1 2 #if !defined(__AIJ_H) 3 #define __AIJ_H 4 5 #include "private/matimpl.h" 6 7 /* 8 Struct header shared by SeqAIJ, SeqBAIJ and SeqSBAIJ matrix formats 9 */ 10 #define SEQAIJHEADER(datatype) \ 11 PetscTruth roworiented; /* if true, row-oriented input, default */\ 12 PetscInt nonew; /* 1 don't add new nonzeros, -1 generate error on new */\ 13 PetscInt nounused; /* -1 generate error on unused space */\ 14 PetscTruth singlemalloc; /* if true a, i, and j have been obtained with one big malloc */\ 15 PetscInt maxnz; /* allocated nonzeros */\ 16 PetscInt *imax; /* maximum space allocated for each row */\ 17 PetscInt *ilen; /* actual length of each row */\ 18 PetscTruth free_imax_ilen; \ 19 PetscInt reallocs; /* number of mallocs done during MatSetValues() \ 20 as more values are set than were prealloced */\ 21 PetscInt rmax; /* max nonzeros in any row */\ 22 PetscTruth keepnonzeropattern; /* keeps matrix structure same in calls to MatZeroRows()*/\ 23 PetscTruth ignorezeroentries; \ 24 PetscInt *xtoy,*xtoyB; /* map nonzero pattern of X into Y's, used by MatAXPY() */\ 25 Mat XtoY; /* used by MatAXPY() */\ 26 PetscTruth free_ij; /* free the column indices j and row offsets i when the matrix is destroyed */ \ 27 PetscTruth free_a; /* free the numerical values when matrix is destroy */ \ 28 Mat_CompressedRow compressedrow; /* use compressed row format */ \ 29 PetscInt nz; /* nonzeros */ \ 30 PetscInt *i; /* pointer to beginning of each row */ \ 31 PetscInt *j; /* column values: j + i[k] - 1 is start of row k */ \ 32 PetscInt *diag; /* pointers to diagonal elements */ \ 33 PetscTruth free_diag; \ 34 datatype *a; /* nonzero elements */ \ 35 PetscScalar *solve_work; /* work space used in MatSolve */ \ 36 IS row, col, icol; /* index sets, used for reorderings */ \ 37 PetscTruth pivotinblocks; /* pivot inside factorization of each diagonal block */ \ 38 Mat parent /* set if this matrix was formed with MatDuplicate(...,MAT_SHARE_NONZERO_PATTERN,....); 39 means that this shares some data structures with the parent including diag, ilen, imax, i, j */ 40 41 /* 42 MATSEQAIJ format - Compressed row storage (also called Yale sparse matrix 43 format) or compressed sparse row (CSR). The i[] and j[] arrays start at 0. For example, 44 j[i[k]+p] is the pth column in row k. Note that the diagonal 45 matrix elements are stored with the rest of the nonzeros (not separately). 46 */ 47 48 /* Info about i-nodes (identical nodes) helper class for SeqAIJ */ 49 typedef struct { 50 MatScalar *bdiag,*ibdiag,*ssor_work; /* diagonal blocks of matrix used for MatSOR_SeqAIJ_Inode() */ 51 PetscInt bdiagsize; /* length of bdiag and ibdiag */ 52 PetscTruth ibdiagvalid; /* do ibdiag[] and bdiag[] contain the most recent values */ 53 54 PetscTruth use; 55 PetscInt node_count; /* number of inodes */ 56 PetscInt *size; /* size of each inode */ 57 PetscInt limit; /* inode limit */ 58 PetscInt max_limit; /* maximum supported inode limit */ 59 PetscTruth checked; /* if inodes have been checked for */ 60 } Mat_SeqAIJ_Inode; 61 62 EXTERN PetscErrorCode MatView_SeqAIJ_Inode(Mat,PetscViewer); 63 EXTERN PetscErrorCode MatAssemblyEnd_SeqAIJ_Inode(Mat,MatAssemblyType); 64 EXTERN