1 #ifdef PETSC_RCS_HEADER 2 static char vcid[] = "$Id: mpidense.c,v 1.78 1998/01/06 20:10:12 bsmith Exp balay $"; 3 #endif 4 5 /* 6 Basic functions for basic parallel dense matrices. 7 */ 8 9 #include "src/mat/impls/dense/mpi/mpidense.h" 10 #include "src/vec/vecimpl.h" 11 12 #undef __FUNC__ 13 #define __FUNC__ "MatSetValues_MPIDense" 14 int MatSetValues_MPIDense(Mat mat,int m,int *idxm,int n,int *idxn,Scalar *v,InsertMode addv) 15 { 16 Mat_MPIDense *A = (Mat_MPIDense *) mat->data; 17 int ierr, i, j, rstart = A->rstart, rend = A->rend, row; 18 int roworiented = A->roworiented; 19 20 PetscFunctionBegin; 21 for ( i=0; i<m; i++ ) { 22 if (idxm[i] < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,0,"Negative row"); 23 if (idxm[i] >= A->M) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,0,"Row too large"); 24 if (idxm[i] >= rstart && idxm[i] < rend) { 25 row = idxm[i] - rstart; 26 if (roworiented) { 27 ierr = MatSetValues(A->A,1,&row,n,idxn,v+i*n,addv); CHKERRQ(ierr); 28 } else { 29 for ( j=0; j<n; j++ ) { 30 if (idxn[j] < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,0,"Negative column"); 31 if (idxn[j] >= A->N) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,0,"Column too large"); 32 ierr = MatSetValues(A->A,1,&row,1,&idxn[j],v+i+j*m,addv); CHKERRQ(ierr); 33 } 34 } 35 } else { 36 if (roworiented) { 37 ierr = StashValues_Private(&A->stash,idxm[i],n,idxn,v+i*n,addv); CHKERRQ(ierr); 38 } else { /* must stash each seperately */ 39 row = idxm[i]; 40 for ( j=0; j<n; j++ ) { 41 ierr = StashValues_Private(&A->stash,row,1,&idxn[j],v+i+j*m,addv);CHKERRQ(ierr); 42 } 43 } 44 } 45 } 46 PetscFunctionReturn(0); 47 } 48 49 #undef __FUNC__ 50 #define __FUNC__ "MatGetValues_MPIDense" 51 int MatGetValues_MPIDense(Mat mat,int m,int *idxm,int n,int *idxn,Scalar *v) 52 { 53 Mat_MPIDense *mdn = (Mat_MPIDense *) mat->data; 54 int ierr, i, j, rstart = mdn->rstart, rend = mdn->rend, row; 55 56 PetscFunctionBegin; 57 for ( i=0; i<m; i++ ) { 58 if (idxm[i] < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,0,"Negative row"); 59 if (idxm[i] >= mdn->M) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,0,"Row too large"); 60 if (idxm[i] >= rstart && idxm[i] < rend) { 61 row = idxm[i] - rstart; 62 for ( j=0; j<n; j++ ) { 63 if (idxn[j] < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,0,"Negative column"); 64 if (idxn[j] >= mdn->N) { 65 SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,0,"Column too large"); 66 } 67 ierr = MatGetValues(mdn->A,1,&row,1,&idxn[j],v+i*n+j); CHKERRQ(ierr); 68 } 69 } else { 70 SETERRQ(PETSC_ERR_SUP,0,"Only local values currently supported"); 71 } 72 } 73 PetscFunctionReturn(0); 74 } 75 76 #undef __FUNC__ 77 #define __FUNC__ "MatGetArray_MPIDense" 78 int MatGetArray_MPIDense(Mat A,Scalar **array) 79 { 80 Mat_MPIDense *a = (Mat_MPIDense *) A->data; 81 int ierr; 82 83 PetscFunctionBegin; 84 ierr = MatGetArray(a->A,array); CHKERRQ(ierr); 85 PetscFunctionReturn(0); 86 } 87 88 #undef __FUNC__ 89 #define __FUNC__ "MatRestoreArray_MPIDense" 90 int MatRestoreArray_MPIDense(Mat A,Scalar **array) 91 { 92 PetscFunctionBegin; 93 PetscFunctionReturn(0); 94 } 95 96 #undef __FUNC__ 97 #define __FUNC__ "MatAssemblyBegin_MPIDense" 98 int MatAssemblyBegin_MPIDense(Mat mat,MatAssemblyType mode) 99 { 100 Mat_MPIDense *mdn = (Mat_MPIDense *) mat->data; 101 MPI_Comm comm = mat->comm; 102 int size = mdn->size, *owners = mdn->rowners, rank = mdn->rank; 103 int *nprocs,i,j,idx,*procs,nsends,nreceives,nmax,*work; 104 int tag = mat->tag, *owner,*starts,count,ierr; 105 InsertMode addv; 106 MPI_Request *send_waits,*recv_waits; 107 Scalar *rvalues,*svalues; 108 109 PetscFunctionBegin; 110 /* make sure all processors are either in INSERTMODE or ADDMODE */ 111 ierr = MPI_Allreduce(&mat->insertmode,&addv,1,MPI_INT,MPI_BOR,comm);CHKERRQ(ierr); 112 if (addv == (ADD_VALUES|INSERT_VALUES)) { 113 SETERRQ(PETSC_ERR_ARG_WRONGSTATE,0,"Cannot mix adds/inserts on different procs"); 114 } 115 mat->insertmode = addv; /* in case this processor had no cache */ 116 117 /* first count number of contributors to each processor */ 118 nprocs = (int *) PetscMalloc( 2*size*sizeof(int) ); CHKPTRQ(nprocs); 119 PetscMemzero(nprocs,2*size*sizeof(int)); procs = nprocs + size; 120 owner = (int *) PetscMalloc( (mdn->stash.n+1)*sizeof(int) ); CHKPTRQ(owner); 121 for ( i=0; i<mdn->stash.n; i++ ) { 122 idx = mdn->stash.idx[i]; 123 for ( j=0; j<size; j++ ) { 124 if (idx >= owners[j] && idx < owners[j+1]) { 125 nprocs[j]++; procs[j] = 1; owner[i] = j; break; 126 } 127 } 128 } 129 nsends = 0; for ( i=0; i<size; i++ ) { nsends += procs[i];} 130 131 /* inform other processors of number of messages and max length*/ 132 work = (int *) PetscMalloc( size*sizeof(int) ); CHKPTRQ(work); 133 ierr = MPI_Allreduce(procs,work,size,MPI_INT,MPI_SUM,comm);CHKERRQ(ierr); 134 nreceives = work[rank]; 135 if (nreceives > size) SETERRQ(PETSC_ERR_PLIB,0,"Internal PETSc error"); 136 ierr = MPI_Allreduce(nprocs,work,size,MPI_INT,MPI_MAX,comm);CHKERRQ(ierr); 137 nmax = work[rank]; 138 PetscFree(work); 139 140 /* post receives: 141 1) each message will consist of ordered pairs 142 (global index,value) we store the global index as a double 143 to simplify the message passing. 144 2) since we don't know how long each individual message is we 145 allocate the largest needed buffer for each receive. Potentially 146 this is a lot of wasted space. 147 148 This could be done better. 