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 /* defines MatSetValues_MPI_Hash(), MatAssemblyBegin_MPI_Hash(), and MatAssemblyEnd_MPI_Hash() */ 10 #define TYPE AIJ 11 #define TYPE_AIJ 12 #include "../src/mat/impls/aij/mpi/mpihashmat.h" 13 #undef TYPE 14 #undef TYPE_AIJ 15 16 static PetscErrorCode MatReset_MPIAIJ(Mat mat) 17 { 18 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 19 20 PetscFunctionBegin; 21 PetscCall(PetscLogObjectState((PetscObject)mat, "Rows=%" PetscInt_FMT ", Cols=%" PetscInt_FMT, mat->rmap->N, mat->cmap->N)); 22 PetscCall(MatStashDestroy_Private(&mat->stash)); 23 PetscCall(VecDestroy(&aij->diag)); 24 PetscCall(MatDestroy(&aij->A)); 25 PetscCall(MatDestroy(&aij->B)); 26 #if defined(PETSC_USE_CTABLE) 27 PetscCall(PetscHMapIDestroy(&aij->colmap)); 28 #else 29 PetscCall(PetscFree(aij->colmap)); 30 #endif 31 PetscCall(PetscFree(aij->garray)); 32 PetscCall(VecDestroy(&aij->lvec)); 33 PetscCall(VecScatterDestroy(&aij->Mvctx)); 34 PetscCall(PetscFree2(aij->rowvalues, aij->rowindices)); 35 PetscCall(PetscFree(aij->ld)); 36 PetscFunctionReturn(PETSC_SUCCESS); 37 } 38 39 static PetscErrorCode MatResetHash_MPIAIJ(Mat mat) 40 { 41 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 42 /* Save the nonzero states of the component matrices because those are what are used to determine 43 the nonzero state of mat */ 44 PetscObjectState Astate = aij->A->nonzerostate, Bstate = aij->B->nonzerostate; 45 46 PetscFunctionBegin; 47 PetscCall(MatReset_MPIAIJ(mat)); 48 PetscCall(MatSetUp_MPI_Hash(mat)); 49 aij->A->nonzerostate = ++Astate, aij->B->nonzerostate = ++Bstate; 50 PetscFunctionReturn(PETSC_SUCCESS); 51 } 52 53 PetscErrorCode MatDestroy_MPIAIJ(Mat mat) 54 { 55 PetscFunctionBegin; 56 PetscCall(MatReset_MPIAIJ(mat)); 57 58 PetscCall(PetscFree(mat->data)); 59 60 /* may be created by MatCreateMPIAIJSumSeqAIJSymbolic */ 61 PetscCall(PetscObjectCompose((PetscObject)mat, "MatMergeSeqsToMPI", NULL)); 62 63 PetscCall(PetscObjectChangeTypeName((PetscObject)mat, NULL)); 64 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatStoreValues_C", NULL)); 65 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatRetrieveValues_C", NULL)); 66 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatIsTranspose_C", NULL)); 67 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatMPIAIJSetPreallocation_C", NULL)); 68 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatResetPreallocation_C", NULL)); 69 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatResetHash_C", NULL)); 70 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatMPIAIJSetPreallocationCSR_C", NULL)); 71 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatDiagonalScaleLocal_C", NULL)); 72 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpibaij_C", NULL)); 73 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpisbaij_C", NULL)); 74 #if defined(PETSC_HAVE_CUDA) 75 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijcusparse_C", NULL)); 76 #endif 77 #if defined(PETSC_HAVE_HIP) 78 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijhipsparse_C", NULL)); 79 #endif 80 #if defined(PETSC_HAVE_KOKKOS_KERNELS) 81 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijkokkos_C", NULL)); 82 #endif 83 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpidense_C", NULL)); 84 #if defined(PETSC_HAVE_ELEMENTAL) 85 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_elemental_C", NULL)); 86 #endif 87 #if defined(PETSC_HAVE_SCALAPACK) 88 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_scalapack_C", NULL)); 89 #endif 90 #if defined(PETSC_HAVE_HYPRE) 91 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_hypre_C", NULL)); 92 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatProductSetFromOptions_transpose_mpiaij_mpiaij_C", NULL)); 93 #endif 94 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_is_C", NULL)); 95 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatProductSetFromOptions_is_mpiaij_C", NULL)); 96 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatProductSetFromOptions_mpiaij_mpiaij_C", NULL)); 97 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatMPIAIJSetUseScalableIncreaseOverlap_C", NULL)); 98 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijperm_C", NULL)); 99 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijsell_C", NULL)); 100 #if defined(PETSC_HAVE_MKL_SPARSE) 101 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijmkl_C", NULL)); 102 #endif 103 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpiaijcrl_C", NULL)); 104 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_is_C", NULL)); 105 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatConvert_mpiaij_mpisell_C", NULL)); 106 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatSetPreallocationCOO_C", NULL)); 107 PetscCall(PetscObjectComposeFunction((PetscObject)mat, "MatSetValuesCOO_C", NULL)); 108 PetscFunctionReturn(PETSC_SUCCESS); 109 } 110 111 static PetscErrorCode MatGetRowIJ_MPIAIJ(Mat A, PetscInt oshift, PetscBool symmetric, PetscBool inodecompressed, PetscInt *m, const PetscInt *ia[], const PetscInt *ja[], PetscBool *done) 112 { 113 Mat B; 114 115 PetscFunctionBegin; 116 PetscCall(MatMPIAIJGetLocalMat(A, MAT_INITIAL_MATRIX, &B)); 117 PetscCall(PetscObjectCompose((PetscObject)A, "MatGetRowIJ_MPIAIJ", (PetscObject)B)); 118 PetscCall(MatGetRowIJ(B, oshift, symmetric, inodecompressed, m, ia, ja, done)); 119 PetscCall(MatDestroy(&B)); 120 PetscFunctionReturn(PETSC_SUCCESS); 121 } 122 123 static PetscErrorCode MatRestoreRowIJ_MPIAIJ(Mat A, PetscInt oshift, PetscBool symmetric, PetscBool inodecompressed, PetscInt *m, const PetscInt *ia[], const PetscInt *ja[], PetscBool *done) 124 { 125 Mat B; 126 127 PetscFunctionBegin; 128 PetscCall(PetscObjectQuery((PetscObject)A, "MatGetRowIJ_MPIAIJ", (PetscObject *)&B)); 129 PetscCall(MatRestoreRowIJ(B, oshift, symmetric, inodecompressed, m, ia, ja, done)); 130 PetscCall(PetscObjectCompose((PetscObject)A, "MatGetRowIJ_MPIAIJ", NULL)); 131 PetscFunctionReturn(PETSC_SUCCESS); 132 } 133 134 /*MC 135 MATAIJ - MATAIJ = "aij" - A matrix type to be used for sparse matrices. 136 137 This matrix type is identical to` MATSEQAIJ` when constructed with a single process communicator, 138 and `MATMPIAIJ` otherwise. As a result, for single process communicators, 139 `MatSeqAIJSetPreallocation()` is supported, and similarly `MatMPIAIJSetPreallocation()` is supported 140 for communicators controlling multiple processes. It is recommended that you call both of 141 the above preallocation routines for simplicity. 142 143 Options Database Key: 144 . -mat_type aij - sets the matrix type to `MATAIJ` during a call to `MatSetFromOptions()` 145 146 Developer Note: 147 Level: beginner 148 149 Subclasses include `MATAIJCUSPARSE`, `MATAIJPERM`, `MATAIJSELL`, `MATAIJMKL`, `MATAIJCRL`, `MATAIJKOKKOS`,and also automatically switches over to use inodes when 150 enough exist. 151 152 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MATSEQAIJ`, `MatCreateAIJ()`, `MatCreateSeqAIJ()`, `MATSEQAIJ`, `MATMPIAIJ` 153 M*/ 154 155 /*MC 156 MATAIJCRL - MATAIJCRL = "aijcrl" - A matrix type to be used for sparse matrices. 157 158 This matrix type is identical to `MATSEQAIJCRL` when constructed with a single process communicator, 159 and `MATMPIAIJCRL` otherwise. As a result, for single process communicators, 160 `MatSeqAIJSetPreallocation()` is supported, and similarly `MatMPIAIJSetPreallocation()` is supported 161 for communicators controlling multiple processes. It is recommended that you call both of 162 the above preallocation routines for simplicity. 163 164 Options Database Key: 165 . -mat_type aijcrl - sets the matrix type to `MATMPIAIJCRL` during a call to `MatSetFromOptions()` 166 167 Level: beginner 168 169 .seealso: [](ch_matrices), `Mat`, `MatCreateMPIAIJCRL`, `MATSEQAIJCRL`, `MATMPIAIJCRL`, `MATSEQAIJCRL`, `MATMPIAIJCRL` 170 M*/ 171 172 static PetscErrorCode MatBindToCPU_MPIAIJ(Mat A, PetscBool flg) 173 { 174 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 175 176 PetscFunctionBegin; 177 #if defined(PETSC_HAVE_CUDA) || defined(PETSC_HAVE_HIP) || defined(PETSC_HAVE_VIENNACL) 178 A->boundtocpu = flg; 179 #endif 180 if (a->A) PetscCall(MatBindToCPU(a->A, flg)); 181 if (a->B) PetscCall(MatBindToCPU(a->B, flg)); 182 183 /* In addition to binding the diagonal and off-diagonal matrices, bind the local vectors used for matrix-vector products. 184 * This maybe seems a little odd for a MatBindToCPU() call to do, but it makes no sense for the binding of these vectors 185 * to differ from the parent matrix. */ 186 if (a->lvec) PetscCall(VecBindToCPU(a->lvec, flg)); 187 if (a->diag) PetscCall(VecBindToCPU(a->diag, flg)); 188 PetscFunctionReturn(PETSC_SUCCESS); 189 } 190 191 static PetscErrorCode MatSetBlockSizes_MPIAIJ(Mat M, PetscInt rbs, PetscInt cbs) 192 { 193 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)M->data; 194 195 PetscFunctionBegin; 196 if (mat->A) { 197 PetscCall(MatSetBlockSizes(mat->A, rbs, cbs)); 198 PetscCall(MatSetBlockSizes(mat->B, rbs, 1)); 199 } 200 PetscFunctionReturn(PETSC_SUCCESS); 201 } 202 203 static PetscErrorCode MatFindNonzeroRows_MPIAIJ(Mat M, IS *keptrows) 204 { 205 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)M->data; 206 Mat_SeqAIJ *a = (Mat_SeqAIJ *)mat->A->data; 207 Mat_SeqAIJ *b = (Mat_SeqAIJ *)mat->B->data; 208 const PetscInt *ia, *ib; 209 const MatScalar *aa, *bb, *aav, *bav; 210 PetscInt na, nb, i, j, *rows, cnt = 0, n0rows; 211 PetscInt m = M->rmap->n, rstart = M->rmap->rstart; 212 213 PetscFunctionBegin; 214 *keptrows = NULL; 215 216 ia = a->i; 217 ib = b->i; 218 PetscCall(MatSeqAIJGetArrayRead(mat->A, &aav)); 219 PetscCall(MatSeqAIJGetArrayRead(mat->B, &bav)); 220 for (i = 0; i < m; i++) { 221 na = ia[i + 1] - ia[i]; 222 nb = ib[i + 1] - ib[i]; 223 if (!na && !nb) { 224 cnt++; 225 goto ok1; 226 } 227 aa = aav + ia[i]; 228 for (j = 0; j < na; j++) { 229 if (aa[j] != 0.0) goto ok1; 230 } 231 bb = PetscSafePointerPlusOffset(bav, ib[i]); 232 for (j = 0; j < nb; j++) { 233 if (bb[j] != 0.0) goto ok1; 234 } 235 cnt++; 236 ok1:; 237 } 238 PetscCallMPI(MPIU_Allreduce(&cnt, &n0rows, 1, MPIU_INT, MPI_SUM, PetscObjectComm((PetscObject)M))); 239 if (!n0rows) { 240 PetscCall(MatSeqAIJRestoreArrayRead(mat->A, &aav)); 241 PetscCall(MatSeqAIJRestoreArrayRead(mat->B, &bav)); 242 PetscFunctionReturn(PETSC_SUCCESS); 243 } 244 PetscCall(PetscMalloc1(M->rmap->n - cnt, &rows)); 245 cnt = 0; 246 for (i = 0; i < m; i++) { 247 na = ia[i + 1] - ia[i]; 248 nb = ib[i + 1] - ib[i]; 249 if (!na && !nb) continue; 250 aa = aav + ia[i]; 251 for (j = 0; j < na; j++) { 252 if (aa[j] != 0.0) { 253 rows[cnt++] = rstart + i; 254 goto ok2; 255 } 256 } 257 bb = PetscSafePointerPlusOffset(bav, ib[i]); 258 for (j = 0; j < nb; j++) { 259 if (bb[j] != 0.0) { 260 rows[cnt++] = rstart + i; 261 goto ok2; 262 } 263 } 264 ok2:; 265 } 266 PetscCall(ISCreateGeneral(PetscObjectComm((PetscObject)M), cnt, rows, PETSC_OWN_POINTER, keptrows)); 267 PetscCall(MatSeqAIJRestoreArrayRead(mat->A, &aav)); 268 PetscCall(MatSeqAIJRestoreArrayRead(mat->B, &bav)); 269 PetscFunctionReturn(PETSC_SUCCESS); 270 } 271 272 static PetscErrorCode MatDiagonalSet_MPIAIJ(Mat Y, Vec D, InsertMode is) 273 { 274 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)Y->data; 275 PetscBool cong; 276 277 PetscFunctionBegin; 278 PetscCall(MatHasCongruentLayouts(Y, &cong)); 279 if (Y->assembled && cong) { 280 PetscCall(MatDiagonalSet(aij->A, D, is)); 281 } else { 282 PetscCall(MatDiagonalSet_Default(Y, D, is)); 283 } 284 PetscFunctionReturn(PETSC_SUCCESS); 285 } 286 287 static PetscErrorCode MatFindZeroDiagonals_MPIAIJ(Mat M, IS *zrows) 288 { 289 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)M->data; 290 PetscInt i, rstart, nrows, *rows; 291 292 PetscFunctionBegin; 293 *zrows = NULL; 294 PetscCall(MatFindZeroDiagonals_SeqAIJ_Private(aij->A, &nrows, &rows)); 295 PetscCall(MatGetOwnershipRange(M, &rstart, NULL)); 296 for (i = 0; i < nrows; i++) rows[i] += rstart; 297 PetscCall(ISCreateGeneral(PetscObjectComm((PetscObject)M), nrows, rows, PETSC_OWN_POINTER, zrows)); 298 PetscFunctionReturn(PETSC_SUCCESS); 299 } 300 301 static PetscErrorCode MatGetColumnReductions_MPIAIJ(Mat A, PetscInt type, PetscReal *reductions) 302 { 303 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)A->data; 304 PetscInt i, m, n, *garray = aij->garray; 305 Mat_SeqAIJ *a_aij = (Mat_SeqAIJ *)aij->A->data; 306 Mat_SeqAIJ *b_aij = (Mat_SeqAIJ *)aij->B->data; 307 PetscReal *work; 308 const PetscScalar *dummy; 309 310 PetscFunctionBegin; 311 PetscCall(MatGetSize(A, &m, &n)); 312 PetscCall(PetscCalloc1(n, &work)); 313 PetscCall(MatSeqAIJGetArrayRead(aij->A, &dummy)); 314 PetscCall(MatSeqAIJRestoreArrayRead(aij->A, &dummy)); 315 PetscCall(MatSeqAIJGetArrayRead(aij->B, &dummy)); 316 PetscCall(MatSeqAIJRestoreArrayRead(aij->B, &dummy)); 317 if (type == NORM_2) { 318 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]); 319 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]); 320 } else if (type == NORM_1) { 321 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]); 322 for (i = 0; i < b_aij->i[aij->B->rmap->n]; i++) work[garray[b_aij->j[i]]] += PetscAbsScalar(b_aij->a[i]); 323 } else if (type == NORM_INFINITY) { 324 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]]); 325 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]]]); 326 } else if (type == REDUCTION_SUM_REALPART || type == REDUCTION_MEAN_REALPART) { 327 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]); 328 for (i = 0; i < b_aij->i[aij->B->rmap->n]; i++) work[garray[b_aij->j[i]]] += PetscRealPart(b_aij->a[i]); 329 } else if (type == REDUCTION_SUM_IMAGINARYPART || type == REDUCTION_MEAN_IMAGINARYPART) { 330 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]); 331 for (i = 0; i < b_aij->i[aij->B->rmap->n]; i++) work[garray[b_aij->j[i]]] += PetscImaginaryPart(b_aij->a[i]); 332 } else SETERRQ(PetscObjectComm((PetscObject)A), PETSC_ERR_ARG_WRONG, "Unknown reduction type"); 333 if (type == NORM_INFINITY) { 334 PetscCallMPI(MPIU_Allreduce(work, reductions, n, MPIU_REAL, MPIU_MAX, PetscObjectComm((PetscObject)A))); 335 } else { 336 PetscCallMPI(MPIU_Allreduce(work, reductions, n, MPIU_REAL, MPIU_SUM, PetscObjectComm((PetscObject)A))); 337 } 338 PetscCall(PetscFree(work)); 339 if (type == NORM_2) { 340 for (i = 0; i < n; i++) reductions[i] = PetscSqrtReal(reductions[i]); 341 } else if (type == REDUCTION_MEAN_REALPART || type == REDUCTION_MEAN_IMAGINARYPART) { 342 for (i = 0; i < n; i++) reductions[i] /= m; 343 } 344 PetscFunctionReturn(PETSC_SUCCESS); 345 } 346 347 static PetscErrorCode MatFindOffBlockDiagonalEntries_MPIAIJ(Mat A, IS *is) 348 { 349 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 350 IS sis, gis; 351 const PetscInt *isis, *igis; 352 PetscInt n, *iis, nsis, ngis, rstart, i; 353 354 PetscFunctionBegin; 355 PetscCall(MatFindOffBlockDiagonalEntries(a->A, &sis)); 356 PetscCall(MatFindNonzeroRows(a->B, &gis)); 357 PetscCall(ISGetSize(gis, &ngis)); 358 PetscCall(ISGetSize(sis, &nsis)); 359 PetscCall(ISGetIndices(sis, &isis)); 360 PetscCall(ISGetIndices(gis, &igis)); 361 362 PetscCall(PetscMalloc1(ngis + nsis, &iis)); 363 PetscCall(PetscArraycpy(iis, igis, ngis)); 364 PetscCall(PetscArraycpy(iis + ngis, isis, nsis)); 365 n = ngis + nsis; 366 PetscCall(PetscSortRemoveDupsInt(&n, iis)); 367 PetscCall(MatGetOwnershipRange(A, &rstart, NULL)); 368 for (i = 0; i < n; i++) iis[i] += rstart; 369 PetscCall(ISCreateGeneral(PetscObjectComm((PetscObject)A), n, iis, PETSC_OWN_POINTER, is)); 370 371 PetscCall(ISRestoreIndices(sis, &isis)); 372 PetscCall(ISRestoreIndices(gis, &igis)); 373 PetscCall(ISDestroy(&sis)); 374 PetscCall(ISDestroy(&gis)); 375 PetscFunctionReturn(PETSC_SUCCESS); 376 } 377 378 /* 379 Local utility routine that creates a mapping from the global column 380 number to the local number in the off-diagonal part of the local 381 storage of the matrix. When PETSC_USE_CTABLE is used this is scalable at 382 a slightly higher hash table cost; without it it is not scalable (each processor 383 has an order N integer array but is fast to access. 384 */ 385 PetscErrorCode MatCreateColmap_MPIAIJ_Private(Mat mat) 386 { 387 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 388 PetscInt n = aij->B->cmap->n, i; 389 390 PetscFunctionBegin; 391 PetscCheck(!n || aij->garray, PETSC_COMM_SELF, PETSC_ERR_PLIB, "MPIAIJ Matrix was assembled but is missing garray"); 392 #if defined(PETSC_USE_CTABLE) 393 PetscCall(PetscHMapICreateWithSize(n, &aij->colmap)); 394 for (i = 0; i < n; i++) PetscCall(PetscHMapISet(aij->colmap, aij->garray[i] + 1, i + 1)); 395 #else 396 PetscCall(PetscCalloc1(mat->cmap->N + 1, &aij->colmap)); 397 for (i = 0; i < n; i++) aij->colmap[aij->garray[i]] = i + 1; 398 #endif 399 PetscFunctionReturn(PETSC_SUCCESS); 400 } 401 402 #define MatSetValues_SeqAIJ_A_Private(row, col, value, addv, orow, ocol) \ 403 do { \ 404 if (col <= lastcol1) low1 = 0; \ 405 else high1 = nrow1; \ 406 lastcol1 = col; \ 407 while (high1 - low1 > 5) { \ 408 t = (low1 + high1) / 2; \ 409 if (rp1[t] > col) high1 = t; \ 410 else low1 = t; \ 411 } \ 412 for (_i = low1; _i < high1; _i++) { \ 413 if (rp1[_i] > col) break; \ 414 if (rp1[_i] == col) { \ 415 if (addv == ADD_VALUES) { \ 416 ap1[_i] += value; \ 417 /* Not sure LogFlops will slow dow the code or not */ \ 418 (void)PetscLogFlops(1.0); \ 419 } else ap1[_i] = value; \ 420 goto a_noinsert; \ 421 } \ 422 } \ 423 if (value == 0.0 && ignorezeroentries && row != col) { \ 424 low1 = 0; \ 425 high1 = nrow1; \ 426 goto a_noinsert; \ 427 } \ 428 if (nonew == 1) { \ 429 low1 = 0; \ 430 high1 = nrow1; \ 431 goto a_noinsert; \ 432 } \ 433 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); \ 434 MatSeqXAIJReallocateAIJ(A, am, 1, nrow1, row, col, rmax1, aa, ai, aj, rp1, ap1, aimax, nonew, MatScalar); \ 435 N = nrow1++ - 1; \ 436 a->nz++; \ 437 high1++; \ 438 /* shift up all the later entries in this row */ \ 439 PetscCall(PetscArraymove(rp1 + _i + 1, rp1 + _i, N - _i + 1)); \ 440 PetscCall(PetscArraymove(ap1 + _i + 1, ap1 + _i, N - _i + 1)); \ 441 rp1[_i] = col; \ 442 ap1[_i] = value; \ 443 a_noinsert:; \ 444 ailen[row] = nrow1; \ 445 } while (0) 446 447 #define MatSetValues_SeqAIJ_B_Private(row, col, value, addv, orow, ocol) \ 448 do { \ 449 if (col <= lastcol2) low2 = 0; \ 450 else high2 = nrow2; \ 451 lastcol2 = col; \ 452 while (high2 - low2 > 5) { \ 453 t = (low2 + high2) / 2; \ 454 if (rp2[t] > col) high2 = t; \ 455 else low2 = t; \ 456 } \ 457 for (_i = low2; _i < high2; _i++) { \ 458 if (rp2[_i] > col) break; \ 459 if (rp2[_i] == col) { \ 460 if (addv == ADD_VALUES) { \ 461 ap2[_i] += value; \ 462 (void)PetscLogFlops(1.0); \ 463 } else ap2[_i] = value; \ 464 goto b_noinsert; \ 465 } \ 466 } \ 467 if (value == 0.0 && ignorezeroentries) { \ 468 low2 = 0; \ 469 high2 = nrow2; \ 470 goto b_noinsert; \ 471 } \ 472 if (nonew == 1) { \ 473 low2 = 0; \ 474 high2 = nrow2; \ 475 goto b_noinsert; \ 476 } \ 477 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); \ 478 MatSeqXAIJReallocateAIJ(B, bm, 1, nrow2, row, col, rmax2, ba, bi, bj, rp2, ap2, bimax, nonew, MatScalar); \ 479 N = nrow2++ - 1; \ 480 b->nz++; \ 481 high2++; \ 482 /* shift up all the later entries in this row */ \ 483 PetscCall(PetscArraymove(rp2 + _i + 1, rp2 + _i, N - _i + 1)); \ 484 PetscCall(PetscArraymove(ap2 + _i + 1, ap2 + _i, N - _i + 1)); \ 485 rp2[_i] = col; \ 486 ap2[_i] = value; \ 487 b_noinsert:; \ 488 bilen[row] = nrow2; \ 489 } while (0) 490 491 static PetscErrorCode MatSetValuesRow_MPIAIJ(Mat A, PetscInt row, const PetscScalar v[]) 492 { 493 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)A->data; 494 Mat_SeqAIJ *a = (Mat_SeqAIJ *)mat->A->data, *b = (Mat_SeqAIJ *)mat->B->data; 495 PetscInt l, *garray = mat->garray, diag; 496 PetscScalar *aa, *ba; 497 498 PetscFunctionBegin; 499 /* code only works for square matrices A */ 500 501 /* find size of row to the left of the diagonal part */ 502 PetscCall(MatGetOwnershipRange(A, &diag, NULL)); 503 row = row - diag; 504 for (l = 0; l < b->i[row + 1] - b->i[row]; l++) { 505 if (garray[b->j[b->i[row] + l]] > diag) break; 506 } 507 if (l) { 508 PetscCall(MatSeqAIJGetArray(mat->B, &ba)); 509 PetscCall(PetscArraycpy(ba + b->i[row], v, l)); 510 PetscCall(MatSeqAIJRestoreArray(mat->B, &ba)); 511 } 512 513 /* diagonal part */ 514 if (a->i[row + 1] - a->i[row]) { 515 PetscCall(MatSeqAIJGetArray(mat->A, &aa)); 516 PetscCall(PetscArraycpy(aa + a->i[row], v + l, a->i[row + 1] - a->i[row])); 517 PetscCall(MatSeqAIJRestoreArray(mat->A, &aa)); 518 } 519 520 /* right of diagonal part */ 521 if (b->i[row + 1] - b->i[row] - l) { 522 PetscCall(MatSeqAIJGetArray(mat->B, &ba)); 523 PetscCall(PetscArraycpy(ba + b->i[row] + l, v + l + a->i[row + 1] - a->i[row], b->i[row + 1] - b->i[row] - l)); 524 PetscCall(MatSeqAIJRestoreArray(mat->B, &ba)); 525 } 526 PetscFunctionReturn(PETSC_SUCCESS); 527 } 528 529 PetscErrorCode MatSetValues_MPIAIJ(Mat mat, PetscInt m, const PetscInt im[], PetscInt n, const PetscInt in[], const PetscScalar v[], InsertMode addv) 530 { 531 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 532 PetscScalar value = 0.0; 533 PetscInt i, j, rstart = mat->rmap->rstart, rend = mat->rmap->rend; 534 PetscInt cstart = mat->cmap->rstart, cend = mat->cmap->rend, row, col; 535 PetscBool roworiented = aij->roworiented; 536 537 /* Some Variables required in the macro */ 538 Mat A = aij->A; 539 Mat_SeqAIJ *a = (Mat_SeqAIJ *)A->data; 540 PetscInt *aimax = a->imax, *ai = a->i, *ailen = a->ilen, *aj = a->j; 541 PetscBool ignorezeroentries = a->ignorezeroentries; 542 Mat B = aij->B; 543 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 544 PetscInt *bimax = b->imax, *bi = b->i, *bilen = b->ilen, *bj = b->j, bm = aij->B->rmap->n, am = aij->A->rmap->n; 545 MatScalar *aa, *ba; 546 PetscInt *rp1, *rp2, ii, nrow1, nrow2, _i, rmax1, rmax2, N, low1, high1, low2, high2, t, lastcol1, lastcol2; 547 PetscInt nonew; 548 MatScalar *ap1, *ap2; 549 550 PetscFunctionBegin; 551 PetscCall(MatSeqAIJGetArray(A, &aa)); 552 PetscCall(MatSeqAIJGetArray(B, &ba)); 553 for (i = 0; i < m; i++) { 554 if (im[i] < 0) continue; 555 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); 556 if (im[i] >= rstart && im[i] < rend) { 557 row = im[i] - rstart; 558 lastcol1 = -1; 559 rp1 = PetscSafePointerPlusOffset(aj, ai[row]); 560 ap1 = PetscSafePointerPlusOffset(aa, ai[row]); 561 rmax1 = aimax[row]; 562 nrow1 = ailen[row]; 563 low1 = 0; 564 high1 = nrow1; 565 lastcol2 = -1; 566 rp2 = PetscSafePointerPlusOffset(bj, bi[row]); 567 ap2 = PetscSafePointerPlusOffset(ba, bi[row]); 568 rmax2 = bimax[row]; 569 nrow2 = bilen[row]; 570 low2 = 0; 571 high2 = nrow2; 572 573 for (j = 0; j < n; j++) { 574 if (v) value = roworiented ? v[i * n + j] : v[i + j * m]; 575 if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES) && im[i] != in[j]) continue; 576 if (in[j] >= cstart && in[j] < cend) { 577 col = in[j] - cstart; 578 nonew = a->nonew; 579 MatSetValues_SeqAIJ_A_Private(row, col, value, addv, im[i], in[j]); 580 } else if (in[j] < 0) { 581 continue; 582 } else { 583 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); 584 if (mat->was_assembled) { 585 if (!aij->colmap) PetscCall(MatCreateColmap_MPIAIJ_Private(mat)); 586 #if defined(PETSC_USE_CTABLE) 587 PetscCall(PetscHMapIGetWithDefault(aij->colmap, in[j] + 1, 0, &col)); /* map global col ids to local ones */ 588 col--; 589 #else 590 col = aij->colmap[in[j]] - 1; 591 #endif 592 if (col < 0 && !((Mat_SeqAIJ *)aij->B->data)->nonew) { /* col < 0 means in[j] is a new col for B */ 593 PetscCall(MatDisAssemble_MPIAIJ(mat, PETSC_FALSE)); /* Change aij->B from reduced/local format to expanded/global format */ 594 col = in[j]; 595 /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */ 596 B = aij->B; 597 b = (Mat_SeqAIJ *)B->data; 598 bimax = b->imax; 599 bi = b->i; 600 bilen = b->ilen; 601 bj = b->j; 602 ba = b->a; 603 rp2 = PetscSafePointerPlusOffset(bj, bi[row]); 604 ap2 = PetscSafePointerPlusOffset(ba, bi[row]); 605 rmax2 = bimax[row]; 606 nrow2 = bilen[row]; 607 low2 = 0; 608 high2 = nrow2; 609 bm = aij->B->rmap->n; 610 ba = b->a; 611 } else if (col < 0 && !(ignorezeroentries && value == 0.0)) { 612 if (1 == ((Mat_SeqAIJ *)aij->B->data)->nonew) { 613 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])); 614 } 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]); 615 } 616 } else col = in[j]; 617 nonew = b->nonew; 618 MatSetValues_SeqAIJ_B_Private(row, col, value, addv, im[i], in[j]); 619 } 620 } 621 } else { 622 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]); 623 if (!aij->donotstash) { 624 mat->assembled = PETSC_FALSE; 625 if (roworiented) { 626 PetscCall(MatStashValuesRow_Private(&mat->stash, im[i], n, in, PetscSafePointerPlusOffset(v, i * n), (PetscBool)(ignorezeroentries && (addv == ADD_VALUES)))); 627 } else { 628 PetscCall(MatStashValuesCol_Private(&mat->stash, im[i], n, in, PetscSafePointerPlusOffset(v, i), m, (PetscBool)(ignorezeroentries && (addv == ADD_VALUES)))); 629 } 630 } 631 } 632 } 633 PetscCall(MatSeqAIJRestoreArray(A, &aa)); /* aa, bb might have been free'd due to reallocation above. But we don't access them here */ 634 PetscCall(MatSeqAIJRestoreArray(B, &ba)); 635 PetscFunctionReturn(PETSC_SUCCESS); 636 } 637 638 /* 639 This function sets the j and ilen arrays (of the diagonal and off-diagonal part) of an MPIAIJ-matrix. 640 The values in mat_i have to be sorted and the values in mat_j have to be sorted for each row (CSR-like). 641 No off-processor parts off the matrix are allowed here and mat->was_assembled has to be PETSC_FALSE. 642 */ 643 PetscErrorCode MatSetValues_MPIAIJ_CopyFromCSRFormat_Symbolic(Mat mat, const PetscInt mat_j[], const PetscInt mat_i[]) 644 { 645 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 646 Mat A = aij->A; /* diagonal part of the matrix */ 647 Mat B = aij->B; /* off-diagonal part of the matrix */ 648 Mat_SeqAIJ *a = (Mat_SeqAIJ *)A->data; 649 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 650 PetscInt cstart = mat->cmap->rstart, cend = mat->cmap->rend, col; 651 PetscInt *ailen = a->ilen, *aj = a->j; 652 PetscInt *bilen = b->ilen, *bj = b->j; 653 PetscInt am = aij->A->rmap->n, j; 654 PetscInt diag_so_far = 0, dnz; 655 PetscInt offd_so_far = 0, onz; 656 657 PetscFunctionBegin; 658 /* Iterate over all rows of the matrix */ 659 for (j = 0; j < am; j++) { 660 dnz = onz = 0; 661 /* Iterate over all non-zero columns of the current row */ 662 for (col = mat_i[j]; col < mat_i[j + 1]; col++) { 663 /* If column is in the diagonal */ 664 if (mat_j[col] >= cstart && mat_j[col] < cend) { 665 aj[diag_so_far++] = mat_j[col] - cstart; 666 dnz++; 667 } else { /* off-diagonal entries */ 668 bj[offd_so_far++] = mat_j[col]; 669 onz++; 670 } 671 } 672 ailen[j] = dnz; 673 bilen[j] = onz; 674 } 675 PetscFunctionReturn(PETSC_SUCCESS); 676 } 677 678 /* 679 This function sets the local j, a and ilen arrays (of the diagonal and off-diagonal part) of an MPIAIJ-matrix. 680 The values in mat_i have to be sorted and the values in mat_j have to be sorted for each row (CSR-like). 681 No off-processor parts off the matrix are allowed here, they are set at a later point by MatSetValues_MPIAIJ. 682 Also, mat->was_assembled has to be false, otherwise the statement aj[rowstart_diag+dnz_row] = mat_j[col] - cstart; 683 would not be true and the more complex MatSetValues_MPIAIJ has to be used. 684 */ 685 PetscErrorCode MatSetValues_MPIAIJ_CopyFromCSRFormat(Mat mat, const PetscInt mat_j[], const PetscInt mat_i[], const PetscScalar mat_a[]) 686 { 687 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 688 Mat A = aij->A; /* diagonal part of the matrix */ 689 Mat B = aij->B; /* off-diagonal part of the matrix */ 690 Mat_SeqAIJ *aijd = (Mat_SeqAIJ *)aij->A->data, *aijo = (Mat_SeqAIJ *)aij->B->data; 691 Mat_SeqAIJ *a = (Mat_SeqAIJ *)A->data; 692 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 693 PetscInt cstart = mat->cmap->rstart, cend = mat->cmap->rend; 694 PetscInt *ailen = a->ilen, *aj = a->j; 695 PetscInt *bilen = b->ilen, *bj = b->j; 696 PetscInt am = aij->A->rmap->n, j; 697 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. */ 698 PetscInt col, dnz_row, onz_row, rowstart_diag, rowstart_offd; 699 PetscScalar *aa = a->a, *ba = b->a; 700 701 PetscFunctionBegin; 702 /* Iterate over all rows of the matrix */ 703 for (j = 0; j < am; j++) { 704 dnz_row = onz_row = 0; 705 rowstart_offd = full_offd_i[j]; 706 rowstart_diag = full_diag_i[j]; 707 /* Iterate over all non-zero columns of the current row */ 708 for (col = mat_i[j]; col < mat_i[j + 1]; col++) { 709 /* If column is in the diagonal */ 710 if (mat_j[col] >= cstart && mat_j[col] < cend) { 711 aj[rowstart_diag + dnz_row] = mat_j[col] - cstart; 712 aa[rowstart_diag + dnz_row] = mat_a[col]; 713 dnz_row++; 714 } else { /* off-diagonal entries */ 715 bj[rowstart_offd + onz_row] = mat_j[col]; 716 ba[rowstart_offd + onz_row] = mat_a[col]; 717 onz_row++; 718 } 719 } 720 ailen[j] = dnz_row; 721 bilen[j] = onz_row; 722 } 723 PetscFunctionReturn(PETSC_SUCCESS); 724 } 725 726 static PetscErrorCode MatGetValues_MPIAIJ(Mat mat, PetscInt m, const PetscInt idxm[], PetscInt n, const PetscInt idxn[], PetscScalar v[]) 727 { 728 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 729 PetscInt i, j, rstart = mat->rmap->rstart, rend = mat->rmap->rend; 730 PetscInt cstart = mat->cmap->rstart, cend = mat->cmap->rend, row, col; 731 732 PetscFunctionBegin; 733 for (i = 0; i < m; i++) { 734 if (idxm[i] < 0) continue; /* negative row */ 735 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); 736 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); 737 row = idxm[i] - rstart; 738 for (j = 0; j < n; j++) { 739 if (idxn[j] < 0) continue; /* negative column */ 740 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); 741 if (idxn[j] >= cstart && idxn[j] < cend) { 742 col = idxn[j] - cstart; 743 PetscCall(MatGetValues(aij->A, 1, &row, 1, &col, v + i * n + j)); 744 } else { 745 if (!aij->colmap) PetscCall(MatCreateColmap_MPIAIJ_Private(mat)); 746 #if defined(PETSC_USE_CTABLE) 747 PetscCall(PetscHMapIGetWithDefault(aij->colmap, idxn[j] + 1, 0, &col)); 748 col--; 749 #else 750 col = aij->colmap[idxn[j]] - 1; 751 #endif 752 if ((col < 0) || (aij->garray[col] != idxn[j])) *(v + i * n + j) = 0.0; 753 else PetscCall(MatGetValues(aij->B, 1, &row, 1, &col, v + i * n + j)); 754 } 755 } 756 } 757 PetscFunctionReturn(PETSC_SUCCESS); 758 } 759 760 static PetscErrorCode MatAssemblyBegin_MPIAIJ(Mat mat, MatAssemblyType mode) 761 { 762 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 763 PetscInt nstash, reallocs; 764 765 PetscFunctionBegin; 766 if (aij->donotstash || mat->nooffprocentries) PetscFunctionReturn(PETSC_SUCCESS); 767 768 PetscCall(MatStashScatterBegin_Private(mat, &mat->stash, mat->rmap->range)); 769 PetscCall(MatStashGetInfo_Private(&mat->stash, &nstash, &reallocs)); 770 PetscCall(PetscInfo(aij->A, "Stash has %" PetscInt_FMT " entries, uses %" PetscInt_FMT " mallocs.\n", nstash, reallocs)); 771 PetscFunctionReturn(PETSC_SUCCESS); 772 } 773 774 PetscErrorCode MatAssemblyEnd_MPIAIJ(Mat mat, MatAssemblyType mode) 775 { 776 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 777 PetscMPIInt n; 778 PetscInt i, j, rstart, ncols, flg; 779 PetscInt *row, *col; 780 PetscBool other_disassembled; 781 PetscScalar *val; 782 783 /* do not use 'b = (Mat_SeqAIJ*)aij->B->data' as B can be reset in disassembly */ 784 785 PetscFunctionBegin; 786 if (!aij->donotstash && !mat->nooffprocentries) { 787 while (1) { 788 PetscCall(MatStashScatterGetMesg_Private(&mat->stash, &n, &row, &col, &val, &flg)); 789 if (!flg) break; 790 791 for (i = 0; i < n;) { 792 /* Now identify the consecutive vals belonging to the same row */ 793 for (j = i, rstart = row[j]; j < n; j++) { 794 if (row[j] != rstart) break; 795 } 796 if (j < n) ncols = j - i; 797 else ncols = n - i; 798 /* Now assemble all these values with a single function call */ 799 PetscCall(MatSetValues_MPIAIJ(mat, 1, row + i, ncols, col + i, val + i, mat->insertmode)); 800 i = j; 801 } 802 } 803 PetscCall(MatStashScatterEnd_Private(&mat->stash)); 804 } 805 #if defined(PETSC_HAVE_DEVICE) 806 if (mat->offloadmask == PETSC_OFFLOAD_CPU) aij->A->offloadmask = PETSC_OFFLOAD_CPU; 807 /* We call MatBindToCPU() on aij->A and aij->B here, because if MatBindToCPU_MPIAIJ() is called before assembly, it cannot bind these. */ 808 if (mat->boundtocpu) { 809 PetscCall(MatBindToCPU(aij->A, PETSC_TRUE)); 810 PetscCall(MatBindToCPU(aij->B, PETSC_TRUE)); 811 } 812 #endif 813 PetscCall(MatAssemblyBegin(aij->A, mode)); 814 PetscCall(MatAssemblyEnd(aij->A, mode)); 815 816 /* determine if any processor has disassembled, if so we must 817 also disassemble ourself, in order that we may reassemble. */ 818 /* 819 if nonzero structure of submatrix B cannot change then we know that 820 no processor disassembled thus we can skip this stuff 821 */ 822 if (!((Mat_SeqAIJ *)aij->B->data)->nonew) { 823 PetscCallMPI(MPIU_Allreduce(&mat->was_assembled, &other_disassembled, 1, MPIU_BOOL, MPI_LAND, PetscObjectComm((PetscObject)mat))); 824 if (mat->was_assembled && !other_disassembled) { /* mat on this rank has reduced off-diag B with local col ids, but globally it does not */ 825 PetscCall(MatDisAssemble_MPIAIJ(mat, PETSC_FALSE)); 826 } 827 } 828 if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) PetscCall(MatSetUpMultiply_MPIAIJ(mat)); 829 PetscCall(MatSetOption(aij->B, MAT_USE_INODES, PETSC_FALSE)); 830 #if defined(PETSC_HAVE_DEVICE) 831 if (mat->offloadmask == PETSC_OFFLOAD_CPU && aij->B->offloadmask != PETSC_OFFLOAD_UNALLOCATED) aij->B->offloadmask = PETSC_OFFLOAD_CPU; 832 #endif 833 PetscCall(MatAssemblyBegin(aij->B, mode)); 834 PetscCall(MatAssemblyEnd(aij->B, mode)); 835 836 PetscCall(PetscFree2(aij->rowvalues, aij->rowindices)); 837 838 aij->rowvalues = NULL; 839 840 PetscCall(VecDestroy(&aij->diag)); 841 842 /* if no new nonzero locations are allowed in matrix then only set the matrix state the first time through */ 843 if ((!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) || !((Mat_SeqAIJ *)aij->A->data)->nonew) { 844 PetscObjectState state = aij->A->nonzerostate + aij->B->nonzerostate; 845 PetscCallMPI(MPIU_Allreduce(&state, &mat->nonzerostate, 1, MPIU_INT64, MPI_SUM, PetscObjectComm((PetscObject)mat))); 846 } 847 #if defined(PETSC_HAVE_DEVICE) 848 mat->offloadmask = PETSC_OFFLOAD_BOTH; 849 #endif 850 PetscFunctionReturn(PETSC_SUCCESS); 851 } 852 853 static PetscErrorCode MatZeroEntries_MPIAIJ(Mat A) 854 { 855 Mat_MPIAIJ *l = (Mat_MPIAIJ *)A->data; 856 857 PetscFunctionBegin; 858 PetscCall(MatZeroEntries(l->A)); 859 PetscCall(MatZeroEntries(l->B)); 860 PetscFunctionReturn(PETSC_SUCCESS); 861 } 862 863 static PetscErrorCode MatZeroRows_MPIAIJ(Mat A, PetscInt N, const PetscInt rows[], PetscScalar diag, Vec x, Vec b) 864 { 865 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)A->data; 866 PetscInt *lrows; 867 PetscInt r, len; 868 PetscBool cong; 869 870 PetscFunctionBegin; 871 /* get locally owned rows */ 872 PetscCall(MatZeroRowsMapLocal_Private(A, N, rows, &len, &lrows)); 873 PetscCall(MatHasCongruentLayouts(A, &cong)); 874 /* fix right-hand side if needed */ 875 if (x && b) { 876 const PetscScalar *xx; 877 PetscScalar *bb; 878 879 PetscCheck(cong, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Need matching row/col layout"); 880 PetscCall(VecGetArrayRead(x, &xx)); 881 PetscCall(VecGetArray(b, &bb)); 882 for (r = 0; r < len; ++r) bb[lrows[r]] = diag * xx[lrows[r]]; 883 PetscCall(VecRestoreArrayRead(x, &xx)); 884 PetscCall(VecRestoreArray(b, &bb)); 885 } 886 887 if (diag != 0.0 && cong) { 888 PetscCall(MatZeroRows(mat->A, len, lrows, diag, NULL, NULL)); 889 PetscCall(MatZeroRows(mat->B, len, lrows, 0.0, NULL, NULL)); 890 } else if (diag != 0.0) { /* non-square or non congruent layouts -> if keepnonzeropattern is false, we allow for new insertion */ 891 Mat_SeqAIJ *aijA = (Mat_SeqAIJ *)mat->A->data; 892 Mat_SeqAIJ *aijB = (Mat_SeqAIJ *)mat->B->data; 893 PetscInt nnwA, nnwB; 894 PetscBool nnzA, nnzB; 895 896 nnwA = aijA->nonew; 897 nnwB = aijB->nonew; 898 nnzA = aijA->keepnonzeropattern; 899 nnzB = aijB->keepnonzeropattern; 900 if (!nnzA) { 901 PetscCall(PetscInfo(mat->A, "Requested to not keep the pattern and add a nonzero diagonal; may encounter reallocations on diagonal block.\n")); 902 aijA->nonew = 0; 903 } 904 if (!nnzB) { 905 PetscCall(PetscInfo(mat->B, "Requested to not keep the pattern and add a nonzero diagonal; may encounter reallocations on off-diagonal block.\n")); 906 aijB->nonew = 0; 907 } 908 /* Must zero here before the next loop */ 909 PetscCall(MatZeroRows(mat->A, len, lrows, 0.0, NULL, NULL)); 910 PetscCall(MatZeroRows(mat->B, len, lrows, 0.0, NULL, NULL)); 911 for (r = 0; r < len; ++r) { 912 const PetscInt row = lrows[r] + A->rmap->rstart; 913 if (row >= A->cmap->N) continue; 914 PetscCall(MatSetValues(A, 1, &row, 1, &row, &diag, INSERT_VALUES)); 915 } 916 aijA->nonew = nnwA; 917 aijB->nonew = nnwB; 918 } else { 919 PetscCall(MatZeroRows(mat->A, len, lrows, 0.0, NULL, NULL)); 920 PetscCall(MatZeroRows(mat->B, len, lrows, 0.0, NULL, NULL)); 921 } 922 PetscCall(PetscFree(lrows)); 923 PetscCall(MatAssemblyBegin(A, MAT_FINAL_ASSEMBLY)); 924 PetscCall(MatAssemblyEnd(A, MAT_FINAL_ASSEMBLY)); 925 926 /* only change matrix nonzero state if pattern was allowed to be changed */ 927 if (!((Mat_SeqAIJ *)mat->A->data)->keepnonzeropattern || !((Mat_SeqAIJ *)mat->A->data)->nonew) { 928 PetscObjectState state = mat->A->nonzerostate + mat->B->nonzerostate; 929 PetscCallMPI(MPIU_Allreduce(&state, &A->nonzerostate, 1, MPIU_INT64, MPI_SUM, PetscObjectComm((PetscObject)A))); 930 } 931 PetscFunctionReturn(PETSC_SUCCESS); 932 } 933 934 static PetscErrorCode MatZeroRowsColumns_MPIAIJ(Mat A, PetscInt N, const PetscInt rows[], PetscScalar diag, Vec x, Vec b) 935 { 936 Mat_MPIAIJ *l = (Mat_MPIAIJ *)A->data; 937 PetscInt n = A->rmap->n; 938 PetscInt i, j, r, m, len = 0; 939 PetscInt *lrows, *owners = A->rmap->range; 940 PetscMPIInt p = 0; 941 PetscSFNode *rrows; 942 PetscSF sf; 943 const PetscScalar *xx; 944 PetscScalar *bb, *mask, *aij_a; 945 Vec xmask, lmask; 946 Mat_SeqAIJ *aij = (Mat_SeqAIJ *)l->B->data; 947 const PetscInt *aj, *ii, *ridx; 948 PetscScalar *aa; 949 950 PetscFunctionBegin; 951 /* Create SF where leaves are input rows and roots are owned rows */ 952 PetscCall(PetscMalloc1(n, &lrows)); 953 for (r = 0; r < n; ++r) lrows[r] = -1; 954 PetscCall(PetscMalloc1(N, &rrows)); 955 for (r = 0; r < N; ++r) { 956 const PetscInt idx = rows[r]; 957 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); 958 if (idx < owners[p] || owners[p + 1] <= idx) { /* short-circuit the search if the last p owns this row too */ 959 PetscCall(PetscLayoutFindOwner(A->rmap, idx, &p)); 960 } 961 rrows[r].rank = p; 962 rrows[r].index = rows[r] - owners[p]; 963 } 964 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)A), &sf)); 965 PetscCall(PetscSFSetGraph(sf, n, N, NULL, PETSC_OWN_POINTER, rrows, PETSC_OWN_POINTER)); 966 /* Collect flags for rows to be zeroed */ 967 PetscCall(PetscSFReduceBegin(sf, MPIU_INT, (PetscInt *)rows, lrows, MPI_LOR)); 968 PetscCall(PetscSFReduceEnd(sf, MPIU_INT, (PetscInt *)rows, lrows, MPI_LOR)); 969 PetscCall(PetscSFDestroy(&sf)); 970 /* Compress and put in row numbers */ 971 for (r = 0; r < n; ++r) 972 if (lrows[r] >= 0) lrows[len++] = r; 973 /* zero diagonal part of matrix */ 974 PetscCall(MatZeroRowsColumns(l->A, len, lrows, diag, x, b)); 975 /* handle off-diagonal part of matrix */ 976 PetscCall(MatCreateVecs(A, &xmask, NULL)); 977 PetscCall(VecDuplicate(l->lvec, &lmask)); 978 PetscCall(VecGetArray(xmask, &bb)); 979 for (i = 0; i < len; i++) bb[lrows[i]] = 1; 980 PetscCall(VecRestoreArray(xmask, &bb)); 981 PetscCall(VecScatterBegin(l->Mvctx, xmask, lmask, ADD_VALUES, SCATTER_FORWARD)); 982 PetscCall(VecScatterEnd(l->Mvctx, xmask, lmask, ADD_VALUES, SCATTER_FORWARD)); 983 PetscCall(VecDestroy(&xmask)); 984 if (x && b) { /* this code is buggy when the row and column layout don't match */ 985 PetscBool cong; 986 987 PetscCall(MatHasCongruentLayouts(A, &cong)); 988 PetscCheck(cong, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Need matching row/col layout"); 989 PetscCall(VecScatterBegin(l->Mvctx, x, l->lvec, INSERT_VALUES, SCATTER_FORWARD)); 990 PetscCall(VecScatterEnd(l->Mvctx, x, l->lvec, INSERT_VALUES, SCATTER_FORWARD)); 991 PetscCall(VecGetArrayRead(l->lvec, &xx)); 992 PetscCall(VecGetArray(b, &bb)); 993 } 994 PetscCall(VecGetArray(lmask, &mask)); 995 /* remove zeroed rows of off-diagonal matrix */ 996 PetscCall(MatSeqAIJGetArray(l->B, &aij_a)); 997 ii = aij->i; 998 for (i = 0; i < len; i++) PetscCall(PetscArrayzero(PetscSafePointerPlusOffset(aij_a, ii[lrows[i]]), ii[lrows[i] + 1] - ii[lrows[i]])); 999 /* loop over all elements of off process part of matrix zeroing removed columns*/ 1000 if (aij->compressedrow.use) { 1001 m = aij->compressedrow.nrows; 1002 ii = aij->compressedrow.i; 1003 ridx = aij->compressedrow.rindex; 1004 for (i = 0; i < m; i++) { 1005 n = ii[i + 1] - ii[i]; 1006 aj = aij->j + ii[i]; 1007 aa = aij_a + ii[i]; 1008 1009 for (j = 0; j < n; j++) { 1010 if (PetscAbsScalar(mask[*aj])) { 1011 if (b) bb[*ridx] -= *aa * xx[*aj]; 1012 *aa = 0.0; 1013 } 1014 aa++; 1015 aj++; 1016 } 1017 ridx++; 1018 } 1019 } else { /* do not use compressed row format */ 1020 m = l->B->rmap->n; 1021 for (i = 0; i < m; i++) { 1022 n = ii[i + 1] - ii[i]; 1023 aj = aij->j + ii[i]; 1024 aa = aij_a + ii[i]; 1025 for (j = 0; j < n; j++) { 1026 if (PetscAbsScalar(mask[*aj])) { 1027 if (b) bb[i] -= *aa * xx[*aj]; 1028 *aa = 0.0; 1029 } 1030 aa++; 1031 aj++; 1032 } 1033 } 1034 } 1035 if (x && b) { 1036 PetscCall(VecRestoreArray(b, &bb)); 1037 PetscCall(VecRestoreArrayRead(l->lvec, &xx)); 1038 } 1039 PetscCall(MatSeqAIJRestoreArray(l->B, &aij_a)); 1040 PetscCall(VecRestoreArray(lmask, &mask)); 1041 PetscCall(VecDestroy(&lmask)); 1042 PetscCall(PetscFree(lrows)); 1043 1044 /* only change matrix nonzero state if pattern was allowed to be changed */ 1045 if (!