PetscErrorCode MatDestroy_SeqAIJ_Inode(Mat); 65 EXTERN PetscErrorCode MatCreate_SeqAIJ_Inode(Mat); 66 EXTERN PetscErrorCode MatSetOption_SeqAIJ_Inode(Mat,MatOption,PetscTruth); 67 EXTERN PetscErrorCode MatDuplicate_SeqAIJ_Inode(Mat,MatDuplicateOption,Mat*); 68 EXTERN PetscErrorCode MatILUDTFactor_SeqAIJ_Inode(Mat,IS,IS,const MatFactorInfo*,Mat*); 69 EXTERN PetscErrorCode MatLUFactorSymbolic_SeqAIJ_Inode(Mat,Mat,IS,IS,const MatFactorInfo*); 70 EXTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ_Inode(Mat,Mat,IS,IS,const MatFactorInfo*); 71 72 typedef struct { 73 SEQAIJHEADER(MatScalar); 74 Mat_SeqAIJ_Inode inode; 75 MatScalar *saved_values; /* location for stashing nonzero values of matrix */ 76 77 PetscScalar *idiag,*mdiag,*ssor_work; /* inverse of diagonal entries, diagonal values and workspace for Eisenstat trick */ 78 PetscTruth idiagvalid; /* current idiag[] and mdiag[] are valid */ 79 PetscScalar fshift,omega; /* last used omega and fshift */ 80 81 ISColoring coloring; /* set with MatADSetColoring() used by MatADSetValues() */ 82 } Mat_SeqAIJ; 83 84 /* 85 Frees the a, i, and j arrays from the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types 86 */ 87 #undef __FUNCT__ 88 #define __FUNCT__ "MatSeqXAIJFreeAIJ" 89 PETSC_STATIC_INLINE PetscErrorCode MatSeqXAIJFreeAIJ(Mat AA,MatScalar **a,PetscInt **j,PetscInt **i) 90 { 91 PetscErrorCode ierr; 92 Mat_SeqAIJ *A = (Mat_SeqAIJ*) AA->data; 93 if (A->singlemalloc) { 94 ierr = PetscFree3(*a,*j,*i);CHKERRQ(ierr); 95 } else { 96 if (A->free_a && *a) {ierr = PetscFree(*a);CHKERRQ(ierr);} 97 if (A->free_ij && *j) {ierr = PetscFree(*j);CHKERRQ(ierr);} 98 if (A->free_ij && *i) {ierr = PetscFree(*i);CHKERRQ(ierr);} 99 } 100 *a = 0; *j = 0; *i = 0; 101 return 0; 102 } 103 104 /* 105 Allocates larger a, i, and j arrays for the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types 106 */ 107 #define MatSeqXAIJReallocateAIJ(Amat,AM,BS2,NROW,ROW,COL,RMAX,AA,AI,AJ,RP,AP,AIMAX,NONEW,datatype) \ 108 if (NROW >= RMAX) {\ 109 Mat_SeqAIJ *Ain = (Mat_SeqAIJ*)Amat->data;\ 110 /* there is no extra room in row, therefore enlarge */ \ 111 PetscInt new_nz = AI[AM] + CHUNKSIZE,len,*new_i=0,*new_j=0; \ 112 datatype *new_a; \ 113 \ 114 if (NONEW == -2) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"New nonzero at (%D,%D) caused a malloc",ROW,COL); \ 115 /* malloc new storage space */ \ 116 ierr = PetscMalloc3(BS2*new_nz,datatype,&new_a,new_nz,PetscInt,&new_j,AM+1,PetscInt,&new_i);CHKERRQ(ierr);\ 117 \ 118 /* copy over old data into new slots */ \ 119 for (ii=0; ii<ROW+1; ii++) {new_i[ii] = AI[ii];} \ 120 for (ii=ROW+1; ii<AM+1; ii++) {new_i[ii] = AI[ii]+CHUNKSIZE;} \ 121 ierr = PetscMemcpy(new_j,AJ,(AI[ROW]+NROW)*sizeof(PetscInt));CHKERRQ(ierr); \ 122 len = (new_nz - CHUNKSIZE - AI[ROW] - NROW); \ 123 ierr = PetscMemcpy(new_j+AI[ROW]+NROW+CHUNKSIZE,AJ+AI[ROW]+NROW,len*sizeof(PetscInt));CHKERRQ(ierr); \ 124 ierr = PetscMemcpy(new_a,AA,BS2*(AI[ROW]+NROW)*sizeof(datatype));CHKERRQ(ierr); \ 125 ierr = PetscMemzero(new_a+BS2*(AI[ROW]+NROW),BS2*CHUNKSIZE*sizeof(datatype));CHKERRQ(ierr);\ 126 ierr = PetscMemcpy(new_a+BS2*(AI[ROW]+NROW+CHUNKSIZE),AA+BS2*(AI[ROW]+NROW),BS2*len*sizeof(datatype));CHKERRQ(ierr); \ 