1 #define PETSCMAT_DLL 2 3 /* 4 Basic functions for basic parallel dense matrices. 5 */ 6 7 #include "src/mat/impls/dense/mpi/mpidense.h" /*I "petscmat.h" I*/ 8 9 #undef __FUNCT__ 10 #define __FUNCT__ "MatLUFactorSymbolic_MPIDense" 11 PetscErrorCode MatLUFactorSymbolic_MPIDense(Mat A,IS row,IS col,MatFactorInfo *info,Mat *fact) 12 { 13 PetscErrorCode ierr; 14 15 PetscFunctionBegin; 16 ierr = MatDuplicate(A,MAT_DO_NOT_COPY_VALUES,fact);CHKERRQ(ierr); 17 PetscFunctionReturn(0); 18 } 19 20 #undef __FUNCT__ 21 #define __FUNCT__ "MatCholeskyFactorSymbolic_MPIDense" 22 PetscErrorCode MatCholeskyFactorSymbolic_MPIDense(Mat A,IS perm,MatFactorInfo *info,Mat *fact) 23 { 24 PetscErrorCode ierr; 25 26 PetscFunctionBegin; 27 ierr = MatDuplicate(A,MAT_DO_NOT_COPY_VALUES,fact);CHKERRQ(ierr); 28 PetscFunctionReturn(0); 29 } 30 31 #undef __FUNCT__ 32 #define __FUNCT__ "MatDenseGetLocalMatrix" 33 /*@ 34 35 MatDenseGetLocalMatrix - For a MATMPIDENSE or MATSEQDENSE matrix returns the sequential 36 matrix that represents the operator. For sequential matrices it returns itself. 37 38 Input Parameter: 39 . A - the Seq or MPI dense matrix 40 41 Output Parameter: 42 . B - the inner matrix 43 44 Level: intermediate 45 46 @*/ 47 PetscErrorCode MatDenseGetLocalMatrix(Mat A,Mat *B) 48 { 49 Mat_MPIDense *mat = (Mat_MPIDense*)A->data; 50 PetscErrorCode ierr; 51 PetscTruth flg; 52 PetscMPIInt size; 53 54 PetscFunctionBegin; 55 ierr = PetscTypeCompare((PetscObject)A,MATMPIDENSE,&flg);CHKERRQ(ierr); 56 if (!flg) { /* this check sucks! */ 57 ierr = PetscTypeCompare((PetscObject)A,MATDENSE,&flg);CHKERRQ(ierr); 58 if (flg) { 59 ierr = MPI_Comm_size(A->comm,&size);CHKERRQ(ierr); 60 if (size == 1) flg = PETSC_FALSE; 61 } 62 } 63 if (flg) { 64 *B = mat->A; 65 } else { 66 *B = A; 67 } 68 PetscFunctionReturn(0); 69 } 70 71 #undef __FUNCT__ 72 #define __FUNCT__ "MatGetRow_MPIDense" 73 PetscErrorCode MatGetRow_MPIDense(Mat A,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 74 { 75 Mat_MPIDense *mat = (Mat_MPIDense*)A->data; 76 PetscErrorCode ierr; 77 PetscInt lrow,rstart = A->rmap.rstart,rend = A->rmap.rend; 78 79 PetscFunctionBegin; 80 if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_SUP,"only local rows") 81 lrow = row - rstart; 82 ierr = MatGetRow(mat->A,lrow,nz,(const PetscInt **)idx,(const PetscScalar **)v);CHKERRQ(ierr); 83 PetscFunctionReturn(0); 84 } 85 86 #undef __FUNCT__ 87 #define __FUNCT__ "MatRestoreRow_MPIDense" 88 PetscErrorCode MatRestoreRow_MPIDense(Mat mat,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 89 { 90 PetscErrorCode ierr; 91 92 PetscFunctionBegin; 93 if (idx) {ierr = PetscFree(*idx);CHKERRQ(ierr);} 94 if (v) {ierr = PetscFree(*v);CHKERRQ(ierr);} 95 PetscFunctionReturn(0); 96 } 97 98 EXTERN_C_BEGIN 99 #undef __FUNCT__ 100 #define __FUNCT__ "MatGetDiagonalBlock_MPIDense" 101 PetscErrorCode PETSCMAT_DLLEXPORT MatGetDiagonalBlock_MPIDense(Mat A,PetscTruth *iscopy,MatReuse reuse,Mat *B) 102 { 103 Mat_MPIDense *mdn = (Mat_MPIDense*)A->data; 104 PetscErrorCode ierr; 105 PetscInt m = A->rmap.n,rstart = A->rmap.rstart; 106 PetscScalar *array; 107 MPI_Comm comm; 108 109 PetscFunctionBegin; 110 if (A->rmap.N != A->cmap.N) SETERRQ(PETSC_ERR_SUP,"Only square matrices supported."); 111 112 /* The reuse aspect is not implemented efficiently */ 113 if (reuse) { ierr = MatDestroy(*B);CHKERRQ(ierr);} 114 115 ierr = PetscObjectGetComm((PetscObject)(mdn->A),&comm);CHKERRQ(ierr); 116 ierr = MatGetArray(mdn->A,&array);CHKERRQ(ierr); 117 ierr = MatCreate(comm,B);CHKERRQ(ierr); 118 ierr = MatSetSizes(*B,m,m,m,m);CHKERRQ(ierr); 119 ierr = MatSetType(*B,mdn->A->type_name);CHKERRQ(ierr); 120 ierr = MatSeqDenseSetPreallocation(*B,array+m*rstart);CHKERRQ(ierr); 121 ierr = MatRestoreArray(mdn->A,&array);CHKERRQ(ierr); 122 ierr = MatAssemblyBegin(*B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 123 ierr = MatAssemblyEnd(*B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 124 125 *iscopy = PETSC_TRUE; 126 PetscFunctionReturn(0); 127 } 128 EXTERN_C_END 129 130 #undef __FUNCT__ 131 #define __FUNCT__ "MatSetValues_MPIDense" 132 PetscErrorCode MatSetValues_MPIDense(Mat mat,PetscInt m,const PetscInt idxm[],PetscInt n,const PetscInt idxn[],const PetscScalar v[],InsertMode addv) 133 { 134 Mat_MPIDense *A = (Mat_MPIDense*)mat->data; 135 PetscErrorCode ierr; 136 PetscInt i,j,rstart = mat->rmap.rstart,rend = mat->rmap.rend,row; 137 PetscTruth roworiented = A->roworiented; 138 139 PetscFunctionBegin; 140 for (i=0; i<m; i++) { 141 if (idxm[i] < 0) continue; 142 if (idxm[i] >= mat->rmap.N) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Row too large"); 143 if (idxm[i] >= rstart && idxm[i] < rend) { 144 row = idxm[i] - rstart; 145 if (roworiented) { 146 ierr = MatSetValues(A->A,1,&row,n,idxn,v+i*n,addv);CHKERRQ(ierr); 147 } else { 148 for (j=0; j<n; j++) { 149 if (idxn[j] < 0) continue; 150 if (idxn[j] >= mat->cmap.N) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Column too large"); 151 ierr = MatSetValues(A->A,1,&row,1,&idxn[j],v+i+j*m,addv);CHKERRQ(ierr); 152 } 153 } 154 } else { 155 if (!A->donotstash) { 156 if (roworiented) { 157 ierr = MatStashValuesRow_Private(&mat->stash,idxm[i],n,idxn,v+i*n);CHKERRQ(ierr); 158 } else { 159 ierr = MatStashValuesCol_Private(&mat->stash,idxm[i],n,idxn,v+i,m);CHKERRQ(ierr); 160 } 161 } 162 } 163 } 164 PetscFunctionReturn(0); 165 } 166 167 #undef __FUNCT__ 168 #define __FUNCT__ "MatGetValues_MPIDense" 169 PetscErrorCode MatGetValues_MPIDense(Mat mat,PetscInt m,const PetscInt idxm[],PetscInt n,const PetscInt idxn[],PetscScalar v[]) 170 { 171 Mat_MPIDense *mdn = (Mat_MPIDense*)mat->data; 172 PetscErrorCode ierr; 173 PetscInt i,j,rstart = mat->rmap.rstart,rend = mat->rmap.rend,row; 174 175 PetscFunctionBegin; 176 for (i=0; i<m; i++) { 177 if (idxm[i] < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Negative row"); 178 if (idxm[i] >= mat->rmap.N) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Row too large"); 179 if (idxm[i] >= rstart && idxm[i] < rend) { 180 row = idxm[i] - rstart; 181 for (j=0; j<n; j++) { 182 if (idxn[j] < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Negative column"); 183 if (idxn[j] >= mat->cmap.N) { 184 SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Column too large"); 185 } 186 ierr = MatGetValues(mdn->A,1,&row,1,&idxn[j],v+i*n+j);CHKERRQ(ierr); 187 } 188 } else { 189 SETERRQ(PETSC_ERR_SUP,"Only local values currently supported"); 190 } 191 } 192 PetscFunctionReturn(0); 193 } 194 195 #undef __FUNCT__ 196 #define __FUNCT__ "MatGetArray_MPIDense" 197 PetscErrorCode MatGetArray_MPIDense(Mat A,PetscScalar *array[]) 198 { 199 Mat_MPIDense *a = (Mat_MPIDense*)A->data; 200 PetscErrorCode ierr; 201 202 PetscFunctionBegin; 203 ierr = MatGetArray(a->A,array);CHKERRQ(ierr); 204 PetscFunctionReturn(0); 205 } 206 207 #undef __FUNCT__ 208 #define __FUNCT__ "MatGetSubMatrix_MPIDense" 209 static PetscErrorCode MatGetSubMatrix_MPIDense(Mat A,IS isrow,IS iscol,PetscInt cs,MatReuse scall,Mat *B) 210 { 211 Mat_MPIDense *mat = (Mat_MPIDense*)A->data,*newmatd; 212 Mat_SeqDense *lmat = (Mat_SeqDense*)mat->A->data; 213 PetscErrorCode ierr; 214 PetscInt i,j,*irow,*icol,rstart,rend,nrows,ncols,nlrows,nlcols; 215 PetscScalar *av,*bv,*v = lmat->v; 216 Mat newmat; 217 218 PetscFunctionBegin; 219 ierr = ISGetIndices(isrow,&irow);CHKERRQ(ierr); 220 ierr = ISGetIndices(iscol,&icol);CHKERRQ(ierr); 221 ierr = ISGetLocalSize(isrow,&nrows);CHKERRQ(ierr); 222 ierr = ISGetLocalSize(iscol,&ncols);CHKERRQ(ierr); 223 224 /* No parallel redistribution currently supported! Should really check each index set 225 to comfirm that it is OK. ... Currently supports only submatrix same partitioning as 226 original matrix! */ 227 228 ierr = MatGetLocalSize(A,&nlrows,&nlcols);CHKERRQ(ierr); 229 ierr = MatGetOwnershipRange(A,&rstart,&rend);CHKERRQ(ierr); 230 231 /* Check submatrix call */ 232 if (scall == MAT_REUSE_MATRIX) { 233 /* SETERRQ(PETSC_ERR_ARG_SIZ,"Reused submatrix wrong size"); */ 234 /* Really need to test rows and column sizes! */ 235 newmat = *B; 236 } else { 237 /* Create and fill new matrix */ 238 ierr = MatCreate(A->comm,&newmat);CHKERRQ(ierr); 239 ierr = MatSetSizes(newmat,nrows,cs,PETSC_DECIDE,ncols);CHKERRQ(ierr); 240 ierr = MatSetType(newmat,A->type_name);CHKERRQ(ierr); 241 ierr = MatMPIDenseSetPreallocation(newmat,PETSC_NULL);CHKERRQ(ierr); 242 } 243 244 /* Now extract the data pointers and do the copy, column at a time */ 245 newmatd = (Mat_MPIDense*)newmat->data; 246 bv = ((Mat_SeqDense *)newmatd->A->data)->v; 247 248 for (i=0; i<ncols; i++) { 249 av = v + nlrows*icol[i]; 250 for (j=0; j<nrows; j++) { 251 *bv++ = av[irow[j] - rstart]; 252 } 253 } 254 255 /* Assemble the matrices so that the correct flags are set */ 256 ierr = MatAssemblyBegin(newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 257 ierr = MatAssemblyEnd(newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 258 259 /* Free work space */ 260 ierr = ISRestoreIndices(isrow,&irow);CHKERRQ(ierr); 261 ierr = ISRestoreIndices(iscol,&icol);CHKERRQ(ierr); 262 *B = newmat; 263 PetscFunctionReturn(0); 264 } 265 266 #undef __FUNCT__ 267 #define __FUNCT__ "MatRestoreArray_MPIDense" 268 PetscErrorCode MatRestoreArray_MPIDense(Mat A,PetscScalar *array[]) 269 { 270 PetscFunctionBegin; 271 PetscFunctionReturn(0); 272 } 273 274 #undef __FUNCT__ 275 #define __FUNCT__ "MatAssemblyBegin_MPIDense" 276 PetscErrorCode MatAssemblyBegin_MPIDense(Mat mat,MatAssemblyType mode) 277 { 278 Mat_MPIDense *mdn = (Mat_MPIDense*)mat->data; 279 MPI_Comm comm = mat->comm; 280 PetscErrorCode ierr; 281 PetscInt nstash,reallocs; 282 InsertMode addv; 283 284 PetscFunctionBegin; 285 /* make sure all processors are either in INSERTMODE or ADDMODE */ 286 ierr = MPI_Allreduce(&mat->insertmode,&addv,1,MPI_INT,MPI_BOR,comm);CHKERRQ(ierr); 287 if (addv == (ADD_VALUES|INSERT_VALUES)) { 288 SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Cannot mix adds/inserts on different procs"); 289 } 290 mat->insertmode = addv; /* in case this processor had no cache */ 291 292 ierr = MatStashScatterBegin_Private(&mat->stash,mat->rmap.range);CHKERRQ(ierr); 293 ierr = MatStashGetInfo_Private(&mat->stash,&nstash,&reallocs);CHKERRQ(ierr); 294 ierr = PetscInfo2(mdn->A,"Stash has %D entries, uses %D mallocs.\n",nstash,reallocs);CHKERRQ(ierr); 295 PetscFunctionReturn(0); 296 } 297 298 #undef __FUNCT__ 299 #define __FUNCT__ "MatAssemblyEnd_MPIDense" 300 PetscErrorCode MatAssemblyEnd_MPIDense(Mat mat,MatAssemblyType mode) 301 { 302 Mat_MPIDense *mdn=(Mat_MPIDense*)mat->data; 303 PetscErrorCode ierr; 304 PetscInt i,*row,*col,flg,j,rstart,ncols; 305 PetscMPIInt n; 306 PetscScalar *val; 307 InsertMode addv=mat->insertmode; 308 309 PetscFunctionBegin; 310 /* wait on receives */ 311 while (1) { 312 ierr = MatStashScatterGetMesg_Private(&mat->stash,&n,&row,&col,&val,&flg);CHKERRQ(ierr); 313 if (!flg) break; 314 315 for (i=0; i<n;) { 316 /* Now identify the consecutive vals belonging to the same row */ 317 for (j=i,rstart=row[j]; j<n; j++) { if (row[j] != rstart) break; } 318 if (j < n) ncols = j-i; 319 else ncols = n-i; 320 /* Now assemble all these values with a single function call */ 321 ierr = MatSetValues_MPIDense(mat,1,row+i,ncols,col+i,val+i,addv);CHKERRQ(ierr); 322 i = j; 323 } 324 } 325 ierr = MatStashScatterEnd_Private(&mat->stash);CHKERRQ(ierr); 326 327 ierr = MatAssemblyBegin(mdn->A,mode);CHKERRQ(ierr); 328 ierr = MatAssemblyEnd(mdn->A,mode);CHKERRQ(ierr); 329 330 if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) { 331 ierr = MatSetUpMultiply_MPIDense(mat);CHKERRQ(ierr); 332 } 333 PetscFunctionReturn(0); 334 } 335 336 #undef __FUNCT__ 337 #define __FUNCT__ "MatZeroEntries_MPIDense" 338 PetscErrorCode MatZeroEntries_MPIDense(Mat A) 339 { 340 PetscErrorCode ierr; 341 Mat_MPIDense *l = (Mat_MPIDense*)A->data; 342 343 PetscFunctionBegin; 344 ierr = MatZeroEntries(l->A);CHKERRQ(ierr); 345 PetscFunctionReturn(0); 346 } 347 348 /* the code does not do the diagonal entries correctly unless the 349 matrix is square and the column and row owerships are identical. 350 This is a BUG. The only way to fix it seems to be to access 351 mdn->A and mdn->B directly and not through the MatZeroRows() 352 routine. 353 */ 354 #undef __FUNCT__ 355 #define __FUNCT__ "MatZeroRows_MPIDense" 356 PetscErrorCode MatZeroRows_MPIDense(Mat A,PetscInt N,const PetscInt rows[],PetscScalar diag) 357 { 358 Mat_MPIDense *l = (Mat_MPIDense*)A->data; 359 PetscErrorCode ierr; 360 PetscInt i,*owners = A->rmap.range; 361 PetscInt *nprocs,j,idx,nsends; 362 PetscInt nmax,*svalues,*starts,*owner,nrecvs; 363 PetscInt *rvalues,tag = A->tag,count,base,slen,*source; 364 PetscInt *lens,*lrows,*values; 365 PetscMPIInt n,imdex,rank = l->rank,size = l->size; 366 MPI_Comm comm = A->comm; 367 MPI_Request *send_waits,*recv_waits; 368 MPI_Status recv_status,*send_status; 369 PetscTruth found; 370 371 PetscFunctionBegin; 372 /* first count number of contributors to each processor */ 373 ierr = PetscMalloc(2*size*sizeof(PetscInt),&nprocs);CHKERRQ(ierr); 374 ierr = PetscMemzero(nprocs,2*size*sizeof(PetscInt));CHKERRQ(ierr); 375 ierr = PetscMalloc((N+1)*sizeof(PetscInt),&owner);CHKERRQ(ierr); /* see note*/ 376 for (i=0; i<N; i++) { 377 idx = rows[i]; 378 found = PETSC_FALSE; 379 for (j=0; j<size; j++) { 380 if (idx >= owners[j] && idx < owners[j+1]) { 381 nprocs[2*j]++; nprocs[2*j+1] = 1; owner[i] = j; found = PETSC_TRUE; break; 382 } 383 } 384 if (!found) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Index out of range"); 385 } 386 nsends = 0; for (i=0; i<size; i++) { nsends += nprocs[2*i+1];} 387 388 /* inform other processors of number of messages and max length*/ 389 ierr = PetscMaxSum(comm,nprocs,&nmax,&nrecvs);CHKERRQ(ierr); 390 391 /* post receives: */ 392 ierr = PetscMalloc((nrecvs+1)*(nmax+1)*sizeof(PetscInt),&rvalues);CHKERRQ(ierr); 393 ierr = PetscMalloc((nrecvs+1)*sizeof(MPI_Request),&recv_waits);CHKERRQ(ierr); 394 for (i=0; i<nrecvs; i++) { 395 ierr = MPI_Irecv(rvalues+nmax*i,nmax,MPIU_INT,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr); 