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