1 2 #include <../src/mat/impls/baij/mpi/mpibaij.h> /*I "petscmat.h" I*/ 3 4 #include <petscblaslapack.h> 5 #include <petscsf.h> 6 7 #if defined(PETSC_HAVE_HYPRE) 8 PETSC_INTERN PetscErrorCode MatConvert_AIJ_HYPRE(Mat,MatType,MatReuse,Mat*); 9 #endif 10 11 PetscErrorCode MatGetRowMaxAbs_MPIBAIJ(Mat A,Vec v,PetscInt idx[]) 12 { 13 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 14 PetscErrorCode ierr; 15 PetscInt i,*idxb = 0; 16 PetscScalar *va,*vb; 17 Vec vtmp; 18 19 PetscFunctionBegin; 20 ierr = MatGetRowMaxAbs(a->A,v,idx);CHKERRQ(ierr); 21 ierr = VecGetArray(v,&va);CHKERRQ(ierr); 22 if (idx) { 23 for (i=0; i<A->rmap->n; i++) { 24 if (PetscAbsScalar(va[i])) idx[i] += A->cmap->rstart; 25 } 26 } 27 28 ierr = VecCreateSeq(PETSC_COMM_SELF,A->rmap->n,&vtmp);CHKERRQ(ierr); 29 if (idx) {ierr = PetscMalloc1(A->rmap->n,&idxb);CHKERRQ(ierr);} 30 ierr = MatGetRowMaxAbs(a->B,vtmp,idxb);CHKERRQ(ierr); 31 ierr = VecGetArray(vtmp,&vb);CHKERRQ(ierr); 32 33 for (i=0; i<A->rmap->n; i++) { 34 if (PetscAbsScalar(va[i]) < PetscAbsScalar(vb[i])) { 35 va[i] = vb[i]; 36 if (idx) idx[i] = A->cmap->bs*a->garray[idxb[i]/A->cmap->bs] + (idxb[i] % A->cmap->bs); 37 } 38 } 39 40 ierr = VecRestoreArray(v,&va);CHKERRQ(ierr); 41 ierr = VecRestoreArray(vtmp,&vb);CHKERRQ(ierr); 42 ierr = PetscFree(idxb);CHKERRQ(ierr); 43 ierr = VecDestroy(&vtmp);CHKERRQ(ierr); 44 PetscFunctionReturn(0); 45 } 46 47 PetscErrorCode MatStoreValues_MPIBAIJ(Mat mat) 48 { 49 Mat_MPIBAIJ *aij = (Mat_MPIBAIJ*)mat->data; 50 PetscErrorCode ierr; 51 52 PetscFunctionBegin; 53 ierr = MatStoreValues(aij->A);CHKERRQ(ierr); 54 ierr = MatStoreValues(aij->B);CHKERRQ(ierr); 55 PetscFunctionReturn(0); 56 } 57 58 PetscErrorCode MatRetrieveValues_MPIBAIJ(Mat mat) 59 { 60 Mat_MPIBAIJ *aij = (Mat_MPIBAIJ*)mat->data; 61 PetscErrorCode ierr; 62 63 PetscFunctionBegin; 64 ierr = MatRetrieveValues(aij->A);CHKERRQ(ierr); 65 ierr = MatRetrieveValues(aij->B);CHKERRQ(ierr); 66 PetscFunctionReturn(0); 67 } 68 69 /* 70 Local utility routine that creates a mapping from the global column 71 number to the local number in the off-diagonal part of the local 72 storage of the matrix. This is done in a non scalable way since the 73 length of colmap equals the global matrix length. 74 */ 75 PetscErrorCode MatCreateColmap_MPIBAIJ_Private(Mat mat) 76 { 77 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 78 Mat_SeqBAIJ *B = (Mat_SeqBAIJ*)baij->B->data; 79 PetscErrorCode ierr; 80 PetscInt nbs = B->nbs,i,bs=mat->rmap->bs; 81 82 PetscFunctionBegin; 83 #if defined(PETSC_USE_CTABLE) 84 ierr = PetscTableCreate(baij->nbs,baij->Nbs+1,&baij->colmap);CHKERRQ(ierr); 85 for (i=0; i<nbs; i++) { 86 ierr = PetscTableAdd(baij->colmap,baij->garray[i]+1,i*bs+1,INSERT_VALUES);CHKERRQ(ierr); 87 } 88 #else 89 ierr = PetscMalloc1(baij->Nbs+1,&baij->colmap);CHKERRQ(ierr); 90 ierr = PetscLogObjectMemory((PetscObject)mat,baij->Nbs*sizeof(PetscInt));CHKERRQ(ierr); 91 ierr = PetscMemzero(baij->colmap,baij->Nbs*sizeof(PetscInt));CHKERRQ(ierr); 92 for (i=0; i<nbs; i++) baij->colmap[baij->garray[i]] = i*bs+1; 93 #endif 94 PetscFunctionReturn(0); 95 } 96 97 #define MatSetValues_SeqBAIJ_A_Private(row,col,value,addv,orow,ocol) \ 98 { \ 99 \ 100 brow = row/bs; \ 101 rp = aj + ai[brow]; ap = aa + bs2*ai[brow]; \ 102 rmax = aimax[brow]; nrow = ailen[brow]; \ 103 bcol = col/bs; \ 104 ridx = row % bs; cidx = col % bs; \ 105 low = 0; high = nrow; \ 106 while (high-low > 3) { \ 107 t = (low+high)/2; \ 108 if (rp[t] > bcol) high = t; \ 109 else low = t; \ 110 } \ 111 for (_i=low; _i<high; _i++) { \ 112 if (rp[_i] > bcol) break; \ 113 if (rp[_i] == bcol) { \ 114 bap = ap + bs2*_i + bs*cidx + ridx; \ 115 if (addv == ADD_VALUES) *bap += value; \ 116 else *bap = value; \ 117 goto a_noinsert; \ 118 } \ 119 } \ 120 if (a->nonew == 1) goto a_noinsert; \ 121 if (a->nonew == -1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero at global row/column (%D, %D) into matrix", orow, ocol); \ 122 MatSeqXAIJReallocateAIJ(A,a->mbs,bs2,nrow,brow,bcol,rmax,aa,ai,aj,rp,ap,aimax,a->nonew,MatScalar); \ 123 N = nrow++ - 1; \ 124 /* shift up all the later entries in this row */ \ 125 for (ii=N; ii>=_i; ii--) { \ 126 rp[ii+1] = rp[ii]; \ 127 ierr = PetscMemcpy(ap+bs2*(ii+1),ap+bs2*(ii),bs2*sizeof(MatScalar));CHKERRQ(ierr); \ 128 } \ 129 if (N>=_i) { ierr = PetscMemzero(ap+bs2*_i,bs2*sizeof(MatScalar));CHKERRQ(ierr); } \ 130 rp[_i] = bcol; \ 131 ap[bs2*_i + bs*cidx + ridx] = value; \ 132 a_noinsert:; \ 133 ailen[brow] = nrow; \ 134 } 135 136 #define MatSetValues_SeqBAIJ_B_Private(row,col,value,addv,orow,ocol) \ 137 { \ 138 brow = row/bs; \ 139 rp = bj + bi[brow]; ap = ba + bs2*bi[brow]; \ 140 rmax = bimax[brow]; nrow = bilen[brow]; \ 141 bcol = col/bs; \ 142 ridx = row % bs; cidx = col % bs; \ 143 low = 0; high = nrow; \ 144 while (high-low > 3) { \ 145 t = (low+high)/2; \ 146 if (rp[t] > bcol) high = t; \ 147 else low = t; \ 148 } \ 149 for (_i=low; _i<high; _i++) { \ 150 if (rp[_i] > bcol) break; \ 151 if (rp[_i] == bcol) { \ 152 bap = ap + bs2*_i + bs*cidx + ridx; \ 153 if (addv == ADD_VALUES) *bap += value; \ 154 else *bap = value; \ 155 goto b_noinsert; \ 156 } \ 157 } \ 158 if (b->nonew == 1) goto b_noinsert; \ 159 if (b->nonew == -1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero at global row/column (%D, %D) into matrix", orow, ocol); \ 160 MatSeqXAIJReallocateAIJ(B,b->mbs,bs2,nrow,brow,bcol,rmax,ba,bi,bj,rp,ap,bimax,b->nonew,MatScalar); \ 161 N = nrow++ - 1; \ 162 /* shift up all the later entries in this row */ \ 163 for (ii=N; ii>=_i; ii--) { \ 164 rp[ii+1] = rp[ii]; \ 165 ierr = PetscMemcpy(ap+bs2*(ii+1),ap+bs2*(ii),bs2*sizeof(MatScalar));CHKERRQ(ierr); \ 166 } \ 167 if (N>=_i) { ierr = PetscMemzero(ap+bs2*_i,bs2*sizeof(MatScalar));CHKERRQ(ierr);} \ 168 rp[_i] = bcol; \ 169 ap[bs2*_i + bs*cidx + ridx] = value; \ 170 b_noinsert:; \ 171 bilen[brow] = nrow; \ 172 } 173 174 PetscErrorCode MatSetValues_MPIBAIJ(Mat mat,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode addv) 175 { 176 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 177 MatScalar value; 178 PetscBool roworiented = baij->roworiented; 179 PetscErrorCode ierr; 180 PetscInt i,j,row,col; 181 PetscInt rstart_orig=mat->rmap->rstart; 182 PetscInt rend_orig =mat->rmap->rend,cstart_orig=mat->cmap->rstart; 183 PetscInt cend_orig =mat->cmap->rend,bs=mat->rmap->bs; 184 185 /* Some Variables required in the macro */ 186 Mat A = baij->A; 187 Mat_SeqBAIJ *a = (Mat_SeqBAIJ*)(A)->data; 188 PetscInt *aimax=a->imax,*ai=a->i,*ailen=a->ilen,*aj=a->j; 189 MatScalar *aa =a->a; 190 191 Mat B = baij->B; 192 Mat_SeqBAIJ *b = (Mat_SeqBAIJ*)(B)->data; 193 PetscInt *bimax=b->imax,*bi=b->i,*bilen=b->ilen,*bj=b->j; 194 MatScalar *ba =b->a; 195 196 PetscInt *rp,ii,nrow,_i,rmax,N,brow,bcol; 197 PetscInt low,high,t,ridx,cidx,bs2=a->bs2; 198 MatScalar *ap,*bap; 199 200 PetscFunctionBegin; 201 for (i=0; i<m; i++) { 202 if (im[i] < 0) continue; 203 #if defined(PETSC_USE_DEBUG) 204 if (im[i] >= mat->rmap->N) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",im[i],mat->rmap->N-1); 205 #endif 206 if (im[i] >= rstart_orig && im[i] < rend_orig) { 207 row = im[i] - rstart_orig; 208 for (j=0; j<n; j++) { 209 if (in[j] >= cstart_orig && in[j] < cend_orig) { 210 col = in[j] - cstart_orig; 211 if (roworiented) value = v[i*n+j]; 212 else value = v[i+j*m]; 213 MatSetValues_SeqBAIJ_A_Private(row,col,value,addv,im[i],in[j]); 214 /* ierr = MatSetValues_SeqBAIJ(baij->A,1,&row,1,&col,&value,addv);CHKERRQ(ierr); */ 215 } else if (in[j] < 0) continue; 216 #if defined(PETSC_USE_DEBUG) 217 else if (in[j] >= mat->cmap->N) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",in[j],mat->cmap->N-1); 218 #endif 219 else { 220 if (mat->was_assembled) { 221 if (!baij->colmap) { 222 ierr = MatCreateColmap_MPIBAIJ_Private(mat);CHKERRQ(ierr); 223 } 224 #if defined(PETSC_USE_CTABLE) 225 ierr = PetscTableFind(baij->colmap,in[j]/bs + 1,&col);CHKERRQ(ierr); 226 col = col - 1; 227 #else 228 col = baij->colmap[in[j]/bs] - 1; 229 #endif 230 if (col < 0 && !((Mat_SeqBAIJ*)(baij->B->data))->nonew) { 231 ierr = MatDisAssemble_MPIBAIJ(mat);CHKERRQ(ierr); 232 col = in[j]; 233 /* Reinitialize the variables required by MatSetValues_SeqBAIJ_B_Private() */ 234 B = baij->B; 235 b = (Mat_SeqBAIJ*)(B)->data; 236 bimax=b->imax;bi=b->i;bilen=b->ilen;bj=b->j; 237 ba =b->a; 238 } else if (col < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) into matrix", im[i], in[j]); 239 else col += in[j]%bs; 240 } else col = in[j]; 241 if (roworiented) value = v[i*n+j]; 242 else value = v[i+j*m]; 243 MatSetValues_SeqBAIJ_B_Private(row,col,value,addv,im[i],in[j]); 244 /* ierr = MatSetValues_SeqBAIJ(baij->B,1,&row,1,&col,&value,addv);CHKERRQ(ierr); */ 245 } 246 } 247 } else { 248 if (mat->nooffprocentries) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Setting off process row %D even though MatSetOption(,MAT_NO_OFF_PROC_ENTRIES,PETSC_TRUE) was set",im[i]); 249 if (!baij->donotstash) { 250 mat->assembled = PETSC_FALSE; 251 if (roworiented) { 252 ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n,PETSC_FALSE);CHKERRQ(ierr); 253 } else { 254 ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m,PETSC_FALSE);CHKERRQ(ierr); 255 } 256 } 257 } 258 } 259 PetscFunctionReturn(0); 260 } 261 262 PETSC_STATIC_INLINE PetscErrorCode MatSetValuesBlocked_SeqBAIJ_Inlined(Mat A,PetscInt row,PetscInt col,const PetscScalar v[],InsertMode is,PetscInt orow,PetscInt ocol) 263 { 264 Mat_SeqBAIJ *a = (Mat_SeqBAIJ*)A->data; 265 PetscInt *rp,low,high,t,ii,jj,nrow,i,rmax,N; 266 PetscInt *imax=a->imax,*ai=a->i,*ailen=a->ilen; 267 PetscErrorCode ierr; 268 PetscInt *aj =a->j,nonew=a->nonew,bs2=a->bs2,bs=A->rmap->bs; 269 PetscBool roworiented=a->roworiented; 270 const PetscScalar *value = v; 271 MatScalar *ap,*aa = a->a,*bap; 272 273 PetscFunctionBegin; 274 rp = aj + ai[row]; 275 ap = aa + bs2*ai[row]; 276 rmax = imax[row]; 277 nrow = ailen[row]; 278 value = v; 279 low = 0; 280 high = nrow; 281 while (high-low > 7) { 282 t = (low+high)/2; 283 if (rp[t] > col) high = t; 284 else low = t; 285 } 286 for (i=low; i<high; i++) { 287 if (rp[i] > col) break; 288 if (rp[i] == col) { 289 bap = ap + bs2*i; 290 if (roworiented) { 291 if (is == ADD_VALUES) { 292 for (ii=0; ii<bs; ii++) { 293 for (jj=ii; jj<bs2; jj+=bs) { 294 bap[jj] += *value++; 295 } 296 } 297 } else { 298 for (ii=0; ii<bs; ii++) { 299 for (jj=ii; jj<bs2; jj+=bs) { 300 bap[jj] = *value++; 301 } 302 } 303 } 304 } else { 305 if (is == ADD_VALUES) { 306 for (ii=0; ii<bs; ii++,value+=bs) { 307 for (jj=0; jj<bs; jj++) { 308 bap[jj] += value[jj]; 309 } 310 bap += bs; 311 } 312 } else { 313 for (ii=0; ii<bs; ii++,value+=bs) { 314 for (jj=0; jj<bs; jj++) { 315 bap[jj] = value[jj]; 316 } 317 bap += bs; 318 } 319 } 320 } 321 goto noinsert2; 322 } 323 } 324 if (nonew == 1) goto noinsert2; 325 if (nonew == -1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new global block indexed nonzero block (%D, %D) in the matrix", orow, ocol); 326 MatSeqXAIJReallocateAIJ(A,a->mbs,bs2,nrow,row,col,rmax,aa,ai,aj,rp,ap,imax,nonew,MatScalar); 327 N = nrow++ - 1; high++; 328 /* shift up all the later entries in this row */ 329 for (ii=N; ii>=i; ii--) { 330 rp[ii+1] = rp[ii]; 331 ierr = PetscMemcpy(ap+bs2*(ii+1),ap+bs2*(ii),bs2*sizeof(MatScalar));CHKERRQ(ierr); 332 } 333 if (N >= i) { 334 ierr = PetscMemzero(ap+bs2*i,bs2*sizeof(MatScalar));CHKERRQ(ierr); 335 } 336 rp[i] = col; 337 bap = ap + bs2*i; 338 if (roworiented) { 339 for (ii=0; ii<bs; ii++) { 340 for (jj=ii; jj<bs2; jj+=bs) { 341 bap[jj] = *value++; 342 } 343 } 344 } else { 345 for (ii=0; ii<bs; ii++) { 346 for (jj=0; jj<bs; jj++) { 347 *bap++ = *value++; 348 } 349 } 350 } 351 noinsert2:; 352 ailen[row] = nrow; 353 PetscFunctionReturn(0); 354 } 355 356 /* 357 This routine should be optimized so that the block copy at ** Here a copy is required ** below is not needed 358 by passing additional stride information into the MatSetValuesBlocked_SeqBAIJ_Inlined() routine 359 */ 360 PetscErrorCode MatSetValuesBlocked_MPIBAIJ(Mat mat,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode addv) 361 { 362 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 363 const PetscScalar *value; 364 MatScalar *barray = baij->barray; 365 PetscBool roworiented = baij->roworiented; 366 PetscErrorCode ierr; 367 PetscInt i,j,ii,jj,row,col,rstart=baij->rstartbs; 368 PetscInt rend=baij->rendbs,cstart=baij->cstartbs,stepval; 369 PetscInt cend=baij->cendbs,bs=mat->rmap->bs,bs2=baij->bs2; 370 371 PetscFunctionBegin; 372 if (!barray) { 373 ierr = PetscMalloc1(bs2,&barray);CHKERRQ(ierr); 374 baij->barray = barray; 375 } 376 377 if (roworiented) stepval = (n-1)*bs; 378 else stepval = (m-1)*bs; 379 380 for (i=0; i<m; i++) { 381 if (im[i] < 0) continue; 382 #if defined(PETSC_USE_DEBUG) 383 if (im[i] >= baij->Mbs) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Block indexed row too large %D max %D",im[i],baij->Mbs-1); 384 #endif 385 if (im[i] >= rstart && im[i] < rend) { 386 row = im[i] - rstart; 387 for (j=0; j<n; j++) { 388 /* If NumCol = 1 then a copy is not required */ 389 if ((roworiented) && (n == 1)) { 390 barray = (MatScalar*)v + i*bs2; 391 } else if ((!roworiented) && (m == 1)) { 392 barray = (MatScalar*)v + j*bs2; 393 } else { /* Here a copy is required */ 394 if (roworiented) { 395 value = v + (i*(stepval+bs) + j)*bs; 396 } else { 397 value = v + (j*(stepval+bs) + i)*bs; 398 } 399 for (ii=0; ii<bs; ii++,value+=bs+stepval) { 400 for (jj=0; jj<bs; jj++) barray[jj] = value[jj]; 401 barray += bs; 402 } 403 barray -= bs2; 404 } 405 406 if (in[j] >= cstart && in[j] < cend) { 407 col = in[j] - cstart; 408 ierr = MatSetValuesBlocked_SeqBAIJ_Inlined(baij->A,row,col,barray,addv,im[i],in[j]);CHKERRQ(ierr); 409 } else if (in[j] < 0) continue; 410 #if defined(PETSC_USE_DEBUG) 411 else if (in[j] >= baij->Nbs) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Block indexed column too large %D max %D",in[j],baij->Nbs-1); 412 #endif 413 else { 414 if (mat->was_assembled) { 415 if (!baij->colmap) { 416 ierr = MatCreateColmap_MPIBAIJ_Private(mat);CHKERRQ(ierr); 417 } 418 419 #if defined(PETSC_USE_DEBUG) 420 #if defined(PETSC_USE_CTABLE) 421 { PetscInt data; 422 ierr = PetscTableFind(baij->colmap,in[j]+1,&data);CHKERRQ(ierr); 423 if ((data - 1) % bs) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Incorrect colmap"); 424 } 425 #else 426 if ((baij->colmap[in[j]] - 1) % bs) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Incorrect colmap"); 427 #endif 428 #endif 429 #if defined(PETSC_USE_CTABLE) 430 ierr = PetscTableFind(baij->colmap,in[j]+1,&col);CHKERRQ(ierr); 431 col = (col - 1)/bs; 432 #else 433 col = (baij->colmap[in[j]] - 1)/bs; 434 #endif 435 if (col < 0 && !((Mat_SeqBAIJ*)(baij->B->data))->nonew) { 436 ierr = MatDisAssemble_MPIBAIJ(mat);CHKERRQ(ierr); 437 col = in[j]; 438 } else if (col < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new blocked indexed nonzero block (%D, %D) into matrix",im[i],in[j]); 439 } else col = in[j]; 440 ierr = MatSetValuesBlocked_SeqBAIJ_Inlined(baij->B,row,col,barray,addv,im[i],in[j]);CHKERRQ(ierr); 441 } 442 } 443 } else { 444 if (mat->nooffprocentries) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Setting off process block indexed row %D even though MatSetOption(,MAT_NO_OFF_PROC_ENTRIES,PETSC_TRUE) was set",im[i]); 445 if (!baij->donotstash) { 446 if (roworiented) { 447 ierr = MatStashValuesRowBlocked_Private(&mat->bstash,im[i],n,in,v,m,n,i);CHKERRQ(ierr); 448 } else { 449 ierr = MatStashValuesColBlocked_Private(&mat->bstash,im[i],n,in,v,m,n,i);CHKERRQ(ierr); 450 } 451 } 452 } 453 } 454 PetscFunctionReturn(0); 455 } 456 457 #define HASH_KEY 0.6180339887 458 #define HASH(size,key,tmp) (tmp = (key)*HASH_KEY,(PetscInt)((size)*(tmp-(PetscInt)tmp))) 459 /* #define HASH(size,key) ((PetscInt)((size)*fmod(((key)*HASH_KEY),1))) */ 460 /* #define HASH(size,key,tmp) ((PetscInt)((size)*fmod(((key)*HASH_KEY),1))) */ 461 PetscErrorCode MatSetValues_MPIBAIJ_HT(Mat mat,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode addv) 462 { 463 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 464 PetscBool roworiented = baij->roworiented; 465 PetscErrorCode ierr; 466 PetscInt i,j,row,col; 467 PetscInt rstart_orig=mat->rmap->rstart; 468 PetscInt rend_orig =mat->rmap->rend,Nbs=baij->Nbs; 469 PetscInt h1,key,size=baij->ht_size,bs=mat->rmap->bs,*HT=baij->ht,idx; 470 PetscReal tmp; 471 MatScalar **HD = baij->hd,value; 472 #if defined(PETSC_USE_DEBUG) 473 PetscInt total_ct=baij->ht_total_ct,insert_ct=baij->ht_insert_ct; 474 #endif 475 476 PetscFunctionBegin; 477 for (i=0; i<m; i++) { 478 #if defined(PETSC_USE_DEBUG) 479 if (im[i] < 0) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Negative row"); 480 if (im[i] >= mat->rmap->N) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",im[i],mat->rmap->N-1); 481 #endif 482 row = im[i]; 483 if (row >= rstart_orig && row < rend_orig) { 484 for (j=0; j<n; j++) { 485 col = in[j]; 486 if (roworiented) value = v[i*n+j]; 487 else value = v[i+j*m]; 488 /* Look up PetscInto the Hash Table */ 489 key = (row/bs)*Nbs+(col/bs)+1; 490 h1 = HASH(size,key,tmp); 491 492 493 idx = h1; 494 #if defined(PETSC_USE_DEBUG) 495 insert_ct++; 496 total_ct++; 497 if (HT[idx] != key) { 498 for (idx=h1; (idx<size) && (HT[idx]!=key); idx++,total_ct++) ; 499 if (idx == size) { 500 for (idx=0; (idx<h1) && (HT[idx]!=key); idx++,total_ct++) ; 501 if (idx == h1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"(%D,%D) has no entry in the hash table", row, col); 502 } 503 } 504 #else 505 if (HT[idx] != key) { 506 for (idx=h1; (idx<size) && (HT[idx]!=key); idx++) ; 507 if (idx == size) { 508 for (idx=0; (idx<h1) && (HT[idx]!=key); idx++) ; 509 if (idx == h1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"(%D,%D) has no entry in the hash table", row, col); 510 } 511 } 512 #endif 513 /* A HASH table entry is found, so insert the values at the correct address */ 514 if (addv == ADD_VALUES) *(HD[idx]+ (col % bs)*bs + (row % bs)) += value; 515 else *(HD[idx]+ (col % bs)*bs + (row % bs)) = value; 516 } 517 } else if (!baij->donotstash) { 518 if (roworiented) { 519 ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n,PETSC_FALSE);CHKERRQ(ierr); 520 } else { 521 ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m,PETSC_FALSE);CHKERRQ(ierr); 522 } 523 } 524 } 525 #if defined(PETSC_USE_DEBUG) 526 baij->ht_total_ct += total_ct; 527 baij->ht_insert_ct += insert_ct; 528 #endif 529 PetscFunctionReturn(0); 530 } 531 532 PetscErrorCode MatSetValuesBlocked_MPIBAIJ_HT(Mat mat,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode addv) 533 { 534 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 535 PetscBool roworiented = baij->roworiented; 536 PetscErrorCode ierr; 537 PetscInt i,j,ii,jj,row,col; 538 PetscInt rstart=baij->rstartbs; 539 PetscInt rend =mat->rmap->rend,stepval,bs=mat->rmap->bs,bs2=baij->bs2,nbs2=n*bs2; 540 PetscInt h1,key,size=baij->ht_size,idx,*HT=baij->ht,Nbs=baij->Nbs; 541 PetscReal tmp; 542 MatScalar **HD = baij->hd,*baij_a; 543 const PetscScalar *v_t,*value; 544 #if defined(PETSC_USE_DEBUG) 545 PetscInt total_ct=baij->ht_total_ct,insert_ct=baij->ht_insert_ct; 546 #endif 547 548 PetscFunctionBegin; 549 if (roworiented) stepval = (n-1)*bs; 550 else stepval = (m-1)*bs; 551 552 for (i=0; i<m; i++) { 553 #if defined(PETSC_USE_DEBUG) 554 if (im[i] < 0) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Negative row: %D",im[i]); 555 if (im[i] >= baij->Mbs) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",im[i],baij->Mbs-1); 556 #endif 557 row = im[i]; 558 v_t = v + i*nbs2; 559 if (row >= rstart && row < rend) { 560 for (j=0; j<n; j++) { 561 col = in[j]; 562 563 /* Look up into the Hash Table */ 564 key = row*Nbs+col+1; 565 h1 = HASH(size,key,tmp); 566 567 idx = h1; 568 #if defined(PETSC_USE_DEBUG) 569 total_ct++; 570 insert_ct++; 571 if (HT[idx] != key) { 572 for (idx=h1; (idx<size) && (HT[idx]!