1 #define PETSCMAT_DLL 2 3 #include "../src/mat/impls/aij/seq/aij.h" 4 #include "../src/inline/dot.h" 5 #include "petscbt.h" 6 #include "../src/mat/utils/freespace.h" 7 8 EXTERN_C_BEGIN 9 #undef __FUNCT__ 10 #define __FUNCT__ "MatOrdering_Flow_SeqAIJ" 11 /* 12 Computes an ordering to get most of the large numerical values in the lower triangular part of the matrix 13 */ 14 PetscErrorCode MatOrdering_Flow_SeqAIJ(Mat mat,const MatOrderingType type,IS *irow,IS *icol) 15 { 16 Mat_SeqAIJ *a = (Mat_SeqAIJ*)mat->data; 17 PetscErrorCode ierr; 18 PetscInt i,j,jj,k, kk,n = mat->rmap->n, current = 0, newcurrent = 0,*order; 19 const PetscInt *ai = a->i, *aj = a->j; 20 const PetscScalar *aa = a->a; 21 PetscTruth *done; 22 PetscReal best,past = 0,future; 23 24 PetscFunctionBegin; 25 /* pick initial row */ 26 best = -1; 27 for (i=0; i<n; i++) { 28 future = 0; 29 for (j=ai[i]; j<ai[i+1]; j++) { 30 if (aj[j] != i) future += PetscAbsScalar(aa[j]); else past = PetscAbsScalar(aa[j]); 31 } 32 if (!future) future = 1.e-10; /* if there is zero in the upper diagonal part want to rank this row high */ 33 if (past/future > best) { 34 best = past/future; 35 current = i; 36 } 37 } 38 39 ierr = PetscMalloc(n*sizeof(PetscTruth),&done);CHKERRQ(ierr); 40 ierr = PetscMalloc(n*sizeof(PetscInt),&order);CHKERRQ(ierr); 41 ierr = PetscMemzero(done,n*sizeof(PetscTruth));CHKERRQ(ierr); 42 order[0] = current; 43 for (i=0; i<n-1; i++) { 44 done[current] = PETSC_TRUE; 45 best = -1; 46 /* loop over all neighbors of current pivot */ 47 for (j=ai[current]; j<ai[current+1]; j++) { 48 jj = aj[j]; 49 if (done[jj]) continue; 50 /* loop over columns of potential next row computing weights for below and above diagonal */ 51 past = future = 0.0; 52 for (k=ai[jj]; k<ai[jj+1]; k++) { 53 kk = aj[k]; 54 if (done[kk]) past += PetscAbsScalar(aa[k]); 55 else if (kk != jj) future += PetscAbsScalar(aa[k]); 56 } 57 if (!future) future = 1.e-10; /* if there is zero in the upper diagonal part want to rank this row high */ 58 if (past/future > best) { 59 best = past/future; 60 newcurrent = jj; 61 } 62 } 63 if (best == -1) { /* no neighbors to select from so select best of all that remain */ 64 best = -1; 65 for (k=0; k<n; k++) { 66 if (done[k]) continue; 67 future = 0; 68 past = 0; 69 for (j=ai[k]; j<ai[k+1]; j++) { 70 kk = aj[j]; 71 if (done[kk]) past += PetscAbsScalar(aa[j]); 72 else if (kk != k) future += PetscAbsScalar(aa[j]); 73 } 74 if (!future) future = 1.e-10; /* if there is zero in the upper diagonal part want to rank this row high */ 75 if (past/future > best) { 76 best = past/future; 77 newcurrent = k; 78 } 79 } 80 } 81 if (current == newcurrent) SETERRQ(PETSC_ERR_PLIB,"newcurrent cannot be current"); 82 current = newcurrent; 83 order[i+1] = current; 84 } 85 ierr = ISCreateGeneral(PETSC_COMM_SELF,n,order,irow);CHKERRQ(ierr); 86 *icol = *irow; 87 ierr = PetscObjectReference((PetscObject)*irow);CHKERRQ(ierr); 88 ierr = PetscFree(done);CHKERRQ(ierr); 89 ierr = PetscFree(order);CHKERRQ(ierr); 90 PetscFunctionReturn(0); 91 } 92 EXTERN_C_END 93 94 EXTERN_C_BEGIN 95 #undef __FUNCT__ 96 #define __FUNCT__ "MatGetFactorAvailable_seqaij_petsc" 97 PetscErrorCode MatGetFactorAvailable_seqaij_petsc(Mat A,MatFactorType ftype,PetscTruth *flg) 98 { 99 PetscFunctionBegin; 100 *flg = PETSC_TRUE; 101 PetscFunctionReturn(0); 102 } 103 EXTERN_C_END 104 105 EXTERN_C_BEGIN 106 #undef __FUNCT__ 107 #define __FUNCT__ "MatGetFactor_seqaij_petsc" 108 PetscErrorCode MatGetFactor_seqaij_petsc(Mat A,MatFactorType ftype,Mat *B) 109 { 110 PetscInt n = A->rmap->n; 111 PetscErrorCode ierr; 112 113 PetscFunctionBegin; 114 ierr = MatCreate(((PetscObject)A)->comm,B);CHKERRQ(ierr); 115 ierr = MatSetSizes(*B,n,n,n,n);CHKERRQ(ierr); 116 if (ftype == MAT_FACTOR_LU || ftype == MAT_FACTOR_ILU || ftype == MAT_FACTOR_ILUDT){ 117 ierr = MatSetType(*B,MATSEQAIJ);CHKERRQ(ierr); 118 (*B)->ops->ilufactorsymbolic = MatILUFactorSymbolic_SeqAIJ; 119 (*B)->ops->lufactorsymbolic = MatLUFactorSymbolic_SeqAIJ; 120 (*B)->ops->iludtfactor = MatILUDTFactor_SeqAIJ; 121 } else if (ftype == MAT_FACTOR_CHOLESKY || ftype == MAT_FACTOR_ICC) { 122 ierr = MatSetType(*B,MATSEQSBAIJ);CHKERRQ(ierr); 123 ierr = MatSeqSBAIJSetPreallocation(*B,1,MAT_SKIP_ALLOCATION,PETSC_NULL);CHKERRQ(ierr); 124 (*B)->ops->iccfactorsymbolic = MatICCFactorSymbolic_SeqAIJ; 125 (*B)->ops->choleskyfactorsymbolic = MatCholeskyFactorSymbolic_SeqAIJ; 126 } else SETERRQ(PETSC_ERR_SUP,"Factor type not supported"); 127 (*B)->factor = ftype; 128 PetscFunctionReturn(0); 129 } 130 EXTERN_C_END 131 132 #undef __FUNCT__ 133 #define __FUNCT__ "MatLUFactorSymbolic_SeqAIJ" 134 PetscErrorCode MatLUFactorSymbolic_SeqAIJ(Mat B,Mat A,IS isrow,IS iscol,const MatFactorInfo *info) 135 { 136 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data,*b; 137 IS isicol; 138 PetscErrorCode ierr; 139 const PetscInt *r,*ic; 140 PetscInt i,n=A->rmap->n,*ai=a->i,*aj=a->j; 141 PetscInt *bi,*bj,*ajtmp; 142 PetscInt *bdiag,row,nnz,nzi,reallocs=0,nzbd,*im; 143 PetscReal f; 144 PetscInt nlnk,*lnk,k,**bi_ptr; 145 PetscFreeSpaceList free_space=PETSC_NULL,current_space=PETSC_NULL; 146 PetscBT lnkbt; 147 148 PetscFunctionBegin; 149 if (A->rmap->N != A->cmap->N) SETERRQ(PETSC_ERR_ARG_WRONG,"matrix must be square"); 150 ierr = ISInvertPermutation(iscol,PETSC_DECIDE,&isicol);CHKERRQ(ierr); 151 ierr = ISGetIndices(isrow,&r);CHKERRQ(ierr); 152 ierr = ISGetIndices(isicol,&ic);CHKERRQ(ierr); 153 154 /* get new row pointers */ 155 ierr = PetscMalloc((n+1)*sizeof(PetscInt),&bi);CHKERRQ(ierr); 156 bi[0] = 0; 157 158 /* bdiag is location of diagonal in factor */ 159 ierr = PetscMalloc((n+1)*sizeof(PetscInt),&bdiag);CHKERRQ(ierr); 160 bdiag[0] = 0; 161 162 /* linked list for storing column indices of the active row */ 163 nlnk = n + 1; 164 ierr = PetscLLCreate(n,n,nlnk,lnk,lnkbt);CHKERRQ(ierr); 165 166 ierr = PetscMalloc2(n+1,PetscInt**,&bi_ptr,n+1,PetscInt,&im);CHKERRQ(ierr); 167 168 /* initial FreeSpace size is f*(ai[n]+1) */ 169 f = info->fill; 170 ierr = PetscFreeSpaceGet((PetscInt)(f*(ai[n]+1)),&free_space);CHKERRQ(ierr); 171 current_space = free_space; 172 173 for (i=0; i<n; i++) { 174 /* copy previous fill into linked list */ 175 nzi = 0; 176 nnz = ai[r[i]+1] - ai[r[i]]; 177 if (!nnz) SETERRQ2(PETSC_ERR_MAT_LU_ZRPVT,"Empty row in matrix: row in original ordering %D in permuted ordering %D",r[i],i); 178 ajtmp = aj + ai[r[i]]; 179 ierr = PetscLLAddPerm(nnz,ajtmp,ic,n,nlnk,lnk,lnkbt);CHKERRQ(ierr); 180 nzi += nlnk; 181 182 /* add pivot rows into linked list */ 183 row = lnk[n]; 184 while (row < i) { 185 nzbd = bdiag[row] - bi[row] + 1; /* num of entries in the row with column index <= row */ 186 ajtmp = bi_ptr[row] + nzbd; /* points to the entry next to the diagonal */ 187 ierr = PetscLLAddSortedLU(ajtmp,row,nlnk,lnk,lnkbt,i,nzbd,im);CHKERRQ(ierr); 188 nzi += nlnk; 189 row = lnk[row]; 190 } 191 bi[i+1] = bi[i] + nzi; 192 im[i] = nzi; 193 194 /* mark bdiag */ 195 nzbd = 0; 196 nnz = nzi; 197 k = lnk[n]; 198 while (nnz-- && k < i){ 199 nzbd++; 200 k = lnk[k]; 201 } 202 bdiag[i] = bi[i] + nzbd; 203 204 /* if free space is not available, make more free space */ 205 if (current_space->local_remaining<nzi) { 206 nnz = (n - i)*nzi; /* estimated and max additional space needed */ 207 ierr = PetscFreeSpaceGet(nnz,¤t_space);CHKERRQ(ierr); 208 reallocs++; 209 } 210 211 /* copy data into free space, then initialize lnk */ 212 ierr = PetscLLClean(n,n,nzi,lnk,current_space->array,lnkbt);CHKERRQ(ierr); 213 bi_ptr[i] = current_space->array; 214 current_space->array += nzi; 215 current_space->local_used += nzi; 216 current_space->local_remaining -= nzi; 217 } 218 #if defined(PETSC_USE_INFO) 219 if (ai[n] != 0) { 220 PetscReal af = ((PetscReal)bi[n])/((PetscReal)ai[n]); 221 ierr = PetscInfo3(A,"Reallocs %D Fill ratio:given %G needed %G\n",reallocs,f,af);CHKERRQ(ierr); 222 ierr = PetscInfo1(A,"Run with -pc_factor_fill %G or use \n",af);CHKERRQ(ierr); 223 ierr = PetscInfo1(A,"PCFactorSetFill(pc,%G);\n",af);CHKERRQ(ierr); 224 ierr = PetscInfo(A,"for best performance.\n");CHKERRQ(ierr); 225 } else { 226 ierr = PetscInfo(A,"Empty matrix\n");CHKERRQ(ierr); 227 } 228 #endif 229 230 ierr = ISRestoreIndices(isrow,&r);CHKERRQ(ierr); 231 ierr = ISRestoreIndices(isicol,&ic);CHKERRQ(ierr); 232 233 /* destroy list of free space and other temporary array(s) */ 234 ierr = PetscMalloc((bi[n]+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr); 235 ierr = PetscFreeSpaceContiguous(&free_space,bj);CHKERRQ(ierr); 236 ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 237 ierr = PetscFree2(bi_ptr,im);CHKERRQ(ierr); 238 239 /* put together the new matrix */ 240 ierr = MatSeqAIJSetPreallocation_SeqAIJ(B,MAT_SKIP_ALLOCATION,PETSC_NULL);CHKERRQ(ierr); 241 ierr = PetscLogObjectParent(B,isicol);CHKERRQ(ierr); 242 b = (Mat_SeqAIJ*)(B)->data; 243 b->free_a = PETSC_TRUE; 244 b->free_ij = PETSC_TRUE; 245 b->singlemalloc = PETSC_FALSE; 246 ierr = PetscMalloc((bi[n]+1)*sizeof(PetscScalar),&b->a);CHKERRQ(ierr); 247 b->j = bj; 248 b->i = bi; 249 b->diag = bdiag; 250 b->ilen = 0; 251 b->imax = 0; 252 b->row = isrow; 253 b->col = iscol; 254 ierr = PetscObjectReference((PetscObject)isrow);CHKERRQ(ierr); 255 ierr = PetscObjectReference((PetscObject)iscol);CHKERRQ(ierr); 256 b->icol = isicol; 257 ierr = PetscMalloc((n+1)*sizeof(PetscScalar),&b->solve_work);CHKERRQ(ierr); 258 259 /* In b structure: Free imax, ilen, old a, old j. Allocate solve_work, new a, new j */ 260 ierr = PetscLogObjectMemory(B,(bi[n]-n)*(sizeof(PetscInt)+sizeof(PetscScalar)));CHKERRQ(ierr); 261 b->maxnz = b->nz = bi[n] ; 262 263 (B)->factor = MAT_FACTOR_LU; 264 (B)->info.factor_mallocs = reallocs; 265 (B)->info.fill_ratio_given = f; 266 267 if (ai[n]) { 268 (B)->info.fill_ratio_needed = ((PetscReal)bi[n])/((PetscReal)ai[n]); 269 } else { 270 (B)->info.fill_ratio_needed = 0.0; 271 } 272 (B)->ops->lufactornumeric = MatLUFactorNumeric_SeqAIJ; 273 (B)->ops->solve = MatSolve_SeqAIJ; 274 (B)->ops->solvetranspose = MatSolveTranspose_SeqAIJ; 275 /* switch to inodes if appropriate */ 276 ierr = MatLUFactorSymbolic_Inode(B,A,isrow,iscol,info);CHKERRQ(ierr); 277 PetscFunctionReturn(0); 278 } 279 280 /* 281 Trouble in factorization, should we dump the original matrix? 282 */ 283 #undef __FUNCT__ 284 #define __FUNCT__ "MatFactorDumpMatrix" 285 PetscErrorCode MatFactorDumpMatrix(Mat A) 286 { 287 PetscErrorCode ierr; 288 PetscTruth flg = PETSC_FALSE; 289 290 PetscFunctionBegin; 291 ierr = PetscOptionsGetTruth(PETSC_NULL,"-mat_factor_dump_on_error",&flg,PETSC_NULL);CHKERRQ(ierr); 292 if (flg) { 293 PetscViewer viewer; 294 char filename[PETSC_MAX_PATH_LEN]; 295 296 ierr = PetscSNPrintf(filename,PETSC_MAX_PATH_LEN,"matrix_factor_error.