1 2 /* 3 Defines matrix-matrix product routines for pairs of MPIAIJ matrices 4 C = A * B 5 */ 6 #include <../src/mat/impls/aij/seq/aij.h> /*I "petscmat.h" I*/ 7 #include <../src/mat/utils/freespace.h> 8 #include <../src/mat/impls/aij/mpi/mpiaij.h> 9 #include <petscbt.h> 10 #include <../src/mat/impls/dense/mpi/mpidense.h> 11 #include <petsc/private/vecimpl.h> 12 #include <petsc/private/vecscatterimpl.h> 13 14 #if defined(PETSC_HAVE_HYPRE) 15 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_AIJ_AIJ_wHYPRE(Mat,Mat,PetscReal,Mat); 16 #endif 17 18 PETSC_INTERN PetscErrorCode MatProductSymbolic_AB_MPIAIJ_MPIAIJ(Mat C) 19 { 20 PetscErrorCode ierr; 21 Mat_Product *product = C->product; 22 Mat A=product->A,B=product->B; 23 MatProductAlgorithm alg=product->alg; 24 PetscReal fill=product->fill; 25 PetscBool flg; 26 27 PetscFunctionBegin; 28 /* scalable */ 29 ierr = PetscStrcmp(alg,"scalable",&flg);CHKERRQ(ierr); 30 if (flg) { 31 ierr = MatMatMultSymbolic_MPIAIJ_MPIAIJ(A,B,fill,C);CHKERRQ(ierr); 32 PetscFunctionReturn(0); 33 } 34 35 /* nonscalable */ 36 ierr = PetscStrcmp(alg,"nonscalable",&flg);CHKERRQ(ierr); 37 if (flg) { 38 ierr = MatMatMultSymbolic_MPIAIJ_MPIAIJ_nonscalable(A,B,fill,C);CHKERRQ(ierr); 39 PetscFunctionReturn(0); 40 } 41 42 /* seqmpi */ 43 ierr = PetscStrcmp(alg,"seqmpi",&flg);CHKERRQ(ierr); 44 if (flg) { 45 ierr = MatMatMultSymbolic_MPIAIJ_MPIAIJ_seqMPI(A,B,fill,C);CHKERRQ(ierr); 46 PetscFunctionReturn(0); 47 } 48 49 #if defined(PETSC_HAVE_HYPRE) 50 ierr = PetscStrcmp(alg,"hypre",&flg);CHKERRQ(ierr); 51 if (flg) { 52 ierr = MatMatMultSymbolic_AIJ_AIJ_wHYPRE(A,B,fill,C);CHKERRQ(ierr); 53 PetscFunctionReturn(0); 54 } 55 #endif 56 SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_SUP,"Mat Product Algorithm is not supported"); 57 } 58 59 PetscErrorCode MatDestroy_MPIAIJ_MatMatMult(void *data) 60 { 61 PetscErrorCode ierr; 62 Mat_APMPI *ptap = (Mat_APMPI*)data; 63 64 PetscFunctionBegin; 65 ierr = PetscFree2(ptap->startsj_s,ptap->startsj_r);CHKERRQ(ierr); 66 ierr = PetscFree(ptap->bufa);CHKERRQ(ierr); 67 ierr = MatDestroy(&ptap->P_loc);CHKERRQ(ierr); 68 ierr = MatDestroy(&ptap->P_oth);CHKERRQ(ierr); 69 ierr = MatDestroy(&ptap->Pt);CHKERRQ(ierr); 70 ierr = PetscFree(ptap->api);CHKERRQ(ierr); 71 ierr = PetscFree(ptap->apj);CHKERRQ(ierr); 72 ierr = PetscFree(ptap->apa);CHKERRQ(ierr); 73 ierr = PetscFree(ptap);CHKERRQ(ierr); 74 PetscFunctionReturn(0); 75 } 76 77 PetscErrorCode MatMatMultNumeric_MPIAIJ_MPIAIJ_nonscalable(Mat A,Mat P,Mat C) 78 { 79 PetscErrorCode ierr; 80 Mat_MPIAIJ *a =(Mat_MPIAIJ*)A->data,*c=(Mat_MPIAIJ*)C->data; 81 Mat_SeqAIJ *ad =(Mat_SeqAIJ*)(a->A)->data,*ao=(Mat_SeqAIJ*)(a->B)->data; 82 Mat_SeqAIJ *cd =(Mat_SeqAIJ*)(c->A)->data,*co=(Mat_SeqAIJ*)(c->B)->data; 83 PetscScalar *cda=cd->a,*coa=co->a; 84 Mat_SeqAIJ *p_loc,*p_oth; 85 PetscScalar *apa,*ca; 86 PetscInt cm =C->rmap->n; 87 Mat_APMPI *ptap; 88 PetscInt *api,*apj,*apJ,i,k; 89 PetscInt cstart=C->cmap->rstart; 90 PetscInt cdnz,conz,k0,k1; 91 MPI_Comm comm; 92 PetscMPIInt size; 93 94 PetscFunctionBegin; 95 MatCheckProduct(C,3); 96 ptap = (Mat_APMPI*)C->product->data; 97 if (!ptap) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtAP cannot be computed. Missing data"); 98 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 99 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 100 101 if (!ptap->P_oth && size>1) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"AP cannot be reused. Do not call MatProductClear()"); 102 103 /* 1) get P_oth = ptap->P_oth and P_loc = ptap->P_loc */ 104 /*-----------------------------------------------------*/ 105 /* update numerical values of P_oth and P_loc */ 106 ierr = MatGetBrowsOfAoCols_MPIAIJ(A,P,MAT_REUSE_MATRIX,&ptap->startsj_s,&ptap->startsj_r,&ptap->bufa,&ptap->P_oth);CHKERRQ(ierr); 107 ierr = MatMPIAIJGetLocalMat(P,MAT_REUSE_MATRIX,&ptap->P_loc);CHKERRQ(ierr); 108 109 /* 2) compute numeric C_loc = A_loc*P = Ad*P_loc + Ao*P_oth */ 110 /*----------------------------------------------------------*/ 111 /* get data from symbolic products */ 112 p_loc = (Mat_SeqAIJ*)(ptap->P_loc)->data; 113 p_oth = NULL; 114 if (size >1) { 115 p_oth = (Mat_SeqAIJ*)(ptap->P_oth)->data; 116 } 117 118 /* get apa for storing dense row A[i,:]*P */ 119 apa = ptap->apa; 120 121 api = ptap->api; 122 apj = ptap->apj; 123 for (i=0; i<cm; i++) { 124 /* compute apa = A[i,:]*P */ 125 AProw_nonscalable(i,ad,ao,p_loc,p_oth,apa); 126 127 /* set values in C */ 128 apJ = apj + api[i]; 129 cdnz = cd->i[i+1] - cd->i[i]; 130 conz = co->i[i+1] - co->i[i]; 131 132 /* 1st off-diagonal part of C */ 133 ca = coa + co->i[i]; 134 k = 0; 135 for (k0=0; k0<conz; k0++) { 136 if (apJ[k] >= cstart) break; 137 ca[k0] = apa[apJ[k]]; 138 apa[apJ[k++]] = 0.0; 139 } 140 141 /* diagonal part of C */ 142 ca = cda + cd->i[i]; 143 for (k1=0; k1<cdnz; k1++) { 144 ca[k1] = apa[apJ[k]]; 145 apa[apJ[k++]] = 0.0; 146 } 147 148 /* 2nd off-diagonal part of C */ 149 ca = coa + co->i[i]; 150 for (; k0<conz; k0++) { 151 ca[k0] = apa[apJ[k]]; 152 apa[apJ[k++]] = 0.0; 153 } 154 } 155 ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 156 ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 157 PetscFunctionReturn(0); 158 } 159 160 PetscErrorCode MatMatMultSymbolic_MPIAIJ_MPIAIJ_nonscalable(Mat A,Mat P,PetscReal fill,Mat C) 161 { 162 PetscErrorCode ierr; 163 MPI_Comm comm; 164 PetscMPIInt size; 165 Mat_APMPI *ptap; 166 PetscFreeSpaceList free_space=NULL,current_space=NULL; 167 Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 168 Mat_SeqAIJ *ad=(Mat_SeqAIJ*)(a->A)->data,*ao=(Mat_SeqAIJ*)(a->B)->data,*p_loc,*p_oth; 169 PetscInt *pi_loc,*pj_loc,*pi_oth,*pj_oth,*dnz,*onz; 170 PetscInt *adi=ad->i,*adj=ad->j,*aoi=ao->i,*aoj=ao->j,rstart=A->rmap->rstart; 171 PetscInt *lnk,i,pnz,row,*api,*apj,*Jptr,apnz,nspacedouble=0,j,nzi; 172 PetscInt am=A->rmap->n,pN=P->cmap->N,pn=P->cmap->n,pm=P->rmap->n; 173 PetscBT lnkbt; 174 PetscReal afill; 175 MatType mtype; 176 177 PetscFunctionBegin; 178 MatCheckProduct(C,4); 179 if (C->product->data) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Extra product struct not empty"); 180 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 181 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 182 183 /* create struct Mat_APMPI and attached it to C later */ 184 ierr = PetscNew(&ptap);CHKERRQ(ierr); 185 186 /* get P_oth by taking rows of P (= non-zero cols of local A) from other processors */ 187 ierr = MatGetBrowsOfAoCols_MPIAIJ(A,P,MAT_INITIAL_MATRIX,&ptap->startsj_s,&ptap->startsj_r,&ptap->bufa,&ptap->P_oth);CHKERRQ(ierr); 188 189 /* get P_loc by taking all local rows of P */ 190 ierr = MatMPIAIJGetLocalMat(P,MAT_INITIAL_MATRIX,&ptap->P_loc);CHKERRQ(ierr); 191 192 p_loc = (Mat_SeqAIJ*)(ptap->P_loc)->data; 193 pi_loc = p_loc->i; pj_loc = p_loc->j; 194 if (size > 1) { 195 p_oth = (Mat_SeqAIJ*)(ptap->P_oth)->data; 196 pi_oth = p_oth->i; pj_oth = p_oth->j; 197 } else { 198 p_oth = NULL; 199 pi_oth = NULL; pj_oth = NULL; 200 } 201 202 /* first, compute symbolic AP = A_loc*P = A_diag*P_loc + A_off*P_oth */ 203 /*-------------------------------------------------------------------*/ 204 ierr = PetscMalloc1(am+2,&api);CHKERRQ(ierr); 205 ptap->api = api; 206 api[0] = 0; 207 208 /* create and initialize a linked list */ 209 ierr = PetscLLCondensedCreate(pN,pN,&lnk,&lnkbt);CHKERRQ(ierr); 210 211 /* Initial FreeSpace size is fill*(nnz(A)+nnz(P)) */ 212 ierr = PetscFreeSpaceGet(PetscRealIntMultTruncate(fill,PetscIntSumTruncate(adi[am],PetscIntSumTruncate(aoi[am],pi_loc[pm]))),&free_space);CHKERRQ(ierr); 213 current_space = free_space; 214 215 ierr = MatPreallocateInitialize(comm,am,pn,dnz,onz);CHKERRQ(ierr); 216 for (i=0; i<am; i++) { 217 /* diagonal portion of A */ 218 nzi = adi[i+1] - adi[i]; 219 for (j=0; j<nzi; j++) { 220 row = *adj++; 221 pnz = pi_loc[row+1] - pi_loc[row]; 222 Jptr = pj_loc + pi_loc[row]; 223 /* add non-zero cols of P into the sorted linked list lnk */ 224 ierr = PetscLLCondensedAddSorted(pnz,Jptr,lnk,lnkbt);CHKERRQ(ierr); 225 } 226 /* off-diagonal portion of A */ 227 nzi = aoi[i+1] - aoi[i]; 228 for (j=0; j<nzi; j++) { 229 row = *aoj++; 230 pnz = pi_oth[row+1] - pi_oth[row]; 231 Jptr = pj_oth + pi_oth[row]; 232 ierr = PetscLLCondensedAddSorted(pnz,Jptr,lnk,lnkbt);CHKERRQ(ierr); 233 } 234 235 apnz = lnk[0]; 236 api[i+1] = api[i] + apnz; 237 238 /* if free space is not available, double the total space in the list */ 239 if (current_space->local_remaining<apnz) { 240 ierr = PetscFreeSpaceGet(PetscIntSumTruncate(apnz,current_space->total_array_size),¤t_space);CHKERRQ(ierr); 241 nspacedouble++; 242 } 243 244 /* Copy data into free space, then initialize lnk */ 245 ierr = PetscLLCondensedClean(pN,apnz,current_space->array,lnk,lnkbt);CHKERRQ(ierr); 246 ierr = MatPreallocateSet(i+rstart,apnz,current_space->array,dnz,onz);CHKERRQ(ierr); 247 248 current_space->array += apnz; 249 current_space->local_used += apnz; 250 current_space->local_remaining -= apnz; 251 } 252 253 /* Allocate space for apj, initialize apj, and */ 254 /* destroy list of free space and other temporary array(s) */ 255 ierr = PetscMalloc1(api[am]+1,&ptap->apj);CHKERRQ(ierr); 256 apj = ptap->apj; 257 ierr = PetscFreeSpaceContiguous(&free_space,ptap->apj);CHKERRQ(ierr); 258 ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 259 260 /* malloc apa to store dense row A[i,:]*P */ 261 ierr = PetscCalloc1(pN,&ptap->apa);CHKERRQ(ierr); 262 263 /* set and assemble symbolic parallel matrix C */ 264 /*---------------------------------------------*/ 265 ierr = MatSetSizes(C,am,pn,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 266 ierr = MatSetBlockSizesFromMats(C,A,P);CHKERRQ(ierr); 267 268 ierr = MatGetType(A,&mtype);CHKERRQ(ierr); 269 ierr = MatSetType(C,mtype);CHKERRQ(ierr); 270 ierr = MatMPIAIJSetPreallocation(C,0,dnz,0,onz);CHKERRQ(ierr); 271 272 ierr = MatSetValues_MPIAIJ_CopyFromCSRFormat_Symbolic(C, apj, api);CHKERRQ(ierr); 273 ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 274 ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 275 ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 276 277 C->ops->matmultnumeric = MatMatMultNumeric_MPIAIJ_MPIAIJ_nonscalable; 278 C->ops->productnumeric = MatProductNumeric_AB; 279 280 /* attach the supporting struct to C for reuse */ 281 C->product->data = ptap; 282 C->product->destroy = MatDestroy_MPIAIJ_MatMatMult; 283 284 /* set MatInfo */ 285 afill = (PetscReal)api[am]/(adi[am]+aoi[am]+pi_loc[pm]+1) + 1.e-5; 286 if (afill < 1.0) afill = 1.0; 287 C->info.mallocs = nspacedouble; 288 C->info.fill_ratio_given = fill; 289 C->info.fill_ratio_needed = afill; 290 291 #if defined(PETSC_USE_INFO) 292 if (api[am]) { 293 ierr = PetscInfo3(C,"Reallocs %D; Fill ratio: given %g needed %g.