((Mat_SeqAIJ *)l->A->data)->nonew) { 1046 PetscObjectState state = l->A->nonzerostate + l->B->nonzerostate; 1047 PetscCallMPI(MPIU_Allreduce(&state, &A->nonzerostate, 1, MPIU_INT64, MPI_SUM, PetscObjectComm((PetscObject)A))); 1048 } 1049 PetscFunctionReturn(PETSC_SUCCESS); 1050 } 1051 1052 static PetscErrorCode MatMult_MPIAIJ(Mat A, Vec xx, Vec yy) 1053 { 1054 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1055 PetscInt nt; 1056 VecScatter Mvctx = a->Mvctx; 1057 1058 PetscFunctionBegin; 1059 PetscCall(VecGetLocalSize(xx, &nt)); 1060 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); 1061 PetscCall(VecScatterBegin(Mvctx, xx, a->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1062 PetscUseTypeMethod(a->A, mult, xx, yy); 1063 PetscCall(VecScatterEnd(Mvctx, xx, a->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1064 PetscUseTypeMethod(a->B, multadd, a->lvec, yy, yy); 1065 PetscFunctionReturn(PETSC_SUCCESS); 1066 } 1067 1068 static PetscErrorCode MatMultDiagonalBlock_MPIAIJ(Mat A, Vec bb, Vec xx) 1069 { 1070 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1071 1072 PetscFunctionBegin; 1073 PetscCall(MatMultDiagonalBlock(a->A, bb, xx)); 1074 PetscFunctionReturn(PETSC_SUCCESS); 1075 } 1076 1077 static PetscErrorCode MatMultAdd_MPIAIJ(Mat A, Vec xx, Vec yy, Vec zz) 1078 { 1079 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1080 VecScatter Mvctx = a->Mvctx; 1081 1082 PetscFunctionBegin; 1083 PetscCall(VecScatterBegin(Mvctx, xx, a->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1084 PetscCall((*a->A->ops->multadd)(a->A, xx, yy, zz)); 1085 PetscCall(VecScatterEnd(Mvctx, xx, a->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1086 PetscCall((*a->B->ops->multadd)(a->B, a->lvec, zz, zz)); 1087 PetscFunctionReturn(PETSC_SUCCESS); 1088 } 1089 1090 static PetscErrorCode MatMultTranspose_MPIAIJ(Mat A, Vec xx, Vec yy) 1091 { 1092 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1093 1094 PetscFunctionBegin; 1095 /* do nondiagonal part */ 1096 PetscCall((*a->B->ops->multtranspose)(a->B, xx, a->lvec)); 1097 /* do local part */ 1098 PetscCall((*a->A->ops->multtranspose)(a->A, xx, yy)); 1099 /* add partial results together */ 1100 PetscCall(VecScatterBegin(a->Mvctx, a->lvec, yy, ADD_VALUES, SCATTER_REVERSE)); 1101 PetscCall(VecScatterEnd(a->Mvctx, a->lvec, yy, ADD_VALUES, SCATTER_REVERSE)); 1102 PetscFunctionReturn(PETSC_SUCCESS); 1103 } 1104 1105 static PetscErrorCode MatIsTranspose_MPIAIJ(Mat Amat, Mat Bmat, PetscReal tol, PetscBool *f) 1106 { 1107 MPI_Comm comm; 1108 Mat_MPIAIJ *Aij = (Mat_MPIAIJ *)Amat->data, *Bij = (Mat_MPIAIJ *)Bmat->data; 1109 Mat Adia = Aij->A, Bdia = Bij->A, Aoff, Boff, *Aoffs, *Boffs; 1110 IS Me, Notme; 1111 PetscInt M, N, first, last, *notme, i; 1112 PetscBool lf; 1113 PetscMPIInt size; 1114 1115 PetscFunctionBegin; 1116 /* Easy test: symmetric diagonal block */ 1117 PetscCall(MatIsTranspose(Adia, Bdia, tol, &lf)); 1118 PetscCallMPI(MPIU_Allreduce(&lf, f, 1, MPIU_BOOL, MPI_LAND, PetscObjectComm((PetscObject)Amat))); 1119 if (!*f) PetscFunctionReturn(PETSC_SUCCESS); 1120 PetscCall(PetscObjectGetComm((PetscObject)Amat, &comm)); 1121 PetscCallMPI(MPI_Comm_size(comm, &size)); 1122 if (size == 1) PetscFunctionReturn(PETSC_SUCCESS); 1123 1124 /* Hard test: off-diagonal block. This takes a MatCreateSubMatrix. */ 1125 PetscCall(MatGetSize(Amat, &M, &N)); 1126 PetscCall(MatGetOwnershipRange(Amat, &first, &last)); 1127 PetscCall(PetscMalloc1(N - last + first, ¬me)); 1128 for (i = 0; i < first; i++) notme[i] = i; 1129 for (i = last; i < M; i++) notme[i - last + first] = i; 1130 PetscCall(ISCreateGeneral(MPI_COMM_SELF, N - last + first, notme, PETSC_COPY_VALUES, &Notme)); 1131 PetscCall(ISCreateStride(MPI_COMM_SELF, last - first, first, 1, &Me)); 1132 PetscCall(MatCreateSubMatrices(Amat, 1, &Me, &Notme, MAT_INITIAL_MATRIX, &Aoffs)); 1133 Aoff = Aoffs[0]; 1134 PetscCall(MatCreateSubMatrices(Bmat, 1, &Notme, &Me, MAT_INITIAL_MATRIX, &Boffs)); 1135 Boff = Boffs[0]; 1136 PetscCall(MatIsTranspose(Aoff, Boff, tol, f)); 1137 PetscCall(MatDestroyMatrices(1, &Aoffs)); 1138 PetscCall(MatDestroyMatrices(1, &Boffs)); 1139 PetscCall(ISDestroy(&Me)); 1140 PetscCall(ISDestroy(&Notme)); 1141 PetscCall(PetscFree(notme)); 1142 PetscFunctionReturn(PETSC_SUCCESS); 1143 } 1144 1145 static PetscErrorCode MatMultTransposeAdd_MPIAIJ(Mat A, Vec xx, Vec yy, Vec zz) 1146 { 1147 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1148 1149 PetscFunctionBegin; 1150 /* do nondiagonal part */ 1151 PetscCall((*a->B->ops->multtranspose)(a->B, xx, a->lvec)); 1152 /* do local part */ 1153 PetscCall((*a->A->ops->multtransposeadd)(a->A, xx, yy, zz)); 1154 /* add partial results together */ 1155 PetscCall(VecScatterBegin(a->Mvctx, a->lvec, zz, ADD_VALUES, SCATTER_REVERSE)); 1156 PetscCall(VecScatterEnd(a->Mvctx, a->lvec, zz, ADD_VALUES, SCATTER_REVERSE)); 1157 PetscFunctionReturn(PETSC_SUCCESS); 1158 } 1159 1160 /* 1161 This only works correctly for square matrices where the subblock A->A is the 1162 diagonal block 1163 */ 1164 static PetscErrorCode MatGetDiagonal_MPIAIJ(Mat A, Vec v) 1165 { 1166 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1167 1168 PetscFunctionBegin; 1169 PetscCheck(A->rmap->N == A->cmap->N, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Supports only square matrix where A->A is diag block"); 1170 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"); 1171 PetscCall(MatGetDiagonal(a->A, v)); 1172 PetscFunctionReturn(PETSC_SUCCESS); 1173 } 1174 1175 static PetscErrorCode MatScale_MPIAIJ(Mat A, PetscScalar aa) 1176 { 1177 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1178 1179 PetscFunctionBegin; 1180 PetscCall(MatScale(a->A, aa)); 1181 PetscCall(MatScale(a->B, aa)); 1182 PetscFunctionReturn(PETSC_SUCCESS); 1183 } 1184 1185 static PetscErrorCode MatView_MPIAIJ_Binary(Mat mat, PetscViewer viewer) 1186 { 1187 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1188 Mat_SeqAIJ *A = (Mat_SeqAIJ *)aij->A->data; 1189 Mat_SeqAIJ *B = (Mat_SeqAIJ *)aij->B->data; 1190 const PetscInt *garray = aij->garray; 1191 const PetscScalar *aa, *ba; 1192 PetscInt header[4], M, N, m, rs, cs, cnt, i, ja, jb; 1193 PetscInt64 nz, hnz; 1194 PetscInt *rowlens; 1195 PetscInt *colidxs; 1196 PetscScalar *matvals; 1197 PetscMPIInt rank; 1198 1199 PetscFunctionBegin; 1200 PetscCall(PetscViewerSetUp(viewer)); 1201 1202 M = mat->rmap->N; 1203 N = mat->cmap->N; 1204 m = mat->rmap->n; 1205 rs = mat->rmap->rstart; 1206 cs = mat->cmap->rstart; 1207 nz = A->nz + B->nz; 1208 1209 /* write matrix header */ 1210 header[0] = MAT_FILE_CLASSID; 1211 header[1] = M; 1212 header[2] = N; 1213 PetscCallMPI(MPI_Reduce(&nz, &hnz, 1, MPIU_INT64, MPI_SUM, 0, PetscObjectComm((PetscObject)mat))); 1214 PetscCallMPI(MPI_Comm_rank(PetscObjectComm((PetscObject)mat), &rank)); 1215 if (rank == 0) PetscCall(PetscIntCast(hnz, &header[3])); 1216 PetscCall(PetscViewerBinaryWrite(viewer, header, 4, PETSC_INT)); 1217 1218 /* fill in and store row lengths */ 1219 PetscCall(PetscMalloc1(m, &rowlens)); 1220 for (i = 0; i < m; i++) rowlens[i] = A->i[i + 1] - A->i[i] + B->i[i + 1] - B->i[i]; 1221 PetscCall(PetscViewerBinaryWriteAll(viewer, rowlens, m, rs, M, PETSC_INT)); 1222 PetscCall(PetscFree(rowlens)); 1223 1224 /* fill in and store column indices */ 1225 PetscCall(PetscMalloc1(nz, &colidxs)); 1226 for (cnt = 0, i = 0; i < m; i++) { 1227 for (jb = B->i[i]; jb < B->i[i + 1]; jb++) { 1228 if (garray[B->j[jb]] > cs) break; 1229 colidxs[cnt++] = garray[B->j[jb]]; 1230 } 1231 for (ja = A->i[i]; ja < A->i[i + 1]; ja++) colidxs[cnt++] = A->j[ja] + cs; 1232 for (; jb < B->i[i + 1]; jb++) colidxs[cnt++] = garray[B->j[jb]]; 1233 } 1234 PetscCheck(cnt == nz, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Internal PETSc error: cnt = %" PetscInt_FMT " nz = %" PetscInt64_FMT, cnt, nz); 1235 PetscCall(PetscViewerBinaryWriteAll(viewer, colidxs, nz, PETSC_DETERMINE, PETSC_DETERMINE, PETSC_INT)); 1236 PetscCall(PetscFree(colidxs)); 1237 1238 /* fill in and store nonzero values */ 1239 PetscCall(MatSeqAIJGetArrayRead(aij->A, &aa)); 1240 PetscCall(MatSeqAIJGetArrayRead(aij->B, &ba)); 1241 PetscCall(PetscMalloc1(nz, &matvals)); 1242 for (cnt = 0, i = 0; i < m; i++) { 1243 for (jb = B->i[i]; jb < B->i[i + 1]; jb++) { 1244 if (garray[B->j[jb]] > cs) break; 1245 matvals[cnt++] = ba[jb]; 1246 } 1247 for (ja = A->i[i]; ja < A->i[i + 1]; ja++) matvals[cnt++] = aa[ja]; 1248 for (; jb < B->i[i + 1]; jb++) matvals[cnt++] = ba[jb]; 1249 } 1250 PetscCall(MatSeqAIJRestoreArrayRead(aij->A, &aa)); 1251 PetscCall(MatSeqAIJRestoreArrayRead(aij->B, &ba)); 1252 PetscCheck(cnt == nz, PETSC_COMM_SELF, PETSC_ERR_LIB, "Internal PETSc error: cnt = %" PetscInt_FMT " nz = %" PetscInt64_FMT, cnt, nz); 1253 PetscCall(PetscViewerBinaryWriteAll(viewer, matvals, nz, PETSC_DETERMINE, PETSC_DETERMINE, PETSC_SCALAR)); 1254 PetscCall(PetscFree(matvals)); 1255 1256 /* write block size option to the viewer's .info file */ 1257 PetscCall(MatView_Binary_BlockSizes(mat, viewer)); 1258 PetscFunctionReturn(PETSC_SUCCESS); 1259 } 1260 1261 #include <petscdraw.h> 1262 static PetscErrorCode MatView_MPIAIJ_ASCIIorDraworSocket(Mat mat, PetscViewer viewer) 1263 { 1264 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1265 PetscMPIInt rank = aij->rank, size = aij->size; 1266 PetscBool isdraw, iascii, isbinary; 1267 PetscViewer sviewer; 1268 PetscViewerFormat format; 1269 1270 PetscFunctionBegin; 1271 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERDRAW, &isdraw)); 1272 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERASCII, &iascii)); 1273 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERBINARY, &isbinary)); 1274 if (iascii) { 1275 PetscCall(PetscViewerGetFormat(viewer, &format)); 1276 if (format == PETSC_VIEWER_LOAD_BALANCE) { 1277 PetscInt i, nmax = 0, nmin = PETSC_INT_MAX, navg = 0, *nz, nzlocal = ((Mat_SeqAIJ *)aij->A->data)->nz + ((Mat_SeqAIJ *)aij->B->data)->nz; 1278 PetscCall(PetscMalloc1(size, &nz)); 1279 PetscCallMPI(MPI_Allgather(&nzlocal, 1, MPIU_INT, nz, 1, MPIU_INT, PetscObjectComm((PetscObject)mat))); 1280 for (i = 0; i < size; i++) { 1281 nmax = PetscMax(nmax, nz[i]); 1282 nmin = PetscMin(nmin, nz[i]); 1283 navg += nz[i]; 1284 } 1285 PetscCall(PetscFree(nz)); 1286 navg = navg / size; 1287 PetscCall(PetscViewerASCIIPrintf(viewer, "Load Balance - Nonzeros: Min %" PetscInt_FMT " avg %" PetscInt_FMT " max %" PetscInt_FMT "\n", nmin, navg, nmax)); 1288 PetscFunctionReturn(PETSC_SUCCESS); 1289 } 1290 PetscCall(PetscViewerGetFormat(viewer, &format)); 1291 if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) { 1292 MatInfo info; 1293 PetscInt *inodes = NULL; 1294 1295 PetscCallMPI(MPI_Comm_rank(PetscObjectComm((PetscObject)mat), &rank)); 1296 PetscCall(MatGetInfo(mat, MAT_LOCAL, &info)); 1297 PetscCall(MatInodeGetInodeSizes(aij->A, NULL, &inodes, NULL)); 1298 PetscCall(PetscViewerASCIIPushSynchronized(viewer)); 1299 if (!inodes) { 1300 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, 1301 info.memory)); 1302 } else { 1303 PetscCall( 1304 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, info.memory)); 1305 } 1306 PetscCall(MatGetInfo(aij->A, MAT_LOCAL, &info)); 1307 PetscCall(PetscViewerASCIISynchronizedPrintf(viewer, "[%d] on-diagonal part: nz %" PetscInt_FMT " \n", rank, (PetscInt)info.nz_used)); 1308 PetscCall(MatGetInfo(aij->B, MAT_LOCAL, &info)); 1309 PetscCall(PetscViewerASCIISynchronizedPrintf(viewer, "[%d] off-diagonal part: nz %" PetscInt_FMT " \n", rank, (PetscInt)info.nz_used)); 1310 PetscCall(PetscViewerFlush(viewer)); 1311 PetscCall(PetscViewerASCIIPopSynchronized(viewer)); 1312 PetscCall(PetscViewerASCIIPrintf(viewer, "Information on VecScatter used in matrix-vector product: \n")); 1313 PetscCall(VecScatterView(aij->Mvctx, viewer)); 1314 PetscFunctionReturn(PETSC_SUCCESS); 1315 } else if (format == PETSC_VIEWER_ASCII_INFO) { 1316 PetscInt inodecount, inodelimit, *inodes; 1317 PetscCall(MatInodeGetInodeSizes(aij->A, &inodecount, &inodes, &inodelimit)); 1318 if (inodes) { 1319 PetscCall(PetscViewerASCIIPrintf(viewer, "using I-node (on process 0) routines: found %" PetscInt_FMT " nodes, limit used is %" PetscInt_FMT "\n", inodecount, inodelimit)); 1320 } else { 1321 PetscCall(PetscViewerASCIIPrintf(viewer, "not using I-node (on process 0) routines\n")); 1322 } 1323 PetscFunctionReturn(PETSC_SUCCESS); 1324 } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) { 1325 PetscFunctionReturn(PETSC_SUCCESS); 1326 } 1327 } else if (isbinary) { 1328 if (size == 1) { 1329 PetscCall(PetscObjectSetName((PetscObject)aij->A, ((PetscObject)mat)->name)); 1330 PetscCall(MatView(aij->A, viewer)); 1331 } else { 1332 PetscCall(MatView_MPIAIJ_Binary(mat, viewer)); 1333 } 1334 PetscFunctionReturn(PETSC_SUCCESS); 1335 } else if (iascii && size == 1) { 1336 PetscCall(PetscObjectSetName((PetscObject)aij->A, ((PetscObject)mat)->name)); 1337 PetscCall(MatView(aij->A, viewer)); 1338 PetscFunctionReturn(PETSC_SUCCESS); 1339 } else if (isdraw) { 1340 PetscDraw draw; 1341 PetscBool isnull; 1342 PetscCall(PetscViewerDrawGetDraw(viewer, 0, &draw)); 1343 PetscCall(PetscDrawIsNull(draw, &isnull)); 1344 if (isnull) PetscFunctionReturn(PETSC_SUCCESS); 1345 } 1346 1347 { /* assemble the entire matrix onto first processor */ 1348 Mat A = NULL, Av; 1349 IS isrow, iscol; 1350 1351 PetscCall(ISCreateStride(PetscObjectComm((PetscObject)mat), rank == 0 ? mat->rmap->N : 0, 0, 1, &isrow)); 1352 PetscCall(ISCreateStride(PetscObjectComm((PetscObject)mat), rank == 0 ? mat->cmap->N : 0, 0, 1, &iscol)); 1353 PetscCall(MatCreateSubMatrix(mat, isrow, iscol, MAT_INITIAL_MATRIX, &A)); 1354 PetscCall(MatMPIAIJGetSeqAIJ(A, &Av, NULL, NULL)); 1355 /* The commented code uses MatCreateSubMatrices instead */ 1356 /* 1357 Mat *AA, A = NULL, Av; 1358 IS isrow,iscol; 1359 1360 PetscCall(ISCreateStride(PetscObjectComm((PetscObject)mat),rank == 0 ? mat->rmap->N : 0,0,1,&isrow)); 1361 PetscCall(ISCreateStride(PetscObjectComm((PetscObject)mat),rank == 0 ? mat->cmap->N : 0,0,1,&iscol)); 1362 PetscCall(MatCreateSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&AA)); 1363 if (rank == 0) { 1364 PetscCall(PetscObjectReference((PetscObject)AA[0])); 1365 A = AA[0]; 1366 Av = AA[0]; 1367 } 1368 PetscCall(MatDestroySubMatrices(1,&AA)); 1369 */ 1370 PetscCall(ISDestroy(&iscol)); 1371 PetscCall(ISDestroy(&isrow)); 1372 /* 1373 Everyone has to call to draw the matrix since the graphics waits are 1374 synchronized across all processors that share the PetscDraw object 1375 */ 1376 PetscCall(PetscViewerGetSubViewer(viewer, PETSC_COMM_SELF, &sviewer)); 1377 if (rank == 0) { 1378 if (((PetscObject)mat)->name) PetscCall(PetscObjectSetName((PetscObject)Av, ((PetscObject)mat)->name)); 1379 PetscCall(MatView_SeqAIJ(Av, sviewer)); 1380 } 1381 PetscCall(PetscViewerRestoreSubViewer(viewer, PETSC_COMM_SELF, &sviewer)); 1382 PetscCall(MatDestroy(&A)); 1383 } 1384 PetscFunctionReturn(PETSC_SUCCESS); 1385 } 1386 1387 PetscErrorCode MatView_MPIAIJ(Mat mat, PetscViewer viewer) 1388 { 1389 PetscBool iascii, isdraw, issocket, isbinary; 1390 1391 PetscFunctionBegin; 1392 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERASCII, &iascii)); 1393 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERDRAW, &isdraw)); 1394 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERBINARY, &isbinary)); 1395 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERSOCKET, &issocket)); 1396 if (iascii || isdraw || isbinary || issocket) PetscCall(MatView_MPIAIJ_ASCIIorDraworSocket(mat, viewer)); 1397 PetscFunctionReturn(PETSC_SUCCESS); 1398 } 1399 1400 static PetscErrorCode MatSOR_MPIAIJ(Mat matin, Vec bb, PetscReal omega, MatSORType flag, PetscReal fshift, PetscInt its, PetscInt lits, Vec xx) 1401 { 1402 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)matin->data; 1403 Vec bb1 = NULL; 1404 PetscBool hasop; 1405 1406 PetscFunctionBegin; 1407 if (flag == SOR_APPLY_UPPER) { 1408 PetscCall((*mat->A->ops->sor)(mat->A, bb, omega, flag, fshift, lits, 1, xx)); 1409 PetscFunctionReturn(PETSC_SUCCESS); 1410 } 1411 1412 if (its > 1 || ~flag & SOR_ZERO_INITIAL_GUESS || flag & SOR_EISENSTAT) PetscCall(VecDuplicate(bb, &bb1)); 1413 1414 if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP) { 1415 if (flag & SOR_ZERO_INITIAL_GUESS) { 1416 PetscCall((*mat->A->ops->sor)(mat->A, bb, omega, flag, fshift, lits, 1, xx)); 1417 its--; 1418 } 1419 1420 while (its--) { 1421 PetscCall(VecScatterBegin(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1422 PetscCall(VecScatterEnd(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1423 1424 /* update rhs: bb1 = bb - B*x */ 1425 PetscCall(VecScale(mat->lvec, -1.0)); 1426 PetscCall((*mat->B->ops->multadd)(mat->B, mat->lvec, bb, bb1)); 1427 1428 /* local sweep */ 1429 PetscCall((*mat->A->ops->sor)(mat->A, bb1, omega, SOR_SYMMETRIC_SWEEP, fshift, lits, 1, xx)); 1430 } 1431 } else if (flag & SOR_LOCAL_FORWARD_SWEEP) { 1432 if (flag & SOR_ZERO_INITIAL_GUESS) { 1433 PetscCall((*mat->A->ops->sor)(mat->A, bb, omega, flag, fshift, lits, 1, xx)); 1434 its--; 1435 } 1436 while (its--) { 1437 PetscCall(VecScatterBegin(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1438 PetscCall(VecScatterEnd(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1439 1440 /* update rhs: bb1 = bb - B*x */ 1441 PetscCall(VecScale(mat->lvec, -1.0)); 1442 PetscCall((*mat->B->ops->multadd)(mat->B, mat->lvec, bb, bb1)); 1443 1444 /* local sweep */ 1445 PetscCall((*mat->A->ops->sor)(mat->A, bb1, omega, SOR_FORWARD_SWEEP, fshift, lits, 1, xx)); 1446 } 1447 } else if (flag & SOR_LOCAL_BACKWARD_SWEEP) { 1448 if (flag & SOR_ZERO_INITIAL_GUESS) { 1449 PetscCall((*mat->A->ops->sor)(mat->A, bb, omega, flag, fshift, lits, 1, xx)); 1450 its--; 1451 } 1452 while (its--) { 1453 PetscCall(VecScatterBegin(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1454 PetscCall(VecScatterEnd(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1455 1456 /* update rhs: bb1 = bb - B*x */ 1457 PetscCall(VecScale(mat->lvec, -1.0)); 1458 PetscCall((*mat->B->ops->multadd)(mat->B, mat->lvec, bb, bb1)); 1459 1460 /* local sweep */ 1461 PetscCall((*mat->A->ops->sor)(mat->A, bb1, omega, SOR_BACKWARD_SWEEP, fshift, lits, 1, xx)); 1462 } 1463 } else if (flag & SOR_EISENSTAT) { 1464 Vec xx1; 1465 1466 PetscCall(VecDuplicate(bb, &xx1)); 1467 PetscCall((*mat->A->ops->sor)(mat->A, bb, omega, (MatSORType)(SOR_ZERO_INITIAL_GUESS | SOR_LOCAL_BACKWARD_SWEEP), fshift, lits, 1, xx)); 1468 1469 PetscCall(VecScatterBegin(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1470 PetscCall(VecScatterEnd(mat->Mvctx, xx, mat->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1471 if (!mat->diag) { 1472 PetscCall(MatCreateVecs(matin, &mat->diag, NULL)); 1473 PetscCall(MatGetDiagonal(matin, mat->diag)); 1474 } 1475 PetscCall(MatHasOperation(matin, MATOP_MULT_DIAGONAL_BLOCK, &hasop)); 1476 if (hasop) { 1477 PetscCall(MatMultDiagonalBlock(matin, xx, bb1)); 1478 } else { 1479 PetscCall(VecPointwiseMult(bb1, mat->diag, xx)); 1480 } 1481 PetscCall(VecAYPX(bb1, (omega - 2.0) / omega, bb)); 1482 1483 PetscCall(MatMultAdd(mat->B, mat->lvec, bb1, bb1)); 1484 1485 /* local sweep */ 1486 PetscCall((*mat->A->ops->sor)(mat->A, bb1, omega, (MatSORType)(SOR_ZERO_INITIAL_GUESS | SOR_LOCAL_FORWARD_SWEEP), fshift, lits, 1, xx1)); 1487 PetscCall(VecAXPY(xx, 1.0, xx1)); 1488 PetscCall(VecDestroy(&xx1)); 1489 } else SETERRQ(PetscObjectComm((PetscObject)matin), PETSC_ERR_SUP, "Parallel SOR not supported"); 1490 1491 PetscCall(VecDestroy(&bb1)); 1492 1493 matin->factorerrortype = mat->A->factorerrortype; 1494 PetscFunctionReturn(PETSC_SUCCESS); 1495 } 1496 1497 static PetscErrorCode MatPermute_MPIAIJ(Mat A, IS rowp, IS colp, Mat *B) 1498 { 1499 Mat aA, aB, Aperm; 1500 const PetscInt *rwant, *cwant, *gcols, *ai, *bi, *aj, *bj; 1501 PetscScalar *aa, *ba; 1502 PetscInt i, j, m, n, ng, anz, bnz, *dnnz, *onnz, *tdnnz, *tonnz, *rdest, *cdest, *work, *gcdest; 1503 PetscSF rowsf, sf; 1504 IS parcolp = NULL; 1505 PetscBool done; 1506 1507 PetscFunctionBegin; 1508 PetscCall(MatGetLocalSize(A, &m, &n)); 1509 PetscCall(ISGetIndices(rowp, &rwant)); 1510 PetscCall(ISGetIndices(colp, &cwant)); 1511 PetscCall(PetscMalloc3(PetscMax(m, n), &work, m, &rdest, n, &cdest)); 1512 1513 /* Invert row permutation to find out where my rows should go */ 1514 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)A), &rowsf)); 1515 PetscCall(PetscSFSetGraphLayout(rowsf, A->rmap, A->rmap->n, NULL, PETSC_OWN_POINTER, rwant)); 1516 PetscCall(PetscSFSetFromOptions(rowsf)); 1517 for (i = 0; i < m; i++) work[i] = A->rmap->rstart + i; 1518 PetscCall(PetscSFReduceBegin(rowsf, MPIU_INT, work, rdest, MPI_REPLACE)); 1519 PetscCall(PetscSFReduceEnd(rowsf, MPIU_INT, work, rdest, MPI_REPLACE)); 1520 1521 /* Invert column permutation to find out where my columns should go */ 1522 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)A), &sf)); 1523 PetscCall(PetscSFSetGraphLayout(sf, A->cmap, A->cmap->n, NULL, PETSC_OWN_POINTER, cwant)); 1524 PetscCall(PetscSFSetFromOptions(sf)); 1525 for (i = 0; i < n; i++) work[i] = A->cmap->rstart + i; 1526 PetscCall(PetscSFReduceBegin(sf, MPIU_INT, work, cdest, MPI_REPLACE)); 1527 PetscCall(PetscSFReduceEnd(sf, MPIU_INT, work, cdest, MPI_REPLACE)); 1528 PetscCall(PetscSFDestroy(&sf)); 1529 1530 PetscCall(ISRestoreIndices(rowp, &rwant)); 1531 PetscCall(ISRestoreIndices(colp, &cwant)); 1532 PetscCall(MatMPIAIJGetSeqAIJ(A, &aA, &aB, &gcols)); 1533 1534 /* Find out where my gcols should go */ 1535 PetscCall(MatGetSize(aB, NULL, &ng)); 1536 PetscCall(PetscMalloc1(ng, &gcdest)); 1537 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)A), &sf)); 1538 PetscCall(PetscSFSetGraphLayout(sf, A->cmap, ng, NULL, PETSC_OWN_POINTER, gcols)); 1539 PetscCall(PetscSFSetFromOptions(sf)); 1540 PetscCall(PetscSFBcastBegin(sf, MPIU_INT, cdest, gcdest, MPI_REPLACE)); 1541 PetscCall(PetscSFBcastEnd(sf, MPIU_INT, cdest, gcdest, MPI_REPLACE)); 1542 PetscCall(PetscSFDestroy(&sf)); 1543 1544 PetscCall(PetscCalloc4(m, &dnnz, m, &onnz, m, &tdnnz, m, &tonnz)); 1545 PetscCall(MatGetRowIJ(aA, 0, PETSC_FALSE, PETSC_FALSE, &anz, &ai, &aj, &done)); 1546 PetscCall(MatGetRowIJ(aB, 0, PETSC_FALSE, PETSC_FALSE, &bnz, &bi, &bj, &done)); 1547 for (i = 0; i < m; i++) { 1548 PetscInt row = rdest[i]; 1549 PetscMPIInt rowner; 1550 PetscCall(PetscLayoutFindOwner(A->rmap, row, &rowner)); 1551 for (j = ai[i]; j < ai[i + 1]; j++) { 1552 PetscInt col = cdest[aj[j]]; 1553 PetscMPIInt cowner; 1554 PetscCall(PetscLayoutFindOwner(A->cmap, col, &cowner)); /* Could build an index for the columns to eliminate this search */ 1555 if (rowner == cowner) dnnz[i]++; 1556 else onnz[i]++; 1557 } 1558 for (j = bi[i]; j < bi[i + 1]; j++) { 1559 PetscInt col = gcdest[bj[j]]; 1560 PetscMPIInt cowner; 1561 PetscCall(PetscLayoutFindOwner(A->cmap, col, &cowner)); 1562 if (rowner == cowner) dnnz[i]++; 1563 else onnz[i]++; 1564 } 1565 } 1566 PetscCall(PetscSFBcastBegin(rowsf, MPIU_INT, dnnz, tdnnz, MPI_REPLACE)); 1567 PetscCall(PetscSFBcastEnd(rowsf, MPIU_INT, dnnz, tdnnz, MPI_REPLACE)); 1568 PetscCall(PetscSFBcastBegin(rowsf, MPIU_INT, onnz, tonnz, MPI_REPLACE)); 1569 PetscCall(PetscSFBcastEnd(rowsf, MPIU_INT, onnz, tonnz, MPI_REPLACE)); 1570 PetscCall(PetscSFDestroy(&rowsf)); 1571 1572 PetscCall(MatCreateAIJ(PetscObjectComm((PetscObject)A), A->rmap->n, A->cmap->n, A->rmap->N, A->cmap->N, 0, tdnnz, 0, tonnz, &Aperm)); 1573 PetscCall(MatSeqAIJGetArray(aA, &aa)); 1574 PetscCall(MatSeqAIJGetArray(aB, &ba)); 1575 for (i = 0; i < m; i++) { 1576 PetscInt *acols = dnnz, *bcols = onnz; /* Repurpose now-unneeded arrays */ 1577 PetscInt j0, rowlen; 1578 rowlen = ai[i + 1] - ai[i]; 1579 for (j0 = j = 0; j < rowlen; j0 = j) { /* rowlen could be larger than number of rows m, so sum in batches */ 1580 for (; j < PetscMin(rowlen, j0 + m); j++) acols[j - j0] = cdest[aj[ai[i] + j]]; 1581 PetscCall(MatSetValues(Aperm, 1, &rdest[i], j - j0, acols, aa + ai[i] + j0, INSERT_VALUES)); 1582 } 1583 rowlen = bi[i + 1] - bi[i]; 1584 for (j0 = j = 0; j < rowlen; j0 = j) { 1585 for (; j < PetscMin(rowlen, j0 + m); j++) bcols[j - j0] = gcdest[bj[bi[i] + j]]; 1586 PetscCall(MatSetValues(Aperm, 1, &rdest[i], j - j0, bcols, ba + bi[i] + j0, INSERT_VALUES)); 1587 } 1588 } 1589 PetscCall(MatAssemblyBegin(Aperm, MAT_FINAL_ASSEMBLY)); 1590 PetscCall(MatAssemblyEnd(Aperm, MAT_FINAL_ASSEMBLY)); 1591 PetscCall(MatRestoreRowIJ(aA, 0, PETSC_FALSE, PETSC_FALSE, &anz, &ai, &aj, &done)); 1592 PetscCall(MatRestoreRowIJ(aB, 0, PETSC_FALSE, PETSC_FALSE, &bnz, &bi, &bj, &done)); 1593 PetscCall(MatSeqAIJRestoreArray(aA, &aa)); 1594 PetscCall(MatSeqAIJRestoreArray(aB, &ba)); 1595 PetscCall(PetscFree4(dnnz, onnz, tdnnz, tonnz)); 1596 PetscCall(PetscFree3(work, rdest, cdest)); 1597 PetscCall(PetscFree(gcdest)); 1598 if (parcolp) PetscCall(ISDestroy(&colp)); 1599 *B = Aperm; 1600 PetscFunctionReturn(PETSC_SUCCESS); 1601 } 1602 1603 static PetscErrorCode MatGetGhosts_MPIAIJ(Mat mat, PetscInt *nghosts, const PetscInt *ghosts[]) 1604 { 1605 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1606 1607 PetscFunctionBegin; 1608 PetscCall(MatGetSize(aij->B, NULL, nghosts)); 1609 if (ghosts) *ghosts = aij->garray; 1610 PetscFunctionReturn(PETSC_SUCCESS); 1611 } 1612 1613 static PetscErrorCode MatGetInfo_MPIAIJ(Mat matin, MatInfoType flag, MatInfo *info) 1614 { 1615 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)matin->data; 1616 Mat A = mat->A, B = mat->B; 1617 PetscLogDouble isend[5], irecv[5]; 1618 1619 PetscFunctionBegin; 1620 info->block_size = 1.0; 1621 PetscCall(MatGetInfo(A, MAT_LOCAL, info)); 1622 1623 isend[0] = info->nz_used; 1624 isend[1] = info->nz_allocated; 1625 isend[2] = info->nz_unneeded; 1626 isend[3] = info->memory; 1627 isend[4] = info->mallocs; 1628 1629 PetscCall(MatGetInfo(B, MAT_LOCAL, info)); 1630 1631 isend[0] += info->nz_used; 1632 isend[1] += info->nz_allocated; 1633 isend[2] += info->nz_unneeded; 1634 isend[3] += info->memory; 1635 isend[4] += info->mallocs; 1636 if (flag == MAT_LOCAL) { 1637 info->nz_used = isend[0]; 1638 info->nz_allocated = isend[1]; 1639 info->nz_unneeded = isend[2]; 1640 info->memory = isend[3]; 1641 info->mallocs = isend[4]; 1642 } else if (flag == MAT_GLOBAL_MAX) { 1643 PetscCallMPI(MPIU_Allreduce(isend, irecv, 5, MPIU_PETSCLOGDOUBLE, MPI_MAX, PetscObjectComm((PetscObject)matin))); 1644 1645 info->nz_used = irecv[0]; 1646 info->nz_allocated = irecv[1]; 1647 info->nz_unneeded = irecv[2]; 1648 info->memory = irecv[3]; 1649 info->mallocs = irecv[4]; 1650 } else if (flag == MAT_GLOBAL_SUM) { 1651 PetscCallMPI(MPIU_Allreduce(isend, irecv, 5, MPIU_PETSCLOGDOUBLE, MPI_SUM, PetscObjectComm((PetscObject)matin))); 1652 1653 info->nz_used = irecv[0]; 1654 info->nz_allocated = irecv[1]; 1655 info->nz_unneeded = irecv[2]; 1656 info->memory = irecv[3]; 1657 info->mallocs = irecv[4]; 1658 } 1659 info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 1660 info->fill_ratio_needed = 0; 1661 info->factor_mallocs = 0; 1662 PetscFunctionReturn(PETSC_SUCCESS); 1663 } 1664 1665 PetscErrorCode MatSetOption_MPIAIJ(Mat A, MatOption op, PetscBool flg) 1666 { 1667 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1668 1669 PetscFunctionBegin; 1670 switch (op) { 1671 case MAT_NEW_NONZERO_LOCATIONS: 1672 case MAT_NEW_NONZERO_ALLOCATION_ERR: 1673 case MAT_UNUSED_NONZERO_LOCATION_ERR: 1674 case MAT_KEEP_NONZERO_PATTERN: 1675 case MAT_NEW_NONZERO_LOCATION_ERR: 1676 case MAT_USE_INODES: 1677 case MAT_IGNORE_ZERO_ENTRIES: 1678 case MAT_FORM_EXPLICIT_TRANSPOSE: 1679 MatCheckPreallocated(A, 1); 1680 PetscCall(MatSetOption(a->A, op, flg)); 1681 PetscCall(MatSetOption(a->B, op, flg)); 1682 break; 1683 case MAT_ROW_ORIENTED: 1684 MatCheckPreallocated(A, 1); 1685 a->roworiented = flg; 1686 1687 PetscCall(MatSetOption(a->A, op, flg)); 1688 PetscCall(MatSetOption(a->B, op, flg)); 1689 break; 1690 case MAT_IGNORE_OFF_PROC_ENTRIES: 1691 a->donotstash = flg; 1692 break; 1693 /* Symmetry flags are handled directly by MatSetOption() and they don't affect preallocation */ 1694 case MAT_SPD: 1695 case MAT_SYMMETRIC: 1696 case MAT_STRUCTURALLY_SYMMETRIC: 1697 case MAT_HERMITIAN: 1698 case MAT_SYMMETRY_ETERNAL: 1699 case MAT_STRUCTURAL_SYMMETRY_ETERNAL: 1700 case MAT_SPD_ETERNAL: 1701 /* if the diagonal matrix is square it inherits some of the properties above */ 1702 if (a->A && A->rmap->n == A->cmap->n) PetscCall(MatSetOption(a->A, op, flg)); 1703 break; 1704 case MAT_SUBMAT_SINGLEIS: 1705 A->submat_singleis = flg; 1706 break; 1707 default: 1708 break; 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 PetscCallMPI(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; 1837 PetscInt *jj, *garray = aij->garray; 1838 PetscCall(PetscCalloc1(mat->cmap->N + 1, &tmp)); 1839 *norm = 0.0; 1840 v = amata; 1841 jj = amat->j; 1842 for (j = 0; j < amat->nz; j++) { 1843 tmp[cstart + *jj++] += PetscAbsScalar(*v); 1844 v++; 1845 } 1846 v = bmata; 1847 jj = bmat->j; 1848 for (j = 0; j < bmat->nz; j++) { 1849 tmp[garray[*jj++]] += PetscAbsScalar(*v); 1850 v++; 1851 } 1852 PetscCallMPI(MPIU_Allreduce(MPI_IN_PLACE, tmp, mat->cmap->N, MPIU_REAL, MPIU_SUM, PetscObjectComm((PetscObject)mat))); 1853 for (j = 0; j < mat->cmap->N; j++) { 1854 if (tmp[j] > *norm) *norm = tmp[j]; 1855 } 1856 PetscCall(PetscFree(tmp)); 1857 PetscCall(PetscLogFlops(PetscMax(amat->nz + bmat->nz - 1, 0))); 1858 } else if (type == NORM_INFINITY) { /* max row norm */ 1859 PetscReal ntemp = 0.0; 1860 for (j = 0; j < aij->A->rmap->n; j++) { 1861 v = PetscSafePointerPlusOffset(amata, amat->i[j]); 1862 sum = 0.0; 1863 for (i = 0; i < amat->i[j + 1] - amat->i[j]; i++) { 1864 sum += PetscAbsScalar(*v); 1865 v++; 1866 } 1867 v = PetscSafePointerPlusOffset(bmata, bmat->i[j]); 1868 for (i = 0; i < bmat->i[j + 1] - bmat->i[j]; i++) { 1869 sum += PetscAbsScalar(*v); 1870 v++; 1871 } 1872 if (sum > ntemp) ntemp = sum; 1873 } 1874 PetscCallMPI(MPIU_Allreduce(&ntemp, norm, 1, MPIU_REAL, MPIU_MAX, PetscObjectComm((PetscObject)mat))); 1875 PetscCall(PetscLogFlops(PetscMax(amat->nz + bmat->nz - 1, 0))); 1876 } else SETERRQ(PetscObjectComm((PetscObject)mat), PETSC_ERR_SUP, "No support for two norm"); 1877 PetscCall(MatSeqAIJRestoreArrayRead(aij->A, &amata)); 1878 PetscCall(MatSeqAIJRestoreArrayRead(aij->B, &bmata)); 1879 } 1880 PetscFunctionReturn(PETSC_SUCCESS); 1881 } 1882 1883 static PetscErrorCode MatTranspose_MPIAIJ(Mat A, MatReuse reuse, Mat *matout) 1884 { 1885 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data, *b; 1886 Mat_SeqAIJ *Aloc = (Mat_SeqAIJ *)a->A->data, *Bloc = (Mat_SeqAIJ *)a->B->data, *sub_B_diag; 1887 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; 1888 const PetscInt *ai, *aj, *bi, *bj, *B_diag_i; 1889 Mat B, A_diag, *B_diag; 1890 const MatScalar *pbv, *bv; 1891 1892 PetscFunctionBegin; 1893 if (reuse == MAT_REUSE_MATRIX) PetscCall(MatTransposeCheckNonzeroState_Private(A, *matout)); 1894 ma = A->rmap->n; 1895 na = A->cmap->n; 1896 mb = a->B->rmap->n; 1897 nb = a->B->cmap->n; 1898 ai = Aloc->i; 1899 aj = Aloc->j; 1900 bi = Bloc->i; 1901 bj = Bloc->j; 1902 if (reuse == MAT_INITIAL_MATRIX || *matout == A) { 1903 PetscInt *d_nnz, *g_nnz, *o_nnz; 1904 PetscSFNode *oloc; 1905 PETSC_UNUSED PetscSF sf; 1906 1907 PetscCall(PetscMalloc4(na, &d_nnz, na, &o_nnz, nb, &g_nnz, nb, &oloc)); 1908 /* compute d_nnz for preallocation */ 1909 PetscCall(PetscArrayzero(d_nnz, na)); 1910 for (i = 0; i < ai[ma]; i++) d_nnz[aj[i]]++; 1911 /* compute local off-diagonal contributions */ 1912 PetscCall(PetscArrayzero(g_nnz, nb)); 1913 for (i = 0; i < bi[ma]; i++) g_nnz[bj[i]]++; 1914 /* map those to global */ 1915 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)A), &sf)); 1916 PetscCall(PetscSFSetGraphLayout(sf, A->cmap, nb, NULL, PETSC_USE_POINTER, a->garray)); 1917 PetscCall(PetscSFSetFromOptions(sf)); 1918 PetscCall(PetscArrayzero(o_nnz, na)); 1919 PetscCall(PetscSFReduceBegin(sf, MPIU_INT, g_nnz, o_nnz, MPI_SUM)); 1920 PetscCall(PetscSFReduceEnd(sf, MPIU_INT, g_nnz, o_nnz, MPI_SUM)); 1921 PetscCall(PetscSFDestroy(&sf)); 1922 1923 PetscCall(MatCreate(PetscObjectComm((PetscObject)A), &B)); 1924 PetscCall(MatSetSizes(B, A->cmap->n, A->rmap->n, N, M)); 1925 PetscCall(MatSetBlockSizes(B, A->cmap->bs, A->rmap->bs)); 1926 PetscCall(MatSetType(B, ((PetscObject)A)->type_name)); 1927 PetscCall(MatMPIAIJSetPreallocation(B, 0, d_nnz, 0, o_nnz)); 1928 PetscCall(PetscFree4(d_nnz, o_nnz, g_nnz, oloc)); 1929 } else { 1930 B = *matout; 1931 PetscCall(MatSetOption(B, MAT_NEW_NONZERO_ALLOCATION_ERR, PETSC_TRUE)); 1932 } 1933 1934 b = (Mat_MPIAIJ *)B->data; 1935 A_diag = a->A; 1936 B_diag = &b->A; 1937 sub_B_diag = (Mat_SeqAIJ *)(*B_diag)->data; 1938 A_diag_ncol = A_diag->cmap->N; 1939 B_diag_ilen = sub_B_diag->ilen; 1940 B_diag_i = sub_B_diag->i; 1941 1942 /* Set ilen for diagonal of B */ 1943 for (i = 0; i < A_diag_ncol; i++) B_diag_ilen[i] = B_diag_i[i + 1] - B_diag_i[i]; 1944 1945 /* Transpose the diagonal part of the matrix. In contrast to the off-diagonal part, this can be done 1946 very quickly (=without using MatSetValues), because all writes are local. */ 1947 PetscCall(MatTransposeSetPrecursor(A_diag, *B_diag)); 1948 PetscCall(MatTranspose(A_diag, MAT_REUSE_MATRIX, B_diag)); 1949 1950 /* copy over the B part */ 1951 PetscCall(PetscMalloc1(bi[mb], &cols)); 1952 PetscCall(MatSeqAIJGetArrayRead(a->B, &bv)); 1953 pbv = bv; 1954 row = A->rmap->rstart; 1955 for (i = 0; i < bi[mb]; i++) cols[i] = a->garray[bj[i]]; 1956 cols_tmp = cols; 1957 for (i = 0; i < mb; i++) { 1958 ncol = bi[i + 1] - bi[i]; 1959 PetscCall(MatSetValues(B, ncol, cols_tmp, 1, &row, pbv, INSERT_VALUES)); 1960 row++; 1961 if (pbv) pbv += ncol; 1962 if (cols_tmp) cols_tmp += ncol; 1963 } 1964 PetscCall(PetscFree(cols)); 1965 PetscCall(MatSeqAIJRestoreArrayRead(a->B, &bv)); 1966 1967 PetscCall(MatAssemblyBegin(B, MAT_FINAL_ASSEMBLY)); 1968 PetscCall(MatAssemblyEnd(B, MAT_FINAL_ASSEMBLY)); 1969 if (reuse == MAT_INITIAL_MATRIX || reuse == MAT_REUSE_MATRIX) { 1970 *matout = B; 1971 } else { 1972 PetscCall(MatHeaderMerge(A, &B)); 1973 } 1974 PetscFunctionReturn(PETSC_SUCCESS); 1975 } 1976 1977 static PetscErrorCode MatDiagonalScale_MPIAIJ(Mat mat, Vec ll, Vec rr) 1978 { 1979 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1980 Mat a = aij->A, b = aij->B; 1981 PetscInt s1, s2, s3; 1982 1983 PetscFunctionBegin; 1984 PetscCall(MatGetLocalSize(mat, &s2, &s3)); 1985 if (rr) { 1986 PetscCall(VecGetLocalSize(rr, &s1)); 1987 PetscCheck(s1 == s3, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "right vector non-conforming local size"); 1988 /* Overlap communication with computation. */ 1989 PetscCall(VecScatterBegin(aij->Mvctx, rr, aij->lvec, INSERT_VALUES, SCATTER_FORWARD)); 1990 } 1991 if (ll) { 1992 PetscCall(VecGetLocalSize(ll, &s1)); 1993 PetscCheck(s1 == s2, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "left vector non-conforming local size"); 1994 PetscUseTypeMethod(b, diagonalscale, ll, NULL); 1995 } 1996 /* scale the diagonal block */ 1997 PetscUseTypeMethod(a, diagonalscale, ll, rr); 1998 1999 if (rr) { 2000 /* Do a scatter end and then right scale the off-diagonal block */ 2001 PetscCall(VecScatterEnd(aij->Mvctx, rr, aij->lvec, INSERT_VALUES, SCATTER_FORWARD)); 2002 PetscUseTypeMethod(b, diagonalscale, NULL, aij->lvec); 2003 } 2004 PetscFunctionReturn(PETSC_SUCCESS); 2005 } 2006 2007 static PetscErrorCode MatSetUnfactored_MPIAIJ(Mat A) 2008 { 2009 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2010 2011 PetscFunctionBegin; 2012 PetscCall(MatSetUnfactored(a->A)); 2013 PetscFunctionReturn(PETSC_SUCCESS); 2014 } 2015 2016 static PetscErrorCode MatEqual_MPIAIJ(Mat A, Mat B, PetscBool *flag) 2017 { 2018 Mat_MPIAIJ *matB = (Mat_MPIAIJ *)B->data, *matA = (Mat_MPIAIJ *)A->data; 2019 Mat a, b, c, d; 2020 PetscBool flg; 2021 2022 PetscFunctionBegin; 2023 a = matA->A; 2024 b = matA->B; 2025 c = matB->A; 2026 d = matB->B; 2027 2028 PetscCall(MatEqual(a, c, &flg)); 2029 if (flg) PetscCall(MatEqual(b, d, &flg)); 2030 PetscCallMPI(MPIU_Allreduce(&flg, flag, 1, MPIU_BOOL, MPI_LAND, PetscObjectComm((PetscObject)A))); 2031 PetscFunctionReturn(PETSC_SUCCESS); 2032 } 2033 2034 static PetscErrorCode MatCopy_MPIAIJ(Mat A, Mat B, MatStructure str) 2035 { 2036 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2037 Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 2038 2039 PetscFunctionBegin; 2040 /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */ 2041 if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) { 2042 /* because of the column compression in the off-processor part of the matrix a->B, 2043 the number of columns in a->B and b->B may be different, hence we cannot call 2044 the MatCopy() directly on the two parts. If need be, we can provide a more 2045 efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices 2046 then copying the submatrices */ 2047 PetscCall(MatCopy_Basic(A, B, str)); 2048 } else { 2049 PetscCall(MatCopy(a->A, b->A, str)); 2050 PetscCall(MatCopy(a->B, b->B, str)); 2051 } 2052 PetscCall(PetscObjectStateIncrease((PetscObject)B)); 2053 PetscFunctionReturn(PETSC_SUCCESS); 2054 } 2055 2056 /* 2057 Computes the number of nonzeros per row needed for preallocation when X and Y 2058 have different nonzero structure. 