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 <petsc/private/sfimpl.h> 12 #include <petsc/private/vecimpl.h> 13 14 #define MATIS_MAX_ENTRIES_INSERTION 2048 15 static PetscErrorCode MatSetValuesLocal_IS(Mat,PetscInt,const PetscInt*,PetscInt,const PetscInt*,const PetscScalar*,InsertMode); 16 static PetscErrorCode MatSetValuesBlockedLocal_IS(Mat,PetscInt,const PetscInt*,PetscInt,const PetscInt*,const PetscScalar*,InsertMode); 17 static PetscErrorCode MatISSetUpScatters_Private(Mat); 18 19 static PetscErrorCode MatISContainerDestroyPtAP_Private(void *ptr) 20 { 21 MatISPtAP ptap = (MatISPtAP)ptr; 22 PetscErrorCode ierr; 23 24 PetscFunctionBegin; 25 ierr = MatDestroySubMatrices(ptap->ris1 ? 2 : 1,&ptap->lP);CHKERRQ(ierr); 26 ierr = ISDestroy(&ptap->cis0);CHKERRQ(ierr); 27 ierr = ISDestroy(&ptap->cis1);CHKERRQ(ierr); 28 ierr = ISDestroy(&ptap->ris0);CHKERRQ(ierr); 29 ierr = ISDestroy(&ptap->ris1);CHKERRQ(ierr); 30 ierr = PetscFree(ptap);CHKERRQ(ierr); 31 PetscFunctionReturn(0); 32 } 33 34 static PetscErrorCode MatPtAPNumeric_IS_XAIJ(Mat A, Mat P, Mat C) 35 { 36 MatISPtAP ptap; 37 Mat_IS *matis = (Mat_IS*)A->data; 38 Mat lA,lC; 39 MatReuse reuse; 40 IS ris[2],cis[2]; 41 PetscContainer c; 42 PetscInt n; 43 PetscErrorCode ierr; 44 45 PetscFunctionBegin; 46 ierr = PetscObjectQuery((PetscObject)C,"_MatIS_PtAP",(PetscObject*)&c);CHKERRQ(ierr); 47 if (!c) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_PLIB,"Missing PtAP information"); 48 ierr = PetscContainerGetPointer(c,(void**)&ptap);CHKERRQ(ierr); 49 ris[0] = ptap->ris0; 50 ris[1] = ptap->ris1; 51 cis[0] = ptap->cis0; 52 cis[1] = ptap->cis1; 53 n = ptap->ris1 ? 2 : 1; 54 reuse = ptap->lP ? MAT_REUSE_MATRIX : MAT_INITIAL_MATRIX; 55 ierr = MatCreateSubMatrices(P,n,ris,cis,reuse,&ptap->lP);CHKERRQ(ierr); 56 57 ierr = MatISGetLocalMat(A,&lA);CHKERRQ(ierr); 58 ierr = MatISGetLocalMat(C,&lC);CHKERRQ(ierr); 59 if (ptap->ris1) { /* unsymmetric A mapping */ 60 Mat lPt; 61 62 ierr = MatTranspose(ptap->lP[1],MAT_INITIAL_MATRIX,&lPt);CHKERRQ(ierr); 63 ierr = MatMatMatMult(lPt,lA,ptap->lP[0],reuse,ptap->fill,&lC);CHKERRQ(ierr); 64 if (matis->storel2l) { 65 ierr = PetscObjectCompose((PetscObject)(A),"_MatIS_PtAP_l2l",(PetscObject)lPt);CHKERRQ(ierr); 66 } 67 ierr = MatDestroy(&lPt);CHKERRQ(ierr); 68 } else { 69 ierr = MatPtAP(lA,ptap->lP[0],reuse,ptap->fill,&lC);CHKERRQ(ierr); 70 if (matis->storel2l) { 71 ierr = PetscObjectCompose((PetscObject)C,"_MatIS_PtAP_l2l",(PetscObject)ptap->lP[0]);CHKERRQ(ierr); 72 } 73 } 74 if (reuse == MAT_INITIAL_MATRIX) { 75 ierr = MatISSetLocalMat(C,lC);CHKERRQ(ierr); 76 ierr = MatDestroy(&lC);CHKERRQ(ierr); 77 } 78 ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 79 ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 80 PetscFunctionReturn(0); 81 } 82 83 static PetscErrorCode MatGetNonzeroColumnsLocal_Private(Mat PT,IS *cis) 84 { 85 Mat Po,Pd; 86 IS zd,zo; 87 const PetscInt *garray; 88 PetscInt *aux,i,bs; 89 PetscInt dc,stc,oc,ctd,cto; 90 PetscBool ismpiaij,ismpibaij,isseqaij,isseqbaij; 91 MPI_Comm comm; 92 PetscErrorCode ierr; 93 94 PetscFunctionBegin; 95 PetscValidHeaderSpecific(PT,MAT_CLASSID,1); 96 PetscValidPointer(cis,2); 97 ierr = PetscObjectGetComm((PetscObject)PT,&comm);CHKERRQ(ierr); 98 bs = 1; 99 ierr = PetscObjectBaseTypeCompare((PetscObject)PT,MATMPIAIJ,&ismpiaij);CHKERRQ(ierr); 100 ierr = PetscObjectBaseTypeCompare((PetscObject)PT,MATMPIBAIJ,&ismpibaij);CHKERRQ(ierr); 101 ierr = PetscObjectBaseTypeCompare((PetscObject)PT,MATSEQAIJ,&isseqaij);CHKERRQ(ierr); 102 ierr = PetscObjectTypeCompare((PetscObject)PT,MATSEQBAIJ,&isseqbaij);CHKERRQ(ierr); 103 if (isseqaij || isseqbaij) { 104 Pd = PT; 105 Po = NULL; 106 garray = NULL; 107 } else if (ismpiaij) { 108 ierr = MatMPIAIJGetSeqAIJ(PT,&Pd,&Po,&garray);CHKERRQ(ierr); 109 } else if (ismpibaij) { 110 ierr = MatMPIBAIJGetSeqBAIJ(PT,&Pd,&Po,&garray);CHKERRQ(ierr); 111 ierr = MatGetBlockSize(PT,&bs);CHKERRQ(ierr); 112 } else SETERRQ1(comm,PETSC_ERR_SUP,"Not for matrix type %s",((PetscObject)(PT))->type_name); 113 114 /* identify any null columns in Pd or Po */ 115 /* We use a tolerance comparison since it may happen that, with geometric multigrid, 116 some of the columns are not really zero, but very close to */ 117 zo = zd = NULL; 118 if (Po) { 119 ierr = MatFindNonzeroRowsOrCols_Basic(Po,PETSC_TRUE,PETSC_SMALL,&zo);CHKERRQ(ierr); 120 } 121 ierr = MatFindNonzeroRowsOrCols_Basic(Pd,PETSC_TRUE,PETSC_SMALL,&zd);CHKERRQ(ierr); 122 123 ierr = MatGetLocalSize(PT,NULL,&dc);CHKERRQ(ierr); 124 ierr = MatGetOwnershipRangeColumn(PT,&stc,NULL);CHKERRQ(ierr); 125 if (Po) { ierr = MatGetLocalSize(Po,NULL,&oc);CHKERRQ(ierr); } 126 else oc = 0; 127 ierr = PetscMalloc1((dc+oc)/bs,&aux);CHKERRQ(ierr); 128 if (zd) { 129 const PetscInt *idxs; 130 PetscInt nz; 131 132 /* this will throw an error if bs is not valid */ 133 ierr = ISSetBlockSize(zd,bs);CHKERRQ(ierr); 134 ierr = ISGetLocalSize(zd,&nz);CHKERRQ(ierr); 135 ierr = ISGetIndices(zd,&idxs);CHKERRQ(ierr); 136 ctd = nz/bs; 137 for (i=0; i<ctd; i++) aux[i] = (idxs[bs*i]+stc)/bs; 138 ierr = ISRestoreIndices(zd,&idxs);CHKERRQ(ierr); 139 } else { 140 ctd = dc/bs; 141 for (i=0; i<ctd; i++) aux[i] = i+stc/bs; 142 } 143 if (zo) { 144 const PetscInt *idxs; 145 PetscInt nz; 146 147 /* this will throw an error if bs is not valid */ 148 ierr = ISSetBlockSize(zo,bs);CHKERRQ(ierr); 149 ierr = ISGetLocalSize(zo,&nz);CHKERRQ(ierr); 150 ierr = ISGetIndices(zo,&idxs);CHKERRQ(ierr); 151 cto = nz/bs; 152 for (i=0; i<cto; i++) aux[i+ctd] = garray[idxs[bs*i]/bs]; 153 ierr = ISRestoreIndices(zo,&idxs);CHKERRQ(ierr); 154 } else { 155 cto = oc/bs; 156 for (i=0; i<cto; i++) aux[i+ctd] = garray[i]; 157 } 158 ierr = ISCreateBlock(comm,bs,ctd+cto,aux,PETSC_OWN_POINTER,cis);CHKERRQ(ierr); 159 ierr = ISDestroy(&zd);CHKERRQ(ierr); 160 ierr = ISDestroy(&zo);CHKERRQ(ierr); 161 PetscFunctionReturn(0); 162 } 163 164 static PetscErrorCode MatPtAPSymbolic_IS_XAIJ(Mat A,Mat P,PetscReal fill,Mat C) 165 { 166 Mat PT,lA; 167 MatISPtAP ptap; 168 ISLocalToGlobalMapping Crl2g,Ccl2g,rl2g,cl2g; 169 PetscContainer c; 170 MatType lmtype; 171 const PetscInt *garray; 172 PetscInt ibs,N,dc; 173 MPI_Comm comm; 174 PetscErrorCode ierr; 175 176 PetscFunctionBegin; 177 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 178 ierr = MatSetType(C,MATIS);CHKERRQ(ierr); 179 ierr = MatISGetLocalMat(A,&lA);CHKERRQ(ierr); 180 ierr = MatGetType(lA,&lmtype);CHKERRQ(ierr); 181 ierr = MatISSetLocalMatType(C,lmtype);CHKERRQ(ierr); 182 ierr = MatGetSize(P,NULL,&N);CHKERRQ(ierr); 183 ierr = MatGetLocalSize(P,NULL,&dc);CHKERRQ(ierr); 184 ierr = MatSetSizes(C,dc,dc,N,N);CHKERRQ(ierr); 185 /* Not sure about this 186 ierr = MatGetBlockSizes(P,NULL,&ibs);CHKERRQ(ierr); 187 ierr = MatSetBlockSize(*C,ibs);CHKERRQ(ierr); 188 */ 189 190 ierr = PetscNew(&ptap);CHKERRQ(ierr); 191 ierr = PetscContainerCreate(PETSC_COMM_SELF,&c);CHKERRQ(ierr); 192 ierr = PetscContainerSetPointer(c,ptap);CHKERRQ(ierr); 193 ierr = PetscContainerSetUserDestroy(c,MatISContainerDestroyPtAP_Private);CHKERRQ(ierr); 194 ierr = PetscObjectCompose((PetscObject)C,"_MatIS_PtAP",(PetscObject)c);CHKERRQ(ierr); 195 ierr = PetscContainerDestroy(&c);CHKERRQ(ierr); 196 ptap->fill = fill; 197 198 ierr = MatGetLocalToGlobalMapping(A,&rl2g,&cl2g);CHKERRQ(ierr); 199 200 ierr = ISLocalToGlobalMappingGetBlockSize(cl2g,&ibs);CHKERRQ(ierr); 201 ierr = ISLocalToGlobalMappingGetSize(cl2g,&N);CHKERRQ(ierr); 202 ierr = ISLocalToGlobalMappingGetBlockIndices(cl2g,&garray);CHKERRQ(ierr); 203 ierr = ISCreateBlock(comm,ibs,N/ibs,garray,PETSC_COPY_VALUES,&ptap->ris0);CHKERRQ(ierr); 204 ierr = ISLocalToGlobalMappingRestoreBlockIndices(cl2g,&garray);CHKERRQ(ierr); 205 206 ierr = MatCreateSubMatrix(P,ptap->ris0,NULL,MAT_INITIAL_MATRIX,&PT);CHKERRQ(ierr); 207 ierr = MatGetNonzeroColumnsLocal_Private(PT,&ptap->cis0);CHKERRQ(ierr); 208 ierr = ISLocalToGlobalMappingCreateIS(ptap->cis0,&Ccl2g);CHKERRQ(ierr); 209 ierr = MatDestroy(&PT);CHKERRQ(ierr); 210 211 Crl2g = NULL; 212 if (rl2g != cl2g) { /* unsymmetric A mapping */ 213 PetscBool same,lsame = PETSC_FALSE; 214 PetscInt N1,ibs1; 215 216 ierr = ISLocalToGlobalMappingGetSize(rl2g,&N1);CHKERRQ(ierr); 217 ierr = ISLocalToGlobalMappingGetBlockSize(rl2g,&ibs1);CHKERRQ(ierr); 218 ierr = ISLocalToGlobalMappingGetBlockIndices(rl2g,&garray);CHKERRQ(ierr); 219 ierr = ISCreateBlock(comm,ibs,N/ibs,garray,PETSC_COPY_VALUES,&ptap->ris1);CHKERRQ(ierr); 220 ierr = ISLocalToGlobalMappingRestoreBlockIndices(rl2g,&garray);CHKERRQ(ierr); 221 if (ibs1 == ibs && N1 == N) { /* check if the l2gmaps are the same */ 222 const PetscInt *i1,*i2; 223 224 ierr = ISBlockGetIndices(ptap->ris0,&i1);CHKERRQ(ierr); 225 ierr = ISBlockGetIndices(ptap->ris1,&i2);CHKERRQ(ierr); 226 ierr = PetscArraycmp(i1,i2,N,&lsame);CHKERRQ(ierr); 227 } 228 ierr = MPIU_Allreduce(&lsame,&same,1,MPIU_BOOL,MPI_LAND,comm);CHKERRMPI(ierr); 229 if (same) { 230 ierr = ISDestroy(&ptap->ris1);CHKERRQ(ierr); 231 } else { 232 ierr = MatCreateSubMatrix(P,ptap->ris1,NULL,MAT_INITIAL_MATRIX,&PT);CHKERRQ(ierr); 233 ierr = MatGetNonzeroColumnsLocal_Private(PT,&ptap->cis1);CHKERRQ(ierr); 234 ierr = ISLocalToGlobalMappingCreateIS(ptap->cis1,&Crl2g);CHKERRQ(ierr); 235 ierr = MatDestroy(&PT);CHKERRQ(ierr); 236 } 237 } 238 /* Not sure about this 239 if (!Crl2g) { 240 ierr = MatGetBlockSize(C,&ibs);CHKERRQ(ierr); 241 ierr = ISLocalToGlobalMappingSetBlockSize(Ccl2g,ibs);CHKERRQ(ierr); 242 } 243 */ 244 ierr = MatSetLocalToGlobalMapping(C,Crl2g ? Crl2g : Ccl2g,Ccl2g);CHKERRQ(ierr); 245 ierr = ISLocalToGlobalMappingDestroy(&Crl2g);CHKERRQ(ierr); 246 ierr = ISLocalToGlobalMappingDestroy(&Ccl2g);CHKERRQ(ierr); 247 248 C->ops->ptapnumeric = MatPtAPNumeric_IS_XAIJ; 249 PetscFunctionReturn(0); 250 } 251 252 /* ----------------------------------------- */ 253 static PetscErrorCode MatProductSymbolic_PtAP_IS_XAIJ(Mat C) 254 { 255 PetscErrorCode ierr; 256 Mat_Product *product = C->product; 257 Mat A=product->A,P=product->B; 258 PetscReal fill=product->fill; 259 260 PetscFunctionBegin; 261 ierr = MatPtAPSymbolic_IS_XAIJ(A,P,fill,C);CHKERRQ(ierr); 262 C->ops->productnumeric = MatProductNumeric_PtAP; 263 PetscFunctionReturn(0); 264 } 265 266 static PetscErrorCode MatProductSetFromOptions_IS_XAIJ_PtAP(Mat C) 267 { 268 PetscFunctionBegin; 269 C->ops->productsymbolic = MatProductSymbolic_PtAP_IS_XAIJ; 270 PetscFunctionReturn(0); 271 } 272 273 PETSC_INTERN PetscErrorCode MatProductSetFromOptions_IS_XAIJ(Mat C) 274 { 275 PetscErrorCode ierr; 276 Mat_Product *product = C->product; 277 278 PetscFunctionBegin; 279 if (product->type == MATPRODUCT_PtAP) { 280 ierr = MatProductSetFromOptions_IS_XAIJ_PtAP(C);CHKERRQ(ierr); 281 } 282 PetscFunctionReturn(0); 283 } 284 285 /* ----------------------------------------- */ 286 static PetscErrorCode MatISContainerDestroyFields_Private(void *ptr) 287 { 288 MatISLocalFields lf = (MatISLocalFields)ptr; 289 PetscInt i; 290 PetscErrorCode ierr; 291 292 PetscFunctionBegin; 293 for (i=0;i<lf->nr;i++) { 294 ierr = ISDestroy(&lf->rf[i]);CHKERRQ(ierr); 295 } 296 for (i=0;i<lf->nc;i++) { 297 ierr = ISDestroy(&lf->cf[i]);CHKERRQ(ierr); 298 } 299 ierr = PetscFree2(lf->rf,lf->cf);CHKERRQ(ierr); 300 ierr = PetscFree(lf);CHKERRQ(ierr); 301 PetscFunctionReturn(0); 302 } 303 304 static PetscErrorCode MatConvert_SeqXAIJ_IS(Mat A,MatType type,MatReuse reuse,Mat *newmat) 305 { 306 Mat B,lB; 307 PetscErrorCode ierr; 308 309 PetscFunctionBegin; 310 if (reuse != MAT_REUSE_MATRIX) { 311 ISLocalToGlobalMapping rl2g,cl2g; 312 PetscInt bs; 313 IS is; 314 315 ierr = MatGetBlockSize(A,&bs);CHKERRQ(ierr); 316 ierr = ISCreateStride(PetscObjectComm((PetscObject)A),A->rmap->n/bs,0,1,&is);CHKERRQ(ierr); 317 if (bs > 1) { 318 IS is2; 319 PetscInt i,*aux; 320 321 ierr = ISGetLocalSize(is,&i);CHKERRQ(ierr); 322 ierr = ISGetIndices(is,(const PetscInt**)&aux);CHKERRQ(ierr); 323 ierr = ISCreateBlock(PetscObjectComm((PetscObject)A),bs,i,aux,PETSC_COPY_VALUES,&is2);CHKERRQ(ierr); 324 ierr = ISRestoreIndices(is,(const PetscInt**)&aux);CHKERRQ(ierr); 325 ierr = ISDestroy(&is);CHKERRQ(ierr); 326 is = is2; 327 } 328 ierr = ISSetIdentity(is);CHKERRQ(ierr); 329 ierr = ISLocalToGlobalMappingCreateIS(is,&rl2g);CHKERRQ(ierr); 330 ierr = ISDestroy(&is);CHKERRQ(ierr); 331 ierr = ISCreateStride(PetscObjectComm((PetscObject)A),A->cmap->n/bs,0,1,&is);CHKERRQ(ierr); 332 if (bs > 1) { 333 IS is2; 334 PetscInt i,*aux; 335 336 ierr = ISGetLocalSize(is,&i);CHKERRQ(ierr); 337 ierr = ISGetIndices(is,(const PetscInt**)&aux);CHKERRQ(ierr); 338 ierr = ISCreateBlock(PetscObjectComm((PetscObject)A),bs,i,aux,PETSC_COPY_VALUES,&is2);CHKERRQ(ierr); 339 ierr = ISRestoreIndices(is,(const PetscInt**)&aux);CHKERRQ(ierr); 340 ierr = ISDestroy(&is);CHKERRQ(ierr); 341 is = is2; 342 } 343 ierr = ISSetIdentity(is);CHKERRQ(ierr); 344 ierr = ISLocalToGlobalMappingCreateIS(is,&cl2g);CHKERRQ(ierr); 345 ierr = ISDestroy(&is);CHKERRQ(ierr); 346 ierr = MatCreateIS(PetscObjectComm((PetscObject)A),bs,A->rmap->n,A->cmap->n,A->rmap->N,A->cmap->N,rl2g,cl2g,&B);CHKERRQ(ierr); 347 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 348 ierr = ISLocalToGlobalMappingDestroy(&cl2g);CHKERRQ(ierr); 349 ierr = MatDuplicate(A,MAT_COPY_VALUES,&lB);CHKERRQ(ierr); 350 if (reuse == MAT_INITIAL_MATRIX) *newmat = B; 351 } else { 352 B = *newmat; 353 ierr = PetscObjectReference((PetscObject)A);CHKERRQ(ierr); 354 lB = A; 355 } 356 ierr = MatISSetLocalMat(B,lB);CHKERRQ(ierr); 357 ierr = MatDestroy(&lB);CHKERRQ(ierr); 358 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 359 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 360 if (reuse == MAT_INPLACE_MATRIX) { 361 ierr = MatHeaderReplace(A,&B);CHKERRQ(ierr); 362 } 363 PetscFunctionReturn(0); 364 } 365 366 static PetscErrorCode MatISScaleDisassembling_Private(Mat A) 367 { 368 Mat_IS *matis = (Mat_IS*)(A->data); 369 PetscScalar *aa; 370 const PetscInt *ii,*jj; 371 PetscInt i,n,m; 372 PetscInt *ecount,**eneighs; 373 PetscBool flg; 374 PetscErrorCode ierr; 375 376 PetscFunctionBegin; 377 ierr = MatGetRowIJ(matis->A,0,PETSC_FALSE,PETSC_FALSE,&m,&ii,&jj,&flg);CHKERRQ(ierr); 378 if (!flg) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot get IJ structure"); 379 ierr = ISLocalToGlobalMappingGetNodeInfo(A->rmap->mapping,&n,&ecount,&eneighs);CHKERRQ(ierr); 380 if (m != n) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Unexpected %D != %D",m,n); 381 ierr = MatSeqAIJGetArray(matis->A,&aa);CHKERRQ(ierr); 382 for (i=0;i<n;i++) { 383 if (ecount[i] > 1) { 384 PetscInt j; 385 386 for (j=ii[i];j<ii[i+1];j++) { 387 PetscInt i2 = jj[j],p,p2; 388 PetscReal scal = 0.0; 389 390 for (p=0;p<ecount[i];p++) { 391 for (p2=0;p2<ecount[i2];p2++) { 392 if (eneighs[i][p] == eneighs[i2][p2]) { scal += 1.0; break; } 393 } 394 } 395 if (scal) aa[j] /= scal; 396 } 397 } 398 } 399 ierr = ISLocalToGlobalMappingRestoreNodeInfo(A->rmap->mapping,&n,&ecount,&eneighs);CHKERRQ(ierr); 400 ierr = MatSeqAIJRestoreArray(matis->A,&aa);CHKERRQ(ierr); 401 ierr = MatRestoreRowIJ(matis->A,0,PETSC_FALSE,PETSC_FALSE,&m,&ii,&jj,&flg);CHKERRQ(ierr); 402 if (!flg) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot restore IJ structure"); 403 PetscFunctionReturn(0); 404 } 405 406 typedef enum {MAT_IS_DISASSEMBLE_L2G_NATURAL,MAT_IS_DISASSEMBLE_L2G_MAT, MAT_IS_DISASSEMBLE_L2G_ND} MatISDisassemblel2gType; 407 408 static PetscErrorCode MatMPIXAIJComputeLocalToGlobalMapping_Private(Mat A, ISLocalToGlobalMapping *l2g) 409 { 410 Mat Ad,Ao; 411 IS is,ndmap,ndsub; 412 MPI_Comm comm; 413 const PetscInt *garray,*ndmapi; 414 PetscInt bs,i,cnt,nl,*ncount,*ndmapc; 415 PetscBool ismpiaij,ismpibaij; 416 const char *const MatISDisassemblel2gTypes[] = {"NATURAL","MAT","ND","MatISDisassemblel2gType","MAT_IS_DISASSEMBLE_L2G_",NULL}; 417 MatISDisassemblel2gType mode = MAT_IS_DISASSEMBLE_L2G_NATURAL; 418 MatPartitioning part; 419 PetscSF sf; 420 PetscErrorCode ierr; 421 422 PetscFunctionBegin; 423 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)A),((PetscObject)A)->prefix,"MatIS l2g disassembling options","Mat");CHKERRQ(ierr); 424 ierr = PetscOptionsEnum("-mat_is_disassemble_l2g_type","Type of local-to-global mapping to be used for disassembling","MatISDisassemblel2gType",MatISDisassemblel2gTypes,(PetscEnum)mode,(PetscEnum*)&mode,NULL);CHKERRQ(ierr); 425 ierr = PetscOptionsEnd();CHKERRQ(ierr); 426 if (mode == MAT_IS_DISASSEMBLE_L2G_MAT) { 427 ierr = MatGetLocalToGlobalMapping(A,l2g,NULL);CHKERRQ(ierr); 428 PetscFunctionReturn(0); 429 } 430 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 431 ierr = PetscObjectBaseTypeCompare((PetscObject)A,MATMPIAIJ ,&ismpiaij);CHKERRQ(ierr); 432 ierr = PetscObjectBaseTypeCompare((PetscObject)A,MATMPIBAIJ,&ismpibaij);CHKERRQ(ierr); 433 ierr = MatGetBlockSize(A,&bs);CHKERRQ(ierr); 434 switch (mode) { 435 case MAT_IS_DISASSEMBLE_L2G_ND: 436 ierr = MatPartitioningCreate(comm,&part);CHKERRQ(ierr); 437 ierr = MatPartitioningSetAdjacency(part,A);CHKERRQ(ierr); 438 ierr = PetscObjectSetOptionsPrefix((PetscObject)part,((PetscObject)A)->prefix);CHKERRQ(ierr); 439 ierr = MatPartitioningSetFromOptions(part);CHKERRQ(ierr); 440 ierr = MatPartitioningApplyND(part,&ndmap);CHKERRQ(ierr); 441 ierr = MatPartitioningDestroy(&part);CHKERRQ(ierr); 442 ierr = ISBuildTwoSided(ndmap,NULL,&ndsub);CHKERRQ(ierr); 443 ierr = MatMPIAIJSetUseScalableIncreaseOverlap(A,PETSC_TRUE);CHKERRQ(ierr); 444 ierr = MatIncreaseOverlap(A,1,&ndsub,1);CHKERRQ(ierr); 445 ierr = ISLocalToGlobalMappingCreateIS(ndsub,l2g);CHKERRQ(ierr); 446 447 /* it may happen that a separator node is not properly shared */ 448 ierr = ISLocalToGlobalMappingGetNodeInfo(*l2g,&nl,&ncount,NULL);CHKERRQ(ierr); 449 ierr = PetscSFCreate(comm,&sf);CHKERRQ(ierr); 450 ierr = ISLocalToGlobalMappingGetIndices(*l2g,&garray);CHKERRQ(ierr); 451 ierr = PetscSFSetGraphLayout(sf,A->rmap,nl,NULL,PETSC_OWN_POINTER,garray);CHKERRQ(ierr); 452 ierr = ISLocalToGlobalMappingRestoreIndices(*l2g,&garray);CHKERRQ(ierr); 453 ierr = PetscCalloc1(A->rmap->n,&ndmapc);CHKERRQ(ierr); 454 ierr = PetscSFReduceBegin(sf,MPIU_INT,ncount,ndmapc,MPI_REPLACE);CHKERRQ(ierr); 455 ierr = PetscSFReduceEnd(sf,MPIU_INT,ncount,ndmapc,MPI_REPLACE);CHKERRQ(ierr); 456 ierr = ISLocalToGlobalMappingRestoreNodeInfo(*l2g,NULL,&ncount,NULL);CHKERRQ(ierr); 457 ierr = ISGetIndices(ndmap,&ndmapi);CHKERRQ(ierr); 458 for (i = 0, cnt = 0; i < A->rmap->n; i++) 459 if (ndmapi[i] < 0 && ndmapc[i] < 2) 460 cnt++; 461 462 ierr = MPIU_Allreduce(&cnt,&i,1,MPIU_INT,MPI_MAX,comm);CHKERRMPI(ierr); 463 if (i) { /* we detected isolated separator nodes */ 464 Mat A2,A3; 465 IS *workis,is2; 466 PetscScalar *vals; 467 PetscInt gcnt = i,*dnz,*onz,j,*lndmapi; 468 ISLocalToGlobalMapping ll2g; 469 PetscBool flg; 470 const PetscInt *ii,*jj; 471 472 /* communicate global id of separators */ 473 ierr = MatPreallocateInitialize(comm,A->rmap->n,A->cmap->n,dnz,onz);CHKERRQ(ierr); 474 for (i = 0, cnt = 0; i < A->rmap->n; i++) 475 dnz[i] = ndmapi[i] < 0 ? i + A->rmap->rstart : -1; 476 477 ierr = PetscMalloc1(nl,&lndmapi);CHKERRQ(ierr); 478 ierr = PetscSFBcastBegin(sf,MPIU_INT,dnz,lndmapi,MPI_REPLACE);CHKERRQ(ierr); 479 480 /* compute adjacency of isolated separators node */ 481 ierr = PetscMalloc1(gcnt,&workis);CHKERRQ(ierr); 482 for (i = 0, cnt = 0; i < A->rmap->n; i++) { 483 if (ndmapi[i] < 0 && ndmapc[i] < 2) { 484 ierr = ISCreateStride(comm,1,i+A->rmap->rstart,1,&workis[cnt++]);CHKERRQ(ierr); 485 } 486 } 487 for (i = cnt; i < gcnt; i++) { 488 ierr = ISCreateStride(comm,0,0,1,&workis[i]);CHKERRQ(ierr); 489 } 490 for (i = 0; i < gcnt; i++) { 491 ierr = PetscObjectSetName((PetscObject)workis[i],"ISOLATED");CHKERRQ(ierr); 492 ierr = ISViewFromOptions(workis[i],NULL,"-view_isolated_separators");CHKERRQ(ierr); 493 } 494 495 /* no communications since all the ISes correspond to locally owned rows */ 496 ierr = MatIncreaseOverlap(A,gcnt,workis,1);CHKERRQ(ierr); 497 498 /* end communicate global id of separators */ 499 ierr = PetscSFBcastEnd(sf,MPIU_INT,dnz,lndmapi,MPI_REPLACE);CHKERRQ(ierr); 500 501 /* communicate new layers : create a matrix and transpose it */ 502 ierr = PetscArrayzero(dnz,A->rmap->n);CHKERRQ(ierr); 503 ierr = PetscArrayzero(onz,A->rmap->n);CHKERRQ(ierr); 504 for (i = 0, j = 0; i < A->rmap->n; i++) { 505 if (ndmapi[i] < 0 && ndmapc[i] < 2) { 506 const PetscInt* idxs; 507 PetscInt s; 508 509 ierr = ISGetLocalSize(workis[j],&s);CHKERRQ(ierr); 510 ierr = ISGetIndices(workis[j],&idxs);CHKERRQ(ierr); 511 ierr = MatPreallocateSet(i+A->rmap->rstart,s,idxs,dnz,onz);CHKERRQ(ierr); 512 j++; 513 } 514 } 515 if (j != cnt) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Unexpected local count %D != %D",j,cnt); 516 517 for (i = 0; i < gcnt; i++) { 518 ierr = PetscObjectSetName((PetscObject)workis[i],"EXTENDED");CHKERRQ(ierr); 519 ierr = ISViewFromOptions(workis[i],NULL,"-view_isolated_separators");CHKERRQ(ierr); 520 } 521 522 for (i = 0, j = 0; i < A->rmap->n; i++) j = PetscMax(j,dnz[i]+onz[i]); 523 ierr = PetscMalloc1(j,&vals);CHKERRQ(ierr); 524 for (i = 0; i < j; i++) vals[i] = 1.0; 525 526 ierr = MatCreate(comm,&A2);CHKERRQ(ierr); 527 ierr = MatSetType(A2,MATMPIAIJ);CHKERRQ(ierr); 528 ierr = MatSetSizes(A2,A->rmap->n,A->cmap->n,A->rmap->N,A->cmap->N);CHKERRQ(ierr); 529 ierr = MatMPIAIJSetPreallocation(A2,0,dnz,0,onz);CHKERRQ(ierr); 530 ierr = MatSetOption(A2,MAT_NO_OFF_PROC_ENTRIES,PETSC_TRUE);CHKERRQ(ierr); 531 for (i = 0, j = 0; i < A2->rmap->n; i++) { 532 PetscInt row = i+A2->rmap->rstart,s = dnz[i] + onz[i]; 533 const PetscInt* idxs; 534 535 if (s) { 536 ierr = ISGetIndices(workis[j],&idxs);CHKERRQ(ierr); 537 ierr = MatSetValues(A2,1,&row,s,idxs,vals,INSERT_VALUES);CHKERRQ(ierr); 538 ierr = ISRestoreIndices(workis[j],&idxs);CHKERRQ(ierr); 539 j++; 540 } 541 } 542 if (j != cnt) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Unexpected local count %D != %D",j,cnt); 543 ierr = PetscFree(vals);CHKERRQ(ierr); 544 ierr = MatAssemblyBegin(A2,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 545 ierr = MatAssemblyEnd(A2,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 546 ierr = MatTranspose(A2,MAT_INPLACE_MATRIX,&A2);CHKERRQ(ierr); 547 548 /* extract submatrix corresponding to the coupling "owned separators" x "isolated separators" */ 549 for (i = 0, j = 0; i < nl; i++) 550 if (lndmapi[i] >= 0) lndmapi[j++] = lndmapi[i]; 551 ierr = ISCreateGeneral(comm,j,lndmapi,PETSC_USE_POINTER,&is);CHKERRQ(ierr); 552 ierr = MatMPIAIJGetLocalMatCondensed(A2,MAT_INITIAL_MATRIX,&is,NULL,&A3);CHKERRQ(ierr); 553 ierr = ISDestroy(&is);CHKERRQ(ierr); 554 ierr = MatDestroy(&A2);CHKERRQ(ierr); 555 556 /* extend local to global map to include connected isolated separators */ 557 ierr = PetscObjectQuery((PetscObject)A3,"_petsc_GetLocalMatCondensed_iscol",(PetscObject*)&is);CHKERRQ(ierr); 558 if (!is) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Missing column map"); 559 ierr = ISLocalToGlobalMappingCreateIS(is,&ll2g);CHKERRQ(ierr); 560 ierr = MatGetRowIJ(A3,0,PETSC_FALSE,PETSC_FALSE,&i,&ii,&jj,&flg);CHKERRQ(ierr); 561 if (!flg) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot get IJ structure"); 562 ierr = ISCreateGeneral(PETSC_COMM_SELF,ii[i],jj,PETSC_COPY_VALUES,&is);CHKERRQ(ierr); 563 ierr = MatRestoreRowIJ(A3,0,PETSC_FALSE,PETSC_FALSE,&i,&ii,&jj,&flg);CHKERRQ(ierr); 564 if (!flg) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot get IJ structure"); 565 ierr = ISLocalToGlobalMappingApplyIS(ll2g,is,&is2);CHKERRQ(ierr); 566 ierr = ISDestroy(&is);CHKERRQ(ierr); 567 ierr = ISLocalToGlobalMappingDestroy(&ll2g);CHKERRQ(ierr); 568 569 /* add new nodes to the local-to-global map */ 570 ierr = ISLocalToGlobalMappingDestroy(l2g);CHKERRQ(ierr); 571 ierr = ISExpand(ndsub,is2,&is);CHKERRQ(ierr); 572 ierr = ISDestroy(&is2);CHKERRQ(ierr); 573 ierr = ISLocalToGlobalMappingCreateIS(is,l2g);CHKERRQ(ierr); 574 ierr = ISDestroy(&is);CHKERRQ(ierr); 575 576 ierr = MatDestroy(&A3);CHKERRQ(ierr); 577 ierr = PetscFree(lndmapi);CHKERRQ(ierr); 578 ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 579 for (i = 0; i < gcnt; i++) { 580 ierr = ISDestroy(&workis[i]);CHKERRQ(ierr); 581 } 582 ierr = PetscFree(workis);CHKERRQ(ierr); 583 } 584 ierr = ISRestoreIndices(ndmap,&ndmapi);CHKERRQ(ierr); 585 ierr = PetscSFDestroy(&sf);CHKERRQ(ierr); 586 ierr = PetscFree(ndmapc);CHKERRQ(ierr); 587 ierr = ISDestroy(&ndmap);CHKERRQ(ierr); 588 ierr = ISDestroy(&ndsub);CHKERRQ(ierr); 589 ierr = ISLocalToGlobalMappingSetBlockSize(*l2g,bs);CHKERRQ(ierr); 590 ierr = ISLocalToGlobalMappingViewFromOptions(*l2g,NULL,"-matis_nd_l2g_view");CHKERRQ(ierr); 591 break; 592 case MAT_IS_DISASSEMBLE_L2G_NATURAL: 593 if (ismpiaij) { 594 ierr = MatMPIAIJGetSeqAIJ(A,&Ad,&Ao,&garray);CHKERRQ(ierr); 595 } else if (ismpibaij) { 596 ierr = MatMPIBAIJGetSeqBAIJ(A,&Ad,&Ao,&garray);CHKERRQ(ierr); 597 } else SETERRQ1(comm,PETSC_ERR_SUP,"Type %s",((PetscObject)A)->type_name); 598 if (!garray) SETERRQ(comm,PETSC_ERR_ARG_WRONGSTATE,"garray not present"); 599 if (A->rmap->n) { 600 PetscInt dc,oc,stc,*aux; 601 602 ierr = MatGetLocalSize(A,NULL,&dc);CHKERRQ(ierr); 603 ierr = MatGetLocalSize(Ao,NULL,&oc);CHKERRQ(ierr); 604 ierr = MatGetOwnershipRangeColumn(A,&stc,NULL);CHKERRQ(ierr); 605 ierr = PetscMalloc1((dc+oc)/bs,&aux);CHKERRQ(ierr); 606 for (i=0; i<dc/bs; i++) aux[i] = i+stc/bs; 607 for (i=0; i<oc/bs; i++) aux[i+dc/bs] = garray[i]; 608 ierr = ISCreateBlock(comm,bs,(dc+oc)/bs,aux,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 609 } else { 610 ierr = ISCreateBlock(comm,1,0,NULL,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 611 } 612 ierr = ISLocalToGlobalMappingCreateIS(is,l2g);CHKERRQ(ierr); 613 ierr = ISDestroy(&is);CHKERRQ(ierr); 614 break; 615 default: 616 SETERRQ1(comm,PETSC_ERR_ARG_WRONG,"Unsupported l2g disassembling type %D",mode); 617 } 618 PetscFunctionReturn(0); 619 } 620 621 PETSC_INTERN PetscErrorCode MatConvert_XAIJ_IS(Mat A,MatType type,MatReuse reuse,Mat *newmat) 622 { 623 Mat lA,Ad,Ao,B = NULL; 624 ISLocalToGlobalMapping rl2g,cl2g; 625 IS is; 626 MPI_Comm comm; 627 void *ptrs[2]; 628 const char *names[2] = {"_convert_csr_aux","_convert_csr_data"}; 629 const PetscInt *garray; 630 PetscScalar *dd,*od,*aa,*data; 631 const PetscInt *di,*dj,*oi,*oj; 632 const PetscInt *odi,*odj,*ooi,*ooj; 633 PetscInt *aux,*ii,*jj; 634 PetscInt bs,lc,dr,dc,oc,str,stc,nnz,i,jd,jo,cum; 635 PetscBool flg,ismpiaij,ismpibaij,was_inplace = PETSC_FALSE; 636 PetscMPIInt size; 637 PetscErrorCode ierr; 638 639 PetscFunctionBegin; 640 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 641 ierr = MPI_Comm_size(comm,&size);CHKERRMPI(ierr); 642 if (size == 1) { 643 ierr = MatConvert_SeqXAIJ_IS(A,type,reuse,newmat);CHKERRQ(ierr); 644 PetscFunctionReturn(0); 645 } 646 if (reuse != MAT_REUSE_MATRIX && A->cmap->N == A->rmap->N) { 647 ierr = MatMPIXAIJComputeLocalToGlobalMapping_Private(A,&rl2g);CHKERRQ(ierr); 648 ierr = MatCreate(comm,&B);CHKERRQ(ierr); 649 ierr = MatSetType(B,MATIS);CHKERRQ(ierr); 650 ierr = MatSetSizes(B,A->rmap->n,A->cmap->n,A->rmap->N,A->cmap->N);CHKERRQ(ierr); 651 ierr = MatSetLocalToGlobalMapping(B,rl2g,rl2g);CHKERRQ(ierr); 652 ierr = MatGetBlockSize(A,&bs);CHKERRQ(ierr); 653 ierr = MatSetBlockSize(B,bs);CHKERRQ(ierr); 654 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 655 if (reuse == MAT_INPLACE_MATRIX) was_inplace = PETSC_TRUE; 656 reuse = MAT_REUSE_MATRIX; 657 } 658 if (reuse == MAT_REUSE_MATRIX) { 659 Mat *newlA, lA; 660 IS rows, cols; 661 const PetscInt *ridx, *cidx; 662 PetscInt rbs, cbs, nr, nc; 663 664 if (!B) B = *newmat; 665 ierr = MatGetLocalToGlobalMapping(B,&rl2g,&cl2g);CHKERRQ(ierr); 666 ierr = ISLocalToGlobalMappingGetBlockIndices(rl2g,&ridx);CHKERRQ(ierr); 667 ierr = ISLocalToGlobalMappingGetBlockIndices(cl2g,&cidx);CHKERRQ(ierr); 668 ierr = ISLocalToGlobalMappingGetSize(rl2g,&nr);CHKERRQ(ierr); 669 ierr = ISLocalToGlobalMappingGetSize(cl2g,&nc);CHKERRQ(ierr); 670 ierr = ISLocalToGlobalMappingGetBlockSize(rl2g,&rbs);CHKERRQ(ierr); 671 ierr = ISLocalToGlobalMappingGetBlockSize(cl2g,&cbs);CHKERRQ(ierr); 672 ierr = ISCreateBlock(comm,rbs,nr/rbs,ridx,PETSC_USE_POINTER,&rows);CHKERRQ(ierr); 673 if (rl2g != cl2g) { 674 ierr = ISCreateBlock(comm,cbs,nc/cbs,cidx,PETSC_USE_POINTER,&cols);CHKERRQ(ierr); 675 } else { 676 ierr = PetscObjectReference((PetscObject)rows);CHKERRQ(ierr); 677 cols = rows; 678 } 679 ierr = MatISGetLocalMat(B,&lA);CHKERRQ(ierr); 680 ierr = MatCreateSubMatrices(A,1,&rows,&cols,MAT_INITIAL_MATRIX,&newlA);CHKERRQ(ierr); 681 ierr = MatConvert(newlA[0],MATSEQAIJ,MAT_INPLACE_MATRIX,&newlA[0]);CHKERRQ(ierr); 682 ierr = ISLocalToGlobalMappingRestoreBlockIndices(rl2g,&ridx);CHKERRQ(ierr); 683 ierr = ISLocalToGlobalMappingRestoreBlockIndices(cl2g,&cidx);CHKERRQ(ierr); 684 ierr = ISDestroy(&rows);CHKERRQ(ierr); 685 ierr = ISDestroy(&cols);CHKERRQ(ierr); 686 if (!lA->preallocated) { /* first time */ 687 ierr = MatDuplicate(newlA[0],MAT_COPY_VALUES,&lA);CHKERRQ(ierr); 688 ierr = MatISSetLocalMat(B,lA);CHKERRQ(ierr); 689 ierr = PetscObjectDereference((PetscObject)lA);CHKERRQ(ierr); 690 } 691 ierr = MatCopy(newlA[0],lA,SAME_NONZERO_PATTERN);CHKERRQ(ierr); 692 ierr = MatDestroySubMatrices(1,&newlA);CHKERRQ(ierr); 693 ierr = MatISScaleDisassembling_Private(B);CHKERRQ(ierr); 694 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 695 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 696 if (was_inplace) { ierr = MatHeaderReplace(A,&B);CHKERRQ(ierr); } 697 else *newmat = B; 698 PetscFunctionReturn(0); 699 } 700 /* rectangular case, just compress out the column space */ 701 ierr = PetscObjectBaseTypeCompare((PetscObject)A,MATMPIAIJ ,&ismpiaij);CHKERRQ(ierr); 702 ierr = PetscObjectBaseTypeCompare((PetscObject)A,MATMPIBAIJ,&ismpibaij);CHKERRQ(ierr); 703 if (ismpiaij) { 704 bs = 1; 705 ierr = MatMPIAIJGetSeqAIJ(A,&Ad,&Ao,&garray);CHKERRQ(ierr); 706 } else if (ismpibaij) { 707 ierr = MatGetBlockSize(A,&bs);CHKERRQ(ierr); 708 ierr = MatMPIBAIJGetSeqBAIJ(A,&Ad,&Ao,&garray);CHKERRQ(ierr); 709 ierr = MatConvert(Ad,MATSEQAIJ,MAT_INITIAL_MATRIX,&Ad);CHKERRQ(ierr); 710 ierr = MatConvert(Ao,MATSEQAIJ,MAT_INITIAL_MATRIX,&Ao);CHKERRQ(ierr); 711 } else SETERRQ1(comm,PETSC_ERR_SUP,"Type %s",((PetscObject)A)->type_name); 712 ierr = MatSeqAIJGetArray(Ad,&dd);CHKERRQ(ierr); 713 ierr = MatSeqAIJGetArray(Ao,&od);CHKERRQ(ierr); 714 if (!garray) SETERRQ(comm,PETSC_ERR_ARG_WRONGSTATE,"garray not present"); 715 716 /* access relevant information from MPIAIJ */ 717 ierr = MatGetOwnershipRange(A,&str,NULL);CHKERRQ(ierr); 718 ierr = MatGetOwnershipRangeColumn(A,&stc,NULL);CHKERRQ(ierr); 719 ierr = MatGetLocalSize(A,&dr,&dc);CHKERRQ(ierr); 720 ierr = MatGetLocalSize(Ao,NULL,&oc);CHKERRQ(ierr); 721 ierr = MatGetRowIJ(Ad,0,PETSC_FALSE,PETSC_FALSE,&i,&di,&dj,&flg);CHKERRQ(ierr); 722 if (!flg) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot get IJ structure"); 723 ierr = MatGetRowIJ(Ao,0,PETSC_FALSE,PETSC_FALSE,&i,&oi,&oj,&flg);CHKERRQ(ierr); 724 if (!flg) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot get IJ structure"); 725 nnz = di[dr] + oi[dr]; 726 /* store original pointers to be restored later */ 727 odi = di; odj = dj; ooi = oi; ooj = oj; 728 729 /* generate l2g maps for rows and cols */ 730 ierr = ISCreateStride(comm,dr/bs,str/bs,1,&is);CHKERRQ(ierr); 731 if (bs > 1) { 732 IS is2; 733 734 ierr = ISGetLocalSize(is,&i);CHKERRQ(ierr); 735 ierr = ISGetIndices(is,(const PetscInt**)&aux);CHKERRQ(ierr); 736 ierr = ISCreateBlock(comm,bs,i,aux,PETSC_COPY_VALUES,&is2);CHKERRQ(ierr); 737 ierr = ISRestoreIndices(is,(const PetscInt**)&aux);CHKERRQ(ierr); 738 ierr = ISDestroy(&is);CHKERRQ(ierr); 739 is = is2; 740 } 741 ierr = ISLocalToGlobalMappingCreateIS(is,&rl2g);CHKERRQ(ierr); 742 ierr = ISDestroy(&is);CHKERRQ(ierr); 743 if (dr) { 744 ierr = PetscMalloc1((dc+oc)/bs,&aux);CHKERRQ(ierr); 745 for (i=0; i<dc/bs; i++) aux[i] = i+stc/bs; 746 for (i=0; i<oc/bs; i++) aux[i+dc/bs] = garray[i]; 747 ierr = ISCreateBlock(comm,bs,(dc+oc)/bs,aux,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 748 lc = dc+oc; 749 } else { 750 ierr = ISCreateBlock(comm,bs,0,NULL,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 751 lc = 0; 752 } 753 ierr = ISLocalToGlobalMappingCreateIS(is,&cl2g);CHKERRQ(ierr); 754 ierr = ISDestroy(&is);CHKERRQ(ierr); 755 756 /* create MATIS object */ 757 ierr = MatCreate(comm,&B);CHKERRQ(ierr); 758 ierr = MatSetSizes(B,dr,dc,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr); 759 ierr = MatSetType(B,MATIS);CHKERRQ(ierr); 760 ierr = MatSetBlockSize(B,bs);CHKERRQ(ierr); 761 ierr = MatSetLocalToGlobalMapping(B,rl2g,cl2g);CHKERRQ(ierr); 762 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 763 ierr = ISLocalToGlobalMappingDestroy(&cl2g);CHKERRQ(ierr); 764 765 /* merge local matrices */ 766 ierr = PetscMalloc1(nnz+dr+1,&aux);CHKERRQ(ierr); 767 ierr = PetscMalloc1(nnz,&data);CHKERRQ(ierr); 768 ii = aux; 769 jj = aux+dr+1; 770 aa = data; 771 *ii = *(di++) + *(oi++); 772 for (jd=0,jo=0,cum=0;*ii<nnz;cum++) 773 { 774 for (;jd<*di;jd++) { *jj++ = *dj++; *aa++ = *dd++; } 775 for (;jo<*oi;jo++) { *jj++ = *oj++ + dc; *aa++ = *od++; } 776 *(++ii) = *(di++) + *(oi++); 777 } 778 for (;cum<dr;cum++) *(++ii) = nnz; 779 780 ierr = MatRestoreRowIJ(Ad,0,PETSC_FALSE,PETSC_FALSE,&i,&odi,&odj,&flg);CHKERRQ(ierr); 781 if (!flg) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot restore IJ structure"); 782 ierr = MatRestoreRowIJ(Ao,0,PETSC_FALSE,PETSC_FALSE,&i,&ooi,&ooj,&flg);CHKERRQ(ierr); 783 if (!flg) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot restore IJ structure"); 784 ierr = MatSeqAIJRestoreArray(Ad,&dd);CHKERRQ(ierr); 785 ierr = MatSeqAIJRestoreArray(Ao,&od);CHKERRQ(ierr); 786 787 ii = aux; 788 jj = aux+dr+1; 789 aa = data; 790 ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,dr,lc,ii,jj,aa,&lA);CHKERRQ(ierr); 791 792 /* create containers to destroy the data */ 793 ptrs[0] = aux; 794 ptrs[1] = data; 795 for (i=0; i<2; i++) { 796 PetscContainer c; 797 798 ierr = PetscContainerCreate(PETSC_COMM_SELF,&c);CHKERRQ(ierr); 799 ierr = PetscContainerSetPointer(c,ptrs[i]);CHKERRQ(ierr); 800 ierr = PetscContainerSetUserDestroy(c,PetscContainerUserDestroyDefault);CHKERRQ(ierr); 801 ierr = PetscObjectCompose((PetscObject)lA,names[i],(PetscObject)c);CHKERRQ(ierr); 802 ierr = PetscContainerDestroy(&c);CHKERRQ(ierr); 803 } 804 if (ismpibaij) { /* destroy converted local matrices */ 805 ierr = MatDestroy(&Ad);CHKERRQ(ierr); 806 ierr = MatDestroy(&Ao);CHKERRQ(ierr); 807 } 808 809 /* finalize matrix */ 810 ierr = MatISSetLocalMat(B,lA);CHKERRQ(ierr); 811 ierr = MatDestroy(&lA);CHKERRQ(ierr); 812 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 813 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 814 if (reuse == MAT_INPLACE_MATRIX) { 815 ierr = MatHeaderReplace(A,&B);CHKERRQ(ierr); 816 } else *newmat = B; 817 PetscFunctionReturn(0); 818 } 819 820 PETSC_INTERN PetscErrorCode MatConvert_Nest_IS(Mat A,MatType type,MatReuse reuse,Mat *newmat) 821 { 822 Mat **nest,*snest,**rnest,lA,B; 823 IS *iscol,*isrow,*islrow,*islcol; 824 ISLocalToGlobalMapping rl2g,cl2g; 825 MPI_Comm comm; 826 PetscInt *lr,*lc,*l2gidxs; 827 PetscInt i,j,nr,nc,rbs,cbs; 828 PetscBool convert,lreuse,*istrans; 829 PetscErrorCode ierr; 830 831 PetscFunctionBegin; 832 ierr = MatNestGetSubMats(A,&nr,&nc,&nest);CHKERRQ(ierr); 833 lreuse = PETSC_FALSE; 834 rnest = NULL; 835 if (reuse == MAT_REUSE_MATRIX) { 836 PetscBool ismatis,isnest; 837 838 ierr = PetscObjectTypeCompare((PetscObject)*newmat,MATIS,&ismatis);CHKERRQ(ierr); 839 if (!ismatis) SETERRQ1(PetscObjectComm((PetscObject)*newmat),PETSC_ERR_USER,"Cannot reuse matrix of type %s",((PetscObject)(*newmat))->type_name); 840 ierr = MatISGetLocalMat(*newmat,&lA);CHKERRQ(ierr); 841 ierr = PetscObjectTypeCompare((PetscObject)lA,MATNEST,&isnest);CHKERRQ(ierr); 842 if (isnest) { 843 ierr = MatNestGetSubMats(lA,&i,&j,&rnest);CHKERRQ(ierr); 844 lreuse = (PetscBool)(i == nr && j == nc); 845 if (!lreuse) rnest = NULL; 846 } 847 } 848 ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 849 ierr = PetscCalloc2(nr,&lr,nc,&lc);CHKERRQ(ierr); 850 ierr = PetscCalloc6(nr,&isrow,nc,&iscol,nr,&islrow,nc,&islcol,nr*nc,&snest,nr*nc,&istrans);CHKERRQ(ierr); 851 ierr = MatNestGetISs(A,isrow,iscol);CHKERRQ(ierr); 852 for (i=0;i<nr;i++) { 853 for (j=0;j<nc;j++) { 854 PetscBool ismatis; 855 PetscInt l1,l2,lb1,lb2,ij=i*nc+j; 856 857 /* Null matrix pointers are allowed in MATNEST */ 858 if (!nest[i][j]) continue; 859 860 /* Nested matrices should be of type MATIS */ 861 ierr = PetscObjectTypeCompare((PetscObject)nest[i][j],MATTRANSPOSEMAT,&istrans[ij]);CHKERRQ(ierr); 862 if (istrans[ij]) { 863 Mat T,lT; 864 ierr = MatTransposeGetMat(nest[i][j],&T);CHKERRQ(ierr); 865 ierr = PetscObjectTypeCompare((PetscObject)T,MATIS,&ismatis);CHKERRQ(ierr); 866 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); 867 ierr = MatISGetLocalMat(T,&lT);CHKERRQ(ierr); 868 ierr = MatCreateTranspose(lT,&snest[ij]);CHKERRQ(ierr); 869 } else { 870 ierr = PetscObjectTypeCompare((PetscObject)nest[i][j],MATIS,&ismatis);CHKERRQ(ierr); 871 if (!ismatis) SETERRQ2(comm,PETSC_ERR_SUP,"Cannot convert from MATNEST to MATIS! Matrix block (%D,%D) is not of type MATIS",i,j); 872 ierr = MatISGetLocalMat(nest[i][j],&snest[ij]);CHKERRQ(ierr); 873 } 874 875 /* Check compatibility of local sizes */ 876 ierr = MatGetSize(snest[ij],&l1,&l2);CHKERRQ(ierr); 877 ierr = MatGetBlockSizes(snest[ij],&lb1,&lb2);CHKERRQ(ierr); 878 if (!l1 || !l2) continue; 879 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); 880 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); 881 lr[i] = l1; 882 lc[j] = l2; 883 884 /* check compatibilty for local matrix reusage */ 885 if (rnest && !rnest[i][j] != !snest[ij]) lreuse = PETSC_FALSE; 886 } 887 } 888 889 if (PetscDefined (USE_DEBUG)) { 890 /* Check compatibility of l2g maps for rows */ 891 for (i=0;i<nr;i++) { 892 rl2g = NULL; 893 for (j=0;j<nc;j++) { 894 PetscInt n1,n2; 895 896 if (!nest[i][j]) continue; 897 if (istrans[i*nc+j]) { 898 Mat T; 899 900 ierr = MatTransposeGetMat(nest[i][j],&T);CHKERRQ(ierr); 901 ierr = MatGetLocalToGlobalMapping(T,NULL,&cl2g);CHKERRQ(ierr); 902 } else { 903 ierr = MatGetLocalToGlobalMapping(nest[i][j],&cl2g,NULL);CHKERRQ(ierr); 904 } 905 ierr = ISLocalToGlobalMappingGetSize(cl2g,&n1);CHKERRQ(ierr); 906 if (!n1) continue; 907 if (!rl2g) { 908 rl2g = cl2g; 909 } else { 910 const PetscInt *idxs1,*idxs2; 911 PetscBool same; 912 913 ierr = ISLocalToGlobalMappingGetSize(rl2g,&n2);CHKERRQ(ierr); 914 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); 915 ierr = ISLocalToGlobalMappingGetIndices(cl2g,&idxs1);CHKERRQ(ierr); 916 ierr = ISLocalToGlobalMappingGetIndices(rl2g,&idxs2);CHKERRQ(ierr); 917 ierr = PetscArraycmp(idxs1,idxs2,n1,&same);CHKERRQ(ierr); 918 ierr = ISLocalToGlobalMappingRestoreIndices(cl2g,&idxs1);CHKERRQ(ierr); 919 ierr = ISLocalToGlobalMappingRestoreIndices(rl2g,&idxs2);CHKERRQ(ierr); 920 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); 921 } 922 } 923 } 924 /* Check compatibility of l2g maps for columns */ 925 for (i=0;i<nc;i++) { 926 rl2g = NULL; 927 for (j=0;j<nr;j++) { 928 PetscInt n1,n2; 929 930 if (!nest[j][i]) continue; 931 if (istrans[j*nc+i]) { 932 Mat T; 933 934 ierr = MatTransposeGetMat(nest[j][i],&T);CHKERRQ(ierr); 935 ierr = MatGetLocalToGlobalMapping(T,&cl2g,NULL);CHKERRQ(ierr); 936 } else { 937 ierr = MatGetLocalToGlobalMapping(nest[j][i],NULL,&cl2g);CHKERRQ(ierr); 938 } 939 ierr = ISLocalToGlobalMappingGetSize(cl2g,&n1);CHKERRQ(ierr); 940 if (!n1) continue; 941 if (!rl2g) { 942 rl2g = cl2g; 943 } else { 944 const PetscInt *idxs1,*idxs2; 945 PetscBool same; 946 947 ierr = ISLocalToGlobalMappingGetSize(rl2g,&n2);CHKERRQ(ierr); 948 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); 949 ierr = ISLocalToGlobalMappingGetIndices(cl2g,&idxs1);CHKERRQ(ierr); 950 ierr = ISLocalToGlobalMappingGetIndices(rl2g,&idxs2);CHKERRQ(ierr); 951 ierr = PetscArraycmp(idxs1,idxs2,n1,&same);CHKERRQ(ierr); 952 ierr = ISLocalToGlobalMappingRestoreIndices(cl2g,&idxs1);CHKERRQ(ierr); 953 ierr = ISLocalToGlobalMappingRestoreIndices(rl2g,&idxs2);CHKERRQ(ierr); 954 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); 955 } 956 } 957 } 958 } 959 960 B = NULL; 961 if (reuse != MAT_REUSE_MATRIX) { 962 PetscInt stl; 963 964 /* Create l2g map for the rows of the new matrix and index sets for the local MATNEST */ 965 for (i=0,stl=0;i<nr;i++) stl += lr[i]; 966 ierr = PetscMalloc1(stl,&l2gidxs);CHKERRQ(ierr); 967 for (i=0,stl=0;i<nr;i++) { 968 Mat usedmat; 969 Mat_IS *matis; 970 const PetscInt *idxs; 971 972 /* local IS for local NEST */ 973 ierr = ISCreateStride(PETSC_COMM_SELF,lr[i],stl,1,&islrow[i]);CHKERRQ(ierr); 974 975 /* l2gmap */ 976 j = 0; 977 usedmat = nest[i][j]; 978 while (!usedmat && j < nc-1) usedmat = nest[i][++j]; 979 if (!usedmat) SETERRQ(comm,PETSC_ERR_SUP,"Cannot find valid row mat"); 980 981 if (istrans[i*nc+j]) { 982 Mat T; 983 ierr = MatTransposeGetMat(usedmat,&T);CHKERRQ(ierr); 984 usedmat = T; 985 } 986 matis = (Mat_IS*)(usedmat->data); 987 ierr = ISGetIndices(isrow[i],&idxs);CHKERRQ(ierr); 988 if (istrans[i*nc+j]) { 989 ierr = PetscSFBcastBegin(matis->csf,MPIU_INT,idxs,l2gidxs+stl,MPI_REPLACE);CHKERRQ(ierr); 990 ierr = PetscSFBcastEnd(matis->csf,MPIU_INT,idxs,l2gidxs+stl,MPI_REPLACE);CHKERRQ(ierr); 991 } else { 992 ierr = PetscSFBcastBegin(matis->sf,MPIU_INT,idxs,l2gidxs+stl,MPI_REPLACE);CHKERRQ(ierr); 993 ierr = PetscSFBcastEnd(matis->sf,MPIU_INT,idxs,l2gidxs+stl,MPI_REPLACE);CHKERRQ(ierr); 994 } 995 ierr = ISRestoreIndices(isrow[i],&idxs);CHKERRQ(ierr); 996 stl += lr[i]; 997 } 998 ierr = ISLocalToGlobalMappingCreate(comm,1,stl,l2gidxs,PETSC_OWN_POINTER,&rl2g);CHKERRQ(ierr); 999 1000 /* Create l2g map for columns of the new matrix and index sets for the local MATNEST */ 1001 for (i=0,stl=0;i<nc;i++) stl += lc[i]; 1002 ierr = PetscMalloc1(stl,&l2gidxs);CHKERRQ(ierr); 1003 for (i=0,stl=0;i<nc;i++) { 1004 Mat usedmat; 1005 Mat_IS *matis; 1006 const PetscInt *idxs; 1007 1008 /* local IS for local NEST */ 1009 ierr = ISCreateStride(PETSC_COMM_SELF,lc[i],stl,1,&islcol[i]);CHKERRQ(ierr); 1010 1011 /* l2gmap */ 1012 j = 0; 1013 usedmat = nest[j][i]; 1014 while (!usedmat && j < nr-1) usedmat = nest[++j][i]; 1015 if (!usedmat) SETERRQ(comm,PETSC_ERR_SUP,"Cannot find valid column mat"); 1016 if (istrans[j*nc+i]) { 1017 Mat T; 1018 ierr = MatTransposeGetMat(usedmat,&T);CHKERRQ(ierr); 1019 usedmat = T; 1020 } 1021 matis = (Mat_IS*)(usedmat->data); 1022 ierr = ISGetIndices(iscol[i],&idxs);CHKERRQ(ierr); 1023 if (istrans[j*nc+i]) { 1024 ierr = PetscSFBcastBegin(matis->sf,MPIU_INT,idxs,l2gidxs+stl,MPI_REPLACE);CHKERRQ(ierr); 1025 ierr = PetscSFBcastEnd(matis->sf,MPIU_INT,idxs,l2gidxs+stl,MPI_REPLACE);CHKERRQ(ierr); 1026 } else { 1027 ierr = PetscSFBcastBegin(matis->csf,MPIU_INT,idxs,l2gidxs+stl,MPI_REPLACE);CHKERRQ(ierr); 1028 ierr = PetscSFBcastEnd(matis->csf,MPIU_INT,idxs,l2gidxs+stl,MPI_REPLACE);CHKERRQ(ierr); 1029 } 1030 ierr = ISRestoreIndices(iscol[i],&idxs);CHKERRQ(ierr); 1031 stl += lc[i]; 1032 } 1033 ierr = ISLocalToGlobalMappingCreate(comm,1,stl,l2gidxs,PETSC_OWN_POINTER,&cl2g);CHKERRQ(ierr); 1034 1035 /* Create MATIS */ 1036 ierr = MatCreate(comm,&B);CHKERRQ(ierr); 1037 ierr = MatSetSizes(B,A->rmap->n,A->cmap->n,A->rmap->N,A->cmap->N);CHKERRQ(ierr); 1038 ierr = MatGetBlockSizes(A,&rbs,&cbs);CHKERRQ(ierr); 1039 ierr = MatSetBlockSizes(B,rbs,cbs);CHKERRQ(ierr); 1040 ierr = MatSetType(B,MATIS);CHKERRQ(ierr); 1041 ierr = MatISSetLocalMatType(B,MATNEST);CHKERRQ(ierr); 1042 { /* hack : avoid setup of scatters */ 1043 Mat_IS *matis = (Mat_IS*)(B->data); 1044 matis->islocalref = PETSC_TRUE; 1045 } 1046 ierr = MatSetLocalToGlobalMapping(B,rl2g,cl2g);CHKERRQ(ierr); 1047 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 1048 ierr = ISLocalToGlobalMappingDestroy(&cl2g);CHKERRQ(ierr); 1049 ierr = MatCreateNest(PETSC_COMM_SELF,nr,islrow,nc,islcol,snest,&lA);CHKERRQ(ierr); 1050 ierr = MatNestSetVecType(lA,VECNEST);CHKERRQ(ierr); 1051 for (i=0;i<nr*nc;i++) { 1052 if (istrans[i]) { 1053 ierr = MatDestroy(&snest[i]);CHKERRQ(ierr); 1054 } 1055 } 1056 ierr = MatISSetLocalMat(B,lA);CHKERRQ(ierr); 1057 ierr = MatDestroy(&lA);CHKERRQ(ierr); 1058 { /* hack : setup of scatters done here */ 1059 Mat_IS *matis = (Mat_IS*)(B->data); 1060 1061 matis->islocalref = PETSC_FALSE; 1062 ierr = MatISSetUpScatters_Private(B);CHKERRQ(ierr); 1063 } 1064 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1065 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1066 if (reuse == MAT_INPLACE_MATRIX) { 1067 ierr = MatHeaderReplace(A,&B);CHKERRQ(ierr); 1068 } else { 1069 *newmat = B; 1070 } 1071 } else { 1072 if (lreuse) { 1073 ierr = MatISGetLocalMat(*newmat,&lA);CHKERRQ(ierr); 1074 for (i=0;i<nr;i++) { 1075 for (j=0;j<nc;j++) { 1076 if (snest[i*nc+j]) { 1077 ierr = MatNestSetSubMat(lA,i,j,snest[i*nc+j]);CHKERRQ(ierr); 1078 if (istrans[i*nc+j]) { 1079 ierr = MatDestroy(&snest[i*nc+j]);CHKERRQ(ierr); 1080 } 1081 } 1082 } 1083 } 1084 } else { 1085 PetscInt stl; 1086 for (i=0,stl=0;i<nr;i++) { 1087 ierr = ISCreateStride(PETSC_COMM_SELF,lr[i],stl,1,&islrow[i]);CHKERRQ(ierr); 1088 stl += lr[i]; 1089 } 1090 for (i=0,stl=0;i<nc;i++) { 1091 ierr = ISCreateStride(PETSC_COMM_SELF,lc[i],stl,1,&islcol[i]);CHKERRQ(ierr); 1092 stl += lc[i]; 1093 } 1094 ierr = MatCreateNest(PETSC_COMM_SELF,nr,islrow,nc,islcol,snest,&lA);CHKERRQ(ierr); 1095 for (i=0;i<nr*nc;i++) { 1096 if (istrans[i]) { 1097 ierr = MatDestroy(&snest[i]);CHKERRQ(ierr); 1098 } 1099 } 1100 ierr = MatISSetLocalMat(*newmat,lA);CHKERRQ(ierr); 1101 ierr = MatDestroy(&lA);CHKERRQ(ierr); 1102 } 1103 ierr = MatAssemblyBegin(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1104 ierr = MatAssemblyEnd(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1105 } 1106 1107 /* Create local matrix in MATNEST format */ 1108 convert = PETSC_FALSE; 1109 ierr = PetscOptionsGetBool(NULL,((PetscObject)A)->prefix,"-matis_convert_local_nest",&convert,NULL);CHKERRQ(ierr); 1110 if (convert) { 1111 Mat M; 1112 MatISLocalFields lf; 1113 PetscContainer c; 1114 1115 ierr = MatISGetLocalMat(*newmat,&lA);CHKERRQ(ierr); 1116 ierr = MatConvert(lA,MATAIJ,MAT_INITIAL_MATRIX,&M);CHKERRQ(ierr); 1117 ierr = MatISSetLocalMat(*newmat,M);CHKERRQ(ierr); 1118 ierr = MatDestroy(&M);CHKERRQ(ierr); 1119 1120 /* attach local fields to the matrix */ 1121 ierr = PetscNew(&lf);CHKERRQ(ierr); 1122 ierr = PetscMalloc2(nr,&lf->rf,nc,&lf->cf);CHKERRQ(ierr); 1123 for (i=0;i<nr;i++) { 1124 PetscInt n,st; 1125 1126 ierr = ISGetLocalSize(islrow[i],&n);CHKERRQ(ierr); 1127 ierr = ISStrideGetInfo(islrow[i],&st,NULL);CHKERRQ(ierr); 1128 ierr = ISCreateStride(comm,n,st,1,&lf->rf[i]);CHKERRQ(ierr); 1129 } 1130 for (i=0;i<nc;i++) { 1131 PetscInt n,st; 1132 1133 ierr = ISGetLocalSize(islcol[i],&n);CHKERRQ(ierr); 1134 ierr = ISStrideGetInfo(islcol[i],&st,NULL);CHKERRQ(ierr); 1135 ierr = ISCreateStride(comm,n,st,1,&lf->cf[i]);CHKERRQ(ierr); 1136 } 1137 lf->nr = nr; 1138 lf->nc = nc; 1139 ierr = PetscContainerCreate(PetscObjectComm((PetscObject)(*newmat)),&c);CHKERRQ(ierr); 1140 ierr = PetscContainerSetPointer(c,lf);CHKERRQ(ierr); 1141 ierr = PetscContainerSetUserDestroy(c,MatISContainerDestroyFields_Private);CHKERRQ(ierr); 1142 ierr = PetscObjectCompose((PetscObject)(*newmat),"_convert_nest_lfields",(PetscObject)c);CHKERRQ(ierr); 1143 ierr = PetscContainerDestroy(&c);CHKERRQ(ierr); 1144 } 1145 1146 /* Free workspace */ 1147 for (i=0;i<nr;i++) { 1148 ierr = ISDestroy(&islrow[i]);CHKERRQ(ierr); 1149 } 1150 for (i=0;i<nc;i++) { 1151 ierr = ISDestroy(&islcol[i]);CHKERRQ(ierr); 1152 } 1153 ierr = PetscFree6(isrow,iscol,islrow,islcol,snest,istrans);CHKERRQ(ierr); 1154 ierr = PetscFree2(lr,lc);CHKERRQ(ierr); 1155 PetscFunctionReturn(0); 1156 } 1157 1158 static PetscErrorCode MatDiagonalScale_IS(Mat A, Vec l, Vec r) 1159 { 1160 Mat_IS *matis = (Mat_IS*)A->data; 1161 Vec ll,rr; 1162 const PetscScalar *Y,*X; 1163 PetscScalar *x,*y; 1164 PetscErrorCode ierr; 1165 1166 PetscFunctionBegin; 1167 if (l) { 1168 ll = matis->y; 1169 ierr = VecGetArrayRead(l,&Y);CHKERRQ(ierr); 1170 ierr = VecGetArray(ll,&y);CHKERRQ(ierr); 1171 ierr = PetscSFBcastBegin(matis->sf,MPIU_SCALAR,Y,y,MPI_REPLACE);CHKERRQ(ierr); 1172 } else { 1173 ll = NULL; 1174 } 1175 if (r) { 1176 rr = matis->x; 1177 ierr = VecGetArrayRead(r,&X);CHKERRQ(ierr); 1178 ierr = VecGetArray(rr,&x);CHKERRQ(ierr); 1179 ierr = PetscSFBcastBegin(matis->csf,MPIU_SCALAR,X,x,MPI_REPLACE);CHKERRQ(ierr); 1180 } else { 1181 rr = NULL; 1182 } 1183 if (ll) { 1184 ierr = PetscSFBcastEnd(matis->sf,MPIU_SCALAR,Y,y,MPI_REPLACE);CHKERRQ(ierr); 1185 ierr = VecRestoreArrayRead(l,&Y);CHKERRQ(ierr); 1186 ierr = VecRestoreArray(ll,&y);CHKERRQ(ierr); 1187 } 1188 if (rr) { 1189 ierr = PetscSFBcastEnd(matis->csf,MPIU_SCALAR,X,x,MPI_REPLACE);CHKERRQ(ierr); 1190 ierr = VecRestoreArrayRead(r,&X);CHKERRQ(ierr); 1191 ierr = VecRestoreArray(rr,&x);CHKERRQ(ierr); 1192 } 1193 ierr = MatDiagonalScale(matis->A,ll,rr);CHKERRQ(ierr); 1194 PetscFunctionReturn(0); 1195 } 1196 1197 static PetscErrorCode MatGetInfo_IS(Mat A,MatInfoType flag,MatInfo *ginfo) 1198 { 1199 Mat_IS *matis = (Mat_IS*)A->data; 1200 MatInfo info; 1201 PetscLogDouble isend[6],irecv[6]; 1202 PetscInt bs; 1203 PetscErrorCode ierr; 1204 1205 PetscFunctionBegin; 1206 ierr = MatGetBlockSize(A,&bs);CHKERRQ(ierr); 1207 if (matis->A->ops->getinfo) { 1208 ierr = MatGetInfo(matis->A,MAT_LOCAL,&info);CHKERRQ(ierr); 1209 isend[0] = info.nz_used; 1210 isend[1] = info.nz_allocated; 1211 isend[2] = info.nz_unneeded; 1212 isend[3] = info.memory; 1213 isend[4] = info.mallocs; 1214 } else { 1215 isend[0] = 0.; 1216 isend[1] = 0.; 1217 isend[2] = 0.; 1218 isend[3] = 0.; 1219 isend[4] = 0.; 1220 } 1221 isend[5] = matis->A->num_ass; 1222 if (flag == MAT_LOCAL) { 1223 ginfo->nz_used = isend[0]; 1224 ginfo->nz_allocated = isend[1]; 1225 ginfo->nz_unneeded = isend[2]; 1226 ginfo->memory = isend[3]; 1227 ginfo->mallocs = isend[4]; 1228 ginfo->assemblies = isend[5]; 1229 } else if (flag == MAT_GLOBAL_MAX) { 1230 ierr = MPIU_Allreduce(isend,irecv,6,MPIU_PETSCLOGDOUBLE,MPI_MAX,PetscObjectComm((PetscObject)A));CHKERRMPI(ierr); 1231 1232 ginfo->nz_used = irecv[0]; 1233 ginfo->nz_allocated = irecv[1]; 1234 ginfo->nz_unneeded = irecv[2]; 1235 ginfo->memory = irecv[3]; 1236 ginfo->mallocs = irecv[4]; 1237 ginfo->assemblies = irecv[5]; 1238 } else if (flag == MAT_GLOBAL_SUM) { 1239 ierr = MPIU_Allreduce(isend,irecv,5,MPIU_PETSCLOGDOUBLE,MPI_SUM,PetscObjectComm((PetscObject)A));CHKERRMPI(ierr); 1240 1241 ginfo->nz_used = irecv[0]; 1242 ginfo->nz_allocated = irecv[1]; 1243 ginfo->nz_unneeded = irecv[2]; 1244 ginfo->memory = irecv[3]; 1245 ginfo->mallocs = irecv[4]; 1246 ginfo->assemblies = A->num_ass; 1247 } 1248 ginfo->block_size = bs; 1249 ginfo->fill_ratio_given = 0; 1250 ginfo->fill_ratio_needed = 0; 1251 ginfo->factor_mallocs = 0; 1252 PetscFunctionReturn(0); 1253 } 1254 1255 PetscErrorCode MatTranspose_IS(Mat A,MatReuse reuse,Mat *B) 1256 { 1257 Mat C,lC,lA; 1258 PetscErrorCode ierr; 1259 1260 PetscFunctionBegin; 1261 if (reuse == MAT_INITIAL_MATRIX || reuse == MAT_INPLACE_MATRIX) { 1262 ISLocalToGlobalMapping rl2g,cl2g; 1263 ierr = MatCreate(PetscObjectComm((PetscObject)A),&C);CHKERRQ(ierr); 1264 ierr = MatSetSizes(C,A->cmap->n,A->rmap->n,A->cmap->N,A->rmap->N);CHKERRQ(ierr); 1265 ierr = MatSetBlockSizes(C,PetscAbs(A->cmap->bs),PetscAbs(A->rmap->bs));CHKERRQ(ierr); 1266 ierr = MatSetType(C,MATIS);CHKERRQ(ierr); 1267 ierr = MatGetLocalToGlobalMapping(A,&rl2g,&cl2g);CHKERRQ(ierr); 1268 ierr = MatSetLocalToGlobalMapping(C,cl2g,rl2g);CHKERRQ(ierr); 1269 } else { 1270 C = *B; 1271 } 1272 1273 /* perform local transposition */ 1274 ierr = MatISGetLocalMat(A,&lA);CHKERRQ(ierr); 1275 ierr = MatTranspose(lA,MAT_INITIAL_MATRIX,&lC);CHKERRQ(ierr); 1276 ierr = MatISSetLocalMat(C,lC);CHKERRQ(ierr); 1277 ierr = MatDestroy(&lC);CHKERRQ(ierr); 1278 1279 if (reuse == MAT_INITIAL_MATRIX || reuse == MAT_REUSE_MATRIX) { 1280 *B = C; 1281 } else { 1282 ierr = MatHeaderMerge(A,&C);CHKERRQ(ierr); 1283 } 1284 ierr = MatAssemblyBegin(*B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1285 ierr = MatAssemblyEnd(*B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1286 PetscFunctionReturn(0); 1287 } 1288 1289 PetscErrorCode MatDiagonalSet_IS(Mat A,Vec D,InsertMode insmode) 1290 { 1291 Mat_IS *is = (Mat_IS*)A->data; 1292 PetscErrorCode ierr; 1293 1294 PetscFunctionBegin; 1295 if (D) { /* MatShift_IS pass D = NULL */ 1296 ierr = VecScatterBegin(is->rctx,D,is->y,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1297 ierr = VecScatterEnd(is->rctx,D,is->y,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1298 } 1299 ierr = VecPointwiseDivide(is->y,is->y,is->counter);CHKERRQ(ierr); 1300 ierr = MatDiagonalSet(is->A,is->y,insmode);CHKERRQ(ierr); 1301 PetscFunctionReturn(0); 1302 } 1303 1304 PetscErrorCode MatShift_IS(Mat A,PetscScalar a) 1305 { 1306 Mat_IS *is = (Mat_IS*)A->data; 1307 PetscErrorCode ierr; 1308 1309 