127 /* free up old matrix storage */ \ 128 ierr = MatSeqXAIJFreeAIJ(A,&Ain->a,&Ain->j,&Ain->i);CHKERRQ(ierr);\ 129 AA = new_a; \ 130 Ain->a = (MatScalar*) new_a; \ 131 AI = Ain->i = new_i; AJ = Ain->j = new_j; \ 132 Ain->singlemalloc = PETSC_TRUE; \ 133 \ 134 RP = AJ + AI[ROW]; AP = AA + BS2*AI[ROW]; \ 135 RMAX = AIMAX[ROW] = AIMAX[ROW] + CHUNKSIZE; \ 136 Ain->maxnz += CHUNKSIZE; \ 137 Ain->reallocs++; \ 138 } \ 139 140 EXTERN_C_BEGIN 141 EXTERN PetscErrorCode MatSeqAIJSetPreallocation_SeqAIJ(Mat,PetscInt,PetscInt*); 142 EXTERN_C_END 143 EXTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ(Mat,Mat,IS,IS,const MatFactorInfo*); 144 EXTERN PetscErrorCode MatICCFactorSymbolic_SeqAIJ(Mat,Mat,IS,const MatFactorInfo*); 145 EXTERN PetscErrorCode MatCholeskyFactorSymbolic_SeqAIJ(Mat,Mat,IS,const MatFactorInfo*); 146 EXTERN PetscErrorCode MatCholeskyFactorNumeric_SeqAIJ(Mat,Mat,const MatFactorInfo*); 147 EXTERN PetscErrorCode MatDuplicate_SeqAIJ(Mat,MatDuplicateOption,Mat*); 148 EXTERN PetscErrorCode MatMissingDiagonal_SeqAIJ(Mat,PetscTruth*,PetscInt*); 149 EXTERN PetscErrorCode MatMarkDiagonal_SeqAIJ(Mat); 150 151 EXTERN PetscErrorCode MatMult_SeqAIJ(Mat A,Vec,Vec); 152 EXTERN PetscErrorCode MatMultAdd_SeqAIJ(Mat A,Vec,Vec,Vec); 153 EXTERN PetscErrorCode MatMultTranspose_SeqAIJ(Mat A,Vec,Vec); 154 EXTERN PetscErrorCode MatMultTransposeAdd_SeqAIJ(Mat A,Vec,Vec,Vec); 155 EXTERN PetscErrorCode MatSOR_SeqAIJ(Mat,Vec,PetscReal,MatSORType,PetscReal,PetscInt,PetscInt,Vec); 156 157 EXTERN PetscErrorCode MatSetColoring_SeqAIJ(Mat,ISColoring); 158 EXTERN PetscErrorCode MatSetValuesAdic_SeqAIJ(Mat,void*); 159 EXTERN PetscErrorCode MatSetValuesAdifor_SeqAIJ(Mat,PetscInt,void*); 160 161 EXTERN PetscErrorCode MatGetSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]); 162 EXTERN PetscErrorCode MatGetSymbolicTransposeReduced_SeqAIJ(Mat,PetscInt,PetscInt,PetscInt *[],PetscInt *[]); 163 EXTERN PetscErrorCode MatRestoreSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]); 164 EXTERN PetscErrorCode MatToSymmetricIJ_SeqAIJ(PetscInt,PetscInt*,PetscInt*,PetscInt,PetscInt,PetscInt**,PetscInt**); 165 EXTERN PetscErrorCode MatLUFactorSymbolic_SeqAIJ(Mat,Mat,IS,IS,const MatFactorInfo*); 166 EXTERN PetscErrorCode MatLUFactorSymbolic_SeqAIJ_newdatastruct(Mat,Mat,IS,IS,const MatFactorInfo*); 167 EXTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ(Mat,Mat,const MatFactorInfo*); 168 EXTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_newdatastruct(Mat,Mat,const MatFactorInfo*); 169 EXTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_InplaceWithPerm(Mat,Mat,const MatFactorInfo*); 170 EXTERN PetscErrorCode MatLUFactor_SeqAIJ(Mat,IS,IS,const MatFactorInfo*); 171 EXTERN PetscErrorCode MatSolve_SeqAIJ(Mat,Vec,Vec); 172 EXTERN PetscErrorCode MatSolve_SeqAIJ_newdatastruct(Mat,Vec,Vec); 173 EXTERN PetscErrorCode MatSolve_SeqAIJ_newdatastruct_v2(Mat,Vec,Vec); 174 EXTERN PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering(Mat,Vec,Vec); 175 EXTERN PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering_newdatastruct(Mat,Vec,Vec); 176 EXTERN PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering_newdatastruct_v2(Mat,Vec,Vec); 