=key); idx++,total_ct++) ; 573 if (idx == size) { 574 for (idx=0; (idx<h1) && (HT[idx]!=key); idx++,total_ct++) ; 575 if (idx == h1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"(%D,%D) has no entry in the hash table", row, col); 576 } 577 } 578 #else 579 if (HT[idx] != key) { 580 for (idx=h1; (idx<size) && (HT[idx]!=key); idx++) ; 581 if (idx == size) { 582 for (idx=0; (idx<h1) && (HT[idx]!=key); idx++) ; 583 if (idx == h1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"(%D,%D) has no entry in the hash table", row, col); 584 } 585 } 586 #endif 587 baij_a = HD[idx]; 588 if (roworiented) { 589 /*value = v + i*(stepval+bs)*bs + j*bs;*/ 590 /* value = v + (i*(stepval+bs)+j)*bs; */ 591 value = v_t; 592 v_t += bs; 593 if (addv == ADD_VALUES) { 594 for (ii=0; ii<bs; ii++,value+=stepval) { 595 for (jj=ii; jj<bs2; jj+=bs) { 596 baij_a[jj] += *value++; 597 } 598 } 599 } else { 600 for (ii=0; ii<bs; ii++,value+=stepval) { 601 for (jj=ii; jj<bs2; jj+=bs) { 602 baij_a[jj] = *value++; 603 } 604 } 605 } 606 } else { 607 value = v + j*(stepval+bs)*bs + i*bs; 608 if (addv == ADD_VALUES) { 609 for (ii=0; ii<bs; ii++,value+=stepval,baij_a+=bs) { 610 for (jj=0; jj<bs; jj++) { 611 baij_a[jj] += *value++; 612 } 613 } 614 } else { 615 for (ii=0; ii<bs; ii++,value+=stepval,baij_a+=bs) { 616 for (jj=0; jj<bs; jj++) { 617 baij_a[jj] = *value++; 618 } 619 } 620 } 621 } 622 } 623 } else { 624 if (!baij->donotstash) { 625 if (roworiented) { 626 ierr = MatStashValuesRowBlocked_Private(&mat->bstash,im[i],n,in,v,m,n,i);CHKERRQ(ierr); 627 } else { 628 ierr = MatStashValuesColBlocked_Private(&mat->bstash,im[i],n,in,v,m,n,i);CHKERRQ(ierr); 629 } 630 } 631 } 632 } 633 #if defined(PETSC_USE_DEBUG) 634 baij->ht_total_ct += total_ct; 635 baij->ht_insert_ct += insert_ct; 636 #endif 637 PetscFunctionReturn(0); 638 } 639 640 PetscErrorCode MatGetValues_MPIBAIJ(Mat mat,PetscInt m,const PetscInt idxm[],PetscInt n,const PetscInt idxn[],PetscScalar v[]) 641 { 642 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 643 PetscErrorCode ierr; 644 PetscInt bs = mat->rmap->bs,i,j,bsrstart = mat->rmap->rstart,bsrend = mat->rmap->rend; 645 PetscInt bscstart = mat->cmap->rstart,bscend = mat->cmap->rend,row,col,data; 646 647 PetscFunctionBegin; 648 for (i=0; i<m; i++) { 649 if (idxm[i] < 0) continue; /* SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Negative row: %D",idxm[i]);*/ 650 if (idxm[i] >= mat->rmap->N) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",idxm[i],mat->rmap->N-1); 651 if (idxm[i] >= bsrstart && idxm[i] < bsrend) { 652 row = idxm[i] - bsrstart; 653 for (j=0; j<n; j++) { 654 if (idxn[j] < 0) continue; /* SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Negative column: %D",idxn[j]); */ 655 if (idxn[j] >= mat->cmap->N) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",idxn[j],mat->cmap->N-1); 656 if (idxn[j] >= bscstart && idxn[j] < bscend) { 657 col = idxn[j] - bscstart; 658 ierr = MatGetValues_SeqBAIJ(baij->A,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 659 } else { 660 if (!baij->colmap) { 661 ierr = MatCreateColmap_MPIBAIJ_Private(mat);CHKERRQ(ierr); 662 } 663 #if defined(PETSC_USE_CTABLE) 664 ierr = PetscTableFind(baij->colmap,idxn[j]/bs+1,&data);CHKERRQ(ierr); 665 data--; 666 #else 667 data = baij->colmap[idxn[j]/bs]-1; 668 #endif 669 if ((data < 0) || (baij->garray[data/bs] != idxn[j]/bs)) *(v+i*n+j) = 0.0; 670 else { 671 col = data + idxn[j]%bs; 672 ierr = MatGetValues_SeqBAIJ(baij->B,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 673 } 674 } 675 } 676 } else SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Only local values currently supported"); 677 } 678 PetscFunctionReturn(0); 679 } 680 681 PetscErrorCode MatNorm_MPIBAIJ(Mat mat,NormType type,PetscReal *nrm) 682 { 683 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 684 Mat_SeqBAIJ *amat = (Mat_SeqBAIJ*)baij->A->data,*bmat = (Mat_SeqBAIJ*)baij->B->data; 685 PetscErrorCode ierr; 686 PetscInt i,j,bs2=baij->bs2,bs=baij->A->rmap->bs,nz,row,col; 687 PetscReal sum = 0.0; 688 MatScalar *v; 689 690 PetscFunctionBegin; 691 if (baij->size == 1) { 692 ierr = MatNorm(baij->A,type,nrm);CHKERRQ(ierr); 693 } else { 694 if (type == NORM_FROBENIUS) { 695 v = amat->a; 696 nz = amat->nz*bs2; 697 for (i=0; i<nz; i++) { 698 sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 699 } 700 v = bmat->a; 701 nz = bmat->nz*bs2; 702 for (i=0; i<nz; i++) { 703 sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 704 } 705 ierr = MPIU_Allreduce(&sum,nrm,1,MPIU_REAL,MPIU_SUM,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 706 *nrm = PetscSqrtReal(*nrm); 707 } else if (type == NORM_1) { /* max column sum */ 708 PetscReal *tmp,*tmp2; 709 PetscInt *jj,*garray=baij->garray,cstart=baij->rstartbs; 710 ierr = PetscMalloc2(mat->cmap->N,&tmp,mat->cmap->N,&tmp2);CHKERRQ(ierr); 711 ierr = PetscMemzero(tmp,mat->cmap->N*sizeof(PetscReal));CHKERRQ(ierr); 712 v = amat->a; jj = amat->j; 713 for (i=0; i<amat->nz; i++) { 714 for (j=0; j<bs; j++) { 715 col = bs*(cstart + *jj) + j; /* column index */ 716 for (row=0; row<bs; row++) { 717 tmp[col] += PetscAbsScalar(*v); v++; 718 } 719 } 720 jj++; 721 } 722 v = bmat->a; jj = bmat->j; 723 for (i=0; i<bmat->nz; i++) { 724 for (j=0; j<bs; j++) { 725 col = bs*garray[*jj] + j; 726 for (row=0; row<bs; row++) { 727 tmp[col] += PetscAbsScalar(*v); v++; 728 } 729 } 730 jj++; 731 } 732 ierr = MPIU_Allreduce(tmp,tmp2,mat->cmap->N,MPIU_REAL,MPIU_SUM,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 733 *nrm = 0.0; 734 for (j=0; j<mat->cmap->N; j++) { 735 if (tmp2[j] > *nrm) *nrm = tmp2[j]; 736 } 737 ierr = PetscFree2(tmp,tmp2);CHKERRQ(ierr); 738 } else if (type == NORM_INFINITY) { /* max row sum */ 739 PetscReal *sums; 740 ierr = PetscMalloc1(bs,&sums);CHKERRQ(ierr); 741 sum = 0.0; 742 for (j=0; j<amat->mbs; j++) { 743 for (row=0; row<bs; row++) sums[row] = 0.0; 744 v = amat->a + bs2*amat->i[j]; 745 nz = amat->i[j+1]-amat->i[j]; 746 for (i=0; i<nz; i++) { 747 for (col=0; col<bs; col++) { 748 for (row=0; row<bs; row++) { 749 sums[row] += PetscAbsScalar(*v); v++; 750 } 751 } 752 } 753 v = bmat->a + bs2*bmat->i[j]; 754 nz = bmat->i[j+1]-bmat->i[j]; 755 for (i=0; i<nz; i++) { 756 for (col=0; col<bs; col++) { 757 for (row=0; row<bs; row++) { 758 sums[row] += PetscAbsScalar(*v); v++; 759 } 760 } 761 } 762 for (row=0; row<bs; row++) { 763 if (sums[row] > sum) sum = sums[row]; 764 } 765 } 766 ierr = MPIU_Allreduce(&sum,nrm,1,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 767 ierr = PetscFree(sums);CHKERRQ(ierr); 768 } else SETERRQ(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"No support for this norm yet"); 769 } 770 PetscFunctionReturn(0); 771 } 772 773 /* 774 Creates the hash table, and sets the table 775 This table is created only once. 776 If new entried need to be added to the matrix 777 then the hash table has to be destroyed and 778 recreated. 779 */ 780 PetscErrorCode MatCreateHashTable_MPIBAIJ_Private(Mat mat,PetscReal factor) 781 { 782 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 783 Mat A = baij->A,B=baij->B; 784 Mat_SeqBAIJ *a = (Mat_SeqBAIJ*)A->data,*b=(Mat_SeqBAIJ*)B->data; 785 PetscInt i,j,k,nz=a->nz+b->nz,h1,*ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j; 786 PetscErrorCode ierr; 787 PetscInt ht_size,bs2=baij->bs2,rstart=baij->rstartbs; 788 PetscInt cstart=baij->cstartbs,*garray=baij->garray,row,col,Nbs=baij->Nbs; 789 PetscInt *HT,key; 790 MatScalar **HD; 791 PetscReal tmp; 792 #if defined(PETSC_USE_INFO) 793 PetscInt ct=0,max=0; 794 #endif 795 796 PetscFunctionBegin; 797 if (baij->ht) PetscFunctionReturn(0); 798 799 baij->ht_size = (PetscInt)(factor*nz); 800 ht_size = baij->ht_size; 801 802 /* Allocate Memory for Hash Table */ 803 ierr = PetscCalloc2(ht_size,&baij->hd,ht_size,&baij->ht);CHKERRQ(ierr); 804 HD = baij->hd; 805 HT = baij->ht; 806 807 /* Loop Over A */ 808 for (i=0; i<a->mbs; i++) { 809 for (j=ai[i]; j<ai[i+1]; j++) { 810 row = i+rstart; 811 col = aj[j]+cstart; 812 813 key = row*Nbs + col + 1; 814 h1 = HASH(ht_size,key,tmp); 815 for (k=0; k<ht_size; k++) { 816 if (!HT[(h1+k)%ht_size]) { 817 HT[(h1+k)%ht_size] = key; 818 HD[(h1+k)%ht_size] = a->a + j*bs2; 819 break; 820 #if defined(PETSC_USE_INFO) 821 } else { 822 ct++; 823 #endif 824 } 825 } 826 #if defined(PETSC_USE_INFO) 827 if (k> max) max = k; 828 #endif 829 } 830 } 831 /* Loop Over B */ 832 for (i=0; i<b->mbs; i++) { 833 for (j=bi[i]; j<bi[i+1]; j++) { 834 row = i+rstart; 835 col = garray[bj[j]]; 836 key = row*Nbs + col + 1; 837 h1 = HASH(ht_size,key,tmp); 838 for (k=0; k<ht_size; k++) { 839 if (!HT[(h1+k)%ht_size]) { 840 HT[(h1+k)%ht_size] = key; 841 HD[(h1+k)%ht_size] = b->a + j*bs2; 842 break; 843 #if defined(PETSC_USE_INFO) 844 } else { 845 ct++; 846 #endif 847 } 848 } 849 #if defined(PETSC_USE_INFO) 850 if (k> max) max = k; 851 #endif 852 } 853 } 854 855 /* Print Summary */ 856 #if defined(PETSC_USE_INFO) 857 for (i=0,j=0; i<ht_size; i++) { 858 if (HT[i]) j++; 859 } 860 ierr = PetscInfo2(mat,"Average Search = %5.2f,max search = %D\n",(!j)? 0.0:((PetscReal)(ct+j))/j,max);CHKERRQ(ierr); 861 #endif 862 PetscFunctionReturn(0); 863 } 864 865 PetscErrorCode MatAssemblyBegin_MPIBAIJ(Mat mat,MatAssemblyType mode) 866 { 867 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 868 PetscErrorCode ierr; 869 PetscInt nstash,reallocs; 870 871 PetscFunctionBegin; 872 if (baij->donotstash || mat->nooffprocentries) PetscFunctionReturn(0); 873 874 ierr = MatStashScatterBegin_Private(mat,&mat->stash,mat->rmap->range);CHKERRQ(ierr); 875 ierr = MatStashScatterBegin_Private(mat,&mat->bstash,baij->rangebs);CHKERRQ(ierr); 876 ierr = MatStashGetInfo_Private(&mat->stash,&nstash,&reallocs);CHKERRQ(ierr); 877 ierr = PetscInfo2(mat,"Stash has %D entries,uses %D mallocs.\n",nstash,reallocs);CHKERRQ(ierr); 878 ierr = MatStashGetInfo_Private(&mat->bstash,&nstash,&reallocs);CHKERRQ(ierr); 879 ierr = PetscInfo2(mat,"Block-Stash has %D entries, uses %D mallocs.\n",nstash,reallocs);CHKERRQ(ierr); 880 PetscFunctionReturn(0); 881 } 882 883 PetscErrorCode MatAssemblyEnd_MPIBAIJ(Mat mat,MatAssemblyType mode) 884 { 885 Mat_MPIBAIJ *baij=(Mat_MPIBAIJ*)mat->data; 886 Mat_SeqBAIJ *a =(Mat_SeqBAIJ*)baij->A->data; 887 PetscErrorCode ierr; 888 PetscInt i,j,rstart,ncols,flg,bs2=baij->bs2; 889 PetscInt *row,*col; 890 PetscBool r1,r2,r3,other_disassembled; 891 MatScalar *val; 892 PetscMPIInt n; 893 894 PetscFunctionBegin; 895 /* do not use 'b=(Mat_SeqBAIJ*)baij->B->data' as B can be reset in disassembly */ 896 if (!baij->donotstash && !mat->nooffprocentries) { 897 while (1) { 898 ierr = MatStashScatterGetMesg_Private(&mat->stash,&n,&row,&col,&val,&flg);CHKERRQ(ierr); 899 if (!flg) break; 900 901 for (i=0; i<n;) { 902 /* Now identify the consecutive vals belonging to the same row */ 903 for (j=i,rstart=row[j]; j<n; j++) { 904 if (row[j] != rstart) break; 905 } 906 if (j < n) ncols = j-i; 907 else ncols = n-i; 908 /* Now assemble all these values with a single function call */ 909 ierr = MatSetValues_MPIBAIJ(mat,1,row+i,ncols,col+i,val+i,mat->insertmode);CHKERRQ(ierr); 910 i = j; 911 } 912 } 913 ierr = MatStashScatterEnd_Private(&mat->stash);CHKERRQ(ierr); 914 /* Now process the block-stash. Since the values are stashed column-oriented, 915 set the roworiented flag to column oriented, and after MatSetValues() 916 restore the original flags */ 917 r1 = baij->roworiented; 918 r2 = a->roworiented; 919 r3 = ((Mat_SeqBAIJ*)baij->B->data)->roworiented; 920 921 baij->roworiented = PETSC_FALSE; 922 a->roworiented = PETSC_FALSE; 923 924 (((Mat_SeqBAIJ*)baij->B->data))->roworiented = PETSC_FALSE; /* b->roworiented */ 925 while (1) { 926 ierr = MatStashScatterGetMesg_Private(&mat->bstash,&n,&row,&col,&val,&flg);CHKERRQ(ierr); 927 if (!flg) break; 928 929 for (i=0; i<n;) { 930 /* Now identify the consecutive vals belonging to the same row */ 931 for (j=i,rstart=row[j]; j<n; j++) { 932 if (row[j] != rstart) break; 933 } 934 if (j < n) ncols = j-i; 935 else ncols = n-i; 936 ierr = MatSetValuesBlocked_MPIBAIJ(mat,1,row+i,ncols,col+i,val+i*bs2,mat->insertmode);CHKERRQ(ierr); 937 i = j; 938 } 939 } 940 ierr = MatStashScatterEnd_Private(&mat->bstash);CHKERRQ(ierr); 941 942 baij->roworiented = r1; 943 a->roworiented = r2; 944 945 ((Mat_SeqBAIJ*)baij->B->data)->roworiented = r3; /* b->roworiented */ 946 } 947 948 ierr = MatAssemblyBegin(baij->A,mode);CHKERRQ(ierr); 949 ierr = MatAssemblyEnd(baij->A,mode);CHKERRQ(ierr); 950 951 /* determine if any processor has disassembled, if so we must 952 also disassemble ourselfs, in order that we may reassemble. */ 953 /* 954 if nonzero structure of submatrix B cannot change then we know that 955 no processor disassembled thus we can skip this stuff 956 */ 957 if (!((Mat_SeqBAIJ*)baij->B->data)->nonew) { 958 ierr = MPIU_Allreduce(&mat->was_assembled,&other_disassembled,1,MPIU_BOOL,MPI_PROD,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 959 if (mat->was_assembled && !other_disassembled) { 960 ierr = MatDisAssemble_MPIBAIJ(mat);CHKERRQ(ierr); 961 } 962 } 963 964 if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) { 965 ierr = MatSetUpMultiply_MPIBAIJ(mat);CHKERRQ(ierr); 966 } 967 ierr = MatAssemblyBegin(baij->B,mode);CHKERRQ(ierr); 968 ierr = MatAssemblyEnd(baij->B,mode);CHKERRQ(ierr); 969 970 #if defined(PETSC_USE_INFO) 971 if (baij->ht && mode== MAT_FINAL_ASSEMBLY) { 972 ierr = PetscInfo1(mat,"Average Hash Table Search in MatSetValues = %5.2f\n",(double)((PetscReal)baij->ht_total_ct)/baij->ht_insert_ct);CHKERRQ(ierr); 973 974 baij->ht_total_ct = 0; 975 baij->ht_insert_ct = 0; 976 } 977 #endif 978 if (baij->ht_flag && !baij->ht && mode == MAT_FINAL_ASSEMBLY) { 979 ierr = MatCreateHashTable_MPIBAIJ_Private(mat,baij->ht_fact);CHKERRQ(ierr); 980 981 mat->ops->setvalues = MatSetValues_MPIBAIJ_HT; 982 mat->ops->setvaluesblocked = MatSetValuesBlocked_MPIBAIJ_HT; 983 } 984 985 ierr = PetscFree2(baij->rowvalues,baij->rowindices);CHKERRQ(ierr); 986 987 baij->rowvalues = 0; 988 989 /* if no new nonzero locations are allowed in matrix then only set the matrix state the first time through */ 990 if ((!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) || !((Mat_SeqBAIJ*)(baij->A->data))->nonew) { 991 PetscObjectState state = baij->A->nonzerostate + baij->B->nonzerostate; 992 ierr = MPIU_Allreduce(&state,&mat->nonzerostate,1,MPIU_INT64,MPI_SUM,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 993 } 994 PetscFunctionReturn(0); 995 } 996 997 extern PetscErrorCode MatView_SeqBAIJ(Mat,PetscViewer); 998 #include <petscdraw.h> 999 static PetscErrorCode MatView_MPIBAIJ_ASCIIorDraworSocket(Mat mat,PetscViewer viewer) 1000 { 1001 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 1002 PetscErrorCode ierr; 1003 PetscMPIInt rank = baij->rank; 1004 PetscInt bs = mat->rmap->bs; 1005 PetscBool iascii,isdraw; 1006 PetscViewer sviewer; 1007 PetscViewerFormat format; 1008 1009 PetscFunctionBegin; 1010 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&iascii);CHKERRQ(ierr); 1011 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERDRAW,&isdraw);CHKERRQ(ierr); 1012 if (iascii) { 1013 ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr); 1014 if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) { 1015 MatInfo info; 1016 ierr = MPI_Comm_rank(PetscObjectComm((PetscObject)mat),&rank);CHKERRQ(ierr); 1017 ierr = MatGetInfo(mat,MAT_LOCAL,&info);CHKERRQ(ierr); 1018 ierr = PetscViewerASCIIPushSynchronized(viewer);CHKERRQ(ierr); 1019 ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D bs %D mem %g\n", 1020 rank,mat->rmap->n,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,mat->rmap->bs,(double)info.memory);CHKERRQ(ierr); 1021 ierr = MatGetInfo(baij->A,MAT_LOCAL,&info);CHKERRQ(ierr); 1022 ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] on-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 1023 ierr = MatGetInfo(baij->B,MAT_LOCAL,&info);CHKERRQ(ierr); 1024 ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] off-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 1025 ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 1026 ierr = PetscViewerASCIIPopSynchronized(viewer);CHKERRQ(ierr); 1027 ierr = PetscViewerASCIIPrintf(viewer,"Information on VecScatter used in matrix-vector product: \n");CHKERRQ(ierr); 1028 ierr = VecScatterView(baij->Mvctx,viewer);CHKERRQ(ierr); 1029 PetscFunctionReturn(0); 1030 } else if (format == PETSC_VIEWER_ASCII_INFO) { 1031 ierr = PetscViewerASCIIPrintf(viewer," block size is %D\n",bs);CHKERRQ(ierr); 1032 PetscFunctionReturn(0); 1033 } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) { 1034 PetscFunctionReturn(0); 1035 } 1036 } 1037 1038 if (isdraw) { 1039 PetscDraw draw; 1040 PetscBool isnull; 1041 ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr); 1042 ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); 1043 if (isnull) PetscFunctionReturn(0); 1044 } 1045 1046 { 1047 /* assemble the entire matrix onto first processor. */ 1048 Mat A; 1049 Mat_SeqBAIJ *Aloc; 1050 PetscInt M = mat->rmap->N,N = mat->cmap->N,*ai,*aj,col,i,j,k,*rvals,mbs = baij->mbs; 1051 MatScalar *a; 1052 const char *matname; 1053 1054 /* Here we are creating a temporary matrix, so will assume MPIBAIJ is acceptable */ 1055 /* Perhaps this should be the type of mat? */ 1056 ierr = MatCreate(PetscObjectComm((PetscObject)mat),&A);CHKERRQ(ierr); 1057 if (!rank) { 1058 ierr = MatSetSizes(A,M,N,M,N);CHKERRQ(ierr); 1059 } else { 1060 ierr = MatSetSizes(A,0,0,M,N);CHKERRQ(ierr); 1061 } 1062 ierr = MatSetType(A,MATMPIBAIJ);CHKERRQ(ierr); 1063 ierr = MatMPIBAIJSetPreallocation(A,mat->rmap->bs,0,NULL,0,NULL);CHKERRQ(ierr); 1064 ierr = MatSetOption(A,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_FALSE);CHKERRQ(ierr); 1065 ierr = PetscLogObjectParent((PetscObject)mat,(PetscObject)A);CHKERRQ(ierr); 1066 1067 /* copy over the A part */ 1068 Aloc = (Mat_SeqBAIJ*)baij->A->data; 1069 ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 1070 ierr = PetscMalloc1(bs,&rvals);CHKERRQ(ierr); 1071 1072 for (i=0; i<mbs; i++) { 1073 rvals[0] = bs*(baij->rstartbs + i); 1074 for (j=1; j<bs; j++) rvals[j] = rvals[j-1] + 1; 1075 for (j=ai[i]; j<ai[i+1]; j++) { 1076 col = (baij->cstartbs+aj[j])*bs; 1077 for (k=0; k<bs; k++) { 1078 ierr = MatSetValues_MPIBAIJ(A,bs,rvals,1,&col,a,INSERT_VALUES);CHKERRQ(ierr); 1079 col++; a += bs; 1080 } 1081 } 1082 } 1083 /* copy over the B part */ 1084 Aloc = (Mat_SeqBAIJ*)baij->B->data; 1085 ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 1086 for (i=0; i<mbs; i++) { 1087 rvals[0] = bs*(baij->rstartbs + i); 1088 for (j=1; j<bs; j++) rvals[j] = rvals[j-1] + 1; 1089 for (j=ai[i]; j<ai[i+1]; j++) { 1090 col = baij->garray[aj[j]]*bs; 1091 for (k=0; k<bs; k++) { 1092 ierr = MatSetValues_MPIBAIJ(A,bs,rvals,1,&col,a,INSERT_VALUES);CHKERRQ(ierr); 1093 col++; a += bs; 1094 } 1095 } 1096 } 1097 ierr = PetscFree(rvals);CHKERRQ(ierr); 1098 ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1099 ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1100 /* 1101 Everyone has to call to draw the matrix since the graphics waits are 1102 synchronized across all processors that share the PetscDraw object 1103 */ 1104 ierr = PetscViewerGetSubViewer(viewer,PETSC_COMM_SELF,&sviewer);CHKERRQ(ierr); 1105 ierr = PetscObjectGetName((PetscObject)mat,&matname);CHKERRQ(ierr); 1106 if (!rank) { 1107 ierr = PetscObjectSetName((PetscObject)((Mat_MPIBAIJ*)(A->data))->A,matname);CHKERRQ(ierr); 1108 ierr = MatView_SeqBAIJ(((Mat_MPIBAIJ*)(A->data))->A,sviewer);CHKERRQ(ierr); 1109 } 1110 ierr = PetscViewerRestoreSubViewer(viewer,PETSC_COMM_SELF,&sviewer);CHKERRQ(ierr); 1111 ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 1112 ierr = MatDestroy(&A);CHKERRQ(ierr); 1113 } 1114 PetscFunctionReturn(0); 1115 } 1116 1117 static PetscErrorCode MatView_MPIBAIJ_Binary(Mat mat,PetscViewer viewer) 1118 { 1119 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)mat->data; 1120 Mat_SeqBAIJ *A = (Mat_SeqBAIJ*)a->A->data; 1121 Mat_SeqBAIJ *B = (Mat_SeqBAIJ*)a->B->data; 1122 PetscErrorCode ierr; 1123 PetscInt i,*row_lens,*crow_lens,bs = mat->rmap->bs,j,k,bs2=a->bs2,header[4],nz,rlen; 1124 PetscInt *range=0,nzmax,*column_indices,cnt,col,*garray = a->garray,cstart = mat->cmap->rstart/bs,len,pcnt,l,ll; 1125 int fd; 1126 PetscScalar *column_values; 1127 FILE *file; 1128 PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag; 1129 PetscInt message_count,flowcontrolcount; 1130 1131 PetscFunctionBegin; 1132 ierr = MPI_Comm_rank(PetscObjectComm((PetscObject)mat),&rank);CHKERRQ(ierr); 1133 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)mat),&size);CHKERRQ(ierr); 1134 nz = bs2*(A->nz + B->nz); 1135 rlen = mat->rmap->n; 1136 ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 1137 if (!rank) { 1138 header[0] = MAT_FILE_CLASSID; 1139 header[1] = mat->rmap->N; 1140 header[2] = mat->cmap->N; 1141 1142 ierr = MPI_Reduce(&nz,&header[3],1,MPIU_INT,MPI_SUM,0,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 1143 ierr = PetscBinaryWrite(fd,header,4,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 1144 /* get largest number of rows any processor has */ 1145 range = mat->rmap->range; 1146 for (i=1; i<size; i++) { 1147 rlen = PetscMax(rlen,range[i+1] - range[i]); 1148 } 1149 } else { 1150 ierr = MPI_Reduce(&nz,0,1,MPIU_INT,MPI_SUM,0,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 1151 } 1152 1153 ierr = PetscMalloc1(rlen/bs,&crow_lens);CHKERRQ(ierr); 1154 /* compute lengths of each row */ 1155 for (i=0; i<a->mbs; i++) { 1156 crow_lens[i] = A->i[i+1] - A->i[i] + B->i[i+1] - B->i[i]; 1157 } 1158 /* store the row lengths to the file */ 1159 ierr = PetscViewerFlowControlStart(viewer,&message_count,&flowcontrolcount);CHKERRQ(ierr); 1160 if (!rank) { 1161 MPI_Status status; 1162 ierr = PetscMalloc1(rlen,&row_lens);CHKERRQ(ierr); 1163 rlen = (range[1] - range[0])/bs; 1164 for (i=0; i<rlen; i++) { 1165 for (j=0; j<bs; j++) { 1166 row_lens[i*bs+j] = bs*crow_lens[i]; 1167 } 1168 } 1169 ierr = PetscBinaryWrite(fd,row_lens,bs*rlen,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 1170 for (i=1; i<size; i++) { 1171 rlen = (range[i+1] - range[i])/bs; 1172 ierr = PetscViewerFlowControlStepMaster(viewer,i,&message_count,flowcontrolcount);CHKERRQ(ierr); 1173 ierr = MPI_Recv(crow_lens,rlen,MPIU_INT,i,tag,PetscObjectComm((PetscObject)mat),&status);CHKERRQ(ierr); 1174 for (k=0; k<rlen; k++) { 1175 for (j=0; j<bs; j++) { 1176 row_lens[k*bs+j] = bs*crow_lens[k]; 1177 } 1178 } 1179 ierr = PetscBinaryWrite(fd,row_lens,bs*rlen,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 1180 } 1181 ierr = PetscViewerFlowControlEndMaster(viewer,&message_count);CHKERRQ(ierr); 1182 ierr = PetscFree(row_lens);CHKERRQ(ierr); 1183 } else { 1184 ierr = PetscViewerFlowControlStepWorker(viewer,rank,&message_count);CHKERRQ(ierr); 1185 ierr = MPI_Send(crow_lens,mat->rmap->n/bs,MPIU_INT,0,tag,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 1186 ierr = PetscViewerFlowControlEndWorker(viewer,&message_count);CHKERRQ(ierr); 1187 } 1188 ierr = PetscFree(crow_lens);CHKERRQ(ierr); 1189 1190 /* load up the local column indices. Include for all rows not just one for each block row since process 0 does not have the 1191 information needed to make it for each row from a block row. This does require more communication but still not more than 1192 the communication needed for the nonzero values */ 1193 nzmax = nz; /* space a largest processor needs */ 1194 ierr = MPI_Reduce(&nz,&nzmax,1,MPIU_INT,MPI_MAX,0,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 1195 ierr = PetscMalloc1(nzmax,&column_indices);CHKERRQ(ierr); 1196 cnt = 0; 1197 for (i=0; i<a->mbs; i++) { 1198 pcnt = cnt; 1199 for (j=B->i[i]; j<B->i[i+1]; j++) { 1200 if ((col = garray[B->j[j]]) > cstart) break; 1201 for (l=0; l<bs; l++) { 1202 column_indices[cnt++] = bs*col+l; 1203 } 1204 } 1205 for (k=A->i[i]; k<A->i[i+1]; k++) { 1206 for (l=0; l<bs; l++) { 1207 column_indices[cnt++] = bs*(A->j[k] + cstart)+l; 1208 } 1209 } 1210 for (; j<B->i[i+1]; j++) { 1211 for (l=0; l<bs; l++) { 1212 column_indices[cnt++] = bs*garray[B->j[j]]+l; 1213 } 1214 } 1215 len = cnt - pcnt; 1216 for (k=1; k<bs; k++) { 1217 ierr = PetscMemcpy(&column_indices[cnt],&column_indices[pcnt],len*sizeof(PetscInt));CHKERRQ(ierr); 1218 cnt += len; 1219 } 1220 } 1221 if (cnt != nz) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_LIB,"Internal PETSc error: cnt = %D nz = %D",cnt,nz); 1222 1223 /* store the columns to the file */ 1224 ierr = PetscViewerFlowControlStart(viewer,&message_count,&flowcontrolcount);CHKERRQ(ierr); 1225 if (!rank) { 1226 MPI_Status status; 1227 ierr = PetscBinaryWrite(fd,column_indices,nz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 1228 for (i=1; i<size; i++) { 1229 ierr = PetscViewerFlowControlStepMaster(viewer,i,&message_count,flowcontrolcount);CHKERRQ(ierr); 1230 ierr = MPI_Recv(&cnt,1,MPIU_INT,i,tag,PetscObjectComm((PetscObject)mat),&status);CHKERRQ(ierr); 1231 ierr = MPI_Recv(column_indices,cnt,MPIU_INT,i,tag,PetscObjectComm((PetscObject)mat),&status);CHKERRQ(ierr); 1232 ierr = PetscBinaryWrite(fd,column_indices,cnt,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 1233 } 1234 ierr = PetscViewerFlowControlEndMaster(viewer,&message_count);CHKERRQ(ierr); 1235 } else { 1236 ierr = PetscViewerFlowControlStepWorker(viewer,rank,&message_count);CHKERRQ(ierr); 1237 ierr = MPI_Send(&cnt,1,MPIU_INT,0,tag,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 1238 ierr = MPI_Send(column_indices,cnt,MPIU_INT,0,tag,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 1239 ierr = PetscViewerFlowControlEndWorker(viewer,&message_count);CHKERRQ(ierr); 1240 } 1241 ierr = PetscFree(column_indices);CHKERRQ(ierr); 1242 1243 /* load up the numerical values */ 1244 ierr = PetscMalloc1(nzmax,&column_values);CHKERRQ(ierr); 1245 cnt = 0; 1246 for (i=0; i<a->mbs; i++) { 1247 rlen = bs*(B->i[i+1] - B->i[i] + A->i[i+1] - A->i[i]); 1248 for (j=B->i[i]; j<B->i[i+1]; j++) { 1249 if (garray[B->j[j]] > cstart) break; 1250 for (l=0; l<bs; l++) { 1251 for (ll=0; ll<bs; ll++) { 1252 column_values[cnt + l*rlen + ll] = B->a[bs2*j+l+bs*ll]; 1253 } 1254 } 1255 cnt += bs; 1256 } 1257 for (k=A->i[i]; k<A->i[i+1]; k++) { 1258 for (l=0; l<bs; l++) { 1259 for (ll=0; ll<bs; ll++) { 1260 column_values[cnt + l*rlen + ll] = A->a[bs2*k+l+bs*ll]; 1261 } 1262 } 1263 cnt += bs; 1264 } 1265 for (; j<B->i[i+1]; j++) { 1266 for (l=0; l<bs; l++) { 1267 for (ll=0; ll<bs; ll++) { 1268 column_values[cnt + l*rlen + ll] = B->a[bs2*j+l+bs*ll]; 1269 } 1270 } 1271 cnt += bs; 1272 } 1273 cnt += (bs-1)*rlen; 1274 } 1275 if (cnt != nz) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Internal PETSc error: cnt = %D nz = %D",cnt,nz); 1276 1277 /* store the column values to the file */ 1278 ierr = PetscViewerFlowControlStart(viewer,&message_count,&flowcontrolcount);CHKERRQ(ierr); 1279 if (!rank) { 1280 MPI_Status status; 1281 ierr = PetscBinaryWrite(fd,column_values,nz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 1282 for (i=1; i<size; i++) { 1283 ierr = PetscViewerFlowControlStepMaster(viewer,i,&message_count,flowcontrolcount);CHKERRQ(ierr); 1284 ierr = MPI_Recv(&cnt,1,MPIU_INT,i,tag,PetscObjectComm((PetscObject)mat),&status);CHKERRQ(ierr); 1285 ierr = MPI_Recv(column_values,cnt,MPIU_SCALAR,i,tag,PetscObjectComm((PetscObject)mat),&status);CHKERRQ(ierr); 1286 ierr = PetscBinaryWrite(fd,column_values,cnt,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 1287 } 1288 ierr = PetscViewerFlowControlEndMaster(viewer,&message_count);CHKERRQ(ierr); 1289 } else { 1290 ierr = PetscViewerFlowControlStepWorker(viewer,rank,&message_count);CHKERRQ(ierr); 1291 ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 1292 ierr = MPI_Send(column_values,nz,MPIU_SCALAR,0,tag,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 1293 ierr = PetscViewerFlowControlEndWorker(viewer,&message_count);CHKERRQ(ierr); 1294 } 1295 ierr = PetscFree(column_values);CHKERRQ(ierr); 1296 1297 ierr = PetscViewerBinaryGetInfoPointer(viewer,&file);CHKERRQ(ierr); 1298 if (file) { 1299 fprintf(file,"-matload_block_size %d\n",(int)mat->rmap->bs); 1300 } 1301 PetscFunctionReturn(0); 1302 } 1303 1304 PetscErrorCode MatView_MPIBAIJ(Mat mat,PetscViewer viewer) 1305 { 1306 PetscErrorCode ierr; 1307 PetscBool iascii,isdraw,issocket,isbinary; 1308 1309 PetscFunctionBegin; 1310 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&iascii);CHKERRQ(ierr); 1311 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERDRAW,&isdraw);CHKERRQ(ierr); 1312 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERSOCKET,&issocket);CHKERRQ(ierr); 1313 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERBINARY,&isbinary);CHKERRQ(ierr); 1314 if (iascii || isdraw || issocket) { 1315 ierr = MatView_MPIBAIJ_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr); 1316 } else if (isbinary) { 1317 ierr = MatView_MPIBAIJ_Binary(mat,viewer);CHKERRQ(ierr); 1318 } 1319 PetscFunctionReturn(0); 1320 } 1321 1322 PetscErrorCode MatDestroy_MPIBAIJ(Mat mat) 1323 { 1324 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 1325 PetscErrorCode ierr; 1326 1327 PetscFunctionBegin; 1328 #if defined(PETSC_USE_LOG) 1329 PetscLogObjectState((PetscObject)mat,"Rows=%D,Cols=%D",mat->rmap->N,mat->cmap->N); 1330 #endif 1331 ierr = MatStashDestroy_Private(&mat->stash);CHKERRQ(ierr); 1332 ierr = MatStashDestroy_Private(&mat->bstash);CHKERRQ(ierr); 1333 ierr = MatDestroy(&baij->A);CHKERRQ(ierr); 1334 ierr = MatDestroy(&baij->B);CHKERRQ(ierr); 1335 #if defined(PETSC_USE_CTABLE) 1336 ierr = PetscTableDestroy(&baij->colmap);CHKERRQ(ierr); 1337 #else 1338 ierr = PetscFree(baij->colmap);CHKERRQ(ierr); 1339 #endif 1340 ierr = PetscFree(baij->garray);CHKERRQ(ierr); 1341 ierr = VecDestroy(&baij->lvec);CHKERRQ(ierr); 1342 ierr = VecScatterDestroy(&baij->Mvctx);CHKERRQ(ierr); 1343 ierr = PetscFree2(baij->rowvalues,baij->rowindices);CHKERRQ(ierr); 1344 ierr = PetscFree(baij->barray);CHKERRQ(ierr); 1345 ierr = PetscFree2(baij->hd,baij->ht);CHKERRQ(ierr); 1346 ierr = PetscFree(baij->rangebs);CHKERRQ(ierr); 1347 ierr = PetscFree(mat->data);CHKERRQ(ierr); 1348 1349 ierr = PetscObjectChangeTypeName((PetscObject)mat,0);CHKERRQ(ierr); 1350 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatStoreValues_C",NULL);CHKERRQ(ierr); 1351 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatRetrieveValues_C",NULL);CHKERRQ(ierr); 1352 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIBAIJSetPreallocation_C",NULL);CHKERRQ(ierr); 1353 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIBAIJSetPreallocationCSR_C",NULL);CHKERRQ(ierr); 1354 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatDiagonalScaleLocal_C",NULL);CHKERRQ(ierr); 1355 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatSetHashTableFactor_C",NULL);CHKERRQ(ierr); 1356 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatConvert_mpibaij_mpisbaij_C",NULL);CHKERRQ(ierr); 1357 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatConvert_mpibaij_mpibstrm_C",NULL);CHKERRQ(ierr); 1358 #if defined(PETSC_HAVE_HYPRE) 1359 ierr = PetscObjectComposeFunction((PetscObject)mat,"MatConvert_mpibaij_hypre_C",NULL);CHKERRQ(ierr); 1360 #endif 1361 PetscFunctionReturn(0); 1362 } 1363 1364 PetscErrorCode MatMult_MPIBAIJ(Mat A,Vec xx,Vec yy) 1365 { 1366 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 1367 PetscErrorCode ierr; 1368 PetscInt nt; 1369 1370 PetscFunctionBegin; 1371 ierr = VecGetLocalSize(xx,&nt);CHKERRQ(ierr); 1372 if (nt != A->cmap->n) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Incompatible partition of A and xx"); 1373 ierr = VecGetLocalSize(yy,&nt);CHKERRQ(ierr); 1374 if (nt != A->rmap->n) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Incompatible parition of A and yy"); 1375 ierr = VecScatterBegin(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1376 ierr = (*a->A->ops->mult)(a->A,xx,yy);CHKERRQ(ierr); 1377 ierr = VecScatterEnd(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1378 ierr = (*a->B->ops->multadd)(a->B,a->lvec,yy,yy);CHKERRQ(ierr); 1379 PetscFunctionReturn(0); 1380 } 1381 1382 PetscErrorCode MatMultAdd_MPIBAIJ(Mat A,Vec xx,Vec yy,Vec zz) 1383 { 1384 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 1385 PetscErrorCode ierr; 1386 1387 PetscFunctionBegin; 1388 ierr = VecScatterBegin(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1389 ierr = (*a->A->ops->multadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 1390 ierr = VecScatterEnd(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1391 ierr = (*a->B->ops->multadd)(a->B,a->lvec,zz,zz);CHKERRQ(ierr); 1392 PetscFunctionReturn(0); 1393 } 1394 1395 PetscErrorCode MatMultTranspose_MPIBAIJ(Mat A,Vec xx,Vec yy) 1396 { 1397 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 1398 PetscErrorCode ierr; 1399 PetscBool merged; 1400 1401 PetscFunctionBegin; 1402 ierr = VecScatterGetMerged(a->Mvctx,&merged);CHKERRQ(ierr); 1403 /* do nondiagonal part */ 1404 ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 1405 if (!merged) { 1406 /* send it on its way */ 1407 ierr = VecScatterBegin(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1408 /* do local part */ 1409 ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr); 1410 /* receive remote parts: note this assumes the values are not actually */ 1411 /* inserted in yy until the next line */ 1412 ierr = VecScatterEnd(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1413 } else { 1414 /* do local part */ 1415 ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr); 1416 /* send it on its way */ 1417 ierr = VecScatterBegin(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1418 /* values actually were received in the Begin() but we need to call this nop */ 1419 ierr = VecScatterEnd(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1420 } 1421 PetscFunctionReturn(0); 1422 } 1423 1424 PetscErrorCode MatMultTransposeAdd_MPIBAIJ(Mat A,Vec xx,Vec yy,Vec zz) 1425 { 1426 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 1427 PetscErrorCode ierr; 1428 1429 PetscFunctionBegin; 1430 /* do nondiagonal part */ 1431 ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 1432 /* send it on its way */ 1433 ierr = VecScatterBegin(a->Mvctx,a->lvec,zz,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1434 /* do local part */ 1435 ierr = (*a->A->ops->multtransposeadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 1436 /* receive remote parts: note this assumes the values are not actually */ 1437 /* inserted in yy until the next line, which is true for my implementation*/ 1438 /* but is not perhaps always true. */ 1439 ierr = VecScatterEnd(a->Mvctx,a->lvec,zz,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1440 PetscFunctionReturn(0); 1441 } 1442 1443 /* 1444 This only works correctly for square matrices where the subblock A->A is the 1445 diagonal block 1446 */ 1447 PetscErrorCode MatGetDiagonal_MPIBAIJ(Mat A,Vec v) 1448 { 1449 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 1450 PetscErrorCode ierr; 1451 1452 PetscFunctionBegin; 1453 if (A->rmap->N != A->cmap->N) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Supports only square matrix where A->A is diag block"); 1454 ierr = MatGetDiagonal(a->A,v);CHKERRQ(ierr); 1455 PetscFunctionReturn(0); 1456 } 1457 1458 PetscErrorCode MatScale_MPIBAIJ(Mat A,PetscScalar aa) 1459 { 1460 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 1461 PetscErrorCode ierr; 1462 1463 PetscFunctionBegin; 1464 ierr = MatScale(a->A,aa);CHKERRQ(ierr); 1465 ierr = MatScale(a->B,aa);CHKERRQ(ierr); 1466 PetscFunctionReturn(0); 1467 } 1468 1469 PetscErrorCode MatGetRow_MPIBAIJ(Mat matin,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 1470 { 1471 Mat_MPIBAIJ *mat = (Mat_MPIBAIJ*)matin->data; 1472 PetscScalar *vworkA,*vworkB,**pvA,**pvB,*v_p; 1473 PetscErrorCode ierr; 1474 PetscInt bs = matin->rmap->bs,bs2 = mat->bs2,i,*cworkA,*cworkB,**pcA,**pcB; 1475 PetscInt nztot,nzA,nzB,lrow,brstart = matin->rmap->rstart,brend = matin->rmap->rend; 1476 PetscInt *cmap,*idx_p,cstart = mat->cstartbs; 1477 1478 PetscFunctionBegin; 1479 if (row < brstart || row >= brend) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Only local rows"); 1480 if (mat->getrowactive) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"Already active"); 1481 mat->getrowactive = PETSC_TRUE; 1482 1483 if (!mat->rowvalues && (idx || v)) { 1484 /* 1485 allocate enough space to hold information from the longest row. 1486 */ 1487 Mat_SeqBAIJ *Aa = (Mat_SeqBAIJ*)mat->A->data,*Ba = (Mat_SeqBAIJ*)mat->B->data; 1488 PetscInt max = 1,mbs = mat->mbs,tmp; 1489 for (i=0; i<mbs; i++) { 1490 tmp = Aa->i[i+1] - Aa->i[i] + Ba->i[i+1] - Ba->i[i]; 1491 if (max < tmp) max = tmp; 1492 } 1493 ierr = PetscMalloc2(max*bs2,&mat->rowvalues,max*bs2,&mat->rowindices);CHKERRQ(ierr); 1494 } 1495 lrow = row - brstart; 1496 1497 pvA = &vworkA; pcA = &cworkA; pvB = &vworkB; pcB = &cworkB; 1498 if (!v) {pvA = 0; pvB = 0;} 1499 if (!idx) {pcA = 0; if (!v) pcB = 0;} 1500 ierr = (*mat->A->ops->getrow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1501 ierr = (*mat->B->ops->getrow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 1502 nztot = nzA + nzB; 1503 1504 cmap = mat->garray; 1505 if (v || idx) { 1506 if (nztot) { 1507 /* Sort by increasing column numbers, assuming A and B already sorted */ 1508 PetscInt imark = -1; 1509 if (v) { 1510 *v = v_p = mat->rowvalues; 1511 for (i=0; i<nzB; i++) { 1512 if (cmap[cworkB[i]/bs] < cstart) v_p[i] = vworkB[i]; 1513 else break; 1514 } 1515 imark = i; 1516 for (i=0; i<nzA; i++) v_p[imark+i] = vworkA[i]; 1517 for (i=imark; i<nzB; i++) v_p[nzA+i] = vworkB[i]; 1518 } 1519 if (idx) { 1520 *idx = idx_p = mat->rowindices; 1521 if (imark > -1) { 1522 for (i=0; i<imark; i++) { 1523 idx_p[i] = cmap[cworkB[i]/bs]*bs + cworkB[i]%bs; 1524 } 1525 } else { 1526 for (i=0; i<nzB; i++) { 1527 if (cmap[cworkB[i]/bs] < cstart) idx_p[i] = cmap[cworkB[i]/bs]*bs + cworkB[i]%bs; 1528 else break; 1529 } 1530 imark = i; 1531 } 1532 for (i=0; i<nzA; i++) idx_p[imark+i] = cstart*bs + cworkA[i]; 1533 for (i=imark; i<nzB; i++) idx_p[nzA+i] = cmap[cworkB[i]/bs]*bs + cworkB[i]%bs ; 1534 } 1535 } else { 1536 if (idx) *idx = 0; 1537 if (v) *v = 0; 1538 } 1539 } 1540 *nz = nztot; 1541 ierr = (*mat->A->ops->restorerow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1542 ierr = (*mat->B->ops->restorerow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 1543 PetscFunctionReturn(0); 1544 } 1545 1546 PetscErrorCode MatRestoreRow_MPIBAIJ(Mat mat,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 1547 { 1548 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 1549 1550 PetscFunctionBegin; 1551 if (!baij->getrowactive) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"MatGetRow not called"); 1552 baij->getrowactive = PETSC_FALSE; 1553 PetscFunctionReturn(0); 1554 } 1555 1556 PetscErrorCode MatZeroEntries_MPIBAIJ(Mat A) 1557 { 1558 Mat_MPIBAIJ *l = (Mat_MPIBAIJ*)A->data; 1559 PetscErrorCode ierr; 1560 1561 PetscFunctionBegin; 1562 ierr = MatZeroEntries(l->A);CHKERRQ(ierr); 1563 ierr = MatZeroEntries(l->B);CHKERRQ(ierr); 1564 PetscFunctionReturn(0); 1565 } 1566 1567 PetscErrorCode MatGetInfo_MPIBAIJ(Mat matin,MatInfoType flag,MatInfo *info) 1568 { 1569 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)matin->data; 1570 Mat A = a->A,B = a->B; 1571 PetscErrorCode ierr; 1572 PetscReal isend[5],irecv[5]; 1573 1574 PetscFunctionBegin; 1575 info->block_size = (PetscReal)matin->rmap->bs; 1576 1577 ierr = MatGetInfo(A,MAT_LOCAL,info);CHKERRQ(ierr); 1578 1579 isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded; 1580 isend[3] = info->memory; isend[4] = info->mallocs; 1581 1582 ierr = MatGetInfo(B,MAT_LOCAL,info);CHKERRQ(ierr); 1583 1584 isend[0] += info->nz_used; isend[1] += info->nz_allocated; isend[2] += info->nz_unneeded; 1585 isend[3] += info->memory; isend[4] += info->mallocs; 1586 1587 if (flag == MAT_LOCAL) { 1588 info->nz_used = isend[0]; 1589 info->nz_allocated = isend[1]; 1590 info->nz_unneeded = isend[2]; 1591 info->memory = isend[3]; 1592 info->mallocs = isend[4]; 1593 } else if (flag == MAT_GLOBAL_MAX) { 1594 ierr = MPIU_Allreduce(isend,irecv,5,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)matin));CHKERRQ(ierr); 1595 1596 info->nz_used = irecv[0]; 1597 info->nz_allocated = irecv[1]; 1598 info->nz_unneeded = irecv[2]; 1599 info->memory = irecv[3]; 1600 info->mallocs = irecv[4]; 1601 } else if (flag == MAT_GLOBAL_SUM) { 1602 ierr = MPIU_Allreduce(isend,irecv,5,MPIU_REAL,MPIU_SUM,PetscObjectComm((PetscObject)matin));CHKERRQ(ierr); 1603 1604 info->nz_used = irecv[0]; 1605 info->nz_allocated = irecv[1]; 1606 info->nz_unneeded = irecv[2]; 1607 info->memory = irecv[3]; 1608 info->mallocs = irecv[4]; 1609 } else SETERRQ1(PetscObjectComm((PetscObject)matin),PETSC_ERR_ARG_WRONG,"Unknown MatInfoType argument %d",(int)flag); 1610 info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 1611 info->fill_ratio_needed = 0; 1612 info->factor_mallocs = 0; 1613 PetscFunctionReturn(0); 1614 } 1615 1616 PetscErrorCode MatSetOption_MPIBAIJ(Mat A,MatOption op,PetscBool flg) 1617 { 1618 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 1619 PetscErrorCode ierr; 1620 1621 PetscFunctionBegin; 1622 switch (op) { 1623 case MAT_NEW_NONZERO_LOCATIONS: 1624 case MAT_NEW_NONZERO_ALLOCATION_ERR: 1625 case MAT_UNUSED_NONZERO_LOCATION_ERR: 1626 case MAT_KEEP_NONZERO_PATTERN: 1627 case MAT_NEW_NONZERO_LOCATION_ERR: 1628 MatCheckPreallocated(A,1); 1629 ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 1630 ierr = MatSetOption(a->B,op,flg);CHKERRQ(ierr); 1631 break; 1632 case MAT_ROW_ORIENTED: 1633 MatCheckPreallocated(A,1); 1634 a->roworiented = flg; 1635 1636 ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 1637 ierr = MatSetOption(a->B,op,flg);CHKERRQ(ierr); 1638 break; 1639 case MAT_NEW_DIAGONALS: 1640 ierr = PetscInfo1(A,"Option %s ignored\n",MatOptions[op]);CHKERRQ(ierr); 1641 break; 1642 case MAT_IGNORE_OFF_PROC_ENTRIES: 1643 a->donotstash = flg; 1644 break; 1645 case MAT_USE_HASH_TABLE: 1646 a->ht_flag = flg; 1647 a->ht_fact = 1.39; 1648 break; 1649 case MAT_SYMMETRIC: 1650 case MAT_STRUCTURALLY_SYMMETRIC: 1651 case MAT_HERMITIAN: 1652 case MAT_SUBMAT_SINGLEIS: 1653 case MAT_SYMMETRY_ETERNAL: 1654 MatCheckPreallocated(A,1); 1655 ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 1656 break; 1657 default: 1658 SETERRQ1(PetscObjectComm((PetscObject)A),PETSC_ERR_SUP,"unknown option %d",op); 1659 } 1660 PetscFunctionReturn(0); 1661 } 1662 1663 PetscErrorCode MatTranspose_MPIBAIJ(Mat A,MatReuse reuse,Mat *matout) 1664 { 1665 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)A->data; 1666 Mat_SeqBAIJ *Aloc; 1667 Mat B; 1668 PetscErrorCode ierr; 1669 PetscInt M =A->rmap->N,N=A->cmap->N,*ai,*aj,i,*rvals,j,k,col; 1670 PetscInt bs=A->rmap->bs,mbs=baij->mbs; 1671 MatScalar *a; 1672 1673 PetscFunctionBegin; 1674 if (reuse == MAT_INPLACE_MATRIX && M != N) SETERRQ(PetscObjectComm((PetscObject)A),PETSC_ERR_ARG_SIZ,"Square matrix only for in-place"); 1675 if (reuse == MAT_INITIAL_MATRIX || reuse == MAT_INPLACE_MATRIX) { 1676 ierr = MatCreate(PetscObjectComm((PetscObject)A),&B);CHKERRQ(ierr); 1677 ierr = MatSetSizes(B,A->cmap->n,A->rmap->n,N,M);CHKERRQ(ierr); 1678 ierr = MatSetType(B,((PetscObject)A)->type_name);CHKERRQ(ierr); 1679 /* Do not know preallocation information, but must set block size */ 1680 ierr = MatMPIBAIJSetPreallocation(B,A->rmap->bs,PETSC_DECIDE,NULL,PETSC_DECIDE,NULL);CHKERRQ(ierr); 1681 } else { 1682 B = *matout; 1683 } 1684 1685 /* copy over the A part */ 1686 Aloc = (Mat_SeqBAIJ*)baij->A->data; 1687 ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 1688 ierr = PetscMalloc1(bs,&rvals);CHKERRQ(ierr); 1689 1690 for (i=0; i<mbs; i++) { 1691 rvals[0] = bs*(baij->rstartbs + i); 1692 for (j=1; j<bs; j++) rvals[j] = rvals[j-1] + 1; 1693 for (j=ai[i]; j<ai[i+1]; j++) { 1694 col = (baij->cstartbs+aj[j])*bs; 1695 for (k=0; k<bs; k++) { 1696 ierr = MatSetValues_MPIBAIJ(B,1,&col,bs,rvals,a,INSERT_VALUES);CHKERRQ(ierr); 1697 1698 col++; a += bs; 1699 } 1700 } 1701 } 1702 /* copy over the B part */ 1703 Aloc = (Mat_SeqBAIJ*)baij->B->data; 1704 ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 1705 for (i=0; i<mbs; i++) { 1706 rvals[0] = bs*(baij->rstartbs + i); 1707 for (j=1; j<bs; j++) rvals[j] = rvals[j-1] + 1; 1708 for (j=ai[i]; j<ai[i+1]; j++) { 1709 col = baij->garray[aj[j]]*bs; 1710 for (k=0; k<bs; k++) { 1711 ierr = MatSetValues_MPIBAIJ(B,1,&col,bs,rvals,a,INSERT_VALUES);CHKERRQ(ierr); 1712 col++; 1713 a += bs; 1714 } 1715 } 1716 } 1717 ierr = PetscFree(rvals);CHKERRQ(ierr); 1718 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1719 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1720 1721 if (reuse == MAT_INITIAL_MATRIX || reuse == MAT_REUSE_MATRIX) *matout = B; 1722 else { 1723 ierr = MatHeaderMerge(A,&B);CHKERRQ(ierr); 1724 } 1725 PetscFunctionReturn(0); 1726 } 1727 1728 PetscErrorCode MatDiagonalScale_MPIBAIJ(Mat mat,Vec ll,Vec rr) 1729 { 1730 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 1731 Mat a = baij->A,b = baij->B; 1732 PetscErrorCode ierr; 1733 PetscInt s1,s2,s3; 1734 1735 PetscFunctionBegin; 1736 ierr = MatGetLocalSize(mat,&s2,&s3);CHKERRQ(ierr); 1737 if (rr) { 1738 ierr = VecGetLocalSize(rr,&s1);CHKERRQ(ierr); 1739 if (s1!=s3) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"right vector non-conforming local size"); 1740 /* Overlap communication with computation. */ 1741 ierr = VecScatterBegin(baij->Mvctx,rr,baij->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1742 } 1743 if (ll) { 1744 ierr = VecGetLocalSize(ll,&s1);CHKERRQ(ierr); 1745 if (s1!=s2) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"left vector non-conforming local size"); 1746 ierr = (*b->ops->diagonalscale)(b,ll,NULL);CHKERRQ(ierr); 1747 } 1748 /* scale the diagonal block */ 1749 ierr = (*a->ops->diagonalscale)(a,ll,rr);CHKERRQ(ierr); 1750 1751 if (rr) { 1752 /* Do a scatter end and then right scale the off-diagonal block */ 1753 ierr = VecScatterEnd(baij->Mvctx,rr,baij->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1754 ierr = (*b->ops->diagonalscale)(b,NULL,baij->lvec);CHKERRQ(ierr); 1755 } 1756 PetscFunctionReturn(0); 1757 } 1758 1759 PetscErrorCode MatZeroRows_MPIBAIJ(Mat A,PetscInt N,const PetscInt rows[],PetscScalar diag,Vec x,Vec b) 1760 { 1761 Mat_MPIBAIJ *l = (Mat_MPIBAIJ *) A->data; 1762 PetscInt *lrows; 1763 PetscInt r, len; 1764 PetscErrorCode ierr; 1765 1766 PetscFunctionBegin; 1767 /* get locally owned rows */ 1768 ierr = MatZeroRowsMapLocal_Private(A,N,rows,&len,&lrows);CHKERRQ(ierr); 1769 /* fix right hand side if needed */ 1770 if (x && b) { 1771 const PetscScalar *xx; 1772 PetscScalar *bb; 1773 1774 ierr = VecGetArrayRead(x,&xx);CHKERRQ(ierr); 1775 ierr = VecGetArray(b,&bb);CHKERRQ(ierr); 1776 for (r = 0; r < len; ++r) bb[lrows[r]] = diag*xx[lrows[r]]; 1777 ierr = VecRestoreArrayRead(x,&xx);CHKERRQ(ierr); 1778 ierr = VecRestoreArray(b,&bb);CHKERRQ(ierr); 1779 } 1780 1781 /* actually zap the local rows */ 1782 /* 1783 Zero the required rows. If the "diagonal block" of the matrix 1784 is square and the user wishes to set the diagonal we use separate 1785 code so that MatSetValues() is not called for each diagonal allocating 1786 new memory, thus calling lots of mallocs and slowing things down. 1787 1788 */ 1789 /* must zero l->B before l->A because the (diag) case below may put values into l->B*/ 1790 ierr = MatZeroRows_SeqBAIJ(l->B,len,lrows,0.0,NULL,NULL);CHKERRQ(ierr); 1791 if (A->congruentlayouts == -1) { /* first time we compare rows and cols layouts */ 1792 PetscBool cong; 1793 ierr = PetscLayoutCompare(A->rmap,A->cmap,&cong);CHKERRQ(ierr); 1794 if (cong) A->congruentlayouts = 1; 1795 else A->congruentlayouts = 0; 1796 } 1797 if ((diag != 0.0) && A->congruentlayouts) { 1798 ierr = MatZeroRows_SeqBAIJ(l->A,len,lrows,diag,NULL,NULL);CHKERRQ(ierr); 1799 } else if (diag != 0.0) { 1800 ierr = MatZeroRows_SeqBAIJ(l->A,len,lrows,0.0,0,0);CHKERRQ(ierr); 1801 if (((Mat_SeqBAIJ*)l->A->data)->nonew) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"MatZeroRows() on rectangular matrices cannot be used with the Mat options \n\ 1802 MAT_NEW_NONZERO_LOCATIONS,MAT_NEW_NONZERO_LOCATION_ERR,MAT_NEW_NONZERO_ALLOCATION_ERR"); 1803 for (r = 0; r < len; ++r) { 1804 const PetscInt row = lrows[r] + A->rmap->rstart; 1805 ierr = MatSetValues(A,1,&row,1,&row,&diag,INSERT_VALUES);CHKERRQ(ierr); 1806 } 1807 ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1808 ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1809 } else { 1810 ierr = MatZeroRows_SeqBAIJ(l->A,len,lrows,0.0,NULL,NULL);CHKERRQ(ierr); 1811 } 1812 ierr = PetscFree(lrows);CHKERRQ(ierr); 1813 1814 /* only change matrix nonzero state if pattern was allowed to be changed */ 1815 if (!((Mat_SeqBAIJ*)(l->A->data))->keepnonzeropattern) { 1816 PetscObjectState state = l->A->nonzerostate + l->B->nonzerostate; 1817 ierr = MPIU_Allreduce(&state,&A->nonzerostate,1,MPIU_INT64,MPI_SUM,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 1818 } 1819 PetscFunctionReturn(0); 1820 } 1821 1822 PetscErrorCode MatZeroRowsColumns_MPIBAIJ(Mat A,PetscInt N,const PetscInt rows[],PetscScalar diag,Vec x,Vec b) 1823 { 1824 Mat_MPIBAIJ *l = (Mat_MPIBAIJ*)A->data; 1825 PetscErrorCode ierr; 1826 PetscMPIInt n = A->rmap->n; 1827 PetscInt i,j,k,r,p = 0,len = 0,row,col,count; 1828 PetscInt *lrows,*owners = A->rmap->range; 1829 PetscSFNode *rrows; 1830 PetscSF sf; 1831 const PetscScalar *xx; 1832 PetscScalar *bb,*mask; 1833 Vec xmask,lmask; 1834 Mat_SeqBAIJ *baij = (Mat_SeqBAIJ*)l->B->data; 1835 PetscInt bs = A->rmap->bs, bs2 = baij->bs2; 1836 PetscScalar *aa; 1837 1838 PetscFunctionBegin; 1839 /* Create SF where leaves are input rows and roots are owned rows */ 1840 ierr = PetscMalloc1(n, &lrows);CHKERRQ(ierr); 1841 for (r = 0; r < n; ++r) lrows[r] = -1; 1842 ierr = PetscMalloc1(N, &rrows);CHKERRQ(ierr); 1843 for (r = 0; r < N; ++r) { 1844 const PetscInt idx = rows[r]; 1845 if (idx < 0 || A->rmap->N <= idx) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row %D out of range [0,%D)",idx,A->rmap->N); 1846 if (idx < owners[p] || owners[p+1] <= idx) { /* short-circuit the search if the last p owns this row too */ 1847 ierr = PetscLayoutFindOwner(A->rmap,idx,&p);CHKERRQ(ierr); 1848 } 1849 rrows[r].rank = p; 1850 rrows[r].index = rows[r] - owners[p]; 1851 } 1852 ierr = PetscSFCreate(PetscObjectComm((PetscObject) A), &sf);CHKERRQ(ierr); 1853 ierr = PetscSFSetGraph(sf, n, N, NULL, PETSC_OWN_POINTER, rrows, PETSC_OWN_POINTER);CHKERRQ(ierr); 1854 /* Collect flags for rows to be zeroed */ 1855 ierr = PetscSFReduceBegin(sf, MPIU_INT, (PetscInt *) rows, lrows, MPI_LOR);CHKERRQ(ierr); 1856 ierr = PetscSFReduceEnd(sf, MPIU_INT, (PetscInt *) rows, lrows, MPI_LOR);CHKERRQ(ierr); 1857 ierr = PetscSFDestroy(&sf);CHKERRQ(ierr); 1858 /* Compress and put in row numbers */ 1859 for (r = 0; r < n; ++r) if (lrows[r] >= 0) lrows[len++] = r; 1860 /* zero diagonal part of matrix */ 1861 ierr = MatZeroRowsColumns(l->A,len,lrows,diag,x,b);CHKERRQ(ierr); 1862 /* handle off diagonal part of matrix */ 1863 ierr = MatCreateVecs(A,&xmask,NULL);CHKERRQ(ierr); 1864 ierr = VecDuplicate(l->lvec,&lmask);CHKERRQ(ierr); 1865 ierr = VecGetArray(xmask,&bb);CHKERRQ(ierr); 1866 for (i=0; i<len; i++) bb[lrows[i]] = 1; 1867 ierr = VecRestoreArray(xmask,&bb);CHKERRQ(ierr); 1868 ierr = VecScatterBegin(l->Mvctx,xmask,lmask,ADD_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1869 ierr = VecScatterEnd(l->Mvctx,xmask,lmask,ADD_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1870 ierr = VecDestroy(&xmask);CHKERRQ(ierr); 1871 if (x) { 1872 ierr = VecScatterBegin(l->Mvctx,x,l->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1873 ierr = VecScatterEnd(l->Mvctx,x,l->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1874 ierr = VecGetArrayRead(l->lvec,&xx);CHKERRQ(ierr); 1875 ierr = VecGetArray(b,&bb);CHKERRQ(ierr); 1876 } 1877 ierr = VecGetArray(lmask,&mask);CHKERRQ(ierr); 1878 /* remove zeroed rows of off diagonal matrix */ 1879 for (i = 0; i < len; ++i) { 1880 row = lrows[i]; 1881 count = (baij->i[row/bs +1] - baij->i[row/bs])*bs; 1882 aa = ((MatScalar*)(baij->a)) + baij->i[row/bs]*bs2 + (row%bs); 1883 for (k = 0; k < count; ++k) { 1884 aa[0] = 0.0; 1885 aa += bs; 1886 } 1887 } 1888 /* loop over all elements of off process part of matrix zeroing removed columns*/ 1889 for (i = 0; i < l->B->rmap->N; ++i) { 1890 row = i/bs; 1891 for (j = baij->i[row]; j < baij->i[row+1]; ++j) { 1892 for (k = 0; k < bs; ++k) { 1893 col = bs*baij->j[j] + k; 1894 if (PetscAbsScalar(mask[col])) { 1895 aa = ((MatScalar*)(baij->a)) + j*bs2 + (i%bs) + bs*k; 1896 if (x) bb[i] -= aa[0]*xx[col]; 1897 aa[0] = 0.0; 1898 } 1899 } 1900 } 1901 } 1902 if (x) { 1903 ierr = VecRestoreArray(b,&bb);CHKERRQ(ierr); 1904 ierr = VecRestoreArrayRead(l->lvec,&xx);CHKERRQ(ierr); 1905 } 1906 ierr = VecRestoreArray(lmask,&mask);CHKERRQ(ierr); 1907 ierr = VecDestroy(&lmask);CHKERRQ(ierr); 1908 ierr = PetscFree(lrows);CHKERRQ(ierr); 1909 1910 /* only change matrix nonzero state if pattern was allowed to be changed */ 1911 if (!((Mat_SeqBAIJ*)(l->A->data))->keepnonzeropattern) { 1912 PetscObjectState state = l->A->nonzerostate + l->B->nonzerostate; 1913 ierr = MPIU_Allreduce(&state,&A->nonzerostate,1,MPIU_INT64,MPI_SUM,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 1914 } 1915 PetscFunctionReturn(0); 1916 } 1917 1918 PetscErrorCode MatSetUnfactored_MPIBAIJ(Mat A) 1919 { 1920 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 1921 PetscErrorCode ierr; 1922 1923 PetscFunctionBegin; 1924 ierr = MatSetUnfactored(a->A);CHKERRQ(ierr); 1925 PetscFunctionReturn(0); 1926 } 1927 1928 static PetscErrorCode MatDuplicate_MPIBAIJ(Mat,MatDuplicateOption,Mat*); 1929 1930 PetscErrorCode MatEqual_MPIBAIJ(Mat A,Mat B,PetscBool *flag) 1931 { 1932 Mat_MPIBAIJ *matB = (Mat_MPIBAIJ*)B->data,*matA = (Mat_MPIBAIJ*)A->data; 1933 Mat a,b,c,d; 1934 PetscBool flg; 1935 PetscErrorCode ierr; 1936 1937 PetscFunctionBegin; 1938 a = matA->A; b = matA->B; 1939 c = matB->A; d = matB->B; 1940 1941 ierr = MatEqual(a,c,&flg);CHKERRQ(ierr); 1942 if (flg) { 1943 ierr = MatEqual(b,d,&flg);CHKERRQ(ierr); 1944 } 1945 ierr = MPIU_Allreduce(&flg,flag,1,MPIU_BOOL,MPI_LAND,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 1946 PetscFunctionReturn(0); 1947 } 1948 1949 PetscErrorCode MatCopy_MPIBAIJ(Mat A,Mat B,MatStructure str) 1950 { 1951 PetscErrorCode ierr; 1952 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 1953 Mat_MPIBAIJ *b = (Mat_MPIBAIJ*)B->data; 1954 1955 PetscFunctionBegin; 1956 /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */ 1957 if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) { 1958 ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr); 1959 } else { 1960 ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr); 1961 ierr = MatCopy(a->B,b->B,str);CHKERRQ(ierr); 1962 } 1963 ierr = PetscObjectStateIncrease((PetscObject)B);CHKERRQ(ierr); 1964 PetscFunctionReturn(0); 1965 } 1966 1967 PetscErrorCode MatSetUp_MPIBAIJ(Mat A) 1968 { 1969 PetscErrorCode ierr; 1970 1971 PetscFunctionBegin; 1972 ierr = MatMPIBAIJSetPreallocation(A,A->rmap->bs,PETSC_DEFAULT,0,PETSC_DEFAULT,0);CHKERRQ(ierr); 1973 PetscFunctionReturn(0); 1974 } 1975 1976 PetscErrorCode MatAXPYGetPreallocation_MPIBAIJ(Mat Y,const PetscInt *yltog,Mat X,const PetscInt *xltog,PetscInt *nnz) 1977 { 1978 PetscErrorCode ierr; 1979 PetscInt bs = Y->rmap->bs,m = Y->rmap->N/bs; 1980 Mat_SeqBAIJ *x = (Mat_SeqBAIJ*)X->data; 1981 Mat_SeqBAIJ *y = (Mat_SeqBAIJ*)Y->data; 1982 1983 PetscFunctionBegin; 1984 ierr = MatAXPYGetPreallocation_MPIX_private(m,x->i,x->j,xltog,y->i,y->j,yltog,nnz);CHKERRQ(ierr); 1985 PetscFunctionReturn(0); 1986 } 1987 1988 PetscErrorCode MatAXPY_MPIBAIJ(Mat Y,PetscScalar a,Mat X,MatStructure str) 1989 { 1990 PetscErrorCode ierr; 1991 Mat_MPIBAIJ *xx=(Mat_MPIBAIJ*)X->data,*yy=(Mat_MPIBAIJ*)Y->data; 1992 PetscBLASInt bnz,one=1; 1993 Mat_SeqBAIJ *x,*y; 1994 PetscInt bs2 = Y->rmap->bs*Y->rmap->bs; 1995 1996 PetscFunctionBegin; 1997 if (str == SAME_NONZERO_PATTERN) { 1998 PetscScalar alpha = a; 1999 x = (Mat_SeqBAIJ*)xx->A->data; 2000 y = (Mat_SeqBAIJ*)yy->A->data; 2001 ierr = PetscBLASIntCast(x->nz*bs2,&bnz);CHKERRQ(ierr); 2002 PetscStackCallBLAS("BLASaxpy",BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one)); 2003 x = (Mat_SeqBAIJ*)xx->B->data; 2004 y = (Mat_SeqBAIJ*)yy->B->data; 2005 ierr = PetscBLASIntCast(x->nz*bs2,&bnz);CHKERRQ(ierr); 2006 PetscStackCallBLAS("BLASaxpy",BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one)); 2007 ierr = PetscObjectStateIncrease((PetscObject)Y);CHKERRQ(ierr); 2008 } else if (str == SUBSET_NONZERO_PATTERN) { /* nonzeros of X is a subset of Y's */ 2009 ierr = MatAXPY_Basic(Y,a,X,str);CHKERRQ(ierr); 2010 } else { 2011 Mat B; 2012 PetscInt *nnz_d,*nnz_o,bs=Y->rmap->bs; 2013 ierr = PetscMalloc1(yy->A->rmap->N,&nnz_d);CHKERRQ(ierr); 2014 ierr = PetscMalloc1(yy->B->rmap->N,&nnz_o);CHKERRQ(ierr); 2015 ierr = MatCreate(PetscObjectComm((PetscObject)Y),&B);CHKERRQ(ierr); 2016 ierr = PetscObjectSetName((PetscObject)B,((PetscObject)Y)->name);CHKERRQ(ierr); 2017 ierr = MatSetSizes(B,Y->rmap->n,Y->cmap->n,Y->rmap->N,Y->cmap->N);CHKERRQ(ierr); 2018 ierr = MatSetBlockSizesFromMats(B,Y,Y);CHKERRQ(ierr); 2019 ierr = MatSetType(B,MATMPIBAIJ);CHKERRQ(ierr); 2020 ierr = MatAXPYGetPreallocation_SeqBAIJ(yy->A,xx->A,nnz_d);CHKERRQ(ierr); 2021 ierr = MatAXPYGetPreallocation_MPIBAIJ(yy->B,yy->garray,xx->B,xx->garray,nnz_o);CHKERRQ(ierr); 2022 ierr = MatMPIBAIJSetPreallocation(B,bs,0,nnz_d,0,nnz_o);CHKERRQ(ierr); 2023 /* MatAXPY_BasicWithPreallocation() for BAIJ matrix is much slower than AIJ, even for bs=1 ! */ 2024 ierr = MatAXPY_BasicWithPreallocation(B,Y,a,X,str);CHKERRQ(ierr); 2025 ierr = MatHeaderReplace(Y,&B);CHKERRQ(ierr); 2026 ierr = PetscFree(nnz_d);CHKERRQ(ierr); 2027 ierr = PetscFree(nnz_o);CHKERRQ(ierr); 2028 } 2029 PetscFunctionReturn(0); 2030 } 2031 2032 PetscErrorCode MatRealPart_MPIBAIJ(Mat A) 2033 { 2034 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 2035 PetscErrorCode ierr; 2036 2037 PetscFunctionBegin; 2038 ierr = MatRealPart(a->A);CHKERRQ(ierr); 2039 ierr = MatRealPart(a->B);CHKERRQ(ierr); 2040 PetscFunctionReturn(0); 2041 } 2042 2043 PetscErrorCode MatImaginaryPart_MPIBAIJ(Mat A) 2044 { 2045 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 2046 PetscErrorCode ierr; 2047 2048 PetscFunctionBegin; 2049 ierr = MatImaginaryPart(a->A);CHKERRQ(ierr); 2050 ierr = MatImaginaryPart(a->B);CHKERRQ(ierr); 2051 PetscFunctionReturn(0); 2052 } 2053 2054 PetscErrorCode MatCreateSubMatrix_MPIBAIJ(Mat mat,IS isrow,IS iscol,MatReuse call,Mat *newmat) 2055 { 2056 PetscErrorCode ierr; 2057 IS iscol_local; 2058 PetscInt csize; 2059 2060 PetscFunctionBegin; 2061 ierr = ISGetLocalSize(iscol,&csize);CHKERRQ(ierr); 2062 if (call == MAT_REUSE_MATRIX) { 2063 ierr = PetscObjectQuery((PetscObject)*newmat,"ISAllGather",(PetscObject*)&iscol_local);CHKERRQ(ierr); 2064 if (!iscol_local) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"Submatrix passed in was not used before, cannot reuse"); 2065 } else { 2066 ierr = ISAllGather(iscol,&iscol_local);CHKERRQ(ierr); 2067 } 2068 ierr = MatCreateSubMatrix_MPIBAIJ_Private(mat,isrow,iscol_local,csize,call,newmat);CHKERRQ(ierr); 2069 if (call == MAT_INITIAL_MATRIX) { 2070 ierr = PetscObjectCompose((PetscObject)*newmat,"ISAllGather",(PetscObject)iscol_local);CHKERRQ(ierr); 2071 ierr = ISDestroy(&iscol_local);CHKERRQ(ierr); 2072 } 2073 PetscFunctionReturn(0); 2074 } 2075 2076 /* 2077 Not great since it makes two copies of the submatrix, first an SeqBAIJ 2078 in local and then by concatenating the local matrices the end result. 