396 } 397 398 /* do sends: 399 1) starts[i] gives the starting index in svalues for stuff going to 400 the ith processor 401 */ 402 ierr = PetscMalloc((N+1)*sizeof(PetscInt),&svalues);CHKERRQ(ierr); 403 ierr = PetscMalloc((nsends+1)*sizeof(MPI_Request),&send_waits);CHKERRQ(ierr); 404 ierr = PetscMalloc((size+1)*sizeof(PetscInt),&starts);CHKERRQ(ierr); 405 starts[0] = 0; 406 for (i=1; i<size; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 407 for (i=0; i<N; i++) { 408 svalues[starts[owner[i]]++] = rows[i]; 409 } 410 411 starts[0] = 0; 412 for (i=1; i<size+1; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 413 count = 0; 414 for (i=0; i<size; i++) { 415 if (nprocs[2*i+1]) { 416 ierr = MPI_Isend(svalues+starts[i],nprocs[2*i],MPIU_INT,i,tag,comm,send_waits+count++);CHKERRQ(ierr); 417 } 418 } 419 ierr = PetscFree(starts);CHKERRQ(ierr); 420 421 base = owners[rank]; 422 423 /* wait on receives */ 424 ierr = PetscMalloc(2*(nrecvs+1)*sizeof(PetscInt),&lens);CHKERRQ(ierr); 425 source = lens + nrecvs; 426 count = nrecvs; slen = 0; 427 while (count) { 428 ierr = MPI_Waitany(nrecvs,recv_waits,&imdex,&recv_status);CHKERRQ(ierr); 429 /* unpack receives into our local space */ 430 ierr = MPI_Get_count(&recv_status,MPIU_INT,&n);CHKERRQ(ierr); 431 source[imdex] = recv_status.MPI_SOURCE; 432 lens[imdex] = n; 433 slen += n; 434 count--; 435 } 436 ierr = PetscFree(recv_waits);CHKERRQ(ierr); 437 438 /* move the data into the send scatter */ 439 ierr = PetscMalloc((slen+1)*sizeof(PetscInt),&lrows);CHKERRQ(ierr); 440 count = 0; 441 for (i=0; i<nrecvs; i++) { 442 values = rvalues + i*nmax; 443 for (j=0; j<lens[i]; j++) { 444 lrows[count++] = values[j] - base; 445 } 446 } 447 ierr = PetscFree(rvalues);CHKERRQ(ierr); 448 ierr = PetscFree(lens);CHKERRQ(ierr); 449 ierr = PetscFree(owner);CHKERRQ(ierr); 450 ierr = PetscFree(nprocs);CHKERRQ(ierr); 451 452 /* actually zap the local rows */ 453 ierr = MatZeroRows(l->A,slen,lrows,diag);CHKERRQ(ierr); 454 ierr = PetscFree(lrows);CHKERRQ(ierr); 455 456 /* wait on sends */ 457 if (nsends) { 458 ierr = PetscMalloc(nsends*sizeof(MPI_Status),&send_status);CHKERRQ(ierr); 459 ierr = MPI_Waitall(nsends,send_waits,send_status);CHKERRQ(ierr); 460 ierr = PetscFree(send_status);CHKERRQ(ierr); 461 } 462 ierr = PetscFree(send_waits);CHKERRQ(ierr); 463 ierr = PetscFree(svalues);CHKERRQ(ierr); 464 465 PetscFunctionReturn(0); 466 } 467 468 #undef __FUNCT__ 469 #define __FUNCT__ "MatMult_MPIDense" 470 PetscErrorCode MatMult_MPIDense(Mat mat,Vec xx,Vec yy) 471 { 472 Mat_MPIDense *mdn = (Mat_MPIDense*)mat->data; 473 PetscErrorCode ierr; 474 475 PetscFunctionBegin; 476 ierr = VecScatterBegin(xx,mdn->lvec,INSERT_VALUES,SCATTER_FORWARD,mdn->Mvctx);CHKERRQ(ierr); 477 ierr = VecScatterEnd(xx,mdn->lvec,INSERT_VALUES,SCATTER_FORWARD,mdn->Mvctx);CHKERRQ(ierr); 478 ierr = MatMult_SeqDense(mdn->A,mdn->lvec,yy);CHKERRQ(ierr); 479 PetscFunctionReturn(0); 480 } 481 482 #undef __FUNCT__ 483 #define __FUNCT__ "MatMultAdd_MPIDense" 484 PetscErrorCode MatMultAdd_MPIDense(Mat mat,Vec xx,Vec yy,Vec zz) 485 { 486 Mat_MPIDense *mdn = (Mat_MPIDense*)mat->data; 487 PetscErrorCode ierr; 488 489 PetscFunctionBegin; 490 ierr = VecScatterBegin(xx,mdn->lvec,INSERT_VALUES,SCATTER_FORWARD,mdn->Mvctx);CHKERRQ(ierr); 491 ierr = VecScatterEnd(xx,mdn->lvec,INSERT_VALUES,SCATTER_FORWARD,mdn->Mvctx);CHKERRQ(ierr); 492 ierr = MatMultAdd_SeqDense(mdn->A,mdn->lvec,yy,zz);CHKERRQ(ierr); 493 PetscFunctionReturn(0); 494 } 495 496 #undef __FUNCT__ 497 #define __FUNCT__ "MatMultTranspose_MPIDense" 498 PetscErrorCode MatMultTranspose_MPIDense(Mat A,Vec xx,Vec yy) 499 { 500 Mat_MPIDense *a = (Mat_MPIDense*)A->data; 501 PetscErrorCode ierr; 502 PetscScalar zero = 0.0; 503 504 PetscFunctionBegin; 505 ierr = VecSet(yy,zero);CHKERRQ(ierr); 506 ierr = MatMultTranspose_SeqDense(a->A,xx,a->lvec);CHKERRQ(ierr); 507 ierr = VecScatterBegin(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 508 ierr = VecScatterEnd(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 509 PetscFunctionReturn(0); 510 } 511 512 #undef __FUNCT__ 513 #define __FUNCT__ "MatMultTransposeAdd_MPIDense" 514 PetscErrorCode MatMultTransposeAdd_MPIDense(Mat A,Vec xx,Vec yy,Vec zz) 515 { 516 Mat_MPIDense *a = (Mat_MPIDense*)A->data; 517 PetscErrorCode ierr; 518 519 PetscFunctionBegin; 520 ierr = VecCopy(yy,zz);CHKERRQ(ierr); 521 ierr = MatMultTranspose_SeqDense(a->A,xx,a->lvec);CHKERRQ(ierr); 522 ierr = VecScatterBegin(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 523 ierr = VecScatterEnd(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 524 PetscFunctionReturn(0); 525 } 526 527 #undef __FUNCT__ 528 #define __FUNCT__ "MatGetDiagonal_MPIDense" 529 PetscErrorCode MatGetDiagonal_MPIDense(Mat A,Vec v) 530 { 531 Mat_MPIDense *a = (Mat_MPIDense*)A->data; 532 Mat_SeqDense *aloc = (Mat_SeqDense*)a->A->data; 533 PetscErrorCode ierr; 534 PetscInt len,i,n,m = A->rmap.n,radd; 535 PetscScalar *x,zero = 0.0; 536 537 PetscFunctionBegin; 538 ierr = VecSet(v,zero);CHKERRQ(ierr); 539 ierr = VecGetArray(v,&x);CHKERRQ(ierr); 540 ierr = VecGetSize(v,&n);CHKERRQ(ierr); 541 if (n != A->rmap.N) SETERRQ(PETSC_ERR_ARG_SIZ,"Nonconforming mat and vec"); 542 len = PetscMin(a->A->rmap.n,a->A->cmap.n); 543 radd = A->rmap.rstart*m; 544 for (i=0; i<len; i++) { 545 x[i] = aloc->v[radd + i*m + i]; 546 } 547 ierr = VecRestoreArray(v,&x);CHKERRQ(ierr); 548 PetscFunctionReturn(0); 549 } 550 551 #undef __FUNCT__ 552 #define __FUNCT__ "MatDestroy_MPIDense" 553 PetscErrorCode MatDestroy_MPIDense(Mat mat) 554 { 555 Mat_MPIDense *mdn = (Mat_MPIDense*)mat->data; 556 PetscErrorCode ierr; 557 558 PetscFunctionBegin; 559 560 #if defined(PETSC_USE_LOG) 561 PetscLogObjectState((PetscObject)mat,"Rows=%D, Cols=%D",mat->rmap.N,mat->cmap.N); 562 #endif 563 ierr = MatStashDestroy_Private(&mat->stash);CHKERRQ(ierr); 564 ierr = MatDestroy(mdn->A);CHKERRQ(ierr); 565 if (mdn->lvec) {ierr = VecDestroy(mdn->lvec);CHKERRQ(ierr);} 566 if (mdn->Mvctx) {ierr = VecScatterDestroy(mdn->Mvctx);CHKERRQ(ierr);} 567 if (mdn->factor) { 568 ierr = PetscFree(mdn->factor->temp);CHKERRQ(ierr); 569 ierr = PetscFree(mdn->factor->tag);CHKERRQ(ierr); 570 ierr = PetscFree(mdn->factor->pivots);CHKERRQ(ierr); 571 ierr = PetscFree(mdn->factor);CHKERRQ(ierr); 572 } 573 ierr = PetscFree(mdn);CHKERRQ(ierr); 574 ierr = PetscObjectComposeFunctionDynamic((PetscObject)mat,"MatGetDiagonalBlock_C","",PETSC_NULL);CHKERRQ(ierr); 575 ierr = PetscObjectComposeFunctionDynamic((PetscObject)mat,"MatMPIDenseSetPreallocation_C","",PETSC_NULL);CHKERRQ(ierr); 576 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMatMult_mpiaij_mpidense_C","",PETSC_NULL);CHKERRQ(ierr); 577 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMatMultSymbolic_mpiaij_mpidense_C","",PETSC_NULL);CHKERRQ(ierr); 578 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMatMultNumeric_mpiaij_mpidense_C","",PETSC_NULL);CHKERRQ(ierr); 579 PetscFunctionReturn(0); 580 } 581 582 #undef __FUNCT__ 583 #define __FUNCT__ "MatView_MPIDense_Binary" 