\n",nspacedouble,(double)fill,(double)afill);CHKERRQ(ierr); 294 ierr = PetscInfo1(C,"Use MatMatMult(A,B,MatReuse,%g,&C) for best performance.;\n",(double)afill);CHKERRQ(ierr); 295 } else { 296 ierr = PetscInfo(C,"Empty matrix product\n");CHKERRQ(ierr); 297 } 298 #endif 299 PetscFunctionReturn(0); 300 } 301 302 /* ------------------------------------------------------- */ 303 static PetscErrorCode MatMatMultSymbolic_MPIAIJ_MPIDense(Mat,Mat,PetscReal,Mat); 304 static PetscErrorCode MatMatMultNumeric_MPIAIJ_MPIDense(Mat,Mat,Mat); 305 306 static PetscErrorCode MatProductSetFromOptions_MPIAIJ_MPIDense_AB(Mat C) 307 { 308 Mat_Product *product = C->product; 309 Mat A = product->A,B=product->B; 310 311 PetscFunctionBegin; 312 if (A->cmap->rstart != B->rmap->rstart || A->cmap->rend != B->rmap->rend) 313 SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",A->cmap->rstart,A->cmap->rend,B->rmap->rstart,B->rmap->rend); 314 315 C->ops->matmultsymbolic = MatMatMultSymbolic_MPIAIJ_MPIDense; 316 C->ops->productsymbolic = MatProductSymbolic_AB; 317 PetscFunctionReturn(0); 318 } 319 /* -------------------------------------------------------------------- */ 320 static PetscErrorCode MatProductSetFromOptions_MPIAIJ_MPIDense_AtB(Mat C) 321 { 322 Mat_Product *product = C->product; 323 Mat A = product->A,B=product->B; 324 325 PetscFunctionBegin; 326 if (A->rmap->rstart != B->rmap->rstart || A->rmap->rend != B->rmap->rend) 327 SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",A->rmap->rstart,A->rmap->rend,B->rmap->rstart,B->rmap->rend); 328 329 C->ops->transposematmultsymbolic = MatTransposeMatMultSymbolic_MPIAIJ_MPIDense; 330 C->ops->productsymbolic = MatProductSymbolic_AtB; 331 PetscFunctionReturn(0); 332 } 333 334 /* --------------------------------------------------------------------- */ 335 PETSC_INTERN PetscErrorCode MatProductSetFromOptions_MPIAIJ_MPIDense(Mat C) 336 { 337 PetscErrorCode ierr; 338 Mat_Product *product = C->product; 339 340 PetscFunctionBegin; 341 switch (product->type) { 342 case MATPRODUCT_AB: 343 ierr = MatProductSetFromOptions_MPIAIJ_MPIDense_AB(C);CHKERRQ(ierr); 344 break; 345 case MATPRODUCT_AtB: 346 ierr = MatProductSetFromOptions_MPIAIJ_MPIDense_AtB(C);CHKERRQ(ierr); 347 break; 348 default: 349 break; 350 } 351 PetscFunctionReturn(0); 352 } 353 /* ------------------------------------------------------- */ 354 355 typedef struct { 356 Mat workB,workB1; 357 MPI_Request *rwaits,*swaits; 358 PetscInt nsends,nrecvs; 359 MPI_Datatype *stype,*rtype; 360 PetscInt blda; 361 } MPIAIJ_MPIDense; 362 363 PetscErrorCode MatMPIAIJ_MPIDenseDestroy(void *ctx) 364 { 365 MPIAIJ_MPIDense *contents = (MPIAIJ_MPIDense*)ctx; 366 PetscErrorCode ierr; 367 PetscInt i; 368 369 PetscFunctionBegin; 370 ierr = MatDestroy(&contents->workB);CHKERRQ(ierr); 371 ierr = MatDestroy(&contents->workB1);CHKERRQ(ierr); 372 for (i=0; i<contents->nsends; i++) { 373 ierr = MPI_Type_free(&contents->stype[i]);CHKERRQ(ierr); 374 } 375 for (i=0; i<contents->nrecvs; i++) { 376 ierr = MPI_Type_free(&contents->rtype[i]);CHKERRQ(ierr); 377 } 378 ierr = PetscFree4(contents->stype,contents->rtype,contents->rwaits,contents->swaits);CHKERRQ(ierr); 379 ierr = PetscFree(contents);CHKERRQ(ierr); 380 PetscFunctionReturn(0); 381 } 382 383 static PetscErrorCode MatMatMultSymbolic_MPIAIJ_MPIDense(Mat A,Mat B,PetscReal fill,Mat C) 384 { 385 PetscErrorCode ierr; 386 Mat_MPIAIJ *aij=(Mat_MPIAIJ*)A->data; 387 PetscInt nz=aij->B->cmap->n,nsends,nrecvs,i,nrows_to,j,blda,clda; 388 MPIAIJ_MPIDense *contents; 389 VecScatter ctx=aij->Mvctx; 390 PetscInt Am=A->rmap->n,Bm=B->rmap->n,BN=B->cmap->N,Bbn,Bbn1,bs,nrows_from,numBb; 391 MPI_Comm comm; 392 MPI_Datatype type1,*stype,*rtype; 393 const PetscInt *sindices,*sstarts,*rstarts; 394 PetscMPIInt *disp; 395 PetscBool cisdense; 396 397 PetscFunctionBegin; 398 MatCheckProduct(C,4); 399 if (C->product->data) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_PLIB,"Product data not empty"); 400 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 401 ierr = PetscObjectBaseTypeCompare((PetscObject)C,MATMPIDENSE,&cisdense);CHKERRQ(ierr); 402 if (!cisdense) { 403 ierr = MatSetType(C,((PetscObject)B)->type_name);CHKERRQ(ierr); 404 } 405 ierr = MatSetSizes(C,Am,B->cmap->n,A->rmap->N,BN);CHKERRQ(ierr); 406 ierr = MatSetBlockSizesFromMats(C,A,B);CHKERRQ(ierr); 407 ierr = MatSetUp(C);CHKERRQ(ierr); 408 ierr = MatDenseGetLDA(B,&blda);CHKERRQ(ierr); 409 ierr = MatDenseGetLDA(C,&clda);CHKERRQ(ierr); 410 ierr = PetscNew(&contents);CHKERRQ(ierr); 411 412 ierr = VecScatterGetRemote_Private(ctx,PETSC_TRUE/*send*/,&nsends,&sstarts,&sindices,NULL,NULL);CHKERRQ(ierr); 413 ierr = VecScatterGetRemoteOrdered_Private(ctx,PETSC_FALSE/*recv*/,&nrecvs,&rstarts,NULL,NULL,NULL);CHKERRQ(ierr); 414 415 /* Create column block of B and C for memory scalability when BN is too large */ 416 /* Estimate Bbn, column size of Bb */ 417 if (nz) { 418 Bbn1 = 2*Am*BN/nz; 419 } else Bbn1 = BN; 420 421 bs = PetscAbs(B->cmap->bs); 422 Bbn1 = Bbn1/bs *bs; /* Bbn1 is a multiple of bs */ 423 if (Bbn1 > BN) Bbn1 = BN; 424 ierr = MPI_Allreduce(&Bbn1,&Bbn,1,MPIU_INT,MPI_MAX,comm);CHKERRQ(ierr); 425 426 /* Enable runtime option for Bbn */ 427 ierr = PetscOptionsBegin(comm,((PetscObject)C)->prefix,"MatMatMult","Mat");CHKERRQ(ierr); 428 ierr = PetscOptionsInt("-matmatmult_Bbn","Number of columns in Bb","MatMatMult",Bbn,&Bbn,NULL);CHKERRQ(ierr); 429 ierr = PetscOptionsEnd();CHKERRQ(ierr); 430 Bbn = PetscMin(Bbn,BN); 431 432 if (Bbn > 0 && Bbn < BN) { 433 numBb = BN/Bbn; 434 Bbn1 = BN - numBb*Bbn; 435 } else numBb = 0; 436 437 if (numBb) { 438 ierr = PetscInfo3(C,"use Bb, BN=%D, Bbn=%D; numBb=%D\n",BN,Bbn,numBb);CHKERRQ(ierr); 439 if (Bbn1) { /* Create workB1 for the remaining columns */ 440 ierr = PetscInfo2(C,"use Bb1, BN=%D, Bbn1=%D\n",BN,Bbn1);CHKERRQ(ierr); 441 /* Create work matrix used to store off processor rows of B needed for local product */ 442 ierr = MatCreateSeqDense(PETSC_COMM_SELF,nz,Bbn1,NULL,&contents->workB1);CHKERRQ(ierr); 443 } else contents->workB1 = NULL; 444 } 445 446 /* Create work matrix used to store off processor rows of B needed for local product */ 447 ierr = MatCreateSeqDense(PETSC_COMM_SELF,nz,Bbn,NULL,&contents->workB);CHKERRQ(ierr); 448 449 /* Use MPI derived data type to reduce memory required by the send/recv buffers */ 450 ierr = PetscMalloc4(nsends,&stype,nrecvs,&rtype,nrecvs,&contents->rwaits,nsends,&contents->swaits);CHKERRQ(ierr); 451 contents->stype = stype; 452 contents->nsends = nsends; 453 454 contents->rtype = rtype; 455 contents->nrecvs = nrecvs; 456 contents->blda = blda; 457 458 ierr = PetscMalloc1(Bm+1,&disp);CHKERRQ(ierr); 459 for (i=0; i<nsends; i++) { 460 nrows_to = sstarts[i+1]-sstarts[i]; 461 for (j=0; j<nrows_to; j++){ 462 disp[j] = sindices[sstarts[i]+j]; /* rowB to be sent */ 463 } 464 ierr = MPI_Type_create_indexed_block(nrows_to,1,(const PetscMPIInt *)disp,MPIU_SCALAR,&type1);CHKERRQ(ierr); 465 466 ierr = MPI_Type_create_resized(type1,0,blda*sizeof(PetscScalar),&stype[i]);CHKERRQ(ierr); 467 ierr = MPI_Type_commit(&stype[i]);CHKERRQ(ierr); 468 ierr = MPI_Type_free(&type1);CHKERRQ(ierr); 469 } 470 471 for (i=0; i<nrecvs; i++) { 472 /* received values from a process form a (nrows_from x Bbn) row block in workB (column-wise) */ 473 nrows_from = rstarts[i+1]-rstarts[i]; 474 disp[0] = 0; 475 ierr = MPI_Type_create_indexed_block(1, nrows_from, (const PetscMPIInt *)disp, MPIU_SCALAR, &type1);CHKERRQ(ierr); 476 ierr = MPI_Type_create_resized(type1, 0, nz*sizeof(PetscScalar), &rtype[i]);CHKERRQ(ierr); 477 ierr = MPI_Type_commit(&rtype[i]);CHKERRQ(ierr); 478 ierr = MPI_Type_free(&type1);CHKERRQ(ierr); 479 } 480 481 ierr = PetscFree(disp);CHKERRQ(ierr); 482 ierr = VecScatterRestoreRemote_Private(ctx,PETSC_TRUE/*send*/,&nsends,&sstarts,&sindices,NULL,NULL);CHKERRQ(ierr); 483 ierr = VecScatterRestoreRemoteOrdered_Private(ctx,PETSC_FALSE/*recv*/,&nrecvs,&rstarts,NULL,NULL,NULL);CHKERRQ(ierr); 484 ierr = MatSetOption(C,MAT_NO_OFF_PROC_ENTRIES,PETSC_TRUE);CHKERRQ(ierr); 485 ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 486 ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 487 488 C->product->data = contents; 489 C->product->destroy = MatMPIAIJ_MPIDenseDestroy; 490 C->ops->matmultnumeric = MatMatMultNumeric_MPIAIJ_MPIDense; 491 PetscFunctionReturn(0); 492 } 493 494 PETSC_INTERN PetscErrorCode MatMatMultNumericAdd_SeqAIJ_SeqDense(Mat,Mat,Mat,const PetscBool); 495 /* 496 Performs an efficient scatter on the rows of B needed by this process; this is 497 a modification of the VecScatterBegin_() routines. 498 499 Input: Bbidx = 0: B = Bb 500 = 1: B = Bb1, see MatMatMultSymbolic_MPIAIJ_MPIDense() 501 */ 502 PetscErrorCode MatMPIDenseScatter(Mat A,Mat B,PetscInt Bbidx,Mat C,Mat *outworkB) 503 { 504 Mat_MPIAIJ *aij = (Mat_MPIAIJ*)A->data; 505 PetscErrorCode ierr; 506 const PetscScalar *b; 507 PetscScalar *rvalues; 508 VecScatter ctx = aij->Mvctx; 509 const PetscInt *sindices,*sstarts,*rstarts; 510 const PetscMPIInt *sprocs,*rprocs; 511 PetscInt i,nsends,nrecvs; 512 MPI_Request *swaits,*rwaits; 513 MPI_Comm comm; 514 PetscMPIInt tag=((PetscObject)ctx)->tag,ncols=B->cmap->N,nrows=aij->B->cmap->n,nsends_mpi,nrecvs_mpi; 515 MPIAIJ_MPIDense *contents; 516 Mat workB; 517 MPI_Datatype *stype,*rtype; 518 PetscInt blda; 519 520 PetscFunctionBegin; 521 MatCheckProduct(C,4); 522 if (!C->product->data) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_PLIB,"Product data empty"); 523 contents = (MPIAIJ_MPIDense*)C->product->data; 524 ierr = VecScatterGetRemote_Private(ctx,PETSC_TRUE/*send*/,&nsends,&sstarts,&sindices,&sprocs,NULL/*bs*/);CHKERRQ(ierr); 525 ierr = VecScatterGetRemoteOrdered_Private(ctx,PETSC_FALSE/*recv*/,&nrecvs,&rstarts,NULL,&rprocs,NULL/*bs*/);CHKERRQ(ierr); 526 ierr = PetscMPIIntCast(nsends,&nsends_mpi);CHKERRQ(ierr); 527 ierr = PetscMPIIntCast(nrecvs,&nrecvs_mpi);CHKERRQ(ierr); 528 if (Bbidx == 0) { 529 workB = *outworkB = contents->workB; 530 } else { 531 workB = *outworkB = contents->workB1; 532 } 533 if (nrows != workB->rmap->n) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Number of rows of workB %D not equal to columns of aij->B %D",workB->cmap->n,nrows); 534 swaits = contents->swaits; 535 rwaits = contents->rwaits; 536 537 ierr = MatDenseGetArrayRead(B,&b);CHKERRQ(ierr); 538 ierr = MatDenseGetLDA(B,&blda);CHKERRQ(ierr); 539 if (blda != contents->blda) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Cannot reuse an input matrix with lda %D != %D",blda,contents->blda); 540 ierr = MatDenseGetArray(workB,&rvalues);CHKERRQ(ierr); 541 542 /* Post recv, use MPI derived data type to save memory */ 543 ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 544 rtype = contents->rtype; 545 for (i=0; i<nrecvs; i++) { 546 ierr = MPI_Irecv(rvalues+(rstarts[i]-rstarts[0]),ncols,rtype[i],rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 547 } 548 549 stype = contents->stype; 550 for (i=0; i<nsends; i++) { 551 ierr = MPI_Isend(b,ncols,stype[i],sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 552 } 553 554 if (nrecvs) {ierr = MPI_Waitall(nrecvs_mpi,rwaits,MPI_STATUSES_IGNORE);CHKERRQ(ierr);} 555 if (nsends) {ierr = MPI_Waitall(nsends_mpi,swaits,MPI_STATUSES_IGNORE);CHKERRQ(ierr);} 556 557 ierr = VecScatterRestoreRemote_Private(ctx,PETSC_TRUE/*send*/,&nsends,&sstarts,&sindices,&sprocs,NULL);CHKERRQ(ierr); 558 ierr = VecScatterRestoreRemoteOrdered_Private(ctx,PETSC_FALSE/*recv*/,&nrecvs,&rstarts,NULL,&rprocs,NULL);CHKERRQ(ierr); 559 ierr = MatDenseRestoreArrayRead(B,&b);CHKERRQ(ierr); 560 ierr = MatDenseRestoreArray(workB,&rvalues);CHKERRQ(ierr); 561 PetscFunctionReturn(0); 562 } 563 564 static PetscErrorCode MatMatMultNumeric_MPIAIJ_MPIDense(Mat A,Mat B,Mat C) 565 { 566 PetscErrorCode ierr; 567 Mat_MPIAIJ *aij = (Mat_MPIAIJ*)A->data; 568 Mat_MPIDense *bdense = (Mat_MPIDense*)B->data; 569 Mat_MPIDense *cdense = (Mat_MPIDense*)C->data; 570 Mat workB; 571 MPIAIJ_MPIDense *contents; 572 573 PetscFunctionBegin; 574 MatCheckProduct(C,3); 575 if (!C->product->data) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_PLIB,"Product data empty"); 576 contents = (MPIAIJ_MPIDense*)C->product->data; 577 /* diagonal block of A times all local rows of B */ 578 /* TODO: this calls a symbolic multiplication every time, which could be avoided */ 579 ierr = MatMatMult(aij->A,bdense->A,MAT_REUSE_MATRIX,PETSC_DEFAULT,&cdense->A);CHKERRQ(ierr); 580 if (contents->workB->cmap->n == B->cmap->N) { 581 /* get off processor parts of B needed to complete C=A*B */ 582 ierr = MatMPIDenseScatter(A,B,0,C,&workB);CHKERRQ(ierr); 583 584 /* off-diagonal block of A times nonlocal rows of B */ 585 ierr = MatMatMultNumericAdd_SeqAIJ_SeqDense(aij->B,workB,cdense->A,PETSC_TRUE);CHKERRQ(ierr); 