nsends, &sstarts, &srow, &sprocs, &sbs)); 5826 /* rprocs[] must be ordered so that indices received from them are ordered in rvalues[], which is key to algorithms used in this subroutine */ 5827 PetscCall(VecScatterGetRemoteOrdered_Private(ctx, PETSC_FALSE /*recv*/, &nrecvs, &rstarts, NULL /*indices not needed*/, &rprocs, &rbs)); 5828 PetscCall(PetscMPIIntCast(nsends + nrecvs, &nreqs)); 5829 PetscCall(PetscMalloc1(nreqs, &reqs)); 5830 rwaits = reqs; 5831 swaits = reqs + nrecvs; 5832 5833 if (!startsj_s || !bufa_ptr) scall = MAT_INITIAL_MATRIX; 5834 if (scall == MAT_INITIAL_MATRIX) { 5835 /* i-array */ 5836 /* post receives */ 5837 if (nrecvs) PetscCall(PetscMalloc1(rbs * (rstarts[nrecvs] - rstarts[0]), &rvalues)); /* rstarts can be NULL when nrecvs=0 */ 5838 for (i = 0; i < nrecvs; i++) { 5839 rowlen = rvalues + rstarts[i] * rbs; 5840 nrows = (rstarts[i + 1] - rstarts[i]) * rbs; /* num of indices to be received */ 5841 PetscCallMPI(MPI_Irecv(rowlen, nrows, MPIU_INT, rprocs[i], tag, comm, rwaits + i)); 5842 } 5843 5844 /* pack the outgoing message */ 5845 PetscCall(PetscMalloc2(nsends + 1, &sstartsj, nrecvs + 1, &rstartsj)); 5846 5847 sstartsj[0] = 0; 5848 rstartsj[0] = 0; 5849 len = 0; /* total length of j or a array to be sent */ 5850 if (nsends) { 5851 k = sstarts[0]; /* ATTENTION: sstarts[0] and rstarts[0] are not necessarily zero */ 5852 PetscCall(PetscMalloc1(sbs * (sstarts[nsends] - sstarts[0]), &svalues)); 5853 } 5854 for (i = 0; i < nsends; i++) { 5855 rowlen = svalues + (sstarts[i] - sstarts[0]) * sbs; 5856 nrows = sstarts[i + 1] - sstarts[i]; /* num of block rows */ 5857 for (j = 0; j < nrows; j++) { 5858 row = srow[k] + B->rmap->range[rank]; /* global row idx */ 5859 for (l = 0; l < sbs; l++) { 5860 PetscCall(MatGetRow_MPIAIJ(B, row + l, &ncols, NULL, NULL)); /* rowlength */ 5861 5862 rowlen[j * sbs + l] = ncols; 5863 5864 len += ncols; 5865 PetscCall(MatRestoreRow_MPIAIJ(B, row + l, &ncols, NULL, NULL)); 5866 } 5867 k++; 5868 } 5869 PetscCallMPI(MPI_Isend(rowlen, nrows * sbs, MPIU_INT, sprocs[i], tag, comm, swaits + i)); 5870 5871 sstartsj[i + 1] = len; /* starting point of (i+1)-th outgoing msg in bufj and bufa */ 5872 } 5873 /* recvs and sends of i-array are completed */ 5874 if (nreqs) PetscCallMPI(MPI_Waitall(nreqs, reqs, MPI_STATUSES_IGNORE)); 5875 PetscCall(PetscFree(svalues)); 5876 5877 /* allocate buffers for sending j and a arrays */ 5878 PetscCall(PetscMalloc1(len + 1, &bufj)); 5879 PetscCall(PetscMalloc1(len + 1, &bufa)); 5880 5881 /* create i-array of B_oth */ 5882 PetscCall(PetscMalloc1(aBn + 2, &b_othi)); 5883 5884 b_othi[0] = 0; 5885 len = 0; /* total length of j or a array to be received */ 5886 k = 0; 5887 for (i = 0; i < nrecvs; i++) { 5888 rowlen = rvalues + (rstarts[i] - rstarts[0]) * rbs; 5889 nrows = (rstarts[i + 1] - rstarts[i]) * rbs; /* num of rows to be received */ 5890 for (j = 0; j < nrows; j++) { 5891 b_othi[k + 1] = b_othi[k] + rowlen[j]; 5892 PetscCall(PetscIntSumError(rowlen[j], len, &len)); 5893 k++; 5894 } 5895 rstartsj[i + 1] = len; /* starting point of (i+1)-th incoming msg in bufj and bufa */ 5896 } 5897 PetscCall(PetscFree(rvalues)); 5898 5899 /* allocate space for j and a arrays of B_oth */ 5900 PetscCall(PetscMalloc1(b_othi[aBn] + 1, &b_othj)); 5901 PetscCall(PetscMalloc1(b_othi[aBn] + 1, &b_otha)); 5902 5903 /* j-array */ 5904 /* post receives of j-array */ 5905 for (i = 0; i < nrecvs; i++) { 5906 nrows = rstartsj[i + 1] - rstartsj[i]; /* length of the msg received */ 5907 PetscCallMPI(MPI_Irecv(b_othj + rstartsj[i], nrows, MPIU_INT, rprocs[i], tag, comm, rwaits + i)); 5908 } 5909 5910 /* pack the outgoing message j-array */ 5911 if (nsends) k = sstarts[0]; 5912 for (i = 0; i < nsends; i++) { 5913 nrows = sstarts[i + 1] - sstarts[i]; /* num of block rows */ 5914 bufJ = bufj + sstartsj[i]; 5915 for (j = 0; j < nrows; j++) { 5916 row = srow[k++] + B->rmap->range[rank]; /* global row idx */ 5917 for (ll = 0; ll < sbs; ll++) { 5918 PetscCall(MatGetRow_MPIAIJ(B, row + ll, &ncols, &cols, NULL)); 5919 for (l = 0; l < ncols; l++) *bufJ++ = cols[l]; 5920 PetscCall(MatRestoreRow_MPIAIJ(B, row + ll, &ncols, &cols, NULL)); 5921 } 5922 } 5923 PetscCallMPI(MPI_Isend(bufj + sstartsj[i], sstartsj[i + 1] - sstartsj[i], MPIU_INT, sprocs[i], tag, comm, swaits + i)); 5924 } 5925 5926 /* recvs and sends of j-array are completed */ 5927 if (nreqs) PetscCallMPI(MPI_Waitall(nreqs, reqs, MPI_STATUSES_IGNORE)); 5928 } else if (scall == MAT_REUSE_MATRIX) { 5929 sstartsj = *startsj_s; 5930 rstartsj = *startsj_r; 5931 bufa = *bufa_ptr; 5932 b_oth = (Mat_SeqAIJ *)(*B_oth)->data; 5933 PetscCall(MatSeqAIJGetArrayWrite(*B_oth, &b_otha)); 5934 } else SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Matrix P does not possess an object container"); 5935 5936 /* a-array */ 5937 /* post receives of a-array */ 5938 for (i = 0; i < nrecvs; i++) { 5939 nrows = rstartsj[i + 1] - rstartsj[i]; /* length of the msg received */ 5940 PetscCallMPI(MPI_Irecv(b_otha + rstartsj[i], nrows, MPIU_SCALAR, rprocs[i], tag, comm, rwaits + i)); 5941 } 5942 5943 /* pack the outgoing message a-array */ 5944 if (nsends) k = sstarts[0]; 5945 for (i = 0; i < nsends; i++) { 5946 nrows = sstarts[i + 1] - sstarts[i]; /* num of block rows */ 5947 bufA = bufa + sstartsj[i]; 5948 for (j = 0; j < nrows; j++) { 5949 row = srow[k++] + B->rmap->range[rank]; /* global row idx */ 5950 for (ll = 0; ll < sbs; ll++) { 5951 PetscCall(MatGetRow_MPIAIJ(B, row + ll, &ncols, NULL, &vals)); 5952 for (l = 0; l < ncols; l++) *bufA++ = vals[l]; 5953 PetscCall(MatRestoreRow_MPIAIJ(B, row + ll, &ncols, NULL, &vals)); 5954 } 5955 } 5956 PetscCallMPI(MPI_Isend(bufa + sstartsj[i], sstartsj[i + 1] - sstartsj[i], MPIU_SCALAR, sprocs[i], tag, comm, swaits + i)); 5957 } 5958 /* recvs and sends of a-array are completed */ 5959 if (nreqs) PetscCallMPI(MPI_Waitall(nreqs, reqs, MPI_STATUSES_IGNORE)); 5960 PetscCall(PetscFree(reqs)); 5961 5962 if (scall == MAT_INITIAL_MATRIX) { 5963 /* put together the new matrix */ 5964 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, aBn, B->cmap->N, b_othi, b_othj, b_otha, B_oth)); 5965 5966 /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 5967 /* Since these are PETSc arrays, change flags to free them as necessary. */ 5968 b_oth = (Mat_SeqAIJ *)(*B_oth)->data; 5969 b_oth->free_a = PETSC_TRUE; 5970 b_oth->free_ij = PETSC_TRUE; 5971 b_oth->nonew = 0; 5972 5973 PetscCall(PetscFree(bufj)); 5974 if (!startsj_s || !bufa_ptr) { 5975 PetscCall(PetscFree2(sstartsj, rstartsj)); 5976 PetscCall(PetscFree(bufa_ptr)); 5977 } else { 5978 *startsj_s = sstartsj; 5979 *startsj_r = rstartsj; 5980 *bufa_ptr = bufa; 5981 } 5982 } else if (scall == MAT_REUSE_MATRIX) { 5983 PetscCall(MatSeqAIJRestoreArrayWrite(*B_oth, &b_otha)); 5984 } 5985 5986 PetscCall(VecScatterRestoreRemote_Private(ctx, PETSC_TRUE, &nsends, &sstarts, &srow, &sprocs, &sbs)); 5987 PetscCall(VecScatterRestoreRemoteOrdered_Private(ctx, PETSC_FALSE, &nrecvs, &rstarts, NULL, &rprocs, &rbs)); 5988 PetscCall(PetscLogEventEnd(MAT_GetBrowsOfAocols, A, B, 0, 0)); 5989 PetscFunctionReturn(PETSC_SUCCESS); 5990 } 5991 5992 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJCRL(Mat, MatType, MatReuse, Mat *); 5993 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJPERM(Mat, MatType, MatReuse, Mat *); 5994 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJSELL(Mat, MatType, MatReuse, Mat *); 5995 #if defined(PETSC_HAVE_MKL_SPARSE) 5996 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJMKL(Mat, MatType, MatReuse, Mat *); 5997 #endif 5998 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIBAIJ(Mat, MatType, MatReuse, Mat *); 5999 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPISBAIJ(Mat, MatType, MatReuse, Mat *); 6000 #if defined(PETSC_HAVE_ELEMENTAL) 6001 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_Elemental(Mat, MatType, MatReuse, Mat *); 6002 #endif 6003 #if defined(PETSC_HAVE_SCALAPACK) 6004 PETSC_INTERN PetscErrorCode MatConvert_AIJ_ScaLAPACK(Mat, MatType, MatReuse, Mat *); 6005 #endif 6006 #if defined(PETSC_HAVE_HYPRE) 6007 PETSC_INTERN PetscErrorCode MatConvert_AIJ_HYPRE(Mat, MatType, MatReuse, Mat *); 6008 #endif 6009 #if defined(PETSC_HAVE_CUDA) 6010 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJCUSPARSE(Mat, MatType, MatReuse, Mat *); 6011 #endif 6012 #if defined(PETSC_HAVE_HIP) 6013 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJHIPSPARSE(Mat, MatType, MatReuse, Mat *); 6014 #endif 6015 #if defined(PETSC_HAVE_KOKKOS_KERNELS) 6016 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJKokkos(Mat, MatType, MatReuse, Mat *); 6017 #endif 6018 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPISELL(Mat, MatType, MatReuse, Mat *); 6019 PETSC_INTERN PetscErrorCode MatConvert_XAIJ_IS(Mat, MatType, MatReuse, Mat *); 6020 PETSC_INTERN PetscErrorCode MatProductSetFromOptions_IS_XAIJ(Mat); 6021 6022 /* 6023 Computes (B'*A')' since computing B*A directly is untenable 6024 6025 n p p 6026 [ ] [ ] [ ] 6027 m [ A ] * n [ B ] = m [ C ] 6028 [ ] [ ] [ ] 6029 6030 */ 6031 static PetscErrorCode MatMatMultNumeric_MPIDense_MPIAIJ(Mat A, Mat B, Mat C) 6032 { 6033 Mat At, Bt, Ct; 6034 6035 PetscFunctionBegin; 6036 PetscCall(MatTranspose(A, MAT_INITIAL_MATRIX, &At)); 6037 PetscCall(MatTranspose(B, MAT_INITIAL_MATRIX, &Bt)); 6038 PetscCall(MatMatMult(Bt, At, MAT_INITIAL_MATRIX, PETSC_DEFAULT, &Ct)); 6039 PetscCall(MatDestroy(&At)); 6040 PetscCall(MatDestroy(&Bt)); 6041 PetscCall(MatTransposeSetPrecursor(Ct, C)); 6042 PetscCall(MatTranspose(Ct, MAT_REUSE_MATRIX, &C)); 6043 PetscCall(MatDestroy(&Ct)); 6044 PetscFunctionReturn(PETSC_SUCCESS); 6045 } 6046 6047 static PetscErrorCode MatMatMultSymbolic_MPIDense_MPIAIJ(Mat A, Mat B, PetscReal fill, Mat C) 6048 { 6049 PetscBool cisdense; 6050 6051 PetscFunctionBegin; 6052 PetscCheck(A->cmap->n == B->rmap->n, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "A->cmap->n %" PetscInt_FMT " != B->rmap->n %" PetscInt_FMT, A->cmap->n, B->rmap->n); 6053 PetscCall(MatSetSizes(C, A->rmap->n, B->cmap->n, A->rmap->N, B->cmap->N)); 6054 PetscCall(MatSetBlockSizesFromMats(C, A, B)); 6055 PetscCall(PetscObjectTypeCompareAny((PetscObject)C, &cisdense, MATMPIDENSE, MATMPIDENSECUDA, MATMPIDENSEHIP, "")); 6056 if (!cisdense) PetscCall(MatSetType(C, ((PetscObject)A)->type_name)); 6057 PetscCall(MatSetUp(C)); 6058 6059 C->ops->matmultnumeric = MatMatMultNumeric_MPIDense_MPIAIJ; 6060 PetscFunctionReturn(PETSC_SUCCESS); 6061 } 6062 6063 static PetscErrorCode MatProductSetFromOptions_MPIDense_MPIAIJ_AB(Mat C) 6064 { 6065 Mat_Product *product = C->product; 6066 Mat A = product->A, B = product->B; 6067 6068 PetscFunctionBegin; 6069 PetscCheck(A->cmap->rstart == B->rmap->rstart && A->cmap->rend == B->rmap->rend, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "Matrix local dimensions are incompatible, (%" PetscInt_FMT ", %" PetscInt_FMT ") != (%" PetscInt_FMT ",%" PetscInt_FMT ")", 6070 A->cmap->rstart, A->cmap->rend, B->rmap->rstart, B->rmap->rend); 6071 C->ops->matmultsymbolic = MatMatMultSymbolic_MPIDense_MPIAIJ; 6072 C->ops->productsymbolic = MatProductSymbolic_AB; 6073 PetscFunctionReturn(PETSC_SUCCESS); 6074 } 6075 6076 PETSC_INTERN PetscErrorCode MatProductSetFromOptions_MPIDense_MPIAIJ(Mat C) 6077 { 6078 Mat_Product *product = C->product; 6079 6080 PetscFunctionBegin; 6081 if (product->type == MATPRODUCT_AB) PetscCall(MatProductSetFromOptions_MPIDense_MPIAIJ_AB(C)); 6082 PetscFunctionReturn(PETSC_SUCCESS); 6083 } 6084 6085 /* 6086 Merge two sets of sorted nonzeros and return a CSR for the merged (sequential) matrix 6087 6088 Input Parameters: 6089 6090 j1,rowBegin1,rowEnd1,jmap1: describe the first set of nonzeros (Set1) 6091 j2,rowBegin2,rowEnd2,jmap2: describe the second set of nonzeros (Set2) 6092 6093 mat: both sets' nonzeros are on m rows, where m is the number of local rows of the matrix mat 6094 6095 For Set1, j1[] contains column indices of the nonzeros. 6096 For the k-th row (0<=k<m), [rowBegin1[k],rowEnd1[k]) index into j1[] and point to the begin/end nonzero in row k 6097 respectively (note rowEnd1[k] is not necessarily equal to rwoBegin1[k+1]). Indices in this range of j1[] are sorted, 6098 but might have repeats. jmap1[t+1] - jmap1[t] is the number of repeats for the t-th unique nonzero in Set1. 6099 6100 Similar for Set2. 6101 6102 This routine merges the two sets of nonzeros row by row and removes repeats. 6103 6104 Output Parameters: (memory is allocated by the caller) 6105 6106 i[],j[]: the CSR of the merged matrix, which has m rows. 6107 imap1[]: the k-th unique nonzero in Set1 (k=0,1,...) corresponds to imap1[k]-th unique nonzero in the merged matrix. 6108 imap2[]: similar to imap1[], but for Set2. 