%d",PetscGlobalRank);CHKERRQ(ierr); 297 ierr = PetscViewerBinaryOpen(((PetscObject)A)->comm,filename,FILE_MODE_WRITE,&viewer);CHKERRQ(ierr); 298 ierr = MatView(A,viewer);CHKERRQ(ierr); 299 ierr = PetscViewerDestroy(viewer);CHKERRQ(ierr); 300 } 301 PetscFunctionReturn(0); 302 } 303 304 extern PetscErrorCode MatSolve_Inode(Mat,Vec,Vec); 305 306 /* ----------------------------------------------------------- */ 307 extern PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering_iludt(Mat,Vec,Vec); 308 extern PetscErrorCode MatSolve_SeqAIJ_iludt(Mat,Vec,Vec); 309 310 #undef __FUNCT__ 311 #define __FUNCT__ "MatLUFactorNumeric_SeqAIJ_newdatastruct" 312 PetscErrorCode MatLUFactorNumeric_SeqAIJ_newdatastruct(Mat B,Mat A,const MatFactorInfo *info) 313 { 314 Mat C=B; 315 Mat_SeqAIJ *a=(Mat_SeqAIJ*)A->data,*b=(Mat_SeqAIJ *)C->data; 316 IS isrow = b->row,isicol = b->icol; 317 PetscErrorCode ierr; 318 const PetscInt *r,*ic,*ics; 319 PetscInt i,j,k,n=A->rmap->n,*ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j; 320 PetscInt *ajtmp,*bjtmp,nz,nzL,row,*bdiag=b->diag,*pj; 321 MatScalar *rtmp,*pc,multiplier,*v,*pv,*aa=a->a; 322 PetscReal shift=info->shiftinblocks; 323 PetscTruth row_identity, col_identity; 324 325 PetscFunctionBegin; 326 /* printf("MatLUFactorNumeric_SeqAIJ_newdatastruct is called ...\n"); */ 327 ierr = ISGetIndices(isrow,&r);CHKERRQ(ierr); 328 ierr = ISGetIndices(isicol,&ic);CHKERRQ(ierr); 329 ierr = PetscMalloc((n+1)*sizeof(MatScalar),&rtmp);CHKERRQ(ierr); 330 ics = ic; 331 332 for (i=0; i<n; i++){ 333 /* zero rtmp */ 334 /* L part */ 335 nz = bi[i+1] - bi[i]; 336 bjtmp = bj + bi[i]; 337 for (j=0; j<nz; j++) rtmp[bjtmp[j]] = 0.0; 338 339 /* U part */ 340 nz = bi[2*n-i+1] - bi[2*n-i]; 341 bjtmp = bj + bi[2*n-i]; 342 for (j=0; j<nz; j++) rtmp[bjtmp[j]] = 0.0; 343 344 /* load in initial (unfactored row) */ 345 nz = ai[r[i]+1] - ai[r[i]]; 346 ajtmp = aj + ai[r[i]]; 347 v = aa + ai[r[i]]; 348 for (j=0; j<nz; j++) { 349 rtmp[ics[ajtmp[j]]] = v[j]; 350 } 351 if (rtmp[ics[r[i]]] == 0.0){ 352 rtmp[ics[r[i]]] += shift; /* shift the diagonal of the matrix */ 353 /* printf("row %d, shift %g\n",i,shift); */ 354 } 355 356 /* elimination */ 357 bjtmp = bj + bi[i]; 358 row = *bjtmp++; 359 nzL = bi[i+1] - bi[i]; 360 k = 0; 361 while (k < nzL) { 362 pc = rtmp + row; 363 if (*pc != 0.0) { 364 pv = b->a + bdiag[row]; 365 multiplier = *pc * (*pv); 366 *pc = multiplier; 367 pj = b->j + bi[2*n-row]; /* begining of U(row,:) */ 368 pv = b->a + bi[2*n-row]; 369 nz = bi[2*n-row+1] - bi[2*n-row] - 1; /* num of entries in U(row,:), excluding diag */ 370 for (j=0; j<nz; j++) rtmp[pj[j]] -= multiplier * pv[j]; 371 ierr = PetscLogFlops(2.0*nz);CHKERRQ(ierr); 372 } 373 row = *bjtmp++; k++; 374 } 375 376 /* finished row so stick it into b->a */ 377 /* L part */ 378 pv = b->a + bi[i] ; 379 pj = b->j + bi[i] ; 380 nz = bi[i+1] - bi[i]; 381 for (j=0; j<nz; j++) { 382 pv[j] = rtmp[pj[j]]; 383 } 384 385 /* Mark diagonal and invert diagonal for simplier triangular solves */ 386 pv = b->a + bdiag[i]; 387 pj = b->j + bdiag[i]; 388 /* if (*pj != i)SETERRQ2(PETSC_ERR_SUP,"row %d != *pj %d",i,*pj) */ 389 *pv = 1.0/rtmp[*pj]; 390 391 /* U part */ 392 pv = b->a + bi[2*n-i]; 393 pj = b->j + bi[2*n-i]; 394 nz = bi[2*n-i+1] - bi[2*n-i] - 1; 395 for (j=0; j<nz; j++) pv[j] = rtmp[pj[j]]; 396 } 397 ierr = PetscFree(rtmp);CHKERRQ(ierr); 398 ierr = ISRestoreIndices(isicol,&ic);CHKERRQ(ierr); 399 ierr = ISRestoreIndices(isrow,&r);CHKERRQ(ierr); 400 401 ierr = ISIdentity(isrow,&row_identity);CHKERRQ(ierr); 402 ierr = ISIdentity(isicol,&col_identity);CHKERRQ(ierr); 403 if (row_identity && col_identity) { 404 C->ops->solve = MatSolve_SeqAIJ_NaturalOrdering_iludt; 405 } else { 406 C->ops->solve = MatSolve_SeqAIJ_iludt; 407 } 408 409 C->ops->solveadd = 0; 410 C->ops->solvetranspose = 0; 411 C->ops->solvetransposeadd = 0; 412 C->ops->matsolve = 0; 413 C->assembled = PETSC_TRUE; 414 C->preallocated = PETSC_TRUE; 415 ierr = PetscLogFlops(C->cmap->n);CHKERRQ(ierr); 416 PetscFunctionReturn(0); 417 } 418 419 #undef __FUNCT__ 420 #define __FUNCT__ "MatLUFactorNumeric_SeqAIJ" 421 PetscErrorCode MatLUFactorNumeric_SeqAIJ(Mat B,Mat A,const MatFactorInfo *info) 422 { 423 Mat C=B; 424 Mat_SeqAIJ *a=(Mat_SeqAIJ*)A->data,*b=(Mat_SeqAIJ *)C->data; 425 IS isrow = b->row,isicol = b->icol; 426 PetscErrorCode ierr; 427 const PetscInt *r,*ic,*ics; 428 PetscInt i,j,n=A->rmap->n,*ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j; 429 PetscInt *ajtmp,*bjtmp,nz,row,*diag_offset = b->diag,diag,*pj; 430 MatScalar *rtmp,*pc,multiplier,*v,*pv,d,*aa=a->a; 431 PetscReal rs=0.0; 432 LUShift_Ctx sctx; 433 PetscInt newshift,*ddiag; 434 435 PetscFunctionBegin; 436 ierr = ISGetIndices(isrow,&r);CHKERRQ(ierr); 437 ierr = ISGetIndices(isicol,&ic);CHKERRQ(ierr); 438 ierr = PetscMalloc((n+1)*sizeof(MatScalar),&rtmp);CHKERRQ(ierr); 439 ics = ic; 440 441 sctx.shift_top = 0; 442 sctx.nshift_max = 0; 443 sctx.shift_lo = 0; 444 sctx.shift_hi = 0; 445 sctx.shift_fraction = 0; 446 447 /* if both shift schemes are chosen by user, only use info->shiftpd */ 448 if (info->shiftpd) { /* set sctx.shift_top=max{rs} */ 449 ddiag = a->diag; 450 sctx.shift_top = info->zeropivot; 451 for (i=0; i<n; i++) { 452 /* calculate sum(|aij|)-RealPart(aii), amt of shift needed for this row */ 453 d = (aa)[ddiag[i]]; 454 rs = -PetscAbsScalar(d) - PetscRealPart(d); 455 v = aa+ai[i]; 456 nz = ai[i+1] - ai[i]; 457 for (j=0; j<nz; j++) 458 rs += PetscAbsScalar(v[j]); 459 if (rs>sctx.shift_top) sctx.shift_top = rs; 460 } 461 sctx.shift_top *= 1.1; 462 sctx.nshift_max = 5; 463 sctx.shift_lo = 0.; 464 sctx.shift_hi = 1.; 465 } 466 467 sctx.shift_amount = 0.0; 468 sctx.nshift = 0; 469 do { 470 sctx.lushift = PETSC_FALSE; 471 for (i=0; i<n; i++){ 472 nz = bi[i+1] - bi[i]; 473 bjtmp = bj + bi[i]; 474 for (j=0; j<nz; j++) rtmp[bjtmp[j]] = 0.0; 475 476 /* load in initial (unfactored row) */ 477 nz = ai[r[i]+1] - ai[r[i]]; 478 ajtmp = aj + ai[r[i]]; 479 v = aa + ai[r[i]]; 480 for (j=0; j<nz; j++) { 481 rtmp[ics[ajtmp[j]]] = v[j]; 482 } 483 rtmp[ics[r[i]]] += sctx.shift_amount; /* shift the diagonal of the matrix */ 484 /* if (sctx.shift_amount > 0.0) printf("row %d, shift %g\n",i,sctx.shift_amount); */ 485 486 row = *bjtmp++; 487 while (row < i) { 488 pc = rtmp + row; 489 if (*pc != 0.0) { 490 pv = b->a + diag_offset[row]; 491 pj = b->j + diag_offset[row] + 1; 492 multiplier = *pc / *pv++; 493 *pc = multiplier; 494 nz = bi[row+1] - diag_offset[row] - 1; 495 for (j=0; j<nz; j++) rtmp[pj[j]] -= multiplier * pv[j]; 496 ierr = PetscLogFlops(2.0*nz);CHKERRQ(ierr); 497 } 498 row = *bjtmp++; 499 } 500 /* finished row so stick it into b->a */ 501 pv = b->a + bi[i] ; 502 pj = b->j + bi[i] ; 503 nz = bi[i+1] - bi[i]; 504 diag = diag_offset[i] - bi[i]; 505 rs = -PetscAbsScalar(pv[diag]); 506 for (j=0; j<nz; j++) { 507 pv[j] = rtmp[pj[j]]; 508 rs += PetscAbsScalar(pv[j]); 509 } 510 511 /* 9/13/02 Victor Eijkhout suggested scaling zeropivot by rs for matrices with funny scalings */ 512 sctx.rs = rs; 513 sctx.pv = pv[diag]; 514 ierr = MatLUCheckShift_inline(info,sctx,i,newshift);CHKERRQ(ierr); 515 if (newshift == 1) break; 516 } 517 518 if (info->shiftpd && !sctx.lushift && sctx.shift_fraction>0 && sctx.nshift<sctx.nshift_max) { 519 /* 520 * if no shift in this attempt & shifting & started shifting & can refine, 521 * then try lower shift 522 */ 523 sctx.shift_hi = sctx.shift_fraction; 524 sctx.shift_fraction = (sctx.shift_hi+sctx.shift_lo)/2.; 525 sctx.shift_amount = sctx.shift_fraction * sctx.shift_top; 526 sctx.lushift = PETSC_TRUE; 527 sctx.nshift++; 528 } 529 } while (sctx.lushift); 530 531 /* invert diagonal entries for simplier triangular solves */ 532 for (i=0; i<n; i++) { 533 b->a[diag_offset[i]] = 1.0/b->a[diag_offset[i]]; 534 } 535 ierr = PetscFree(rtmp);CHKERRQ(ierr); 536 ierr = ISRestoreIndices(isicol,&ic);CHKERRQ(ierr); 537 ierr = ISRestoreIndices(isrow,&r);CHKERRQ(ierr); 538 if (b->inode.use) { 539 C->ops->solve = MatSolve_Inode; 540 } else { 541 PetscTruth row_identity, col_identity; 542 ierr = ISIdentity(isrow,&row_identity);CHKERRQ(ierr); 543 ierr = ISIdentity(isicol,&col_identity);CHKERRQ(ierr); 544 if (row_identity && col_identity) { 545 C->ops->solve = MatSolve_SeqAIJ_NaturalOrdering; 546 } else { 547 C->ops->solve = MatSolve_SeqAIJ; 548 } 549 } 550 C->ops->solveadd = MatSolveAdd_SeqAIJ; 551 C->ops->solvetranspose = MatSolveTranspose_SeqAIJ; 552 C->ops->solvetransposeadd = MatSolveTransposeAdd_SeqAIJ; 553 C->ops->matsolve = MatMatSolve_SeqAIJ; 554 C->assembled = PETSC_TRUE; 555 C->preallocated = PETSC_TRUE; 556 ierr = PetscLogFlops(C->cmap->n);CHKERRQ(ierr); 557 if (sctx.nshift){ 558 if (info->shiftpd) { 559 ierr = PetscInfo4(A,"number of shift_pd tries %D, shift_amount %G, diagonal shifted up by %e fraction top_value %e\n",sctx.nshift,sctx.shift_amount,sctx.shift_fraction,sctx.shift_top);CHKERRQ(ierr); 560 } else if (info->shiftnz) { 561 ierr = PetscInfo2(A,"number of shift_nz tries %D, shift_amount %G\n",sctx.nshift,sctx.shift_amount);CHKERRQ(ierr); 562 } 563 } 564 PetscFunctionReturn(0); 565 } 566 567 /* 568 This routine implements inplace ILU(0) with row or/and column permutations. 569 Input: 570 A - original matrix 571 Output; 572 A - a->i (rowptr) is same as original rowptr, but factored i-the row is stored in rowperm[i] 573 a->j (col index) is permuted by the inverse of colperm, then sorted 574 a->a reordered accordingly with a->j 575 a->diag (ptr to diagonal elements) is updated. 