586 } else { 587 Mat Bb,Cb; 588 PetscInt BN=B->cmap->N,n=contents->workB->cmap->n,i; 589 590 for (i=0; i<BN; i+=n) { 591 ierr = MatDenseGetSubMatrix(B,i,PetscMin(i+n,BN),&Bb);CHKERRQ(ierr); 592 ierr = MatDenseGetSubMatrix(C,i,PetscMin(i+n,BN),&Cb);CHKERRQ(ierr); 593 594 /* get off processor parts of B needed to complete C=A*B */ 595 ierr = MatMPIDenseScatter(A,Bb,i+n>BN,C,&workB);CHKERRQ(ierr); 596 597 /* off-diagonal block of A times nonlocal rows of B */ 598 cdense = (Mat_MPIDense*)Cb->data; 599 ierr = MatMatMultNumericAdd_SeqAIJ_SeqDense(aij->B,workB,cdense->A,PETSC_TRUE);CHKERRQ(ierr); 600 601 ierr = MatDenseRestoreSubMatrix(B,&Bb);CHKERRQ(ierr); 602 ierr = MatDenseRestoreSubMatrix(C,&Cb);CHKERRQ(ierr); 603 } 604 } 605 PetscFunctionReturn(0); 606 } 607 608 PetscErrorCode MatMatMultNumeric_MPIAIJ_MPIAIJ(Mat A,Mat P,Mat C) 609 { 610 PetscErrorCode ierr; 611 Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data,*c=(Mat_MPIAIJ*)C->data; 612 Mat_SeqAIJ *ad = (Mat_SeqAIJ*)(a->A)->data,*ao=(Mat_SeqAIJ*)(a->B)->data; 613 Mat_SeqAIJ *cd = (Mat_SeqAIJ*)(c->A)->data,*co=(Mat_SeqAIJ*)(c->B)->data; 614 PetscInt *adi = ad->i,*adj,*aoi=ao->i,*aoj; 615 PetscScalar *ada,*aoa,*cda=cd->a,*coa=co->a; 616 Mat_SeqAIJ *p_loc,*p_oth; 617 PetscInt *pi_loc,*pj_loc,*pi_oth,*pj_oth,*pj; 618 PetscScalar *pa_loc,*pa_oth,*pa,valtmp,*ca; 619 PetscInt cm = C->rmap->n,anz,pnz; 620 Mat_APMPI *ptap; 621 PetscScalar *apa_sparse; 622 PetscInt *api,*apj,*apJ,i,j,k,row; 623 PetscInt cstart = C->cmap->rstart; 624 PetscInt cdnz,conz,k0,k1,nextp; 625 MPI_Comm comm; 626 PetscMPIInt size; 627 628 PetscFunctionBegin; 629 MatCheckProduct(C,3); 630 ptap = (Mat_APMPI*)C->product->data; 631 if (!ptap) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtAP cannot be computed. Missing data"); 632 ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 633 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 634 if (!ptap->P_oth && size>1) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"AP cannot be reused. Do not call MatProductClear()"); 635 636 apa_sparse = ptap->apa; 637 638 /* 1) get P_oth = ptap->P_oth and P_loc = ptap->P_loc */ 639 /*-----------------------------------------------------*/ 640 /* update numerical values of P_oth and P_loc */ 641 ierr = MatGetBrowsOfAoCols_MPIAIJ(A,P,MAT_REUSE_MATRIX,&ptap->startsj_s,&ptap->startsj_r,&ptap->bufa,&ptap->P_oth);CHKERRQ(ierr); 642 ierr = MatMPIAIJGetLocalMat(P,MAT_REUSE_MATRIX,&ptap->P_loc);CHKERRQ(ierr); 643 644 /* 2) compute numeric C_loc = A_loc*P = Ad*P_loc + Ao*P_oth */ 645 /*----------------------------------------------------------*/ 646 /* get data from symbolic products */ 647 p_loc = (Mat_SeqAIJ*)(ptap->P_loc)->data; 648 pi_loc = p_loc->i; pj_loc = p_loc->j; pa_loc = p_loc->a; 649 if (size >1) { 650 p_oth = (Mat_SeqAIJ*)(ptap->P_oth)->data; 651 pi_oth = p_oth->i; pj_oth = p_oth->j; pa_oth = p_oth->a; 652 } else { 653 p_oth = NULL; pi_oth = NULL; pj_oth = NULL; pa_oth = NULL; 654 } 655 656 api = ptap->api; 657 apj = ptap->apj; 658 for (i=0; i<cm; i++) { 659 apJ = apj + api[i]; 660 661 /* diagonal portion of A */ 662 anz = adi[i+1] - adi[i]; 663 adj = ad->j + adi[i]; 664 ada = ad->a + adi[i]; 665 for (j=0; j<anz; j++) { 666 row = adj[j]; 667 pnz = pi_loc[row+1] - pi_loc[row]; 668 pj = pj_loc + pi_loc[row]; 669 pa = pa_loc + pi_loc[row]; 670 /* perform sparse axpy */ 671 valtmp = ada[j]; 672 nextp = 0; 673 for (k=0; nextp<pnz; k++) { 674 if (apJ[k] == pj[nextp]) { /* column of AP == column of P */ 675 apa_sparse[k] += valtmp*pa[nextp++]; 676 } 677 } 678 ierr = PetscLogFlops(2.0*pnz);CHKERRQ(ierr); 679 } 680 681 /* off-diagonal portion of A */ 682 anz = aoi[i+1] - aoi[i]; 683 aoj = ao->j + aoi[i]; 684 aoa = ao->a + aoi[i]; 685 for (j=0; j<anz; j++) { 686 row = aoj[j]; 687 pnz = pi_oth[row+1] - pi_oth[row]; 688 pj = pj_oth + pi_oth[row]; 689 pa = pa_oth + pi_oth[row]; 690 /* perform sparse axpy */ 691 valtmp = aoa[j]; 692 nextp = 0; 693 for (k=0; nextp<pnz; k++) { 694 if (apJ[k] == pj[nextp]) { /* column of AP == column of P */ 695 apa_sparse[k] += valtmp*pa[nextp++]; 696 } 697 } 698 ierr = PetscLogFlops(2.0*pnz);CHKERRQ(ierr); 699 } 700 701 /* set values in C */ 702 cdnz = cd->i[i+1] - cd->i[i]; 703 conz = co->i[i+1] - co->i[i]; 704 705 /* 1st off-diagonal part of C */ 706 ca = coa + co->i[i]; 707 k = 0; 708 for (k0=0; k0<conz; k0++) { 709 if (apJ[k] >= cstart) break; 710 ca[k0] = apa_sparse[k]; 711 apa_sparse[k] = 0.0; 712 k++; 713 } 714 715 /* diagonal part of C */ 716 ca = cda + cd->i[i]; 717 for (k1=0; k1<cdnz; k1++) { 718 ca[k1] = apa_sparse[k]; 719 apa_sparse[k] = 0.0; 720 k++; 721 } 722 723 /* 2nd off-diagonal part of C */ 724 ca = coa + co->i[i]; 725 for (; k0<conz; k0++) { 726 ca[k0] = apa_sparse[k]; 727 apa_sparse[k] = 0.0; 728 k++; 729 } 730 } 731 ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 732 ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 733 PetscFunctionReturn(0); 734 } 735 736 /* same as MatMatMultSymbolic_MPIAIJ_MPIAIJ_nonscalable(), except using LLCondensed to avoid O(BN) memory requirement */ 737 PetscErrorCode MatMatMultSymbolic_MPIAIJ_MPIAIJ(Mat A,Mat P,PetscReal fill,Mat C) 738 { 739 PetscErrorCode ierr; 740 MPI_Comm comm; 741 PetscMPIInt size; 742 Mat_APMPI *ptap; 743 PetscFreeSpaceList free_space = NULL,current_space=NULL; 744 Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 745 Mat_SeqAIJ *ad = (Mat_SeqAIJ*)(a->A)->data,*ao=(Mat_SeqAIJ*)(a->B)->data,*p_loc,*p_oth; 746 PetscInt *pi_loc,*pj_loc,*pi_oth,*pj_oth,*dnz,*onz; 747 PetscInt *adi=ad->i,*adj=ad->j,*aoi=ao->i,*aoj=ao->j,rstart=A->rmap->rstart; 748 PetscInt i,pnz,row,*api,*apj,*Jptr,apnz,nspacedouble=0,j,nzi,*lnk,apnz_max=0; 749 PetscInt am=A->rmap->n,pn=P->cmap->n,pm=P->rmap->n,lsize=pn+20; 750 PetscReal afill; 751 MatType mtype; 752 753 PetscFunctionBegin; 754 MatCheckProduct(C,4); 755 if (C->product->data) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Extra product struct not empty"); 756 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 757 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 758 759 /* create struct Mat_APMPI and attached it to C later */ 760 ierr = PetscNew(&ptap);CHKERRQ(ierr); 761 762 /* get P_oth by taking rows of P (= non-zero cols of local A) from other processors */ 763 ierr = MatGetBrowsOfAoCols_MPIAIJ(A,P,MAT_INITIAL_MATRIX,&ptap->startsj_s,&ptap->startsj_r,&ptap->bufa,&ptap->P_oth);CHKERRQ(ierr); 764 765 /* get P_loc by taking all local rows of P */ 766 ierr = MatMPIAIJGetLocalMat(P,MAT_INITIAL_MATRIX,&ptap->P_loc);CHKERRQ(ierr); 767 768 p_loc = (Mat_SeqAIJ*)(ptap->P_loc)->data; 769 pi_loc = p_loc->i; pj_loc = p_loc->j; 770 if (size > 1) { 771 p_oth = (Mat_SeqAIJ*)(ptap->P_oth)->data; 772 pi_oth = p_oth->i; pj_oth = p_oth->j; 773 } else { 774 p_oth = NULL; 775 pi_oth = NULL; pj_oth = NULL; 776 } 777 778 /* first, compute symbolic AP = A_loc*P = A_diag*P_loc + A_off*P_oth */ 779 /*-------------------------------------------------------------------*/ 780 ierr = PetscMalloc1(am+2,&api);CHKERRQ(ierr); 781 ptap->api = api; 782 api[0] = 0; 783 784 ierr = PetscLLCondensedCreate_Scalable(lsize,&lnk);CHKERRQ(ierr); 785 786 /* Initial FreeSpace size is fill*(nnz(A)+nnz(P)) */ 787 ierr = PetscFreeSpaceGet(PetscRealIntMultTruncate(fill,PetscIntSumTruncate(adi[am],PetscIntSumTruncate(aoi[am],pi_loc[pm]))),&free_space);CHKERRQ(ierr); 788 current_space = free_space; 789 ierr = MatPreallocateInitialize(comm,am,pn,dnz,onz);CHKERRQ(ierr); 790 for (i=0; i<am; i++) { 791 /* diagonal portion of A */ 792 nzi = adi[i+1] - adi[i]; 793 for (j=0; j<nzi; j++) { 794 row = *adj++; 795 pnz = pi_loc[row+1] - pi_loc[row]; 796 Jptr = pj_loc + pi_loc[row]; 797 /* Expand list if it is not long enough */ 798 if (pnz+apnz_max > lsize) { 799 lsize = pnz+apnz_max; 800 ierr = PetscLLCondensedExpand_Scalable(lsize, &lnk);CHKERRQ(ierr); 801 } 802 /* add non-zero cols of P into the sorted linked list lnk */ 803 ierr = PetscLLCondensedAddSorted_Scalable(pnz,Jptr,lnk);CHKERRQ(ierr); 804 apnz = *lnk; /* The first element in the list is the number of items in the list */ 805 api[i+1] = api[i] + apnz; 806 if (apnz > apnz_max) apnz_max = apnz; 807 } 808 /* off-diagonal portion of A */ 809 nzi = aoi[i+1] - aoi[i]; 810 for (j=0; j<nzi; j++) { 811 row = *aoj++; 812 pnz = pi_oth[row+1] - pi_oth[row]; 813 Jptr = pj_oth + pi_oth[row]; 814 /* Expand list if it is not long enough */ 815 if (pnz+apnz_max > lsize) { 816 lsize = pnz + apnz_max; 817 ierr = PetscLLCondensedExpand_Scalable(lsize, &lnk);CHKERRQ(ierr); 818 } 819 /* add non-zero cols of P into the sorted linked list lnk */ 820 ierr = PetscLLCondensedAddSorted_Scalable(pnz,Jptr,lnk);CHKERRQ(ierr); 821 apnz = *lnk; /* The first element in the list is the number of items in the list */ 822 api[i+1] = api[i] + apnz; 823 if (apnz > apnz_max) apnz_max = apnz; 824 } 825 apnz = *lnk; 826 api[i+1] = api[i] + apnz; 827 if (apnz > apnz_max) apnz_max = apnz; 828 829 /* if free space is not available, double the total space in the list */ 830 if (current_space->local_remaining<apnz) { 831 ierr = PetscFreeSpaceGet(PetscIntSumTruncate(apnz,current_space->total_array_size),¤t_space);CHKERRQ(ierr); 832 nspacedouble++; 833 } 834 835 /* Copy data into free space, then initialize lnk */ 836 ierr = PetscLLCondensedClean_Scalable(apnz,current_space->array,lnk);CHKERRQ(ierr); 837 ierr = MatPreallocateSet(i+rstart,apnz,current_space->array,dnz,onz);CHKERRQ(ierr); 838 839 current_space->array += apnz; 840 current_space->local_used += apnz; 841 current_space->local_remaining -= apnz; 842 } 843 844 /* Allocate space for apj, initialize apj, and */ 845 /* destroy list of free space and other temporary array(s) */ 846 ierr = PetscMalloc1(api[am]+1,&ptap->apj);CHKERRQ(ierr); 847 apj = ptap->apj; 848 ierr = PetscFreeSpaceContiguous(&free_space,ptap->apj);CHKERRQ(ierr); 849 ierr = PetscLLCondensedDestroy_Scalable(lnk);CHKERRQ(ierr); 850 851 /* create and assemble symbolic parallel matrix C */ 852 /*----------------------------------------------------*/ 853 ierr = MatSetSizes(C,am,pn,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 854 ierr = MatSetBlockSizesFromMats(C,A,P);CHKERRQ(ierr); 855 ierr = MatGetType(A,&mtype);CHKERRQ(ierr); 856 ierr = MatSetType(C,mtype);CHKERRQ(ierr); 857 ierr = MatMPIAIJSetPreallocation(C,0,dnz,0,onz);CHKERRQ(ierr); 858 859 /* malloc apa for assembly C */ 860 ierr = PetscCalloc1(apnz_max,&ptap->apa);CHKERRQ(ierr); 861 862 ierr = MatSetValues_MPIAIJ_CopyFromCSRFormat_Symbolic(C, apj, api);CHKERRQ(ierr); 863 ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 864 ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 865 ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 866 867 C->ops->matmultnumeric = MatMatMultNumeric_MPIAIJ_MPIAIJ; 868 C->ops->productnumeric = MatProductNumeric_AB; 869 870 /* attach the supporting struct to C for reuse */ 871 C->product->data = ptap; 872 C->product->destroy = MatDestroy_MPIAIJ_MatMatMult; 873 874 /* set MatInfo */ 875 afill = (PetscReal)api[am]/(adi[am]+aoi[am]+pi_loc[pm]+1) + 1.e-5; 876 if (afill < 1.0) afill = 1.0; 877 C->info.mallocs = nspacedouble; 878 C->info.fill_ratio_given = fill; 879 C->info.fill_ratio_needed = afill; 880 881 #if defined(PETSC_USE_INFO) 882 if (api[am]) { 883 ierr = PetscInfo3(C,"Reallocs %D; Fill ratio: given %g needed %g.