1 /* 2 Creates a matrix class for using the Neumann-Neumann type preconditioners. 3 This stores the matrices in globally unassembled form. Each processor 4 assembles only its local Neumann problem and the parallel matrix vector 5 product is handled "implicitly". 6 7 Currently this allows for only one subdomain per processor. 8 */ 9 10 #include <../src/mat/impls/is/matis.h> /*I "petscmat.h" I*/ 11 #include <../src/mat/impls/aij/mpi/mpiaij.h> 12 #include <petsc/private/sfimpl.h> 13 14 #define MATIS_MAX_ENTRIES_INSERTION 2048 15 16 static PetscErrorCode MatISContainerDestroyFields_Private(void *ptr) 17 { 18 MatISLocalFields lf = (MatISLocalFields)ptr; 19 PetscInt i; 20 PetscErrorCode ierr; 21 22 PetscFunctionBeginUser; 23 for (i=0;i<lf->nr;i++) { 24 ierr = ISDestroy(&lf->rf[i]);CHKERRQ(ierr); 25 } 26 for (i=0;i<lf->nc;i++) { 27 ierr = ISDestroy(&lf->cf[i]);CHKERRQ(ierr); 28 } 29 ierr = PetscFree2(lf->rf,lf->cf);CHKERRQ(ierr); 30 ierr = PetscFree(lf);CHKERRQ(ierr); 31 PetscFunctionReturn(0); 32 } 33 34 static PetscErrorCode MatISContainerDestroyArray_Private(void *ptr) 35 { 36 PetscErrorCode ierr; 37 38 PetscFunctionBeginUser; 39 ierr = PetscFree(ptr);CHKERRQ(ierr); 40 PetscFunctionReturn(0); 41 } 42 43 PETSC_INTERN PetscErrorCode MatConvert_MPIAIJ_IS(Mat A,MatType type,MatReuse reuse,Mat *newmat) 44 { 45 Mat_MPIAIJ *aij = (Mat_MPIAIJ*)A->data; 46 Mat_SeqAIJ *diag = (Mat_SeqAIJ*)(aij->A->data); 47 Mat_SeqAIJ *offd = (Mat_SeqAIJ*)(aij->B->data); 48 Mat lA; 49 ISLocalToGlobalMapping rl2g,cl2g; 50 IS is; 51 MPI_Comm comm; 52 void *ptrs[2]; 53 const char *names[2] = {"_convert_csr_aux","_convert_csr_data"}; 54 PetscScalar *dd,*od,*aa,*data; 55 PetscInt *di,*dj,*oi,*oj; 56 PetscInt *aux,*ii,*jj; 57 PetscInt lc,dr,dc,oc,str,stc,nnz,i,jd,jo,cum; 58 PetscErrorCode ierr; 59 60 PetscFunctionBeginUser; 61 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 62 if (!aij->garray) SETERRQ(comm,PETSC_ERR_SUP,"garray not present"); 63 64 /* access relevant information from MPIAIJ */ 65 ierr = MatGetOwnershipRange(A,&str,NULL);CHKERRQ(ierr); 66 ierr = MatGetOwnershipRangeColumn(A,&stc,NULL);CHKERRQ(ierr); 67 ierr = MatGetLocalSize(A,&dr,&dc);CHKERRQ(ierr); 68 di = diag->i; 69 dj = diag->j; 70 dd = diag->a; 71 oc = aij->B->cmap->n; 72 oi = offd->i; 73 oj = offd->j; 74 od = offd->a; 75 nnz = diag->i[dr] + offd->i[dr]; 76 77 /* generate l2g maps for rows and cols */ 78 ierr = ISCreateStride(comm,dr,str,1,&is);CHKERRQ(ierr); 79 ierr = ISLocalToGlobalMappingCreateIS(is,&rl2g);CHKERRQ(ierr); 80 ierr = ISDestroy(&is);CHKERRQ(ierr); 81 if (dr) { 82 ierr = PetscMalloc1(dc+oc,&aux);CHKERRQ(ierr); 83 for (i=0; i<dc; i++) aux[i] = i+stc; 84 for (i=0; i<oc; i++) aux[i+dc] = aij->garray[i]; 85 ierr = ISCreateGeneral(comm,dc+oc,aux,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 86 lc = dc+oc; 87 } else { 88 ierr = ISCreateGeneral(comm,0,NULL,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 89 lc = 0; 90 } 91 ierr = ISLocalToGlobalMappingCreateIS(is,&cl2g);CHKERRQ(ierr); 92 ierr = ISDestroy(&is);CHKERRQ(ierr); 93 94 /* create MATIS object */ 95 ierr = MatCreate(comm,newmat);CHKERRQ(ierr); 96 ierr = MatSetSizes(*newmat,dr,dc,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr); 97 ierr = MatSetType(*newmat,MATIS);CHKERRQ(ierr); 98 ierr = MatSetLocalToGlobalMapping(*newmat,rl2g,cl2g);CHKERRQ(ierr); 99 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 100 ierr = ISLocalToGlobalMappingDestroy(&cl2g);CHKERRQ(ierr); 101 102 /* merge local matrices */ 103 ierr = PetscMalloc1(nnz+dr+1,&aux);CHKERRQ(ierr); 104 ierr = PetscMalloc1(nnz,&data);CHKERRQ(ierr); 105 ii = aux; 106 jj = aux+dr+1; 107 aa = data; 108 *ii = *(di++) + *(oi++); 109 for (jd=0,jo=0,cum=0;*ii<nnz;cum++) 110 { 111 for (;jd<*di;jd++) { *jj++ = *dj++; *aa++ = *dd++; } 112 for (;jo<*oi;jo++) { *jj++ = *oj++ + dc; *aa++ = *od++; } 113 *(++ii) = *(di++) + *(oi++); 114 } 115 for (;cum<dr;cum++) *(++ii) = nnz; 116 ii = aux; 117 jj = aux+dr+1; 118 aa = data; 119 ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,dr,lc,ii,jj,aa,&lA);CHKERRQ(ierr); 120 121 /* create containers to destroy the data */ 122 ptrs[0] = aux; 123 ptrs[1] = data; 124 for (i=0; i<2; i++) { 125 PetscContainer c; 126 127 ierr = PetscContainerCreate(PETSC_COMM_SELF,&c);CHKERRQ(ierr); 128 ierr = PetscContainerSetPointer(c,ptrs[i]);CHKERRQ(ierr); 129 ierr = PetscContainerSetUserDestroy(c,MatISContainerDestroyArray_Private);CHKERRQ(ierr); 130 ierr = PetscObjectCompose((PetscObject)lA,names[i],(PetscObject)c);CHKERRQ(ierr); 131 ierr = PetscContainerDestroy(&c);CHKERRQ(ierr); 132 } 133 134 /* finalize matrix */ 135 ierr = MatISSetLocalMat(*newmat,lA);CHKERRQ(ierr); 136 ierr = MatDestroy(&lA);CHKERRQ(ierr); 137 ierr = MatAssemblyBegin(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 138 ierr = MatAssemblyEnd(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 139 PetscFunctionReturn(0); 140 } 141 142 /*@ 143 MatISSetUpSF - Setup star forest objects used by MatIS. 144 145 Collective on MPI_Comm 146 147 Input Parameters: 148 + A - the matrix 149 150 Level: advanced 151 152 Notes: This function does not need to be called by the user. 153 154 .keywords: matrix 155 156 .seealso: MatCreate(), MatCreateIS(), MatISSetPreallocation(), MatISGetLocalMat() 157 @*/ 158 PetscErrorCode MatISSetUpSF(Mat A) 159 { 160 PetscErrorCode ierr; 161 162 PetscFunctionBegin; 163 PetscValidHeaderSpecific(A,MAT_CLASSID,1); 164 PetscValidType(A,1); 165 ierr = PetscTryMethod(A,"MatISSetUpSF_C",(Mat),(A));CHKERRQ(ierr); 166 PetscFunctionReturn(0); 167 } 168 169 PETSC_INTERN PetscErrorCode MatConvert_Nest_IS(Mat A,MatType type,MatReuse reuse,Mat *newmat) 170 { 171 Mat **nest,*snest,**rnest,lA,B; 172 IS *iscol,*isrow,*islrow,*islcol; 173 ISLocalToGlobalMapping rl2g,cl2g; 174 MPI_Comm comm; 175 PetscInt *lr,*lc,*l2gidxs; 176 PetscInt i,j,nr,nc,rbs,cbs; 177 PetscBool convert,lreuse,*istrans; 178 PetscErrorCode ierr; 179 180 PetscFunctionBeginUser; 181 ierr = MatNestGetSubMats(A,&nr,&nc,&nest);CHKERRQ(ierr); 182 lreuse = PETSC_FALSE; 183 rnest = NULL; 184 if (reuse == MAT_REUSE_MATRIX) { 185 PetscBool ismatis,isnest; 186 187 ierr = PetscObjectTypeCompare((PetscObject)*newmat,MATIS,&ismatis);CHKERRQ(ierr); 188 if (!ismatis) SETERRQ1(PetscObjectComm((PetscObject)*newmat),PETSC_ERR_USER,"Cannot reuse matrix of type %s",((PetscObject)(*newmat))->type); 189 ierr = MatISGetLocalMat(*newmat,&lA);CHKERRQ(ierr); 190 ierr = PetscObjectTypeCompare((PetscObject)lA,MATNEST,&isnest);CHKERRQ(ierr); 191 if (isnest) { 192 ierr = MatNestGetSubMats(lA,&i,&j,&rnest);CHKERRQ(ierr); 193 lreuse = (PetscBool)(i == nr && j == nc); 194 if (!lreuse) rnest = NULL; 195 } 196 } 197 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 198 ierr = PetscCalloc2(nr,&lr,nc,&lc);CHKERRQ(ierr); 199 ierr = PetscCalloc6(nr,&isrow,nc,&iscol, 200 nr,&islrow,nc,&islcol, 201 nr*nc,&snest,nr*nc,&istrans);CHKERRQ(ierr); 202 ierr = MatNestGetISs(A,isrow,iscol);CHKERRQ(ierr); 203 for (i=0;i<nr;i++) { 204 for (j=0;j<nc;j++) { 205 PetscBool ismatis; 206 PetscInt l1,l2,lb1,lb2,ij=i*nc+j; 207 208 /* Null matrix pointers are allowed in MATNEST */ 209 if (!nest[i][j]) continue; 210 211 /* Nested matrices should be of type MATIS */ 212 ierr = PetscObjectTypeCompare((PetscObject)nest[i][j],MATTRANSPOSEMAT,&istrans[ij]);CHKERRQ(ierr); 213 if (istrans[ij]) { 214 Mat T,lT; 215 ierr = MatTransposeGetMat(nest[i][j],&T);CHKERRQ(ierr); 216 ierr = PetscObjectTypeCompare((PetscObject)T,MATIS,&ismatis);CHKERRQ(ierr); 217 if (!ismatis) SETERRQ2(comm,PETSC_ERR_SUP,"Cannot convert from MATNEST to MATIS! Matrix block (%D,%D) (transposed) is not of type MATIS",i,j); 218 ierr = MatISGetLocalMat(T,&lT);CHKERRQ(ierr); 219 ierr = MatCreateTranspose(lT,&snest[ij]);CHKERRQ(ierr); 220 } else { 221 ierr = PetscObjectTypeCompare((PetscObject)nest[i][j],MATIS,&ismatis);CHKERRQ(ierr); 222 if (!ismatis) SETERRQ2(comm,PETSC_ERR_SUP,"Cannot convert from MATNEST to MATIS! Matrix block (%D,%D) is not of type MATIS",i,j); 223 ierr = MatISGetLocalMat(nest[i][j],&snest[ij]);CHKERRQ(ierr); 224 } 225 226 /* Check compatibility of local sizes */ 227 ierr = MatGetSize(snest[ij],&l1,&l2);CHKERRQ(ierr); 228 ierr = MatGetBlockSizes(snest[ij],&lb1,&lb2);CHKERRQ(ierr); 229 if (!l1 || !l2) continue; 230 if (lr[i] && l1 != lr[i]) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot convert from MATNEST to MATIS! Matrix block (%D,%D) has invalid local size %D != %D",i,j,lr[i],l1); 231 if (lc[j] && l2 != lc[j]) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot convert from MATNEST to MATIS! Matrix block (%D,%D) has invalid local size %D != %D",i,j,lc[j],l2); 232 lr[i] = l1; 233 lc[j] = l2; 234 235 /* check compatibilty for local matrix reusage */ 236 if (rnest && !rnest[i][j] != !snest[ij]) lreuse = PETSC_FALSE; 237 } 238 } 239 240 #if defined (PETSC_USE_DEBUG) 241 /* Check compatibility of l2g maps for rows */ 242 for (i=0;i<nr;i++) { 243 rl2g = NULL; 244 for (j=0;j<nc;j++) { 245 PetscInt n1,n2; 246 247 if (!nest[i][j]) continue; 248 if (istrans[i*nc+j]) { 249 Mat T; 250 251 ierr = MatTransposeGetMat(nest[i][j],&T);CHKERRQ(ierr); 252 ierr = MatGetLocalToGlobalMapping(T,NULL,&cl2g);CHKERRQ(ierr); 253 } else { 254 ierr = MatGetLocalToGlobalMapping(nest[i][j],&cl2g,NULL);CHKERRQ(ierr); 255 } 256 ierr = ISLocalToGlobalMappingGetSize(cl2g,&n1);CHKERRQ(ierr); 257 if (!n1) continue; 258 if (!rl2g) { 259 rl2g = cl2g; 260 } else { 261 const PetscInt *idxs1,*idxs2; 262 PetscBool same; 263 264 ierr = ISLocalToGlobalMappingGetSize(rl2g,&n2);CHKERRQ(ierr); 265 if (n1 != n2) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot convert from MATNEST to MATIS! Matrix block (%D,%D) has invalid row l2gmap size %D != %D",i,j,n1,n2); 266 ierr = ISLocalToGlobalMappingGetIndices(cl2g,&idxs1);CHKERRQ(ierr); 267 ierr = ISLocalToGlobalMappingGetIndices(rl2g,&idxs2);CHKERRQ(ierr); 268 ierr = PetscMemcmp(idxs1,idxs2,n1*sizeof(PetscInt),&same);CHKERRQ(ierr); 269 ierr = ISLocalToGlobalMappingRestoreIndices(cl2g,&idxs1);CHKERRQ(ierr); 270 ierr = ISLocalToGlobalMappingRestoreIndices(rl2g,&idxs2);CHKERRQ(ierr); 271 if (!same) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot convert from MATNEST to MATIS! Matrix block (%D,%D) has invalid row l2gmap",i,j); 272 } 273 } 274 } 275 /* Check compatibility of l2g maps for columns */ 276 for (i=0;i<nc;i++) { 277 rl2g = NULL; 278 for (j=0;j<nr;j++) { 279 PetscInt n1,n2; 280 281 if (!nest[j][i]) continue; 282 if (istrans[j*nc+i]) { 283 Mat T; 284 285 ierr = MatTransposeGetMat(nest[j][i],&T);CHKERRQ(ierr); 286 ierr = MatGetLocalToGlobalMapping(T,&cl2g,NULL);CHKERRQ(ierr); 287 } else { 288 ierr = MatGetLocalToGlobalMapping(nest[j][i],NULL,&cl2g);CHKERRQ(ierr); 289 } 290 ierr = ISLocalToGlobalMappingGetSize(cl2g,&n1);CHKERRQ(ierr); 291 if (!n1) continue; 292 if (!rl2g) { 293 rl2g = cl2g; 294 } else { 295 const PetscInt *idxs1,*idxs2; 296 PetscBool same; 297 298 ierr = ISLocalToGlobalMappingGetSize(rl2g,&n2);CHKERRQ(ierr); 299 if (n1 != n2) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot convert from MATNEST to MATIS! Matrix block (%D,%D) has invalid column l2gmap size %D != %D",j,i,n1,n2); 300 ierr = ISLocalToGlobalMappingGetIndices(cl2g,&idxs1);CHKERRQ(ierr); 301 ierr = ISLocalToGlobalMappingGetIndices(rl2g,&idxs2);CHKERRQ(ierr); 302 ierr = PetscMemcmp(idxs1,idxs2,n1*sizeof(PetscInt),&same);CHKERRQ(ierr); 303 ierr = ISLocalToGlobalMappingRestoreIndices(cl2g,&idxs1);CHKERRQ(ierr); 304 ierr = ISLocalToGlobalMappingRestoreIndices(rl2g,&idxs2);CHKERRQ(ierr); 305 if (!same) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot convert from MATNEST to MATIS! Matrix block (%D,%D) has invalid column l2gmap",j,i); 306 } 307 } 308 } 309 #endif 310 311 B = NULL; 312 if (reuse != MAT_REUSE_MATRIX) { 313 PetscInt stl; 314 315 /* Create l2g map for the rows of the new matrix and index sets for the local MATNEST */ 316 for (i=0,stl=0;i<nr;i++) stl += lr[i]; 317 ierr = PetscMalloc1(stl,&l2gidxs);CHKERRQ(ierr); 318 for (i=0,stl=0;i<nr;i++) { 319 Mat usedmat; 320 Mat_IS *matis; 321 const PetscInt *idxs; 322 323 /* local IS for local NEST */ 324 ierr = ISCreateStride(PETSC_COMM_SELF,lr[i],stl,1,&islrow[i]);CHKERRQ(ierr); 325 326 /* l2gmap */ 327 j = 0; 328 usedmat = nest[i][j]; 329 while (!usedmat && j < nc-1) usedmat = nest[i][++j]; 330 if (!usedmat) SETERRQ(comm,PETSC_ERR_SUP,"Cannot find valid row mat"); 331 332 if (istrans[i*nc+j]) { 333 Mat T; 334 ierr = MatTransposeGetMat(usedmat,&T);CHKERRQ(ierr); 335 usedmat = T; 336 } 337 ierr = MatISSetUpSF(usedmat);CHKERRQ(ierr); 338 matis = (Mat_IS*)(usedmat->data); 339 ierr = ISGetIndices(isrow[i],&idxs);CHKERRQ(ierr); 340 if (istrans[i*nc+j]) { 341 ierr = PetscSFBcastBegin(matis->csf,MPIU_INT,idxs,l2gidxs+stl);CHKERRQ(ierr); 342 ierr = PetscSFBcastEnd(matis->csf,MPIU_INT,idxs,l2gidxs+stl);CHKERRQ(ierr); 343 } else { 344 ierr = PetscSFBcastBegin(matis->sf,MPIU_INT,idxs,l2gidxs+stl);CHKERRQ(ierr); 345 ierr = PetscSFBcastEnd(matis->sf,MPIU_INT,idxs,l2gidxs+stl);CHKERRQ(ierr); 346 } 347 ierr = ISRestoreIndices(isrow[i],&idxs);CHKERRQ(ierr); 348 stl += lr[i]; 349 } 350 ierr = ISLocalToGlobalMappingCreate(comm,1,stl,l2gidxs,PETSC_OWN_POINTER,&rl2g);CHKERRQ(ierr); 351 352 /* Create l2g map for columns of the new matrix and index sets for the local MATNEST */ 353 for (i=0,stl=0;i<nc;i++) stl += lc[i]; 354 ierr = PetscMalloc1(stl,&l2gidxs);CHKERRQ(ierr); 355 for (i=0,stl=0;i<nc;i++) { 356 Mat usedmat; 357 Mat_IS *matis; 358 const PetscInt *idxs; 359 360 /* local IS for local NEST */ 361 ierr = ISCreateStride(PETSC_COMM_SELF,lc[i],stl,1,&islcol[i]);CHKERRQ(ierr); 362 363 /* l2gmap */ 364 j = 0; 365 usedmat = nest[j][i]; 366 while (!usedmat && j < nr-1) usedmat = nest[++j][i]; 367 if (!usedmat) SETERRQ(comm,PETSC_ERR_SUP,"Cannot find valid column mat"); 368 if (istrans[j*nc+i]) { 369 Mat T; 370 ierr = MatTransposeGetMat(usedmat,&T);CHKERRQ(ierr); 371 usedmat = T; 372 } 373 ierr = MatISSetUpSF(usedmat);CHKERRQ(ierr); 374 matis = (Mat_IS*)(usedmat->data); 375 ierr = ISGetIndices(iscol[i],&idxs);CHKERRQ(ierr); 376 if (istrans[j*nc+i]) { 377 ierr = PetscSFBcastBegin(matis->sf,MPIU_INT,idxs,l2gidxs+stl);CHKERRQ(ierr); 378 ierr = PetscSFBcastEnd(matis->sf,MPIU_INT,idxs,l2gidxs+stl);CHKERRQ(ierr); 379 } else { 380 ierr = PetscSFBcastBegin(matis->csf,MPIU_INT,idxs,l2gidxs+stl);CHKERRQ(ierr); 381 ierr = PetscSFBcastEnd(matis->csf,MPIU_INT,idxs,l2gidxs+stl);CHKERRQ(ierr); 382 } 383 ierr = ISRestoreIndices(iscol[i],&idxs);CHKERRQ(ierr); 384 stl += lc[i]; 385 } 386 ierr = ISLocalToGlobalMappingCreate(comm,1,stl,l2gidxs,PETSC_OWN_POINTER,&cl2g);CHKERRQ(ierr); 387 388 /* Create MATIS */ 389 ierr = MatCreate(comm,&B);CHKERRQ(ierr); 390 ierr = MatSetSizes(B,A->rmap->n,A->cmap->n,A->rmap->N,A->cmap->N);CHKERRQ(ierr); 391 ierr = MatGetBlockSizes(A,&rbs,&cbs);CHKERRQ(ierr); 392 ierr = MatSetBlockSizes(B,rbs,cbs);CHKERRQ(ierr); 393 ierr = MatSetType(B,MATIS);CHKERRQ(ierr); 394 ierr = MatSetLocalToGlobalMapping(B,rl2g,cl2g);CHKERRQ(ierr); 395 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 396 ierr = ISLocalToGlobalMappingDestroy(&cl2g);CHKERRQ(ierr); 397 ierr = MatCreateNest(PETSC_COMM_SELF,nr,islrow,nc,islcol,snest,&lA);CHKERRQ(ierr); 398 for (i=0;i<nr*nc;i++) { 399 if (istrans[i]) { 400 ierr = MatDestroy(&snest[i]);CHKERRQ(ierr); 401 } 402 } 403 ierr = MatISSetLocalMat(B,lA);CHKERRQ(ierr); 404 ierr = MatDestroy(&lA);CHKERRQ(ierr); 405 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 406 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 407 if (reuse == MAT_INPLACE_MATRIX) { 408 ierr = MatHeaderReplace(A,&B);CHKERRQ(ierr); 409 } else { 410 *newmat = B; 411 } 412 } else { 413 if (lreuse) { 414 ierr = MatISGetLocalMat(*newmat,&lA);CHKERRQ(ierr); 415 for (i=0;i<nr;i++) { 416 for (j=0;j<nc;j++) { 417 if (snest[i*nc+j]) { 418 ierr = MatNestSetSubMat(lA,i,j,snest[i*nc+j]);CHKERRQ(ierr); 419 if (istrans[i*nc+j]) { 420 ierr = MatDestroy(&snest[i*nc+j]);CHKERRQ(ierr); 421 } 422 } 423 } 424 } 425 } else { 426 PetscInt stl; 427 for (i=0,stl=0;i<nr;i++) { 428 ierr = ISCreateStride(PETSC_COMM_SELF,lr[i],stl,1,&islrow[i]);CHKERRQ(ierr); 429 stl += lr[i]; 430 } 431 for (i=0,stl=0;i<nc;i++) { 432 ierr = ISCreateStride(PETSC_COMM_SELF,lc[i],stl,1,&islcol[i]);CHKERRQ(ierr); 433 stl += lc[i]; 434 } 435 ierr = MatCreateNest(PETSC_COMM_SELF,nr,islrow,nc,islcol,snest,&lA);CHKERRQ(ierr); 436 if (istrans[i]) { 437 ierr = MatDestroy(&snest[i]);CHKERRQ(ierr); 438 } 439 ierr = MatISSetLocalMat(*newmat,lA);CHKERRQ(ierr); 440 ierr = MatDestroy(&lA);CHKERRQ(ierr); 441 } 442 ierr = MatAssemblyBegin(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 443 ierr = MatAssemblyEnd(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 444 } 445 446 /* Create local matrix in MATNEST format */ 447 convert = PETSC_FALSE; 448 ierr = PetscOptionsGetBool(NULL,((PetscObject)A)->prefix,"-matis_convert_local_nest",&convert,NULL);CHKERRQ(ierr); 449 if (convert) { 450 Mat M; 451 MatISLocalFields lf; 452 PetscContainer c; 453 454 ierr = MatISGetLocalMat(*newmat,&lA);CHKERRQ(ierr); 455 ierr = MatConvert(lA,MATAIJ,MAT_INITIAL_MATRIX,&M);CHKERRQ(ierr); 456 ierr = MatISSetLocalMat(*newmat,M);CHKERRQ(ierr); 457 ierr = MatDestroy(&M);CHKERRQ(ierr); 458 459 /* attach local fields to the matrix */ 460 ierr = PetscNew(&lf);CHKERRQ(ierr); 461 ierr = PetscCalloc2(nr,&lf->rf,nc,&lf->cf);CHKERRQ(ierr); 462 for (i=0;i<nr;i++) { 463 PetscInt n,st; 464 465 ierr = ISGetLocalSize(islrow[i],&n);CHKERRQ(ierr); 466 ierr = ISStrideGetInfo(islrow[i],&st,NULL);CHKERRQ(ierr); 467 ierr = ISCreateStride(comm,n,st,1,&lf->rf[i]);CHKERRQ(ierr); 468 } 469 for (i=0;i<nc;i++) { 470 PetscInt n,st; 471 472 ierr = ISGetLocalSize(islcol[i],&n);CHKERRQ(ierr); 473 ierr = ISStrideGetInfo(islcol[i],&st,NULL);CHKERRQ(ierr); 474 ierr = ISCreateStride(comm,n,st,1,&lf->cf[i]);CHKERRQ(ierr); 475 } 476 lf->nr = nr; 477 lf->nc = nc; 478 ierr = PetscContainerCreate(PetscObjectComm((PetscObject)(*newmat)),&c);CHKERRQ(ierr); 479 ierr = PetscContainerSetPointer(c,lf);CHKERRQ(ierr); 480 ierr = PetscContainerSetUserDestroy(c,MatISContainerDestroyFields_Private);CHKERRQ(ierr); 481 ierr = PetscObjectCompose((PetscObject)(*newmat),"_convert_nest_lfields",(PetscObject)c);CHKERRQ(ierr); 482 ierr = PetscContainerDestroy(&c);CHKERRQ(ierr); 483 } 484 485 /* Free workspace */ 486 for (i=0;i<nr;i++) { 487 ierr = ISDestroy(&islrow[i]);CHKERRQ(ierr); 488 } 489 for (i=0;i<nc;i++) { 490 ierr = ISDestroy(&islcol[i]);CHKERRQ(ierr); 491 } 492 ierr = PetscFree6(isrow,iscol,islrow,islcol,snest,istrans);CHKERRQ(ierr); 493 ierr = PetscFree2(lr,lc);CHKERRQ(ierr); 494 PetscFunctionReturn(0); 495 } 496 497 static PetscErrorCode MatDiagonalScale_IS(Mat A, Vec l, Vec r) 498 { 499 Mat_IS *matis = (Mat_IS*)A->data; 500 Vec ll,rr; 501 const PetscScalar *Y,*X; 502 PetscScalar *x,*y; 503 PetscErrorCode ierr; 504 505 PetscFunctionBegin; 506 ierr = MatISSetUpSF(A);CHKERRQ(ierr); 507 if (l) { 508 ll = matis->y; 509 ierr = VecGetArrayRead(l,&Y);CHKERRQ(ierr); 510 ierr = VecGetArray(ll,&y);CHKERRQ(ierr); 511 ierr = PetscSFBcastBegin(matis->sf,MPIU_SCALAR,Y,y);CHKERRQ(ierr); 512 } else { 513 ll = NULL; 514 } 515 if (r) { 516 rr = matis->x; 517 ierr = VecGetArrayRead(r,&X);CHKERRQ(ierr); 518 ierr = VecGetArray(rr,&x);CHKERRQ(ierr); 519 ierr = PetscSFBcastBegin(matis->csf,MPIU_SCALAR,X,x);CHKERRQ(ierr); 520 } else { 521 rr = NULL; 522 } 523 if (ll) { 524 ierr = PetscSFBcastEnd(matis->sf,MPIU_SCALAR,Y,y);CHKERRQ(ierr); 525 ierr = VecRestoreArrayRead(l,&Y);CHKERRQ(ierr); 526 ierr = VecRestoreArray(ll,&y);CHKERRQ(ierr); 527 } 528 if (rr) { 529 ierr = PetscSFBcastEnd(matis->csf,MPIU_SCALAR,X,x);CHKERRQ(ierr); 530 ierr = VecRestoreArrayRead(r,&X);CHKERRQ(ierr); 531 ierr = VecRestoreArray(rr,&x);CHKERRQ(ierr); 532 } 533 ierr = MatDiagonalScale(matis->A,ll,rr);CHKERRQ(ierr); 534 PetscFunctionReturn(0); 535 } 536 537 static PetscErrorCode MatGetInfo_IS(Mat A,MatInfoType flag,MatInfo *ginfo) 538 { 539 Mat_IS *matis = (Mat_IS*)A->data; 540 MatInfo info; 541 PetscReal isend[6],irecv[6]; 542 PetscInt bs; 543 PetscErrorCode ierr; 544 545 PetscFunctionBegin; 546 ierr = MatGetBlockSize(A,&bs);CHKERRQ(ierr); 547 if (matis->A->ops->getinfo) { 548 ierr = MatGetInfo(matis->A,MAT_LOCAL,&info);CHKERRQ(ierr); 549 isend[0] = info.nz_used; 550 isend[1] = info.nz_allocated; 551 isend[2] = info.nz_unneeded; 552 isend[3] = info.memory; 553 isend[4] = info.mallocs; 554 } else { 555 isend[0] = 0.; 556 isend[1] = 0.; 557 isend[2] = 0.; 558 isend[3] = 0.; 559 isend[4] = 0.; 560 } 561 isend[5] = matis->A->num_ass; 562 if (flag == MAT_LOCAL) { 563 ginfo->nz_used = isend[0]; 564 ginfo->nz_allocated = isend[1]; 565 ginfo->nz_unneeded = isend[2]; 566 ginfo->memory = isend[3]; 567 ginfo->mallocs = isend[4]; 568 ginfo->assemblies = isend[5]; 569 } else if (flag == MAT_GLOBAL_MAX) { 570 ierr = MPIU_Allreduce(isend,irecv,6,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 571 572 ginfo->nz_used = irecv[0]; 573 ginfo->nz_allocated = irecv[1]; 574 ginfo->nz_unneeded = irecv[2]; 575 ginfo->memory = irecv[3]; 576 ginfo->mallocs = irecv[4]; 577 ginfo->assemblies = irecv[5]; 578 } else if (flag == MAT_GLOBAL_SUM) { 579 ierr = MPIU_Allreduce(isend,irecv,5,MPIU_REAL,MPIU_SUM,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 580 581 ginfo->nz_used = irecv[0]; 582 ginfo->nz_allocated = irecv[1]; 583 ginfo->nz_unneeded = irecv[2]; 584 ginfo->memory = irecv[3]; 585 ginfo->mallocs = irecv[4]; 586 ginfo->assemblies = A->num_ass; 587 } 588 ginfo->block_size = bs; 589 ginfo->fill_ratio_given = 0; 590 ginfo->fill_ratio_needed = 0; 591 ginfo->factor_mallocs = 0; 592 PetscFunctionReturn(0); 593 } 594 595 PetscErrorCode MatTranspose_IS(Mat A,MatReuse reuse,Mat *B) 596 { 597 Mat C,lC,lA; 598 PetscErrorCode ierr; 599 600 PetscFunctionBegin; 601 if (reuse == MAT_INITIAL_MATRIX || reuse == MAT_INPLACE_MATRIX) { 602 ISLocalToGlobalMapping rl2g,cl2g; 603 ierr = MatCreate(PetscObjectComm((PetscObject)A),&C);CHKERRQ(ierr); 604 ierr = MatSetSizes(C,A->cmap->n,A->rmap->n,A->cmap->N,A->rmap->N);CHKERRQ(ierr); 605 ierr = MatSetBlockSizes(C,PetscAbs(A->cmap->bs),PetscAbs(A->rmap->bs));CHKERRQ(ierr); 606 ierr = MatSetType(C,MATIS);CHKERRQ(ierr); 607 ierr = MatGetLocalToGlobalMapping(A,&rl2g,&cl2g);CHKERRQ(ierr); 608 ierr = MatSetLocalToGlobalMapping(C,cl2g,rl2g);CHKERRQ(ierr); 609 } else { 610 C = *B; 611 } 612 613 /* perform local transposition */ 614 ierr = MatISGetLocalMat(A,&lA);CHKERRQ(ierr); 615 ierr = MatTranspose(lA,MAT_INITIAL_MATRIX,&lC);CHKERRQ(ierr); 616 ierr = MatISSetLocalMat(C,lC);CHKERRQ(ierr); 617 ierr = MatDestroy(&lC);CHKERRQ(ierr); 618 619 if (reuse == MAT_INITIAL_MATRIX || reuse == MAT_REUSE_MATRIX) { 620 *B = C; 621 } else { 622 ierr = MatHeaderMerge(A,&C);CHKERRQ(ierr); 623 } 624 ierr = MatAssemblyBegin(*B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 625 ierr = MatAssemblyEnd(*B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 626 PetscFunctionReturn(0); 627 } 628 629 PetscErrorCode MatDiagonalSet_IS(Mat A,Vec D,InsertMode insmode) 630 { 631 Mat_IS *is = (Mat_IS*)A->data; 632 PetscErrorCode ierr; 633 634 PetscFunctionBegin; 635 if (!D) { /* this code branch is used by MatShift_IS */ 636 ierr = VecSet(is->y,1.);CHKERRQ(ierr); 637 } else { 638 ierr = VecScatterBegin(is->rctx,D,is->y,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 639 ierr = VecScatterEnd(is->rctx,D,is->y,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 640 } 641 ierr = VecPointwiseDivide(is->y,is->y,is->counter);CHKERRQ(ierr); 642 ierr = MatDiagonalSet(is->A,is->y,insmode);CHKERRQ(ierr); 643 PetscFunctionReturn(0); 644 } 645 646 PetscErrorCode MatShift_IS(Mat A,PetscScalar a) 647 { 648 PetscErrorCode ierr; 649 650 PetscFunctionBegin; 651 ierr = MatDiagonalSet_IS(A,NULL,ADD_VALUES);CHKERRQ(ierr); 652 PetscFunctionReturn(0); 653 } 654 655 static PetscErrorCode MatSetValuesLocal_SubMat_IS(Mat A,PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols,const PetscScalar *values,InsertMode addv) 656 { 657 PetscErrorCode ierr; 658 Mat_IS *is = (Mat_IS*)A->data; 659 PetscInt rows_l[MATIS_MAX_ENTRIES_INSERTION],cols_l[MATIS_MAX_ENTRIES_INSERTION]; 660 661 PetscFunctionBegin; 662 #if defined(PETSC_USE_DEBUG) 663 if (m > MATIS_MAX_ENTRIES_INSERTION || n > MATIS_MAX_ENTRIES_INSERTION) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_SUP,"Number