PetscFunctionBegin; 1310 ierr = VecSet(is->y,a);CHKERRQ(ierr); 1311 ierr = MatDiagonalSet_IS(A,NULL,ADD_VALUES);CHKERRQ(ierr); 1312 PetscFunctionReturn(0); 1313 } 1314 1315 static PetscErrorCode MatSetValuesLocal_SubMat_IS(Mat A,PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols,const PetscScalar *values,InsertMode addv) 1316 { 1317 PetscErrorCode ierr; 1318 PetscInt rows_l[MATIS_MAX_ENTRIES_INSERTION],cols_l[MATIS_MAX_ENTRIES_INSERTION]; 1319 1320 PetscFunctionBegin; 1321 if (PetscUnlikely(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); 1322 ierr = ISLocalToGlobalMappingApply(A->rmap->mapping,m,rows,rows_l);CHKERRQ(ierr); 1323 ierr = ISLocalToGlobalMappingApply(A->cmap->mapping,n,cols,cols_l);CHKERRQ(ierr); 1324 ierr = MatSetValuesLocal_IS(A,m,rows_l,n,cols_l,values,addv);CHKERRQ(ierr); 1325 PetscFunctionReturn(0); 1326 } 1327 1328 static PetscErrorCode MatSetValuesBlockedLocal_SubMat_IS(Mat A,PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols,const PetscScalar *values,InsertMode addv) 1329 { 1330 PetscErrorCode ierr; 1331 PetscInt rows_l[MATIS_MAX_ENTRIES_INSERTION],cols_l[MATIS_MAX_ENTRIES_INSERTION]; 1332 1333 PetscFunctionBegin; 1334 if (PetscUnlikely(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); 1335 ierr = ISLocalToGlobalMappingApplyBlock(A->rmap->mapping,m,rows,rows_l);CHKERRQ(ierr); 1336 ierr = ISLocalToGlobalMappingApplyBlock(A->cmap->mapping,n,cols,cols_l);CHKERRQ(ierr); 1337 ierr = MatSetValuesBlockedLocal_IS(A,m,rows_l,n,cols_l,values,addv);CHKERRQ(ierr); 1338 PetscFunctionReturn(0); 1339 } 1340 1341 static PetscErrorCode MatCreateSubMatrix_IS(Mat mat,IS irow,IS icol,MatReuse scall,Mat *newmat) 1342 { 1343 Mat locmat,newlocmat; 1344 Mat_IS *newmatis; 1345 const PetscInt *idxs; 1346 PetscInt i,m,n; 1347 PetscErrorCode ierr; 1348 1349 PetscFunctionBegin; 1350 if (scall == MAT_REUSE_MATRIX) { 1351 PetscBool ismatis; 1352 1353 ierr = PetscObjectTypeCompare((PetscObject)*newmat,MATIS,&ismatis);CHKERRQ(ierr); 1354 if (!ismatis) SETERRQ(PetscObjectComm((PetscObject)*newmat),PETSC_ERR_ARG_WRONG,"Cannot reuse matrix! Not of MATIS type"); 1355 newmatis = (Mat_IS*)(*newmat)->data; 1356 if (!newmatis->getsub_ris) SETERRQ(PetscObjectComm((PetscObject)*newmat),PETSC_ERR_ARG_WRONG,"Cannot reuse matrix! Misses local row IS"); 1357 if (!newmatis->getsub_cis) SETERRQ(PetscObjectComm((PetscObject)*newmat),PETSC_ERR_ARG_WRONG,"Cannot reuse matrix! Misses local col IS"); 1358 } 1359 /* irow and icol may not have duplicate entries */ 1360 if (PetscDefined(USE_DEBUG)) { 1361 Vec rtest,ltest; 1362 const PetscScalar *array; 1363 1364 ierr = MatCreateVecs(mat,<est,&rtest);CHKERRQ(ierr); 1365 ierr = ISGetLocalSize(irow,&n);CHKERRQ(ierr); 1366 ierr = ISGetIndices(irow,&idxs);CHKERRQ(ierr); 1367 for (i=0;i<n;i++) { 1368 ierr = VecSetValue(rtest,idxs[i],1.0,ADD_VALUES);CHKERRQ(ierr); 1369 } 1370 ierr = VecAssemblyBegin(rtest);CHKERRQ(ierr); 1371 ierr = VecAssemblyEnd(rtest);CHKERRQ(ierr); 1372 ierr = VecGetLocalSize(rtest,&n);CHKERRQ(ierr); 1373 ierr = VecGetOwnershipRange(rtest,&m,NULL);CHKERRQ(ierr); 1374 ierr = VecGetArrayRead(rtest,&array);CHKERRQ(ierr); 1375 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])); 1376 ierr = VecRestoreArrayRead(rtest,&array);CHKERRQ(ierr); 1377 ierr = ISRestoreIndices(irow,&idxs);CHKERRQ(ierr); 1378 ierr = ISGetLocalSize(icol,&n);CHKERRQ(ierr); 1379 ierr = ISGetIndices(icol,&idxs);CHKERRQ(ierr); 1380 for (i=0;i<n;i++) { 1381 ierr = VecSetValue(ltest,idxs[i],1.0,ADD_VALUES);CHKERRQ(ierr); 1382 } 1383 ierr = VecAssemblyBegin(ltest);CHKERRQ(ierr); 1384 ierr = VecAssemblyEnd(ltest);CHKERRQ(ierr); 1385 ierr = VecGetLocalSize(ltest,&n);CHKERRQ(ierr); 1386 ierr = VecGetOwnershipRange(ltest,&m,NULL);CHKERRQ(ierr); 1387 ierr = VecGetArrayRead(ltest,&array);CHKERRQ(ierr); 1388 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])); 1389 ierr = VecRestoreArrayRead(ltest,&array);CHKERRQ(ierr); 1390 ierr = ISRestoreIndices(icol,&idxs);CHKERRQ(ierr); 1391 ierr = VecDestroy(&rtest);CHKERRQ(ierr); 1392 ierr = VecDestroy(<est);CHKERRQ(ierr); 1393 } 1394 if (scall == MAT_INITIAL_MATRIX) { 1395 Mat_IS *matis = (Mat_IS*)mat->data; 1396 ISLocalToGlobalMapping rl2g; 1397 IS is; 1398 PetscInt *lidxs,*lgidxs,*newgidxs; 1399 PetscInt ll,newloc,irbs,icbs,arbs,acbs,rbs,cbs; 1400 PetscBool cong; 1401 MPI_Comm comm; 1402 1403 ierr = PetscObjectGetComm((PetscObject)mat,&comm);CHKERRQ(ierr); 1404 ierr = MatGetBlockSizes(mat,&arbs,&acbs);CHKERRQ(ierr); 1405 ierr = ISGetBlockSize(irow,&irbs);CHKERRQ(ierr); 1406 ierr = ISGetBlockSize(icol,&icbs);CHKERRQ(ierr); 1407 rbs = arbs == irbs ? irbs : 1; 1408 cbs = acbs == icbs ? icbs : 1; 1409 ierr = ISGetLocalSize(irow,&m);CHKERRQ(ierr); 1410 ierr = ISGetLocalSize(icol,&n);CHKERRQ(ierr); 1411 ierr = MatCreate(comm,newmat);CHKERRQ(ierr); 1412 ierr = MatSetType(*newmat,MATIS);CHKERRQ(ierr); 1413 ierr = MatSetSizes(*newmat,m,n,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr); 1414 ierr = MatSetBlockSizes(*newmat,rbs,cbs);CHKERRQ(ierr); 1415 /* communicate irow to their owners in the layout */ 1416 ierr = ISGetIndices(irow,&idxs);CHKERRQ(ierr); 1417 ierr = PetscLayoutMapLocal(mat->rmap,m,idxs,&ll,&lidxs,&lgidxs);CHKERRQ(ierr); 1418 ierr = ISRestoreIndices(irow,&idxs);CHKERRQ(ierr); 1419 ierr = PetscArrayzero(matis->sf_rootdata,matis->sf->nroots);CHKERRQ(ierr); 1420 for (i=0;i<ll;i++) matis->sf_rootdata[lidxs[i]] = lgidxs[i]+1; 1421 ierr = PetscFree(lidxs);CHKERRQ(ierr); 1422 ierr = PetscFree(lgidxs);CHKERRQ(ierr); 1423 ierr = PetscSFBcastBegin(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata,MPI_REPLACE);CHKERRQ(ierr); 1424 ierr = PetscSFBcastEnd(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata,MPI_REPLACE);CHKERRQ(ierr); 1425 for (i=0,newloc=0;i<matis->sf->nleaves;i++) if (matis->sf_leafdata[i]) newloc++; 1426 ierr = PetscMalloc1(newloc,&newgidxs);CHKERRQ(ierr); 1427 ierr = PetscMalloc1(newloc,&lidxs);CHKERRQ(ierr); 1428 for (i=0,newloc=0;i<matis->sf->nleaves;i++) 1429 if (matis->sf_leafdata[i]) { 1430 lidxs[newloc] = i; 1431 newgidxs[newloc++] = matis->sf_leafdata[i]-1; 1432 } 1433 ierr = ISCreateGeneral(comm,newloc,newgidxs,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 1434 ierr = ISLocalToGlobalMappingCreateIS(is,&rl2g);CHKERRQ(ierr); 1435 ierr = ISLocalToGlobalMappingSetBlockSize(rl2g,rbs);CHKERRQ(ierr); 1436 ierr = ISDestroy(&is);CHKERRQ(ierr); 1437 /* local is to extract local submatrix */ 1438 newmatis = (Mat_IS*)(*newmat)->data; 1439 ierr = ISCreateGeneral(comm,newloc,lidxs,PETSC_OWN_POINTER,&newmatis->getsub_ris);CHKERRQ(ierr); 1440 ierr = MatHasCongruentLayouts(mat,&cong);CHKERRQ(ierr); 1441 if (cong && irow == icol && matis->csf == matis->sf) { 1442 ierr = MatSetLocalToGlobalMapping(*newmat,rl2g,rl2g);CHKERRQ(ierr); 1443 ierr = PetscObjectReference((PetscObject)newmatis->getsub_ris);CHKERRQ(ierr); 1444 newmatis->getsub_cis = newmatis->getsub_ris; 1445 } else { 1446 ISLocalToGlobalMapping cl2g; 1447 1448 /* communicate icol to their owners in the layout */ 1449 ierr = ISGetIndices(icol,&idxs);CHKERRQ(ierr); 1450 ierr = PetscLayoutMapLocal(mat->cmap,n,idxs,&ll,&lidxs,&lgidxs);CHKERRQ(ierr); 1451 ierr = ISRestoreIndices(icol,&idxs);CHKERRQ(ierr); 1452 ierr = PetscArrayzero(matis->csf_rootdata,matis->csf->nroots);CHKERRQ(ierr); 1453 for (i=0;i<ll;i++) matis->csf_rootdata[lidxs[i]] = lgidxs[i]+1; 1454 ierr = PetscFree(lidxs);CHKERRQ(ierr); 1455 ierr = PetscFree(lgidxs);CHKERRQ(ierr); 1456 ierr = PetscSFBcastBegin(matis->csf,MPIU_INT,matis->csf_rootdata,matis->csf_leafdata,MPI_REPLACE);CHKERRQ(ierr); 1457 ierr = PetscSFBcastEnd(matis->csf,MPIU_INT,matis->csf_rootdata,matis->csf_leafdata,MPI_REPLACE);CHKERRQ(ierr); 1458 for (i=0,newloc=0;i<matis->csf->nleaves;i++) if (matis->csf_leafdata[i]) newloc++; 1459 ierr = PetscMalloc1(newloc,&newgidxs);CHKERRQ(ierr); 1460 ierr = PetscMalloc1(newloc,&lidxs);CHKERRQ(ierr); 1461 for (i=0,newloc=0;i<matis->csf->nleaves;i++) 1462 if (matis->csf_leafdata[i]) { 1463 lidxs[newloc] = i; 1464 newgidxs[newloc++] = matis->csf_leafdata[i]-1; 1465 } 1466 ierr = ISCreateGeneral(comm,newloc,newgidxs,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 1467 ierr = ISLocalToGlobalMappingCreateIS(is,&cl2g);CHKERRQ(ierr); 1468 ierr = ISLocalToGlobalMappingSetBlockSize(cl2g,cbs);CHKERRQ(ierr); 1469 ierr = ISDestroy(&is);CHKERRQ(ierr); 1470 /* local is to extract local submatrix */ 1471 ierr = ISCreateGeneral(comm,newloc,lidxs,PETSC_OWN_POINTER,&newmatis->getsub_cis);CHKERRQ(ierr); 1472 ierr = MatSetLocalToGlobalMapping(*newmat,rl2g,cl2g);CHKERRQ(ierr); 1473 ierr = ISLocalToGlobalMappingDestroy(&cl2g);CHKERRQ(ierr); 1474 } 1475 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 1476 } else { 1477 ierr = MatISGetLocalMat(*newmat,&newlocmat);CHKERRQ(ierr); 1478 } 1479 ierr = MatISGetLocalMat(mat,&locmat);CHKERRQ(ierr); 1480 newmatis = (Mat_IS*)(*newmat)->data; 1481 ierr = MatCreateSubMatrix(locmat,newmatis->getsub_ris,newmatis->getsub_cis,scall,&newlocmat);CHKERRQ(ierr); 1482 if (scall == MAT_INITIAL_MATRIX) { 1483 ierr = MatISSetLocalMat(*newmat,newlocmat);CHKERRQ(ierr); 1484 ierr = MatDestroy(&newlocmat);CHKERRQ(ierr); 1485 } 1486 ierr = MatAssemblyBegin(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1487 ierr = MatAssemblyEnd(*newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1488 PetscFunctionReturn(0); 1489 } 1490 1491 static PetscErrorCode MatCopy_IS(Mat A,Mat B,MatStructure str) 1492 { 1493 Mat_IS *a = (Mat_IS*)A->data,*b; 1494 PetscBool ismatis; 1495 PetscErrorCode ierr; 1496 1497 PetscFunctionBegin; 1498 ierr = PetscObjectTypeCompare((PetscObject)B,MATIS,&ismatis);CHKERRQ(ierr); 1499 if (!ismatis) SETERRQ(PetscObjectComm((PetscObject)B),PETSC_ERR_SUP,"Need to be implemented"); 1500 b = (Mat_IS*)B->data; 1501 ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr); 1502 ierr = PetscObjectStateIncrease((PetscObject)B);CHKERRQ(ierr); 1503 PetscFunctionReturn(0); 1504 } 1505 1506 static PetscErrorCode MatMissingDiagonal_IS(Mat A,PetscBool *missing,PetscInt *d) 1507 { 1508 Vec v; 1509 const PetscScalar *array; 1510 PetscInt i,n; 1511 PetscErrorCode ierr; 1512 1513 PetscFunctionBegin; 1514 *missing = PETSC_FALSE; 1515 ierr = MatCreateVecs(A,NULL,&v);CHKERRQ(ierr); 1516 ierr = MatGetDiagonal(A,v);CHKERRQ(ierr); 1517 ierr = VecGetLocalSize(v,&n);CHKERRQ(ierr); 1518 ierr = VecGetArrayRead(v,&array);CHKERRQ(ierr); 1519 for (i=0;i<n;i++) if (array[i] == 0.) break; 1520 ierr = VecRestoreArrayRead(v,&array);CHKERRQ(ierr); 1521 ierr = VecDestroy(&v);CHKERRQ(ierr); 1522 if (i != n) *missing = PETSC_TRUE; 1523 if (d) { 1524 *d = -1; 1525 if (*missing) { 1526 PetscInt rstart; 1527 ierr = MatGetOwnershipRange(A,&rstart,NULL);CHKERRQ(ierr); 1528 *d = i+rstart; 1529 } 1530 } 1531 PetscFunctionReturn(0); 1532 } 1533 1534 static PetscErrorCode MatISSetUpSF_IS(Mat B) 1535 { 1536 Mat_IS *matis = (Mat_IS*)(B->data); 1537 const PetscInt *gidxs; 1538 PetscInt nleaves; 1539 PetscErrorCode ierr; 1540 1541 PetscFunctionBegin; 1542 if (matis->sf) PetscFunctionReturn(0); 1543 ierr = PetscSFCreate(PetscObjectComm((PetscObject)B),&matis->sf);CHKERRQ(ierr); 1544 ierr = ISLocalToGlobalMappingGetIndices(B->rmap->mapping,&gidxs);CHKERRQ(ierr); 1545 ierr = ISLocalToGlobalMappingGetSize(B->rmap->mapping,&nleaves);CHKERRQ(ierr); 1546 ierr = PetscSFSetGraphLayout(matis->sf,B->rmap,nleaves,NULL,PETSC_OWN_POINTER,gidxs);CHKERRQ(ierr); 1547 ierr = ISLocalToGlobalMappingRestoreIndices(B->rmap->mapping,&gidxs);CHKERRQ(ierr); 1548 ierr = PetscMalloc2(matis->sf->nroots,&matis->sf_rootdata,matis->sf->nleaves,&matis->sf_leafdata);CHKERRQ(ierr); 1549 if (B->rmap->mapping != B->cmap->mapping) { /* setup SF for columns */ 1550 ierr = ISLocalToGlobalMappingGetSize(B->cmap->mapping,&nleaves);CHKERRQ(ierr); 1551 ierr = PetscSFCreate(PetscObjectComm((PetscObject)B),&matis->csf);CHKERRQ(ierr); 1552 ierr = ISLocalToGlobalMappingGetIndices(B->cmap->mapping,&gidxs);CHKERRQ(ierr); 1553 ierr = PetscSFSetGraphLayout(matis->csf,B->cmap,nleaves,NULL,PETSC_OWN_POINTER,gidxs);CHKERRQ(ierr); 1554 ierr = ISLocalToGlobalMappingRestoreIndices(B->cmap->mapping,&gidxs);CHKERRQ(ierr); 1555 ierr = PetscMalloc2(matis->csf->nroots,&matis->csf_rootdata,matis->csf->nleaves,&matis->csf_leafdata);CHKERRQ(ierr); 1556 } else { 1557 matis->csf = matis->sf; 1558 matis->csf_leafdata = matis->sf_leafdata; 1559 matis->csf_rootdata = matis->sf_rootdata; 1560 } 1561 PetscFunctionReturn(0); 1562 } 1563 1564 /*@ 1565 MatISStoreL2L - Store local-to-local operators during the Galerkin process of MatPtAP. 1566 1567 Collective 1568 1569 Input Parameters: 1570 + A - the matrix 1571 - store - the boolean flag 1572 1573 Level: advanced 1574 1575 Notes: 1576 1577 .seealso: MatCreate(), MatCreateIS(), MatISSetPreallocation(), MatPtAP() 1578 @*/ 1579 PetscErrorCode MatISStoreL2L(Mat A, PetscBool store) 1580 { 1581 PetscErrorCode ierr; 1582 1583 PetscFunctionBegin; 1584 PetscValidHeaderSpecific(A,MAT_CLASSID,1); 1585 PetscValidType(A,1); 1586 PetscValidLogicalCollectiveBool(A,store,2); 1587 ierr = PetscTryMethod(A,"MatISStoreL2L_C",(Mat,PetscBool),(A,store));CHKERRQ(ierr); 1588 PetscFunctionReturn(0); 1589 } 1590 1591 static PetscErrorCode MatISStoreL2L_IS(Mat A, PetscBool store) 1592 { 1593 Mat_IS *matis = (Mat_IS*)(A->data); 1594 PetscErrorCode ierr; 1595 1596 PetscFunctionBegin; 1597 matis->storel2l = store; 1598 if (!store) { 1599 ierr = PetscObjectCompose((PetscObject)(A),"_MatIS_PtAP_l2l",NULL);CHKERRQ(ierr); 1600 } 1601 PetscFunctionReturn(0); 1602 } 1603 1604 /*@ 1605 MatISFixLocalEmpty - Compress out zero local rows from the local matrices 1606 1607 Collective 1608 1609 Input Parameters: 1610 + A - the matrix 1611 - fix - the boolean flag 1612 1613 Level: advanced 1614 1615 Notes: When fix is true, new local matrices and l2g maps are generated during the final assembly process. 1616 1617 .seealso: MatCreate(), MatCreateIS(), MatISSetPreallocation(), MatAssemblyEnd(), MAT_FINAL_ASSEMBLY 1618 @*/ 1619 PetscErrorCode MatISFixLocalEmpty(Mat A, PetscBool fix) 1620 { 1621 PetscErrorCode ierr; 1622 1623 PetscFunctionBegin; 1624 PetscValidHeaderSpecific(A,MAT_CLASSID,1); 1625 PetscValidType(A,1); 1626 PetscValidLogicalCollectiveBool(A,fix,2); 1627 ierr = PetscTryMethod(A,"MatISFixLocalEmpty_C",(Mat,PetscBool),(A,fix));CHKERRQ(ierr); 1628 PetscFunctionReturn(0); 1629 } 1630 1631 static PetscErrorCode MatISFixLocalEmpty_IS(Mat A, PetscBool fix) 1632 { 1633 Mat_IS *matis = (Mat_IS*)(A->data); 1634 1635 PetscFunctionBegin; 1636 matis->locempty = fix; 1637 PetscFunctionReturn(0); 1638 } 1639 1640 /*@ 1641 MatISSetPreallocation - Preallocates memory for a MATIS parallel matrix. 1642 1643 Collective 1644 1645 Input Parameters: 1646 + B - the matrix 1647 . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 1648 (same value is used for all local rows) 1649 . d_nnz - array containing the number of nonzeros in the various rows of the 1650 DIAGONAL portion of the local submatrix (possibly different for each row) 1651 or NULL, if d_nz is used to specify the nonzero structure. 1652 The size of this array is equal to the number of local rows, i.e 'm'. 1653 For matrices that will be factored, you must leave room for (and set) 1654 the diagonal entry even if it is zero. 1655 . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 1656 submatrix (same value is used for all local rows). 1657 - o_nnz - array containing the number of nonzeros in the various rows of the 1658 OFF-DIAGONAL portion of the local submatrix (possibly different for 1659 each row) or NULL, if o_nz is used to specify the nonzero 1660 structure. The size of this array is equal to the number 1661 of local rows, i.e 'm'. 1662 1663 If the *_nnz parameter is given then the *_nz parameter is ignored 1664 1665 Level: intermediate 1666 1667 Notes: 1668 This function has the same interface as the MPIAIJ preallocation routine in order to simplify the transition 1669 from the asssembled format to the unassembled one. It overestimates the preallocation of MATIS local 1670 matrices; for exact preallocation, the user should set the preallocation directly on local matrix objects. 