584 static PetscErrorCode MatView_MPIDense_Binary(Mat mat,PetscViewer viewer) 585 { 586 Mat_MPIDense *mdn = (Mat_MPIDense*)mat->data; 587 PetscErrorCode ierr; 588 589 PetscFunctionBegin; 590 if (mdn->size == 1) { 591 ierr = MatView(mdn->A,viewer);CHKERRQ(ierr); 592 } 593 else SETERRQ(PETSC_ERR_SUP,"Only uniprocessor output supported"); 594 PetscFunctionReturn(0); 595 } 596 597 #undef __FUNCT__ 598 #define __FUNCT__ "MatView_MPIDense_ASCIIorDraworSocket" 599 static PetscErrorCode MatView_MPIDense_ASCIIorDraworSocket(Mat mat,PetscViewer viewer) 600 { 601 Mat_MPIDense *mdn = (Mat_MPIDense*)mat->data; 602 PetscErrorCode ierr; 603 PetscMPIInt size = mdn->size,rank = mdn->rank; 604 PetscViewerType vtype; 605 PetscTruth iascii,isdraw; 606 PetscViewer sviewer; 607 PetscViewerFormat format; 608 609 PetscFunctionBegin; 610 ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 611 ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 612 if (iascii) { 613 ierr = PetscViewerGetType(viewer,&vtype);CHKERRQ(ierr); 614 ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr); 615 if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) { 616 MatInfo info; 617 ierr = MatGetInfo(mat,MAT_LOCAL,&info);CHKERRQ(ierr); 618 ierr = PetscViewerASCIISynchronizedPrintf(viewer," [%d] local rows %D nz %D nz alloced %D mem %D \n",rank,mat->rmap.n, 619 (PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr); 620 ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 621 ierr = VecScatterView(mdn->Mvctx,viewer);CHKERRQ(ierr); 622 PetscFunctionReturn(0); 623 } else if (format == PETSC_VIEWER_ASCII_INFO) { 624 PetscFunctionReturn(0); 625 } 626 } else if (isdraw) { 627 PetscDraw draw; 628 PetscTruth isnull; 629 630 ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr); 631 ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); 632 if (isnull) PetscFunctionReturn(0); 633 } 634 635 if (size == 1) { 636 ierr = MatView(mdn->A,viewer);CHKERRQ(ierr); 637 } else { 638 /* assemble the entire matrix onto first processor. */ 639 Mat A; 640 PetscInt M = mat->rmap.N,N = mat->cmap.N,m,row,i,nz; 641 PetscInt *cols; 642 PetscScalar *vals; 643 644 ierr = MatCreate(mat->comm,&A);CHKERRQ(ierr); 645 if (!rank) { 646 ierr = MatSetSizes(A,M,N,M,N);CHKERRQ(ierr); 647 } else { 648 ierr = MatSetSizes(A,0,0,M,N);CHKERRQ(ierr); 649 } 650 /* Since this is a temporary matrix, MATMPIDENSE instead of A->type_name here is probably acceptable. */ 651 ierr = MatSetType(A,MATMPIDENSE);CHKERRQ(ierr); 652 ierr = MatMPIDenseSetPreallocation(A,PETSC_NULL); 653 ierr = PetscLogObjectParent(mat,A);CHKERRQ(ierr); 654 655 /* Copy the matrix ... This isn't the most efficient means, 656 but it's quick for now */ 657 A->insertmode = INSERT_VALUES; 658 row = mat->rmap.rstart; m = mdn->A->rmap.n; 659 for (i=0; i<m; i++) { 660 ierr = MatGetRow_MPIDense(mat,row,&nz,&cols,&vals);CHKERRQ(ierr); 661 ierr = MatSetValues_MPIDense(A,1,&row,nz,cols,vals,INSERT_VALUES);CHKERRQ(ierr); 662 ierr = MatRestoreRow_MPIDense(mat,row,&nz,&cols,&vals);CHKERRQ(ierr); 663 row++; 664 } 665 666 ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 667 ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 668 ierr = PetscViewerGetSingleton(viewer,&sviewer);CHKERRQ(ierr); 669 if (!rank) { 670 ierr = MatView(((Mat_MPIDense*)(A->data))->A,sviewer);CHKERRQ(ierr); 671 } 672 ierr = PetscViewerRestoreSingleton(viewer,&sviewer);CHKERRQ(ierr); 673 ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 674 ierr = MatDestroy(A);CHKERRQ(ierr); 675 } 676 PetscFunctionReturn(0); 677 } 678 679 #undef __FUNCT__ 680 #define __FUNCT__ "MatView_MPIDense" 681 PetscErrorCode MatView_MPIDense(Mat mat,PetscViewer viewer) 682 { 683 PetscErrorCode ierr; 684 PetscTruth iascii,isbinary,isdraw,issocket; 685 686 PetscFunctionBegin; 687 688 ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 689 ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 690 ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_SOCKET,&issocket);CHKERRQ(ierr); 691 ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 692 693 if (iascii || issocket || isdraw) { 694 ierr = MatView_MPIDense_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr); 695 } else if (isbinary) { 696 ierr = MatView_MPIDense_Binary(mat,viewer);CHKERRQ(ierr); 697 } else { 698 SETERRQ1(PETSC_ERR_SUP,"Viewer type %s not supported by MPI dense matrix",((PetscObject)viewer)->type_name); 699 } 700 PetscFunctionReturn(0); 701 } 702 703 #undef __FUNCT__ 704 #define __FUNCT__ "MatGetInfo_MPIDense" 705 PetscErrorCode MatGetInfo_MPIDense(Mat A,MatInfoType flag,MatInfo *info) 706 { 707 Mat_MPIDense *mat = (Mat_MPIDense*)A->data; 708 Mat mdn = mat->A; 709 PetscErrorCode ierr; 710 PetscReal isend[5],irecv[5]; 711 712 PetscFunctionBegin; 713 info->rows_global = (double)A->rmap.N; 714 info->columns_global = (double)A->cmap.N; 715 info->rows_local = (double)A->rmap.n; 716 info->columns_local = (double)A->cmap.N; 717 info->block_size = 1.0; 718 ierr = MatGetInfo(mdn,MAT_LOCAL,info);CHKERRQ(ierr); 719 isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded; 720 isend[3] = info->memory; isend[4] = info->mallocs; 721 if (flag == MAT_LOCAL) { 722 info->nz_used = isend[0]; 723 info->nz_allocated = isend[1]; 724 info->nz_unneeded = isend[2]; 725 info->memory = isend[3]; 726 info->mallocs = isend[4]; 727 } else if (flag == MAT_GLOBAL_MAX) { 728 ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_MAX,A->comm);CHKERRQ(ierr); 729 info->nz_used = irecv[0]; 730 info->nz_allocated = irecv[1]; 731 info->nz_unneeded = irecv[2]; 732 info->memory = irecv[3]; 733 info->mallocs = irecv[4]; 734 } else if (flag == MAT_GLOBAL_SUM) { 735 ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_SUM,A->comm);CHKERRQ(ierr); 736 info->nz_used = irecv[0]; 737 info->nz_allocated = irecv[1]; 738 info->nz_unneeded = irecv[2]; 739 info->memory = irecv[3]; 740 info->mallocs = irecv[4]; 741 } 742 info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 743 info->fill_ratio_needed = 0; 744 info->factor_mallocs = 0; 745 PetscFunctionReturn(0); 746 } 747 748 #undef __FUNCT__ 749 #define __FUNCT__ "MatSetOption_MPIDense" 750 PetscErrorCode MatSetOption_MPIDense(Mat A,MatOption op) 751 { 752 Mat_MPIDense *a = (Mat_MPIDense*)A->data; 753 PetscErrorCode ierr; 754 755 PetscFunctionBegin; 756 switch (op) { 757 case MAT_NO_NEW_NONZERO_LOCATIONS: 758 case MAT_YES_NEW_NONZERO_LOCATIONS: 759 case MAT_NEW_NONZERO_LOCATION_ERR: 760 case MAT_NEW_NONZERO_ALLOCATION_ERR: 761 case MAT_COLUMNS_SORTED: 762 case MAT_COLUMNS_UNSORTED: 763 ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 764 break; 765 case MAT_ROW_ORIENTED: 766 a->roworiented = PETSC_TRUE; 767 ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 768 break; 769 case MAT_ROWS_SORTED: 770 case MAT_ROWS_UNSORTED: 771 case MAT_YES_NEW_DIAGONALS: 772 case MAT_USE_HASH_TABLE: 773 ierr = PetscInfo1(A,"Option %d ignored\n",op);CHKERRQ(ierr); 774 break; 775 case MAT_COLUMN_ORIENTED: 776 a->roworiented = PETSC_FALSE; 777 ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 