of row/column indices must be <= %D: they are %D %D",MATIS_MAX_ENTRIES_INSERTION,m,n); 664 #endif 665 ierr = ISLocalToGlobalMappingApply(A->rmap->mapping,m,rows,rows_l);CHKERRQ(ierr); 666 ierr = ISLocalToGlobalMappingApply(A->cmap->mapping,n,cols,cols_l);CHKERRQ(ierr); 667 ierr = MatSetValues(is->A,m,rows_l,n,cols_l,values,addv);CHKERRQ(ierr); 668 PetscFunctionReturn(0); 669 } 670 671 static PetscErrorCode MatSetValuesBlockedLocal_SubMat_IS(Mat A,PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols,const PetscScalar *values,InsertMode addv) 672 { 673 PetscErrorCode ierr; 674 Mat_IS *is = (Mat_IS*)A->data; 675 PetscInt rows_l[MATIS_MAX_ENTRIES_INSERTION],cols_l[MATIS_MAX_ENTRIES_INSERTION]; 676 677 PetscFunctionBegin; 678 #if defined(PETSC_USE_DEBUG) 679 if (m > MATIS_MAX_ENTRIES_INSERTION || n > MATIS_MAX_ENTRIES_INSERTION) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_SUP,"Number of row/column block indices must be <= %D: they are %D %D",MATIS_MAX_ENTRIES_INSERTION,m,n); 680 #endif 681 ierr = ISLocalToGlobalMappingApplyBlock(A->rmap->mapping,m,rows,rows_l);CHKERRQ(ierr); 682 ierr = ISLocalToGlobalMappingApplyBlock(A->cmap->mapping,n,cols,cols_l);CHKERRQ(ierr); 683 ierr = MatSetValuesBlocked(is->A,m,rows_l,n,cols_l,values,addv);CHKERRQ(ierr); 684 PetscFunctionReturn(0); 685 } 686 687 static PetscErrorCode PetscLayoutMapLocal_Private(PetscLayout map,PetscInt N,const PetscInt idxs[], PetscInt *on,PetscInt **oidxs,PetscInt **ogidxs) 688 { 689 PetscInt *owners = map->range; 690 PetscInt n = map->n; 691 PetscSF sf; 692 PetscInt *lidxs,*work = NULL; 693 PetscSFNode *ridxs; 694 PetscMPIInt rank; 695 PetscInt r, p = 0, len = 0; 696 PetscErrorCode ierr; 697 698 PetscFunctionBegin; 699 if (on) *on = 0; /* squelch -Wmaybe-uninitialized */ 700 /* Create SF where leaves are input idxs and roots are owned idxs (code adapted from MatZeroRowsMapLocal_Private) */ 701 ierr = MPI_Comm_rank(map->comm,&rank);CHKERRQ(ierr); 702 ierr = PetscMalloc1(n,&lidxs);CHKERRQ(ierr); 703 for (r = 0; r < n; ++r) lidxs[r] = -1; 704 ierr = PetscMalloc1(N,&ridxs);CHKERRQ(ierr); 705 for (r = 0; r < N; ++r) { 706 const PetscInt idx = idxs[r]; 707 if (idx < 0 || map->N <= idx) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Index %D out of range [0,%D)",idx,map->N); 708 if (idx < owners[p] || owners[p+1] <= idx) { /* short-circuit the search if the last p owns this idx too */ 709 ierr = PetscLayoutFindOwner(map,idx,&p);CHKERRQ(ierr); 710 } 711 ridxs[r].rank = p; 712 ridxs[r].index = idxs[r] - owners[p]; 713 } 714 ierr = PetscSFCreate(map->comm,&sf);CHKERRQ(ierr); 715 ierr = PetscSFSetGraph(sf,n,N,NULL,PETSC_OWN_POINTER,ridxs,PETSC_OWN_POINTER);CHKERRQ(ierr); 716 ierr = PetscSFReduceBegin(sf,MPIU_INT,(PetscInt*)idxs,lidxs,MPI_LOR);CHKERRQ(ierr); 717 ierr = PetscSFReduceEnd(sf,MPIU_INT,(PetscInt*)idxs,lidxs,MPI_LOR);CHKERRQ(ierr); 718 if (ogidxs) { /* communicate global idxs */ 719 PetscInt cum = 0,start,*work2; 720 721 ierr = PetscMalloc1(n,&work);CHKERRQ(ierr); 722 ierr = PetscCalloc1(N,&work2);CHKERRQ(ierr); 723 for (r = 0; r < N; ++r) if (idxs[r] >=0) cum++; 724 ierr = MPI_Scan(&cum,&start,1,MPIU_INT,MPI_SUM,map->comm);CHKERRQ(ierr); 725 start -= cum; 726 cum = 0; 727 for (r = 0; r < N; ++r) if (idxs[r] >=0) work2[r] = start+cum++; 728 ierr = PetscSFReduceBegin(sf,MPIU_INT,work2,work,MPIU_REPLACE);CHKERRQ(ierr); 729 ierr = PetscSFReduceEnd(sf,MPIU_INT,work2,work,MPIU_REPLACE);CHKERRQ(ierr); 730 ierr = PetscFree(work2);CHKERRQ(ierr); 731 } 732 ierr = PetscSFDestroy(&sf);CHKERRQ(ierr); 733 /* Compress and put in indices */ 734 for (r = 0; r < n; ++r) 735 if (lidxs[r] >= 0) { 736 if (work) work[len] = work[r]; 737 lidxs[len++] = r; 738 } 739 if (on) *on = len; 740 if (oidxs) *oidxs = lidxs; 741 if (ogidxs) *ogidxs = work; 742 PetscFunctionReturn(0); 743 } 744 745 static PetscErrorCode MatCreateSubMatrix_IS(Mat mat,IS irow,IS icol,MatReuse scall,Mat *newmat) 746 { 747 Mat locmat,newlocmat; 748 Mat_IS *newmatis; 749 #if defined(PETSC_USE_DEBUG) 750 Vec rtest,ltest; 751 const PetscScalar *array; 752 #endif 753 const PetscInt *idxs; 754 PetscInt i,m,n; 755 PetscErrorCode ierr; 756 757 PetscFunctionBegin; 758 if (scall == MAT_REUSE_MATRIX) { 759 PetscBool ismatis; 760 761 ierr = PetscObjectTypeCompare((PetscObject)*newmat,MATIS,&ismatis);CHKERRQ(ierr); 762 if (!ismatis) SETERRQ(PetscObjectComm((PetscObject)*newmat),PETSC_ERR_ARG_WRONG,"Cannot reuse matrix! Not of MATIS type"); 763 newmatis = (Mat_IS*)(*newmat)->data; 764 if (!newmatis->getsub_ris) SETERRQ(PetscObjectComm((PetscObject)*newmat),PETSC_ERR_ARG_WRONG,"Cannot reuse matrix! Misses local row IS"); 765 if (!newmatis->getsub_cis) SETERRQ(PetscObjectComm((PetscObject)*newmat),PETSC_ERR_ARG_WRONG,"Cannot reuse matrix! Misses local col IS"); 766 } 767 /* irow and icol may not have duplicate entries */ 768 #if defined(PETSC_USE_DEBUG) 769 ierr = MatCreateVecs(mat,<est,&rtest);CHKERRQ(ierr); 770 ierr = ISGetLocalSize(irow,&n);CHKERRQ(ierr); 771 ierr = ISGetIndices(irow,&idxs);CHKERRQ(ierr); 772 for (i=0;i<n;i++) { 773 ierr = VecSetValue(rtest,idxs[i],1.0,ADD_VALUES);CHKERRQ(ierr); 774 } 775 ierr = VecAssemblyBegin(rtest);CHKERRQ(ierr); 776 ierr = VecAssemblyEnd(rtest);CHKERRQ(ierr); 777 ierr = VecGetLocalSize(rtest,&n);CHKERRQ(ierr); 778 ierr = VecGetOwnershipRange(rtest,&m,NULL);CHKERRQ(ierr); 779 ierr = VecGetArrayRead(rtest,&array);CHKERRQ(ierr); 780 for (i=0;i<n;i++) if (array[i] != 0. && array[i] != 1.) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Index %D counted %D times! Irow may not have duplicate entries",i+m,(PetscInt)PetscRealPart(array[i])); 781 ierr = VecRestoreArrayRead(rtest,&array);CHKERRQ(ierr); 782 ierr = ISRestoreIndices(irow,&idxs);CHKERRQ(ierr); 783 ierr = ISGetLocalSize(icol,&n);CHKERRQ(ierr); 784 ierr = ISGetIndices(icol,&idxs);CHKERRQ(ierr); 785 for (i=0;i<n;i++) { 786 ierr = VecSetValue(ltest,idxs[i],1.0,ADD_VALUES);CHKERRQ(ierr); 787 } 788 ierr = VecAssemblyBegin(ltest);CHKERRQ(ierr); 789 ierr = VecAssemblyEnd(ltest);CHKERRQ(ierr); 790 ierr = VecGetLocalSize(ltest,&n);CHKERRQ(ierr); 791 ierr = VecGetOwnershipRange(ltest,&m,NULL);CHKERRQ(ierr); 792 ierr = VecGetArrayRead(ltest,&array);CHKERRQ(ierr); 793 for (i=0;i<n;i++) if (array[i] != 0. && array[i] != 1.) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Index %D counted %D times! Icol may not have duplicate entries",i+m,(PetscInt)PetscRealPart(array[i])); 794 ierr = VecRestoreArrayRead(ltest,&array);CHKERRQ(ierr); 795 ierr = ISRestoreIndices(icol,&idxs);CHKERRQ(ierr); 796 ierr = VecDestroy(&rtest);CHKERRQ(ierr); 797 ierr = VecDestroy(<est);CHKERRQ(ierr); 798 #endif 799 if (scall == MAT_INITIAL_MATRIX) { 800 Mat_IS *matis = (Mat_IS*)mat->data; 801 ISLocalToGlobalMapping rl2g; 802 IS is; 803 PetscInt *lidxs,*lgidxs,*newgidxs; 804 PetscInt ll,newloc; 805 MPI_Comm comm; 806 807 ierr = PetscObjectGetComm((PetscObject)mat,&comm);CHKERRQ(ierr); 808 ierr = ISGetLocalSize(irow,&m);CHKERRQ(ierr); 809 ierr = ISGetLocalSize(icol,&n);CHKERRQ(ierr); 810 ierr = MatCreate(comm,newmat);CHKERRQ(ierr); 811 ierr = MatSetType(*newmat,MATIS);CHKERRQ(ierr); 812 ierr = MatSetSizes(*newmat,m,n,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr); 813 /* communicate irow to their owners in the layout */ 814 ierr = ISGetIndices(irow,&idxs);CHKERRQ(ierr); 815 ierr = PetscLayoutMapLocal_Private(mat->rmap,m,idxs,&ll,&lidxs,&lgidxs);CHKERRQ(ierr); 816 ierr = ISRestoreIndices(irow,&idxs);CHKERRQ(ierr); 817 ierr = MatISSetUpSF(mat);CHKERRQ(ierr); 818 ierr = PetscMemzero(matis->sf_rootdata,matis->sf->nroots*sizeof(PetscInt));CHKERRQ(ierr); 819 for (i=0;i<ll;i++) matis->sf_rootdata[lidxs[i]] = lgidxs[i]+1; 820 ierr = PetscFree(lidxs);CHKERRQ(ierr); 821 ierr = PetscFree(lgidxs);CHKERRQ(ierr); 822 ierr = PetscSFBcastBegin(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata);CHKERRQ(ierr); 823 ierr = PetscSFBcastEnd(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata);CHKERRQ(ierr); 824 for (i=0,newloc=0;i<matis->sf->nleaves;i++) if (matis->sf_leafdata[i]) newloc++; 825 ierr = PetscMalloc1(newloc,&newgidxs);CHKERRQ(ierr); 826 ierr = PetscMalloc1(newloc,&lidxs);CHKERRQ(ierr); 827 for (i=0,newloc=0;i<matis->sf->nleaves;i++) 828 if (matis->sf_leafdata[i]) { 829 lidxs[newloc] = i; 830 newgidxs[newloc++] = matis->sf_leafdata[i]-1; 831 } 832 ierr = ISCreateGeneral(comm,newloc,newgidxs,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 833 ierr = ISLocalToGlobalMappingCreateIS(is,&rl2g);CHKERRQ(ierr); 834 ierr = ISDestroy(&is);CHKERRQ(ierr); 835 /* local is to extract local submatrix */ 836 newmatis = (Mat_IS*)(*newmat)->data; 837 ierr = ISCreateGeneral(comm,newloc,lidxs,PETSC_OWN_POINTER,&newmatis->getsub_ris);CHKERRQ(ierr); 838 if (mat->congruentlayouts == -1) { /* first time we compare rows and cols layouts */ 839 PetscBool cong; 840 ierr = PetscLayoutCompare(mat->rmap,mat->cmap,&cong);CHKERRQ(ierr); 841 if (cong) mat->congruentlayouts = 1; 842 else mat->congruentlayouts = 0; 843 } 844 if (mat->congruentlayouts && irow == icol) { 845 ierr = MatSetLocalToGlobalMapping(*newmat,rl2g,rl2g);CHKERRQ(ierr); 846 ierr = PetscObjectReference((PetscObject)newmatis->getsub_ris);CHKERRQ(ierr); 847 newmatis->getsub_cis = newmatis->getsub_ris; 848 } else { 849 ISLocalToGlobalMapping cl2g; 850 851 /* communicate icol to their owners in the layout */ 852 ierr = ISGetIndices(icol,&idxs);CHKERRQ(ierr); 853 ierr = PetscLayoutMapLocal_Private(mat->cmap,n,idxs,&ll,&lidxs,&lgidxs);CHKERRQ(ierr); 854 ierr = ISRestoreIndices(icol,&idxs);CHKERRQ(ierr); 855 ierr = PetscMemzero(matis->csf_rootdata,matis->csf->nroots*sizeof(PetscInt));CHKERRQ(ierr); 856 for (i=0;i<ll;i++) matis->csf_rootdata[lidxs[i]] = lgidxs[i]+1; 857 ierr = PetscFree(lidxs);CHKERRQ(ierr); 858 ierr = PetscFree(lgidxs);CHKERRQ(ierr); 859 ierr = PetscSFBcastBegin(matis->csf,MPIU_INT,matis->csf_rootdata,matis->csf_leafdata);CHKERRQ(ierr); 860 ierr = PetscSFBcastEnd(matis->csf,MPIU_INT,matis->csf_rootdata,matis->csf_leafdata);CHKERRQ(ierr); 861 for (i=0,newloc=0;i<matis->csf->nleaves;i++) if (matis->csf_leafdata[i]) newloc++; 862 ierr = PetscMalloc1(newloc,&newgidxs);CHKERRQ(ierr); 863 ierr = PetscMalloc1(newloc,&lidxs);CHKERRQ(ierr); 864 for (i=0,newloc=0;i<matis->csf->nleaves;i++) 865 if (matis->csf_leafdata[i]) { 866 lidxs[newloc] = i; 867 newgidxs[newloc++] = matis->csf_leafdata[i]-1; 868 } 869 ierr = ISCreateGeneral(comm,newloc,newgidxs,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 870 ierr = ISLocalToGlobalMappingCreateIS(is,&cl2g);CHKERRQ(ierr); 871 ierr = ISDestroy(&is);CHKERRQ(ierr); 872 /* local is to extract local submatrix */ 873 ierr = ISCreateGeneral(comm,newloc,lidxs,PETSC_OWN_POINTER,&newmatis->getsub_cis);CHKERRQ(ierr); 874 ierr = MatSetLocalToGlobalMapping(*newmat,rl2g,cl2g);CHKERRQ(ierr); 875 ierr = ISLocalToGlobalMappingDestroy(&cl2g);CHKERRQ(ierr); 876 } 877 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 878 } else { 879 ierr = MatISGetLocalMat(*newmat,&newlocmat);CHKERRQ(ierr); 880 } 881 ierr = MatISGetLocalMat(mat,&locmat);CHKERRQ(ierr); 882 newmatis = (Mat_IS*)(*newmat)->data; 883 ierr = MatCreateSubMatrix(locmat,newmatis->getsub_ris,newmatis->getsub_cis,scall,&newlocmat);CHKERRQ(ierr); 884 if (scall == MAT_INITIAL_MATRIX) { 885 ierr = MatISSetLocalMat(*newmat,newlocmat);CHKERRQ(ierr); 886 ierr = MatDestroy(&newlocmat);CHKERRQ(ierr); 887 } 888 ierr = MatAssemblyBegin(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 889 ierr = MatAssemblyEnd(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 890 PetscFunctionReturn(0); 891 } 892 893 static PetscErrorCode MatCopy_IS(Mat A,Mat B,MatStructure str) 894 { 895 Mat_IS *a = (Mat_IS*)A->data,*b; 896 PetscBool ismatis; 897 PetscErrorCode ierr; 898 899 PetscFunctionBegin; 900 ierr = PetscObjectTypeCompare((PetscObject)B,MATIS,&ismatis);CHKERRQ(ierr); 901 if (!ismatis) SETERRQ(PetscObjectComm((PetscObject)B),PETSC_ERR_SUP,"Need to be implemented"); 902 b = (Mat_IS*)B->data; 903 ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr); 904 PetscFunctionReturn(0); 905 } 906 907 static PetscErrorCode MatMissingDiagonal_IS(Mat