2079 Writing it directly would be much like MatCreateSubMatrices_MPIBAIJ(). 2080 This routine is used for BAIJ and SBAIJ matrices (unfortunate dependency). 2081 */ 2082 PetscErrorCode MatCreateSubMatrix_MPIBAIJ_Private(Mat mat,IS isrow,IS iscol,PetscInt csize,MatReuse call,Mat *newmat) 2083 { 2084 PetscErrorCode ierr; 2085 PetscMPIInt rank,size; 2086 PetscInt i,m,n,rstart,row,rend,nz,*cwork,j,bs; 2087 PetscInt *ii,*jj,nlocal,*dlens,*olens,dlen,olen,jend,mglobal; 2088 Mat M,Mreuse; 2089 MatScalar *vwork,*aa; 2090 MPI_Comm comm; 2091 IS isrow_new, iscol_new; 2092 Mat_SeqBAIJ *aij; 2093 2094 PetscFunctionBegin; 2095 ierr = PetscObjectGetComm((PetscObject)mat,&comm);CHKERRQ(ierr); 2096 ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 2097 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 2098 /* The compression and expansion should be avoided. Doesn't point 2099 out errors, might change the indices, hence buggey */ 2100 ierr = ISCompressIndicesGeneral(mat->rmap->N,mat->rmap->n,mat->rmap->bs,1,&isrow,&isrow_new);CHKERRQ(ierr); 2101 ierr = ISCompressIndicesGeneral(mat->cmap->N,mat->cmap->n,mat->cmap->bs,1,&iscol,&iscol_new);CHKERRQ(ierr); 2102 2103 if (call == MAT_REUSE_MATRIX) { 2104 ierr = PetscObjectQuery((PetscObject)*newmat,"SubMatrix",(PetscObject*)&Mreuse);CHKERRQ(ierr); 2105 if (!Mreuse) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"Submatrix passed in was not used before, cannot reuse"); 2106 ierr = MatCreateSubMatrices_MPIBAIJ_local(mat,1,&isrow_new,&iscol_new,MAT_REUSE_MATRIX,&Mreuse);CHKERRQ(ierr); 2107 } else { 2108 ierr = MatCreateSubMatrices_MPIBAIJ_local(mat,1,&isrow_new,&iscol_new,MAT_INITIAL_MATRIX,&Mreuse);CHKERRQ(ierr); 2109 } 2110 ierr = ISDestroy(&isrow_new);CHKERRQ(ierr); 2111 ierr = ISDestroy(&iscol_new);CHKERRQ(ierr); 2112 /* 2113 m - number of local rows 2114 n - number of columns (same on all processors) 2115 rstart - first row in new global matrix generated 2116 */ 2117 ierr = MatGetBlockSize(mat,&bs);CHKERRQ(ierr); 2118 ierr = MatGetSize(Mreuse,&m,&n);CHKERRQ(ierr); 2119 m = m/bs; 2120 n = n/bs; 2121 2122 if (call == MAT_INITIAL_MATRIX) { 2123 aij = (Mat_SeqBAIJ*)(Mreuse)->data; 2124 ii = aij->i; 2125 jj = aij->j; 2126 2127 /* 2128 Determine the number of non-zeros in the diagonal and off-diagonal 2129 portions of the matrix in order to do correct preallocation 2130 */ 2131 2132 /* first get start and end of "diagonal" columns */ 2133 if (csize == PETSC_DECIDE) { 2134 ierr = ISGetSize(isrow,&mglobal);CHKERRQ(ierr); 2135 if (mglobal == n*bs) { /* square matrix */ 2136 nlocal = m; 2137 } else { 2138 nlocal = n/size + ((n % size) > rank); 2139 } 2140 } else { 2141 nlocal = csize/bs; 2142 } 2143 ierr = MPI_Scan(&nlocal,&rend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 2144 rstart = rend - nlocal; 2145 if (rank == size - 1 && rend != n) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Local column sizes %D do not add up to total number of columns %D",rend,n); 2146 2147 /* next, compute all the lengths */ 2148 ierr = PetscMalloc2(m+1,&dlens,m+1,&olens);CHKERRQ(ierr); 2149 for (i=0; i<m; i++) { 2150 jend = ii[i+1] - ii[i]; 2151 olen = 0; 2152 dlen = 0; 2153 for (j=0; j<jend; j++) { 2154 if (*jj < rstart || *jj >= rend) olen++; 2155 else dlen++; 2156 jj++; 2157 } 2158 olens[i] = olen; 2159 dlens[i] = dlen; 2160 } 2161 ierr = MatCreate(comm,&M);CHKERRQ(ierr); 2162 ierr = MatSetSizes(M,bs*m,bs*nlocal,PETSC_DECIDE,bs*n);CHKERRQ(ierr); 2163 ierr = MatSetType(M,((PetscObject)mat)->type_name);CHKERRQ(ierr); 2164 ierr = MatMPIBAIJSetPreallocation(M,bs,0,dlens,0,olens);CHKERRQ(ierr); 2165 ierr = MatMPISBAIJSetPreallocation(M,bs,0,dlens,0,olens);CHKERRQ(ierr); 2166 ierr = PetscFree2(dlens,olens);CHKERRQ(ierr); 2167 } else { 2168 PetscInt ml,nl; 2169 2170 M = *newmat; 2171 ierr = MatGetLocalSize(M,&ml,&nl);CHKERRQ(ierr); 2172 if (ml != m) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Previous matrix must be same size/layout as request"); 2173 ierr = MatZeroEntries(M);CHKERRQ(ierr); 2174 /* 2175 The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 2176 rather than the slower MatSetValues(). 2177 */ 2178 M->was_assembled = PETSC_TRUE; 2179 M->assembled = PETSC_FALSE; 2180 } 2181 ierr = MatSetOption(M,MAT_ROW_ORIENTED,PETSC_FALSE);CHKERRQ(ierr); 2182 ierr = MatGetOwnershipRange(M,&rstart,&rend);CHKERRQ(ierr); 2183 aij = (Mat_SeqBAIJ*)(Mreuse)->data; 2184 ii = aij->i; 2185 jj = aij->j; 2186 aa = aij->a; 2187 for (i=0; i<m; i++) { 2188 row = rstart/bs + i; 2189 nz = ii[i+1] - ii[i]; 2190 cwork = jj; jj += nz; 2191 vwork = aa; aa += nz*bs*bs; 2192 ierr = MatSetValuesBlocked_MPIBAIJ(M,1,&row,nz,cwork,vwork,INSERT_VALUES);CHKERRQ(ierr); 2193 } 2194 2195 ierr = MatAssemblyBegin(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2196 ierr = MatAssemblyEnd(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2197 *newmat = M; 2198 2199 /* save submatrix used in processor for next request */ 2200 if (call == MAT_INITIAL_MATRIX) { 2201 ierr = PetscObjectCompose((PetscObject)M,"SubMatrix",(PetscObject)Mreuse);CHKERRQ(ierr); 2202 ierr = PetscObjectDereference((PetscObject)Mreuse);CHKERRQ(ierr); 2203 } 2204 PetscFunctionReturn(0); 2205 } 2206 2207 PetscErrorCode MatPermute_MPIBAIJ(Mat A,IS rowp,IS colp,Mat *B) 2208 { 2209 MPI_Comm comm,pcomm; 2210 PetscInt clocal_size,nrows; 2211 const PetscInt *rows; 2212 PetscMPIInt size; 2213 IS crowp,lcolp; 2214 PetscErrorCode ierr; 2215 2216 PetscFunctionBegin; 2217 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 2218 /* make a collective version of 'rowp' */ 2219 ierr = PetscObjectGetComm((PetscObject)rowp,&pcomm);CHKERRQ(ierr); 2220 if (pcomm==comm) { 2221 crowp = rowp; 2222 } else { 2223 ierr = ISGetSize(rowp,&nrows);CHKERRQ(ierr); 2224 ierr = ISGetIndices(rowp,&rows);CHKERRQ(ierr); 2225 ierr = ISCreateGeneral(comm,nrows,rows,PETSC_COPY_VALUES,&crowp);CHKERRQ(ierr); 2226 ierr = ISRestoreIndices(rowp,&rows);CHKERRQ(ierr); 2227 } 2228 ierr = ISSetPermutation(crowp);CHKERRQ(ierr); 2229 /* make a local version of 'colp' */ 2230 ierr = PetscObjectGetComm((PetscObject)colp,&pcomm);CHKERRQ(ierr); 2231 ierr = MPI_Comm_size(pcomm,&size);CHKERRQ(ierr); 2232 if (size==1) { 2233 lcolp = colp; 2234 } else { 2235 ierr = ISAllGather(colp,&lcolp);CHKERRQ(ierr); 2236 } 2237 ierr = ISSetPermutation(lcolp);CHKERRQ(ierr); 2238 /* now we just get the submatrix */ 2239 ierr = MatGetLocalSize(A,NULL,&clocal_size);CHKERRQ(ierr); 2240 ierr = MatCreateSubMatrix_MPIBAIJ_Private(A,crowp,lcolp,clocal_size,MAT_INITIAL_MATRIX,B);CHKERRQ(ierr); 2241 /* clean up */ 2242 if (pcomm!=comm) { 2243 ierr = ISDestroy(&crowp);CHKERRQ(ierr); 2244 } 2245 if (size>1) { 2246 ierr = ISDestroy(&lcolp);CHKERRQ(ierr); 2247 } 2248 PetscFunctionReturn(0); 2249 } 2250 2251 PetscErrorCode MatGetGhosts_MPIBAIJ(Mat mat,PetscInt *nghosts,const PetscInt *ghosts[]) 2252 { 2253 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*) mat->data; 2254 Mat_SeqBAIJ *B = (Mat_SeqBAIJ*)baij->B->data; 2255 2256 PetscFunctionBegin; 2257 if (nghosts) *nghosts = B->nbs; 2258 if (ghosts) *ghosts = baij->garray; 2259 PetscFunctionReturn(0); 2260 } 2261 2262 PetscErrorCode MatGetSeqNonzeroStructure_MPIBAIJ(Mat A,Mat *newmat) 2263 { 2264 Mat B; 2265 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 2266 Mat_SeqBAIJ *ad = (Mat_SeqBAIJ*)a->A->data,*bd = (Mat_SeqBAIJ*)a->B->data; 2267 Mat_SeqAIJ *b; 2268 PetscErrorCode ierr; 2269 PetscMPIInt size,rank,*recvcounts = 0,*displs = 0; 2270 PetscInt sendcount,i,*rstarts = A->rmap->range,n,cnt,j,bs = A->rmap->bs; 2271 PetscInt m,*garray = a->garray,*lens,*jsendbuf,*a_jsendbuf,*b_jsendbuf; 2272 2273 PetscFunctionBegin; 2274 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)A),&size);CHKERRQ(ierr); 2275 ierr = MPI_Comm_rank(PetscObjectComm((PetscObject)A),&rank);CHKERRQ(ierr); 2276 2277 /* ---------------------------------------------------------------- 2278 Tell every processor the number of nonzeros per row 2279 */ 2280 ierr = PetscMalloc1(A->rmap->N/bs,&lens);CHKERRQ(ierr); 2281 for (i=A->rmap->rstart/bs; i<A->rmap->rend/bs; i++) { 2282 lens[i] = ad->i[i-A->rmap->rstart/bs+1] - ad->i[i-A->rmap->rstart/bs] + bd->i[i-A->rmap->rstart/bs+1] - bd->i[i-A->rmap->rstart/bs]; 2283 } 2284 ierr = PetscMalloc1(2*size,&recvcounts);CHKERRQ(ierr); 2285 displs = recvcounts + size; 2286 for (i=0; i<size; i++) { 2287 recvcounts[i] = A->rmap->range[i+1]/bs - A->rmap->range[i]/bs; 2288 displs[i] = A->rmap->range[i]/bs; 2289 } 2290 #if defined(PETSC_HAVE_MPI_IN_PLACE) 2291 ierr = MPI_Allgatherv(MPI_IN_PLACE,0,MPI_DATATYPE_NULL,lens,recvcounts,displs,MPIU_INT,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 2292 #else 2293 sendcount = A->rmap->rend/bs - A->rmap->rstart/bs; 2294 ierr = MPI_Allgatherv(lens+A->rmap->rstart/bs,sendcount,MPIU_INT,lens,recvcounts,displs,MPIU_INT,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 2295 #endif 2296 /* --------------------------------------------------------------- 2297 Create the sequential matrix of the same type as the local block diagonal 2298 */ 2299 ierr = MatCreate(PETSC_COMM_SELF,&B);CHKERRQ(ierr); 2300 ierr = MatSetSizes(B,A->rmap->N/bs,A->cmap->N/bs,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 2301 ierr = MatSetType(B,MATSEQAIJ);CHKERRQ(ierr); 2302 ierr = MatSeqAIJSetPreallocation(B,0,lens);CHKERRQ(ierr); 2303 b = (Mat_SeqAIJ*)B->data; 2304 2305 /*-------------------------------------------------------------------- 2306 Copy my part of matrix column indices over 2307 */ 2308 sendcount = ad->nz + bd->nz; 2309 jsendbuf = b->j + b->i[rstarts[rank]/bs]; 2310 a_jsendbuf = ad->j; 2311 b_jsendbuf = bd->j; 2312 n = A->rmap->rend/bs - A->rmap->rstart/bs; 2313 cnt = 0; 2314 for (i=0; i<n; i++) { 2315 2316 /* put in lower diagonal portion */ 2317 m = bd->i[i+1] - bd->i[i]; 2318 while (m > 0) { 2319 /* is it above diagonal (in bd (compressed) numbering) */ 2320 if (garray[*b_jsendbuf] > A->rmap->rstart/bs + i) break; 2321 jsendbuf[cnt++] = garray[*b_jsendbuf++]; 2322 m--; 2323 } 2324 2325 /* put in diagonal portion */ 2326 for (j=ad->i[i]; j<ad->i[i+1]; j++) { 2327 jsendbuf[cnt++] = A->rmap->rstart/bs + *a_jsendbuf++; 2328 } 2329 2330 /* put in upper diagonal portion */ 2331 while (m-- > 0) { 2332 jsendbuf[cnt++] = garray[*b_jsendbuf++]; 2333 } 2334 } 2335 if (cnt != sendcount) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Corrupted PETSc matrix: nz given %D actual nz %D",sendcount,cnt); 2336 2337 /*-------------------------------------------------------------------- 2338 Gather all column indices to all processors 2339 */ 2340 for (i=0; i<size; i++) { 2341 recvcounts[i] = 0; 2342 for (j=A->rmap->range[i]/bs; j<A->rmap->range[i+1]/bs; j++) { 2343 recvcounts[i] += lens[j]; 2344 } 2345 } 2346 displs[0] = 0; 2347 for (i=1; i<size; i++) { 2348 displs[i] = displs[i-1] + recvcounts[i-1]; 2349 } 2350 #if defined(PETSC_HAVE_MPI_IN_PLACE) 2351 ierr = MPI_Allgatherv(MPI_IN_PLACE,0,MPI_DATATYPE_NULL,b->j,recvcounts,displs,MPIU_INT,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 2352 #else 2353 ierr = MPI_Allgatherv(jsendbuf,sendcount,MPIU_INT,b->j,recvcounts,displs,MPIU_INT,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 2354 #endif 2355 /*-------------------------------------------------------------------- 2356 Assemble the matrix into useable form (note numerical values not yet set) 2357 */ 2358 /* set the b->ilen (length of each row) values */ 2359 ierr = PetscMemcpy(b->ilen,lens,(A->rmap->N/bs)*sizeof(PetscInt));CHKERRQ(ierr); 2360 /* set the b->i indices */ 2361 b->i[0] = 0; 2362 for (i=1; i<=A->rmap->N/bs; i++) { 2363 b->i[i] = b->i[i-1] + lens[i-1]; 2364 } 2365 ierr = PetscFree(lens);CHKERRQ(ierr); 2366 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2367 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2368 ierr = PetscFree(recvcounts);CHKERRQ(ierr); 2369 2370 if (A->symmetric) { 2371 ierr = MatSetOption(B,MAT_SYMMETRIC,PETSC_TRUE);CHKERRQ(ierr); 2372 } else if (A->hermitian) { 2373 ierr = MatSetOption(B,MAT_HERMITIAN,PETSC_TRUE);CHKERRQ(ierr); 2374 } else if (A->structurally_symmetric) { 2375 ierr = MatSetOption(B,MAT_STRUCTURALLY_SYMMETRIC,PETSC_TRUE);CHKERRQ(ierr); 2376 } 2377 *newmat = B; 2378 PetscFunctionReturn(0); 2379 } 2380 2381 PetscErrorCode MatSOR_MPIBAIJ(Mat matin,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,PetscInt its,PetscInt lits,Vec xx) 2382 { 2383 Mat_MPIBAIJ *mat = (Mat_MPIBAIJ*)matin->data; 2384 PetscErrorCode ierr; 2385 Vec bb1 = 0; 2386 2387 PetscFunctionBegin; 2388 if (flag == SOR_APPLY_UPPER) { 2389 ierr = (*mat->A->ops->sor)(mat->A,bb,omega,flag,fshift,lits,1,xx);CHKERRQ(ierr); 2390 PetscFunctionReturn(0); 2391 } 2392 2393 if (its > 1 || ~flag & SOR_ZERO_INITIAL_GUESS) { 2394 ierr = VecDuplicate(bb,&bb1);CHKERRQ(ierr); 2395 } 2396 2397 if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP) { 2398 if (flag & SOR_ZERO_INITIAL_GUESS) { 2399 ierr = (*mat->A->ops->sor)(mat->A,bb,omega,flag,fshift,lits,1,xx);CHKERRQ(ierr); 2400 its--; 2401 } 2402 2403 while (its--) { 2404 ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2405 ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2406 2407 /* update rhs: bb1 = bb - B*x */ 2408 ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 2409 ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 2410 2411 /* local sweep */ 2412 ierr = (*mat->A->ops->sor)(mat->A,bb1,omega,SOR_SYMMETRIC_SWEEP,fshift,lits,1,xx);CHKERRQ(ierr); 2413 } 2414 } else if (flag & SOR_LOCAL_FORWARD_SWEEP) { 2415 if (flag & SOR_ZERO_INITIAL_GUESS) { 2416 ierr = (*mat->A->ops->sor)(mat->A,bb,omega,flag,fshift,lits,1,xx);CHKERRQ(ierr); 2417 its--; 2418 } 2419 while (its--) { 2420 ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2421 ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2422 2423 /* update rhs: bb1 = bb - B*x */ 2424 ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 2425 ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 2426 2427 /* local sweep */ 2428 ierr = (*mat->A->ops->sor)(mat->A,bb1,omega,SOR_FORWARD_SWEEP,fshift,lits,1,xx);CHKERRQ(ierr); 2429 } 2430 } else if (flag & SOR_LOCAL_BACKWARD_SWEEP) { 2431 if (flag & SOR_ZERO_INITIAL_GUESS) { 2432 ierr = (*mat->A->ops->sor)(mat->A,bb,omega,flag,fshift,lits,1,xx);CHKERRQ(ierr); 2433 its--; 2434 } 2435 while (its--) { 2436 ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2437 ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2438 2439 /* update rhs: bb1 = bb - B*x */ 2440 ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 2441 ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 2442 2443 /* local sweep */ 2444 ierr = (*mat->A->ops->sor)(mat->A,bb1,omega,SOR_BACKWARD_SWEEP,fshift,lits,1,xx);CHKERRQ(ierr); 2445 } 2446 } else SETERRQ(PetscObjectComm((PetscObject)matin),PETSC_ERR_SUP,"Parallel version of SOR requested not supported"); 2447 2448 ierr = VecDestroy(&bb1);CHKERRQ(ierr); 2449 PetscFunctionReturn(0); 2450 } 2451 2452 PetscErrorCode MatGetColumnNorms_MPIBAIJ(Mat A,NormType type,PetscReal *norms) 2453 { 2454 PetscErrorCode ierr; 2455 Mat_MPIBAIJ *aij = (Mat_MPIBAIJ*)A->data; 2456 PetscInt N,i,*garray = aij->garray; 2457 PetscInt ib,jb,bs = A->rmap->bs; 2458 Mat_SeqBAIJ *a_aij = (Mat_SeqBAIJ*) aij->A->data; 2459 MatScalar *a_val = a_aij->a; 2460 Mat_SeqBAIJ *b_aij = (Mat_SeqBAIJ*) aij->B->data; 2461 MatScalar *b_val = b_aij->a; 2462 PetscReal *work; 2463 2464 PetscFunctionBegin; 2465 ierr = MatGetSize(A,NULL,&N);CHKERRQ(ierr); 2466 ierr = PetscCalloc1(N,&work);CHKERRQ(ierr); 2467 if (type == NORM_2) { 2468 for (i=a_aij->i[0]; i<a_aij->i[aij->A->rmap->n/bs]; i++) { 2469 for (jb=0; jb<bs; jb++) { 2470 for (ib=0; ib<bs; ib++) { 2471 work[A->cmap->rstart + a_aij->j[i] * bs + jb] += PetscAbsScalar(*a_val * *a_val); 2472 a_val++; 2473 } 2474 } 2475 } 2476 for (i=b_aij->i[0]; i<b_aij->i[aij->B->rmap->n/bs]; i++) { 2477 for (jb=0; jb<bs; jb++) { 2478 for (ib=0; ib<bs; ib++) { 2479 work[garray[b_aij->j[i]] * bs + jb] += PetscAbsScalar(*b_val * *b_val); 2480 b_val++; 2481 } 2482 } 2483 } 2484 } else if (type == NORM_1) { 2485 for (i=a_aij->i[0]; i<a_aij->i[aij->A->rmap->n/bs]; i++) { 2486 for (jb=0; jb<bs; jb++) { 2487 for (ib=0; ib<bs; ib++) { 2488 work[A->cmap->rstart + a_aij->j[i] * bs + jb] += PetscAbsScalar(*a_val); 2489 a_val++; 2490 } 2491 } 2492 } 2493 for (i=b_aij->i[0]; i<b_aij->i[aij->B->rmap->n/bs]; i++) { 2494 for (jb=0; jb<bs; jb++) { 2495 for (ib=0; ib<bs; ib++) { 2496 work[garray[b_aij->j[i]] * bs + jb] += PetscAbsScalar(*b_val); 2497 b_val++; 2498 } 2499 } 2500 } 2501 } else if (type == NORM_INFINITY) { 2502 for (i=a_aij->i[0]; i<a_aij->i[aij->A->rmap->n/bs]; i++) { 2503 for (jb=0; jb<bs; jb++) { 2504 for (ib=0; ib<bs; ib++) { 2505 int col = A->cmap->rstart + a_aij->j[i] * bs + jb; 2506 work[col] = PetscMax(PetscAbsScalar(*a_val), work[col]); 2507 a_val++; 2508 } 2509 } 2510 } 2511 for (i=b_aij->i[0]; i<b_aij->i[aij->B->rmap->n/bs]; i++) { 