149 */ 150 rvalues = (Scalar *) PetscMalloc(3*(nreceives+1)*(nmax+1)*sizeof(Scalar));CHKPTRQ(rvalues); 151 recv_waits = (MPI_Request *) PetscMalloc((nreceives+1)*sizeof(MPI_Request));CHKPTRQ(recv_waits); 152 for ( i=0; i<nreceives; i++ ) { 153 ierr = MPI_Irecv(rvalues+3*nmax*i,3*nmax,MPIU_SCALAR,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr); 154 } 155 156 /* do sends: 157 1) starts[i] gives the starting index in svalues for stuff going to 158 the ith processor 159 */ 160 svalues = (Scalar *) PetscMalloc( 3*(mdn->stash.n+1)*sizeof(Scalar));CHKPTRQ(svalues); 161 send_waits = (MPI_Request *) PetscMalloc((nsends+1)*sizeof(MPI_Request));CHKPTRQ(send_waits); 162 starts = (int *) PetscMalloc( size*sizeof(int) ); CHKPTRQ(starts); 163 starts[0] = 0; 164 for ( i=1; i<size; i++ ) { starts[i] = starts[i-1] + nprocs[i-1];} 165 for ( i=0; i<mdn->stash.n; i++ ) { 166 svalues[3*starts[owner[i]]] = (Scalar) mdn->stash.idx[i]; 167 svalues[3*starts[owner[i]]+1] = (Scalar) mdn->stash.idy[i]; 168 svalues[3*(starts[owner[i]]++)+2] = mdn->stash.array[i]; 169 } 170 PetscFree(owner); 171 starts[0] = 0; 172 for ( i=1; i<size; i++ ) { starts[i] = starts[i-1] + nprocs[i-1];} 173 count = 0; 174 for ( i=0; i<size; i++ ) { 175 if (procs[i]) { 176 ierr = MPI_Isend(svalues+3*starts[i],3*nprocs[i],MPIU_SCALAR,i,tag,comm,send_waits+count++);CHKERRQ(ierr); 177 } 178 } 179 PetscFree(starts); PetscFree(nprocs); 180 181 /* Free cache space */ 182 PLogInfo(mat,"MatAssemblyBegin_MPIDense:Number of off-processor values %d\n",mdn->stash.n); 183 ierr = StashDestroy_Private(&mdn->stash); CHKERRQ(ierr); 184 185 mdn->svalues = svalues; mdn->rvalues = rvalues; 186 mdn->nsends = nsends; mdn->nrecvs = nreceives; 187 mdn->send_waits = send_waits; mdn->recv_waits = recv_waits; 188 mdn->rmax = nmax; 189 190 PetscFunctionReturn(0); 191 } 192 extern int MatSetUpMultiply_MPIDense(Mat); 193 194 #undef __FUNC__ 195 #define __FUNC__ "MatAssemblyEnd_MPIDense" 196 int MatAssemblyEnd_MPIDense(Mat mat,MatAssemblyType mode) 197 { 198 Mat_MPIDense *mdn = (Mat_MPIDense *) mat->data; 199 MPI_Status *send_status,recv_status; 200 int imdex, nrecvs=mdn->nrecvs, count=nrecvs, i, n, ierr, row, col; 201 Scalar *values,val; 202 InsertMode addv = mat->insertmode; 203 204 PetscFunctionBegin; 205 /* wait on receives */ 206 while (count) { 207 ierr = MPI_Waitany(nrecvs,mdn->recv_waits,&imdex,&recv_status);CHKERRQ(ierr); 208 /* unpack receives into our local space */ 209 values = mdn->rvalues + 3*imdex*mdn->rmax; 210 ierr = MPI_Get_count(&recv_status,MPIU_SCALAR,&n);CHKERRQ(ierr); 211 n = n/3; 212 for ( i=0; i<n; i++ ) { 213 row = (int) PetscReal(values[3*i]) - mdn->rstart; 214 col = (int) PetscReal(values[3*i+1]); 215 val = values[3*i+2]; 216 if (col >= 0 && col < mdn->N) { 217 MatSetValues(mdn->A,1,&row,1,&col,&val,addv); 218 } 219 else {SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,0,"Invalid column");} 220 } 221 count--; 222 } 223 PetscFree(mdn->recv_waits); PetscFree(mdn->rvalues); 224 225 /* wait on sends */ 226 if (mdn->nsends) { 227 send_status = (MPI_Status *) PetscMalloc(mdn->nsends*sizeof(MPI_Status));CHKPTRQ(send_status); 228 ierr = MPI_Waitall(mdn->nsends,mdn->send_waits,send_status);CHKERRQ(ierr); 229 PetscFree(send_status); 230 } 231 PetscFree(mdn->send_waits); PetscFree(mdn->svalues); 232 233 ierr = MatAssemblyBegin(mdn->A,mode); CHKERRQ(ierr); 234 ierr = MatAssemblyEnd(mdn->A,mode); CHKERRQ(ierr); 235 236 if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) { 237 ierr = MatSetUpMultiply_MPIDense(mat); CHKERRQ(ierr); 238 } 239 PetscFunctionReturn(0); 240 } 241 242 #undef __FUNC__ 243 #define __FUNC__ "MatZeroEntries_MPIDense" 244 int MatZeroEntries_MPIDense(Mat A) 245 { 246 int ierr; 247 Mat_MPIDense *l = (Mat_MPIDense *) A->data; 248 249 PetscFunctionBegin; 250 ierr = MatZeroEntries(l->A);CHKERRQ(ierr); 251 PetscFunctionReturn(0); 252 } 253 254 #undef __FUNC__ 255 #define __FUNC__ "MatGetBlockSize_MPIDense" 256 int MatGetBlockSize_MPIDense(Mat A,int *bs) 257 { 258 PetscFunctionBegin; 259 *bs = 1; 260 PetscFunctionReturn(0); 261 } 262 263 /* the code does not do the diagonal entries correctly unless the 264 matrix is square and the column and row owerships are identical. 265 This is a BUG. The only way to fix it seems to be to access 266 mdn->A and mdn->B directly and not through the MatZeroRows() 267 routine. 268 */ 269 #undef __FUNC__ 270 #define __FUNC__ "MatZeroRows_MPIDense" 271 int MatZeroRows_MPIDense(Mat A,IS is,Scalar *diag) 272 { 273 Mat_MPIDense *l = (Mat_MPIDense *) A->data; 274 int i,ierr,N, *rows,*owners = l->rowners,size = l->size; 275 int *procs,*nprocs,j,found,idx,nsends,*work; 276 int nmax,*svalues,*starts,*owner,nrecvs,rank = l->rank; 277 int *rvalues,tag = A->tag,count,base,slen,n,*source; 278 int *lens,imdex,*lrows,*values; 279 MPI_Comm comm = A->comm; 280 MPI_Request *send_waits,*recv_waits; 281 MPI_Status recv_status,*send_status; 282 IS istmp; 283 284 PetscFunctionBegin; 285 ierr = ISGetSize(is,&N); CHKERRQ(ierr); 286 ierr = ISGetIndices(is,&rows); CHKERRQ(ierr); 287 288 /* first count number of contributors to each processor */ 289 nprocs = (int *) PetscMalloc( 2*size*sizeof(int) ); CHKPTRQ(nprocs); 290 PetscMemzero(nprocs,2*size*sizeof(int)); procs = nprocs + size; 291 owner = (int *) PetscMalloc((N+1)*sizeof(int)); CHKPTRQ(owner); /* see note*/ 292 for ( i=0; i<N; i++ ) { 293 idx = rows[i]; 294 found = 0; 295 for ( j=0; j<size; j++ ) { 296 if (idx >= owners[j] && idx < owners[j+1]) { 297 nprocs[j]++; procs[j] = 1; owner[i] = j; found = 1; break; 298 } 299 } 300 if (!found) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,0,"Index out of range"); 301 } 302 nsends = 0; for ( i=0; i<size; i++ ) { nsends += procs[i];} 303 304 /* inform other processors of number of messages and max length*/ 305 work = (int *) PetscMalloc( size*sizeof(int) ); CHKPTRQ(work); 306 ierr = MPI_Allreduce( procs, work,size,MPI_INT,MPI_SUM,comm);CHKERRQ(ierr); 307 nrecvs = work[rank]; 308 ierr = MPI_Allreduce( nprocs, work,size,MPI_INT,MPI_MAX,comm);CHKERRQ(ierr); 309 nmax = work[rank]; 310 PetscFree(work); 311 312 /* post receives: */ 313 rvalues = (int *) PetscMalloc((nrecvs+1)*(nmax+1)*sizeof(int));CHKPTRQ(rvalues); 314 recv_waits = (MPI_Request *) PetscMalloc((nrecvs+1)*sizeof(MPI_Request));CHKPTRQ(recv_waits); 315 for ( i=0; i<nrecvs; i++ ) { 316 ierr = MPI_Irecv(rvalues+nmax*i,nmax,MPI_INT,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr); 317 } 318 319 /* do sends: 320 1) starts[i] gives the starting index in svalues for stuff going to 321 the ith processor 322 */ 323 svalues = (int *) PetscMalloc( (N+1)*sizeof(int) ); CHKPTRQ(svalues); 324 send_waits = (MPI_Request *) PetscMalloc((nsends+1)*sizeof(MPI_Request));CHKPTRQ(send_waits); 325 starts = (int *) PetscMalloc( (size+1)*sizeof(int) ); CHKPTRQ(starts); 326 starts[0] = 0; 327 for ( i=1; i<size; i++ ) { starts[i] = starts[i-1] + nprocs[i-1];} 328 for ( i=0; i<N; i++ ) { 329 svalues[starts[owner[i]]++] = rows[i]; 330 } 331 ISRestoreIndices(is,&rows); 332 333 starts[0] = 0; 334 for ( i=1; i<size+1; i++ ) { starts[i] = starts[i-1] + nprocs[i-1];} 335 count = 0; 336 for ( i=0; i<size; i++ ) { 337 if (procs[i]) { 338 ierr = MPI_Isend(svalues+starts[i],nprocs[i],MPI_INT,i,tag,comm,send_waits+count++);CHKERRQ(ierr); 339 } 340 } 341 PetscFree(starts); 342 343 base = owners[rank]; 344 345 /* wait on receives */ 346 lens = (int *) PetscMalloc( 2*(nrecvs+1)*sizeof(int) ); CHKPTRQ(lens); 347 source = lens + nrecvs; 348 count = nrecvs; slen = 0; 349 while (count) { 350 ierr = MPI_Waitany(nrecvs,recv_waits,&imdex,&recv_status);CHKERRQ(ierr); 351 /* unpack receives into our local space */ 352 ierr = MPI_Get_count(&recv_status,MPI_INT,&n);CHKERRQ(ierr); 353 source[imdex] = recv_status.MPI_SOURCE; 354 lens[imdex] = n; 355 slen += n; 356 count--; 357 } 358 PetscFree(recv_waits); 359 360 /* move the data into the send scatter */ 361 lrows = (int *) PetscMalloc( (slen+1)*sizeof(int) ); CHKPTRQ(lrows); 362 count = 0; 363 for ( i=0; i<nrecvs; i++ ) { 364 values = rvalues + i*nmax; 365 for ( j=0; j<lens[i]; j++ ) { 366 lrows[count++] = values[j] - base; 367 } 368 } 369 PetscFree(rvalues); PetscFree(lens); 370 PetscFree(owner); PetscFree(nprocs); 371 372 /* actually zap the local rows */ 373 ierr = ISCreateGeneral(PETSC_COMM_SELF,slen,lrows,&istmp);CHKERRQ(ierr); 374 PLogObjectParent(A,istmp); 375 PetscFree(lrows); 376 ierr = MatZeroRows(l->A,istmp,diag); CHKERRQ(ierr); 377 ierr = ISDestroy(istmp); CHKERRQ(ierr); 378 379 /* wait on sends */ 380 if (nsends) { 381 send_status = (MPI_Status *) PetscMalloc(nsends*sizeof(MPI_Status));CHKPTRQ(send_status); 382 ierr = MPI_Waitall(nsends,send_waits,send_status);CHKERRQ(ierr); 383 PetscFree(send_status); 384 } 385 PetscFree(send_waits); PetscFree(svalues); 386 387 PetscFunctionReturn(0); 388 } 389 390 #undef __FUNC__ 391 #define __FUNC__ "MatMult_MPIDense" 392 int MatMult_MPIDense(Mat mat,Vec xx,Vec yy) 393 { 394 Mat_MPIDense *mdn = (Mat_MPIDense *) mat->data; 395 int ierr; 396 397 PetscFunctionBegin; 398 ierr = VecScatterBegin(xx,mdn->lvec,INSERT_VALUES,SCATTER_FORWARD,mdn->Mvctx);CHKERRQ(ierr); 399 ierr = VecScatterEnd(xx,mdn->lvec,INSERT_VALUES,SCATTER_FORWARD,mdn->Mvctx);CHKERRQ(ierr); 400 ierr = MatMult_SeqDense(mdn->A,mdn->lvec,yy); CHKERRQ(ierr); 401 PetscFunctionReturn(0); 402 } 403 404 #undef __FUNC__ 405 #define __FUNC__ "MatMultAdd_MPIDense" 406 int MatMultAdd_MPIDense(Mat mat,Vec xx,Vec yy,Vec zz) 407 { 408 Mat_MPIDense *mdn = (Mat_MPIDense *) mat->data; 409 int ierr; 410 411 PetscFunctionBegin; 412 ierr = VecScatterBegin(xx,mdn->lvec,INSERT_VALUES,SCATTER_FORWARD,mdn->Mvctx);CHKERRQ(ierr); 413 ierr = VecScatterEnd(xx,mdn->lvec,INSERT_VALUES,SCATTER_FORWARD,mdn->Mvctx);CHKERRQ(ierr); 414 ierr = MatMultAdd_SeqDense(mdn->A,mdn->lvec,yy,zz); CHKERRQ(ierr); 415 PetscFunctionReturn(0); 416 } 417 418 #undef __FUNC__ 419 #define __FUNC__ "MatMultTrans_MPIDense" 420 int MatMultTrans_MPIDense(Mat A,Vec xx,Vec yy) 421 { 422 Mat_MPIDense *a = (Mat_MPIDense *) A->data; 423 int ierr; 424 Scalar zero = 0.0; 425 426 PetscFunctionBegin; 427 ierr = VecSet(&zero,yy); CHKERRQ(ierr); 428 ierr = MatMultTrans_SeqDense(a->A,xx,a->lvec); CHKERRQ(ierr); 429 ierr = VecScatterBegin(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx); CHKERRQ(ierr); 430 ierr = VecScatterEnd(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx); CHKERRQ(ierr); 431 PetscFunctionReturn(0); 432 } 433 434 #undef __FUNC__ 435 #define __FUNC__ "MatMultTransAdd_MPIDense" 436 int MatMultTransAdd_MPIDense(Mat A,Vec xx,Vec yy,Vec zz) 437 { 438 Mat_MPIDense *a = (Mat_MPIDense *) A->data; 439 int ierr; 440 441 PetscFunctionBegin; 442 ierr = VecCopy(yy,zz); CHKERRQ(ierr); 443 ierr = MatMultTrans_SeqDense(a->A,xx,a->lvec); CHKERRQ(ierr); 444 ierr = VecScatterBegin(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx); CHKERRQ(ierr); 445 ierr = VecScatterEnd(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx); CHKERRQ(ierr); 446 PetscFunctionReturn(0); 447 } 448 449 #undef __FUNC__ 450 #define __FUNC__ "MatGetDiagonal_MPIDense" 451 int MatGetDiagonal_MPIDense(Mat A,Vec v) 452 { 453 Mat_MPIDense *a = (Mat_MPIDense *) A->data; 454 Mat_SeqDense *aloc = (Mat_SeqDense *) a->A->data; 455 int ierr, len, i, n, m = a->m, radd; 456 Scalar *x, zero = 0.0; 457 458 PetscFunctionBegin; 459 VecSet(&zero,v); 460 ierr = VecGetArray(v,&x); CHKERRQ(ierr); 461 ierr = VecGetSize(v,&n); CHKERRQ(ierr); 462 if (n != a->M) SETERRQ(PETSC_ERR_ARG_SIZ,0,"Nonconforming mat and vec"); 463 len = PetscMin(aloc->m,aloc->n); 464 radd = a->rstart*m; 465 for ( i=0; i<len; i++ ) { 466 x[i] = aloc->v[radd + i*m + i]; 467 } 468 PetscFunctionReturn(0); 