A,PetscBool *missing,PetscInt *d) 908 { 909 Vec v; 910 const PetscScalar *array; 911 PetscInt i,n; 912 PetscErrorCode ierr; 913 914 PetscFunctionBegin; 915 *missing = PETSC_FALSE; 916 ierr = MatCreateVecs(A,NULL,&v);CHKERRQ(ierr); 917 ierr = MatGetDiagonal(A,v);CHKERRQ(ierr); 918 ierr = VecGetLocalSize(v,&n);CHKERRQ(ierr); 919 ierr = VecGetArrayRead(v,&array);CHKERRQ(ierr); 920 for (i=0;i<n;i++) if (array[i] == 0.) break; 921 ierr = VecRestoreArrayRead(v,&array);CHKERRQ(ierr); 922 ierr = VecDestroy(&v);CHKERRQ(ierr); 923 if (i != n) *missing = PETSC_TRUE; 924 if (d) { 925 *d = -1; 926 if (*missing) { 927 PetscInt rstart; 928 ierr = MatGetOwnershipRange(A,&rstart,NULL);CHKERRQ(ierr); 929 *d = i+rstart; 930 } 931 } 932 PetscFunctionReturn(0); 933 } 934 935 static PetscErrorCode MatISSetUpSF_IS(Mat B) 936 { 937 Mat_IS *matis = (Mat_IS*)(B->data); 938 const PetscInt *gidxs; 939 PetscInt nleaves; 940 PetscErrorCode ierr; 941 942 PetscFunctionBegin; 943 if (matis->sf) PetscFunctionReturn(0); 944 ierr = PetscSFCreate(PetscObjectComm((PetscObject)B),&matis->sf);CHKERRQ(ierr); 945 ierr = ISLocalToGlobalMappingGetIndices(B->rmap->mapping,&gidxs);CHKERRQ(ierr); 946 ierr = ISLocalToGlobalMappingGetSize(B->rmap->mapping,&nleaves);CHKERRQ(ierr); 947 ierr = PetscSFSetGraphLayout(matis->sf,B->rmap,nleaves,NULL,PETSC_OWN_POINTER,gidxs);CHKERRQ(ierr); 948 ierr = ISLocalToGlobalMappingRestoreIndices(B->rmap->mapping,&gidxs);CHKERRQ(ierr); 949 ierr = PetscMalloc2(matis->sf->nroots,&matis->sf_rootdata,matis->sf->nleaves,&matis->sf_leafdata);CHKERRQ(ierr); 950 if (B->rmap->mapping != B->cmap->mapping) { /* setup SF for columns */ 951 ierr = ISLocalToGlobalMappingGetSize(B->cmap->mapping,&nleaves);CHKERRQ(ierr); 952 ierr = PetscSFCreate(PetscObjectComm((PetscObject)B),&matis->csf);CHKERRQ(ierr); 953 ierr = ISLocalToGlobalMappingGetIndices(B->cmap->mapping,&gidxs);CHKERRQ(ierr); 954 ierr = PetscSFSetGraphLayout(matis->csf,B->cmap,nleaves,NULL,PETSC_OWN_POINTER,gidxs);CHKERRQ(ierr); 955 ierr = ISLocalToGlobalMappingRestoreIndices(B->cmap->mapping,&gidxs);CHKERRQ(ierr); 956 ierr = PetscMalloc2(matis->csf->nroots,&matis->csf_rootdata,matis->csf->nleaves,&matis->csf_leafdata);CHKERRQ(ierr); 957 } else { 958 matis->csf = matis->sf; 959 matis->csf_leafdata = matis->sf_leafdata; 960 matis->csf_rootdata = matis->sf_rootdata; 961 } 962 PetscFunctionReturn(0); 963 } 964 965 /*@ 966 MatISSetPreallocation - Preallocates memory for a MATIS parallel matrix. 967 968 Collective on MPI_Comm 969 970 Input Parameters: 971 + B - the matrix 972 . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 973 (same value is used for all local rows) 974 . d_nnz - array containing the number of nonzeros in the various rows of the 975 DIAGONAL portion of the local submatrix (possibly different for each row) 976 or NULL, if d_nz is used to specify the nonzero structure. 977 The size of this array is equal to the number of local rows, i.e 'm'. 978 For matrices that will be factored, you must leave room for (and set) 979 the diagonal entry even if it is zero. 980 . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 981 submatrix (same value is used for all local rows). 982 - o_nnz - array containing the number of nonzeros in the various rows of the 983 OFF-DIAGONAL portion of the local submatrix (possibly different for 984 each row) or NULL, if o_nz is used to specify the nonzero 985 structure. The size of this array is equal to the number 986 of local rows, i.e 'm'. 987 988 If the *_nnz parameter is given then the *_nz parameter is ignored 989 990 Level: intermediate 991 992 Notes: This function has the same interface as the MPIAIJ preallocation routine in order to simplify the transition 993 from the asssembled format to the unassembled one. It overestimates the preallocation of MATIS local 994 matrices; for exact preallocation, the user should set the preallocation directly on local matrix objects. 995 996 .keywords: matrix 997 998 .seealso: MatCreate(), MatCreateIS(), MatMPIAIJSetPreallocation(), MatISGetLocalMat(), MATIS 999 @*/ 1000 PetscErrorCode MatISSetPreallocation(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 1001 { 1002 PetscErrorCode ierr; 1003 1004 PetscFunctionBegin; 1005 PetscValidHeaderSpecific(B,MAT_CLASSID,1); 1006 PetscValidType(B,1); 1007 ierr = PetscTryMethod(B,"MatISSetPreallocation_C",(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[]),(B,d_nz,d_nnz,o_nz,o_nnz));CHKERRQ(ierr); 1008 PetscFunctionReturn(0); 1009 } 1010 1011 static PetscErrorCode MatISSetPreallocation_IS(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 1012 { 1013 Mat_IS *matis = (Mat_IS*)(B->data); 1014 PetscInt bs,i,nlocalcols; 1015 PetscErrorCode ierr; 1016 1017 PetscFunctionBegin; 1018 if (!matis->A) SETERRQ(PetscObjectComm((PetscObject)B),PETSC_ERR_SUP,"You should first call MatSetLocalToGlobalMapping"); 1019 ierr = MatISSetUpSF(B);CHKERRQ(ierr); 1020 1021 if (!d_nnz) for (i=0;i<matis->sf->nroots;i++) matis->sf_rootdata[i] = d_nz; 1022 else for (i=0;i<matis->sf->nroots;i++) matis->sf_rootdata[i] = d_nnz[i]; 1023 1024 if (!o_nnz) for (i=0;i<matis->sf->nroots;i++) matis->sf_rootdata[i] += o_nz; 1025 else for (i=0;i<matis->sf->nroots;i++) matis->sf_rootdata[i] += o_nnz[i]; 1026 1027 ierr = PetscSFBcastBegin(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata);CHKERRQ(ierr); 1028 ierr = MatGetSize(matis->A,NULL,&nlocalcols);CHKERRQ(ierr); 1029 ierr = MatGetBlockSize(matis->A,&bs);CHKERRQ(ierr); 1030 ierr = PetscSFBcastEnd(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata);CHKERRQ(ierr); 1031 1032 for (i=0;i<matis->sf->nleaves;i++) matis->sf_leafdata[i] = PetscMin(matis->sf_leafdata[i],nlocalcols); 1033 ierr = MatSeqAIJSetPreallocation(matis->A,0,matis->sf_leafdata);CHKERRQ(ierr); 1034 #if defined(PETSC_HAVE_HYPRE) 1035 ierr = MatHYPRESetPreallocation(matis->A,0,matis->sf_leafdata,0,NULL);CHKERRQ(ierr); 1036 #endif 1037 1038 for (i=0;i<matis->sf->nleaves/bs;i++) matis->sf_leafdata[i] = matis->sf_leafdata[i*bs]/bs; 1039 ierr = MatSeqBAIJSetPreallocation(matis->A,bs,0,matis->sf_leafdata);CHKERRQ(ierr); 1040 1041 for (i=0;i<matis->sf->nleaves/bs;i++) matis->sf_leafdata[i] = matis->sf_leafdata[i]-i; 1042 ierr = MatSeqSBAIJSetPreallocation(matis->A,bs,0,matis->sf_leafdata);CHKERRQ(ierr); 1043 1044 /* for other matrix types */ 1045 ierr = MatSetUp(matis->A);CHKERRQ(ierr); 1046 PetscFunctionReturn(0); 1047 } 1048 1049 PETSC_EXTERN PetscErrorCode MatISSetMPIXAIJPreallocation_Private(Mat A, Mat B, PetscBool maxreduce) 1050 { 1051 Mat_IS *matis = (Mat_IS*)(A->data); 1052 PetscInt *my_dnz,*my_onz,*dnz,*onz,*mat_ranges,*row_ownership; 1053 const PetscInt *global_indices_r,*global_indices_c; 1054 PetscInt i,j,bs,rows,cols; 1055 PetscInt lrows,lcols; 1056 PetscInt local_rows,local_cols; 1057 PetscMPIInt nsubdomains; 1058 PetscBool isdense,issbaij; 1059 PetscErrorCode ierr; 1060 1061 PetscFunctionBegin; 1062 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)A),&nsubdomains);CHKERRQ(ierr); 1063 ierr = MatGetSize(A,&rows,&cols);CHKERRQ(ierr); 1064 ierr = MatGetBlockSize(A,&bs);CHKERRQ(ierr); 1065 ierr = MatGetSize(matis->A,&local_rows,&local_cols);CHKERRQ(ierr); 1066 ierr = PetscObjectTypeCompare((PetscObject)matis->A,MATSEQDENSE,&isdense);CHKERRQ(ierr); 1067 ierr = PetscObjectTypeCompare((PetscObject)matis->A,MATSEQSBAIJ,&issbaij);CHKERRQ(ierr); 1068 ierr = ISLocalToGlobalMappingGetIndices(A->rmap->mapping,&global_indices_r);CHKERRQ(ierr); 1069 if (A->rmap->mapping != A->cmap->mapping) { 1070 ierr = ISLocalToGlobalMappingGetIndices(A->cmap->mapping,&global_indices_c);CHKERRQ(ierr); 1071 } else { 1072 global_indices_c = global_indices_r; 1073 } 1074 1075 if (issbaij) { 1076 ierr = MatGetRowUpperTriangular(matis->A);CHKERRQ(ierr); 1077 } 1078 /* 1079 An SF reduce is needed to sum up properly on shared rows. 1080 Note that generally preallocation is not exact, since it overestimates nonzeros 1081 */ 1082 ierr = MatISSetUpSF(A);CHKERRQ(ierr); 1083 ierr = MatGetLocalSize(A,&lrows,&lcols);CHKERRQ(ierr); 1084 ierr = MatPreallocateInitialize(PetscObjectComm((PetscObject)A),lrows,lcols,dnz,onz);CHKERRQ(ierr); 1085 /* All processes need to compute entire row ownership */ 1086 ierr = PetscMalloc1(rows,&row_ownership);CHKERRQ(ierr); 1087 ierr = MatGetOwnershipRanges(A,(const PetscInt**)&mat_ranges);CHKERRQ(ierr); 1088 for (i=0;i<nsubdomains;i++) { 1089 for (j=mat_ranges[i];j<mat_ranges[i+1];j++) { 1090 row_ownership[j] = i; 1091 } 1092 } 1093 ierr = MatGetOwnershipRangesColumn(A,(const PetscInt**)&mat_ranges);CHKERRQ(ierr); 1094 1095 /* 1096 my_dnz and my_onz contains exact contribution to preallocation from each local mat 1097 then, they will be summed up properly. This way, preallocation is always sufficient 1098 */ 1099 ierr = PetscCalloc2(local_rows,&my_dnz,local_rows,&my_onz);CHKERRQ(ierr); 1100 /* preallocation as a MATAIJ */ 1101 if (isdense) { /* special case for dense local matrices */ 1102 for (i=0;i<local_rows;i++) { 1103 PetscInt owner = row_ownership[global_indices_r[i]]; 1104 for (j=0;j<local_cols;j++) { 1105 PetscInt index_col = global_indices_c[j]; 1106 if (index_col > mat_ranges[owner]-1 && index_col < mat_ranges[owner+1] ) { /* diag block */ 1107 my_dnz[i] += 1; 1108 } else { /* offdiag block */ 1109 my_onz[i] += 1; 1110 } 1111 } 1112 } 1113 } else if (matis->A->ops->getrowij) { 1114 const PetscInt *ii,*jj,*jptr; 1115 PetscBool done; 1116 ierr = MatGetRowIJ(matis->A,0,PETSC_FALSE,PETSC_FALSE,&local_rows,&ii,&jj,&done);CHKERRQ(ierr); 1117 if (!done) SETERRQ(PetscObjectComm((PetscObject)(matis->A)),PETSC_ERR_PLIB,"Error in MatGetRowIJ"); 1118 jptr = jj; 1119 for (i=0;i<local_rows;i++) { 1120 PetscInt index_row = global_indices_r[i]; 1121 for (j=0;j<ii[i+1]-ii[i];j++,jptr++) { 1122 PetscInt owner = row_ownership[index_row]; 1123 PetscInt index_col = global_indices_c[*jptr]; 1124 if (index_col > mat_ranges[owner]-1 && index_col < mat_ranges[owner+1] ) { /* diag block */ 1125 my_dnz[i] += 1; 1126 } else { /* offdiag block */ 1127 my_onz[i] += 1; 1128 } 1129 /* same as before, interchanging rows and cols */ 1130 if (issbaij && index_col != index_row) { 1131 owner = row_ownership[index_col]; 1132 if (index_row > mat_ranges[owner]-1 && index_row < mat_ranges[owner+1] ) { 1133 my_dnz[*jptr] += 1; 1134 } else { 1135 my_onz[*jptr] += 1; 1136 } 1137 } 1138 } 1139 } 1140 ierr = MatRestoreRowIJ(matis->A,0,PETSC_FALSE,PETSC_FALSE,&local_rows,&ii,&jj,&done);CHKERRQ(ierr); 1141 if (!done) SETERRQ(PetscObjectComm((PetscObject)(matis->A)),PETSC_ERR_PLIB,"Error in MatRestoreRowIJ"); 1142 } else { /* loop over rows and use MatGetRow */ 1143 for (i=0;i<local_rows;i++) { 1144 const PetscInt *cols; 1145 PetscInt ncols,index_row = global_indices_r[i]; 1146 ierr = MatGetRow(matis->A,i,&ncols,&cols,NULL);CHKERRQ(ierr); 1147 for (j=0;j<ncols;j++) { 1148 PetscInt owner = row_ownership[index_row]; 1149 PetscInt index_col = global_indices_c[cols[j]]; 1150 if (index_col > mat_ranges[owner]-1 && index_col < mat_ranges[owner+1] ) { /* diag block */ 1151 my_dnz[i] += 1; 1152 } else { /* offdiag block */ 1153 my_onz[i] += 1; 1154 } 1155 /* same as before, interchanging rows and cols */ 1156 if (issbaij && index_col != index_row) { 1157 owner = row_ownership[index_col]; 1158 if (index_row > mat_ranges[owner]-1 && index_row < mat_ranges[owner+1] ) { 1159 my_dnz[cols[j]] += 1; 1160 } else { 1161 my_onz[cols[j]] += 1; 1162 } 1163 } 1164 } 1165 ierr = MatRestoreRow(matis->A,i,&ncols,&cols,NULL);CHKERRQ(ierr); 1166 } 1167 } 1168 if (global_indices_c != global_indices_r) { 1169 ierr = ISLocalToGlobalMappingRestoreIndices(A->cmap->mapping,&global_indices_c);CHKERRQ(ierr); 1170 } 1171 ierr = ISLocalToGlobalMappingRestoreIndices(A->rmap->mapping,&global_indices_r);CHKERRQ(ierr); 1172 ierr = PetscFree(row_ownership);CHKERRQ(ierr); 1173 1174 /* Reduce my_dnz and my_onz */ 1175 if (maxreduce) { 1176 ierr = PetscSFReduceBegin(matis->sf,MPIU_INT,my_dnz,dnz,MPI_MAX);CHKERRQ(ierr); 1177 ierr = PetscSFReduceBegin(matis->sf,MPIU_INT,my_onz,onz,MPI_MAX);CHKERRQ(ierr); 1178 ierr = PetscSFReduceEnd(matis->sf,MPIU_INT,my_dnz,dnz,MPI_MAX);CHKERRQ(ierr); 1179 