2059 */ 2060 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) 2061 { 2062 PetscInt i, j, k, nzx, nzy; 2063 2064 PetscFunctionBegin; 2065 /* Set the number of nonzeros in the new matrix */ 2066 for (i = 0; i < m; i++) { 2067 const PetscInt *xjj = PetscSafePointerPlusOffset(xj, xi[i]), *yjj = PetscSafePointerPlusOffset(yj, yi[i]); 2068 nzx = xi[i + 1] - xi[i]; 2069 nzy = yi[i + 1] - yi[i]; 2070 nnz[i] = 0; 2071 for (j = 0, k = 0; j < nzx; j++) { /* Point in X */ 2072 for (; k < nzy && yltog[yjj[k]] < xltog[xjj[j]]; k++) nnz[i]++; /* Catch up to X */ 2073 if (k < nzy && yltog[yjj[k]] == xltog[xjj[j]]) k++; /* Skip duplicate */ 2074 nnz[i]++; 2075 } 2076 for (; k < nzy; k++) nnz[i]++; 2077 } 2078 PetscFunctionReturn(PETSC_SUCCESS); 2079 } 2080 2081 /* This is the same as MatAXPYGetPreallocation_SeqAIJ, except that the local-to-global map is provided */ 2082 static PetscErrorCode MatAXPYGetPreallocation_MPIAIJ(Mat Y, const PetscInt *yltog, Mat X, const PetscInt *xltog, PetscInt *nnz) 2083 { 2084 PetscInt m = Y->rmap->N; 2085 Mat_SeqAIJ *x = (Mat_SeqAIJ *)X->data; 2086 Mat_SeqAIJ *y = (Mat_SeqAIJ *)Y->data; 2087 2088 PetscFunctionBegin; 2089 PetscCall(MatAXPYGetPreallocation_MPIX_private(m, x->i, x->j, xltog, y->i, y->j, yltog, nnz)); 2090 PetscFunctionReturn(PETSC_SUCCESS); 2091 } 2092 2093 static PetscErrorCode MatAXPY_MPIAIJ(Mat Y, PetscScalar a, Mat X, MatStructure str) 2094 { 2095 Mat_MPIAIJ *xx = (Mat_MPIAIJ *)X->data, *yy = (Mat_MPIAIJ *)Y->data; 2096 2097 PetscFunctionBegin; 2098 if (str == SAME_NONZERO_PATTERN) { 2099 PetscCall(MatAXPY(yy->A, a, xx->A, str)); 2100 PetscCall(MatAXPY(yy->B, a, xx->B, str)); 2101 } else if (str == SUBSET_NONZERO_PATTERN) { /* nonzeros of X is a subset of Y's */ 2102 PetscCall(MatAXPY_Basic(Y, a, X, str)); 2103 } else { 2104 Mat B; 2105 PetscInt *nnz_d, *nnz_o; 2106 2107 PetscCall(PetscMalloc1(yy->A->rmap->N, &nnz_d)); 2108 PetscCall(PetscMalloc1(yy->B->rmap->N, &nnz_o)); 2109 PetscCall(MatCreate(PetscObjectComm((PetscObject)Y), &B)); 2110 PetscCall(PetscObjectSetName((PetscObject)B, ((PetscObject)Y)->name)); 2111 PetscCall(MatSetLayouts(B, Y->rmap, Y->cmap)); 2112 PetscCall(MatSetType(B, ((PetscObject)Y)->type_name)); 2113 PetscCall(MatAXPYGetPreallocation_SeqAIJ(yy->A, xx->A, nnz_d)); 2114 PetscCall(MatAXPYGetPreallocation_MPIAIJ(yy->B, yy->garray, xx->B, xx->garray, nnz_o)); 2115 PetscCall(MatMPIAIJSetPreallocation(B, 0, nnz_d, 0, nnz_o)); 2116 PetscCall(MatAXPY_BasicWithPreallocation(B, Y, a, X, str)); 2117 PetscCall(MatHeaderMerge(Y, &B)); 2118 PetscCall(PetscFree(nnz_d)); 2119 PetscCall(PetscFree(nnz_o)); 2120 } 2121 PetscFunctionReturn(PETSC_SUCCESS); 2122 } 2123 2124 PETSC_INTERN PetscErrorCode MatConjugate_SeqAIJ(Mat); 2125 2126 static PetscErrorCode MatConjugate_MPIAIJ(Mat mat) 2127 { 2128 PetscFunctionBegin; 2129 if (PetscDefined(USE_COMPLEX)) { 2130 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 2131 2132 PetscCall(MatConjugate_SeqAIJ(aij->A)); 2133 PetscCall(MatConjugate_SeqAIJ(aij->B)); 2134 } 2135 PetscFunctionReturn(PETSC_SUCCESS); 2136 } 2137 2138 static PetscErrorCode MatRealPart_MPIAIJ(Mat A) 2139 { 2140 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2141 2142 PetscFunctionBegin; 2143 PetscCall(MatRealPart(a->A)); 2144 PetscCall(MatRealPart(a->B)); 2145 PetscFunctionReturn(PETSC_SUCCESS); 2146 } 2147 2148 static PetscErrorCode MatImaginaryPart_MPIAIJ(Mat A) 2149 { 2150 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2151 2152 PetscFunctionBegin; 2153 PetscCall(MatImaginaryPart(a->A)); 2154 PetscCall(MatImaginaryPart(a->B)); 2155 PetscFunctionReturn(PETSC_SUCCESS); 2156 } 2157 2158 static PetscErrorCode MatGetRowMaxAbs_MPIAIJ(Mat A, Vec v, PetscInt idx[]) 2159 { 2160 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2161 PetscInt i, *idxb = NULL, m = A->rmap->n; 2162 PetscScalar *vv; 2163 Vec vB, vA; 2164 const PetscScalar *va, *vb; 2165 2166 PetscFunctionBegin; 2167 PetscCall(MatCreateVecs(a->A, NULL, &vA)); 2168 PetscCall(MatGetRowMaxAbs(a->A, vA, idx)); 2169 2170 PetscCall(VecGetArrayRead(vA, &va)); 2171 if (idx) { 2172 for (i = 0; i < m; i++) { 2173 if (PetscAbsScalar(va[i])) idx[i] += A->cmap->rstart; 2174 } 2175 } 2176 2177 PetscCall(MatCreateVecs(a->B, NULL, &vB)); 2178 PetscCall(PetscMalloc1(m, &idxb)); 2179 PetscCall(MatGetRowMaxAbs(a->B, vB, idxb)); 2180 2181 PetscCall(VecGetArrayWrite(v, &vv)); 2182 PetscCall(VecGetArrayRead(vB, &vb)); 2183 for (i = 0; i < m; i++) { 2184 if (PetscAbsScalar(va[i]) < PetscAbsScalar(vb[i])) { 2185 vv[i] = vb[i]; 2186 if (idx) idx[i] = a->garray[idxb[i]]; 2187 } else { 2188 vv[i] = va[i]; 2189 if (idx && PetscAbsScalar(va[i]) == PetscAbsScalar(vb[i]) && idxb[i] != -1 && idx[i] > a->garray[idxb[i]]) idx[i] = a->garray[idxb[i]]; 2190 } 2191 } 2192 PetscCall(VecRestoreArrayWrite(v, &vv)); 2193 PetscCall(VecRestoreArrayRead(vA, &va)); 2194 PetscCall(VecRestoreArrayRead(vB, &vb)); 2195 PetscCall(PetscFree(idxb)); 2196 PetscCall(VecDestroy(&vA)); 2197 PetscCall(VecDestroy(&vB)); 2198 PetscFunctionReturn(PETSC_SUCCESS); 2199 } 2200 2201 static PetscErrorCode MatGetRowSumAbs_MPIAIJ(Mat A, Vec v) 2202 { 2203 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2204 Vec vB, vA; 2205 2206 PetscFunctionBegin; 2207 PetscCall(MatCreateVecs(a->A, NULL, &vA)); 2208 PetscCall(MatGetRowSumAbs(a->A, vA)); 2209 PetscCall(MatCreateVecs(a->B, NULL, &vB)); 2210 PetscCall(MatGetRowSumAbs(a->B, vB)); 2211 PetscCall(VecAXPY(vA, 1.0, vB)); 2212 PetscCall(VecDestroy(&vB)); 2213 PetscCall(VecCopy(vA, v)); 2214 PetscCall(VecDestroy(&vA)); 2215 PetscFunctionReturn(PETSC_SUCCESS); 2216 } 2217 2218 static PetscErrorCode MatGetRowMinAbs_MPIAIJ(Mat A, Vec v, PetscInt idx[]) 2219 { 2220 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)A->data; 2221 PetscInt m = A->rmap->n, n = A->cmap->n; 2222 PetscInt cstart = A->cmap->rstart, cend = A->cmap->rend; 2223 PetscInt *cmap = mat->garray; 2224 PetscInt *diagIdx, *offdiagIdx; 2225 Vec diagV, offdiagV; 2226 PetscScalar *a, *diagA, *offdiagA; 2227 const PetscScalar *ba, *bav; 2228 PetscInt r, j, col, ncols, *bi, *bj; 2229 Mat B = mat->B; 2230 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 2231 2232 PetscFunctionBegin; 2233 /* When a process holds entire A and other processes have no entry */ 2234 if (A->cmap->N == n) { 2235 PetscCall(VecGetArrayWrite(v, &diagA)); 2236 PetscCall(VecCreateSeqWithArray(PETSC_COMM_SELF, 1, m, diagA, &diagV)); 2237 PetscCall(MatGetRowMinAbs(mat->A, diagV, idx)); 2238 PetscCall(VecDestroy(&diagV)); 2239 PetscCall(VecRestoreArrayWrite(v, &diagA)); 2240 PetscFunctionReturn(PETSC_SUCCESS); 2241 } else if (n == 0) { 2242 if (m) { 2243 PetscCall(VecGetArrayWrite(v, &a)); 2244 for (r = 0; r < m; r++) { 2245 a[r] = 0.0; 2246 if (idx) idx[r] = -1; 2247 } 2248 PetscCall(VecRestoreArrayWrite(v, &a)); 2249 } 2250 PetscFunctionReturn(PETSC_SUCCESS); 2251 } 2252 2253 PetscCall(PetscMalloc2(m, &diagIdx, m, &offdiagIdx)); 2254 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &diagV)); 2255 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &offdiagV)); 2256 PetscCall(MatGetRowMinAbs(mat->A, diagV, diagIdx)); 2257 2258 /* Get offdiagIdx[] for implicit 0.0 */ 2259 PetscCall(MatSeqAIJGetArrayRead(B, &bav)); 2260 ba = bav; 2261 bi = b->i; 2262 bj = b->j; 2263 PetscCall(VecGetArrayWrite(offdiagV, &offdiagA)); 2264 for (r = 0; r < m; r++) { 2265 ncols = bi[r + 1] - bi[r]; 2266 if (ncols == A->cmap->N - n) { /* Brow is dense */ 2267 offdiagA[r] = *ba; 2268 offdiagIdx[r] = cmap[0]; 2269 } else { /* Brow is sparse so already KNOW maximum is 0.0 or higher */ 2270 offdiagA[r] = 0.0; 2271 2272 /* Find first hole in the cmap */ 2273 for (j = 0; j < ncols; j++) { 2274 col = cmap[bj[j]]; /* global column number = cmap[B column number] */ 2275 if (col > j && j < cstart) { 2276 offdiagIdx[r] = j; /* global column number of first implicit 0.0 */ 2277 break; 2278 } else if (col > j + n && j >= cstart) { 2279 offdiagIdx[r] = j + n; /* global column number of first implicit 0.0 */ 2280 break; 2281 } 2282 } 2283 if (j == ncols && ncols < A->cmap->N - n) { 2284 /* a hole is outside compressed Bcols */ 2285 if (ncols == 0) { 2286 if (cstart) { 2287 offdiagIdx[r] = 0; 2288 } else offdiagIdx[r] = cend; 2289 } else { /* ncols > 0 */ 2290 offdiagIdx[r] = cmap[ncols - 1] + 1; 2291 if (offdiagIdx[r] == cstart) offdiagIdx[r] += n; 2292 } 2293 } 2294 } 2295 2296 for (j = 0; j < ncols; j++) { 2297 if (PetscAbsScalar(offdiagA[r]) > PetscAbsScalar(*ba)) { 2298 offdiagA[r] = *ba; 2299 offdiagIdx[r] = cmap[*bj]; 2300 } 2301 ba++; 2302 bj++; 2303 } 2304 } 2305 2306 PetscCall(VecGetArrayWrite(v, &a)); 2307 PetscCall(VecGetArrayRead(diagV, (const PetscScalar **)&diagA)); 2308 for (r = 0; r < m; ++r) { 2309 if (PetscAbsScalar(diagA[r]) < PetscAbsScalar(offdiagA[r])) { 2310 a[r] = diagA[r]; 2311 if (idx) idx[r] = cstart + diagIdx[r]; 2312 } else if (PetscAbsScalar(diagA[r]) == PetscAbsScalar(offdiagA[r])) { 2313 a[r] = diagA[r]; 2314 if (idx) { 2315 if (cstart + diagIdx[r] <= offdiagIdx[r]) { 2316 idx[r] = cstart + diagIdx[r]; 2317 } else idx[r] = offdiagIdx[r]; 2318 } 2319 } else { 2320 a[r] = offdiagA[r]; 2321 if (idx) idx[r] = offdiagIdx[r]; 2322 } 2323 } 2324 PetscCall(MatSeqAIJRestoreArrayRead(B, &bav)); 2325 PetscCall(VecRestoreArrayWrite(v, &a)); 2326 PetscCall(VecRestoreArrayRead(diagV, (const PetscScalar **)&diagA)); 2327 PetscCall(VecRestoreArrayWrite(offdiagV, &offdiagA)); 2328 PetscCall(VecDestroy(&diagV)); 2329 PetscCall(VecDestroy(&offdiagV)); 2330 PetscCall(PetscFree2(diagIdx, offdiagIdx)); 2331 PetscFunctionReturn(PETSC_SUCCESS); 2332 } 2333 2334 static PetscErrorCode MatGetRowMin_MPIAIJ(Mat A, Vec v, PetscInt idx[]) 2335 { 2336 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)A->data; 2337 PetscInt m = A->rmap->n, n = A->cmap->n; 2338 PetscInt cstart = A->cmap->rstart, cend = A->cmap->rend; 2339 PetscInt *cmap = mat->garray; 2340 PetscInt *diagIdx, *offdiagIdx; 2341 Vec diagV, offdiagV; 2342 PetscScalar *a, *diagA, *offdiagA; 2343 const PetscScalar *ba, *bav; 2344 PetscInt r, j, col, ncols, *bi, *bj; 2345 Mat B = mat->B; 2346 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 2347 2348 PetscFunctionBegin; 2349 /* When a process holds entire A and other processes have no entry */ 2350 if (A->cmap->N == n) { 2351 PetscCall(VecGetArrayWrite(v, &diagA)); 2352 PetscCall(VecCreateSeqWithArray(PETSC_COMM_SELF, 1, m, diagA, &diagV)); 2353 PetscCall(MatGetRowMin(mat->A, diagV, idx)); 2354 PetscCall(VecDestroy(&diagV)); 2355 PetscCall(VecRestoreArrayWrite(v, &diagA)); 2356 PetscFunctionReturn(PETSC_SUCCESS); 2357 } else if (n == 0) { 2358 if (m) { 2359 PetscCall(VecGetArrayWrite(v, &a)); 2360 for (r = 0; r < m; r++) { 2361 a[r] = PETSC_MAX_REAL; 2362 if (idx) idx[r] = -1; 2363 } 2364 PetscCall(VecRestoreArrayWrite(v, &a)); 2365 } 2366 PetscFunctionReturn(PETSC_SUCCESS); 2367 } 2368 2369 PetscCall(PetscCalloc2(m, &diagIdx, m, &offdiagIdx)); 2370 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &diagV)); 2371 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &offdiagV)); 2372 PetscCall(MatGetRowMin(mat->A, diagV, diagIdx)); 2373 2374 /* Get offdiagIdx[] for implicit 0.0 */ 2375 PetscCall(MatSeqAIJGetArrayRead(B, &bav)); 2376 ba = bav; 2377 bi = b->i; 2378 bj = b->j; 2379 PetscCall(VecGetArrayWrite(offdiagV, &offdiagA)); 2380 for (r = 0; r < m; r++) { 2381 ncols = bi[r + 1] - bi[r]; 2382 if (ncols == A->cmap->N - n) { /* Brow is dense */ 2383 offdiagA[r] = *ba; 2384 offdiagIdx[r] = cmap[0]; 2385 } else { /* Brow is sparse so already KNOW maximum is 0.0 or higher */ 2386 offdiagA[r] = 0.0; 2387 2388 /* Find first hole in the cmap */ 2389 for (j = 0; j < ncols; j++) { 2390 col = cmap[bj[j]]; /* global column number = cmap[B column number] */ 2391 if (col > j && j < cstart) { 2392 offdiagIdx[r] = j; /* global column number of first implicit 0.0 */ 2393 break; 2394 } else if (col > j + n && j >= cstart) { 2395 offdiagIdx[r] = j + n; /* global column number of first implicit 0.0 */ 2396 break; 2397 } 2398 } 2399 if (j == ncols && ncols < A->cmap->N - n) { 2400 /* a hole is outside compressed Bcols */ 2401 if (ncols == 0) { 2402 if (cstart) { 2403 offdiagIdx[r] = 0; 2404 } else offdiagIdx[r] = cend; 2405 } else { /* ncols > 0 */ 2406 offdiagIdx[r] = cmap[ncols - 1] + 1; 2407 if (offdiagIdx[r] == cstart) offdiagIdx[r] += n; 2408 } 2409 } 2410 } 2411 2412 for (j = 0; j < ncols; j++) { 2413 if (PetscRealPart(offdiagA[r]) > PetscRealPart(*ba)) { 2414 offdiagA[r] = *ba; 2415 offdiagIdx[r] = cmap[*bj]; 2416 } 2417 ba++; 2418 bj++; 2419 } 2420 } 2421 2422 PetscCall(VecGetArrayWrite(v, &a)); 2423 PetscCall(VecGetArrayRead(diagV, (const PetscScalar **)&diagA)); 2424 for (r = 0; r < m; ++r) { 2425 if (PetscRealPart(diagA[r]) < PetscRealPart(offdiagA[r])) { 2426 a[r] = diagA[r]; 2427 if (idx) idx[r] = cstart + diagIdx[r]; 2428 } else if (PetscRealPart(diagA[r]) == PetscRealPart(offdiagA[r])) { 2429 a[r] = diagA[r]; 2430 if (idx) { 2431 if (cstart + diagIdx[r] <= offdiagIdx[r]) { 2432 idx[r] = cstart + diagIdx[r]; 2433 } else idx[r] = offdiagIdx[r]; 2434 } 2435 } else { 2436 a[r] = offdiagA[r]; 2437 if (idx) idx[r] = offdiagIdx[r]; 2438 } 2439 } 2440 PetscCall(MatSeqAIJRestoreArrayRead(B, &bav)); 2441 PetscCall(VecRestoreArrayWrite(v, &a)); 2442 PetscCall(VecRestoreArrayRead(diagV, (const PetscScalar **)&diagA)); 2443 PetscCall(VecRestoreArrayWrite(offdiagV, &offdiagA)); 2444 PetscCall(VecDestroy(&diagV)); 2445 PetscCall(VecDestroy(&offdiagV)); 2446 PetscCall(PetscFree2(diagIdx, offdiagIdx)); 2447 PetscFunctionReturn(PETSC_SUCCESS); 2448 } 2449 2450 static PetscErrorCode MatGetRowMax_MPIAIJ(Mat A, Vec v, PetscInt idx[]) 2451 { 2452 Mat_MPIAIJ *mat = (Mat_MPIAIJ *)A->data; 2453 PetscInt m = A->rmap->n, n = A->cmap->n; 2454 PetscInt cstart = A->cmap->rstart, cend = A->cmap->rend; 2455 PetscInt *cmap = mat->garray; 2456 PetscInt *diagIdx, *offdiagIdx; 2457 Vec diagV, offdiagV; 2458 PetscScalar *a, *diagA, *offdiagA; 2459 const PetscScalar *ba, *bav; 2460 PetscInt r, j, col, ncols, *bi, *bj; 2461 Mat B = mat->B; 2462 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 2463 2464 PetscFunctionBegin; 2465 /* When a process holds entire A and other processes have no entry */ 2466 if (A->cmap->N == n) { 2467 PetscCall(VecGetArrayWrite(v, &diagA)); 2468 PetscCall(VecCreateSeqWithArray(PETSC_COMM_SELF, 1, m, diagA, &diagV)); 2469 PetscCall(MatGetRowMax(mat->A, diagV, idx)); 2470 PetscCall(VecDestroy(&diagV)); 2471 PetscCall(VecRestoreArrayWrite(v, &diagA)); 2472 PetscFunctionReturn(PETSC_SUCCESS); 2473 } else if (n == 0) { 2474 if (m) { 2475 PetscCall(VecGetArrayWrite(v, &a)); 2476 for (r = 0; r < m; r++) { 2477 a[r] = PETSC_MIN_REAL; 2478 if (idx) idx[r] = -1; 2479 } 2480 PetscCall(VecRestoreArrayWrite(v, &a)); 2481 } 2482 PetscFunctionReturn(PETSC_SUCCESS); 2483 } 2484 2485 PetscCall(PetscMalloc2(m, &diagIdx, m, &offdiagIdx)); 2486 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &diagV)); 2487 PetscCall(VecCreateSeq(PETSC_COMM_SELF, m, &offdiagV)); 2488 PetscCall(MatGetRowMax(mat->A, diagV, diagIdx)); 2489 2490 /* Get offdiagIdx[] for implicit 0.0 */ 2491 PetscCall(MatSeqAIJGetArrayRead(B, &bav)); 2492 ba = bav; 2493 bi = b->i; 2494 bj = b->j; 2495 PetscCall(VecGetArrayWrite(offdiagV, &offdiagA)); 2496 for (r = 0; r < m; r++) { 2497 ncols = bi[r + 1] - bi[r]; 2498 if (ncols == A->cmap->N - n) { /* Brow is dense */ 2499 offdiagA[r] = *ba; 2500 offdiagIdx[r] = cmap[0]; 2501 } else { /* Brow is sparse so already KNOW maximum is 0.0 or higher */ 2502 offdiagA[r] = 0.0; 2503 2504 /* Find first hole in the cmap */ 2505 for (j = 0; j < ncols; j++) { 2506 col = cmap[bj[j]]; /* global column number = cmap[B column number] */ 2507 if (col > j && j < cstart) { 2508 offdiagIdx[r] = j; /* global column number of first implicit 0.0 */ 2509 break; 2510 } else if (col > j + n && j >= cstart) { 2511 offdiagIdx[r] = j + n; /* global column number of first implicit 0.0 */ 2512 break; 2513 } 2514 } 2515 if (j == ncols && ncols < A->cmap->N - n) { 2516 /* a hole is outside compressed Bcols */ 2517 if (ncols == 0) { 2518 if (cstart) { 2519 offdiagIdx[r] = 0; 2520 } else offdiagIdx[r] = cend; 2521 } else { /* ncols > 0 */ 2522 offdiagIdx[r] = cmap[ncols - 1] + 1; 2523 if (offdiagIdx[r] == cstart) offdiagIdx[r] += n; 2524 } 2525 } 2526 } 2527 2528 for (j = 0; j < ncols; j++) { 2529 if (PetscRealPart(offdiagA[r]) < PetscRealPart(*ba)) { 2530 offdiagA[r] = *ba; 2531 offdiagIdx[r] = cmap[*bj]; 2532 } 2533 ba++; 2534 bj++; 2535 } 2536 } 2537 2538 PetscCall(VecGetArrayWrite(v, &a)); 2539 PetscCall(VecGetArrayRead(diagV, (const PetscScalar **)&diagA)); 2540 for (r = 0; r < m; ++r) { 2541 if (PetscRealPart(diagA[r]) > PetscRealPart(offdiagA[r])) { 2542 a[r] = diagA[r]; 2543 if (idx) idx[r] = cstart + diagIdx[r]; 2544 } else if (PetscRealPart(diagA[r]) == PetscRealPart(offdiagA[r])) { 2545 a[r] = diagA[r]; 2546 if (idx) { 2547 if (cstart + diagIdx[r] <= offdiagIdx[r]) { 2548 idx[r] = cstart + diagIdx[r]; 2549 } else idx[r] = offdiagIdx[r]; 2550 } 2551 } else { 2552 a[r] = offdiagA[r]; 2553 if (idx) idx[r] = offdiagIdx[r]; 2554 } 2555 } 2556 PetscCall(MatSeqAIJRestoreArrayRead(B, &bav)); 2557 PetscCall(VecRestoreArrayWrite(v, &a)); 2558 PetscCall(VecRestoreArrayRead(diagV, (const PetscScalar **)&diagA)); 2559 PetscCall(VecRestoreArrayWrite(offdiagV, &offdiagA)); 2560 PetscCall(VecDestroy(&diagV)); 2561 PetscCall(VecDestroy(&offdiagV)); 2562 PetscCall(PetscFree2(diagIdx, offdiagIdx)); 2563 PetscFunctionReturn(PETSC_SUCCESS); 2564 } 2565 2566 PetscErrorCode MatGetSeqNonzeroStructure_MPIAIJ(Mat mat, Mat *newmat) 2567 { 2568 Mat *dummy; 2569 2570 PetscFunctionBegin; 2571 PetscCall(MatCreateSubMatrix_MPIAIJ_All(mat, MAT_DO_NOT_GET_VALUES, MAT_INITIAL_MATRIX, &dummy)); 2572 *newmat = *dummy; 2573 PetscCall(PetscFree(dummy)); 2574 PetscFunctionReturn(PETSC_SUCCESS); 2575 } 2576 2577 static PetscErrorCode MatInvertBlockDiagonal_MPIAIJ(Mat A, const PetscScalar **values) 2578 { 2579 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2580 2581 PetscFunctionBegin; 2582 PetscCall(MatInvertBlockDiagonal(a->A, values)); 2583 A->factorerrortype = a->A->factorerrortype; 2584 PetscFunctionReturn(PETSC_SUCCESS); 2585 } 2586 2587 static PetscErrorCode MatSetRandom_MPIAIJ(Mat x, PetscRandom rctx) 2588 { 2589 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)x->data; 2590 2591 PetscFunctionBegin; 2592 PetscCheck(x->assembled || x->preallocated, PetscObjectComm((PetscObject)x), PETSC_ERR_ARG_WRONGSTATE, "MatSetRandom on an unassembled and unpreallocated MATMPIAIJ is not allowed"); 2593 PetscCall(MatSetRandom(aij->A, rctx)); 2594 if (x->assembled) { 2595 PetscCall(MatSetRandom(aij->B, rctx)); 2596 } else { 2597 PetscCall(MatSetRandomSkipColumnRange_SeqAIJ_Private(aij->B, x->cmap->rstart, x->cmap->rend, rctx)); 2598 } 2599 PetscCall(MatAssemblyBegin(x, MAT_FINAL_ASSEMBLY)); 2600 PetscCall(MatAssemblyEnd(x, MAT_FINAL_ASSEMBLY)); 2601 PetscFunctionReturn(PETSC_SUCCESS); 2602 } 2603 2604 static PetscErrorCode MatMPIAIJSetUseScalableIncreaseOverlap_MPIAIJ(Mat A, PetscBool sc) 2605 { 2606 PetscFunctionBegin; 2607 if (sc) A->ops->increaseoverlap = MatIncreaseOverlap_MPIAIJ_Scalable; 2608 else A->ops->increaseoverlap = MatIncreaseOverlap_MPIAIJ; 2609 PetscFunctionReturn(PETSC_SUCCESS); 2610 } 2611 2612 /*@ 2613 MatMPIAIJGetNumberNonzeros - gets the number of nonzeros in the matrix on this MPI rank 2614 2615 Not Collective 2616 2617 Input Parameter: 2618 . A - the matrix 2619 2620 Output Parameter: 2621 . nz - the number of nonzeros 2622 2623 Level: advanced 2624 2625 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ` 2626 @*/ 2627 PetscErrorCode MatMPIAIJGetNumberNonzeros(Mat A, PetscCount *nz) 2628 { 2629 Mat_MPIAIJ *maij = (Mat_MPIAIJ *)A->data; 2630 Mat_SeqAIJ *aaij = (Mat_SeqAIJ *)maij->A->data, *baij = (Mat_SeqAIJ *)maij->B->data; 2631 PetscBool isaij; 2632 2633 PetscFunctionBegin; 2634 PetscCall(PetscObjectBaseTypeCompare((PetscObject)A, MATMPIAIJ, &isaij)); 2635 PetscCheck(isaij, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Not for type %s", ((PetscObject)A)->type_name); 2636 *nz = aaij->i[A->rmap->n] + baij->i[A->rmap->n]; 2637 PetscFunctionReturn(PETSC_SUCCESS); 2638 } 2639 2640 /*@ 2641 MatMPIAIJSetUseScalableIncreaseOverlap - Determine if the matrix uses a scalable algorithm to compute the overlap 2642 2643 Collective 2644 2645 Input Parameters: 2646 + A - the matrix 2647 - sc - `PETSC_TRUE` indicates use the scalable algorithm (default is not to use the scalable algorithm) 2648 2649 Level: advanced 2650 2651 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ` 2652 @*/ 2653 PetscErrorCode MatMPIAIJSetUseScalableIncreaseOverlap(Mat A, PetscBool sc) 2654 { 2655 PetscFunctionBegin; 2656 PetscTryMethod(A, "MatMPIAIJSetUseScalableIncreaseOverlap_C", (Mat, PetscBool), (A, sc)); 2657 PetscFunctionReturn(PETSC_SUCCESS); 2658 } 2659 2660 PetscErrorCode MatSetFromOptions_MPIAIJ(Mat A, PetscOptionItems PetscOptionsObject) 2661 { 2662 PetscBool sc = PETSC_FALSE, flg; 2663 2664 PetscFunctionBegin; 2665 PetscOptionsHeadBegin(PetscOptionsObject, "MPIAIJ options"); 2666 if (A->ops->increaseoverlap == MatIncreaseOverlap_MPIAIJ_Scalable) sc = PETSC_TRUE; 2667 PetscCall(PetscOptionsBool("-mat_increase_overlap_scalable", "Use a scalable algorithm to compute the overlap", "MatIncreaseOverlap", sc, &sc, &flg)); 2668 if (flg) PetscCall(MatMPIAIJSetUseScalableIncreaseOverlap(A, sc)); 2669 PetscOptionsHeadEnd(); 2670 PetscFunctionReturn(PETSC_SUCCESS); 2671 } 2672 2673 static PetscErrorCode MatShift_MPIAIJ(Mat Y, PetscScalar a) 2674 { 2675 Mat_MPIAIJ *maij = (Mat_MPIAIJ *)Y->data; 2676 Mat_SeqAIJ *aij = (Mat_SeqAIJ *)maij->A->data; 2677 2678 PetscFunctionBegin; 2679 if (!Y->preallocated) { 2680 PetscCall(MatMPIAIJSetPreallocation(Y, 1, NULL, 0, NULL)); 2681 } else if (!aij->nz) { /* It does not matter if diagonals of Y only partially lie in maij->A. We just need an estimated preallocation. */ 2682 PetscInt nonew = aij->nonew; 2683 PetscCall(MatSeqAIJSetPreallocation(maij->A, 1, NULL)); 2684 aij->nonew = nonew; 2685 } 2686 PetscCall(MatShift_Basic(Y, a)); 2687 PetscFunctionReturn(PETSC_SUCCESS); 2688 } 2689 2690 static PetscErrorCode MatMissingDiagonal_MPIAIJ(Mat A, PetscBool *missing, PetscInt *d) 2691 { 2692 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2693 2694 PetscFunctionBegin; 2695 PetscCheck(A->rmap->n == A->cmap->n, PETSC_COMM_SELF, PETSC_ERR_SUP, "Only works for square matrices"); 2696 PetscCall(MatMissingDiagonal(a->A, missing, d)); 2697 if (d) { 2698 PetscInt rstart; 2699 PetscCall(MatGetOwnershipRange(A, &rstart, NULL)); 2700 *d += rstart; 2701 } 2702 PetscFunctionReturn(PETSC_SUCCESS); 2703 } 2704 2705 static PetscErrorCode MatInvertVariableBlockDiagonal_MPIAIJ(Mat A, PetscInt nblocks, const PetscInt *bsizes, PetscScalar *diag) 2706 { 2707 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2708 2709 PetscFunctionBegin; 2710 PetscCall(MatInvertVariableBlockDiagonal(a->A, nblocks, bsizes, diag)); 2711 PetscFunctionReturn(PETSC_SUCCESS); 2712 } 2713 2714 static PetscErrorCode MatEliminateZeros_MPIAIJ(Mat A, PetscBool keep) 2715 { 2716 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2717 2718 PetscFunctionBegin; 2719 PetscCall(MatEliminateZeros_SeqAIJ(a->A, keep)); // possibly keep zero diagonal coefficients 2720 PetscCall(MatEliminateZeros_SeqAIJ(a->B, PETSC_FALSE)); // never keep zero diagonal coefficients 2721 PetscFunctionReturn(PETSC_SUCCESS); 2722 } 2723 2724 static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ, 2725 MatGetRow_MPIAIJ, 2726 MatRestoreRow_MPIAIJ, 2727 MatMult_MPIAIJ, 2728 /* 4*/ MatMultAdd_MPIAIJ, 2729 MatMultTranspose_MPIAIJ, 2730 MatMultTransposeAdd_MPIAIJ, 2731 NULL, 2732 NULL, 2733 NULL, 2734 /*10*/ NULL, 2735 NULL, 2736 NULL, 2737 MatSOR_MPIAIJ, 2738 MatTranspose_MPIAIJ, 2739 /*15*/ MatGetInfo_MPIAIJ, 2740 MatEqual_MPIAIJ, 2741 MatGetDiagonal_MPIAIJ, 2742 MatDiagonalScale_MPIAIJ, 2743 MatNorm_MPIAIJ, 2744 /*20*/ MatAssemblyBegin_MPIAIJ, 2745 MatAssemblyEnd_MPIAIJ, 2746 MatSetOption_MPIAIJ, 2747 MatZeroEntries_MPIAIJ, 2748 /*24*/ MatZeroRows_MPIAIJ, 2749 NULL, 2750 NULL, 2751 NULL, 2752 NULL, 2753 /*29*/ MatSetUp_MPI_Hash, 2754 NULL, 2755 NULL, 2756 MatGetDiagonalBlock_MPIAIJ, 2757 NULL, 2758 /*34*/ MatDuplicate_MPIAIJ, 2759 NULL, 2760 NULL, 2761 NULL, 2762 NULL, 2763 /*39*/ MatAXPY_MPIAIJ, 2764 MatCreateSubMatrices_MPIAIJ, 2765 MatIncreaseOverlap_MPIAIJ, 2766 MatGetValues_MPIAIJ, 2767 MatCopy_MPIAIJ, 2768 /*44*/ MatGetRowMax_MPIAIJ, 2769 MatScale_MPIAIJ, 2770 MatShift_MPIAIJ, 2771 MatDiagonalSet_MPIAIJ, 2772 MatZeroRowsColumns_MPIAIJ, 2773 /*49*/ MatSetRandom_MPIAIJ, 2774 MatGetRowIJ_MPIAIJ, 2775 MatRestoreRowIJ_MPIAIJ, 2776 NULL, 2777 NULL, 2778 /*54*/ MatFDColoringCreate_MPIXAIJ, 2779 NULL, 2780 MatSetUnfactored_MPIAIJ, 2781 MatPermute_MPIAIJ, 2782 NULL, 2783 /*59*/ MatCreateSubMatrix_MPIAIJ, 2784 MatDestroy_MPIAIJ, 2785 MatView_MPIAIJ, 2786 NULL, 2787 NULL, 2788 /*64*/ MatMatMatMultNumeric_MPIAIJ_MPIAIJ_MPIAIJ, 2789 NULL, 2790 NULL, 2791 NULL, 2792 MatGetRowMaxAbs_MPIAIJ, 2793 /*69*/ MatGetRowMinAbs_MPIAIJ, 2794 NULL, 2795 NULL, 2796 MatFDColoringApply_AIJ, 2797 MatSetFromOptions_MPIAIJ, 2798 MatFindZeroDiagonals_MPIAIJ, 2799 /*75*/ NULL, 2800 NULL, 2801 NULL, 2802 MatLoad_MPIAIJ, 2803 NULL, 2804 /*80*/ NULL, 2805 NULL, 2806 NULL, 2807 /*83*/ NULL, 2808 NULL, 2809 MatMatMultNumeric_MPIAIJ_MPIAIJ, 2810 MatPtAPNumeric_MPIAIJ_MPIAIJ, 2811 NULL, 2812 NULL, 2813 /*89*/ MatBindToCPU_MPIAIJ, 2814 MatProductSetFromOptions_MPIAIJ, 2815 NULL, 2816 NULL, 2817 MatConjugate_MPIAIJ, 2818 /*94*/ NULL, 2819 MatSetValuesRow_MPIAIJ, 2820 MatRealPart_MPIAIJ, 2821 MatImaginaryPart_MPIAIJ, 2822 NULL, 2823 /*99*/ NULL, 2824 NULL, 2825 NULL, 2826 MatGetRowMin_MPIAIJ, 2827 NULL, 2828 /*104*/ MatMissingDiagonal_MPIAIJ, 2829 MatGetSeqNonzeroStructure_MPIAIJ, 2830 NULL, 2831 MatGetGhosts_MPIAIJ, 2832 NULL, 2833 /*109*/ NULL, 2834 MatMultDiagonalBlock_MPIAIJ, 2835 NULL, 2836 NULL, 2837 NULL, 2838 /*114*/ MatGetMultiProcBlock_MPIAIJ, 2839 MatFindNonzeroRows_MPIAIJ, 2840 MatGetColumnReductions_MPIAIJ, 2841 MatInvertBlockDiagonal_MPIAIJ, 2842 MatInvertVariableBlockDiagonal_MPIAIJ, 2843 /*119*/ MatCreateSubMatricesMPI_MPIAIJ, 2844 NULL, 2845 NULL, 2846 MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ, 2847 NULL, 2848 /*124*/ NULL, 2849 NULL, 2850 NULL, 2851 MatSetBlockSizes_MPIAIJ, 2852 NULL, 2853 /*129*/ MatFDColoringSetUp_MPIXAIJ, 2854 MatFindOffBlockDiagonalEntries_MPIAIJ, 2855 MatCreateMPIMatConcatenateSeqMat_MPIAIJ, 2856 NULL, 2857 NULL, 2858 /*134*/ NULL, 2859 MatCreateGraph_Simple_AIJ, 2860 NULL, 2861 MatEliminateZeros_MPIAIJ, 2862 MatGetRowSumAbs_MPIAIJ, 2863 /*139*/ NULL, 2864 NULL, 2865 NULL, 2866 MatCopyHashToXAIJ_MPI_Hash}; 2867 2868 static PetscErrorCode MatStoreValues_MPIAIJ(Mat mat) 2869 { 2870 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 2871 2872 PetscFunctionBegin; 2873 PetscCall(MatStoreValues(aij->A)); 2874 PetscCall(MatStoreValues(aij->B)); 2875 PetscFunctionReturn(PETSC_SUCCESS); 2876 } 2877 2878 static PetscErrorCode MatRetrieveValues_MPIAIJ(Mat mat) 2879 { 2880 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 2881 2882 PetscFunctionBegin; 2883 PetscCall(MatRetrieveValues(aij->A)); 2884 PetscCall(MatRetrieveValues(aij->B)); 2885 PetscFunctionReturn(PETSC_SUCCESS); 2886 } 2887 2888 PetscErrorCode MatMPIAIJSetPreallocation_MPIAIJ(Mat B, PetscInt d_nz, const PetscInt d_nnz[], PetscInt o_nz, const PetscInt o_nnz[]) 2889 { 2890 Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 2891 PetscMPIInt size; 2892 2893 PetscFunctionBegin; 2894 if (B->hash_active) { 2895 B->ops[0] = b->cops; 2896 B->hash_active = PETSC_FALSE; 2897 } 2898 PetscCall(PetscLayoutSetUp(B->rmap)); 2899 PetscCall(PetscLayoutSetUp(B->cmap)); 2900 2901 #if defined(PETSC_USE_CTABLE) 2902 PetscCall(PetscHMapIDestroy(&b->colmap)); 2903 #else 2904 PetscCall(PetscFree(b->colmap)); 2905 #endif 2906 PetscCall(PetscFree(b->garray)); 2907 PetscCall(VecDestroy(&b->lvec)); 2908 PetscCall(VecScatterDestroy(&b->Mvctx)); 2909 2910 PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)B), &size)); 2911 2912 MatSeqXAIJGetOptions_Private(b->B); 2913 PetscCall(MatDestroy(&b->B)); 2914 PetscCall(MatCreate(PETSC_COMM_SELF, &b->B)); 2915 PetscCall(MatSetSizes(b->B, B->rmap->n, size > 1 ? B->cmap->N : 0, B->rmap->n, size > 1 ? B->cmap->N : 0)); 2916 PetscCall(MatSetBlockSizesFromMats(b->B, B, B)); 2917 PetscCall(MatSetType(b->B, MATSEQAIJ)); 2918 MatSeqXAIJRestoreOptions_Private(b->B); 2919 2920 MatSeqXAIJGetOptions_Private(b->A); 2921 PetscCall(MatDestroy(&b->A)); 2922 PetscCall(MatCreate(PETSC_COMM_SELF, &b->A)); 2923 PetscCall(MatSetSizes(b->A, B->rmap->n, B->cmap->n, B->rmap->n, B->cmap->n)); 2924 PetscCall(MatSetBlockSizesFromMats(b->A, B, B)); 2925 PetscCall(MatSetType(b->A, MATSEQAIJ)); 2926 MatSeqXAIJRestoreOptions_Private(b->A); 2927 2928 PetscCall(MatSeqAIJSetPreallocation(b->A, d_nz, d_nnz)); 2929 PetscCall(MatSeqAIJSetPreallocation(b->B, o_nz, o_nnz)); 2930 B->preallocated = PETSC_TRUE; 2931 B->was_assembled = PETSC_FALSE; 2932 B->assembled = PETSC_FALSE; 2933 PetscFunctionReturn(PETSC_SUCCESS); 2934 } 2935 2936 static PetscErrorCode MatResetPreallocation_MPIAIJ(Mat B) 2937 { 2938 Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 2939 PetscBool ondiagreset, offdiagreset, memoryreset; 2940 2941 PetscFunctionBegin; 2942 PetscValidHeaderSpecific(B, MAT_CLASSID, 1); 2943 PetscCheck(B->insertmode == NOT_SET_VALUES, PETSC_COMM_SELF, PETSC_ERR_SUP, "Cannot reset preallocation after setting some values but not yet calling MatAssemblyBegin()/MatAssemblyEnd()"); 2944 if (B->num_ass == 0) PetscFunctionReturn(PETSC_SUCCESS); 2945 2946 PetscCall(MatResetPreallocation_SeqAIJ_Private(b->A, &ondiagreset)); 2947 PetscCall(MatResetPreallocation_SeqAIJ_Private(b->B, &offdiagreset)); 2948 memoryreset = (PetscBool)(ondiagreset || offdiagreset); 2949 PetscCallMPI(MPIU_Allreduce(MPI_IN_PLACE, &memoryreset, 1, MPIU_BOOL, MPI_LOR, PetscObjectComm((PetscObject)B))); 2950 if (!memoryreset) PetscFunctionReturn(PETSC_SUCCESS); 2951 2952 PetscCall(PetscLayoutSetUp(B->rmap)); 2953 PetscCall(PetscLayoutSetUp(B->cmap)); 2954 PetscCheck(B->assembled || B->was_assembled, PetscObjectComm((PetscObject)B), PETSC_ERR_ARG_WRONGSTATE, "Should not need to reset preallocation if the matrix was never assembled"); 2955 PetscCall(MatDisAssemble_MPIAIJ(B, PETSC_TRUE)); 2956 PetscCall(VecScatterDestroy(&b->Mvctx)); 2957 2958 B->preallocated = PETSC_TRUE; 2959 B->was_assembled = PETSC_FALSE; 2960 B->assembled = PETSC_FALSE; 2961 /* Log that the state of this object has changed; this will help guarantee that preconditioners get re-setup */ 2962 PetscCall(PetscObjectStateIncrease((PetscObject)B)); 2963 PetscFunctionReturn(PETSC_SUCCESS); 2964 } 2965 2966 PetscErrorCode MatDuplicate_MPIAIJ(Mat matin, MatDuplicateOption cpvalues, Mat *newmat) 2967 { 2968 Mat mat; 2969 Mat_MPIAIJ *a, *oldmat = (Mat_MPIAIJ *)matin->data; 2970 2971 PetscFunctionBegin; 2972 *newmat = NULL; 2973 PetscCall(MatCreate(PetscObjectComm((PetscObject)matin), &mat)); 2974 PetscCall(MatSetSizes(mat, matin->rmap->n, matin->cmap->n, matin->rmap->N, matin->cmap->N)); 2975 PetscCall(MatSetBlockSizesFromMats(mat, matin, matin)); 2976 PetscCall(MatSetType(mat, ((PetscObject)matin)->type_name)); 2977 a = (Mat_MPIAIJ *)mat->data; 2978 2979 mat->factortype = matin->factortype; 2980 mat->assembled = matin->assembled; 2981 mat->insertmode = NOT_SET_VALUES; 2982 2983 a->size = oldmat->size; 2984 a->rank = oldmat->rank; 2985 a->donotstash = oldmat->donotstash; 2986 a->roworiented = oldmat->roworiented; 2987 a->rowindices = NULL; 2988 a->rowvalues = NULL; 2989 a->getrowactive = PETSC_FALSE; 2990 2991 PetscCall(PetscLayoutReference(matin->rmap, &mat->rmap)); 2992 PetscCall(PetscLayoutReference(matin->cmap, &mat->cmap)); 2993 if (matin->hash_active) { 2994 PetscCall(MatSetUp(mat)); 2995 } else { 2996 mat->preallocated = matin->preallocated; 2997 if (oldmat->colmap) { 2998 #if defined(PETSC_USE_CTABLE) 2999 PetscCall(PetscHMapIDuplicate(oldmat->colmap, &a->colmap)); 3000 #else 3001 PetscCall(PetscMalloc1(mat->cmap->N, &a->colmap)); 3002 PetscCall(PetscArraycpy(a->colmap, oldmat->colmap, mat->cmap->N)); 3003 #endif 3004 } else a->colmap = NULL; 3005 if (oldmat->garray) { 3006 PetscInt len; 3007 len = oldmat->B->cmap->n; 3008 PetscCall(PetscMalloc1(len + 1, &a->garray)); 3009 if (len) PetscCall(PetscArraycpy(a->garray, oldmat->garray, len)); 3010 } else a->garray = NULL; 3011 3012 /* It may happen MatDuplicate is called with a non-assembled matrix 3013 In fact, MatDuplicate only requires the matrix to be preallocated 3014 This may happen inside a DMCreateMatrix_Shell */ 3015 if (oldmat->lvec) PetscCall(VecDuplicate(oldmat->lvec, &a->lvec)); 3016 if (oldmat->Mvctx) { 3017 a->Mvctx = oldmat->Mvctx; 3018 PetscCall(PetscObjectReference((PetscObject)oldmat->Mvctx)); 3019 } 3020 PetscCall(MatDuplicate(oldmat->A, cpvalues, &a->A)); 3021 PetscCall(MatDuplicate(oldmat->B, cpvalues, &a->B)); 3022 } 3023 PetscCall(PetscFunctionListDuplicate(((PetscObject)matin)->qlist, &((PetscObject)mat)->qlist)); 3024 *newmat = mat; 3025 PetscFunctionReturn(PETSC_SUCCESS); 3026 } 3027 3028 PetscErrorCode MatLoad_MPIAIJ(Mat newMat, PetscViewer viewer) 3029 { 3030 PetscBool isbinary, ishdf5; 3031 3032 PetscFunctionBegin; 3033 PetscValidHeaderSpecific(newMat, MAT_CLASSID, 1); 3034 PetscValidHeaderSpecific(viewer, PETSC_VIEWER_CLASSID, 2); 3035 /* force binary viewer to load .info file if it has not yet done so */ 3036 PetscCall(PetscViewerSetUp(viewer)); 3037 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERBINARY, &isbinary)); 3038 PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERHDF5, &ishdf5)); 3039 if (isbinary) { 3040 PetscCall(MatLoad_MPIAIJ_Binary(newMat, viewer)); 3041 } else if (ishdf5) { 3042 #if defined(PETSC_HAVE_HDF5) 3043 PetscCall(MatLoad_AIJ_HDF5(newMat, viewer)); 3044 #else 3045 SETERRQ(PetscObjectComm((PetscObject)newMat), PETSC_ERR_SUP, "HDF5 not supported in this build.\nPlease reconfigure using --download-hdf5"); 3046 #endif 3047 } else { 3048 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); 3049 } 3050 PetscFunctionReturn(PETSC_SUCCESS); 3051 } 3052 3053 PetscErrorCode MatLoad_MPIAIJ_Binary(Mat mat, PetscViewer viewer) 3054 { 3055 PetscInt header[4], M, N, m, nz, rows, cols, sum, i; 3056 PetscInt *rowidxs, *colidxs; 3057 PetscScalar *matvals; 3058 3059 PetscFunctionBegin; 3060 PetscCall(PetscViewerSetUp(viewer)); 3061 3062 /* read in matrix header */ 3063 PetscCall(PetscViewerBinaryRead(viewer, header, 4, NULL, PETSC_INT)); 3064 PetscCheck(header[0] == MAT_FILE_CLASSID, PetscObjectComm((PetscObject)viewer), PETSC_ERR_FILE_UNEXPECTED, "Not a matrix object in file"); 3065 M = header[1]; 3066 N = header[2]; 3067 nz = header[3]; 3068 PetscCheck(M >= 0, PetscObjectComm((PetscObject)viewer), PETSC_ERR_FILE_UNEXPECTED, "Matrix row size (%" PetscInt_FMT ") in file is negative", M); 3069 PetscCheck(N >= 0, PetscObjectComm((PetscObject)viewer), PETSC_ERR_FILE_UNEXPECTED, "Matrix column size (%" PetscInt_FMT ") in file is negative", N); 3070 PetscCheck(nz >= 0, PETSC_COMM_SELF, PETSC_ERR_FILE_UNEXPECTED, "Matrix stored in special format on disk, cannot load as MPIAIJ"); 3071 3072 /* set block sizes from the viewer's .info file */ 3073 PetscCall(MatLoad_Binary_BlockSizes(mat, viewer)); 3074 /* set global sizes if not set already */ 3075 if (mat->rmap->N < 0) mat->rmap->N = M; 3076 if (mat->cmap->N < 0) mat->cmap->N = N; 3077 PetscCall(PetscLayoutSetUp(mat->rmap)); 3078 PetscCall(PetscLayoutSetUp(mat->cmap)); 3079 3080 /* check if the matrix sizes are correct */ 3081 PetscCall(MatGetSize(mat, &rows, &cols)); 3082 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); 3083 3084 /* read in row lengths and build row indices */ 3085 PetscCall(MatGetLocalSize(mat, &m, NULL)); 3086 PetscCall(PetscMalloc1(m + 1, &rowidxs)); 3087 PetscCall(PetscViewerBinaryReadAll(viewer, rowidxs + 1, m, PETSC_DECIDE, M, PETSC_INT)); 3088 rowidxs[0] = 0; 3089 for (i = 0; i < m; i++) rowidxs[i + 1] += rowidxs[i]; 3090 if (nz != PETSC_INT_MAX) { 3091 PetscCallMPI(MPIU_Allreduce(&rowidxs[m], &sum, 1, MPIU_INT, MPI_SUM, PetscObjectComm((PetscObject)viewer))); 3092 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); 3093 } 3094 3095 /* read in column indices and matrix values */ 3096 PetscCall(PetscMalloc2(rowidxs[m], &colidxs, rowidxs[m], &matvals)); 3097 PetscCall(PetscViewerBinaryReadAll(viewer, colidxs, rowidxs[m], PETSC_DETERMINE, PETSC_DETERMINE, PETSC_INT)); 3098 PetscCall(PetscViewerBinaryReadAll(viewer, matvals, rowidxs[m], PETSC_DETERMINE, PETSC_DETERMINE, PETSC_SCALAR)); 3099 /* store matrix indices and values */ 3100 PetscCall(MatMPIAIJSetPreallocationCSR(mat, rowidxs, colidxs, matvals)); 3101 PetscCall(PetscFree(rowidxs)); 3102 PetscCall(PetscFree2(colidxs, matvals)); 3103 PetscFunctionReturn(PETSC_SUCCESS); 3104 } 3105 3106 /* Not scalable because of ISAllGather() unless getting all columns. */ 3107 static PetscErrorCode ISGetSeqIS_Private(Mat mat, IS iscol, IS *isseq) 3108 { 3109 IS iscol_local; 3110 PetscBool isstride; 3111 PetscMPIInt gisstride = 0; 3112 3113 PetscFunctionBegin; 3114 /* check if we are grabbing all columns*/ 3115 PetscCall(PetscObjectTypeCompare((PetscObject)iscol, ISSTRIDE, &isstride)); 3116 3117 if (isstride) { 3118 PetscInt start, len, mstart, mlen; 3119 PetscCall(ISStrideGetInfo(iscol, &start, NULL)); 3120 PetscCall(ISGetLocalSize(iscol, &len)); 3121 PetscCall(MatGetOwnershipRangeColumn(mat, &mstart, &mlen)); 3122 if (mstart == start && mlen - mstart == len) gisstride = 1; 3123 } 3124 3125 PetscCallMPI(MPIU_Allreduce(MPI_IN_PLACE, &gisstride, 1, MPI_INT, MPI_MIN, PetscObjectComm((PetscObject)mat))); 3126 if (gisstride) { 3127 PetscInt N; 3128 PetscCall(MatGetSize(mat, NULL, &N)); 3129 PetscCall(ISCreateStride(PETSC_COMM_SELF, N, 0, 1, &iscol_local)); 3130 PetscCall(ISSetIdentity(iscol_local)); 3131 PetscCall(PetscInfo(mat, "Optimizing for obtaining all columns of the matrix; skipping ISAllGather()\n")); 3132 } else { 3133 PetscInt cbs; 3134 PetscCall(ISGetBlockSize(iscol, &cbs)); 3135 PetscCall(ISAllGather(iscol, &iscol_local)); 3136 PetscCall(ISSetBlockSize(iscol_local, cbs)); 3137 } 3138 3139 *isseq = iscol_local; 3140 PetscFunctionReturn(PETSC_SUCCESS); 3141 } 3142 3143 /* 3144 Used by MatCreateSubMatrix_MPIAIJ_SameRowColDist() to avoid ISAllGather() and global size of iscol_local 3145 (see MatCreateSubMatrix_MPIAIJ_nonscalable) 3146 3147 Input Parameters: 3148 + mat - matrix 3149 . isrow - parallel row index set; its local indices are a subset of local columns of `mat`, 3150 i.e., mat->rstart <= isrow[i] < mat->rend 3151 - iscol - parallel column index set; its local indices are a subset of local columns of `mat`, 3152 i.e., mat->cstart <= iscol[i] < mat->cend 3153 3154 Output Parameters: 3155 + isrow_d - sequential row index set for retrieving mat->A 3156 . iscol_d - sequential column index set for retrieving mat->A 3157 . iscol_o - sequential column index set for retrieving mat->B 3158 - garray - column map; garray[i] indicates global location of iscol_o[i] in `iscol` 3159 */ 3160 static PetscErrorCode ISGetSeqIS_SameColDist_Private(Mat mat, IS isrow, IS iscol, IS *isrow_d, IS *iscol_d, IS *iscol_o, PetscInt *garray[]) 3161 { 3162 Vec x, cmap; 3163 const PetscInt *is_idx; 3164 PetscScalar *xarray, *cmaparray; 3165 PetscInt ncols, isstart, *idx, m, rstart, *cmap1, count; 3166 Mat_MPIAIJ *a = (Mat_MPIAIJ *)mat->data; 3167 Mat B = a->B; 3168 Vec lvec = a->lvec, lcmap; 3169 PetscInt i, cstart, cend, Bn = B->cmap->N; 3170 MPI_Comm comm; 3171 VecScatter Mvctx = a->Mvctx; 3172 3173 PetscFunctionBegin; 3174 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 3175 PetscCall(ISGetLocalSize(iscol, &ncols)); 3176 3177 /* (1) iscol is a sub-column vector of mat, pad it with '-1.' to form a full vector x */ 3178 PetscCall(MatCreateVecs(mat, &x, NULL)); 3179 PetscCall(VecSet(x, -1.0)); 3180 PetscCall(VecDuplicate(x, &cmap)); 3181 PetscCall(VecSet(cmap, -1.0)); 3182 3183 /* Get start indices */ 3184 PetscCallMPI(MPI_Scan(&ncols, &isstart, 1, MPIU_INT, MPI_SUM, comm)); 3185 isstart -= ncols; 3186 PetscCall(MatGetOwnershipRangeColumn(mat, &cstart, &cend)); 3187 3188 PetscCall(ISGetIndices(iscol, &is_idx)); 3189 PetscCall(VecGetArray(x, &xarray)); 3190 PetscCall(VecGetArray(cmap, &cmaparray)); 3191 PetscCall(PetscMalloc1(ncols, &idx)); 3192 for (i = 0; i < ncols; i++) { 3193 xarray[is_idx[i] - cstart] = (PetscScalar)is_idx[i]; 3194 cmaparray[is_idx[i] - cstart] = i + isstart; /* global index of iscol[i] */ 3195 idx[i] = is_idx[i] - cstart; /* local index of iscol[i] */ 3196 } 3197 PetscCall(VecRestoreArray(x, &xarray)); 3198 PetscCall(VecRestoreArray(cmap, &cmaparray)); 3199 PetscCall(ISRestoreIndices(iscol, &is_idx)); 3200 3201 /* Get iscol_d */ 3202 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, ncols, idx, PETSC_OWN_POINTER, iscol_d)); 3203 PetscCall(ISGetBlockSize(iscol, &i)); 3204 PetscCall(ISSetBlockSize(*iscol_d, i)); 3205 3206 /* Get isrow_d */ 3207 PetscCall(ISGetLocalSize(isrow, &m)); 3208 rstart = mat->rmap->rstart; 3209 PetscCall(PetscMalloc1(m, &idx)); 3210 PetscCall(ISGetIndices(isrow, &is_idx)); 3211 for (i = 0; i < m; i++) idx[i] = is_idx[i] - rstart; 3212 PetscCall(ISRestoreIndices(isrow, &is_idx)); 3213 3214 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, m, idx, PETSC_OWN_POINTER, isrow_d)); 3215 PetscCall(ISGetBlockSize(isrow, &i)); 3216 PetscCall(ISSetBlockSize(*isrow_d, i)); 3217 3218 /* (2) Scatter x and cmap using aij->Mvctx to get their off-process portions (see MatMult_MPIAIJ) */ 3219 PetscCall(VecScatterBegin(Mvctx, x, lvec, INSERT_VALUES, SCATTER_FORWARD)); 3220 PetscCall(VecScatterEnd(Mvctx, x, lvec, INSERT_VALUES, SCATTER_FORWARD)); 3221 3222 PetscCall(VecDuplicate(lvec, &lcmap)); 3223 3224 PetscCall(VecScatterBegin(Mvctx, cmap, lcmap, INSERT_VALUES, SCATTER_FORWARD)); 3225 PetscCall(VecScatterEnd(Mvctx, cmap, lcmap, INSERT_VALUES, SCATTER_FORWARD)); 3226 3227 /* (3) create sequential iscol_o (a subset of iscol) and isgarray */ 3228 /* off-process column indices */ 3229 count = 0; 3230 PetscCall(PetscMalloc1(Bn, &idx)); 3231 PetscCall(PetscMalloc1(Bn, &cmap1)); 3232 3233 PetscCall(VecGetArray(lvec, &xarray)); 3234 PetscCall(VecGetArray(lcmap, &cmaparray)); 3235 for (i = 0; i < Bn; i++) { 3236 if (PetscRealPart(xarray[i]) > -1.0) { 3237 idx[count] = i; /* local column index in off-diagonal part B */ 3238 cmap1[count] = (PetscInt)PetscRealPart(cmaparray[i]); /* column index in submat */ 3239 count++; 3240 } 3241 } 3242 PetscCall(VecRestoreArray(lvec, &xarray)); 3243 PetscCall(VecRestoreArray(lcmap, &cmaparray)); 3244 3245 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, count, idx, PETSC_COPY_VALUES, iscol_o)); 3246 /* cannot ensure iscol_o has same blocksize as iscol! */ 3247 3248 PetscCall(PetscFree(idx)); 3249 *garray = cmap1; 3250 3251 PetscCall(VecDestroy(&x)); 3252 PetscCall(VecDestroy(&cmap)); 3253 PetscCall(VecDestroy(&lcmap)); 3254 PetscFunctionReturn(PETSC_SUCCESS); 3255 } 3256 3257 /* isrow and iscol have same processor distribution as mat, output *submat is a submatrix of local mat */ 3258 PetscErrorCode MatCreateSubMatrix_MPIAIJ_SameRowColDist(Mat mat, IS isrow, IS iscol, MatReuse call, Mat *submat) 3259 { 3260 Mat_MPIAIJ *a = (Mat_MPIAIJ *)mat->data, *asub; 3261 Mat M = NULL; 3262 MPI_Comm comm; 3263 IS iscol_d, isrow_d, iscol_o; 3264 Mat Asub = NULL, Bsub = NULL; 3265 PetscInt n, count, M_size, N_size; 3266 3267 PetscFunctionBegin; 3268 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 3269 3270 if (call == MAT_REUSE_MATRIX) { 3271 /* Retrieve isrow_d, iscol_d and iscol_o from submat */ 3272 PetscCall(PetscObjectQuery((PetscObject)*submat, "isrow_d", (PetscObject *)&isrow_d)); 3273 PetscCheck(isrow_d, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "isrow_d passed in was not used before, cannot reuse"); 3274 3275 PetscCall(PetscObjectQuery((PetscObject)*submat, "iscol_d", (PetscObject *)&iscol_d)); 3276 PetscCheck(iscol_d, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "iscol_d passed in was not used before, cannot reuse"); 3277 3278 PetscCall(PetscObjectQuery((PetscObject)*submat, "iscol_o", (PetscObject *)&iscol_o)); 3279 PetscCheck(iscol_o, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "iscol_o passed in was not used before, cannot reuse"); 3280 3281 /* Update diagonal and off-diagonal portions of submat */ 3282 asub = (Mat_MPIAIJ *)(*submat)->data; 3283 PetscCall(MatCreateSubMatrix_SeqAIJ(a->A, isrow_d, iscol_d, PETSC_DECIDE, MAT_REUSE_MATRIX, &asub->A)); 3284 PetscCall(ISGetLocalSize(iscol_o, &n)); 3285 if (n) PetscCall(MatCreateSubMatrix_SeqAIJ(a->B, isrow_d, iscol_o, PETSC_DECIDE, MAT_REUSE_MATRIX, &asub->B)); 3286 PetscCall(MatAssemblyBegin(*submat, MAT_FINAL_ASSEMBLY)); 3287 PetscCall(MatAssemblyEnd(*submat, MAT_FINAL_ASSEMBLY)); 3288 3289 } else { /* call == MAT_INITIAL_MATRIX) */ 3290 PetscInt *garray, *garray_compact; 3291 PetscInt BsubN; 3292 3293 /* Create isrow_d, iscol_d, iscol_o and isgarray (replace isgarray with array?) */ 3294 PetscCall(ISGetSeqIS_SameColDist_Private(mat, isrow, iscol, &isrow_d, &iscol_d, &iscol_o, &garray)); 3295 3296 /* Create local submatrices Asub and Bsub */ 3297 PetscCall(MatCreateSubMatrix_SeqAIJ(a->A, isrow_d, iscol_d, PETSC_DECIDE, MAT_INITIAL_MATRIX, &Asub)); 3298 PetscCall(MatCreateSubMatrix_SeqAIJ(a->B, isrow_d, iscol_o, PETSC_DECIDE, MAT_INITIAL_MATRIX, &Bsub)); 3299 3300 // Compact garray so its not of size Bn 3301 PetscCall(ISGetSize(iscol_o, &count)); 3302 PetscCall(PetscMalloc1(count, &garray_compact)); 3303 PetscCall(PetscArraycpy(garray_compact, garray, count)); 3304 3305 /* Create submatrix M */ 3306 PetscCall(ISGetSize(isrow, &M_size)); 3307 PetscCall(ISGetSize(iscol, &N_size)); 3308 PetscCall(MatCreateMPIAIJWithSeqAIJ(comm, M_size, N_size, Asub, Bsub, garray_compact, &M)); 3309 3310 /* If Bsub has empty columns, compress iscol_o such that it will retrieve condensed Bsub from a->B during reuse */ 3311 asub = (Mat_MPIAIJ *)M->data; 3312 3313 PetscCall(ISGetLocalSize(iscol_o, &BsubN)); 3314 n = asub->B->cmap->N; 3315 if (BsubN > n) { 3316 /* This case can be tested using ~petsc/src/tao/bound/tutorials/runplate2_3 */ 3317 const PetscInt *idx; 3318 PetscInt i, j, *idx_new, *subgarray = asub->garray; 3319 PetscCall(PetscInfo(M, "submatrix Bn %" PetscInt_FMT " != BsubN %" PetscInt_FMT ", update iscol_o\n", n, BsubN)); 3320 3321 PetscCall(PetscMalloc1(n, &idx_new)); 3322 j = 0; 3323 PetscCall(ISGetIndices(iscol_o, &idx)); 3324 for (i = 0; i < n; i++) { 3325 if (j >= BsubN) break; 3326 while (subgarray[i] > garray[j]) j++; 3327 3328 if (subgarray[i] == garray[j]) { 3329 idx_new[i] = idx[j++]; 3330 } 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]); 3331 } 3332 PetscCall(ISRestoreIndices(iscol_o, &idx)); 3333 3334 PetscCall(ISDestroy(&iscol_o)); 3335 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, n, idx_new, PETSC_OWN_POINTER, &iscol_o)); 3336 3337 } else if (BsubN < n) { 3338 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); 3339 } 3340 3341 PetscCall(PetscFree(garray)); 3342 *submat = M; 3343 3344 /* Save isrow_d, iscol_d and iscol_o used in processor for next request */ 3345 PetscCall(PetscObjectCompose((PetscObject)M, "isrow_d", (PetscObject)isrow_d)); 3346 PetscCall(ISDestroy(&isrow_d)); 3347 3348 PetscCall(PetscObjectCompose((PetscObject)M, "iscol_d", (PetscObject)iscol_d)); 3349 PetscCall(ISDestroy(&iscol_d)); 3350 3351 PetscCall(PetscObjectCompose((PetscObject)M, "iscol_o", (PetscObject)iscol_o)); 3352 PetscCall(ISDestroy(&iscol_o)); 3353 } 3354 PetscFunctionReturn(PETSC_SUCCESS); 3355 } 3356 3357 PetscErrorCode MatCreateSubMatrix_MPIAIJ(Mat mat, IS isrow, IS iscol, MatReuse call, Mat *newmat) 3358 { 3359 IS iscol_local = NULL, isrow_d; 3360 PetscInt csize; 3361 PetscInt n, i, j, start, end; 3362 PetscBool sameRowDist = PETSC_FALSE, sameDist[2], tsameDist[2]; 3363 MPI_Comm comm; 3364 3365 PetscFunctionBegin; 3366 /* If isrow has same processor distribution as mat, 3367 call MatCreateSubMatrix_MPIAIJ_SameRowDist() to avoid using a hash table with global size of iscol */ 3368 if (call == MAT_REUSE_MATRIX) { 3369 PetscCall(PetscObjectQuery((PetscObject)*newmat, "isrow_d", (PetscObject *)&isrow_d)); 3370 if (isrow_d) { 3371 sameRowDist = PETSC_TRUE; 3372 tsameDist[1] = PETSC_TRUE; /* sameColDist */ 3373 } else { 3374 PetscCall(PetscObjectQuery((PetscObject)*newmat, "SubIScol", (PetscObject *)&iscol_local)); 3375 if (iscol_local) { 3376 sameRowDist = PETSC_TRUE; 3377 tsameDist[1] = PETSC_FALSE; /* !sameColDist */ 3378 } 3379 } 3380 } else { 3381 /* Check if isrow has same processor distribution as mat */ 3382 sameDist[0] = PETSC_FALSE; 3383 PetscCall(ISGetLocalSize(isrow, &n)); 3384 if (!n) { 3385 sameDist[0] = PETSC_TRUE; 3386 } else { 3387 PetscCall(ISGetMinMax(isrow, &i, &j)); 3388 PetscCall(MatGetOwnershipRange(mat, &start, &end)); 3389 if (i >= start && j < end) sameDist[0] = PETSC_TRUE; 3390 } 3391 3392 /* Check if iscol has same processor distribution as mat */ 3393 sameDist[1] = PETSC_FALSE; 3394 PetscCall(ISGetLocalSize(iscol, &n)); 3395 if (!n) { 3396 sameDist[1] = PETSC_TRUE; 3397 } else { 3398 PetscCall(ISGetMinMax(iscol, &i, &j)); 3399 PetscCall(MatGetOwnershipRangeColumn(mat, &start, &end)); 3400 if (i >= start && j < end) sameDist[1] = PETSC_TRUE; 3401 } 3402 3403 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 3404 PetscCallMPI(MPIU_Allreduce(&sameDist, &tsameDist, 2, MPIU_BOOL, MPI_LAND, comm)); 3405 sameRowDist = tsameDist[0]; 3406 } 3407 3408 if (sameRowDist) { 3409 if (tsameDist[1]) { /* sameRowDist & sameColDist */ 3410 /* isrow and iscol have same processor distribution as mat */ 3411 PetscCall(MatCreateSubMatrix_MPIAIJ_SameRowColDist(mat, isrow, iscol, call, newmat)); 3412 PetscFunctionReturn(PETSC_SUCCESS); 3413 } else { /* sameRowDist */ 3414 /* isrow has same processor distribution as mat */ 3415 if (call == MAT_INITIAL_MATRIX) { 3416 PetscBool sorted; 3417 PetscCall(ISGetSeqIS_Private(mat, iscol, &iscol_local)); 3418 PetscCall(ISGetLocalSize(iscol_local, &n)); /* local size of iscol_local = global columns of newmat */ 3419 PetscCall(ISGetSize(iscol, &i)); 3420 PetscCheck(n == i, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "n %" PetscInt_FMT " != size of iscol %" PetscInt_FMT, n, i); 3421 3422 PetscCall(ISSorted(iscol_local, &sorted)); 3423 if (sorted) { 3424 /* MatCreateSubMatrix_MPIAIJ_SameRowDist() requires iscol_local be sorted; it can have duplicate indices */ 3425 PetscCall(MatCreateSubMatrix_MPIAIJ_SameRowDist(mat, isrow, iscol, iscol_local, MAT_INITIAL_MATRIX, newmat)); 3426 PetscFunctionReturn(PETSC_SUCCESS); 3427 } 3428 } else { /* call == MAT_REUSE_MATRIX */ 3429 IS iscol_sub; 3430 PetscCall(PetscObjectQuery((PetscObject)*newmat, "SubIScol", (PetscObject *)&iscol_sub)); 3431 if (iscol_sub) { 3432 PetscCall(MatCreateSubMatrix_MPIAIJ_SameRowDist(mat, isrow, iscol, NULL, call, newmat)); 3433 PetscFunctionReturn(PETSC_SUCCESS); 3434 } 3435 } 3436 } 3437 } 3438 3439 /* General case: iscol -> iscol_local which has global size of iscol */ 3440 if (call == MAT_REUSE_MATRIX) { 3441 PetscCall(PetscObjectQuery((PetscObject)*newmat, "ISAllGather", (PetscObject *)&iscol_local)); 3442 PetscCheck(iscol_local, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Submatrix passed in was not used before, cannot reuse"); 3443 } else { 3444 if (!iscol_local) PetscCall(ISGetSeqIS_Private(mat, iscol, &iscol_local)); 3445 } 3446 3447 PetscCall(ISGetLocalSize(iscol, &csize)); 3448 PetscCall(MatCreateSubMatrix_MPIAIJ_nonscalable(mat, isrow, iscol_local, csize, call, newmat)); 3449 3450 if (call == MAT_INITIAL_MATRIX) { 3451 PetscCall(PetscObjectCompose((PetscObject)*newmat, "ISAllGather", (PetscObject)iscol_local)); 3452 PetscCall(ISDestroy(&iscol_local)); 3453 } 3454 PetscFunctionReturn(PETSC_SUCCESS); 3455 } 3456 3457 /*@C 3458 MatCreateMPIAIJWithSeqAIJ - creates a `MATMPIAIJ` matrix using `MATSEQAIJ` matrices that contain the "diagonal" 3459 and "off-diagonal" part of the matrix in CSR format. 3460 3461 Collective 3462 3463 Input Parameters: 3464 + comm - MPI communicator 3465 . M - the global row size 3466 . N - the global column size 3467 . A - "diagonal" portion of matrix 3468 . B - if garray is `NULL`, B should be the offdiag matrix using global col ids and of size N - if garray is not `NULL`, B should be the offdiag matrix using local col ids and of size garray 3469 - garray - either `NULL` or the global index of `B` columns 3470 3471 Output Parameter: 3472 . mat - the matrix, with input `A` as its local diagonal matrix 3473 3474 Level: advanced 3475 3476 Notes: 3477 See `MatCreateAIJ()` for the definition of "diagonal" and "off-diagonal" portion of the matrix. 3478 3479 `A` and `B` becomes part of output mat. The user cannot use `A` and `B` anymore. 3480 3481 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MATSEQAIJ`, `MatCreateMPIAIJWithSplitArrays()` 3482 @*/ 3483 PetscErrorCode MatCreateMPIAIJWithSeqAIJ(MPI_Comm comm, PetscInt M, PetscInt N, Mat A, Mat B, PetscInt *garray, Mat *mat) 3484 { 3485 PetscInt m, n; 3486 MatType mpi_mat_type; 3487 Mat_MPIAIJ *mpiaij; 3488 Mat C; 3489 3490 PetscFunctionBegin; 3491 PetscCall(MatCreate(comm, &C)); 3492 PetscCall(MatGetSize(A, &m, &n)); 3493 PetscCheck(m == B->rmap->N, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Am %" PetscInt_FMT " != Bm %" PetscInt_FMT, m, B->rmap->N); 3494 PetscCheck(A->rmap->bs == 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); 3495 3496 PetscCall(MatSetSizes(C, m, n, M, N)); 3497 /* Determine the type of MPI matrix that should be created from the type of matrix A, which holds the "diagonal" portion. */ 3498 PetscCall(MatGetMPIMatType_Private(A, &mpi_mat_type)); 3499 PetscCall(MatSetType(C, mpi_mat_type)); 3500 3501 PetscCall(MatSetBlockSizes(C, A->rmap->bs, A->cmap->bs)); 3502 PetscCall(PetscLayoutSetUp(C->rmap)); 3503 PetscCall(PetscLayoutSetUp(C->cmap)); 3504 3505 mpiaij = (Mat_MPIAIJ *)C->data; 3506 mpiaij->A = A; 3507 mpiaij->B = B; 3508 mpiaij->garray = garray; 3509 C->preallocated = PETSC_TRUE; 3510 C->nooffprocentries = PETSC_TRUE; /* See MatAssemblyBegin_MPIAIJ. In effect, making MatAssemblyBegin a nop */ 3511 3512 PetscCall(MatSetOption(C, MAT_NO_OFF_PROC_ENTRIES, PETSC_TRUE)); 3513 PetscCall(MatAssemblyBegin(C, MAT_FINAL_ASSEMBLY)); 3514 /* MatAssemblyEnd is critical here. It sets mat->offloadmask according to A and B's, and 3515 also gets mpiaij->B compacted (if garray is NULL), with its col ids and size reduced 3516 */ 3517 PetscCall(MatAssemblyEnd(C, MAT_FINAL_ASSEMBLY)); 3518 PetscCall(MatSetOption(C, MAT_NO_OFF_PROC_ENTRIES, PETSC_FALSE)); 3519 PetscCall(MatSetOption(C, MAT_NEW_NONZERO_LOCATION_ERR, PETSC_TRUE)); 3520 *mat = C; 3521 PetscFunctionReturn(PETSC_SUCCESS); 3522 } 3523 3524 extern PetscErrorCode MatCreateSubMatrices_MPIAIJ_SingleIS_Local(Mat, PetscInt, const IS[], const IS[], MatReuse, PetscBool, Mat *); 3525 3526 PetscErrorCode MatCreateSubMatrix_MPIAIJ_SameRowDist(Mat mat, IS isrow, IS iscol, IS iscol_local, MatReuse call, Mat *newmat) 3527 { 3528 PetscInt i, m, n, rstart, row, rend, nz, j, bs, cbs; 3529 PetscInt *ii, *jj, nlocal, *dlens, *olens, dlen, olen, jend, mglobal; 3530 Mat_MPIAIJ *a = (Mat_MPIAIJ *)mat->data; 3531 Mat M, Msub, B = a->B; 3532 MatScalar *aa; 3533 Mat_SeqAIJ *aij; 3534 PetscInt *garray = a->garray, *colsub, Ncols; 3535 PetscInt count, Bn = B->cmap->N, cstart = mat->cmap->rstart, cend = mat->cmap->rend; 3536 IS iscol_sub, iscmap; 3537 const PetscInt *is_idx, *cmap; 3538 PetscBool allcolumns = PETSC_FALSE; 3539 MPI_Comm comm; 3540 3541 PetscFunctionBegin; 3542 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 3543 if (call == MAT_REUSE_MATRIX) { 3544 PetscCall(PetscObjectQuery((PetscObject)*newmat, "SubIScol", (PetscObject *)&iscol_sub)); 3545 PetscCheck(iscol_sub, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "SubIScol passed in was not used before, cannot reuse"); 3546 PetscCall(ISGetLocalSize(iscol_sub, &count)); 3547 3548 PetscCall(PetscObjectQuery((PetscObject)*newmat, "Subcmap", (PetscObject *)&iscmap)); 3549 PetscCheck(iscmap, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Subcmap passed in was not used before, cannot reuse"); 3550 3551 PetscCall(PetscObjectQuery((PetscObject)*newmat, "SubMatrix", (PetscObject *)&Msub)); 3552 PetscCheck(Msub, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Submatrix passed in was not used before, cannot reuse"); 3553 3554 PetscCall(MatCreateSubMatrices_MPIAIJ_SingleIS_Local(mat, 1, &isrow, &iscol_sub, MAT_REUSE_MATRIX, PETSC_FALSE, &Msub)); 3555 3556 } else { /* call == MAT_INITIAL_MATRIX) */ 3557 PetscBool flg; 3558 3559 PetscCall(ISGetLocalSize(iscol, &n)); 3560 PetscCall(ISGetSize(iscol, &Ncols)); 3561 3562 /* (1) iscol -> nonscalable iscol_local */ 3563 /* Check for special case: each processor gets entire matrix columns */ 3564 PetscCall(ISIdentity(iscol_local, &flg)); 3565 if (flg && n == mat->cmap->N) allcolumns = PETSC_TRUE; 3566 PetscCallMPI(MPIU_Allreduce(MPI_IN_PLACE, &allcolumns, 1, MPIU_BOOL, MPI_LAND, PetscObjectComm((PetscObject)mat))); 3567 if (allcolumns) { 3568 iscol_sub = iscol_local; 3569 PetscCall(PetscObjectReference((PetscObject)iscol_local)); 3570 PetscCall(ISCreateStride(PETSC_COMM_SELF, n, 0, 1, &iscmap)); 3571 3572 } else { 3573 /* (2) iscol_local -> iscol_sub and iscmap. Implementation below requires iscol_local be sorted, it can have duplicate indices */ 3574 PetscInt *idx, *cmap1, k; 3575 PetscCall(PetscMalloc1(Ncols, &idx)); 3576 PetscCall(PetscMalloc1(Ncols, &cmap1)); 3577 PetscCall(ISGetIndices(iscol_local, &is_idx)); 3578 count = 0; 3579 k = 0; 3580 for (i = 0; i < Ncols; i++) { 3581 j = is_idx[i]; 3582 if (j >= cstart && j < cend) { 3583 /* diagonal part of mat */ 3584 idx[count] = j; 3585 cmap1[count++] = i; /* column index in submat */ 3586 } else if (Bn) { 3587 /* off-diagonal part of mat */ 3588 if (j == garray[k]) { 3589 idx[count] = j; 3590 cmap1[count++] = i; /* column index in submat */ 3591 } else if (j > garray[k]) { 3592 while (j > garray[k] && k < Bn - 1) k++; 3593 if (j == garray[k]) { 3594 idx[count] = j; 3595 cmap1[count++] = i; /* column index in submat */ 3596 } 3597 } 3598 } 3599 } 3600 PetscCall(ISRestoreIndices(iscol_local, &is_idx)); 3601 3602 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, count, idx, PETSC_OWN_POINTER, &iscol_sub)); 3603 PetscCall(ISGetBlockSize(iscol, &cbs)); 3604 PetscCall(ISSetBlockSize(iscol_sub, cbs)); 3605 3606 PetscCall(ISCreateGeneral(PetscObjectComm((PetscObject)iscol_local), count, cmap1, PETSC_OWN_POINTER, &iscmap)); 3607 } 3608 3609 /* (3) Create sequential Msub */ 3610 PetscCall(MatCreateSubMatrices_MPIAIJ_SingleIS_Local(mat, 1, &isrow, &iscol_sub, MAT_INITIAL_MATRIX, allcolumns, &Msub)); 3611 } 3612 3613 PetscCall(ISGetLocalSize(iscol_sub, &count)); 3614 aij = (Mat_SeqAIJ *)Msub->data; 3615 ii = aij->i; 3616 PetscCall(ISGetIndices(iscmap, &cmap)); 3617 3618 /* 3619 m - number of local rows 3620 Ncols - number of columns (same on all processors) 3621 rstart - first row in new global matrix generated 3622 */ 3623 PetscCall(MatGetSize(Msub, &m, NULL)); 3624 3625 if (call == MAT_INITIAL_MATRIX) { 3626 /* (4) Create parallel newmat */ 3627 PetscMPIInt rank, size; 3628 PetscInt csize; 3629 3630 PetscCallMPI(MPI_Comm_size(comm, &size)); 3631 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 3632 3633 /* 3634 Determine the number of non-zeros in the diagonal and off-diagonal 3635 portions of the matrix in order to do correct preallocation 3636 */ 3637 3638 /* first get start and end of "diagonal" columns */ 3639 PetscCall(ISGetLocalSize(iscol, &csize)); 3640 if (csize == PETSC_DECIDE) { 3641 PetscCall(ISGetSize(isrow, &mglobal)); 3642 if (mglobal == Ncols) { /* square matrix */ 3643 nlocal = m; 3644 } else { 3645 nlocal = Ncols / size + ((Ncols % size) > rank); 3646 } 3647 } else { 3648 nlocal = csize; 3649 } 3650 PetscCallMPI(MPI_Scan(&nlocal, &rend, 1, MPIU_INT, MPI_SUM, comm)); 3651 rstart = rend - nlocal; 3652 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); 3653 3654 /* next, compute all the lengths */ 3655 jj = aij->j; 3656 PetscCall(PetscMalloc1(2 * m + 1, &dlens)); 3657 olens = dlens + m; 3658 for (i = 0; i < m; i++) { 3659 jend = ii[i + 1] - ii[i]; 3660 olen = 0; 3661 dlen = 0; 3662 for (j = 0; j < jend; j++) { 3663 if (cmap[*jj] < rstart || cmap[*jj] >= rend) olen++; 3664 else dlen++; 3665 jj++; 3666 } 3667 olens[i] = olen; 3668 dlens[i] = dlen; 3669 } 3670 3671 PetscCall(ISGetBlockSize(isrow, &bs)); 3672 PetscCall(ISGetBlockSize(iscol, &cbs)); 3673 3674 PetscCall(MatCreate(comm, &M)); 3675 PetscCall(MatSetSizes(M, m, nlocal, PETSC_DECIDE, Ncols)); 3676 PetscCall(MatSetBlockSizes(M, bs, cbs)); 3677 PetscCall(MatSetType(M, ((PetscObject)mat)->type_name)); 3678 PetscCall(MatMPIAIJSetPreallocation(M, 0, dlens, 0, olens)); 3679 PetscCall(PetscFree(dlens)); 3680 3681 } else { /* call == MAT_REUSE_MATRIX */ 3682 M = *newmat; 3683 PetscCall(MatGetLocalSize(M, &i, NULL)); 3684 PetscCheck(i == m, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "Previous matrix must be same size/layout as request"); 3685 PetscCall(MatZeroEntries(M)); 3686 /* 3687 The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 3688 rather than the slower MatSetValues(). 3689 */ 3690 M->was_assembled = PETSC_TRUE; 3691 M->assembled = PETSC_FALSE; 3692 } 3693 3694 /* (5) Set values of Msub to *newmat */ 3695 PetscCall(PetscMalloc1(count, &colsub)); 3696 PetscCall(MatGetOwnershipRange(M, &rstart, NULL)); 3697 3698 jj = aij->j; 3699 PetscCall(MatSeqAIJGetArrayRead(Msub, (const PetscScalar **)&aa)); 3700 for (i = 0; i < m; i++) { 3701 row = rstart + i; 3702 nz = ii[i + 1] - ii[i]; 3703 for (j = 0; j < nz; j++) colsub[j] = cmap[jj[j]]; 3704 PetscCall(MatSetValues_MPIAIJ(M, 1, &row, nz, colsub, aa, INSERT_VALUES)); 3705 jj += nz; 3706 aa += nz; 3707 } 3708 PetscCall(MatSeqAIJRestoreArrayRead(Msub, (const PetscScalar **)&aa)); 3709 PetscCall(ISRestoreIndices(iscmap, &cmap)); 3710 3711 PetscCall(MatAssemblyBegin(M, MAT_FINAL_ASSEMBLY)); 3712 PetscCall(MatAssemblyEnd(M, MAT_FINAL_ASSEMBLY)); 3713 3714 PetscCall(PetscFree(colsub)); 3715 3716 /* save Msub, iscol_sub and iscmap used in processor for next request */ 3717 if (call == MAT_INITIAL_MATRIX) { 3718 *newmat = M; 3719 PetscCall(PetscObjectCompose((PetscObject)*newmat, "SubMatrix", (PetscObject)Msub)); 3720 PetscCall(MatDestroy(&Msub)); 3721 3722 PetscCall(PetscObjectCompose((PetscObject)*newmat, "SubIScol", (PetscObject)iscol_sub)); 3723 PetscCall(ISDestroy(&iscol_sub)); 3724 3725 PetscCall(PetscObjectCompose((PetscObject)*newmat, "Subcmap", (PetscObject)iscmap)); 3726 PetscCall(ISDestroy(&iscmap)); 3727 3728 if (iscol_local) { 3729 PetscCall(PetscObjectCompose((PetscObject)*newmat, "ISAllGather", (PetscObject)iscol_local)); 3730 PetscCall(ISDestroy(&iscol_local)); 3731 } 3732 } 3733 PetscFunctionReturn(PETSC_SUCCESS); 3734 } 3735 3736 /* 3737 Not great since it makes two copies of the submatrix, first an SeqAIJ 3738 in local and then by concatenating the local matrices the end result. 3739 Writing it directly would be much like MatCreateSubMatrices_MPIAIJ() 3740 3741 This requires a sequential iscol with all indices. 3742 */ 3743 PetscErrorCode MatCreateSubMatrix_MPIAIJ_nonscalable(Mat mat, IS isrow, IS iscol, PetscInt csize, MatReuse call, Mat *newmat) 3744 { 3745 PetscMPIInt rank, size; 3746 PetscInt i, m, n, rstart, row, rend, nz, *cwork, j, bs, cbs; 3747 PetscInt *ii, *jj, nlocal, *dlens, *olens, dlen, olen, jend, mglobal; 3748 Mat M, Mreuse; 3749 MatScalar *aa, *vwork; 3750 MPI_Comm comm; 3751 Mat_SeqAIJ *aij; 3752 PetscBool colflag, allcolumns = PETSC_FALSE; 3753 3754 PetscFunctionBegin; 3755 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 3756 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 3757 PetscCallMPI(MPI_Comm_size(comm, &size)); 3758 3759 /* Check for special case: each processor gets entire matrix columns */ 3760 PetscCall(ISIdentity(iscol, &colflag)); 3761 PetscCall(ISGetLocalSize(iscol, &n)); 3762 if (colflag && n == mat->cmap->N) allcolumns = PETSC_TRUE; 3763 PetscCallMPI(MPIU_Allreduce(MPI_IN_PLACE, &allcolumns, 1, MPIU_BOOL, MPI_LAND, PetscObjectComm((PetscObject)mat))); 3764 3765 if (call == MAT_REUSE_MATRIX) { 3766 PetscCall(PetscObjectQuery((PetscObject)*newmat, "SubMatrix", (PetscObject *)&Mreuse)); 3767 PetscCheck(Mreuse, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Submatrix passed in was not used before, cannot reuse"); 3768 PetscCall(MatCreateSubMatrices_MPIAIJ_SingleIS_Local(mat, 1, &isrow, &iscol, MAT_REUSE_MATRIX, allcolumns, &Mreuse)); 3769 } else { 3770 PetscCall(MatCreateSubMatrices_MPIAIJ_SingleIS_Local(mat, 1, &isrow, &iscol, MAT_INITIAL_MATRIX, allcolumns, &Mreuse)); 3771 } 3772 3773 /* 3774 m - number of local rows 3775 n - number of columns (same on all processors) 3776 rstart - first row in new global matrix generated 3777 */ 3778 PetscCall(MatGetSize(Mreuse, &m, &n)); 3779 PetscCall(MatGetBlockSizes(Mreuse, &bs, &cbs)); 3780 if (call == MAT_INITIAL_MATRIX) { 3781 aij = (Mat_SeqAIJ *)Mreuse->data; 3782 ii = aij->i; 3783 jj = aij->j; 3784 3785 /* 3786 Determine the number of non-zeros in the diagonal and off-diagonal 3787 portions of the matrix in order to do correct preallocation 3788 */ 3789 3790 /* first get start and end of "diagonal" columns */ 3791 if (csize == PETSC_DECIDE) { 3792 PetscCall(ISGetSize(isrow, &mglobal)); 3793 if (mglobal == n) { /* square matrix */ 3794 nlocal = m; 3795 } else { 3796 nlocal = n / size + ((n % size) > rank); 3797 } 3798 } else { 3799 nlocal = csize; 3800 } 3801 PetscCallMPI(MPI_Scan(&nlocal, &rend, 1, MPIU_INT, MPI_SUM, comm)); 3802 rstart = rend - nlocal; 3803 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); 3804 3805 /* next, compute all the lengths */ 3806 PetscCall(PetscMalloc1(2 * m + 1, &dlens)); 3807 olens = dlens + m; 3808 for (i = 0; i < m; i++) { 3809 jend = ii[i + 1] - ii[i]; 3810 olen = 0; 3811 dlen = 0; 3812 for (j = 0; j < jend; j++) { 3813 if (*jj < rstart || *jj >= rend) olen++; 3814 else dlen++; 3815 jj++; 3816 } 3817 olens[i] = olen; 3818 dlens[i] = dlen; 3819 } 3820 PetscCall(MatCreate(comm, &M)); 3821 PetscCall(MatSetSizes(M, m, nlocal, PETSC_DECIDE, n)); 3822 PetscCall(MatSetBlockSizes(M, bs, cbs)); 3823 PetscCall(MatSetType(M, ((PetscObject)mat)->type_name)); 3824 PetscCall(MatMPIAIJSetPreallocation(M, 0, dlens, 0, olens)); 3825 PetscCall(PetscFree(dlens)); 3826 } else { 3827 PetscInt ml, nl; 3828 3829 M = *newmat; 3830 PetscCall(MatGetLocalSize(M, &ml, &nl)); 3831 PetscCheck(ml == m, PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "Previous matrix must be same size/layout as request"); 3832 PetscCall(MatZeroEntries(M)); 3833 /* 3834 The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 3835 rather than the slower MatSetValues(). 3836 */ 3837 M->was_assembled = PETSC_TRUE; 3838 M->assembled = PETSC_FALSE; 3839 } 3840 PetscCall(MatGetOwnershipRange(M, &rstart, &rend)); 3841 aij = (Mat_SeqAIJ *)Mreuse->data; 3842 ii = aij->i; 3843 jj = aij->j; 3844 3845 /* trigger copy to CPU if needed */ 3846 PetscCall(MatSeqAIJGetArrayRead(Mreuse, (const PetscScalar **)&aa)); 3847 for (i = 0; i < m; i++) { 3848 row = rstart + i; 3849 nz = ii[i + 1] - ii[i]; 3850 cwork = jj; 3851 jj = PetscSafePointerPlusOffset(jj, nz); 3852 vwork = aa; 3853 aa = PetscSafePointerPlusOffset(aa, nz); 3854 PetscCall(MatSetValues_MPIAIJ(M, 1, &row, nz, cwork, vwork, INSERT_VALUES)); 3855 } 3856 PetscCall(MatSeqAIJRestoreArrayRead(Mreuse, (const PetscScalar **)&aa)); 3857 3858 PetscCall(MatAssemblyBegin(M, MAT_FINAL_ASSEMBLY)); 3859 PetscCall(MatAssemblyEnd(M, MAT_FINAL_ASSEMBLY)); 3860 *newmat = M; 3861 3862 /* save submatrix used in processor for next request */ 3863 if (call == MAT_INITIAL_MATRIX) { 3864 PetscCall(PetscObjectCompose((PetscObject)M, "SubMatrix", (PetscObject)Mreuse)); 3865 PetscCall(MatDestroy(&Mreuse)); 3866 } 3867 PetscFunctionReturn(PETSC_SUCCESS); 3868 } 3869 3870 static PetscErrorCode MatMPIAIJSetPreallocationCSR_MPIAIJ(Mat B, const PetscInt Ii[], const PetscInt J[], const PetscScalar v[]) 3871 { 3872 PetscInt m, cstart, cend, j, nnz, i, d, *ld; 3873 PetscInt *d_nnz, *o_nnz, nnz_max = 0, rstart, ii, irstart; 3874 const PetscInt *JJ; 3875 PetscBool nooffprocentries; 3876 Mat_MPIAIJ *Aij = (Mat_MPIAIJ *)B->data; 3877 3878 PetscFunctionBegin; 3879 PetscCall(PetscLayoutSetUp(B->rmap)); 3880 PetscCall(PetscLayoutSetUp(B->cmap)); 3881 m = B->rmap->n; 3882 cstart = B->cmap->rstart; 3883 cend = B->cmap->rend; 3884 rstart = B->rmap->rstart; 3885 irstart = Ii[0]; 3886 3887 PetscCall(PetscCalloc2(m, &d_nnz, m, &o_nnz)); 3888 3889 if (PetscDefined(USE_DEBUG)) { 3890 for (i = 0; i < m; i++) { 3891 nnz = Ii[i + 1] - Ii[i]; 3892 JJ = PetscSafePointerPlusOffset(J, Ii[i] - irstart); 3893 PetscCheck(nnz >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Local row %" PetscInt_FMT " has a negative %" PetscInt_FMT " number of columns", i, nnz); 3894 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]); 3895 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); 3896 } 3897 } 3898 3899 for (i = 0; i < m; i++) { 3900 nnz = Ii[i + 1] - Ii[i]; 3901 JJ = PetscSafePointerPlusOffset(J, Ii[i] - irstart); 3902 nnz_max = PetscMax(nnz_max, nnz); 3903 d = 0; 3904 for (j = 0; j < nnz; j++) { 3905 if (cstart <= JJ[j] && JJ[j] < cend) d++; 3906 } 3907 d_nnz[i] = d; 3908 o_nnz[i] = nnz - d; 3909 } 3910 PetscCall(MatMPIAIJSetPreallocation(B, 0, d_nnz, 0, o_nnz)); 3911 PetscCall(PetscFree2(d_nnz, o_nnz)); 3912 3913 for (i = 0; i < m; i++) { 3914 ii = i + rstart; 3915 PetscCall(MatSetValues_MPIAIJ(B, 1, &ii, Ii[i + 1] - Ii[i], PetscSafePointerPlusOffset(J, Ii[i] - irstart), PetscSafePointerPlusOffset(v, Ii[i] - irstart), INSERT_VALUES)); 3916 } 3917 nooffprocentries = B->nooffprocentries; 3918 B->nooffprocentries = PETSC_TRUE; 3919 PetscCall(MatAssemblyBegin(B, MAT_FINAL_ASSEMBLY)); 3920 PetscCall(MatAssemblyEnd(B, MAT_FINAL_ASSEMBLY)); 3921 B->nooffprocentries = nooffprocentries; 3922 3923 /* count number of entries below block diagonal */ 3924 PetscCall(PetscFree(Aij->ld)); 3925 PetscCall(PetscCalloc1(m, &ld)); 3926 Aij->ld = ld; 3927 for (i = 0; i < m; i++) { 3928 nnz = Ii[i + 1] - Ii[i]; 3929 j = 0; 3930 while (j < nnz && J[j] < cstart) j++; 3931 ld[i] = j; 3932 if (J) J += nnz; 3933 } 3934 3935 PetscCall(MatSetOption(B, MAT_NEW_NONZERO_LOCATION_ERR, PETSC_TRUE)); 3936 PetscFunctionReturn(PETSC_SUCCESS); 3937 } 3938 3939 /*@ 3940 MatMPIAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in `MATAIJ` format 3941 (the default parallel PETSc format). 3942 3943 Collective 3944 3945 Input Parameters: 3946 + B - the matrix 3947 . i - the indices into `j` for the start of each local row (indices start with zero) 3948 . j - the column indices for each local row (indices start with zero) 3949 - v - optional values in the matrix 3950 3951 Level: developer 3952 3953 Notes: 3954 The `i`, `j`, and `v` arrays ARE copied by this routine into the internal format used by PETSc; 3955 thus you CANNOT change the matrix entries by changing the values of `v` after you have 3956 called this routine. Use `MatCreateMPIAIJWithSplitArrays()` to avoid needing to copy the arrays. 3957 3958 The `i` and `j` indices are 0 based, and `i` indices are indices corresponding to the local `j` array. 3959 3960 A convenience routine for this functionality is `MatCreateMPIAIJWithArrays()`. 3961 3962 You can update the matrix with new numerical values using `MatUpdateMPIAIJWithArrays()` after this call if the column indices in `j` are sorted. 3963 3964 If you do **not** use `MatUpdateMPIAIJWithArrays()`, the column indices in `j` do not need to be sorted. If you will use 3965 `MatUpdateMPIAIJWithArrays()`, the column indices **must** be sorted. 3966 3967 The format which is used for the sparse matrix input, is equivalent to a 3968 row-major ordering.. i.e for the following matrix, the input data expected is 3969 as shown 3970 .vb 3971 1 0 0 3972 2 0 3 P0 3973 ------- 3974 4 5 6 P1 3975 3976 Process0 [P0] rows_owned=[0,1] 3977 i = {0,1,3} [size = nrow+1 = 2+1] 3978 j = {0,0,2} [size = 3] 3979 v = {1,2,3} [size = 3] 3980 3981 Process1 [P1] rows_owned=[2] 3982 i = {0,3} [size = nrow+1 = 1+1] 3983 j = {0,1,2} [size = 3] 3984 v = {4,5,6} [size = 3] 3985 .ve 3986 3987 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatCreateAIJ()`, 3988 `MatCreateSeqAIJWithArrays()`, `MatCreateMPIAIJWithSplitArrays()`, `MatCreateMPIAIJWithArrays()`, `MatSetPreallocationCOO()`, `MatSetValuesCOO()` 3989 @*/ 3990 PetscErrorCode MatMPIAIJSetPreallocationCSR(Mat B, const PetscInt i[], const PetscInt j[], const PetscScalar v[]) 3991 { 3992 PetscFunctionBegin; 3993 PetscTryMethod(B, "MatMPIAIJSetPreallocationCSR_C", (Mat, const PetscInt[], const PetscInt[], const PetscScalar[]), (B, i, j, v)); 3994 PetscFunctionReturn(PETSC_SUCCESS); 3995 } 3996 3997 /*@ 3998 MatMPIAIJSetPreallocation - Preallocates memory for a sparse parallel matrix in `MATMPIAIJ` format 3999 (the default parallel PETSc format). For good matrix assembly performance 4000 the user should preallocate the matrix storage by setting the parameters 4001 `d_nz` (or `d_nnz`) and `o_nz` (or `o_nnz`). 4002 4003 Collective 4004 4005 Input Parameters: 4006 + B - the matrix 4007 . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 4008 (same value is used for all local rows) 4009 . d_nnz - array containing the number of nonzeros in the various rows of the 4010 DIAGONAL portion of the local submatrix (possibly different for each row) 4011 or `NULL` (`PETSC_NULL_INTEGER` in Fortran), if `d_nz` is used to specify the nonzero structure. 4012 The size of this array is equal to the number of local rows, i.e 'm'. 4013 For matrices that will be factored, you must leave room for (and set) 4014 the diagonal entry even if it is zero. 4015 . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 4016 submatrix (same value is used for all local rows). 4017 - o_nnz - array containing the number of nonzeros in the various rows of the 4018 OFF-DIAGONAL portion of the local submatrix (possibly different for 4019 each row) or `NULL` (`PETSC_NULL_INTEGER` in Fortran), if `o_nz` is used to specify the nonzero 4020 structure. The size of this array is equal to the number 4021 of local rows, i.e 'm'. 4022 4023 Example Usage: 4024 Consider the following 8x8 matrix with 34 non-zero values, that is 4025 assembled across 3 processors. Lets assume that proc0 owns 3 rows, 4026 proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 4027 as follows 4028 4029 .vb 4030 1 2 0 | 0 3 0 | 0 4 4031 Proc0 0 5 6 | 7 0 0 | 8 0 4032 9 0 10 | 11 0 0 | 12 0 4033 ------------------------------------- 4034 13 0 14 | 15 16 17 | 0 0 4035 Proc1 0 18 0 | 19 20 21 | 0 0 4036 0 0 0 | 22 23 0 | 24 0 4037 ------------------------------------- 4038 Proc2 25 26 27 | 0 0 28 | 29 0 4039 30 0 0 | 31 32 33 | 0 34 4040 .ve 4041 4042 This can be represented as a collection of submatrices as 4043 .vb 4044 A B C 4045 D E F 4046 G H I 4047 .ve 4048 4049 Where the submatrices A,B,C are owned by proc0, D,E,F are 4050 owned by proc1, G,H,I are owned by proc2. 4051 4052 The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 4053 The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 4054 The 'M','N' parameters are 8,8, and have the same values on all procs. 4055 4056 The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 4057 submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 4058 corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 4059 Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 4060 part as `MATSEQAIJ` matrices. For example, proc1 will store [E] as a `MATSEQAIJ` 4061 matrix, and [DF] as another `MATSEQAIJ` matrix. 4062 4063 When `d_nz`, `o_nz` parameters are specified, `d_nz` storage elements are 4064 allocated for every row of the local DIAGONAL submatrix, and `o_nz` 4065 storage locations are allocated for every row of the OFF-DIAGONAL submatrix. 4066 One way to choose `d_nz` and `o_nz` is to use the maximum number of nonzeros over 4067 the local rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 4068 In this case, the values of `d_nz`, `o_nz` are 4069 .vb 4070 proc0 dnz = 2, o_nz = 2 4071 proc1 dnz = 3, o_nz = 2 4072 proc2 dnz = 1, o_nz = 4 4073 .ve 4074 We are allocating `m`*(`d_nz`+`o_nz`) storage locations for every proc. This 4075 translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 4076 for proc3. i.e we are using 12+15+10=37 storage locations to store 4077 34 values. 4078 4079 When `d_nnz`, `o_nnz` parameters are specified, the storage is specified 4080 for every row, corresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 4081 In the above case the values for `d_nnz`, `o_nnz` are 4082 .vb 4083 proc0 d_nnz = [2,2,2] and o_nnz = [2,2,2] 4084 proc1 d_nnz = [3,3,2] and o_nnz = [2,1,1] 4085 proc2 d_nnz = [1,1] and o_nnz = [4,4] 4086 .ve 4087 Here the space allocated is sum of all the above values i.e 34, and 4088 hence pre-allocation is perfect. 4089 4090 Level: intermediate 4091 4092 Notes: 4093 If the *_nnz parameter is given then the *_nz parameter is ignored 4094 4095 The `MATAIJ` format, also called compressed row storage (CSR), is compatible with standard Fortran 4096 storage. The stored row and column indices begin with zero. 4097 See [Sparse Matrices](sec_matsparse) for details. 4098 4099 The parallel matrix is partitioned such that the first m0 rows belong to 4100 process 0, the next m1 rows belong to process 1, the next m2 rows belong 4101 to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 4102 4103 The DIAGONAL portion of the local submatrix of a processor can be defined 4104 as the submatrix which is obtained by extraction the part corresponding to 4105 the rows r1-r2 and columns c1-c2 of the global matrix, where r1 is the 4106 first row that belongs to the processor, r2 is the last row belonging to 4107 the this processor, and c1-c2 is range of indices of the local part of a 4108 vector suitable for applying the matrix to. This is an mxn matrix. In the 4109 common case of a square matrix, the row and column ranges are the same and 4110 the DIAGONAL part is also square. The remaining portion of the local 4111 submatrix (mxN) constitute the OFF-DIAGONAL portion. 4112 4113 If `o_nnz` and `d_nnz` are specified, then `o_nz` and `d_nz` are ignored. 4114 4115 You can call `MatGetInfo()` to get information on how effective the preallocation was; 4116 for example the fields mallocs,nz_allocated,nz_used,nz_unneeded; 4117 You can also run with the option `-info` and look for messages with the string 4118 malloc in them to see if additional memory allocation was needed. 4119 4120 .seealso: [](ch_matrices), `Mat`, [Sparse Matrices](sec_matsparse), `MATMPIAIJ`, `MATAIJ`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatCreateAIJ()`, `MatMPIAIJSetPreallocationCSR()`, 4121 `MatGetInfo()`, `PetscSplitOwnership()`, `MatSetPreallocationCOO()`, `MatSetValuesCOO()` 4122 @*/ 4123 PetscErrorCode MatMPIAIJSetPreallocation(Mat B, PetscInt d_nz, const PetscInt d_nnz[], PetscInt o_nz, const PetscInt o_nnz[]) 4124 { 4125 PetscFunctionBegin; 4126 PetscValidHeaderSpecific(B, MAT_CLASSID, 1); 4127 PetscValidType(B, 1); 4128 PetscTryMethod(B, "MatMPIAIJSetPreallocation_C", (Mat, PetscInt, const PetscInt[], PetscInt, const PetscInt[]), (B, d_nz, d_nnz, o_nz, o_nnz)); 4129 PetscFunctionReturn(PETSC_SUCCESS); 4130 } 4131 4132 /*@ 4133 MatCreateMPIAIJWithArrays - creates a `MATMPIAIJ` matrix using arrays that contain in standard 4134 CSR format for the local rows. 4135 4136 Collective 4137 4138 Input Parameters: 4139 + comm - MPI communicator 4140 . m - number of local rows (Cannot be `PETSC_DECIDE`) 4141 . n - This value should be the same as the local size used in creating the 4142 x vector for the matrix-vector product $ y = Ax$. (or `PETSC_DECIDE` to have 4143 calculated if `N` is given) For square matrices n is almost always `m`. 4144 . M - number of global rows (or `PETSC_DETERMINE` to have calculated if `m` is given) 4145 . N - number of global columns (or `PETSC_DETERMINE` to have calculated if `n` is given) 4146 . i - row indices (of length m+1); that is i[0] = 0, i[row] = i[row-1] + number of elements in that row of the matrix 4147 . j - global column indices 4148 - a - optional matrix values 4149 4150 Output Parameter: 4151 . mat - the matrix 4152 4153 Level: intermediate 4154 4155 Notes: 4156 The `i`, `j`, and `a` arrays ARE copied by this routine into the internal format used by PETSc; 4157 thus you CANNOT change the matrix entries by changing the values of `a[]` after you have 4158 called this routine. Use `MatCreateMPIAIJWithSplitArrays()` to avoid needing to copy the arrays. 4159 4160 The `i` and `j` indices are 0 based, and `i` indices are indices corresponding to the local `j` array. 4161 4162 Once you have created the matrix you can update it with new numerical values using `MatUpdateMPIAIJWithArray()` 4163 4164 If you do **not** use `MatUpdateMPIAIJWithArray()`, the column indices in `j` do not need to be sorted. If you will use 4165 `MatUpdateMPIAIJWithArrays()`, the column indices **must** be sorted. 4166 4167 The format which is used for the sparse matrix input, is equivalent to a 4168 row-major ordering, i.e., for the following matrix, the input data expected is 4169 as shown 4170 .vb 4171 1 0 0 4172 2 0 3 P0 4173 ------- 4174 4 5 6 P1 4175 4176 Process0 [P0] rows_owned=[0,1] 4177 i = {0,1,3} [size = nrow+1 = 2+1] 4178 j = {0,0,2} [size = 3] 4179 v = {1,2,3} [size = 3] 4180 4181 Process1 [P1] rows_owned=[2] 4182 i = {0,3} [size = nrow+1 = 1+1] 4183 j = {0,1,2} [size = 3] 4184 v = {4,5,6} [size = 3] 4185 .ve 4186 4187 .seealso: [](ch_matrices), `Mat`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatMPIAIJSetPreallocationCSR()`, 4188 `MATMPIAIJ`, `MatCreateAIJ()`, `MatCreateMPIAIJWithSplitArrays()`, `MatUpdateMPIAIJWithArray()`, `MatSetPreallocationCOO()`, `MatSetValuesCOO()` 4189 @*/ 4190 PetscErrorCode MatCreateMPIAIJWithArrays(MPI_Comm comm, PetscInt m, PetscInt n, PetscInt M, PetscInt N, const PetscInt i[], const PetscInt j[], const PetscScalar a[], Mat *mat) 4191 { 4192 PetscFunctionBegin; 4193 PetscCheck(!i || !i[0], PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "i (row indices) must start with 0"); 4194 PetscCheck(m >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "local number of rows (m) cannot be PETSC_DECIDE, or negative"); 4195 PetscCall(MatCreate(comm, mat)); 4196 PetscCall(MatSetSizes(*mat, m, n, M, N)); 4197 /* PetscCall(MatSetBlockSizes(M,bs,cbs)); */ 4198 PetscCall(MatSetType(*mat, MATMPIAIJ)); 4199 PetscCall(MatMPIAIJSetPreallocationCSR(*mat, i, j, a)); 4200 PetscFunctionReturn(PETSC_SUCCESS); 4201 } 4202 4203 /*@ 4204 MatUpdateMPIAIJWithArrays - updates a `MATMPIAIJ` matrix using arrays that contain in standard 4205 CSR format for the local rows. Only the numerical values are updated the other arrays must be identical to what was passed 4206 from `MatCreateMPIAIJWithArrays()` 4207 4208 Deprecated: Use `MatUpdateMPIAIJWithArray()` 4209 4210 Collective 4211 4212 Input Parameters: 4213 + mat - the matrix 4214 . m - number of local rows (Cannot be `PETSC_DECIDE`) 4215 . n - This value should be the same as the local size used in creating the 4216 x vector for the matrix-vector product y = Ax. (or `PETSC_DECIDE` to have 4217 calculated if N is given) For square matrices n is almost always m. 4218 . M - number of global rows (or `PETSC_DETERMINE` to have calculated if m is given) 4219 . N - number of global columns (or `PETSC_DETERMINE` to have calculated if n is given) 4220 . Ii - row indices; that is Ii[0] = 0, Ii[row] = Ii[row-1] + number of elements in that row of the matrix 4221 . J - column indices 4222 - v - matrix values 4223 4224 Level: deprecated 4225 4226 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatMPIAIJSetPreallocationCSR()`, 4227 `MatCreateAIJ()`, `MatCreateMPIAIJWithSplitArrays()`, `MatUpdateMPIAIJWithArray()`, `MatSetPreallocationCOO()`, `MatSetValuesCOO()` 4228 @*/ 4229 PetscErrorCode MatUpdateMPIAIJWithArrays(Mat mat, PetscInt m, PetscInt n, PetscInt M, PetscInt N, const PetscInt Ii[], const PetscInt J[], const PetscScalar v[]) 4230 { 4231 PetscInt nnz, i; 4232 PetscBool nooffprocentries; 4233 Mat_MPIAIJ *Aij = (Mat_MPIAIJ *)mat->data; 4234 Mat_SeqAIJ *Ad = (Mat_SeqAIJ *)Aij->A->data; 4235 PetscScalar *ad, *ao; 4236 PetscInt ldi, Iii, md; 4237 const PetscInt *Adi = Ad->i; 4238 PetscInt *ld = Aij->ld; 4239 4240 PetscFunctionBegin; 4241 PetscCheck(Ii[0] == 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "i (row indices) must start with 0"); 4242 PetscCheck(m >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "local number of rows (m) cannot be PETSC_DECIDE, or negative"); 4243 PetscCheck(m == mat->rmap->n, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Local number of rows cannot change from call to MatUpdateMPIAIJWithArrays()"); 4244 PetscCheck(n == mat->cmap->n, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Local number of columns cannot change from call to MatUpdateMPIAIJWithArrays()"); 4245 4246 PetscCall(MatSeqAIJGetArrayWrite(Aij->A, &ad)); 4247 PetscCall(MatSeqAIJGetArrayWrite(Aij->B, &ao)); 4248 4249 for (i = 0; i < m; i++) { 4250 if (PetscDefined(USE_DEBUG)) { 4251 for (PetscInt j = Ii[i] + 1; j < Ii[i + 1]; ++j) { 4252 PetscCheck(J[j] >= J[j - 1], PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Column entry number %" PetscInt_FMT " (actual column %" PetscInt_FMT ") in row %" PetscInt_FMT " is not sorted", j - Ii[i], J[j], i); 4253 PetscCheck(J[j] != J[j - 1], PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Column entry number %" PetscInt_FMT " (actual column %" PetscInt_FMT ") in row %" PetscInt_FMT " is identical to previous entry", j - Ii[i], J[j], i); 4254 } 4255 } 4256 nnz = Ii[i + 1] - Ii[i]; 4257 Iii = Ii[i]; 4258 ldi = ld[i]; 4259 md = Adi[i + 1] - Adi[i]; 4260 PetscCall(PetscArraycpy(ao, v + Iii, ldi)); 4261 PetscCall(PetscArraycpy(ad, v + Iii + ldi, md)); 4262 PetscCall(PetscArraycpy(ao + ldi, v + Iii + ldi + md, nnz - ldi - md)); 4263 ad += md; 4264 ao += nnz - md; 4265 } 4266 nooffprocentries = mat->nooffprocentries; 4267 mat->nooffprocentries = PETSC_TRUE; 4268 PetscCall(MatSeqAIJRestoreArrayWrite(Aij->A, &ad)); 4269 PetscCall(MatSeqAIJRestoreArrayWrite(Aij->B, &ao)); 4270 PetscCall(PetscObjectStateIncrease((PetscObject)Aij->A)); 4271 PetscCall(PetscObjectStateIncrease((PetscObject)Aij->B)); 4272 PetscCall(PetscObjectStateIncrease((PetscObject)mat)); 4273 PetscCall(MatAssemblyBegin(mat, MAT_FINAL_ASSEMBLY)); 4274 PetscCall(MatAssemblyEnd(mat, MAT_FINAL_ASSEMBLY)); 4275 mat->nooffprocentries = nooffprocentries; 4276 PetscFunctionReturn(PETSC_SUCCESS); 4277 } 4278 4279 /*@ 4280 MatUpdateMPIAIJWithArray - updates an `MATMPIAIJ` matrix using an array that contains the nonzero values 4281 4282 Collective 4283 4284 Input Parameters: 4285 + mat - the matrix 4286 - v - matrix values, stored by row 4287 4288 Level: intermediate 4289 4290 Notes: 4291 The matrix must have been obtained with `MatCreateMPIAIJWithArrays()` or `MatMPIAIJSetPreallocationCSR()` 4292 4293 The column indices in the call to `MatCreateMPIAIJWithArrays()` or `MatMPIAIJSetPreallocationCSR()` must have been sorted for this call to work correctly 4294 4295 .seealso: [](ch_matrices), `Mat`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatMPIAIJSetPreallocationCSR()`, 4296 `MATMPIAIJ`, `MatCreateAIJ()`, `MatCreateMPIAIJWithSplitArrays()`, `MatUpdateMPIAIJWithArrays()`, `MatSetPreallocationCOO()`, `MatSetValuesCOO()` 4297 @*/ 4298 PetscErrorCode MatUpdateMPIAIJWithArray(Mat mat, const PetscScalar v[]) 4299 { 4300 PetscInt nnz, i, m; 4301 PetscBool nooffprocentries; 4302 Mat_MPIAIJ *Aij = (Mat_MPIAIJ *)mat->data; 4303 Mat_SeqAIJ *Ad = (Mat_SeqAIJ *)Aij->A->data; 4304 Mat_SeqAIJ *Ao = (Mat_SeqAIJ *)Aij->B->data; 4305 PetscScalar *ad, *ao; 4306 const PetscInt *Adi = Ad->i, *Adj = Ao->i; 4307 PetscInt ldi, Iii, md; 4308 PetscInt *ld = Aij->ld; 4309 4310 PetscFunctionBegin; 4311 m = mat->rmap->n; 4312 4313 PetscCall(MatSeqAIJGetArrayWrite(Aij->A, &ad)); 4314 PetscCall(MatSeqAIJGetArrayWrite(Aij->B, &ao)); 4315 Iii = 0; 4316 for (i = 0; i < m; i++) { 4317 nnz = Adi[i + 1] - Adi[i] + Adj[i + 1] - Adj[i]; 4318 ldi = ld[i]; 4319 md = Adi[i + 1] - Adi[i]; 4320 PetscCall(PetscArraycpy(ad, v + Iii + ldi, md)); 4321 ad += md; 4322 if (ao) { 4323 PetscCall(PetscArraycpy(ao, v + Iii, ldi)); 4324 PetscCall(PetscArraycpy(ao + ldi, v + Iii + ldi + md, nnz - ldi - md)); 4325 ao += nnz - md; 4326 } 4327 Iii += nnz; 4328 } 4329 nooffprocentries = mat->nooffprocentries; 4330 mat->nooffprocentries = PETSC_TRUE; 4331 PetscCall(MatSeqAIJRestoreArrayWrite(Aij->A, &ad)); 4332 PetscCall(MatSeqAIJRestoreArrayWrite(Aij->B, &ao)); 4333 PetscCall(PetscObjectStateIncrease((PetscObject)Aij->A)); 4334 PetscCall(PetscObjectStateIncrease((PetscObject)Aij->B)); 4335 PetscCall(PetscObjectStateIncrease((PetscObject)mat)); 4336 PetscCall(MatAssemblyBegin(mat, MAT_FINAL_ASSEMBLY)); 4337 PetscCall(MatAssemblyEnd(mat, MAT_FINAL_ASSEMBLY)); 4338 mat->nooffprocentries = nooffprocentries; 4339 PetscFunctionReturn(PETSC_SUCCESS); 4340 } 4341 4342 /*@ 4343 MatCreateAIJ - Creates a sparse parallel matrix in `MATAIJ` format 4344 (the default parallel PETSc format). For good matrix assembly performance 4345 the user should preallocate the matrix storage by setting the parameters 4346 `d_nz` (or `d_nnz`) and `o_nz` (or `o_nnz`). 