469 } 470 471 #undef __FUNC__ 472 #define __FUNC__ "MatDestroy_MPIDense" 473 int MatDestroy_MPIDense(PetscObject obj) 474 { 475 Mat mat = (Mat) obj; 476 Mat_MPIDense *mdn = (Mat_MPIDense *) mat->data; 477 int ierr; 478 479 PetscFunctionBegin; 480 #if defined(USE_PETSC_LOG) 481 PLogObjectState(obj,"Rows=%d, Cols=%d",mdn->M,mdn->N); 482 #endif 483 PetscFree(mdn->rowners); 484 ierr = MatDestroy(mdn->A); CHKERRQ(ierr); 485 if (mdn->lvec) VecDestroy(mdn->lvec); 486 if (mdn->Mvctx) VecScatterDestroy(mdn->Mvctx); 487 if (mdn->factor) { 488 if (mdn->factor->temp) PetscFree(mdn->factor->temp); 489 if (mdn->factor->tag) PetscFree(mdn->factor->tag); 490 if (mdn->factor->pivots) PetscFree(mdn->factor->pivots); 491 PetscFree(mdn->factor); 492 } 493 PetscFree(mdn); 494 if (mat->mapping) { 495 ierr = ISLocalToGlobalMappingDestroy(mat->mapping); CHKERRQ(ierr); 496 } 497 PLogObjectDestroy(mat); 498 PetscHeaderDestroy(mat); 499 PetscFunctionReturn(0); 500 } 501 502 #include "pinclude/pviewer.h" 503 504 #undef __FUNC__ 505 #define __FUNC__ "MatView_MPIDense_Binary" 506 static int MatView_MPIDense_Binary(Mat mat,Viewer viewer) 507 { 508 Mat_MPIDense *mdn = (Mat_MPIDense *) mat->data; 509 int ierr; 510 511 PetscFunctionBegin; 512 if (mdn->size == 1) { 513 ierr = MatView(mdn->A,viewer); CHKERRQ(ierr); 514 } 515 else SETERRQ(PETSC_ERR_SUP,0,"Only uniprocessor output supported"); 516 PetscFunctionReturn(0); 517 } 518 519 #undef __FUNC__ 520 #define __FUNC__ "MatView_MPIDense_ASCII" 521 static int MatView_MPIDense_ASCII(Mat mat,Viewer viewer) 522 { 523 Mat_MPIDense *mdn = (Mat_MPIDense *) mat->data; 524 int ierr, format; 525 FILE *fd; 526 ViewerType vtype; 527 528 PetscFunctionBegin; 529 ierr = ViewerGetType(viewer,&vtype);CHKERRQ(ierr); 530 ierr = ViewerASCIIGetPointer(viewer,&fd); CHKERRQ(ierr); 531 ierr = ViewerGetFormat(viewer,&format); 532 if (format == VIEWER_FORMAT_ASCII_INFO_LONG) { 533 int rank; 534 MatInfo info; 535 MPI_Comm_rank(mat->comm,&rank); 536 ierr = MatGetInfo(mat,MAT_LOCAL,&info); 537 PetscSequentialPhaseBegin(mat->comm,1); 538 fprintf(fd," [%d] local rows %d nz %d nz alloced %d mem %d \n",rank,mdn->m, 539 (int)info.nz_used,(int)info.nz_allocated,(int)info.memory); 540 fflush(fd); 541 PetscSequentialPhaseEnd(mat->comm,1); 542 ierr = VecScatterView(mdn->Mvctx,viewer); CHKERRQ(ierr); 543 PetscFunctionReturn(0); 544 } 545 else if (format == VIEWER_FORMAT_ASCII_INFO) { 546 PetscFunctionReturn(0); 547 } 548 if (vtype == ASCII_FILE_VIEWER) { 549 PetscSequentialPhaseBegin(mat->comm,1); 550 fprintf(fd,"[%d] rows %d starts %d ends %d cols %d\n", 551 mdn->rank,mdn->m,mdn->rstart,mdn->rend,mdn->n); 552 ierr = MatView(mdn->A,viewer); CHKERRQ(ierr); 553 fflush(fd); 554 PetscSequentialPhaseEnd(mat->comm,1); 555 } else { 556 int size = mdn->size, rank = mdn->rank; 557 if (size == 1) { 558 ierr = MatView(mdn->A,viewer); CHKERRQ(ierr); 559 } else { 560 /* assemble the entire matrix onto first processor. */ 561 Mat A; 562 int M = mdn->M, N = mdn->N,m,row,i, nz, *cols; 563 Scalar *vals; 564 Mat_SeqDense *Amdn = (Mat_SeqDense*) mdn->A->data; 565 566 if (!rank) { 567 ierr = MatCreateMPIDense(mat->comm,M,N,M,N,PETSC_NULL,&A); CHKERRQ(ierr); 568 } else { 569 ierr = MatCreateMPIDense(mat->comm,0,N,M,N,PETSC_NULL,&A); CHKERRQ(ierr); 570 } 571 PLogObjectParent(mat,A); 572 573 /* Copy the matrix ... This isn't the most efficient means, 574 but it's quick for now */ 575 row = mdn->rstart; m = Amdn->m; 576 for ( i=0; i<m; i++ ) { 577 ierr = MatGetRow(mat,row,&nz,&cols,&vals); CHKERRQ(ierr); 578 ierr = MatSetValues(A,1,&row,nz,cols,vals,INSERT_VALUES); CHKERRQ(ierr); 579 ierr = MatRestoreRow(mat,row,&nz,&cols,&vals); CHKERRQ(ierr); 580 row++; 581 } 582 583 ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY); CHKERRQ(ierr); 584 ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY); CHKERRQ(ierr); 585 if (!rank) { 586 ierr = MatView(((Mat_MPIDense*)(A->data))->A,viewer); CHKERRQ(ierr); 587 } 588 ierr = MatDestroy(A); CHKERRQ(ierr); 589 } 590 } 591 PetscFunctionReturn(0); 592 } 593 594 #undef __FUNC__ 595 #define __FUNC__ "MatView_MPIDense" 596 int MatView_MPIDense(PetscObject obj,Viewer viewer) 597 { 598 Mat mat = (Mat) obj; 599 int ierr; 600 ViewerType vtype; 601 602 ierr = ViewerGetType(viewer,&vtype); CHKERRQ(ierr); 603 if (vtype == ASCII_FILE_VIEWER) { 604 ierr = MatView_MPIDense_ASCII(mat,viewer); CHKERRQ(ierr); 605 } else if (vtype == ASCII_FILES_VIEWER) { 606 ierr = MatView_MPIDense_ASCII(mat,viewer); CHKERRQ(ierr); 607 } else if (vtype == BINARY_FILE_VIEWER) { 608 ierr = MatView_MPIDense_Binary(mat,viewer);CHKERRQ(ierr); 609 } 610 PetscFunctionReturn(0); 611 } 612 613 #undef __FUNC__ 614 #define __FUNC__ "MatGetInfo_MPIDense" 615 int MatGetInfo_MPIDense(Mat A,MatInfoType flag,MatInfo *info) 616 { 617 Mat_MPIDense *mat = (Mat_MPIDense *) A->data; 618 Mat mdn = mat->A; 619 int ierr; 620 double isend[5], irecv[5]; 621 622 PetscFunctionBegin; 623 info->rows_global = (double)mat->M; 624 info->columns_global = (double)mat->N; 625 info->rows_local = (double)mat->m; 626 info->columns_local = (double)mat->N; 627 info->block_size = 1.0; 628 ierr = MatGetInfo(mdn,MAT_LOCAL,info); CHKERRQ(ierr); 629 isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded; 630 isend[3] = info->memory; isend[4] = info->mallocs; 631 if (flag == MAT_LOCAL) { 632 info->nz_used = isend[0]; 633 info->nz_allocated = isend[1]; 634 info->nz_unneeded = isend[2]; 635 info->memory = isend[3]; 636 info->mallocs = isend[4]; 637 } else if (flag == MAT_GLOBAL_MAX) { 638 ierr = MPI_Allreduce(isend,irecv,5,MPI_INT,MPI_MAX,A->comm);CHKERRQ(ierr); 639 info->nz_used = irecv[0]; 640 info->nz_allocated = irecv[1]; 641 info->nz_unneeded = irecv[2]; 642 info->memory = irecv[3]; 643 info->mallocs = irecv[4]; 644 } else if (flag == MAT_GLOBAL_SUM) { 645 ierr = MPI_Allreduce(isend,irecv,5,MPI_INT,MPI_SUM,A->comm);CHKERRQ(ierr); 646 info->nz_used = irecv[0]; 647 info->nz_allocated = irecv[1]; 648 info->nz_unneeded = irecv[2]; 649 info->memory = irecv[3]; 650 info->mallocs = irecv[4]; 651 } 652 info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 653 info->fill_ratio_needed = 0; 654 info->factor_mallocs = 0; 655 PetscFunctionReturn(0); 656 } 657 658 /* extern int MatLUFactorSymbolic_MPIDense(Mat,IS,IS,double,Mat*); 659 extern int MatLUFactorNumeric_MPIDense(Mat,Mat*); 660 extern int MatLUFactor_MPIDense(Mat,IS,IS,double); 661 extern int MatSolve_MPIDense(Mat,Vec,Vec); 662 extern int MatSolveAdd_MPIDense(Mat,Vec,Vec,Vec); 663 extern int MatSolveTrans_MPIDense(Mat,Vec,Vec); 664 extern int MatSolveTransAdd_MPIDense(Mat,Vec,Vec,Vec); */ 665 666 #undef __FUNC__ 667 #define __FUNC__ "MatSetOption_MPIDense" 668 int MatSetOption_MPIDense(Mat A,MatOption op) 669 { 670 Mat_MPIDense *a = (Mat_MPIDense *) A->data; 671 672 PetscFunctionBegin; 673 if (op == MAT_NO_NEW_NONZERO_LOCATIONS || 674 op == MAT_YES_NEW_NONZERO_LOCATIONS || 675 op == MAT_NEW_NONZERO_LOCATION_ERROR || 676 op == MAT_NEW_NONZERO_ALLOCATION_ERROR || 677 op == MAT_COLUMNS_SORTED || 678 op == MAT_COLUMNS_UNSORTED) { 679 MatSetOption(a->A,op); 680 } else if (op == MAT_ROW_ORIENTED) { 681 a->roworiented = 1; 682 MatSetOption(a->A,op); 683 } else if (op == MAT_ROWS_SORTED || 684 op == MAT_ROWS_UNSORTED || 685 op == MAT_SYMMETRIC || 686 op == MAT_STRUCTURALLY_SYMMETRIC || 687 op == MAT_YES_NEW_DIAGONALS || 688 op == MAT_USE_HASH_TABLE) { 689 PLogInfo(A,"MatSetOption_MPIDense:Option ignored\n"); 690 } else if (op == MAT_COLUMN_ORIENTED) { 691 a->roworiented = 0; MatSetOption(a->A,op); 692 } else if (op == MAT_NO_NEW_DIAGONALS) { 693 SETERRQ(PETSC_ERR_SUP,0,"MAT_NO_NEW_DIAGONALS"); 694 } else { 695 SETERRQ(PETSC_ERR_SUP,0,"unknown option"); 696 } 697 PetscFunctionReturn(0); 698 } 699 700 #undef __FUNC__ 701 #define __FUNC__ "MatGetSize_MPIDense" 702 int MatGetSize_MPIDense(Mat A,int *m,int *n) 703 { 704 Mat_MPIDense *mat = (Mat_MPIDense *) A->data; 705 706 PetscFunctionBegin; 707 *m = mat->M; *n = mat->N; 708 PetscFunctionReturn(0); 709 } 710 711 #undef __FUNC__ 712 #define __FUNC__ "MatGetLocalSize_MPIDense" 713 int MatGetLocalSize_MPIDense(Mat A,int *m,int *n) 714 { 715 Mat_MPIDense *mat = (Mat_MPIDense *) A->data; 716 717 PetscFunctionBegin; 718 *m = mat->m; *n = mat->N; 719 PetscFunctionReturn(0); 720 } 721 722 #undef __FUNC__ 723 #define __FUNC__ "MatGetOwnershipRange_MPIDense" 724 int MatGetOwnershipRange_MPIDense(Mat A,int *m,int *n) 725 { 726 Mat_MPIDense *mat = (Mat_MPIDense *) A->data; 727 728 PetscFunctionBegin; 729 *m = mat->rstart; *n = mat->rend; 730 PetscFunctionReturn(0); 731 } 732 733 #undef __FUNC__ 734 #define __FUNC__ "MatGetRow_MPIDense" 735 int MatGetRow_MPIDense(Mat A,int row,int *nz,int **idx,Scalar **v) 736 { 737 Mat_MPIDense *mat = (Mat_MPIDense *) A->data; 738 int lrow, rstart = mat->rstart, rend = mat->rend,ierr; 739 740 PetscFunctionBegin; 741 if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_SUP,0,"only local rows") 742 lrow = row - rstart; 743 ierr = MatGetRow(mat->A,lrow,nz,idx,v);CHKERRQ(ierr); 744 PetscFunctionReturn(0); 745 } 746 747 #undef __FUNC__ 748 #define __FUNC__ "MatRestoreRow_MPIDense" 749 int MatRestoreRow_MPIDense(Mat mat,int row,int *nz,int **idx,Scalar **v) 750 { 751 PetscFunctionBegin; 752 if (idx) PetscFree(*idx); 753 if (v) PetscFree(*v); 754 PetscFunctionReturn(0); 755 } 756 757 #undef __FUNC__ 758 #define __FUNC__ "MatNorm_MPIDense" 759 int MatNorm_MPIDense(Mat A,NormType type,double *norm) 760 { 761 Mat_MPIDense *mdn = (Mat_MPIDense *) A->data; 762 Mat_SeqDense *mat = (Mat_SeqDense*) mdn->A->data; 763 int ierr, i, j; 764 double sum = 0.0; 765 Scalar *v = mat->v; 766 767 PetscFunctionBegin; 768 if (mdn->size == 1) { 769 ierr = MatNorm(mdn->A,type,norm); CHKERRQ(ierr); 770 } else { 771 if (type == NORM_FROBENIUS) { 772 for (i=0; i<mat->n*mat->m; i++ ) { 773 #if defined(USE_PETSC_COMPLEX) 774 sum += real(conj(*v)*(*v)); v++; 775 #else 776 sum += (*v)*(*v); v++; 777 #endif 778 } 779 ierr = MPI_Allreduce(&sum,norm,1,MPI_DOUBLE,MPI_SUM,A->comm);CHKERRQ(ierr); 780 *norm = sqrt(*norm); 781 PLogFlops(2*mat->n*mat->m); 782 } else if (type == NORM_1) { 783 double *tmp, *tmp2; 784 tmp = (double *) PetscMalloc( 2*mdn->N*sizeof(double) ); CHKPTRQ(tmp); 785 tmp2 = tmp + mdn->N; 786 PetscMemzero(tmp,2*mdn->N*sizeof(double)); 787 *norm = 0.0; 788 v = mat->v; 789 for ( j=0; j<mat->n; j++ ) { 790 for ( i=0; i<mat->m; i++ ) { 791 tmp[j] += PetscAbsScalar(*v); v++; 792 } 793 } 794 ierr = MPI_Allreduce(tmp,tmp2,mdn->N,MPI_DOUBLE,MPI_SUM,A->comm);CHKERRQ(ierr); 795 for ( j=0; j<mdn->N; j++ ) { 796 if (tmp2[j] > *norm) *norm = tmp2[j]; 797 } 798 PetscFree(tmp); 799 PLogFlops(mat->n*mat->m); 800 } else if (type == NORM_INFINITY) { /* max row norm */ 801 double ntemp; 802 ierr = MatNorm(mdn->A,type,&ntemp); CHKERRQ(ierr); 803 ierr = MPI_Allreduce(&ntemp,norm,1,MPI_DOUBLE,MPI_MAX,A->comm);CHKERRQ(ierr); 804 } else { 805 SETERRQ(PETSC_ERR_SUP,0,"No support for two norm"); 806 } 807 } 808 PetscFunctionReturn(0); 809 } 810 811 #undef __FUNC__ 812 #define __FUNC__ "MatTranspose_MPIDense" 813 int MatTranspose_MPIDense(Mat A,Mat *matout) 814 { 815 Mat_MPIDense *a = (Mat_MPIDense *) A->data; 816 Mat_SeqDense *Aloc = (Mat_SeqDense *) a->A->data; 817 Mat B; 818 int M = a->M, N = a->N, m, n, *rwork, rstart = a->rstart; 819 int j, i, ierr; 820 Scalar *v; 821 822 PetscFunctionBegin; 823 if (matout == PETSC_NULL && M != N) { 824 