ierr = PetscSFReduceEnd(matis->sf,MPIU_INT,my_onz,onz,MPI_MAX);CHKERRQ(ierr); 1180 } else { 1181 ierr = PetscSFReduceBegin(matis->sf,MPIU_INT,my_dnz,dnz,MPI_SUM);CHKERRQ(ierr); 1182 ierr = PetscSFReduceBegin(matis->sf,MPIU_INT,my_onz,onz,MPI_SUM);CHKERRQ(ierr); 1183 ierr = PetscSFReduceEnd(matis->sf,MPIU_INT,my_dnz,dnz,MPI_SUM);CHKERRQ(ierr); 1184 ierr = PetscSFReduceEnd(matis->sf,MPIU_INT,my_onz,onz,MPI_SUM);CHKERRQ(ierr); 1185 } 1186 ierr = PetscFree2(my_dnz,my_onz);CHKERRQ(ierr); 1187 1188 /* Resize preallocation if overestimated */ 1189 for (i=0;i<lrows;i++) { 1190 dnz[i] = PetscMin(dnz[i],lcols); 1191 onz[i] = PetscMin(onz[i],cols-lcols); 1192 } 1193 1194 /* Set preallocation */ 1195 ierr = MatMPIAIJSetPreallocation(B,0,dnz,0,onz);CHKERRQ(ierr); 1196 for (i=0;i<lrows/bs;i++) { 1197 dnz[i] = dnz[i*bs]/bs; 1198 onz[i] = onz[i*bs]/bs; 1199 } 1200 ierr = MatMPIBAIJSetPreallocation(B,bs,0,dnz,0,onz);CHKERRQ(ierr); 1201 ierr = MatMPISBAIJSetPreallocation(B,bs,0,dnz,0,onz);CHKERRQ(ierr); 1202 ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 1203 if (issbaij) { 1204 ierr = MatRestoreRowUpperTriangular(matis->A);CHKERRQ(ierr); 1205 } 1206 PetscFunctionReturn(0); 1207 } 1208 1209 static PetscErrorCode MatISGetMPIXAIJ_IS(Mat mat, MatReuse reuse, Mat *M) 1210 { 1211 Mat_IS *matis = (Mat_IS*)(mat->data); 1212 Mat local_mat; 1213 /* info on mat */ 1214 PetscInt bs,rows,cols,lrows,lcols; 1215 PetscInt local_rows,local_cols; 1216 PetscBool isseqdense,isseqsbaij,isseqaij,isseqbaij; 1217 #if defined (PETSC_USE_DEBUG) 1218 PetscBool lb[4],bb[4]; 1219 #endif 1220 PetscMPIInt nsubdomains; 1221 /* values insertion */ 1222 PetscScalar *array; 1223 /* work */ 1224 PetscErrorCode ierr; 1225 1226 PetscFunctionBegin; 1227 /* get info from mat */ 1228 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)mat),&nsubdomains);CHKERRQ(ierr); 1229 if (nsubdomains == 1) { 1230 Mat B; 1231 IS rows,cols; 1232 IS irows,icols; 1233 const PetscInt *ridxs,*cidxs; 1234 1235 ierr = ISLocalToGlobalMappingGetIndices(mat->rmap->mapping,&ridxs);CHKERRQ(ierr); 1236 ierr = ISLocalToGlobalMappingGetIndices(mat->cmap->mapping,&cidxs);CHKERRQ(ierr); 1237 ierr = ISCreateGeneral(PETSC_COMM_SELF,mat->rmap->n,ridxs,PETSC_USE_POINTER,&rows);CHKERRQ(ierr); 1238 ierr = ISCreateGeneral(PETSC_COMM_SELF,mat->cmap->n,cidxs,PETSC_USE_POINTER,&cols);CHKERRQ(ierr); 1239 ierr = ISLocalToGlobalMappingRestoreIndices(mat->rmap->mapping,&ridxs);CHKERRQ(ierr); 1240 ierr = ISLocalToGlobalMappingRestoreIndices(mat->cmap->mapping,&cidxs);CHKERRQ(ierr); 1241 ierr = ISSetPermutation(rows);CHKERRQ(ierr); 1242 ierr = ISSetPermutation(cols);CHKERRQ(ierr); 1243 ierr = ISInvertPermutation(rows,mat->rmap->n,&irows);CHKERRQ(ierr); 1244 ierr = ISInvertPermutation(cols,mat->cmap->n,&icols);CHKERRQ(ierr); 1245 ierr = ISDestroy(&cols);CHKERRQ(ierr); 1246 ierr = ISDestroy(&rows);CHKERRQ(ierr); 1247 ierr = MatConvert(matis->A,MATAIJ,MAT_INITIAL_MATRIX,&B);CHKERRQ(ierr); 1248 ierr = MatCreateSubMatrix(B,irows,icols,reuse,M);CHKERRQ(ierr); 1249 ierr = MatDestroy(&B);CHKERRQ(ierr); 1250 ierr = ISDestroy(&icols);CHKERRQ(ierr); 1251 ierr = ISDestroy(&irows);CHKERRQ(ierr); 1252 PetscFunctionReturn(0); 1253 } 1254 ierr = MatGetSize(mat,&rows,&cols);CHKERRQ(ierr); 1255 ierr = MatGetBlockSize(mat,&bs);CHKERRQ(ierr); 1256 ierr = MatGetLocalSize(mat,&lrows,&lcols);CHKERRQ(ierr); 1257 ierr = MatGetSize(matis->A,&local_rows,&local_cols);CHKERRQ(ierr); 1258 ierr = PetscObjectTypeCompare((PetscObject)matis->A,MATSEQDENSE,&isseqdense);CHKERRQ(ierr); 1259 ierr = PetscObjectTypeCompare((PetscObject)matis->A,MATSEQAIJ,&isseqaij);CHKERRQ(ierr); 1260 ierr = PetscObjectTypeCompare((PetscObject)matis->A,MATSEQBAIJ,&isseqbaij);CHKERRQ(ierr); 1261 ierr = PetscObjectTypeCompare((PetscObject)matis->A,MATSEQSBAIJ,&isseqsbaij);CHKERRQ(ierr); 1262 if (!isseqdense && !isseqaij && !isseqbaij && !isseqsbaij) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Not for matrix type %s",((PetscObject)(matis->A))->type_name); 1263 #if defined (PETSC_USE_DEBUG) 1264 lb[0] = isseqdense; 1265 lb[1] = isseqaij; 1266 lb[2] = isseqbaij; 1267 lb[3] = isseqsbaij; 1268 ierr = MPIU_Allreduce(lb,bb,4,MPIU_BOOL,MPI_LAND,PetscObjectComm((PetscObject)mat));CHKERRQ(ierr); 1269 if (!bb[0] && !bb[1] && !bb[2] && !bb[3]) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Local matrices must have the same type"); 1270 #endif 1271 1272 if (reuse == MAT_INITIAL_MATRIX) { 1273 ierr = MatCreate(PetscObjectComm((PetscObject)mat),M);CHKERRQ(ierr); 1274 ierr = MatSetSizes(*M,lrows,lcols,rows,cols);CHKERRQ(ierr); 1275 ierr = MatSetBlockSize(*M,bs);CHKERRQ(ierr); 1276 if (!isseqsbaij) { 1277 ierr = MatSetType(*M,MATAIJ);CHKERRQ(ierr); 1278 } else { 1279 ierr = MatSetType(*M,MATSBAIJ);CHKERRQ(ierr); 1280 } 1281 ierr = MatISSetMPIXAIJPreallocation_Private(mat,*M,PETSC_FALSE);CHKERRQ(ierr); 1282 } else { 1283 PetscInt mbs,mrows,mcols,mlrows,mlcols; 1284 /* some checks */ 1285 ierr = MatGetBlockSize(*M,&mbs);CHKERRQ(ierr); 1286 ierr = MatGetSize(*M,&mrows,&mcols);CHKERRQ(ierr); 1287 ierr = MatGetLocalSize(*M,&mlrows,&mlcols);CHKERRQ(ierr); 1288 if (mrows != rows) SETERRQ2(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse matrix. Wrong number of rows (%d != %d)",rows,mrows); 1289 if (mcols != cols) SETERRQ2(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse matrix. Wrong number of cols (%d != %d)",cols,mcols); 1290 if (mlrows != lrows) SETERRQ2(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse matrix. Wrong number of local rows (%d != %d)",lrows,mlrows); 1291 if (mlcols != lcols) SETERRQ2(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse matrix. Wrong number of local cols (%d != %d)",lcols,mlcols); 1292 if (mbs != bs) SETERRQ2(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse matrix. Wrong block size (%d != %d)",bs,mbs); 1293 ierr = MatZeroEntries(*M);CHKERRQ(ierr); 1294 } 1295 1296 if (isseqsbaij) { 1297 ierr = MatConvert(matis->A,MATSEQBAIJ,MAT_INITIAL_MATRIX,&local_mat);CHKERRQ(ierr); 1298 } else { 1299 ierr = PetscObjectReference((PetscObject)matis->A);CHKERRQ(ierr); 1300 local_mat = matis->A; 1301 } 1302 1303 /* Set values */ 1304 ierr = MatSetLocalToGlobalMapping(*M,mat->rmap->mapping,mat->cmap->mapping);CHKERRQ(ierr); 1305 if (isseqdense) { /* special case for dense local matrices */ 1306 PetscInt i,*dummy; 1307 1308 ierr = PetscMalloc1(PetscMax(local_rows,local_cols),&dummy);CHKERRQ(ierr); 1309 for (i=0;i<PetscMax(local_rows,local_cols);i++) dummy[i] = i; 1310 ierr = MatSetOption(*M,MAT_ROW_ORIENTED,PETSC_FALSE);CHKERRQ(ierr); 1311 ierr = MatDenseGetArray(local_mat,&array);CHKERRQ(ierr); 1312 ierr = MatSetValuesLocal(*M,local_rows,dummy,local_cols,dummy,array,ADD_VALUES);CHKERRQ(ierr); 1313 ierr = MatDenseRestoreArray(local_mat,&array);CHKERRQ(ierr); 1314 ierr = PetscFree(dummy);CHKERRQ(ierr); 1315 } else if (isseqaij) { 1316 PetscInt i,nvtxs,*xadj,*adjncy; 1317 PetscBool done; 1318 1319 ierr = MatGetRowIJ(local_mat,0,PETSC_FALSE,PETSC_FALSE,&nvtxs,(const PetscInt**)&xadj,(const PetscInt**)&adjncy,&done);CHKERRQ(ierr); 1320 if (!done) SETERRQ(PetscObjectComm((PetscObject)local_mat),PETSC_ERR_PLIB,"Error in MatGetRowIJ"); 1321 ierr = MatSeqAIJGetArray(local_mat,&array);CHKERRQ(ierr); 1322 for (i=0;i<nvtxs;i++) { 1323 ierr = MatSetValuesLocal(*M,1,&i,xadj[i+1]-xadj[i],adjncy+xadj[i],array+xadj[i],ADD_VALUES);CHKERRQ(ierr); 1324 } 1325 ierr = MatRestoreRowIJ(local_mat,0,PETSC_FALSE,PETSC_FALSE,&nvtxs,(const PetscInt**)&xadj,(const PetscInt**)&adjncy,&done);CHKERRQ(ierr); 1326 if (!done) SETERRQ(PetscObjectComm((PetscObject)local_mat),PETSC_ERR_PLIB,"Error in MatRestoreRowIJ"); 1327 ierr = MatSeqAIJRestoreArray(local_mat,&array);CHKERRQ(ierr); 1328 } else { /* very basic values insertion for all other matrix types */ 1329 PetscInt i; 1330 1331 for (i=0;i<local_rows;i++) { 1332 PetscInt j; 1333 const PetscInt *local_indices_cols; 1334 1335 ierr = MatGetRow(local_mat,i,&j,&local_indices_cols,(const PetscScalar**)&array);CHKERRQ(ierr); 1336 ierr = MatSetValuesLocal(*M,1,&i,j,local_indices_cols,array,ADD_VALUES);CHKERRQ(ierr); 1337 ierr = MatRestoreRow(local_mat,i,&j,&local_indices_cols,(const PetscScalar**)&array);CHKERRQ(ierr); 1338 } 1339 } 1340 ierr = MatAssemblyBegin(*M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1341 ierr = MatDestroy(&local_mat);CHKERRQ(ierr); 1342 ierr = MatAssemblyEnd(*M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1343 if (isseqdense) { 1344 ierr = MatSetOption(*M,MAT_ROW_ORIENTED,PETSC_TRUE);CHKERRQ(ierr); 1345 } 1346 PetscFunctionReturn(0); 1347 } 1348 1349 /*@ 1350 MatISGetMPIXAIJ - Converts MATIS matrix into a parallel AIJ format 1351 1352 Input Parameter: 1353 . mat - the matrix (should be of type MATIS) 1354 . reuse - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 1355 1356 Output Parameter: 1357 . newmat - the matrix in AIJ format 1358 1359 Level: developer 1360 1361 Notes: mat and *newmat cannot be the same object when MAT_REUSE_MATRIX is requested. 1362 1363 .seealso: MATIS 1364 @*/ 1365 PetscErrorCode MatISGetMPIXAIJ(Mat mat, MatReuse reuse, Mat *newmat) 1366 { 1367 PetscErrorCode ierr; 1368 1369 PetscFunctionBegin; 1370 PetscValidHeaderSpecific(mat,MAT_CLASSID,1); 1371 PetscValidLogicalCollectiveEnum(mat,reuse,2); 1372 PetscValidPointer(newmat,3); 1373 if (reuse != MAT_INITIAL_MATRIX) { 1374 PetscValidHeaderSpecific(*newmat,MAT_CLASSID,3); 1375 PetscCheckSameComm(mat,1,*newmat,3); 1376 if (mat == *newmat) SETERRQ(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse the same matrix"); 1377 } 1378 ierr = PetscUseMethod(mat,"MatISGetMPIXAIJ_C",(Mat,MatReuse,Mat*),(mat,reuse,newmat));CHKERRQ(ierr); 1379 PetscFunctionReturn(0); 1380 } 1381 1382 PetscErrorCode MatDuplicate_IS(Mat mat,MatDuplicateOption op,Mat *newmat) 1383 { 1384 PetscErrorCode ierr; 1385 Mat_IS *matis = (Mat_IS*)(mat->data); 1386 PetscInt bs,m,n,M,N; 1387 Mat B,localmat; 1388 1389 PetscFunctionBegin; 1390 ierr = MatGetBlockSize(mat,&bs);CHKERRQ(ierr); 1391 ierr = MatGetSize(mat,&M,&N);CHKERRQ(ierr); 1392 ierr = MatGetLocalSize(mat,&m,&n);CHKERRQ(ierr); 1393 ierr = MatCreateIS(PetscObjectComm((PetscObject)mat),bs,m,n,M,N,mat->rmap->mapping,mat->cmap->mapping,&B);CHKERRQ(ierr); 1394 ierr = MatDuplicate(matis->A,op,&localmat);CHKERRQ(ierr); 1395 ierr = MatISSetLocalMat(B,localmat);CHKERRQ(ierr); 1396 ierr = MatDestroy(&localmat);CHKERRQ(ierr); 1397 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1398 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1399 *newmat = B; 1400 PetscFunctionReturn(0); 1401 } 1402 1403 static PetscErrorCode MatIsHermitian_IS(Mat A,PetscReal tol,PetscBool *flg) 1404 { 1405 PetscErrorCode ierr; 1406 Mat_IS *matis = (Mat_IS*)A->data; 1407 PetscBool local_sym; 1408 1409 PetscFunctionBegin; 1410 ierr = MatIsHermitian(matis->A,tol,&local_sym);CHKERRQ(ierr); 1411 ierr = MPIU_Allreduce(&local_sym,flg,1,MPIU_BOOL,MPI_LAND,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 1412 PetscFunctionReturn(0); 1413 } 1414 1415 static PetscErrorCode MatIsSymmetric_IS(Mat A,PetscReal tol,PetscBool *flg) 1416 { 1417 PetscErrorCode ierr; 1418 Mat_IS *matis = (Mat_IS*)A->data; 1419 PetscBool local_sym; 1420 1421 PetscFunctionBegin; 1422 ierr = MatIsSymmetric(matis->A,tol,&local_sym);CHKERRQ(ierr); 1423 ierr = MPIU_Allreduce(&local_sym,flg,1,MPIU_BOOL,MPI_LAND,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 1424 PetscFunctionReturn(0); 1425 } 1426 1427 static PetscErrorCode MatIsStructurallySymmetric_IS(Mat A,PetscBool *flg) 1428 { 1429 PetscErrorCode ierr; 1430 Mat_IS *matis = (Mat_IS*)A->data; 1431 PetscBool local_sym; 1432 1433 PetscFunctionBegin; 1434 if (A->rmap->mapping != A->cmap->mapping) { 1435 *flg = PETSC_FALSE; 1436 PetscFunctionReturn(0); 1437 } 1438 ierr = MatIsStructurallySymmetric(matis->A,&local_sym);CHKERRQ(ierr); 1439 ierr = MPIU_Allreduce(&local_sym,flg,1,MPIU_BOOL,MPI_LAND,PetscObjectComm((PetscObject)A));CHKERRQ(ierr); 1440 PetscFunctionReturn(0); 1441 } 1442 1443 static PetscErrorCode MatDestroy_IS(Mat A) 1444 { 1445 PetscErrorCode ierr; 1446 Mat_IS *b = (Mat_IS*)A->data; 1447 1448 PetscFunctionBegin; 1449 ierr = MatDestroy(&b->A);CHKERRQ(ierr); 1450 ierr = VecScatterDestroy(&b->cctx);CHKERRQ(ierr); 1451 ierr = VecScatterDestroy(&b->rctx);CHKERRQ(ierr); 1452 ierr = VecDestroy(&b->x);CHKERRQ(ierr); 1453 ierr = VecDestroy(&b->y);CHKERRQ(ierr); 1454 ierr = VecDestroy(&b->counter);CHKERRQ(ierr); 1455 ierr = ISDestroy(&b->getsub_ris);CHKERRQ(ierr); 1456 ierr = ISDestroy(&b->getsub_cis);CHKERRQ(ierr); 1457 if (b->sf != b->csf) { 1458 ierr = PetscSFDestroy(&b->csf);CHKERRQ(ierr); 1459 ierr = PetscFree2(b->csf_rootdata,b->csf_leafdata);CHKERRQ(ierr); 1460 } 1461 ierr = PetscSFDestroy(&b->sf);CHKERRQ(ierr); 1462 ierr = PetscFree2(b->sf_rootdata,b->sf_leafdata);CHKERRQ(ierr); 1463 ierr = PetscFree(A->data);CHKERRQ(ierr); 1464 ierr = PetscObjectChangeTypeName((PetscObject)A,0);CHKERRQ(ierr); 1465 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISGetLocalMat_C",NULL);CHKERRQ(ierr); 1466 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetLocalMat_C",NULL);CHKERRQ(ierr); 1467 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISGetMPIXAIJ_C",NULL);CHKERRQ(ierr); 1468 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetPreallocation_C",NULL);CHKERRQ(ierr); 1469 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetUpSF_C",NULL);CHKERRQ(ierr); 1470 PetscFunctionReturn(0); 1471 } 1472 1473 static PetscErrorCode MatMult_IS(Mat A,Vec x,Vec y) 1474 { 1475 PetscErrorCode ierr; 1476 Mat_IS *is = (Mat_IS*)A->data; 1477 PetscScalar zero = 0.0; 1478 1479 PetscFunctionBegin; 1480 /* scatter the global vector x into the local work vector */ 1481 ierr = VecScatterBegin(is->cctx,x,is->x,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1482 ierr = VecScatterEnd(is->cctx,x,is->x,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1483 1484 /* multiply the local matrix */ 1485 ierr = MatMult(is->A,is->x,is->y);CHKERRQ(ierr); 1486 1487 /* scatter product back into global memory */ 1488 ierr = VecSet(y,zero);CHKERRQ(ierr); 1489 ierr = VecScatterBegin(is->rctx,is->y,y,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1490 ierr = VecScatterEnd(is->rctx,is->y,y,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1491 PetscFunctionReturn(0); 1492 } 1493 1494 static PetscErrorCode MatMultAdd_IS(Mat A,Vec v1,Vec v2,Vec v3) 1495 { 1496 Vec temp_vec; 1497 PetscErrorCode ierr; 1498 1499 PetscFunctionBegin; /* v3 = v2 + A * v1.*/ 1500 if (v3 != v2) { 1501 ierr = MatMult(A,v1,v3);CHKERRQ(ierr); 1502 ierr = VecAXPY(v3,1.0,v2);CHKERRQ(ierr); 1503 } else { 1504 ierr = VecDuplicate(v2,&temp_vec);CHKERRQ(ierr); 1505 ierr = MatMult(A,v1,temp_vec);CHKERRQ(ierr); 1506 ierr = VecAXPY(temp_vec,1.0,v2);CHKERRQ(ierr); 1507 ierr = VecCopy(temp_vec,v3);CHKERRQ(ierr); 1508 ierr = VecDestroy(&temp_vec);CHKERRQ(ierr); 1509 } 1510 PetscFunctionReturn(0); 1511 } 1512 1513 static PetscErrorCode MatMultTranspose_IS(Mat A,Vec y,Vec x) 1514 { 1515 Mat_IS *is = (Mat_IS*)A->data; 1516 PetscErrorCode ierr; 1517 1518 PetscFunctionBegin; 1519 /* scatter the global vector x into the local work vector */ 1520 ierr = VecScatterBegin(is->rctx,y,is->y,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1521 ierr = VecScatterEnd(is->rctx,y,is->y,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1522 1523 /* multiply the local matrix */ 1524 ierr = MatMultTranspose(is->A,is->y,is->x);CHKERRQ(ierr); 1525 1526 /* scatter product back into global vector */ 1527 ierr = VecSet(x,0);CHKERRQ(ierr); 1528 ierr = VecScatterBegin(is->cctx,is->x,x,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1529 ierr = VecScatterEnd(is->cctx,is->x,x,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1530 PetscFunctionReturn(0); 1531 } 1532 1533 static PetscErrorCode MatMultTransposeAdd_IS(Mat A,Vec v1,Vec v2,Vec v3) 1534 { 1535 Vec temp_vec; 1536 PetscErrorCode ierr; 1537 1538 PetscFunctionBegin; /* v3 = v2 + A' * v1.*/ 1539 if (v3 != v2) { 1540 ierr = MatMultTranspose(A,v1,v3);CHKERRQ(ierr); 1541 ierr = VecAXPY(v3,1.0,v2);CHKERRQ(ierr); 1542 } else { 1543 ierr = VecDuplicate(v2,&temp_vec);CHKERRQ(ierr); 1544 ierr = MatMultTranspose(A,v1,temp_vec);CHKERRQ(ierr); 1545 ierr = VecAXPY(temp_vec,1.0,v2);CHKERRQ(ierr); 1546 ierr = VecCopy(temp_vec,v3);CHKERRQ(ierr); 1547 ierr = VecDestroy(&temp_vec);CHKERRQ(ierr); 1548 } 1549 PetscFunctionReturn(0); 1550 } 1551 1552 static PetscErrorCode MatView_IS(Mat A,PetscViewer viewer) 1553 { 1554 Mat_IS *a = (Mat_IS*)A->data; 1555 PetscErrorCode ierr; 1556 PetscViewer sviewer; 1557 PetscBool isascii,view = PETSC_TRUE; 1558 1559 PetscFunctionBegin; 1560 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&isascii);CHKERRQ(ierr); 1561 if (isascii) { 1562 PetscViewerFormat format; 1563 1564 ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr); 1565 if (format == PETSC_VIEWER_ASCII_INFO) view = PETSC_FALSE; 1566 } 1567 if (!view) PetscFunctionReturn(0); 1568 ierr = PetscViewerGetSubViewer(viewer,PETSC_COMM_SELF,&sviewer);CHKERRQ(ierr); 1569 ierr = MatView(a->A,sviewer);CHKERRQ(ierr); 1570 ierr = PetscViewerRestoreSubViewer(viewer,PETSC_COMM_SELF,&sviewer);CHKERRQ(ierr); 1571 ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 1572 PetscFunctionReturn(0); 1573 } 1574 1575 static PetscErrorCode MatSetLocalToGlobalMapping_IS(Mat A,ISLocalToGlobalMapping rmapping,ISLocalToGlobalMapping cmapping) 1576 { 1577 PetscErrorCode ierr; 1578 PetscInt nr,rbs,nc,cbs; 1579 Mat_IS *is = (Mat_IS*)A->data; 1580 IS from,to; 1581 Vec cglobal,rglobal; 1582 1583 PetscFunctionBegin; 1584 PetscCheckSameComm(A,1,rmapping,2); 1585 PetscCheckSameComm(A,1,cmapping,3); 1586 /* Destroy any previous data */ 1587 ierr = VecDestroy(&is->x);CHKERRQ(ierr); 1588 ierr = VecDestroy(&is->y);CHKERRQ(ierr); 1589 ierr = VecDestroy(&is->counter);CHKERRQ(ierr); 1590 ierr = VecScatterDestroy(&is->rctx);CHKERRQ(ierr); 1591 ierr = VecScatterDestroy(&is->cctx);CHKERRQ(ierr); 1592 ierr = MatDestroy(&is->A);CHKERRQ(ierr); 1593 if (is->csf != is->sf) { 1594 ierr = PetscSFDestroy(&is->csf);CHKERRQ(ierr); 1595 ierr = PetscFree2(is->csf_rootdata,is->csf_leafdata);CHKERRQ(ierr); 1596 } 1597 ierr = PetscSFDestroy(&is->sf);CHKERRQ(ierr); 1598 ierr = PetscFree2(is->sf_rootdata,is->sf_leafdata);CHKERRQ(ierr); 1599 1600 /* Setup Layout and set local to global maps */ 1601 ierr = PetscLayoutSetUp(A->rmap);CHKERRQ(ierr); 1602 ierr = PetscLayoutSetUp(A->cmap);CHKERRQ(ierr); 1603 ierr = PetscLayoutSetISLocalToGlobalMapping(A->rmap,rmapping);CHKERRQ(ierr); 1604 ierr = PetscLayoutSetISLocalToGlobalMapping(A->cmap,cmapping);CHKERRQ(ierr); 1605 1606 /* Create the local matrix A */ 1607 ierr = ISLocalToGlobalMappingGetSize(rmapping,&nr);CHKERRQ(ierr); 1608 ierr = ISLocalToGlobalMappingGetBlockSize(rmapping,&rbs);CHKERRQ(ierr); 1609 ierr = ISLocalToGlobalMappingGetSize(cmapping,&nc);CHKERRQ(ierr); 1610 ierr = ISLocalToGlobalMappingGetBlockSize(cmapping,&cbs);CHKERRQ(ierr); 1611 ierr = MatCreate(PETSC_COMM_SELF,&is->A);CHKERRQ(ierr); 1612 ierr = MatSetType(is->A,MATAIJ);CHKERRQ(ierr); 1613 ierr = MatSetSizes(is->A,nr,nc,nr,nc);CHKERRQ(ierr); 1614 ierr = MatSetBlockSizes(is->A,rbs,cbs);CHKERRQ(ierr); 1615 ierr = MatSetOptionsPrefix(is->A,((PetscObject)A)->prefix);CHKERRQ(ierr); 1616 ierr = MatAppendOptionsPrefix(is->A,"is_");CHKERRQ(ierr); 1617 ierr = MatSetFromOptions(is->A);CHKERRQ(ierr); 1618 1619 if (!is->islocalref) { /* setup scatters and local vectors for MatMult */ 1620 /* Create the local work vectors */ 1621 ierr = MatCreateVecs(is->A,&is->x,&is->y);CHKERRQ(ierr); 1622 1623 /* setup the global to local scatters */ 1624 ierr = MatCreateVecs(A,&cglobal,&rglobal);CHKERRQ(ierr); 1625 ierr = ISCreateStride(PETSC_COMM_SELF,nr,0,1,&to);CHKERRQ(ierr); 1626 ierr = ISLocalToGlobalMappingApplyIS(rmapping,to,&from);CHKERRQ(ierr); 1627 ierr = VecScatterCreate(rglobal,from,is->y,to,&is->rctx);CHKERRQ(ierr); 1628 if (rmapping != cmapping) { 1629 ierr = ISDestroy(&to);CHKERRQ(ierr); 1630 ierr = ISDestroy(&from);CHKERRQ(ierr); 1631 ierr = ISCreateStride(PETSC_COMM_SELF,nc,0,1,&to);CHKERRQ(ierr); 1632 ierr = ISLocalToGlobalMappingApplyIS(cmapping,to,&from);CHKERRQ(ierr); 1633 ierr = VecScatterCreate(cglobal,from,is->x,to,&is->cctx);CHKERRQ(ierr); 1634 } else { 1635 ierr = PetscObjectReference((PetscObject)is->rctx);CHKERRQ(ierr); 1636 is->cctx = is->rctx; 1637 } 1638 1639 /* interface counter vector (local) */ 1640 ierr = VecDuplicate(is->y,&is->counter);CHKERRQ(ierr); 1641 ierr = VecSet(is->y,1.);CHKERRQ(ierr); 1642 ierr = VecScatterBegin(is->rctx,is->y,rglobal,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1643 ierr = VecScatterEnd(is->rctx,is->y,rglobal,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 1644 ierr = VecScatterBegin(is->rctx,rglobal,is->counter,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1645 ierr = VecScatterEnd(is->rctx,rglobal,is->counter,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1646 1647 /* free workspace */ 1648 ierr = VecDestroy(&rglobal);CHKERRQ(ierr); 1649 ierr = VecDestroy(&cglobal);CHKERRQ(ierr); 1650 ierr = ISDestroy(&to);CHKERRQ(ierr); 1651 ierr = ISDestroy(&from);CHKERRQ(ierr); 1652 } 1653 ierr = MatSetUp(A);CHKERRQ(ierr); 1654 PetscFunctionReturn(0); 1655 } 1656 1657 static PetscErrorCode MatSetValues_IS(Mat mat, PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols, const PetscScalar *values, InsertMode addv) 1658 { 1659 Mat_IS *is = (Mat_IS*)mat->data; 1660 PetscErrorCode ierr; 1661 #if defined(PETSC_USE_DEBUG) 1662 PetscInt i,zm,zn; 1663 #endif 1664 PetscInt rows_l[MATIS_MAX_ENTRIES_INSERTION],cols_l[MATIS_MAX_ENTRIES_INSERTION]; 1665 1666 PetscFunctionBegin; 1667 #if defined(PETSC_USE_DEBUG) 1668 if (m > MATIS_MAX_ENTRIES_INSERTION || n > MATIS_MAX_ENTRIES_INSERTION) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_SUP,"Number of row/column indices must be <= %D: they are %D %D",MATIS_MAX_ENTRIES_INSERTION,m,n); 1669 /* count negative indices */ 1670 for (i=0,zm=0;i<m;i++) if (rows[i] < 0) zm++; 1671 for (i=0,zn=0;i<n;i++) if (cols[i] < 0) zn++; 1672 #endif 1673 ierr = ISGlobalToLocalMappingApply(mat->rmap->mapping,IS_GTOLM_MASK,m,rows,&m,rows_l);CHKERRQ(ierr); 1674 ierr = ISGlobalToLocalMappingApply(mat->cmap->mapping,IS_GTOLM_MASK,n,cols,&n,cols_l);CHKERRQ(ierr); 1675 #if defined(PETSC_USE_DEBUG) 1676 /* count negative indices (should be the same as before) */ 1677 for (i=0;i<m;i++) if (rows_l[i] < 0) zm--; 1678 for (i=0;i<n;i++) if (cols_l[i] < 0) zn--; 1679 /* disable check when usesetlocal is true */ 1680 if (!is->usesetlocal && zm) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Some of the row indices can not be mapped! Maybe you should not use MATIS"); 1681 if (!is->usesetlocal && zn) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Some of the column indices can not be mapped! Maybe you should not use MATIS"); 1682 #endif 1683 if (is->usesetlocal) { 1684 ierr = MatSetValuesLocal(is->A,m,rows_l,n,cols_l,values,addv);CHKERRQ(ierr); 1685 } else { 1686 ierr = MatSetValues(is->A,m,rows_l,n,cols_l,values,addv);CHKERRQ(ierr); 1687 } 1688 PetscFunctionReturn(0); 1689 } 1690 1691 static PetscErrorCode MatSetValuesBlocked_IS(Mat mat, PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols, const PetscScalar *values, InsertMode addv) 1692 { 1693 Mat_IS *is = (Mat_IS*)mat->data; 1694 PetscErrorCode ierr; 1695 #if defined(PETSC_USE_DEBUG) 1696 PetscInt i,zm,zn; 1697 #endif 1698 PetscInt rows_l[MATIS_MAX_ENTRIES_INSERTION],cols_l[MATIS_MAX_ENTRIES_INSERTION]; 1699 1700 PetscFunctionBegin; 1701 #if defined(PETSC_USE_DEBUG) 1702 if (m > MATIS_MAX_ENTRIES_INSERTION || n > MATIS_MAX_ENTRIES_INSERTION) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_SUP,"Number of row/column block indices must be <= %D: they are %D %D",MATIS_MAX_ENTRIES_INSERTION,m,n); 1703 /* count negative indices */ 1704 for (i=0,zm=0;i<m;i++) if (rows[i] < 0) zm++; 1705 for (i=0,zn=0;i<n;i++) if (cols[i] < 0) zn++; 1706 #endif 1707 ierr = ISGlobalToLocalMappingApplyBlock(mat->rmap->mapping,IS_GTOLM_MASK,m,rows,&m,rows_l);CHKERRQ(ierr); 1708 ierr = ISGlobalToLocalMappingApplyBlock(mat->cmap->mapping,IS_GTOLM_MASK,n,cols,&n,cols_l);CHKERRQ(ierr); 1709 #if defined(PETSC_USE_DEBUG) 1710 /* count negative indices (should be the same as before) */ 