177 EXTERN PetscErrorCode MatSolve_SeqAIJ_InplaceWithPerm(Mat,Vec,Vec); 178 EXTERN PetscErrorCode MatSolveAdd_SeqAIJ(Mat,Vec,Vec,Vec); 179 EXTERN PetscErrorCode MatSolveTranspose_SeqAIJ(Mat,Vec,Vec); 180 EXTERN PetscErrorCode MatSolveTransposeAdd_SeqAIJ(Mat,Vec,Vec,Vec); 181 EXTERN PetscErrorCode MatMatSolve_SeqAIJ(Mat,Mat,Mat); 182 EXTERN PetscErrorCode MatEqual_SeqAIJ(Mat A,Mat B,PetscTruth* flg); 183 EXTERN PetscErrorCode MatFDColoringCreate_SeqAIJ(Mat,ISColoring,MatFDColoring); 184 EXTERN PetscErrorCode MatILUDTFactor_SeqAIJ(Mat,IS,IS,const MatFactorInfo*,Mat*); 185 EXTERN PetscErrorCode MatILUDTFactorSymbolic_SeqAIJ(Mat,Mat,IS,IS,const MatFactorInfo*); 186 EXTERN PetscErrorCode MatILUDTFactorNumeric_SeqAIJ(Mat,Mat,const MatFactorInfo*); 187 EXTERN PetscErrorCode MatLoad_SeqAIJ(PetscViewer, const MatType,Mat*); 188 EXTERN PetscErrorCode RegisterApplyPtAPRoutines_Private(Mat); 189 EXTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*); 190 EXTERN PetscErrorCode MatMatMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 191 EXTERN PetscErrorCode MatPtAPSymbolic_SeqAIJ(Mat,Mat,PetscReal,Mat*); 192 EXTERN PetscErrorCode MatPtAPNumeric_SeqAIJ(Mat,Mat,Mat); 193 EXTERN PetscErrorCode MatPtAPSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*); 194 EXTERN PetscErrorCode MatPtAPNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 195 EXTERN PetscErrorCode MatMatMultTranspose_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*); 196 EXTERN PetscErrorCode MatMatMultTransposeSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*); 197 EXTERN PetscErrorCode MatMatMultTransposeNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 198 EXTERN PetscErrorCode MatSetValues_SeqAIJ(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[],const PetscScalar[],InsertMode); 199 EXTERN PetscErrorCode MatGetRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**); 200 EXTERN PetscErrorCode MatRestoreRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**); 201 EXTERN PetscErrorCode MatAXPY_SeqAIJ(Mat,PetscScalar,Mat,MatStructure); 202 EXTERN PetscErrorCode MatGetRowIJ_SeqAIJ(Mat,PetscInt,PetscTruth,PetscTruth,PetscInt*,PetscInt *[],PetscInt *[],PetscTruth *); 203 EXTERN PetscErrorCode MatRestoreRowIJ_SeqAIJ(Mat,PetscInt,PetscTruth,PetscTruth,PetscInt *,PetscInt *[],PetscInt *[],PetscTruth *); 204 EXTERN PetscErrorCode MatGetColumnIJ_SeqAIJ(Mat,PetscInt,PetscTruth,PetscTruth,PetscInt*,PetscInt *[],PetscInt *[],PetscTruth *); 205 EXTERN PetscErrorCode MatRestoreColumnIJ_SeqAIJ(Mat,PetscInt,PetscTruth,PetscTruth,PetscInt *,PetscInt *[],PetscInt *[],PetscTruth *); 206 EXTERN PetscErrorCode MatDestroy_SeqAIJ(Mat); 207 EXTERN PetscErrorCode MatView_SeqAIJ(Mat,PetscViewer); 208 209 EXTERN_C_BEGIN 210 EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_SeqAIJ_SeqSBAIJ(Mat,const MatType,MatReuse,Mat*); 211 EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_SeqAIJ_SeqBAIJ(Mat,const MatType,MatReuse,Mat*); 212 EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_SeqAIJ_SeqCSRPERM(Mat,const MatType,MatReuse,Mat*); 213 EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatReorderForNonzeroDiagonal_SeqAIJ(Mat,PetscReal,IS,IS); 