\n",nspacedouble,(double)fill,(double)afill);CHKERRQ(ierr); 884 ierr = PetscInfo1(C,"Use MatMatMult(A,B,MatReuse,%g,&C) for best performance.;\n",(double)afill);CHKERRQ(ierr); 885 } else { 886 ierr = PetscInfo(C,"Empty matrix product\n");CHKERRQ(ierr); 887 } 888 #endif 889 PetscFunctionReturn(0); 890 } 891 892 /* This function is needed for the seqMPI matrix-matrix multiplication. */ 893 /* Three input arrays are merged to one output array. The size of the */ 894 /* output array is also output. Duplicate entries only show up once. */ 895 static void Merge3SortedArrays(PetscInt size1, PetscInt *in1, 896 PetscInt size2, PetscInt *in2, 897 PetscInt size3, PetscInt *in3, 898 PetscInt *size4, PetscInt *out) 899 { 900 int i = 0, j = 0, k = 0, l = 0; 901 902 /* Traverse all three arrays */ 903 while (i<size1 && j<size2 && k<size3) { 904 if (in1[i] < in2[j] && in1[i] < in3[k]) { 905 out[l++] = in1[i++]; 906 } 907 else if (in2[j] < in1[i] && in2[j] < in3[k]) { 908 out[l++] = in2[j++]; 909 } 910 else if (in3[k] < in1[i] && in3[k] < in2[j]) { 911 out[l++] = in3[k++]; 912 } 913 else if (in1[i] == in2[j] && in1[i] < in3[k]) { 914 out[l++] = in1[i]; 915 i++, j++; 916 } 917 else if (in1[i] == in3[k] && in1[i] < in2[j]) { 918 out[l++] = in1[i]; 919 i++, k++; 920 } 921 else if (in3[k] == in2[j] && in2[j] < in1[i]) { 922 out[l++] = in2[j]; 923 k++, j++; 924 } 925 else if (in1[i] == in2[j] && in1[i] == in3[k]) { 926 out[l++] = in1[i]; 927 i++, j++, k++; 928 } 929 } 930 931 /* Traverse two remaining arrays */ 932 while (i<size1 && j<size2) { 933 if (in1[i] < in2[j]) { 934 out[l++] = in1[i++]; 935 } 936 else if (in1[i] > in2[j]) { 937 out[l++] = in2[j++]; 938 } 939 else { 940 out[l++] = in1[i]; 941 i++, j++; 942 } 943 } 944 945 while (i<size1 && k<size3) { 946 if (in1[i] < in3[k]) { 947 out[l++] = in1[i++]; 948 } 949 else if (in1[i] > in3[k]) { 950 out[l++] = in3[k++]; 951 } 952 else { 953 out[l++] = in1[i]; 954 i++, k++; 955 } 956 } 957 958 while (k<size3 && j<size2) { 959 if (in3[k] < in2[j]) { 960 out[l++] = in3[k++]; 961 } 962 else if (in3[k] > in2[j]) { 963 out[l++] = in2[j++]; 964 } 965 else { 966 out[l++] = in3[k]; 967 k++, j++; 968 } 969 } 970 971 /* Traverse one remaining array */ 972 while (i<size1) out[l++] = in1[i++]; 973 while (j<size2) out[l++] = in2[j++]; 974 while (k<size3) out[l++] = in3[k++]; 975 976 *size4 = l; 977 } 978 979 /* This matrix-matrix multiplication algorithm divides the multiplication into three multiplications and */ 980 /* adds up the products. Two of these three multiplications are performed with existing (sequential) */ 981 /* matrix-matrix multiplications. */ 982 PetscErrorCode MatMatMultSymbolic_MPIAIJ_MPIAIJ_seqMPI(Mat A, Mat P, PetscReal fill, Mat C) 983 { 984 PetscErrorCode ierr; 985 MPI_Comm comm; 986 PetscMPIInt size; 987 Mat_APMPI *ptap; 988 PetscFreeSpaceList free_space_diag=NULL, current_space=NULL; 989 Mat_MPIAIJ *a =(Mat_MPIAIJ*)A->data; 990 Mat_SeqAIJ *ad =(Mat_SeqAIJ*)(a->A)->data,*ao=(Mat_SeqAIJ*)(a->B)->data,*p_loc; 991 Mat_MPIAIJ *p =(Mat_MPIAIJ*)P->data; 992 Mat_SeqAIJ *adpd_seq, *p_off, *aopoth_seq; 993 PetscInt adponz, adpdnz; 994 PetscInt *pi_loc,*dnz,*onz; 995 PetscInt *adi=ad->i,*adj=ad->j,*aoi=ao->i,rstart=A->rmap->rstart; 996 PetscInt *lnk,i, i1=0,pnz,row,*adpoi,*adpoj, *api, *adpoJ, *aopJ, *apJ,*Jptr, aopnz, nspacedouble=0,j,nzi, 997 *apj,apnz, *adpdi, *adpdj, *adpdJ, *poff_i, *poff_j, *j_temp, *aopothi, *aopothj; 998 PetscInt am=A->rmap->n,pN=P->cmap->N,pn=P->cmap->n,pm=P->rmap->n, p_colstart, p_colend; 999 PetscBT lnkbt; 1000 PetscReal afill; 1001 PetscMPIInt rank; 1002 Mat adpd, aopoth; 1003 MatType mtype; 1004 const char *prefix; 1005 1006 PetscFunctionBegin; 1007 MatCheckProduct(C,4); 1008 if (C->product->data) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Extra product struct not empty"); 1009 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 1010 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 1011 ierr = MPI_Comm_rank(comm, &rank);CHKERRQ(ierr); 1012 ierr = MatGetOwnershipRangeColumn(P, &p_colstart, &p_colend);CHKERRQ(ierr); 1013 1014 /* create struct Mat_APMPI and attached it to C later */ 1015 ierr = PetscNew(&ptap);CHKERRQ(ierr); 1016 1017 /* get P_oth by taking rows of P (= non-zero cols of local A) from other processors */ 1018 ierr = MatGetBrowsOfAoCols_MPIAIJ(A,P,MAT_INITIAL_MATRIX,&ptap->startsj_s,&ptap->startsj_r,&ptap->bufa,&ptap->P_oth);CHKERRQ(ierr); 1019 1020 /* get P_loc by taking all local rows of P */ 1021 ierr = MatMPIAIJGetLocalMat(P,MAT_INITIAL_MATRIX,&ptap->P_loc);CHKERRQ(ierr); 1022 1023 1024 p_loc = (Mat_SeqAIJ*)(ptap->P_loc)->data; 1025 pi_loc = p_loc->i; 1026 1027 /* Allocate memory for the i arrays of the matrices A*P, A_diag*P_off and A_offd * P */ 1028 ierr = PetscMalloc1(am+2,&api);CHKERRQ(ierr); 1029 ierr = PetscMalloc1(am+2,&adpoi);CHKERRQ(ierr); 1030 1031 adpoi[0] = 0; 1032 ptap->api = api; 1033 api[0] = 0; 1034 1035 /* create and initialize a linked list, will be used for both A_diag * P_loc_off and A_offd * P_oth */ 1036 ierr = PetscLLCondensedCreate(pN,pN,&lnk,&lnkbt);CHKERRQ(ierr); 1037 ierr = MatPreallocateInitialize(comm,am,pn,dnz,onz);CHKERRQ(ierr); 1038 1039 /* Symbolic calc of A_loc_diag * P_loc_diag */ 1040 ierr = MatGetOptionsPrefix(A,&prefix);CHKERRQ(ierr); 1041 ierr = MatProductCreate(a->A,p->A,NULL,&adpd);CHKERRQ(ierr); 1042 ierr = MatGetOptionsPrefix(A,&prefix);CHKERRQ(ierr); 1043 ierr = MatSetOptionsPrefix(adpd,prefix);CHKERRQ(ierr); 1044 ierr = MatAppendOptionsPrefix(adpd,"inner_diag_");CHKERRQ(ierr); 1045 1046 ierr = MatProductSetType(adpd,MATPRODUCT_AB);CHKERRQ(ierr); 1047 ierr = MatProductSetAlgorithm(adpd,"sorted");CHKERRQ(ierr); 1048 ierr = MatProductSetFill(adpd,fill);CHKERRQ(ierr); 1049 ierr = MatProductSetFromOptions(adpd);CHKERRQ(ierr); 1050 ierr = MatProductSymbolic(adpd);CHKERRQ(ierr); 1051 1052 adpd_seq = (Mat_SeqAIJ*)((adpd)->data); 1053 adpdi = adpd_seq->i; adpdj = adpd_seq->j; 1054 p_off = (Mat_SeqAIJ*)((p->B)->data); 1055 poff_i = p_off->i; poff_j = p_off->j; 1056 1057 /* j_temp stores indices of a result row before they are added to the linked list */ 1058 ierr = PetscMalloc1(pN+2,&j_temp);CHKERRQ(ierr); 1059 1060 1061 /* Symbolic calc of the A_diag * p_loc_off */ 1062 /* Initial FreeSpace size is fill*(nnz(A)+nnz(P)) */ 1063 ierr = PetscFreeSpaceGet(PetscRealIntMultTruncate(fill,PetscIntSumTruncate(adi[am],PetscIntSumTruncate(aoi[am],pi_loc[pm]))),&free_space_diag);CHKERRQ(ierr); 1064 current_space = free_space_diag; 1065 1066 for (i=0; i<am; i++) { 1067 /* A_diag * P_loc_off */ 1068 nzi = adi[i+1] - adi[i]; 1069 for (j=0; j<nzi; j++) { 1070 row = *adj++; 1071 pnz = poff_i[row+1] - poff_i[row]; 1072 Jptr = poff_j + poff_i[row]; 1073 for (i1 = 0; i1 < pnz; i1++) { 1074 j_temp[i1] = p->garray[Jptr[i1]]; 1075 } 1076 /* add non-zero cols of P into the sorted linked list lnk */ 1077 ierr = PetscLLCondensedAddSorted(pnz,j_temp,lnk,lnkbt);CHKERRQ(ierr); 1078 } 1079 1080 adponz = lnk[0]; 1081 adpoi[i+1] = adpoi[i] + adponz; 1082 1083 /* if free space is not available, double the total space in the list */ 1084 if (current_space->local_remaining<adponz) { 1085 ierr = PetscFreeSpaceGet(PetscIntSumTruncate(adponz,current_space->total_array_size),¤t_space);CHKERRQ(ierr); 1086 nspacedouble++; 1087 } 1088 1089 /* Copy data into free space, then initialize lnk */ 1090 ierr = PetscLLCondensedClean(pN,adponz,current_space->array,lnk,lnkbt);CHKERRQ(ierr); 1091 1092 current_space->array += adponz; 1093 current_space->local_used += adponz; 1094 current_space->local_remaining -= adponz; 1095 } 1096 1097 /* Symbolic calc of A_off * P_oth */ 1098 ierr = MatSetOptionsPrefix(a->B,prefix);CHKERRQ(ierr); 1099 ierr = MatAppendOptionsPrefix(a->B,"inner_offdiag_");CHKERRQ(ierr); 1100 ierr = MatCreate(PETSC_COMM_SELF,&aopoth);CHKERRQ(ierr); 1101 ierr = MatMatMultSymbolic_SeqAIJ_SeqAIJ(a->B, ptap->P_oth, fill, aopoth);CHKERRQ(ierr); 1102 aopoth_seq = (Mat_SeqAIJ*)((aopoth)->data); 1103 aopothi = aopoth_seq->i; aopothj = aopoth_seq->j; 1104 1105 /* Allocate space for apj, adpj, aopj, ... */ 1106 /* destroy lists of free space and other temporary array(s) */ 1107 1108 ierr = PetscMalloc1(aopothi[am] + adpoi[am] + adpdi[am]+2, &ptap->apj);CHKERRQ(ierr); 1109 ierr = PetscMalloc1(adpoi[am]+2, &adpoj);CHKERRQ(ierr); 1110 1111 /* Copy from linked list to j-array */ 1112 ierr = PetscFreeSpaceContiguous(&free_space_diag,adpoj);CHKERRQ(ierr); 1113 ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 1114 1115 adpoJ = adpoj; 1116 adpdJ = adpdj; 1117 aopJ = aopothj; 1118 apj = ptap->apj; 1119 apJ = apj; /* still empty */ 1120 1121 /* Merge j-arrays of A_off * P, A_diag * P_loc_off, and */ 1122 /* A_diag * P_loc_diag to get A*P */ 1123 for (i = 0; i < am; i++) { 1124 aopnz = aopothi[i+1] - aopothi[i]; 1125 adponz = adpoi[i+1] - adpoi[i]; 1126 adpdnz = adpdi[i+1] - adpdi[i]; 1127 1128 /* Correct indices from A_diag*P_diag */ 1129 for (i1 = 0; i1 < adpdnz; i1++) { 1130 adpdJ[i1] += p_colstart; 1131 } 1132 /* Merge j-arrays of A_diag * P_loc_off and A_diag * P_loc_diag and A_off * P_oth */ 1133 Merge3SortedArrays(adponz, adpoJ, adpdnz, adpdJ, aopnz, aopJ, &apnz, apJ); 1134 ierr = MatPreallocateSet(i+rstart, apnz, apJ, dnz, onz);CHKERRQ(ierr); 1135 1136 aopJ += aopnz; 1137 adpoJ += adponz; 1138 adpdJ += adpdnz; 1139 apJ += apnz; 1140 api[i+1] = api[i] + apnz; 1141 } 1142 1143 /* malloc apa to store dense row A[i,:]*P */ 1144 ierr = PetscCalloc1(pN+2,&ptap->apa);CHKERRQ(ierr); 1145 1146 /* create and assemble symbolic parallel matrix C */ 1147 ierr = MatSetSizes(C,am,pn,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 1148 ierr = MatSetBlockSizesFromMats(C,A,P);CHKERRQ(ierr); 1149 ierr = MatGetType(A,&mtype);CHKERRQ(ierr); 1150 ierr = MatSetType(C,mtype);CHKERRQ(ierr); 1151 ierr = MatMPIAIJSetPreallocation(C,0,dnz,0,onz);CHKERRQ(ierr); 1152 1153 1154 ierr = MatSetValues_MPIAIJ_CopyFromCSRFormat_Symbolic(C, apj, api);CHKERRQ(ierr); 1155 ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1156 ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1157 ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 1158 1159 1160 C->ops->matmultnumeric = MatMatMultNumeric_MPIAIJ_MPIAIJ_nonscalable; 1161 C->ops->productnumeric = MatProductNumeric_AB; 1162 1163 /* attach the supporting struct to C for reuse */ 1164 C->product->data = ptap; 1165 C->product->destroy = MatDestroy_MPIAIJ_MatMatMult; 1166 1167 /* set MatInfo */ 1168 afill = (PetscReal)api[am]/(adi[am]+aoi[am]+pi_loc[pm]+1) + 1.e-5; 1169 if (afill < 1.0) afill = 1.0; 1170 C->info.mallocs = nspacedouble; 1171 C->info.fill_ratio_given = fill; 1172 C->info.fill_ratio_needed = afill; 1173 1174 #if defined(PETSC_USE_INFO) 1175 if (api[am]) { 1176 ierr = PetscInfo3(C,"Reallocs %D; Fill ratio: given %g needed %g.