6109 Note we order nonzeros row-by-row and from left to right. 6110 */ 6111 static PetscErrorCode MatMergeEntries_Internal(Mat mat, const PetscInt j1[], const PetscInt j2[], const PetscCount rowBegin1[], const PetscCount rowEnd1[], const PetscCount rowBegin2[], const PetscCount rowEnd2[], const PetscCount jmap1[], const PetscCount jmap2[], PetscCount imap1[], PetscCount imap2[], PetscInt i[], PetscInt j[]) 6112 { 6113 PetscInt r, m; /* Row index of mat */ 6114 PetscCount t, t1, t2, b1, e1, b2, e2; 6115 6116 PetscFunctionBegin; 6117 PetscCall(MatGetLocalSize(mat, &m, NULL)); 6118 t1 = t2 = t = 0; /* Count unique nonzeros of in Set1, Set1 and the merged respectively */ 6119 i[0] = 0; 6120 for (r = 0; r < m; r++) { /* Do row by row merging */ 6121 b1 = rowBegin1[r]; 6122 e1 = rowEnd1[r]; 6123 b2 = rowBegin2[r]; 6124 e2 = rowEnd2[r]; 6125 while (b1 < e1 && b2 < e2) { 6126 if (j1[b1] == j2[b2]) { /* Same column index and hence same nonzero */ 6127 j[t] = j1[b1]; 6128 imap1[t1] = t; 6129 imap2[t2] = t; 6130 b1 += jmap1[t1 + 1] - jmap1[t1]; /* Jump to next unique local nonzero */ 6131 b2 += jmap2[t2 + 1] - jmap2[t2]; /* Jump to next unique remote nonzero */ 6132 t1++; 6133 t2++; 6134 t++; 6135 } else if (j1[b1] < j2[b2]) { 6136 j[t] = j1[b1]; 6137 imap1[t1] = t; 6138 b1 += jmap1[t1 + 1] - jmap1[t1]; 6139 t1++; 6140 t++; 6141 } else { 6142 j[t] = j2[b2]; 6143 imap2[t2] = t; 6144 b2 += jmap2[t2 + 1] - jmap2[t2]; 6145 t2++; 6146 t++; 6147 } 6148 } 6149 /* Merge the remaining in either j1[] or j2[] */ 6150 while (b1 < e1) { 6151 j[t] = j1[b1]; 6152 imap1[t1] = t; 6153 b1 += jmap1[t1 + 1] - jmap1[t1]; 6154 t1++; 6155 t++; 6156 } 6157 while (b2 < e2) { 6158 j[t] = j2[b2]; 6159 imap2[t2] = t; 6160 b2 += jmap2[t2 + 1] - jmap2[t2]; 6161 t2++; 6162 t++; 6163 } 6164 i[r + 1] = t; 6165 } 6166 PetscFunctionReturn(PETSC_SUCCESS); 6167 } 6168 6169 /* 6170 Split nonzeros in a block of local rows into two subsets: those in the diagonal block and those in the off-diagonal block 6171 6172 Input Parameters: 6173 mat: an MPI matrix that provides row and column layout information for splitting. Let's say its number of local rows is m. 6174 n,i[],j[],perm[]: there are n input entries, belonging to m rows. Row/col indices of the entries are stored in i[] and j[] 6175 respectively, along with a permutation array perm[]. Length of the i[],j[],perm[] arrays is n. 6176 6177 i[] is already sorted, but within a row, j[] is not sorted and might have repeats. 6178 i[] might contain negative indices at the beginning, which means the corresponding entries should be ignored in the splitting. 6179 6180 Output Parameters: 6181 j[],perm[]: the routine needs to sort j[] within each row along with perm[]. 6182 rowBegin[],rowMid[],rowEnd[]: of length m, and the memory is preallocated and zeroed by the caller. 6183 They contain indices pointing to j[]. For 0<=r<m, [rowBegin[r],rowMid[r]) point to begin/end entries of row r of the diagonal block, 6184 and [rowMid[r],rowEnd[r]) point to begin/end entries of row r of the off-diagonal block. 6185 6186 Aperm[],Ajmap[],Atot,Annz: Arrays are allocated by this routine. 6187 Atot: number of entries belonging to the diagonal block. 6188 Annz: number of unique nonzeros belonging to the diagonal block. 6189 Aperm[Atot] stores values from perm[] for entries belonging to the diagonal block. Length of Aperm[] is Atot, though it may also count 6190 repeats (i.e., same 'i,j' pair). 6191 Ajmap[Annz+1] stores the number of repeats of each unique entry belonging to the diagonal block. More precisely, Ajmap[t+1] - Ajmap[t] 6192 is the number of repeats for the t-th unique entry in the diagonal block. Ajmap[0] is always 0. 6193 6194 Atot: number of entries belonging to the diagonal block 6195 Annz: number of unique nonzeros belonging to the diagonal block. 6196 6197 Bperm[], Bjmap[], Btot, Bnnz are similar but for the off-diagonal block. 6198 6199 Aperm[],Bperm[],Ajmap[] and Bjmap[] are allocated separately by this routine with PetscMalloc1(). 6200 */ 6201 static PetscErrorCode MatSplitEntries_Internal(Mat mat, PetscCount n, const PetscInt i[], PetscInt j[], PetscCount perm[], PetscCount rowBegin[], PetscCount rowMid[], PetscCount rowEnd[], PetscCount *Atot_, PetscCount **Aperm_, PetscCount *Annz_, PetscCount **Ajmap_, PetscCount *Btot_, PetscCount **Bperm_, PetscCount *Bnnz_, PetscCount **Bjmap_) 6202 { 6203 PetscInt cstart, cend, rstart, rend, row, col; 6204 PetscCount Atot = 0, Btot = 0; /* Total number of nonzeros in the diagonal and off-diagonal blocks */ 6205 PetscCount Annz = 0, Bnnz = 0; /* Number of unique nonzeros in the diagonal and off-diagonal blocks */ 6206 PetscCount k, m, p, q, r, s, mid; 6207 PetscCount *Aperm, *Bperm, *Ajmap, *Bjmap; 6208 6209 PetscFunctionBegin; 6210 PetscCall(PetscLayoutGetRange(mat->rmap, &rstart, &rend)); 6211 PetscCall(PetscLayoutGetRange(mat->cmap, &cstart, &cend)); 6212 m = rend - rstart; 6213 6214 /* Skip negative rows */ 6215 for (k = 0; k < n; k++) 6216 if (i[k] >= 0) break; 6217 6218 /* Process [k,n): sort and partition each local row into diag and offdiag portions, 6219 fill rowBegin[], rowMid[], rowEnd[], and count Atot, Btot, Annz, Bnnz. 6220 */ 6221 while (k < n) { 6222 row = i[k]; 6223 /* Entries in [k,s) are in one row. Shift diagonal block col indices so that diag is ahead of offdiag after sorting the row */ 6224 for (s = k; s < n; s++) 6225 if (i[s] != row) break; 6226 6227 /* Shift diag columns to range of [-PETSC_MAX_INT, -1] */ 6228 for (p = k; p < s; p++) { 6229 if (j[p] >= cstart && j[p] < cend) j[p] -= PETSC_MAX_INT; 6230 else PetscAssert((j[p] >= 0) && (j[p] <= mat->cmap->N), PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Column index %" PetscInt_FMT " is out of range", j[p]); 6231 } 6232 PetscCall(PetscSortIntWithCountArray(s - k, j + k, perm + k)); 6233 PetscCall(PetscSortedIntUpperBound(j, k, s, -1, &mid)); /* Separate [k,s) into [k,mid) for diag and [mid,s) for offdiag */ 6234 rowBegin[row - rstart] = k; 6235 rowMid[row - rstart] = mid; 6236 rowEnd[row - rstart] = s; 6237 6238 /* Count nonzeros of this diag/offdiag row, which might have repeats */ 6239 Atot += mid - k; 6240 Btot += s - mid; 6241 6242 /* Count unique nonzeros of this diag row */ 6243 for (p = k; p < mid;) { 6244 col = j[p]; 6245 do { 6246 j[p] += PETSC_MAX_INT; /* Revert the modified diagonal indices */ 6247 p++; 6248 } while (p < mid && j[p] == col); 6249 Annz++; 6250 } 6251 6252 /* Count unique nonzeros of this offdiag row */ 6253 for (p = mid; p < s;) { 6254 col = j[p]; 6255 do { 6256 p++; 6257 } while (p < s && j[p] == col); 6258 Bnnz++; 6259 } 6260 k = s; 6261 } 6262 6263 /* Allocation according to Atot, Btot, Annz, Bnnz */ 6264 PetscCall(PetscMalloc1(Atot, &Aperm)); 6265 PetscCall(PetscMalloc1(Btot, &Bperm)); 6266 PetscCall(PetscMalloc1(Annz + 1, &Ajmap)); 6267 PetscCall(PetscMalloc1(Bnnz + 1, &Bjmap)); 6268 6269 /* Re-scan indices and copy diag/offdiag permutation indices to Aperm, Bperm and also fill Ajmap and Bjmap */ 6270 Ajmap[0] = Bjmap[0] = Atot = Btot = Annz = Bnnz = 0; 6271 for (r = 0; r < m; r++) { 6272 k = rowBegin[r]; 6273 mid = rowMid[r]; 6274 s = rowEnd[r]; 6275 PetscCall(PetscArraycpy(Aperm + Atot, perm + k, mid - k)); 6276 PetscCall(PetscArraycpy(Bperm + Btot, perm + mid, s - mid)); 6277 Atot += mid - k; 6278 Btot += s - mid; 6279 6280 /* Scan column indices in this row and find out how many repeats each unique nonzero has */ 6281 for (p = k; p < mid;) { 6282 col = j[p]; 6283 q = p; 6284 do { 6285 p++; 6286 } while (p < mid && j[p] == col); 6287 Ajmap[Annz + 1] = Ajmap[Annz] + (p - q); 6288 Annz++; 6289 } 6290 6291 for (p = mid; p < s;) { 6292 col = j[p]; 6293 q = p; 6294 do { 6295 p++; 6296 } while (p < s && j[p] == col); 6297 Bjmap[Bnnz + 1] = Bjmap[Bnnz] + (p - q); 6298 Bnnz++; 6299 } 6300 } 6301 /* Output */ 6302 *Aperm_ = Aperm; 6303 *Annz_ = Annz; 6304 *Atot_ = Atot; 6305 *Ajmap_ = Ajmap; 6306 *Bperm_ = Bperm; 6307 *Bnnz_ = Bnnz; 6308 *Btot_ = Btot; 6309 *Bjmap_ = Bjmap; 6310 PetscFunctionReturn(PETSC_SUCCESS); 6311 } 6312 6313 /* 6314 Expand the jmap[] array to make a new one in view of nonzeros in the merged matrix 6315 6316 Input Parameters: 6317 nnz1: number of unique nonzeros in a set that was used to produce imap[], jmap[] 6318 nnz: number of unique nonzeros in the merged matrix 6319 imap[nnz1]: i-th nonzero in the set is the imap[i]-th nonzero in the merged matrix 6320 jmap[nnz1+1]: i-th nonzero in the set has jmap[i+1] - jmap[i] repeats in the set 6321 6322 Output Parameter: (memory is allocated by the caller) 6323 jmap_new[nnz+1]: i-th nonzero in the merged matrix has jmap_new[i+1] - jmap_new[i] repeats in the set 6324 6325 Example: 6326 nnz1 = 4 6327 nnz = 6 6328 imap = [1,3,4,5] 6329 jmap = [0,3,5,6,7] 6330 then, 6331 jmap_new = [0,0,3,3,5,6,7] 6332 */ 6333 static PetscErrorCode ExpandJmap_Internal(PetscCount nnz1, PetscCount nnz, const PetscCount imap[], const PetscCount jmap[], PetscCount jmap_new[]) 6334 { 6335 PetscCount k, p; 6336 6337 PetscFunctionBegin; 6338 jmap_new[0] = 0; 6339 p = nnz; /* p loops over jmap_new[] backwards */ 6340 for (k = nnz1 - 1; k >= 0; k--) { /* k loops over imap[] */ 6341 for (; p > imap[k]; p--) jmap_new[p] = jmap[k + 1]; 6342 } 6343 for (; p >= 0; p--) jmap_new[p] = jmap[0]; 6344 PetscFunctionReturn(PETSC_SUCCESS); 6345 } 6346 6347 static PetscErrorCode MatCOOStructDestroy_MPIAIJ(void *data) 6348 { 6349 MatCOOStruct_MPIAIJ *coo = (MatCOOStruct_MPIAIJ *)data; 6350 6351 PetscFunctionBegin; 6352 PetscCall(PetscSFDestroy(&coo->sf)); 6353 PetscCall(PetscFree(coo->Aperm1)); 6354 PetscCall(PetscFree(coo->Bperm1)); 6355 PetscCall(PetscFree(coo->Ajmap1)); 6356 PetscCall(PetscFree(coo->Bjmap1)); 6357 PetscCall(PetscFree(coo->Aimap2)); 6358 PetscCall(PetscFree(coo->Bimap2)); 6359 PetscCall(PetscFree(coo->Aperm2)); 6360 PetscCall(PetscFree(coo->Bperm2)); 6361 PetscCall(PetscFree(coo->Ajmap2)); 6362 PetscCall(PetscFree(coo->Bjmap2)); 6363 PetscCall(PetscFree(coo->Cperm1)); 6364 PetscCall(PetscFree2(coo->sendbuf, coo->recvbuf)); 6365 PetscCall(PetscFree(coo)); 6366 PetscFunctionReturn(PETSC_SUCCESS); 6367 } 6368 6369 PetscErrorCode MatSetPreallocationCOO_MPIAIJ(Mat mat, PetscCount coo_n, PetscInt coo_i[], PetscInt coo_j[]) 6370 { 6371 MPI_Comm comm; 6372 PetscMPIInt rank, size; 6373 PetscInt m, n, M, N, rstart, rend, cstart, cend; /* Sizes, indices of row/col, therefore with type PetscInt */ 6374 PetscCount k, p, q, rem; /* Loop variables over coo arrays */ 6375 Mat_MPIAIJ *mpiaij = (Mat_MPIAIJ *)mat->data; 6376 PetscContainer container; 6377 MatCOOStruct_MPIAIJ *coo; 6378 6379 PetscFunctionBegin; 6380 PetscCall(PetscFree(mpiaij->garray)); 6381 PetscCall(VecDestroy(&mpiaij->lvec)); 6382 #if defined(PETSC_USE_CTABLE) 6383 PetscCall(PetscHMapIDestroy(&mpiaij->colmap)); 6384 #else 6385 PetscCall(PetscFree(mpiaij->colmap)); 6386 #endif 6387 PetscCall(VecScatterDestroy(&mpiaij->Mvctx)); 6388 mat->assembled = PETSC_FALSE; 6389 mat->was_assembled = PETSC_FALSE; 6390 6391 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 6392 PetscCallMPI(MPI_Comm_size(comm, &size)); 6393 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 6394 PetscCall(PetscLayoutSetUp(mat->rmap)); 6395 PetscCall(PetscLayoutSetUp(mat->cmap)); 6396 PetscCall(PetscLayoutGetRange(mat->rmap, &rstart, &rend)); 6397 PetscCall(PetscLayoutGetRange(mat->cmap, &cstart, &cend)); 6398 PetscCall(MatGetLocalSize(mat, &m, &n)); 6399 PetscCall(MatGetSize(mat, &M, &N)); 6400 6401 /* Sort (i,j) by row along with a permutation array, so that the to-be-ignored */ 6402 /* entries come first, then local rows, then remote rows. */ 6403 PetscCount n1 = coo_n, *perm1; 6404 PetscInt *i1 = coo_i, *j1 = coo_j; 6405 6406 PetscCall(PetscMalloc1(n1, &perm1)); 6407 for (k = 0; k < n1; k++) perm1[k] = k; 6408 6409 /* Manipulate indices so that entries with negative row or col indices will have smallest 6410 row indices, local entries will have greater but negative row indices, and remote entries 6411 will have positive row indices. 