4347 4348 Collective 4349 4350 Input Parameters: 4351 + comm - MPI communicator 4352 . m - number of local rows (or `PETSC_DECIDE` to have calculated if M is given) 4353 This value should be the same as the local size used in creating the 4354 y vector for the matrix-vector product y = Ax. 4355 . n - This value should be the same as the local size used in creating the 4356 x vector for the matrix-vector product y = Ax. (or `PETSC_DECIDE` to have 4357 calculated if N is given) For square matrices n is almost always m. 4358 . M - number of global rows (or `PETSC_DETERMINE` to have calculated if m is given) 4359 . N - number of global columns (or `PETSC_DETERMINE` to have calculated if n is given) 4360 . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 4361 (same value is used for all local rows) 4362 . d_nnz - array containing the number of nonzeros in the various rows of the 4363 DIAGONAL portion of the local submatrix (possibly different for each row) 4364 or `NULL`, if `d_nz` is used to specify the nonzero structure. 4365 The size of this array is equal to the number of local rows, i.e 'm'. 4366 . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 4367 submatrix (same value is used for all local rows). 4368 - o_nnz - array containing the number of nonzeros in the various rows of the 4369 OFF-DIAGONAL portion of the local submatrix (possibly different for 4370 each row) or `NULL`, if `o_nz` is used to specify the nonzero 4371 structure. The size of this array is equal to the number 4372 of local rows, i.e 'm'. 4373 4374 Output Parameter: 4375 . A - the matrix 4376 4377 Options Database Keys: 4378 + -mat_no_inode - Do not use inodes 4379 . -mat_inode_limit <limit> - Sets inode limit (max limit=5) 4380 - -matmult_vecscatter_view <viewer> - View the vecscatter (i.e., communication pattern) used in `MatMult()` of sparse parallel matrices. 4381 See viewer types in manual of `MatView()`. Of them, ascii_matlab, draw or binary cause the `VecScatter` 4382 to be viewed as a matrix. Entry (i,j) is the size of message (in bytes) rank i sends to rank j in one `MatMult()` call. 4383 4384 Level: intermediate 4385 4386 Notes: 4387 It is recommended that one use `MatCreateFromOptions()` or the `MatCreate()`, `MatSetType()` and/or `MatSetFromOptions()`, 4388 MatXXXXSetPreallocation() paradigm instead of this routine directly. 4389 [MatXXXXSetPreallocation() is, for example, `MatSeqAIJSetPreallocation()`] 4390 4391 If the *_nnz parameter is given then the *_nz parameter is ignored 4392 4393 The `m`,`n`,`M`,`N` parameters specify the size of the matrix, and its partitioning across 4394 processors, while `d_nz`,`d_nnz`,`o_nz`,`o_nnz` parameters specify the approximate 4395 storage requirements for this matrix. 4396 4397 If `PETSC_DECIDE` or `PETSC_DETERMINE` is used for a particular argument on one 4398 processor than it must be used on all processors that share the object for 4399 that argument. 4400 4401 If `m` and `n` are not `PETSC_DECIDE`, then the values determine the `PetscLayout` of the matrix and the ranges returned by 4402 `MatGetOwnershipRange()`, `MatGetOwnershipRanges()`, `MatGetOwnershipRangeColumn()`, and `MatGetOwnershipRangesColumn()`. 4403 4404 The user MUST specify either the local or global matrix dimensions 4405 (possibly both). 4406 4407 The parallel matrix is partitioned across processors such that the 4408 first `m0` rows belong to process 0, the next `m1` rows belong to 4409 process 1, the next `m2` rows belong to process 2, etc., where 4410 `m0`, `m1`, `m2`... are the input parameter `m` on each MPI process. I.e., each MPI process stores 4411 values corresponding to [m x N] submatrix. 4412 4413 The columns are logically partitioned with the n0 columns belonging 4414 to 0th partition, the next n1 columns belonging to the next 4415 partition etc.. where n0,n1,n2... are the input parameter 'n'. 4416 4417 The DIAGONAL portion of the local submatrix on any given processor 4418 is the submatrix corresponding to the rows and columns m,n 4419 corresponding to the given processor. i.e diagonal matrix on 4420 process 0 is [m0 x n0], diagonal matrix on process 1 is [m1 x n1] 4421 etc. The remaining portion of the local submatrix [m x (N-n)] 4422 constitute the OFF-DIAGONAL portion. The example below better 4423 illustrates this concept. The two matrices, the DIAGONAL portion and 4424 the OFF-DIAGONAL portion are each stored as `MATSEQAIJ` matrices. 4425 4426 For a square global matrix we define each processor's diagonal portion 4427 to be its local rows and the corresponding columns (a square submatrix); 4428 each processor's off-diagonal portion encompasses the remainder of the 4429 local matrix (a rectangular submatrix). 4430 4431 If `o_nnz`, `d_nnz` are specified, then `o_nz`, and `d_nz` are ignored. 4432 4433 When calling this routine with a single process communicator, a matrix of 4434 type `MATSEQAIJ` is returned. If a matrix of type `MATMPIAIJ` is desired for this 4435 type of communicator, use the construction mechanism 4436 .vb 4437 MatCreate(..., &A); 4438 MatSetType(A, MATMPIAIJ); 4439 MatSetSizes(A, m, n, M, N); 4440 MatMPIAIJSetPreallocation(A, ...); 4441 .ve 4442 4443 By default, this format uses inodes (identical nodes) when possible. 4444 We search for consecutive rows with the same nonzero structure, thereby 4445 reusing matrix information to achieve increased efficiency. 4446 4447 Example Usage: 4448 Consider the following 8x8 matrix with 34 non-zero values, that is 4449 assembled across 3 processors. Lets assume that proc0 owns 3 rows, 4450 proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 4451 as follows 4452 4453 .vb 4454 1 2 0 | 0 3 0 | 0 4 4455 Proc0 0 5 6 | 7 0 0 | 8 0 4456 9 0 10 | 11 0 0 | 12 0 4457 ------------------------------------- 4458 13 0 14 | 15 16 17 | 0 0 4459 Proc1 0 18 0 | 19 20 21 | 0 0 4460 0 0 0 | 22 23 0 | 24 0 4461 ------------------------------------- 4462 Proc2 25 26 27 | 0 0 28 | 29 0 4463 30 0 0 | 31 32 33 | 0 34 4464 .ve 4465 4466 This can be represented as a collection of submatrices as 4467 4468 .vb 4469 A B C 4470 D E F 4471 G H I 4472 .ve 4473 4474 Where the submatrices A,B,C are owned by proc0, D,E,F are 4475 owned by proc1, G,H,I are owned by proc2. 4476 4477 The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 4478 The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 4479 The 'M','N' parameters are 8,8, and have the same values on all procs. 4480 4481 The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 4482 submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 4483 corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 4484 Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 4485 part as `MATSEQAIJ` matrices. For example, proc1 will store [E] as a `MATSEQAIJ` 4486 matrix, and [DF] as another SeqAIJ matrix. 4487 4488 When `d_nz`, `o_nz` parameters are specified, `d_nz` storage elements are 4489 allocated for every row of the local DIAGONAL submatrix, and `o_nz` 4490 storage locations are allocated for every row of the OFF-DIAGONAL submatrix. 4491 One way to choose `d_nz` and `o_nz` is to use the maximum number of nonzeros over 4492 the local rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 4493 In this case, the values of `d_nz`,`o_nz` are 4494 .vb 4495 proc0 dnz = 2, o_nz = 2 4496 proc1 dnz = 3, o_nz = 2 4497 proc2 dnz = 1, o_nz = 4 4498 .ve 4499 We are allocating m*(`d_nz`+`o_nz`) storage locations for every proc. This 4500 translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 4501 for proc3. i.e we are using 12+15+10=37 storage locations to store 4502 34 values. 4503 4504 When `d_nnz`, `o_nnz` parameters are specified, the storage is specified 4505 for every row, corresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 4506 In the above case the values for d_nnz,o_nnz are 4507 .vb 4508 proc0 d_nnz = [2,2,2] and o_nnz = [2,2,2] 4509 proc1 d_nnz = [3,3,2] and o_nnz = [2,1,1] 4510 proc2 d_nnz = [1,1] and o_nnz = [4,4] 4511 .ve 4512 Here the space allocated is sum of all the above values i.e 34, and 4513 hence pre-allocation is perfect. 4514 4515 .seealso: [](ch_matrices), `Mat`, [Sparse Matrix Creation](sec_matsparse), `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatMPIAIJSetPreallocationCSR()`, 4516 `MATMPIAIJ`, `MatCreateMPIAIJWithArrays()`, `MatGetOwnershipRange()`, `MatGetOwnershipRanges()`, `MatGetOwnershipRangeColumn()`, 4517 `MatGetOwnershipRangesColumn()`, `PetscLayout` 4518 @*/ 4519 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) 4520 { 4521 PetscMPIInt size; 4522 4523 PetscFunctionBegin; 4524 PetscCall(MatCreate(comm, A)); 4525 PetscCall(MatSetSizes(*A, m, n, M, N)); 4526 PetscCallMPI(MPI_Comm_size(comm, &size)); 4527 if (size > 1) { 4528 PetscCall(MatSetType(*A, MATMPIAIJ)); 4529 PetscCall(MatMPIAIJSetPreallocation(*A, d_nz, d_nnz, o_nz, o_nnz)); 4530 } else { 4531 PetscCall(MatSetType(*A, MATSEQAIJ)); 4532 PetscCall(MatSeqAIJSetPreallocation(*A, d_nz, d_nnz)); 4533 } 4534 PetscFunctionReturn(PETSC_SUCCESS); 4535 } 4536 4537 /*@C 4538 MatMPIAIJGetSeqAIJ - Returns the local pieces of this distributed matrix 4539 4540 Not Collective 4541 4542 Input Parameter: 4543 . A - The `MATMPIAIJ` matrix 4544 4545 Output Parameters: 4546 + Ad - The local diagonal block as a `MATSEQAIJ` matrix 4547 . Ao - The local off-diagonal block as a `MATSEQAIJ` matrix 4548 - colmap - An array mapping local column numbers of `Ao` to global column numbers of the parallel matrix 4549 4550 Level: intermediate 4551 4552 Note: 4553 The rows in `Ad` and `Ao` are in [0, Nr), where Nr is the number of local rows on this process. The columns 4554 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 4555 the number of nonzero columns in the local off-diagonal piece of the matrix `A`. The array colmap maps these 4556 local column numbers to global column numbers in the original matrix. 4557 4558 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatMPIAIJGetLocalMat()`, `MatMPIAIJGetLocalMatCondensed()`, `MatCreateAIJ()`, `MATSEQAIJ` 4559 @*/ 4560 PetscErrorCode MatMPIAIJGetSeqAIJ(Mat A, Mat *Ad, Mat *Ao, const PetscInt *colmap[]) 4561 { 4562 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 4563 PetscBool flg; 4564 4565 PetscFunctionBegin; 4566 PetscCall(PetscStrbeginswith(((PetscObject)A)->type_name, MATMPIAIJ, &flg)); 4567 PetscCheck(flg, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "This function requires a MATMPIAIJ matrix as input"); 4568 if (Ad) *Ad = a->A; 4569 if (Ao) *Ao = a->B; 4570 if (colmap) *colmap = a->garray; 4571 PetscFunctionReturn(PETSC_SUCCESS); 4572 } 4573 4574 PetscErrorCode MatCreateMPIMatConcatenateSeqMat_MPIAIJ(MPI_Comm comm, Mat inmat, PetscInt n, MatReuse scall, Mat *outmat) 4575 { 4576 PetscInt m, N, i, rstart, nnz, Ii; 4577 PetscInt *indx; 4578 PetscScalar *values; 4579 MatType rootType; 4580 4581 PetscFunctionBegin; 4582 PetscCall(MatGetSize(inmat, &m, &N)); 4583 if (scall == MAT_INITIAL_MATRIX) { /* symbolic phase */ 4584 PetscInt *dnz, *onz, sum, bs, cbs; 4585 4586 if (n == PETSC_DECIDE) PetscCall(PetscSplitOwnership(comm, &n, &N)); 4587 /* Check sum(n) = N */ 4588 PetscCallMPI(MPIU_Allreduce(&n, &sum, 1, MPIU_INT, MPI_SUM, comm)); 4589 PetscCheck(sum == N, PETSC_COMM_SELF, PETSC_ERR_ARG_INCOMP, "Sum of local columns %" PetscInt_FMT " != global columns %" PetscInt_FMT, sum, N); 4590 4591 PetscCallMPI(MPI_Scan(&m, &rstart, 1, MPIU_INT, MPI_SUM, comm)); 4592 rstart -= m; 4593 4594 MatPreallocateBegin(comm, m, n, dnz, onz); 4595 for (i = 0; i < m; i++) { 4596 PetscCall(MatGetRow_SeqAIJ(inmat, i, &nnz, &indx, NULL)); 4597 PetscCall(MatPreallocateSet(i + rstart, nnz, indx, dnz, onz)); 4598 PetscCall(MatRestoreRow_SeqAIJ(inmat, i, &nnz, &indx, NULL)); 4599 } 4600 4601 PetscCall(MatCreate(comm, outmat)); 4602 PetscCall(MatSetSizes(*outmat, m, n, PETSC_DETERMINE, PETSC_DETERMINE)); 4603 PetscCall(MatGetBlockSizes(inmat, &bs, &cbs)); 4604 PetscCall(MatSetBlockSizes(*outmat, bs, cbs)); 4605 PetscCall(MatGetRootType_Private(inmat, &rootType)); 4606 PetscCall(MatSetType(*outmat, rootType)); 4607 PetscCall(MatSeqAIJSetPreallocation(*outmat, 0, dnz)); 4608 PetscCall(MatMPIAIJSetPreallocation(*outmat, 0, dnz, 0, onz)); 4609 MatPreallocateEnd(dnz, onz); 4610 PetscCall(MatSetOption(*outmat, MAT_NO_OFF_PROC_ENTRIES, PETSC_TRUE)); 4611 } 4612 4613 /* numeric phase */ 4614 PetscCall(MatGetOwnershipRange(*outmat, &rstart, NULL)); 4615 for (i = 0; i < m; i++) { 4616 PetscCall(MatGetRow_SeqAIJ(inmat, i, &nnz, &indx, &values)); 4617 Ii = i + rstart; 4618 PetscCall(MatSetValues(*outmat, 1, &Ii, nnz, indx, values, INSERT_VALUES)); 4619 PetscCall(MatRestoreRow_SeqAIJ(inmat, i, &nnz, &indx, &values)); 4620 } 4621 PetscCall(MatAssemblyBegin(*outmat, MAT_FINAL_ASSEMBLY)); 4622 PetscCall(MatAssemblyEnd(*outmat, MAT_FINAL_ASSEMBLY)); 4623 PetscFunctionReturn(PETSC_SUCCESS); 4624 } 4625 4626 static PetscErrorCode MatDestroy_MPIAIJ_SeqsToMPI(void **data) 4627 { 4628 Mat_Merge_SeqsToMPI *merge = (Mat_Merge_SeqsToMPI *)*data; 4629 4630 PetscFunctionBegin; 4631 if (!merge) PetscFunctionReturn(PETSC_SUCCESS); 4632 PetscCall(PetscFree(merge->id_r)); 4633 PetscCall(PetscFree(merge->len_s)); 4634 PetscCall(PetscFree(merge->len_r)); 4635 PetscCall(PetscFree(merge->bi)); 4636 PetscCall(PetscFree(merge->bj)); 4637 PetscCall(PetscFree(merge->buf_ri[0])); 4638 PetscCall(PetscFree(merge->buf_ri)); 4639 PetscCall(PetscFree(merge->buf_rj[0])); 4640 PetscCall(PetscFree(merge->buf_rj)); 4641 PetscCall(PetscFree(merge->coi)); 4642 PetscCall(PetscFree(merge->coj)); 4643 PetscCall(PetscFree(merge->owners_co)); 4644 PetscCall(PetscLayoutDestroy(&merge->rowmap)); 4645 PetscCall(PetscFree(merge)); 4646 PetscFunctionReturn(PETSC_SUCCESS); 4647 } 4648 4649 #include <../src/mat/utils/freespace.h> 4650 #include <petscbt.h> 4651 4652 PetscErrorCode MatCreateMPIAIJSumSeqAIJNumeric(Mat seqmat, Mat mpimat) 4653 { 4654 MPI_Comm comm; 4655 Mat_SeqAIJ *a = (Mat_SeqAIJ *)seqmat->data; 4656 PetscMPIInt size, rank, taga, *len_s; 4657 PetscInt N = mpimat->cmap->N, i, j, *owners, *ai = a->i, *aj, m; 4658 PetscMPIInt proc, k; 4659 PetscInt **buf_ri, **buf_rj; 4660 PetscInt anzi, *bj_i, *bi, *bj, arow, bnzi, nextaj; 4661 PetscInt nrows, **buf_ri_k, **nextrow, **nextai; 4662 MPI_Request *s_waits, *r_waits; 4663 MPI_Status *status; 4664 const MatScalar *aa, *a_a; 4665 MatScalar **abuf_r, *ba_i; 4666 Mat_Merge_SeqsToMPI *merge; 4667 PetscContainer container; 4668 4669 PetscFunctionBegin; 4670 PetscCall(PetscObjectGetComm((PetscObject)mpimat, &comm)); 4671 PetscCall(PetscLogEventBegin(MAT_Seqstompinum, seqmat, 0, 0, 0)); 4672 4673 PetscCallMPI(MPI_Comm_size(comm, &size)); 4674 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 4675 4676 PetscCall(PetscObjectQuery((PetscObject)mpimat, "MatMergeSeqsToMPI", (PetscObject *)&container)); 4677 PetscCheck(container, PetscObjectComm((PetscObject)mpimat), PETSC_ERR_PLIB, "Mat not created from MatCreateMPIAIJSumSeqAIJSymbolic"); 4678 PetscCall(PetscContainerGetPointer(container, (void **)&merge)); 4679 PetscCall(MatSeqAIJGetArrayRead(seqmat, &a_a)); 4680 aa = a_a; 4681 4682 bi = merge->bi; 4683 bj = merge->bj; 4684 buf_ri = merge->buf_ri; 4685 buf_rj = merge->buf_rj; 4686 4687 PetscCall(PetscMalloc1(size, &status)); 4688 owners = merge->rowmap->range; 4689 len_s = merge->len_s; 4690 4691 /* send and recv matrix values */ 4692 PetscCall(PetscObjectGetNewTag((PetscObject)mpimat, &taga)); 4693 PetscCall(PetscPostIrecvScalar(comm, taga, merge->nrecv, merge->id_r, merge->len_r, &abuf_r, &r_waits)); 4694 4695 PetscCall(PetscMalloc1(merge->nsend + 1, &s_waits)); 4696 for (proc = 0, k = 0; proc < size; proc++) { 4697 if (!len_s[proc]) continue; 4698 i = owners[proc]; 4699 PetscCallMPI(MPIU_Isend(aa + ai[i], len_s[proc], MPIU_MATSCALAR, proc, taga, comm, s_waits + k)); 4700 k++; 4701 } 4702 4703 if (merge->nrecv) PetscCallMPI(MPI_Waitall(merge->nrecv, r_waits, status)); 4704 if (merge->nsend) PetscCallMPI(MPI_Waitall(merge->nsend, s_waits, status)); 4705 PetscCall(PetscFree(status)); 4706 4707 PetscCall(PetscFree(s_waits)); 4708 PetscCall(PetscFree(r_waits)); 4709 4710 /* insert mat values of mpimat */ 4711 PetscCall(PetscMalloc1(N, &ba_i)); 4712 PetscCall(PetscMalloc3(merge->nrecv, &buf_ri_k, merge->nrecv, &nextrow, merge->nrecv, &nextai)); 4713 4714 for (k = 0; k < merge->nrecv; k++) { 4715 buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 4716 nrows = *buf_ri_k[k]; 4717 nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 4718 nextai[k] = buf_ri_k[k] + (nrows + 1); /* points to the next i-structure of k-th recved i-structure */ 4719 } 4720 4721 /* set values of ba */ 4722 m = merge->rowmap->n; 4723 for (i = 0; i < m; i++) { 4724 arow = owners[rank] + i; 4725 bj_i = bj + bi[i]; /* col indices of the i-th row of mpimat */ 4726 bnzi = bi[i + 1] - bi[i]; 4727 PetscCall(PetscArrayzero(ba_i, bnzi)); 4728 4729 /* add local non-zero vals of this proc's seqmat into ba */ 4730 anzi = ai[arow + 1] - ai[arow]; 4731 aj = a->j + ai[arow]; 4732 aa = a_a + ai[arow]; 4733 nextaj = 0; 4734 for (j = 0; nextaj < anzi; j++) { 4735 if (*(bj_i + j) == aj[nextaj]) { /* bcol == acol */ 4736 ba_i[j] += aa[nextaj++]; 4737 } 4738 } 4739 4740 /* add received vals into ba */ 4741 for (k = 0; k < merge->nrecv; k++) { /* k-th received message */ 4742 /* i-th row */ 4743 if (i == *nextrow[k]) { 4744 anzi = *(nextai[k] + 1) - *nextai[k]; 4745 aj = buf_rj[k] + *nextai[k]; 4746 aa = abuf_r[k] + *nextai[k]; 4747 nextaj = 0; 4748 for (j = 0; nextaj < anzi; j++) { 4749 if (*(bj_i + j) == aj[nextaj]) { /* bcol == acol */ 4750 ba_i[j] += aa[nextaj++]; 4751 } 4752 } 4753 nextrow[k]++; 4754 nextai[k]++; 4755 } 4756 } 4757 PetscCall(MatSetValues(mpimat, 1, &arow, bnzi, bj_i, ba_i, INSERT_VALUES)); 4758 } 4759 PetscCall(MatSeqAIJRestoreArrayRead(seqmat, &a_a)); 4760 PetscCall(MatAssemblyBegin(mpimat, MAT_FINAL_ASSEMBLY)); 4761 PetscCall(MatAssemblyEnd(mpimat, MAT_FINAL_ASSEMBLY)); 4762 4763 PetscCall(PetscFree(abuf_r[0])); 4764 PetscCall(PetscFree(abuf_r)); 4765 PetscCall(PetscFree(ba_i)); 4766 PetscCall(PetscFree3(buf_ri_k, nextrow, nextai)); 4767 PetscCall(PetscLogEventEnd(MAT_Seqstompinum, seqmat, 0, 0, 0)); 4768 PetscFunctionReturn(PETSC_SUCCESS); 4769 } 4770 4771 PetscErrorCode MatCreateMPIAIJSumSeqAIJSymbolic(MPI_Comm comm, Mat seqmat, PetscInt m, PetscInt n, Mat *mpimat) 4772 { 4773 Mat B_mpi; 4774 Mat_SeqAIJ *a = (Mat_SeqAIJ *)seqmat->data; 4775 PetscMPIInt size, rank, tagi, tagj, *len_s, *len_si, *len_ri; 4776 PetscInt **buf_rj, **buf_ri, **buf_ri_k; 4777 PetscInt M = seqmat->rmap->n, N = seqmat->cmap->n, i, *owners, *ai = a->i, *aj = a->j; 4778 PetscInt len, *dnz, *onz, bs, cbs; 4779 PetscInt k, anzi, *bi, *bj, *lnk, nlnk, arow, bnzi; 4780 PetscInt nrows, *buf_s, *buf_si, *buf_si_i, **nextrow, **nextai; 4781 MPI_Request *si_waits, *sj_waits, *ri_waits, *rj_waits; 4782 MPI_Status *status; 4783 PetscFreeSpaceList free_space = NULL, current_space = NULL; 4784 PetscBT lnkbt; 4785 Mat_Merge_SeqsToMPI *merge; 4786 PetscContainer container; 4787 4788 PetscFunctionBegin; 4789 PetscCall(PetscLogEventBegin(MAT_Seqstompisym, seqmat, 0, 0, 0)); 4790 4791 /* make sure it is a PETSc comm */ 4792 PetscCall(PetscCommDuplicate(comm, &comm, NULL)); 4793 PetscCallMPI(MPI_Comm_size(comm, &size)); 4794 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 4795 4796 PetscCall(PetscNew(&merge)); 4797 PetscCall(PetscMalloc1(size, &status)); 4798 4799 /* determine row ownership */ 4800 PetscCall(PetscLayoutCreate(comm, &merge->rowmap)); 4801 PetscCall(PetscLayoutSetLocalSize(merge->rowmap, m)); 4802 PetscCall(PetscLayoutSetSize(merge->rowmap, M)); 4803 PetscCall(PetscLayoutSetBlockSize(merge->rowmap, 1)); 4804 PetscCall(PetscLayoutSetUp(merge->rowmap)); 4805 PetscCall(PetscMalloc1(size, &len_si)); 4806 PetscCall(PetscMalloc1(size, &merge->len_s)); 4807 4808 m = merge->rowmap->n; 4809 owners = merge->rowmap->range; 4810 4811 /* determine the number of messages to send, their lengths */ 4812 len_s = merge->len_s; 4813 4814 len = 0; /* length of buf_si[] */ 4815 merge->nsend = 0; 4816 for (PetscMPIInt proc = 0; proc < size; proc++) { 4817 len_si[proc] = 0; 4818 if (proc == rank) { 4819 len_s[proc] = 0; 4820 } else { 4821 PetscCall(PetscMPIIntCast(owners[proc + 1] - owners[proc] + 1, &len_si[proc])); 4822 PetscCall(PetscMPIIntCast(ai[owners[proc + 1]] - ai[owners[proc]], &len_s[proc])); /* num of rows to be sent to [proc] */ 4823 } 4824 if (len_s[proc]) { 4825 merge->nsend++; 4826 nrows = 0; 4827 for (i = owners[proc]; i < owners[proc + 1]; i++) { 4828 if (ai[i + 1] > ai[i]) nrows++; 4829 } 4830 PetscCall(PetscMPIIntCast(2 * (nrows + 1), &len_si[proc])); 4831 len += len_si[proc]; 4832 } 4833 } 4834 4835 /* determine the number and length of messages to receive for ij-structure */ 4836 PetscCall(PetscGatherNumberOfMessages(comm, NULL, len_s, &merge->nrecv)); 4837 PetscCall(PetscGatherMessageLengths2(comm, merge->nsend, merge->nrecv, len_s, len_si, &merge->id_r, &merge->len_r, &len_ri)); 4838 4839 /* post the Irecv of j-structure */ 4840 PetscCall(PetscCommGetNewTag(comm, &tagj)); 4841 PetscCall(PetscPostIrecvInt(comm, tagj, merge->nrecv, merge->id_r, merge->len_r, &buf_rj, &rj_waits)); 4842 4843 /* post the Isend of j-structure */ 4844 PetscCall(PetscMalloc2(merge->nsend, &si_waits, merge->nsend, &sj_waits)); 4845 4846 for (PetscMPIInt proc = 0, k = 0; proc < size; proc++) { 4847 if (!len_s[proc]) continue; 4848 i = owners[proc]; 4849 PetscCallMPI(MPIU_Isend(aj + ai[i], len_s[proc], MPIU_INT, proc, tagj, comm, sj_waits + k)); 4850 k++; 4851 } 4852 4853 /* receives and sends of j-structure are complete */ 4854 if (merge->nrecv) PetscCallMPI(MPI_Waitall(merge->nrecv, rj_waits, status)); 4855 if (merge->nsend) PetscCallMPI(MPI_Waitall(merge->nsend, sj_waits, status)); 4856 4857 /* send and recv i-structure */ 4858 PetscCall(PetscCommGetNewTag(comm, &tagi)); 4859 PetscCall(PetscPostIrecvInt(comm, tagi, merge->nrecv, merge->id_r, len_ri, &buf_ri, &ri_waits)); 4860 4861 PetscCall(PetscMalloc1(len + 1, &buf_s)); 4862 buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 4863 for (PetscMPIInt proc = 0, k = 0; proc < size; proc++) { 4864 if (!len_s[proc]) continue; 4865 /* form outgoing message for i-structure: 4866 buf_si[0]: nrows to be sent 4867 [1:nrows]: row index (global) 4868 [nrows+1:2*nrows+1]: i-structure index 4869 */ 4870 nrows = len_si[proc] / 2 - 1; 4871 buf_si_i = buf_si + nrows + 1; 4872 buf_si[0] = nrows; 4873 buf_si_i[0] = 0; 4874 nrows = 0; 4875 for (i = owners[proc]; i < owners[proc + 1]; i++) { 4876 anzi = ai[i + 1] - ai[i]; 4877 if (anzi) { 4878 buf_si_i[nrows + 1] = buf_si_i[nrows] + anzi; /* i-structure */ 4879 buf_si[nrows + 1] = i - owners[proc]; /* local row index */ 4880 nrows++; 4881 } 4882 } 4883 PetscCallMPI(MPIU_Isend(buf_si, len_si[proc], MPIU_INT, proc, tagi, comm, si_waits + k)); 4884 k++; 4885 buf_si += len_si[proc]; 4886 } 4887 4888 if (merge->nrecv) PetscCallMPI(MPI_Waitall(merge->nrecv, ri_waits, status)); 4889 if (merge->nsend) PetscCallMPI(MPI_Waitall(merge->nsend, si_waits, status)); 4890 4891 PetscCall(PetscInfo(seqmat, "nsend: %d, nrecv: %d\n", merge->nsend, merge->nrecv)); 4892 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])); 4893 4894 PetscCall(PetscFree(len_si)); 4895 PetscCall(PetscFree(len_ri)); 4896 PetscCall(PetscFree(rj_waits)); 4897 PetscCall(PetscFree2(si_waits, sj_waits)); 4898 PetscCall(PetscFree(ri_waits)); 4899 PetscCall(PetscFree(buf_s)); 4900 PetscCall(PetscFree(status)); 4901 4902 /* compute a local seq matrix in each processor */ 4903 /* allocate bi array and free space for accumulating nonzero column info */ 4904 PetscCall(PetscMalloc1(m + 1, &bi)); 4905 bi[0] = 0; 4906 4907 /* create and initialize a linked list */ 4908 nlnk = N + 1; 4909 PetscCall(PetscLLCreate(N, N, nlnk, lnk, lnkbt)); 4910 4911 /* initial FreeSpace size is 2*(num of local nnz(seqmat)) */ 4912 len = ai[owners[rank + 1]] - ai[owners[rank]]; 4913 PetscCall(PetscFreeSpaceGet(PetscIntMultTruncate(2, len) + 1, &free_space)); 4914 4915 current_space = free_space; 4916 4917 /* determine symbolic info for each local row */ 4918 PetscCall(PetscMalloc3(merge->nrecv, &buf_ri_k, merge->nrecv, &nextrow, merge->nrecv, &nextai)); 4919 4920 for (k = 0; k < merge->nrecv; k++) { 4921 buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 4922 nrows = *buf_ri_k[k]; 4923 nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 4924 nextai[k] = buf_ri_k[k] + (nrows + 1); /* points to the next i-structure of k-th recved i-structure */ 4925 } 4926 4927 MatPreallocateBegin(comm, m, n, dnz, onz); 4928 len = 0; 4929 for (i = 0; i < m; i++) { 4930 bnzi = 0; 4931 /* add local non-zero cols of this proc's seqmat into lnk */ 4932 arow = owners[rank] + i; 4933 anzi = ai[arow + 1] - ai[arow]; 4934 aj = a->j + ai[arow]; 4935 PetscCall(PetscLLAddSorted(anzi, aj, N, &nlnk, lnk, lnkbt)); 4936 bnzi += nlnk; 4937 /* add received col data into lnk */ 4938 for (k = 0; k < merge->nrecv; k++) { /* k-th received message */ 4939 if (i == *nextrow[k]) { /* i-th row */ 4940 anzi = *(nextai[k] + 1) - *nextai[k]; 4941 aj = buf_rj[k] + *nextai[k]; 4942 PetscCall(PetscLLAddSorted(anzi, aj, N, &nlnk, lnk, lnkbt)); 4943 bnzi += nlnk; 4944 nextrow[k]++; 4945 nextai[k]++; 4946 } 4947 } 4948 if (len < bnzi) len = bnzi; /* =max(bnzi) */ 4949 4950 /* if free space is not available, make more free space */ 4951 if (current_space->local_remaining < bnzi) PetscCall(PetscFreeSpaceGet(PetscIntSumTruncate(bnzi, current_space->total_array_size), ¤t_space)); 4952 /* copy data into free space, then initialize lnk */ 4953 PetscCall(PetscLLClean(N, N, bnzi, lnk, current_space->array, lnkbt)); 4954 PetscCall(MatPreallocateSet(i + owners[rank], bnzi, current_space->array, dnz, onz)); 4955 4956 current_space->array += bnzi; 4957 current_space->local_used += bnzi; 4958 current_space->local_remaining -= bnzi; 4959 4960 bi[i + 1] = bi[i] + bnzi; 4961 } 4962 4963 PetscCall(PetscFree3(buf_ri_k, nextrow, nextai)); 4964 4965 PetscCall(PetscMalloc1(bi[m] + 1, &bj)); 4966 PetscCall(PetscFreeSpaceContiguous(&free_space, bj)); 4967 PetscCall(PetscLLDestroy(lnk, lnkbt)); 4968 4969 /* create symbolic parallel matrix B_mpi */ 4970 PetscCall(MatGetBlockSizes(seqmat, &bs, &cbs)); 4971 PetscCall(MatCreate(comm, &B_mpi)); 4972 if (n == PETSC_DECIDE) { 4973 PetscCall(MatSetSizes(B_mpi, m, n, PETSC_DETERMINE, N)); 4974 } else { 4975 PetscCall(MatSetSizes(B_mpi, m, n, PETSC_DETERMINE, PETSC_DETERMINE)); 4976 } 4977 PetscCall(MatSetBlockSizes(B_mpi, bs, cbs)); 4978 PetscCall(MatSetType(B_mpi, MATMPIAIJ)); 4979 PetscCall(MatMPIAIJSetPreallocation(B_mpi, 0, dnz, 0, onz)); 4980 MatPreallocateEnd(dnz, onz); 4981 PetscCall(MatSetOption(B_mpi, MAT_NEW_NONZERO_ALLOCATION_ERR, PETSC_FALSE)); 4982 4983 /* B_mpi is not ready for use - assembly will be done by MatCreateMPIAIJSumSeqAIJNumeric() */ 4984 B_mpi->assembled = PETSC_FALSE; 4985 merge->bi = bi; 4986 merge->bj = bj; 4987 merge->buf_ri = buf_ri; 4988 merge->buf_rj = buf_rj; 4989 merge->coi = NULL; 4990 merge->coj = NULL; 4991 merge->owners_co = NULL; 4992 4993 PetscCall(PetscCommDestroy(&comm)); 4994 4995 /* attach the supporting struct to B_mpi for reuse */ 4996 PetscCall(PetscContainerCreate(PETSC_COMM_SELF, &container)); 4997 PetscCall(PetscContainerSetPointer(container, merge)); 4998 PetscCall(PetscContainerSetCtxDestroy(container, MatDestroy_MPIAIJ_SeqsToMPI)); 4999 PetscCall(PetscObjectCompose((PetscObject)B_mpi, "MatMergeSeqsToMPI", (PetscObject)container)); 5000 PetscCall(PetscContainerDestroy(&container)); 5001 *mpimat = B_mpi; 5002 5003 PetscCall(PetscLogEventEnd(MAT_Seqstompisym, seqmat, 0, 0, 0)); 5004 PetscFunctionReturn(PETSC_SUCCESS); 5005 } 5006 5007 /*@ 5008 MatCreateMPIAIJSumSeqAIJ - Creates a `MATMPIAIJ` matrix by adding sequential 5009 matrices from each processor 5010 5011 Collective 5012 5013 Input Parameters: 5014 + comm - the communicators the parallel matrix will live on 5015 . seqmat - the input sequential matrices 5016 . m - number of local rows (or `PETSC_DECIDE`) 5017 . n - number of local columns (or `PETSC_DECIDE`) 5018 - scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5019 5020 Output Parameter: 5021 . mpimat - the parallel matrix generated 5022 5023 Level: advanced 5024 5025 Note: 5026 The dimensions of the sequential matrix in each processor MUST be the same. 5027 The input seqmat is included into the container "Mat_Merge_SeqsToMPI", and will be 5028 destroyed when `mpimat` is destroyed. Call `PetscObjectQuery()` to access `seqmat`. 5029 5030 .seealso: [](ch_matrices), `Mat`, `MatCreateAIJ()` 5031 @*/ 5032 PetscErrorCode MatCreateMPIAIJSumSeqAIJ(MPI_Comm comm, Mat seqmat, PetscInt m, PetscInt n, MatReuse scall, Mat *mpimat) 5033 { 5034 PetscMPIInt size; 5035 5036 PetscFunctionBegin; 5037 PetscCallMPI(MPI_Comm_size(comm, &size)); 5038 if (size == 1) { 5039 PetscCall(PetscLogEventBegin(MAT_Seqstompi, seqmat, 0, 0, 0)); 5040 if (scall == MAT_INITIAL_MATRIX) { 5041 PetscCall(MatDuplicate(seqmat, MAT_COPY_VALUES, mpimat)); 5042 } else { 5043 PetscCall(MatCopy(seqmat, *mpimat, SAME_NONZERO_PATTERN)); 5044 } 5045 PetscCall(PetscLogEventEnd(MAT_Seqstompi, seqmat, 0, 0, 0)); 5046 PetscFunctionReturn(PETSC_SUCCESS); 5047 } 5048 PetscCall(PetscLogEventBegin(MAT_Seqstompi, seqmat, 0, 0, 0)); 5049 if (scall == MAT_INITIAL_MATRIX) PetscCall(MatCreateMPIAIJSumSeqAIJSymbolic(comm, seqmat, m, n, mpimat)); 5050 PetscCall(MatCreateMPIAIJSumSeqAIJNumeric(seqmat, *mpimat)); 5051 PetscCall(PetscLogEventEnd(MAT_Seqstompi, seqmat, 0, 0, 0)); 5052 PetscFunctionReturn(PETSC_SUCCESS); 5053 } 5054 5055 /*@ 5056 MatAIJGetLocalMat - Creates a `MATSEQAIJ` from a `MATAIJ` matrix. 5057 5058 Not Collective 5059 5060 Input Parameter: 5061 . A - the matrix 5062 5063 Output Parameter: 5064 . A_loc - the local sequential matrix generated 5065 5066 Level: developer 5067 5068 Notes: 5069 The matrix is created by taking `A`'s local rows and putting them into a sequential matrix 5070 with `mlocal` rows and `n` columns. Where `mlocal` is obtained with `MatGetLocalSize()` and 5071 `n` is the global column count obtained with `MatGetSize()` 5072 5073 In other words combines the two parts of a parallel `MATMPIAIJ` matrix on each process to a single matrix. 5074 5075 For parallel matrices this creates an entirely new matrix. If the matrix is sequential it merely increases the reference count. 5076 5077 Destroy the matrix with `MatDestroy()` 5078 5079 .seealso: [](ch_matrices), `Mat`, `MatMPIAIJGetLocalMat()` 5080 @*/ 5081 PetscErrorCode MatAIJGetLocalMat(Mat A, Mat *A_loc) 5082 { 5083 PetscBool mpi; 5084 5085 PetscFunctionBegin; 5086 PetscCall(PetscObjectTypeCompare((PetscObject)A, MATMPIAIJ, &mpi)); 5087 if (mpi) { 5088 PetscCall(MatMPIAIJGetLocalMat(A, MAT_INITIAL_MATRIX, A_loc)); 5089 } else { 5090 *A_loc = A; 5091 PetscCall(PetscObjectReference((PetscObject)*A_loc)); 5092 } 5093 PetscFunctionReturn(PETSC_SUCCESS); 5094 } 5095 5096 /*@ 5097 MatMPIAIJGetLocalMat - Creates a `MATSEQAIJ` from a `MATMPIAIJ` matrix. 5098 5099 Not Collective 5100 5101 Input Parameters: 5102 + A - the matrix 5103 - scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5104 5105 Output Parameter: 5106 . A_loc - the local sequential matrix generated 5107 5108 Level: developer 5109 5110 Notes: 5111 The matrix is created by taking all `A`'s local rows and putting them into a sequential 5112 matrix with `mlocal` rows and `n` columns.`mlocal` is the row count obtained with 5113 `MatGetLocalSize()` and `n` is the global column count obtained with `MatGetSize()`. 5114 5115 In other words combines the two parts of a parallel `MATMPIAIJ` matrix on each process to a single matrix. 5116 5117 When `A` is sequential and `MAT_INITIAL_MATRIX` is requested, the matrix returned is the diagonal part of `A` (which contains the entire matrix), 5118 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 5119 then `MatCopy`(Adiag,*`A_loc`,`SAME_NONZERO_PATTERN`) is called to fill `A_loc`. Thus one can preallocate the appropriate sequential matrix `A_loc` 5120 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. 5121 5122 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatGetOwnershipRange()`, `MatMPIAIJGetLocalMatCondensed()`, `MatMPIAIJGetLocalMatMerge()` 5123 @*/ 5124 PetscErrorCode MatMPIAIJGetLocalMat(Mat A, MatReuse scall, Mat *A_loc) 5125 { 5126 Mat_MPIAIJ *mpimat = (Mat_MPIAIJ *)A->data; 5127 Mat_SeqAIJ *mat, *a, *b; 5128 PetscInt *ai, *aj, *bi, *bj, *cmap = mpimat->garray; 5129 const PetscScalar *aa, *ba, *aav, *bav; 5130 PetscScalar *ca, *cam; 5131 PetscMPIInt size; 5132 PetscInt am = A->rmap->n, i, j, k, cstart = A->cmap->rstart; 5133 PetscInt *ci, *cj, col, ncols_d, ncols_o, jo; 5134 PetscBool match; 5135 5136 PetscFunctionBegin; 5137 PetscCall(PetscStrbeginswith(((PetscObject)A)->type_name, MATMPIAIJ, &match)); 5138 PetscCheck(match, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Requires MATMPIAIJ matrix as input"); 5139 PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)A), &size)); 5140 if (size == 1) { 5141 if (scall == MAT_INITIAL_MATRIX) { 5142 PetscCall(PetscObjectReference((PetscObject)mpimat->A)); 5143 *A_loc = mpimat->A; 5144 } else if (scall == MAT_REUSE_MATRIX) { 5145 PetscCall(MatCopy(mpimat->A, *A_loc, SAME_NONZERO_PATTERN)); 5146 } 5147 PetscFunctionReturn(PETSC_SUCCESS); 5148 } 5149 5150 PetscCall(PetscLogEventBegin(MAT_Getlocalmat, A, 0, 0, 0)); 5151 a = (Mat_SeqAIJ *)mpimat->A->data; 5152 b = (Mat_SeqAIJ *)mpimat->B->data; 5153 ai = a->i; 5154 aj = a->j; 5155 bi = b->i; 5156 bj = b->j; 5157 PetscCall(MatSeqAIJGetArrayRead(mpimat->A, &aav)); 5158 PetscCall(MatSeqAIJGetArrayRead(mpimat->B, &bav)); 5159 aa = aav; 5160 ba = bav; 5161 if (scall == MAT_INITIAL_MATRIX) { 5162 PetscCall(PetscMalloc1(1 + am, &ci)); 5163 ci[0] = 0; 5164 for (i = 0; i < am; i++) ci[i + 1] = ci[i] + (ai[i + 1] - ai[i]) + (bi[i + 1] - bi[i]); 5165 PetscCall(PetscMalloc1(1 + ci[am], &cj)); 5166 PetscCall(PetscMalloc1(1 + ci[am], &ca)); 5167 k = 0; 5168 for (i = 0; i < am; i++) { 5169 ncols_o = bi[i + 1] - bi[i]; 5170 ncols_d = ai[i + 1] - ai[i]; 5171 /* off-diagonal portion of A */ 5172 for (jo = 0; jo < ncols_o; jo++) { 5173 col = cmap[*bj]; 5174 if (col >= cstart) break; 5175 cj[k] = col; 5176 bj++; 5177 ca[k++] = *ba++; 5178 } 5179 /* diagonal portion of A */ 5180 for (j = 0; j < ncols_d; j++) { 5181 cj[k] = cstart + *aj++; 5182 ca[k++] = *aa++; 5183 } 5184 /* off-diagonal portion of A */ 5185 for (j = jo; j < ncols_o; j++) { 5186 cj[k] = cmap[*bj++]; 5187 ca[k++] = *ba++; 5188 } 5189 } 5190 /* put together the new matrix */ 5191 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, am, A->cmap->N, ci, cj, ca, A_loc)); 5192 /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 5193 /* Since these are PETSc arrays, change flags to free them as necessary. */ 5194 mat = (Mat_SeqAIJ *)(*A_loc)->data; 5195 mat->free_a = PETSC_TRUE; 5196 mat->free_ij = PETSC_TRUE; 5197 mat->nonew = 0; 5198 } else if (scall == MAT_REUSE_MATRIX) { 5199 mat = (Mat_SeqAIJ *)(*A_loc)->data; 5200 ci = mat->i; 5201 cj = mat->j; 5202 PetscCall(MatSeqAIJGetArrayWrite(*A_loc, &cam)); 5203 for (i = 0; i < am; i++) { 5204 /* off-diagonal portion of A */ 5205 ncols_o = bi[i + 1] - bi[i]; 5206 for (jo = 0; jo < ncols_o; jo++) { 5207 col = cmap[*bj]; 5208 if (col >= cstart) break; 5209 *cam++ = *ba++; 5210 bj++; 5211 } 5212 /* diagonal portion of A */ 5213 ncols_d = ai[i + 1] - ai[i]; 5214 for (j = 0; j < ncols_d; j++) *cam++ = *aa++; 5215 /* off-diagonal portion of A */ 5216 for (j = jo; j < ncols_o; j++) { 5217 *cam++ = *ba++; 5218 bj++; 5219 } 5220 } 5221 PetscCall(MatSeqAIJRestoreArrayWrite(*A_loc, &cam)); 5222 } else SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Invalid MatReuse %d", (int)scall); 5223 PetscCall(MatSeqAIJRestoreArrayRead(mpimat->A, &aav)); 5224 PetscCall(MatSeqAIJRestoreArrayRead(mpimat->B, &bav)); 5225 PetscCall(PetscLogEventEnd(MAT_Getlocalmat, A, 0, 0, 0)); 5226 PetscFunctionReturn(PETSC_SUCCESS); 5227 } 5228 5229 /*@ 5230 MatMPIAIJGetLocalMatMerge - Creates a `MATSEQAIJ` from a `MATMPIAIJ` matrix by taking all its local rows and putting them into a sequential matrix with 5231 mlocal rows and n columns. Where n is the sum of the number of columns of the diagonal and off-diagonal part 5232 5233 Not Collective 5234 5235 Input Parameters: 5236 + A - the matrix 5237 - scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5238 5239 Output Parameters: 5240 + glob - sequential `IS` with global indices associated with the columns of the local sequential matrix generated (can be `NULL`) 5241 - A_loc - the local sequential matrix generated 5242 5243 Level: developer 5244 5245 Note: 5246 This is different from `MatMPIAIJGetLocalMat()` since the first columns in the returning matrix are those associated with the diagonal 5247 part, then those associated with the off-diagonal part (in its local ordering) 5248 5249 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatGetOwnershipRange()`, `MatMPIAIJGetLocalMat()`, `MatMPIAIJGetLocalMatCondensed()` 5250 @*/ 5251 PetscErrorCode MatMPIAIJGetLocalMatMerge(Mat A, MatReuse scall, IS *glob, Mat *A_loc) 5252 { 5253 Mat Ao, Ad; 5254 const PetscInt *cmap; 5255 PetscMPIInt size; 5256 PetscErrorCode (*f)(Mat, MatReuse, IS *, Mat *); 5257 5258 PetscFunctionBegin; 5259 PetscCall(MatMPIAIJGetSeqAIJ(A, &Ad, &Ao, &cmap)); 5260 PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)A), &size)); 5261 if (size == 1) { 5262 if (scall == MAT_INITIAL_MATRIX) { 5263 PetscCall(PetscObjectReference((PetscObject)Ad)); 5264 *A_loc = Ad; 5265 } else if (scall == MAT_REUSE_MATRIX) { 5266 PetscCall(MatCopy(Ad, *A_loc, SAME_NONZERO_PATTERN)); 5267 } 5268 if (glob) PetscCall(ISCreateStride(PetscObjectComm((PetscObject)Ad), Ad->cmap->n, Ad->cmap->rstart, 1, glob)); 5269 PetscFunctionReturn(PETSC_SUCCESS); 5270 } 5271 PetscCall(PetscObjectQueryFunction((PetscObject)A, "MatMPIAIJGetLocalMatMerge_C", &f)); 5272 PetscCall(PetscLogEventBegin(MAT_Getlocalmat, A, 0, 0, 0)); 5273 if (f) { 5274 PetscCall((*f)(A, scall, glob, A_loc)); 5275 } else { 5276 Mat_SeqAIJ *a = (Mat_SeqAIJ *)Ad->data; 5277 Mat_SeqAIJ *b = (Mat_SeqAIJ *)Ao->data; 5278 Mat_SeqAIJ *c; 5279 PetscInt *ai = a->i, *aj = a->j; 5280 PetscInt *bi = b->i, *bj = b->j; 5281 PetscInt *ci, *cj; 5282 const PetscScalar *aa, *ba; 5283 PetscScalar *ca; 5284 PetscInt i, j, am, dn, on; 5285 5286 PetscCall(MatGetLocalSize(Ad, &am, &dn)); 5287 PetscCall(MatGetLocalSize(Ao, NULL, &on)); 5288 PetscCall(MatSeqAIJGetArrayRead(Ad, &aa)); 5289 PetscCall(MatSeqAIJGetArrayRead(Ao, &ba)); 5290 if (scall == MAT_INITIAL_MATRIX) { 5291 PetscInt k; 5292 PetscCall(PetscMalloc1(1 + am, &ci)); 5293 PetscCall(PetscMalloc1(ai[am] + bi[am], &cj)); 5294 PetscCall(PetscMalloc1(ai[am] + bi[am], &ca)); 5295 ci[0] = 0; 5296 for (i = 0, k = 0; i < am; i++) { 5297 const PetscInt ncols_o = bi[i + 1] - bi[i]; 5298 const PetscInt ncols_d = ai[i + 1] - ai[i]; 5299 ci[i + 1] = ci[i] + ncols_o + ncols_d; 5300 /* diagonal portion of A */ 5301 for (j = 0; j < ncols_d; j++, k++) { 5302 cj[k] = *aj++; 5303 ca[k] = *aa++; 5304 } 5305 /* off-diagonal portion of A */ 5306 for (j = 0; j < ncols_o; j++, k++) { 5307 cj[k] = dn + *bj++; 5308 ca[k] = *ba++; 5309 } 5310 } 5311 /* put together the new matrix */ 5312 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, am, dn + on, ci, cj, ca, A_loc)); 5313 /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 5314 /* Since these are PETSc arrays, change flags to free them as necessary. */ 5315 c = (Mat_SeqAIJ *)(*A_loc)->data; 5316 c->free_a = PETSC_TRUE; 5317 c->free_ij = PETSC_TRUE; 5318 c->nonew = 0; 5319 PetscCall(MatSetType(*A_loc, ((PetscObject)Ad)->type_name)); 5320 } else if (scall == MAT_REUSE_MATRIX) { 5321 PetscCall(MatSeqAIJGetArrayWrite(*A_loc, &ca)); 5322 for (i = 0; i < am; i++) { 5323 const PetscInt ncols_d = ai[i + 1] - ai[i]; 5324 const PetscInt ncols_o = bi[i + 1] - bi[i]; 5325 /* diagonal portion of A */ 5326 for (j = 0; j < ncols_d; j++) *ca++ = *aa++; 5327 /* off-diagonal portion of A */ 5328 for (j = 0; j < ncols_o; j++) *ca++ = *ba++; 5329 } 5330 PetscCall(MatSeqAIJRestoreArrayWrite(*A_loc, &ca)); 5331 } else SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Invalid MatReuse %d", (int)scall); 5332 PetscCall(MatSeqAIJRestoreArrayRead(Ad, &aa)); 5333 PetscCall(MatSeqAIJRestoreArrayRead(Ao, &aa)); 5334 if (glob) { 5335 PetscInt cst, *gidx; 5336 5337 PetscCall(MatGetOwnershipRangeColumn(A, &cst, NULL)); 5338 PetscCall(PetscMalloc1(dn + on, &gidx)); 5339 for (i = 0; i < dn; i++) gidx[i] = cst + i; 5340 for (i = 0; i < on; i++) gidx[i + dn] = cmap[i]; 5341 PetscCall(ISCreateGeneral(PetscObjectComm((PetscObject)Ad), dn + on, gidx, PETSC_OWN_POINTER, glob)); 5342 } 5343 } 5344 PetscCall(PetscLogEventEnd(MAT_Getlocalmat, A, 0, 0, 0)); 5345 PetscFunctionReturn(PETSC_SUCCESS); 5346 } 5347 5348 /*@C 5349 MatMPIAIJGetLocalMatCondensed - Creates a `MATSEQAIJ` matrix from an `MATMPIAIJ` matrix by taking all its local rows and NON-ZERO columns 5350 5351 Not Collective 5352 5353 Input Parameters: 5354 + A - the matrix 5355 . scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5356 . row - index set of rows to extract (or `NULL`) 5357 - col - index set of columns to extract (or `NULL`) 5358 5359 Output Parameter: 5360 . A_loc - the local sequential matrix generated 5361 5362 Level: developer 5363 5364 .seealso: [](ch_matrices), `Mat`, `MATMPIAIJ`, `MatGetOwnershipRange()`, `MatMPIAIJGetLocalMat()` 5365 @*/ 5366 PetscErrorCode MatMPIAIJGetLocalMatCondensed(Mat A, MatReuse scall, IS *row, IS *col, Mat *A_loc) 5367 { 5368 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 5369 PetscInt i, start, end, ncols, nzA, nzB, *cmap, imark, *idx; 5370 IS isrowa, iscola; 5371 Mat *aloc; 5372 PetscBool match; 5373 5374 PetscFunctionBegin; 5375 PetscCall(PetscObjectTypeCompare((PetscObject)A, MATMPIAIJ, &match)); 5376 PetscCheck(match, PetscObjectComm((PetscObject)A), PETSC_ERR_SUP, "Requires MATMPIAIJ matrix as input"); 5377 PetscCall(PetscLogEventBegin(MAT_Getlocalmatcondensed, A, 0, 0, 0)); 5378 if (!row) { 5379 start = A->rmap->rstart; 5380 end = A->rmap->rend; 5381 PetscCall(ISCreateStride(PETSC_COMM_SELF, end - start, start, 1, &isrowa)); 5382 } else { 5383 isrowa = *row; 5384 } 5385 if (!col) { 5386 start = A->cmap->rstart; 5387 cmap = a->garray; 5388 nzA = a->A->cmap->n; 5389 nzB = a->B->cmap->n; 5390 PetscCall(PetscMalloc1(nzA + nzB, &idx)); 5391 ncols = 0; 5392 for (i = 0; i < nzB; i++) { 5393 if (cmap[i] < start) idx[ncols++] = cmap[i]; 5394 else break; 5395 } 5396 imark = i; 5397 for (i = 0; i < nzA; i++) idx[ncols++] = start + i; 5398 for (i = imark; i < nzB; i++) idx[ncols++] = cmap[i]; 5399 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, ncols, idx, PETSC_OWN_POINTER, &iscola)); 5400 } else { 5401 iscola = *col; 5402 } 5403 if (scall != MAT_INITIAL_MATRIX) { 5404 PetscCall(PetscMalloc1(1, &aloc)); 5405 aloc[0] = *A_loc; 5406 } 5407 PetscCall(MatCreateSubMatrices(A, 1, &isrowa, &iscola, scall, &aloc)); 5408 if (!col) { /* attach global id of condensed columns */ 5409 PetscCall(PetscObjectCompose((PetscObject)aloc[0], "_petsc_GetLocalMatCondensed_iscol", (PetscObject)iscola)); 5410 } 5411 *A_loc = aloc[0]; 5412 PetscCall(PetscFree(aloc)); 5413 if (!row) PetscCall(ISDestroy(&isrowa)); 5414 if (!col) PetscCall(ISDestroy(&iscola)); 5415 PetscCall(PetscLogEventEnd(MAT_Getlocalmatcondensed, A, 0, 0, 0)); 5416 PetscFunctionReturn(PETSC_SUCCESS); 5417 } 5418 5419 /* 5420 * Create a sequential AIJ matrix based on row indices. a whole column is extracted once a row is matched. 