1671 1672 .seealso: MatCreate(), MatCreateIS(), MatMPIAIJSetPreallocation(), MatISGetLocalMat(), MATIS 1673 @*/ 1674 PetscErrorCode MatISSetPreallocation(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 1675 { 1676 PetscErrorCode ierr; 1677 1678 PetscFunctionBegin; 1679 PetscValidHeaderSpecific(B,MAT_CLASSID,1); 1680 PetscValidType(B,1); 1681 ierr = PetscTryMethod(B,"MatISSetPreallocation_C",(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[]),(B,d_nz,d_nnz,o_nz,o_nnz));CHKERRQ(ierr); 1682 PetscFunctionReturn(0); 1683 } 1684 1685 /* this is used by DMDA */ 1686 PETSC_EXTERN PetscErrorCode MatISSetPreallocation_IS(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 1687 { 1688 Mat_IS *matis = (Mat_IS*)(B->data); 1689 PetscInt bs,i,nlocalcols; 1690 PetscErrorCode ierr; 1691 1692 PetscFunctionBegin; 1693 if (!matis->A) SETERRQ(PetscObjectComm((PetscObject)B),PETSC_ERR_SUP,"You should first call MatSetLocalToGlobalMapping"); 1694 1695 if (!d_nnz) for (i=0;i<matis->sf->nroots;i++) matis->sf_rootdata[i] = d_nz; 1696 else for (i=0;i<matis->sf->nroots;i++) matis->sf_rootdata[i] = d_nnz[i]; 1697 1698 if (!o_nnz) for (i=0;i<matis->sf->nroots;i++) matis->sf_rootdata[i] += o_nz; 1699 else for (i=0;i<matis->sf->nroots;i++) matis->sf_rootdata[i] += o_nnz[i]; 1700 1701 ierr = PetscSFBcastBegin(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata,MPI_REPLACE);CHKERRQ(ierr); 1702 ierr = MatGetSize(matis->A,NULL,&nlocalcols);CHKERRQ(ierr); 1703 ierr = MatGetBlockSize(matis->A,&bs);CHKERRQ(ierr); 1704 ierr = PetscSFBcastEnd(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata,MPI_REPLACE);CHKERRQ(ierr); 1705 1706 for (i=0;i<matis->sf->nleaves;i++) matis->sf_leafdata[i] = PetscMin(matis->sf_leafdata[i],nlocalcols); 1707 ierr = MatSeqAIJSetPreallocation(matis->A,0,matis->sf_leafdata);CHKERRQ(ierr); 1708 #if defined(PETSC_HAVE_HYPRE) 1709 ierr = MatHYPRESetPreallocation(matis->A,0,matis->sf_leafdata,0,NULL);CHKERRQ(ierr); 1710 #endif 1711 1712 for (i=0;i<matis->sf->nleaves/bs;i++) matis->sf_leafdata[i] = matis->sf_leafdata[i*bs]/bs; 1713 ierr = MatSeqBAIJSetPreallocation(matis->A,bs,0,matis->sf_leafdata);CHKERRQ(ierr); 1714 1715 nlocalcols /= bs; 1716 for (i=0;i<matis->sf->nleaves/bs;i++) matis->sf_leafdata[i] = PetscMin(matis->sf_leafdata[i],nlocalcols - i); 1717 ierr = MatSeqSBAIJSetPreallocation(matis->A,bs,0,matis->sf_leafdata);CHKERRQ(ierr); 1718 1719 /* for other matrix types */ 1720 ierr = MatSetUp(matis->A);CHKERRQ(ierr); 1721 PetscFunctionReturn(0); 1722 } 1723 1724 PETSC_EXTERN PetscErrorCode MatISSetMPIXAIJPreallocation_Private(Mat A, Mat B, PetscBool maxreduce) 1725 { 1726 Mat_IS *matis = (Mat_IS*)(A->data); 1727 PetscInt *my_dnz,*my_onz,*dnz,*onz,*mat_ranges,*row_ownership; 1728 const PetscInt *global_indices_r,*global_indices_c; 1729 PetscInt i,j,bs,rows,cols; 1730 PetscInt lrows,lcols; 1731 PetscInt local_rows,local_cols; 1732 PetscMPIInt size; 1733 PetscBool isdense,issbaij; 1734 PetscErrorCode ierr; 1735 1736 PetscFunctionBegin; 1737 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)A),&size);CHKERRMPI(ierr); 1738 ierr = MatGetSize(A,&rows,&cols);CHKERRQ(ierr); 1739 ierr = MatGetBlockSize(A,&bs);CHKERRQ(ierr); 1740 ierr = MatGetSize(matis->A,&local_rows,&local_cols);CHKERRQ(ierr); 1741 ierr = PetscObjectBaseTypeCompare((PetscObject)matis->A,MATSEQDENSE,&isdense);CHKERRQ(ierr); 1742 ierr = PetscObjectBaseTypeCompare((PetscObject)matis->A,MATSEQSBAIJ,&issbaij);CHKERRQ(ierr); 1743 ierr = ISLocalToGlobalMappingGetIndices(A->rmap->mapping,&global_indices_r);CHKERRQ(ierr); 1744 if (A->rmap->mapping != A->cmap->mapping) { 1745 ierr = ISLocalToGlobalMappingGetIndices(A->cmap->mapping,&global_indices_c);CHKERRQ(ierr); 1746 } else { 1747 global_indices_c = global_indices_r; 1748 } 1749 1750 if (issbaij) { 1751 ierr = MatGetRowUpperTriangular(matis->A);CHKERRQ(ierr); 1752 } 1753 /* 1754 An SF reduce is needed to sum up properly on shared rows. 1755 Note that generally preallocation is not exact, since it overestimates nonzeros 1756 */ 1757 ierr = MatGetLocalSize(A,&lrows,&lcols);CHKERRQ(ierr); 1758 ierr = MatPreallocateInitialize(PetscObjectComm((PetscObject)A),lrows,lcols,dnz,onz);CHKERRQ(ierr); 1759 /* All processes need to compute entire row ownership */ 1760 ierr = PetscMalloc1(rows,&row_ownership);CHKERRQ(ierr); 1761 ierr = MatGetOwnershipRanges(A,(const PetscInt**)&mat_ranges);CHKERRQ(ierr); 1762 for (i=0;i<size;i++) { 1763 for (j=mat_ranges[i];j<mat_ranges[i+1];j++) { 1764 row_ownership[j] = i; 1765 } 1766 } 1767 ierr = MatGetOwnershipRangesColumn(A,(const PetscInt**)&mat_ranges);CHKERRQ(ierr); 1768 1769 /* 1770 my_dnz and my_onz contains exact contribution to preallocation from each local mat 1771 then, they will be summed up properly. This way, preallocation is always sufficient 1772 */ 1773 ierr = PetscCalloc2(local_rows,&my_dnz,local_rows,&my_onz);CHKERRQ(ierr); 1774 /* preallocation as a MATAIJ */ 1775 if (isdense) { /* special case for dense local matrices */ 1776 for (i=0;i<local_rows;i++) { 1777 PetscInt owner = row_ownership[global_indices_r[i]]; 1778 for (j=0;j<local_cols;j++) { 1779 PetscInt index_col = global_indices_c[j]; 1780 if (index_col > mat_ranges[owner]-1 && index_col < mat_ranges[owner+1]) { /* diag block */ 1781 my_dnz[i] += 1; 1782 } else { /* offdiag block */ 1783 my_onz[i] += 1; 1784 } 1785 } 1786 } 1787 } else if (matis->A->ops->getrowij) { 1788 const PetscInt *ii,*jj,*jptr; 1789 PetscBool done; 1790 ierr = MatGetRowIJ(matis->A,0,PETSC_FALSE,PETSC_FALSE,&local_rows,&ii,&jj,&done);CHKERRQ(ierr); 1791 if (!done) SETERRQ(PetscObjectComm((PetscObject)(matis->A)),PETSC_ERR_PLIB,"Error in MatGetRowIJ"); 1792 jptr = jj; 1793 for (i=0;i<local_rows;i++) { 1794 PetscInt index_row = global_indices_r[i]; 1795 for (j=0;j<ii[i+1]-ii[i];j++,jptr++) { 1796 PetscInt owner = row_ownership[index_row]; 1797 PetscInt index_col = global_indices_c[*jptr]; 1798 if (index_col > mat_ranges[owner]-1 && index_col < mat_ranges[owner+1]) { /* diag block */ 1799 my_dnz[i] += 1; 1800 } else { /* offdiag block */ 1801 my_onz[i] += 1; 1802 } 1803 /* same as before, interchanging rows and cols */ 1804 if (issbaij && index_col != index_row) { 1805 owner = row_ownership[index_col]; 1806 if (index_row > mat_ranges[owner]-1 && index_row < mat_ranges[owner+1]) { 1807 my_dnz[*jptr] += 1; 1808 } else { 1809 my_onz[*jptr] += 1; 1810 } 1811 } 1812 } 1813 } 1814 ierr = MatRestoreRowIJ(matis->A,0,PETSC_FALSE,PETSC_FALSE,&local_rows,&ii,&jj,&done);CHKERRQ(ierr); 1815 if (!done) SETERRQ(PetscObjectComm((PetscObject)(matis->A)),PETSC_ERR_PLIB,"Error in MatRestoreRowIJ"); 1816 } else { /* loop over rows and use MatGetRow */ 1817 for (i=0;i<local_rows;i++) { 1818 const PetscInt *cols; 1819 PetscInt ncols,index_row = global_indices_r[i]; 1820 ierr = MatGetRow(matis->A,i,&ncols,&cols,NULL);CHKERRQ(ierr); 1821 for (j=0;j<ncols;j++) { 1822 PetscInt owner = row_ownership[index_row]; 1823 PetscInt index_col = global_indices_c[cols[j]]; 1824 if (index_col > mat_ranges[owner]-1 && index_col < mat_ranges[owner+1]) { /* diag block */ 1825 my_dnz[i] += 1; 1826 } else { /* offdiag block */ 1827 my_onz[i] += 1; 1828 } 1829 /* same as before, interchanging rows and cols */ 1830 if (issbaij && index_col != index_row) { 1831 owner = row_ownership[index_col]; 1832 if (index_row > mat_ranges[owner]-1 && index_row < mat_ranges[owner+1]) { 1833 my_dnz[cols[j]] += 1; 1834 } else { 1835 my_onz[cols[j]] += 1; 1836 } 1837 } 1838 } 1839 ierr = MatRestoreRow(matis->A,i,&ncols,&cols,NULL);CHKERRQ(ierr); 1840 } 1841 } 1842 if (global_indices_c != global_indices_r) { 1843 ierr = ISLocalToGlobalMappingRestoreIndices(A->cmap->mapping,&global_indices_c);CHKERRQ(ierr); 1844 } 1845 ierr = ISLocalToGlobalMappingRestoreIndices(A->rmap->mapping,&global_indices_r);CHKERRQ(ierr); 1846 ierr = PetscFree(row_ownership);CHKERRQ(ierr); 1847 1848 /* Reduce my_dnz and my_onz */ 1849 if (maxreduce) { 1850 ierr = PetscSFReduceBegin(matis->sf,MPIU_INT,my_dnz,dnz,MPI_MAX);CHKERRQ(ierr); 1851 ierr = PetscSFReduceBegin(matis->sf,MPIU_INT,my_onz,onz,MPI_MAX);CHKERRQ(ierr); 1852 ierr = PetscSFReduceEnd(matis->sf,MPIU_INT,my_dnz,dnz,MPI_MAX);CHKERRQ(ierr); 1853 ierr = PetscSFReduceEnd(matis->sf,MPIU_INT,my_onz,onz,MPI_MAX);CHKERRQ(ierr); 1854 } else { 1855 ierr = PetscSFReduceBegin(matis->sf,MPIU_INT,my_dnz,dnz,MPI_SUM);CHKERRQ(ierr); 1856 ierr = PetscSFReduceBegin(matis->sf,MPIU_INT,my_onz,onz,MPI_SUM);CHKERRQ(ierr); 1857 ierr = PetscSFReduceEnd(matis->sf,MPIU_INT,my_dnz,dnz,MPI_SUM);CHKERRQ(ierr); 1858 ierr = PetscSFReduceEnd(matis->sf,MPIU_INT,my_onz,onz,MPI_SUM);CHKERRQ(ierr); 1859 } 1860 ierr = PetscFree2(my_dnz,my_onz);CHKERRQ(ierr); 1861 1862 /* Resize preallocation if overestimated */ 1863 for (i=0;i<lrows;i++) { 1864 dnz[i] = PetscMin(dnz[i],lcols); 1865 onz[i] = PetscMin(onz[i],cols-lcols); 1866 } 1867 1868 /* Set preallocation */ 1869 ierr = MatSeqAIJSetPreallocation(B,0,dnz);CHKERRQ(ierr); 1870 ierr = MatMPIAIJSetPreallocation(B,0,dnz,0,onz);CHKERRQ(ierr); 1871 for (i=0;i<lrows;i+=bs) { 1872 PetscInt b, d = dnz[i],o = onz[i]; 1873 1874 for (b=1;b<bs;b++) { 1875 d = PetscMax(d,dnz[i+b]); 1876 o = PetscMax(o,onz[i+b]); 1877 } 1878 dnz[i/bs] = PetscMin(d/bs + d%bs,lcols/bs); 1879 onz[i/bs] = PetscMin(o/bs + o%bs,(cols-lcols)/bs); 1880 } 1881 ierr = MatSeqBAIJSetPreallocation(B,bs,0,dnz);CHKERRQ(ierr); 1882 ierr = MatMPIBAIJSetPreallocation(B,bs,0,dnz,0,onz);CHKERRQ(ierr); 1883 ierr = MatMPISBAIJSetPreallocation(B,bs,0,dnz,0,onz);CHKERRQ(ierr); 1884 ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 1885 if (issbaij) { 1886 ierr = MatRestoreRowUpperTriangular(matis->A);CHKERRQ(ierr); 1887 } 1888 ierr = MatSetOption(B,MAT_NEW_NONZERO_ALLOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr); 1889 PetscFunctionReturn(0); 1890 } 1891 1892 PETSC_INTERN PetscErrorCode MatConvert_IS_XAIJ(Mat mat, MatType mtype, MatReuse reuse, Mat *M) 1893 { 1894 Mat_IS *matis = (Mat_IS*)(mat->data); 1895 Mat local_mat,MT; 1896 PetscInt rbs,cbs,rows,cols,lrows,lcols; 1897 PetscInt local_rows,local_cols; 1898 PetscBool isseqdense,isseqsbaij,isseqaij,isseqbaij; 1899 PetscMPIInt size; 1900 const PetscScalar *array; 1901 PetscErrorCode ierr; 1902 1903 PetscFunctionBegin; 1904 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)mat),&size);CHKERRMPI(ierr); 1905 if (size == 1 && mat->rmap->N == matis->A->rmap->N && mat->cmap->N == matis->A->cmap->N) { 1906 Mat B; 1907 IS irows = NULL,icols = NULL; 1908 PetscInt rbs,cbs; 1909 1910 ierr = ISLocalToGlobalMappingGetBlockSize(mat->rmap->mapping,&rbs);CHKERRQ(ierr); 1911 ierr = ISLocalToGlobalMappingGetBlockSize(mat->cmap->mapping,&cbs);CHKERRQ(ierr); 1912 if (reuse != MAT_REUSE_MATRIX) { /* check if l2g maps are one-to-one */ 1913 IS rows,cols; 1914 const PetscInt *ridxs,*cidxs; 1915 PetscInt i,nw,*work; 1916 1917 ierr = ISLocalToGlobalMappingGetBlockIndices(mat->rmap->mapping,&ridxs);CHKERRQ(ierr); 1918 ierr = ISLocalToGlobalMappingGetSize(mat->rmap->mapping,&nw);CHKERRQ(ierr); 1919 nw = nw/rbs; 1920 ierr = PetscCalloc1(nw,&work);CHKERRQ(ierr); 1921 for (i=0;i<nw;i++) work[ridxs[i]] += 1; 1922 for (i=0;i<nw;i++) if (!work[i] || work[i] > 1) break; 1923 if (i == nw) { 1924 ierr = ISCreateBlock(PETSC_COMM_SELF,rbs,nw,ridxs,PETSC_USE_POINTER,&rows);CHKERRQ(ierr); 1925 ierr = ISSetPermutation(rows);CHKERRQ(ierr); 1926 ierr = ISInvertPermutation(rows,PETSC_DECIDE,&irows);CHKERRQ(ierr); 1927 ierr = ISDestroy(&rows);CHKERRQ(ierr); 1928 } 1929 ierr = ISLocalToGlobalMappingRestoreBlockIndices(mat->rmap->mapping,&ridxs);CHKERRQ(ierr); 1930 ierr = PetscFree(work);CHKERRQ(ierr); 1931 if (irows && mat->rmap->mapping != mat->cmap->mapping) { 1932 ierr = ISLocalToGlobalMappingGetBlockIndices(mat->cmap->mapping,&cidxs);CHKERRQ(ierr); 1933 ierr = ISLocalToGlobalMappingGetSize(mat->cmap->mapping,&nw);CHKERRQ(ierr); 1934 nw = nw/cbs; 1935 ierr = PetscCalloc1(nw,&work);CHKERRQ(ierr); 1936 for (i=0;i<nw;i++) work[cidxs[i]] += 1; 1937 for (i=0;i<nw;i++) if (!work[i] || work[i] > 1) break; 1938 if (i == nw) { 1939 ierr = ISCreateBlock(PETSC_COMM_SELF,cbs,nw,cidxs,PETSC_USE_POINTER,&cols);CHKERRQ(ierr); 1940 ierr = ISSetPermutation(cols);CHKERRQ(ierr); 1941 ierr = ISInvertPermutation(cols,PETSC_DECIDE,&icols);CHKERRQ(ierr); 1942 ierr = ISDestroy(&cols);CHKERRQ(ierr); 1943 } 1944 ierr = ISLocalToGlobalMappingRestoreBlockIndices(mat->cmap->mapping,&cidxs);CHKERRQ(ierr); 1945 ierr = PetscFree(work);CHKERRQ(ierr); 1946 } else if (irows) { 1947 ierr = PetscObjectReference((PetscObject)irows);CHKERRQ(ierr); 1948 icols = irows; 1949 } 1950 } else { 1951 ierr = PetscObjectQuery((PetscObject)(*M),"_MatIS_IS_XAIJ_irows",(PetscObject*)&irows);CHKERRQ(ierr); 1952 ierr = PetscObjectQuery((PetscObject)(*M),"_MatIS_IS_XAIJ_icols",(PetscObject*)&icols);CHKERRQ(ierr); 1953 if (irows) { ierr = PetscObjectReference((PetscObject)irows);CHKERRQ(ierr); } 1954 if (icols) { ierr = PetscObjectReference((PetscObject)icols);CHKERRQ(ierr); } 1955 } 1956 if (!irows || !icols) { 1957 ierr = ISDestroy(&icols);CHKERRQ(ierr); 1958 ierr = ISDestroy(&irows);CHKERRQ(ierr); 1959 goto general_assembly; 1960 } 1961 ierr = MatConvert(matis->A,mtype,MAT_INITIAL_MATRIX,&B);CHKERRQ(ierr); 1962 if (reuse != MAT_INPLACE_MATRIX) { 1963 ierr = MatCreateSubMatrix(B,irows,icols,reuse,M);CHKERRQ(ierr); 1964 ierr = PetscObjectCompose((PetscObject)(*M),"_MatIS_IS_XAIJ_irows",(PetscObject)irows);CHKERRQ(ierr); 1965 ierr = PetscObjectCompose((PetscObject)(*M),"_MatIS_IS_XAIJ_icols",(PetscObject)icols);CHKERRQ(ierr); 1966 } else { 1967 Mat C; 1968 1969 ierr = MatCreateSubMatrix(B,irows,icols,MAT_INITIAL_MATRIX,&C);CHKERRQ(ierr); 1970 ierr = MatHeaderReplace(mat,&C);CHKERRQ(ierr); 1971 } 1972 ierr = MatDestroy(&B);CHKERRQ(ierr); 1973 ierr = ISDestroy(&icols);CHKERRQ(ierr); 1974 ierr = ISDestroy(&irows);CHKERRQ(ierr); 1975 PetscFunctionReturn(0); 1976 } 1977 general_assembly: 1978 ierr = MatGetSize(mat,&rows,&cols);CHKERRQ(ierr); 1979 ierr = ISLocalToGlobalMappingGetBlockSize(mat->rmap->mapping,&rbs);CHKERRQ(ierr); 1980 ierr = ISLocalToGlobalMappingGetBlockSize(mat->cmap->mapping,&cbs);CHKERRQ(ierr); 1981 ierr = MatGetLocalSize(mat,&lrows,&lcols);CHKERRQ(ierr); 1982 ierr = MatGetSize(matis->A,&local_rows,&local_cols);CHKERRQ(ierr); 1983 ierr = PetscObjectBaseTypeCompare((PetscObject)matis->A,MATSEQDENSE,&isseqdense);CHKERRQ(ierr); 1984 ierr = PetscObjectBaseTypeCompare((PetscObject)matis->A,MATSEQAIJ,&isseqaij);CHKERRQ(ierr); 1985 ierr = PetscObjectBaseTypeCompare((PetscObject)matis->A,MATSEQBAIJ,&isseqbaij);CHKERRQ(ierr); 1986 ierr = PetscObjectBaseTypeCompare((PetscObject)matis->A,MATSEQSBAIJ,&isseqsbaij);CHKERRQ(ierr); 1987 if (!isseqdense && !isseqaij && !isseqbaij && !isseqsbaij) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Not for matrix type %s",((PetscObject)(matis->A))->type_name); 1988 if (PetscDefined (USE_DEBUG)) { 1989 PetscBool lb[4],bb[4]; 1990 1991 lb[0] = isseqdense; 1992 lb[1] = isseqaij; 1993 lb[2] = isseqbaij; 1994 lb[3] = isseqsbaij; 1995 ierr = MPIU_Allreduce(lb,bb,4,MPIU_BOOL,MPI_LAND,PetscObjectComm((PetscObject)mat));CHKERRMPI(ierr); 1996 if (!bb[0] && !bb[1] && !bb[2] && !bb[3]) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Local matrices must have the same type"); 1997 } 1998 1999 if (reuse != MAT_REUSE_MATRIX) { 2000 ierr = MatCreate(PetscObjectComm((PetscObject)mat),&MT);CHKERRQ(ierr); 2001 ierr = MatSetSizes(MT,lrows,lcols,rows,cols);CHKERRQ(ierr); 2002 ierr = MatSetType(MT,mtype);CHKERRQ(ierr); 2003 ierr = MatSetBlockSizes(MT,rbs,cbs);CHKERRQ(ierr); 2004 ierr = MatISSetMPIXAIJPreallocation_Private(mat,MT,PETSC_FALSE);CHKERRQ(ierr); 2005 } else { 2006 PetscInt mrbs,mcbs,mrows,mcols,mlrows,mlcols; 2007 2008 /* some checks */ 2009 MT = *M; 2010 ierr = MatGetBlockSizes(MT,&mrbs,&mcbs);CHKERRQ(ierr); 2011 ierr = MatGetSize(MT,&mrows,&mcols);CHKERRQ(ierr); 2012 ierr = MatGetLocalSize(MT,&mlrows,&mlcols);CHKERRQ(ierr); 2013 if (mrows != rows) SETERRQ2(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse matrix. Wrong number of rows (%d != %d)",rows,mrows); 2014 if (mcols != cols) SETERRQ2(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse matrix. Wrong number of cols (%d != %d)",cols,mcols); 2015 if (mlrows != lrows) SETERRQ2(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse matrix. Wrong number of local rows (%d != %d)",lrows,mlrows); 2016 if (mlcols != lcols) SETERRQ2(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse matrix. Wrong number of local cols (%d != %d)",lcols,mlcols); 2017 if (mrbs != rbs) SETERRQ2(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse matrix. Wrong row block size (%d != %d)",rbs,mrbs); 2018 if (mcbs != cbs) SETERRQ2(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse matrix. Wrong col block size (%d != %d)",cbs,mcbs); 2019 ierr = MatZeroEntries(MT);CHKERRQ(ierr); 2020 } 2021 2022 if (isseqsbaij || isseqbaij) { 2023 ierr = MatConvert(matis->A,MATSEQAIJ,MAT_INITIAL_MATRIX,&local_mat);CHKERRQ(ierr); 2024 isseqaij = PETSC_TRUE; 2025 } else { 2026 ierr = PetscObjectReference((PetscObject)matis->A);CHKERRQ(ierr); 2027 local_mat = matis->A; 2028 } 2029 2030 /* Set values */ 2031 ierr = MatSetLocalToGlobalMapping(MT,mat->rmap->mapping,mat->cmap->mapping);CHKERRQ(ierr); 2032 if (isseqdense) { /* special case for dense local matrices */ 2033 PetscInt i,*dummy; 2034 2035 ierr = PetscMalloc1(PetscMax(local_rows,local_cols),&dummy);CHKERRQ(ierr); 2036 for (i=0;i<PetscMax(local_rows,local_cols);i++) dummy[i] = i; 2037 ierr = MatSetOption(MT,MAT_ROW_ORIENTED,PETSC_FALSE);CHKERRQ(ierr); 2038 ierr = MatDenseGetArrayRead(local_mat,&array);CHKERRQ(ierr); 2039 ierr = MatSetValuesLocal(MT,local_rows,dummy,local_cols,dummy,array,ADD_VALUES);CHKERRQ(ierr); 2040 ierr = MatDenseRestoreArrayRead(local_mat,&array);CHKERRQ(ierr); 2041 ierr = PetscFree(dummy);CHKERRQ(ierr); 2042 } else if (isseqaij) { 2043 const PetscInt *blocks; 2044 PetscInt i,nvtxs,*xadj,*adjncy, nb; 2045 PetscBool done; 2046 PetscScalar *sarray; 2047 2048 ierr = MatGetRowIJ(local_mat,0,PETSC_FALSE,PETSC_FALSE,&nvtxs,(const PetscInt**)&xadj,(const PetscInt**)&adjncy,&done);CHKERRQ(ierr); 2049 if (!done) SETERRQ(PetscObjectComm((PetscObject)local_mat),PETSC_ERR_PLIB,"Error in MatGetRowIJ"); 2050 ierr = MatSeqAIJGetArray(local_mat,&sarray);CHKERRQ(ierr); 2051 ierr = MatGetVariableBlockSizes(local_mat,&nb,&blocks);CHKERRQ(ierr); 2052 if (nb) { /* speed up assembly for special blocked matrices (used by BDDC) */ 2053 PetscInt sum; 2054 2055 for (i=0,sum=0;i<nb;i++) sum += blocks[i]; 2056 if (sum == nvtxs) { 2057 PetscInt r; 2058 2059 for (i=0,r=0;i<nb;i++) { 2060 if (PetscUnlikelyDebug(blocks[i] != xadj[r+1] - xadj[r])) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Invalid block sizes prescribed for block %D: expected %D, got %D",i,blocks[i],xadj[r+1] - xadj[r]); 2061 ierr = MatSetValuesLocal(MT,blocks[i],adjncy+xadj[r],blocks[i],adjncy+xadj[r],sarray+xadj[r],ADD_VALUES);CHKERRQ(ierr); 2062 r += blocks[i]; 2063 } 2064 } else { 2065 for (i=0;i<nvtxs;i++) { 2066 ierr = MatSetValuesLocal(MT,1,&i,xadj[i+1]-xadj[i],adjncy+xadj[i],sarray+xadj[i],ADD_VALUES);CHKERRQ(ierr); 2067 } 2068 } 2069 } else { 2070 for (i=0;i<nvtxs;i++) { 2071 ierr = MatSetValuesLocal(MT,1,&i,xadj[i+1]-xadj[i],adjncy+xadj[i],sarray+xadj[i],ADD_VALUES);CHKERRQ(ierr); 2072 } 2073 } 2074 ierr = MatRestoreRowIJ(local_mat,0,PETSC_FALSE,PETSC_FALSE,&nvtxs,(const PetscInt**)&xadj,(const PetscInt**)&adjncy,&done);CHKERRQ(ierr); 2075 if (!done) SETERRQ(PetscObjectComm((PetscObject)local_mat),PETSC_ERR_PLIB,"Error in MatRestoreRowIJ"); 2076 ierr = MatSeqAIJRestoreArray(local_mat,&sarray);CHKERRQ(ierr); 2077 } else { /* very basic values insertion for all other matrix types */ 2078 PetscInt i; 2079 2080 for (i=0;i<local_rows;i++) { 2081 PetscInt j; 2082 const PetscInt *local_indices_cols; 2083 2084 ierr = MatGetRow(local_mat,i,&j,&local_indices_cols,&array);CHKERRQ(ierr); 2085 ierr = MatSetValuesLocal(MT,1,&i,j,local_indices_cols,array,ADD_VALUES);CHKERRQ(ierr); 2086 ierr = MatRestoreRow(local_mat,i,&j,&local_indices_cols,&array);CHKERRQ(ierr); 2087 } 2088 } 2089 ierr = MatAssemblyBegin(MT,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2090 ierr = MatDestroy(&local_mat);CHKERRQ(ierr); 2091 ierr = MatAssemblyEnd(MT,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2092 if (isseqdense) { 2093 ierr = MatSetOption(MT,MAT_ROW_ORIENTED,PETSC_TRUE);CHKERRQ(ierr); 2094 } 2095 if (reuse == MAT_INPLACE_MATRIX) { 2096 ierr = MatHeaderReplace(mat,&MT);CHKERRQ(ierr); 2097 } else if (reuse == MAT_INITIAL_MATRIX) { 2098 *M = MT; 2099 } 2100 PetscFunctionReturn(0); 2101 } 2102 2103 /*@ 2104 MatISGetMPIXAIJ - Converts MATIS matrix into a parallel AIJ format 2105 2106 Input Parameter: 2107 + mat - the matrix (should be of type MATIS) 2108 - reuse - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 2109 2110 Output Parameter: 2111 . newmat - the matrix in AIJ format 2112 2113 Level: developer 2114 2115 Notes: 2116 This function has been deprecated and it will be removed in future releases. Update your code to use the MatConvert() interface. 