1711 for (i=0;i<m;i++) if (rows_l[i] < 0) zm--; 1712 for (i=0;i<n;i++) if (cols_l[i] < 0) zn--; 1713 if (zm) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Some of the row indices can not be mapped! Maybe you should not use MATIS"); 1714 if (zn) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Some of the column indices can not be mapped! Maybe you should not use MATIS"); 1715 #endif 1716 ierr = MatSetValuesBlocked(is->A,m,rows_l,n,cols_l,values,addv);CHKERRQ(ierr); 1717 PetscFunctionReturn(0); 1718 } 1719 1720 static PetscErrorCode MatSetValuesLocal_IS(Mat A,PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols,const PetscScalar *values,InsertMode addv) 1721 { 1722 PetscErrorCode ierr; 1723 Mat_IS *is = (Mat_IS*)A->data; 1724 1725 PetscFunctionBegin; 1726 if (is->usesetlocal) { 1727 ierr = MatSetValuesLocal(is->A,m,rows,n,cols,values,addv);CHKERRQ(ierr); 1728 } else { 1729 ierr = MatSetValues(is->A,m,rows,n,cols,values,addv);CHKERRQ(ierr); 1730 } 1731 PetscFunctionReturn(0); 1732 } 1733 1734 static PetscErrorCode MatSetValuesBlockedLocal_IS(Mat A,PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols,const PetscScalar *values,InsertMode addv) 1735 { 1736 PetscErrorCode ierr; 1737 Mat_IS *is = (Mat_IS*)A->data; 1738 1739 PetscFunctionBegin; 1740 ierr = MatSetValuesBlocked(is->A,m,rows,n,cols,values,addv);CHKERRQ(ierr); 1741 PetscFunctionReturn(0); 1742 } 1743 1744 static PetscErrorCode MatISZeroRowsColumnsLocal_Private(Mat A,PetscInt n,const PetscInt rows[],PetscScalar diag,PetscBool columns) 1745 { 1746 Mat_IS *is = (Mat_IS*)A->data; 1747 PetscErrorCode ierr; 1748 1749 PetscFunctionBegin; 1750 if (!n) { 1751 is->pure_neumann = PETSC_TRUE; 1752 } else { 1753 PetscInt i; 1754 is->pure_neumann = PETSC_FALSE; 1755 1756 if (columns) { 1757 ierr = MatZeroRowsColumns(is->A,n,rows,diag,0,0);CHKERRQ(ierr); 1758 } else { 1759 ierr = MatZeroRows(is->A,n,rows,diag,0,0);CHKERRQ(ierr); 1760 } 1761 if (diag != 0.) { 1762 const PetscScalar *array; 1763 ierr = VecGetArrayRead(is->counter,&array);CHKERRQ(ierr); 1764 for (i=0; i<n; i++) { 1765 ierr = MatSetValue(is->A,rows[i],rows[i],diag/(array[rows[i]]),INSERT_VALUES);CHKERRQ(ierr); 1766 } 1767 ierr = VecRestoreArrayRead(is->counter,&array);CHKERRQ(ierr); 1768 } 1769 ierr = MatAssemblyBegin(is->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1770 ierr = MatAssemblyEnd(is->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1771 } 1772 PetscFunctionReturn(0); 1773 } 1774 1775 static PetscErrorCode MatZeroRowsColumns_Private_IS(Mat A,PetscInt n,const PetscInt rows[],PetscScalar diag,Vec x,Vec b,PetscBool columns) 1776 { 1777 Mat_IS *matis = (Mat_IS*)A->data; 1778 PetscInt nr,nl,len,i; 1779 PetscInt *lrows; 1780 PetscErrorCode ierr; 1781 1782 PetscFunctionBegin; 1783 #if defined(PETSC_USE_DEBUG) 1784 if (columns || diag != 0. || (x && b)) { 1785 PetscBool cong; 1786 ierr = PetscLayoutCompare(A->rmap,A->cmap,&cong);CHKERRQ(ierr); 1787 if (!cong && columns) SETERRQ(PetscObjectComm((PetscObject)A),PETSC_ERR_SUP,"Columns can be zeroed if and only if A->rmap and A->cmap are congruent for MATIS"); 1788 if (!cong && diag != 0.) SETERRQ(PetscObjectComm((PetscObject)A),PETSC_ERR_SUP,"Nonzero diagonal value supported if and only if A->rmap and A->cmap are congruent for MATIS"); 1789 if (!cong && x && b) SETERRQ(PetscObjectComm((PetscObject)A),PETSC_ERR_SUP,"A->rmap and A->cmap need to be congruent"); 1790 } 1791 #endif 1792 /* get locally owned rows */ 1793 ierr = PetscLayoutMapLocal_Private(A->rmap,n,rows,&len,&lrows,NULL);CHKERRQ(ierr); 1794 /* fix right hand side if needed */ 1795 if (x && b) { 1796 const PetscScalar *xx; 1797 PetscScalar *bb; 1798 1799 ierr = VecGetArrayRead(x, &xx);CHKERRQ(ierr); 1800 ierr = VecGetArray(b, &bb);CHKERRQ(ierr); 1801 for (i=0;i<len;++i) bb[lrows[i]] = diag*xx[lrows[i]]; 1802 ierr = VecRestoreArrayRead(x, &xx);CHKERRQ(ierr); 1803 ierr = VecRestoreArray(b, &bb);CHKERRQ(ierr); 1804 } 1805 /* get rows associated to the local matrices */ 1806 ierr = MatISSetUpSF(A);CHKERRQ(ierr); 1807 ierr = MatGetSize(matis->A,&nl,NULL);CHKERRQ(ierr); 1808 ierr = PetscMemzero(matis->sf_leafdata,nl*sizeof(PetscInt));CHKERRQ(ierr); 1809 ierr = PetscMemzero(matis->sf_rootdata,A->rmap->n*sizeof(PetscInt));CHKERRQ(ierr); 1810 for (i=0;i<len;i++) matis->sf_rootdata[lrows[i]] = 1; 1811 ierr = PetscFree(lrows);CHKERRQ(ierr); 1812 ierr = PetscSFBcastBegin(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata);CHKERRQ(ierr); 1813 ierr = PetscSFBcastEnd(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata);CHKERRQ(ierr); 1814 ierr = PetscMalloc1(nl,&lrows);CHKERRQ(ierr); 1815 for (i=0,nr=0;i<nl;i++) if (matis->sf_leafdata[i]) lrows[nr++] = i; 1816 ierr = MatISZeroRowsColumnsLocal_Private(A,nr,lrows,diag,columns);CHKERRQ(ierr); 1817 ierr = PetscFree(lrows);CHKERRQ(ierr); 1818 PetscFunctionReturn(0); 1819 } 1820 1821 static PetscErrorCode MatZeroRows_IS(Mat A,PetscInt n,const PetscInt rows[],PetscScalar diag,Vec x,Vec b) 1822 { 1823 PetscErrorCode ierr; 1824 1825 PetscFunctionBegin; 1826 ierr = MatZeroRowsColumns_Private_IS(A,n,rows,diag,x,b,PETSC_FALSE);CHKERRQ(ierr); 1827 PetscFunctionReturn(0); 1828 } 1829 1830 static PetscErrorCode MatZeroRowsColumns_IS(Mat A,PetscInt n,const PetscInt rows[],PetscScalar diag,Vec x,Vec b) 1831 { 1832 PetscErrorCode ierr; 1833 1834 PetscFunctionBegin; 1835 ierr = MatZeroRowsColumns_Private_IS(A,n,rows,diag,x,b,PETSC_TRUE);CHKERRQ(ierr); 1836 PetscFunctionReturn(0); 1837 } 1838 1839 static PetscErrorCode MatAssemblyBegin_IS(Mat A,MatAssemblyType type) 1840 { 1841 Mat_IS *is = (Mat_IS*)A->data; 1842 PetscErrorCode ierr; 1843 1844 PetscFunctionBegin; 1845 ierr = MatAssemblyBegin(is->A,type);CHKERRQ(ierr); 1846 PetscFunctionReturn(0); 1847 } 1848 1849 static PetscErrorCode MatAssemblyEnd_IS(Mat A,MatAssemblyType type) 1850 { 1851 Mat_IS *is = (Mat_IS*)A->data; 1852 PetscErrorCode ierr; 1853 1854 PetscFunctionBegin; 1855 ierr = MatAssemblyEnd(is->A,type);CHKERRQ(ierr); 1856 /* fix for local empty rows/cols */ 1857 if (is->locempty && type == MAT_FINAL_ASSEMBLY) { 1858 Mat newlA; 1859 ISLocalToGlobalMapping l2g; 1860 IS tis; 1861 const PetscScalar *v; 1862 PetscInt i,n,cf,*loce,*locf; 1863 PetscBool sym; 1864 1865 ierr = MatGetRowMaxAbs(is->A,is->y,NULL);CHKERRQ(ierr); 1866 ierr = MatIsSymmetric(is->A,PETSC_SMALL,&sym);CHKERRQ(ierr); 1867 if (!sym) SETERRQ(PetscObjectComm((PetscObject)is->A),PETSC_ERR_SUP,"Not yet implemented for unsymmetric case"); 1868 ierr = VecGetLocalSize(is->y,&n);CHKERRQ(ierr); 1869 ierr = PetscMalloc1(n,&loce);CHKERRQ(ierr); 1870 ierr = PetscMalloc1(n,&locf);CHKERRQ(ierr); 1871 ierr = VecGetArrayRead(is->y,&v);CHKERRQ(ierr); 1872 for (i=0,cf=0;i<n;i++) { 1873 if (v[i] == 0.0) { 1874 loce[i] = -1; 1875 } else { 1876 loce[i] = cf; 1877 locf[cf++] = i; 1878 } 1879 } 1880 ierr = VecRestoreArrayRead(is->y,&v);CHKERRQ(ierr); 1881 /* extract valid submatrix */ 1882 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)is->A),cf,locf,PETSC_USE_POINTER,&tis);CHKERRQ(ierr); 1883 ierr = MatCreateSubMatrix(is->A,tis,tis,MAT_INITIAL_MATRIX,&newlA);CHKERRQ(ierr); 1884 ierr = ISDestroy(&tis);CHKERRQ(ierr); 1885 /* attach local l2g map for successive calls of MatSetValues */ 1886 ierr = ISLocalToGlobalMappingCreate(PetscObjectComm((PetscObject)is->A),1,n,loce,PETSC_OWN_POINTER,&l2g);CHKERRQ(ierr); 1887 ierr = MatSetLocalToGlobalMapping(newlA,l2g,l2g);CHKERRQ(ierr); 1888 ierr = ISLocalToGlobalMappingDestroy(&l2g);CHKERRQ(ierr); 1889 /* flag MatSetValues */ 1890 is->usesetlocal = PETSC_TRUE; 1891 /* attach new global l2g map */ 1892 ierr = ISLocalToGlobalMappingApply(A->rmap->mapping,cf,locf,locf);CHKERRQ(ierr); 1893 ierr = ISLocalToGlobalMappingCreate(PetscObjectComm((PetscObject)A),1,cf,locf,PETSC_OWN_POINTER,&l2g);CHKERRQ(ierr); 1894 ierr = MatSetLocalToGlobalMapping(A,l2g,l2g);CHKERRQ(ierr); 1895 ierr = MatISSetLocalMat(A,newlA);CHKERRQ(ierr); 1896 ierr = MatDestroy(&newlA);CHKERRQ(ierr); 1897 ierr = ISLocalToGlobalMappingDestroy(&l2g);CHKERRQ(ierr); 1898 } 1899 is->locempty = PETSC_FALSE; 1900 PetscFunctionReturn(0); 1901 } 1902 1903 static PetscErrorCode MatISGetLocalMat_IS(Mat mat,Mat *local) 1904 { 1905 Mat_IS *is = (Mat_IS*)mat->data; 1906 1907 PetscFunctionBegin; 1908 *local = is->A; 1909 PetscFunctionReturn(0); 1910 } 1911 1912 static PetscErrorCode MatISRestoreLocalMat_IS(Mat mat,Mat *local) 1913 { 1914 PetscFunctionBegin; 1915 *local = NULL; 1916 PetscFunctionReturn(0); 1917 } 1918 1919 /*@ 1920 MatISGetLocalMat - Gets the local matrix stored inside a MATIS matrix. 1921 1922 Input Parameter: 1923 . mat - the matrix 1924 1925 Output Parameter: 1926 . local - the local matrix 1927 1928 Level: advanced 1929 1930 Notes: 1931 This can be called if you have precomputed the nonzero structure of the 1932 matrix and want to provide it to the inner matrix object to improve the performance 1933 of the MatSetValues() operation. 1934 1935 Call MatISRestoreLocalMat() when finished with the local matrix. 1936 1937 .seealso: MATIS 1938 @*/ 1939 PetscErrorCode MatISGetLocalMat(Mat mat,Mat *local) 1940 { 1941 PetscErrorCode ierr; 1942 1943 PetscFunctionBegin; 1944 PetscValidHeaderSpecific(mat,MAT_CLASSID,1); 1945 PetscValidPointer(local,2); 1946 ierr = PetscUseMethod(mat,"MatISGetLocalMat_C",(Mat,Mat*),(mat,local));CHKERRQ(ierr); 1947 PetscFunctionReturn(0); 1948 } 1949 1950 /*@ 1951 MatISRestoreLocalMat - Restores the local matrix obtained with MatISGetLocalMat() 1952 1953 Input Parameter: 1954 . mat - the matrix 1955 1956 Output Parameter: 1957 . local - the local matrix 1958 1959 Level: advanced 1960 1961 .seealso: MATIS 1962 @*/ 1963 PetscErrorCode MatISRestoreLocalMat(Mat mat,Mat *local) 1964 { 1965 PetscErrorCode ierr; 1966 1967 PetscFunctionBegin; 1968 PetscValidHeaderSpecific(mat,MAT_CLASSID,1); 1969 PetscValidPointer(local,2); 1970 ierr = PetscUseMethod(mat,"MatISRestoreLocalMat_C",(Mat,Mat*),(mat,local));CHKERRQ(ierr); 1971 PetscFunctionReturn(0); 1972 } 1973 1974 static PetscErrorCode MatISSetLocalMat_IS(Mat mat,Mat local) 1975 { 1976 Mat_IS *is = (Mat_IS*)mat->data; 1977 PetscInt nrows,ncols,orows,ocols; 1978 PetscErrorCode ierr; 1979 1980 PetscFunctionBegin; 1981 if (is->A) { 1982 ierr = MatGetSize(is->A,&orows,&ocols);CHKERRQ(ierr); 1983 ierr = MatGetSize(local,&nrows,&ncols);CHKERRQ(ierr); 1984 if (orows != nrows || ocols != ncols) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Local MATIS matrix should be of size %Dx%D (you passed a %Dx%D matrix)",orows,ocols,nrows,ncols); 1985 } 1986 ierr = PetscObjectReference((PetscObject)local);CHKERRQ(ierr); 1987 ierr = MatDestroy(&is->A);CHKERRQ(ierr); 1988 is->A = local; 1989 PetscFunctionReturn(0); 1990 } 1991 1992 /*@ 1993 MatISSetLocalMat - Replace the local matrix stored inside a MATIS object. 1994 1995 Input Parameter: 1996 . mat - the matrix 1997 . local - the local matrix 1998 1999 Output Parameter: 2000 2001 Level: advanced 2002 2003 Notes: 2004 This can be called if you have precomputed the local matrix and 2005 want to provide it to the matrix object MATIS. 