778 break; 779 case MAT_IGNORE_OFF_PROC_ENTRIES: 780 a->donotstash = PETSC_TRUE; 781 break; 782 case MAT_NO_NEW_DIAGONALS: 783 SETERRQ(PETSC_ERR_SUP,"MAT_NO_NEW_DIAGONALS"); 784 case MAT_SYMMETRIC: 785 case MAT_STRUCTURALLY_SYMMETRIC: 786 case MAT_NOT_SYMMETRIC: 787 case MAT_NOT_STRUCTURALLY_SYMMETRIC: 788 case MAT_HERMITIAN: 789 case MAT_NOT_HERMITIAN: 790 case MAT_SYMMETRY_ETERNAL: 791 case MAT_NOT_SYMMETRY_ETERNAL: 792 break; 793 default: 794 SETERRQ1(PETSC_ERR_SUP,"unknown option %d",op); 795 } 796 PetscFunctionReturn(0); 797 } 798 799 800 #undef __FUNCT__ 801 #define __FUNCT__ "MatDiagonalScale_MPIDense" 802 PetscErrorCode MatDiagonalScale_MPIDense(Mat A,Vec ll,Vec rr) 803 { 804 Mat_MPIDense *mdn = (Mat_MPIDense*)A->data; 805 Mat_SeqDense *mat = (Mat_SeqDense*)mdn->A->data; 806 PetscScalar *l,*r,x,*v; 807 PetscErrorCode ierr; 808 PetscInt i,j,s2a,s3a,s2,s3,m=mdn->A->rmap.n,n=mdn->A->cmap.n; 809 810 PetscFunctionBegin; 811 ierr = MatGetLocalSize(A,&s2,&s3);CHKERRQ(ierr); 812 if (ll) { 813 ierr = VecGetLocalSize(ll,&s2a);CHKERRQ(ierr); 814 if (s2a != s2) SETERRQ2(PETSC_ERR_ARG_SIZ,"Left scaling vector non-conforming local size, %d != %d.", s2a, s2); 815 ierr = VecGetArray(ll,&l);CHKERRQ(ierr); 816 for (i=0; i<m; i++) { 817 x = l[i]; 818 v = mat->v + i; 819 for (j=0; j<n; j++) { (*v) *= x; v+= m;} 820 } 821 ierr = VecRestoreArray(ll,&l);CHKERRQ(ierr); 822 ierr = PetscLogFlops(n*m);CHKERRQ(ierr); 823 } 824 if (rr) { 825 ierr = VecGetLocalSize(rr,&s3a);CHKERRQ(ierr); 826 if (s3a != s3) SETERRQ2(PETSC_ERR_ARG_SIZ,"Right scaling vec non-conforming local size, %d != %d.", s3a, s3); 827 ierr = VecScatterBegin(rr,mdn->lvec,INSERT_VALUES,SCATTER_FORWARD,mdn->Mvctx);CHKERRQ(ierr); 828 ierr = VecScatterEnd(rr,mdn->lvec,INSERT_VALUES,SCATTER_FORWARD,mdn->Mvctx);CHKERRQ(ierr); 829 ierr = VecGetArray(mdn->lvec,&r);CHKERRQ(ierr); 830 for (i=0; i<n; i++) { 831 x = r[i]; 832 v = mat->v + i*m; 833 for (j=0; j<m; j++) { (*v++) *= x;} 834 } 835 ierr = VecRestoreArray(mdn->lvec,&r);CHKERRQ(ierr); 836 ierr = PetscLogFlops(n*m);CHKERRQ(ierr); 837 } 838 PetscFunctionReturn(0); 839 } 840 841 #undef __FUNCT__ 842 #define __FUNCT__ "MatNorm_MPIDense" 843 PetscErrorCode MatNorm_MPIDense(Mat A,NormType type,PetscReal *nrm) 844 { 845 Mat_MPIDense *mdn = (Mat_MPIDense*)A->data; 846 Mat_SeqDense *mat = (Mat_SeqDense*)mdn->A->data; 847 PetscErrorCode ierr; 848 PetscInt i,j; 849 PetscReal sum = 0.0; 850 PetscScalar *v = mat->v; 851 852 PetscFunctionBegin; 853 if (mdn->size == 1) { 854 ierr = MatNorm(mdn->A,type,nrm);CHKERRQ(ierr); 855 } else { 856 if (type == NORM_FROBENIUS) { 857 for (i=0; i<mdn->A->cmap.n*mdn->A->rmap.n; i++) { 858 #if defined(PETSC_USE_COMPLEX) 859 sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 860 #else 861 sum += (*v)*(*v); v++; 862 #endif 863 } 864 ierr = MPI_Allreduce(&sum,nrm,1,MPIU_REAL,MPI_SUM,A->comm);CHKERRQ(ierr); 865 *nrm = sqrt(*nrm); 866 ierr = PetscLogFlops(2*mdn->A->cmap.n*mdn->A->rmap.n);CHKERRQ(ierr); 867 } else if (type == NORM_1) { 868 PetscReal *tmp,*tmp2; 869 ierr = PetscMalloc(2*A->cmap.N*sizeof(PetscReal),&tmp);CHKERRQ(ierr); 870 tmp2 = tmp + A->cmap.N; 871 ierr = PetscMemzero(tmp,2*A->cmap.N*sizeof(PetscReal));CHKERRQ(ierr); 872 *nrm = 0.0; 873 v = mat->v; 874 for (j=0; j<mdn->A->cmap.n; j++) { 875 for (i=0; i<mdn->A->rmap.n; i++) { 876 tmp[j] += PetscAbsScalar(*v); v++; 877 } 878 } 879 ierr = MPI_Allreduce(tmp,tmp2,A->cmap.N,MPIU_REAL,MPI_SUM,A->comm);CHKERRQ(ierr); 880 for (j=0; j<A->cmap.N; j++) { 881 if (tmp2[j] > *nrm) *nrm = tmp2[j]; 882 } 883 ierr = PetscFree(tmp);CHKERRQ(ierr); 884 ierr = PetscLogFlops(A->cmap.n*A->rmap.n);CHKERRQ(ierr); 885 } else if (type == NORM_INFINITY) { /* max row norm */ 886 PetscReal ntemp; 887 ierr = MatNorm(mdn->A,type,&ntemp);CHKERRQ(ierr); 888 ierr = MPI_Allreduce(&ntemp,nrm,1,MPIU_REAL,MPI_MAX,A->comm);CHKERRQ(ierr); 889 } else { 890 SETERRQ(PETSC_ERR_SUP,"No support for two norm"); 891 } 892 } 893 PetscFunctionReturn(0); 894 } 895 896 #undef __FUNCT__ 897 #define __FUNCT__ "MatTranspose_MPIDense" 898 PetscErrorCode MatTranspose_MPIDense(Mat A,Mat *matout) 899 { 900 Mat_MPIDense *a = (Mat_MPIDense*)A->data; 901 Mat_SeqDense *Aloc = (Mat_SeqDense*)a->A->data; 902 Mat B; 903 PetscInt M = A->rmap.N,N = A->cmap.N,m,n,*rwork,rstart = A->rmap.rstart; 904 PetscErrorCode ierr; 905 PetscInt j,i; 906 PetscScalar *v; 907 908 PetscFunctionBegin; 909 if (!matout && M != N) { 910 SETERRQ(PETSC_ERR_SUP,"Supports square matrix only in-place"); 911 } 912 ierr = MatCreate(A->comm,&B);CHKERRQ(ierr); 913 ierr = MatSetSizes(B,PETSC_DECIDE,PETSC_DECIDE,N,M);CHKERRQ(ierr); 914 ierr = MatSetType(B,A->type_name);CHKERRQ(ierr); 915 ierr = MatMPIDenseSetPreallocation(B,PETSC_NULL);CHKERRQ(ierr); 916 917 m = a->A->rmap.n; n = a->A->cmap.n; v = Aloc->v; 918 ierr = PetscMalloc(n*sizeof(PetscInt),&rwork);CHKERRQ(ierr); 919 for (j=0; j<n; j++) { 920 for (i=0; i<m; i++) rwork[i] = rstart + i; 921 ierr = MatSetValues(B,1,&j,m,rwork,v,INSERT_VALUES);CHKERRQ(ierr); 922 v += m; 923 } 924 ierr = PetscFree(rwork);CHKERRQ(ierr); 925 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 926 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 927 if (matout) { 928 *matout = B; 929 } else { 930 ierr = MatHeaderCopy(A,B);CHKERRQ(ierr); 931 } 932 PetscFunctionReturn(0); 933 } 934 935 #include "petscblaslapack.h" 936 #undef __FUNCT__ 937 #define __FUNCT__ "MatScale_MPIDense" 938 PetscErrorCode MatScale_MPIDense(Mat inA,PetscScalar alpha) 939 { 940 Mat_MPIDense *A = (Mat_MPIDense*)inA->data; 941 Mat_SeqDense *a = (Mat_SeqDense*)A->A->data; 942 PetscScalar oalpha = alpha; 943 PetscBLASInt one = 1,nz = (PetscBLASInt)inA->rmap.n*inA->cmap.N; 944 PetscErrorCode ierr; 945 946 PetscFunctionBegin; 947 BLASscal_(&nz,&oalpha,a->v,&one); 948 ierr = PetscLogFlops(nz);CHKERRQ(ierr); 949 PetscFunctionReturn(0); 950 } 951 952 static PetscErrorCode MatDuplicate_MPIDense(Mat,MatDuplicateOption,Mat *); 953 954 #undef __FUNCT__ 955 #define __FUNCT__ "MatSetUpPreallocation_MPIDense" 956 PetscErrorCode MatSetUpPreallocation_MPIDense(Mat A) 957 { 958 PetscErrorCode ierr; 959 960 PetscFunctionBegin; 961 ierr = MatMPIDenseSetPreallocation(A,0);CHKERRQ(ierr); 962 PetscFunctionReturn(0); 963 } 964 965 #undef __FUNCT__ 966 #define __FUNCT__ "MatMatMultSymbolic_MPIDense_MPIDense" 967 PetscErrorCode MatMatMultSymbolic_MPIDense_MPIDense(Mat A,Mat B,PetscReal fill,Mat *C) 968 { 969 PetscErrorCode ierr; 970 PetscInt m=A->rmap.n,n=B->cmap.n; 971 Mat Cmat; 972 973 PetscFunctionBegin; 974 if (A->cmap.n != B->rmap.n) SETERRQ2(PETSC_ERR_ARG_SIZ,"A->cmap.n %d != B->rmap.n %d\n",A->cmap.n,B->rmap.n); 975 ierr = MatCreate(B->comm,&Cmat);CHKERRQ(ierr); 976 ierr = MatSetSizes(Cmat,m,n,A->rmap.N,B->cmap.N);CHKERRQ(ierr); 977 ierr = MatSetType(Cmat,MATMPIDENSE);CHKERRQ(ierr); 978 ierr = MatMPIDenseSetPreallocation(Cmat,PETSC_NULL);CHKERRQ(ierr); 979 ierr = MatAssemblyBegin(Cmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 980 ierr = MatAssemblyEnd(Cmatg,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 