2117 2118 .seealso: MATIS, MatConvert() 2119 @*/ 2120 PetscErrorCode MatISGetMPIXAIJ(Mat mat, MatReuse reuse, Mat *newmat) 2121 { 2122 PetscErrorCode ierr; 2123 2124 PetscFunctionBegin; 2125 PetscValidHeaderSpecific(mat,MAT_CLASSID,1); 2126 PetscValidLogicalCollectiveEnum(mat,reuse,2); 2127 PetscValidPointer(newmat,3); 2128 if (reuse == MAT_REUSE_MATRIX) { 2129 PetscValidHeaderSpecific(*newmat,MAT_CLASSID,3); 2130 PetscCheckSameComm(mat,1,*newmat,3); 2131 if (mat == *newmat) SETERRQ(PetscObjectComm((PetscObject)mat),PETSC_ERR_SUP,"Cannot reuse the same matrix"); 2132 } 2133 ierr = PetscUseMethod(mat,"MatISGetMPIXAIJ_C",(Mat,MatType,MatReuse,Mat*),(mat,MATAIJ,reuse,newmat));CHKERRQ(ierr); 2134 PetscFunctionReturn(0); 2135 } 2136 2137 PetscErrorCode MatDuplicate_IS(Mat mat,MatDuplicateOption op,Mat *newmat) 2138 { 2139 PetscErrorCode ierr; 2140 Mat_IS *matis = (Mat_IS*)(mat->data); 2141 PetscInt rbs,cbs,m,n,M,N; 2142 Mat B,localmat; 2143 2144 PetscFunctionBegin; 2145 ierr = ISLocalToGlobalMappingGetBlockSize(mat->rmap->mapping,&rbs);CHKERRQ(ierr); 2146 ierr = ISLocalToGlobalMappingGetBlockSize(mat->cmap->mapping,&cbs);CHKERRQ(ierr); 2147 ierr = MatGetSize(mat,&M,&N);CHKERRQ(ierr); 2148 ierr = MatGetLocalSize(mat,&m,&n);CHKERRQ(ierr); 2149 ierr = MatCreate(PetscObjectComm((PetscObject)mat),&B);CHKERRQ(ierr); 2150 ierr = MatSetSizes(B,m,n,M,N);CHKERRQ(ierr); 2151 ierr = MatSetBlockSize(B,rbs == cbs ? rbs : 1);CHKERRQ(ierr); 2152 ierr = MatSetType(B,MATIS);CHKERRQ(ierr); 2153 ierr = MatISSetLocalMatType(B,matis->lmattype);CHKERRQ(ierr); 2154 ierr = MatSetLocalToGlobalMapping(B,mat->rmap->mapping,mat->cmap->mapping);CHKERRQ(ierr); 2155 ierr = MatDuplicate(matis->A,op,&localmat);CHKERRQ(ierr); 2156 ierr = MatISSetLocalMat(B,localmat);CHKERRQ(ierr); 2157 ierr = MatDestroy(&localmat);CHKERRQ(ierr); 2158 ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2159 ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2160 *newmat = B; 2161 PetscFunctionReturn(0); 2162 } 2163 2164 static PetscErrorCode MatIsHermitian_IS(Mat A,PetscReal tol,PetscBool *flg) 2165 { 2166 PetscErrorCode ierr; 2167 Mat_IS *matis = (Mat_IS*)A->data; 2168 PetscBool local_sym; 2169 2170 PetscFunctionBegin; 2171 ierr = MatIsHermitian(matis->A,tol,&local_sym);CHKERRQ(ierr); 2172 ierr = MPIU_Allreduce(&local_sym,flg,1,MPIU_BOOL,MPI_LAND,PetscObjectComm((PetscObject)A));CHKERRMPI(ierr); 2173 PetscFunctionReturn(0); 2174 } 2175 2176 static PetscErrorCode MatIsSymmetric_IS(Mat A,PetscReal tol,PetscBool *flg) 2177 { 2178 PetscErrorCode ierr; 2179 Mat_IS *matis = (Mat_IS*)A->data; 2180 PetscBool local_sym; 2181 2182 PetscFunctionBegin; 2183 ierr = MatIsSymmetric(matis->A,tol,&local_sym);CHKERRQ(ierr); 2184 ierr = MPIU_Allreduce(&local_sym,flg,1,MPIU_BOOL,MPI_LAND,PetscObjectComm((PetscObject)A));CHKERRMPI(ierr); 2185 PetscFunctionReturn(0); 2186 } 2187 2188 static PetscErrorCode MatIsStructurallySymmetric_IS(Mat A,PetscBool *flg) 2189 { 2190 PetscErrorCode ierr; 2191 Mat_IS *matis = (Mat_IS*)A->data; 2192 PetscBool local_sym; 2193 2194 PetscFunctionBegin; 2195 if (A->rmap->mapping != A->cmap->mapping) { 2196 *flg = PETSC_FALSE; 2197 PetscFunctionReturn(0); 2198 } 2199 ierr = MatIsStructurallySymmetric(matis->A,&local_sym);CHKERRQ(ierr); 2200 ierr = MPIU_Allreduce(&local_sym,flg,1,MPIU_BOOL,MPI_LAND,PetscObjectComm((PetscObject)A));CHKERRMPI(ierr); 2201 PetscFunctionReturn(0); 2202 } 2203 2204 static PetscErrorCode MatDestroy_IS(Mat A) 2205 { 2206 PetscErrorCode ierr; 2207 Mat_IS *b = (Mat_IS*)A->data; 2208 2209 PetscFunctionBegin; 2210 ierr = PetscFree(b->bdiag);CHKERRQ(ierr); 2211 ierr = PetscFree(b->lmattype);CHKERRQ(ierr); 2212 ierr = MatDestroy(&b->A);CHKERRQ(ierr); 2213 ierr = VecScatterDestroy(&b->cctx);CHKERRQ(ierr); 2214 ierr = VecScatterDestroy(&b->rctx);CHKERRQ(ierr); 2215 ierr = VecDestroy(&b->x);CHKERRQ(ierr); 2216 ierr = VecDestroy(&b->y);CHKERRQ(ierr); 2217 ierr = VecDestroy(&b->counter);CHKERRQ(ierr); 2218 ierr = ISDestroy(&b->getsub_ris);CHKERRQ(ierr); 2219 ierr = ISDestroy(&b->getsub_cis);CHKERRQ(ierr); 2220 if (b->sf != b->csf) { 2221 ierr = PetscSFDestroy(&b->csf);CHKERRQ(ierr); 2222 ierr = PetscFree2(b->csf_rootdata,b->csf_leafdata);CHKERRQ(ierr); 2223 } else b->csf = NULL; 2224 ierr = PetscSFDestroy(&b->sf);CHKERRQ(ierr); 2225 ierr = PetscFree2(b->sf_rootdata,b->sf_leafdata);CHKERRQ(ierr); 2226 ierr = PetscFree(A->data);CHKERRQ(ierr); 2227 ierr = PetscObjectChangeTypeName((PetscObject)A,NULL);CHKERRQ(ierr); 2228 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetLocalMatType_C",NULL);CHKERRQ(ierr); 2229 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISGetLocalMat_C",NULL);CHKERRQ(ierr); 2230 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetLocalMat_C",NULL);CHKERRQ(ierr); 2231 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISGetMPIXAIJ_C",NULL);CHKERRQ(ierr); 2232 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetPreallocation_C",NULL);CHKERRQ(ierr); 2233 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISStoreL2L_C",NULL);CHKERRQ(ierr); 2234 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISFixLocalEmpty_C",NULL);CHKERRQ(ierr); 2235 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_mpiaij_C",NULL);CHKERRQ(ierr); 2236 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_mpibaij_C",NULL);CHKERRQ(ierr); 2237 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_mpisbaij_C",NULL);CHKERRQ(ierr); 2238 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_seqaij_C",NULL);CHKERRQ(ierr); 2239 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_seqbaij_C",NULL);CHKERRQ(ierr); 2240 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_seqsbaij_C",NULL);CHKERRQ(ierr); 2241 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_aij_C",NULL);CHKERRQ(ierr); 2242 PetscFunctionReturn(0); 2243 } 2244 2245 static PetscErrorCode MatMult_IS(Mat A,Vec x,Vec y) 2246 { 2247 PetscErrorCode ierr; 2248 Mat_IS *is = (Mat_IS*)A->data; 2249 PetscScalar zero = 0.0; 2250 2251 PetscFunctionBegin; 2252 /* scatter the global vector x into the local work vector */ 2253 ierr = VecScatterBegin(is->cctx,x,is->x,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2254 ierr = VecScatterEnd(is->cctx,x,is->x,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2255 2256 /* multiply the local matrix */ 2257 ierr = MatMult(is->A,is->x,is->y);CHKERRQ(ierr); 2258 2259 /* scatter product back into global memory */ 2260 ierr = VecSet(y,zero);CHKERRQ(ierr); 2261 ierr = VecScatterBegin(is->rctx,is->y,y,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 2262 ierr = VecScatterEnd(is->rctx,is->y,y,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 2263 PetscFunctionReturn(0); 2264 } 2265 2266 static PetscErrorCode MatMultAdd_IS(Mat A,Vec v1,Vec v2,Vec v3) 2267 { 2268 Vec temp_vec; 2269 PetscErrorCode ierr; 2270 2271 PetscFunctionBegin; /* v3 = v2 + A * v1.*/ 2272 if (v3 != v2) { 2273 ierr = MatMult(A,v1,v3);CHKERRQ(ierr); 2274 ierr = VecAXPY(v3,1.0,v2);CHKERRQ(ierr); 2275 } else { 2276 ierr = VecDuplicate(v2,&temp_vec);CHKERRQ(ierr); 2277 ierr = MatMult(A,v1,temp_vec);CHKERRQ(ierr); 2278 ierr = VecAXPY(temp_vec,1.0,v2);CHKERRQ(ierr); 2279 ierr = VecCopy(temp_vec,v3);CHKERRQ(ierr); 2280 ierr = VecDestroy(&temp_vec);CHKERRQ(ierr); 2281 } 2282 PetscFunctionReturn(0); 2283 } 2284 2285 static PetscErrorCode MatMultTranspose_IS(Mat A,Vec y,Vec x) 2286 { 2287 Mat_IS *is = (Mat_IS*)A->data; 2288 PetscErrorCode ierr; 2289 2290 PetscFunctionBegin; 2291 /* scatter the global vector x into the local work vector */ 2292 ierr = VecScatterBegin(is->rctx,y,is->y,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2293 ierr = VecScatterEnd(is->rctx,y,is->y,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2294 2295 /* multiply the local matrix */ 2296 ierr = MatMultTranspose(is->A,is->y,is->x);CHKERRQ(ierr); 2297 2298 /* scatter product back into global vector */ 2299 ierr = VecSet(x,0);CHKERRQ(ierr); 2300 ierr = VecScatterBegin(is->cctx,is->x,x,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 2301 ierr = VecScatterEnd(is->cctx,is->x,x,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 2302 PetscFunctionReturn(0); 2303 } 2304 2305 static PetscErrorCode MatMultTransposeAdd_IS(Mat A,Vec v1,Vec v2,Vec v3) 2306 { 2307 Vec temp_vec; 2308 PetscErrorCode ierr; 2309 2310 PetscFunctionBegin; /* v3 = v2 + A' * v1.*/ 2311 if (v3 != v2) { 2312 ierr = MatMultTranspose(A,v1,v3);CHKERRQ(ierr); 2313 ierr = VecAXPY(v3,1.0,v2);CHKERRQ(ierr); 2314 } else { 2315 ierr = VecDuplicate(v2,&temp_vec);CHKERRQ(ierr); 2316 ierr = MatMultTranspose(A,v1,temp_vec);CHKERRQ(ierr); 2317 ierr = VecAXPY(temp_vec,1.0,v2);CHKERRQ(ierr); 2318 ierr = VecCopy(temp_vec,v3);CHKERRQ(ierr); 2319 ierr = VecDestroy(&temp_vec);CHKERRQ(ierr); 2320 } 2321 PetscFunctionReturn(0); 2322 } 2323 2324 static PetscErrorCode MatView_IS(Mat A,PetscViewer viewer) 2325 { 2326 Mat_IS *a = (Mat_IS*)A->data; 2327 PetscErrorCode ierr; 2328 PetscViewer sviewer; 2329 PetscBool isascii,view = PETSC_TRUE; 2330 2331 PetscFunctionBegin; 2332 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&isascii);CHKERRQ(ierr); 2333 if (isascii) { 2334 PetscViewerFormat format; 2335 2336 ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr); 2337 if (format == PETSC_VIEWER_ASCII_INFO) view = PETSC_FALSE; 2338 } 2339 if (!view) PetscFunctionReturn(0); 2340 ierr = PetscViewerGetSubViewer(viewer,PETSC_COMM_SELF,&sviewer);CHKERRQ(ierr); 2341 ierr = MatView(a->A,sviewer);CHKERRQ(ierr); 2342 ierr = PetscViewerRestoreSubViewer(viewer,PETSC_COMM_SELF,&sviewer);CHKERRQ(ierr); 2343 ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 2344 PetscFunctionReturn(0); 2345 } 2346 2347 static PetscErrorCode MatInvertBlockDiagonal_IS(Mat mat,const PetscScalar **values) 2348 { 2349 Mat_IS *is = (Mat_IS*)mat->data; 2350 MPI_Datatype nodeType; 2351 const PetscScalar *lv; 2352 PetscInt bs; 2353 PetscErrorCode ierr; 2354 2355 PetscFunctionBegin; 2356 ierr = MatGetBlockSize(mat,&bs);CHKERRQ(ierr); 2357 ierr = MatSetBlockSize(is->A,bs);CHKERRQ(ierr); 2358 ierr = MatInvertBlockDiagonal(is->A,&lv);CHKERRQ(ierr); 2359 if (!is->bdiag) { 2360 ierr = PetscMalloc1(bs*mat->rmap->n,&is->bdiag);CHKERRQ(ierr); 2361 } 2362 ierr = MPI_Type_contiguous(bs,MPIU_SCALAR,&nodeType);CHKERRMPI(ierr); 2363 ierr = MPI_Type_commit(&nodeType);CHKERRMPI(ierr); 2364 ierr = PetscSFReduceBegin(is->sf,nodeType,lv,is->bdiag,MPI_REPLACE);CHKERRQ(ierr); 2365 ierr = PetscSFReduceEnd(is->sf,nodeType,lv,is->bdiag,MPI_REPLACE);CHKERRQ(ierr); 2366 ierr = MPI_Type_free(&nodeType);CHKERRMPI(ierr); 2367 if (values) *values = is->bdiag; 2368 PetscFunctionReturn(0); 2369 } 2370 2371 static PetscErrorCode MatISSetUpScatters_Private(Mat A) 2372 { 2373 Vec cglobal,rglobal; 2374 IS from; 2375 Mat_IS *is = (Mat_IS*)A->data; 2376 PetscScalar sum; 2377 const PetscInt *garray; 2378 PetscInt nr,rbs,nc,cbs; 2379 PetscBool iscuda; 2380 PetscErrorCode ierr; 2381 2382 PetscFunctionBegin; 2383 ierr = ISLocalToGlobalMappingGetSize(A->rmap->mapping,&nr);CHKERRQ(ierr); 2384 ierr = ISLocalToGlobalMappingGetBlockSize(A->rmap->mapping,&rbs);CHKERRQ(ierr); 2385 ierr = ISLocalToGlobalMappingGetSize(A->cmap->mapping,&nc);CHKERRQ(ierr); 2386 ierr = ISLocalToGlobalMappingGetBlockSize(A->cmap->mapping,&cbs);CHKERRQ(ierr); 2387 ierr = VecDestroy(&is->x);CHKERRQ(ierr); 2388 ierr = VecDestroy(&is->y);CHKERRQ(ierr); 2389 ierr = VecDestroy(&is->counter);CHKERRQ(ierr); 2390 ierr = VecScatterDestroy(&is->rctx);CHKERRQ(ierr); 2391 ierr = VecScatterDestroy(&is->cctx);CHKERRQ(ierr); 2392 ierr = MatCreateVecs(is->A,&is->x,&is->y);CHKERRQ(ierr); 2393 ierr = VecBindToCPU(is->y,PETSC_TRUE);CHKERRQ(ierr); 2394 ierr = PetscObjectTypeCompare((PetscObject)is->y,VECSEQCUDA,&iscuda);CHKERRQ(ierr); 2395 if (iscuda) { 2396 ierr = PetscFree(A->defaultvectype);CHKERRQ(ierr); 2397 ierr = PetscStrallocpy(VECCUDA,&A->defaultvectype);CHKERRQ(ierr); 2398 } 2399 ierr = MatCreateVecs(A,&cglobal,&rglobal);CHKERRQ(ierr); 2400 ierr = VecBindToCPU(rglobal,PETSC_TRUE);CHKERRQ(ierr); 2401 ierr = ISLocalToGlobalMappingGetBlockIndices(A->rmap->mapping,&garray);CHKERRQ(ierr); 2402 ierr = ISCreateBlock(PetscObjectComm((PetscObject)A),rbs,nr/rbs,garray,PETSC_USE_POINTER,&from);CHKERRQ(ierr); 2403 ierr = VecScatterCreate(rglobal,from,is->y,NULL,&is->rctx);CHKERRQ(ierr); 2404 ierr = ISLocalToGlobalMappingRestoreBlockIndices(A->rmap->mapping,&garray);CHKERRQ(ierr); 2405 ierr = ISDestroy(&from);CHKERRQ(ierr); 2406 if (A->rmap->mapping != A->cmap->mapping) { 2407 ierr = ISLocalToGlobalMappingGetBlockIndices(A->cmap->mapping,&garray);CHKERRQ(ierr); 2408 ierr = ISCreateBlock(PetscObjectComm((PetscObject)A),cbs,nc/cbs,garray,PETSC_USE_POINTER,&from);CHKERRQ(ierr); 2409 ierr = VecScatterCreate(cglobal,from,is->x,NULL,&is->cctx);CHKERRQ(ierr); 2410 ierr = ISLocalToGlobalMappingRestoreBlockIndices(A->cmap->mapping,&garray);CHKERRQ(ierr); 2411 ierr = ISDestroy(&from);CHKERRQ(ierr); 2412 } else { 2413 ierr = PetscObjectReference((PetscObject)is->rctx);CHKERRQ(ierr); 2414 is->cctx = is->rctx; 2415 } 2416 ierr = VecDestroy(&cglobal);CHKERRQ(ierr); 2417 2418 /* interface counter vector (local) */ 2419 ierr = VecDuplicate(is->y,&is->counter);CHKERRQ(ierr); 2420 ierr = VecBindToCPU(is->counter,PETSC_TRUE);CHKERRQ(ierr); 2421 ierr = VecSet(is->y,1.);CHKERRQ(ierr); 2422 ierr = VecScatterBegin(is->rctx,is->y,rglobal,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 2423 ierr = VecScatterEnd(is->rctx,is->y,rglobal,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 2424 ierr = VecScatterBegin(is->rctx,rglobal,is->counter,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2425 ierr = VecScatterEnd(is->rctx,rglobal,is->counter,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 2426 ierr = VecBindToCPU(is->y,PETSC_FALSE);CHKERRQ(ierr); 2427 ierr = VecBindToCPU(is->counter,PETSC_FALSE);CHKERRQ(ierr); 2428 2429 /* special functions for block-diagonal matrices */ 2430 ierr = VecSum(rglobal,&sum);CHKERRQ(ierr); 2431 if ((PetscInt)(PetscRealPart(sum)) == A->rmap->N && A->rmap->N == A->cmap->N && A->rmap->mapping == A->cmap->mapping) { 2432 A->ops->invertblockdiagonal = MatInvertBlockDiagonal_IS; 2433 } else { 2434 A->ops->invertblockdiagonal = NULL; 2435 } 2436 ierr = VecDestroy(&rglobal);CHKERRQ(ierr); 2437 2438 /* setup SF for general purpose shared indices based communications */ 2439 ierr = MatISSetUpSF_IS(A);CHKERRQ(ierr); 2440 PetscFunctionReturn(0); 2441 } 2442 2443 static PetscErrorCode MatSetLocalToGlobalMapping_IS(Mat A,ISLocalToGlobalMapping rmapping,ISLocalToGlobalMapping cmapping) 2444 { 2445 PetscErrorCode ierr; 2446 PetscInt nr,rbs,nc,cbs; 2447 Mat_IS *is = (Mat_IS*)A->data; 2448 2449 PetscFunctionBegin; 2450 PetscCheckSameComm(A,1,rmapping,2); 2451 PetscCheckSameComm(A,1,cmapping,3); 2452 ierr = MatDestroy(&is->A);CHKERRQ(ierr); 2453 if (is->csf != is->sf) { 2454 ierr = PetscSFDestroy(&is->csf);CHKERRQ(ierr); 2455 ierr = PetscFree2(is->csf_rootdata,is->csf_leafdata);CHKERRQ(ierr); 2456 } else is->csf = NULL; 2457 ierr = PetscSFDestroy(&is->sf);CHKERRQ(ierr); 2458 ierr = PetscFree2(is->sf_rootdata,is->sf_leafdata);CHKERRQ(ierr); 2459 ierr = PetscFree(is->bdiag);CHKERRQ(ierr); 2460 2461 /* Setup Layout and set local to global maps */ 2462 ierr = PetscLayoutSetUp(A->rmap);CHKERRQ(ierr); 2463 ierr = PetscLayoutSetUp(A->cmap);CHKERRQ(ierr); 2464 ierr = ISLocalToGlobalMappingGetSize(rmapping,&nr);CHKERRQ(ierr); 2465 ierr = ISLocalToGlobalMappingGetBlockSize(rmapping,&rbs);CHKERRQ(ierr); 2466 ierr = ISLocalToGlobalMappingGetSize(cmapping,&nc);CHKERRQ(ierr); 2467 ierr = ISLocalToGlobalMappingGetBlockSize(cmapping,&cbs);CHKERRQ(ierr); 2468 /* check if the two mappings are actually the same for square matrices (DOLFIN passes 2 different objects) */ 2469 if (rmapping != cmapping && A->rmap->N == A->cmap->N) { 2470 PetscBool same,gsame; 2471 2472 same = PETSC_FALSE; 2473 if (nr == nc && cbs == rbs) { 2474 const PetscInt *idxs1,*idxs2; 2475 2476 ierr = ISLocalToGlobalMappingGetBlockIndices(rmapping,&idxs1);CHKERRQ(ierr); 2477 ierr = ISLocalToGlobalMappingGetBlockIndices(cmapping,&idxs2);CHKERRQ(ierr); 2478 ierr = PetscArraycmp(idxs1,idxs2,nr/rbs,&same);CHKERRQ(ierr); 2479 ierr = ISLocalToGlobalMappingRestoreBlockIndices(rmapping,&idxs1);CHKERRQ(ierr); 2480 ierr = ISLocalToGlobalMappingRestoreBlockIndices(cmapping,&idxs2);CHKERRQ(ierr); 2481 } 2482 ierr = MPIU_Allreduce(&same,&gsame,1,MPIU_BOOL,MPI_LAND,PetscObjectComm((PetscObject)A));CHKERRMPI(ierr); 2483 if (gsame) cmapping = rmapping; 2484 } 2485 ierr = PetscLayoutSetBlockSize(A->rmap,rbs);CHKERRQ(ierr); 2486 ierr = PetscLayoutSetBlockSize(A->cmap,cbs);CHKERRQ(ierr); 2487 ierr = PetscLayoutSetISLocalToGlobalMapping(A->rmap,rmapping);CHKERRQ(ierr); 2488 ierr = PetscLayoutSetISLocalToGlobalMapping(A->cmap,cmapping);CHKERRQ(ierr); 2489 2490 /* Create the local matrix A */ 2491 ierr = MatCreate(PETSC_COMM_SELF,&is->A);CHKERRQ(ierr); 2492 ierr = MatSetType(is->A,is->lmattype);CHKERRQ(ierr); 2493 ierr = MatSetSizes(is->A,nr,nc,nr,nc);CHKERRQ(ierr); 2494 ierr = MatSetBlockSizes(is->A,rbs,cbs);CHKERRQ(ierr); 2495 ierr = MatSetOptionsPrefix(is->A,"is_");CHKERRQ(ierr); 2496 ierr = MatAppendOptionsPrefix(is->A,((PetscObject)A)->prefix);CHKERRQ(ierr); 2497 ierr = PetscLayoutSetUp(is->A->rmap);CHKERRQ(ierr); 2498 ierr = PetscLayoutSetUp(is->A->cmap);CHKERRQ(ierr); 2499 2500 if (!is->islocalref) { /* setup scatters and local vectors for MatMult */ 2501 ierr = MatISSetUpScatters_Private(A);CHKERRQ(ierr); 2502 } 2503 ierr = MatSetUp(A);CHKERRQ(ierr); 2504 PetscFunctionReturn(0); 2505 } 2506 2507 static PetscErrorCode MatSetValues_IS(Mat mat, PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols, const PetscScalar *values, InsertMode addv) 2508 { 2509 Mat_IS *is = (Mat_IS*)mat->data; 2510 PetscErrorCode ierr; 2511 PetscInt i,zm,zn; 2512 PetscInt rows_l[MATIS_MAX_ENTRIES_INSERTION],cols_l[MATIS_MAX_ENTRIES_INSERTION]; 2513 2514 PetscFunctionBegin; 2515 if (PetscDefined(USE_DEBUG)) { 2516 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); 2517 /* count negative indices */ 2518 for (i=0,zm=0;i<m;i++) if (rows[i] < 0) zm++; 2519 for (i=0,zn=0;i<n;i++) if (cols[i] < 0) zn++; 2520 } 2521 ierr = ISGlobalToLocalMappingApply(mat->rmap->mapping,IS_GTOLM_MASK,m,rows,&m,rows_l);CHKERRQ(ierr); 2522 ierr = ISGlobalToLocalMappingApply(mat->cmap->mapping,IS_GTOLM_MASK,n,cols,&n,cols_l);CHKERRQ(ierr); 2523 if (PetscDefined(USE_DEBUG)) { 2524 /* count negative indices (should be the same as before) */ 2525 for (i=0;i<m;i++) if (rows_l[i] < 0) zm--; 2526 for (i=0;i<n;i++) if (cols_l[i] < 0) zn--; 2527 if (!is->A->rmap->mapping && zm) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Some of the row indices can not be mapped! Maybe you should not use MATIS"); 2528 if (!is->A->cmap->mapping && zn) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Some of the column indices can not be mapped! Maybe you should not use MATIS"); 2529 } 2530 ierr = MatSetValues(is->A,m,rows_l,n,cols_l,values,addv);CHKERRQ(ierr); 2531 PetscFunctionReturn(0); 2532 } 2533 2534 static PetscErrorCode MatSetValuesBlocked_IS(Mat mat, PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols, const PetscScalar *values, InsertMode addv) 2535 { 2536 Mat_IS *is = (Mat_IS*)mat->data; 2537 PetscErrorCode ierr; 2538 PetscInt i,zm,zn; 2539 PetscInt rows_l[MATIS_MAX_ENTRIES_INSERTION],cols_l[MATIS_MAX_ENTRIES_INSERTION]; 2540 2541 PetscFunctionBegin; 2542 if (PetscDefined(USE_DEBUG)) { 2543 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); 2544 /* count negative indices */ 2545 for (i=0,zm=0;i<m;i++) if (rows[i] < 0) zm++; 2546 for (i=0,zn=0;i<n;i++) if (cols[i] < 0) zn++; 2547 } 2548 ierr = ISGlobalToLocalMappingApplyBlock(mat->rmap->mapping,IS_GTOLM_MASK,m,rows,&m,rows_l);CHKERRQ(ierr); 2549 ierr = ISGlobalToLocalMappingApplyBlock(mat->cmap->mapping,IS_GTOLM_MASK,n,cols,&n,cols_l);CHKERRQ(ierr); 2550 if (PetscDefined(USE_DEBUG)) { 2551 /* count negative indices (should be the same as before) */ 2552 for (i=0;i<m;i++) if (rows_l[i] < 0) zm--; 2553 for (i=0;i<n;i++) if (cols_l[i] < 0) zn--; 2554 if (!is->A->rmap->mapping && zm) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Some of the row indices can not be mapped! Maybe you should not use MATIS"); 2555 if (!is->A->cmap->mapping && zn) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Some of the column indices can not be mapped! Maybe you should not use MATIS"); 2556 } 2557 ierr = MatSetValuesBlocked(is->A,m,rows_l,n,cols_l,values,addv);CHKERRQ(ierr); 2558 PetscFunctionReturn(0); 2559 } 2560 2561 static PetscErrorCode MatSetValuesLocal_IS(Mat A,PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols,const PetscScalar *values,InsertMode addv) 2562 { 2563 PetscErrorCode ierr; 2564 Mat_IS *is = (Mat_IS*)A->data; 2565 2566 PetscFunctionBegin; 2567 if (is->A->rmap->mapping) { 2568 ierr = MatSetValuesLocal(is->A,m,rows,n,cols,values,addv);CHKERRQ(ierr); 2569 } else { 2570 ierr = MatSetValues(is->A,m,rows,n,cols,values,addv);CHKERRQ(ierr); 2571 } 2572 PetscFunctionReturn(0); 2573 } 2574 2575 static PetscErrorCode MatSetValuesBlockedLocal_IS(Mat A,PetscInt m,const PetscInt *rows, PetscInt n,const PetscInt *cols,const PetscScalar *values,InsertMode addv) 2576 { 2577 PetscErrorCode ierr; 2578 Mat_IS *is = (Mat_IS*)A->data; 2579 2580 PetscFunctionBegin; 2581 if (is->A->rmap->mapping) { 2582 if (PetscDefined(USE_DEBUG)) { 2583 PetscInt ibs,bs; 2584 2585 ierr = ISLocalToGlobalMappingGetBlockSize(is->A->rmap->mapping,&ibs);CHKERRQ(ierr); 2586 ierr = MatGetBlockSize(is->A,&bs);CHKERRQ(ierr); 2587 if (ibs != bs) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Different block sizes! local mat %D, local l2g map %D",bs,ibs); 2588 } 2589 ierr = MatSetValuesBlockedLocal(is->A,m,rows,n,cols,values,addv);CHKERRQ(ierr); 2590 } else { 2591 ierr = MatSetValuesBlocked(is->A,m,rows,n,cols,values,addv);CHKERRQ(ierr); 2592 } 2593 PetscFunctionReturn(0); 2594 } 2595 2596 static PetscErrorCode MatISZeroRowsColumnsLocal_Private(Mat A,PetscInt n,const PetscInt rows[],PetscScalar diag,PetscBool columns) 2597 { 2598 Mat_IS *is = (Mat_IS*)A->data; 2599 PetscErrorCode ierr; 2600 2601 PetscFunctionBegin; 2602 if (!n) { 2603 is->pure_neumann = PETSC_TRUE; 2604 } else { 2605 PetscInt i; 2606 is->pure_neumann = PETSC_FALSE; 2607 2608 if (columns) { 2609 ierr = MatZeroRowsColumns(is->A,n,rows,diag,NULL,NULL);CHKERRQ(ierr); 2610 } else { 2611 ierr = MatZeroRows(is->A,n,rows,diag,NULL,NULL);CHKERRQ(ierr); 2612 } 2613 if (diag != 0.) { 2614 const PetscScalar *array; 2615 ierr = VecGetArrayRead(is->counter,&array);CHKERRQ(ierr); 2616 for (i=0; i<n; i++) { 2617 ierr = MatSetValue(is->A,rows[i],rows[i],diag/(array[rows[i]]),INSERT_VALUES);CHKERRQ(ierr); 2618 } 2619 ierr = VecRestoreArrayRead(is->counter,&array);CHKERRQ(ierr); 2620 } 2621 ierr = MatAssemblyBegin(is->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2622 ierr = MatAssemblyEnd(is->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2623 } 2624 PetscFunctionReturn(0); 2625 } 2626 2627 static PetscErrorCode MatZeroRowsColumns_Private_IS(Mat A,PetscInt n,const PetscInt rows[],PetscScalar diag,Vec x,Vec b,PetscBool columns) 2628 { 2629 Mat_IS *matis = (Mat_IS*)A->data; 2630 PetscInt nr,nl,len,i; 2631 PetscInt *lrows; 2632 PetscErrorCode ierr; 2633 2634 PetscFunctionBegin; 2635 if (PetscUnlikelyDebug(columns || diag != 0. || (x && b))) { 2636 PetscBool cong; 2637 2638 ierr = PetscLayoutCompare(A->rmap,A->cmap,&cong);CHKERRQ(ierr); 2639 cong = (PetscBool)(cong && matis->sf == matis->csf); 2640 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 and the l2g maps are the same for MATIS"); 2641 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 and the l2g maps are the same for MATIS"); 2642 if (!cong && x && b) SETERRQ(PetscObjectComm((PetscObject)A),PETSC_ERR_SUP,"A->rmap and A->cmap need to be congruent, and the l2g maps be the same"); 2643 } 2644 /* get locally owned rows */ 2645 ierr = PetscLayoutMapLocal(A->rmap,n,rows,&len,&lrows,NULL);CHKERRQ(ierr); 2646 /* fix right hand side if needed */ 2647 if (x && b) { 2648 const PetscScalar *xx; 2649 PetscScalar *bb; 2650 2651 ierr = VecGetArrayRead(x, &xx);CHKERRQ(ierr); 2652 ierr = VecGetArray(b, &bb);CHKERRQ(ierr); 2653 for (i=0;i<len;++i) bb[lrows[i]] = diag*xx[lrows[i]]; 2654 ierr = VecRestoreArrayRead(x, &xx);CHKERRQ(ierr); 2655 ierr = VecRestoreArray(b, &bb);CHKERRQ(ierr); 2656 } 2657 /* get rows associated to the local matrices */ 2658 ierr = MatGetSize(matis->A,&nl,NULL);CHKERRQ(ierr); 2659 ierr = PetscArrayzero(matis->sf_leafdata,nl);CHKERRQ(ierr); 2660 ierr = PetscArrayzero(matis->sf_rootdata,A->rmap->n);CHKERRQ(ierr); 2661 for (i=0;i<len;i++) matis->sf_rootdata[lrows[i]] = 1; 2662 ierr = PetscFree(lrows);CHKERRQ(ierr); 2663 ierr = PetscSFBcastBegin(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata,MPI_REPLACE);CHKERRQ(ierr); 2664 ierr = PetscSFBcastEnd(matis->sf,MPIU_INT,matis->sf_rootdata,matis->sf_leafdata,MPI_REPLACE);CHKERRQ(ierr); 2665 ierr = PetscMalloc1(nl,&lrows);CHKERRQ(ierr); 2666 for (i=0,nr=0;i<nl;i++) if (matis->sf_leafdata[i]) lrows[nr++] = i; 2667 ierr = MatISZeroRowsColumnsLocal_Private(A,nr,lrows,diag,columns);CHKERRQ(ierr); 2668 ierr = PetscFree(lrows);CHKERRQ(ierr); 2669 PetscFunctionReturn(0); 2670 } 2671 2672 static PetscErrorCode MatZeroRows_IS(Mat A,PetscInt n,const PetscInt rows[],PetscScalar diag,Vec x,Vec b) 2673 { 2674 PetscErrorCode ierr; 2675 2676 PetscFunctionBegin; 2677 ierr = MatZeroRowsColumns_Private_IS(A,n,rows,diag,x,b,PETSC_FALSE);CHKERRQ(ierr); 2678 PetscFunctionReturn(0); 2679 } 2680 2681 static PetscErrorCode MatZeroRowsColumns_IS(Mat A,PetscInt n,const PetscInt rows[],PetscScalar diag,Vec x,Vec b) 2682 { 2683 PetscErrorCode ierr; 2684 2685 PetscFunctionBegin; 2686 ierr = MatZeroRowsColumns_Private_IS(A,n,rows,diag,x,b,PETSC_TRUE);CHKERRQ(ierr); 2687 PetscFunctionReturn(0); 2688 } 2689 2690 static PetscErrorCode MatAssemblyBegin_IS(Mat A,MatAssemblyType type) 2691 { 2692 Mat_IS *is = (Mat_IS*)A->data; 2693 PetscErrorCode ierr; 2694 2695 PetscFunctionBegin; 2696 ierr = MatAssemblyBegin(is->A,type);CHKERRQ(ierr); 2697 PetscFunctionReturn(0); 2698 } 2699 2700 static PetscErrorCode MatAssemblyEnd_IS(Mat A,MatAssemblyType type) 2701 { 2702 Mat_IS *is = (Mat_IS*)A->data; 2703 PetscErrorCode ierr; 2704 2705 PetscFunctionBegin; 2706 ierr = MatAssemblyEnd(is->A,type);CHKERRQ(ierr); 2707 /* fix for local empty rows/cols */ 2708 if (is->locempty && type == MAT_FINAL_ASSEMBLY) { 2709 Mat newlA; 2710 ISLocalToGlobalMapping rl2g,cl2g; 2711 IS nzr,nzc; 2712 PetscInt nr,nc,nnzr,nnzc; 2713 PetscBool lnewl2g,newl2g; 2714 2715 ierr = MatGetSize(is->A,&nr,&nc);CHKERRQ(ierr); 2716 ierr = MatFindNonzeroRowsOrCols_Basic(is->A,PETSC_FALSE,PETSC_SMALL,&nzr);CHKERRQ(ierr); 2717 if (!nzr) { 2718 ierr = ISCreateStride(PetscObjectComm((PetscObject)is->A),nr,0,1,&nzr);CHKERRQ(ierr); 2719 } 2720 ierr = MatFindNonzeroRowsOrCols_Basic(is->A,PETSC_TRUE,PETSC_SMALL,&nzc);CHKERRQ(ierr); 2721 if (!nzc) { 2722 ierr = ISCreateStride(PetscObjectComm((PetscObject)is->A),nc,0,1,&nzc);CHKERRQ(ierr); 2723 } 2724 ierr = ISGetSize(nzr,&nnzr);CHKERRQ(ierr); 2725 ierr = ISGetSize(nzc,&nnzc);CHKERRQ(ierr); 2726 if (nnzr != nr || nnzc != nc) { 2727 ISLocalToGlobalMapping l2g; 2728 IS is1,is2; 2729 2730 /* need new global l2g map */ 2731 lnewl2g = PETSC_TRUE; 2732 ierr = MPI_Allreduce(&lnewl2g,&newl2g,1,MPIU_BOOL,MPI_LOR,PetscObjectComm((PetscObject)A));CHKERRMPI(ierr); 2733 2734 /* extract valid submatrix */ 2735 ierr = MatCreateSubMatrix(is->A,nzr,nzc,MAT_INITIAL_MATRIX,&newlA);CHKERRQ(ierr); 2736 2737 /* attach local l2g maps for successive calls of MatSetValues on the local matrix */ 2738 ierr = ISLocalToGlobalMappingCreateIS(nzr,&l2g);CHKERRQ(ierr); 2739 ierr = ISCreateStride(PetscObjectComm((PetscObject)is->A),nr,0,1,&is1);CHKERRQ(ierr); 2740 ierr = ISGlobalToLocalMappingApplyIS(l2g,IS_GTOLM_MASK,is1,&is2);CHKERRQ(ierr); 2741 ierr = ISLocalToGlobalMappingDestroy(&l2g);CHKERRQ(ierr); 2742 if (is->A->rmap->mapping) { /* the matrix has a local-to-local map already attached (probably DMDA generated) */ 2743 const PetscInt *idxs1,*idxs2; 2744 PetscInt j,i,nl,*tidxs; 2745 2746 ierr = ISLocalToGlobalMappingGetSize(is->A->rmap->mapping,&nl);CHKERRQ(ierr); 2747 ierr = ISLocalToGlobalMappingGetIndices(is->A->rmap->mapping,&idxs1);CHKERRQ(ierr); 2748 ierr = PetscMalloc1(nl,&tidxs);CHKERRQ(ierr); 2749 ierr = ISGetIndices(is2,&idxs2);CHKERRQ(ierr); 2750 for (i=0,j=0;i<nl;i++) tidxs[i] = idxs1[i] < 0 ? -1 : idxs2[j++]; 2751 if (j != nr) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Unexpected count %D != %D",j,nr); 2752 ierr = ISLocalToGlobalMappingRestoreIndices(is->A->rmap->mapping,&idxs1);CHKERRQ(ierr); 2753 ierr = ISRestoreIndices(is2,&idxs2);CHKERRQ(ierr); 2754 ierr = ISDestroy(&is2);CHKERRQ(ierr); 2755 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)is->A->rmap->mapping),nl,tidxs,PETSC_OWN_POINTER,&is2);CHKERRQ(ierr); 2756 } 2757 ierr = ISLocalToGlobalMappingCreateIS(is2,&rl2g);CHKERRQ(ierr); 2758 ierr = ISDestroy(&is1);CHKERRQ(ierr); 2759 ierr = ISDestroy(&is2);CHKERRQ(ierr); 2760 2761 ierr = ISLocalToGlobalMappingCreateIS(nzc,&l2g);CHKERRQ(ierr); 2762 ierr = ISCreateStride(PetscObjectComm((PetscObject)is->A),nc,0,1,&is1);CHKERRQ(ierr); 2763 ierr = ISGlobalToLocalMappingApplyIS(l2g,IS_GTOLM_MASK,is1,&is2);CHKERRQ(ierr); 2764 ierr = ISLocalToGlobalMappingDestroy(&l2g);CHKERRQ(ierr); 2765 if (is->A->cmap->mapping) { /* the matrix has a local-to-local map already attached (probably DMDA generated) */ 2766 const PetscInt *idxs1,*idxs2; 2767 PetscInt j,i,nl,*tidxs; 2768 2769 ierr = ISLocalToGlobalMappingGetSize(is->A->cmap->mapping,&nl);CHKERRQ(ierr); 2770 ierr = ISLocalToGlobalMappingGetIndices(is->A->cmap->mapping,&idxs1);CHKERRQ(ierr); 2771 ierr = PetscMalloc1(nl,&tidxs);CHKERRQ(ierr); 2772 ierr = ISGetIndices(is2,&idxs2);CHKERRQ(ierr); 2773 for (i=0,j=0;i<nl;i++) tidxs[i] = idxs1[i] < 0 ? -1 : idxs2[j++]; 2774 if (j != nc) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Unexpected count %D != %D",j,nc); 2775 ierr = ISLocalToGlobalMappingRestoreIndices(is->A->cmap->mapping,&idxs1);CHKERRQ(ierr); 2776 ierr = ISRestoreIndices(is2,&idxs2);CHKERRQ(ierr); 2777 ierr = ISDestroy(&is2);CHKERRQ(ierr); 2778 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)is->A->cmap->mapping),nl,tidxs,PETSC_OWN_POINTER,&is2);CHKERRQ(ierr); 2779 } 2780 ierr = ISLocalToGlobalMappingCreateIS(is2,&cl2g);CHKERRQ(ierr); 2781 ierr = ISDestroy(&is1);CHKERRQ(ierr); 2782 ierr = ISDestroy(&is2);CHKERRQ(ierr); 2783 2784 ierr = MatSetLocalToGlobalMapping(newlA,rl2g,cl2g);CHKERRQ(ierr); 2785 2786 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 2787 ierr = ISLocalToGlobalMappingDestroy(&cl2g);CHKERRQ(ierr); 2788 } else { /* local matrix fully populated */ 2789 lnewl2g = PETSC_FALSE; 2790 ierr = MPI_Allreduce(&lnewl2g,&newl2g,1,MPIU_BOOL,MPI_LOR,PetscObjectComm((PetscObject)A));CHKERRMPI(ierr); 2791 ierr = PetscObjectReference((PetscObject)is->A);CHKERRQ(ierr); 2792 newlA = is->A; 2793 } 2794 /* attach new global l2g map if needed */ 2795 if (newl2g) { 2796 IS gnzr,gnzc; 2797 const PetscInt *grid,*gcid; 2798 2799 ierr = ISLocalToGlobalMappingApplyIS(A->rmap->mapping,nzr,&gnzr);CHKERRQ(ierr); 2800 ierr = ISLocalToGlobalMappingApplyIS(A->cmap->mapping,nzc,&gnzc);CHKERRQ(ierr); 2801 ierr = ISGetIndices(gnzr,&grid);CHKERRQ(ierr); 2802 ierr = ISGetIndices(gnzc,&gcid);CHKERRQ(ierr); 2803 ierr = ISLocalToGlobalMappingCreate(PetscObjectComm((PetscObject)A),1,nnzr,grid,PETSC_COPY_VALUES,&rl2g);CHKERRQ(ierr); 2804 ierr = ISLocalToGlobalMappingCreate(PetscObjectComm((PetscObject)A),1,nnzc,gcid,PETSC_COPY_VALUES,&cl2g);CHKERRQ(ierr); 2805 ierr = ISRestoreIndices(gnzr,&grid);CHKERRQ(ierr); 2806 ierr = ISRestoreIndices(gnzc,&gcid);CHKERRQ(ierr); 2807 ierr = ISDestroy(&gnzr);CHKERRQ(ierr); 2808 ierr = ISDestroy(&gnzc);CHKERRQ(ierr); 2809 ierr = MatSetLocalToGlobalMapping(A,rl2g,cl2g);CHKERRQ(ierr); 2810 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 2811 ierr = ISLocalToGlobalMappingDestroy(&cl2g);CHKERRQ(ierr); 2812 } 2813 ierr = MatISSetLocalMat(A,newlA);CHKERRQ(ierr); 2814 ierr = MatDestroy(&newlA);CHKERRQ(ierr); 2815 ierr = ISDestroy(&nzr);CHKERRQ(ierr); 2816 ierr = ISDestroy(&nzc);CHKERRQ(ierr); 2817 is->locempty = PETSC_FALSE; 2818 } 2819 PetscFunctionReturn(0); 2820 } 2821 2822 static PetscErrorCode MatISGetLocalMat_IS(Mat mat,Mat *local) 2823 { 2824 Mat_IS *is = (Mat_IS*)mat->data; 2825 2826 PetscFunctionBegin; 2827 *local = is->A; 2828 PetscFunctionReturn(0); 2829 } 2830 2831 static PetscErrorCode MatISRestoreLocalMat_IS(Mat mat,Mat *local) 2832 { 2833 PetscFunctionBegin; 2834 *local = NULL; 2835 PetscFunctionReturn(0); 2836 } 2837 2838 /*@ 2839 MatISGetLocalMat - Gets the local matrix stored inside a MATIS matrix. 2840 2841 Input Parameter: 2842 . mat - the matrix 2843 2844 Output Parameter: 2845 . local - the local matrix 2846 2847 Level: advanced 2848 2849 Notes: 2850 This can be called if you have precomputed the nonzero structure of the 2851 matrix and want to provide it to the inner matrix object to improve the performance 2852 of the MatSetValues() operation. 