\n",nspacedouble,(double)fill,(double)afill);CHKERRQ(ierr); 1177 ierr = PetscInfo1(C,"Use MatMatMult(A,B,MatReuse,%g,&C) for best performance.;\n",(double)afill);CHKERRQ(ierr); 1178 } else { 1179 ierr = PetscInfo(C,"Empty matrix product\n");CHKERRQ(ierr); 1180 } 1181 #endif 1182 1183 ierr = MatDestroy(&aopoth);CHKERRQ(ierr); 1184 ierr = MatDestroy(&adpd);CHKERRQ(ierr); 1185 ierr = PetscFree(j_temp);CHKERRQ(ierr); 1186 ierr = PetscFree(adpoj);CHKERRQ(ierr); 1187 ierr = PetscFree(adpoi);CHKERRQ(ierr); 1188 PetscFunctionReturn(0); 1189 } 1190 1191 /*-------------------------------------------------------------------------*/ 1192 /* This routine only works when scall=MAT_REUSE_MATRIX! */ 1193 PetscErrorCode MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ_matmatmult(Mat P,Mat A,Mat C) 1194 { 1195 PetscErrorCode ierr; 1196 Mat_APMPI *ptap; 1197 Mat Pt; 1198 1199 PetscFunctionBegin; 1200 MatCheckProduct(C,3); 1201 ptap = (Mat_APMPI*)C->product->data; 1202 if (!ptap) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtAP cannot be computed. Missing data"); 1203 if (!ptap->Pt) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtA cannot be reused. Do not call MatProductClear()"); 1204 1205 Pt = ptap->Pt; 1206 ierr = MatTranspose(P,MAT_REUSE_MATRIX,&Pt);CHKERRQ(ierr); 1207 ierr = MatMatMultNumeric_MPIAIJ_MPIAIJ(Pt,A,C);CHKERRQ(ierr); 1208 PetscFunctionReturn(0); 1209 } 1210 1211 /* This routine is modified from MatPtAPSymbolic_MPIAIJ_MPIAIJ() */ 1212 PetscErrorCode MatTransposeMatMultSymbolic_MPIAIJ_MPIAIJ_nonscalable(Mat P,Mat A,PetscReal fill,Mat C) 1213 { 1214 PetscErrorCode ierr; 1215 Mat_APMPI *ptap; 1216 Mat_MPIAIJ *p=(Mat_MPIAIJ*)P->data; 1217 MPI_Comm comm; 1218 PetscMPIInt size,rank; 1219 PetscFreeSpaceList free_space=NULL,current_space=NULL; 1220 PetscInt pn=P->cmap->n,aN=A->cmap->N,an=A->cmap->n; 1221 PetscInt *lnk,i,k,nsend; 1222 PetscBT lnkbt; 1223 PetscMPIInt tagi,tagj,*len_si,*len_s,*len_ri,icompleted=0,nrecv; 1224 PetscInt **buf_rj,**buf_ri,**buf_ri_k; 1225 PetscInt len,proc,*dnz,*onz,*owners,nzi; 1226 PetscInt nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextci; 1227 MPI_Request *swaits,*rwaits; 1228 MPI_Status *sstatus,rstatus; 1229 PetscLayout rowmap; 1230 PetscInt *owners_co,*coi,*coj; /* i and j array of (p->B)^T*A*P - used in the communication */ 1231 PetscMPIInt *len_r,*id_r; /* array of length of comm->size, store send/recv matrix values */ 1232 PetscInt *Jptr,*prmap=p->garray,con,j,Crmax; 1233 Mat_SeqAIJ *a_loc,*c_loc,*c_oth; 1234 PetscTable ta; 1235 MatType mtype; 1236 const char *prefix; 1237 1238 PetscFunctionBegin; 1239 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 1240 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 1241 ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 1242 1243 /* create symbolic parallel matrix C */ 1244 ierr = MatGetType(A,&mtype);CHKERRQ(ierr); 1245 ierr = MatSetType(C,mtype);CHKERRQ(ierr); 1246 1247 C->ops->transposematmultnumeric = MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ_nonscalable; 1248 1249 /* create struct Mat_APMPI and attached it to C later */ 1250 ierr = PetscNew(&ptap);CHKERRQ(ierr); 1251 ptap->reuse = MAT_INITIAL_MATRIX; 1252 1253 /* (0) compute Rd = Pd^T, Ro = Po^T */ 1254 /* --------------------------------- */ 1255 ierr = MatTranspose_SeqAIJ(p->A,MAT_INITIAL_MATRIX,&ptap->Rd);CHKERRQ(ierr); 1256 ierr = MatTranspose_SeqAIJ(p->B,MAT_INITIAL_MATRIX,&ptap->Ro);CHKERRQ(ierr); 1257 1258 /* (1) compute symbolic A_loc */ 1259 /* ---------------------------*/ 1260 ierr = MatMPIAIJGetLocalMat(A,MAT_INITIAL_MATRIX,&ptap->A_loc);CHKERRQ(ierr); 1261 1262 /* (2-1) compute symbolic C_oth = Ro*A_loc */ 1263 /* ------------------------------------ */ 1264 ierr = MatGetOptionsPrefix(A,&prefix);CHKERRQ(ierr); 1265 ierr = MatSetOptionsPrefix(ptap->Ro,prefix);CHKERRQ(ierr); 1266 ierr = MatAppendOptionsPrefix(ptap->Ro,"inner_offdiag_");CHKERRQ(ierr); 1267 ierr = MatCreate(PETSC_COMM_SELF,&ptap->C_oth);CHKERRQ(ierr); 1268 ierr = MatMatMultSymbolic_SeqAIJ_SeqAIJ(ptap->Ro,ptap->A_loc,fill,ptap->C_oth);CHKERRQ(ierr); 1269 1270 /* (3) send coj of C_oth to other processors */ 1271 /* ------------------------------------------ */ 1272 /* determine row ownership */ 1273 ierr = PetscLayoutCreate(comm,&rowmap);CHKERRQ(ierr); 1274 rowmap->n = pn; 1275 rowmap->bs = 1; 1276 ierr = PetscLayoutSetUp(rowmap);CHKERRQ(ierr); 1277 owners = rowmap->range; 1278 1279 /* determine the number of messages to send, their lengths */ 1280 ierr = PetscMalloc4(size,&len_s,size,&len_si,size,&sstatus,size+2,&owners_co);CHKERRQ(ierr); 1281 ierr = PetscArrayzero(len_s,size);CHKERRQ(ierr); 1282 ierr = PetscArrayzero(len_si,size);CHKERRQ(ierr); 1283 1284 c_oth = (Mat_SeqAIJ*)ptap->C_oth->data; 1285 coi = c_oth->i; coj = c_oth->j; 1286 con = ptap->C_oth->rmap->n; 1287 proc = 0; 1288 for (i=0; i<con; i++) { 1289 while (prmap[i] >= owners[proc+1]) proc++; 1290 len_si[proc]++; /* num of rows in Co(=Pt*A) to be sent to [proc] */ 1291 len_s[proc] += coi[i+1] - coi[i]; /* num of nonzeros in Co to be sent to [proc] */ 1292 } 1293 1294 len = 0; /* max length of buf_si[], see (4) */ 1295 owners_co[0] = 0; 1296 nsend = 0; 1297 for (proc=0; proc<size; proc++) { 1298 owners_co[proc+1] = owners_co[proc] + len_si[proc]; 1299 if (len_s[proc]) { 1300 nsend++; 1301 len_si[proc] = 2*(len_si[proc] + 1); /* length of buf_si to be sent to [proc] */ 1302 len += len_si[proc]; 1303 } 1304 } 1305 1306 /* determine the number and length of messages to receive for coi and coj */ 1307 ierr = PetscGatherNumberOfMessages(comm,NULL,len_s,&nrecv);CHKERRQ(ierr); 1308 ierr = PetscGatherMessageLengths2(comm,nsend,nrecv,len_s,len_si,&id_r,&len_r,&len_ri);CHKERRQ(ierr); 1309 1310 /* post the Irecv and Isend of coj */ 1311 ierr = PetscCommGetNewTag(comm,&tagj);CHKERRQ(ierr); 1312 ierr = PetscPostIrecvInt(comm,tagj,nrecv,id_r,len_r,&buf_rj,&rwaits);CHKERRQ(ierr); 1313 ierr = PetscMalloc1(nsend+1,&swaits);CHKERRQ(ierr); 1314 for (proc=0, k=0; proc<size; proc++) { 1315 if (!len_s[proc]) continue; 1316 i = owners_co[proc]; 1317 ierr = MPI_Isend(coj+coi[i],len_s[proc],MPIU_INT,proc,tagj,comm,swaits+k);CHKERRQ(ierr); 1318 k++; 1319 } 1320 1321 /* (2-2) compute symbolic C_loc = Rd*A_loc */ 1322 /* ---------------------------------------- */ 1323 ierr = MatSetOptionsPrefix(ptap->Rd,prefix);CHKERRQ(ierr); 1324 ierr = MatAppendOptionsPrefix(ptap->Rd,"inner_diag_");CHKERRQ(ierr); 1325 ierr = MatCreate(PETSC_COMM_SELF,&ptap->C_loc);CHKERRQ(ierr); 1326 ierr = MatMatMultSymbolic_SeqAIJ_SeqAIJ(ptap->Rd,ptap->A_loc,fill,ptap->C_loc);CHKERRQ(ierr); 1327 c_loc = (Mat_SeqAIJ*)ptap->C_loc->data; 1328 1329 /* receives coj are complete */ 1330 for (i=0; i<nrecv; i++) { 1331 ierr = MPI_Waitany(nrecv,rwaits,&icompleted,&rstatus);CHKERRQ(ierr); 1332 } 1333 ierr = PetscFree(rwaits);CHKERRQ(ierr); 1334 if (nsend) {ierr = MPI_Waitall(nsend,swaits,sstatus);CHKERRQ(ierr);} 1335 1336 /* add received column indices into ta to update Crmax */ 1337 a_loc = (Mat_SeqAIJ*)(ptap->A_loc)->data; 1338 1339 /* create and initialize a linked list */ 1340 ierr = PetscTableCreate(an,aN,&ta);CHKERRQ(ierr); /* for compute Crmax */ 1341 MatRowMergeMax_SeqAIJ(a_loc,ptap->A_loc->rmap->N,ta); 1342 1343 for (k=0; k<nrecv; k++) {/* k-th received message */ 1344 Jptr = buf_rj[k]; 1345 for (j=0; j<len_r[k]; j++) { 1346 ierr = PetscTableAdd(ta,*(Jptr+j)+1,1,INSERT_VALUES);CHKERRQ(ierr); 1347 } 1348 } 1349 ierr = PetscTableGetCount(ta,&Crmax);CHKERRQ(ierr); 1350 ierr = PetscTableDestroy(&ta);CHKERRQ(ierr); 1351 1352 /* (4) send and recv coi */ 1353 /*-----------------------*/ 1354 ierr = PetscCommGetNewTag(comm,&tagi);CHKERRQ(ierr); 1355 ierr = PetscPostIrecvInt(comm,tagi,nrecv,id_r,len_ri,&buf_ri,&rwaits);CHKERRQ(ierr); 1356 ierr = PetscMalloc1(len+1,&buf_s);CHKERRQ(ierr); 1357 buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 1358 for (proc=0,k=0; proc<size; proc++) { 1359 if (!len_s[proc]) continue; 1360 /* form outgoing message for i-structure: 1361 buf_si[0]: nrows to be sent 1362 [1:nrows]: row index (global) 1363 [nrows+1:2*nrows+1]: i-structure index 1364 */ 1365 /*-------------------------------------------*/ 1366 nrows = len_si[proc]/2 - 1; /* num of rows in Co to be sent to [proc] */ 1367 buf_si_i = buf_si + nrows+1; 1368 buf_si[0] = nrows; 1369 buf_si_i[0] = 0; 1370 nrows = 0; 1371 for (i=owners_co[proc]; i<owners_co[proc+1]; i++) { 1372 nzi = coi[i+1] - coi[i]; 1373 buf_si_i[nrows+1] = buf_si_i[nrows] + nzi; /* i-structure */ 1374 buf_si[nrows+1] = prmap[i] -owners[proc]; /* local row index */ 1375 nrows++; 1376 } 1377 ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,swaits+k);CHKERRQ(ierr); 1378 k++; 1379 buf_si += len_si[proc]; 1380 } 1381 for (i=0; i<nrecv; i++) { 1382 ierr = MPI_Waitany(nrecv,rwaits,&icompleted,&rstatus);CHKERRQ(ierr); 1383 } 1384 ierr = PetscFree(rwaits);CHKERRQ(ierr); 1385 if (nsend) {ierr = MPI_Waitall(nsend,swaits,sstatus);CHKERRQ(ierr);} 1386 1387 ierr = PetscFree4(len_s,len_si,sstatus,owners_co);CHKERRQ(ierr); 1388 ierr = PetscFree(len_ri);CHKERRQ(ierr); 1389 ierr = PetscFree(swaits);CHKERRQ(ierr); 1390 ierr = PetscFree(buf_s);CHKERRQ(ierr); 1391 1392 /* (5) compute the local portion of C */ 1393 /* ------------------------------------------ */ 1394 /* set initial free space to be Crmax, sufficient for holding nozeros in each row of C */ 1395 ierr = PetscFreeSpaceGet(Crmax,&free_space);CHKERRQ(ierr); 1396 current_space = free_space; 1397 1398 ierr = PetscMalloc3(nrecv,&buf_ri_k,nrecv,&nextrow,nrecv,&nextci);CHKERRQ(ierr); 1399 for (k=0; k<nrecv; k++) { 1400 buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 1401 nrows = *buf_ri_k[k]; 1402 nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 1403 nextci[k] = buf_ri_k[k] + (nrows + 1); /* poins to the next i-structure of k-th recved i-structure */ 1404 } 1405 1406 ierr = MatPreallocateInitialize(comm,pn,an,dnz,onz);CHKERRQ(ierr); 1407 ierr = PetscLLCondensedCreate(Crmax,aN,&lnk,&lnkbt);CHKERRQ(ierr); 1408 for (i=0; i<pn; i++) { 1409 /* add C_loc into C */ 1410 nzi = c_loc->i[i+1] - c_loc->i[i]; 1411 Jptr = c_loc->j + c_loc->i[i]; 1412 ierr = PetscLLCondensedAddSorted(nzi,Jptr,lnk,lnkbt);CHKERRQ(ierr); 1413 1414 /* add received col data into lnk */ 1415 for (k=0; k<nrecv; k++) { /* k-th received message */ 1416 if (i == *nextrow[k]) { /* i-th row */ 1417 nzi = *(nextci[k]+1) - *nextci[k]; 1418 Jptr = buf_rj[k] + *nextci[k]; 1419 ierr = PetscLLCondensedAddSorted(nzi,Jptr,lnk,lnkbt);CHKERRQ(ierr); 1420 nextrow[k]++; nextci[k]++; 1421 } 1422 } 1423 nzi = lnk[0]; 1424 1425 /* copy data into free space, then initialize lnk */ 1426 ierr = PetscLLCondensedClean(aN,nzi,current_space->array,lnk,lnkbt);CHKERRQ(ierr); 1427 ierr = MatPreallocateSet(i+owners[rank],nzi,current_space->array,dnz,onz);CHKERRQ(ierr); 1428 } 1429 ierr = PetscFree3(buf_ri_k,nextrow,nextci);CHKERRQ(ierr); 1430 ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 1431 ierr = PetscFreeSpaceDestroy(free_space);CHKERRQ(ierr); 1432 1433 /* local sizes and preallocation */ 1434 ierr = MatSetSizes(C,pn,an,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 1435 if (P->cmap->bs > 0) {ierr = PetscLayoutSetBlockSize(C->rmap,P->cmap->bs);CHKERRQ(ierr);} 1436 if (A->cmap->bs > 0) {ierr = PetscLayoutSetBlockSize(C->cmap,A->cmap->bs);CHKERRQ(ierr);} 1437 ierr = MatMPIAIJSetPreallocation(C,0,dnz,0,onz);CHKERRQ(ierr); 1438 ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 1439 1440 /* members in merge */ 1441 ierr = PetscFree(id_r);CHKERRQ(ierr); 1442 ierr = PetscFree(len_r);CHKERRQ(ierr); 1443 ierr = PetscFree(buf_ri[0]);CHKERRQ(ierr); 1444 ierr = PetscFree(buf_ri);CHKERRQ(ierr); 1445 ierr = PetscFree(buf_rj[0]);CHKERRQ(ierr); 1446 ierr = PetscFree(buf_rj);CHKERRQ(ierr); 1447 ierr = PetscLayoutDestroy(&rowmap);CHKERRQ(ierr); 1448 1449 /* attach the supporting struct to C for reuse */ 1450 C->product->data = ptap; 1451 C->product->destroy = MatDestroy_MPIAIJ_PtAP; 1452 1453 /* C is not ready for use - assembly will be done by MatPtAPNumeric() */ 1454 C->assembled = PETSC_FALSE; 1455 PetscFunctionReturn(0); 1456 } 1457 1458 PetscErrorCode MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ_nonscalable(Mat P,Mat A,Mat C) 1459 { 1460 PetscErrorCode ierr; 1461 Mat_MPIAIJ *p=(Mat_MPIAIJ*)P->data; 1462 Mat_SeqAIJ *c_seq; 1463 Mat_APMPI *ptap; 1464 Mat A_loc,C_loc,C_oth; 1465 PetscInt i,rstart,rend,cm,ncols,row; 1466 const PetscInt *cols; 1467 const PetscScalar *vals; 1468 1469 PetscFunctionBegin; 1470 MatCheckProduct(C,3); 1471 ptap = (Mat_APMPI*)C->product->data; 1472 if (!ptap) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtAP cannot be computed. Missing data"); 1473 if (!ptap->A_loc) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtA cannot be reused. Do not call MatProductClear()"); 1474 ierr = MatZeroEntries(C);CHKERRQ(ierr); 1475 1476 if (ptap->reuse == MAT_REUSE_MATRIX) { 1477 /* These matrices are obtained in MatTransposeMatMultSymbolic() */ 1478 /* 1) get R = Pd^T, Ro = Po^T */ 1479 /*----------------------------*/ 