6412 */ 6413 for (k = 0; k < n1; k++) { 6414 if (i1[k] < 0 || j1[k] < 0) i1[k] = PETSC_MIN_INT; /* e.g., -2^31, minimal to move them ahead */ 6415 else if (i1[k] >= rstart && i1[k] < rend) i1[k] -= PETSC_MAX_INT; /* e.g., minus 2^31-1 to shift local rows to range of [-PETSC_MAX_INT, -1] */ 6416 else { 6417 PetscCheck(!mat->nooffprocentries, PETSC_COMM_SELF, PETSC_ERR_USER_INPUT, "MAT_NO_OFF_PROC_ENTRIES is set but insert to remote rows"); 6418 if (mpiaij->donotstash) i1[k] = PETSC_MIN_INT; /* Ignore offproc entries as if they had negative indices */ 6419 } 6420 } 6421 6422 /* Sort by row; after that, [0,k) have ignored entries, [k,rem) have local rows and [rem,n1) have remote rows */ 6423 PetscCall(PetscSortIntWithIntCountArrayPair(n1, i1, j1, perm1)); 6424 6425 /* Advance k to the first entry we need to take care of */ 6426 for (k = 0; k < n1; k++) 6427 if (i1[k] > PETSC_MIN_INT) break; 6428 PetscInt i1start = k; 6429 6430 PetscCall(PetscSortedIntUpperBound(i1, k, n1, rend - 1 - PETSC_MAX_INT, &rem)); /* rem is upper bound of the last local row */ 6431 for (; k < rem; k++) i1[k] += PETSC_MAX_INT; /* Revert row indices of local rows*/ 6432 6433 /* Send remote rows to their owner */ 6434 /* Find which rows should be sent to which remote ranks*/ 6435 PetscInt nsend = 0; /* Number of MPI ranks to send data to */ 6436 PetscMPIInt *sendto; /* [nsend], storing remote ranks */ 6437 PetscInt *nentries; /* [nsend], storing number of entries sent to remote ranks; Assume PetscInt is big enough for this count, and error if not */ 6438 const PetscInt *ranges; 6439 PetscInt maxNsend = size >= 128 ? 128 : size; /* Assume max 128 neighbors; realloc when needed */ 6440 6441 PetscCall(PetscLayoutGetRanges(mat->rmap, &ranges)); 6442 PetscCall(PetscMalloc2(maxNsend, &sendto, maxNsend, &nentries)); 6443 for (k = rem; k < n1;) { 6444 PetscMPIInt owner; 6445 PetscInt firstRow, lastRow; 6446 6447 /* Locate a row range */ 6448 firstRow = i1[k]; /* first row of this owner */ 6449 PetscCall(PetscLayoutFindOwner(mat->rmap, firstRow, &owner)); 6450 lastRow = ranges[owner + 1] - 1; /* last row of this owner */ 6451 6452 /* Find the first index 'p' in [k,n) with i[p] belonging to next owner */ 6453 PetscCall(PetscSortedIntUpperBound(i1, k, n1, lastRow, &p)); 6454 6455 /* All entries in [k,p) belong to this remote owner */ 6456 if (nsend >= maxNsend) { /* Double the remote ranks arrays if not long enough */ 6457 PetscMPIInt *sendto2; 6458 PetscInt *nentries2; 6459 PetscInt maxNsend2 = (maxNsend <= size / 2) ? maxNsend * 2 : size; 6460 6461 PetscCall(PetscMalloc2(maxNsend2, &sendto2, maxNsend2, &nentries2)); 6462 PetscCall(PetscArraycpy(sendto2, sendto, maxNsend)); 6463 PetscCall(PetscArraycpy(nentries2, nentries2, maxNsend + 1)); 6464 PetscCall(PetscFree2(sendto, nentries2)); 6465 sendto = sendto2; 6466 nentries = nentries2; 6467 maxNsend = maxNsend2; 6468 } 6469 sendto[nsend] = owner; 6470 nentries[nsend] = p - k; 6471 PetscCall(PetscCountCast(p - k, &nentries[nsend])); 6472 nsend++; 6473 k = p; 6474 } 6475 6476 /* Build 1st SF to know offsets on remote to send data */ 6477 PetscSF sf1; 6478 PetscInt nroots = 1, nroots2 = 0; 6479 PetscInt nleaves = nsend, nleaves2 = 0; 6480 PetscInt *offsets; 6481 PetscSFNode *iremote; 6482 6483 PetscCall(PetscSFCreate(comm, &sf1)); 6484 PetscCall(PetscMalloc1(nsend, &iremote)); 6485 PetscCall(PetscMalloc1(nsend, &offsets)); 6486 for (k = 0; k < nsend; k++) { 6487 iremote[k].rank = sendto[k]; 6488 iremote[k].index = 0; 6489 nleaves2 += nentries[k]; 6490 PetscCheck(nleaves2 >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Number of SF leaves is too large for PetscInt"); 6491 } 6492 PetscCall(PetscSFSetGraph(sf1, nroots, nleaves, NULL, PETSC_OWN_POINTER, iremote, PETSC_OWN_POINTER)); 6493 PetscCall(PetscSFFetchAndOpWithMemTypeBegin(sf1, MPIU_INT, PETSC_MEMTYPE_HOST, &nroots2 /*rootdata*/, PETSC_MEMTYPE_HOST, nentries /*leafdata*/, PETSC_MEMTYPE_HOST, offsets /*leafupdate*/, MPI_SUM)); 6494 PetscCall(PetscSFFetchAndOpEnd(sf1, MPIU_INT, &nroots2, nentries, offsets, MPI_SUM)); /* Would nroots2 overflow, we check offsets[] below */ 6495 PetscCall(PetscSFDestroy(&sf1)); 6496 PetscAssert(nleaves2 == n1 - rem, PETSC_COMM_SELF, PETSC_ERR_PLIB, "nleaves2 %" PetscInt_FMT " != number of remote entries %" PetscCount_FMT "", nleaves2, n1 - rem); 6497 6498 /* Build 2nd SF to send remote COOs to their owner */ 6499 PetscSF sf2; 6500 nroots = nroots2; 6501 nleaves = nleaves2; 6502 PetscCall(PetscSFCreate(comm, &sf2)); 6503 PetscCall(PetscSFSetFromOptions(sf2)); 6504 PetscCall(PetscMalloc1(nleaves, &iremote)); 6505 p = 0; 6506 for (k = 0; k < nsend; k++) { 6507 PetscCheck(offsets[k] >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Number of SF roots is too large for PetscInt"); 6508 for (q = 0; q < nentries[k]; q++, p++) { 6509 iremote[p].rank = sendto[k]; 6510 iremote[p].index = offsets[k] + q; 6511 } 6512 } 6513 PetscCall(PetscSFSetGraph(sf2, nroots, nleaves, NULL, PETSC_OWN_POINTER, iremote, PETSC_OWN_POINTER)); 6514 6515 /* Send the remote COOs to their owner */ 6516 PetscInt n2 = nroots, *i2, *j2; /* Buffers for received COOs from other ranks, along with a permutation array */ 6517 PetscCount *perm2; /* Though PetscInt is enough for remote entries, we use PetscCount here as we want to reuse MatSplitEntries_Internal() */ 6518 PetscCall(PetscMalloc3(n2, &i2, n2, &j2, n2, &perm2)); 6519 PetscCall(PetscSFReduceWithMemTypeBegin(sf2, MPIU_INT, PETSC_MEMTYPE_HOST, i1 + rem, PETSC_MEMTYPE_HOST, i2, MPI_REPLACE)); 6520 PetscCall(PetscSFReduceEnd(sf2, MPIU_INT, i1 + rem, i2, MPI_REPLACE)); 6521 PetscCall(PetscSFReduceWithMemTypeBegin(sf2, MPIU_INT, PETSC_MEMTYPE_HOST, j1 + rem, PETSC_MEMTYPE_HOST, j2, MPI_REPLACE)); 6522 PetscCall(PetscSFReduceEnd(sf2, MPIU_INT, j1 + rem, j2, MPI_REPLACE)); 6523 6524 PetscCall(PetscFree(offsets)); 6525 PetscCall(PetscFree2(sendto, nentries)); 6526 6527 /* Sort received COOs by row along with the permutation array */ 6528 for (k = 0; k < n2; k++) perm2[k] = k; 6529 PetscCall(PetscSortIntWithIntCountArrayPair(n2, i2, j2, perm2)); 6530 6531 /* sf2 only sends contiguous leafdata to contiguous rootdata. We record the permutation which will be used to fill leafdata */ 6532 PetscCount *Cperm1; 6533 PetscCall(PetscMalloc1(nleaves, &Cperm1)); 6534 PetscCall(PetscArraycpy(Cperm1, perm1 + rem, nleaves)); 6535 6536 /* Support for HYPRE matrices, kind of a hack. 6537 Swap min column with diagonal so that diagonal values will go first */ 6538 PetscBool hypre; 6539 const char *name; 6540 PetscCall(PetscObjectGetName((PetscObject)mat, &name)); 6541 PetscCall(PetscStrcmp("_internal_COO_mat_for_hypre", name, &hypre)); 6542 if (hypre) { 6543 PetscInt *minj; 6544 PetscBT hasdiag; 6545 6546 PetscCall(PetscBTCreate(m, &hasdiag)); 6547 PetscCall(PetscMalloc1(m, &minj)); 6548 for (k = 0; k < m; k++) minj[k] = PETSC_MAX_INT; 6549 for (k = i1start; k < rem; k++) { 6550 if (j1[k] < cstart || j1[k] >= cend) continue; 6551 const PetscInt rindex = i1[k] - rstart; 6552 if ((j1[k] - cstart) == rindex) PetscCall(PetscBTSet(hasdiag, rindex)); 6553 minj[rindex] = PetscMin(minj[rindex], j1[k]); 6554 } 6555 for (k = 0; k < n2; k++) { 6556 if (j2[k] < cstart || j2[k] >= cend) continue; 6557 const PetscInt rindex = i2[k] - rstart; 6558 if ((j2[k] - cstart) == rindex) PetscCall(PetscBTSet(hasdiag, rindex)); 6559 minj[rindex] = PetscMin(minj[rindex], j2[k]); 6560 } 6561 for (k = i1start; k < rem; k++) { 6562 const PetscInt rindex = i1[k] - rstart; 6563 if (j1[k] < cstart || j1[k] >= cend || !PetscBTLookup(hasdiag, rindex)) continue; 6564 if (j1[k] == minj[rindex]) j1[k] = i1[k] + (cstart - rstart); 6565 else if ((j1[k] - cstart) == rindex) j1[k] = minj[rindex]; 6566 } 6567 for (k = 0; k < n2; k++) { 6568 const PetscInt rindex = i2[k] - rstart; 6569 if (j2[k] < cstart || j2[k] >= cend || !PetscBTLookup(hasdiag, rindex)) continue; 6570 if (j2[k] == minj[rindex]) j2[k] = i2[k] + (cstart - rstart); 6571 else if ((j2[k] - cstart) == rindex) j2[k] = minj[rindex]; 6572 } 6573 PetscCall(PetscBTDestroy(&hasdiag)); 6574 PetscCall(PetscFree(minj)); 6575 } 6576 6577 /* Split local COOs and received COOs into diag/offdiag portions */ 6578 PetscCount *rowBegin1, *rowMid1, *rowEnd1; 6579 PetscCount *Ajmap1, *Aperm1, *Bjmap1, *Bperm1; 6580 PetscCount Annz1, Bnnz1, Atot1, Btot1; 6581 PetscCount *rowBegin2, *rowMid2, *rowEnd2; 6582 PetscCount *Ajmap2, *Aperm2, *Bjmap2, *Bperm2; 6583 PetscCount Annz2, Bnnz2, Atot2, Btot2; 6584 6585 PetscCall(PetscCalloc3(m, &rowBegin1, m, &rowMid1, m, &rowEnd1)); 6586 PetscCall(PetscCalloc3(m, &rowBegin2, m, &rowMid2, m, &rowEnd2)); 6587 PetscCall(MatSplitEntries_Internal(mat, rem, i1, j1, perm1, rowBegin1, rowMid1, rowEnd1, &Atot1, &Aperm1, &Annz1, &Ajmap1, &Btot1, &Bperm1, &Bnnz1, &Bjmap1)); 6588 PetscCall(MatSplitEntries_Internal(mat, n2, i2, j2, perm2, rowBegin2, rowMid2, rowEnd2, &Atot2, &Aperm2, &Annz2, &Ajmap2, &Btot2, &Bperm2, &Bnnz2, &Bjmap2)); 6589 6590 /* Merge local COOs with received COOs: diag with diag, offdiag with offdiag */ 6591 PetscInt *Ai, *Bi; 6592 PetscInt *Aj, *Bj; 6593 6594 PetscCall(PetscMalloc1(m + 1, &Ai)); 6595 PetscCall(PetscMalloc1(m + 1, &Bi)); 6596 PetscCall(PetscMalloc1(Annz1 + Annz2, &Aj)); /* Since local and remote entries might have dups, we might allocate excess memory */ 6597 PetscCall(PetscMalloc1(Bnnz1 + Bnnz2, &Bj)); 6598 6599 PetscCount *Aimap1, *Bimap1, *Aimap2, *Bimap2; 6600 PetscCall(PetscMalloc1(Annz1, &Aimap1)); 6601 PetscCall(PetscMalloc1(Bnnz1, &Bimap1)); 6602 PetscCall(PetscMalloc1(Annz2, &Aimap2)); 6603 PetscCall(PetscMalloc1(Bnnz2, &Bimap2)); 6604 6605 PetscCall(MatMergeEntries_Internal(mat, j1, j2, rowBegin1, rowMid1, rowBegin2, rowMid2, Ajmap1, Ajmap2, Aimap1, Aimap2, Ai, Aj)); 6606 PetscCall(MatMergeEntries_Internal(mat, j1, j2, rowMid1, rowEnd1, rowMid2, rowEnd2, Bjmap1, Bjmap2, Bimap1, Bimap2, Bi, Bj)); 6607 6608 /* Expand Ajmap1/Bjmap1 to make them based off nonzeros in A/B, since we */ 6609 /* expect nonzeros in A/B most likely have local contributing entries */ 6610 PetscInt Annz = Ai[m]; 6611 PetscInt Bnnz = Bi[m]; 6612 PetscCount *Ajmap1_new, *Bjmap1_new; 6613 6614 PetscCall(PetscMalloc1(Annz + 1, &Ajmap1_new)); 6615 PetscCall(PetscMalloc1(Bnnz + 1, &Bjmap1_new)); 6616 6617 PetscCall(ExpandJmap_Internal(Annz1, Annz, Aimap1, Ajmap1, Ajmap1_new)); 6618 PetscCall(ExpandJmap_Internal(Bnnz1, Bnnz, Bimap1, Bjmap1, Bjmap1_new)); 6619 6620 PetscCall(PetscFree(Aimap1)); 6621 PetscCall(PetscFree(Ajmap1)); 6622 PetscCall(PetscFree(Bimap1)); 6623 PetscCall(PetscFree(Bjmap1)); 6624 PetscCall(PetscFree3(rowBegin1, rowMid1, rowEnd1)); 6625 PetscCall(PetscFree3(rowBegin2, rowMid2, rowEnd2)); 6626 PetscCall(PetscFree(perm1)); 6627 PetscCall(PetscFree3(i2, j2, perm2)); 6628 6629 Ajmap1 = Ajmap1_new; 6630 Bjmap1 = Bjmap1_new; 6631 6632 /* Reallocate Aj, Bj once we know actual numbers of unique nonzeros in A and B */ 6633 if (Annz < Annz1 + Annz2) { 6634 PetscInt *Aj_new; 6635 PetscCall(PetscMalloc1(Annz, &Aj_new)); 6636 PetscCall(PetscArraycpy(Aj_new, Aj, Annz)); 6637 PetscCall(PetscFree(Aj)); 6638 Aj = Aj_new; 6639 } 6640 6641 if (Bnnz < Bnnz1 + Bnnz2) { 6642 PetscInt *Bj_new; 6643 PetscCall(PetscMalloc1(Bnnz, &Bj_new)); 6644 PetscCall(PetscArraycpy(Bj_new, Bj, Bnnz)); 6645 PetscCall(PetscFree(Bj)); 6646 Bj = Bj_new; 6647 } 6648 6649 /* Create new submatrices for on-process and off-process coupling */ 6650 PetscScalar *Aa, *Ba; 6651 MatType rtype; 6652 Mat_SeqAIJ *a, *b; 6653 PetscObjectState state; 6654 PetscCall(PetscCalloc1(Annz, &Aa)); /* Zero matrix on device */ 6655 PetscCall(PetscCalloc1(Bnnz, &Ba)); 6656 /* make Aj[] local, i.e, based off the start column of the diagonal portion */ 6657 if (cstart) { 6658 for (k = 0; k < Annz; k++) Aj[k] -= cstart; 6659 } 6660 PetscCall(MatDestroy(&mpiaij->A)); 6661 PetscCall(MatDestroy(&mpiaij->B)); 6662 PetscCall(MatGetRootType_Private(mat, &rtype)); 6663 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, m, n, Ai, Aj, Aa, &mpiaij->A)); 6664 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, m, mat->cmap->N, Bi, Bj, Ba, &mpiaij->B)); 6665 PetscCall(MatSetUpMultiply_MPIAIJ(mat)); 6666 mat->was_assembled = PETSC_TRUE; // was_assembled in effect means the Mvctx is built; doing so avoids redundant MatSetUpMultiply_MPIAIJ 6667 state = mpiaij->A->nonzerostate + mpiaij->B->nonzerostate; 6668 PetscCall(MPIU_Allreduce(&state, &mat->nonzerostate, 1, MPIU_INT64, MPI_SUM, PetscObjectComm((PetscObject)mat))); 6669 6670 a = (Mat_SeqAIJ *)mpiaij->A->data; 6671 b = (Mat_SeqAIJ *)mpiaij->B->data; 6672 a->singlemalloc = b->singlemalloc = PETSC_FALSE; /* Let newmat own Ai,Aj,Aa,Bi,Bj,Ba */ 6673 a->free_a = b->free_a = PETSC_TRUE; 6674 a->free_ij = b->free_ij = PETSC_TRUE; 6675 6676 /* conversion must happen AFTER multiply setup */ 6677 PetscCall(MatConvert(mpiaij->A, rtype, MAT_INPLACE_MATRIX, &mpiaij->A)); 6678 PetscCall(MatConvert(mpiaij->B, rtype, MAT_INPLACE_MATRIX, &mpiaij->B)); 6679 PetscCall(VecDestroy(&mpiaij->lvec)); 6680 PetscCall(MatCreateVecs(mpiaij->B, &mpiaij->lvec, NULL)); 6681 6682 // Put the COO struct in a container and then attach that to the matrix 6683 PetscCall(PetscMalloc1(1, &coo)); 6684 coo->n = coo_n; 6685 coo->sf = sf2; 6686 coo->sendlen = nleaves; 6687 coo->recvlen = nroots; 6688 coo->Annz = Annz; 6689 coo->Bnnz = Bnnz; 6690 coo->Annz2 = Annz2; 6691 coo->Bnnz2 = Bnnz2; 6692 coo->Atot1 = Atot1; 6693 coo->Atot2 = Atot2; 6694 