SETERRQ(PETSC_ERR_SUP,0,"Supports square matrix only in-place"); 825 } 826 ierr = MatCreateMPIDense(A->comm,PETSC_DECIDE,PETSC_DECIDE,N,M,PETSC_NULL,&B);CHKERRQ(ierr); 827 828 m = Aloc->m; n = Aloc->n; v = Aloc->v; 829 rwork = (int *) PetscMalloc(n*sizeof(int)); CHKPTRQ(rwork); 830 for ( j=0; j<n; j++ ) { 831 for (i=0; i<m; i++) rwork[i] = rstart + i; 832 ierr = MatSetValues(B,1,&j,m,rwork,v,INSERT_VALUES); CHKERRQ(ierr); 833 v += m; 834 } 835 PetscFree(rwork); 836 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY); CHKERRQ(ierr); 837 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY); CHKERRQ(ierr); 838 if (matout != PETSC_NULL) { 839 *matout = B; 840 } else { 841 /* This isn't really an in-place transpose, but free data struct from a */ 842 PetscFree(a->rowners); 843 ierr = MatDestroy(a->A); CHKERRQ(ierr); 844 if (a->lvec) VecDestroy(a->lvec); 845 if (a->Mvctx) VecScatterDestroy(a->Mvctx); 846 PetscFree(a); 847 PetscMemcpy(A,B,sizeof(struct _p_Mat)); 848 PetscHeaderDestroy(B); 849 } 850 PetscFunctionReturn(0); 851 } 852 853 #include "pinclude/plapack.h" 854 #undef __FUNC__ 855 #define __FUNC__ "MatScale_MPIDense" 856 int MatScale_MPIDense(Scalar *alpha,Mat inA) 857 { 858 Mat_MPIDense *A = (Mat_MPIDense *) inA->data; 859 Mat_SeqDense *a = (Mat_SeqDense *) A->A->data; 860 int one = 1, nz; 861 862 PetscFunctionBegin; 863 nz = a->m*a->n; 864 BLscal_( &nz, alpha, a->v, &one ); 865 PLogFlops(nz); 866 PetscFunctionReturn(0); 867 } 868 869 static int MatConvertSameType_MPIDense(Mat,Mat *,int); 870 871 /* -------------------------------------------------------------------*/ 872 static struct _MatOps MatOps = {MatSetValues_MPIDense, 873 MatGetRow_MPIDense,MatRestoreRow_MPIDense, 874 MatMult_MPIDense,MatMultAdd_MPIDense, 875 MatMultTrans_MPIDense,MatMultTransAdd_MPIDense, 876 /* MatSolve_MPIDense,0, */ 877 0,0, 878 0,0, 879 0,0, 880 /* MatLUFactor_MPIDense,0, */ 881 0,MatTranspose_MPIDense, 882 MatGetInfo_MPIDense,0, 883 MatGetDiagonal_MPIDense,0,MatNorm_MPIDense, 884 MatAssemblyBegin_MPIDense,MatAssemblyEnd_MPIDense, 885 0, 886 MatSetOption_MPIDense,MatZeroEntries_MPIDense,MatZeroRows_MPIDense, 887 0,0, 888 /* 0,MatLUFactorSymbolic_MPIDense,MatLUFactorNumeric_MPIDense, */ 889 0,0, 890 MatGetSize_MPIDense,MatGetLocalSize_MPIDense, 891 MatGetOwnershipRange_MPIDense, 892 0,0, MatGetArray_MPIDense, MatRestoreArray_MPIDense, 893 MatConvertSameType_MPIDense, 894 0,0,0,0,0, 895 0,0,MatGetValues_MPIDense,0,0,MatScale_MPIDense, 896 0,0,0,MatGetBlockSize_MPIDense}; 897 898 #undef __FUNC__ 899 #define __FUNC__ "MatCreateMPIDense" 900 /*@C 901 MatCreateMPIDense - Creates a sparse parallel matrix in dense format. 902 903 Input Parameters: 904 . comm - MPI communicator 905 . m - number of local rows (or PETSC_DECIDE to have calculated if M is given) 906 . n - number of local columns (or PETSC_DECIDE to have calculated 907 if N is given) 908 . M - number of global rows (or PETSC_DECIDE to have calculated if m is given) 909 . N - number of global columns (or PETSC_DECIDE to have calculated 910 if n is given) 911 . data - optional location of matrix data. Set data=PETSC_NULL for PETSc 912 to control all matrix memory allocation. 913 914 Output Parameter: 915 . A - the matrix 916 917 Notes: 918 The dense format is fully compatible with standard Fortran 77 919 storage by columns. 920 921 The data input variable is intended primarily for Fortran programmers 922 who wish to allocate their own matrix memory space. Most users should 923 set data=PETSC_NULL. 924 925 The user MUST specify either the local or global matrix dimensions 926 (possibly both). 927 928 Currently, the only parallel dense matrix decomposition is by rows, 929 so that n=N and each submatrix owns all of the global columns. 930 931 .keywords: matrix, dense, parallel 932 933 .seealso: MatCreate(), MatCreateSeqDense(), MatSetValues() 934 @*/ 935 int MatCreateMPIDense(MPI_Comm comm,int m,int n,int M,int N,Scalar *data,Mat *A) 936 { 937 Mat mat; 938 Mat_MPIDense *a; 939 int ierr, i,flg; 940 941 PetscFunctionBegin; 942 /* Note: For now, when data is specified above, this assumes the user correctly 943 allocates the local dense storage space. We should add error checking. */ 944 945 *A = 0; 946 PetscHeaderCreate(mat,_p_Mat,MAT_COOKIE,MATMPIDENSE,comm,MatDestroy,MatView); 947 PLogObjectCreate(mat); 948 mat->data = (void *) (a = PetscNew(Mat_MPIDense)); CHKPTRQ(a); 949 PetscMemcpy(&mat->ops,&MatOps,sizeof(struct _MatOps)); 950 mat->destroy = MatDestroy_MPIDense; 951 mat->view = MatView_MPIDense; 952 mat->factor = 0; 953 mat->mapping = 0; 954 955 a->factor = 0; 956 mat->insertmode = NOT_SET_VALUES; 957 MPI_Comm_rank(comm,&a->rank); 958 MPI_Comm_size(comm,&a->size); 959 960 if (M == PETSC_DECIDE) {ierr = MPI_Allreduce(&m,&M,1,MPI_INT,MPI_SUM,comm);CHKERRQ(ierr);} 961 if (m == PETSC_DECIDE) {m = M/a->size + ((M % a->size) > a->rank);} 962 963 /* each row stores all columns */ 964 if (N == PETSC_DECIDE) N = n; 965 if (n == PETSC_DECIDE) {n = N/a->size + ((N % a->size) > a->rank);} 966 /* if (n != N) SETERRQ(PETSC_ERR_SUP,0,"For now, only n=N is supported"); */ 967 a->N = mat->N = N; 968 a->M = mat->M = M; 969 a->m = mat->m = m; 970 a->n = mat->n = n; 971 972 /* build local table of row and column ownerships */ 973 a->rowners = (int *) PetscMalloc(2*(a->size+2)*sizeof(int)); CHKPTRQ(a->rowners); 974 a->cowners = a->rowners + a->size + 1; 975 PLogObjectMemory(mat,2*(a->size+2)*sizeof(int)+sizeof(struct _p_Mat)+sizeof(Mat_MPIDense)); 976 ierr = MPI_Allgather(&m,1,MPI_INT,a->rowners+1,1,MPI_INT,comm);CHKERRQ(ierr); 977 a->rowners[0] = 0; 978 for ( i=2; i<=a->size; i++ ) { 979 a->rowners[i] += a->rowners[i-1]; 980 } 981 a->rstart = a->rowners[a->rank]; 982 