5421 * Row could be local or remote.The routine is designed to be scalable in memory so that nothing is based 5422 * on a global size. 5423 * */ 5424 static PetscErrorCode MatCreateSeqSubMatrixWithRows_Private(Mat P, IS rows, Mat *P_oth) 5425 { 5426 Mat_MPIAIJ *p = (Mat_MPIAIJ *)P->data; 5427 Mat_SeqAIJ *pd = (Mat_SeqAIJ *)p->A->data, *po = (Mat_SeqAIJ *)p->B->data, *p_oth; 5428 PetscInt plocalsize, nrows, *ilocal, *oilocal, i, lidx, *nrcols, *nlcols, ncol; 5429 PetscMPIInt owner; 5430 PetscSFNode *iremote, *oiremote; 5431 const PetscInt *lrowindices; 5432 PetscSF sf, osf; 5433 PetscInt pcstart, *roffsets, *loffsets, *pnnz, j; 5434 PetscInt ontotalcols, dntotalcols, ntotalcols, nout; 5435 MPI_Comm comm; 5436 ISLocalToGlobalMapping mapping; 5437 const PetscScalar *pd_a, *po_a; 5438 5439 PetscFunctionBegin; 5440 PetscCall(PetscObjectGetComm((PetscObject)P, &comm)); 5441 /* plocalsize is the number of roots 5442 * nrows is the number of leaves 5443 * */ 5444 PetscCall(MatGetLocalSize(P, &plocalsize, NULL)); 5445 PetscCall(ISGetLocalSize(rows, &nrows)); 5446 PetscCall(PetscCalloc1(nrows, &iremote)); 5447 PetscCall(ISGetIndices(rows, &lrowindices)); 5448 for (i = 0; i < nrows; i++) { 5449 /* Find a remote index and an owner for a row 5450 * The row could be local or remote 5451 * */ 5452 owner = 0; 5453 lidx = 0; 5454 PetscCall(PetscLayoutFindOwnerIndex(P->rmap, lrowindices[i], &owner, &lidx)); 5455 iremote[i].index = lidx; 5456 iremote[i].rank = owner; 5457 } 5458 /* Create SF to communicate how many nonzero columns for each row */ 5459 PetscCall(PetscSFCreate(comm, &sf)); 5460 /* SF will figure out the number of nonzero columns for each row, and their 5461 * offsets 5462 * */ 5463 PetscCall(PetscSFSetGraph(sf, plocalsize, nrows, NULL, PETSC_OWN_POINTER, iremote, PETSC_OWN_POINTER)); 5464 PetscCall(PetscSFSetFromOptions(sf)); 5465 PetscCall(PetscSFSetUp(sf)); 5466 5467 PetscCall(PetscCalloc1(2 * (plocalsize + 1), &roffsets)); 5468 PetscCall(PetscCalloc1(2 * plocalsize, &nrcols)); 5469 PetscCall(PetscCalloc1(nrows, &pnnz)); 5470 roffsets[0] = 0; 5471 roffsets[1] = 0; 5472 for (i = 0; i < plocalsize; i++) { 5473 /* diagonal */ 5474 nrcols[i * 2 + 0] = pd->i[i + 1] - pd->i[i]; 5475 /* off-diagonal */ 5476 nrcols[i * 2 + 1] = po->i[i + 1] - po->i[i]; 5477 /* compute offsets so that we relative location for each row */ 5478 roffsets[(i + 1) * 2 + 0] = roffsets[i * 2 + 0] + nrcols[i * 2 + 0]; 5479 roffsets[(i + 1) * 2 + 1] = roffsets[i * 2 + 1] + nrcols[i * 2 + 1]; 5480 } 5481 PetscCall(PetscCalloc1(2 * nrows, &nlcols)); 5482 PetscCall(PetscCalloc1(2 * nrows, &loffsets)); 5483 /* 'r' means root, and 'l' means leaf */ 5484 PetscCall(PetscSFBcastBegin(sf, MPIU_2INT, nrcols, nlcols, MPI_REPLACE)); 5485 PetscCall(PetscSFBcastBegin(sf, MPIU_2INT, roffsets, loffsets, MPI_REPLACE)); 5486 PetscCall(PetscSFBcastEnd(sf, MPIU_2INT, nrcols, nlcols, MPI_REPLACE)); 5487 PetscCall(PetscSFBcastEnd(sf, MPIU_2INT, roffsets, loffsets, MPI_REPLACE)); 5488 PetscCall(PetscSFDestroy(&sf)); 5489 PetscCall(PetscFree(roffsets)); 5490 PetscCall(PetscFree(nrcols)); 5491 dntotalcols = 0; 5492 ontotalcols = 0; 5493 ncol = 0; 5494 for (i = 0; i < nrows; i++) { 5495 pnnz[i] = nlcols[i * 2 + 0] + nlcols[i * 2 + 1]; 5496 ncol = PetscMax(pnnz[i], ncol); 5497 /* diagonal */ 5498 dntotalcols += nlcols[i * 2 + 0]; 5499 /* off-diagonal */ 5500 ontotalcols += nlcols[i * 2 + 1]; 5501 } 5502 /* We do not need to figure the right number of columns 5503 * since all the calculations will be done by going through the raw data 5504 * */ 5505 PetscCall(MatCreateSeqAIJ(PETSC_COMM_SELF, nrows, ncol, 0, pnnz, P_oth)); 5506 PetscCall(MatSetUp(*P_oth)); 5507 PetscCall(PetscFree(pnnz)); 5508 p_oth = (Mat_SeqAIJ *)(*P_oth)->data; 5509 /* diagonal */ 5510 PetscCall(PetscCalloc1(dntotalcols, &iremote)); 5511 /* off-diagonal */ 5512 PetscCall(PetscCalloc1(ontotalcols, &oiremote)); 5513 /* diagonal */ 5514 PetscCall(PetscCalloc1(dntotalcols, &ilocal)); 5515 /* off-diagonal */ 5516 PetscCall(PetscCalloc1(ontotalcols, &oilocal)); 5517 dntotalcols = 0; 5518 ontotalcols = 0; 5519 ntotalcols = 0; 5520 for (i = 0; i < nrows; i++) { 5521 owner = 0; 5522 PetscCall(PetscLayoutFindOwnerIndex(P->rmap, lrowindices[i], &owner, NULL)); 5523 /* Set iremote for diag matrix */ 5524 for (j = 0; j < nlcols[i * 2 + 0]; j++) { 5525 iremote[dntotalcols].index = loffsets[i * 2 + 0] + j; 5526 iremote[dntotalcols].rank = owner; 5527 /* P_oth is seqAIJ so that ilocal need to point to the first part of memory */ 5528 ilocal[dntotalcols++] = ntotalcols++; 5529 } 5530 /* off-diagonal */ 5531 for (j = 0; j < nlcols[i * 2 + 1]; j++) { 5532 oiremote[ontotalcols].index = loffsets[i * 2 + 1] + j; 5533 oiremote[ontotalcols].rank = owner; 5534 oilocal[ontotalcols++] = ntotalcols++; 5535 } 5536 } 5537 PetscCall(ISRestoreIndices(rows, &lrowindices)); 5538 PetscCall(PetscFree(loffsets)); 5539 PetscCall(PetscFree(nlcols)); 5540 PetscCall(PetscSFCreate(comm, &sf)); 5541 /* P serves as roots and P_oth is leaves 5542 * Diag matrix 5543 * */ 5544 PetscCall(PetscSFSetGraph(sf, pd->i[plocalsize], dntotalcols, ilocal, PETSC_OWN_POINTER, iremote, PETSC_OWN_POINTER)); 5545 PetscCall(PetscSFSetFromOptions(sf)); 5546 PetscCall(PetscSFSetUp(sf)); 5547 5548 PetscCall(PetscSFCreate(comm, &osf)); 5549 /* off-diagonal */ 5550 PetscCall(PetscSFSetGraph(osf, po->i[plocalsize], ontotalcols, oilocal, PETSC_OWN_POINTER, oiremote, PETSC_OWN_POINTER)); 5551 PetscCall(PetscSFSetFromOptions(osf)); 5552 PetscCall(PetscSFSetUp(osf)); 5553 PetscCall(MatSeqAIJGetArrayRead(p->A, &pd_a)); 5554 PetscCall(MatSeqAIJGetArrayRead(p->B, &po_a)); 5555 /* operate on the matrix internal data to save memory */ 5556 PetscCall(PetscSFBcastBegin(sf, MPIU_SCALAR, pd_a, p_oth->a, MPI_REPLACE)); 5557 PetscCall(PetscSFBcastBegin(osf, MPIU_SCALAR, po_a, p_oth->a, MPI_REPLACE)); 5558 PetscCall(MatGetOwnershipRangeColumn(P, &pcstart, NULL)); 5559 /* Convert to global indices for diag matrix */ 5560 for (i = 0; i < pd->i[plocalsize]; i++) pd->j[i] += pcstart; 5561 PetscCall(PetscSFBcastBegin(sf, MPIU_INT, pd->j, p_oth->j, MPI_REPLACE)); 5562 /* We want P_oth store global indices */ 5563 PetscCall(ISLocalToGlobalMappingCreate(comm, 1, p->B->cmap->n, p->garray, PETSC_COPY_VALUES, &mapping)); 5564 /* Use memory scalable approach */ 5565 PetscCall(ISLocalToGlobalMappingSetType(mapping, ISLOCALTOGLOBALMAPPINGHASH)); 5566 PetscCall(ISLocalToGlobalMappingApply(mapping, po->i[plocalsize], po->j, po->j)); 5567 PetscCall(PetscSFBcastBegin(osf, MPIU_INT, po->j, p_oth->j, MPI_REPLACE)); 5568 PetscCall(PetscSFBcastEnd(sf, MPIU_INT, pd->j, p_oth->j, MPI_REPLACE)); 5569 /* Convert back to local indices */ 5570 for (i = 0; i < pd->i[plocalsize]; i++) pd->j[i] -= pcstart; 5571 PetscCall(PetscSFBcastEnd(osf, MPIU_INT, po->j, p_oth->j, MPI_REPLACE)); 5572 nout = 0; 5573 PetscCall(ISGlobalToLocalMappingApply(mapping, IS_GTOLM_DROP, po->i[plocalsize], po->j, &nout, po->j)); 5574 PetscCheck(nout == po->i[plocalsize], comm, PETSC_ERR_ARG_INCOMP, "n %" PetscInt_FMT " does not equal to nout %" PetscInt_FMT " ", po->i[plocalsize], nout); 5575 PetscCall(ISLocalToGlobalMappingDestroy(&mapping)); 5576 /* Exchange values */ 5577 PetscCall(PetscSFBcastEnd(sf, MPIU_SCALAR, pd_a, p_oth->a, MPI_REPLACE)); 5578 PetscCall(PetscSFBcastEnd(osf, MPIU_SCALAR, po_a, p_oth->a, MPI_REPLACE)); 5579 PetscCall(MatSeqAIJRestoreArrayRead(p->A, &pd_a)); 5580 PetscCall(MatSeqAIJRestoreArrayRead(p->B, &po_a)); 5581 /* Stop PETSc from shrinking memory */ 5582 for (i = 0; i < nrows; i++) p_oth->ilen[i] = p_oth->imax[i]; 5583 PetscCall(MatAssemblyBegin(*P_oth, MAT_FINAL_ASSEMBLY)); 5584 PetscCall(MatAssemblyEnd(*P_oth, MAT_FINAL_ASSEMBLY)); 5585 /* Attach PetscSF objects to P_oth so that we can reuse it later */ 5586 PetscCall(PetscObjectCompose((PetscObject)*P_oth, "diagsf", (PetscObject)sf)); 5587 PetscCall(PetscObjectCompose((PetscObject)*P_oth, "offdiagsf", (PetscObject)osf)); 5588 PetscCall(PetscSFDestroy(&sf)); 5589 PetscCall(PetscSFDestroy(&osf)); 5590 PetscFunctionReturn(PETSC_SUCCESS); 5591 } 5592 5593 /* 5594 * Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns of local A 5595 * This supports MPIAIJ and MAIJ 5596 * */ 5597 PetscErrorCode MatGetBrowsOfAcols_MPIXAIJ(Mat A, Mat P, PetscInt dof, MatReuse reuse, Mat *P_oth) 5598 { 5599 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data, *p = (Mat_MPIAIJ *)P->data; 5600 Mat_SeqAIJ *p_oth; 5601 IS rows, map; 5602 PetscHMapI hamp; 5603 PetscInt i, htsize, *rowindices, off, *mapping, key, count; 5604 MPI_Comm comm; 5605 PetscSF sf, osf; 5606 PetscBool has; 5607 5608 PetscFunctionBegin; 5609 PetscCall(PetscObjectGetComm((PetscObject)A, &comm)); 5610 PetscCall(PetscLogEventBegin(MAT_GetBrowsOfAocols, A, P, 0, 0)); 5611 /* If it is the first time, create an index set of off-diag nonzero columns of A, 5612 * and then create a submatrix (that often is an overlapping matrix) 5613 * */ 5614 if (reuse == MAT_INITIAL_MATRIX) { 5615 /* Use a hash table to figure out unique keys */ 5616 PetscCall(PetscHMapICreateWithSize(a->B->cmap->n, &hamp)); 5617 PetscCall(PetscCalloc1(a->B->cmap->n, &mapping)); 5618 count = 0; 5619 /* Assume that a->g is sorted, otherwise the following does not make sense */ 5620 for (i = 0; i < a->B->cmap->n; i++) { 5621 key = a->garray[i] / dof; 5622 PetscCall(PetscHMapIHas(hamp, key, &has)); 5623 if (!has) { 5624 mapping[i] = count; 5625 PetscCall(PetscHMapISet(hamp, key, count++)); 5626 } else { 5627 /* Current 'i' has the same value the previous step */ 5628 mapping[i] = count - 1; 5629 } 5630 } 5631 PetscCall(ISCreateGeneral(comm, a->B->cmap->n, mapping, PETSC_OWN_POINTER, &map)); 5632 PetscCall(PetscHMapIGetSize(hamp, &htsize)); 5633 PetscCheck(htsize == count, comm, PETSC_ERR_ARG_INCOMP, " Size of hash map %" PetscInt_FMT " is inconsistent with count %" PetscInt_FMT, htsize, count); 5634 PetscCall(PetscCalloc1(htsize, &rowindices)); 5635 off = 0; 5636 PetscCall(PetscHMapIGetKeys(hamp, &off, rowindices)); 5637 PetscCall(PetscHMapIDestroy(&hamp)); 5638 PetscCall(PetscSortInt(htsize, rowindices)); 5639 PetscCall(ISCreateGeneral(comm, htsize, rowindices, PETSC_OWN_POINTER, &rows)); 5640 /* In case, the matrix was already created but users want to recreate the matrix */ 5641 PetscCall(MatDestroy(P_oth)); 5642 PetscCall(MatCreateSeqSubMatrixWithRows_Private(P, rows, P_oth)); 5643 PetscCall(PetscObjectCompose((PetscObject)*P_oth, "aoffdiagtopothmapping", (PetscObject)map)); 5644 PetscCall(ISDestroy(&map)); 5645 PetscCall(ISDestroy(&rows)); 5646 } else if (reuse == MAT_REUSE_MATRIX) { 5647 /* If matrix was already created, we simply update values using SF objects 5648 * that as attached to the matrix earlier. 5649 */ 5650 const PetscScalar *pd_a, *po_a; 5651 5652 PetscCall(PetscObjectQuery((PetscObject)*P_oth, "diagsf", (PetscObject *)&sf)); 5653 PetscCall(PetscObjectQuery((PetscObject)*P_oth, "offdiagsf", (PetscObject *)&osf)); 5654 PetscCheck(sf && osf, comm, PETSC_ERR_ARG_NULL, "Matrix is not initialized yet"); 5655 p_oth = (Mat_SeqAIJ *)(*P_oth)->data; 5656 /* Update values in place */ 5657 PetscCall(MatSeqAIJGetArrayRead(p->A, &pd_a)); 5658 PetscCall(MatSeqAIJGetArrayRead(p->B, &po_a)); 5659 PetscCall(PetscSFBcastBegin(sf, MPIU_SCALAR, pd_a, p_oth->a, MPI_REPLACE)); 5660 PetscCall(PetscSFBcastBegin(osf, MPIU_SCALAR, po_a, p_oth->a, MPI_REPLACE)); 5661 PetscCall(PetscSFBcastEnd(sf, MPIU_SCALAR, pd_a, p_oth->a, MPI_REPLACE)); 5662 PetscCall(PetscSFBcastEnd(osf, MPIU_SCALAR, po_a, p_oth->a, MPI_REPLACE)); 5663 PetscCall(MatSeqAIJRestoreArrayRead(p->A, &pd_a)); 5664 PetscCall(MatSeqAIJRestoreArrayRead(p->B, &po_a)); 5665 } else SETERRQ(comm, PETSC_ERR_ARG_UNKNOWN_TYPE, "Unknown reuse type"); 5666 PetscCall(PetscLogEventEnd(MAT_GetBrowsOfAocols, A, P, 0, 0)); 5667 PetscFunctionReturn(PETSC_SUCCESS); 5668 } 5669 5670 /*@C 5671 MatGetBrowsOfAcols - Returns `IS` that contain rows of `B` that equal to nonzero columns of local `A` 5672 5673 Collective 5674 5675 Input Parameters: 5676 + A - the first matrix in `MATMPIAIJ` format 5677 . B - the second matrix in `MATMPIAIJ` format 5678 - scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5679 5680 Output Parameters: 5681 + rowb - On input index sets of rows of B to extract (or `NULL`), modified on output 5682 . colb - On input index sets of columns of B to extract (or `NULL`), modified on output 5683 - B_seq - the sequential matrix generated 5684 5685 Level: developer 5686 5687 .seealso: `Mat`, `MATMPIAIJ`, `IS`, `MatReuse` 5688 @*/ 5689 PetscErrorCode MatGetBrowsOfAcols(Mat A, Mat B, MatReuse scall, IS *rowb, IS *colb, Mat *B_seq) 5690 { 5691 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 5692 PetscInt *idx, i, start, ncols, nzA, nzB, *cmap, imark; 5693 IS isrowb, iscolb; 5694 Mat *bseq = NULL; 5695 5696 PetscFunctionBegin; 5697 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 ")", 5698 A->cmap->rstart, A->cmap->rend, B->rmap->rstart, B->rmap->rend); 5699 PetscCall(PetscLogEventBegin(MAT_GetBrowsOfAcols, A, B, 0, 0)); 5700 5701 if (scall == MAT_INITIAL_MATRIX) { 5702 start = A->cmap->rstart; 5703 cmap = a->garray; 5704 nzA = a->A->cmap->n; 5705 nzB = a->B->cmap->n; 5706 PetscCall(PetscMalloc1(nzA + nzB, &idx)); 5707 ncols = 0; 5708 for (i = 0; i < nzB; i++) { /* row < local row index */ 5709 if (cmap[i] < start) idx[ncols++] = cmap[i]; 5710 else break; 5711 } 5712 imark = i; 5713 for (i = 0; i < nzA; i++) idx[ncols++] = start + i; /* local rows */ 5714 for (i = imark; i < nzB; i++) idx[ncols++] = cmap[i]; /* row > local row index */ 5715 PetscCall(ISCreateGeneral(PETSC_COMM_SELF, ncols, idx, PETSC_OWN_POINTER, &isrowb)); 5716 PetscCall(ISCreateStride(PETSC_COMM_SELF, B->cmap->N, 0, 1, &iscolb)); 5717 } else { 5718 PetscCheck(rowb && colb, PETSC_COMM_SELF, PETSC_ERR_SUP, "IS rowb and colb must be provided for MAT_REUSE_MATRIX"); 5719 isrowb = *rowb; 5720 iscolb = *colb; 5721 PetscCall(PetscMalloc1(1, &bseq)); 5722 bseq[0] = *B_seq; 5723 } 5724 PetscCall(MatCreateSubMatrices(B, 1, &isrowb, &iscolb, scall, &bseq)); 5725 *B_seq = bseq[0]; 5726 PetscCall(PetscFree(bseq)); 5727 if (!rowb) { 5728 PetscCall(ISDestroy(&isrowb)); 5729 } else { 5730 *rowb = isrowb; 5731 } 5732 if (!colb) { 5733 PetscCall(ISDestroy(&iscolb)); 5734 } else { 5735 *colb = iscolb; 5736 } 5737 PetscCall(PetscLogEventEnd(MAT_GetBrowsOfAcols, A, B, 0, 0)); 5738 PetscFunctionReturn(PETSC_SUCCESS); 5739 } 5740 5741 /* 5742 MatGetBrowsOfAoCols_MPIAIJ - Creates a `MATSEQAIJ` matrix by taking rows of B that equal to nonzero columns 5743 of the OFF-DIAGONAL portion of local A 5744 5745 Collective 5746 5747 Input Parameters: 5748 + A,B - the matrices in `MATMPIAIJ` format 5749 - scall - either `MAT_INITIAL_MATRIX` or `MAT_REUSE_MATRIX` 5750 5751 Output Parameter: 5752 + startsj_s - starting point in B's sending j-arrays, saved for MAT_REUSE (or NULL) 5753 . startsj_r - starting point in B's receiving j-arrays, saved for MAT_REUSE (or NULL) 5754 . bufa_ptr - array for sending matrix values, saved for MAT_REUSE (or NULL) 5755 - B_oth - the sequential matrix generated with size aBn=a->B->cmap->n by B->cmap->N 5756 5757 Developer Note: 5758 This directly accesses information inside the VecScatter associated with the matrix-vector product 5759 for this matrix. This is not desirable.. 5760 5761 Level: developer 5762 5763 */ 5764 5765 PetscErrorCode MatGetBrowsOfAoCols_MPIAIJ(Mat A, Mat B, MatReuse scall, PetscInt **startsj_s, PetscInt **startsj_r, MatScalar **bufa_ptr, Mat *B_oth) 5766 { 5767 Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 5768 VecScatter ctx; 5769 MPI_Comm comm; 5770 const PetscMPIInt *rprocs, *sprocs; 5771 PetscMPIInt nrecvs, nsends; 5772 const PetscInt *srow, *rstarts, *sstarts; 5773 PetscInt *rowlen, *bufj, *bufJ, ncols = 0, aBn = a->B->cmap->n, row, *b_othi, *b_othj, *rvalues = NULL, *svalues = NULL, *cols, sbs, rbs; 5774 PetscInt i, j, k = 0, l, ll, nrows, *rstartsj = NULL, *sstartsj, len; 5775 PetscScalar *b_otha, *bufa, *bufA, *vals = NULL; 5776 MPI_Request *reqs = NULL, *rwaits = NULL, *swaits = NULL; 5777 PetscMPIInt size, tag, rank, nreqs; 5778 5779 PetscFunctionBegin; 5780 PetscCall(PetscObjectGetComm((PetscObject)A, &comm)); 5781 PetscCallMPI(MPI_Comm_size(comm, &size)); 5782 5783 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 ")", 5784 A->cmap->rstart, A->cmap->rend, B->rmap->rstart, B->rmap->rend); 5785 PetscCall(PetscLogEventBegin(MAT_GetBrowsOfAocols, A, B, 0, 0)); 5786 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 5787 5788 if (size == 1) { 5789 startsj_s = NULL; 5790 bufa_ptr = NULL; 5791 *B_oth = NULL; 5792 PetscFunctionReturn(PETSC_SUCCESS); 5793 } 5794 5795 ctx = a->Mvctx; 5796 tag = ((PetscObject)ctx)->tag; 5797 5798 PetscCall(VecScatterGetRemote_Private(ctx, PETSC_TRUE /*send*/, &nsends, &sstarts, &srow, &sprocs, &sbs)); 5799 /* rprocs[] must be ordered so that indices received from them are ordered in rvalues[], which is key to algorithms used in this subroutine */ 5800 PetscCall(VecScatterGetRemoteOrdered_Private(ctx, PETSC_FALSE /*recv*/, &nrecvs, &rstarts, NULL /*indices not needed*/, &rprocs, &rbs)); 5801 PetscCall(PetscMPIIntCast(nsends + nrecvs, &nreqs)); 5802 PetscCall(PetscMalloc1(nreqs, &reqs)); 5803 rwaits = reqs; 5804 swaits = PetscSafePointerPlusOffset(reqs, nrecvs); 5805 5806 if (!startsj_s || !bufa_ptr) scall = MAT_INITIAL_MATRIX; 5807 if (scall == MAT_INITIAL_MATRIX) { 5808 /* i-array */ 5809 /* post receives */ 5810 if (nrecvs) PetscCall(PetscMalloc1(rbs * (rstarts[nrecvs] - rstarts[0]), &rvalues)); /* rstarts can be NULL when nrecvs=0 */ 5811 for (i = 0; i < nrecvs; i++) { 5812 rowlen = rvalues + rstarts[i] * rbs; 5813 nrows = (rstarts[i + 1] - rstarts[i]) * rbs; /* num of indices to be received */ 5814 PetscCallMPI(MPIU_Irecv(rowlen, nrows, MPIU_INT, rprocs[i], tag, comm, rwaits + i)); 5815 } 5816 5817 /* pack the outgoing message */ 5818 PetscCall(PetscMalloc2(nsends + 1, &sstartsj, nrecvs + 1, &rstartsj)); 5819 5820 sstartsj[0] = 0; 5821 rstartsj[0] = 0; 5822 len = 0; /* total length of j or a array to be sent */ 5823 if (nsends) { 5824 k = sstarts[0]; /* ATTENTION: sstarts[0] and rstarts[0] are not necessarily zero */ 5825 PetscCall(PetscMalloc1(sbs * (sstarts[nsends] - sstarts[0]), &svalues)); 5826 } 5827 for (i = 0; i < nsends; i++) { 5828 rowlen = svalues + (sstarts[i] - sstarts[0]) * sbs; 5829 nrows = sstarts[i + 1] - sstarts[i]; /* num of block rows */ 5830 for (j = 0; j < nrows; j++) { 5831 row = srow[k] + B->rmap->range[rank]; /* global row idx */ 5832 for (l = 0; l < sbs; l++) { 5833 PetscCall(MatGetRow_MPIAIJ(B, row + l, &ncols, NULL, NULL)); /* rowlength */ 5834 5835 rowlen[j * sbs + l] = ncols; 5836 5837 len += ncols; 5838 PetscCall(MatRestoreRow_MPIAIJ(B, row + l, &ncols, NULL, NULL)); 5839 } 5840 k++; 5841 } 5842 PetscCallMPI(MPIU_Isend(rowlen, nrows * sbs, MPIU_INT, sprocs[i], tag, comm, swaits + i)); 5843 5844 sstartsj[i + 1] = len; /* starting point of (i+1)-th outgoing msg in bufj and bufa */ 5845 } 5846 /* recvs and sends of i-array are completed */ 5847 if (nreqs) PetscCallMPI(MPI_Waitall(nreqs, reqs, MPI_STATUSES_IGNORE)); 5848 PetscCall(PetscFree(svalues)); 5849 5850 /* allocate buffers for sending j and a arrays */ 5851 PetscCall(PetscMalloc1(len + 1, &bufj)); 5852 PetscCall(PetscMalloc1(len + 1, &bufa)); 5853 5854 /* create i-array of B_oth */ 5855 PetscCall(PetscMalloc1(aBn + 2, &b_othi)); 5856 5857 b_othi[0] = 0; 5858 len = 0; /* total length of j or a array to be received */ 5859 k = 0; 5860 for (i = 0; i < nrecvs; i++) { 5861 rowlen = rvalues + (rstarts[i] - rstarts[0]) * rbs; 5862 nrows = (rstarts[i + 1] - rstarts[i]) * rbs; /* num of rows to be received */ 5863 for (j = 0; j < nrows; j++) { 5864 b_othi[k + 1] = b_othi[k] + rowlen[j]; 5865 PetscCall(PetscIntSumError(rowlen[j], len, &len)); 5866 k++; 5867 } 5868 rstartsj[i + 1] = len; /* starting point of (i+1)-th incoming msg in bufj and bufa */ 5869 } 5870 PetscCall(PetscFree(rvalues)); 5871 5872 /* allocate space for j and a arrays of B_oth */ 5873 PetscCall(PetscMalloc1(b_othi[aBn] + 1, &b_othj)); 5874 PetscCall(PetscMalloc1(b_othi[aBn] + 1, &b_otha)); 5875 5876 /* j-array */ 5877 /* post receives of j-array */ 5878 for (i = 0; i < nrecvs; i++) { 5879 nrows = rstartsj[i + 1] - rstartsj[i]; /* length of the msg received */ 5880 PetscCallMPI(MPIU_Irecv(b_othj + rstartsj[i], nrows, MPIU_INT, rprocs[i], tag, comm, rwaits + i)); 5881 } 5882 5883 /* pack the outgoing message j-array */ 5884 if (nsends) k = sstarts[0]; 5885 for (i = 0; i < nsends; i++) { 5886 nrows = sstarts[i + 1] - sstarts[i]; /* num of block rows */ 5887 bufJ = bufj + sstartsj[i]; 5888 for (j = 0; j < nrows; j++) { 5889 row = srow[k++] + B->rmap->range[rank]; /* global row idx */ 5890 for (ll = 0; ll < sbs; ll++) { 5891 PetscCall(MatGetRow_MPIAIJ(B, row + ll, &ncols, &cols, NULL)); 5892 for (l = 0; l < ncols; l++) *bufJ++ = cols[l]; 5893 PetscCall(MatRestoreRow_MPIAIJ(B, row + ll, &ncols, &cols, NULL)); 5894 } 5895 } 5896 PetscCallMPI(MPIU_Isend(bufj + sstartsj[i], sstartsj[i + 1] - sstartsj[i], MPIU_INT, sprocs[i], tag, comm, swaits + i)); 5897 } 5898 5899 /* recvs and sends of j-array are completed */ 5900 if (nreqs) PetscCallMPI(MPI_Waitall(nreqs, reqs, MPI_STATUSES_IGNORE)); 5901 } else if (scall == MAT_REUSE_MATRIX) { 5902 sstartsj = *startsj_s; 5903 rstartsj = *startsj_r; 5904 bufa = *bufa_ptr; 5905 PetscCall(MatSeqAIJGetArrayWrite(*B_oth, &b_otha)); 5906 } else SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Matrix P does not possess an object container"); 5907 5908 /* a-array */ 5909 /* post receives of a-array */ 5910 for (i = 0; i < nrecvs; i++) { 5911 nrows = rstartsj[i + 1] - rstartsj[i]; /* length of the msg received */ 5912 PetscCallMPI(MPIU_Irecv(b_otha + rstartsj[i], nrows, MPIU_SCALAR, rprocs[i], tag, comm, rwaits + i)); 5913 } 5914 5915 /* pack the outgoing message a-array */ 5916 if (nsends) k = sstarts[0]; 5917 for (i = 0; i < nsends; i++) { 5918 nrows = sstarts[i + 1] - sstarts[i]; /* num of block rows */ 5919 bufA = bufa + sstartsj[i]; 5920 for (j = 0; j < nrows; j++) { 5921 row = srow[k++] + B->rmap->range[rank]; /* global row idx */ 5922 for (ll = 0; ll < sbs; ll++) { 5923 PetscCall(MatGetRow_MPIAIJ(B, row + ll, &ncols, NULL, &vals)); 5924 for (l = 0; l < ncols; l++) *bufA++ = vals[l]; 5925 PetscCall(MatRestoreRow_MPIAIJ(B, row + ll, &ncols, NULL, &vals)); 5926 } 5927 } 5928 PetscCallMPI(MPIU_Isend(bufa + sstartsj[i], sstartsj[i + 1] - sstartsj[i], MPIU_SCALAR, sprocs[i], tag, comm, swaits + i)); 5929 } 5930 /* recvs and sends of a-array are completed */ 5931 if (nreqs) PetscCallMPI(MPI_Waitall(nreqs, reqs, MPI_STATUSES_IGNORE)); 5932 PetscCall(PetscFree(reqs)); 5933 5934 if (scall == MAT_INITIAL_MATRIX) { 5935 Mat_SeqAIJ *b_oth; 5936 5937 /* put together the new matrix */ 5938 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, aBn, B->cmap->N, b_othi, b_othj, b_otha, B_oth)); 5939 5940 /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 5941 /* Since these are PETSc arrays, change flags to free them as necessary. */ 5942 b_oth = (Mat_SeqAIJ *)(*B_oth)->data; 5943 b_oth->free_a = PETSC_TRUE; 5944 b_oth->free_ij = PETSC_TRUE; 5945 b_oth->nonew = 0; 5946 5947 PetscCall(PetscFree(bufj)); 5948 if (!startsj_s || !bufa_ptr) { 5949 PetscCall(PetscFree2(sstartsj, rstartsj)); 5950 PetscCall(PetscFree(bufa_ptr)); 5951 } else { 5952 *startsj_s = sstartsj; 5953 *startsj_r = rstartsj; 5954 *bufa_ptr = bufa; 5955 } 5956 } else if (scall == MAT_REUSE_MATRIX) { 5957 PetscCall(MatSeqAIJRestoreArrayWrite(*B_oth, &b_otha)); 5958 } 5959 5960 PetscCall(VecScatterRestoreRemote_Private(ctx, PETSC_TRUE, &nsends, &sstarts, &srow, &sprocs, &sbs)); 5961 PetscCall(VecScatterRestoreRemoteOrdered_Private(ctx, PETSC_FALSE, &nrecvs, &rstarts, NULL, &rprocs, &rbs)); 5962 PetscCall(PetscLogEventEnd(MAT_GetBrowsOfAocols, A, B, 0, 0)); 5963 PetscFunctionReturn(PETSC_SUCCESS); 5964 } 5965 5966 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJCRL(Mat, MatType, MatReuse, Mat *); 5967 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJPERM(Mat, MatType, MatReuse, Mat *); 5968 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJSELL(Mat, MatType, MatReuse, Mat *); 5969 #if defined(PETSC_HAVE_MKL_SPARSE) 5970 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJMKL(Mat, MatType, MatReuse, Mat *); 5971 #endif 5972 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIBAIJ(Mat, MatType, MatReuse, Mat *); 5973 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPISBAIJ(Mat, MatType, MatReuse, Mat *); 5974 #if defined(PETSC_HAVE_ELEMENTAL) 5975 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_Elemental(Mat, MatType, MatReuse, Mat *); 5976 #endif 5977 #if defined(PETSC_HAVE_SCALAPACK) 5978 PETSC_INTERN PetscErrorCode MatConvert_AIJ_ScaLAPACK(Mat, MatType, MatReuse, Mat *); 5979 #endif 5980 #if defined(PETSC_HAVE_HYPRE) 5981 PETSC_INTERN PetscErrorCode MatConvert_AIJ_HYPRE(Mat, MatType, MatReuse, Mat *); 5982 #endif 5983 #if defined(PETSC_HAVE_CUDA) 5984 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJCUSPARSE(Mat, MatType, MatReuse, Mat *); 5985 #endif 5986 #if defined(PETSC_HAVE_HIP) 5987 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJHIPSPARSE(Mat, MatType, MatReuse, Mat *); 5988 #endif 5989 #if defined(PETSC_HAVE_KOKKOS_KERNELS) 5990 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPIAIJKokkos(Mat, MatType, MatReuse, Mat *); 5991 #endif 5992 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_MPISELL(Mat, MatType, MatReuse, Mat *); 5993 PETSC_INTERN PetscErrorCode MatConvert_XAIJ_IS(Mat, MatType, MatReuse, Mat *); 5994 PETSC_INTERN PetscErrorCode MatProductSetFromOptions_IS_XAIJ(Mat); 5995 5996 /* 5997 Computes (B'*A')' since computing B*A directly is untenable 5998 5999 n p p 6000 [ ] [ ] [ ] 6001 m [ A ] * n [ B ] = m [ C ] 6002 [ ] [ ] [ ] 6003 6004 */ 6005 static PetscErrorCode MatMatMultNumeric_MPIDense_MPIAIJ(Mat A, Mat B, Mat C) 6006 { 6007 Mat At, Bt, Ct; 6008 6009 PetscFunctionBegin; 6010 PetscCall(MatTranspose(A, MAT_INITIAL_MATRIX, &At)); 6011 PetscCall(MatTranspose(B, MAT_INITIAL_MATRIX, &Bt)); 6012 PetscCall(MatMatMult(Bt, At, MAT_INITIAL_MATRIX, PETSC_CURRENT, &Ct)); 6013 PetscCall(MatDestroy(&At)); 6014 PetscCall(MatDestroy(&Bt)); 6015 PetscCall(MatTransposeSetPrecursor(Ct, C)); 6016 PetscCall(MatTranspose(Ct, MAT_REUSE_MATRIX, &C)); 6017 PetscCall(MatDestroy(&Ct)); 6018 PetscFunctionReturn(PETSC_SUCCESS); 6019 } 6020 6021 static PetscErrorCode MatMatMultSymbolic_MPIDense_MPIAIJ(Mat A, Mat B, PetscReal fill, Mat C) 6022 { 6023 PetscBool cisdense; 6024 6025 PetscFunctionBegin; 6026 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); 6027 PetscCall(MatSetSizes(C, A->rmap->n, B->cmap->n, A->rmap->N, B->cmap->N)); 6028 PetscCall(MatSetBlockSizesFromMats(C, A, B)); 6029 PetscCall(PetscObjectTypeCompareAny((PetscObject)C, &cisdense, MATMPIDENSE, MATMPIDENSECUDA, MATMPIDENSEHIP, "")); 6030 if (!cisdense) PetscCall(MatSetType(C, ((PetscObject)A)->type_name)); 6031 PetscCall(MatSetUp(C)); 6032 6033 C->ops->matmultnumeric = MatMatMultNumeric_MPIDense_MPIAIJ; 6034 PetscFunctionReturn(PETSC_SUCCESS); 6035 } 6036 6037 static PetscErrorCode MatProductSetFromOptions_MPIDense_MPIAIJ_AB(Mat C) 6038 { 6039 Mat_Product *product = C->product; 6040 Mat A = product->A, B = product->B; 6041 6042 PetscFunctionBegin; 6043 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 ")", 6044 A->cmap->rstart, A->cmap->rend, B->rmap->rstart, B->rmap->rend); 6045 C->ops->matmultsymbolic = MatMatMultSymbolic_MPIDense_MPIAIJ; 6046 C->ops->productsymbolic = MatProductSymbolic_AB; 6047 PetscFunctionReturn(PETSC_SUCCESS); 6048 } 6049 6050 PETSC_INTERN PetscErrorCode MatProductSetFromOptions_MPIDense_MPIAIJ(Mat C) 6051 { 6052 Mat_Product *product = C->product; 6053 6054 PetscFunctionBegin; 6055 if (product->type == MATPRODUCT_AB) PetscCall(MatProductSetFromOptions_MPIDense_MPIAIJ_AB(C)); 6056 PetscFunctionReturn(PETSC_SUCCESS); 6057 } 6058 6059 /* 6060 Merge two sets of sorted nonzeros and return a CSR for the merged (sequential) matrix 6061 6062 Input Parameters: 6063 6064 j1,rowBegin1,rowEnd1,jmap1: describe the first set of nonzeros (Set1) 6065 j2,rowBegin2,rowEnd2,jmap2: describe the second set of nonzeros (Set2) 6066 6067 mat: both sets' nonzeros are on m rows, where m is the number of local rows of the matrix mat 6068 6069 For Set1, j1[] contains column indices of the nonzeros. 6070 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 6071 respectively (note rowEnd1[k] is not necessarily equal to rwoBegin1[k+1]). Indices in this range of j1[] are sorted, 6072 but might have repeats. jmap1[t+1] - jmap1[t] is the number of repeats for the t-th unique nonzero in Set1. 6073 6074 Similar for Set2. 6075 6076 This routine merges the two sets of nonzeros row by row and removes repeats. 6077 6078 Output Parameters: (memory is allocated by the caller) 6079 6080 i[],j[]: the CSR of the merged matrix, which has m rows. 6081 imap1[]: the k-th unique nonzero in Set1 (k=0,1,...) corresponds to imap1[k]-th unique nonzero in the merged matrix. 6082 imap2[]: similar to imap1[], but for Set2. 6083 Note we order nonzeros row-by-row and from left to right. 6084 */ 6085 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[]) 6086 { 6087 PetscInt r, m; /* Row index of mat */ 6088 PetscCount t, t1, t2, b1, e1, b2, e2; 6089 6090 PetscFunctionBegin; 6091 PetscCall(MatGetLocalSize(mat, &m, NULL)); 6092 t1 = t2 = t = 0; /* Count unique nonzeros of in Set1, Set1 and the merged respectively */ 6093 i[0] = 0; 6094 for (r = 0; r < m; r++) { /* Do row by row merging */ 6095 b1 = rowBegin1[r]; 6096 e1 = rowEnd1[r]; 6097 b2 = rowBegin2[r]; 6098 e2 = rowEnd2[r]; 6099 while (b1 < e1 && b2 < e2) { 6100 if (j1[b1] == j2[b2]) { /* Same column index and hence same nonzero */ 6101 j[t] = j1[b1]; 6102 imap1[t1] = t; 6103 imap2[t2] = t; 6104 b1 += jmap1[t1 + 1] - jmap1[t1]; /* Jump to next unique local nonzero */ 6105 b2 += jmap2[t2 + 1] - jmap2[t2]; /* Jump to next unique remote nonzero */ 6106 t1++; 6107 t2++; 6108 t++; 6109 } else if (j1[b1] < j2[b2]) { 6110 j[t] = j1[b1]; 6111 imap1[t1] = t; 6112 b1 += jmap1[t1 + 1] - jmap1[t1]; 6113 t1++; 6114 t++; 6115 } else { 6116 j[t] = j2[b2]; 6117 imap2[t2] = t; 6118 b2 += jmap2[t2 + 1] - jmap2[t2]; 6119 t2++; 6120 t++; 6121 } 6122 } 6123 /* Merge the remaining in either j1[] or j2[] */ 6124 while (b1 < e1) { 6125 j[t] = j1[b1]; 6126 imap1[t1] = t; 6127 b1 += jmap1[t1 + 1] - jmap1[t1]; 6128 t1++; 6129 t++; 6130 } 6131 while (b2 < e2) { 6132 j[t] = j2[b2]; 6133 imap2[t2] = t; 6134 b2 += jmap2[t2 + 1] - jmap2[t2]; 6135 t2++; 6136 t++; 6137 } 6138 PetscCall(PetscIntCast(t, i + r + 1)); 6139 } 6140 PetscFunctionReturn(PETSC_SUCCESS); 6141 } 6142 6143 /* 6144 Split nonzeros in a block of local rows into two subsets: those in the diagonal block and those in the off-diagonal block 6145 6146 Input Parameters: 6147 mat: an MPI matrix that provides row and column layout information for splitting. Let's say its number of local rows is m. 6148 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[] 6149 respectively, along with a permutation array perm[]. Length of the i[],j[],perm[] arrays is n. 6150 6151 i[] is already sorted, but within a row, j[] is not sorted and might have repeats. 6152 i[] might contain negative indices at the beginning, which means the corresponding entries should be ignored in the splitting. 6153 6154 Output Parameters: 6155 j[],perm[]: the routine needs to sort j[] within each row along with perm[]. 6156 rowBegin[],rowMid[],rowEnd[]: of length m, and the memory is preallocated and zeroed by the caller. 6157 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, 6158 and [rowMid[r],rowEnd[r]) point to begin/end entries of row r of the off-diagonal block. 6159 6160 Aperm[],Ajmap[],Atot,Annz: Arrays are allocated by this routine. 6161 Atot: number of entries belonging to the diagonal block. 6162 Annz: number of unique nonzeros belonging to the diagonal block. 6163 Aperm[Atot] stores values from perm[] for entries belonging to the diagonal block. Length of Aperm[] is Atot, though it may also count 6164 repeats (i.e., same 'i,j' pair). 6165 Ajmap[Annz+1] stores the number of repeats of each unique entry belonging to the diagonal block. More precisely, Ajmap[t+1] - Ajmap[t] 6166 is the number of repeats for the t-th unique entry in the diagonal block. Ajmap[0] is always 0. 6167 6168 Atot: number of entries belonging to the diagonal block 6169 Annz: number of unique nonzeros belonging to the diagonal block. 6170 6171 Bperm[], Bjmap[], Btot, Bnnz are similar but for the off-diagonal block. 6172 6173 Aperm[],Bperm[],Ajmap[] and Bjmap[] are allocated separately by this routine with PetscMalloc1(). 