2512 for (jb=0; jb<bs; jb++) { 2513 for (ib=0; ib<bs; ib++) { 2514 int col = garray[b_aij->j[i]] * bs + jb; 2515 work[col] = PetscMax(PetscAbsScalar(*b_val), work[col]); 2516 b_val++; 2517 } 2518 } 2519 } 2520 } else SETERRQ(PetscObjectComm((PetscObject)A),PETSC_ERR_ARG_WRONG,"Unknown NormType"); 2521 if (type == NORM_INFINITY) { 2522 ierr = MPIU_Allreduce(work,norms,N,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 2523 } else { 2524 ierr = MPIU_Allreduce(work,norms,N,MPIU_REAL,MPIU_SUM,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 2525 } 2526 ierr = PetscFree(work);CHKERRQ(ierr); 2527 if (type == NORM_2) { 2528 for (i=0; i<N; i++) norms[i] = PetscSqrtReal(norms[i]); 2529 } 2530 PetscFunctionReturn(0); 2531 } 2532 2533 PetscErrorCode MatInvertBlockDiagonal_MPIBAIJ(Mat A,const PetscScalar **values) 2534 { 2535 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*) A->data; 2536 PetscErrorCode ierr; 2537 2538 PetscFunctionBegin; 2539 ierr = MatInvertBlockDiagonal(a->A,values);CHKERRQ(ierr); 2540 A->factorerrortype = a->A->factorerrortype; 2541 A->factorerror_zeropivot_value = a->A->factorerror_zeropivot_value; 2542 A->factorerror_zeropivot_row = a->A->factorerror_zeropivot_row; 2543 PetscFunctionReturn(0); 2544 } 2545 2546 PetscErrorCode MatShift_MPIBAIJ(Mat Y,PetscScalar a) 2547 { 2548 PetscErrorCode ierr; 2549 Mat_MPIBAIJ *maij = (Mat_MPIBAIJ*)Y->data; 2550 Mat_SeqBAIJ *aij = (Mat_SeqBAIJ*)maij->A->data; 2551 2552 PetscFunctionBegin; 2553 if (!Y->preallocated) { 2554 ierr = MatMPIBAIJSetPreallocation(Y,Y->rmap->bs,1,NULL,0,NULL);CHKERRQ(ierr); 2555 } else if (!aij->nz) { 2556 PetscInt nonew = aij->nonew; 2557 ierr = MatSeqBAIJSetPreallocation(maij->A,Y->rmap->bs,1,NULL);CHKERRQ(ierr); 2558 aij->nonew = nonew; 2559 } 2560 ierr = MatShift_Basic(Y,a);CHKERRQ(ierr); 2561 PetscFunctionReturn(0); 2562 } 2563 2564 PetscErrorCode MatMissingDiagonal_MPIBAIJ(Mat A,PetscBool *missing,PetscInt *d) 2565 { 2566 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 2567 PetscErrorCode ierr; 2568 2569 PetscFunctionBegin; 2570 if (A->rmap->n != A->cmap->n) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Only works for square matrices"); 2571 ierr = MatMissingDiagonal(a->A,missing,d);CHKERRQ(ierr); 2572 if (d) { 2573 PetscInt rstart; 2574 ierr = MatGetOwnershipRange(A,&rstart,NULL);CHKERRQ(ierr); 2575 *d += rstart/A->rmap->bs; 2576 2577 } 2578 PetscFunctionReturn(0); 2579 } 2580 2581 PetscErrorCode MatGetDiagonalBlock_MPIBAIJ(Mat A,Mat *a) 2582 { 2583 PetscFunctionBegin; 2584 *a = ((Mat_MPIBAIJ*)A->data)->A; 2585 PetscFunctionReturn(0); 2586 } 2587 2588 /* -------------------------------------------------------------------*/ 2589 static struct _MatOps MatOps_Values = {MatSetValues_MPIBAIJ, 2590 MatGetRow_MPIBAIJ, 2591 MatRestoreRow_MPIBAIJ, 2592 MatMult_MPIBAIJ, 2593 /* 4*/ MatMultAdd_MPIBAIJ, 2594 MatMultTranspose_MPIBAIJ, 2595 MatMultTransposeAdd_MPIBAIJ, 2596 0, 2597 0, 2598 0, 2599 /*10*/ 0, 2600 0, 2601 0, 2602 MatSOR_MPIBAIJ, 2603 MatTranspose_MPIBAIJ, 2604 /*15*/ MatGetInfo_MPIBAIJ, 2605 MatEqual_MPIBAIJ, 2606 MatGetDiagonal_MPIBAIJ, 2607 MatDiagonalScale_MPIBAIJ, 2608 MatNorm_MPIBAIJ, 2609 /*20*/ MatAssemblyBegin_MPIBAIJ, 2610 MatAssemblyEnd_MPIBAIJ, 2611 MatSetOption_MPIBAIJ, 2612 MatZeroEntries_MPIBAIJ, 2613 /*24*/ MatZeroRows_MPIBAIJ, 2614 0, 2615 0, 2616 0, 2617 0, 2618 /*29*/ MatSetUp_MPIBAIJ, 2619 0, 2620 0, 2621 MatGetDiagonalBlock_MPIBAIJ, 2622 0, 2623 /*34*/ MatDuplicate_MPIBAIJ, 2624 0, 2625 0, 2626 0, 2627 0, 2628 /*39*/ MatAXPY_MPIBAIJ, 2629 MatCreateSubMatrices_MPIBAIJ, 2630 MatIncreaseOverlap_MPIBAIJ, 2631 MatGetValues_MPIBAIJ, 2632 MatCopy_MPIBAIJ, 2633 /*44*/ 0, 2634 MatScale_MPIBAIJ, 2635 MatShift_MPIBAIJ, 2636 0, 2637 MatZeroRowsColumns_MPIBAIJ, 2638 /*49*/ 0, 2639 0, 2640 0, 2641 0, 2642 0, 2643 /*54*/ MatFDColoringCreate_MPIXAIJ, 2644 0, 2645 MatSetUnfactored_MPIBAIJ, 2646 MatPermute_MPIBAIJ, 2647 MatSetValuesBlocked_MPIBAIJ, 2648 /*59*/ MatCreateSubMatrix_MPIBAIJ, 2649 MatDestroy_MPIBAIJ, 2650 MatView_MPIBAIJ, 2651 0, 2652 0, 2653 /*64*/ 0, 2654 0, 2655 0, 2656 0, 2657 0, 2658 /*69*/ MatGetRowMaxAbs_MPIBAIJ, 2659 0, 2660 0, 2661 0, 2662 0, 2663 /*74*/ 0, 2664 MatFDColoringApply_BAIJ, 2665 0, 2666 0, 2667 0, 2668 /*79*/ 0, 2669 0, 2670 0, 2671 0, 2672 MatLoad_MPIBAIJ, 2673 /*84*/ 0, 2674 0, 2675 0, 2676 0, 2677 0, 2678 /*89*/ 0, 2679 0, 2680 0, 2681 0, 2682 0, 2683 /*94*/ 0, 2684 0, 2685 0, 2686 0, 2687 0, 2688 /*99*/ 0, 2689 0, 2690 0, 2691 0, 2692 0, 2693 /*104*/0, 2694 MatRealPart_MPIBAIJ, 2695 MatImaginaryPart_MPIBAIJ, 2696 0, 2697 0, 2698 /*109*/0, 2699 0, 2700 0, 2701 0, 2702 MatMissingDiagonal_MPIBAIJ, 2703 /*114*/MatGetSeqNonzeroStructure_MPIBAIJ, 2704 0, 2705 MatGetGhosts_MPIBAIJ, 2706 0, 2707 0, 2708 /*119*/0, 2709 0, 2710 0, 2711 0, 2712 MatGetMultiProcBlock_MPIBAIJ, 2713 /*124*/0, 2714 MatGetColumnNorms_MPIBAIJ, 2715 MatInvertBlockDiagonal_MPIBAIJ, 2716 0, 2717 0, 2718 /*129*/ 0, 2719 0, 2720 0, 2721 0, 2722 0, 2723 /*134*/ 0, 2724 0, 2725 0, 2726 0, 2727 0, 2728 /*139*/ MatSetBlockSizes_Default, 2729 0, 2730 0, 2731 MatFDColoringSetUp_MPIXAIJ, 2732 0, 2733 /*144*/MatCreateMPIMatConcatenateSeqMat_MPIBAIJ 2734 }; 2735 2736 2737 PETSC_INTERN PetscErrorCode MatConvert_MPIBAIJ_MPISBAIJ(Mat, MatType,MatReuse,Mat*); 2738 2739 PetscErrorCode MatMPIBAIJSetPreallocationCSR_MPIBAIJ(Mat B,PetscInt bs,const PetscInt ii[],const PetscInt jj[],const PetscScalar V[]) 2740 { 2741 PetscInt m,rstart,cstart,cend; 2742 PetscInt i,j,dlen,olen,nz,nz_max=0,*d_nnz=0,*o_nnz=0; 2743 const PetscInt *JJ =0; 2744 PetscScalar *values=0; 2745 PetscBool roworiented = ((Mat_MPIBAIJ*)B->data)->roworiented; 2746 PetscErrorCode ierr; 2747 2748 PetscFunctionBegin; 2749 ierr = PetscLayoutSetBlockSize(B->rmap,bs);CHKERRQ(ierr); 2750 ierr = PetscLayoutSetBlockSize(B->cmap,bs);CHKERRQ(ierr); 2751 ierr = PetscLayoutSetUp(B->rmap);CHKERRQ(ierr); 2752 ierr = PetscLayoutSetUp(B->cmap);CHKERRQ(ierr); 2753 ierr = PetscLayoutGetBlockSize(B->rmap,&bs);CHKERRQ(ierr); 2754 m = B->rmap->n/bs; 2755 rstart = B->rmap->rstart/bs; 2756 cstart = B->cmap->rstart/bs; 2757 cend = B->cmap->rend/bs; 2758 2759 if (ii[0]) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"ii[0] must be 0 but it is %D",ii[0]); 2760 ierr = PetscMalloc2(m,&d_nnz,m,&o_nnz);CHKERRQ(ierr); 2761 for (i=0; i<m; i++) { 2762 nz = ii[i+1] - ii[i]; 2763 if (nz < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Local row %D has a negative number of columns %D",i,nz); 2764 nz_max = PetscMax(nz_max,nz); 2765 dlen = 0; 2766 olen = 0; 2767 JJ = jj + ii[i]; 2768 for (j=0; j<nz; j++) { 2769 if (*JJ < cstart || *JJ >= cend) olen++; 2770 else dlen++; 2771 JJ++; 2772 } 2773 d_nnz[i] = dlen; 2774 o_nnz[i] = olen; 2775 } 2776 ierr = MatMPIBAIJSetPreallocation(B,bs,0,d_nnz,0,o_nnz);CHKERRQ(ierr); 2777 ierr = PetscFree2(d_nnz,o_nnz);CHKERRQ(ierr); 2778 2779 values = (PetscScalar*)V; 2780 if (!values) { 2781 ierr = PetscCalloc1(bs*bs*nz_max,&values);CHKERRQ(ierr); 2782 } 2783 for (i=0; i<m; i++) { 2784 PetscInt row = i + rstart; 2785 PetscInt ncols = ii[i+1] - ii[i]; 2786 const PetscInt *icols = jj + ii[i]; 2787 if (!roworiented) { /* block ordering matches the non-nested layout of MatSetValues so we can insert entire rows */ 2788 const PetscScalar *svals = values + (V ? (bs*bs*ii[i]) : 0); 2789 ierr = MatSetValuesBlocked_MPIBAIJ(B,1,&row,ncols,icols,svals,INSERT_VALUES);CHKERRQ(ierr); 2790 } else { /* block ordering does not match so we can only insert one block at a time. */ 2791 PetscInt j; 2792 for (j=0; j<ncols; j++) { 2793 const PetscScalar *svals = values + (V ? (bs*bs*(ii[i]+j)) : 0); 2794 ierr = MatSetValuesBlocked_MPIBAIJ(B,1,&row,1,&icols[j],svals,INSERT_VALUES);CHKERRQ(ierr); 2795 } 2796 } 2797 } 2798 2799 if (!V) { ierr = PetscFree(values);CHKERRQ(ierr); } 2800 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2801 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2802 ierr = MatSetOption(B,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr); 2803 PetscFunctionReturn(0); 2804 } 2805 2806 /*@C 2807 MatMPIBAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in BAIJ format 2808 (the default parallel PETSc format). 2809 2810 Collective on MPI_Comm 2811 2812 Input Parameters: 2813 + B - the matrix 2814 . bs - the block size 2815 . i - the indices into j for the start of each local row (starts with zero) 2816 . j - the column indices for each local row (starts with zero) these must be sorted for each row 2817 - v - optional values in the matrix 2818 2819 Level: developer 2820 2821 Notes: 2822 The order of the entries in values is specified by the MatOption MAT_ROW_ORIENTED. For example, C programs 2823 may want to use the default MAT_ROW_ORIENTED=PETSC_TRUE and use an array v[nnz][bs][bs] where the second index is 2824 over rows within a block and the last index is over columns within a block row. Fortran programs will likely set 2825 MAT_ROW_ORIENTED=PETSC_FALSE and use a Fortran array v(bs,bs,nnz) in which the first index is over rows within a 2826 block column and the second index is over columns within a block. 2827 2828 .keywords: matrix, aij, compressed row, sparse, parallel 2829 2830 .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIBAIJSetPreallocation(), MatCreateAIJ(), MPIAIJ, MatCreateMPIBAIJWithArrays(), MPIBAIJ 2831 @*/ 2832 PetscErrorCode MatMPIBAIJSetPreallocationCSR(Mat B,PetscInt bs,const PetscInt i[],const PetscInt j[], const PetscScalar v[]) 2833 { 2834 PetscErrorCode ierr; 2835 2836 PetscFunctionBegin; 2837 PetscValidHeaderSpecific(B,MAT_CLASSID,1); 2838 PetscValidType(B,1); 2839 PetscValidLogicalCollectiveInt(B,bs,2); 2840 ierr = PetscTryMethod(B,"MatMPIBAIJSetPreallocationCSR_C",(Mat,PetscInt,const PetscInt[],const PetscInt[],const PetscScalar[]),(B,bs,i,j,v));CHKERRQ(ierr); 2841 PetscFunctionReturn(0); 2842 } 2843 2844 PetscErrorCode MatMPIBAIJSetPreallocation_MPIBAIJ(Mat B,PetscInt bs,PetscInt d_nz,const PetscInt *d_nnz,PetscInt o_nz,const PetscInt *o_nnz) 2845 { 2846 Mat_MPIBAIJ *b; 2847 PetscErrorCode ierr; 2848 PetscInt i; 2849 2850 PetscFunctionBegin; 2851 ierr = MatSetBlockSize(B,PetscAbs(bs));CHKERRQ(ierr); 2852 ierr = PetscLayoutSetUp(B->rmap);CHKERRQ(ierr); 2853 ierr = PetscLayoutSetUp(B->cmap);CHKERRQ(ierr); 2854 ierr = PetscLayoutGetBlockSize(B->rmap,&bs);CHKERRQ(ierr); 2855 2856 if (d_nnz) { 2857 for (i=0; i<B->rmap->n/bs; i++) { 2858 if (d_nnz[i] < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"d_nnz cannot be less than -1: local row %D value %D",i,d_nnz[i]); 2859 } 2860 } 2861 if (o_nnz) { 2862 for (i=0; i<B->rmap->n/bs; i++) { 2863 if (o_nnz[i] < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"o_nnz cannot be less than -1: local row %D value %D",i,o_nnz[i]); 2864 } 2865 } 2866 2867 b = (Mat_MPIBAIJ*)B->data; 2868 b->bs2 = bs*bs; 2869 b->mbs = B->rmap->n/bs; 2870 b->nbs = B->cmap->n/bs; 2871 b->Mbs = B->rmap->N/bs; 2872 b->Nbs = B->cmap->N/bs; 2873 2874 for (i=0; i<=b->size; i++) { 2875 b->rangebs[i] = B->rmap->range[i]/bs; 2876 } 2877 b->rstartbs = B->rmap->rstart/bs; 2878 b->rendbs = B->rmap->rend/bs; 2879 b->cstartbs = B->cmap->rstart/bs; 2880 b->cendbs = B->cmap->rend/bs; 2881 2882 #if defined(PETSC_USE_CTABLE) 2883 ierr = PetscTableDestroy(&b->colmap);CHKERRQ(ierr); 2884 #else 2885 ierr = PetscFree(b->colmap);CHKERRQ(ierr); 2886 #endif 2887 ierr = PetscFree(b->garray);CHKERRQ(ierr); 2888 ierr = VecDestroy(&b->lvec);CHKERRQ(ierr); 2889 ierr = VecScatterDestroy(&b->Mvctx);CHKERRQ(ierr); 2890 2891 /* Because the B will have been resized we simply destroy it and create a new one each time */ 2892 ierr = MatDestroy(&b->B);CHKERRQ(ierr); 2893 ierr = MatCreate(PETSC_COMM_SELF,&b->B);CHKERRQ(ierr); 2894 ierr = MatSetSizes(b->B,B->rmap->n,B->cmap->N,B->rmap->n,B->cmap->N);CHKERRQ(ierr); 2895 ierr = MatSetType(b->B,MATSEQBAIJ);CHKERRQ(ierr); 2896 ierr = PetscLogObjectParent((PetscObject)B,(PetscObject)b->B);CHKERRQ(ierr); 2897 2898 if (!B->preallocated) { 2899 ierr = MatCreate(PETSC_COMM_SELF,&b->A);CHKERRQ(ierr); 2900 ierr = MatSetSizes(b->A,B->rmap->n,B->cmap->n,B->rmap->n,B->cmap->n);CHKERRQ(ierr); 2901 ierr = MatSetType(b->A,MATSEQBAIJ);CHKERRQ(ierr); 2902 ierr = PetscLogObjectParent((PetscObject)B,(PetscObject)b->A);CHKERRQ(ierr); 2903 ierr = MatStashCreate_Private(PetscObjectComm((PetscObject)B),bs,&B->bstash);CHKERRQ(ierr); 2904 } 2905 2906 ierr = MatSeqBAIJSetPreallocation(b->A,bs,d_nz,d_nnz);CHKERRQ(ierr); 2907 ierr = MatSeqBAIJSetPreallocation(b->B,bs,o_nz,o_nnz);CHKERRQ(ierr); 2908 B->preallocated = PETSC_TRUE; 2909 B->was_assembled = PETSC_FALSE; 2910 B->assembled = PETSC_FALSE; 2911 PetscFunctionReturn(0); 2912 } 2913 2914 extern PetscErrorCode MatDiagonalScaleLocal_MPIBAIJ(Mat,Vec); 2915 extern PetscErrorCode MatSetHashTableFactor_MPIBAIJ(Mat,PetscReal); 2916 2917 PETSC_INTERN PetscErrorCode MatConvert_MPIBAIJ_MPIAdj(Mat B, MatType newtype,MatReuse reuse,Mat *adj) 2918 { 2919 Mat_MPIBAIJ *b = (Mat_MPIBAIJ*)B->data; 2920 PetscErrorCode ierr; 2921 Mat_SeqBAIJ *d = (Mat_SeqBAIJ*) b->A->data,*o = (Mat_SeqBAIJ*) b->B->data; 2922 PetscInt M = B->rmap->n/B->rmap->bs,i,*ii,*jj,cnt,j,k,rstart = B->rmap->rstart/B->rmap->bs; 2923 const PetscInt *id = d->i, *jd = d->j, *io = o->i, *jo = o->j, *garray = b->garray; 2924 2925 PetscFunctionBegin; 2926 ierr = PetscMalloc1(M+1,&ii);CHKERRQ(ierr); 2927 ii[0] = 0; 2928 for (i=0; i<M; i++) { 2929 if ((id[i+1] - id[i]) < 0) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Indices wrong %D %D %D",i,id[i],id[i+1]); 2930 if ((io[i+1] - io[i]) < 0) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Indices wrong %D %D %D",i,io[i],io[i+1]); 2931 ii[i+1] = ii[i] + id[i+1] - id[i] + io[i+1] - io[i]; 2932 /* remove one from count of matrix has diagonal */ 2933 for (j=id[i]; j<id[i+1]; j++) { 2934 if (jd[j] == i) {ii[i+1]--;break;} 2935 } 2936 } 2937 ierr = PetscMalloc1(ii[M],&jj);CHKERRQ(ierr); 2938 cnt = 0; 2939 for (i=0; i<M; i++) { 2940 for (j=io[i]; j<io[i+1]; j++) { 2941 if (garray[jo[j]] > rstart) break; 2942 jj[cnt++] = garray[jo[j]]; 2943 } 2944 for (k=id[i]; k<id[i+1]; k++) { 2945 if (jd[k] != i) { 2946 jj[cnt++] = rstart + jd[k]; 2947 } 2948 } 2949 for (; j<io[i+1]; j++) { 2950 jj[cnt++] = garray[jo[j]]; 2951 } 2952 } 2953 ierr = MatCreateMPIAdj(PetscObjectComm((PetscObject)B),M,B->cmap->N/B->rmap->bs,ii,jj,NULL,adj);CHKERRQ(ierr); 2954 PetscFunctionReturn(0); 2955 } 2956 2957 #include <../src/mat/impls/aij/mpi/mpiaij.h> 2958 2959 PETSC_INTERN PetscErrorCode MatConvert_SeqBAIJ_SeqAIJ(Mat,MatType,MatReuse,Mat*); 2960 2961 PETSC_INTERN PetscErrorCode MatConvert_MPIBAIJ_MPIAIJ(Mat A,MatType newtype,MatReuse reuse,Mat *newmat) 2962 { 2963 PetscErrorCode ierr; 2964 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 2965 Mat B; 2966 Mat_MPIAIJ *b; 2967 2968 PetscFunctionBegin; 2969 if (!A->assembled) SETERRQ(PetscObjectComm((PetscObject)A),PETSC_ERR_SUP,"Matrix must be assembled"); 2970 2971 if (reuse == MAT_REUSE_MATRIX) { 2972 B = *newmat; 2973 } else { 2974 ierr = MatCreate(PetscObjectComm((PetscObject)A),&B);CHKERRQ(ierr); 2975 ierr = MatSetType(B,MATMPIAIJ);CHKERRQ(ierr); 2976 ierr = MatSetSizes(B,A->rmap->n,A->cmap->n,A->rmap->N,A->cmap->N);CHKERRQ(ierr); 2977 ierr = MatSetBlockSizes(B,A->rmap->bs,A->cmap->bs);CHKERRQ(ierr); 2978 ierr = MatSeqAIJSetPreallocation(B,0,NULL);CHKERRQ(ierr); 2979 ierr = MatMPIAIJSetPreallocation(B,0,NULL,0,NULL);CHKERRQ(ierr); 2980 } 2981 b = (Mat_MPIAIJ*) B->data; 2982 2983 if (reuse == MAT_REUSE_MATRIX) { 2984 ierr = MatConvert_SeqBAIJ_SeqAIJ(a->A, MATSEQAIJ, MAT_REUSE_MATRIX, &b->A);CHKERRQ(ierr); 2985 ierr = MatConvert_SeqBAIJ_SeqAIJ(a->B, MATSEQAIJ, MAT_REUSE_MATRIX, &b->B);CHKERRQ(ierr); 2986 } else { 2987 ierr = MatDestroy(&b->A);CHKERRQ(ierr); 2988 ierr = MatDestroy(&b->B);CHKERRQ(ierr); 2989 ierr = MatDisAssemble_MPIBAIJ(A);CHKERRQ(ierr); 2990 ierr = MatConvert_SeqBAIJ_SeqAIJ(a->A, MATSEQAIJ, MAT_INITIAL_MATRIX, &b->A);CHKERRQ(ierr); 2991 ierr = MatConvert_SeqBAIJ_SeqAIJ(a->B, MATSEQAIJ, MAT_INITIAL_MATRIX, &b->B);CHKERRQ(ierr); 2992 ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2993 ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2994 } 2995 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2996 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2997 2998 if (reuse == MAT_INPLACE_MATRIX) { 2999 ierr = MatHeaderReplace(A,&B);CHKERRQ(ierr); 3000 } else { 3001 *newmat = B; 3002 } 3003 PetscFunctionReturn(0); 3004 } 3005 3006 /*MC 3007 MATMPIBAIJ - MATMPIBAIJ = "mpibaij" - A matrix type to be used for distributed block sparse matrices. 3008 3009 Options Database Keys: 3010 + -mat_type mpibaij - sets the matrix type to "mpibaij" during a call to MatSetFromOptions() 3011 . -mat_block_size <bs> - set the blocksize used to store the matrix 3012 - -mat_use_hash_table <fact> 3013 3014 Level: beginner 3015 3016 .seealso: MatCreateMPIBAIJ 3017 M*/ 3018 3019 PETSC_INTERN PetscErrorCode MatConvert_MPIBAIJ_MPIBSTRM(Mat,MatType,MatReuse,Mat*); 3020 3021 PETSC_EXTERN PetscErrorCode MatCreate_MPIBAIJ(Mat B) 3022 { 3023 Mat_MPIBAIJ *b; 3024 PetscErrorCode ierr; 3025 PetscBool flg = PETSC_FALSE; 3026 3027 PetscFunctionBegin; 3028 ierr = PetscNewLog(B,&b);CHKERRQ(ierr); 3029 B->data = (void*)b; 3030 3031 ierr = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr); 3032 B->assembled = PETSC_FALSE; 3033 3034 B->insertmode = NOT_SET_VALUES; 3035 ierr = MPI_Comm_rank(PetscObjectComm((PetscObject)B),&b->rank);CHKERRQ(ierr); 3036 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)B),&b->size);CHKERRQ(ierr); 3037 3038 /* build local table of row and column ownerships */ 3039 ierr = PetscMalloc1(b->size+1,&b->rangebs);CHKERRQ(ierr); 3040 3041 /* build cache for off array entries formed */ 3042 ierr = MatStashCreate_Private(PetscObjectComm((PetscObject)B),1,&B->stash);CHKERRQ(ierr); 3043 3044 b->donotstash = PETSC_FALSE; 3045 b->colmap = NULL; 3046 b->garray = NULL; 3047 b->roworiented = PETSC_TRUE; 3048 3049 /* stuff used in block assembly */ 3050 b->barray = 0; 3051 3052 /* stuff used for matrix vector multiply */ 3053 b->lvec = 0; 3054 b->Mvctx = 0; 3055 3056 /* stuff for MatGetRow() */ 3057 b->rowindices = 0; 3058 b->rowvalues = 0; 3059 b->getrowactive = PETSC_FALSE; 3060 3061 /* hash table stuff */ 3062 b->ht = 0; 3063 b->hd = 0; 3064 b->ht_size = 0; 3065 b->ht_flag = PETSC_FALSE; 3066 b->ht_fact = 0; 3067 b->ht_total_ct = 0; 3068 b->ht_insert_ct = 0; 3069 3070 /* stuff for MatCreateSubMatrices_MPIBAIJ_local() */ 3071 b->ijonly = PETSC_FALSE; 3072 3073 3074 ierr = PetscObjectComposeFunction((PetscObject)B,"MatConvert_mpibaij_mpiadj_C",MatConvert_MPIBAIJ_MPIAdj);CHKERRQ(ierr); 3075 ierr = PetscObjectComposeFunction((PetscObject)B,"MatConvert_mpibaij_mpiaij_C",MatConvert_MPIBAIJ_MPIAIJ);CHKERRQ(ierr); 3076 ierr = PetscObjectComposeFunction((PetscObject)B,"MatConvert_mpibaij_mpisbaij_C",MatConvert_MPIBAIJ_MPISBAIJ);CHKERRQ(ierr); 3077 #if defined(PETSC_HAVE_HYPRE) 3078 ierr = PetscObjectComposeFunction((PetscObject)B,"MatConvert_mpibaij_hypre_C",MatConvert_AIJ_HYPRE);CHKERRQ(ierr); 3079 #endif 3080 ierr = PetscObjectComposeFunction((PetscObject)B,"MatStoreValues_C",MatStoreValues_MPIBAIJ);CHKERRQ(ierr); 3081 ierr = PetscObjectComposeFunction((PetscObject)B,"MatRetrieveValues_C",MatRetrieveValues_MPIBAIJ);CHKERRQ(ierr); 3082 ierr = PetscObjectComposeFunction((PetscObject)B,"MatMPIBAIJSetPreallocation_C",MatMPIBAIJSetPreallocation_MPIBAIJ);CHKERRQ(ierr); 3083 ierr = PetscObjectComposeFunction((PetscObject)B,"MatMPIBAIJSetPreallocationCSR_C",MatMPIBAIJSetPreallocationCSR_MPIBAIJ);CHKERRQ(ierr); 3084 ierr = PetscObjectComposeFunction((PetscObject)B,"MatDiagonalScaleLocal_C",MatDiagonalScaleLocal_MPIBAIJ);CHKERRQ(ierr); 3085 ierr = PetscObjectComposeFunction((PetscObject)B,"MatSetHashTableFactor_C",MatSetHashTableFactor_MPIBAIJ);CHKERRQ(ierr); 3086 ierr = PetscObjectChangeTypeName((PetscObject)B,MATMPIBAIJ);CHKERRQ(ierr); 3087 3088 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)B),NULL,"Options for loading MPIBAIJ matrix 1","Mat");CHKERRQ(ierr); 3089 ierr = PetscOptionsName("-mat_use_hash_table","Use hash table to save time in constructing matrix","MatSetOption",&flg);CHKERRQ(ierr); 3090 if (flg) { 3091 PetscReal fact = 1.39; 3092 ierr = MatSetOption(B,MAT_USE_HASH_TABLE,PETSC_TRUE);CHKERRQ(ierr); 3093 ierr = PetscOptionsReal("-mat_use_hash_table","Use hash table factor","MatMPIBAIJSetHashTableFactor",fact,&fact,NULL);CHKERRQ(ierr); 3094 if (fact <= 1.0) fact = 1.39; 3095 ierr = MatMPIBAIJSetHashTableFactor(B,fact);CHKERRQ(ierr); 3096 ierr = PetscInfo1(B,"Hash table Factor used %5.2f\n",fact);CHKERRQ(ierr); 3097 } 3098 ierr = PetscOptionsEnd();CHKERRQ(ierr); 3099 PetscFunctionReturn(0); 3100 } 3101 3102 /*MC 3103 MATBAIJ - MATBAIJ = "baij" - A matrix type to be used for block sparse matrices. 