1 2 #if !defined(__AIJ_H) 3 #define __AIJ_H 4 5 #include <petsc/private/matimpl.h> 6 #include <petscctable.h> 7 8 /* 9 Struct header shared by SeqAIJ, SeqBAIJ and SeqSBAIJ matrix formats 10 */ 11 #define SEQAIJHEADER(datatype) \ 12 PetscBool roworiented; /* if true, row-oriented input, default */ \ 13 PetscInt nonew; /* 1 don't add new nonzeros, -1 generate error on new */ \ 14 PetscInt nounused; /* -1 generate error on unused space */ \ 15 PetscBool singlemalloc; /* if true a, i, and j have been obtained with one big malloc */ \ 16 PetscInt maxnz; /* allocated nonzeros */ \ 17 PetscInt *imax; /* maximum space allocated for each row */ \ 18 PetscInt *ilen; /* actual length of each row */ \ 19 PetscInt *ipre; /* space preallocated for each row by user */ \ 20 PetscBool free_imax_ilen; \ 21 PetscInt reallocs; /* number of mallocs done during MatSetValues() \ 22 as more values are set than were prealloced */\ 23 PetscInt rmax; /* max nonzeros in any row */ \ 24 PetscBool keepnonzeropattern; /* keeps matrix structure same in calls to MatZeroRows()*/ \ 25 PetscBool ignorezeroentries; \ 26 PetscBool free_ij; /* free the column indices j and row offsets i when the matrix is destroyed */ \ 27 PetscBool 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 PetscInt nonzerorowcnt; /* how many rows have nonzero entries */ \ 34 PetscBool free_diag; \ 35 datatype *a; /* nonzero elements */ \ 36 PetscScalar *solve_work; /* work space used in MatSolve */ \ 37 IS row, col, icol; /* index sets, used for reorderings */ \ 38 PetscBool pivotinblocks; /* pivot inside factorization of each diagonal block */ \ 39 Mat parent; /* set if this matrix was formed with MatDuplicate(...,MAT_SHARE_NONZERO_PATTERN,....); \ 40 means that this shares some data structures with the parent including diag, ilen, imax, i, j */\ 41 Mat_SubSppt *submatis1 /* used by MatCreateSubMatrices_MPIXAIJ_Local */ 42 43 typedef struct { 44 MatTransposeColoring matcoloring; 45 Mat Bt_den; /* dense matrix of B^T */ 46 Mat ABt_den; /* dense matrix of A*B^T */ 47 PetscBool usecoloring; 48 PetscErrorCode (*destroy)(Mat); 49 } Mat_MatMatTransMult; 50 51 typedef struct { /* used by MatTransposeMatMult() */ 52 Mat At; /* transpose of the first matrix */ 53 Mat mA; /* maij matrix of A */ 54 Vec bt,ct; /* vectors to hold locally transposed arrays of B and C */ 55 PetscErrorCode (*destroy)(Mat); 56 } Mat_MatTransMatMult; 57 58 typedef struct { 59 PetscInt *api,*apj; /* symbolic structure of A*P */ 60 PetscScalar *apa; /* temporary array for storing one row of A*P */ 61 PetscErrorCode (*destroy)(Mat); 62 } Mat_AP; 63 64 typedef struct { 65 MatTransposeColoring matcoloring; 66 Mat Rt; /* sparse or dense matrix of R^T */ 67 Mat RARt; /* dense matrix of R*A*R^T */ 68 Mat ARt; /* A*R^T used for the case -matrart_color_art */ 69 MatScalar *work; /* work array to store columns of A*R^T used in MatMatMatMultNumeric_SeqAIJ_SeqAIJ_SeqDense() */ 70 PetscErrorCode (*destroy)(Mat); 71 } Mat_RARt; 72 73 typedef struct { 74 Mat BC; /* temp matrix for storing B*C */ 75 PetscErrorCode (*destroy)(Mat); 76 } Mat_MatMatMatMult; 77 78 /* 79 MATSEQAIJ format - Compressed row storage (also called Yale sparse matrix 80 format) or compressed sparse row (CSR). The i[] and j[] arrays start at 0. For example, 81 j[i[k]+p] is the pth column in row k. Note that the diagonal 82 matrix elements are stored with the rest of the nonzeros (not separately). 