2006 2007 .seealso: MATIS 2008 @*/ 2009 PetscErrorCode MatISSetLocalMat(Mat mat,Mat local) 2010 { 2011 PetscErrorCode ierr; 2012 2013 PetscFunctionBegin; 2014 PetscValidHeaderSpecific(mat,MAT_CLASSID,1); 2015 PetscValidHeaderSpecific(local,MAT_CLASSID,2); 2016 ierr = PetscUseMethod(mat,"MatISSetLocalMat_C",(Mat,Mat),(mat,local));CHKERRQ(ierr); 2017 PetscFunctionReturn(0); 2018 } 2019 2020 static PetscErrorCode MatZeroEntries_IS(Mat A) 2021 { 2022 Mat_IS *a = (Mat_IS*)A->data; 2023 PetscErrorCode ierr; 2024 2025 PetscFunctionBegin; 2026 ierr = MatZeroEntries(a->A);CHKERRQ(ierr); 2027 PetscFunctionReturn(0); 2028 } 2029 2030 static PetscErrorCode MatScale_IS(Mat A,PetscScalar a) 2031 { 2032 Mat_IS *is = (Mat_IS*)A->data; 2033 PetscErrorCode ierr; 2034 2035 PetscFunctionBegin; 2036 ierr = MatScale(is->A,a);CHKERRQ(ierr); 2037 PetscFunctionReturn(0); 2038 } 2039 2040 static PetscErrorCode MatGetDiagonal_IS(Mat A, Vec v) 2041 { 2042 Mat_IS *is = (Mat_IS*)A->data; 2043 PetscErrorCode ierr; 2044 2045 PetscFunctionBegin; 2046 /* get diagonal of the local matrix */ 2047 ierr = MatGetDiagonal(is->A,is->y);CHKERRQ(ierr); 2048 2049 /* scatter diagonal back into global vector */ 2050 ierr = VecSet(v,0);CHKERRQ(ierr); 2051 ierr = VecScatterBegin(is->rctx,is->y,v,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 2052 ierr = VecScatterEnd(is->rctx,is->y,v,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 2053 PetscFunctionReturn(0); 2054 } 2055 2056 static PetscErrorCode MatSetOption_IS(Mat A,MatOption op,PetscBool flg) 2057 { 2058 Mat_IS *a = (Mat_IS*)A->data; 2059 PetscErrorCode ierr; 2060 2061 PetscFunctionBegin; 2062 ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 2063 PetscFunctionReturn(0); 2064 } 2065 2066 static PetscErrorCode MatAXPY_IS(Mat Y,PetscScalar a,Mat X,MatStructure str) 2067 { 2068 Mat_IS *y = (Mat_IS*)Y->data; 2069 Mat_IS *x; 2070 #if defined(PETSC_USE_DEBUG) 2071 PetscBool ismatis; 2072 #endif 2073 PetscErrorCode ierr; 2074 2075 PetscFunctionBegin; 2076 #if defined(PETSC_USE_DEBUG) 2077 ierr = PetscObjectTypeCompare((PetscObject)X,MATIS,&ismatis);CHKERRQ(ierr); 2078 if (!ismatis) SETERRQ(PetscObjectComm((PetscObject)Y),PETSC_ERR_SUP,"Cannot call MatAXPY(Y,a,X,str) with X not of type MATIS"); 2079 #endif 2080 x = (Mat_IS*)X->data; 2081 ierr = MatAXPY(y->A,a,x->A,str);CHKERRQ(ierr); 2082 PetscFunctionReturn(0); 2083 } 2084 2085 static PetscErrorCode MatGetLocalSubMatrix_IS(Mat A,IS row,IS col,Mat *submat) 2086 { 2087 Mat lA; 2088 Mat_IS *matis; 2089 ISLocalToGlobalMapping rl2g,cl2g; 2090 IS is; 2091 const PetscInt *rg,*rl; 2092 PetscInt nrg; 2093 PetscInt N,M,nrl,i,*idxs; 2094 PetscErrorCode ierr; 2095 2096 PetscFunctionBegin; 2097 ierr = ISLocalToGlobalMappingGetIndices(A->rmap->mapping,&rg);CHKERRQ(ierr); 2098 ierr = ISGetLocalSize(row,&nrl);CHKERRQ(ierr); 2099 ierr = ISGetIndices(row,&rl);CHKERRQ(ierr); 2100 ierr = ISLocalToGlobalMappingGetSize(A->rmap->mapping,&nrg);CHKERRQ(ierr); 2101 #if defined(PETSC_USE_DEBUG) 2102 for (i=0;i<nrl;i++) if (rl[i]>=nrg) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Local row index %D -> %D greater than maximum possible %D",i,rl[i],nrg); 2103 #endif 2104 ierr = PetscMalloc1(nrg,&idxs);CHKERRQ(ierr); 2105 /* map from [0,nrl) to row */ 2106 for (i=0;i<nrl;i++) idxs[i] = rl[i]; 2107 #if defined(PETSC_USE_DEBUG) 2108 for (i=nrl;i<nrg;i++) idxs[i] = nrg; 2109 #else 2110 for (i=nrl;i<nrg;i++) idxs[i] = -1; 2111 #endif 2112 ierr = ISRestoreIndices(row,&rl);CHKERRQ(ierr); 2113 ierr = ISLocalToGlobalMappingRestoreIndices(A->rmap->mapping,&rg);CHKERRQ(ierr); 2114 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)A),nrg,idxs,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 2115 ierr = ISLocalToGlobalMappingCreateIS(is,&rl2g);CHKERRQ(ierr); 2116 ierr = ISDestroy(&is);CHKERRQ(ierr); 2117 /* compute new l2g map for columns */ 2118 if (col != row || A->rmap->mapping != A->cmap->mapping) { 2119 const PetscInt *cg,*cl; 2120 PetscInt ncg; 2121 PetscInt ncl; 2122 2123 ierr = ISLocalToGlobalMappingGetIndices(A->cmap->mapping,&cg);CHKERRQ(ierr); 2124 ierr = ISGetLocalSize(col,&ncl);CHKERRQ(ierr); 2125 ierr = ISGetIndices(col,&cl);CHKERRQ(ierr); 2126 ierr = ISLocalToGlobalMappingGetSize(A->cmap->mapping,&ncg);CHKERRQ(ierr); 2127 #if defined(PETSC_USE_DEBUG) 2128 for (i=0;i<ncl;i++) if (cl[i]>=ncg) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Local column index %D -> %D greater than maximum possible %D",i,cl[i],ncg); 2129 #endif 2130 ierr = PetscMalloc1(ncg,&idxs);CHKERRQ(ierr); 2131 /* map from [0,ncl) to col */ 2132 for (i=0;i<ncl;i++) idxs[i] = cl[i]; 2133 #if defined(PETSC_USE_DEBUG) 2134 for (i=ncl;i<ncg;i++) idxs[i] = ncg; 2135 #else 2136 for (i=ncl;i<ncg;i++) idxs[i] = -1; 2137 #endif 2138 ierr = ISRestoreIndices(col,&cl);CHKERRQ(ierr); 2139 ierr = ISLocalToGlobalMappingRestoreIndices(A->cmap->mapping,&cg);CHKERRQ(ierr); 2140 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)A),ncg,idxs,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 2141 ierr = ISLocalToGlobalMappingCreateIS(is,&cl2g);CHKERRQ(ierr); 2142 ierr = ISDestroy(&is);CHKERRQ(ierr); 2143 } else { 2144 ierr = PetscObjectReference((PetscObject)rl2g);CHKERRQ(ierr); 2145 cl2g = rl2g; 2146 } 2147 /* create the MATIS submatrix */ 2148 ierr = MatGetSize(A,&M,&N);CHKERRQ(ierr); 2149 ierr = MatCreate(PetscObjectComm((PetscObject)A),submat);CHKERRQ(ierr); 2150 ierr = MatSetSizes(*submat,PETSC_DECIDE,PETSC_DECIDE,M,N);CHKERRQ(ierr); 2151 ierr = MatSetType(*submat,MATIS);CHKERRQ(ierr); 2152 matis = (Mat_IS*)((*submat)->data); 2153 matis->islocalref = PETSC_TRUE; 2154 ierr = MatSetLocalToGlobalMapping(*submat,rl2g,cl2g);CHKERRQ(ierr); 2155 ierr = MatISGetLocalMat(A,&lA);CHKERRQ(ierr); 2156 ierr = MatISSetLocalMat(*submat,lA);CHKERRQ(ierr); 2157 ierr = MatSetUp(*submat);CHKERRQ(ierr); 2158 ierr = MatAssemblyBegin(*submat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2159 ierr = MatAssemblyEnd(*submat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2160 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 2161 ierr = ISLocalToGlobalMappingDestroy(&cl2g);CHKERRQ(ierr); 2162 /* remove unsupported ops */ 2163 ierr = PetscMemzero((*submat)->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 2164 (*submat)->ops->destroy = MatDestroy_IS; 2165 (*submat)->ops->setvalueslocal = MatSetValuesLocal_SubMat_IS; 2166 (*submat)->ops->setvaluesblockedlocal = MatSetValuesBlockedLocal_SubMat_IS; 2167 (*submat)->ops->assemblybegin = MatAssemblyBegin_IS; 2168 (*submat)->ops->assemblyend = MatAssemblyEnd_IS; 2169 PetscFunctionReturn(0); 2170 } 2171 2172 static PetscErrorCode MatSetFromOptions_IS(PetscOptionItems *PetscOptionsObject, Mat A) 2173 { 2174 Mat_IS *a = (Mat_IS*)A->data; 2175 PetscErrorCode ierr; 2176 2177 PetscFunctionBegin; 2178 ierr = PetscOptionsHead(PetscOptionsObject,"MATIS options");CHKERRQ(ierr); 2179 ierr = PetscObjectOptionsBegin((PetscObject)A); 2180 ierr = PetscOptionsBool("-matis_fixempty","Fix local matrices in case of empty local rows/columns",NULL,a->locempty,&a->locempty,NULL);CHKERRQ(ierr); 2181 ierr = PetscOptionsEnd();CHKERRQ(ierr); 2182 PetscFunctionReturn(0); 2183 } 2184 2185 /*@ 2186 MatCreateIS - Creates a "process" unassembled matrix, assembled on each 2187 process but not across processes. 2188 2189 Input Parameters: 2190 + comm - MPI communicator that will share the matrix 2191 . bs - block size of the matrix 2192 . m,n,M,N - local and/or global sizes of the left and right vector used in matrix vector products 2193 . rmap - local to global map for rows 2194 - cmap - local to global map for cols 2195 2196 Output Parameter: 2197 . A - the resulting matrix 2198 2199 Level: advanced 2200 2201 Notes: See MATIS for more details. 2202 m and n are NOT related to the size of the map; they represent the size of the local parts of the vectors 2203 used in MatMult operations. The sizes of rmap and cmap define the size of the local matrices. 2204 If either rmap or cmap are NULL, then the matrix is assumed to be square. 2205 2206 .seealso: MATIS, MatSetLocalToGlobalMapping() 2207 @*/ 2208 PetscErrorCode MatCreateIS(MPI_Comm comm,PetscInt bs,PetscInt m,PetscInt n,PetscInt M,PetscInt N,ISLocalToGlobalMapping rmap,ISLocalToGlobalMapping cmap,Mat *A) 2209 { 2210 PetscErrorCode ierr; 2211 2212 PetscFunctionBegin; 2213 if (!rmap && !cmap) SETERRQ(comm,PETSC_ERR_USER,"You need to provide at least one of the mappings"); 2214 ierr = MatCreate(comm,A);CHKERRQ(ierr); 2215 ierr = MatSetSizes(*A,m,n,M,N);CHKERRQ(ierr); 2216 if (bs > 0) { 2217 ierr = MatSetBlockSize(*A,bs);CHKERRQ(ierr); 2218 } 2219 ierr = MatSetType(*A,MATIS);CHKERRQ(ierr); 2220 if (rmap && cmap) { 2221 ierr = MatSetLocalToGlobalMapping(*A,rmap,cmap);CHKERRQ(ierr); 2222 } else if (!rmap) { 2223 ierr = MatSetLocalToGlobalMapping(*A,cmap,cmap);CHKERRQ(ierr); 2224 } else { 2225 ierr = MatSetLocalToGlobalMapping(*A,rmap,rmap);CHKERRQ(ierr); 2226 } 2227 PetscFunctionReturn(0); 2228 } 2229 2230 /*MC 2231 MATIS - MATIS = "is" - A matrix type to be used for using the non-overlapping domain decomposition methods (e.g. PCBDDC or KSPFETIDP). 2232 This stores the matrices in globally unassembled form. Each processor 2233 assembles only its local Neumann problem and the parallel matrix vector 2234 product is handled "implicitly". 2235 2236 Operations Provided: 2237 + MatMult() 2238 . MatMultAdd() 2239 . MatMultTranspose() 2240 . MatMultTransposeAdd() 2241 . MatZeroEntries() 2242 . MatSetOption() 2243 . MatZeroRows() 2244 . MatSetValues() 2245 . MatSetValuesBlocked() 2246 . MatSetValuesLocal() 2247 . MatSetValuesBlockedLocal() 2248 . MatScale() 2249 . MatGetDiagonal() 2250 . MatMissingDiagonal() 2251 . MatDuplicate() 2252 . MatCopy() 2253 . MatAXPY() 2254 . MatCreateSubMatrix() 2255 . MatGetLocalSubMatrix() 2256 . MatTranspose() 2257 - MatSetLocalToGlobalMapping() 2258 2259 Options Database Keys: 2260 . -mat_type is - sets the matrix type to "is" during a call to MatSetFromOptions() 2261 2262 Notes: Options prefix for the inner matrix are given by -is_mat_xxx 2263 2264 You must call MatSetLocalToGlobalMapping() before using this matrix type. 2265 2266 You can do matrix preallocation on the local matrix after you obtain it with 2267 MatISGetLocalMat(); otherwise, you could use MatISSetPreallocation() 2268 2269 Level: advanced 2270 2271 .seealso: Mat, MatISGetLocalMat(), MatSetLocalToGlobalMapping(), MatISSetPreallocation(), MatCreateIS(), PCBDDC, KSPFETIDP 2272 2273 M*/ 2274 2275 PETSC_EXTERN PetscErrorCode MatCreate_IS(Mat A) 2276 { 2277 PetscErrorCode ierr; 2278 Mat_IS *b; 2279 2280 PetscFunctionBegin; 2281 ierr = PetscNewLog(A,&b);CHKERRQ(ierr); 2282 A->data = (void*)b; 2283 2284 /* matrix ops */ 2285 ierr = PetscMemzero(A->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 2286 A->ops->mult = MatMult_IS; 2287 A->ops->multadd = MatMultAdd_IS; 2288 A->ops->multtranspose = MatMultTranspose_IS; 2289 A->ops->multtransposeadd = MatMultTransposeAdd_IS; 2290 A->ops->destroy = MatDestroy_IS; 2291 A->ops->setlocaltoglobalmapping = MatSetLocalToGlobalMapping_IS; 2292 A->ops->setvalues = MatSetValues_IS; 2293 A->ops->setvaluesblocked = MatSetValuesBlocked_IS; 2294 A->ops->setvalueslocal = MatSetValuesLocal_IS; 2295 A->ops->setvaluesblockedlocal = MatSetValuesBlockedLocal_IS; 2296 A->ops->zerorows = MatZeroRows_IS; 2297 A->ops->zerorowscolumns = MatZeroRowsColumns_IS; 2298 A->ops->assemblybegin = MatAssemblyBegin_IS; 2299 A->ops->assemblyend = MatAssemblyEnd_IS; 2300 A->ops->view = MatView_IS; 2301 A->ops->zeroentries = MatZeroEntries_IS; 2302 A->ops->scale = MatScale_IS; 2303 A->ops->getdiagonal = MatGetDiagonal_IS; 2304 A->ops->setoption = MatSetOption_IS; 2305 A->ops->ishermitian = MatIsHermitian_IS; 2306 A->ops->issymmetric = MatIsSymmetric_IS; 2307 A->ops->isstructurallysymmetric = MatIsStructurallySymmetric_IS; 2308 A->ops->duplicate = MatDuplicate_IS; 2309 A->ops->missingdiagonal = MatMissingDiagonal_IS; 2310 A->ops->copy = MatCopy_IS; 2311 A->ops->getlocalsubmatrix = MatGetLocalSubMatrix_IS; 2312 A->ops->createsubmatrix = MatCreateSubMatrix_IS; 2313 A->ops->axpy = MatAXPY_IS; 2314 A->ops->diagonalset = MatDiagonalSet_IS; 2315 A->ops->shift = MatShift_IS; 2316 A->ops->transpose = MatTranspose_IS; 2317 A->ops->getinfo = MatGetInfo_IS; 2318 A->ops->diagonalscale = MatDiagonalScale_IS; 2319 A->ops->setfromoptions = MatSetFromOptions_IS; 2320 2321 /* special MATIS functions */ 2322 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISGetLocalMat_C",MatISGetLocalMat_IS);CHKERRQ(ierr); 2323 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISRestoreLocalMat_C",MatISRestoreLocalMat_IS);CHKERRQ(ierr); 2324 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetLocalMat_C",MatISSetLocalMat_IS);CHKERRQ(ierr); 2325 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISGetMPIXAIJ_C",MatISGetMPIXAIJ_IS);CHKERRQ(ierr); 2326 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetPreallocation_C",MatISSetPreallocation_IS);CHKERRQ(ierr); 2327 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetUpSF_C",MatISSetUpSF_IS);CHKERRQ(ierr); 2328 ierr = PetscObjectChangeTypeName((PetscObject)A,MATIS);CHKERRQ(ierr); 2329 PetscFunctionReturn(0); 2330 } 2331