3104 3105 This matrix type is identical to MATSEQBAIJ when constructed with a single process communicator, 3106 and MATMPIBAIJ otherwise. 3107 3108 Options Database Keys: 3109 . -mat_type baij - sets the matrix type to "baij" during a call to MatSetFromOptions() 3110 3111 Level: beginner 3112 3113 .seealso: MatCreateBAIJ(),MATSEQBAIJ,MATMPIBAIJ, MatMPIBAIJSetPreallocation(), MatMPIBAIJSetPreallocationCSR() 3114 M*/ 3115 3116 /*@C 3117 MatMPIBAIJSetPreallocation - Allocates memory for a sparse parallel matrix in block AIJ format 3118 (block compressed row). For good matrix assembly performance 3119 the user should preallocate the matrix storage by setting the parameters 3120 d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 3121 performance can be increased by more than a factor of 50. 3122 3123 Collective on Mat 3124 3125 Input Parameters: 3126 + B - the matrix 3127 . bs - size of block, the blocks are ALWAYS square. One can use MatSetBlockSizes() to set a different row and column blocksize but the row 3128 blocksize always defines the size of the blocks. The column blocksize sets the blocksize of the vectors obtained with MatCreateVecs() 3129 . d_nz - number of block nonzeros per block row in diagonal portion of local 3130 submatrix (same for all local rows) 3131 . d_nnz - array containing the number of block nonzeros in the various block rows 3132 of the in diagonal portion of the local (possibly different for each block 3133 row) or NULL. If you plan to factor the matrix you must leave room for the diagonal entry and 3134 set it even if it is zero. 3135 . o_nz - number of block nonzeros per block row in the off-diagonal portion of local 3136 submatrix (same for all local rows). 3137 - o_nnz - array containing the number of nonzeros in the various block rows of the 3138 off-diagonal portion of the local submatrix (possibly different for 3139 each block row) or NULL. 3140 3141 If the *_nnz parameter is given then the *_nz parameter is ignored 3142 3143 Options Database Keys: 3144 + -mat_block_size - size of the blocks to use 3145 - -mat_use_hash_table <fact> 3146 3147 Notes: 3148 If PETSC_DECIDE or PETSC_DETERMINE is used for a particular argument on one processor 3149 than it must be used on all processors that share the object for that argument. 3150 3151 Storage Information: 3152 For a square global matrix we define each processor's diagonal portion 3153 to be its local rows and the corresponding columns (a square submatrix); 3154 each processor's off-diagonal portion encompasses the remainder of the 3155 local matrix (a rectangular submatrix). 3156 3157 The user can specify preallocated storage for the diagonal part of 3158 the local submatrix with either d_nz or d_nnz (not both). Set 3159 d_nz=PETSC_DEFAULT and d_nnz=NULL for PETSc to control dynamic 3160 memory allocation. Likewise, specify preallocated storage for the 3161 off-diagonal part of the local submatrix with o_nz or o_nnz (not both). 3162 3163 Consider a processor that owns rows 3, 4 and 5 of a parallel matrix. In 3164 the figure below we depict these three local rows and all columns (0-11). 3165 3166 .vb 3167 0 1 2 3 4 5 6 7 8 9 10 11 3168 -------------------------- 3169 row 3 |o o o d d d o o o o o o 3170 row 4 |o o o d d d o o o o o o 3171 row 5 |o o o d d d o o o o o o 3172 -------------------------- 3173 .ve 3174 3175 Thus, any entries in the d locations are stored in the d (diagonal) 3176 submatrix, and any entries in the o locations are stored in the 3177 o (off-diagonal) submatrix. Note that the d and the o submatrices are 3178 stored simply in the MATSEQBAIJ format for compressed row storage. 3179 3180 Now d_nz should indicate the number of block nonzeros per row in the d matrix, 3181 and o_nz should indicate the number of block nonzeros per row in the o matrix. 3182 In general, for PDE problems in which most nonzeros are near the diagonal, 3183 one expects d_nz >> o_nz. For large problems you MUST preallocate memory 3184 or you will get TERRIBLE performance; see the users' manual chapter on 3185 matrices. 3186 3187 You can call MatGetInfo() to get information on how effective the preallocation was; 3188 for example the fields mallocs,nz_allocated,nz_used,nz_unneeded; 3189 You can also run with the option -info and look for messages with the string 3190 malloc in them to see if additional memory allocation was needed. 3191 3192 Level: intermediate 3193 3194 .keywords: matrix, block, aij, compressed row, sparse, parallel 3195 3196 .seealso: MatCreate(), MatCreateSeqBAIJ(), MatSetValues(), MatCreateBAIJ(), MatMPIBAIJSetPreallocationCSR(), PetscSplitOwnership() 3197 @*/ 3198 PetscErrorCode MatMPIBAIJSetPreallocation(Mat B,PetscInt bs,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 3199 { 3200 PetscErrorCode ierr; 3201 3202 PetscFunctionBegin; 3203 PetscValidHeaderSpecific(B,MAT_CLASSID,1); 3204 PetscValidType(B,1); 3205 PetscValidLogicalCollectiveInt(B,bs,2); 3206 ierr = PetscTryMethod(B,"MatMPIBAIJSetPreallocation_C",(Mat,PetscInt,PetscInt,const PetscInt[],PetscInt,const PetscInt[]),(B,bs,d_nz,d_nnz,o_nz,o_nnz));CHKERRQ(ierr); 3207 PetscFunctionReturn(0); 3208 } 3209 3210 /*@C 3211 MatCreateBAIJ - Creates a sparse parallel matrix in block AIJ format 3212 (block compressed row). For good matrix assembly performance 3213 the user should preallocate the matrix storage by setting the parameters 3214 d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 3215 performance can be increased by more than a factor of 50. 3216 3217 Collective on MPI_Comm 3218 3219 Input Parameters: 3220 + comm - MPI communicator 3221 . bs - size of block, the blocks are ALWAYS square. One can use MatSetBlockSizes() to set a different row and column blocksize but the row 3222 blocksize always defines the size of the blocks. The column blocksize sets the blocksize of the vectors obtained with MatCreateVecs() 3223 . m - number of local rows (or PETSC_DECIDE to have calculated if M is given) 3224 This value should be the same as the local size used in creating the 3225 y vector for the matrix-vector product y = Ax. 3226 . n - number of local columns (or PETSC_DECIDE to have calculated if N is given) 3227 This value should be the same as the local size used in creating the 3228 x vector for the matrix-vector product y = Ax. 3229 . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 3230 . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 3231 . d_nz - number of nonzero blocks per block row in diagonal portion of local 3232 submatrix (same for all local rows) 3233 . d_nnz - array containing the number of nonzero blocks in the various block rows 3234 of the in diagonal portion of the local (possibly different for each block 3235 row) or NULL. If you plan to factor the matrix you must leave room for the diagonal entry 3236 and set it even if it is zero. 3237 . o_nz - number of nonzero blocks per block row in the off-diagonal portion of local 3238 submatrix (same for all local rows). 3239 - o_nnz - array containing the number of nonzero blocks in the various block rows of the 3240 off-diagonal portion of the local submatrix (possibly different for 3241 each block row) or NULL. 3242 3243 Output Parameter: 3244 . A - the matrix 3245 3246 Options Database Keys: 3247 + -mat_block_size - size of the blocks to use 3248 - -mat_use_hash_table <fact> 3249 3250 It is recommended that one use the MatCreate(), MatSetType() and/or MatSetFromOptions(), 3251 MatXXXXSetPreallocation() paradgm instead of this routine directly. 3252 [MatXXXXSetPreallocation() is, for example, MatSeqAIJSetPreallocation] 3253 3254 Notes: 3255 If the *_nnz parameter is given then the *_nz parameter is ignored 3256 3257 A nonzero block is any block that as 1 or more nonzeros in it 3258 3259 The user MUST specify either the local or global matrix dimensions 3260 (possibly both). 3261 3262 If PETSC_DECIDE or PETSC_DETERMINE is used for a particular argument on one processor 3263 than it must be used on all processors that share the object for that argument. 3264 3265 Storage Information: 3266 For a square global matrix we define each processor's diagonal portion 3267 to be its local rows and the corresponding columns (a square submatrix); 3268 each processor's off-diagonal portion encompasses the remainder of the 3269 local matrix (a rectangular submatrix). 3270 3271 The user can specify preallocated storage for the diagonal part of 3272 the local submatrix with either d_nz or d_nnz (not both). Set 3273 d_nz=PETSC_DEFAULT and d_nnz=NULL for PETSc to control dynamic 3274 memory allocation. Likewise, specify preallocated storage for the 3275 off-diagonal part of the local submatrix with o_nz or o_nnz (not both). 3276 3277 Consider a processor that owns rows 3, 4 and 5 of a parallel matrix. In 3278 the figure below we depict these three local rows and all columns (0-11). 3279 3280 .vb 3281 0 1 2 3 4 5 6 7 8 9 10 11 3282 -------------------------- 3283 row 3 |o o o d d d o o o o o o 3284 row 4 |o o o d d d o o o o o o 3285 row 5 |o o o d d d o o o o o o 3286 -------------------------- 3287 .ve 3288 3289 Thus, any entries in the d locations are stored in the d (diagonal) 3290 submatrix, and any entries in the o locations are stored in the 3291 o (off-diagonal) submatrix. Note that the d and the o submatrices are 3292 stored simply in the MATSEQBAIJ format for compressed row storage. 3293 3294 Now d_nz should indicate the number of block nonzeros per row in the d matrix, 3295 and o_nz should indicate the number of block nonzeros per row in the o matrix. 3296 In general, for PDE problems in which most nonzeros are near the diagonal, 3297 one expects d_nz >> o_nz. For large problems you MUST preallocate memory 3298 or you will get TERRIBLE performance; see the users' manual chapter on 3299 matrices. 3300 3301 Level: intermediate 3302 3303 .keywords: matrix, block, aij, compressed row, sparse, parallel 3304 3305 .seealso: MatCreate(), MatCreateSeqBAIJ(), MatSetValues(), MatCreateBAIJ(), MatMPIBAIJSetPreallocation(), MatMPIBAIJSetPreallocationCSR() 3306 @*/ 3307 PetscErrorCode MatCreateBAIJ(MPI_Comm comm,PetscInt bs,PetscInt m,PetscInt n,PetscInt M,PetscInt N,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[],Mat *A) 3308 { 3309 PetscErrorCode ierr; 3310 PetscMPIInt size; 3311 3312 PetscFunctionBegin; 3313 ierr = MatCreate(comm,A);CHKERRQ(ierr); 3314 ierr = MatSetSizes(*A,m,n,M,N);CHKERRQ(ierr); 3315 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 3316 if (size > 1) { 3317 ierr = MatSetType(*A,MATMPIBAIJ);CHKERRQ(ierr); 3318 ierr = MatMPIBAIJSetPreallocation(*A,bs,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 3319 } else { 3320 ierr = MatSetType(*A,MATSEQBAIJ);CHKERRQ(ierr); 3321 ierr = MatSeqBAIJSetPreallocation(*A,bs,d_nz,d_nnz);CHKERRQ(ierr); 3322 } 3323 PetscFunctionReturn(0); 3324 } 3325 3326 static PetscErrorCode MatDuplicate_MPIBAIJ(Mat matin,MatDuplicateOption cpvalues,Mat *newmat) 3327 { 3328 Mat mat; 3329 Mat_MPIBAIJ *a,*oldmat = (Mat_MPIBAIJ*)matin->data; 3330 PetscErrorCode ierr; 3331 PetscInt len=0; 3332 3333 PetscFunctionBegin; 3334 *newmat = 0; 3335 ierr = MatCreate(PetscObjectComm((PetscObject)matin),&mat);CHKERRQ(ierr); 3336 ierr = MatSetSizes(mat,matin->rmap->n,matin->cmap->n,matin->rmap->N,matin->cmap->N);CHKERRQ(ierr); 3337 ierr = MatSetType(mat,((PetscObject)matin)->type_name);CHKERRQ(ierr); 3338 ierr = PetscMemcpy(mat->ops,matin->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 3339 3340 mat->factortype = matin->factortype; 3341 mat->preallocated = PETSC_TRUE; 3342 mat->assembled = PETSC_TRUE; 3343 mat->insertmode = NOT_SET_VALUES; 3344 3345 a = (Mat_MPIBAIJ*)mat->data; 3346 mat->rmap->bs = matin->rmap->bs; 3347 a->bs2 = oldmat->bs2; 3348 a->mbs = oldmat->mbs; 3349 a->nbs = oldmat->nbs; 3350 a->Mbs = oldmat->Mbs; 3351 a->Nbs = oldmat->Nbs; 3352 3353 ierr = PetscLayoutReference(matin->rmap,&mat->rmap);CHKERRQ(ierr); 3354 ierr = PetscLayoutReference(matin->cmap,&mat->cmap);CHKERRQ(ierr); 3355 3356 a->size = oldmat->size; 3357 a->rank = oldmat->rank; 3358 a->donotstash = oldmat->donotstash; 3359 a->roworiented = oldmat->roworiented; 3360 a->rowindices = 0; 3361 a->rowvalues = 0; 3362 a->getrowactive = PETSC_FALSE; 3363 a->barray = 0; 3364 a->rstartbs = oldmat->rstartbs; 3365 a->rendbs = oldmat->rendbs; 3366 a->cstartbs = oldmat->cstartbs; 3367 a->cendbs = oldmat->cendbs; 3368 3369 /* hash table stuff */ 3370 a->ht = 0; 3371 a->hd = 0; 3372 a->ht_size = 0; 3373 a->ht_flag = oldmat->ht_flag; 3374 a->ht_fact = oldmat->ht_fact; 3375 a->ht_total_ct = 0; 3376 a->ht_insert_ct = 0; 3377 3378 ierr = PetscMemcpy(a->rangebs,oldmat->rangebs,(a->size+1)*sizeof(PetscInt));CHKERRQ(ierr); 3379 if (oldmat->colmap) { 3380 #if defined(PETSC_USE_CTABLE) 3381 ierr = PetscTableCreateCopy(oldmat->colmap,&a->colmap);CHKERRQ(ierr); 3382 #else 3383 ierr = PetscMalloc1(a->Nbs,&a->colmap);CHKERRQ(ierr); 3384 ierr = PetscLogObjectMemory((PetscObject)mat,(a->Nbs)*sizeof(PetscInt));CHKERRQ(ierr); 3385 ierr = PetscMemcpy(a->colmap,oldmat->colmap,(a->Nbs)*sizeof(PetscInt));CHKERRQ(ierr); 3386 #endif 3387 } else a->colmap = 0; 3388 3389 if (oldmat->garray && (len = ((Mat_SeqBAIJ*)(oldmat->B->data))->nbs)) { 3390 ierr = PetscMalloc1(len,&a->garray);CHKERRQ(ierr); 3391 ierr = PetscLogObjectMemory((PetscObject)mat,len*sizeof(PetscInt));CHKERRQ(ierr); 3392 ierr = PetscMemcpy(a->garray,oldmat->garray,len*sizeof(PetscInt));CHKERRQ(ierr); 3393 } else a->garray = 0; 3394 3395 ierr = MatStashCreate_Private(PetscObjectComm((PetscObject)matin),matin->rmap->bs,&mat->bstash);CHKERRQ(ierr); 3396 ierr = VecDuplicate(oldmat->lvec,&a->lvec);CHKERRQ(ierr); 3397 ierr = PetscLogObjectParent((PetscObject)mat,(PetscObject)a->lvec);CHKERRQ(ierr); 3398 ierr = VecScatterCopy(oldmat->Mvctx,&a->Mvctx);CHKERRQ(ierr); 3399 ierr = PetscLogObjectParent((PetscObject)mat,(PetscObject)a->Mvctx);CHKERRQ(ierr); 3400 3401 ierr = MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr); 3402 ierr = PetscLogObjectParent((PetscObject)mat,(PetscObject)a->A);CHKERRQ(ierr); 3403 ierr = MatDuplicate(oldmat->B,cpvalues,&a->B);CHKERRQ(ierr); 3404 ierr = PetscLogObjectParent((PetscObject)mat,(PetscObject)a->B);CHKERRQ(ierr); 3405 ierr = PetscFunctionListDuplicate(((PetscObject)matin)->qlist,&((PetscObject)mat)->qlist);CHKERRQ(ierr); 3406 *newmat = mat; 3407 PetscFunctionReturn(0); 3408 } 3409 3410 PetscErrorCode MatLoad_MPIBAIJ(Mat newmat,PetscViewer viewer) 3411 { 3412 PetscErrorCode ierr; 3413 int fd; 3414 PetscInt i,nz,j,rstart,rend; 3415 PetscScalar *vals,*buf; 3416 MPI_Comm comm; 3417 MPI_Status status; 3418 PetscMPIInt rank,size,maxnz; 3419 PetscInt header[4],*rowlengths = 0,M,N,m,*rowners,*cols; 3420 PetscInt *locrowlens = NULL,*procsnz = NULL,*browners = NULL; 3421 PetscInt jj,*mycols,*ibuf,bs = newmat->rmap->bs,Mbs,mbs,extra_rows,mmax; 3422 PetscMPIInt tag = ((PetscObject)viewer)->tag; 3423 PetscInt *dlens = NULL,*odlens = NULL,*mask = NULL,*masked1 = NULL,*masked2 = NULL,rowcount,odcount; 3424 PetscInt dcount,kmax,k,nzcount,tmp,mend; 3425 3426 PetscFunctionBegin; 3427 /* force binary viewer to load .info file if it has not yet done so */ 3428 ierr = PetscViewerSetUp(viewer);CHKERRQ(ierr); 3429 ierr = PetscObjectGetComm((PetscObject)viewer,&comm);CHKERRQ(ierr); 3430 ierr = PetscOptionsBegin(comm,NULL,"Options for loading MPIBAIJ matrix 2","Mat");CHKERRQ(ierr); 3431 ierr = PetscOptionsInt("-matload_block_size","Set the blocksize used to store the matrix","MatLoad",bs,&bs,NULL);CHKERRQ(ierr); 3432 ierr = PetscOptionsEnd();CHKERRQ(ierr); 3433 if (bs < 0) bs = 1; 3434 3435 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 3436 ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 3437 ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 3438 if (!rank) { 3439 ierr = PetscBinaryRead(fd,(char*)header,4,PETSC_INT);CHKERRQ(ierr); 3440 if (header[0] != MAT_FILE_CLASSID) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_FILE_UNEXPECTED,"not matrix object"); 3441 if (header[3] < 0) SETERRQ(PetscObjectComm((PetscObject)newmat),PETSC_ERR_FILE_UNEXPECTED,"Matrix stored in special format on disk, cannot load as MPIAIJ"); 3442 } 3443 ierr = MPI_Bcast(header+1,3,MPIU_INT,0,comm);CHKERRQ(ierr); 3444 M = header[1]; N = header[2]; 3445 3446 /* If global sizes are set, check if they are consistent with that given in the file */ 3447 if (newmat->rmap->N >= 0 && newmat->rmap->N != M) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_FILE_UNEXPECTED,"Inconsistent # of rows:Matrix in file has (%D) and input matrix has (%D)",newmat->rmap->N,M); 3448 if (newmat->cmap->N >= 0 && newmat->cmap->N != N) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_FILE_UNEXPECTED,"Inconsistent # of cols:Matrix in file has (%D) and input matrix has (%D)",newmat->cmap->N,N); 3449 3450 if (M != N) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Can only do square matrices"); 3451 3452 /* 3453 This code adds extra rows to make sure the number of rows is 3454 divisible by the blocksize 3455 */ 3456 Mbs = M/bs; 3457 extra_rows = bs - M + bs*Mbs; 3458 if (extra_rows == bs) extra_rows = 0; 3459 else Mbs++; 3460 if (extra_rows && !rank) { 3461 ierr = PetscInfo(viewer,"Padding loaded matrix to match blocksize\n");CHKERRQ(ierr); 3462 } 3463 3464 /* determine ownership of all rows */ 3465 if (newmat->rmap->n < 0) { /* PETSC_DECIDE */ 3466 mbs = Mbs/size + ((Mbs % size) > rank); 3467 m = mbs*bs; 3468 } else { /* User set */ 3469 m = newmat->rmap->n; 3470 mbs = m/bs; 3471 } 3472 ierr = PetscMalloc2(size+1,&rowners,size+1,&browners);CHKERRQ(ierr); 3473 ierr = MPI_Allgather(&mbs,1,MPIU_INT,rowners+1,1,MPIU_INT,comm);CHKERRQ(ierr); 3474 3475 /* process 0 needs enough room for process with most rows */ 3476 if (!rank) { 3477 mmax = rowners[1]; 3478 