coo->Btot1 = Btot1; 6695 coo->Btot2 = Btot2; 6696 coo->Ajmap1 = Ajmap1; 6697 coo->Aperm1 = Aperm1; 6698 coo->Bjmap1 = Bjmap1; 6699 coo->Bperm1 = Bperm1; 6700 coo->Aimap2 = Aimap2; 6701 coo->Ajmap2 = Ajmap2; 6702 coo->Aperm2 = Aperm2; 6703 coo->Bimap2 = Bimap2; 6704 coo->Bjmap2 = Bjmap2; 6705 coo->Bperm2 = Bperm2; 6706 coo->Cperm1 = Cperm1; 6707 // Allocate in preallocation. If not used, it has zero cost on host 6708 PetscCall(PetscMalloc2(coo->sendlen, &coo->sendbuf, coo->recvlen, &coo->recvbuf)); 6709 PetscCall(PetscContainerCreate(PETSC_COMM_SELF, &container)); 6710 PetscCall(PetscContainerSetPointer(container, coo)); 6711 PetscCall(PetscContainerSetUserDestroy(container, MatCOOStructDestroy_MPIAIJ)); 6712 PetscCall(PetscObjectCompose((PetscObject)mat, "__PETSc_MatCOOStruct_Host", (PetscObject)container)); 6713 PetscCall(PetscContainerDestroy(&container)); 6714 PetscFunctionReturn(PETSC_SUCCESS); 6715 } 6716 6717 static PetscErrorCode MatSetValuesCOO_MPIAIJ(Mat mat, const PetscScalar v[], InsertMode imode) 6718 { 6719 Mat_MPIAIJ *mpiaij = (Mat_MPIAIJ *)mat->data; 6720 Mat A = mpiaij->A, B = mpiaij->B; 6721 PetscScalar *Aa, *Ba; 6722 PetscScalar *sendbuf, *recvbuf; 6723 const PetscCount *Ajmap1, *Ajmap2, *Aimap2; 6724 const PetscCount *Bjmap1, *Bjmap2, *Bimap2; 6725 const PetscCount *Aperm1, *Aperm2, *Bperm1, *Bperm2; 6726 const PetscCount *Cperm1; 6727 PetscContainer container; 6728 MatCOOStruct_MPIAIJ *coo; 6729 6730 PetscFunctionBegin; 6731 PetscCall(PetscObjectQuery((PetscObject)mat, "__PETSc_MatCOOStruct_Host", (PetscObject *)&container)); 6732 PetscCheck(container, PetscObjectComm((PetscObject)mat), PETSC_ERR_PLIB, "Not found MatCOOStruct on this matrix"); 6733 PetscCall(PetscContainerGetPointer(container, (void **)&coo)); 6734 sendbuf = coo->sendbuf; 6735 recvbuf = coo->recvbuf; 6736 Ajmap1 = coo->Ajmap1; 6737 Ajmap2 = coo->Ajmap2; 6738 Aimap2 = coo->Aimap2; 6739 Bjmap1 = coo->Bjmap1; 6740 Bjmap2 = coo->Bjmap2; 6741 Bimap2 = coo->Bimap2; 6742 Aperm1 = coo->Aperm1; 6743 Aperm2 = coo->Aperm2; 6744 Bperm1 = coo->Bperm1; 6745 Bperm2 = coo->Bperm2; 6746 Cperm1 = coo->Cperm1; 6747 6748 PetscCall(MatSeqAIJGetArray(A, &Aa)); /* Might read and write matrix values */ 6749 PetscCall(MatSeqAIJGetArray(B, &Ba)); 6750 6751 /* Pack entries to be sent to remote */ 6752 for (PetscCount i = 0; i < coo->sendlen; i++) sendbuf[i] = v[Cperm1[i]]; 6753 6754 /* Send remote entries to their owner and overlap the communication with local computation */ 6755 PetscCall(PetscSFReduceWithMemTypeBegin(coo->sf, MPIU_SCALAR, PETSC_MEMTYPE_HOST, sendbuf, PETSC_MEMTYPE_HOST, recvbuf, MPI_REPLACE)); 6756 /* Add local entries to A and B */ 6757 for (PetscCount i = 0; i < coo->Annz; i++) { /* All nonzeros in A are either zero'ed or added with a value (i.e., initialized) */ 6758 PetscScalar sum = 0.0; /* Do partial summation first to improve numerical stability */ 6759 for (PetscCount k = Ajmap1[i]; k < Ajmap1[i + 1]; k++) sum += v[Aperm1[k]]; 6760 Aa[i] = (imode == INSERT_VALUES ? 0.0 : Aa[i]) + sum; 6761 } 6762 for (PetscCount i = 0; i < coo->Bnnz; i++) { 6763 PetscScalar sum = 0.0; 6764 for (PetscCount k = Bjmap1[i]; k < Bjmap1[i + 1]; k++) sum += v[Bperm1[k]]; 6765 Ba[i] = (imode == INSERT_VALUES ? 0.0 : Ba[i]) + sum; 6766 } 6767 PetscCall(PetscSFReduceEnd(coo->sf, MPIU_SCALAR, sendbuf, recvbuf, MPI_REPLACE)); 6768 6769 /* Add received remote entries to A and B */ 6770 for (PetscCount i = 0; i < coo->Annz2; i++) { 6771 for (PetscCount k = Ajmap2[i]; k < Ajmap2[i + 1]; k++) Aa[Aimap2[i]] += recvbuf[Aperm2[k]]; 6772 } 6773 for (PetscCount i = 0; i < coo->Bnnz2; i++) { 6774 for (PetscCount k = Bjmap2[i]; k < Bjmap2[i + 1]; k++) Ba[Bimap2[i]] += recvbuf[Bperm2[k]]; 6775 } 6776 PetscCall(MatSeqAIJRestoreArray(A, &Aa)); 6777 PetscCall(MatSeqAIJRestoreArray(B, &Ba)); 6778 PetscFunctionReturn(PETSC_SUCCESS); 6779 } 6780 6781 /*MC 6782 MATMPIAIJ - MATMPIAIJ = "mpiaij" - A matrix type to be used for parallel sparse matrices. 6783 6784 Options Database Keys: 6785 . -mat_type mpiaij - sets the matrix type to `MATMPIAIJ` during a call to `MatSetFromOptions()` 6786 6787 Level: beginner 6788 6789 Notes: 6790 `MatSetValues()` may be called for this matrix type with a `NULL` argument for the numerical values, 6791 in this case the values associated with the rows and columns one passes in are set to zero 6792 in the matrix 6793 6794 `MatSetOptions`(,`MAT_STRUCTURE_ONLY`,`PETSC_TRUE`) may be called for this matrix type. In this no 6795 space is allocated for the nonzero entries and any entries passed with `MatSetValues()` are ignored 6796 6797 .seealso: [](ch_matrices), `Mat`, `MATSEQAIJ`, `MATAIJ`, `MatCreateAIJ()` 6798 M*/ 6799 PETSC_EXTERN PetscErrorCode MatCreate_MPIAIJ(Mat B) 6800 { 6801 Mat_MPIAIJ *b; 6802 PetscMPIInt size; 6803 6804 PetscFunctionBegin; 6805 PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)B), &size)); 6806 6807 PetscCall(PetscNew(&b)); 6808 B->data = (void *)b; 6809 B->ops[0] = MatOps_Values; 6810 B->assembled = PETSC_FALSE; 6811 B->insertmode = NOT_SET_VALUES; 6812 b->size = size; 6813 6814 PetscCallMPI(MPI_Comm_rank(PetscObjectComm((PetscObject)B), &b->rank)); 6815 6816 /* build cache for off array entries formed */ 6817 PetscCall(MatStashCreate_Private(PetscObjectComm((PetscObject)B), 1, &B->stash)); 6818 6819 b->donotstash = PETSC_FALSE; 6820 b->colmap = NULL; 6821 b->garray = NULL; 6822 b->roworiented = PETSC_TRUE; 6823 6824 /* stuff used for matrix vector multiply */ 6825 b->lvec = NULL; 6826 b->Mvctx = NULL; 6827 6828 /* stuff for MatGetRow() */ 6829 b->rowindices = NULL; 6830 b->rowvalues = NULL; 6831 b->getrowactive = PETSC_FALSE; 6832 6833 /* flexible pointer used in CUSPARSE classes */ 6834 b->spptr = NULL; 6835 6836 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatMPIAIJSetUseScalableIncreaseOverlap_C", MatMPIAIJSetUseScalableIncreaseOverlap_MPIAIJ)); 6837 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatStoreValues_C", MatStoreValues_MPIAIJ)); 6838 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatRetrieveValues_C", MatRetrieveValues_MPIAIJ)); 6839 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatIsTranspose_C", MatIsTranspose_MPIAIJ)); 6840 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatMPIAIJSetPreallocation_C", MatMPIAIJSetPreallocation_MPIAIJ)); 6841 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatResetPreallocation_C", MatResetPreallocation_MPIAIJ)); 6842 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatMPIAIJSetPreallocationCSR_C", MatMPIAIJSetPreallocationCSR_MPIAIJ)); 6843 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatDiagonalScaleLocal_C", MatDiagonalScaleLocal_MPIAIJ)); 6844 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijperm_C", MatConvert_MPIAIJ_MPIAIJPERM)); 6845 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijsell_C", MatConvert_MPIAIJ_MPIAIJSELL)); 6846 #if defined(PETSC_HAVE_CUDA) 6847 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijcusparse_C", MatConvert_MPIAIJ_MPIAIJCUSPARSE)); 6848 #endif 6849 #if defined(PETSC_HAVE_HIP) 6850 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijhipsparse_C", MatConvert_MPIAIJ_MPIAIJHIPSPARSE)); 6851 #endif 6852 #if defined(PETSC_HAVE_KOKKOS_KERNELS) 6853 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijkokkos_C", MatConvert_MPIAIJ_MPIAIJKokkos)); 6854 #endif 6855 #if defined(PETSC_HAVE_MKL_SPARSE) 6856 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijmkl_C", MatConvert_MPIAIJ_MPIAIJMKL)); 6857 #endif 6858 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijcrl_C", MatConvert_MPIAIJ_MPIAIJCRL)); 6859 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpibaij_C", MatConvert_MPIAIJ_MPIBAIJ)); 6860 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpisbaij_C", MatConvert_MPIAIJ_MPISBAIJ)); 6861 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpidense_C", MatConvert_MPIAIJ_MPIDense)); 6862 #if defined(PETSC_HAVE_ELEMENTAL) 6863 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_elemental_C", MatConvert_MPIAIJ_Elemental)); 6864 #endif 6865 #if defined(PETSC_HAVE_SCALAPACK) 6866 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_scalapack_C", MatConvert_AIJ_ScaLAPACK)); 6867 #endif 6868 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_is_C", MatConvert_XAIJ_IS)); 6869 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpisell_C", MatConvert_MPIAIJ_MPISELL)); 6870 #if defined(PETSC_HAVE_HYPRE) 6871 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_hypre_C", MatConvert_AIJ_HYPRE)); 6872 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatProductSetFromOptions_transpose_mpiaij_mpiaij_C", MatProductSetFromOptions_Transpose_AIJ_AIJ)); 6873 #endif 6874 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatProductSetFromOptions_is_mpiaij_C", MatProductSetFromOptions_IS_XAIJ)); 6875 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatProductSetFromOptions_mpiaij_mpiaij_C", MatProductSetFromOptions_MPIAIJ)); 6876 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatSetPreallocationCOO_C", MatSetPreallocationCOO_MPIAIJ)); 6877 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatSetValuesCOO_C", MatSetValuesCOO_MPIAIJ)); 6878 PetscCall(PetscObjectChangeTypeName((PetscObject)B, MATMPIAIJ)); 6879 PetscFunctionReturn(PETSC_SUCCESS); 6880 } 6881 6882 /*@C 6883 MatCreateMPIAIJWithSplitArrays - creates a `MATMPIAIJ` matrix using arrays that contain the "diagonal" 6884 and "off-diagonal" part of the matrix in CSR format. 6885 6886 Collective 6887 6888 Input Parameters: 6889 + comm - MPI communicator 6890 . m - number of local rows (Cannot be `PETSC_DECIDE`) 6891 . n - This value should be the same as the local size used in creating the 6892 x vector for the matrix-vector product y = Ax. (or `PETSC_DECIDE` to have 6893 calculated if `N` is given) For square matrices `n` is almost always `m`. 6894 . M - number of global rows (or `PETSC_DETERMINE` to have calculated if `m` is given) 6895 . N - number of global columns (or `PETSC_DETERMINE` to have calculated if `n` is given) 6896 . i - row indices for "diagonal" portion of matrix; that is i[0] = 0, i[row] = i[row-1] + number of elements in that row of the matrix 6897 . j - column indices, which must be local, i.e., based off the start column of the diagonal portion 6898 . a - matrix values 6899 . oi - row indices for "off-diagonal" portion of matrix; that is oi[0] = 0, oi[row] = oi[row-1] + number of elements in that row of the matrix 6900 . oj - column indices, which must be global, representing global columns in the `MATMPIAIJ` matrix 6901 - oa - matrix values 6902 6903 Output Parameter: 6904 . mat - the matrix 6905 6906 Level: advanced 6907 6908 Notes: 6909 The `i`, `j`, and `a` arrays ARE NOT copied by this routine into the internal format used by PETSc. The user 6910 must free the arrays once the matrix has been destroyed and not before. 6911 6912 The `i` and `j` indices are 0 based 6913 6914 See `MatCreateAIJ()` for the definition of "diagonal" and "off-diagonal" portion of the matrix 6915 6916 This sets local rows and cannot be used to set off-processor values. 6917 6918 Use of this routine is discouraged because it is inflexible and cumbersome to use. It is extremely rare that a 6919 legacy application natively assembles into exactly this split format. The code to do so is nontrivial and does 6920 not easily support in-place reassembly. It is recommended to use MatSetValues() (or a variant thereof) because 6921 the resulting assembly is easier to implement, will work with any matrix format, and the user does not have to 6922 keep track of the underlying array. Use `MatSetOption`(A,`MAT_NO_OFF_PROC_ENTRIES`,`PETSC_TRUE`) to disable all 6923 communication if it is known that only local entries will be set. 6924 6925 .seealso: [](ch_matrices), `Mat`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatMPIAIJSetPreallocationCSR()`, 6926 `MATMPIAIJ`, `MatCreateAIJ()`, `MatCreateMPIAIJWithArrays()` 6927 @*/ 6928 PetscErrorCode MatCreateMPIAIJWithSplitArrays(MPI_Comm comm, PetscInt m, PetscInt n, PetscInt M, PetscInt N, PetscInt i[], PetscInt j[], PetscScalar a[], PetscInt oi[], PetscInt oj[], PetscScalar oa[], Mat *mat) 6929 { 6930 Mat_MPIAIJ *maij; 6931 6932 PetscFunctionBegin; 6933 PetscCheck(m >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "local number of rows (m) cannot be PETSC_DECIDE, or negative"); 6934 PetscCheck(i[0] == 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "i (row indices) must start with 0"); 6935 PetscCheck(oi[0] == 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "oi (row indices) must start with 0"); 6936 PetscCall(MatCreate(comm, mat)); 6937 PetscCall(MatSetSizes(*mat, m, n, M, N)); 6938 PetscCall(MatSetType(*mat, MATMPIAIJ)); 6939 maij = (Mat_MPIAIJ *)(*mat)->data; 6940 6941 (*mat)->preallocated = PETSC_TRUE; 6942 6943 PetscCall(PetscLayoutSetUp((*mat)->rmap)); 6944 PetscCall(PetscLayoutSetUp((*mat)->cmap)); 6945 6946 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, m, n, i, j, a, &maij->A)); 6947 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, m, (*mat)->cmap->N, oi, oj, oa, &maij->B)); 6948 6949 PetscCall(MatSetOption(*mat, MAT_NO_OFF_PROC_ENTRIES, PETSC_TRUE)); 6950 PetscCall(MatAssemblyBegin(*mat, MAT_FINAL_ASSEMBLY)); 6951 PetscCall(MatAssemblyEnd(*mat, MAT_FINAL_ASSEMBLY)); 6952 PetscCall(MatSetOption(*mat, MAT_NO_OFF_PROC_ENTRIES, PETSC_FALSE)); 6953 PetscCall(MatSetOption(*mat, MAT_NEW_NONZERO_LOCATION_ERR, PETSC_TRUE)); 6954 PetscFunctionReturn(PETSC_SUCCESS); 6955 } 6956 6957 typedef struct { 6958 Mat *mp; /* intermediate products */ 6959 PetscBool *mptmp; /* is the intermediate product temporary ? */ 6960 PetscInt cp; /* number of intermediate products */ 6961 6962 /* support for MatGetBrowsOfAoCols_MPIAIJ for P_oth */ 6963 PetscInt *startsj_s, *startsj_r; 6964 PetscScalar *bufa; 6965 Mat P_oth; 6966 6967 /* may take advantage of merging product->B */ 6968 Mat Bloc; /* B-local by merging diag and off-diag */ 6969 6970 /* cusparse does not have support to split between symbolic and numeric phases. 