576 */ 577 #undef __FUNCT__ 578 #define __FUNCT__ "MatLUFactorNumeric_SeqAIJ_InplaceWithPerm" 579 PetscErrorCode MatLUFactorNumeric_SeqAIJ_InplaceWithPerm(Mat B,Mat A,const MatFactorInfo *info) 580 { 581 Mat_SeqAIJ *a=(Mat_SeqAIJ*)A->data; 582 IS isrow = a->row,isicol = a->icol; 583 PetscErrorCode ierr; 584 const PetscInt *r,*ic,*ics; 585 PetscInt i,j,n=A->rmap->n,*ai=a->i,*aj=a->j; 586 PetscInt *ajtmp,nz,row; 587 PetscInt *diag = a->diag,nbdiag,*pj; 588 PetscScalar *rtmp,*pc,multiplier,d; 589 MatScalar *v,*pv; 590 PetscReal rs; 591 LUShift_Ctx sctx; 592 PetscInt newshift; 593 594 PetscFunctionBegin; 595 if (A != B) SETERRQ(PETSC_ERR_ARG_INCOMP,"input and output matrix must have same address"); 596 ierr = ISGetIndices(isrow,&r);CHKERRQ(ierr); 597 ierr = ISGetIndices(isicol,&ic);CHKERRQ(ierr); 598 ierr = PetscMalloc((n+1)*sizeof(PetscScalar),&rtmp);CHKERRQ(ierr); 599 ierr = PetscMemzero(rtmp,(n+1)*sizeof(PetscScalar));CHKERRQ(ierr); 600 ics = ic; 601 602 sctx.shift_top = 0; 603 sctx.nshift_max = 0; 604 sctx.shift_lo = 0; 605 sctx.shift_hi = 0; 606 sctx.shift_fraction = 0; 607 608 /* if both shift schemes are chosen by user, only use info->shiftpd */ 609 if (info->shiftpd) { /* set sctx.shift_top=max{rs} */ 610 sctx.shift_top = 0; 611 for (i=0; i<n; i++) { 612 /* calculate sum(|aij|)-RealPart(aii), amt of shift needed for this row */ 613 d = (a->a)[diag[i]]; 614 rs = -PetscAbsScalar(d) - PetscRealPart(d); 615 v = a->a+ai[i]; 616 nz = ai[i+1] - ai[i]; 617 for (j=0; j<nz; j++) 618 rs += PetscAbsScalar(v[j]); 619 if (rs>sctx.shift_top) sctx.shift_top = rs; 620 } 621 if (sctx.shift_top < info->zeropivot) sctx.shift_top = info->zeropivot; 622 sctx.shift_top *= 1.1; 623 sctx.nshift_max = 5; 624 sctx.shift_lo = 0.; 625 sctx.shift_hi = 1.; 626 } 627 628 sctx.shift_amount = 0; 629 sctx.nshift = 0; 630 do { 631 sctx.lushift = PETSC_FALSE; 632 for (i=0; i<n; i++){ 633 /* load in initial unfactored row */ 634 nz = ai[r[i]+1] - ai[r[i]]; 635 ajtmp = aj + ai[r[i]]; 636 v = a->a + ai[r[i]]; 637 /* sort permuted ajtmp and values v accordingly */ 638 for (j=0; j<nz; j++) ajtmp[j] = ics[ajtmp[j]]; 639 ierr = PetscSortIntWithScalarArray(nz,ajtmp,v);CHKERRQ(ierr); 640 641 diag[r[i]] = ai[r[i]]; 642 for (j=0; j<nz; j++) { 643 rtmp[ajtmp[j]] = v[j]; 644 if (ajtmp[j] < i) diag[r[i]]++; /* update a->diag */ 645 } 646 rtmp[r[i]] += sctx.shift_amount; /* shift the diagonal of the matrix */ 647 648 row = *ajtmp++; 649 while (row < i) { 650 pc = rtmp + row; 651 if (*pc != 0.0) { 652 pv = a->a + diag[r[row]]; 653 pj = aj + diag[r[row]] + 1; 654 655 multiplier = *pc / *pv++; 656 *pc = multiplier; 657 nz = ai[r[row]+1] - diag[r[row]] - 1; 658 for (j=0; j<nz; j++) rtmp[pj[j]] -= multiplier * pv[j]; 659 ierr = PetscLogFlops(2.0*nz);CHKERRQ(ierr); 660 } 661 row = *ajtmp++; 662 } 663 /* finished row so overwrite it onto a->a */ 664 pv = a->a + ai[r[i]] ; 665 pj = aj + ai[r[i]] ; 666 nz = ai[r[i]+1] - ai[r[i]]; 667 nbdiag = diag[r[i]] - ai[r[i]]; /* num of entries before the diagonal */ 668 669 rs = 0.0; 670 for (j=0; j<nz; j++) { 671 pv[j] = rtmp[pj[j]]; 672 if (j != nbdiag) rs += PetscAbsScalar(pv[j]); 673 } 674 675 /* 9/13/02 Victor Eijkhout suggested scaling zeropivot by rs for matrices with funny scalings */ 676 sctx.rs = rs; 677 sctx.pv = pv[nbdiag]; 678 ierr = MatLUCheckShift_inline(info,sctx,i,newshift);CHKERRQ(ierr); 679 if (newshift == 1) break; 680 } 681 682 if (info->shiftpd && !sctx.lushift && sctx.shift_fraction>0 && sctx.nshift<sctx.nshift_max) { 683 /* 684 * if no shift in this attempt & shifting & started shifting & can refine, 685 * then try lower shift 686 */ 687 sctx.shift_hi = sctx.shift_fraction; 688 sctx.shift_fraction = (sctx.shift_hi+sctx.shift_lo)/2.; 689 sctx.shift_amount = sctx.shift_fraction * sctx.shift_top; 690 sctx.lushift = PETSC_TRUE; 691 sctx.nshift++; 692 } 693 } while (sctx.lushift); 694 695 /* invert diagonal entries for simplier triangular solves */ 696 for (i=0; i<n; i++) { 697 a->a[diag[r[i]]] = 1.0/a->a[diag[r[i]]]; 698 } 699 700 ierr = PetscFree(rtmp);CHKERRQ(ierr); 701 ierr = ISRestoreIndices(isicol,&ic);CHKERRQ(ierr); 702 ierr = ISRestoreIndices(isrow,&r);CHKERRQ(ierr); 703 A->ops->solve = MatSolve_SeqAIJ_InplaceWithPerm; 704 A->ops->solveadd = MatSolveAdd_SeqAIJ; 705 A->ops->solvetranspose = MatSolveTranspose_SeqAIJ; 706 A->ops->solvetransposeadd = MatSolveTransposeAdd_SeqAIJ; 707 A->assembled = PETSC_TRUE; 708 A->preallocated = PETSC_TRUE; 709 ierr = PetscLogFlops(A->cmap->n);CHKERRQ(ierr); 710 if (sctx.nshift){ 711 if (info->shiftpd) { 712 ierr = PetscInfo4(A,"number of shift_pd tries %D, shift_amount %G, diagonal shifted up by %e fraction top_value %e\n",sctx.nshift,sctx.shift_amount,sctx.shift_fraction,sctx.shift_top);CHKERRQ(ierr); 713 } else if (info->shiftnz) { 714 ierr = PetscInfo2(A,"number of shift_nz tries %D, shift_amount %G\n",sctx.nshift,sctx.shift_amount);CHKERRQ(ierr); 715 } 716 } 717 PetscFunctionReturn(0); 718 } 719 720 /* ----------------------------------------------------------- */ 721 #undef __FUNCT__ 722 #define __FUNCT__ "MatLUFactor_SeqAIJ" 723 PetscErrorCode MatLUFactor_SeqAIJ(Mat A,IS row,IS col,const MatFactorInfo *info) 724 { 725 PetscErrorCode ierr; 726 Mat C; 727 728 PetscFunctionBegin; 729 ierr = MatGetFactor(A,MAT_SOLVER_PETSC,MAT_FACTOR_LU,&C);CHKERRQ(ierr); 730 ierr = MatLUFactorSymbolic(C,A,row,col,info);CHKERRQ(ierr); 731 ierr = MatLUFactorNumeric(C,A,info);CHKERRQ(ierr); 732 A->ops->solve = C->ops->solve; 733 A->ops->solvetranspose = C->ops->solvetranspose; 734 ierr = MatHeaderCopy(A,C);CHKERRQ(ierr); 735 ierr = PetscLogObjectParent(A,((Mat_SeqAIJ*)(A->data))->icol);CHKERRQ(ierr); 736 PetscFunctionReturn(0); 737 } 738 /* ----------------------------------------------------------- */ 739 740 741 #undef __FUNCT__ 742 #define __FUNCT__ "MatSolve_SeqAIJ" 743 PetscErrorCode MatSolve_SeqAIJ(Mat A,Vec bb,Vec xx) 744 { 745 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 746 IS iscol = a->col,isrow = a->row; 747 PetscErrorCode ierr; 748 PetscInt i, n = A->rmap->n,*vi,*ai = a->i,*aj = a->j; 749 PetscInt nz; 750 const PetscInt *rout,*cout,*r,*c; 751 PetscScalar *x,*tmp,*tmps,sum; 752 const PetscScalar *b; 753 const MatScalar *aa = a->a,*v; 754 755 PetscFunctionBegin; 756 if (!n) PetscFunctionReturn(0); 757 758 ierr = VecGetArray(bb,(PetscScalar**)&b);CHKERRQ(ierr); 759 ierr = VecGetArray(xx,&x);CHKERRQ(ierr); 760 tmp = a->solve_work; 761 762 ierr = ISGetIndices(isrow,&rout);CHKERRQ(ierr); r = rout; 763 ierr = ISGetIndices(iscol,&cout);CHKERRQ(ierr); c = cout + (n-1); 764 765 /* forward solve the lower triangular */ 766 tmp[0] = b[*r++]; 767 tmps = tmp; 768 for (i=1; i<n; i++) { 769 v = aa + ai[i] ; 770 vi = aj + ai[i] ; 771 nz = a->diag[i] - ai[i]; 772 sum = b[*r++]; 773 PetscSparseDenseMinusDot(sum,tmps,v,vi,nz); 774 tmp[i] = sum; 775 } 776 777 /* backward solve the upper triangular */ 778 for (i=n-1; i>=0; i--){ 779 v = aa + a->diag[i] + 1; 780 vi = aj + a->diag[i] + 1; 781 nz = ai[i+1] - a->diag[i] - 1; 782 sum = tmp[i]; 783 PetscSparseDenseMinusDot(sum,tmps,v,vi,nz); 784 x[*c--] = tmp[i] = sum*aa[a->diag[i]]; 785 } 786 787 ierr = ISRestoreIndices(isrow,&rout);CHKERRQ(ierr); 788 ierr = ISRestoreIndices(iscol,&cout);CHKERRQ(ierr); 789 ierr = VecRestoreArray(bb,(PetscScalar**)&b);CHKERRQ(ierr); 790 ierr = VecRestoreArray(xx,&x);CHKERRQ(ierr); 791 ierr = PetscLogFlops(2.0*a->nz - A->cmap->n);CHKERRQ(ierr); 792 PetscFunctionReturn(0); 793 } 794 795 #undef __FUNCT__ 796 #define __FUNCT__ "MatMatSolve_SeqAIJ" 797 PetscErrorCode MatMatSolve_SeqAIJ(Mat A,Mat B,Mat X) 798 { 799 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 800 IS iscol = a->col,isrow = a->row; 801 PetscErrorCode ierr; 802 PetscInt i, n = A->rmap->n,*vi,*ai = a->i,*aj = a->j; 803 PetscInt nz,neq; 804 const PetscInt *rout,*cout,*r,*c; 805 PetscScalar *x,*b,*tmp,*tmps,sum; 806 const MatScalar *aa = a->a,*v; 807 PetscTruth bisdense,xisdense; 808 809 PetscFunctionBegin; 810 if (!n) PetscFunctionReturn(0); 811 812 ierr = PetscTypeCompare((PetscObject)B,MATSEQDENSE,&bisdense);CHKERRQ(ierr); 813 if (!bisdense) SETERRQ(PETSC_ERR_ARG_INCOMP,"B matrix must be a SeqDense matrix"); 814 ierr = PetscTypeCompare((PetscObject)X,MATSEQDENSE,&xisdense);CHKERRQ(ierr); 815 if (!xisdense) SETERRQ(PETSC_ERR_ARG_INCOMP,"X matrix must be a SeqDense matrix"); 816 817 ierr = MatGetArray(B,&b);CHKERRQ(ierr); 818 ierr = MatGetArray(X,&x);CHKERRQ(ierr); 819 820 tmp = a->solve_work; 821 ierr = ISGetIndices(isrow,&rout);CHKERRQ(ierr); r = rout; 822 ierr = ISGetIndices(iscol,&cout);CHKERRQ(ierr); c = cout; 823 824 for (neq=0; neq<B->cmap->n; neq++){ 825 /* forward solve the lower triangular */ 826 tmp[0] = b[r[0]]; 827 tmps = tmp; 828 for (i=1; i<n; i++) { 829 v = aa + ai[i] ; 830 vi = aj + ai[i] ; 831 nz = a->diag[i] - ai[i]; 832 sum = b[r[i]]; 833 PetscSparseDenseMinusDot(sum,tmps,v,vi,nz); 834 tmp[i] = sum; 835 } 836 /* backward solve the upper triangular */ 837 for (i=n-1; i>=0; i--){ 838 v = aa + a->diag[i] + 1; 839 vi = aj + a->diag[i] + 1; 840 nz = ai[i+1] - a->diag[i] - 1; 841 sum = tmp[i]; 842 PetscSparseDenseMinusDot(sum,tmps,v,vi,nz); 843 x[c[i]] = tmp[i] = sum*aa[a->diag[i]]; 844 } 845 846 b += n; 847 x += n; 848 } 849 ierr = ISRestoreIndices(isrow,&rout);CHKERRQ(ierr); 850 ierr = ISRestoreIndices(iscol,&cout);CHKERRQ(ierr); 851 ierr = MatRestoreArray(B,&b);CHKERRQ(ierr); 852 ierr = MatRestoreArray(X,&x);CHKERRQ(ierr); 853 ierr = PetscLogFlops(B->cmap->n*(2.0*a->nz - n));CHKERRQ(ierr); 854 PetscFunctionReturn(0); 855 } 856 857 #undef __FUNCT__ 858 #define __FUNCT__ "MatSolve_SeqAIJ_InplaceWithPerm" 859 PetscErrorCode MatSolve_SeqAIJ_InplaceWithPerm(Mat A,Vec bb,Vec xx) 860 { 861 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 862 IS iscol = a->col,isrow = a->row; 863 PetscErrorCode ierr; 864 const PetscInt *r,*c,*rout,*cout; 865 PetscInt i, n = A->rmap->n,*vi,*ai = a->i,*aj = a->j; 866 PetscInt nz,row; 867 PetscScalar *x,*b,*tmp,*tmps,sum; 868 const MatScalar *aa = a->a,*v; 869 870 PetscFunctionBegin; 871 if (!n) PetscFunctionReturn(0); 872 873 ierr = VecGetArray(bb,&b);CHKERRQ(ierr); 874 ierr = VecGetArray(xx,&x);CHKERRQ(ierr); 875 tmp = a->solve_work; 876 877 ierr = ISGetIndices(isrow,&rout);CHKERRQ(ierr); r = rout; 878 ierr = ISGetIndices(iscol,&cout);CHKERRQ(ierr); c = cout + (n-1); 879 880 /* forward solve the lower triangular */ 881 tmp[0] = b[*r++]; 882 tmps = tmp; 883 for (row=1; row<n; row++) { 884 i = rout[row]; /* permuted row */ 885 v = aa + ai[i] ; 886 vi = aj + ai[i] ; 887 nz = a->diag[i] - ai[i]; 888 sum = b[*r++]; 889 PetscSparseDenseMinusDot(sum,tmps,v,vi,nz); 890 tmp[row] = sum; 891 } 892 893 /* backward solve the upper triangular */ 894 for (row=n-1; row>=0; row--){ 895 i = rout[row]; /* permuted row */ 896 v = aa + a->diag[i] + 1; 897 vi = aj + a->diag[i] + 1; 898 nz = ai[i+1] - a->diag[i] - 1; 899 sum = tmp[row]; 900 PetscSparseDenseMinusDot(sum,tmps,v,vi,nz); 901 x[*c--] = tmp[row] = sum*aa[a->diag[i]]; 902 } 903 904 ierr = ISRestoreIndices(isrow,&rout);CHKERRQ(ierr); 905 ierr = ISRestoreIndices(iscol,&cout);CHKERRQ(ierr); 906 ierr = VecRestoreArray(bb,&b);CHKERRQ(ierr); 907 ierr = VecRestoreArray(xx,&x);CHKERRQ(ierr); 908 ierr = PetscLogFlops(2.0*a->nz - A->cmap->n);CHKERRQ(ierr); 909 PetscFunctionReturn(0); 910 } 911 912 /* ----------------------------------------------------------- */ 913 #undef __FUNCT__ 914 #define __FUNCT__ "MatSolve_SeqAIJ_NaturalOrdering" 915 PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering(Mat A,Vec bb,Vec xx) 916 { 917 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 918 PetscErrorCode ierr; 919 PetscInt n = A->rmap->n; 920 const PetscInt *ai = a->i,*aj = a->j,*adiag = a->diag,*vi; 921 PetscScalar *x; 922 const PetscScalar *b; 923 const MatScalar *aa = a->a; 924 #if !defined(PETSC_USE_FORTRAN_KERNEL_SOLVEAIJ) 925 PetscInt adiag_i,i,nz,ai_i; 926 const MatScalar *v; 927 PetscScalar sum; 928 #endif 929 930 PetscFunctionBegin; 931 if (!n) PetscFunctionReturn(0); 932 933 ierr = VecGetArray(bb,(PetscScalar**)&b);CHKERRQ(ierr); 934 ierr = VecGetArray(xx,&x);CHKERRQ(ierr); 935 936 #if defined(PETSC_USE_FORTRAN_KERNEL_SOLVEAIJ) 937 fortransolveaij_(&n,x,ai,aj,adiag,aa,b); 938 #else 939 /* forward solve the lower triangular */ 940 x[0] = b[0]; 941 for (i=1; i<n; i++) { 942 ai_i = ai[i]; 943 v = aa + ai_i; 944 vi = aj + ai_i; 945 nz = adiag[i] - ai_i; 946 sum = b[i]; 947 PetscSparseDenseMinusDot(sum,x,v,vi,nz); 948 x[i] = sum; 949 } 950 951 /* backward solve the upper triangular */ 952 for (i=n-1; i>=0; i--){ 953 adiag_i = adiag[i]; 954 v = aa + adiag_i + 1; 955 vi = aj + adiag_i + 1; 956 nz = ai[i+1] - adiag_i - 1; 957 sum = x[i]; 958 PetscSparseDenseMinusDot(sum,x,v,vi,nz); 959 x[i] = sum*aa[adiag_i]; 960 } 961 #endif 962 ierr = PetscLogFlops(2.0*a->nz - A->cmap->n);CHKERRQ(ierr); 963 ierr = VecRestoreArray(bb,(PetscScalar**)&b);CHKERRQ(ierr); 964 ierr = VecRestoreArray(xx,&x);CHKERRQ(ierr); 965 PetscFunctionReturn(0); 966 } 967 968 #undef __FUNCT__ 969 #define __FUNCT__ "MatSolveAdd_SeqAIJ" 970 PetscErrorCode MatSolveAdd_SeqAIJ(Mat A,Vec bb,Vec yy,Vec xx) 971 { 972 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 973 IS iscol = a->col,isrow = a->row; 974 PetscErrorCode ierr; 975 PetscInt i, n = A->rmap->n,*vi,*ai = a->i,*aj = a->j; 976 PetscInt nz; 977 const PetscInt *rout,*cout,*r,*c; 978 PetscScalar *x,*b,*tmp,sum; 979 const MatScalar *aa = a->a,*v; 980 981 PetscFunctionBegin; 982 if (yy != xx) {ierr = VecCopy(yy,xx);CHKERRQ(ierr);} 983 984 ierr = VecGetArray(bb,&b);CHKERRQ(ierr); 985 ierr = VecGetArray(xx,&x);CHKERRQ(ierr); 986 tmp = a->solve_work; 987 988 ierr = ISGetIndices(isrow,&rout);CHKERRQ(ierr); r = rout; 989 ierr = ISGetIndices(iscol,&cout);CHKERRQ(ierr); c = cout + (n-1); 990 991 /* forward solve the lower triangular */ 992 tmp[0] = b[*r++]; 993 for (i=1; i<n; i++) { 994 v = aa + ai[i] ; 995 vi = aj + ai[i] ; 996 nz = a->diag[i] - ai[i]; 997 sum = b[*r++]; 998 while (nz--) sum -= *v++ * tmp[*vi++ ]; 999 tmp[i] = sum; 1000 } 1001 1002 /* backward solve the upper triangular */ 1003 for (i=n-1; i>=0; i--){ 1004 v = aa + a->diag[i] + 1; 1005 vi = aj + a->diag[i] + 1; 1006 nz = ai[i+1] - a->diag[i] - 1; 1007 sum = tmp[i]; 1008 while (nz--) sum -= *v++ * tmp[*vi++ ]; 1009 tmp[i] = sum*aa[a->diag[i]]; 1010 x[*c--] += tmp[i]; 1011 } 1012 1013 ierr = ISRestoreIndices(isrow,&rout);CHKERRQ(ierr); 1014 ierr = ISRestoreIndices(iscol,&cout);CHKERRQ(ierr); 1015 ierr = VecRestoreArray(bb,&b);CHKERRQ(ierr); 1016 ierr = VecRestoreArray(xx,&x);CHKERRQ(ierr); 1017 ierr = PetscLogFlops(2.0*a->nz);CHKERRQ(ierr); 1018 1019 PetscFunctionReturn(0); 1020 } 1021 /* -------------------------------------------------------------------*/ 1022 #undef __FUNCT__ 1023 #define __FUNCT__ "MatSolveTranspose_SeqAIJ" 1024 PetscErrorCode MatSolveTranspose_SeqAIJ(Mat A,Vec bb,Vec xx) 1025 { 1026 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 1027 IS iscol = a->col,isrow = a->row; 1028 PetscErrorCode ierr; 1029 const PetscInt *rout,*cout,*r,*c; 1030 PetscInt i,n = A->rmap->n,*vi,*ai = a->i,*aj = a->j; 1031 PetscInt nz,*diag = a->diag; 1032 PetscScalar *x,*b,*tmp,s1; 1033 const MatScalar *aa = a->a,*v; 1034 1035 PetscFunctionBegin; 1036 ierr = VecGetArray(bb,&b);CHKERRQ(ierr); 1037 ierr = VecGetArray(xx,&x);CHKERRQ(ierr); 1038 tmp = a->solve_work; 1039 1040 ierr = ISGetIndices(isrow,&rout);CHKERRQ(ierr); r = rout; 1041 ierr = ISGetIndices(iscol,&cout);CHKERRQ(ierr); c = cout; 1042 1043 /* copy the b into temp work space according to permutation */ 1044 for (i=0; i<n; i++) tmp[i] = b[c[i]]; 1045 1046 /* forward solve the U^T */ 1047 for (i=0; i<n; i++) { 1048 v = aa + diag[i] ; 1049 vi = aj + diag[i] + 1; 1050 nz = ai[i+1] - diag[i] - 1; 1051 s1 = tmp[i]; 1052 s1 *= (*v++); /* multiply by inverse of diagonal entry */ 1053 while (nz--) { 1054 tmp[*vi++ ] -= (*v++)*s1; 1055 } 1056 tmp[i] = s1; 1057 } 1058 1059 /* backward solve the L^T */ 1060 for (i=n-1; i>=0; i--){ 1061 v = aa + diag[i] - 1 ; 1062 vi = aj + diag[i] - 1 ; 1063 nz = diag[i] - ai[i]; 1064 s1 = tmp[i]; 1065 while (nz--) { 1066 tmp[*vi-- ] -= (*v--)*s1; 1067 } 1068 } 1069 1070 /* copy tmp into x according to permutation */ 1071 for (i=0; i<n; i++) x[r[i]] = tmp[i]; 1072 1073 ierr = ISRestoreIndices(isrow,&rout);CHKERRQ(ierr); 1074 ierr = ISRestoreIndices(iscol,&cout);CHKERRQ(ierr); 1075 ierr = VecRestoreArray(bb,&b);CHKERRQ(ierr); 1076 ierr = VecRestoreArray(xx,&x);CHKERRQ(ierr); 1077 1078 ierr = PetscLogFlops(2.0*a->nz-A->cmap->n);CHKERRQ(ierr); 1079 PetscFunctionReturn(0); 1080 } 1081 1082 #undef __FUNCT__ 1083 #define __FUNCT__ "MatSolveTransposeAdd_SeqAIJ" 1084 PetscErrorCode MatSolveTransposeAdd_SeqAIJ(Mat A,Vec bb,Vec zz,Vec xx) 1085 { 1086 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 1087 IS iscol = a->col,isrow = a->row; 1088 PetscErrorCode ierr; 1089 const PetscInt *r,*c,*rout,*cout; 1090 PetscInt i,n = A->rmap->n,*vi,*ai = a->i,*aj = a->j; 1091 PetscInt nz,*diag = a->diag; 1092 PetscScalar *x,*b,*tmp; 1093 const MatScalar *aa = a->a,*v; 1094 1095 PetscFunctionBegin; 1096 if (zz != xx) {ierr = VecCopy(zz,xx);CHKERRQ(ierr);} 1097 1098 ierr = VecGetArray(bb,&b);CHKERRQ(ierr); 1099 ierr = VecGetArray(xx,&x);CHKERRQ(ierr); 1100 tmp = a->solve_work; 1101 1102 ierr = ISGetIndices(isrow,&rout);CHKERRQ(ierr); r = rout; 1103 ierr = ISGetIndices(iscol,&cout);CHKERRQ(ierr); c = cout; 1104 1105 /* copy the b into temp work space according to permutation */ 1106 for (i=0; i<n; i++) tmp[i] = b[c[i]]; 1107 1108 /* forward solve the U^T */ 1109 for (i=0; i<n; i++) { 1110 v = aa + diag[i] ; 1111 vi = aj + diag[i] + 1; 1112 nz = ai[i+1] - diag[i] - 1; 1113 tmp[i] *= *v++; 1114 while (nz--) { 1115 tmp[*vi++ ] -= (*v++)*tmp[i]; 1116 } 1117 } 1118 1119 /* backward solve the L^T */ 1120 for (i=n-1; i>=0; i--){ 1121 v = aa + diag[i] - 1 ; 1122 vi = aj + diag[i] - 1 ; 1123 nz = diag[i] - ai[i]; 1124 while (nz--) { 1125 tmp[*vi-- ] -= (*v--)*tmp[i]; 1126 } 1127 } 1128 1129 /* copy tmp into x according to permutation */ 1130 for (i=0; i<n; i++) x[r[i]] += tmp[i]; 1131 1132 ierr = ISRestoreIndices(isrow,&rout);CHKERRQ(ierr); 1133 ierr = ISRestoreIndices(iscol,&cout);CHKERRQ(ierr); 1134 ierr = VecRestoreArray(bb,&b);CHKERRQ(ierr); 1135 ierr = VecRestoreArray(xx,&x);CHKERRQ(ierr); 1136 1137 ierr = PetscLogFlops(2.0*a->nz);CHKERRQ(ierr); 1138 PetscFunctionReturn(0); 1139 } 1140 /* ----------------------------------------------------------------*/ 1141 EXTERN PetscErrorCode Mat_CheckInode(Mat,PetscTruth); 1142 EXTERN PetscErrorCode MatDuplicateNoCreate_SeqAIJ(Mat,Mat,MatDuplicateOption); 1143 1144 /* 1145 ilu(0) with natural ordering under new data structure. 1146 Factored arrays bj and ba are stored as 1147 L(0,:), L(1,:), ...,L(n-1,:), U(n-1,:),...,U(i,:),U(i-1,:),...,U(0,:) 1148 1149 bi=fact->i is an array of size 2n+2, in which 1150 bi+ 1151 bi[i] -> 1st entry of L(i,:),i=0,...,i-1 1152 bi[n] -> end of L(n-1,:)+1 1153 bi[n+1] -> 1st entry of U(n-1,:) 1154 bi[2n-i] -> 1st entry of U(i,:) 1155 bi[2n-i+1] -> end of U(i,:)+1, the 1st entry of U(i-1,:) 1156 bi[2n] -> end of U(0,:)+1 1157 1158 U(i,:) contains diag[i] as its last entry, i.e., 1159 U(i,:) = (u[i,i+1],...,u[i,n-1],diag[i]) 1160 */ 1161 #undef __FUNCT__ 1162 #define __FUNCT__ "MatILUFactorSymbolic_SeqAIJ_ilu0_newdatastruct" 1163 PetscErrorCode MatILUFactorSymbolic_SeqAIJ_ilu0_newdatastruct(Mat fact,Mat A,IS isrow,IS iscol,const MatFactorInfo *info) 1164 { 1165 1166 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data,*b; 1167 PetscErrorCode ierr; 1168 PetscInt n=A->rmap->n,*ai=a->i,*aj,*adiag=a->diag; 1169 PetscInt i,j,nz,*bi,*bj,*bdiag; 1170 1171 PetscFunctionBegin; 1172 /* printf("MatILUFactorSymbolic_SeqAIJ_ilu0_newdatastruct ...\n"); */ 1173 ierr = MatDuplicateNoCreate_SeqAIJ(fact,A,MAT_DO_NOT_COPY_VALUES);CHKERRQ(ierr); 1174 b = (Mat_SeqAIJ*)(fact)->data; 1175 1176 /* replace matrix arrays with single allocations, then reset values */ 1177 ierr = PetscFree3(b->a,b->j,b->i);CHKERRQ(ierr); 1178 ierr = PetscFree(b->diag);CHKERRQ(ierr); 1179 1180 ierr = PetscMalloc((2*n+2)*sizeof(PetscInt),&b->i);CHKERRQ(ierr); 1181 ierr = PetscMalloc((ai[n]+1)*sizeof(PetscInt),&b->j);CHKERRQ(ierr); 1182 ierr = PetscMalloc((ai[n]+1)*sizeof(PetscScalar),&b->a);CHKERRQ(ierr); 1183 b->singlemalloc = PETSC_FALSE; 1184 ierr = PetscMalloc((n+1)*sizeof(PetscInt),&b->diag);CHKERRQ(ierr); 1185 bdiag = b->diag; 1186 1187 if (n > 0) { 1188 ierr = PetscMemzero(b->a,(ai[n])*sizeof(PetscScalar));CHKERRQ(ierr); 1189 } 1190 1191 /* set bi and bj with new data structure */ 1192 bi = b->i; 1193 bj = b->j; 1194 1195 /* L part */ 1196 bi[0] = 0; 1197 for (i=0; i<n; i++){ 1198 nz = adiag[i] - ai[i]; 1199 bi[i+1] = bi[i] + nz; 1200 aj = a->j + ai[i]; 1201 for (j=0; j<nz; j++){ 1202 *bj = aj[j]; bj++; 1203 } 1204 } 1205 1206 /* U part */ 1207 bi[n+1] = bi[n]; 1208 for (i=n-1; i>=0; i--){ 1209 nz = ai[i+1] - adiag[i] - 1; 1210 bi[2*n-i+1] = bi[2*n-i] + nz + 1; 1211 aj = a->j + adiag[i] + 1; 1212 for (j=0; j<nz; j++){ 1213 *bj = aj[j]; bj++; 1214 } 1215 /* diag[i] */ 1216 *bj = i; bj++; 1217 bdiag[i] = bi[2*n-i+1]-1; 1218 } 1219 PetscFunctionReturn(0); 1220 } 1221 1222 #undef __FUNCT__ 1223 #define __FUNCT__ "MatILUFactorSymbolic_SeqAIJ" 1224 PetscErrorCode MatILUFactorSymbolic_SeqAIJ(Mat fact,Mat A,IS isrow,IS iscol,const MatFactorInfo *info) 1225 { 1226 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data,*b; 1227 IS isicol; 1228 PetscErrorCode ierr; 1229 const PetscInt *r,*ic; 1230 PetscInt n=A->rmap->n,*ai=a->i,*aj=a->j,d; 1231 PetscInt *bi,*cols,nnz,*cols_lvl; 1232 PetscInt *bdiag,prow,fm,nzbd,reallocs=0,dcount=0; 1233 PetscInt i,levels,diagonal_fill; 1234 PetscTruth col_identity,row_identity; 1235 PetscReal f; 1236 PetscInt nlnk,*lnk,*lnk_lvl=PETSC_NULL; 1237 PetscBT lnkbt; 1238 PetscInt nzi,*bj,**bj_ptr,**bjlvl_ptr; 1239 PetscFreeSpaceList free_space=PETSC_NULL,current_space=PETSC_NULL; 1240 PetscFreeSpaceList free_space_lvl=PETSC_NULL,current_space_lvl=PETSC_NULL; 1241 PetscTruth missing; 1242 1243 PetscFunctionBegin; 1244 if (A->rmap->n != A->cmap->n) SETERRQ2(PETSC_ERR_ARG_WRONG,"Must be square matrix, rows %D columns %D",A->rmap->n,A->cmap->n); 1245 f = info->fill; 1246 levels = (PetscInt)info->levels; 1247 diagonal_fill = (PetscInt)info->diagonal_fill; 1248 ierr = ISInvertPermutation(iscol,PETSC_DECIDE,&isicol);CHKERRQ(ierr); 1249 1250 /* special case that simply copies fill pattern */ 1251 ierr = ISIdentity(isrow,&row_identity);CHKERRQ(ierr); 1252 ierr = ISIdentity(iscol,&col_identity);CHKERRQ(ierr); 1253 if (!levels && row_identity && col_identity) { 1254 1255 PetscTruth newdatastruct=PETSC_FALSE; 1256 ierr = PetscOptionsGetTruth(PETSC_NULL,"-ilu_new",&newdatastruct,PETSC_NULL);CHKERRQ(ierr); 1257 if (newdatastruct){ 1258 ierr = MatILUFactorSymbolic_SeqAIJ_ilu0_newdatastruct(fact,A,isrow,iscol,info);CHKERRQ(ierr); 1259 (fact)->ops->lufactornumeric = MatLUFactorNumeric_SeqAIJ_newdatastruct; 1260 } else { 1261 ierr = MatDuplicateNoCreate_SeqAIJ(fact,A,MAT_DO_NOT_COPY_VALUES);CHKERRQ(ierr); 1262 (fact)->ops->lufactornumeric = MatLUFactorNumeric_SeqAIJ; 1263 } 1264 1265 fact->factor = MAT_FACTOR_ILU; 1266 (fact)->info.factor_mallocs = 0; 1267 (fact)->info.fill_ratio_given = info->fill; 1268 (fact)->info.fill_ratio_needed = 1.0; 1269 b = (Mat_SeqAIJ*)(fact)->data; 1270 ierr = MatMissingDiagonal(A,&missing,&d);CHKERRQ(ierr); 1271 if (missing) SETERRQ1(PETSC_ERR_ARG_WRONGSTATE,"Matrix is missing diagonal entry %D",d); 1272 b->row = isrow; 1273 b->col = iscol; 1274 b->icol = isicol; 1275 ierr = PetscMalloc(((fact)->rmap->n+1)*sizeof(PetscScalar),&b->solve_work);CHKERRQ(ierr); 1276 ierr = PetscObjectReference((PetscObject)isrow);CHKERRQ(ierr); 1277 ierr = PetscObjectReference((PetscObject)iscol);CHKERRQ(ierr); 1278 ierr = MatILUFactorSymbolic_Inode(fact,A,isrow,iscol,info);CHKERRQ(ierr); 1279 PetscFunctionReturn(0); 1280 } 1281 1282 ierr = ISGetIndices(isrow,&r);CHKERRQ(ierr); 1283 ierr = ISGetIndices(isicol,&ic);CHKERRQ(ierr); 1284 1285 /* get new row pointers */ 1286 ierr = PetscMalloc((n+1)*sizeof(PetscInt),&bi);CHKERRQ(ierr); 1287 bi[0] = 0; 1288 /* bdiag is location of diagonal in factor */ 1289 ierr = PetscMalloc((n+1)*sizeof(PetscInt),&bdiag);CHKERRQ(ierr); 1290 bdiag[0] = 0; 1291 1292 ierr = PetscMalloc((2*n+1)*sizeof(PetscInt**),&bj_ptr);CHKERRQ(ierr); 1293 bjlvl_ptr = (PetscInt**)(bj_ptr + n); 1294 1295 /* create a linked list for storing column indices of the active row */ 1296 nlnk = n + 1; 1297 ierr = PetscIncompleteLLCreate(n,n,nlnk,lnk,lnk_lvl,lnkbt);CHKERRQ(ierr); 1298 1299 /* initial FreeSpace size is f*(ai[n]+1) */ 1300 ierr = PetscFreeSpaceGet((PetscInt)(f*(ai[n]+1)),&free_space);CHKERRQ(ierr); 1301 current_space = free_space; 1302 ierr = PetscFreeSpaceGet((PetscInt)(f*(ai[n]+1)),&free_space_lvl);CHKERRQ(ierr); 1303 current_space_lvl = free_space_lvl; 1304 1305 for (i=0; i<n; i++) { 1306 nzi = 0; 1307 /* copy current row into linked list */ 1308 nnz = ai[r[i]+1] - ai[r[i]]; 1309 if (!nnz) SETERRQ2(PETSC_ERR_MAT_LU_ZRPVT,"Empty row in matrix: row in original ordering %D in permuted ordering %D",r[i],i); 1310 cols = aj + ai[r[i]]; 1311 lnk[i] = -1; /* marker to indicate if diagonal exists */ 1312 ierr = PetscIncompleteLLInit(nnz,cols,n,ic,nlnk,lnk,lnk_lvl,lnkbt);CHKERRQ(ierr); 1313 nzi += nlnk; 1314 1315 /* make sure diagonal entry is included */ 1316 if (diagonal_fill && lnk[i] == -1) { 1317 fm = n; 1318 while (lnk[fm] < i) fm = lnk[fm]; 1319 lnk[i] = lnk[fm]; /* insert diagonal into linked list */ 1320 lnk[fm] = i; 1321 lnk_lvl[i] = 0; 1322 nzi++; dcount++; 1323 } 1324 1325 /* add pivot rows into the active row */ 1326 nzbd = 0; 1327 prow = lnk[n]; 1328 while (prow < i) { 1329 nnz = bdiag[prow]; 1330 cols = bj_ptr[prow] + nnz + 1; 1331 cols_lvl = bjlvl_ptr[prow] + nnz + 1; 1332 nnz = bi[prow+1] - bi[prow] - nnz - 1; 1333 ierr = PetscILULLAddSorted(nnz,cols,levels,cols_lvl,prow,nlnk,lnk,lnk_lvl,lnkbt,prow);CHKERRQ(ierr); 1334 nzi += nlnk; 1335 prow = lnk[prow]; 1336 nzbd++; 1337 } 1338 bdiag[i] = nzbd; 1339 bi[i+1] = bi[i] + nzi; 1340 1341 /* if free space is not available, make more free space */ 1342 if (current_space->local_remaining<nzi) { 1343 nnz = nzi*(n - i); /* estimated and max additional space needed */ 1344 ierr = PetscFreeSpaceGet(nnz,¤t_space);CHKERRQ(ierr); 1345 ierr = PetscFreeSpaceGet(nnz,¤t_space_lvl);CHKERRQ(ierr); 1346 reallocs++; 1347 } 1348 1349 /* copy data into free_space and free_space_lvl, then initialize lnk */ 1350 ierr = PetscIncompleteLLClean(n,n,nzi,lnk,lnk_lvl,current_space->array,current_space_lvl->array,lnkbt);CHKERRQ(ierr); 1351 bj_ptr[i] = current_space->array; 1352 bjlvl_ptr[i] = current_space_lvl->array; 1353 1354 /* make sure the active row i has diagonal entry */ 1355 if (*(bj_ptr[i]+bdiag[i]) != i) { 1356 SETERRQ1(PETSC_ERR_MAT_LU_ZRPVT,"Row %D has missing diagonal in factored matrix\n\ 1357 try running with -pc_factor_nonzeros_along_diagonal or -pc_factor_diagonal_fill",i); 1358 } 1359 1360 current_space->array += nzi; 1361 current_space->local_used += nzi; 1362 current_space->local_remaining -= nzi; 1363 current_space_lvl->array += nzi; 1364 current_space_lvl->local_used += nzi; 1365 current_space_lvl->local_remaining -= nzi; 1366 } 1367 1368 ierr = ISRestoreIndices(isrow,&r);CHKERRQ(ierr); 1369 ierr = ISRestoreIndices(isicol,&ic);CHKERRQ(ierr); 1370 1371 /* destroy list of free space and other temporary arrays */ 1372 ierr = PetscMalloc((bi[n]+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr); 1373 ierr = PetscFreeSpaceContiguous(&free_space,bj);CHKERRQ(ierr); 1374 ierr = PetscIncompleteLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 1375 ierr = PetscFreeSpaceDestroy(free_space_lvl);CHKERRQ(ierr); 1376 ierr = PetscFree(bj_ptr);CHKERRQ(ierr); 1377 1378 #if defined(PETSC_USE_INFO) 1379 { 1380 PetscReal af = ((PetscReal)bi[n])/((PetscReal)ai[n]); 1381 ierr = PetscInfo3(A,"Reallocs %D Fill ratio:given %G needed %G\n",reallocs,f,af);CHKERRQ(ierr); 1382 ierr = PetscInfo1(A,"Run with -[sub_]pc_factor_fill %G or use \n",af);CHKERRQ(ierr); 1383 ierr = PetscInfo1(A,"PCFactorSetFill([sub]pc,%G);\n",af);CHKERRQ(ierr); 1384 ierr = PetscInfo(A,"for best performance.\n");CHKERRQ(ierr); 1385 if (diagonal_fill) { 1386 ierr = PetscInfo1(A,"Detected and replaced %D missing diagonals",dcount);CHKERRQ(ierr); 1387 } 1388 } 1389 #endif 1390 1391 /* put together the new matrix */ 1392 ierr = MatSeqAIJSetPreallocation_SeqAIJ(fact,MAT_SKIP_ALLOCATION,PETSC_NULL);CHKERRQ(ierr); 1393 ierr = PetscLogObjectParent(fact,isicol);CHKERRQ(ierr); 1394 b = (Mat_SeqAIJ*)(fact)->data; 1395 b->free_a = PETSC_TRUE; 1396 b->free_ij = PETSC_TRUE; 1397 b->singlemalloc = PETSC_FALSE; 1398 ierr = PetscMalloc( (bi[n] )*sizeof(PetscScalar),&b->a);CHKERRQ(ierr); 1399 b->j = bj; 1400 b->i = bi; 1401 for (i=0; i<n; i++) bdiag[i] += bi[i]; 1402 b->diag = bdiag; 1403 b->ilen = 0; 1404 b->imax = 0; 1405 b->row = isrow; 1406 b->col = iscol; 1407 ierr = PetscObjectReference((PetscObject)isrow);CHKERRQ(ierr); 1408 ierr = PetscObjectReference((PetscObject)iscol);CHKERRQ(ierr); 1409 b->icol = isicol; 1410 ierr = PetscMalloc((n+1)*sizeof(PetscScalar),&b->solve_work);CHKERRQ(ierr); 1411 /* In b structure: Free imax, ilen, old a, old j. 1412 Allocate bdiag, solve_work, new a, new j */ 1413 ierr = PetscLogObjectMemory(fact,(bi[n]-n) * (sizeof(PetscInt)+sizeof(PetscScalar)));CHKERRQ(ierr); 1414 b->maxnz = b->nz = bi[n] ; 1415 (fact)->info.factor_mallocs = reallocs; 1416 (fact)->info.fill_ratio_given = f; 1417 (fact)->info.fill_ratio_needed = ((PetscReal)bi[n])/((PetscReal)ai[n]); 1418 (fact)->ops->lufactornumeric = MatLUFactorNumeric_SeqAIJ; 1419 ierr = MatILUFactorSymbolic_Inode(fact,A,isrow,iscol,info);CHKERRQ(ierr); 1420 PetscFunctionReturn(0); 1421 } 1422 1423 #include "../src/mat/impls/sbaij/seq/sbaij.h" 1424 #undef __FUNCT__ 1425 #define __FUNCT__ "MatCholeskyFactorNumeric_SeqAIJ" 1426 PetscErrorCode MatCholeskyFactorNumeric_SeqAIJ(Mat B,Mat A,const MatFactorInfo *info) 1427 { 1428 Mat C = B; 1429 Mat_SeqAIJ *a=(Mat_SeqAIJ*)A->data; 1430 Mat_SeqSBAIJ *b=(Mat_SeqSBAIJ*)C->data; 1431 IS ip=b->row,iip = b->icol; 1432 PetscErrorCode ierr; 1433 const PetscInt *rip,*riip; 1434 PetscInt i,j,mbs=A->rmap->n,*bi=b->i,*bj=b->j,*bcol; 1435 PetscInt *ai=a->i,*aj=a->j; 1436 PetscInt k,jmin,jmax,*jl,*il,col,nexti,ili,nz; 1437 MatScalar *rtmp,*ba=b->a,*bval,*aa=a->a,dk,uikdi; 1438 PetscReal zeropivot,rs,shiftnz; 1439 PetscReal shiftpd; 1440 ChShift_Ctx sctx; 1441 PetscInt newshift; 1442 PetscTruth perm_identity; 1443 1444 PetscFunctionBegin; 1445 1446 shiftnz = info->shiftnz; 1447 shiftpd = info->shiftpd; 1448 zeropivot = info->zeropivot; 1449 1450 ierr = ISGetIndices(ip,&rip);CHKERRQ(ierr); 1451 ierr = ISGetIndices(iip,&riip);CHKERRQ(ierr); 1452 1453 /* initialization */ 1454 nz = (2*mbs+1)*sizeof(PetscInt)+mbs*sizeof(MatScalar); 1455 ierr = PetscMalloc(nz,&il);CHKERRQ(ierr); 1456 jl = il + mbs; 1457 rtmp = (MatScalar*)(jl + mbs); 1458 1459 sctx.shift_amount = 0; 1460 sctx.nshift = 0; 1461 do { 1462 sctx.chshift = PETSC_FALSE; 1463 for (i=0; i<mbs; i++) { 1464 rtmp[i] = 0.0; jl[i] = mbs; il[0] = 0; 1465 } 1466 1467 for (k = 0; k<mbs; k++){ 1468 bval = ba + bi[k]; 1469 /* initialize k-th row by the perm[k]-th row of A */ 1470 jmin = ai[rip[k]]; jmax = ai[rip[k]+1]; 1471 for (j = jmin; j < jmax; j++){ 1472 col = riip[aj[j]]; 1473 if (col >= k){ /* only take upper triangular entry */ 1474 rtmp[col] = aa[j]; 1475 *bval++ = 0.0; /* for in-place factorization */ 1476 } 1477 } 1478 /* shift the diagonal of the matrix */ 1479 if (sctx.nshift) rtmp[k] += sctx.shift_amount; 1480 1481 /* modify k-th row by adding in those rows i with U(i,k)!=0 */ 1482 dk = rtmp[k]; 1483 i = jl[k]; /* first row to be added to k_th row */ 1484 1485 while (i < k){ 1486 nexti = jl[i]; /* next row to be added to k_th row */ 1487 1488 /* compute multiplier, update diag(k) and U(i,k) */ 1489 ili = il[i]; /* index of first nonzero element in U(i,k:bms-1) */ 1490 uikdi = - ba[ili]*ba[bi[i]]; /* diagonal(k) */ 1491 dk += uikdi*ba[ili]; 1492 ba[ili] = uikdi; /* -U(i,k) */ 1493 1494 /* add multiple of row i to k-th row */ 1495 jmin = ili + 1; jmax = bi[i+1]; 1496 if (jmin < jmax){ 1497 for (j=jmin; j<jmax; j++) rtmp[bj[j]] += uikdi*ba[j]; 1498 /* update il and jl for row i */ 1499 il[i] = jmin; 1500 j = bj[jmin]; jl[i] = jl[j]; jl[j] = i; 1501 } 1502 i = nexti; 1503 } 1504 1505 /* shift the diagonals when zero pivot is detected */ 1506 /* compute rs=sum of abs(off-diagonal) */ 1507 rs = 0.0; 1508 jmin = bi[k]+1; 1509 nz = bi[k+1] - jmin; 1510 bcol = bj + jmin; 1511 while (nz--){ 1512 rs += PetscAbsScalar(rtmp[*bcol]); 1513 bcol++; 1514 } 1515 1516 sctx.rs = rs; 1517 sctx.pv = dk; 1518 ierr = MatCholeskyCheckShift_inline(info,sctx,k,newshift);CHKERRQ(ierr); 1519 1520 if (newshift == 1) { 1521 if (!sctx.shift_amount) { 1522 sctx.shift_amount = 1e-5; 1523 } 1524 break; 1525 } 1526 1527 /* copy data into U(k,:) */ 1528 ba[bi[k]] = 1.0/dk; /* U(k,k) */ 1529 jmin = bi[k]+1; jmax = bi[k+1]; 1530 if (jmin < jmax) { 1531 for (j=jmin; j<jmax; j++){ 1532 col = bj[j]; ba[j] = rtmp[col]; rtmp[col] = 0.0; 1533 } 1534 /* add the k-th row into il and jl */ 1535 il[k] = jmin; 1536 i = bj[jmin]; jl[k] = jl[i]; jl[i] = k; 1537 } 1538 } 1539 } while (sctx.chshift); 1540 ierr = PetscFree(il);CHKERRQ(ierr); 1541 1542 ierr = ISRestoreIndices(ip,&rip);CHKERRQ(ierr); 1543 ierr = ISRestoreIndices(iip,&riip);CHKERRQ(ierr); 1544 1545 ierr = ISIdentity(ip,&perm_identity);CHKERRQ(ierr); 1546 if (perm_identity){ 1547 (B)->ops->solve = MatSolve_SeqSBAIJ_1_NaturalOrdering; 1548 (B)->ops->solvetranspose = MatSolve_SeqSBAIJ_1_NaturalOrdering; 1549 (B)->ops->forwardsolve = MatForwardSolve_SeqSBAIJ_1_NaturalOrdering; 1550 (B)->ops->backwardsolve = MatBackwardSolve_SeqSBAIJ_1_NaturalOrdering; 1551 } else { 1552 (B)->ops->solve = MatSolve_SeqSBAIJ_1; 1553 (B)->ops->solvetranspose = MatSolve_SeqSBAIJ_1; 1554 (B)->ops->forwardsolve = MatForwardSolve_SeqSBAIJ_1; 1555 (B)->ops->backwardsolve = MatBackwardSolve_SeqSBAIJ_1; 1556 } 1557 1558 C->assembled = PETSC_TRUE; 1559 C->preallocated = PETSC_TRUE; 1560 ierr = PetscLogFlops(C->rmap->n);CHKERRQ(ierr); 1561 if (sctx.nshift){ 1562 if (shiftnz) { 1563 ierr = PetscInfo2(A,"number of shiftnz tries %D, shift_amount %G\n",sctx.nshift,sctx.shift_amount);CHKERRQ(ierr); 1564 } else if (shiftpd) { 1565 ierr = PetscInfo2(A,"number of shiftpd tries %D, shift_amount %G\n",sctx.nshift,sctx.shift_amount);CHKERRQ(ierr); 1566 } 1567 } 1568 PetscFunctionReturn(0); 1569 } 1570 1571 #undef __FUNCT__ 1572 #define __FUNCT__ "MatICCFactorSymbolic_SeqAIJ" 1573 PetscErrorCode MatICCFactorSymbolic_SeqAIJ(Mat fact,Mat A,IS perm,const MatFactorInfo *info) 1574 { 1575 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 1576 Mat_SeqSBAIJ *b; 1577 PetscErrorCode ierr; 1578 PetscTruth perm_identity,missing; 1579 PetscInt reallocs=0,i,*ai=a->i,*aj=a->j,am=A->rmap->n,*ui; 1580 const PetscInt *rip,*riip; 1581 PetscInt jmin,jmax,nzk,k,j,*jl,prow,*il,nextprow; 1582 PetscInt nlnk,*lnk,*lnk_lvl=PETSC_NULL,d; 1583 PetscInt ncols,ncols_upper,*cols,*ajtmp,*uj,**uj_ptr,**uj_lvl_ptr; 1584 PetscReal fill=info->fill,levels=info->levels; 1585 PetscFreeSpaceList free_space=PETSC_NULL,current_space=PETSC_NULL; 1586 PetscFreeSpaceList free_space_lvl=PETSC_NULL,current_space_lvl=PETSC_NULL; 1587 PetscBT lnkbt; 1588 IS iperm; 1589 1590 PetscFunctionBegin; 1591 if (A->rmap->n != A->cmap->n) SETERRQ2(PETSC_ERR_ARG_WRONG,"Must be square matrix, rows %D columns %D",A->rmap->n,A->cmap->n); 1592 ierr = MatMissingDiagonal(A,&missing,&d);CHKERRQ(ierr); 1593 if (missing) SETERRQ1(PETSC_ERR_ARG_WRONGSTATE,"Matrix is missing diagonal entry %D",d); 1594 ierr = ISIdentity(perm,&perm_identity);CHKERRQ(ierr); 1595 ierr = ISInvertPermutation(perm,PETSC_DECIDE,&iperm);CHKERRQ(ierr); 1596 1597 ierr = PetscMalloc((am+1)*sizeof(PetscInt),&ui);CHKERRQ(ierr); 1598 ui[0] = 0; 1599 1600 /* ICC(0) without matrix ordering: simply copies fill pattern */ 1601 if (!levels && perm_identity) { 1602 1603 for (i=0; i<am; i++) { 1604 ui[i+1] = ui[i] + ai[i+1] - a->diag[i]; 1605 } 1606 ierr = PetscMalloc((ui[am]+1)*sizeof(PetscInt),&uj);CHKERRQ(ierr); 1607 cols = uj; 1608 for (i=0; i<am; i++) { 1609 aj = a->j + a->diag[i]; 1610 ncols = ui[i+1] - ui[i]; 1611 for (j=0; j<ncols; j++) *cols++ = *aj++; 1612 } 1613 } else { /* case: levels>0 || (levels=0 && !perm_identity) */ 1614 ierr = ISGetIndices(iperm,&riip);CHKERRQ(ierr); 1615 ierr = ISGetIndices(perm,&rip);CHKERRQ(ierr); 1616 1617 /* initialization */ 1618 ierr = PetscMalloc((am+1)*sizeof(PetscInt),&ajtmp);CHKERRQ(ierr); 1619 1620 /* jl: linked list for storing indices of the pivot rows 1621 il: il[i] points to the 1st nonzero entry of U(i,k:am-1) */ 1622 ierr = PetscMalloc((2*am+1)*sizeof(PetscInt)+2*am*sizeof(PetscInt**),&jl);CHKERRQ(ierr); 1623 il = jl + am; 1624 uj_ptr = (PetscInt**)(il + am); 1625 uj_lvl_ptr = (PetscInt**)(uj_ptr + am); 1626 for (i=0; i<am; i++){ 1627 jl[i] = am; il[i] = 0; 1628 } 1629 1630 /* create and initialize a linked list for storing column indices of the active row k */ 1631 nlnk = am + 1; 1632 ierr = PetscIncompleteLLCreate(am,am,nlnk,lnk,lnk_lvl,lnkbt);CHKERRQ(ierr); 1633 1634 /* initial FreeSpace size is fill*(ai[am]+1) */ 1635 ierr = PetscFreeSpaceGet((PetscInt)(fill*(ai[am]+1)),&free_space);CHKERRQ(ierr); 1636 current_space = free_space; 1637 ierr = PetscFreeSpaceGet((PetscInt)(fill*(ai[am]+1)),&free_space_lvl);CHKERRQ(ierr); 1638 current_space_lvl = free_space_lvl; 1639 1640 for (k=0; k<am; k++){ /* for each active row k */ 1641 /* initialize lnk by the column indices of row rip[k] of A */ 1642 nzk = 0; 1643 ncols = ai[rip[k]+1] - ai[rip[k]]; 1644 if (!ncols) SETERRQ2(PETSC_ERR_MAT_CH_ZRPVT,"Empty row in matrix: row in original ordering %D in permuted ordering %D",rip[k],k); 1645 ncols_upper = 0; 1646 for (j=0; j<ncols; j++){ 1647 i = *(aj + ai[rip[k]] + j); /* unpermuted column index */ 1648 if (riip[i] >= k){ /* only take upper triangular entry */ 1649 ajtmp[ncols_upper] = i; 1650 ncols_upper++; 1651 } 1652 } 1653 ierr = PetscIncompleteLLInit(ncols_upper,ajtmp,am,riip,nlnk,lnk,lnk_lvl,lnkbt);CHKERRQ(ierr); 1654 nzk += nlnk; 1655 1656 /* update lnk by computing fill-in for each pivot row to be merged in */ 1657 prow = jl[k]; /* 1st pivot row */ 1658 1659 while (prow < k){ 1660 nextprow = jl[prow]; 1661 1662 /* merge prow into k-th row */ 1663 jmin = il[prow] + 1; /* index of the 2nd nzero entry in U(prow,k:am-1) */ 1664 jmax = ui[prow+1]; 1665 ncols = jmax-jmin; 1666 i = jmin - ui[prow]; 1667 cols = uj_ptr[prow] + i; /* points to the 2nd nzero entry in U(prow,k:am-1) */ 1668 uj = uj_lvl_ptr[prow] + i; /* levels of cols */ 1669 j = *(uj - 1); 1670 ierr = PetscICCLLAddSorted(ncols,cols,levels,uj,am,nlnk,lnk,lnk_lvl,lnkbt,j);CHKERRQ(ierr); 1671 nzk += nlnk; 1672 1673 /* update il and jl for prow */ 1674 if (jmin < jmax){ 1675 il[prow] = jmin; 1676 j = *cols; jl[prow] = jl[j]; jl[j] = prow; 1677 } 1678 prow = nextprow; 1679 } 1680 1681 /* if free space is not available, make more free space */ 1682 if (current_space->local_remaining<nzk) { 1683 i = am - k + 1; /* num of unfactored rows */ 1684 i = PetscMin(i*nzk, i*(i-1)); /* i*nzk, i*(i-1): estimated and max additional space needed */ 1685 ierr = PetscFreeSpaceGet(i,¤t_space);CHKERRQ(ierr); 1686 ierr = PetscFreeSpaceGet(i,¤t_space_lvl);CHKERRQ(ierr); 1687 reallocs++; 1688 } 1689 1690 /* copy data into free_space and free_space_lvl, then initialize lnk */ 1691 if (nzk == 0) SETERRQ1(PETSC_ERR_ARG_WRONG,"Empty row %D in ICC matrix factor",k); 1692 ierr = PetscIncompleteLLClean(am,am,nzk,lnk,lnk_lvl,current_space->array,current_space_lvl->array,lnkbt);CHKERRQ(ierr); 1693 1694 /* add the k-th row into il and jl */ 1695 if (nzk > 1){ 1696 i = current_space->array[1]; /* col value of the first nonzero element in U(k, k+1:am-1) */ 1697 jl[k] = jl[i]; jl[i] = k; 1698 il[k] = ui[k] + 1; 1699 } 1700 uj_ptr[k] = current_space->array; 1701 uj_lvl_ptr[k] = current_space_lvl->array; 1702 1703 current_space->array += nzk; 1704 current_space->local_used += nzk; 1705 current_space->local_remaining -= nzk; 1706 1707 current_space_lvl->array += nzk; 1708 current_space_lvl->local_used += nzk; 1709 current_space_lvl->local_remaining -= nzk; 1710 1711 ui[k+1] = ui[k] + nzk; 1712 } 1713 1714 #if defined(PETSC_USE_INFO) 1715 if (ai[am] != 0) { 1716 PetscReal af = (PetscReal)ui[am]/((PetscReal)ai[am]); 1717 ierr = PetscInfo3(A,"Reallocs %D Fill ratio:given %G needed %G\n",reallocs,fill,af);CHKERRQ(ierr); 1718 ierr = PetscInfo1(A,"Run with -pc_factor_fill %G or use \n",af);CHKERRQ(ierr); 1719 ierr = PetscInfo1(A,"PCFactorSetFill(pc,%G) for best performance.\n",af);CHKERRQ(ierr); 1720 } else { 1721 ierr = PetscInfo(A,"Empty matrix.\n");CHKERRQ(ierr); 1722 } 1723 #endif 1724 1725 ierr = ISRestoreIndices(perm,&rip);CHKERRQ(ierr); 1726 ierr = ISRestoreIndices(iperm,&riip);CHKERRQ(ierr); 1727 ierr = PetscFree(jl);CHKERRQ(ierr); 1728 ierr = PetscFree(ajtmp);CHKERRQ(ierr); 1729 1730 /* destroy list of free space and other temporary array(s) */ 1731 ierr = PetscMalloc((ui[am]+1)*sizeof(PetscInt),&uj);CHKERRQ(ierr); 1732 ierr = PetscFreeSpaceContiguous(&free_space,uj);CHKERRQ(ierr); 1733 ierr = PetscIncompleteLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 1734 ierr = PetscFreeSpaceDestroy(free_space_lvl);CHKERRQ(ierr); 1735 1736 } /* end of case: levels>0 || (levels=0 && !perm_identity) */ 1737 1738 /* put together the new matrix in MATSEQSBAIJ format */ 1739 1740 b = (Mat_SeqSBAIJ*)(fact)->data; 1741 b->singlemalloc = PETSC_FALSE; 1742 ierr = PetscMalloc((ui[am]+1)*sizeof(MatScalar),&b->a);CHKERRQ(ierr); 1743 b->j = uj; 1744 b->i = ui; 1745 b->diag = 0; 1746 b->ilen = 0; 1747 b->imax = 0; 1748 b->row = perm; 1749 b->col = perm; 1750 ierr = PetscObjectReference((PetscObject)perm);CHKERRQ(ierr); 1751 ierr = PetscObjectReference((PetscObject)perm);CHKERRQ(ierr); 1752 b->icol = iperm; 1753 b->pivotinblocks = PETSC_FALSE; /* need to get from MatFactorInfo */ 1754 ierr = PetscMalloc((am+1)*sizeof(PetscScalar),&b->solve_work);CHKERRQ(ierr); 1755 ierr = PetscLogObjectMemory((fact),(ui[am]-am)*(sizeof(PetscInt)+sizeof(MatScalar)));CHKERRQ(ierr); 1756 b->maxnz = b->nz = ui[am]; 1757 b->free_a = PETSC_TRUE; 1758 b->free_ij = PETSC_TRUE; 1759 1760 (fact)->info.factor_mallocs = reallocs; 1761 (fact)->info.fill_ratio_given = fill; 1762 if (ai[am] != 0) { 1763 (fact)->info.fill_ratio_needed = ((PetscReal)ui[am])/((PetscReal)ai[am]); 1764 } else { 1765 (fact)->info.fill_ratio_needed = 0.0; 1766 } 1767 (fact)->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqAIJ; 1768 PetscFunctionReturn(0); 1769 } 1770 1771 #undef __FUNCT__ 1772 #define __FUNCT__ "MatCholeskyFactorSymbolic_SeqAIJ" 1773 PetscErrorCode MatCholeskyFactorSymbolic_SeqAIJ(Mat fact,Mat A,IS perm,const MatFactorInfo *info) 1774 { 1775 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 1776 Mat_SeqSBAIJ *b; 1777 PetscErrorCode ierr; 1778 PetscTruth perm_identity; 1779 PetscReal fill = info->fill; 1780 const PetscInt *rip,*riip; 1781 PetscInt i,am=A->rmap->n,*ai=a->i,*aj=a->j,reallocs=0,prow; 1782 PetscInt *jl,jmin,jmax,nzk,*ui,k,j,*il,nextprow; 1783 PetscInt nlnk,*lnk,ncols,ncols_upper,*cols,*uj,**ui_ptr,*uj_ptr; 1784 PetscFreeSpaceList free_space=PETSC_NULL,current_space=PETSC_NULL; 1785 PetscBT lnkbt; 1786 IS iperm; 1787 1788 PetscFunctionBegin; 1789 if (A->rmap->n != A->cmap->n) SETERRQ2(PETSC_ERR_ARG_WRONG,"Must be square matrix, rows %D columns %D",A->rmap->n,A->cmap->n); 1790 /* check whether perm is the identity mapping */ 1791 ierr = ISIdentity(perm,&perm_identity);CHKERRQ(ierr); 1792 ierr = ISInvertPermutation(perm,PETSC_DECIDE,&iperm);CHKERRQ(ierr); 1793 ierr = ISGetIndices(iperm,&riip);CHKERRQ(ierr); 1794 ierr = ISGetIndices(perm,&rip);CHKERRQ(ierr); 1795 1796 /* initialization */ 1797 ierr = PetscMalloc((am+1)*sizeof(PetscInt),&ui);CHKERRQ(ierr); 1798 ui[0] = 0; 1799 1800 /* jl: linked list for storing indices of the pivot rows 1801 il: il[i] points to the 1st nonzero entry of U(i,k:am-1) */ 1802 ierr = PetscMalloc((3*am+1)*sizeof(PetscInt)+am*sizeof(PetscInt**),&jl);CHKERRQ(ierr); 1803 il = jl + am; 1804 cols = il + am; 1805 ui_ptr = (PetscInt**)(cols + am); 1806 for (i=0; i<am; i++){ 1807 jl[i] = am; il[i] = 0; 1808 } 1809 1810 /* create and initialize a linked list for storing column indices of the active row k */ 1811 nlnk = am + 1; 1812 ierr = PetscLLCreate(am,am,nlnk,lnk,lnkbt);CHKERRQ(ierr); 1813 1814 /* initial FreeSpace size is fill*(ai[am]+1) */ 1815 ierr = PetscFreeSpaceGet((PetscInt)(fill*(ai[am]+1)),&free_space);CHKERRQ(ierr); 1816 current_space = free_space; 1817 1818 for (k=0; k<am; k++){ /* for each active row k */ 1819 /* initialize lnk by the column indices of row rip[k] of A */ 1820 nzk = 0; 1821 ncols = ai[rip[k]+1] - ai[rip[k]]; 1822 if (!ncols) SETERRQ2(PETSC_ERR_MAT_CH_ZRPVT,"Empty row in matrix: row in original ordering %D in permuted ordering %D",rip[k],k); 1823 ncols_upper = 0; 1824 for (j=0; j<ncols; j++){ 1825 i = riip[*(aj + ai[rip[k]] + j)]; 1826 if (i >= k){ /* only take upper triangular entry */ 1827 cols[ncols_upper] = i; 1828 ncols_upper++; 1829 } 1830 } 1831 ierr = PetscLLAdd(ncols_upper,cols,am,nlnk,lnk,lnkbt);CHKERRQ(ierr); 1832 nzk += nlnk; 1833 1834 /* update lnk by computing fill-in for each pivot row to be merged in */ 1835 prow = jl[k]; /* 1st pivot row */ 1836 1837 while (prow < k){ 1838 nextprow = jl[prow]; 1839 /* merge prow into k-th row */ 1840 jmin = il[prow] + 1; /* index of the 2nd nzero entry in U(prow,k:am-1) */ 1841 jmax = ui[prow+1]; 1842 ncols = jmax-jmin; 1843 uj_ptr = ui_ptr[prow] + jmin - ui[prow]; /* points to the 2nd nzero entry in U(prow,k:am-1) */ 1844 ierr = PetscLLAddSorted(ncols,uj_ptr,am,nlnk,lnk,lnkbt);CHKERRQ(ierr); 1845 nzk += nlnk; 1846 1847 /* update il and jl for prow */ 1848 if (jmin < jmax){ 1849 il[prow] = jmin; 1850 j = *uj_ptr; jl[prow] = jl[j]; jl[j] = prow; 1851 } 1852 prow = nextprow; 1853 } 1854 1855 /* if free space is not available, make more free space */ 1856 if (current_space->local_remaining<nzk) { 1857 i = am - k + 1; /* num of unfactored rows */ 1858 i = PetscMin(i*nzk, i*(i-1)); /* i*nzk, i*(i-1): estimated and max additional space needed */ 1859 ierr = PetscFreeSpaceGet(i,¤t_space);CHKERRQ(ierr); 1860 reallocs++; 1861 } 1862 1863 /* copy data into free space, then initialize lnk */ 1864 ierr = PetscLLClean(am,am,nzk,lnk,current_space->array,lnkbt);CHKERRQ(ierr); 1865 1866 /* add the k-th row into il and jl */ 1867 if (nzk-1 > 0){ 1868 i = current_space->array[1]; /* col value of the first nonzero element in U(k, k+1:am-1) */ 1869 jl[k] = jl[i]; jl[i] = k; 1870 il[k] = ui[k] + 1; 1871 } 1872 ui_ptr[k] = current_space->array; 1873 current_space->array += nzk; 1874 current_space->local_used += nzk; 1875 current_space->local_remaining -= nzk; 1876 1877 ui[k+1] = ui[k] + nzk; 1878 } 1879 1880 #if defined(PETSC_USE_INFO) 1881 if (ai[am] != 0) { 1882 PetscReal af = (PetscReal)(ui[am])/((PetscReal)ai[am]); 1883 ierr = PetscInfo3(A,"Reallocs %D Fill ratio:given %G needed %G\n",reallocs,fill,af);CHKERRQ(ierr); 1884 ierr = PetscInfo1(A,"Run with -pc_factor_fill %G or use \n",af);CHKERRQ(ierr); 1885 ierr = PetscInfo1(A,"PCFactorSetFill(pc,%G) for best performance.\n",af);CHKERRQ(ierr); 1886 } else { 1887 ierr = PetscInfo(A,"Empty matrix.\n");CHKERRQ(ierr); 1888 } 1889 #endif 1890 1891 ierr = ISRestoreIndices(perm,&rip);CHKERRQ(ierr); 1892 ierr = ISRestoreIndices(iperm,&riip);CHKERRQ(ierr); 1893 ierr = PetscFree(jl);CHKERRQ(ierr); 1894 1895 /* destroy list of free space and other temporary array(s) */ 1896 ierr = PetscMalloc((ui[am]+1)*sizeof(PetscInt),&uj);CHKERRQ(ierr); 1897 ierr = PetscFreeSpaceContiguous(&free_space,uj);CHKERRQ(ierr); 1898 ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 1899 1900 /* put together the new matrix in MATSEQSBAIJ format */ 1901 1902 b = (Mat_SeqSBAIJ*)(fact)->data; 1903 b->singlemalloc = PETSC_FALSE; 1904 b->free_a = PETSC_TRUE; 1905 b->free_ij = PETSC_TRUE; 1906 ierr = PetscMalloc((ui[am]+1)*sizeof(MatScalar),&b->a);CHKERRQ(ierr); 1907 b->j = uj; 1908 b->i = ui; 1909 b->diag = 0; 1910 b->ilen = 0; 1911 b->imax = 0; 1912 b->row = perm; 1913 b->col = perm; 1914 ierr = PetscObjectReference((PetscObject)perm);CHKERRQ(ierr); 1915 ierr = PetscObjectReference((PetscObject)perm);CHKERRQ(ierr); 1916 b->icol = iperm; 1917 b->pivotinblocks = PETSC_FALSE; /* need to get from MatFactorInfo */ 1918 ierr = PetscMalloc((am+1)*sizeof(PetscScalar),&b->solve_work);CHKERRQ(ierr); 1919 ierr = PetscLogObjectMemory(fact,(ui[am]-am)*(sizeof(PetscInt)+sizeof(MatScalar)));CHKERRQ(ierr); 1920 b->maxnz = b->nz = ui[am]; 1921 1922 (fact)->info.factor_mallocs = reallocs; 1923 (fact)->info.fill_ratio_given = fill; 1924 if (ai[am] != 0) { 1925 (fact)->info.fill_ratio_needed = ((PetscReal)ui[am])/((PetscReal)ai[am]); 1926 } else { 1927 (fact)->info.fill_ratio_needed = 0.0; 1928 } 1929 (fact)->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqAIJ; 1930 PetscFunctionReturn(0); 1931 } 1932 1933 #undef __FUNCT__ 1934 #define __FUNCT__ "MatSolve_SeqAIJ_NaturalOrdering_iludt" 1935 PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering_iludt(Mat A,Vec bb,Vec xx) 1936 { 1937 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 1938 PetscErrorCode ierr; 1939 PetscInt n = A->rmap->n; 1940 const PetscInt *ai = a->i,*aj = a->j,*vi; 1941 PetscScalar *x,sum; 1942 const PetscScalar *b; 1943 const MatScalar *aa = a->a,*v; 1944 PetscInt i,nz; 1945 1946 PetscFunctionBegin; 1947 if (!n) PetscFunctionReturn(0); 1948 1949 ierr = VecGetArray(bb,(PetscScalar**)&b);CHKERRQ(ierr); 1950 ierr = VecGetArray(xx,&x);CHKERRQ(ierr); 1951 1952 /* forward solve the lower triangular */ 1953 x[0] = b[0]; 1954 v = aa; 1955 vi = aj; 1956 for (i=1; i<n; i++) { 1957 nz = ai[i+1] - ai[i]; 1958 sum = b[i]; 1959 PetscSparseDenseMinusDot(sum,x,v,vi,nz); 1960 /* while (nz--) sum -= *v++ * x[*vi++];*/ 1961 v += nz; 1962 vi += nz; 1963 x[i] = sum; 1964 } 1965 1966 /* backward solve the upper triangular */ 1967 v = aa + ai[n+1]; 1968 vi = aj + ai[n+1]; 1969 for (i=n-1; i>=0; i--){ 1970 nz = ai[2*n-i +1] - ai[2*n-i]-1; 1971 sum = x[i]; 1972 PetscSparseDenseMinusDot(sum,x,v,vi,nz); 1973 /* while (nz--) sum -= *v++ * x[*vi++]; */ 1974 v += nz; 1975 vi += nz; vi++; 1976 x[i] = *v++ *sum; /* x[i]=aa[adiag[i]]*sum; v++; */ 1977 } 1978 1979 ierr = PetscLogFlops(2.0*a->nz - A->cmap->n);CHKERRQ(ierr); 1980 ierr = VecRestoreArray(bb,(PetscScalar**)&b);CHKERRQ(ierr); 1981 ierr = VecRestoreArray(xx,&x);CHKERRQ(ierr); 1982 PetscFunctionReturn(0); 1983 } 1984 1985 #undef __FUNCT__ 1986 #define __FUNCT__ "MatSolve_SeqAIJ_iludt" 1987 PetscErrorCode MatSolve_SeqAIJ_iludt(Mat A,Vec bb,Vec xx) 1988 { 1989 Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 1990 IS iscol = a->col,isrow = a->row; 1991 PetscErrorCode ierr; 1992 PetscInt i,n=A->rmap->n,*vi,*ai = a->i,*aj = a->j,*adiag=a->diag; 1993 PetscInt nz; 1994 const PetscInt *rout,*cout,*r,*c; 1995 PetscScalar *x,*tmp,*tmps; 1996 const PetscScalar *b; 1997 const MatScalar *aa = a->a,*v; 1998 1999 PetscFunctionBegin; 2000 if (!n) PetscFunctionReturn(0); 2001 2002 ierr = VecGetArray(bb,(PetscScalar**)&b);CHKERRQ(ierr); 2003 ierr = VecGetArray(xx,&x);CHKERRQ(ierr); 2004 tmp = a->solve_work; 2005 2006 ierr = ISGetIndices(isrow,&rout);CHKERRQ(ierr); r = rout; 2007 ierr = ISGetIndices(iscol,&cout);CHKERRQ(ierr); c = cout + (n-1); 2008 2009 /* forward solve the lower triangular */ 2010 tmp[0] = b[*r++]; 2011 tmps = tmp; 2012 v = aa; 2013 vi = aj; 2014 for (i=1; i<n; i++) { 2015 nz = ai[i+1] - ai[i]; 2016 tmp[i] = b[*r++]; 2017 PetscSparseDenseMinusDot(tmp[i],tmps,v,vi,nz); 2018 v += nz; vi += nz; 2019 } 2020 2021 /* backward solve the upper triangular */ 2022 v = aa + adiag[n] + 1; 2023 vi = aj + adiag[n] + 1; 2024 for (i=n-1; i>=0; i--){ 2025 nz = adiag[i] - adiag[i+1] - 1; 2026 PetscSparseDenseMinusDot(tmp[i],tmps,v,vi,nz); 2027 x[*c--] = tmp[i] = tmp[i]*aa[adiag[i]]; 2028 v += nz+1; vi += nz+1; 2029 } 2030 2031 ierr = ISRestoreIndices(isrow,&rout);CHKERRQ(ierr); 2032 ierr = ISRestoreIndices(iscol,&cout);CHKERRQ(ierr); 2033 ierr = VecRestoreArray(bb,(PetscScalar**)&b);CHKERRQ(ierr); 2034 ierr = VecRestoreArray(xx,&x);CHKERRQ(ierr); 2035 ierr = PetscLogFlops(2*a->nz - A->cmap->n);CHKERRQ(ierr); 2036 PetscFunctionReturn(0); 2037 } 2038 2039 #undef __FUNCT__ 2040 #define __FUNCT__ "MatILUDTFactor_SeqAIJ" 2041 PetscErrorCode MatILUDTFactor_SeqAIJ(Mat A,IS isrow,IS iscol,const MatFactorInfo *info,Mat *fact) 2042 { 2043 Mat B = *fact; 2044 Mat_SeqAIJ *a=(Mat_SeqAIJ*)A->data,*b; 2045 IS isicol; 2046 PetscErrorCode ierr; 2047 const PetscInt *r,*ic; 2048 PetscInt i,n=A->rmap->n,*ai=a->i,*aj=a->j,*ajtmp,*adiag; 2049 PetscInt *bi,*bj,*bdiag,*bdiag_rev; 2050 PetscInt row,nzi,nzi_bl,nzi_bu,*im,dtcount,nzi_al,nzi_au; 2051 PetscInt nlnk,*lnk; 2052 PetscBT lnkbt; 2053 PetscTruth row_identity,icol_identity,both_identity; 2054 MatScalar *aatmp,*pv,*batmp,*ba,*rtmp,*pc,multiplier,*vtmp,diag_tmp; 2055 const PetscInt *ics; 2056 PetscInt j,nz,*pj,*bjtmp,k,ncut,*jtmp; 2057 PetscReal dt=info->dt,shift=info->shiftinblocks; 2058 PetscInt nnz_max; 2059 PetscTruth missing; 2060 2061 PetscFunctionBegin; 2062 /* ------- symbolic factorization, can be reused ---------*/ 2063 ierr = MatMissingDiagonal(A,&missing,&i);CHKERRQ(ierr); 2064 if (missing) SETERRQ1(PETSC_ERR_ARG_WRONGSTATE,"Matrix is missing diagonal entry %D",i); 2065 adiag=a->diag; 2066 2067 ierr = ISInvertPermutation(iscol,PETSC_DECIDE,&isicol);CHKERRQ(ierr); 2068 2069 /* bdiag is location of diagonal in factor */ 2070 ierr = PetscMalloc((2*n+2)*sizeof(PetscInt),&bdiag);CHKERRQ(ierr); 2071 bdiag_rev = bdiag + n+1; 2072 2073 /* allocate row pointers bi */ 2074 ierr = PetscMalloc((2*n+2)*sizeof(PetscInt),&bi);CHKERRQ(ierr); 2075 2076 /* allocate bj and ba; max num of nonzero entries is (ai[n]+2*n*dtcount+2) */ 2077 dtcount = (PetscInt)info->dtcount; 2078 if (dtcount > n-1) dtcount = n-1; /* diagonal is excluded */ 2079 nnz_max = ai[n]+2*n*dtcount+2; 2080 2081 ierr = PetscMalloc((nnz_max+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr); 2082 ierr = PetscMalloc((nnz_max+1)*sizeof(MatScalar),&ba);CHKERRQ(ierr); 2083 2084 /* put together the new matrix */ 2085 ierr = MatSeqAIJSetPreallocation_SeqAIJ(B,MAT_SKIP_ALLOCATION,PETSC_NULL);CHKERRQ(ierr); 2086 ierr = PetscLogObjectParent(B,isicol);CHKERRQ(ierr); 2087 b = (Mat_SeqAIJ*)(B)->data; 2088 b->free_a = PETSC_TRUE; 2089 b->free_ij = PETSC_TRUE; 2090 b->singlemalloc = PETSC_FALSE; 2091 b->a = ba; 2092 b->j = bj; 2093 b->i = bi; 2094 b->diag = bdiag; 2095 b->ilen = 0; 2096 b->imax = 0; 2097 b->row = isrow; 2098 b->col = iscol; 2099 ierr = PetscObjectReference((PetscObject)isrow);CHKERRQ(ierr); 2100 ierr = PetscObjectReference((PetscObject)iscol);CHKERRQ(ierr); 2101 b->icol = isicol; 2102 ierr = PetscMalloc((n+1)*sizeof(PetscScalar),&b->solve_work);CHKERRQ(ierr); 2103 2104 ierr = PetscLogObjectMemory(B,nnz_max*(sizeof(PetscInt)+sizeof(MatScalar)));CHKERRQ(ierr); 2105 b->maxnz = nnz_max; 2106 2107 (B)->factor = MAT_FACTOR_ILUDT; 2108 (B)->info.factor_mallocs = 0; 2109 (B)->info.fill_ratio_given = ((PetscReal)nnz_max)/((PetscReal)ai[n]); 2110 CHKMEMQ; 2111 /* ------- end of symbolic factorization ---------*/ 2112 2113 ierr = ISGetIndices(isrow,&r);CHKERRQ(ierr); 2114 