981 *C = Cmat; 982 PetscFunctionReturn(0); 983 } 984 985 /* -------------------------------------------------------------------*/ 986 static struct _MatOps MatOps_Values = {MatSetValues_MPIDense, 987 MatGetRow_MPIDense, 988 MatRestoreRow_MPIDense, 989 MatMult_MPIDense, 990 /* 4*/ MatMultAdd_MPIDense, 991 MatMultTranspose_MPIDense, 992 MatMultTransposeAdd_MPIDense, 993 0, 994 0, 995 0, 996 /*10*/ 0, 997 0, 998 0, 999 0, 1000 MatTranspose_MPIDense, 1001 /*15*/ MatGetInfo_MPIDense, 1002 MatEqual_MPIDense, 1003 MatGetDiagonal_MPIDense, 1004 MatDiagonalScale_MPIDense, 1005 MatNorm_MPIDense, 1006 /*20*/ MatAssemblyBegin_MPIDense, 1007 MatAssemblyEnd_MPIDense, 1008 0, 1009 MatSetOption_MPIDense, 1010 MatZeroEntries_MPIDense, 1011 /*25*/ MatZeroRows_MPIDense, 1012 MatLUFactorSymbolic_MPIDense, 1013 0, 1014 MatCholeskyFactorSymbolic_MPIDense, 1015 0, 1016 /*30*/ MatSetUpPreallocation_MPIDense, 1017 0, 1018 0, 1019 MatGetArray_MPIDense, 1020 MatRestoreArray_MPIDense, 1021 /*35*/ MatDuplicate_MPIDense, 1022 0, 1023 0, 1024 0, 1025 0, 1026 /*40*/ 0, 1027 MatGetSubMatrices_MPIDense, 1028 0, 1029 MatGetValues_MPIDense, 1030 0, 1031 /*45*/ 0, 1032 MatScale_MPIDense, 1033 0, 1034 0, 1035 0, 1036 /*50*/ 0, 1037 0, 1038 0, 1039 0, 1040 0, 1041 /*55*/ 0, 1042 0, 1043 0, 1044 0, 1045 0, 1046 /*60*/ MatGetSubMatrix_MPIDense, 1047 MatDestroy_MPIDense, 1048 MatView_MPIDense, 1049 0, 1050 0, 1051 /*65*/ 0, 1052 0, 1053 0, 1054 0, 1055 0, 1056 /*70*/ 0, 1057 0, 1058 0, 1059 0, 1060 0, 1061 /*75*/ 0, 1062 0, 1063 0, 1064 0, 1065 0, 1066 /*80*/ 0, 1067 0, 1068 0, 1069 0, 1070 /*84*/ MatLoad_MPIDense, 1071 0, 1072 0, 1073 0, 1074 0, 1075 0, 1076 /*90*/ 0, 1077 MatMatMultSymbolic_MPIDense_MPIDense, 1078 0, 1079 0, 1080 0, 1081 /*95*/ 0, 1082 0, 1083 0, 1084 0}; 1085 1086 EXTERN_C_BEGIN 1087 #undef __FUNCT__ 1088 #define __FUNCT__ "MatMPIDenseSetPreallocation_MPIDense" 1089 PetscErrorCode PETSCMAT_DLLEXPORT MatMPIDenseSetPreallocation_MPIDense(Mat mat,PetscScalar *data) 1090 { 1091 Mat_MPIDense *a; 1092 PetscErrorCode ierr; 1093 1094 PetscFunctionBegin; 1095 mat->preallocated = PETSC_TRUE; 1096 /* Note: For now, when data is specified above, this assumes the user correctly 1097 allocates the local dense storage space. We should add error checking. */ 1098 1099 a = (Mat_MPIDense*)mat->data; 1100 ierr = MatCreate(PETSC_COMM_SELF,&a->A);CHKERRQ(ierr); 1101 ierr = MatSetSizes(a->A,mat->rmap.n,mat->cmap.N,mat->rmap.n,mat->cmap.N);CHKERRQ(ierr); 1102 ierr = MatSetType(a->A,MATSEQDENSE);CHKERRQ(ierr); 1103 ierr = MatSeqDenseSetPreallocation(a->A,data);CHKERRQ(ierr); 1104 ierr = PetscLogObjectParent(mat,a->A);CHKERRQ(ierr); 1105 PetscFunctionReturn(0); 1106 } 1107 EXTERN_C_END 1108 1109 /*MC 1110 MATMPIDENSE - MATMPIDENSE = "mpidense" - A matrix type to be used for distributed dense matrices. 1111 1112 Options Database Keys: 1113 . -mat_type mpidense - sets the matrix type to "mpidense" during a call to MatSetFromOptions() 1114 1115 Level: beginner 1116 1117 .seealso: MatCreateMPIDense 1118 M*/ 1119 1120 EXTERN_C_BEGIN 1121 #undef __FUNCT__ 1122 #define __FUNCT__ "MatCreate_MPIDense" 1123 PetscErrorCode PETSCMAT_DLLEXPORT MatCreate_MPIDense(Mat mat) 1124 { 1125 Mat_MPIDense *a; 1126 PetscErrorCode ierr; 1127 1128 PetscFunctionBegin; 1129 ierr = PetscNew(Mat_MPIDense,&a);CHKERRQ(ierr); 1130 mat->data = (void*)a; 1131 ierr = PetscMemcpy(mat->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr); 1132 mat->factor = 0; 1133 mat->mapping = 0; 1134 1135 a->factor = 0; 1136 mat->insertmode = NOT_SET_VALUES; 1137 ierr = MPI_Comm_rank(mat->comm,&a->rank);CHKERRQ(ierr); 1138 ierr = MPI_Comm_size(mat->comm,&a->size);CHKERRQ(ierr); 1139 1140 mat->rmap.bs = mat->cmap.bs = 1; 1141 ierr = PetscMapInitialize(mat->comm,&mat->rmap);CHKERRQ(ierr); 1142 ierr = PetscMapInitialize(mat->comm,&mat->cmap);CHKERRQ(ierr); 1143 a->nvec = mat->cmap.n; 1144 1145 /* build cache for off array entries formed */ 1146 a->donotstash = PETSC_FALSE; 1147 ierr = MatStashCreate_Private(mat->comm,1,&mat->stash);CHKERRQ(ierr); 1148 1149 /* stuff used for matrix vector multiply */ 1150 a->lvec = 0; 1151 a->Mvctx = 0; 1152 a->roworiented = PETSC_TRUE; 1153 1154 ierr = PetscObjectComposeFunctionDynamic((PetscObject)mat,"MatGetDiagonalBlock_C", 1155 "MatGetDiagonalBlock_MPIDense", 1156 MatGetDiagonalBlock_MPIDense);CHKERRQ(ierr); 1157 ierr = PetscObjectComposeFunctionDynamic((PetscObject)mat,"MatMPIDenseSetPreallocation_C", 1158 "MatMPIDenseSetPreallocation_MPIDense", 1159 MatMPIDenseSetPreallocation_MPIDense);CHKERRQ(ierr); 1160 ierr = PetscObjectComposeFunctionDynamic((PetscObject)mat,"MatMatMult_mpiaij_mpidense_C", 1161 "MatMatMult_MPIAIJ_MPIDense", 1162 MatMatMult_MPIAIJ_MPIDense);CHKERRQ(ierr); 1163 ierr = PetscObjectComposeFunctionDynamic((PetscObject)mat,"MatMatMultSymbolic_mpiaij_mpidense_C", 1164 "MatMatMultSymbolic_MPIAIJ_MPIDense", 1165 MatMatMultSymbolic_MPIAIJ_MPIDense);CHKERRQ(ierr); 1166 ierr = PetscObjectComposeFunctionDynamic((PetscObject)mat,"MatMatMultNumeric_mpiaij_mpidense_C", 1167 "MatMatMultNumeric_MPIAIJ_MPIDense", 1168 MatMatMultNumeric_MPIAIJ_MPIDense);CHKERRQ(ierr); 1169 PetscFunctionReturn(0); 1170 } 1171 EXTERN_C_END 1172 1173 /*MC 1174 MATDENSE - MATDENSE = "dense" - A matrix type to be used for dense matrices. 1175 1176 This matrix type is identical to MATSEQDENSE when constructed with a single process communicator, 1177 and MATMPIDENSE otherwise. 1178 1179 Options Database Keys: 1180 . -mat_type dense - sets the matrix type to "dense" during a call to MatSetFromOptions() 1181 1182 Level: beginner 1183 1184 .seealso: MatCreateMPIDense,MATSEQDENSE,MATMPIDENSE 1185 M*/ 1186 1187 EXTERN_C_BEGIN 1188 #undef __FUNCT__ 1189 #define __FUNCT__ "MatCreate_Dense" 1190 PetscErrorCode PETSCMAT_DLLEXPORT MatCreate_Dense(Mat A) 1191 { 1192 PetscErrorCode ierr; 1193 PetscMPIInt size; 1194 1195 PetscFunctionBegin; 1196 ierr = PetscObjectChangeTypeName((PetscObject)A,MATDENSE);CHKERRQ(ierr); 1197 ierr = MPI_Comm_size(A->comm,&size);CHKERRQ(ierr); 1198 if (size == 1) { 1199 ierr = MatSetType(A,MATSEQDENSE);CHKERRQ(ierr); 1200 } else { 1201 ierr = MatSetType(A,MATMPIDENSE);CHKERRQ(ierr); 1202 } 1203 PetscFunctionReturn(0); 1204 } 1205 EXTERN_C_END 1206 1207 #undef __FUNCT__ 1208 #define __FUNCT__ "MatMPIDenseSetPreallocation" 1209 /*@C 1210 MatMPIDenseSetPreallocation - Sets the array used to store the matrix entries 1211 1212 Not collective 1213 1214 Input Parameters: 1215 . A - the matrix 1216 - data - optional location of matrix data. Set data=PETSC_NULL for PETSc 1217 to control all matrix memory allocation. 1218 1219 Notes: 1220 The dense format is fully compatible with standard Fortran 77 1221 storage by columns. 