83 */ 84 85 /* Info about i-nodes (identical nodes) helper class for SeqAIJ */ 86 typedef struct { 87 MatScalar *bdiag,*ibdiag,*ssor_work; /* diagonal blocks of matrix used for MatSOR_SeqAIJ_Inode() */ 88 PetscInt bdiagsize; /* length of bdiag and ibdiag */ 89 PetscBool ibdiagvalid; /* do ibdiag[] and bdiag[] contain the most recent values */ 90 91 PetscBool use; 92 PetscInt node_count; /* number of inodes */ 93 PetscInt *size; /* size of each inode */ 94 PetscInt limit; /* inode limit */ 95 PetscInt max_limit; /* maximum supported inode limit */ 96 PetscBool checked; /* if inodes have been checked for */ 97 PetscObjectState mat_nonzerostate; /* non-zero state when inodes were checked for */ 98 } Mat_SeqAIJ_Inode; 99 100 PETSC_INTERN PetscErrorCode MatView_SeqAIJ_Inode(Mat,PetscViewer); 101 PETSC_INTERN PetscErrorCode MatAssemblyEnd_SeqAIJ_Inode(Mat,MatAssemblyType); 102 PETSC_INTERN PetscErrorCode MatDestroy_SeqAIJ_Inode(Mat); 103 PETSC_INTERN PetscErrorCode MatCreate_SeqAIJ_Inode(Mat); 104 PETSC_INTERN PetscErrorCode MatSetOption_SeqAIJ_Inode(Mat,MatOption,PetscBool); 105 PETSC_INTERN PetscErrorCode MatDuplicate_SeqAIJ_Inode(Mat,MatDuplicateOption,Mat*); 106 PETSC_INTERN PetscErrorCode MatDuplicateNoCreate_SeqAIJ(Mat,Mat,MatDuplicateOption,PetscBool); 107 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_Inode_inplace(Mat,Mat,const MatFactorInfo*); 108 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_Inode(Mat,Mat,const MatFactorInfo*); 109 110 typedef struct { 111 SEQAIJHEADER(MatScalar); 112 Mat_SeqAIJ_Inode inode; 113 MatScalar *saved_values; /* location for stashing nonzero values of matrix */ 114 115 PetscScalar *idiag,*mdiag,*ssor_work; /* inverse of diagonal entries, diagonal values and workspace for Eisenstat trick */ 116 PetscBool idiagvalid; /* current idiag[] and mdiag[] are valid */ 117 PetscScalar *ibdiag; /* inverses of block diagonals */ 118 PetscBool ibdiagvalid; /* inverses of block diagonals are valid. */ 119 PetscBool diagonaldense; /* all entries along the diagonal have been set; i.e. no missing diagonal terms */ 120 PetscScalar fshift,omega; /* last used omega and fshift */ 121 122 ISColoring coloring; /* set with MatADSetColoring() used by MatADSetValues() */ 123 124 PetscScalar *matmult_abdense; /* used by MatMatMult() */ 125 Mat_AP *ap; /* used by MatPtAP() */ 126 Mat_MatMatMatMult *matmatmatmult; /* used by MatMatMatMult() */ 127 Mat_RARt *rart; /* used by MatRARt() */ 128 Mat_MatMatTransMult *abt; /* used by MatMatTransposeMult() */ 129 Mat_MatTransMatMult *atb; /* used by MatTransposeMatMult() */ 130 } Mat_SeqAIJ; 131 132 /* 133 Frees the a, i, and j arrays from the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types 134 */ 135 PETSC_STATIC_INLINE PetscErrorCode MatSeqXAIJFreeAIJ(Mat AA,MatScalar **a,PetscInt **j,PetscInt **i) 136 { 137 PetscErrorCode ierr; 138 Mat_SeqAIJ *A = (Mat_SeqAIJ*) AA->data; 139 if (A->singlemalloc) { 140 ierr = PetscFree3(*a,*j,*i);CHKERRQ(ierr); 141 } else { 142 if (A->free_a) {ierr = PetscFree(*a);CHKERRQ(ierr);} 143 if (A->free_ij) {ierr = PetscFree(*j);CHKERRQ(ierr);} 144 if (A->free_ij) {ierr = PetscFree(*i);CHKERRQ(ierr);} 145 } 146 return 0; 147 } 148 /* 149 Allocates larger a, i, and j arrays for the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types 150 This is a macro because it takes the datatype as an argument which can be either a Mat or a MatScalar 