6971 When api_user is true, we don't need to update the numerical values 6972 of the temporary storage */ 6973 PetscBool reusesym; 6974 6975 /* support for COO values insertion */ 6976 PetscScalar *coo_v, *coo_w; /* store on-process and off-process COO scalars, and used as MPI recv/send buffers respectively */ 6977 PetscInt **own; /* own[i] points to address of on-process COO indices for Mat mp[i] */ 6978 PetscInt **off; /* off[i] points to address of off-process COO indices for Mat mp[i] */ 6979 PetscBool hasoffproc; /* if true, have off-process values insertion (i.e. AtB or PtAP) */ 6980 PetscSF sf; /* used for non-local values insertion and memory malloc */ 6981 PetscMemType mtype; 6982 6983 /* customization */ 6984 PetscBool abmerge; 6985 PetscBool P_oth_bind; 6986 } MatMatMPIAIJBACKEND; 6987 6988 static PetscErrorCode MatDestroy_MatMatMPIAIJBACKEND(void *data) 6989 { 6990 MatMatMPIAIJBACKEND *mmdata = (MatMatMPIAIJBACKEND *)data; 6991 PetscInt i; 6992 6993 PetscFunctionBegin; 6994 PetscCall(PetscFree2(mmdata->startsj_s, mmdata->startsj_r)); 6995 PetscCall(PetscFree(mmdata->bufa)); 6996 PetscCall(PetscSFFree(mmdata->sf, mmdata->mtype, mmdata->coo_v)); 6997 PetscCall(PetscSFFree(mmdata->sf, mmdata->mtype, mmdata->coo_w)); 6998 PetscCall(MatDestroy(&mmdata->P_oth)); 6999 PetscCall(MatDestroy(&mmdata->Bloc)); 7000 PetscCall(PetscSFDestroy(&mmdata->sf)); 7001 for (i = 0; i < mmdata->cp; i++) PetscCall(MatDestroy(&mmdata->mp[i])); 7002 PetscCall(PetscFree2(mmdata->mp, mmdata->mptmp)); 7003 PetscCall(PetscFree(mmdata->own[0])); 7004 PetscCall(PetscFree(mmdata->own)); 7005 PetscCall(PetscFree(mmdata->off[0])); 7006 PetscCall(PetscFree(mmdata->off)); 7007 PetscCall(PetscFree(mmdata)); 7008 PetscFunctionReturn(PETSC_SUCCESS); 7009 } 7010 7011 /* Copy selected n entries with indices in idx[] of A to v[]. 7012 If idx is NULL, copy the whole data array of A to v[] 7013 */ 7014 static PetscErrorCode MatSeqAIJCopySubArray(Mat A, PetscInt n, const PetscInt idx[], PetscScalar v[]) 7015 { 7016 PetscErrorCode (*f)(Mat, PetscInt, const PetscInt[], PetscScalar[]); 7017 7018 PetscFunctionBegin; 7019 PetscCall(PetscObjectQueryFunction((PetscObject)A, "MatSeqAIJCopySubArray_C", &f)); 7020 if (f) { 7021 PetscCall((*f)(A, n, idx, v)); 7022 } else { 7023 const PetscScalar *vv; 7024 7025 PetscCall(MatSeqAIJGetArrayRead(A, &vv)); 7026 if (n && idx) { 7027 PetscScalar *w = v; 7028 const PetscInt *oi = idx; 7029 PetscInt j; 7030 7031 for (j = 0; j < n; j++) *w++ = vv[*oi++]; 7032 } else { 7033 PetscCall(PetscArraycpy(v, vv, n)); 7034 } 7035 PetscCall(MatSeqAIJRestoreArrayRead(A, &vv)); 7036 } 7037 PetscFunctionReturn(PETSC_SUCCESS); 7038 } 7039 7040 static PetscErrorCode MatProductNumeric_MPIAIJBACKEND(Mat C) 7041 { 7042 MatMatMPIAIJBACKEND *mmdata; 7043 PetscInt i, n_d, n_o; 7044 7045 PetscFunctionBegin; 7046 MatCheckProduct(C, 1); 7047 PetscCheck(C->product->data, PetscObjectComm((PetscObject)C), PETSC_ERR_PLIB, "Product data empty"); 7048 mmdata = (MatMatMPIAIJBACKEND *)C->product->data; 7049 if (!mmdata->reusesym) { /* update temporary matrices */ 7050 if (mmdata->P_oth) PetscCall(MatGetBrowsOfAoCols_MPIAIJ(C->product->A, C->product->B, MAT_REUSE_MATRIX, &mmdata->startsj_s, &mmdata->startsj_r, &mmdata->bufa, &mmdata->P_oth)); 7051 if (mmdata->Bloc) PetscCall(MatMPIAIJGetLocalMatMerge(C->product->B, MAT_REUSE_MATRIX, NULL, &mmdata->Bloc)); 7052 } 7053 mmdata->reusesym = PETSC_FALSE; 7054 7055 for (i = 0; i < mmdata->cp; i++) { 7056 PetscCheck(mmdata->mp[i]->ops->productnumeric, PetscObjectComm((PetscObject)mmdata->mp[i]), PETSC_ERR_PLIB, "Missing numeric op for %s", MatProductTypes[mmdata->mp[i]->product->type]); 7057 PetscCall((*mmdata->mp[i]->ops->productnumeric)(mmdata->mp[i])); 7058 } 7059 for (i = 0, n_d = 0, n_o = 0; i < mmdata->cp; i++) { 7060 PetscInt noff = mmdata->off[i + 1] - mmdata->off[i]; 7061 7062 if (mmdata->mptmp[i]) continue; 7063 if (noff) { 7064 PetscInt nown = mmdata->own[i + 1] - mmdata->own[i]; 7065 7066 PetscCall(MatSeqAIJCopySubArray(mmdata->mp[i], noff, mmdata->off[i], mmdata->coo_w + n_o)); 7067 PetscCall(MatSeqAIJCopySubArray(mmdata->mp[i], nown, mmdata->own[i], mmdata->coo_v + n_d)); 7068 n_o += noff; 7069 n_d += nown; 7070 } else { 7071 Mat_SeqAIJ *mm = (Mat_SeqAIJ *)mmdata->mp[i]->data; 7072 7073 PetscCall(MatSeqAIJCopySubArray(mmdata->mp[i], mm->nz, NULL, mmdata->coo_v + n_d)); 7074 n_d += mm->nz; 7075 } 7076 } 7077 if (mmdata->hasoffproc) { /* offprocess insertion */ 7078 PetscCall(PetscSFGatherBegin(mmdata->sf, MPIU_SCALAR, mmdata->coo_w, mmdata->coo_v + n_d)); 7079 PetscCall(PetscSFGatherEnd(mmdata->sf, MPIU_SCALAR, mmdata->coo_w, mmdata->coo_v + n_d)); 7080 } 7081 PetscCall(MatSetValuesCOO(C, mmdata->coo_v, INSERT_VALUES)); 7082 PetscFunctionReturn(PETSC_SUCCESS); 7083 } 7084 7085 /* Support for Pt * A, A * P, or Pt * A * P */ 7086 #define MAX_NUMBER_INTERMEDIATE 4 7087 PetscErrorCode MatProductSymbolic_MPIAIJBACKEND(Mat C) 7088 { 7089 Mat_Product *product = C->product; 7090 Mat A, P, mp[MAX_NUMBER_INTERMEDIATE]; /* A, P and a series of intermediate matrices */ 7091 Mat_MPIAIJ *a, *p; 7092 MatMatMPIAIJBACKEND *mmdata; 7093 ISLocalToGlobalMapping P_oth_l2g = NULL; 7094 IS glob = NULL; 7095 const char *prefix; 7096 char pprefix[256]; 7097 const PetscInt *globidx, *P_oth_idx; 7098 PetscInt i, j, cp, m, n, M, N, *coo_i, *coo_j; 7099 PetscCount ncoo, ncoo_d, ncoo_o, ncoo_oown; 7100 PetscInt cmapt[MAX_NUMBER_INTERMEDIATE], rmapt[MAX_NUMBER_INTERMEDIATE]; /* col/row map type for each Mat in mp[]. */ 7101 /* type-0: consecutive, start from 0; type-1: consecutive with */ 7102 /* a base offset; type-2: sparse with a local to global map table */ 7103 const PetscInt *cmapa[MAX_NUMBER_INTERMEDIATE], *rmapa[MAX_NUMBER_INTERMEDIATE]; /* col/row local to global map array (table) for type-2 map type */ 7104 7105 MatProductType ptype; 7106 PetscBool mptmp[MAX_NUMBER_INTERMEDIATE], hasoffproc = PETSC_FALSE, iscuda, iship, iskokk; 7107 PetscMPIInt size; 7108 7109 PetscFunctionBegin; 7110 MatCheckProduct(C, 1); 7111 PetscCheck(!product->data, PetscObjectComm((PetscObject)C), PETSC_ERR_PLIB, "Product data not empty"); 7112 ptype = product->type; 7113 if (product->A->symmetric == PETSC_BOOL3_TRUE && ptype == MATPRODUCT_AtB) { 7114 ptype = MATPRODUCT_AB; 7115 product->symbolic_used_the_fact_A_is_symmetric = PETSC_TRUE; 7116 } 7117 switch (ptype) { 7118 case MATPRODUCT_AB: 7119 A = product->A; 7120 P = product->B; 7121 m = A->rmap->n; 7122 n = P->cmap->n; 7123 M = A->rmap->N; 7124 N = P->cmap->N; 7125 hasoffproc = PETSC_FALSE; /* will not scatter mat product values to other processes */ 7126 break; 7127 case MATPRODUCT_AtB: 7128 P = product->A; 7129 A = product->B; 7130 m = P->cmap->n; 7131 n = A->cmap->n; 7132 M = P->cmap->N; 7133 N = A->cmap->N; 7134 hasoffproc = PETSC_TRUE; 7135 break; 7136 case MATPRODUCT_PtAP: 7137 A = product->A; 7138 P = product->B; 7139 m = P->cmap->n; 7140 n = P->cmap->n; 7141 M = P->cmap->N; 7142 N = P->cmap->N; 7143 hasoffproc = PETSC_TRUE; 7144 break; 7145 default: 7146 SETERRQ(PetscObjectComm((PetscObject)C), PETSC_ERR_PLIB, "Not for product type %s", MatProductTypes[ptype]); 7147 } 7148 PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)C), &size)); 7149 if (size == 1) hasoffproc = PETSC_FALSE; 7150 7151 /* defaults */ 7152 for (i = 0; i < MAX_NUMBER_INTERMEDIATE; i++) { 7153 mp[i] = NULL; 7154 mptmp[i] = PETSC_FALSE; 7155 rmapt[i] = -1; 7156 cmapt[i] = -1; 7157 rmapa[i] = NULL; 7158 cmapa[i] = NULL; 7159 } 7160 7161 /* customization */ 7162 PetscCall(PetscNew(&mmdata)); 7163 mmdata->reusesym = product->api_user; 7164 if (ptype == MATPRODUCT_AB) { 7165 if (product->api_user) { 7166 PetscOptionsBegin(PetscObjectComm((PetscObject)C), ((PetscObject)C)->prefix, "MatMatMult", "Mat"); 7167 PetscCall(PetscOptionsBool("-matmatmult_backend_mergeB", "Merge product->B local matrices", "MatMatMult", mmdata->abmerge, &mmdata->abmerge, NULL)); 7168 PetscCall(PetscOptionsBool("-matmatmult_backend_pothbind", "Bind P_oth to CPU", "MatBindToCPU", mmdata->P_oth_bind, &mmdata->P_oth_bind, NULL)); 7169 PetscOptionsEnd(); 7170 } else { 7171 PetscOptionsBegin(PetscObjectComm((PetscObject)C), ((PetscObject)C)->prefix, "MatProduct_AB", "Mat"); 7172 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_mergeB", "Merge product->B local matrices", "MatMatMult", mmdata->abmerge, &mmdata->abmerge, NULL)); 7173 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_pothbind", "Bind P_oth to CPU", "MatBindToCPU", mmdata->P_oth_bind, &mmdata->P_oth_bind, NULL)); 7174 PetscOptionsEnd(); 7175 } 7176 } else if (ptype == MATPRODUCT_PtAP) { 7177 if (product->api_user) { 7178 PetscOptionsBegin(PetscObjectComm((PetscObject)C), ((PetscObject)C)->prefix, "MatPtAP", "Mat"); 7179 PetscCall(PetscOptionsBool("-matptap_backend_pothbind", "Bind P_oth to CPU", "MatBindToCPU", mmdata->P_oth_bind, &mmdata->P_oth_bind, NULL)); 7180 PetscOptionsEnd(); 7181 } else { 7182 PetscOptionsBegin(PetscObjectComm((PetscObject)C), ((PetscObject)C)->prefix, "MatProduct_PtAP", "Mat"); 7183 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_pothbind", "Bind P_oth to CPU", "MatBindToCPU", mmdata->P_oth_bind, &mmdata->P_oth_bind, NULL)); 7184 PetscOptionsEnd(); 7185 } 7186 } 7187 a = (Mat_MPIAIJ *)A->data; 7188 p = (Mat_MPIAIJ *)P->data; 7189 PetscCall(MatSetSizes(C, m, n, M, N)); 7190 PetscCall(PetscLayoutSetUp(C->rmap)); 7191 PetscCall(PetscLayoutSetUp(C->cmap)); 7192 PetscCall(MatSetType(C, ((PetscObject)A)->type_name)); 7193 PetscCall(MatGetOptionsPrefix(C, &prefix)); 7194 7195 cp = 0; 7196 switch (ptype) { 7197 case MATPRODUCT_AB: /* A * P */ 7198 PetscCall(MatGetBrowsOfAoCols_MPIAIJ(A, P, MAT_INITIAL_MATRIX, &mmdata->startsj_s, &mmdata->startsj_r, &mmdata->bufa, &mmdata->P_oth)); 7199 7200 /* A_diag * P_local (merged or not) */ 7201 if (mmdata->abmerge) { /* P's diagonal and off-diag blocks are merged to one matrix, then multiplied by A_diag */ 7202 /* P is product->B */ 7203 PetscCall(MatMPIAIJGetLocalMatMerge(P, MAT_INITIAL_MATRIX, &glob, &mmdata->Bloc)); 7204 PetscCall(MatProductCreate(a->A, mmdata->Bloc, NULL, &mp[cp])); 7205 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AB)); 7206 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7207 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7208 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7209 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7210 mp[cp]->product->api_user = product->api_user; 7211 PetscCall(MatProductSetFromOptions(mp[cp])); 7212 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7213 PetscCall(ISGetIndices(glob, &globidx)); 7214 rmapt[cp] = 1; 7215 cmapt[cp] = 2; 7216 cmapa[cp] = globidx; 7217 mptmp[cp] = PETSC_FALSE; 7218 cp++; 7219 } else { /* A_diag * P_diag and A_diag * P_off */ 7220 PetscCall(MatProductCreate(a->A, p->A, NULL, &mp[cp])); 7221 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AB)); 7222 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7223 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7224 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7225 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7226 mp[cp]->product->api_user = product->api_user; 7227 PetscCall(MatProductSetFromOptions(mp[cp])); 7228 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7229 rmapt[cp] = 1; 7230 cmapt[cp] = 1; 7231 