1222 1223 The data input variable is intended primarily for Fortran programmers 1224 who wish to allocate their own matrix memory space. Most users should 1225 set data=PETSC_NULL. 1226 1227 Level: intermediate 1228 1229 .keywords: matrix,dense, parallel 1230 1231 .seealso: MatCreate(), MatCreateSeqDense(), MatSetValues() 1232 @*/ 1233 PetscErrorCode PETSCMAT_DLLEXPORT MatMPIDenseSetPreallocation(Mat mat,PetscScalar *data) 1234 { 1235 PetscErrorCode ierr,(*f)(Mat,PetscScalar *); 1236 1237 PetscFunctionBegin; 1238 ierr = PetscObjectQueryFunction((PetscObject)mat,"MatMPIDenseSetPreallocation_C",(void (**)(void))&f);CHKERRQ(ierr); 1239 if (f) { 1240 ierr = (*f)(mat,data);CHKERRQ(ierr); 1241 } 1242 PetscFunctionReturn(0); 1243 } 1244 1245 #undef __FUNCT__ 1246 #define __FUNCT__ "MatCreateMPIDense" 1247 /*@C 1248 MatCreateMPIDense - Creates a sparse parallel matrix in dense format. 1249 1250 Collective on MPI_Comm 1251 1252 Input Parameters: 1253 + comm - MPI communicator 1254 . m - number of local rows (or PETSC_DECIDE to have calculated if M is given) 1255 . n - number of local columns (or PETSC_DECIDE to have calculated if N is given) 1256 . M - number of global rows (or PETSC_DECIDE to have calculated if m is given) 1257 . N - number of global columns (or PETSC_DECIDE to have calculated if n is given) 1258 - data - optional location of matrix data. Set data=PETSC_NULL (PETSC_NULL_SCALAR for Fortran users) for PETSc 1259 to control all matrix memory allocation. 1260 1261 Output Parameter: 1262 . A - the matrix 1263 1264 Notes: 1265 The dense format is fully compatible with standard Fortran 77 1266 storage by columns. 1267 1268 The data input variable is intended primarily for Fortran programmers 1269 who wish to allocate their own matrix memory space. Most users should 1270 set data=PETSC_NULL (PETSC_NULL_SCALAR for Fortran users). 1271 1272 The user MUST specify either the local or global matrix dimensions 1273 (possibly both). 1274 1275 Level: intermediate 1276 1277 .keywords: matrix,dense, parallel 1278 1279 .seealso: MatCreate(), MatCreateSeqDense(), MatSetValues() 1280 @*/ 1281 PetscErrorCode PETSCMAT_DLLEXPORT MatCreateMPIDense(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt N,PetscScalar *data,Mat *A) 1282 { 1283 PetscErrorCode ierr; 1284 PetscMPIInt size; 1285 1286 PetscFunctionBegin; 1287 ierr = MatCreate(comm,A);CHKERRQ(ierr); 1288 ierr = MatSetSizes(*A,m,n,M,N);CHKERRQ(ierr); 1289 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 1290 if (size > 1) { 1291 ierr = MatSetType(*A,MATMPIDENSE);CHKERRQ(ierr); 1292 ierr = MatMPIDenseSetPreallocation(*A,data);CHKERRQ(ierr); 1293 } else { 1294 ierr = MatSetType(*A,MATSEQDENSE);CHKERRQ(ierr); 1295 ierr = MatSeqDenseSetPreallocation(*A,data);CHKERRQ(ierr); 1296 } 1297 PetscFunctionReturn(0); 1298 } 1299 1300 #undef __FUNCT__ 1301 #define __FUNCT__ "MatDuplicate_MPIDense" 1302 static PetscErrorCode MatDuplicate_MPIDense(Mat A,MatDuplicateOption cpvalues,Mat *newmat) 1303 { 1304 Mat mat; 1305 Mat_MPIDense *a,*oldmat = (Mat_MPIDense*)A->data; 1306 PetscErrorCode ierr; 1307 1308 PetscFunctionBegin; 1309 *newmat = 0; 1310 ierr = MatCreate(A->comm,&mat);CHKERRQ(ierr); 1311 ierr = MatSetSizes(mat,A->rmap.n,A->cmap.n,A->rmap.N,A->cmap.N);CHKERRQ(ierr); 1312 ierr = MatSetType(mat,A->type_name);CHKERRQ(ierr); 1313 a = (Mat_MPIDense*)mat->data; 1314 ierr = PetscMemcpy(mat->ops,A->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 1315 mat->factor = A->factor; 1316 mat->assembled = PETSC_TRUE; 1317 mat->preallocated = PETSC_TRUE; 1318 1319 mat->rmap.rstart = A->rmap.rstart; 1320 mat->rmap.rend = A->rmap.rend; 1321 a->size = oldmat->size; 1322 a->rank = oldmat->rank; 1323 mat->insertmode = NOT_SET_VALUES; 1324 a->nvec = oldmat->nvec; 1325 a->donotstash = oldmat->donotstash; 1326 1327 ierr = PetscMalloc((a->size+1)*sizeof(PetscInt),&mat->rmap.range);CHKERRQ(ierr); 1328 ierr = PetscMalloc((a->size+1)*sizeof(PetscInt),&mat->cmap.range);CHKERRQ(ierr); 1329 ierr = PetscMemcpy(mat->rmap.range,A->rmap.range,(a->size+1)*sizeof(PetscInt));CHKERRQ(ierr); 1330 ierr = PetscMemcpy(mat->cmap.range,A->cmap.range,(a->size+1)*sizeof(PetscInt));CHKERRQ(ierr); 1331 ierr = MatStashCreate_Private(A->comm,1,&mat->stash);CHKERRQ(ierr); 1332 1333 ierr = MatSetUpMultiply_MPIDense(mat);CHKERRQ(ierr); 1334 ierr = MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr); 1335 ierr = PetscLogObjectParent(mat,a->A);CHKERRQ(ierr); 1336 *newmat = mat; 1337 PetscFunctionReturn(0); 1338 } 1339 1340 #include "petscsys.h" 1341 1342 #undef __FUNCT__ 1343 #define __FUNCT__ "MatLoad_MPIDense_DenseInFile" 1344 PetscErrorCode MatLoad_MPIDense_DenseInFile(MPI_Comm comm,PetscInt fd,PetscInt M,PetscInt N, MatType type,Mat *newmat) 1345 { 1346 PetscErrorCode ierr; 1347 PetscMPIInt rank,size; 1348 PetscInt *rowners,i,m,nz,j; 1349 PetscScalar *array,*vals,*vals_ptr; 1350 MPI_Status status; 1351 1352 PetscFunctionBegin; 1353 ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 1354 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 1355 1356 /* determine ownership of all rows */ 1357 m = M/size + ((M % size) > rank); 1358 ierr = PetscMalloc((size+2)*sizeof(PetscInt),&rowners);CHKERRQ(ierr); 1359 ierr = MPI_Allgather(&m,1,MPIU_INT,rowners+1,1,MPIU_INT,comm);CHKERRQ(ierr); 1360 rowners[0] = 0; 1361 for (i=2; i<=size; i++) { 1362 rowners[i] += rowners[i-1]; 1363 } 1364 1365 ierr = MatCreate(comm,newmat);CHKERRQ(ierr); 1366 ierr = MatSetSizes(*newmat,m,PETSC_DECIDE,M,N);CHKERRQ(ierr); 1367 ierr = MatSetType(*newmat,type);CHKERRQ(ierr); 1368 ierr = MatMPIDenseSetPreallocation(*newmat,PETSC_NULL);CHKERRQ(ierr); 1369 ierr = MatGetArray(*newmat,&array);CHKERRQ(ierr); 1370 1371 if (!rank) { 1372 ierr = PetscMalloc(m*N*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 1373 1374 /* read in my part of the matrix numerical values */ 1375 ierr = PetscBinaryRead(fd,vals,m*N,PETSC_SCALAR);CHKERRQ(ierr); 1376 1377 /* insert into matrix-by row (this is why cannot directly read into array */ 1378 vals_ptr = vals; 1379 for (i=0; i<m; i++) { 1380 for (j=0; j<N; j++) { 1381 array[i + j*m] = *vals_ptr++; 1382 } 1383 } 1384 1385 /* read in other processors and ship out */ 1386 for (i=1; i<size; i++) { 1387 nz = (rowners[i+1] - rowners[i])*N; 1388 ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 1389 ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,(*newmat)->tag,comm);CHKERRQ(ierr); 1390 } 1391 } else { 1392 /* receive numeric values */ 1393 ierr = PetscMalloc(m*N*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 1394 1395 /* receive message of values*/ 1396 ierr = MPI_Recv(vals,m*N,MPIU_SCALAR,0,(*newmat)->tag,comm,&status);CHKERRQ(ierr); 1397 1398 /* insert into matrix-by row (this is why cannot directly read into array */ 1399 vals_ptr = vals; 1400 for (i=0; i<m; i++) { 1401 for (j=0; j<N; j++) { 1402 array[i + j*m] = *vals_ptr++; 1403 } 1404 } 1405 } 1406 ierr = PetscFree(rowners);CHKERRQ(ierr); 1407 ierr = PetscFree(vals);CHKERRQ(ierr); 1408 ierr = MatAssemblyBegin(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1409 ierr = MatAssemblyEnd(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1410 PetscFunctionReturn(0); 1411 } 1412 1413 #undef __FUNCT__ 1414 #define __FUNCT__ "MatLoad_MPIDense" 1415 PetscErrorCode MatLoad_MPIDense(PetscViewer