6174 */ 6175 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_) 6176 { 6177 PetscInt cstart, cend, rstart, rend, row, col; 6178 PetscCount Atot = 0, Btot = 0; /* Total number of nonzeros in the diagonal and off-diagonal blocks */ 6179 PetscCount Annz = 0, Bnnz = 0; /* Number of unique nonzeros in the diagonal and off-diagonal blocks */ 6180 PetscCount k, m, p, q, r, s, mid; 6181 PetscCount *Aperm, *Bperm, *Ajmap, *Bjmap; 6182 6183 PetscFunctionBegin; 6184 PetscCall(PetscLayoutGetRange(mat->rmap, &rstart, &rend)); 6185 PetscCall(PetscLayoutGetRange(mat->cmap, &cstart, &cend)); 6186 m = rend - rstart; 6187 6188 /* Skip negative rows */ 6189 for (k = 0; k < n; k++) 6190 if (i[k] >= 0) break; 6191 6192 /* Process [k,n): sort and partition each local row into diag and offdiag portions, 6193 fill rowBegin[], rowMid[], rowEnd[], and count Atot, Btot, Annz, Bnnz. 6194 */ 6195 while (k < n) { 6196 row = i[k]; 6197 /* Entries in [k,s) are in one row. Shift diagonal block col indices so that diag is ahead of offdiag after sorting the row */ 6198 for (s = k; s < n; s++) 6199 if (i[s] != row) break; 6200 6201 /* Shift diag columns to range of [-PETSC_INT_MAX, -1] */ 6202 for (p = k; p < s; p++) { 6203 if (j[p] >= cstart && j[p] < cend) j[p] -= PETSC_INT_MAX; 6204 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]); 6205 } 6206 PetscCall(PetscSortIntWithCountArray(s - k, j + k, perm + k)); 6207 PetscCall(PetscSortedIntUpperBound(j, k, s, -1, &mid)); /* Separate [k,s) into [k,mid) for diag and [mid,s) for offdiag */ 6208 rowBegin[row - rstart] = k; 6209 rowMid[row - rstart] = mid; 6210 rowEnd[row - rstart] = s; 6211 6212 /* Count nonzeros of this diag/offdiag row, which might have repeats */ 6213 Atot += mid - k; 6214 Btot += s - mid; 6215 6216 /* Count unique nonzeros of this diag row */ 6217 for (p = k; p < mid;) { 6218 col = j[p]; 6219 do { 6220 j[p] += PETSC_INT_MAX; /* Revert the modified diagonal indices */ 6221 p++; 6222 } while (p < mid && j[p] == col); 6223 Annz++; 6224 } 6225 6226 /* Count unique nonzeros of this offdiag row */ 6227 for (p = mid; p < s;) { 6228 col = j[p]; 6229 do { 6230 p++; 6231 } while (p < s && j[p] == col); 6232 Bnnz++; 6233 } 6234 k = s; 6235 } 6236 6237 /* Allocation according to Atot, Btot, Annz, Bnnz */ 6238 PetscCall(PetscMalloc1(Atot, &Aperm)); 6239 PetscCall(PetscMalloc1(Btot, &Bperm)); 6240 PetscCall(PetscMalloc1(Annz + 1, &Ajmap)); 6241 PetscCall(PetscMalloc1(Bnnz + 1, &Bjmap)); 6242 6243 /* Re-scan indices and copy diag/offdiag permutation indices to Aperm, Bperm and also fill Ajmap and Bjmap */ 6244 Ajmap[0] = Bjmap[0] = Atot = Btot = Annz = Bnnz = 0; 6245 for (r = 0; r < m; r++) { 6246 k = rowBegin[r]; 6247 mid = rowMid[r]; 6248 s = rowEnd[r]; 6249 PetscCall(PetscArraycpy(PetscSafePointerPlusOffset(Aperm, Atot), PetscSafePointerPlusOffset(perm, k), mid - k)); 6250 PetscCall(PetscArraycpy(PetscSafePointerPlusOffset(Bperm, Btot), PetscSafePointerPlusOffset(perm, mid), s - mid)); 6251 Atot += mid - k; 6252 Btot += s - mid; 6253 6254 /* Scan column indices in this row and find out how many repeats each unique nonzero has */ 6255 for (p = k; p < mid;) { 6256 col = j[p]; 6257 q = p; 6258 do { 6259 p++; 6260 } while (p < mid && j[p] == col); 6261 Ajmap[Annz + 1] = Ajmap[Annz] + (p - q); 6262 Annz++; 6263 } 6264 6265 for (p = mid; p < s;) { 6266 col = j[p]; 6267 q = p; 6268 do { 6269 p++; 6270 } while (p < s && j[p] == col); 6271 Bjmap[Bnnz + 1] = Bjmap[Bnnz] + (p - q); 6272 Bnnz++; 6273 } 6274 } 6275 /* Output */ 6276 *Aperm_ = Aperm; 6277 *Annz_ = Annz; 6278 *Atot_ = Atot; 6279 *Ajmap_ = Ajmap; 6280 *Bperm_ = Bperm; 6281 *Bnnz_ = Bnnz; 6282 *Btot_ = Btot; 6283 *Bjmap_ = Bjmap; 6284 PetscFunctionReturn(PETSC_SUCCESS); 6285 } 6286 6287 /* 6288 Expand the jmap[] array to make a new one in view of nonzeros in the merged matrix 6289 6290 Input Parameters: 6291 nnz1: number of unique nonzeros in a set that was used to produce imap[], jmap[] 6292 nnz: number of unique nonzeros in the merged matrix 6293 imap[nnz1]: i-th nonzero in the set is the imap[i]-th nonzero in the merged matrix 6294 jmap[nnz1+1]: i-th nonzero in the set has jmap[i+1] - jmap[i] repeats in the set 6295 6296 Output Parameter: (memory is allocated by the caller) 6297 jmap_new[nnz+1]: i-th nonzero in the merged matrix has jmap_new[i+1] - jmap_new[i] repeats in the set 6298 6299 Example: 6300 nnz1 = 4 6301 nnz = 6 6302 imap = [1,3,4,5] 6303 jmap = [0,3,5,6,7] 6304 then, 6305 jmap_new = [0,0,3,3,5,6,7] 6306 */ 6307 static PetscErrorCode ExpandJmap_Internal(PetscCount nnz1, PetscCount nnz, const PetscCount imap[], const PetscCount jmap[], PetscCount jmap_new[]) 6308 { 6309 PetscCount k, p; 6310 6311 PetscFunctionBegin; 6312 jmap_new[0] = 0; 6313 p = nnz; /* p loops over jmap_new[] backwards */ 6314 for (k = nnz1 - 1; k >= 0; k--) { /* k loops over imap[] */ 6315 for (; p > imap[k]; p--) jmap_new[p] = jmap[k + 1]; 6316 } 6317 for (; p >= 0; p--) jmap_new[p] = jmap[0]; 6318 PetscFunctionReturn(PETSC_SUCCESS); 6319 } 6320 6321 static PetscErrorCode MatCOOStructDestroy_MPIAIJ(void **data) 6322 { 6323 MatCOOStruct_MPIAIJ *coo = (MatCOOStruct_MPIAIJ *)*data; 6324 6325 PetscFunctionBegin; 6326 PetscCall(PetscSFDestroy(&coo->sf)); 6327 PetscCall(PetscFree(coo->Aperm1)); 6328 PetscCall(PetscFree(coo->Bperm1)); 6329 PetscCall(PetscFree(coo->Ajmap1)); 6330 PetscCall(PetscFree(coo->Bjmap1)); 6331 PetscCall(PetscFree(coo->Aimap2)); 6332 PetscCall(PetscFree(coo->Bimap2)); 6333 PetscCall(PetscFree(coo->Aperm2)); 6334 PetscCall(PetscFree(coo->Bperm2)); 6335 PetscCall(PetscFree(coo->Ajmap2)); 6336 PetscCall(PetscFree(coo->Bjmap2)); 6337 PetscCall(PetscFree(coo->Cperm1)); 6338 PetscCall(PetscFree2(coo->sendbuf, coo->recvbuf)); 6339 PetscCall(PetscFree(coo)); 6340 PetscFunctionReturn(PETSC_SUCCESS); 6341 } 6342 6343 PetscErrorCode MatSetPreallocationCOO_MPIAIJ(Mat mat, PetscCount coo_n, PetscInt coo_i[], PetscInt coo_j[]) 6344 { 6345 MPI_Comm comm; 6346 PetscMPIInt rank, size; 6347 PetscInt m, n, M, N, rstart, rend, cstart, cend; /* Sizes, indices of row/col, therefore with type PetscInt */ 6348 PetscCount k, p, q, rem; /* Loop variables over coo arrays */ 6349 Mat_MPIAIJ *mpiaij = (Mat_MPIAIJ *)mat->data; 6350 PetscContainer container; 6351 MatCOOStruct_MPIAIJ *coo; 6352 6353 PetscFunctionBegin; 6354 PetscCall(PetscFree(mpiaij->garray)); 6355 PetscCall(VecDestroy(&mpiaij->lvec)); 6356 #if defined(PETSC_USE_CTABLE) 6357 PetscCall(PetscHMapIDestroy(&mpiaij->colmap)); 6358 #else 6359 PetscCall(PetscFree(mpiaij->colmap)); 6360 #endif 6361 PetscCall(VecScatterDestroy(&mpiaij->Mvctx)); 6362 mat->assembled = PETSC_FALSE; 6363 mat->was_assembled = PETSC_FALSE; 6364 6365 PetscCall(PetscObjectGetComm((PetscObject)mat, &comm)); 6366 PetscCallMPI(MPI_Comm_size(comm, &size)); 6367 PetscCallMPI(MPI_Comm_rank(comm, &rank)); 6368 PetscCall(PetscLayoutSetUp(mat->rmap)); 6369 PetscCall(PetscLayoutSetUp(mat->cmap)); 6370 PetscCall(PetscLayoutGetRange(mat->rmap, &rstart, &rend)); 6371 PetscCall(PetscLayoutGetRange(mat->cmap, &cstart, &cend)); 6372 PetscCall(MatGetLocalSize(mat, &m, &n)); 6373 PetscCall(MatGetSize(mat, &M, &N)); 6374 6375 /* Sort (i,j) by row along with a permutation array, so that the to-be-ignored */ 6376 /* entries come first, then local rows, then remote rows. */ 6377 PetscCount n1 = coo_n, *perm1; 6378 PetscInt *i1 = coo_i, *j1 = coo_j; 6379 6380 PetscCall(PetscMalloc1(n1, &perm1)); 6381 for (k = 0; k < n1; k++) perm1[k] = k; 6382 6383 /* Manipulate indices so that entries with negative row or col indices will have smallest 6384 row indices, local entries will have greater but negative row indices, and remote entries 6385 will have positive row indices. 6386 */ 6387 for (k = 0; k < n1; k++) { 6388 if (i1[k] < 0 || j1[k] < 0) i1[k] = PETSC_INT_MIN; /* e.g., -2^31, minimal to move them ahead */ 6389 else if (i1[k] >= rstart && i1[k] < rend) i1[k] -= PETSC_INT_MAX; /* e.g., minus 2^31-1 to shift local rows to range of [-PETSC_INT_MAX, -1] */ 6390 else { 6391 PetscCheck(!mat->nooffprocentries, PETSC_COMM_SELF, PETSC_ERR_USER_INPUT, "MAT_NO_OFF_PROC_ENTRIES is set but insert to remote rows"); 6392 if (mpiaij->donotstash) i1[k] = PETSC_INT_MIN; /* Ignore offproc entries as if they had negative indices */ 6393 } 6394 } 6395 6396 /* Sort by row; after that, [0,k) have ignored entries, [k,rem) have local rows and [rem,n1) have remote rows */ 6397 PetscCall(PetscSortIntWithIntCountArrayPair(n1, i1, j1, perm1)); 6398 6399 /* Advance k to the first entry we need to take care of */ 6400 for (k = 0; k < n1; k++) 6401 if (i1[k] > PETSC_INT_MIN) break; 6402 PetscCount i1start = k; 6403 6404 PetscCall(PetscSortedIntUpperBound(i1, k, n1, rend - 1 - PETSC_INT_MAX, &rem)); /* rem is upper bound of the last local row */ 6405 for (; k < rem; k++) i1[k] += PETSC_INT_MAX; /* Revert row indices of local rows*/ 6406 6407 /* Send remote rows to their owner */ 6408 /* Find which rows should be sent to which remote ranks*/ 6409 PetscInt nsend = 0; /* Number of MPI ranks to send data to */ 6410 PetscMPIInt *sendto; /* [nsend], storing remote ranks */ 6411 PetscInt *nentries; /* [nsend], storing number of entries sent to remote ranks; Assume PetscInt is big enough for this count, and error if not */ 6412 const PetscInt *ranges; 6413 PetscInt maxNsend = size >= 128 ? 128 : size; /* Assume max 128 neighbors; realloc when needed */ 6414 6415 PetscCall(PetscLayoutGetRanges(mat->rmap, &ranges)); 6416 PetscCall(PetscMalloc2(maxNsend, &sendto, maxNsend, &nentries)); 6417 for (k = rem; k < n1;) { 6418 PetscMPIInt owner; 6419 PetscInt firstRow, lastRow; 6420 6421 /* Locate a row range */ 6422 firstRow = i1[k]; /* first row of this owner */ 6423 PetscCall(PetscLayoutFindOwner(mat->rmap, firstRow, &owner)); 6424 lastRow = ranges[owner + 1] - 1; /* last row of this owner */ 6425 6426 /* Find the first index 'p' in [k,n) with i[p] belonging to next owner */ 6427 PetscCall(PetscSortedIntUpperBound(i1, k, n1, lastRow, &p)); 6428 6429 /* All entries in [k,p) belong to this remote owner */ 6430 if (nsend >= maxNsend) { /* Double the remote ranks arrays if not long enough */ 6431 PetscMPIInt *sendto2; 6432 PetscInt *nentries2; 6433 PetscInt maxNsend2 = (maxNsend <= size / 2) ? maxNsend * 2 : size; 6434 6435 PetscCall(PetscMalloc2(maxNsend2, &sendto2, maxNsend2, &nentries2)); 6436 PetscCall(PetscArraycpy(sendto2, sendto, maxNsend)); 6437 PetscCall(PetscArraycpy(nentries2, nentries2, maxNsend + 1)); 6438 PetscCall(PetscFree2(sendto, nentries2)); 6439 sendto = sendto2; 6440 nentries = nentries2; 6441 maxNsend = maxNsend2; 6442 } 6443 sendto[nsend] = owner; 6444 PetscCall(PetscIntCast(p - k, &nentries[nsend])); 6445 nsend++; 6446 k = p; 6447 } 6448 6449 /* Build 1st SF to know offsets on remote to send data */ 6450 PetscSF sf1; 6451 PetscInt nroots = 1, nroots2 = 0; 6452 PetscInt nleaves = nsend, nleaves2 = 0; 6453 PetscInt *offsets; 6454 PetscSFNode *iremote; 6455 6456 PetscCall(PetscSFCreate(comm, &sf1)); 6457 PetscCall(PetscMalloc1(nsend, &iremote)); 6458 PetscCall(PetscMalloc1(nsend, &offsets)); 6459 for (k = 0; k < nsend; k++) { 6460 iremote[k].rank = sendto[k]; 6461 iremote[k].index = 0; 6462 nleaves2 += nentries[k]; 6463 PetscCheck(nleaves2 >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Number of SF leaves is too large for PetscInt"); 6464 } 6465 PetscCall(PetscSFSetGraph(sf1, nroots, nleaves, NULL, PETSC_OWN_POINTER, iremote, PETSC_OWN_POINTER)); 6466 PetscCall(PetscSFFetchAndOpWithMemTypeBegin(sf1, MPIU_INT, PETSC_MEMTYPE_HOST, &nroots2 /*rootdata*/, PETSC_MEMTYPE_HOST, nentries /*leafdata*/, PETSC_MEMTYPE_HOST, offsets /*leafupdate*/, MPI_SUM)); 6467 PetscCall(PetscSFFetchAndOpEnd(sf1, MPIU_INT, &nroots2, nentries, offsets, MPI_SUM)); /* Would nroots2 overflow, we check offsets[] below */ 6468 PetscCall(PetscSFDestroy(&sf1)); 6469 PetscAssert(nleaves2 == n1 - rem, PETSC_COMM_SELF, PETSC_ERR_PLIB, "nleaves2 %" PetscInt_FMT " != number of remote entries %" PetscCount_FMT, nleaves2, n1 - rem); 6470 6471 /* Build 2nd SF to send remote COOs to their owner */ 6472 PetscSF sf2; 6473 nroots = nroots2; 6474 nleaves = nleaves2; 6475 PetscCall(PetscSFCreate(comm, &sf2)); 6476 PetscCall(PetscSFSetFromOptions(sf2)); 6477 PetscCall(PetscMalloc1(nleaves, &iremote)); 6478 p = 0; 6479 for (k = 0; k < nsend; k++) { 6480 PetscCheck(offsets[k] >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Number of SF roots is too large for PetscInt"); 6481 for (q = 0; q < nentries[k]; q++, p++) { 6482 iremote[p].rank = sendto[k]; 6483 PetscCall(PetscIntCast(offsets[k] + q, &iremote[p].index)); 6484 } 6485 } 6486 PetscCall(PetscSFSetGraph(sf2, nroots, nleaves, NULL, PETSC_OWN_POINTER, iremote, PETSC_OWN_POINTER)); 6487 6488 /* Send the remote COOs to their owner */ 6489 PetscInt n2 = nroots, *i2, *j2; /* Buffers for received COOs from other ranks, along with a permutation array */ 6490 PetscCount *perm2; /* Though PetscInt is enough for remote entries, we use PetscCount here as we want to reuse MatSplitEntries_Internal() */ 6491 PetscCall(PetscMalloc3(n2, &i2, n2, &j2, n2, &perm2)); 6492 PetscAssert(rem == 0 || i1 != NULL, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Cannot add nonzero offset to null"); 6493 PetscAssert(rem == 0 || j1 != NULL, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Cannot add nonzero offset to null"); 6494 PetscInt *i1prem = PetscSafePointerPlusOffset(i1, rem); 6495 PetscInt *j1prem = PetscSafePointerPlusOffset(j1, rem); 6496 PetscCall(PetscSFReduceWithMemTypeBegin(sf2, MPIU_INT, PETSC_MEMTYPE_HOST, i1prem, PETSC_MEMTYPE_HOST, i2, MPI_REPLACE)); 6497 PetscCall(PetscSFReduceEnd(sf2, MPIU_INT, i1prem, i2, MPI_REPLACE)); 6498 PetscCall(PetscSFReduceWithMemTypeBegin(sf2, MPIU_INT, PETSC_MEMTYPE_HOST, j1prem, PETSC_MEMTYPE_HOST, j2, MPI_REPLACE)); 6499 PetscCall(PetscSFReduceEnd(sf2, MPIU_INT, j1prem, j2, MPI_REPLACE)); 6500 6501 PetscCall(PetscFree(offsets)); 6502 PetscCall(PetscFree2(sendto, nentries)); 6503 6504 /* Sort received COOs by row along with the permutation array */ 6505 for (k = 0; k < n2; k++) perm2[k] = k; 6506 PetscCall(PetscSortIntWithIntCountArrayPair(n2, i2, j2, perm2)); 6507 6508 /* sf2 only sends contiguous leafdata to contiguous rootdata. We record the permutation which will be used to fill leafdata */ 6509 PetscCount *Cperm1; 6510 PetscAssert(rem == 0 || perm1 != NULL, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Cannot add nonzero offset to null"); 6511 PetscCount *perm1prem = PetscSafePointerPlusOffset(perm1, rem); 6512 PetscCall(PetscMalloc1(nleaves, &Cperm1)); 6513 PetscCall(PetscArraycpy(Cperm1, perm1prem, nleaves)); 6514 6515 /* Support for HYPRE matrices, kind of a hack. 6516 Swap min column with diagonal so that diagonal values will go first */ 6517 PetscBool hypre; 6518 PetscCall(PetscStrcmp("_internal_COO_mat_for_hypre", ((PetscObject)mat)->name, &hypre)); 6519 if (hypre) { 6520 PetscInt *minj; 6521 PetscBT hasdiag; 6522 6523 PetscCall(PetscBTCreate(m, &hasdiag)); 6524 PetscCall(PetscMalloc1(m, &minj)); 6525 for (k = 0; k < m; k++) minj[k] = PETSC_INT_MAX; 6526 for (k = i1start; k < rem; k++) { 6527 if (j1[k] < cstart || j1[k] >= cend) continue; 6528 const PetscInt rindex = i1[k] - rstart; 6529 if ((j1[k] - cstart) == rindex) PetscCall(PetscBTSet(hasdiag, rindex)); 6530 minj[rindex] = PetscMin(minj[rindex], j1[k]); 6531 } 6532 for (k = 0; k < n2; k++) { 6533 if (j2[k] < cstart || j2[k] >= cend) continue; 6534 const PetscInt rindex = i2[k] - rstart; 6535 if ((j2[k] - cstart) == rindex) PetscCall(PetscBTSet(hasdiag, rindex)); 6536 minj[rindex] = PetscMin(minj[rindex], j2[k]); 6537 } 6538 for (k = i1start; k < rem; k++) { 6539 const PetscInt rindex = i1[k] - rstart; 6540 if (j1[k] < cstart || j1[k] >= cend || !PetscBTLookup(hasdiag, rindex)) continue; 6541 if (j1[k] == minj[rindex]) j1[k] = i1[k] + (cstart - rstart); 6542 else if ((j1[k] - cstart) == rindex) j1[k] = minj[rindex]; 6543 } 6544 for (k = 0; k < n2; k++) { 6545 const PetscInt rindex = i2[k] - rstart; 6546 if (j2[k] < cstart || j2[k] >= cend || !PetscBTLookup(hasdiag, rindex)) continue; 6547 if (j2[k] == minj[rindex]) j2[k] = i2[k] + (cstart - rstart); 6548 else if ((j2[k] - cstart) == rindex) j2[k] = minj[rindex]; 6549 } 6550 PetscCall(PetscBTDestroy(&hasdiag)); 6551 PetscCall(PetscFree(minj)); 6552 } 6553 6554 /* Split local COOs and received COOs into diag/offdiag portions */ 6555 PetscCount *rowBegin1, *rowMid1, *rowEnd1; 6556 PetscCount *Ajmap1, *Aperm1, *Bjmap1, *Bperm1; 6557 PetscCount Annz1, Bnnz1, Atot1, Btot1; 6558 PetscCount *rowBegin2, *rowMid2, *rowEnd2; 6559 PetscCount *Ajmap2, *Aperm2, *Bjmap2, *Bperm2; 6560 PetscCount Annz2, Bnnz2, Atot2, Btot2; 6561 6562 PetscCall(PetscCalloc3(m, &rowBegin1, m, &rowMid1, m, &rowEnd1)); 6563 PetscCall(PetscCalloc3(m, &rowBegin2, m, &rowMid2, m, &rowEnd2)); 6564 PetscCall(MatSplitEntries_Internal(mat, rem, i1, j1, perm1, rowBegin1, rowMid1, rowEnd1, &Atot1, &Aperm1, &Annz1, &Ajmap1, &Btot1, &Bperm1, &Bnnz1, &Bjmap1)); 6565 PetscCall(MatSplitEntries_Internal(mat, n2, i2, j2, perm2, rowBegin2, rowMid2, rowEnd2, &Atot2, &Aperm2, &Annz2, &Ajmap2, &Btot2, &Bperm2, &Bnnz2, &Bjmap2)); 6566 6567 /* Merge local COOs with received COOs: diag with diag, offdiag with offdiag */ 6568 PetscInt *Ai, *Bi; 6569 PetscInt *Aj, *Bj; 6570 6571 PetscCall(PetscMalloc1(m + 1, &Ai)); 6572 PetscCall(PetscMalloc1(m + 1, &Bi)); 6573 PetscCall(PetscMalloc1(Annz1 + Annz2, &Aj)); /* Since local and remote entries might have dups, we might allocate excess memory */ 6574 PetscCall(PetscMalloc1(Bnnz1 + Bnnz2, &Bj)); 6575 6576 PetscCount *Aimap1, *Bimap1, *Aimap2, *Bimap2; 6577 PetscCall(PetscMalloc1(Annz1, &Aimap1)); 6578 PetscCall(PetscMalloc1(Bnnz1, &Bimap1)); 6579 PetscCall(PetscMalloc1(Annz2, &Aimap2)); 6580 PetscCall(PetscMalloc1(Bnnz2, &Bimap2)); 6581 6582 PetscCall(MatMergeEntries_Internal(mat, j1, j2, rowBegin1, rowMid1, rowBegin2, rowMid2, Ajmap1, Ajmap2, Aimap1, Aimap2, Ai, Aj)); 6583 PetscCall(MatMergeEntries_Internal(mat, j1, j2, rowMid1, rowEnd1, rowMid2, rowEnd2, Bjmap1, Bjmap2, Bimap1, Bimap2, Bi, Bj)); 6584 6585 /* Expand Ajmap1/Bjmap1 to make them based off nonzeros in A/B, since we */ 6586 /* expect nonzeros in A/B most likely have local contributing entries */ 6587 PetscInt Annz = Ai[m]; 6588 PetscInt Bnnz = Bi[m]; 6589 PetscCount *Ajmap1_new, *Bjmap1_new; 6590 6591 PetscCall(PetscMalloc1(Annz + 1, &Ajmap1_new)); 6592 PetscCall(PetscMalloc1(Bnnz + 1, &Bjmap1_new)); 6593 6594 PetscCall(ExpandJmap_Internal(Annz1, Annz, Aimap1, Ajmap1, Ajmap1_new)); 6595 PetscCall(ExpandJmap_Internal(Bnnz1, Bnnz, Bimap1, Bjmap1, Bjmap1_new)); 6596 6597 PetscCall(PetscFree(Aimap1)); 6598 PetscCall(PetscFree(Ajmap1)); 6599 PetscCall(PetscFree(Bimap1)); 6600 PetscCall(PetscFree(Bjmap1)); 6601 PetscCall(PetscFree3(rowBegin1, rowMid1, rowEnd1)); 6602 PetscCall(PetscFree3(rowBegin2, rowMid2, rowEnd2)); 6603 PetscCall(PetscFree(perm1)); 6604 PetscCall(PetscFree3(i2, j2, perm2)); 6605 6606 Ajmap1 = Ajmap1_new; 6607 Bjmap1 = Bjmap1_new; 6608 6609 /* Reallocate Aj, Bj once we know actual numbers of unique nonzeros in A and B */ 6610 if (Annz < Annz1 + Annz2) { 6611 PetscInt *Aj_new; 6612 PetscCall(PetscMalloc1(Annz, &Aj_new)); 6613 PetscCall(PetscArraycpy(Aj_new, Aj, Annz)); 6614 PetscCall(PetscFree(Aj)); 6615 Aj = Aj_new; 6616 } 6617 6618 if (Bnnz < Bnnz1 + Bnnz2) { 6619 PetscInt *Bj_new; 6620 PetscCall(PetscMalloc1(Bnnz, &Bj_new)); 6621 PetscCall(PetscArraycpy(Bj_new, Bj, Bnnz)); 6622 PetscCall(PetscFree(Bj)); 6623 Bj = Bj_new; 6624 } 6625 6626 /* Create new submatrices for on-process and off-process coupling */ 6627 PetscScalar *Aa, *Ba; 6628 MatType rtype; 6629 Mat_SeqAIJ *a, *b; 6630 PetscObjectState state; 6631 PetscCall(PetscCalloc1(Annz, &Aa)); /* Zero matrix on device */ 6632 PetscCall(PetscCalloc1(Bnnz, &Ba)); 6633 /* make Aj[] local, i.e, based off the start column of the diagonal portion */ 6634 if (cstart) { 6635 for (k = 0; k < Annz; k++) Aj[k] -= cstart; 6636 } 6637 6638 PetscCall(MatGetRootType_Private(mat, &rtype)); 6639 6640 MatSeqXAIJGetOptions_Private(mpiaij->A); 6641 PetscCall(MatDestroy(&mpiaij->A)); 6642 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, m, n, Ai, Aj, Aa, &mpiaij->A)); 6643 PetscCall(MatSetBlockSizesFromMats(mpiaij->A, mat, mat)); 6644 MatSeqXAIJRestoreOptions_Private(mpiaij->A); 6645 6646 MatSeqXAIJGetOptions_Private(mpiaij->B); 6647 PetscCall(MatDestroy(&mpiaij->B)); 6648 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, m, mat->cmap->N, Bi, Bj, Ba, &mpiaij->B)); 6649 PetscCall(MatSetBlockSizesFromMats(mpiaij->B, mat, mat)); 6650 MatSeqXAIJRestoreOptions_Private(mpiaij->B); 6651 6652 PetscCall(MatSetUpMultiply_MPIAIJ(mat)); 6653 mat->was_assembled = PETSC_TRUE; // was_assembled in effect means the Mvctx is built; doing so avoids redundant MatSetUpMultiply_MPIAIJ 6654 state = mpiaij->A->nonzerostate + mpiaij->B->nonzerostate; 6655 PetscCallMPI(MPIU_Allreduce(&state, &mat->nonzerostate, 1, MPIU_INT64, MPI_SUM, PetscObjectComm((PetscObject)mat))); 6656 6657 a = (Mat_SeqAIJ *)mpiaij->A->data; 6658 b = (Mat_SeqAIJ *)mpiaij->B->data; 6659 a->free_a = PETSC_TRUE; 6660 a->free_ij = PETSC_TRUE; 6661 b->free_a = PETSC_TRUE; 6662 b->free_ij = PETSC_TRUE; 6663 a->maxnz = a->nz; 6664 b->maxnz = b->nz; 6665 6666 /* conversion must happen AFTER multiply setup */ 6667 PetscCall(MatConvert(mpiaij->A, rtype, MAT_INPLACE_MATRIX, &mpiaij->A)); 6668 PetscCall(MatConvert(mpiaij->B, rtype, MAT_INPLACE_MATRIX, &mpiaij->B)); 6669 PetscCall(VecDestroy(&mpiaij->lvec)); 6670 PetscCall(MatCreateVecs(mpiaij->B, &mpiaij->lvec, NULL)); 6671 6672 // Put the COO struct in a container and then attach that to the matrix 6673 PetscCall(PetscMalloc1(1, &coo)); 6674 coo->n = coo_n; 6675 coo->sf = sf2; 6676 coo->sendlen = nleaves; 6677 coo->recvlen = nroots; 6678 coo->Annz = Annz; 6679 coo->Bnnz = Bnnz; 6680 coo->Annz2 = Annz2; 6681 coo->Bnnz2 = Bnnz2; 6682 coo->Atot1 = Atot1; 6683 coo->Atot2 = Atot2; 6684 coo->Btot1 = Btot1; 6685 coo->Btot2 = Btot2; 6686 coo->Ajmap1 = Ajmap1; 6687 coo->Aperm1 = Aperm1; 6688 coo->Bjmap1 = Bjmap1; 6689 coo->Bperm1 = Bperm1; 6690 coo->Aimap2 = Aimap2; 6691 coo->Ajmap2 = Ajmap2; 6692 coo->Aperm2 = Aperm2; 6693 coo->Bimap2 = Bimap2; 6694 coo->Bjmap2 = Bjmap2; 6695 coo->Bperm2 = Bperm2; 6696 coo->Cperm1 = Cperm1; 6697 // Allocate in preallocation. If not used, it has zero cost on host 6698 PetscCall(PetscMalloc2(coo->sendlen, &coo->sendbuf, coo->recvlen, &coo->recvbuf)); 6699 PetscCall(PetscContainerCreate(PETSC_COMM_SELF, &container)); 6700 PetscCall(PetscContainerSetPointer(container, coo)); 6701 PetscCall(PetscContainerSetCtxDestroy(container, MatCOOStructDestroy_MPIAIJ)); 6702 PetscCall(PetscObjectCompose((PetscObject)mat, "__PETSc_MatCOOStruct_Host", (PetscObject)container)); 6703 PetscCall(PetscContainerDestroy(&container)); 6704 PetscFunctionReturn(PETSC_SUCCESS); 6705 } 6706 6707 static PetscErrorCode MatSetValuesCOO_MPIAIJ(Mat mat, const PetscScalar v[], InsertMode imode) 6708 { 6709 Mat_MPIAIJ *mpiaij = (Mat_MPIAIJ *)mat->data; 6710 Mat A = mpiaij->A, B = mpiaij->B; 6711 PetscScalar *Aa, *Ba; 6712 PetscScalar *sendbuf, *recvbuf; 6713 const PetscCount *Ajmap1, *Ajmap2, *Aimap2; 6714 const PetscCount *Bjmap1, *Bjmap2, *Bimap2; 6715 const PetscCount *Aperm1, *Aperm2, *Bperm1, *Bperm2; 6716 const PetscCount *Cperm1; 6717 PetscContainer container; 6718 MatCOOStruct_MPIAIJ *coo; 6719 6720 PetscFunctionBegin; 6721 PetscCall(PetscObjectQuery((PetscObject)mat, "__PETSc_MatCOOStruct_Host", (PetscObject *)&container)); 6722 PetscCheck(container, PetscObjectComm((PetscObject)mat), PETSC_ERR_PLIB, "Not found MatCOOStruct on this matrix"); 6723 PetscCall(PetscContainerGetPointer(container, (void **)&coo)); 6724 sendbuf = coo->sendbuf; 6725 recvbuf = coo->recvbuf; 6726 Ajmap1 = coo->Ajmap1; 6727 Ajmap2 = coo->Ajmap2; 6728 Aimap2 = coo->Aimap2; 6729 Bjmap1 = coo->Bjmap1; 6730 Bjmap2 = coo->Bjmap2; 6731 Bimap2 = coo->Bimap2; 6732 Aperm1 = coo->Aperm1; 6733 Aperm2 = coo->Aperm2; 6734 Bperm1 = coo->Bperm1; 6735 Bperm2 = coo->Bperm2; 6736 Cperm1 = coo->Cperm1; 6737 6738 PetscCall(MatSeqAIJGetArray(A, &Aa)); /* Might read and write matrix values */ 6739 PetscCall(MatSeqAIJGetArray(B, &Ba)); 6740 6741 /* Pack entries to be sent to remote */ 6742 for (PetscCount i = 0; i < coo->sendlen; i++) sendbuf[i] = v[Cperm1[i]]; 6743 6744 /* Send remote entries to their owner and overlap the communication with local computation */ 6745 PetscCall(PetscSFReduceWithMemTypeBegin(coo->sf, MPIU_SCALAR, PETSC_MEMTYPE_HOST, sendbuf, PETSC_MEMTYPE_HOST, recvbuf, MPI_REPLACE)); 6746 /* Add local entries to A and B */ 6747 for (PetscCount i = 0; i < coo->Annz; i++) { /* All nonzeros in A are either zero'ed or added with a value (i.e., initialized) */ 6748 PetscScalar sum = 0.0; /* Do partial summation first to improve numerical stability */ 6749 for (PetscCount k = Ajmap1[i]; k < Ajmap1[i + 1]; k++) sum += v[Aperm1[k]]; 6750 Aa[i] = (imode == INSERT_VALUES ? 0.0 : Aa[i]) + sum; 6751 } 6752 for (PetscCount i = 0; i < coo->Bnnz; i++) { 6753 PetscScalar sum = 0.0; 6754 for (PetscCount k = Bjmap1[i]; k < Bjmap1[i + 1]; k++) sum += v[Bperm1[k]]; 6755 Ba[i] = (imode == INSERT_VALUES ? 0.0 : Ba[i]) + sum; 6756 } 6757 PetscCall(PetscSFReduceEnd(coo->sf, MPIU_SCALAR, sendbuf, recvbuf, MPI_REPLACE)); 6758 6759 /* Add received remote entries to A and B */ 6760 for (PetscCount i = 0; i < coo->Annz2; i++) { 6761 for (PetscCount k = Ajmap2[i]; k < Ajmap2[i + 1]; k++) Aa[Aimap2[i]] += recvbuf[Aperm2[k]]; 6762 } 6763 for (PetscCount i = 0; i < coo->Bnnz2; i++) { 6764 for (PetscCount k = Bjmap2[i]; k < Bjmap2[i + 1]; k++) Ba[Bimap2[i]] += recvbuf[Bperm2[k]]; 6765 } 6766 PetscCall(MatSeqAIJRestoreArray(A, &Aa)); 6767 PetscCall(MatSeqAIJRestoreArray(B, &Ba)); 6768 PetscFunctionReturn(PETSC_SUCCESS); 6769 } 6770 6771 /*MC 6772 MATMPIAIJ - MATMPIAIJ = "mpiaij" - A matrix type to be used for parallel sparse matrices. 6773 6774 Options Database Keys: 6775 . -mat_type mpiaij - sets the matrix type to `MATMPIAIJ` during a call to `MatSetFromOptions()` 6776 6777 Level: beginner 6778 6779 Notes: 6780 `MatSetValues()` may be called for this matrix type with a `NULL` argument for the numerical values, 6781 in this case the values associated with the rows and columns one passes in are set to zero 6782 in the matrix 6783 6784 `MatSetOptions`(,`MAT_STRUCTURE_ONLY`,`PETSC_TRUE`) may be called for this matrix type. In this no 6785 space is allocated for the nonzero entries and any entries passed with `MatSetValues()` are ignored 6786 6787 .seealso: [](ch_matrices), `Mat`, `MATSEQAIJ`, `MATAIJ`, `MatCreateAIJ()` 6788 M*/ 6789 PETSC_EXTERN PetscErrorCode MatCreate_MPIAIJ(Mat B) 6790 { 6791 Mat_MPIAIJ *b; 6792 PetscMPIInt size; 6793 6794 PetscFunctionBegin; 6795 PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)B), &size)); 6796 6797 PetscCall(PetscNew(&b)); 6798 B->data = (void *)b; 6799 B->ops[0] = MatOps_Values; 6800 B->assembled = PETSC_FALSE; 6801 B->insertmode = NOT_SET_VALUES; 6802 b->size = size; 6803 6804 PetscCallMPI(MPI_Comm_rank(PetscObjectComm((PetscObject)B), &b->rank)); 6805 6806 /* build cache for off array entries formed */ 6807 PetscCall(MatStashCreate_Private(PetscObjectComm((PetscObject)B), 1, &B->stash)); 6808 6809 b->donotstash = PETSC_FALSE; 6810 b->colmap = NULL; 6811 b->garray = NULL; 6812 b->roworiented = PETSC_TRUE; 6813 6814 /* stuff used for matrix vector multiply */ 6815 b->lvec = NULL; 6816 b->Mvctx = NULL; 6817 6818 /* stuff for MatGetRow() */ 6819 b->rowindices = NULL; 6820 b->rowvalues = NULL; 6821 b->getrowactive = PETSC_FALSE; 6822 6823 /* flexible pointer used in CUSPARSE classes */ 6824 b->spptr = NULL; 6825 6826 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatMPIAIJSetUseScalableIncreaseOverlap_C", MatMPIAIJSetUseScalableIncreaseOverlap_MPIAIJ)); 6827 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatStoreValues_C", MatStoreValues_MPIAIJ)); 6828 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatRetrieveValues_C", MatRetrieveValues_MPIAIJ)); 6829 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatIsTranspose_C", MatIsTranspose_MPIAIJ)); 6830 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatMPIAIJSetPreallocation_C", MatMPIAIJSetPreallocation_MPIAIJ)); 6831 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatResetPreallocation_C", MatResetPreallocation_MPIAIJ)); 6832 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatResetHash_C", MatResetHash_MPIAIJ)); 6833 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatMPIAIJSetPreallocationCSR_C", MatMPIAIJSetPreallocationCSR_MPIAIJ)); 6834 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatDiagonalScaleLocal_C", MatDiagonalScaleLocal_MPIAIJ)); 6835 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijperm_C", MatConvert_MPIAIJ_MPIAIJPERM)); 6836 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijsell_C", MatConvert_MPIAIJ_MPIAIJSELL)); 6837 #if defined(PETSC_HAVE_CUDA) 6838 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijcusparse_C", MatConvert_MPIAIJ_MPIAIJCUSPARSE)); 6839 #endif 6840 #if defined(PETSC_HAVE_HIP) 6841 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijhipsparse_C", MatConvert_MPIAIJ_MPIAIJHIPSPARSE)); 6842 #endif 6843 #if defined(PETSC_HAVE_KOKKOS_KERNELS) 6844 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijkokkos_C", MatConvert_MPIAIJ_MPIAIJKokkos)); 6845 #endif 6846 #if defined(PETSC_HAVE_MKL_SPARSE) 6847 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijmkl_C", MatConvert_MPIAIJ_MPIAIJMKL)); 6848 #endif 6849 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpiaijcrl_C", MatConvert_MPIAIJ_MPIAIJCRL)); 6850 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpibaij_C", MatConvert_MPIAIJ_MPIBAIJ)); 6851 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpisbaij_C", MatConvert_MPIAIJ_MPISBAIJ)); 6852 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpidense_C", MatConvert_MPIAIJ_MPIDense)); 6853 #if defined(PETSC_HAVE_ELEMENTAL) 6854 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_elemental_C", MatConvert_MPIAIJ_Elemental)); 6855 #endif 6856 #if defined(PETSC_HAVE_SCALAPACK) 6857 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_scalapack_C", MatConvert_AIJ_ScaLAPACK)); 6858 #endif 6859 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_is_C", MatConvert_XAIJ_IS)); 6860 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_mpisell_C", MatConvert_MPIAIJ_MPISELL)); 6861 #if defined(PETSC_HAVE_HYPRE) 6862 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatConvert_mpiaij_hypre_C", MatConvert_AIJ_HYPRE)); 6863 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatProductSetFromOptions_transpose_mpiaij_mpiaij_C", MatProductSetFromOptions_Transpose_AIJ_AIJ)); 6864 #endif 6865 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatProductSetFromOptions_is_mpiaij_C", MatProductSetFromOptions_IS_XAIJ)); 6866 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatProductSetFromOptions_mpiaij_mpiaij_C", MatProductSetFromOptions_MPIAIJ)); 6867 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatSetPreallocationCOO_C", MatSetPreallocationCOO_MPIAIJ)); 6868 PetscCall(PetscObjectComposeFunction((PetscObject)B, "MatSetValuesCOO_C", MatSetValuesCOO_MPIAIJ)); 6869 PetscCall(PetscObjectChangeTypeName((PetscObject)B, MATMPIAIJ)); 6870 PetscFunctionReturn(PETSC_SUCCESS); 6871 } 6872 6873 /*@ 6874 MatCreateMPIAIJWithSplitArrays - creates a `MATMPIAIJ` matrix using arrays that contain the "diagonal" 6875 and "off-diagonal" part of the matrix in CSR format. 6876 6877 Collective 6878 6879 Input Parameters: 6880 + comm - MPI communicator 6881 . m - number of local rows (Cannot be `PETSC_DECIDE`) 6882 . n - This value should be the same as the local size used in creating the 6883 x vector for the matrix-vector product $y = Ax$. (or `PETSC_DECIDE` to have 6884 calculated if `N` is given) For square matrices `n` is almost always `m`. 6885 . M - number of global rows (or `PETSC_DETERMINE` to have calculated if `m` is given) 6886 . N - number of global columns (or `PETSC_DETERMINE` to have calculated if `n` is given) 6887 . 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 6888 . j - column indices, which must be local, i.e., based off the start column of the diagonal portion 6889 . a - matrix values 6890 . 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 6891 . oj - column indices, which must be global, representing global columns in the `MATMPIAIJ` matrix 6892 - oa - matrix values 6893 6894 Output Parameter: 6895 . mat - the matrix 6896 6897 Level: advanced 6898 6899 Notes: 6900 The `i`, `j`, and `a` arrays ARE NOT copied by this routine into the internal format used by PETSc (even in Fortran). The user 6901 must free the arrays once the matrix has been destroyed and not before. 6902 6903 The `i` and `j` indices are 0 based 6904 6905 See `MatCreateAIJ()` for the definition of "diagonal" and "off-diagonal" portion of the matrix 6906 6907 This sets local rows and cannot be used to set off-processor values. 6908 6909 Use of this routine is discouraged because it is inflexible and cumbersome to use. It is extremely rare that a 6910 legacy application natively assembles into exactly this split format. The code to do so is nontrivial and does 6911 not easily support in-place reassembly. It is recommended to use MatSetValues() (or a variant thereof) because 6912 the resulting assembly is easier to implement, will work with any matrix format, and the user does not have to 6913 keep track of the underlying array. Use `MatSetOption`(A,`MAT_NO_OFF_PROC_ENTRIES`,`PETSC_TRUE`) to disable all 6914 communication if it is known that only local entries will be set. 6915 6916 .seealso: [](ch_matrices), `Mat`, `MatCreate()`, `MatCreateSeqAIJ()`, `MatSetValues()`, `MatMPIAIJSetPreallocation()`, `MatMPIAIJSetPreallocationCSR()`, 6917 `MATMPIAIJ`, `MatCreateAIJ()`, `MatCreateMPIAIJWithArrays()` 6918 @*/ 6919 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) 6920 { 6921 Mat_MPIAIJ *maij; 6922 6923 PetscFunctionBegin; 6924 PetscCheck(m >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "local number of rows (m) cannot be PETSC_DECIDE, or negative"); 6925 PetscCheck(i[0] == 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "i (row indices) must start with 0"); 6926 PetscCheck(oi[0] == 0, PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "oi (row indices) must start with 0"); 6927 PetscCall(MatCreate(comm, mat)); 6928 PetscCall(MatSetSizes(*mat, m, n, M, N)); 6929 PetscCall(MatSetType(*mat, MATMPIAIJ)); 6930 maij = (Mat_MPIAIJ *)(*mat)->data; 6931 6932 (*mat)->preallocated = PETSC_TRUE; 6933 6934 PetscCall(PetscLayoutSetUp((*mat)->rmap)); 6935 PetscCall(PetscLayoutSetUp((*mat)->cmap)); 6936 6937 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, m, n, i, j, a, &maij->A)); 6938 PetscCall(MatCreateSeqAIJWithArrays(PETSC_COMM_SELF, m, (*mat)->cmap->N, oi, oj, oa, &maij->B)); 6939 6940 PetscCall(MatSetOption(*mat, MAT_NO_OFF_PROC_ENTRIES, PETSC_TRUE)); 6941 PetscCall(MatAssemblyBegin(*mat, MAT_FINAL_ASSEMBLY)); 6942 PetscCall(MatAssemblyEnd(*mat, MAT_FINAL_ASSEMBLY)); 6943 PetscCall(MatSetOption(*mat, MAT_NO_OFF_PROC_ENTRIES, PETSC_FALSE)); 6944 PetscCall(MatSetOption(*mat, MAT_NEW_NONZERO_LOCATION_ERR, PETSC_TRUE)); 6945 PetscFunctionReturn(PETSC_SUCCESS); 6946 } 6947 6948 typedef struct { 6949 Mat *mp; /* intermediate products */ 6950 PetscBool *mptmp; /* is the intermediate product temporary ? */ 6951 PetscInt cp; /* number of intermediate products */ 6952 6953 /* support for MatGetBrowsOfAoCols_MPIAIJ for P_oth */ 6954 PetscInt *startsj_s, *startsj_r; 6955 PetscScalar *bufa; 6956 Mat P_oth; 6957 6958 /* may take advantage of merging product->B */ 6959 Mat Bloc; /* B-local by merging diag and off-diag */ 6960 6961 /* cusparse does not have support to split between symbolic and numeric phases. 6962 When api_user is true, we don't need to update the numerical values 6963 of the temporary storage */ 6964 PetscBool reusesym; 6965 6966 /* support for COO values insertion */ 6967 PetscScalar *coo_v, *coo_w; /* store on-process and off-process COO scalars, and used as MPI recv/send buffers respectively */ 6968 PetscInt **own; /* own[i] points to address of on-process COO indices for Mat mp[i] */ 6969 PetscInt **off; /* off[i] points to address of off-process COO indices for Mat mp[i] */ 6970 PetscBool hasoffproc; /* if true, have off-process values insertion (i.e. AtB or PtAP) */ 6971 PetscSF sf; /* used for non-local values insertion and memory malloc */ 6972 PetscMemType mtype; 6973 6974 /* customization */ 6975 PetscBool abmerge; 6976 PetscBool P_oth_bind; 6977 } MatMatMPIAIJBACKEND; 6978 6979 static PetscErrorCode MatDestroy_MatMatMPIAIJBACKEND(void *data) 6980 { 6981 MatMatMPIAIJBACKEND *mmdata = (MatMatMPIAIJBACKEND *)data; 6982 PetscInt i; 6983 6984 PetscFunctionBegin; 6985 PetscCall(PetscFree2(mmdata->startsj_s, mmdata->startsj_r)); 6986 PetscCall(PetscFree(mmdata->bufa)); 6987 PetscCall(PetscSFFree(mmdata->sf, mmdata->mtype, mmdata->coo_v)); 6988 PetscCall(PetscSFFree(mmdata->sf, mmdata->mtype, mmdata->coo_w)); 6989 PetscCall(MatDestroy(&mmdata->P_oth)); 6990 PetscCall(MatDestroy(&mmdata->Bloc)); 6991 PetscCall(PetscSFDestroy(&mmdata->sf)); 6992 for (i = 0; i < mmdata->cp; i++) PetscCall(MatDestroy(&mmdata->mp[i])); 6993 PetscCall(PetscFree2(mmdata->mp, mmdata->mptmp)); 6994 PetscCall(PetscFree(mmdata->own[0])); 6995 PetscCall(PetscFree(mmdata->own)); 6996 PetscCall(PetscFree(mmdata->off[0])); 6997 PetscCall(PetscFree(mmdata->off)); 6998 PetscCall(PetscFree(mmdata)); 6999 PetscFunctionReturn(PETSC_SUCCESS); 7000 } 7001 7002 /* Copy selected n entries with indices in idx[] of A to v[]. 7003 If idx is NULL, copy the whole data array of A to v[] 7004 */ 7005 static PetscErrorCode MatSeqAIJCopySubArray(Mat A, PetscInt n, const PetscInt idx[], PetscScalar v[]) 7006 { 7007 PetscErrorCode (*f)(Mat, PetscInt, const PetscInt[], PetscScalar[]); 7008 7009 PetscFunctionBegin; 7010 PetscCall(PetscObjectQueryFunction((PetscObject)A, "MatSeqAIJCopySubArray_C", &f)); 7011 if (f) { 7012 PetscCall((*f)(A, n, idx, v)); 7013 } else { 7014 const PetscScalar *vv; 7015 7016 PetscCall(MatSeqAIJGetArrayRead(A, &vv)); 7017 if (n && idx) { 7018 PetscScalar *w = v; 7019 const PetscInt *oi = idx; 7020 PetscInt j; 7021 7022 for (j = 0; j < n; j++) *w++ = vv[*oi++]; 7023 } else { 7024 PetscCall(PetscArraycpy(v, vv, n)); 7025 } 7026 PetscCall(MatSeqAIJRestoreArrayRead(A, &vv)); 7027 } 7028 PetscFunctionReturn(PETSC_SUCCESS); 7029 } 7030 7031 static PetscErrorCode MatProductNumeric_MPIAIJBACKEND(Mat C) 7032 { 7033 MatMatMPIAIJBACKEND *mmdata; 7034 PetscInt i, n_d, n_o; 7035 7036 PetscFunctionBegin; 7037 MatCheckProduct(C, 1); 7038 PetscCheck(C->product->data, PetscObjectComm((PetscObject)C), PETSC_ERR_PLIB, "Product data empty"); 7039 mmdata = (MatMatMPIAIJBACKEND *)C->product->data; 7040 if (!mmdata->reusesym) { /* update temporary matrices */ 7041 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)); 7042 if (mmdata->Bloc) PetscCall(MatMPIAIJGetLocalMatMerge(C->product->B, MAT_REUSE_MATRIX, NULL, &mmdata->Bloc)); 7043 } 7044 mmdata->reusesym = PETSC_FALSE; 7045 7046 for (i = 0; i < mmdata->cp; i++) { 7047 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]); 7048 PetscCall((*mmdata->mp[i]->ops->productnumeric)(mmdata->mp[i])); 7049 } 7050 for (i = 0, n_d = 0, n_o = 0; i < mmdata->cp; i++) { 7051 PetscInt noff; 7052 7053 PetscCall(PetscIntCast(mmdata->off[i + 1] - mmdata->off[i], &noff)); 7054 if (mmdata->mptmp[i]) continue; 7055 if (noff) { 7056 PetscInt nown; 7057 7058 PetscCall(PetscIntCast(mmdata->own[i + 1] - mmdata->own[i], &nown)); 7059 PetscCall(MatSeqAIJCopySubArray(mmdata->mp[i], noff, mmdata->off[i], mmdata->coo_w + n_o)); 7060 PetscCall(MatSeqAIJCopySubArray(mmdata->mp[i], nown, mmdata->own[i], mmdata->coo_v + n_d)); 7061 n_o += noff; 7062 n_d += nown; 7063 } else { 7064 Mat_SeqAIJ *mm = (Mat_SeqAIJ *)mmdata->mp[i]->data; 7065 7066 PetscCall(MatSeqAIJCopySubArray(mmdata->mp[i], mm->nz, NULL, mmdata->coo_v + n_d)); 7067 n_d += mm->nz; 7068 } 7069 } 7070 if (mmdata->hasoffproc) { /* offprocess insertion */ 7071 PetscCall(PetscSFGatherBegin(mmdata->sf, MPIU_SCALAR, mmdata->coo_w, mmdata->coo_v + n_d)); 7072 PetscCall(PetscSFGatherEnd(mmdata->sf, MPIU_SCALAR, mmdata->coo_w, mmdata->coo_v + n_d)); 7073 } 7074 PetscCall(MatSetValuesCOO(C, mmdata->coo_v, INSERT_VALUES)); 7075 PetscFunctionReturn(PETSC_SUCCESS); 7076 } 7077 7078 /* Support for Pt * A, A * P, or Pt * A * P */ 7079 #define MAX_NUMBER_INTERMEDIATE 4 7080 PetscErrorCode MatProductSymbolic_MPIAIJBACKEND(Mat C) 7081 { 7082 Mat_Product *product = C->product; 7083 Mat A, P, mp[MAX_NUMBER_INTERMEDIATE]; /* A, P and a series of intermediate matrices */ 7084 Mat_MPIAIJ *a, *p; 7085 MatMatMPIAIJBACKEND *mmdata; 7086 ISLocalToGlobalMapping P_oth_l2g = NULL; 7087 IS glob = NULL; 7088 const char *prefix; 7089 char pprefix[256]; 7090 const PetscInt *globidx, *P_oth_idx; 7091 PetscInt i, j, cp, m, n, M, N, *coo_i, *coo_j; 7092 PetscCount ncoo, ncoo_d, ncoo_o, ncoo_oown; 7093 PetscInt cmapt[MAX_NUMBER_INTERMEDIATE], rmapt[MAX_NUMBER_INTERMEDIATE]; /* col/row map type for each Mat in mp[]. */ 7094 /* type-0: consecutive, start from 0; type-1: consecutive with */ 7095 /* a base offset; type-2: sparse with a local to global map table */ 7096 const PetscInt *cmapa[MAX_NUMBER_INTERMEDIATE], *rmapa[MAX_NUMBER_INTERMEDIATE]; /* col/row local to global map array (table) for type-2 map type */ 7097 7098 MatProductType ptype; 7099 PetscBool mptmp[MAX_NUMBER_INTERMEDIATE], hasoffproc = PETSC_FALSE, iscuda, iship, iskokk; 7100 PetscMPIInt size; 7101 7102 PetscFunctionBegin; 7103 MatCheckProduct(C, 1); 7104 PetscCheck(!product->data, PetscObjectComm((PetscObject)C), PETSC_ERR_PLIB, "Product data not empty"); 7105 ptype = product->type; 7106 if (product->A->symmetric == PETSC_BOOL3_TRUE && ptype == MATPRODUCT_AtB) { 7107 ptype = MATPRODUCT_AB; 7108 product->symbolic_used_the_fact_A_is_symmetric = PETSC_TRUE; 7109 } 7110 switch (ptype) { 7111 case MATPRODUCT_AB: 7112 A = product->A; 7113 P = product->B; 7114 m = A->rmap->n; 7115 n = P->cmap->n; 7116 M = A->rmap->N; 7117 N = P->cmap->N; 7118 hasoffproc = PETSC_FALSE; /* will not scatter mat product values to other processes */ 7119 break; 7120 case MATPRODUCT_AtB: 7121 P = product->A; 7122 A = product->B; 7123 m = P->cmap->n; 7124 n = A->cmap->n; 7125 M = P->cmap->N; 7126 N = A->cmap->N; 7127 hasoffproc = PETSC_TRUE; 7128 break; 7129 case MATPRODUCT_PtAP: 7130 A = product->A; 7131 P = product->B; 7132 m = P->cmap->n; 7133 n = P->cmap->n; 7134 M = P->cmap->N; 7135 N = P->cmap->N; 7136 hasoffproc = PETSC_TRUE; 7137 break; 7138 default: 7139 SETERRQ(PetscObjectComm((PetscObject)C), PETSC_ERR_PLIB, "Not for product type %s", MatProductTypes[ptype]); 7140 } 7141 PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)C), &size)); 7142 if (size == 1) hasoffproc = PETSC_FALSE; 7143 7144 /* defaults */ 7145 for (i = 0; i < MAX_NUMBER_INTERMEDIATE; i++) { 7146 mp[i] = NULL; 7147 mptmp[i] = PETSC_FALSE; 7148 rmapt[i] = -1; 7149 cmapt[i] = -1; 7150 rmapa[i] = NULL; 7151 cmapa[i] = NULL; 7152 } 7153 7154 /* customization */ 7155 PetscCall(PetscNew(&mmdata)); 7156 mmdata->reusesym = product->api_user; 7157 if (ptype == MATPRODUCT_AB) { 7158 if (product->api_user) { 7159 PetscOptionsBegin(PetscObjectComm((PetscObject)C), ((PetscObject)C)->prefix, "MatMatMult", "Mat"); 7160 PetscCall(PetscOptionsBool("-matmatmult_backend_mergeB", "Merge product->B local matrices", "MatMatMult", mmdata->abmerge, &mmdata->abmerge, NULL)); 7161 PetscCall(PetscOptionsBool("-matmatmult_backend_pothbind", "Bind P_oth to CPU", "MatBindToCPU", mmdata->P_oth_bind, &mmdata->P_oth_bind, NULL)); 7162 PetscOptionsEnd(); 7163 } else { 7164 PetscOptionsBegin(PetscObjectComm((PetscObject)C), ((PetscObject)C)->prefix, "MatProduct_AB", "Mat"); 7165 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_mergeB", "Merge product->B local matrices", "MatMatMult", mmdata->abmerge, &mmdata->abmerge, NULL)); 7166 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_pothbind", "Bind P_oth to CPU", "MatBindToCPU", mmdata->P_oth_bind, &mmdata->P_oth_bind, NULL)); 7167 PetscOptionsEnd(); 7168 } 7169 } else if (ptype == MATPRODUCT_PtAP) { 7170 if (product->api_user) { 7171 PetscOptionsBegin(PetscObjectComm((PetscObject)C), ((PetscObject)C)->prefix, "MatPtAP", "Mat"); 7172 PetscCall(PetscOptionsBool("-matptap_backend_pothbind", "Bind P_oth to