mptmp[cp] = PETSC_FALSE; 7232 cp++; 7233 PetscCall(MatProductCreate(a->A, p->B, NULL, &mp[cp])); 7234 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AB)); 7235 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7236 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7237 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7238 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7239 mp[cp]->product->api_user = product->api_user; 7240 PetscCall(MatProductSetFromOptions(mp[cp])); 7241 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7242 rmapt[cp] = 1; 7243 cmapt[cp] = 2; 7244 cmapa[cp] = p->garray; 7245 mptmp[cp] = PETSC_FALSE; 7246 cp++; 7247 } 7248 7249 /* A_off * P_other */ 7250 if (mmdata->P_oth) { 7251 PetscCall(MatSeqAIJCompactOutExtraColumns_SeqAIJ(mmdata->P_oth, &P_oth_l2g)); /* make P_oth use local col ids */ 7252 PetscCall(ISLocalToGlobalMappingGetIndices(P_oth_l2g, &P_oth_idx)); 7253 PetscCall(MatSetType(mmdata->P_oth, ((PetscObject)(a->B))->type_name)); 7254 PetscCall(MatBindToCPU(mmdata->P_oth, mmdata->P_oth_bind)); 7255 PetscCall(MatProductCreate(a->B, mmdata->P_oth, NULL, &mp[cp])); 7256 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AB)); 7257 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7258 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7259 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7260 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7261 mp[cp]->product->api_user = product->api_user; 7262 PetscCall(MatProductSetFromOptions(mp[cp])); 7263 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7264 rmapt[cp] = 1; 7265 cmapt[cp] = 2; 7266 cmapa[cp] = P_oth_idx; 7267 mptmp[cp] = PETSC_FALSE; 7268 cp++; 7269 } 7270 break; 7271 7272 case MATPRODUCT_AtB: /* (P^t * A): P_diag * A_loc + P_off * A_loc */ 7273 /* A is product->B */ 7274 PetscCall(MatMPIAIJGetLocalMatMerge(A, MAT_INITIAL_MATRIX, &glob, &mmdata->Bloc)); 7275 if (A == P) { /* when A==P, we can take advantage of the already merged mmdata->Bloc */ 7276 PetscCall(MatProductCreate(mmdata->Bloc, mmdata->Bloc, NULL, &mp[cp])); 7277 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AtB)); 7278 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7279 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7280 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7281 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7282 mp[cp]->product->api_user = product->api_user; 7283 PetscCall(MatProductSetFromOptions(mp[cp])); 7284 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7285 PetscCall(ISGetIndices(glob, &globidx)); 7286 rmapt[cp] = 2; 7287 rmapa[cp] = globidx; 7288 cmapt[cp] = 2; 7289 cmapa[cp] = globidx; 7290 mptmp[cp] = PETSC_FALSE; 7291 cp++; 7292 } else { 7293 PetscCall(MatProductCreate(p->A, mmdata->Bloc, NULL, &mp[cp])); 7294 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AtB)); 7295 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7296 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7297 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7298 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7299 mp[cp]->product->api_user = product->api_user; 7300 PetscCall(MatProductSetFromOptions(mp[cp])); 7301 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7302 PetscCall(ISGetIndices(glob, &globidx)); 7303 rmapt[cp] = 1; 7304 cmapt[cp] = 2; 7305 cmapa[cp] = globidx; 7306 mptmp[cp] = PETSC_FALSE; 7307 cp++; 7308 PetscCall(MatProductCreate(p->B, mmdata->Bloc, NULL, &mp[cp])); 7309 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AtB)); 7310 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7311 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7312 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7313 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7314 mp[cp]->product->api_user = product->api_user; 7315 PetscCall(MatProductSetFromOptions(mp[cp])); 7316 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7317 rmapt[cp] = 2; 7318 rmapa[cp] = p->garray; 7319 cmapt[cp] = 2; 7320 cmapa[cp] = globidx; 7321 mptmp[cp] = PETSC_FALSE; 7322 cp++; 7323 } 7324 break; 7325 case MATPRODUCT_PtAP: 7326 PetscCall(MatGetBrowsOfAoCols_MPIAIJ(A, P, MAT_INITIAL_MATRIX, &mmdata->startsj_s, &mmdata->startsj_r, &mmdata->bufa, &mmdata->P_oth)); 7327 /* P is product->B */ 7328 PetscCall(MatMPIAIJGetLocalMatMerge(P, MAT_INITIAL_MATRIX, &glob, &mmdata->Bloc)); 7329 PetscCall(MatProductCreate(a->A, mmdata->Bloc, NULL, &mp[cp])); 7330 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_PtAP)); 7331 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7332 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7333 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7334 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7335 mp[cp]->product->api_user = product->api_user; 7336 PetscCall(MatProductSetFromOptions(mp[cp])); 7337 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7338 PetscCall(ISGetIndices(glob, &globidx)); 7339 rmapt[cp] = 2; 7340 rmapa[cp] = globidx; 7341 cmapt[cp] = 2; 7342 cmapa[cp] = globidx; 7343 mptmp[cp] = PETSC_FALSE; 7344 cp++; 7345 if (mmdata->P_oth) { 7346 PetscCall(MatSeqAIJCompactOutExtraColumns_SeqAIJ(mmdata->P_oth, &P_oth_l2g)); 7347 PetscCall(ISLocalToGlobalMappingGetIndices(P_oth_l2g, &P_oth_idx)); 7348 PetscCall(MatSetType(mmdata->P_oth, ((PetscObject)(a->B))->type_name)); 7349 PetscCall(MatBindToCPU(mmdata->P_oth, mmdata->P_oth_bind)); 7350 PetscCall(MatProductCreate(a->B, mmdata->P_oth, NULL, &mp[cp])); 7351 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AB)); 7352 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7353 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7354 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7355 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7356 mp[cp]->product->api_user = product->api_user; 7357 PetscCall(MatProductSetFromOptions(mp[cp])); 7358 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7359 mptmp[cp] = PETSC_TRUE; 7360 cp++; 7361 PetscCall(MatProductCreate(mmdata->Bloc, mp[1], NULL, &mp[cp])); 7362 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AtB)); 7363 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7364 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7365 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7366 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7367 mp[cp]->product->api_user = product->api_user; 7368 PetscCall(MatProductSetFromOptions(mp[cp])); 7369 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7370 rmapt[cp] = 2; 7371 rmapa[cp] = globidx; 7372 cmapt[cp] = 2; 7373 cmapa[cp] = P_oth_idx; 7374 mptmp[cp] = PETSC_FALSE; 7375 cp++; 7376 } 7377 break; 7378 default: 7379 SETERRQ(PetscObjectComm((PetscObject)C), PETSC_ERR_PLIB, "Not for product type %s", MatProductTypes[ptype]); 7380 } 7381 /* sanity check */ 7382 if (size > 1) 7383 for (i = 0; i < cp; i++) PetscCheck(rmapt[i] != 2 || hasoffproc, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Unexpected offproc map type for product %" PetscInt_FMT, i); 7384 7385 PetscCall(PetscMalloc2(cp, &mmdata->mp, cp, &mmdata->mptmp)); 7386 for (i = 0; i < cp; i++) { 7387 mmdata->mp[i] = mp[i]; 7388 mmdata->mptmp[i] = mptmp[i]; 7389 } 7390 mmdata->cp = cp; 7391 C->product->data = mmdata; 7392 C->product->destroy = MatDestroy_MatMatMPIAIJBACKEND; 7393 C->ops->productnumeric = MatProductNumeric_MPIAIJBACKEND; 7394 7395 /* memory type */ 7396 mmdata->mtype = PETSC_MEMTYPE_HOST; 7397 PetscCall(PetscObjectTypeCompareAny((PetscObject)C, &iscuda, MATSEQAIJCUSPARSE, MATMPIAIJCUSPARSE, "")); 7398 PetscCall(PetscObjectTypeCompareAny((PetscObject)C, &iship, MATSEQAIJHIPSPARSE, MATMPIAIJHIPSPARSE, "")); 7399 PetscCall(PetscObjectTypeCompareAny((PetscObject)C, &iskokk, MATSEQAIJKOKKOS, MATMPIAIJKOKKOS, "")); 7400 if (iscuda) mmdata->mtype = PETSC_MEMTYPE_CUDA; 7401 else if (iship) mmdata->mtype = PETSC_MEMTYPE_HIP; 7402 else if (iskokk) mmdata->mtype = PETSC_MEMTYPE_KOKKOS; 7403 7404 /* prepare coo coordinates for values insertion */ 7405 7406 /* count total nonzeros of those intermediate seqaij Mats 7407 ncoo_d: # of nonzeros of matrices that do not have offproc entries 7408 ncoo_o: # of nonzeros (of matrices that might have offproc entries) that will be inserted to remote procs 7409 ncoo_oown: # of nonzeros (of matrices that might have offproc entries) that will be inserted locally 7410 */ 7411 for (cp = 0, ncoo_d = 0, ncoo_o = 0, ncoo_oown = 0; cp < mmdata->cp; cp++) { 7412 Mat_SeqAIJ *mm = (Mat_SeqAIJ *)mp[cp]->data; 7413 if (mptmp[cp]) continue; 7414 if (rmapt[cp] == 2 && hasoffproc) { /* the rows need to be scatter to all processes (might include self) */ 7415 const PetscInt *rmap = rmapa[cp]; 7416 const PetscInt mr = mp[cp]->rmap->n; 7417 const PetscInt rs = C->rmap->rstart; 7418 const PetscInt re = C->rmap->rend; 7419 const PetscInt *ii = mm->i; 7420 for (i = 0; i < mr; i++) { 7421 const PetscInt gr = rmap[i]; 7422 const PetscInt nz = ii[i + 1] - ii[i]; 7423 if (gr < rs || gr >= re) ncoo_o += nz; /* this row is offproc */ 7424 else ncoo_oown += nz; /* this row is local */ 7425 } 7426 } else ncoo_d += mm->nz; 7427 } 7428 7429 /* 7430 ncoo: total number of nonzeros (including those inserted by remote procs) belonging to this proc 7431 7432 ncoo = ncoo_d + ncoo_oown + ncoo2, which ncoo2 is number of nonzeros inserted to me by other procs. 7433 7434 off[0] points to a big index array, which is shared by off[1,2,...]. Similarly, for own[0]. 7435 7436 off[p]: points to the segment for matrix mp[p], storing location of nonzeros that mp[p] will insert to others 7437 own[p]: points to the segment for matrix mp[p], storing location of nonzeros that mp[p] will insert locally 7438 so, off[p+1]-off[p] is the number of nonzeros that mp[p] will send to others. 7439 7440 coo_i/j/v[]: [ncoo] row/col/val of nonzeros belonging to this proc. 7441 Ex. coo_i[]: the beginning part (of size ncoo_d + ncoo_oown) stores i of local nonzeros, and the remaining part stores i of nonzeros I will receive. 7442 */ 7443 PetscCall(PetscCalloc1(mmdata->cp + 1, &mmdata->off)); /* +1 to make a csr-like data structure */ 7444 PetscCall(PetscCalloc1(mmdata->cp + 1, &mmdata->own)); 7445 7446 /* gather (i,j) of nonzeros inserted by remote procs */ 7447 if (hasoffproc) { 7448 PetscSF msf; 7449 PetscInt ncoo2, *coo_i2, *coo_j2; 7450 7451 PetscCall(PetscMalloc1(ncoo_o, &mmdata->off[0])); 7452 PetscCall(PetscMalloc1(ncoo_oown, &mmdata->own[0])); 7453 PetscCall(PetscMalloc2(ncoo_o, &coo_i, ncoo_o, &coo_j)); /* to collect (i,j) of entries to be sent to others */ 7454 7455 for (cp = 0, ncoo_o = 0; cp < mmdata->cp; cp++) { 7456 Mat_SeqAIJ *mm = (Mat_SeqAIJ *)mp[cp]->data; 7457 PetscInt *idxoff = mmdata->off[cp]; 7458 PetscInt *idxown = mmdata->own[cp]; 7459 if (!mptmp[cp] && rmapt[cp] == 2) { /* row map is sparse */ 7460 const PetscInt *rmap = rmapa[cp]; 7461 const PetscInt *cmap = cmapa[cp]; 7462 const PetscInt *ii = mm->i; 7463 PetscInt *coi = coo_i + ncoo_o; 7464 PetscInt *coj = coo_j + ncoo_o; 7465 const PetscInt mr = mp[cp]->rmap->n; 7466 const PetscInt rs = C->rmap->rstart; 7467 const PetscInt re = C->rmap->rend; 7468 const PetscInt cs = C->cmap->rstart; 7469 for (i = 0; i < mr; i++) { 7470 const PetscInt *jj = mm->j + ii[i]; 7471 const PetscInt gr = rmap[i]; 7472 const PetscInt nz = ii[i + 1] - ii[i]; 7473 if (gr < rs || gr >= re) { /* this is an offproc row */ 7474 for (j = ii[i]; j < ii[i + 1]; j++) { 7475 *coi++ = gr; 7476 *idxoff++ = j; 7477 } 7478 if (!cmapt[cp]) { /* already global */ 7479 for (j = 0; j < nz; j++) *coj++ = jj[j]; 7480 } else if (cmapt[cp] == 1) { /* local to global for owned columns of C */ 7481 for (j = 0; j < nz; j++) *coj++ = jj[j] + cs; 7482 } else { /* offdiag */ 7483 for (j = 0; j < nz; j++) *coj++ = cmap[jj[j]]; 7484 } 7485 ncoo_o += nz; 7486 } else { /* this is a local row */ 7487 for (j = ii[i]; j < ii[i + 1]; j++) *idxown++ = j; 7488 } 7489 } 7490 } 7491 mmdata->off[cp + 1] = idxoff; 7492 mmdata->own[cp + 1] = idxown; 7493 } 7494 7495 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)C), &mmdata->sf)); 7496 PetscCall(PetscSFSetGraphLayout(mmdata->sf, C->rmap, ncoo_o /*nleaves*/, NULL /*ilocal*/, PETSC_OWN_POINTER, coo_i)); 7497 PetscCall(PetscSFGetMultiSF(mmdata->sf, &msf)); 7498 PetscCall(PetscSFGetGraph(msf, &ncoo2 /*nroots*/, NULL, NULL, NULL)); 7499 ncoo = ncoo_d + ncoo_oown + ncoo2; 7500 PetscCall(PetscMalloc2(ncoo, &coo_i2, ncoo, &coo_j2)); 7501 PetscCall(PetscSFGatherBegin(mmdata->sf, MPIU_INT, coo_i, coo_i2 + ncoo_d + ncoo_oown)); /* put (i,j) of remote nonzeros at back */ 7502 PetscCall(PetscSFGatherEnd(mmdata->sf, MPIU_INT, coo_i, coo_i2 + ncoo_d + ncoo_oown)); 7503 PetscCall(PetscSFGatherBegin(mmdata->sf, MPIU_INT, coo_j, coo_j2 + ncoo_d + ncoo_oown)); 7504 PetscCall(PetscSFGatherEnd(mmdata->sf, MPIU_INT, coo_j, coo_j2 + ncoo_d + ncoo_oown)); 7505 PetscCall(PetscFree2(coo_i, coo_j)); 7506 /* allocate MPI send buffer to collect nonzero values to be sent to remote procs */ 7507 PetscCall(PetscSFMalloc(mmdata->sf, mmdata->mtype, ncoo_o * sizeof(PetscScalar), (void **)&mmdata->coo_w)); 7508 coo_i = coo_i2; 7509 coo_j = coo_j2; 7510 } else { /* no offproc values insertion */ 7511 ncoo = ncoo_d; 7512 PetscCall(PetscMalloc2(ncoo, &coo_i, ncoo, &coo_j)); 7513 7514 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)C), &mmdata->sf)); 7515 PetscCall(PetscSFSetGraph(mmdata->sf, 0, 0, NULL, PETSC_OWN_POINTER, NULL, PETSC_OWN_POINTER)); 7516 PetscCall(PetscSFSetUp(mmdata->sf)); 7517 } 7518 mmdata->hasoffproc = hasoffproc; 7519 7520 /* gather (i,j) of nonzeros inserted locally */ 7521 for (cp = 0, ncoo_d = 0; cp < mmdata->cp; cp++) { 7522 Mat_SeqAIJ *mm = (Mat_SeqAIJ *)mp[cp]->data; 7523 PetscInt *coi = coo_i + ncoo_d; 7524 PetscInt *coj = coo_j + ncoo_d; 7525 const PetscInt *jj = mm->j; 7526 const PetscInt *ii = mm->i; 7527 const PetscInt *cmap = cmapa[cp]; 7528 const PetscInt *rmap = rmapa[cp]; 7529 const PetscInt mr = mp[cp]->rmap->n; 7530 const PetscInt rs = C->rmap->rstart; 7531 const PetscInt re = C->rmap->rend; 7532 const PetscInt cs = C->cmap->rstart; 7533 7534 if (mptmp[cp]) continue; 7535 if (rmapt[cp] == 1) { /* consecutive rows */ 7536 /* fill coo_i */ 7537 for (i = 0; i < mr; i++) { 7538 const PetscInt gr = i + rs; 7539 for (j = ii[i]; j < ii[i + 1]; j++) coi[j] = gr; 7540 } 7541 /* fill coo_j */ 7542 if (!cmapt[cp]) { /* type-0, already global */ 7543 PetscCall(PetscArraycpy(coj, jj, mm->nz)); 7544 } else if (cmapt[cp] == 1) { /* type-1, local to global for consecutive columns of C */ 7545 for (j = 0; j < mm->nz; j++) coj[j] = jj[j] + cs; /* lid + col start */ 7546 } else { /* type-2, local to global for sparse columns */ 7547 for (j = 0; j < mm->nz; j++) coj[j] = cmap[jj[j]]; 7548 } 7549 ncoo_d += mm->nz; 7550 } else if (rmapt[cp] == 2) { /* sparse rows */ 7551 for (i = 0; i < mr; i++) { 7552 const PetscInt *jj = mm->j + ii[i]; 7553 const PetscInt gr = rmap[i]; 7554 const PetscInt nz = ii[i + 1] - ii[i]; 7555 if (gr >= rs && gr < re) { /* local rows */ 7556 for (j = ii[i]; j < ii[i + 1]; j++) *coi++ = gr; 7557 if (!cmapt[cp]) { /* type-0, already global */ 7558 for (j = 0; j < nz; j++) *coj++ = jj[j]; 7559 } else if (cmapt[cp] == 1) { /* local to global for owned columns of C */ 7560 for (j = 0; j < nz; j++) *coj++ = jj[j] + cs; 7561 } else { /* type-2, local to global for sparse columns */ 7562 for (j = 0; j < nz; j++) *coj++ = cmap[jj[j]]; 7563 } 7564 ncoo_d += nz; 7565 } 7566 } 7567 } 7568 } 7569 if (glob) PetscCall(ISRestoreIndices(glob, &globidx)); 7570 PetscCall(ISDestroy(&glob)); 7571 if (P_oth_l2g) PetscCall(ISLocalToGlobalMappingRestoreIndices(P_oth_l2g, &P_oth_idx)); 7572 PetscCall(ISLocalToGlobalMappingDestroy(&P_oth_l2g)); 7573 /* allocate an array to store all nonzeros (inserted locally or remotely) belonging to this proc */ 7574 PetscCall(PetscSFMalloc(mmdata->sf, mmdata->mtype, ncoo * sizeof(PetscScalar), (void **)&mmdata->coo_v)); 7575 7576 /* preallocate with COO data */ 7577 PetscCall(MatSetPreallocationCOO(C, ncoo, coo_i, coo_j)); 7578 PetscCall(PetscFree2(coo_i, coo_j)); 7579 PetscFunctionReturn(PETSC_SUCCESS); 7580 } 7581 7582 PetscErrorCode MatProductSetFromOptions_MPIAIJBACKEND(Mat mat) 7583 { 7584 Mat_Product *product = mat->product; 7585 #if defined(PETSC_HAVE_DEVICE) 7586 PetscBool match = PETSC_FALSE; 7587 PetscBool usecpu = PETSC_FALSE; 7588 #else 7589 PetscBool match = PETSC_TRUE; 7590 #endif 7591 7592 PetscFunctionBegin; 7593 MatCheckProduct(mat, 1); 7594 #if defined(PETSC_HAVE_DEVICE) 7595 if (!product->A->boundtocpu && !product->B->boundtocpu) PetscCall(PetscObjectTypeCompare((PetscObject)product->B, ((PetscObject)product->A)->type_name, &match)); 7596 if (match) { /* we can always fallback to the CPU if requested */ 7597 switch (product->type) { 7598 case MATPRODUCT_AB: 7599 if (product->api_user) { 7600 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatMatMult", "Mat"); 7601 PetscCall(PetscOptionsBool("-matmatmult_backend_cpu", "Use CPU code", "MatMatMult", usecpu, &usecpu, NULL)); 7602 PetscOptionsEnd(); 7603 } else { 7604 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatProduct_AB", "Mat"); 7605 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_cpu", "Use CPU code", "MatMatMult", usecpu, &usecpu, NULL)); 7606 PetscOptionsEnd(); 7607 } 7608 break; 7609 case MATPRODUCT_AtB: 7610 if (product->api_user) { 7611 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatTransposeMatMult", "Mat"); 7612 PetscCall(PetscOptionsBool("-mattransposematmult_backend_cpu", "Use CPU code", "MatTransposeMatMult", usecpu, &usecpu, NULL)); 7613 PetscOptionsEnd(); 7614 } else { 7615 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatProduct_AtB", "Mat"); 7616 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_cpu", "Use CPU code", "MatTransposeMatMult", usecpu, &usecpu, NULL)); 7617 PetscOptionsEnd(); 7618 } 7619 break; 7620 case MATPRODUCT_PtAP: 7621 if (product->api_user) { 7622 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatPtAP", "Mat"); 7623 PetscCall(PetscOptionsBool("-matptap_backend_cpu", "Use CPU code", "MatPtAP", usecpu, &usecpu, NULL)); 7624 PetscOptionsEnd(); 7625 } else { 7626 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatProduct_PtAP", "Mat"); 7627 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_cpu", "Use CPU code", "MatPtAP", usecpu, &usecpu, NULL)); 7628 PetscOptionsEnd(); 7629 } 7630 break; 7631 default: 7632 break; 7633 } 7634 match = (PetscBool)!usecpu; 7635 } 7636 #endif 7637 if (match) { 7638 switch (product->type) { 7639 case MATPRODUCT_AB: 7640 case MATPRODUCT_AtB: 7641 case MATPRODUCT_PtAP: 7642 mat->ops->productsymbolic = MatProductSymbolic_MPIAIJBACKEND; 7643 break; 7644 default: 7645 break; 7646 } 7647 } 7648 /* fallback to MPIAIJ ops */ 7649 if (!mat->ops->productsymbolic) PetscCall(MatProductSetFromOptions_MPIAIJ(mat)); 7650 PetscFunctionReturn(PETSC_SUCCESS); 7651 } 7652 7653 /* 7654 Produces a set of block column indices of the matrix row, one for each block represented in the original row 7655 7656 n - the number of block indices in cc[] 7657 cc - the block indices (must be large enough to contain the indices) 7658 */ 7659 static inline PetscErrorCode MatCollapseRow(Mat Amat, PetscInt row, PetscInt bs, PetscInt *n, PetscInt *cc) 7660 { 7661 PetscInt cnt = -1, nidx, j; 7662 const PetscInt *idx; 7663 7664 PetscFunctionBegin; 7665 PetscCall(MatGetRow(Amat, row, &nidx, &idx, NULL)); 7666 if (nidx) { 7667 cnt = 0; 7668 cc[cnt] = idx[0] / bs; 7669 for (j = 1; j < nidx; j++) { 7670 if (cc[cnt] < idx[j] / bs) cc[++cnt] = idx[j] / bs; 7671 } 7672 } 7673 PetscCall(MatRestoreRow(Amat, row, &nidx, &idx, NULL)); 7674 *n = cnt + 1; 7675 PetscFunctionReturn(PETSC_SUCCESS); 7676 } 7677 7678 /* 7679 Produces a set of block column indices of the matrix block row, one for each block represented in the original set of rows 7680 7681 ncollapsed - the number of block indices 7682 collapsed - the block indices (must be large enough to contain the indices) 7683 */ 7684 static inline PetscErrorCode MatCollapseRows(Mat Amat, PetscInt start, PetscInt bs, PetscInt *w0, PetscInt *w1, PetscInt *w2, PetscInt *ncollapsed, PetscInt **collapsed) 7685 { 7686 PetscInt i, nprev, *cprev = w0, ncur = 0, *ccur = w1, *merged = w2, *cprevtmp; 7687 7688 PetscFunctionBegin; 7689 PetscCall(MatCollapseRow(Amat, start, bs, &nprev, cprev)); 7690 for (i = start + 1; i < start + bs; i++) { 7691 PetscCall(MatCollapseRow(Amat, i, bs, &ncur, ccur)); 7692 PetscCall(PetscMergeIntArray(nprev, cprev, ncur, ccur, &nprev, &merged)); 7693 cprevtmp = cprev; 7694 cprev = merged; 7695 merged = cprevtmp; 7696 } 7697 *ncollapsed = nprev; 7698 if (collapsed) *collapsed = cprev; 7699 PetscFunctionReturn(PETSC_SUCCESS); 7700 } 7701 7702 /* 7703 MatCreateGraph_Simple_AIJ - create simple scalar matrix (graph) from potentially blocked matrix 7704 7705 Input Parameter: 7706 . Amat - matrix 7707 - symmetrize - make the result symmetric 7708 + scale - scale with diagonal 7709 7710 Output Parameter: 7711 . a_Gmat - output scalar graph >= 0 7712 7713 */ 7714 PETSC_INTERN PetscErrorCode MatCreateGraph_Simple_AIJ(Mat Amat, PetscBool symmetrize, PetscBool scale, PetscReal filter, PetscInt index_size, PetscInt index[], Mat *a_Gmat) 7715 { 7716 PetscInt Istart, Iend, Ii, jj, kk, ncols, nloc, NN, MM, bs; 7717 MPI_Comm comm; 7718 Mat Gmat; 7719 PetscBool ismpiaij, isseqaij; 7720 Mat a, b, c; 7721 MatType jtype; 7722 7723 PetscFunctionBegin; 7724 PetscCall(PetscObjectGetComm((PetscObject)Amat, &comm)); 7725 PetscCall(MatGetOwnershipRange(Amat, &Istart, &Iend)); 7726 PetscCall(MatGetSize(Amat, &MM, &NN)); 7727 PetscCall(MatGetBlockSize(Amat, &bs)); 7728 nloc = (Iend - Istart) / bs; 7729 7730 PetscCall(PetscObjectBaseTypeCompare((PetscObject)Amat, MATSEQAIJ, &isseqaij)); 7731 PetscCall(PetscObjectBaseTypeCompare((PetscObject)Amat, MATMPIAIJ, &ismpiaij)); 7732 PetscCheck(isseqaij || ismpiaij, comm, PETSC_ERR_USER, "Require (MPI)AIJ matrix type"); 7733 7734 /* TODO GPU: these calls are potentially expensive if matrices are large and we want to use the GPU */ 7735 /* A solution consists in providing a new API, MatAIJGetCollapsedAIJ, and each class can provide a fast 7736 implementation */ 7737 if (bs > 1) { 7738 PetscCall(MatGetType(Amat, &jtype)); 7739 PetscCall(MatCreate(comm, &Gmat)); 7740 PetscCall(MatSetType(Gmat, jtype)); 7741 PetscCall(MatSetSizes(Gmat, nloc, nloc, PETSC_DETERMINE, PETSC_DETERMINE)); 7742 PetscCall(MatSetBlockSizes(Gmat, 1, 1)); 7743 if (isseqaij || ((Mat_MPIAIJ *)Amat->data)->garray) { 7744 PetscInt *d_nnz, *o_nnz; 7745 MatScalar *aa, val, *AA; 7746 PetscInt *aj, *ai, *AJ, nc, nmax = 0; 7747 if (isseqaij) { 7748 a = Amat; 7749 b = NULL; 7750 } else { 7751 Mat_MPIAIJ *d = (Mat_MPIAIJ *)Amat->data; 7752 a = d->A; 7753 b = d->B; 7754 } 7755 PetscCall(PetscInfo(Amat, "New bs>1 Graph. nloc=%" PetscInt_FMT "\n", nloc)); 7756 PetscCall(PetscMalloc2(nloc, &d_nnz, isseqaij ? 0 : nloc, &o_nnz)); 7757 for (c = a, kk = 0; c && kk < 2; c = b, kk++) { 7758 PetscInt *nnz = (c == a) ? d_nnz : o_nnz; 7759 const PetscInt *cols1, *cols2; 7760 for (PetscInt brow = 0, nc1, nc2, ok = 1; brow < nloc * bs; brow += bs) { // block rows 7761 PetscCall(MatGetRow(c, brow, &nc2, &cols2, NULL)); 7762 nnz[brow / bs] = nc2 / bs; 7763 if (nc2 % bs) ok = 0; 7764 if (nnz[brow / bs] > nmax) nmax = nnz[brow / bs]; 7765 for (PetscInt ii = 1; ii < bs; ii++) { // check for non-dense blocks 7766 PetscCall(MatGetRow(c, brow + ii, &nc1, &cols1, NULL)); 7767 if (nc1 != nc2) ok = 0; 7768 else { 7769 for (PetscInt jj = 0; jj < nc1 && ok == 1; jj++) { 7770 if (cols1[jj] != cols2[jj]) ok = 0; 7771 if (cols1[jj] % bs != jj % bs) ok = 0; 7772 } 7773 } 7774 PetscCall(MatRestoreRow(c, brow + ii, &nc1, &cols1, NULL)); 7775 } 7776 PetscCall(MatRestoreRow(c, brow, &nc2, &cols2, NULL)); 7777 if (!ok) { 7778 PetscCall(PetscFree2(d_nnz, o_nnz)); 7779 PetscCall(PetscInfo(Amat, "Found sparse blocks - revert to slow method\n")); 7780 goto old_bs; 7781 } 7782 } 7783 } 7784 PetscCall(MatSeqAIJSetPreallocation(Gmat, 0, d_nnz)); 7785 PetscCall(MatMPIAIJSetPreallocation(Gmat, 0, d_nnz, 0, o_nnz)); 7786 PetscCall(PetscFree2(d_nnz, o_nnz)); 7787 PetscCall(PetscMalloc2(nmax, &AA, nmax, &AJ)); 7788 // diag 7789 for (PetscInt brow = 0, n, grow; brow < nloc * bs; brow += bs) { // block rows 7790 Mat_SeqAIJ *aseq = (Mat_SeqAIJ *)a->data; 7791 ai = aseq->i; 7792 n = ai[brow + 1] - ai[brow]; 7793 aj = aseq->j + ai[brow]; 7794 for (int k = 0; k < n; k += bs) { // block columns 7795 AJ[k / bs] = aj[k] / bs + Istart / bs; // diag starts at (Istart,Istart) 7796 val = 0; 7797 if (index_size == 0) { 7798 for (int ii = 0; ii < bs; ii++) { // rows in block 7799 aa = aseq->a + ai[brow + ii] + k; 7800 for (int jj = 0; jj < bs; jj++) { // columns in block 7801 val += PetscAbs(PetscRealPart(aa[jj])); // a sort of norm 7802 } 7803 } 7804 } else { // use (index,index) value if provided 7805 for (int iii = 0; iii < index_size; iii++) { // rows in block 7806 int ii = index[iii]; 7807 aa = aseq->a + ai[brow + ii] + k; 7808 for (int jjj = 0; jjj < index_size; jjj++) { // columns in block 7809 int jj = index[jjj]; 7810 val = PetscAbs(PetscRealPart(aa[jj])); 7811 } 7812 } 7813 } 7814 PetscAssert(k / bs < nmax, comm, PETSC_ERR_USER, "k / bs (%d) >= nmax (%d)", (int)(k / bs), (int)nmax); 7815 AA[k / bs] = val; 7816 } 7817 grow = Istart / bs + brow / bs; 7818 PetscCall(MatSetValues(Gmat, 1, &grow, n / bs, AJ, AA, INSERT_VALUES)); 