viewer, MatType type,Mat *newmat) 1416 { 1417 Mat A; 1418 PetscScalar *vals,*svals; 1419 MPI_Comm comm = ((PetscObject)viewer)->comm; 1420 MPI_Status status; 1421 PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag,*rowners,*sndcounts,m,maxnz; 1422 PetscInt header[4],*rowlengths = 0,M,N,*cols; 1423 PetscInt *ourlens,*procsnz = 0,*offlens,jj,*mycols,*smycols; 1424 PetscInt i,nz,j,rstart,rend; 1425 int fd; 1426 PetscErrorCode ierr; 1427 1428 PetscFunctionBegin; 1429 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 1430 ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 1431 if (!rank) { 1432 ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 1433 ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT);CHKERRQ(ierr); 1434 if (header[0] != MAT_FILE_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"not matrix object"); 1435 } 1436 1437 ierr = MPI_Bcast(header+1,3,MPIU_INT,0,comm);CHKERRQ(ierr); 1438 M = header[1]; N = header[2]; nz = header[3]; 1439 1440 /* 1441 Handle case where matrix is stored on disk as a dense matrix 1442 */ 1443 if (nz == MATRIX_BINARY_FORMAT_DENSE) { 1444 ierr = MatLoad_MPIDense_DenseInFile(comm,fd,M,N,type,newmat);CHKERRQ(ierr); 1445 PetscFunctionReturn(0); 1446 } 1447 1448 /* determine ownership of all rows */ 1449 m = M/size + ((M % size) > rank); 1450 ierr = PetscMalloc((size+2)*sizeof(PetscInt),&rowners);CHKERRQ(ierr); 1451 ierr = MPI_Allgather(&m,1,MPI_INT,rowners+1,1,MPI_INT,comm);CHKERRQ(ierr); 1452 rowners[0] = 0; 1453 for (i=2; i<=size; i++) { 1454 rowners[i] += rowners[i-1]; 1455 } 1456 rstart = rowners[rank]; 1457 rend = rowners[rank+1]; 1458 1459 /* distribute row lengths to all processors */ 1460 ierr = PetscMalloc(2*(rend-rstart+1)*sizeof(PetscInt),&ourlens);CHKERRQ(ierr); 1461 offlens = ourlens + (rend-rstart); 1462 if (!rank) { 1463 ierr = PetscMalloc(M*sizeof(PetscInt),&rowlengths);CHKERRQ(ierr); 1464 ierr = PetscBinaryRead(fd,rowlengths,M,PETSC_INT);CHKERRQ(ierr); 1465 ierr = PetscMalloc(size*sizeof(PetscMPIInt),&sndcounts);CHKERRQ(ierr); 1466 for (i=0; i<size; i++) sndcounts[i] = rowners[i+1] - rowners[i]; 1467 ierr = MPI_Scatterv(rowlengths,sndcounts,rowners,MPIU_INT,ourlens,rend-rstart,MPIU_INT,0,comm);CHKERRQ(ierr); 1468 ierr = PetscFree(sndcounts);CHKERRQ(ierr); 1469 } else { 1470 ierr = MPI_Scatterv(0,0,0,MPIU_INT,ourlens,rend-rstart,MPIU_INT,0,comm);CHKERRQ(ierr); 1471 } 1472 1473 if (!rank) { 1474 /* calculate the number of nonzeros on each processor */ 1475 ierr = PetscMalloc(size*sizeof(PetscInt),&procsnz);CHKERRQ(ierr); 1476 ierr = PetscMemzero(procsnz,size*sizeof(PetscInt));CHKERRQ(ierr); 1477 for (i=0; i<size; i++) { 1478 for (j=rowners[i]; j< rowners[i+1]; j++) { 1479 procsnz[i] += rowlengths[j]; 1480 } 1481 } 1482 ierr = PetscFree(rowlengths);CHKERRQ(ierr); 1483 1484 /* determine max buffer needed and allocate it */ 1485 maxnz = 0; 1486 for (i=0; i<size; i++) { 1487 maxnz = PetscMax(maxnz,procsnz[i]); 1488 } 1489 ierr = PetscMalloc(maxnz*sizeof(PetscInt),&cols);CHKERRQ(ierr); 1490 1491 /* read in my part of the matrix column indices */ 1492 nz = procsnz[0]; 1493 ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 1494 ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr); 1495 1496 /* read in every one elses and ship off */ 1497 for (i=1; i<size; i++) { 1498 nz = procsnz[i]; 1499 ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr); 1500 ierr = MPI_Send(cols,nz,MPIU_INT,i,tag,comm);CHKERRQ(ierr); 1501 } 1502 ierr = PetscFree(cols);CHKERRQ(ierr); 1503 } else { 1504 /* determine buffer space needed for message */ 1505 nz = 0; 1506 for (i=0; i<m; i++) { 1507 nz += ourlens[i]; 1508 } 1509 ierr = PetscMalloc((nz+1)*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 1510 1511 /* receive message of column indices*/ 1512 ierr = MPI_Recv(mycols,nz,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 1513 ierr = MPI_Get_count(&status,MPIU_INT,&maxnz);CHKERRQ(ierr); 1514 if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 1515 } 1516 1517 /* loop over local rows, determining number of off diagonal entries */ 1518 ierr = PetscMemzero(offlens,m*sizeof(PetscInt));CHKERRQ(ierr); 1519 jj = 0; 1520 for (i=0; i<m; i++) { 1521 for (j=0; j<ourlens[i]; j++) { 1522 if (mycols[jj] < rstart || mycols[jj] >= rend) offlens[i]++; 1523 jj++; 1524 } 1525 } 1526 1527 /* create our matrix */ 1528 for (i=0; i<m; i++) { 1529 ourlens[i] -= offlens[i]; 1530 } 1531 ierr = MatCreate(comm,newmat);CHKERRQ(ierr); 1532 ierr = MatSetSizes(*newmat,m,PETSC_DECIDE,M,N);CHKERRQ(ierr); 1533 ierr = MatSetType(*newmat,type);CHKERRQ(ierr); 1534 ierr = MatMPIDenseSetPreallocation(*newmat,PETSC_NULL);CHKERRQ(ierr); 1535 A = *newmat; 1536 for (i=0; i<m; i++) { 1537 ourlens[i] += offlens[i]; 1538 } 1539 1540 if (!rank) { 1541 ierr = PetscMalloc(maxnz*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 1542 1543 /* read in my part of the matrix numerical values */ 1544 nz = procsnz[0]; 1545 ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 1546 1547 /* insert into matrix */ 1548 jj = rstart; 1549 smycols = mycols; 1550 svals = vals; 1551 for (i=0; i<m; i++) { 1552 ierr = MatSetValues(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 1553 smycols += ourlens[i]; 1554 svals += ourlens[i]; 1555 jj++; 1556 } 1557 1558 /* read in other processors and ship out */ 1559 for (i=1; i<size; i++) { 1560 nz = procsnz[i]; 1561 ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 1562 ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,A->tag,comm);CHKERRQ(ierr); 1563 } 1564 ierr = PetscFree(procsnz);CHKERRQ(ierr); 1565 } else { 1566 /* receive numeric values */ 1567 ierr = PetscMalloc((nz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 1568 1569 /* receive message of values*/ 1570 ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,A->tag,comm,&status);CHKERRQ(ierr); 1571 ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr); 1572 if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 1573 1574 /* insert into matrix */ 1575 jj = rstart; 1576 smycols = mycols; 1577 svals = vals; 1578 for (i=0; i<m; i++) { 1579 ierr = MatSetValues(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 1580 smycols += ourlens[i]; 1581 svals += ourlens[i]; 1582 jj++; 1583 } 1584 } 1585 ierr = PetscFree(ourlens);CHKERRQ(ierr); 1586 ierr = PetscFree(vals);CHKERRQ(ierr); 1587 ierr = PetscFree(mycols);CHKERRQ(ierr); 1588 ierr = PetscFree(rowners);CHKERRQ(ierr); 1589 1590 ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1591 ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1592 PetscFunctionReturn(0); 1593 } 1594 1595 #undef __FUNCT__ 1596 #define __FUNCT__ "MatEqual_MPIDense" 1597 PetscErrorCode MatEqual_MPIDense(Mat A,Mat B,PetscTruth *flag) 1598 { 1599 Mat_MPIDense *matB = (Mat_MPIDense*)B->data,*matA = (Mat_MPIDense*)A->data; 1600 Mat a,b; 1601 PetscTruth flg; 1602 PetscErrorCode ierr; 1603 1604 PetscFunctionBegin; 1605 a = matA->A; 1606 b = matB->A; 1607 ierr = MatEqual(a,b,&flg);CHKERRQ(ierr); 1608 PetscFunctionReturn(0); 1609 } 1610 1611 1612 1613