1480 ierr = MatTranspose_SeqAIJ(p->A,MAT_REUSE_MATRIX,&ptap->Rd);CHKERRQ(ierr); 1481 ierr = MatTranspose_SeqAIJ(p->B,MAT_REUSE_MATRIX,&ptap->Ro);CHKERRQ(ierr); 1482 1483 /* 2) compute numeric A_loc */ 1484 /*--------------------------*/ 1485 ierr = MatMPIAIJGetLocalMat(A,MAT_REUSE_MATRIX,&ptap->A_loc);CHKERRQ(ierr); 1486 } 1487 1488 /* 3) C_loc = Rd*A_loc, C_oth = Ro*A_loc */ 1489 A_loc = ptap->A_loc; 1490 ierr = ((ptap->C_loc)->ops->matmultnumeric)(ptap->Rd,A_loc,ptap->C_loc);CHKERRQ(ierr); 1491 ierr = ((ptap->C_oth)->ops->matmultnumeric)(ptap->Ro,A_loc,ptap->C_oth);CHKERRQ(ierr); 1492 C_loc = ptap->C_loc; 1493 C_oth = ptap->C_oth; 1494 1495 /* add C_loc and Co to to C */ 1496 ierr = MatGetOwnershipRange(C,&rstart,&rend);CHKERRQ(ierr); 1497 1498 /* C_loc -> C */ 1499 cm = C_loc->rmap->N; 1500 c_seq = (Mat_SeqAIJ*)C_loc->data; 1501 cols = c_seq->j; 1502 vals = c_seq->a; 1503 for (i=0; i<cm; i++) { 1504 ncols = c_seq->i[i+1] - c_seq->i[i]; 1505 row = rstart + i; 1506 ierr = MatSetValues(C,1,&row,ncols,cols,vals,ADD_VALUES);CHKERRQ(ierr); 1507 cols += ncols; vals += ncols; 1508 } 1509 1510 /* Co -> C, off-processor part */ 1511 cm = C_oth->rmap->N; 1512 c_seq = (Mat_SeqAIJ*)C_oth->data; 1513 cols = c_seq->j; 1514 vals = c_seq->a; 1515 for (i=0; i<cm; i++) { 1516 ncols = c_seq->i[i+1] - c_seq->i[i]; 1517 row = p->garray[i]; 1518 ierr = MatSetValues(C,1,&row,ncols,cols,vals,ADD_VALUES);CHKERRQ(ierr); 1519 cols += ncols; vals += ncols; 1520 } 1521 ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1522 ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1523 1524 ptap->reuse = MAT_REUSE_MATRIX; 1525 PetscFunctionReturn(0); 1526 } 1527 1528 PetscErrorCode MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ(Mat P,Mat A,Mat C) 1529 { 1530 PetscErrorCode ierr; 1531 Mat_Merge_SeqsToMPI *merge; 1532 Mat_MPIAIJ *p =(Mat_MPIAIJ*)P->data; 1533 Mat_SeqAIJ *pd=(Mat_SeqAIJ*)(p->A)->data,*po=(Mat_SeqAIJ*)(p->B)->data; 1534 Mat_APMPI *ptap; 1535 PetscInt *adj; 1536 PetscInt i,j,k,anz,pnz,row,*cj,nexta; 1537 MatScalar *ada,*ca,valtmp; 1538 PetscInt am=A->rmap->n,cm=C->rmap->n,pon=(p->B)->cmap->n; 1539 MPI_Comm comm; 1540 PetscMPIInt size,rank,taga,*len_s; 1541 PetscInt *owners,proc,nrows,**buf_ri_k,**nextrow,**nextci; 1542 PetscInt **buf_ri,**buf_rj; 1543 PetscInt cnz=0,*bj_i,*bi,*bj,bnz,nextcj; /* bi,bj,ba: local array of C(mpi mat) */ 1544 MPI_Request *s_waits,*r_waits; 1545 MPI_Status *status; 1546 MatScalar **abuf_r,*ba_i,*pA,*coa,*ba; 1547 PetscInt *ai,*aj,*coi,*coj,*poJ,*pdJ; 1548 Mat A_loc; 1549 Mat_SeqAIJ *a_loc; 1550 1551 PetscFunctionBegin; 1552 MatCheckProduct(C,3); 1553 ptap = (Mat_APMPI*)C->product->data; 1554 if (!ptap) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtAP cannot be computed. Missing data"); 1555 if (!ptap->A_loc) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtA cannot be reused. Do not call MatProductClear()"); 1556 ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 1557 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 1558 ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 1559 1560 merge = ptap->merge; 1561 1562 /* 2) compute numeric C_seq = P_loc^T*A_loc */ 1563 /*------------------------------------------*/ 1564 /* get data from symbolic products */ 1565 coi = merge->coi; coj = merge->coj; 1566 ierr = PetscCalloc1(coi[pon]+1,&coa);CHKERRQ(ierr); 1567 bi = merge->bi; bj = merge->bj; 1568 owners = merge->rowmap->range; 1569 ierr = PetscCalloc1(bi[cm]+1,&ba);CHKERRQ(ierr); 1570 1571 /* get A_loc by taking all local rows of A */ 1572 A_loc = ptap->A_loc; 1573 ierr = MatMPIAIJGetLocalMat(A,MAT_REUSE_MATRIX,&A_loc);CHKERRQ(ierr); 1574 a_loc = (Mat_SeqAIJ*)(A_loc)->data; 1575 ai = a_loc->i; 1576 aj = a_loc->j; 1577 1578 for (i=0; i<am; i++) { 1579 anz = ai[i+1] - ai[i]; 1580 adj = aj + ai[i]; 1581 ada = a_loc->a + ai[i]; 1582 1583 /* 2-b) Compute Cseq = P_loc[i,:]^T*A[i,:] using outer product */ 1584 /*-------------------------------------------------------------*/ 1585 /* put the value into Co=(p->B)^T*A (off-diagonal part, send to others) */ 1586 pnz = po->i[i+1] - po->i[i]; 1587 poJ = po->j + po->i[i]; 1588 pA = po->a + po->i[i]; 1589 for (j=0; j<pnz; j++) { 1590 row = poJ[j]; 1591 cj = coj + coi[row]; 1592 ca = coa + coi[row]; 1593 /* perform sparse axpy */ 1594 nexta = 0; 1595 valtmp = pA[j]; 1596 for (k=0; nexta<anz; k++) { 1597 if (cj[k] == adj[nexta]) { 1598 ca[k] += valtmp*ada[nexta]; 1599 nexta++; 1600 } 1601 } 1602 ierr = PetscLogFlops(2.0*anz);CHKERRQ(ierr); 1603 } 1604 1605 /* put the value into Cd (diagonal part) */ 1606 pnz = pd->i[i+1] - pd->i[i]; 1607 pdJ = pd->j + pd->i[i]; 1608 pA = pd->a + pd->i[i]; 1609 for (j=0; j<pnz; j++) { 1610 row = pdJ[j]; 1611 cj = bj + bi[row]; 1612 ca = ba + bi[row]; 1613 /* perform sparse axpy */ 1614 nexta = 0; 1615 valtmp = pA[j]; 1616 for (k=0; nexta<anz; k++) { 1617 if (cj[k] == adj[nexta]) { 1618 ca[k] += valtmp*ada[nexta]; 1619 nexta++; 1620 } 1621 } 1622 ierr = PetscLogFlops(2.0*anz);CHKERRQ(ierr); 1623 } 1624 } 1625 1626 /* 3) send and recv matrix values coa */ 1627 /*------------------------------------*/ 1628 buf_ri = merge->buf_ri; 1629 buf_rj = merge->buf_rj; 1630 len_s = merge->len_s; 1631 ierr = PetscCommGetNewTag(comm,&taga);CHKERRQ(ierr); 1632 ierr = PetscPostIrecvScalar(comm,taga,merge->nrecv,merge->id_r,merge->len_r,&abuf_r,&r_waits);CHKERRQ(ierr); 1633 1634 ierr = PetscMalloc2(merge->nsend+1,&s_waits,size,&status);CHKERRQ(ierr); 1635 for (proc=0,k=0; proc<size; proc++) { 1636 if (!len_s[proc]) continue; 1637 i = merge->owners_co[proc]; 1638 ierr = MPI_Isend(coa+coi[i],len_s[proc],MPIU_MATSCALAR,proc,taga,comm,s_waits+k);CHKERRQ(ierr); 1639 k++; 1640 } 1641 if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,r_waits,status);CHKERRQ(ierr);} 1642 if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,s_waits,status);CHKERRQ(ierr);} 1643 1644 ierr = PetscFree2(s_waits,status);CHKERRQ(ierr); 1645 ierr = PetscFree(r_waits);CHKERRQ(ierr); 1646 ierr = PetscFree(coa);CHKERRQ(ierr); 1647 1648 /* 4) insert local Cseq and received values into Cmpi */ 1649 /*----------------------------------------------------*/ 1650 ierr = PetscMalloc3(merge->nrecv,&buf_ri_k,merge->nrecv,&nextrow,merge->nrecv,&nextci);CHKERRQ(ierr); 1651 for (k=0; k<merge->nrecv; k++) { 1652 buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 1653 nrows = *(buf_ri_k[k]); 1654 nextrow[k] = buf_ri_k[k]+1; /* next row number of k-th recved i-structure */ 1655 nextci[k] = buf_ri_k[k] + (nrows + 1); /* poins to the next i-structure of k-th recved i-structure */ 1656 } 1657 1658 for (i=0; i<cm; i++) { 1659 row = owners[rank] + i; /* global row index of C_seq */ 1660 bj_i = bj + bi[i]; /* col indices of the i-th row of C */ 1661 ba_i = ba + bi[i]; 1662 bnz = bi[i+1] - bi[i]; 1663 /* add received vals into ba */ 1664 for (k=0; k<merge->nrecv; k++) { /* k-th received message */ 1665 /* i-th row */ 1666 if (i == *nextrow[k]) { 1667 cnz = *(nextci[k]+1) - *nextci[k]; 1668 cj = buf_rj[k] + *(nextci[k]); 1669 ca = abuf_r[k] + *(nextci[k]); 1670 nextcj = 0; 1671 for (j=0; nextcj<cnz; j++) { 1672 if (bj_i[j] == cj[nextcj]) { /* bcol == ccol */ 1673 ba_i[j] += ca[nextcj++]; 1674 } 1675 } 1676 nextrow[k]++; nextci[k]++; 1677 ierr = PetscLogFlops(2.0*cnz);CHKERRQ(ierr); 1678 } 1679 } 1680 ierr = MatSetValues(C,1,&row,bnz,bj_i,ba_i,INSERT_VALUES);CHKERRQ(ierr); 1681 } 1682 ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1683 ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1684 1685 ierr = PetscFree(ba);CHKERRQ(ierr); 1686 ierr = PetscFree(abuf_r[0]);CHKERRQ(ierr); 1687 ierr = PetscFree(abuf_r);CHKERRQ(ierr); 1688 ierr = PetscFree3(buf_ri_k,nextrow,nextci);CHKERRQ(ierr); 1689 PetscFunctionReturn(0); 1690 } 1691 1692 PetscErrorCode MatTransposeMatMultSymbolic_MPIAIJ_MPIAIJ(Mat P,Mat A,PetscReal fill,Mat C) 1693 { 1694 PetscErrorCode ierr; 1695 Mat A_loc,POt,PDt; 1696 Mat_APMPI *ptap; 1697 PetscFreeSpaceList free_space=NULL,current_space=NULL; 1698 Mat_MPIAIJ *p=(Mat_MPIAIJ*)P->data,*a=(Mat_MPIAIJ*)A->data; 1699 PetscInt *pdti,*pdtj,*poti,*potj,*ptJ; 1700 PetscInt nnz; 1701 PetscInt *lnk,*owners_co,*coi,*coj,i,k,pnz,row; 1702 PetscInt am =A->rmap->n,pn=P->cmap->n; 1703 MPI_Comm comm; 1704 PetscMPIInt size,rank,tagi,tagj,*len_si,*len_s,*len_ri; 1705 PetscInt **buf_rj,**buf_ri,**buf_ri_k; 1706 PetscInt len,proc,*dnz,*onz,*owners; 1707 PetscInt nzi,*bi,*bj; 1708 PetscInt nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextci; 1709 MPI_Request *swaits,*rwaits; 1710 MPI_Status *sstatus,rstatus; 1711 Mat_Merge_SeqsToMPI *merge; 1712 PetscInt *ai,*aj,*Jptr,anz,*prmap=p->garray,pon,nspacedouble=0,j; 1713 PetscReal afill =1.0,afill_tmp; 1714 PetscInt rstart = P->cmap->rstart,rmax,aN=A->cmap->N,Armax; 1715 Mat_SeqAIJ *a_loc,*pdt,*pot; 1716 PetscTable ta; 1717 MatType mtype; 1718 1719 PetscFunctionBegin; 1720 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 1721 /* check if matrix local sizes are compatible */ 1722 if (A->rmap->rstart != P->rmap->rstart || A->rmap->rend != P->rmap->rend) SETERRQ4(comm,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, A (%D, %D) != P (%D,%D)",A->rmap->rstart,A->rmap->rend,P->rmap->rstart,P->rmap->rend); 1723 1724 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 1725 ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 1726 1727 /* create struct Mat_APMPI and attached it to C later */ 1728 ierr = PetscNew(&ptap);CHKERRQ(ierr); 1729 1730 /* get A_loc by taking all local rows of A */ 1731 ierr = MatMPIAIJGetLocalMat(A,MAT_INITIAL_MATRIX,&A_loc);CHKERRQ(ierr); 1732 1733 ptap->A_loc = A_loc; 1734 a_loc = (Mat_SeqAIJ*)(A_loc)->data; 1735 ai = a_loc->i; 1736 aj = a_loc->j; 1737 1738 /* determine symbolic Co=(p->B)^T*A - send to others */ 1739 /*----------------------------------------------------*/ 1740 ierr = MatTransposeSymbolic_SeqAIJ(p->A,&PDt);CHKERRQ(ierr); 1741 pdt = (Mat_SeqAIJ*)PDt->data; 1742 pdti = pdt->i; pdtj = pdt->j; 1743 1744 ierr = MatTransposeSymbolic_SeqAIJ(p->B,&POt);CHKERRQ(ierr); 1745 pot = (Mat_SeqAIJ*)POt->data; 1746 poti = pot->i; potj = pot->j; 1747 1748 /* then, compute symbolic Co = (p->B)^T*A */ 1749 pon = (p->B)->cmap->n; /* total num of rows to be sent to other processors 1750 >= (num of nonzero rows of C_seq) - pn */ 1751 ierr = PetscMalloc1(pon+1,&coi);CHKERRQ(ierr); 1752 coi[0] = 0; 1753 1754 /* set initial free space to be fill*(nnz(p->B) + nnz(A)) */ 1755 nnz = PetscRealIntMultTruncate(fill,PetscIntSumTruncate(poti[pon],ai[am])); 1756 ierr = PetscFreeSpaceGet(nnz,&free_space);CHKERRQ(ierr); 1757 current_space = free_space; 1758 1759 /* create and initialize a linked list */ 1760 ierr = PetscTableCreate(A->cmap->n + a->B->cmap->N,aN,&ta);CHKERRQ(ierr); 1761 MatRowMergeMax_SeqAIJ(a_loc,am,ta); 1762 ierr = PetscTableGetCount(ta,&Armax);CHKERRQ(ierr); 1763 1764 ierr = PetscLLCondensedCreate_Scalable(Armax,&lnk);CHKERRQ(ierr); 1765 1766 for (i=0; i<pon; i++) { 1767 pnz = poti[i+1] - poti[i]; 1768 ptJ = potj + poti[i]; 1769 for (j=0; j<pnz; j++) { 1770 row = ptJ[j]; /* row of A_loc == col of Pot */ 1771 anz = ai[row+1] - ai[row]; 1772 Jptr = aj + ai[row]; 1773 /* add non-zero cols of AP into the sorted linked list lnk */ 1774 ierr = PetscLLCondensedAddSorted_Scalable(anz,Jptr,lnk);CHKERRQ(ierr); 1775 } 1776 nnz = lnk[0]; 1777 1778 /* If free space is not available, double the total space in the list */ 1779 if (current_space->local_remaining<nnz) { 1780 ierr = PetscFreeSpaceGet(PetscIntSumTruncate(nnz,current_space->total_array_size),¤t_space);CHKERRQ(ierr); 1781 nspacedouble++; 1782 } 1783 1784 /* Copy data into free space, and zero out denserows */ 1785 ierr = PetscLLCondensedClean_Scalable(nnz,current_space->array,lnk);CHKERRQ(ierr); 