a->rend = a->rowners[a->rank+1]; 983 ierr = MPI_Allgather(&n,1,MPI_INT,a->cowners+1,1,MPI_INT,comm);CHKERRQ(ierr); 984 a->cowners[0] = 0; 985 for ( i=2; i<=a->size; i++ ) { 986 a->cowners[i] += a->cowners[i-1]; 987 } 988 989 ierr = MatCreateSeqDense(PETSC_COMM_SELF,m,N,data,&a->A); CHKERRQ(ierr); 990 PLogObjectParent(mat,a->A); 991 992 /* build cache for off array entries formed */ 993 ierr = StashBuild_Private(&a->stash); CHKERRQ(ierr); 994 995 /* stuff used for matrix vector multiply */ 996 a->lvec = 0; 997 a->Mvctx = 0; 998 a->roworiented = 1; 999 1000 *A = mat; 1001 ierr = OptionsHasName(PETSC_NULL,"-help",&flg); CHKERRQ(ierr); 1002 if (flg) { 1003 ierr = MatPrintHelp(mat); CHKERRQ(ierr); 1004 } 1005 PetscFunctionReturn(0); 1006 } 1007 1008 #undef __FUNC__ 1009 #define __FUNC__ "MatConvertSameType_MPIDense" 1010 static int MatConvertSameType_MPIDense(Mat A,Mat *newmat,int cpvalues) 1011 { 1012 Mat mat; 1013 Mat_MPIDense *a,*oldmat = (Mat_MPIDense *) A->data; 1014 int ierr; 1015 FactorCtx *factor; 1016 1017 PetscFunctionBegin; 1018 *newmat = 0; 1019 PetscHeaderCreate(mat,_p_Mat,MAT_COOKIE,MATMPIDENSE,A->comm,MatDestroy,MatView); 1020 PLogObjectCreate(mat); 1021 mat->data = (void *) (a = PetscNew(Mat_MPIDense)); CHKPTRQ(a); 1022 PetscMemcpy(&mat->ops,&MatOps,sizeof(struct _MatOps)); 1023 mat->destroy = MatDestroy_MPIDense; 1024 mat->view = MatView_MPIDense; 1025 mat->factor = A->factor; 1026 mat->assembled = PETSC_TRUE; 1027 1028 a->m = mat->m = oldmat->m; 1029 a->n = mat->n = oldmat->n; 1030 a->M = mat->M = oldmat->M; 1031 a->N = mat->N = oldmat->N; 1032 if (oldmat->factor) { 1033 a->factor = (FactorCtx *) (factor = PetscNew(FactorCtx)); CHKPTRQ(factor); 1034 /* copy factor contents ... add this code! */ 1035 } else a->factor = 0; 1036 1037 a->rstart = oldmat->rstart; 1038 a->rend = oldmat->rend; 1039 a->size = oldmat->size; 1040 a->rank = oldmat->rank; 1041 mat->insertmode = NOT_SET_VALUES; 1042 1043 a->rowners = (int *) PetscMalloc((a->size+1)*sizeof(int)); CHKPTRQ(a->rowners); 1044 PLogObjectMemory(mat,(a->size+1)*sizeof(int)+sizeof(struct _p_Mat)+sizeof(Mat_MPIDense)); 1045 PetscMemcpy(a->rowners,oldmat->rowners,(a->size+1)*sizeof(int)); 1046 ierr = StashInitialize_Private(&a->stash); CHKERRQ(ierr); 1047 1048 ierr = VecDuplicate(oldmat->lvec,&a->lvec); CHKERRQ(ierr); 1049 PLogObjectParent(mat,a->lvec); 1050 ierr = VecScatterCopy(oldmat->Mvctx,&a->Mvctx); CHKERRQ(ierr); 1051 PLogObjectParent(mat,a->Mvctx); 1052 ierr = MatConvert(oldmat->A,MATSAME,&a->A); CHKERRQ(ierr); 1053 PLogObjectParent(mat,a->A); 1054 *newmat = mat; 1055 PetscFunctionReturn(0); 1056 } 1057 1058 #include "sys.h" 1059 1060 #undef __FUNC__ 1061 #define __FUNC__ "MatLoad_MPIDense_DenseInFile" 1062 int MatLoad_MPIDense_DenseInFile(MPI_Comm comm,int fd,int M, int N, Mat *newmat) 1063 { 1064 int *rowners, i,size,rank,m,rstart,rend,ierr,nz,j; 1065 Scalar *array,*vals,*vals_ptr; 1066 MPI_Status status; 1067 1068 PetscFunctionBegin; 1069 MPI_Comm_rank(comm,&rank); 1070 MPI_Comm_size(comm,&size); 1071 1072 /* determine ownership of all rows */ 1073 m = M/size + ((M % size) > rank); 1074 rowners = (int *) PetscMalloc((size+2)*sizeof(int)); CHKPTRQ(rowners); 1075 ierr = MPI_Allgather(&m,1,MPI_INT,rowners+1,1,MPI_INT,comm);CHKERRQ(ierr); 1076 rowners[0] = 0; 1077 for ( i=2; i<=size; i++ ) { 1078 rowners[i] += rowners[i-1]; 1079 } 1080 rstart = rowners[rank]; 1081 rend = rowners[rank+1]; 1082 1083 ierr = MatCreateMPIDense(comm,m,PETSC_DECIDE,M,N,PETSC_NULL,newmat);CHKERRQ(ierr); 1084 ierr = MatGetArray(*newmat,&array); CHKERRQ(ierr); 1085 1086 if (!rank) { 1087 vals = (Scalar *) PetscMalloc( m*N*sizeof(Scalar) ); CHKPTRQ(vals); 1088 1089 /* read in my part of the matrix numerical values */ 1090 ierr = PetscBinaryRead(fd,vals,m*N,PETSC_SCALAR); CHKERRQ(ierr); 1091 1092 /* insert into matrix-by row (this is why cannot directly read into array */ 1093 vals_ptr = vals; 1094 for ( i=0; i<m; i++ ) { 1095 for ( j=0; j<N; j++ ) { 1096 array[i + j*m] = *vals_ptr++; 1097 } 1098 } 1099 1100 /* read in other processors and ship out */ 1101 for ( i=1; i<size; i++ ) { 1102 nz = (rowners[i+1] - rowners[i])*N; 1103 ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR); CHKERRQ(ierr); 1104 ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,(*newmat)->tag,comm);CHKERRQ(ierr); 1105 } 1106 } else { 1107 /* receive numeric values */ 1108 vals = (Scalar*) PetscMalloc( m*N*sizeof(Scalar) ); CHKPTRQ(vals); 1109 1110 /* receive message of values*/ 1111 ierr = MPI_Recv(vals,m*N,MPIU_SCALAR,0,(*newmat)->tag,comm,&status);CHKERRQ(ierr); 1112 1113 /* insert into matrix-by row (this is why cannot directly read into array */ 1114 vals_ptr = vals; 1115 for ( i=0; i<m; i++ ) { 1116 for ( j=0; j<N; j++ ) { 1117 array[i + j*m] = *vals_ptr++; 1118 } 1119 } 1120 } 1121 PetscFree(rowners); 1122 PetscFree(vals); 1123 ierr = MatAssemblyBegin(*newmat,MAT_FINAL_ASSEMBLY); CHKERRQ(ierr); 1124 ierr = MatAssemblyEnd(*newmat,MAT_FINAL_ASSEMBLY); CHKERRQ(ierr); 1125 PetscFunctionReturn(0); 1126 } 1127 1128 1129 #undef __FUNC__ 1130 #define __FUNC__ "MatLoad_MPIDense" 1131 int MatLoad_MPIDense(Viewer viewer,MatType type,Mat *newmat) 1132 { 1133 Mat A; 1134 Scalar *vals,*svals; 1135 MPI_Comm comm = ((PetscObject)viewer)->comm; 1136 MPI_Status status; 1137 int header[4],rank,size,*rowlengths = 0,M,N,m,*rowners,maxnz,*cols; 1138 int *ourlens,*sndcounts = 0,*procsnz = 0, *offlens,jj,*mycols,*smycols; 1139 int tag = ((PetscObject)viewer)->tag; 1140 int i, nz, ierr, j,rstart, rend, fd; 1141 1142 PetscFunctionBegin; 1143 MPI_Comm_size(comm,&size); MPI_Comm_rank(comm,&rank); 1144 if (!rank) { 1145 ierr = ViewerBinaryGetDescriptor(viewer,&fd); CHKERRQ(ierr); 1146 ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT); CHKERRQ(ierr); 1147 if (header[0] != MAT_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,0,"not matrix object"); 1148 } 1149 1150 ierr = MPI_Bcast(header+1,3,MPI_INT,0,comm);CHKERRQ(ierr); 1151 M = header[1]; N = header[2]; nz = header[3]; 1152 1153 /* 1154 Handle case where matrix is stored on disk as a dense matrix 1155 */ 1156 if (nz == MATRIX_BINARY_FORMAT_DENSE) { 1157 ierr = MatLoad_MPIDense_DenseInFile(comm,fd,M,N,newmat);CHKERRQ(ierr); 1158 PetscFunctionReturn(0); 1159 } 1160 1161 /* determine ownership of all rows */ 1162 m = M/size + ((M % size) > rank); 1163 rowners = (int *) PetscMalloc((size+2)*sizeof(int)); CHKPTRQ(rowners); 1164 ierr = MPI_Allgather(&m,1,MPI_INT,rowners+1,1,MPI_INT,comm);CHKERRQ(ierr); 1165 rowners[0] = 0; 1166 for ( i=2; i<=size; i++ ) { 1167 rowners[i] += rowners[i-1]; 1168 } 1169 rstart = rowners[rank]; 1170 rend = rowners[rank+1]; 1171 1172 /* distribute row lengths to all processors */ 1173 ourlens = (int*) PetscMalloc( 2*(rend-rstart)*sizeof(int) ); CHKPTRQ(ourlens); 1174 offlens = ourlens + (rend-rstart); 1175 if (!rank) { 1176 rowlengths = (int*) PetscMalloc( M*sizeof(int) ); CHKPTRQ(rowlengths); 1177 ierr = PetscBinaryRead(fd,rowlengths,M,PETSC_INT); CHKERRQ(ierr); 1178 sndcounts = (int*) PetscMalloc( size*sizeof(int) ); CHKPTRQ(sndcounts); 1179 for ( i=0; i<size; i++ ) sndcounts[i] = rowners[i+1] - rowners[i]; 1180 ierr = MPI_Scatterv(rowlengths,sndcounts,rowners,MPI_INT,ourlens,rend-rstart,MPI_INT,0,comm);CHKERRQ(ierr); 1181 PetscFree(sndcounts); 1182 } else { 1183 ierr = MPI_Scatterv(0,0,0,MPI_INT,ourlens,rend-rstart,MPI_INT, 0,comm);CHKERRQ(ierr); 1184 } 1185 1186 if (!rank) { 1187 /* calculate the number of nonzeros on each processor */ 1188 procsnz = (int*) PetscMalloc( size*sizeof(int) ); CHKPTRQ(procsnz); 1189 PetscMemzero(procsnz,size*sizeof(int)); 1190 for ( i=0; i<size; i++ ) { 1191 for ( j=rowners[i]; j< rowners[i+1]; j++ ) { 1192 procsnz[i] += rowlengths[j]; 1193 } 1194 } 1195 PetscFree(rowlengths); 1196 1197 /* determine max buffer needed and allocate it */ 1198 maxnz = 0; 1199 for ( i=0; i<size; i++ ) { 1200 maxnz = PetscMax(maxnz,procsnz[i]); 1201 } 1202 cols = (int *) PetscMalloc( maxnz*sizeof(int) ); CHKPTRQ(cols); 1203 1204 /* read in my part of the matrix column indices */ 1205 nz = procsnz[0]; 1206 mycols = (int *) PetscMalloc( nz*sizeof(int) ); CHKPTRQ(mycols); 1207 ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT); CHKERRQ(ierr); 1208 1209 /* read in every one elses and ship off */ 1210 for ( i=1; i<size; i++ ) { 1211 nz = procsnz[i]; 1212 ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT); CHKERRQ(ierr); 1213 ierr = MPI_Send(cols,nz,MPI_INT,i,tag,comm);CHKERRQ(ierr); 1214 } 1215 PetscFree(cols); 1216 } else { 1217 /* determine buffer space needed for message */ 1218 nz = 0; 1219 for ( i=0; i<m; i++ ) { 1220 nz += ourlens[i]; 1221 } 1222 mycols = (int*) PetscMalloc( nz*sizeof(int) ); CHKPTRQ(mycols); 1223 1224 /* receive message of column indices*/ 1225 ierr = MPI_Recv(mycols,nz,MPI_INT,0,tag,comm,&status);CHKERRQ(ierr); 1226 ierr = MPI_Get_count(&status,MPI_INT,&maxnz);CHKERRQ(ierr); 1227 if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,0,"something is wrong with file"); 1228 } 1229 1230 /* loop over local rows, determining number of off diagonal entries */ 1231 PetscMemzero(offlens,m*sizeof(int)); 1232 jj = 0; 1233 for ( i=0; i<m; i++ ) { 1234 for ( j=0; j<ourlens[i]; j++ ) { 1235 if (mycols[jj] < rstart || mycols[jj] >= rend) offlens[i]++; 1236 jj++; 1237 } 1238 } 1239 1240 /* create our matrix */ 1241 for ( i=0; i<m; i++ ) { 1242 ourlens[i] -= offlens[i]; 1243 } 1244 ierr = MatCreateMPIDense(comm,m,PETSC_DECIDE,M,N,PETSC_NULL,newmat);CHKERRQ(ierr); 1245 A = *newmat; 1246 for ( i=0; i<m; i++ ) { 1247 ourlens[i] += offlens[i]; 1248 } 1249 1250 if (!rank) { 1251 vals = (Scalar *) PetscMalloc( maxnz*sizeof(Scalar) ); CHKPTRQ(vals); 1252 1253 /* read in my part of the matrix numerical values */ 1254 nz = procsnz[0]; 1255 ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR); CHKERRQ(ierr); 1256 1257 /* insert into matrix */ 1258 jj = rstart; 1259 smycols = mycols; 1260 svals = vals; 1261 for ( i=0; i<m; i++ ) { 1262 ierr = MatSetValues(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 1263 smycols += ourlens[i]; 1264 svals += ourlens[i]; 1265 jj++; 1266 } 1267 1268 /* read in other processors and ship out */ 1269 for ( i=1; i<size; i++ ) { 1270 nz = procsnz[i]; 1271 ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR); CHKERRQ(ierr); 1272 ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,A->tag,comm);CHKERRQ(ierr); 1273 } 1274 PetscFree(procsnz); 1275 } else { 1276 /* receive numeric values */ 1277 vals = (Scalar*) PetscMalloc( nz*sizeof(Scalar) ); CHKPTRQ(vals); 1278 1279 /* receive message of values*/ 1280 ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,A->tag,comm,&status);CHKERRQ(ierr); 1281 ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr); 1282 if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,0,"something is wrong with file"); 1283 1284 /* insert into matrix */ 1285 jj = rstart; 1286 smycols = mycols; 1287 svals = vals; 1288 for ( i=0; i<m; i++ ) { 1289 ierr = MatSetValues(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 1290 smycols += ourlens[i]; 1291 svals += ourlens[i]; 1292 jj++; 1293 } 1294 } 1295 PetscFree(ourlens); PetscFree(vals); PetscFree(mycols); PetscFree(rowners); 1296 1297 ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY); CHKERRQ(ierr); 1298 ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY); CHKERRQ(ierr); 1299 PetscFunctionReturn(0); 1300 } 1301 1302 1303 1304 1305 1306