CPU", "MatBindToCPU", mmdata->P_oth_bind, &mmdata->P_oth_bind, NULL)); 7173 PetscOptionsEnd(); 7174 } else { 7175 PetscOptionsBegin(PetscObjectComm((PetscObject)C), ((PetscObject)C)->prefix, "MatProduct_PtAP", "Mat"); 7176 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_pothbind", "Bind P_oth to CPU", "MatBindToCPU", mmdata->P_oth_bind, &mmdata->P_oth_bind, NULL)); 7177 PetscOptionsEnd(); 7178 } 7179 } 7180 a = (Mat_MPIAIJ *)A->data; 7181 p = (Mat_MPIAIJ *)P->data; 7182 PetscCall(MatSetSizes(C, m, n, M, N)); 7183 PetscCall(PetscLayoutSetUp(C->rmap)); 7184 PetscCall(PetscLayoutSetUp(C->cmap)); 7185 PetscCall(MatSetType(C, ((PetscObject)A)->type_name)); 7186 PetscCall(MatGetOptionsPrefix(C, &prefix)); 7187 7188 cp = 0; 7189 switch (ptype) { 7190 case MATPRODUCT_AB: /* A * P */ 7191 PetscCall(MatGetBrowsOfAoCols_MPIAIJ(A, P, MAT_INITIAL_MATRIX, &mmdata->startsj_s, &mmdata->startsj_r, &mmdata->bufa, &mmdata->P_oth)); 7192 7193 /* A_diag * P_local (merged or not) */ 7194 if (mmdata->abmerge) { /* P's diagonal and off-diag blocks are merged to one matrix, then multiplied by A_diag */ 7195 /* P is product->B */ 7196 PetscCall(MatMPIAIJGetLocalMatMerge(P, MAT_INITIAL_MATRIX, &glob, &mmdata->Bloc)); 7197 PetscCall(MatProductCreate(a->A, mmdata->Bloc, NULL, &mp[cp])); 7198 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AB)); 7199 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7200 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7201 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7202 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7203 mp[cp]->product->api_user = product->api_user; 7204 PetscCall(MatProductSetFromOptions(mp[cp])); 7205 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7206 PetscCall(ISGetIndices(glob, &globidx)); 7207 rmapt[cp] = 1; 7208 cmapt[cp] = 2; 7209 cmapa[cp] = globidx; 7210 mptmp[cp] = PETSC_FALSE; 7211 cp++; 7212 } else { /* A_diag * P_diag and A_diag * P_off */ 7213 PetscCall(MatProductCreate(a->A, p->A, NULL, &mp[cp])); 7214 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AB)); 7215 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7216 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7217 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7218 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7219 mp[cp]->product->api_user = product->api_user; 7220 PetscCall(MatProductSetFromOptions(mp[cp])); 7221 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7222 rmapt[cp] = 1; 7223 cmapt[cp] = 1; 7224 mptmp[cp] = PETSC_FALSE; 7225 cp++; 7226 PetscCall(MatProductCreate(a->A, p->B, NULL, &mp[cp])); 7227 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AB)); 7228 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7229 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7230 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7231 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7232 mp[cp]->product->api_user = product->api_user; 7233 PetscCall(MatProductSetFromOptions(mp[cp])); 7234 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7235 rmapt[cp] = 1; 7236 cmapt[cp] = 2; 7237 cmapa[cp] = p->garray; 7238 mptmp[cp] = PETSC_FALSE; 7239 cp++; 7240 } 7241 7242 /* A_off * P_other */ 7243 if (mmdata->P_oth) { 7244 PetscCall(MatSeqAIJCompactOutExtraColumns_SeqAIJ(mmdata->P_oth, &P_oth_l2g)); /* make P_oth use local col ids */ 7245 PetscCall(ISLocalToGlobalMappingGetIndices(P_oth_l2g, &P_oth_idx)); 7246 PetscCall(MatSetType(mmdata->P_oth, ((PetscObject)a->B)->type_name)); 7247 PetscCall(MatBindToCPU(mmdata->P_oth, mmdata->P_oth_bind)); 7248 PetscCall(MatProductCreate(a->B, mmdata->P_oth, NULL, &mp[cp])); 7249 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AB)); 7250 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7251 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7252 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7253 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7254 mp[cp]->product->api_user = product->api_user; 7255 PetscCall(MatProductSetFromOptions(mp[cp])); 7256 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7257 rmapt[cp] = 1; 7258 cmapt[cp] = 2; 7259 cmapa[cp] = P_oth_idx; 7260 mptmp[cp] = PETSC_FALSE; 7261 cp++; 7262 } 7263 break; 7264 7265 case MATPRODUCT_AtB: /* (P^t * A): P_diag * A_loc + P_off * A_loc */ 7266 /* A is product->B */ 7267 PetscCall(MatMPIAIJGetLocalMatMerge(A, MAT_INITIAL_MATRIX, &glob, &mmdata->Bloc)); 7268 if (A == P) { /* when A==P, we can take advantage of the already merged mmdata->Bloc */ 7269 PetscCall(MatProductCreate(mmdata->Bloc, mmdata->Bloc, NULL, &mp[cp])); 7270 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AtB)); 7271 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7272 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7273 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7274 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7275 mp[cp]->product->api_user = product->api_user; 7276 PetscCall(MatProductSetFromOptions(mp[cp])); 7277 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7278 PetscCall(ISGetIndices(glob, &globidx)); 7279 rmapt[cp] = 2; 7280 rmapa[cp] = globidx; 7281 cmapt[cp] = 2; 7282 cmapa[cp] = globidx; 7283 mptmp[cp] = PETSC_FALSE; 7284 cp++; 7285 } else { 7286 PetscCall(MatProductCreate(p->A, mmdata->Bloc, NULL, &mp[cp])); 7287 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AtB)); 7288 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7289 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7290 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7291 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7292 mp[cp]->product->api_user = product->api_user; 7293 PetscCall(MatProductSetFromOptions(mp[cp])); 7294 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7295 PetscCall(ISGetIndices(glob, &globidx)); 7296 rmapt[cp] = 1; 7297 cmapt[cp] = 2; 7298 cmapa[cp] = globidx; 7299 mptmp[cp] = PETSC_FALSE; 7300 cp++; 7301 PetscCall(MatProductCreate(p->B, mmdata->Bloc, NULL, &mp[cp])); 7302 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AtB)); 7303 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7304 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7305 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7306 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7307 mp[cp]->product->api_user = product->api_user; 7308 PetscCall(MatProductSetFromOptions(mp[cp])); 7309 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7310 rmapt[cp] = 2; 7311 rmapa[cp] = p->garray; 7312 cmapt[cp] = 2; 7313 cmapa[cp] = globidx; 7314 mptmp[cp] = PETSC_FALSE; 7315 cp++; 7316 } 7317 break; 7318 case MATPRODUCT_PtAP: 7319 PetscCall(MatGetBrowsOfAoCols_MPIAIJ(A, P, MAT_INITIAL_MATRIX, &mmdata->startsj_s, &mmdata->startsj_r, &mmdata->bufa, &mmdata->P_oth)); 7320 /* P is product->B */ 7321 PetscCall(MatMPIAIJGetLocalMatMerge(P, MAT_INITIAL_MATRIX, &glob, &mmdata->Bloc)); 7322 PetscCall(MatProductCreate(a->A, mmdata->Bloc, NULL, &mp[cp])); 7323 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_PtAP)); 7324 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7325 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7326 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7327 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7328 mp[cp]->product->api_user = product->api_user; 7329 PetscCall(MatProductSetFromOptions(mp[cp])); 7330 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7331 PetscCall(ISGetIndices(glob, &globidx)); 7332 rmapt[cp] = 2; 7333 rmapa[cp] = globidx; 7334 cmapt[cp] = 2; 7335 cmapa[cp] = globidx; 7336 mptmp[cp] = PETSC_FALSE; 7337 cp++; 7338 if (mmdata->P_oth) { 7339 PetscCall(MatSeqAIJCompactOutExtraColumns_SeqAIJ(mmdata->P_oth, &P_oth_l2g)); 7340 PetscCall(ISLocalToGlobalMappingGetIndices(P_oth_l2g, &P_oth_idx)); 7341 PetscCall(MatSetType(mmdata->P_oth, ((PetscObject)a->B)->type_name)); 7342 PetscCall(MatBindToCPU(mmdata->P_oth, mmdata->P_oth_bind)); 7343 PetscCall(MatProductCreate(a->B, mmdata->P_oth, NULL, &mp[cp])); 7344 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AB)); 7345 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7346 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7347 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7348 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7349 mp[cp]->product->api_user = product->api_user; 7350 PetscCall(MatProductSetFromOptions(mp[cp])); 7351 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7352 mptmp[cp] = PETSC_TRUE; 7353 cp++; 7354 PetscCall(MatProductCreate(mmdata->Bloc, mp[1], NULL, &mp[cp])); 7355 PetscCall(MatProductSetType(mp[cp], MATPRODUCT_AtB)); 7356 PetscCall(MatProductSetFill(mp[cp], product->fill)); 7357 PetscCall(PetscSNPrintf(pprefix, sizeof(pprefix), "backend_p%" PetscInt_FMT "_", cp)); 7358 PetscCall(MatSetOptionsPrefix(mp[cp], prefix)); 7359 PetscCall(MatAppendOptionsPrefix(mp[cp], pprefix)); 7360 mp[cp]->product->api_user = product->api_user; 7361 PetscCall(MatProductSetFromOptions(mp[cp])); 7362 PetscCall((*mp[cp]->ops->productsymbolic)(mp[cp])); 7363 rmapt[cp] = 2; 7364 rmapa[cp] = globidx; 7365 cmapt[cp] = 2; 7366 cmapa[cp] = P_oth_idx; 7367 mptmp[cp] = PETSC_FALSE; 7368 cp++; 7369 } 7370 break; 7371 default: 7372 SETERRQ(PetscObjectComm((PetscObject)C), PETSC_ERR_PLIB, "Not for product type %s", MatProductTypes[ptype]); 7373 } 7374 /* sanity check */ 7375 if (size > 1) 7376 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); 7377 7378 PetscCall(PetscMalloc2(cp, &mmdata->mp, cp, &mmdata->mptmp)); 7379 for (i = 0; i < cp; i++) { 7380 mmdata->mp[i] = mp[i]; 7381 mmdata->mptmp[i] = mptmp[i]; 7382 } 7383 mmdata->cp = cp; 7384 C->product->data = mmdata; 7385 C->product->destroy = MatDestroy_MatMatMPIAIJBACKEND; 7386 C->ops->productnumeric = MatProductNumeric_MPIAIJBACKEND; 7387 7388 /* memory type */ 7389 mmdata->mtype = PETSC_MEMTYPE_HOST; 7390 PetscCall(PetscObjectTypeCompareAny((PetscObject)C, &iscuda, MATSEQAIJCUSPARSE, MATMPIAIJCUSPARSE, "")); 7391 PetscCall(PetscObjectTypeCompareAny((PetscObject)C, &iship, MATSEQAIJHIPSPARSE, MATMPIAIJHIPSPARSE, "")); 7392 PetscCall(PetscObjectTypeCompareAny((PetscObject)C, &iskokk, MATSEQAIJKOKKOS, MATMPIAIJKOKKOS, "")); 7393 if (iscuda) mmdata->mtype = PETSC_MEMTYPE_CUDA; 7394 else if (iship) mmdata->mtype = PETSC_MEMTYPE_HIP; 7395 else if (iskokk) mmdata->mtype = PETSC_MEMTYPE_KOKKOS; 7396 7397 /* prepare coo coordinates for values insertion */ 7398 7399 /* count total nonzeros of those intermediate seqaij Mats 7400 ncoo_d: # of nonzeros of matrices that do not have offproc entries 7401 ncoo_o: # of nonzeros (of matrices that might have offproc entries) that will be inserted to remote procs 7402 ncoo_oown: # of nonzeros (of matrices that might have offproc entries) that will be inserted locally 7403 */ 7404 for (cp = 0, ncoo_d = 0, ncoo_o = 0, ncoo_oown = 0; cp < mmdata->cp; cp++) { 7405 Mat_SeqAIJ *mm = (Mat_SeqAIJ *)mp[cp]->data; 7406 if (mptmp[cp]) continue; 7407 if (rmapt[cp] == 2 && hasoffproc) { /* the rows need to be scatter to all processes (might include self) */ 7408 const PetscInt *rmap = rmapa[cp]; 7409 const PetscInt mr = mp[cp]->rmap->n; 7410 const PetscInt rs = C->rmap->rstart; 7411 const PetscInt re = C->rmap->rend; 7412 const PetscInt *ii = mm->i; 7413 for (i = 0; i < mr; i++) { 7414 const PetscInt gr = rmap[i]; 7415 const PetscInt nz = ii[i + 1] - ii[i]; 7416 if (gr < rs || gr >= re) ncoo_o += nz; /* this row is offproc */ 7417 else ncoo_oown += nz; /* this row is local */ 7418 } 7419 } else ncoo_d += mm->nz; 7420 } 7421 7422 /* 7423 ncoo: total number of nonzeros (including those inserted by remote procs) belonging to this proc 7424 7425 ncoo = ncoo_d + ncoo_oown + ncoo2, which ncoo2 is number of nonzeros inserted to me by other procs. 7426 7427 off[0] points to a big index array, which is shared by off[1,2,...]. Similarly, for own[0]. 7428 7429 off[p]: points to the segment for matrix mp[p], storing location of nonzeros that mp[p] will insert to others 7430 own[p]: points to the segment for matrix mp[p], storing location of nonzeros that mp[p] will insert locally 7431 so, off[p+1]-off[p] is the number of nonzeros that mp[p] will send to others. 7432 7433 coo_i/j/v[]: [ncoo] row/col/val of nonzeros belonging to this proc. 7434 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. 7435 */ 7436 PetscCall(PetscCalloc1(mmdata->cp + 1, &mmdata->off)); /* +1 to make a csr-like data structure */ 7437 PetscCall(PetscCalloc1(mmdata->cp + 1, &mmdata->own)); 7438 7439 /* gather (i,j) of nonzeros inserted by remote procs */ 7440 if (hasoffproc) { 7441 PetscSF msf; 7442 PetscInt ncoo2, *coo_i2, *coo_j2; 7443 7444 PetscCall(PetscMalloc1(ncoo_o, &mmdata->off[0])); 7445 PetscCall(PetscMalloc1(ncoo_oown, &mmdata->own[0])); 7446 PetscCall(PetscMalloc2(ncoo_o, &coo_i, ncoo_o, &coo_j)); /* to collect (i,j) of entries to be sent to others */ 7447 7448 for (cp = 0, ncoo_o = 0; cp < mmdata->cp; cp++) { 7449 Mat_SeqAIJ *mm = (Mat_SeqAIJ *)mp[cp]->data; 7450 PetscInt *idxoff = mmdata->off[cp]; 7451 PetscInt *idxown = mmdata->own[cp]; 7452 if (!mptmp[cp] && rmapt[cp] == 2) { /* row map is sparse */ 7453 const PetscInt *rmap = rmapa[cp]; 7454 const PetscInt *cmap = cmapa[cp]; 7455 const PetscInt *ii = mm->i; 7456 PetscInt *coi = coo_i + ncoo_o; 7457 PetscInt *coj = coo_j + ncoo_o; 7458 const PetscInt mr = mp[cp]->rmap->n; 7459 const PetscInt rs = C->rmap->rstart; 7460 const PetscInt re = C->rmap->rend; 7461 const PetscInt cs = C->cmap->rstart; 7462 for (i = 0; i < mr; i++) { 7463 const PetscInt *jj = mm->j + ii[i]; 7464 const PetscInt gr = rmap[i]; 7465 const PetscInt nz = ii[i + 1] - ii[i]; 7466 if (gr < rs || gr >= re) { /* this is an offproc row */ 7467 for (j = ii[i]; j < ii[i + 1]; j++) { 7468 *coi++ = gr; 7469 *idxoff++ = j; 7470 } 7471 if (!cmapt[cp]) { /* already global */ 7472 for (j = 0; j < nz; j++) *coj++ = jj[j]; 7473 } else if (cmapt[cp] == 1) { /* local to global for owned columns of C */ 7474 for (j = 0; j < nz; j++) *coj++ = jj[j] + cs; 7475 } else { /* offdiag */ 7476 for (j = 0; j < nz; j++) *coj++ = cmap[jj[j]]; 7477 } 7478 ncoo_o += nz; 7479 } else { /* this is a local row */ 7480 for (j = ii[i]; j < ii[i + 1]; j++) *idxown++ = j; 7481 } 7482 } 7483 } 7484 mmdata->off[cp + 1] = idxoff; 7485 mmdata->own[cp + 1] = idxown; 7486 } 7487 7488 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)C), &mmdata->sf)); 7489 PetscInt incoo_o; 7490 PetscCall(PetscIntCast(ncoo_o, &incoo_o)); 7491 PetscCall(PetscSFSetGraphLayout(mmdata->sf, C->rmap, incoo_o /*nleaves*/, NULL /*ilocal*/, PETSC_OWN_POINTER, coo_i)); 7492 PetscCall(PetscSFGetMultiSF(mmdata->sf, &msf)); 7493 PetscCall(PetscSFGetGraph(msf, &ncoo2 /*nroots*/, NULL, NULL, NULL)); 7494 ncoo = ncoo_d + ncoo_oown + ncoo2; 7495 PetscCall(PetscMalloc2(ncoo, &coo_i2, ncoo, &coo_j2)); 7496 PetscCall(PetscSFGatherBegin(mmdata->sf, MPIU_INT, coo_i, coo_i2 + ncoo_d + ncoo_oown)); /* put (i,j) of remote nonzeros at back */ 7497 PetscCall(PetscSFGatherEnd(mmdata->sf, MPIU_INT, coo_i, coo_i2 + ncoo_d + ncoo_oown)); 7498 PetscCall(PetscSFGatherBegin(mmdata->sf, MPIU_INT, coo_j, coo_j2 + ncoo_d + ncoo_oown)); 7499 PetscCall(PetscSFGatherEnd(mmdata->sf, MPIU_INT, coo_j, coo_j2 + ncoo_d + ncoo_oown)); 7500 PetscCall(PetscFree2(coo_i, coo_j)); 7501 /* allocate MPI send buffer to collect nonzero values to be sent to remote procs */ 7502 PetscCall(PetscSFMalloc(mmdata->sf, mmdata->mtype, ncoo_o * sizeof(PetscScalar), (void **)&mmdata->coo_w)); 7503 coo_i = coo_i2; 7504 coo_j = coo_j2; 7505 } else { /* no offproc values insertion */ 7506 ncoo = ncoo_d; 7507 PetscCall(PetscMalloc2(ncoo, &coo_i, ncoo, &coo_j)); 7508 7509 PetscCall(PetscSFCreate(PetscObjectComm((PetscObject)C), &mmdata->sf)); 7510 PetscCall(PetscSFSetGraph(mmdata->sf, 0, 0, NULL, PETSC_OWN_POINTER, NULL, PETSC_OWN_POINTER)); 7511 PetscCall(PetscSFSetUp(mmdata->sf)); 7512 } 7513 mmdata->hasoffproc = hasoffproc; 7514 7515 /* gather (i,j) of nonzeros inserted locally */ 7516 for (cp = 0, ncoo_d = 0; cp < mmdata->cp; cp++) { 7517 Mat_SeqAIJ *mm = (Mat_SeqAIJ *)mp[cp]->data; 7518 PetscInt *coi = coo_i + ncoo_d; 7519 PetscInt *coj = coo_j + ncoo_d; 7520 const PetscInt *jj = mm->j; 7521 const PetscInt *ii = mm->i; 7522 const PetscInt *cmap = cmapa[cp]; 7523 const PetscInt *rmap = rmapa[cp]; 7524 const PetscInt mr = mp[cp]->rmap->n; 7525 const PetscInt rs = C->rmap->rstart; 7526 const PetscInt re = C->rmap->rend; 7527 const PetscInt cs = C->cmap->rstart; 7528 7529 if (mptmp[cp]) continue; 7530 if (rmapt[cp] == 1) { /* consecutive rows */ 7531 /* fill coo_i */ 7532 for (i = 0; i < mr; i++) { 7533 const PetscInt gr = i + rs; 7534 for (j = ii[i]; j < ii[i + 1]; j++) coi[j] = gr; 7535 } 7536 /* fill coo_j */ 7537 if (!cmapt[cp]) { /* type-0, already global */ 7538 PetscCall(PetscArraycpy(coj, jj, mm->nz)); 7539 } else if (cmapt[cp] == 1) { /* type-1, local to global for consecutive columns of C */ 7540 for (j = 0; j < mm->nz; j++) coj[j] = jj[j] + cs; /* lid + col start */ 7541 } else { /* type-2, local to global for sparse columns */ 7542 for (j = 0; j < mm->nz; j++) coj[j] = cmap[jj[j]]; 7543 } 7544 ncoo_d += mm->nz; 7545 } else if (rmapt[cp] == 2) { /* sparse rows */ 7546 for (i = 0; i < mr; i++) { 7547 const PetscInt *jj = mm->j + ii[i]; 7548 const PetscInt gr = rmap[i]; 7549 const PetscInt nz = ii[i + 1] - ii[i]; 7550 if (gr >= rs && gr < re) { /* local rows */ 7551 for (j = ii[i]; j < ii[i + 1]; j++) *coi++ = gr; 7552 if (!cmapt[cp]) { /* type-0, already global */ 7553 for (j = 0; j < nz; j++) *coj++ = jj[j]; 7554 } else if (cmapt[cp] == 1) { /* local to global for owned columns of C */ 7555 for (j = 0; j < nz; j++) *coj++ = jj[j] + cs; 7556 } else { /* type-2, local to global for sparse columns */ 7557 for (j = 0; j < nz; j++) *coj++ = cmap[jj[j]]; 7558 } 7559 ncoo_d += nz; 7560 } 7561 } 7562 } 7563 } 7564 if (glob) PetscCall(ISRestoreIndices(glob, &globidx)); 7565 PetscCall(ISDestroy(&glob)); 7566 if (P_oth_l2g) PetscCall(ISLocalToGlobalMappingRestoreIndices(P_oth_l2g, &P_oth_idx)); 7567 PetscCall(ISLocalToGlobalMappingDestroy(&P_oth_l2g)); 7568 /* allocate an array to store all nonzeros (inserted locally or remotely) belonging to this proc */ 7569 PetscCall(PetscSFMalloc(mmdata->sf, mmdata->mtype, ncoo * sizeof(PetscScalar), (void **)&mmdata->coo_v)); 7570 7571 /* set block sizes */ 7572 A = product->A; 7573 P = product->B; 7574 switch (ptype) { 7575 case MATPRODUCT_PtAP: 7576 PetscCall(MatSetBlockSizes(C, P->cmap->bs, P->cmap->bs)); 7577 break; 7578 case MATPRODUCT_RARt: 7579 PetscCall(MatSetBlockSizes(C, P->rmap->bs, P->rmap->bs)); 7580 break; 7581 case MATPRODUCT_ABC: 7582 PetscCall(MatSetBlockSizesFromMats(C, A, product->C)); 7583 break; 7584 case MATPRODUCT_AB: 7585 PetscCall(MatSetBlockSizesFromMats(C, A, P)); 7586 break; 7587 case MATPRODUCT_AtB: 7588 PetscCall(MatSetBlockSizes(C, A->cmap->bs, P->cmap->bs)); 7589 break; 7590 case MATPRODUCT_ABt: 7591 PetscCall(MatSetBlockSizes(C, A->rmap->bs, P->rmap->bs)); 7592 break; 7593 default: 7594 SETERRQ(PetscObjectComm((PetscObject)C), PETSC_ERR_PLIB, "Not for ProductType %s", MatProductTypes[ptype]); 7595 } 7596 7597 /* preallocate with COO data */ 7598 PetscCall(MatSetPreallocationCOO(C, ncoo, coo_i, coo_j)); 7599 PetscCall(PetscFree2(coo_i, coo_j)); 7600 PetscFunctionReturn(PETSC_SUCCESS); 7601 } 7602 7603 PetscErrorCode MatProductSetFromOptions_MPIAIJBACKEND(Mat mat) 7604 { 7605 Mat_Product *product = mat->product; 7606 #if defined(PETSC_HAVE_DEVICE) 7607 PetscBool match = PETSC_FALSE; 7608 PetscBool usecpu = PETSC_FALSE; 7609 #else 7610 PetscBool match = PETSC_TRUE; 7611 #endif 7612 7613 PetscFunctionBegin; 7614 MatCheckProduct(mat, 1); 7615 #if defined(PETSC_HAVE_DEVICE) 7616 if (!product->A->boundtocpu && !product->B->boundtocpu) PetscCall(PetscObjectTypeCompare((PetscObject)product->B, ((PetscObject)product->A)->type_name, &match)); 7617 if (match) { /* we can always fallback to the CPU if requested */ 7618 switch (product->type) { 7619 case MATPRODUCT_AB: 7620 if (product->api_user) { 7621 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatMatMult", "Mat"); 7622 PetscCall(PetscOptionsBool("-matmatmult_backend_cpu", "Use CPU code", "MatMatMult", usecpu, &usecpu, NULL)); 7623 PetscOptionsEnd(); 7624 } else { 7625 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatProduct_AB", "Mat"); 7626 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_cpu", "Use CPU code", "MatMatMult", usecpu, &usecpu, NULL)); 7627 PetscOptionsEnd(); 7628 } 7629 break; 7630 case MATPRODUCT_AtB: 7631 if (product->api_user) { 7632 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatTransposeMatMult", "Mat"); 7633 PetscCall(PetscOptionsBool("-mattransposematmult_backend_cpu", "Use CPU code", "MatTransposeMatMult", usecpu, &usecpu, NULL)); 7634 PetscOptionsEnd(); 7635 } else { 7636 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatProduct_AtB", "Mat"); 7637 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_cpu", "Use CPU code", "MatTransposeMatMult", usecpu, &usecpu, NULL)); 7638 PetscOptionsEnd(); 7639 } 7640 break; 7641 case MATPRODUCT_PtAP: 7642 if (product->api_user) { 7643 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatPtAP", "Mat"); 7644 PetscCall(PetscOptionsBool("-matptap_backend_cpu", "Use CPU code", "MatPtAP", usecpu, &usecpu, NULL)); 7645 PetscOptionsEnd(); 7646 } else { 7647 PetscOptionsBegin(PetscObjectComm((PetscObject)mat), ((PetscObject)mat)->prefix, "MatProduct_PtAP", "Mat"); 7648 PetscCall(PetscOptionsBool("-mat_product_algorithm_backend_cpu", "Use CPU code", "MatPtAP", usecpu, &usecpu, NULL)); 7649 PetscOptionsEnd(); 7650 } 7651 break; 7652 default: 7653 break; 7654 } 7655 match = (PetscBool)!usecpu; 7656 } 7657 #endif 7658 if (match) { 7659 switch (product->type) { 7660 case MATPRODUCT_AB: 7661 case MATPRODUCT_AtB: 7662 case MATPRODUCT_PtAP: 7663 mat->ops->productsymbolic = MatProductSymbolic_MPIAIJBACKEND; 7664 break; 7665 default: 7666 break; 7667 } 7668 } 7669 /* fallback to MPIAIJ ops */ 7670 if (!mat->ops->productsymbolic) PetscCall(MatProductSetFromOptions_MPIAIJ(mat)); 7671 PetscFunctionReturn(PETSC_SUCCESS); 7672 } 7673 7674 /* 7675 Produces a set of block column indices of the matrix row, one for each block represented in the original row 7676 7677 n - the number of block indices in cc[] 7678 cc - the block indices (must be large enough to contain the indices) 7679 */ 7680 static inline PetscErrorCode MatCollapseRow(Mat Amat, PetscInt row, PetscInt bs, PetscInt *n, PetscInt *cc) 7681 { 7682 PetscInt cnt = -1, nidx, j; 7683 const PetscInt *idx; 7684 7685 PetscFunctionBegin; 7686 PetscCall(MatGetRow(Amat, row, &nidx, &idx, NULL)); 7687 if (nidx) { 7688 cnt = 0; 7689 cc[cnt] = idx[0] / bs; 7690 for (j = 1; j < nidx; j++) { 7691 if (cc[cnt] < idx[j] / bs) cc[++cnt] = idx[j] / bs; 7692 } 7693 } 7694 PetscCall(MatRestoreRow(Amat, row, &nidx, &idx, NULL)); 7695 *n = cnt + 1; 7696 PetscFunctionReturn(PETSC_SUCCESS); 7697 } 7698 7699 /* 7700 Produces a set of block column indices of the matrix block row, one for each block represented in the original set of rows 7701 7702 ncollapsed - the number of block indices 7703 collapsed - the block indices (must be large enough to contain the indices) 7704 */ 7705 static inline PetscErrorCode MatCollapseRows(Mat Amat, PetscInt start, PetscInt bs, PetscInt *w0, PetscInt *w1, PetscInt *w2, PetscInt *ncollapsed, PetscInt **collapsed) 7706 { 7707 PetscInt i, nprev, *cprev = w0, ncur = 0, *ccur = w1, *merged = w2, *cprevtmp; 7708 7709 PetscFunctionBegin; 7710 PetscCall(MatCollapseRow(Amat, start, bs, &nprev, cprev)); 7711 for (i = start + 1; i < start + bs; i++) { 7712 PetscCall(MatCollapseRow(Amat, i, bs, &ncur, ccur)); 7713 PetscCall(PetscMergeIntArray(nprev, cprev, ncur, ccur, &nprev, &merged)); 7714 cprevtmp = cprev; 7715 cprev = merged; 7716 merged = cprevtmp; 7717 } 7718 *ncollapsed = nprev; 7719 if (collapsed) *collapsed = cprev; 7720 PetscFunctionReturn(PETSC_SUCCESS); 7721 } 7722 7723 /* 7724 MatCreateGraph_Simple_AIJ - create simple scalar matrix (graph) from potentially blocked matrix 7725 7726 Input Parameter: 7727 . Amat - matrix 7728 - symmetrize - make the result symmetric 7729 + scale - scale with diagonal 7730 7731 Output Parameter: 7732 . a_Gmat - output scalar graph >= 0 7733 7734 */ 7735 PETSC_INTERN PetscErrorCode MatCreateGraph_Simple_AIJ(Mat Amat, PetscBool symmetrize, PetscBool scale, PetscReal filter, PetscInt index_size, PetscInt index[], Mat *a_Gmat) 7736 { 7737 PetscInt Istart, Iend, Ii, jj, kk, ncols, nloc, NN, MM, bs; 7738 MPI_Comm comm; 7739 Mat Gmat; 7740 PetscBool ismpiaij, isseqaij; 7741 Mat a, b, c; 7742 MatType jtype; 7743 7744 PetscFunctionBegin; 7745 PetscCall(PetscObjectGetComm((PetscObject)Amat, &comm)); 7746 PetscCall(MatGetOwnershipRange(Amat, &Istart, &Iend)); 7747 PetscCall(MatGetSize(Amat, &MM, &NN)); 7748 PetscCall(MatGetBlockSize(Amat, &bs)); 7749 nloc = (Iend - Istart) / bs; 7750 7751 PetscCall(PetscObjectBaseTypeCompare((PetscObject)Amat, MATSEQAIJ, &isseqaij)); 7752 PetscCall(PetscObjectBaseTypeCompare((PetscObject)Amat, MATMPIAIJ, &ismpiaij)); 7753 PetscCheck(isseqaij || ismpiaij, comm, PETSC_ERR_USER, "Require (MPI)AIJ matrix type"); 7754 7755 /* TODO GPU: these calls are potentially expensive if matrices are large and we want to use the GPU */ 7756 /* A solution consists in providing a new API, MatAIJGetCollapsedAIJ, and each class can provide a fast 7757 implementation */ 7758 if (bs > 1) { 7759 PetscCall(MatGetType(Amat, &jtype)); 7760 PetscCall(MatCreate(comm, &Gmat)); 7761 PetscCall(MatSetType(Gmat, jtype)); 7762 PetscCall(MatSetSizes(Gmat, nloc, nloc, PETSC_DETERMINE, PETSC_DETERMINE)); 7763 PetscCall(MatSetBlockSizes(Gmat, 1, 1)); 7764 if (isseqaij || ((Mat_MPIAIJ *)Amat->data)->garray) { 7765 PetscInt *d_nnz, *o_nnz; 7766 MatScalar *aa, val, *AA; 7767 PetscInt *aj, *ai, *AJ, nc, nmax = 0; 7768 7769 if (isseqaij) { 7770 a = Amat; 7771 b = NULL; 7772 } else { 7773 Mat_MPIAIJ *d = (Mat_MPIAIJ *)Amat->data; 7774 a = d->A; 7775 b = d->B; 7776 } 7777 PetscCall(PetscInfo(Amat, "New bs>1 Graph. nloc=%" PetscInt_FMT "\n", nloc)); 7778 PetscCall(PetscMalloc2(nloc, &d_nnz, (isseqaij ? 0 : nloc), &o_nnz)); 7779 for (c = a, kk = 0; c && kk < 2; c = b, kk++) { 7780 PetscInt *nnz = (c == a) ? d_nnz : o_nnz; 7781 const PetscInt *cols1, *cols2; 7782 7783 for (PetscInt brow = 0, nc1, nc2, ok = 1; brow < nloc * bs; brow += bs) { // block rows 7784 PetscCall(MatGetRow(c, brow, &nc2, &cols2, NULL)); 7785 nnz[brow / bs] = nc2 / bs; 7786 if (nc2 % bs) ok = 0; 7787 if (nnz[brow / bs] > nmax) nmax = nnz[brow / bs]; 7788 for (PetscInt ii = 1; ii < bs; ii++) { // check for non-dense blocks 7789 PetscCall(MatGetRow(c, brow + ii, &nc1, &cols1, NULL)); 7790 if (nc1 != nc2) ok = 0; 7791 else { 7792 for (PetscInt jj = 0; jj < nc1 && ok == 1; jj++) { 7793 if (cols1[jj] != cols2[jj]) ok = 0; 7794 if (cols1[jj] % bs != jj % bs) ok = 0; 7795 } 7796 } 7797 PetscCall(MatRestoreRow(c, brow + ii, &nc1, &cols1, NULL)); 7798 } 7799 PetscCall(MatRestoreRow(c, brow, &nc2, &cols2, NULL)); 7800 if (!ok) { 7801 PetscCall(PetscFree2(d_nnz, o_nnz)); 7802 PetscCall(PetscInfo(Amat, "Found sparse blocks - revert to slow method\n")); 7803 goto old_bs; 7804 } 7805 } 7806 } 7807 PetscCall(MatSeqAIJSetPreallocation(Gmat, 0, d_nnz)); 7808 PetscCall(MatMPIAIJSetPreallocation(Gmat, 0, d_nnz, 0, o_nnz)); 7809 PetscCall(PetscFree2(d_nnz, o_nnz)); 7810 PetscCall(PetscMalloc2(nmax, &AA, nmax, &AJ)); 7811 // diag 7812 for (PetscInt brow = 0, n, grow; brow < nloc * bs; brow += bs) { // block rows 7813 Mat_SeqAIJ *aseq = (Mat_SeqAIJ *)a->data; 7814 7815 ai = aseq->i; 7816 n = ai[brow + 1] - ai[brow]; 7817 aj = aseq->j + ai[brow]; 7818 for (PetscInt k = 0; k < n; k += bs) { // block columns 7819 AJ[k / bs] = aj[k] / bs + Istart / bs; // diag starts at (Istart,Istart) 7820 val = 0; 7821 if (index_size == 0) { 7822 for (PetscInt ii = 0; ii < bs; ii++) { // rows in block 7823 aa = aseq->a + ai[brow + ii] + k; 7824 for (PetscInt jj = 0; jj < bs; jj++) { // columns in block 7825 val += PetscAbs(PetscRealPart(aa[jj])); // a sort of norm 7826 } 7827 } 7828 } else { // use (index,index) value if provided 7829 for (PetscInt iii = 0; iii < index_size; iii++) { // rows in block 7830 PetscInt ii = index[iii]; 7831 aa = aseq->a + ai[brow + ii] + k; 7832 for (PetscInt jjj = 0; jjj < index_size; jjj++) { // columns in block 7833 PetscInt jj = index[jjj]; 7834 val += PetscAbs(PetscRealPart(aa[jj])); 7835 } 7836 } 7837 } 7838 PetscAssert(k / bs < nmax, comm, PETSC_ERR_USER, "k / bs (%" PetscInt_FMT ") >= nmax (%" PetscInt_FMT ")", k / bs, nmax); 7839 AA[k / bs] = val; 7840 } 7841 grow = Istart / bs + brow / bs; 7842 PetscCall(MatSetValues(Gmat, 1, &grow, n / bs, AJ, AA, ADD_VALUES)); 7843 } 7844 // off-diag 7845 if (ismpiaij) { 7846 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)Amat->data; 7847 const PetscScalar *vals; 7848 const PetscInt *cols, *garray = aij->garray; 7849 7850 PetscCheck(garray, PETSC_COMM_SELF, PETSC_ERR_USER, "No garray ?"); 7851 for (PetscInt brow = 0, grow; brow < nloc * bs; brow += bs) { // block rows 7852 PetscCall(MatGetRow(b, brow, &ncols, &cols, NULL)); 7853 for (PetscInt k = 0, cidx = 0; k < ncols; k += bs, cidx++) { 7854 PetscAssert(k / bs < nmax, comm, PETSC_ERR_USER, "k / bs >= nmax"); 7855 AA[k / bs] = 0; 7856 AJ[cidx] = garray[cols[k]] / bs; 7857 } 7858 nc = ncols / bs; 7859 PetscCall(MatRestoreRow(b, brow, &ncols, &cols, NULL)); 7860 if (index_size == 0) { 7861 for (PetscInt ii = 0; ii < bs; ii++) { // rows in block 7862 PetscCall(MatGetRow(b, brow + ii, &ncols, &cols, &vals)); 7863 for (PetscInt k = 0; k < ncols; k += bs) { 7864 for (PetscInt jj = 0; jj < bs; jj++) { // cols in block 7865 PetscAssert(k / bs < nmax, comm, PETSC_ERR_USER, "k / bs (%" PetscInt_FMT ") >= nmax (%" PetscInt_FMT ")", k / bs, nmax); 7866 AA[k / bs] += PetscAbs(PetscRealPart(vals[k + jj])); 7867 } 7868 } 7869 PetscCall(MatRestoreRow(b, brow + ii, &ncols, &cols, &vals)); 7870 } 7871 } else { // use (index,index) value if provided 7872 for (PetscInt iii = 0; iii < index_size; iii++) { // rows in block 7873 PetscInt ii = index[iii]; 7874 PetscCall(MatGetRow(b, brow + ii, &ncols, &cols, &vals)); 7875 for (PetscInt k = 0; k < ncols; k += bs) { 7876 for (PetscInt jjj = 0; jjj < index_size; jjj++) { // cols in block 7877 PetscInt jj = index[jjj]; 7878 AA[k / bs] += PetscAbs(PetscRealPart(vals[k + jj])); 7879 } 7880 } 7881 PetscCall(MatRestoreRow(b, brow + ii, &ncols, &cols, &vals)); 7882 } 7883 } 7884 grow = Istart / bs + brow / bs; 7885 PetscCall(MatSetValues(Gmat, 1, &grow, nc, AJ, AA, ADD_VALUES)); 7886 } 7887 } 7888 PetscCall(MatAssemblyBegin(Gmat, MAT_FINAL_ASSEMBLY)); 7889 PetscCall(MatAssemblyEnd(Gmat, MAT_FINAL_ASSEMBLY)); 7890 PetscCall(PetscFree2(AA, AJ)); 7891 } else { 7892 const PetscScalar *vals; 7893 const PetscInt *idx; 7894 PetscInt *d_nnz, *o_nnz, *w0, *w1, *w2; 7895 old_bs: 7896 /* 7897 Determine the preallocation needed for the scalar matrix derived from the vector matrix. 7898 */ 7899 PetscCall(PetscInfo(Amat, "OLD bs>1 CreateGraph\n")); 7900 PetscCall(PetscMalloc2(nloc, &d_nnz, (isseqaij ? 0 : nloc), &o_nnz)); 7901 if (isseqaij) { 7902 PetscInt max_d_nnz; 7903 7904 /* 7905 Determine exact preallocation count for (sequential) scalar matrix 7906 */ 7907 PetscCall(MatSeqAIJGetMaxRowNonzeros(Amat, &max_d_nnz)); 7908 max_d_nnz = PetscMin(nloc, bs * max_d_nnz); 7909 PetscCall(PetscMalloc3(max_d_nnz, &w0, max_d_nnz, &w1, max_d_nnz, &w2)); 7910 for (Ii = 0, jj = 0; Ii < Iend; Ii += bs, jj++) PetscCall(MatCollapseRows(Amat, Ii, bs, w0, w1, w2, &d_nnz[jj], NULL)); 7911 PetscCall(PetscFree3(w0, w1, w2)); 7912 } else if (ismpiaij) { 7913 Mat Daij, Oaij; 7914 const PetscInt *garray; 7915 PetscInt max_d_nnz; 7916 7917 PetscCall(MatMPIAIJGetSeqAIJ(Amat, &Daij, &Oaij, &garray)); 7918 /* 7919 Determine exact preallocation count for diagonal block portion of scalar matrix 7920 */ 7921 PetscCall(MatSeqAIJGetMaxRowNonzeros(Daij, &max_d_nnz)); 7922 max_d_nnz = PetscMin(nloc, bs * max_d_nnz); 7923 PetscCall(PetscMalloc3(max_d_nnz, &w0, max_d_nnz, &w1, max_d_nnz, &w2)); 7924 for (Ii = 0, jj = 0; Ii < Iend - Istart; Ii += bs, jj++) PetscCall(MatCollapseRows(Daij, Ii, bs, w0, w1, w2, &d_nnz[jj], NULL)); 7925 PetscCall(PetscFree3(w0, w1, w2)); 7926 /* 7927 Over estimate (usually grossly over), preallocation count for off-diagonal portion of scalar matrix 7928 */ 7929 for (Ii = 0, jj = 0; Ii < Iend - Istart; Ii += bs, jj++) { 7930 o_nnz[jj] = 0; 7931 for (kk = 0; kk < bs; kk++) { /* rows that get collapsed to a single row */ 7932 PetscCall(MatGetRow(Oaij, Ii + kk, &ncols, NULL, NULL)); 7933 o_nnz[jj] += ncols; 7934 PetscCall(MatRestoreRow(Oaij, Ii + kk, &ncols, NULL, NULL)); 7935 } 7936 if (o_nnz[jj] > (NN / bs - nloc)) o_nnz[jj] = NN / bs - nloc; 7937 } 7938 } else SETERRQ(comm, PETSC_ERR_USER, "Require AIJ matrix type"); 7939 /* get scalar copy (norms) of matrix */ 7940 PetscCall(MatSeqAIJSetPreallocation(Gmat, 0, d_nnz)); 7941 PetscCall(MatMPIAIJSetPreallocation(Gmat, 0, d_nnz, 0, o_nnz)); 7942 PetscCall(PetscFree2(d_nnz, o_nnz)); 7943 for (Ii = Istart; Ii < Iend; Ii++) { 7944 PetscInt dest_row = Ii / bs; 7945 7946 PetscCall(MatGetRow(Amat, Ii, &ncols, &idx, &vals)); 7947 for (jj = 0; jj < ncols; jj++) { 7948 PetscInt dest_col = idx[jj] / bs; 7949 PetscScalar sv = PetscAbs(PetscRealPart(vals[jj])); 7950 7951 PetscCall(MatSetValues(Gmat, 1, &dest_row, 1, &dest_col, &sv, ADD_VALUES)); 7952 } 7953 PetscCall(MatRestoreRow(Amat, Ii, &ncols, &idx, &vals)); 7954 } 7955 PetscCall(MatAssemblyBegin(Gmat, MAT_FINAL_ASSEMBLY)); 7956 PetscCall(MatAssemblyEnd(Gmat, MAT_FINAL_ASSEMBLY)); 7957 } 7958 } else { 7959 if (symmetrize || filter >= 0 || scale) PetscCall(MatDuplicate(Amat, MAT_COPY_VALUES, &Gmat)); 7960 else { 7961 Gmat = Amat; 7962 PetscCall(PetscObjectReference((PetscObject)Gmat)); 7963 } 7964 if (isseqaij) { 7965 a = Gmat; 7966 b = NULL; 7967 } else { 7968 Mat_MPIAIJ *d = (Mat_MPIAIJ *)Gmat->data; 7969 a = d->A; 7970 b = d->B; 7971 } 7972 if (filter >= 0 || scale) { 7973 /* take absolute value of each entry */ 7974 for (c = a, kk = 0; c && kk < 2; c = b, kk++) { 7975 MatInfo info; 7976 PetscScalar *avals; 7977 7978 PetscCall(MatGetInfo(c, MAT_LOCAL, &info)); 7979 PetscCall(MatSeqAIJGetArray(c, &avals)); 7980 for (int jj = 0; jj < info.nz_used; jj++) avals[jj] = PetscAbsScalar(avals[jj]); 7981 PetscCall(MatSeqAIJRestoreArray(c, &avals)); 7982 } 7983 } 7984 } 7985 if (symmetrize) { 7986 PetscBool isset, issym; 7987 7988 PetscCall(MatIsSymmetricKnown(Amat, &isset, &issym)); 7989 if (!isset || !issym) { 7990 Mat matTrans; 7991 7992 PetscCall(MatTranspose(Gmat, MAT_INITIAL_MATRIX, &matTrans)); 7993 PetscCall(MatAXPY(Gmat, 1.0, matTrans, Gmat->structurally_symmetric == PETSC_BOOL3_TRUE ? SAME_NONZERO_PATTERN : DIFFERENT_NONZERO_PATTERN)); 7994 PetscCall(MatDestroy(&matTrans)); 7995 } 7996 PetscCall(MatSetOption(Gmat, MAT_SYMMETRIC, PETSC_TRUE)); 7997 } else if (Amat != Gmat) PetscCall(MatPropagateSymmetryOptions(Amat, Gmat)); 7998 if (scale) { 7999 /* scale c for all diagonal values = 1 or -1 */ 8000 Vec diag; 8001 8002 PetscCall(MatCreateVecs(Gmat, &diag, NULL)); 8003 PetscCall(MatGetDiagonal(Gmat, diag)); 8004 PetscCall(VecReciprocal(diag)); 8005 PetscCall(VecSqrtAbs(diag)); 8006 PetscCall(MatDiagonalScale(Gmat, diag, diag)); 8007 PetscCall(VecDestroy(&diag)); 8008 } 8009 PetscCall(MatViewFromOptions(Gmat, NULL, "-mat_graph_view")); 8010 if (filter >= 0) { 8011 PetscCall(MatFilter(Gmat, filter, PETSC_TRUE, PETSC_TRUE)); 8012 PetscCall(MatViewFromOptions(Gmat, NULL, "-mat_filter_graph_view")); 8013 } 8014 *a_Gmat = Gmat; 8015 PetscFunctionReturn(PETSC_SUCCESS); 8016 } 8017 8018 /* 8019 Special version for direct calls from Fortran 8020 */ 8021 8022 /* Change these macros so can be used in void function */ 8023 /* Identical to PetscCallVoid, except it assigns to *_ierr */ 8024 #undef PetscCall 8025 #define PetscCall(...) \ 8026 do { \ 8027 PetscErrorCode ierr_msv_mpiaij = __VA_ARGS__; \ 8028 if (PetscUnlikely(ierr_msv_mpiaij)) { \ 8029 *_ierr = PetscError(PETSC_COMM_SELF, __LINE__, PETSC_FUNCTION_NAME, __FILE__, ierr_msv_mpiaij, PETSC_ERROR_REPEAT, " "); \ 8030 return; \ 8031 } \ 8032 } while (0) 8033 8034 #undef SETERRQ 8035 #define SETERRQ(comm, ierr, ...) \ 8036 do { \ 8037 *_ierr = PetscError(comm, __LINE__, PETSC_FUNCTION_NAME, __FILE__, ierr, PETSC_ERROR_INITIAL, __VA_ARGS__); \ 8038 return; \ 8039 } while (0) 8040 8041 #if defined(PETSC_HAVE_FORTRAN_CAPS) 8042 #define matsetvaluesmpiaij_ MATSETVALUESMPIAIJ 8043 #elif !defined(PETSC_HAVE_FORTRAN_UNDERSCORE) 8044 #define matsetvaluesmpiaij_ matsetvaluesmpiaij 8045 #else 8046 #endif 8047 PETSC_EXTERN void matsetvaluesmpiaij_(Mat *mmat, PetscInt *mm, const PetscInt im[], PetscInt *mn, const PetscInt in[], const PetscScalar v[], InsertMode *maddv, PetscErrorCode *_ierr) 8048 { 8049 Mat mat = *mmat; 8050 PetscInt m = *mm, n = *mn; 8051 InsertMode addv = *maddv; 8052 Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 8053 PetscScalar value; 8054 8055 MatCheckPreallocated(mat, 1); 8056 if (mat->insertmode == NOT_SET_VALUES) mat->insertmode = addv; 8057 else PetscCheck(mat->insertmode == addv, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Cannot mix add values and insert values"); 8058 { 8059 PetscInt i, j, rstart = mat->rmap->rstart, rend = mat->rmap->rend; 8060 PetscInt cstart = mat->cmap->rstart, cend = mat->cmap->rend, row, col; 8061 PetscBool roworiented = aij->roworiented; 8062 8063 /* Some Variables required in the macro */ 8064 Mat A = aij->A; 8065 Mat_SeqAIJ *a = (Mat_SeqAIJ *)A->data; 8066 PetscInt *aimax = a->imax, *ai = a->i, *ailen = a->ilen, *aj = a->j; 8067 MatScalar *aa; 8068 PetscBool ignorezeroentries = ((a->ignorezeroentries && (addv == ADD_VALUES)) ? PETSC_TRUE : PETSC_FALSE); 8069 Mat B = aij->B; 8070 Mat_SeqAIJ *b = (Mat_SeqAIJ *)B->data; 8071 PetscInt *bimax = b->imax, *bi = b->i, *bilen = b->ilen, *bj = b->j, bm = aij->B->rmap->n, am = aij->A->rmap->n; 8072 MatScalar *ba; 8073 /* This variable below is only for the PETSC_HAVE_VIENNACL or PETSC_HAVE_CUDA cases, but we define it in all cases because we 8074 * cannot use "#if defined" inside a macro. */ 8075 PETSC_UNUSED PetscBool inserted = PETSC_FALSE; 8076 8077 PetscInt *rp1, *rp2, ii, nrow1, nrow2, _i, rmax1, rmax2, N, low1, high1, low2, high2, t, lastcol1, lastcol2; 8078 PetscInt nonew = a->nonew; 8079 MatScalar *ap1, *ap2; 8080 8081 PetscFunctionBegin; 8082 PetscCall(MatSeqAIJGetArray(A, &aa)); 8083 PetscCall(MatSeqAIJGetArray(B, &ba)); 8084 for (i = 0; i < m; i++) { 8085 if (im[i] < 0) continue; 8086 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); 8087 if (im[i] >= rstart && im[i] < rend) { 8088 row = im[i] - rstart; 8089 lastcol1 = -1; 8090 rp1 = aj + ai[row]; 8091 ap1 = aa + ai[row]; 8092 rmax1 = aimax[row]; 8093 nrow1 = ailen[row]; 8094 low1 = 0; 8095 high1 = nrow1; 8096 lastcol2 = -1; 8097 rp2 = bj + bi[row]; 8098 ap2 = ba + bi[row]; 8099 rmax2 = bimax[row]; 8100 nrow2 = bilen[row]; 8101 low2 = 0; 8102 high2 = nrow2; 8103 8104 for (j = 0; j < n; j++) { 8105 if (roworiented) value = v[i * n + j]; 8106 else value = v[i + j * m]; 8107 if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES) && im[i] != in[j]) continue; 8108 if (in[j] >= cstart && in[j] < cend) { 8109 col = in[j] - cstart; 8110 MatSetValues_SeqAIJ_A_Private(row, col, value, addv, im[i], in[j]); 8111 } else if (in[j] < 0) continue; 8112 else if (PetscUnlikelyDebug(in[j] >= mat->cmap->N)) { 8113 SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Column too large: col %" PetscInt_FMT " max %" PetscInt_FMT, in[j], mat->cmap->N - 1); 8114 } else { 8115 if (mat->was_assembled) { 8116 if (!aij->colmap) PetscCall(MatCreateColmap_MPIAIJ_Private(mat)); 8117 #if defined(PETSC_USE_CTABLE) 8118 PetscCall(PetscHMapIGetWithDefault(aij->colmap, in[j] + 1, 0, &col)); 8119 col--; 8120 #else 8121 col = aij->colmap[in[j]] - 1; 8122 #endif 8123 if (col < 0 && !((Mat_SeqAIJ *)aij->A->data)->nonew) { 8124 PetscCall(MatDisAssemble_MPIAIJ(mat, PETSC_FALSE)); 8125 col = in[j]; 8126 /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */ 8127 B = aij->B; 8128 b = (Mat_SeqAIJ *)B->data; 8129 bimax = b->imax; 8130 bi = b->i; 8131 bilen = b->ilen; 8132 bj = b->j; 8133 rp2 = bj + bi[row]; 8134 ap2 = ba + bi[row]; 8135 rmax2 = bimax[row]; 8136 nrow2 = bilen[row]; 8137 low2 = 0; 8138 high2 = nrow2; 8139 bm = aij->B->rmap->n; 8140 ba = b->a; 8141 inserted = PETSC_FALSE; 8142 } 8143 } else col = in[j]; 8144 MatSetValues_SeqAIJ_B_Private(row, col, value, addv, im[i], in[j]); 8145 } 8146 } 8147 } else if (!aij->donotstash) { 8148 if (roworiented) { 8149 PetscCall(MatStashValuesRow_Private(&mat->stash, im[i], n, in, v + i * n, (PetscBool)(ignorezeroentries && (addv == ADD_VALUES)))); 8150 } else { 8151 PetscCall(MatStashValuesCol_Private(&mat->stash, im[i], n, in, v + i, m, (PetscBool)(ignorezeroentries && (addv == ADD_VALUES)))); 8152 } 8153 } 8154 } 8155 PetscCall(MatSeqAIJRestoreArray(A, &aa)); 8156 PetscCall(MatSeqAIJRestoreArray(B, &ba)); 8157 } 8158 PetscFunctionReturnVoid(); 8159 } 8160 8161 /* Undefining these here since they were redefined from their original definition above! No 8162 * other PETSc functions should be defined past this point, as it is impossible to recover the 8163 * original definitions */ 8164 #undef PetscCall 8165 #undef SETERRQ 8166