214 EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatMatMult_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*); 215 EXTERN_C_END 216 217 /* 218 PetscSparseDenseMinusDot - The inner kernel of triangular solves and Gauss-Siedel smoothing. \sum_i xv[i] * r[xi[i]] for CSR storage 219 220 Input Parameters: 221 + nnz - the number of entries 222 . r - the array of vector values 223 . xv - the matrix values for the row 224 - xi - the column indices of the nonzeros in the row 225 226 Output Parameter: 227 . sum - negative the sum of results 228 229 PETSc compile flags: 230 + PETSC_KERNEL_USE_UNROLL_4 - don't use this; it changes nnz and hence is WRONG 231 - PETSC_KERNEL_USE_UNROLL_2 - 232 233 .seealso: PetscSparseDensePlusDot() 234 235 */ 236 #ifdef PETSC_KERNEL_USE_UNROLL_4 237 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) {\ 238 if (nnz > 0) {\ 239 switch (nnz & 0x3) {\ 240 case 3: sum -= *xv++ * r[*xi++];\ 241 case 2: sum -= *xv++ * r[*xi++];\ 242 case 1: sum -= *xv++ * r[*xi++];\ 243 nnz -= 4;}\ 244 while (nnz > 0) {\ 245 sum -= xv[0] * r[xi[0]] - xv[1] * r[xi[1]] -\ 246 xv[2] * r[xi[2]] - xv[3] * r[xi[3]];\ 247 xv += 4; xi += 4; nnz -= 4; }}} 248 249 #elif defined(PETSC_KERNEL_USE_UNROLL_2) 250 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) {\ 251 PetscInt __i,__i1,__i2;\ 252 for(__i=0;__i<nnz-1;__i+=2) {__i1 = xi[__i]; __i2=xi[__i+1];\ 253 sum -= (xv[__i]*r[__i1] + xv[__i+1]*r[__i2]);}\ 254 if (nnz & 0x1) sum -= xv[__i] * r[xi[__i]];} 255 256 #else 257 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) {\ 258 PetscInt __i;\ 259 for(__i=0;__i<nnz;__i++) sum -= xv[__i] * r[xi[__i]];} 260 #endif 261 262 263 264 /* 265 PetscSparseDensePlusDot - The inner kernel of matrix-vector product \sum_i xv[i] * r[xi[i]] for CSR storage 266 267 Input Parameters: 268 + nnz - the number of entries 269 . r - the array of vector values 270 . xv - the matrix values for the row 271 - xi - the column indices of the nonzeros in the row 272 273 Output Parameter: 274 . sum - the sum of results 275 276 PETSc compile flags: 277 + PETSC_KERNEL_USE_UNROLL_4 - don't use this; it changes nnz and hence is WRONG 278 - PETSC_KERNEL_USE_UNROLL_2 - 279 280 .seealso: PetscSparseDenseMinusDot() 281 282 */ 283 #ifdef PETSC_KERNEL_USE_UNROLL_4 284 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) {\ 285 if (nnz > 0) {\ 286 switch (nnz & 0x3) {\ 287 case 3: sum += *xv++ * r[*xi++];\ 288 case 2: sum += *xv++ * r[*xi++];\ 289 case 1: sum += *xv++ * r[*xi++];\ 290 nnz -= 4;}\ 291 while (nnz > 0) {\ 292 sum += xv[0] * r[xi[0]] + xv[1] * r[xi[1]] +\ 293 xv[2] * r[xi[2]] + xv[3] * r[xi[3]];\ 294 xv += 4; xi += 4; nnz -= 4; }}} 295 296 #elif defined(PETSC_KERNEL_USE_UNROLL_2) 297 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) {\ 298 PetscInt __i,__i1,__i2;\ 299 for(__i=0;__i<nnz-1;__i+=2) {__i1 = xi[__i]; __i2=xi[__i+1];\ 300 sum += (xv[__i]*r[__i1] + xv[__i+1]*r[__i2]);}\ 301 if (nnz & 0x1) sum += xv[__i] * r[xi[__i]];} 302 303 #else 304 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) {\ 305 PetscInt __i;\ 306 for(__i=0;__i<nnz;__i++) sum += xv[__i] * r[xi[__i]];} 307 #endif 308 309 #endif 310