7819 } 7820 // off-diag 7821 if (ismpiaij) { 7822 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)Amat->data; 7823 const PetscScalar *vals; 7824 const PetscInt *cols, *garray = aij->garray; 7825 PetscCheck(garray, PETSC_COMM_SELF, PETSC_ERR_USER, "No garray ?"); 7826 for (PetscInt brow = 0, grow; brow < nloc * bs; brow += bs) { // block rows 7827 PetscCall(MatGetRow(b, brow, &ncols, &cols, NULL)); 7828 for (int k = 0, cidx = 0; k < ncols; k += bs, cidx++) { 7829 PetscAssert(k / bs < nmax, comm, PETSC_ERR_USER, "k / bs >= nmax"); 7830 AA[k / bs] = 0; 7831 AJ[cidx] = garray[cols[k]] / bs; 7832 } 7833 nc = ncols / bs; 7834 PetscCall(MatRestoreRow(b, brow, &ncols, &cols, NULL)); 7835 if (index_size == 0) { 7836 for (int ii = 0; ii < bs; ii++) { // rows in block 7837 PetscCall(MatGetRow(b, brow + ii, &ncols, &cols, &vals)); 7838 for (int k = 0; k < ncols; k += bs) { 7839 for (int jj = 0; jj < bs; jj++) { // cols in block 7840 PetscAssert(k / bs < nmax, comm, PETSC_ERR_USER, "k / bs (%d) >= nmax (%d)", (int)(k / bs), (int)nmax); 7841 AA[k / bs] += PetscAbs(PetscRealPart(vals[k + jj])); 7842 } 7843 } 7844 PetscCall(MatRestoreRow(b, brow + ii, &ncols, &cols, &vals)); 7845 } 7846 } else { // use (index,index) value if provided 7847 for (int iii = 0; iii < index_size; iii++) { // rows in block 7848 int ii = index[iii]; 7849 PetscCall(MatGetRow(b, brow + ii, &ncols, &cols, &vals)); 7850 for (int k = 0; k < ncols; k += bs) { 7851 for (int jjj = 0; jjj < index_size; jjj++) { // cols in block 7852 int jj = index[jjj]; 7853 AA[k / bs] += PetscAbs(PetscRealPart(vals[k + jj])); 7854 } 7855 } 7856 PetscCall(MatRestoreRow(b, brow + ii, &ncols, &cols, &vals)); 7857 } 7858 } 7859 grow = Istart / bs + brow / bs; 7860 PetscCall(MatSetValues(Gmat, 1, &grow, nc, AJ, AA, INSERT_VALUES)); 7861 } 7862 } 7863 PetscCall(MatAssemblyBegin(Gmat, MAT_FINAL_ASSEMBLY)); 7864 PetscCall(MatAssemblyEnd(Gmat, MAT_FINAL_ASSEMBLY)); 7865 PetscCall(PetscFree2(AA, AJ)); 7866 } else { 7867 const PetscScalar *vals; 7868 const PetscInt *idx; 7869 PetscInt *d_nnz, *o_nnz, *w0, *w1, *w2; 7870 old_bs: 7871 /* 7872 Determine the preallocation needed for the scalar matrix derived from the vector matrix. 7873 */ 7874 PetscCall(PetscInfo(Amat, "OLD bs>1 CreateGraph\n")); 7875 PetscCall(PetscMalloc2(nloc, &d_nnz, isseqaij ? 0 : nloc, &o_nnz)); 7876 if (isseqaij) { 7877 PetscInt max_d_nnz; 7878 /* 7879 Determine exact preallocation count for (sequential) scalar matrix 7880 */ 7881 PetscCall(MatSeqAIJGetMaxRowNonzeros(Amat, &max_d_nnz)); 7882 max_d_nnz = PetscMin(nloc, bs * max_d_nnz); 7883 PetscCall(PetscMalloc3(max_d_nnz, &w0, max_d_nnz, &w1, max_d_nnz, &w2)); 7884 for (Ii = 0, jj = 0; Ii < Iend; Ii += bs, jj++) PetscCall(MatCollapseRows(Amat, Ii, bs, w0, w1, w2, &d_nnz[jj], NULL)); 7885 PetscCall(PetscFree3(w0, w1, w2)); 7886 } else if (ismpiaij) { 7887 Mat Daij, Oaij; 7888 const PetscInt *garray; 7889 PetscInt max_d_nnz; 7890 PetscCall(MatMPIAIJGetSeqAIJ(Amat, &Daij, &Oaij, &garray)); 7891 /* 7892 Determine exact preallocation count for diagonal block portion of scalar matrix 7893 */ 7894 PetscCall(MatSeqAIJGetMaxRowNonzeros(Daij, &max_d_nnz)); 7895 max_d_nnz = PetscMin(nloc, bs * max_d_nnz); 7896 PetscCall(PetscMalloc3(max_d_nnz, &w0, max_d_nnz, &w1, max_d_nnz, &w2)); 7897 for (Ii = 0, jj = 0; Ii < Iend - Istart; Ii += bs, jj++) PetscCall(MatCollapseRows(Daij, Ii, bs, w0, w1, w2, &d_nnz[jj], NULL)); 7898 PetscCall(PetscFree3(w0, w1, w2)); 7899 /* 7900 Over estimate (usually grossly over), preallocation count for off-diagonal portion of scalar matrix 7901 */ 7902 for (Ii = 0, jj = 0; Ii < Iend - Istart; Ii += bs, jj++) { 7903 o_nnz[jj] = 0; 7904 for (kk = 0; kk < bs; kk++) { /* rows that get collapsed to a single row */ 7905 PetscCall(MatGetRow(Oaij, Ii + kk, &ncols, NULL, NULL)); 7906 o_nnz[jj] += ncols; 7907 PetscCall(MatRestoreRow(Oaij, Ii + kk, &ncols, NULL, NULL)); 7908 } 7909 if (o_nnz[jj] > (NN / bs - nloc)) o_nnz[jj] = NN / bs - nloc; 7910 } 7911 } else SETERRQ(comm, PETSC_ERR_USER, "Require AIJ matrix type"); 7912 /* get scalar copy (norms) of matrix */ 7913 PetscCall(MatSeqAIJSetPreallocation(Gmat, 0, d_nnz)); 7914 PetscCall(MatMPIAIJSetPreallocation(Gmat, 0, d_nnz, 0, o_nnz)); 7915 PetscCall(PetscFree2(d_nnz, o_nnz)); 7916 for (Ii = Istart; Ii < Iend; Ii++) { 7917 PetscInt dest_row = Ii / bs; 7918 PetscCall(MatGetRow(Amat, Ii, &ncols, &idx, &vals)); 7919 for (jj = 0; jj < ncols; jj++) { 7920 PetscInt dest_col = idx[jj] / bs; 7921 PetscScalar sv = PetscAbs(PetscRealPart(vals[jj])); 7922 PetscCall(MatSetValues(Gmat, 1, &dest_row, 1, &dest_col, &sv, ADD_VALUES)); 7923 } 7924 PetscCall(MatRestoreRow(Amat, Ii, &ncols, &idx, &vals)); 7925 } 7926 PetscCall(MatAssemblyBegin(Gmat, MAT_FINAL_ASSEMBLY)); 7927 PetscCall(MatAssemblyEnd(Gmat, MAT_FINAL_ASSEMBLY)); 7928 } 7929 } else { 7930 if (symmetrize || filter >= 0 || scale) PetscCall(MatDuplicate(Amat, MAT_COPY_VALUES, &Gmat)); 7931 else { 7932 Gmat = Amat; 7933 PetscCall(PetscObjectReference((PetscObject)Gmat)); 7934 } 7935 if (isseqaij) { 7936 a = Gmat; 7937 b = NULL; 7938 } else { 7939 Mat_MPIAIJ *d = (Mat_MPIAIJ *)Gmat->data; 7940 a = d->A; 7941 b = d->B; 7942 } 7943 if (filter >= 0 || scale) { 7944 /* take absolute value of each entry */ 7945 for (c = a, kk = 0; c && kk < 2; c = b, kk++) { 7946 MatInfo info; 7947 PetscScalar *avals; 7948 PetscCall(MatGetInfo(c, MAT_LOCAL, &info)); 7949 PetscCall(MatSeqAIJGetArray(c, &avals)); 7950 for (int jj = 0; jj < info.nz_used; jj++) avals[jj] = PetscAbsScalar(avals[jj]); 7951 PetscCall(MatSeqAIJRestoreArray(c, &avals)); 7952 } 7953 } 7954 } 7955 if (symmetrize) { 7956 PetscBool isset, issym; 7957 PetscCall(MatIsSymmetricKnown(Amat, &isset, &issym)); 7958 if (!isset || !issym) { 7959 Mat matTrans; 7960 PetscCall(MatTranspose(Gmat, MAT_INITIAL_MATRIX, &matTrans)); 7961 PetscCall(MatAXPY(Gmat, 1.0, matTrans, Gmat->structurally_symmetric == PETSC_BOOL3_TRUE ? SAME_NONZERO_PATTERN : DIFFERENT_NONZERO_PATTERN)); 7962 PetscCall(MatDestroy(&matTrans)); 7963 } 7964 PetscCall(MatSetOption(Gmat, MAT_SYMMETRIC, PETSC_TRUE)); 7965 } else if (Amat != Gmat) PetscCall(MatPropagateSymmetryOptions(Amat, Gmat)); 7966 if (scale) { 7967 /* scale c for all diagonal values = 1 or -1 */ 7968 Vec diag; 7969 PetscCall(MatCreateVecs(Gmat, &diag, NULL)); 7970 PetscCall(MatGetDiagonal(Gmat, diag)); 7971 PetscCall(VecReciprocal(diag)); 7972 PetscCall(VecSqrtAbs(diag)); 7973 PetscCall(MatDiagonalScale(Gmat, diag, diag)); 7974 PetscCall(VecDestroy(&diag)); 7975 } 7976 PetscCall(MatViewFromOptions(Gmat, NULL, "-mat_graph_view")); 7977 7978 if (filter >= 0) { 7979 PetscCall(MatFilter(Gmat, filter, PETSC_TRUE, PETSC_TRUE)); 7980 PetscCall(MatViewFromOptions(Gmat, NULL, "-mat_filter_graph_view")); 7981 } 7982 *a_Gmat = Gmat; 7983 PetscFunctionReturn(PETSC_SUCCESS); 7984 } 7985 7986 /* 7987 Special version for direct calls from Fortran 7988 */ 7989 #include <petsc/private/fortranimpl.h> 7990 7991 /* Change these macros so can be used in void function */ 7992 /* Identical to PetscCallVoid, except it assigns to *_ierr */ 7993 #undef PetscCall 7994 #define PetscCall(...) \ 7995 do { \ 7996 PetscErrorCode ierr_msv_mpiaij = __VA_ARGS__; \ 7997 if (PetscUnlikely(ierr_msv_mpiaij)) { \ 7998 *_ierr = PetscError(PETSC_COMM_SELF, __LINE__, PETSC_FUNCTION_NAME, __FILE__, ierr_msv_mpiaij, PETSC_ERROR_REPEAT, " "); \ 7999 return; \ 8000 } \ 8001 } while (0) 8002 8003 #undef SETERRQ 8004 #define SETERRQ(comm, ierr, ...) \ 8005 do { \ 8006 *_ierr = PetscError(comm, __LINE__, PETSC_FUNCTION_NAME, __FILE__, ierr, PETSC_ERROR_INITIAL, __VA_ARGS__); \ 8007 return; \ 8008 } while (0) 8009 8010 #if defined(PETSC_HAVE_FORTRAN_CAPS) 8011 #define matsetvaluesmpiaij_ MATSETVALUESMPIAIJ 8012 #elif !defined(PETSC_HAVE_FORTRAN_UNDERSCORE) 8013 #define matsetvaluesmpiaij_ matsetvaluesmpiaij 8014 #else 8015 #endif 8016 PETSC_EXTERN void matsetvaluesmpiaij_(Mat *mmat, PetscInt *mm, const PetscInt im[], PetscInt *mn, const PetscInt in[], const PetscScalar v[], InsertMode *maddv, PetscErrorCode *_ierr) 8017 { 8018 Mat mat = *mmat; 8019 PetscInt m = *mm, n = *mn; 8020 InsertMode addv = *maddv; 8021 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 8022 PetscScalar value; 8023 8024 MatCheckPreallocated(mat, 1); 8025 if (mat->insertmode == NOT_SET_VALUES) mat->insertmode = addv; 8026 else PetscCheck(mat->insertmode == addv, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Cannot mix add values and insert values"); 8027 { 8028 PetscInt i, j, rstart = mat->rmap->rstart, rend = mat->rmap->rend; 8029 PetscInt cstart = mat->cmap->rstart, cend = mat->cmap->rend, row, col; 8030 PetscBool roworiented = aij->roworiented; 8031 8032 /* Some Variables required in the macro */ 8033 Mat A = aij->A; 8034 Mat_SeqAIJ *a = (Mat_SeqAIJ *)A->data; 8035 PetscInt *aimax = a->imax, *ai = a->i, *ailen = a->ilen, *aj = a->j; 8036 MatScalar *aa; 8037 PetscBool ignorezeroentries = (((a->ignorezeroentries) && (addv == ADD_VALUES)) ? PETSC_TRUE : PETSC_FALSE); 8038 Mat B = aij->B; 8039 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 8040 PetscInt *bimax = b->imax, *bi = b->i, *bilen = b->ilen, *bj = b->j, bm = aij->B->rmap->n, am = aij->A->rmap->n; 8041 MatScalar *ba; 8042 /* This variable below is only for the PETSC_HAVE_VIENNACL or PETSC_HAVE_CUDA cases, but we define it in all cases because we 8043 * cannot use "#if defined" inside a macro. */ 8044 PETSC_UNUSED PetscBool inserted = PETSC_FALSE; 8045 8046 PetscInt *rp1, *rp2, ii, nrow1, nrow2, _i, rmax1, rmax2, N, low1, high1, low2, high2, t, lastcol1, lastcol2; 8047 PetscInt nonew = a->nonew; 8048 MatScalar *ap1, *ap2; 8049 8050 PetscFunctionBegin; 8051 PetscCall(MatSeqAIJGetArray(A, &aa)); 8052 PetscCall(MatSeqAIJGetArray(B, &ba)); 8053 for (i = 0; i < m; i++) { 8054 if (im[i] < 0) continue; 8055 PetscCheck(im[i] < mat->rmap->N, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Row too large: row %" PetscInt_FMT " max %" PetscInt_FMT, im[i], mat->rmap->N - 1); 8056 if (im[i] >= rstart && im[i] < rend) { 8057 row = im[i] - rstart; 8058 lastcol1 = -1; 8059 rp1 = aj + ai[row]; 8060 ap1 = aa + ai[row]; 8061 rmax1 = aimax[row]; 8062 nrow1 = ailen[row]; 8063 low1 = 0; 8064 high1 = nrow1; 8065 lastcol2 = -1; 8066 rp2 = bj + bi[row]; 8067 ap2 = ba + bi[row]; 8068 rmax2 = bimax[row]; 8069 nrow2 = bilen[row]; 8070 low2 = 0; 8071 high2 = nrow2; 8072 8073 for (j = 0; j < n; j++) { 8074 if (roworiented) value = v[i * n + j]; 8075 else value = v[i + j * m]; 8076 if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES) && im[i] != in[j]) continue; 8077 if (in[j] >= cstart && in[j] < cend) { 8078 col = in[j] - cstart; 8079 MatSetValues_SeqAIJ_A_Private(row, col, value, addv, im[i], in[j]); 8080 } else if (in[j] < 0) continue; 8081 else if (PetscUnlikelyDebug(in[j] >= mat->cmap->N)) { 8082 SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Column too large: col %" PetscInt_FMT " max %" PetscInt_FMT, in[j], mat->cmap->N - 1); 8083 } else { 8084 if (mat->was_assembled) { 8085 if (!aij->colmap) PetscCall(MatCreateColmap_MPIAIJ_Private(mat)); 8086 #if defined(PETSC_USE_CTABLE) 8087 PetscCall(PetscHMapIGetWithDefault(aij->colmap, in[j] + 1, 0, &col)); 8088 col--; 8089 #else 8090 col = aij->colmap[in[j]] - 1; 8091 #endif 8092 if (col < 0 && !((Mat_SeqAIJ *)(aij->A->data))->nonew) { 8093 PetscCall(MatDisAssemble_MPIAIJ(mat)); 8094 col = in[j]; 8095 /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */ 8096 B = aij->B; 8097 b = (Mat_SeqAIJ *)B->data; 8098 bimax = b->imax; 8099 bi = b->i; 8100 bilen = b->ilen; 8101 bj = b->j; 8102 rp2 = bj + bi[row]; 8103 ap2 = ba + bi[row]; 8104 rmax2 = bimax[row]; 8105 nrow2 = bilen[row]; 8106 low2 = 0; 8107 high2 = nrow2; 8108 bm = aij->B->rmap->n; 8109 ba = b->a; 8110 inserted = PETSC_FALSE; 8111 } 8112 } else col = in[j]; 8113 MatSetValues_SeqAIJ_B_Private(row, col, value, addv, im[i], in[j]); 8114 } 8115 } 8116 } else if (!aij->donotstash) { 8117 if (roworiented) { 8118 PetscCall(MatStashValuesRow_Private(&mat->stash, im[i], n, in, v + i * n, (PetscBool)(ignorezeroentries && (addv == ADD_VALUES)))); 8119 } else { 8120 PetscCall(MatStashValuesCol_Private(&mat->stash, im[i], n, in, v + i, m, (PetscBool)(ignorezeroentries && (addv == ADD_VALUES)))); 8121 } 8122 } 8123 } 8124 PetscCall(MatSeqAIJRestoreArray(A, &aa)); 8125 PetscCall(MatSeqAIJRestoreArray(B, &ba)); 8126 } 8127 PetscFunctionReturnVoid(); 8128 } 8129 8130 /* Undefining these here since they were redefined from their original definition above! No 8131 * other PETSc functions should be defined past this point, as it is impossible to recover the 8132 * original definitions */ 8133 #undef PetscCall 8134 #undef SETERRQ 8135