for (i=2; i<=size; i++) { 3479 mmax = PetscMax(mmax,rowners[i]); 3480 } 3481 mmax*=bs; 3482 } else mmax = -1; /* unused, but compiler warns anyway */ 3483 3484 rowners[0] = 0; 3485 for (i=2; i<=size; i++) rowners[i] += rowners[i-1]; 3486 for (i=0; i<=size; i++) browners[i] = rowners[i]*bs; 3487 rstart = rowners[rank]; 3488 rend = rowners[rank+1]; 3489 3490 /* distribute row lengths to all processors */ 3491 ierr = PetscMalloc1(m,&locrowlens);CHKERRQ(ierr); 3492 if (!rank) { 3493 mend = m; 3494 if (size == 1) mend = mend - extra_rows; 3495 ierr = PetscBinaryRead(fd,locrowlens,mend,PETSC_INT);CHKERRQ(ierr); 3496 for (j=mend; j<m; j++) locrowlens[j] = 1; 3497 ierr = PetscMalloc1(mmax,&rowlengths);CHKERRQ(ierr); 3498 ierr = PetscCalloc1(size,&procsnz);CHKERRQ(ierr); 3499 for (j=0; j<m; j++) { 3500 procsnz[0] += locrowlens[j]; 3501 } 3502 for (i=1; i<size; i++) { 3503 mend = browners[i+1] - browners[i]; 3504 if (i == size-1) mend = mend - extra_rows; 3505 ierr = PetscBinaryRead(fd,rowlengths,mend,PETSC_INT);CHKERRQ(ierr); 3506 for (j=mend; j<browners[i+1] - browners[i]; j++) rowlengths[j] = 1; 3507 /* calculate the number of nonzeros on each processor */ 3508 for (j=0; j<browners[i+1]-browners[i]; j++) { 3509 procsnz[i] += rowlengths[j]; 3510 } 3511 ierr = MPI_Send(rowlengths,browners[i+1]-browners[i],MPIU_INT,i,tag,comm);CHKERRQ(ierr); 3512 } 3513 ierr = PetscFree(rowlengths);CHKERRQ(ierr); 3514 } else { 3515 ierr = MPI_Recv(locrowlens,m,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 3516 } 3517 3518 if (!rank) { 3519 /* determine max buffer needed and allocate it */ 3520 maxnz = procsnz[0]; 3521 for (i=1; i<size; i++) { 3522 maxnz = PetscMax(maxnz,procsnz[i]); 3523 } 3524 ierr = PetscMalloc1(maxnz,&cols);CHKERRQ(ierr); 3525 3526 /* read in my part of the matrix column indices */ 3527 nz = procsnz[0]; 3528 ierr = PetscMalloc1(nz+1,&ibuf);CHKERRQ(ierr); 3529 mycols = ibuf; 3530 if (size == 1) nz -= extra_rows; 3531 ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr); 3532 if (size == 1) { 3533 for (i=0; i< extra_rows; i++) mycols[nz+i] = M+i; 3534 } 3535 3536 /* read in every ones (except the last) and ship off */ 3537 for (i=1; i<size-1; i++) { 3538 nz = procsnz[i]; 3539 ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr); 3540 ierr = MPI_Send(cols,nz,MPIU_INT,i,tag,comm);CHKERRQ(ierr); 3541 } 3542 /* read in the stuff for the last proc */ 3543 if (size != 1) { 3544 nz = procsnz[size-1] - extra_rows; /* the extra rows are not on the disk */ 3545 ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr); 3546 for (i=0; i<extra_rows; i++) cols[nz+i] = M+i; 3547 ierr = MPI_Send(cols,nz+extra_rows,MPIU_INT,size-1,tag,comm);CHKERRQ(ierr); 3548 } 3549 ierr = PetscFree(cols);CHKERRQ(ierr); 3550 } else { 3551 /* determine buffer space needed for message */ 3552 nz = 0; 3553 for (i=0; i<m; i++) { 3554 nz += locrowlens[i]; 3555 } 3556 ierr = PetscMalloc1(nz+1,&ibuf);CHKERRQ(ierr); 3557 mycols = ibuf; 3558 /* receive message of column indices*/ 3559 ierr = MPI_Recv(mycols,nz,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 3560 ierr = MPI_Get_count(&status,MPIU_INT,&maxnz);CHKERRQ(ierr); 3561 if (maxnz != nz) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 3562 } 3563 3564 /* loop over local rows, determining number of off diagonal entries */ 3565 ierr = PetscMalloc2(rend-rstart,&dlens,rend-rstart,&odlens);CHKERRQ(ierr); 3566 ierr = PetscCalloc3(Mbs,&mask,Mbs,&masked1,Mbs,&masked2);CHKERRQ(ierr); 3567 rowcount = 0; nzcount = 0; 3568 for (i=0; i<mbs; i++) { 3569 dcount = 0; 3570 odcount = 0; 3571 for (j=0; j<bs; j++) { 3572 kmax = locrowlens[rowcount]; 3573 for (k=0; k<kmax; k++) { 3574 tmp = mycols[nzcount++]/bs; 3575 if (!mask[tmp]) { 3576 mask[tmp] = 1; 3577 if (tmp < rstart || tmp >= rend) masked2[odcount++] = tmp; 3578 else masked1[dcount++] = tmp; 3579 } 3580 } 3581 rowcount++; 3582 } 3583 3584 dlens[i] = dcount; 3585 odlens[i] = odcount; 3586 3587 /* zero out the mask elements we set */ 3588 for (j=0; j<dcount; j++) mask[masked1[j]] = 0; 3589 for (j=0; j<odcount; j++) mask[masked2[j]] = 0; 3590 } 3591 3592 ierr = MatSetSizes(newmat,m,m,M+extra_rows,N+extra_rows);CHKERRQ(ierr); 3593 ierr = MatMPIBAIJSetPreallocation(newmat,bs,0,dlens,0,odlens);CHKERRQ(ierr); 3594 3595 if (!rank) { 3596 ierr = PetscMalloc1(maxnz+1,&buf);CHKERRQ(ierr); 3597 /* read in my part of the matrix numerical values */ 3598 nz = procsnz[0]; 3599 vals = buf; 3600 mycols = ibuf; 3601 if (size == 1) nz -= extra_rows; 3602 ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 3603 if (size == 1) { 3604 for (i=0; i< extra_rows; i++) vals[nz+i] = 1.0; 3605 } 3606 3607 /* insert into matrix */ 3608 jj = rstart*bs; 3609 for (i=0; i<m; i++) { 3610 ierr = MatSetValues_MPIBAIJ(newmat,1,&jj,locrowlens[i],mycols,vals,INSERT_VALUES);CHKERRQ(ierr); 3611 mycols += locrowlens[i]; 3612 vals += locrowlens[i]; 3613 jj++; 3614 } 3615 /* read in other processors (except the last one) and ship out */ 3616 for (i=1; i<size-1; i++) { 3617 nz = procsnz[i]; 3618 vals = buf; 3619 ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 3620 ierr = MPIULong_Send(vals,nz,MPIU_SCALAR,i,((PetscObject)newmat)->tag,comm);CHKERRQ(ierr); 3621 } 3622 /* the last proc */ 3623 if (size != 1) { 3624 nz = procsnz[i] - extra_rows; 3625 vals = buf; 3626 ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 3627 for (i=0; i<extra_rows; i++) vals[nz+i] = 1.0; 3628 ierr = MPIULong_Send(vals,nz+extra_rows,MPIU_SCALAR,size-1,((PetscObject)newmat)->tag,comm);CHKERRQ(ierr); 3629 } 3630 ierr = PetscFree(procsnz);CHKERRQ(ierr); 3631 } else { 3632 /* receive numeric values */ 3633 ierr = PetscMalloc1(nz+1,&buf);CHKERRQ(ierr); 3634 3635 /* receive message of values*/ 3636 vals = buf; 3637 mycols = ibuf; 3638 ierr = MPIULong_Recv(vals,nz,MPIU_SCALAR,0,((PetscObject)newmat)->tag,comm);CHKERRQ(ierr); 3639 3640 /* insert into matrix */ 3641 jj = rstart*bs; 3642 for (i=0; i<m; i++) { 3643 ierr = MatSetValues_MPIBAIJ(newmat,1,&jj,locrowlens[i],mycols,vals,INSERT_VALUES);CHKERRQ(ierr); 3644 mycols += locrowlens[i]; 3645 vals += locrowlens[i]; 3646 jj++; 3647 } 3648 } 3649 ierr = PetscFree(locrowlens);CHKERRQ(ierr); 3650 ierr = PetscFree(buf);CHKERRQ(ierr); 3651 ierr = PetscFree(ibuf);CHKERRQ(ierr); 3652 ierr = PetscFree2(rowners,browners);CHKERRQ(ierr); 3653 ierr = PetscFree2(dlens,odlens);CHKERRQ(ierr); 3654 ierr = PetscFree3(mask,masked1,masked2);CHKERRQ(ierr); 3655 ierr = MatAssemblyBegin(newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3656 ierr = MatAssemblyEnd(newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3657 PetscFunctionReturn(0); 3658 } 3659 3660 /*@ 3661 MatMPIBAIJSetHashTableFactor - Sets the factor required to compute the size of the HashTable. 3662 3663 Input Parameters: 3664 . mat - the matrix 3665 . fact - factor 3666 3667 Not Collective, each process can use a different factor 3668 3669 Level: advanced 3670 3671 Notes: 3672 This can also be set by the command line option: -mat_use_hash_table <fact> 3673 3674 .keywords: matrix, hashtable, factor, HT 3675 3676 .seealso: MatSetOption() 3677 @*/ 3678 PetscErrorCode MatMPIBAIJSetHashTableFactor(Mat mat,PetscReal fact) 3679 { 3680 PetscErrorCode ierr; 3681 3682 PetscFunctionBegin; 3683 ierr = PetscTryMethod(mat,"MatSetHashTableFactor_C",(Mat,PetscReal),(mat,fact));CHKERRQ(ierr); 3684 PetscFunctionReturn(0); 3685 } 3686 3687 PetscErrorCode MatSetHashTableFactor_MPIBAIJ(Mat mat,PetscReal fact) 3688 { 3689 Mat_MPIBAIJ *baij; 3690 3691 PetscFunctionBegin; 3692 baij = (Mat_MPIBAIJ*)mat->data; 3693 baij->ht_fact = fact; 3694 PetscFunctionReturn(0); 3695 } 3696 3697 PetscErrorCode MatMPIBAIJGetSeqBAIJ(Mat A,Mat *Ad,Mat *Ao,const PetscInt *colmap[]) 3698 { 3699 Mat_MPIBAIJ *a = (Mat_MPIBAIJ*)A->data; 3700 PetscBool flg; 3701 PetscErrorCode ierr; 3702 3703 PetscFunctionBegin; 3704 ierr = PetscObjectTypeCompare((PetscObject)A,MATMPIBAIJ,&flg);CHKERRQ(ierr); 3705 if (!flg) SETERRQ(PetscObjectComm((PetscObject)A),PETSC_ERR_SUP,"This function requires a MATMPIBAIJ matrix as input"); 3706 if (Ad) *Ad = a->A; 3707 if (Ao) *Ao = a->B; 3708 if (colmap) *colmap = a->garray; 3709 PetscFunctionReturn(0); 3710 } 3711 3712 /* 3713 Special version for direct calls from Fortran (to eliminate two function call overheads 3714 */ 3715 #if defined(PETSC_HAVE_FORTRAN_CAPS) 3716 #define matmpibaijsetvaluesblocked_ MATMPIBAIJSETVALUESBLOCKED 3717 #elif !defined(PETSC_HAVE_FORTRAN_UNDERSCORE) 3718 #define matmpibaijsetvaluesblocked_ matmpibaijsetvaluesblocked 3719 #endif 3720 3721 /*@C 3722 MatMPIBAIJSetValuesBlocked - Direct Fortran call to replace call to MatSetValuesBlocked() 3723 3724 Collective on Mat 3725 3726 Input Parameters: 3727 + mat - the matrix 3728 . min - number of input rows 3729 . im - input rows 3730 . nin - number of input columns 3731 . in - input columns 3732 . v - numerical values input 3733 - addvin - INSERT_VALUES or ADD_VALUES 3734 3735 Notes: 3736 This has a complete copy of MatSetValuesBlocked_MPIBAIJ() which is terrible code un-reuse. 3737 3738 Level: advanced 3739 3740 .seealso: MatSetValuesBlocked() 3741 @*/ 3742 PetscErrorCode matmpibaijsetvaluesblocked_(Mat *matin,PetscInt *min,const PetscInt im[],PetscInt *nin,const PetscInt in[],const MatScalar v[],InsertMode *addvin) 3743 { 3744 /* convert input arguments to C version */ 3745 Mat mat = *matin; 3746 PetscInt m = *min, n = *nin; 3747 InsertMode addv = *addvin; 3748 3749 Mat_MPIBAIJ *baij = (Mat_MPIBAIJ*)mat->data; 3750 const MatScalar *value; 3751 MatScalar *barray = baij->barray; 3752 PetscBool roworiented = baij->roworiented; 3753 PetscErrorCode ierr; 3754 PetscInt i,j,ii,jj,row,col,rstart=baij->rstartbs; 3755 PetscInt rend=baij->rendbs,cstart=baij->cstartbs,stepval; 3756 PetscInt cend=baij->cendbs,bs=mat->rmap->bs,bs2=baij->bs2; 3757 3758 PetscFunctionBegin; 3759 /* tasks normally handled by MatSetValuesBlocked() */ 3760 if (mat->insertmode == NOT_SET_VALUES) mat->insertmode = addv; 3761 #if defined(PETSC_USE_DEBUG) 3762 else if (mat->insertmode != addv) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"Cannot mix add values and insert values"); 3763 if (mat->factortype) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"Not for factored matrix"); 3764 #endif 3765 if (mat->assembled) { 3766 mat->was_assembled = PETSC_TRUE; 3767 mat->assembled = PETSC_FALSE; 3768 } 3769 ierr = PetscLogEventBegin(MAT_SetValues,mat,0,0,0);CHKERRQ(ierr); 3770 3771 3772 if (!barray) { 3773 ierr = PetscMalloc1(bs2,&barray);CHKERRQ(ierr); 3774 baij->barray = barray; 3775 } 3776 3777 if (roworiented) stepval = (n-1)*bs; 3778 else stepval = (m-1)*bs; 3779 3780 for (i=0; i<m; i++) { 3781 if (im[i] < 0) continue; 3782 #if defined(PETSC_USE_DEBUG) 3783 if (im[i] >= baij->Mbs) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row too large, row %D max %D",im[i],baij->Mbs-1); 3784 #endif 3785 if (im[i] >= rstart && im[i] < rend) { 3786 row = im[i] - rstart; 3787 for (j=0; j<n; j++) { 3788 /* If NumCol = 1 then a copy is not required */ 3789 if ((roworiented) && (n == 1)) { 3790 barray = (MatScalar*)v + i*bs2; 3791 } else if ((!roworiented) && (m == 1)) { 3792 barray = (MatScalar*)v + j*bs2; 3793 } else { /* Here a copy is required */ 3794 if (roworiented) { 3795 value = v + i*(stepval+bs)*bs + j*bs; 3796 } else { 3797 value = v + j*(stepval+bs)*bs + i*bs; 3798 } 3799 for (ii=0; ii<bs; ii++,value+=stepval) { 3800 for (jj=0; jj<bs; jj++) { 3801 *barray++ = *value++; 3802 } 3803 } 3804 barray -=bs2; 3805 } 3806 3807 if (in[j] >= cstart && in[j] < cend) { 3808 col = in[j] - cstart; 3809 ierr = MatSetValuesBlocked_SeqBAIJ_Inlined(baij->A,row,col,barray,addv,im[i],in[j]);CHKERRQ(ierr); 3810 } else if (in[j] < 0) continue; 3811 #if defined(PETSC_USE_DEBUG) 3812 else if (in[j] >= baij->Nbs) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Column too large, col %D max %D",in[j],baij->Nbs-1); 3813 #endif 3814 else { 3815 if (mat->was_assembled) { 3816 if (!baij->colmap) { 3817 ierr = MatCreateColmap_MPIBAIJ_Private(mat);CHKERRQ(ierr); 3818 } 3819 3820 #if defined(PETSC_USE_DEBUG) 3821 #if defined(PETSC_USE_CTABLE) 3822 { PetscInt data; 3823 ierr = PetscTableFind(baij->colmap,in[j]+1,&data);CHKERRQ(ierr); 3824 if ((data - 1) % bs) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Incorrect colmap"); 3825 } 3826 #else 3827 if ((baij->colmap[in[j]] - 1) % bs) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Incorrect colmap"); 3828 #endif 3829 #endif 3830 #if defined(PETSC_USE_CTABLE) 3831 ierr = PetscTableFind(baij->colmap,in[j]+1,&col);CHKERRQ(ierr); 3832 col = (col - 1)/bs; 3833 #else 3834 col = (baij->colmap[in[j]] - 1)/bs; 3835 #endif 3836 if (col < 0 && !((Mat_SeqBAIJ*)(baij->A->data))->nonew) { 3837 ierr = MatDisAssemble_MPIBAIJ(mat);CHKERRQ(ierr); 3838 col = in[j]; 3839 } 3840 } else col = in[j]; 3841 ierr = MatSetValuesBlocked_SeqBAIJ_Inlined(baij->B,row,col,barray,addv,im[i],in[j]);CHKERRQ(ierr); 3842 } 3843 } 3844 } else { 3845 if (!baij->donotstash) { 3846 if (roworiented) { 3847 ierr = MatStashValuesRowBlocked_Private(&mat->bstash,im[i],n,in,v,m,n,i);CHKERRQ(ierr); 3848 } else { 3849 ierr = MatStashValuesColBlocked_Private(&mat->bstash,im[i],n,in,v,m,n,i);CHKERRQ(ierr); 3850 } 3851 } 3852 } 3853 } 3854 3855 /* task normally handled by MatSetValuesBlocked() */ 3856 ierr = PetscLogEventEnd(MAT_SetValues,mat,0,0,0);CHKERRQ(ierr); 3857 PetscFunctionReturn(0); 3858 } 3859 3860 /*@ 3861 MatCreateMPIBAIJWithArrays - creates a MPI BAIJ matrix using arrays that contain in standard 3862 CSR format the local rows. 3863 3864 Collective on MPI_Comm 3865 3866 Input Parameters: 3867 + comm - MPI communicator 3868 . bs - the block size, only a block size of 1 is supported 3869 . m - number of local rows (Cannot be PETSC_DECIDE) 3870 . n - This value should be the same as the local size used in creating the 3871 x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 3872 calculated if N is given) For square matrices n is almost always m. 3873 . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 3874 . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 3875 . i - row indices 3876 . j - column indices 3877 - a - matrix values 3878 3879 Output Parameter: 3880 . mat - the matrix 3881 3882 Level: intermediate 3883 3884 Notes: 3885 The i, j, and a arrays ARE copied by this routine into the internal format used by PETSc; 3886 thus you CANNOT change the matrix entries by changing the values of a[] after you have 3887 called this routine. Use MatCreateMPIAIJWithSplitArrays() to avoid needing to copy the arrays. 3888 3889 The order of the entries in values is the same as the block compressed sparse row storage format; that is, it is 3890 the same as a three dimensional array in Fortran values(bs,bs,nnz) that contains the first column of the first 3891 block, followed by the second column of the first block etc etc. That is, the blocks are contiguous in memory 3892 with column-major ordering within blocks. 3893 3894 The i and j indices are 0 based, and i indices are indices corresponding to the local j array. 3895 3896 .keywords: matrix, aij, compressed row, sparse, parallel 3897 3898 .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 3899 MPIAIJ, MatCreateAIJ(), MatCreateMPIAIJWithSplitArrays() 3900 @*/ 3901 PetscErrorCode MatCreateMPIBAIJWithArrays(MPI_Comm comm,PetscInt bs,PetscInt m,PetscInt n,PetscInt M,PetscInt N,const PetscInt i[],const PetscInt j[],const PetscScalar a[],Mat *mat) 3902 { 3903 PetscErrorCode ierr; 3904 3905 PetscFunctionBegin; 3906 if (i[0]) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"i (row indices) must start with 0"); 3907 if (m < 0) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"local number of rows (m) cannot be PETSC_DECIDE, or negative"); 3908 ierr = MatCreate(comm,mat);CHKERRQ(ierr); 3909 ierr = MatSetSizes(*mat,m,n,M,N);CHKERRQ(ierr); 3910 ierr = MatSetType(*mat,MATMPIBAIJ);CHKERRQ(ierr); 3911 ierr = MatSetBlockSize(*mat,bs);CHKERRQ(ierr); 3912 ierr = MatSetUp(*mat);CHKERRQ(ierr); 3913 ierr = MatSetOption(*mat,MAT_ROW_ORIENTED,PETSC_FALSE);CHKERRQ(ierr); 3914 ierr = MatMPIBAIJSetPreallocationCSR(*mat,bs,i,j,a);CHKERRQ(ierr); 3915 ierr = MatSetOption(*mat,MAT_ROW_ORIENTED,PETSC_TRUE);CHKERRQ(ierr); 3916 PetscFunctionReturn(0); 3917 } 3918 3919 PetscErrorCode MatCreateMPIMatConcatenateSeqMat_MPIBAIJ(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat) 3920 { 3921 PetscErrorCode ierr; 3922 PetscInt m,N,i,rstart,nnz,Ii,bs,cbs; 3923 PetscInt *indx; 3924 PetscScalar *values; 3925 3926 PetscFunctionBegin; 3927 ierr = MatGetSize(inmat,&m,&N);CHKERRQ(ierr); 3928 if (scall == MAT_INITIAL_MATRIX) { /* symbolic phase */ 3929 Mat_SeqBAIJ *a = (Mat_SeqBAIJ*)inmat->data; 3930 PetscInt *dnz,*onz,mbs,Nbs,nbs; 3931 PetscInt *bindx,rmax=a->rmax,j; 3932 PetscMPIInt rank,size; 3933 3934 ierr = MatGetBlockSizes(inmat,&bs,&cbs);CHKERRQ(ierr); 3935 mbs = m/bs; Nbs = N/cbs; 3936 if (n == PETSC_DECIDE) { 3937 nbs = n; 3938 ierr = PetscSplitOwnership(comm,&nbs,&Nbs);CHKERRQ(ierr); 3939 n = nbs*cbs; 3940 } else { 3941 nbs = n/cbs; 3942 } 3943 3944 ierr = PetscMalloc1(rmax,&bindx);CHKERRQ(ierr); 3945 ierr = MatPreallocateInitialize(comm,mbs,nbs,dnz,onz);CHKERRQ(ierr); /* inline function, output __end and __rstart are used below */ 3946 3947 ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 3948 ierr = MPI_Comm_rank(comm,&size);CHKERRQ(ierr); 3949 if (rank == size-1) { 3950 /* Check sum(nbs) = Nbs */ 3951 if (__end != Nbs) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_INCOMP,"Sum of local block columns %D != global block columns %D",__end,Nbs); 3952 } 3953 3954 rstart = __rstart; /* block rstart of *outmat; see inline function MatPreallocateInitialize */ 3955 for (i=0; i<mbs; i++) { 3956 ierr = MatGetRow_SeqBAIJ(inmat,i*bs,&nnz,&indx,NULL);CHKERRQ(ierr); /* non-blocked nnz and indx */ 3957 nnz = nnz/bs; 3958 for (j=0; j<nnz; j++) bindx[j] = indx[j*bs]/bs; 3959 ierr = MatPreallocateSet(i+rstart,nnz,bindx,dnz,onz);CHKERRQ(ierr); 3960 ierr = MatRestoreRow_SeqBAIJ(inmat,i*bs,&nnz,&indx,NULL);CHKERRQ(ierr); 3961 } 3962 ierr = PetscFree(bindx);CHKERRQ(ierr); 3963 3964 ierr = MatCreate(comm,outmat);CHKERRQ(ierr); 3965 ierr = MatSetSizes(*outmat,m,n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 3966 ierr = MatSetBlockSizes(*outmat,bs,cbs);CHKERRQ(ierr); 3967 ierr = MatSetType(*outmat,MATBAIJ);CHKERRQ(ierr); 3968 ierr = MatSeqBAIJSetPreallocation(*outmat,bs,0,dnz);CHKERRQ(ierr); 3969 ierr = MatMPIBAIJSetPreallocation(*outmat,bs,0,dnz,0,onz);CHKERRQ(ierr); 3970 ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 3971 } 3972 3973 /* numeric phase */ 3974 ierr = MatGetBlockSizes(inmat,&bs,&cbs);CHKERRQ(ierr); 3975 ierr = MatGetOwnershipRange(*outmat,&rstart,NULL);CHKERRQ(ierr); 3976 3977 for (i=0; i<m; i++) { 3978 ierr = MatGetRow_SeqBAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 3979 Ii = i + rstart; 3980 ierr = MatSetValues(*outmat,1,&Ii,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 3981 ierr = MatRestoreRow_SeqBAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 3982 } 3983 ierr = MatAssemblyBegin(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3984 ierr = MatAssemblyEnd(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3985 PetscFunctionReturn(0); 3986 } 3987