2853 2854 Call MatISRestoreLocalMat() when finished with the local matrix. 2855 2856 .seealso: MATIS 2857 @*/ 2858 PetscErrorCode MatISGetLocalMat(Mat mat,Mat *local) 2859 { 2860 PetscErrorCode ierr; 2861 2862 PetscFunctionBegin; 2863 PetscValidHeaderSpecific(mat,MAT_CLASSID,1); 2864 PetscValidPointer(local,2); 2865 ierr = PetscUseMethod(mat,"MatISGetLocalMat_C",(Mat,Mat*),(mat,local));CHKERRQ(ierr); 2866 PetscFunctionReturn(0); 2867 } 2868 2869 /*@ 2870 MatISRestoreLocalMat - Restores the local matrix obtained with MatISGetLocalMat() 2871 2872 Input Parameter: 2873 . mat - the matrix 2874 2875 Output Parameter: 2876 . local - the local matrix 2877 2878 Level: advanced 2879 2880 .seealso: MATIS 2881 @*/ 2882 PetscErrorCode MatISRestoreLocalMat(Mat mat,Mat *local) 2883 { 2884 PetscErrorCode ierr; 2885 2886 PetscFunctionBegin; 2887 PetscValidHeaderSpecific(mat,MAT_CLASSID,1); 2888 PetscValidPointer(local,2); 2889 ierr = PetscUseMethod(mat,"MatISRestoreLocalMat_C",(Mat,Mat*),(mat,local));CHKERRQ(ierr); 2890 PetscFunctionReturn(0); 2891 } 2892 2893 static PetscErrorCode MatISSetLocalMatType_IS(Mat mat,MatType mtype) 2894 { 2895 Mat_IS *is = (Mat_IS*)mat->data; 2896 PetscErrorCode ierr; 2897 2898 PetscFunctionBegin; 2899 if (is->A) { 2900 ierr = MatSetType(is->A,mtype);CHKERRQ(ierr); 2901 } 2902 ierr = PetscFree(is->lmattype);CHKERRQ(ierr); 2903 ierr = PetscStrallocpy(mtype,&is->lmattype);CHKERRQ(ierr); 2904 PetscFunctionReturn(0); 2905 } 2906 2907 /*@ 2908 MatISSetLocalMatType - Specifies the type of local matrix 2909 2910 Input Parameter: 2911 + mat - the matrix 2912 - mtype - the local matrix type 2913 2914 Output Parameter: 2915 2916 Level: advanced 2917 2918 .seealso: MATIS, MatSetType(), MatType 2919 @*/ 2920 PetscErrorCode MatISSetLocalMatType(Mat mat,MatType mtype) 2921 { 2922 PetscErrorCode ierr; 2923 2924 PetscFunctionBegin; 2925 PetscValidHeaderSpecific(mat,MAT_CLASSID,1); 2926 ierr = PetscUseMethod(mat,"MatISSetLocalMatType_C",(Mat,MatType),(mat,mtype));CHKERRQ(ierr); 2927 PetscFunctionReturn(0); 2928 } 2929 2930 static PetscErrorCode MatISSetLocalMat_IS(Mat mat,Mat local) 2931 { 2932 Mat_IS *is = (Mat_IS*)mat->data; 2933 PetscInt nrows,ncols,orows,ocols; 2934 PetscErrorCode ierr; 2935 MatType mtype,otype; 2936 PetscBool sametype = PETSC_TRUE; 2937 2938 PetscFunctionBegin; 2939 if (is->A) { 2940 ierr = MatGetSize(is->A,&orows,&ocols);CHKERRQ(ierr); 2941 ierr = MatGetSize(local,&nrows,&ncols);CHKERRQ(ierr); 2942 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); 2943 ierr = MatGetType(local,&mtype);CHKERRQ(ierr); 2944 ierr = MatGetType(is->A,&otype);CHKERRQ(ierr); 2945 ierr = PetscStrcmp(mtype,otype,&sametype);CHKERRQ(ierr); 2946 } 2947 ierr = PetscObjectReference((PetscObject)local);CHKERRQ(ierr); 2948 ierr = MatDestroy(&is->A);CHKERRQ(ierr); 2949 is->A = local; 2950 ierr = MatGetType(is->A,&mtype);CHKERRQ(ierr); 2951 ierr = MatISSetLocalMatType(mat,mtype);CHKERRQ(ierr); 2952 if (!sametype && !is->islocalref) { 2953 ierr = MatISSetUpScatters_Private(mat);CHKERRQ(ierr); 2954 } 2955 PetscFunctionReturn(0); 2956 } 2957 2958 /*@ 2959 MatISSetLocalMat - Replace the local matrix stored inside a MATIS object. 2960 2961 Collective on Mat 2962 2963 Input Parameter: 2964 + mat - the matrix 2965 - local - the local matrix 2966 2967 Output Parameter: 2968 2969 Level: advanced 2970 2971 Notes: 2972 This can be called if you have precomputed the local matrix and 2973 want to provide it to the matrix object MATIS. 2974 2975 .seealso: MATIS 2976 @*/ 2977 PetscErrorCode MatISSetLocalMat(Mat mat,Mat local) 2978 { 2979 PetscErrorCode ierr; 2980 2981 PetscFunctionBegin; 2982 PetscValidHeaderSpecific(mat,MAT_CLASSID,1); 2983 PetscValidHeaderSpecific(local,MAT_CLASSID,2); 2984 ierr = PetscUseMethod(mat,"MatISSetLocalMat_C",(Mat,Mat),(mat,local));CHKERRQ(ierr); 2985 PetscFunctionReturn(0); 2986 } 2987 2988 static PetscErrorCode MatZeroEntries_IS(Mat A) 2989 { 2990 Mat_IS *a = (Mat_IS*)A->data; 2991 PetscErrorCode ierr; 2992 2993 PetscFunctionBegin; 2994 ierr = MatZeroEntries(a->A);CHKERRQ(ierr); 2995 PetscFunctionReturn(0); 2996 } 2997 2998 static PetscErrorCode MatScale_IS(Mat A,PetscScalar a) 2999 { 3000 Mat_IS *is = (Mat_IS*)A->data; 3001 PetscErrorCode ierr; 3002 3003 PetscFunctionBegin; 3004 ierr = MatScale(is->A,a);CHKERRQ(ierr); 3005 PetscFunctionReturn(0); 3006 } 3007 3008 static PetscErrorCode MatGetDiagonal_IS(Mat A, Vec v) 3009 { 3010 Mat_IS *is = (Mat_IS*)A->data; 3011 PetscErrorCode ierr; 3012 3013 PetscFunctionBegin; 3014 /* get diagonal of the local matrix */ 3015 ierr = MatGetDiagonal(is->A,is->y);CHKERRQ(ierr); 3016 3017 /* scatter diagonal back into global vector */ 3018 ierr = VecSet(v,0);CHKERRQ(ierr); 3019 ierr = VecScatterBegin(is->rctx,is->y,v,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 3020 ierr = VecScatterEnd(is->rctx,is->y,v,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 3021 PetscFunctionReturn(0); 3022 } 3023 3024 static PetscErrorCode MatSetOption_IS(Mat A,MatOption op,PetscBool flg) 3025 { 3026 Mat_IS *a = (Mat_IS*)A->data; 3027 PetscErrorCode ierr; 3028 3029 PetscFunctionBegin; 3030 ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 3031 PetscFunctionReturn(0); 3032 } 3033 3034 static PetscErrorCode MatAXPY_IS(Mat Y,PetscScalar a,Mat X,MatStructure str) 3035 { 3036 Mat_IS *y = (Mat_IS*)Y->data; 3037 Mat_IS *x; 3038 PetscErrorCode ierr; 3039 3040 PetscFunctionBegin; 3041 if (PetscDefined(USE_DEBUG)) { 3042 PetscBool ismatis; 3043 ierr = PetscObjectTypeCompare((PetscObject)X,MATIS,&ismatis);CHKERRQ(ierr); 3044 if (!ismatis) SETERRQ(PetscObjectComm((PetscObject)Y),PETSC_ERR_SUP,"Cannot call MatAXPY(Y,a,X,str) with X not of type MATIS"); 3045 } 3046 x = (Mat_IS*)X->data; 3047 ierr = MatAXPY(y->A,a,x->A,str);CHKERRQ(ierr); 3048 PetscFunctionReturn(0); 3049 } 3050 3051 static PetscErrorCode MatGetLocalSubMatrix_IS(Mat A,IS row,IS col,Mat *submat) 3052 { 3053 Mat lA; 3054 Mat_IS *matis; 3055 ISLocalToGlobalMapping rl2g,cl2g; 3056 IS is; 3057 const PetscInt *rg,*rl; 3058 PetscInt nrg; 3059 PetscInt N,M,nrl,i,*idxs; 3060 PetscErrorCode ierr; 3061 3062 PetscFunctionBegin; 3063 ierr = ISLocalToGlobalMappingGetIndices(A->rmap->mapping,&rg);CHKERRQ(ierr); 3064 ierr = ISGetLocalSize(row,&nrl);CHKERRQ(ierr); 3065 ierr = ISGetIndices(row,&rl);CHKERRQ(ierr); 3066 ierr = ISLocalToGlobalMappingGetSize(A->rmap->mapping,&nrg);CHKERRQ(ierr); 3067 if (PetscDefined(USE_DEBUG)) { 3068 for (i=0; i<nrl; i++) if (rl[i]>=nrg) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Local row index %D -> %D greater then maximum possible %D",i,rl[i],nrg); 3069 } 3070 ierr = PetscMalloc1(nrg,&idxs);CHKERRQ(ierr); 3071 /* map from [0,nrl) to row */ 3072 for (i=0;i<nrl;i++) idxs[i] = rl[i]; 3073 for (i=nrl;i<nrg;i++) idxs[i] = -1; 3074 ierr = ISRestoreIndices(row,&rl);CHKERRQ(ierr); 3075 ierr = ISLocalToGlobalMappingRestoreIndices(A->rmap->mapping,&rg);CHKERRQ(ierr); 3076 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)A),nrg,idxs,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 3077 ierr = ISLocalToGlobalMappingCreateIS(is,&rl2g);CHKERRQ(ierr); 3078 ierr = ISDestroy(&is);CHKERRQ(ierr); 3079 /* compute new l2g map for columns */ 3080 if (col != row || A->rmap->mapping != A->cmap->mapping) { 3081 const PetscInt *cg,*cl; 3082 PetscInt ncg; 3083 PetscInt ncl; 3084 3085 ierr = ISLocalToGlobalMappingGetIndices(A->cmap->mapping,&cg);CHKERRQ(ierr); 3086 ierr = ISGetLocalSize(col,&ncl);CHKERRQ(ierr); 3087 ierr = ISGetIndices(col,&cl);CHKERRQ(ierr); 3088 ierr = ISLocalToGlobalMappingGetSize(A->cmap->mapping,&ncg);CHKERRQ(ierr); 3089 if (PetscDefined(USE_DEBUG)) { 3090 for (i=0; i<ncl; i++) if (cl[i]>=ncg) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Local column index %D -> %D greater then maximum possible %D",i,cl[i],ncg); 3091 } 3092 ierr = PetscMalloc1(ncg,&idxs);CHKERRQ(ierr); 3093 /* map from [0,ncl) to col */ 3094 for (i=0;i<ncl;i++) idxs[i] = cl[i]; 3095 for (i=ncl;i<ncg;i++) idxs[i] = -1; 3096 ierr = ISRestoreIndices(col,&cl);CHKERRQ(ierr); 3097 ierr = ISLocalToGlobalMappingRestoreIndices(A->cmap->mapping,&cg);CHKERRQ(ierr); 3098 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)A),ncg,idxs,PETSC_OWN_POINTER,&is);CHKERRQ(ierr); 3099 ierr = ISLocalToGlobalMappingCreateIS(is,&cl2g);CHKERRQ(ierr); 3100 ierr = ISDestroy(&is);CHKERRQ(ierr); 3101 } else { 3102 ierr = PetscObjectReference((PetscObject)rl2g);CHKERRQ(ierr); 3103 cl2g = rl2g; 3104 } 3105 /* create the MATIS submatrix */ 3106 ierr = MatGetSize(A,&M,&N);CHKERRQ(ierr); 3107 ierr = MatCreate(PetscObjectComm((PetscObject)A),submat);CHKERRQ(ierr); 3108 ierr = MatSetSizes(*submat,PETSC_DECIDE,PETSC_DECIDE,M,N);CHKERRQ(ierr); 3109 ierr = MatSetType(*submat,MATIS);CHKERRQ(ierr); 3110 matis = (Mat_IS*)((*submat)->data); 3111 matis->islocalref = PETSC_TRUE; 3112 ierr = MatSetLocalToGlobalMapping(*submat,rl2g,cl2g);CHKERRQ(ierr); 3113 ierr = MatISGetLocalMat(A,&lA);CHKERRQ(ierr); 3114 ierr = MatISSetLocalMat(*submat,lA);CHKERRQ(ierr); 3115 ierr = MatSetUp(*submat);CHKERRQ(ierr); 3116 ierr = MatAssemblyBegin(*submat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3117 ierr = MatAssemblyEnd(*submat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3118 ierr = ISLocalToGlobalMappingDestroy(&rl2g);CHKERRQ(ierr); 3119 ierr = ISLocalToGlobalMappingDestroy(&cl2g);CHKERRQ(ierr); 3120 /* remove unsupported ops */ 3121 ierr = PetscMemzero((*submat)->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 3122 (*submat)->ops->destroy = MatDestroy_IS; 3123 (*submat)->ops->setvalueslocal = MatSetValuesLocal_SubMat_IS; 3124 (*submat)->ops->setvaluesblockedlocal = MatSetValuesBlockedLocal_SubMat_IS; 3125 (*submat)->ops->assemblybegin = MatAssemblyBegin_IS; 3126 (*submat)->ops->assemblyend = MatAssemblyEnd_IS; 3127 PetscFunctionReturn(0); 3128 } 3129 3130 static PetscErrorCode MatSetFromOptions_IS(PetscOptionItems *PetscOptionsObject, Mat A) 3131 { 3132 Mat_IS *a = (Mat_IS*)A->data; 3133 char type[256]; 3134 PetscBool flg; 3135 PetscErrorCode ierr; 3136 3137 PetscFunctionBegin; 3138 ierr = PetscOptionsHead(PetscOptionsObject,"MATIS options");CHKERRQ(ierr); 3139 ierr = PetscOptionsBool("-matis_fixempty","Fix local matrices in case of empty local rows/columns","MatISFixLocalEmpty",a->locempty,&a->locempty,NULL);CHKERRQ(ierr); 3140 ierr = PetscOptionsBool("-matis_storel2l","Store local-to-local matrices generated from PtAP operations","MatISStoreL2L",a->storel2l,&a->storel2l,NULL);CHKERRQ(ierr); 3141 ierr = PetscOptionsFList("-matis_localmat_type","Matrix type","MatISSetLocalMatType",MatList,a->lmattype,type,256,&flg);CHKERRQ(ierr); 3142 if (flg) { 3143 ierr = MatISSetLocalMatType(A,type);CHKERRQ(ierr); 3144 } 3145 if (a->A) { 3146 ierr = MatSetFromOptions(a->A);CHKERRQ(ierr); 3147 } 3148 ierr = PetscOptionsTail();CHKERRQ(ierr); 3149 PetscFunctionReturn(0); 3150 } 3151 3152 /*@ 3153 MatCreateIS - Creates a "process" unassembled matrix, assembled on each 3154 process but not across processes. 3155 3156 Input Parameters: 3157 + comm - MPI communicator that will share the matrix 3158 . bs - block size of the matrix 3159 . m,n,M,N - local and/or global sizes of the left and right vector used in matrix vector products 3160 . rmap - local to global map for rows 3161 - cmap - local to global map for cols 3162 3163 Output Parameter: 3164 . A - the resulting matrix 3165 3166 Level: advanced 3167 3168 Notes: 3169 See MATIS for more details. 3170 m and n are NOT related to the size of the map; they represent the size of the local parts of the vectors 3171 used in MatMult operations. The sizes of rmap and cmap define the size of the local matrices. 3172 If either rmap or cmap are NULL, then the matrix is assumed to be square. 3173 3174 .seealso: MATIS, MatSetLocalToGlobalMapping() 3175 @*/ 3176 PetscErrorCode MatCreateIS(MPI_Comm comm,PetscInt bs,PetscInt m,PetscInt n,PetscInt M,PetscInt N,ISLocalToGlobalMapping rmap,ISLocalToGlobalMapping cmap,Mat *A) 3177 { 3178 PetscErrorCode ierr; 3179 3180 PetscFunctionBegin; 3181 if (!rmap && !cmap) SETERRQ(comm,PETSC_ERR_USER,"You need to provide at least one of the mappings"); 3182 ierr = MatCreate(comm,A);CHKERRQ(ierr); 3183 ierr = MatSetSizes(*A,m,n,M,N);CHKERRQ(ierr); 3184 if (bs > 0) { 3185 ierr = MatSetBlockSize(*A,bs);CHKERRQ(ierr); 3186 } 3187 ierr = MatSetType(*A,MATIS);CHKERRQ(ierr); 3188 if (rmap && cmap) { 3189 ierr = MatSetLocalToGlobalMapping(*A,rmap,cmap);CHKERRQ(ierr); 3190 } else if (!rmap) { 3191 ierr = MatSetLocalToGlobalMapping(*A,cmap,cmap);CHKERRQ(ierr); 3192 } else { 3193 ierr = MatSetLocalToGlobalMapping(*A,rmap,rmap);CHKERRQ(ierr); 3194 } 3195 PetscFunctionReturn(0); 3196 } 3197 3198 /*MC 3199 MATIS - MATIS = "is" - A matrix type to be used for using the non-overlapping domain decomposition methods (e.g. PCBDDC or KSPFETIDP). 3200 This stores the matrices in globally unassembled form. Each processor assembles only its local Neumann problem and the parallel matrix vector 3201 product is handled "implicitly". 3202 3203 Options Database Keys: 3204 + -mat_type is - sets the matrix type to "is" during a call to MatSetFromOptions() 3205 . -matis_fixempty - Fixes local matrices in case of empty local rows/columns. 3206 - -matis_storel2l - stores the local-to-local operators generated by the Galerkin process of MatPtAP(). 3207 3208 Notes: 3209 Options prefix for the inner matrix are given by -is_mat_xxx 3210 3211 You must call MatSetLocalToGlobalMapping() before using this matrix type. 3212 3213 You can do matrix preallocation on the local matrix after you obtain it with 3214 MatISGetLocalMat(); otherwise, you could use MatISSetPreallocation() 3215 3216 Level: advanced 3217 3218 .seealso: Mat, MatISGetLocalMat(), MatSetLocalToGlobalMapping(), MatISSetPreallocation(), MatCreateIS(), PCBDDC, KSPFETIDP 3219 3220 M*/ 3221 3222 PETSC_EXTERN PetscErrorCode MatCreate_IS(Mat A) 3223 { 3224 PetscErrorCode ierr; 3225 Mat_IS *b; 3226 3227 PetscFunctionBegin; 3228 ierr = PetscNewLog(A,&b);CHKERRQ(ierr); 3229 ierr = PetscStrallocpy(MATAIJ,&b->lmattype);CHKERRQ(ierr); 3230 A->data = (void*)b; 3231 3232 /* matrix ops */ 3233 ierr = PetscMemzero(A->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 3234 A->ops->mult = MatMult_IS; 3235 A->ops->multadd = MatMultAdd_IS; 3236 A->ops->multtranspose = MatMultTranspose_IS; 3237 A->ops->multtransposeadd = MatMultTransposeAdd_IS; 3238 A->ops->destroy = MatDestroy_IS; 3239 A->ops->setlocaltoglobalmapping = MatSetLocalToGlobalMapping_IS; 3240 A->ops->setvalues = MatSetValues_IS; 3241 A->ops->setvaluesblocked = MatSetValuesBlocked_IS; 3242 A->ops->setvalueslocal = MatSetValuesLocal_IS; 3243 A->ops->setvaluesblockedlocal = MatSetValuesBlockedLocal_IS; 3244 A->ops->zerorows = MatZeroRows_IS; 3245 A->ops->zerorowscolumns = MatZeroRowsColumns_IS; 3246 A->ops->assemblybegin = MatAssemblyBegin_IS; 3247 A->ops->assemblyend = MatAssemblyEnd_IS; 3248 A->ops->view = MatView_IS; 3249 A->ops->zeroentries = MatZeroEntries_IS; 3250 A->ops->scale = MatScale_IS; 3251 A->ops->getdiagonal = MatGetDiagonal_IS; 3252 A->ops->setoption = MatSetOption_IS; 3253 A->ops->ishermitian = MatIsHermitian_IS; 3254 A->ops->issymmetric = MatIsSymmetric_IS; 3255 A->ops->isstructurallysymmetric = MatIsStructurallySymmetric_IS; 3256 A->ops->duplicate = MatDuplicate_IS; 3257 A->ops->missingdiagonal = MatMissingDiagonal_IS; 3258 A->ops->copy = MatCopy_IS; 3259 A->ops->getlocalsubmatrix = MatGetLocalSubMatrix_IS; 3260 A->ops->createsubmatrix = MatCreateSubMatrix_IS; 3261 A->ops->axpy = MatAXPY_IS; 3262 A->ops->diagonalset = MatDiagonalSet_IS; 3263 A->ops->shift = MatShift_IS; 3264 A->ops->transpose = MatTranspose_IS; 3265 A->ops->getinfo = MatGetInfo_IS; 3266 A->ops->diagonalscale = MatDiagonalScale_IS; 3267 A->ops->setfromoptions = MatSetFromOptions_IS; 3268 3269 /* special MATIS functions */ 3270 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetLocalMatType_C",MatISSetLocalMatType_IS);CHKERRQ(ierr); 3271 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISGetLocalMat_C",MatISGetLocalMat_IS);CHKERRQ(ierr); 3272 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISRestoreLocalMat_C",MatISRestoreLocalMat_IS);CHKERRQ(ierr); 3273 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetLocalMat_C",MatISSetLocalMat_IS);CHKERRQ(ierr); 3274 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISGetMPIXAIJ_C",MatConvert_IS_XAIJ);CHKERRQ(ierr); 3275 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISSetPreallocation_C",MatISSetPreallocation_IS);CHKERRQ(ierr); 3276 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISStoreL2L_C",MatISStoreL2L_IS);CHKERRQ(ierr); 3277 ierr = PetscObjectComposeFunction((PetscObject)A,"MatISFixLocalEmpty_C",MatISFixLocalEmpty_IS);CHKERRQ(ierr); 3278 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_mpiaij_C",MatConvert_IS_XAIJ);CHKERRQ(ierr); 3279 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_mpibaij_C",MatConvert_IS_XAIJ);CHKERRQ(ierr); 3280 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_mpisbaij_C",MatConvert_IS_XAIJ);CHKERRQ(ierr); 3281 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_seqaij_C",MatConvert_IS_XAIJ);CHKERRQ(ierr); 3282 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_seqbaij_C",MatConvert_IS_XAIJ);CHKERRQ(ierr); 3283 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_seqsbaij_C",MatConvert_IS_XAIJ);CHKERRQ(ierr); 3284 ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_is_aij_C",MatConvert_IS_XAIJ);CHKERRQ(ierr); 3285 ierr = PetscObjectChangeTypeName((PetscObject)A,MATIS);CHKERRQ(ierr); 3286 PetscFunctionReturn(0); 3287 } 3288