ierr = ISGetIndices(isicol,&ic);CHKERRQ(ierr); 2115 ics = ic; 2116 2117 /* linked list for storing column indices of the active row */ 2118 nlnk = n + 1; 2119 ierr = PetscLLCreate(n,n,nlnk,lnk,lnkbt);CHKERRQ(ierr); 2120 2121 /* im: used by PetscLLAddSortedLU(); jtmp: working array for column indices of active row */ 2122 ierr = PetscMalloc((2*n+1)*sizeof(PetscInt),&im);CHKERRQ(ierr); 2123 jtmp = im + n; 2124 /* rtmp, vtmp: working arrays for sparse and contiguous row entries of active row */ 2125 ierr = PetscMalloc((2*n+1)*sizeof(MatScalar),&rtmp);CHKERRQ(ierr); 2126 ierr = PetscMemzero(rtmp,(n+1)*sizeof(PetscScalar));CHKERRQ(ierr); 2127 vtmp = rtmp + n; 2128 2129 bi[0] = 0; 2130 bdiag[0] = nnz_max-1; /* location of diag[0] in factor B */ 2131 bdiag_rev[n] = bdiag[0]; 2132 bi[2*n+1] = bdiag[0]+1; /* endof bj and ba array */ 2133 for (i=0; i<n; i++) { 2134 /* copy initial fill into linked list */ 2135 nzi = 0; /* nonzeros for active row i */ 2136 nzi = ai[r[i]+1] - ai[r[i]]; 2137 if (!nzi) SETERRQ2(PETSC_ERR_MAT_LU_ZRPVT,"Empty row in matrix: row in original ordering %D in permuted ordering %D",r[i],i); 2138 nzi_al = adiag[r[i]] - ai[r[i]]; 2139 nzi_au = ai[r[i]+1] - adiag[r[i]] -1; 2140 ajtmp = aj + ai[r[i]]; 2141 ierr = PetscLLAddPerm(nzi,ajtmp,ic,n,nlnk,lnk,lnkbt);CHKERRQ(ierr); 2142 2143 /* load in initial (unfactored row) */ 2144 aatmp = a->a + ai[r[i]]; 2145 for (j=0; j<nzi; j++) { 2146 rtmp[ics[*ajtmp++]] = *aatmp++; 2147 } 2148 2149 /* add pivot rows into linked list */ 2150 row = lnk[n]; 2151 while (row < i ) { 2152 nzi_bl = bi[row+1] - bi[row] + 1; 2153 bjtmp = bj + bdiag[row+1]+1; /* points to 1st column next to the diagonal in U */ 2154 ierr = PetscLLAddSortedLU(bjtmp,row,nlnk,lnk,lnkbt,i,nzi_bl,im);CHKERRQ(ierr); 2155 nzi += nlnk; 2156 row = lnk[row]; 2157 } 2158 2159 /* copy data from lnk into jtmp, then initialize lnk */ 2160 ierr = PetscLLClean(n,n,nzi,lnk,jtmp,lnkbt);CHKERRQ(ierr); 2161 2162 /* numerical factorization */ 2163 bjtmp = jtmp; 2164 row = *bjtmp++; /* 1st pivot row */ 2165 while ( row < i ) { 2166 pc = rtmp + row; 2167 pv = ba + bdiag[row]; /* 1./(diag of the pivot row) */ 2168 multiplier = (*pc) * (*pv); 2169 *pc = multiplier; 2170 if (PetscAbsScalar(*pc) > dt){ /* apply tolerance dropping rule */ 2171 pj = bj + bdiag[row+1] + 1; /* point to 1st entry of U(row,:) */ 2172 pv = ba + bdiag[row+1] + 1; 2173 /* if (multiplier < -1.0 or multiplier >1.0) printf("row/prow %d, %d, multiplier %g\n",i,row,multiplier); */ 2174 nz = bdiag[row] - bdiag[row+1] - 1; /* num of entries in U(row,:), excluding diagonal */ 2175 for (j=0; j<nz; j++) rtmp[*pj++] -= multiplier * (*pv++); 2176 ierr = PetscLogFlops(2.0*nz);CHKERRQ(ierr); 2177 } 2178 row = *bjtmp++; 2179 } 2180 2181 /* copy sparse rtmp into contiguous vtmp; separate L and U part */ 2182 diag_tmp = rtmp[i]; /* save diagonal value - may not needed?? */ 2183 nzi_bl = 0; j = 0; 2184 while (jtmp[j] < i){ /* Note: jtmp is sorted */ 2185 vtmp[j] = rtmp[jtmp[j]]; rtmp[jtmp[j]]=0.0; 2186 nzi_bl++; j++; 2187 } 2188 nzi_bu = nzi - nzi_bl -1; 2189 while (j < nzi){ 2190 vtmp[j] = rtmp[jtmp[j]]; rtmp[jtmp[j]]=0.0; 2191 j++; 2192 } 2193 2194 bjtmp = bj + bi[i]; 2195 batmp = ba + bi[i]; 2196 /* apply level dropping rule to L part */ 2197 ncut = nzi_al + dtcount; 2198 if (ncut < nzi_bl){ 2199 ierr = PetscSortSplit(ncut,nzi_bl,vtmp,jtmp);CHKERRQ(ierr); 2200 ierr = PetscSortIntWithScalarArray(ncut,jtmp,vtmp);CHKERRQ(ierr); 2201 } else { 2202 ncut = nzi_bl; 2203 } 2204 for (j=0; j<ncut; j++){ 2205 bjtmp[j] = jtmp[j]; 2206 batmp[j] = vtmp[j]; 2207 /* printf(" (%d,%g),",bjtmp[j],batmp[j]); */ 2208 } 2209 bi[i+1] = bi[i] + ncut; 2210 nzi = ncut + 1; 2211 2212 /* apply level dropping rule to U part */ 2213 ncut = nzi_au + dtcount; 2214 if (ncut < nzi_bu){ 2215 ierr = PetscSortSplit(ncut,nzi_bu,vtmp+nzi_bl+1,jtmp+nzi_bl+1);CHKERRQ(ierr); 2216 ierr = PetscSortIntWithScalarArray(ncut,jtmp+nzi_bl+1,vtmp+nzi_bl+1);CHKERRQ(ierr); 2217 } else { 2218 ncut = nzi_bu; 2219 } 2220 nzi += ncut; 2221 2222 /* mark bdiagonal */ 2223 bdiag[i+1] = bdiag[i] - (ncut + 1); 2224 bdiag_rev[n-i-1] = bdiag[i+1]; 2225 bi[2*n - i] = bi[2*n - i +1] - (ncut + 1); 2226 bjtmp = bj + bdiag[i]; 2227 batmp = ba + bdiag[i]; 2228 *bjtmp = i; 2229 *batmp = diag_tmp; /* rtmp[i]; */ 2230 if (*batmp == 0.0) { 2231 *batmp = dt+shift; 2232 /* printf(" row %d add shift %g\n",i,shift); */ 2233 } 2234 *batmp = 1.0/(*batmp); /* invert diagonal entries for simplier triangular solves */ 2235 /* printf(" (%d,%g),",*bjtmp,*batmp); */ 2236 2237 bjtmp = bj + bdiag[i+1]+1; 2238 batmp = ba + bdiag[i+1]+1; 2239 for (k=0; k<ncut; k++){ 2240 bjtmp[k] = jtmp[nzi_bl+1+k]; 2241 batmp[k] = vtmp[nzi_bl+1+k]; 2242 /* printf(" (%d,%g),",bjtmp[k],batmp[k]); */ 2243 } 2244 /* printf("\n"); */ 2245 2246 im[i] = nzi; /* used by PetscLLAddSortedLU() */ 2247 /* 2248 printf("row %d: bi %d, bdiag %d\n",i,bi[i],bdiag[i]); 2249 printf(" ----------------------------\n"); 2250 */ 2251 } /* for (i=0; i<n; i++) */ 2252 /* printf("end of L %d, beginning of U %d\n",bi[n],bdiag[n]); */ 2253 if (bi[n] >= bdiag[n]) SETERRQ2(PETSC_ERR_ARG_SIZ,"end of L array %d cannot >= the beginning of U array %d",bi[n],bdiag[n]); 2254 2255 ierr = ISRestoreIndices(isrow,&r);CHKERRQ(ierr); 2256 ierr = ISRestoreIndices(isicol,&ic);CHKERRQ(ierr); 2257 2258 ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 2259 ierr = PetscFree(im);CHKERRQ(ierr); 2260 ierr = PetscFree(rtmp);CHKERRQ(ierr); 2261 2262 ierr = PetscLogFlops(B->cmap->n);CHKERRQ(ierr); 2263 b->maxnz = b->nz = bi[n] + bdiag[0] - bdiag[n]; 2264 2265 ierr = ISIdentity(isrow,&row_identity);CHKERRQ(ierr); 2266 ierr = ISIdentity(isicol,&icol_identity);CHKERRQ(ierr); 2267 both_identity = (PetscTruth) (row_identity && icol_identity); 2268 if (row_identity && icol_identity) { 2269 B->ops->solve = MatSolve_SeqAIJ_NaturalOrdering_iludt; 2270 } else { 2271 B->ops->solve = MatSolve_SeqAIJ_iludt; 2272 } 2273 2274 B->ops->lufactorsymbolic = MatILUDTFactorSymbolic_SeqAIJ; 2275 B->ops->lufactornumeric = MatILUDTFactorNumeric_SeqAIJ; 2276 B->ops->solveadd = 0; 2277 B->ops->solvetranspose = 0; 2278 B->ops->solvetransposeadd = 0; 2279 B->ops->matsolve = 0; 2280 B->assembled = PETSC_TRUE; 2281 B->preallocated = PETSC_TRUE; 2282 PetscFunctionReturn(0); 2283 } 2284 2285 /* a wraper of MatILUDTFactor_SeqAIJ() */ 2286 #undef __FUNCT__ 2287 #define __FUNCT__ "MatILUDTFactorSymbolic_SeqAIJ" 2288 PetscErrorCode PETSCMAT_DLLEXPORT MatILUDTFactorSymbolic_SeqAIJ(Mat fact,Mat A,IS row,IS col,const MatFactorInfo *info) 2289 { 2290 PetscErrorCode ierr; 2291 2292 PetscFunctionBegin; 2293 ierr = MatILUDTFactor_SeqAIJ(A,row,col,info,&fact);CHKERRQ(ierr); 2294 2295 fact->ops->lufactornumeric = MatILUDTFactorNumeric_SeqAIJ; 2296 PetscFunctionReturn(0); 2297 } 2298 2299 /* 2300 same as MatLUFactorNumeric_SeqAIJ(), except using contiguous array matrix factors 2301 - intend to replace existing MatLUFactorNumeric_SeqAIJ() 2302 */ 2303 #undef __FUNCT__ 2304 #define __FUNCT__ "MatILUDTFactorNumeric_SeqAIJ" 2305 PetscErrorCode PETSCMAT_DLLEXPORT MatILUDTFactorNumeric_SeqAIJ(Mat fact,Mat A,const MatFactorInfo *info) 2306 { 2307 Mat C=fact; 2308 Mat_SeqAIJ *a=(Mat_SeqAIJ*)A->data,*b=(Mat_SeqAIJ *)C->data; 2309 IS isrow = b->row,isicol = b->icol; 2310 PetscErrorCode ierr; 2311 const PetscInt *r,*ic,*ics; 2312 PetscInt i,j,k,n=A->rmap->n,*ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j; 2313 PetscInt *ajtmp,*bjtmp,nz,nzl,nzu,row,*bdiag = b->diag,*pj; 2314 MatScalar *rtmp,*pc,multiplier,*v,*pv,*aa=a->a; 2315 PetscReal dt=info->dt,shift=info->shiftinblocks; 2316 PetscTruth row_identity, col_identity; 2317 2318 PetscFunctionBegin; 2319 ierr = ISGetIndices(isrow,&r);CHKERRQ(ierr); 2320 ierr = ISGetIndices(isicol,&ic);CHKERRQ(ierr); 2321 ierr = PetscMalloc((n+1)*sizeof(MatScalar),&rtmp);CHKERRQ(ierr); 2322 ics = ic; 2323 2324 for (i=0; i<n; i++){ 2325 /* initialize rtmp array */ 2326 nzl = bi[i+1] - bi[i]; /* num of nozeros in L(i,:) */ 2327 bjtmp = bj + bi[i]; 2328 for (j=0; j<nzl; j++) rtmp[*bjtmp++] = 0.0; 2329 rtmp[i] = 0.0; 2330 nzu = bdiag[i] - bdiag[i+1]; /* num of nozeros in U(i,:) */ 2331 bjtmp = bj + bdiag[i+1] + 1; 2332 for (j=0; j<nzu; j++) rtmp[*bjtmp++] = 0.0; 2333 2334 /* load in initial unfactored row of A */ 2335 /* printf("row %d\n",i); */ 2336 nz = ai[r[i]+1] - ai[r[i]]; 2337 ajtmp = aj + ai[r[i]]; 2338 v = aa + ai[r[i]]; 2339 for (j=0; j<nz; j++) { 2340 rtmp[ics[*ajtmp++]] = v[j]; 2341 /* printf(" (%d,%g),",ics[ajtmp[j]],rtmp[ics[ajtmp[j]]]); */ 2342 } 2343 /* printf("\n"); */ 2344 2345 /* numerical factorization */ 2346 bjtmp = bj + bi[i]; /* point to 1st entry of L(i,:) */ 2347 nzl = bi[i+1] - bi[i]; /* num of entries in L(i,:) */ 2348 k = 0; 2349 while (k < nzl){ 2350 row = *bjtmp++; 2351 /* printf(" prow %d\n",row); */ 2352 pc = rtmp + row; 2353 pv = b->a + bdiag[row]; /* 1./(diag of the pivot row) */ 2354 multiplier = (*pc) * (*pv); 2355 *pc = multiplier; 2356 if (PetscAbsScalar(multiplier) > dt){ 2357 pj = bj + bdiag[row+1] + 1; /* point to 1st entry of U(row,:) */ 2358 pv = b->a + bdiag[row+1] + 1; 2359 nz = bdiag[row] - bdiag[row+1] - 1; /* num of entries in U(row,:), excluding diagonal */ 2360 for (j=0; j<nz; j++) rtmp[*pj++] -= multiplier * (*pv++); 2361 /* ierr = PetscLogFlops(2.0*nz);CHKERRQ(ierr); */ 2362 } 2363 k++; 2364 } 2365 2366 /* finished row so stick it into b->a */ 2367 /* L-part */ 2368 pv = b->a + bi[i] ; 2369 pj = bj + bi[i] ; 2370 nzl = bi[i+1] - bi[i]; 2371 for (j=0; j<nzl; j++) { 2372 pv[j] = rtmp[pj[j]]; 2373 /* printf(" (%d,%g),",pj[j],pv[j]); */ 2374 } 2375 2376 /* diagonal: invert diagonal entries for simplier triangular solves */ 2377 if (rtmp[i] == 0.0) rtmp[i] = dt+shift; 2378 b->a[bdiag[i]] = 1.0/rtmp[i]; 2379 /* printf(" (%d,%g),",i,b->a[bdiag[i]]); */ 2380 2381 /* U-part */ 2382 pv = b->a + bdiag[i+1] + 1; 2383 pj = bj + bdiag[i+1] + 1; 2384 nzu = bdiag[i] - bdiag[i+1] - 1; 2385 for (j=0; j<nzu; j++) { 2386 pv[j] = rtmp[pj[j]]; 2387 /* printf(" (%d,%g),",pj[j],pv[j]); */ 2388 } 2389 /* printf("\n"); */ 2390 } 2391 2392 ierr = PetscFree(rtmp);CHKERRQ(ierr); 2393 ierr = ISRestoreIndices(isicol,&ic);CHKERRQ(ierr); 2394 ierr = ISRestoreIndices(isrow,&r);CHKERRQ(ierr); 2395 2396 ierr = ISIdentity(isrow,&row_identity);CHKERRQ(ierr); 2397 ierr = ISIdentity(isicol,&col_identity);CHKERRQ(ierr); 2398 if (row_identity && col_identity) { 2399 C->ops->solve = MatSolve_SeqAIJ_NaturalOrdering_iludt; 2400 } else { 2401 C->ops->solve = MatSolve_SeqAIJ_iludt; 2402 } 2403 C->ops->solveadd = 0; 2404 C->ops->solvetranspose = 0; 2405 C->ops->solvetransposeadd = 0; 2406 C->ops->matsolve = 0; 2407 C->assembled = PETSC_TRUE; 2408 C->preallocated = PETSC_TRUE; 2409 ierr = PetscLogFlops(C->cmap->n);CHKERRQ(ierr); 2410 PetscFunctionReturn(0); 2411 } 2412