1786 1787 current_space->array += nnz; 1788 current_space->local_used += nnz; 1789 current_space->local_remaining -= nnz; 1790 1791 coi[i+1] = coi[i] + nnz; 1792 } 1793 1794 ierr = PetscMalloc1(coi[pon]+1,&coj);CHKERRQ(ierr); 1795 ierr = PetscFreeSpaceContiguous(&free_space,coj);CHKERRQ(ierr); 1796 ierr = PetscLLCondensedDestroy_Scalable(lnk);CHKERRQ(ierr); /* must destroy to get a new one for C */ 1797 1798 afill_tmp = (PetscReal)coi[pon]/(poti[pon] + ai[am]+1); 1799 if (afill_tmp > afill) afill = afill_tmp; 1800 1801 /* send j-array (coj) of Co to other processors */ 1802 /*----------------------------------------------*/ 1803 /* determine row ownership */ 1804 ierr = PetscNew(&merge);CHKERRQ(ierr); 1805 ierr = PetscLayoutCreate(comm,&merge->rowmap);CHKERRQ(ierr); 1806 1807 merge->rowmap->n = pn; 1808 merge->rowmap->bs = 1; 1809 1810 ierr = PetscLayoutSetUp(merge->rowmap);CHKERRQ(ierr); 1811 owners = merge->rowmap->range; 1812 1813 /* determine the number of messages to send, their lengths */ 1814 ierr = PetscCalloc1(size,&len_si);CHKERRQ(ierr); 1815 ierr = PetscCalloc1(size,&merge->len_s);CHKERRQ(ierr); 1816 1817 len_s = merge->len_s; 1818 merge->nsend = 0; 1819 1820 ierr = PetscMalloc1(size+2,&owners_co);CHKERRQ(ierr); 1821 1822 proc = 0; 1823 for (i=0; i<pon; i++) { 1824 while (prmap[i] >= owners[proc+1]) proc++; 1825 len_si[proc]++; /* num of rows in Co to be sent to [proc] */ 1826 len_s[proc] += coi[i+1] - coi[i]; 1827 } 1828 1829 len = 0; /* max length of buf_si[] */ 1830 owners_co[0] = 0; 1831 for (proc=0; proc<size; proc++) { 1832 owners_co[proc+1] = owners_co[proc] + len_si[proc]; 1833 if (len_si[proc]) { 1834 merge->nsend++; 1835 len_si[proc] = 2*(len_si[proc] + 1); 1836 len += len_si[proc]; 1837 } 1838 } 1839 1840 /* determine the number and length of messages to receive for coi and coj */ 1841 ierr = PetscGatherNumberOfMessages(comm,NULL,len_s,&merge->nrecv);CHKERRQ(ierr); 1842 ierr = PetscGatherMessageLengths2(comm,merge->nsend,merge->nrecv,len_s,len_si,&merge->id_r,&merge->len_r,&len_ri);CHKERRQ(ierr); 1843 1844 /* post the Irecv and Isend of coj */ 1845 ierr = PetscCommGetNewTag(comm,&tagj);CHKERRQ(ierr); 1846 ierr = PetscPostIrecvInt(comm,tagj,merge->nrecv,merge->id_r,merge->len_r,&buf_rj,&rwaits);CHKERRQ(ierr); 1847 ierr = PetscMalloc1(merge->nsend+1,&swaits);CHKERRQ(ierr); 1848 for (proc=0, k=0; proc<size; proc++) { 1849 if (!len_s[proc]) continue; 1850 i = owners_co[proc]; 1851 ierr = MPI_Isend(coj+coi[i],len_s[proc],MPIU_INT,proc,tagj,comm,swaits+k);CHKERRQ(ierr); 1852 k++; 1853 } 1854 1855 /* receives and sends of coj are complete */ 1856 ierr = PetscMalloc1(size,&sstatus);CHKERRQ(ierr); 1857 for (i=0; i<merge->nrecv; i++) { 1858 PetscMPIInt icompleted; 1859 ierr = MPI_Waitany(merge->nrecv,rwaits,&icompleted,&rstatus);CHKERRQ(ierr); 1860 } 1861 ierr = PetscFree(rwaits);CHKERRQ(ierr); 1862 if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,swaits,sstatus);CHKERRQ(ierr);} 1863 1864 /* add received column indices into table to update Armax */ 1865 /* Armax can be as large as aN if a P[row,:] is dense, see src/ksp/ksp/tutorials/ex56.c! */ 1866 for (k=0; k<merge->nrecv; k++) {/* k-th received message */ 1867 Jptr = buf_rj[k]; 1868 for (j=0; j<merge->len_r[k]; j++) { 1869 ierr = PetscTableAdd(ta,*(Jptr+j)+1,1,INSERT_VALUES);CHKERRQ(ierr); 1870 } 1871 } 1872 ierr = PetscTableGetCount(ta,&Armax);CHKERRQ(ierr); 1873 /* printf("Armax %d, an %d + Bn %d = %d, aN %d\n",Armax,A->cmap->n,a->B->cmap->N,A->cmap->n+a->B->cmap->N,aN); */ 1874 1875 /* send and recv coi */ 1876 /*-------------------*/ 1877 ierr = PetscCommGetNewTag(comm,&tagi);CHKERRQ(ierr); 1878 ierr = PetscPostIrecvInt(comm,tagi,merge->nrecv,merge->id_r,len_ri,&buf_ri,&rwaits);CHKERRQ(ierr); 1879 ierr = PetscMalloc1(len+1,&buf_s);CHKERRQ(ierr); 1880 buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 1881 for (proc=0,k=0; proc<size; proc++) { 1882 if (!len_s[proc]) continue; 1883 /* form outgoing message for i-structure: 1884 buf_si[0]: nrows to be sent 1885 [1:nrows]: row index (global) 1886 [nrows+1:2*nrows+1]: i-structure index 1887 */ 1888 /*-------------------------------------------*/ 1889 nrows = len_si[proc]/2 - 1; 1890 buf_si_i = buf_si + nrows+1; 1891 buf_si[0] = nrows; 1892 buf_si_i[0] = 0; 1893 nrows = 0; 1894 for (i=owners_co[proc]; i<owners_co[proc+1]; i++) { 1895 nzi = coi[i+1] - coi[i]; 1896 buf_si_i[nrows+1] = buf_si_i[nrows] + nzi; /* i-structure */ 1897 buf_si[nrows+1] = prmap[i] -owners[proc]; /* local row index */ 1898 nrows++; 1899 } 1900 ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,swaits+k);CHKERRQ(ierr); 1901 k++; 1902 buf_si += len_si[proc]; 1903 } 1904 i = merge->nrecv; 1905 while (i--) { 1906 PetscMPIInt icompleted; 1907 ierr = MPI_Waitany(merge->nrecv,rwaits,&icompleted,&rstatus);CHKERRQ(ierr); 1908 } 1909 ierr = PetscFree(rwaits);CHKERRQ(ierr); 1910 if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,swaits,sstatus);CHKERRQ(ierr);} 1911 ierr = PetscFree(len_si);CHKERRQ(ierr); 1912 ierr = PetscFree(len_ri);CHKERRQ(ierr); 1913 ierr = PetscFree(swaits);CHKERRQ(ierr); 1914 ierr = PetscFree(sstatus);CHKERRQ(ierr); 1915 ierr = PetscFree(buf_s);CHKERRQ(ierr); 1916 1917 /* compute the local portion of C (mpi mat) */ 1918 /*------------------------------------------*/ 1919 /* allocate bi array and free space for accumulating nonzero column info */ 1920 ierr = PetscMalloc1(pn+1,&bi);CHKERRQ(ierr); 1921 bi[0] = 0; 1922 1923 /* set initial free space to be fill*(nnz(P) + nnz(AP)) */ 1924 nnz = PetscRealIntMultTruncate(fill,PetscIntSumTruncate(pdti[pn],PetscIntSumTruncate(poti[pon],ai[am]))); 1925 ierr = PetscFreeSpaceGet(nnz,&free_space);CHKERRQ(ierr); 1926 current_space = free_space; 1927 1928 ierr = PetscMalloc3(merge->nrecv,&buf_ri_k,merge->nrecv,&nextrow,merge->nrecv,&nextci);CHKERRQ(ierr); 1929 for (k=0; k<merge->nrecv; k++) { 1930 buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 1931 nrows = *buf_ri_k[k]; 1932 nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 1933 nextci[k] = buf_ri_k[k] + (nrows + 1); /* points to the next i-structure of k-th received i-structure */ 1934 } 1935 1936 ierr = PetscLLCondensedCreate_Scalable(Armax,&lnk);CHKERRQ(ierr); 1937 ierr = MatPreallocateInitialize(comm,pn,A->cmap->n,dnz,onz);CHKERRQ(ierr); 1938 rmax = 0; 1939 for (i=0; i<pn; i++) { 1940 /* add pdt[i,:]*AP into lnk */ 1941 pnz = pdti[i+1] - pdti[i]; 1942 ptJ = pdtj + pdti[i]; 1943 for (j=0; j<pnz; j++) { 1944 row = ptJ[j]; /* row of AP == col of Pt */ 1945 anz = ai[row+1] - ai[row]; 1946 Jptr = aj + ai[row]; 1947 /* add non-zero cols of AP into the sorted linked list lnk */ 1948 ierr = PetscLLCondensedAddSorted_Scalable(anz,Jptr,lnk);CHKERRQ(ierr); 1949 } 1950 1951 /* add received col data into lnk */ 1952 for (k=0; k<merge->nrecv; k++) { /* k-th received message */ 1953 if (i == *nextrow[k]) { /* i-th row */ 1954 nzi = *(nextci[k]+1) - *nextci[k]; 1955 Jptr = buf_rj[k] + *nextci[k]; 1956 ierr = PetscLLCondensedAddSorted_Scalable(nzi,Jptr,lnk);CHKERRQ(ierr); 1957 nextrow[k]++; nextci[k]++; 1958 } 1959 } 1960 nnz = lnk[0]; 1961 1962 /* if free space is not available, make more free space */ 1963 if (current_space->local_remaining<nnz) { 1964 ierr = PetscFreeSpaceGet(PetscIntSumTruncate(nnz,current_space->total_array_size),¤t_space);CHKERRQ(ierr); 1965 nspacedouble++; 1966 } 1967 /* copy data into free space, then initialize lnk */ 1968 ierr = PetscLLCondensedClean_Scalable(nnz,current_space->array,lnk);CHKERRQ(ierr); 1969 ierr = MatPreallocateSet(i+owners[rank],nnz,current_space->array,dnz,onz);CHKERRQ(ierr); 1970 1971 current_space->array += nnz; 1972 current_space->local_used += nnz; 1973 current_space->local_remaining -= nnz; 1974 1975 bi[i+1] = bi[i] + nnz; 1976 if (nnz > rmax) rmax = nnz; 1977 } 1978 ierr = PetscFree3(buf_ri_k,nextrow,nextci);CHKERRQ(ierr); 1979 1980 ierr = PetscMalloc1(bi[pn]+1,&bj);CHKERRQ(ierr); 1981 ierr = PetscFreeSpaceContiguous(&free_space,bj);CHKERRQ(ierr); 1982 afill_tmp = (PetscReal)bi[pn]/(pdti[pn] + poti[pon] + ai[am]+1); 1983 if (afill_tmp > afill) afill = afill_tmp; 1984 ierr = PetscLLCondensedDestroy_Scalable(lnk);CHKERRQ(ierr); 1985 ierr = PetscTableDestroy(&ta);CHKERRQ(ierr); 1986 1987 ierr = MatDestroy(&POt);CHKERRQ(ierr); 1988 ierr = MatDestroy(&PDt);CHKERRQ(ierr); 1989 1990 /* create symbolic parallel matrix C - why cannot be assembled in Numeric part */ 1991 /*-------------------------------------------------------------------------------*/ 1992 ierr = MatSetSizes(C,pn,A->cmap->n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 1993 ierr = MatSetBlockSizes(C,PetscAbs(P->cmap->bs),PetscAbs(A->cmap->bs));CHKERRQ(ierr); 1994 ierr = MatGetType(A,&mtype);CHKERRQ(ierr); 1995 ierr = MatSetType(C,mtype);CHKERRQ(ierr); 1996 ierr = MatMPIAIJSetPreallocation(C,0,dnz,0,onz);CHKERRQ(ierr); 1997 ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 1998 ierr = MatSetBlockSize(C,1);CHKERRQ(ierr); 1999 for (i=0; i<pn; i++) { 2000 row = i + rstart; 2001 nnz = bi[i+1] - bi[i]; 2002 Jptr = bj + bi[i]; 2003 ierr = MatSetValues(C,1,&row,nnz,Jptr,NULL,INSERT_VALUES);CHKERRQ(ierr); 2004 } 2005 ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2006 ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2007 merge->bi = bi; 2008 merge->bj = bj; 2009 merge->coi = coi; 2010 merge->coj = coj; 2011 merge->buf_ri = buf_ri; 2012 merge->buf_rj = buf_rj; 2013 merge->owners_co = owners_co; 2014 2015 /* attach the supporting struct to C for reuse */ 2016 C->product->data = ptap; 2017 C->product->destroy = MatDestroy_MPIAIJ_PtAP; 2018 ptap->merge = merge; 2019 2020 C->ops->mattransposemultnumeric = MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ; 2021 2022 #if defined(PETSC_USE_INFO) 2023 if (bi[pn] != 0) { 2024 ierr = PetscInfo3(C,"Reallocs %D; Fill ratio: given %g needed %g.\n",nspacedouble,(double)fill,(double)afill);CHKERRQ(ierr); 2025 ierr = PetscInfo1(C,"Use MatTransposeMatMult(A,B,MatReuse,%g,&C) for best performance.\n",(double)afill);CHKERRQ(ierr); 2026 } else { 2027 ierr = PetscInfo(C,"Empty matrix product\n");CHKERRQ(ierr); 2028 } 2029 #endif 2030 PetscFunctionReturn(0); 2031 } 2032 2033 /* ---------------------------------------------------------------- */ 2034 static PetscErrorCode MatProductSymbolic_AtB_MPIAIJ_MPIAIJ(Mat C) 2035 { 2036 PetscErrorCode ierr; 2037 Mat_Product *product = C->product; 2038 Mat A=product->A,B=product->B; 2039 PetscReal fill=product->fill; 2040 PetscBool flg; 2041 2042 PetscFunctionBegin; 2043 /* scalable */ 2044 ierr = PetscStrcmp(product->alg,"scalable",&flg);CHKERRQ(ierr); 2045 if (flg) { 2046 ierr = MatTransposeMatMultSymbolic_MPIAIJ_MPIAIJ(A,B,fill,C);CHKERRQ(ierr); 2047 goto next; 2048 } 2049 2050 /* nonscalable */ 2051 ierr = PetscStrcmp(product->alg,"nonscalable",&flg);CHKERRQ(ierr); 2052 if (flg) { 2053 ierr = MatTransposeMatMultSymbolic_MPIAIJ_MPIAIJ_nonscalable(A,B,fill,C);CHKERRQ(ierr); 2054 goto next; 2055 } 2056 2057 /* matmatmult */ 2058 ierr = PetscStrcmp(product->alg,"at*b",&flg);CHKERRQ(ierr); 2059 if (flg) { 2060 Mat At; 2061 Mat_APMPI *ptap; 2062 2063 ierr = MatTranspose(A,MAT_INITIAL_MATRIX,&At);CHKERRQ(ierr); 2064 ierr = MatMatMultSymbolic_MPIAIJ_MPIAIJ(At,B,fill,C);CHKERRQ(ierr); 2065 ptap = (Mat_APMPI*)C->product->data; 2066 if (ptap) { 2067 ptap->Pt = At; 2068 C->product->destroy = MatDestroy_MPIAIJ_PtAP; 2069 } 2070 C->ops->transposematmultnumeric = MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ_matmatmult; 2071 goto next; 2072 } 2073 2074 SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"MatProduct type is not supported"); 2075 2076 next: 2077 C->ops->productnumeric = MatProductNumeric_AtB; 2078 PetscFunctionReturn(0); 2079 } 2080 2081 /* ---------------------------------------------------------------- */ 2082 /* Set options for MatMatMultxxx_MPIAIJ_MPIAIJ */ 2083 static PetscErrorCode MatProductSetFromOptions_MPIAIJ_AB(Mat C) 2084 { 2085 PetscErrorCode ierr; 2086 Mat_Product *product = C->product; 2087 Mat A=product->A,B=product->B; 2088 #if defined(PETSC_HAVE_HYPRE) 2089 const char *algTypes[4] = {"scalable","nonscalable","seqmpi","hypre"}; 2090 PetscInt nalg = 4; 2091 #else 2092 const char *algTypes[3] = {"scalable","nonscalable","seqmpi"}; 2093 PetscInt nalg = 3; 2094 #endif 2095 PetscInt alg = 1; /* set nonscalable algorithm as default */ 2096 PetscBool flg; 2097 MPI_Comm comm; 2098 2099 PetscFunctionBegin; 2100 /* Check matrix local sizes */ 2101 ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 2102 if (A->cmap->rstart != B->rmap->rstart || A->cmap->rend != B->rmap->rend) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",A->cmap->rstart,A->cmap->rend,B->rmap->rstart,B->rmap->rend); 2103 2104 /* Set "nonscalable" as default algorithm */ 2105 ierr = PetscStrcmp(C->product->alg,"default",&flg);CHKERRQ(ierr); 2106 if (flg) { 2107 ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 2108 2109 /* Set "scalable" as default if BN and local nonzeros of A and B are large */ 2110 if (B->cmap->N > 100000) { /* may switch to scalable algorithm as default */ 2111 MatInfo Ainfo,Binfo; 2112 PetscInt nz_local; 2113 PetscBool alg_scalable_loc=PETSC_FALSE,alg_scalable; 2114 2115 ierr = MatGetInfo(A,MAT_LOCAL,&Ainfo);CHKERRQ(ierr); 2116 ierr = MatGetInfo(B,MAT_LOCAL,&Binfo);CHKERRQ(ierr); 2117 nz_local = (PetscInt)(Ainfo.nz_allocated + Binfo.nz_allocated); 2118 2119 if (B->cmap->N > product->fill*nz_local) alg_scalable_loc = PETSC_TRUE; 2120 ierr = MPIU_Allreduce(&alg_scalable_loc,&alg_scalable,1,MPIU_BOOL,MPI_LOR,comm);CHKERRQ(ierr); 2121 2122 if (alg_scalable) { 2123 alg = 0; /* scalable algorithm would 50% slower than nonscalable algorithm */ 2124 ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 2125 ierr = PetscInfo2(B,"Use scalable algorithm, BN %D, fill*nz_allocated %g\n",B->cmap->N,product->fill*nz_local);CHKERRQ(ierr); 2126 } 2127 } 2128 } 2129 2130 /* Get runtime option */ 2131 if (product->api_user) { 2132 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatMatMult","Mat");CHKERRQ(ierr); 2133 ierr = PetscOptionsEList("-matmatmult_via","Algorithmic approach","MatMatMult",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 2134 ierr = PetscOptionsEnd();CHKERRQ(ierr); 2135 } else { 2136 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatProduct_AB","Mat");CHKERRQ(ierr); 2137 ierr = PetscOptionsEList("-matproduct_ab_via","Algorithmic approach","MatMatMult",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 2138 ierr = PetscOptionsEnd();CHKERRQ(ierr); 2139 } 2140 if (flg) { 2141 ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 2142 } 2143 2144 C->ops->productsymbolic = MatProductSymbolic_AB_MPIAIJ_MPIAIJ; 2145 PetscFunctionReturn(0); 2146 } 2147 2148 /* Set options for MatTransposeMatMultXXX_MPIAIJ_MPIAIJ */ 2149 static PetscErrorCode MatProductSetFromOptions_MPIAIJ_AtB(Mat C) 2150 { 2151 PetscErrorCode ierr; 2152 Mat_Product *product = C->product; 2153 Mat A=product->A,B=product->B; 2154 const char *algTypes[3] = {"scalable","nonscalable","at*b"}; 2155 PetscInt nalg = 3; 2156 PetscInt alg = 1; /* set default algorithm */ 2157 PetscBool flg; 2158 MPI_Comm comm; 2159 2160 PetscFunctionBegin; 2161 /* Check matrix local sizes */ 2162 ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 2163 if (A->rmap->rstart != B->rmap->rstart || A->rmap->rend != B->rmap->rend) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, A (%D, %D) != B (%D,%D)",A->rmap->rstart,A->rmap->rend,B->rmap->rstart,B->rmap->rend); 2164 2165 /* Set default algorithm */ 2166 ierr = PetscStrcmp(C->product->alg,"default",&flg);CHKERRQ(ierr); 2167 if (flg) { 2168 ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 2169 } 2170 2171 /* Set "scalable" as default if BN and local nonzeros of A and B are large */ 2172 if (alg && B->cmap->N > 100000) { /* may switch to scalable algorithm as default */ 2173 MatInfo Ainfo,Binfo; 2174 PetscInt nz_local; 2175 PetscBool alg_scalable_loc=PETSC_FALSE,alg_scalable; 2176 2177 ierr = MatGetInfo(A,MAT_LOCAL,&Ainfo);CHKERRQ(ierr); 2178 ierr = MatGetInfo(B,MAT_LOCAL,&Binfo);CHKERRQ(ierr); 2179 nz_local = (PetscInt)(Ainfo.nz_allocated + Binfo.nz_allocated); 2180 2181 if (B->cmap->N > product->fill*nz_local) alg_scalable_loc = PETSC_TRUE; 2182 ierr = MPIU_Allreduce(&alg_scalable_loc,&alg_scalable,1,MPIU_BOOL,MPI_LOR,comm);CHKERRQ(ierr); 2183 2184 if (alg_scalable) { 2185 alg = 0; /* scalable algorithm would 50% slower than nonscalable algorithm */ 2186 ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 2187 ierr = PetscInfo2(B,"Use scalable algorithm, BN %D, fill*nz_allocated %g\n",B->cmap->N,product->fill*nz_local);CHKERRQ(ierr); 2188 } 2189 } 2190 2191 /* Get runtime option */ 2192 if (product->api_user) { 2193 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatTransposeMatMult","Mat");CHKERRQ(ierr); 2194 ierr = PetscOptionsEList("-mattransposematmult_via","Algorithmic approach","MatTransposeMatMult",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 2195 ierr = PetscOptionsEnd();CHKERRQ(ierr); 2196 } else { 2197 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatProduct_AtB","Mat");CHKERRQ(ierr); 2198 ierr = PetscOptionsEList("-matproduct_atb_via","Algorithmic approach","MatTransposeMatMult",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 2199 ierr = PetscOptionsEnd();CHKERRQ(ierr); 2200 } 2201 if (flg) { 2202 ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 2203 } 2204 2205 C->ops->productsymbolic = MatProductSymbolic_AtB_MPIAIJ_MPIAIJ; 2206 PetscFunctionReturn(0); 2207 } 2208 2209 static PetscErrorCode MatProductSetFromOptions_MPIAIJ_PtAP(Mat C) 2210 { 2211 PetscErrorCode ierr; 2212 Mat_Product *product = C->product; 2213 Mat A=product->A,P=product->B; 2214 MPI_Comm comm; 2215 PetscBool flg; 2216 PetscInt alg=1; /* set default algorithm */ 2217 #if !defined(PETSC_HAVE_HYPRE) 2218 const char *algTypes[4] = {"scalable","nonscalable","allatonce","allatonce_merged"}; 2219 PetscInt nalg=4; 2220 #else 2221 const char *algTypes[5] = {"scalable","nonscalable","allatonce","allatonce_merged","hypre"}; 2222 PetscInt nalg=5; 2223 #endif 2224 PetscInt pN=P->cmap->N; 2225 2226 PetscFunctionBegin; 2227 /* Check matrix local sizes */ 2228 ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 2229 if (A->rmap->rstart != P->rmap->rstart || A->rmap->rend != P->rmap->rend) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, Arow (%D, %D) != Prow (%D,%D)",A->rmap->rstart,A->rmap->rend,P->rmap->rstart,P->rmap->rend); 2230 if (A->cmap->rstart != P->rmap->rstart || A->cmap->rend != P->rmap->rend) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, Acol (%D, %D) != Prow (%D,%D)",A->cmap->rstart,A->cmap->rend,P->rmap->rstart,P->rmap->rend); 2231 2232 /* Set "nonscalable" as default algorithm */ 2233 ierr = PetscStrcmp(C->product->alg,"default",&flg);CHKERRQ(ierr); 2234 if (flg) { 2235 ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 2236 2237 /* Set "scalable" as default if BN and local nonzeros of A and B are large */ 2238 if (pN > 100000) { 2239 MatInfo Ainfo,Pinfo; 2240 PetscInt nz_local; 2241 PetscBool alg_scalable_loc=PETSC_FALSE,alg_scalable; 2242 2243 ierr = MatGetInfo(A,MAT_LOCAL,&Ainfo);CHKERRQ(ierr); 2244 ierr = MatGetInfo(P,MAT_LOCAL,&Pinfo);CHKERRQ(ierr); 2245 nz_local = (PetscInt)(Ainfo.nz_allocated + Pinfo.nz_allocated); 2246 2247 if (pN > product->fill*nz_local) alg_scalable_loc = PETSC_TRUE; 2248 ierr = MPIU_Allreduce(&alg_scalable_loc,&alg_scalable,1,MPIU_BOOL,MPI_LOR,comm);CHKERRQ(ierr); 2249 2250 if (alg_scalable) { 2251 alg = 0; /* scalable algorithm would 50% slower than nonscalable algorithm */ 2252 ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 2253 } 2254 } 2255 } 2256 2257 /* Get runtime option */ 2258 if (product->api_user) { 2259 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatPtAP","Mat");CHKERRQ(ierr); 2260 ierr = PetscOptionsEList("-matptap_via","Algorithmic approach","MatPtAP",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 2261 ierr = PetscOptionsEnd();CHKERRQ(ierr); 2262 } else { 2263 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatProduct_PtAP","Mat");CHKERRQ(ierr); 2264 ierr = PetscOptionsEList("-matproduct_ptap_via","Algorithmic approach","MatPtAP",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 2265 ierr = PetscOptionsEnd();CHKERRQ(ierr); 2266 } 2267 if (flg) { 2268 ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 2269 } 2270 2271 C->ops->productsymbolic = MatProductSymbolic_PtAP_MPIAIJ_MPIAIJ; 2272 PetscFunctionReturn(0); 2273 } 2274 2275 static PetscErrorCode MatProductSetFromOptions_MPIAIJ_RARt(Mat C) 2276 { 2277 Mat_Product *product = C->product; 2278 Mat A = product->A,R=product->B; 2279 2280 PetscFunctionBegin; 2281 /* Check matrix local sizes */ 2282 if (A->cmap->n != R->cmap->n || A->rmap->n != R->cmap->n) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, A local (%D, %D), R local (%D,%D)",A->rmap->n,A->rmap->n,R->rmap->n,R->cmap->n); 2283 2284 C->ops->productsymbolic = MatProductSymbolic_RARt_MPIAIJ_MPIAIJ; 2285 PetscFunctionReturn(0); 2286 } 2287 2288 /* 2289 Set options for ABC = A*B*C = A*(B*C); ABC's algorithm must be chosen from AB's algorithm 2290 */ 2291 static PetscErrorCode MatProductSetFromOptions_MPIAIJ_ABC(Mat C) 2292 { 2293 PetscErrorCode ierr; 2294 Mat_Product *product = C->product; 2295 PetscBool flg = PETSC_FALSE; 2296 PetscInt alg = 1; /* default algorithm */ 2297 const char *algTypes[3] = {"scalable","nonscalable","seqmpi"}; 2298 PetscInt nalg = 3; 2299 2300 PetscFunctionBegin; 2301 /* Set default algorithm */ 2302 ierr = PetscStrcmp(C->product->alg,"default",&flg);CHKERRQ(ierr); 2303 if (flg) { 2304 ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 2305 } 2306 2307 /* Get runtime option */ 2308 if (product->api_user) { 2309 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatMatMatMult","Mat");CHKERRQ(ierr); 2310 ierr = PetscOptionsEList("-matmatmatmult_via","Algorithmic approach","MatMatMatMult",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 2311 ierr = PetscOptionsEnd();CHKERRQ(ierr); 2312 } else { 2313 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatProduct_ABC","Mat");CHKERRQ(ierr); 2314 ierr = PetscOptionsEList("-matproduct_abc_via","Algorithmic approach","MatProduct_ABC",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 2315 ierr = PetscOptionsEnd();CHKERRQ(ierr); 2316 } 2317 if (flg) { 2318 ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 2319 } 2320 2321 C->ops->matmatmultsymbolic = MatMatMatMultSymbolic_MPIAIJ_MPIAIJ_MPIAIJ; 2322 C->ops->productsymbolic = MatProductSymbolic_ABC; 2323 PetscFunctionReturn(0); 2324 } 2325 2326 PETSC_INTERN PetscErrorCode MatProductSetFromOptions_MPIAIJ(Mat C) 2327 { 2328 PetscErrorCode ierr; 2329 Mat_Product *product = C->product; 2330 2331 PetscFunctionBegin; 2332 switch (product->type) { 2333 case MATPRODUCT_AB: 2334 ierr = MatProductSetFromOptions_MPIAIJ_AB(C);CHKERRQ(ierr); 2335 break; 2336 case MATPRODUCT_AtB: 2337 ierr = MatProductSetFromOptions_MPIAIJ_AtB(C);CHKERRQ(ierr); 2338 break; 2339 case MATPRODUCT_PtAP: 2340 ierr = MatProductSetFromOptions_MPIAIJ_PtAP(C);CHKERRQ(ierr); 2341 break; 2342 case MATPRODUCT_RARt: 2343 ierr = MatProductSetFromOptions_MPIAIJ_RARt(C);CHKERRQ(ierr); 2344 break; 2345 case MATPRODUCT_ABC: 2346 ierr = MatProductSetFromOptions_MPIAIJ_ABC(C);CHKERRQ(ierr); 2347 break; 2348 default: 2349 break; 2350 } 2351 PetscFunctionReturn(0); 2352 } 2353