151 */ 152 #define MatSeqXAIJReallocateAIJ(Amat,AM,BS2,NROW,ROW,COL,RMAX,AA,AI,AJ,RP,AP,AIMAX,NONEW,datatype) \ 153 if (NROW >= RMAX) { \ 154 Mat_SeqAIJ *Ain = (Mat_SeqAIJ*)Amat->data; \ 155 /* there is no extra room in row, therefore enlarge */ \ 156 PetscInt CHUNKSIZE = 15,new_nz = AI[AM] + CHUNKSIZE,len,*new_i=0,*new_j=0; \ 157 datatype *new_a; \ 158 \ 159 if (NONEW == -2) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"New nonzero at (%D,%D) caused a malloc\nUse MatSetOption(A, MAT_NEW_NONZERO_ALLOCATION_ERR, PETSC_FALSE) to turn off this check",ROW,COL); \ 160 /* malloc new storage space */ \ 161 ierr = PetscMalloc3(BS2*new_nz,&new_a,new_nz,&new_j,AM+1,&new_i);CHKERRQ(ierr); \ 162 \ 163 /* copy over old data into new slots */ \ 164 for (ii=0; ii<ROW+1; ii++) {new_i[ii] = AI[ii];} \ 165 for (ii=ROW+1; ii<AM+1; ii++) {new_i[ii] = AI[ii]+CHUNKSIZE;} \ 166 ierr = PetscMemcpy(new_j,AJ,(AI[ROW]+NROW)*sizeof(PetscInt));CHKERRQ(ierr); \ 167 len = (new_nz - CHUNKSIZE - AI[ROW] - NROW); \ 168 ierr = PetscMemcpy(new_j+AI[ROW]+NROW+CHUNKSIZE,AJ+AI[ROW]+NROW,len*sizeof(PetscInt));CHKERRQ(ierr); \ 169 ierr = PetscMemcpy(new_a,AA,BS2*(AI[ROW]+NROW)*sizeof(datatype));CHKERRQ(ierr); \ 170 ierr = PetscMemzero(new_a+BS2*(AI[ROW]+NROW),BS2*CHUNKSIZE*sizeof(datatype));CHKERRQ(ierr); \ 171 ierr = PetscMemcpy(new_a+BS2*(AI[ROW]+NROW+CHUNKSIZE),AA+BS2*(AI[ROW]+NROW),BS2*len*sizeof(datatype));CHKERRQ(ierr); \ 172 /* free up old matrix storage */ \ 173 ierr = MatSeqXAIJFreeAIJ(A,&Ain->a,&Ain->j,&Ain->i);CHKERRQ(ierr); \ 174 AA = new_a; \ 175 Ain->a = (MatScalar*) new_a; \ 176 AI = Ain->i = new_i; AJ = Ain->j = new_j; \ 177 Ain->singlemalloc = PETSC_TRUE; \ 178 \ 179 RP = AJ + AI[ROW]; AP = AA + BS2*AI[ROW]; \ 180 RMAX = AIMAX[ROW] = AIMAX[ROW] + CHUNKSIZE; \ 181 Ain->maxnz += BS2*CHUNKSIZE; \ 182 Ain->reallocs++; \ 183 } \ 184 185 #define MatSeqXAIJReallocateAIJ_structure_only(Amat,AM,BS2,NROW,ROW,COL,RMAX,AI,AJ,RP,AIMAX,NONEW,datatype) \ 186 if (NROW >= RMAX) { \ 187 Mat_SeqAIJ *Ain = (Mat_SeqAIJ*)Amat->data; \ 188 /* there is no extra room in row, therefore enlarge */ \ 189 PetscInt CHUNKSIZE = 15,new_nz = AI[AM] + CHUNKSIZE,len,*new_i=0,*new_j=0; \ 190 \ 191 if (NONEW == -2) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"New nonzero at (%D,%D) caused a malloc\nUse MatSetOption(A, MAT_NEW_NONZERO_ALLOCATION_ERR, PETSC_FALSE) to turn off this check",ROW,COL); \ 192 /* malloc new storage space */ \ 193 ierr = PetscMalloc1(new_nz,&new_j);CHKERRQ(ierr); \ 194 ierr = PetscMalloc1(AM+1,&new_i);CHKERRQ(ierr);\ 195 \ 196 /* copy over old data into new slots */ \ 197 for (ii=0; ii<ROW+1; ii++) {new_i[ii] = AI[ii];} \ 198 for (ii=ROW+1; ii<AM+1; ii++) {new_i[ii] = AI[ii]+CHUNKSIZE;} \ 199 ierr = PetscMemcpy(new_j,AJ,(AI[ROW]+NROW)*sizeof(PetscInt));CHKERRQ(ierr); \ 200 len = (new_nz - CHUNKSIZE - AI[ROW] - NROW); \ 201 ierr = PetscMemcpy(new_j+AI[ROW]+NROW+CHUNKSIZE,AJ+AI[ROW]+NROW,len*sizeof(PetscInt));CHKERRQ(ierr); \ 202 \ 203 /* free up old matrix storage */ \ 204 ierr = MatSeqXAIJFreeAIJ(A,&Ain->a,&Ain->j,&Ain->i);CHKERRQ(ierr); \ 205 Ain->a = NULL; \ 206 AI = Ain->i = new_i; AJ = Ain->j = new_j; \ 207 Ain->singlemalloc = PETSC_FALSE; \ 208 Ain->free_a = PETSC_FALSE; \ 209 \ 210 RP = AJ + AI[ROW]; \ 211 RMAX = AIMAX[ROW] = AIMAX[ROW] + CHUNKSIZE; \ 212 Ain->maxnz += BS2*CHUNKSIZE; \ 213 Ain->reallocs++; \ 214 } \ 215 216 PETSC_INTERN PetscErrorCode MatSeqAIJSetPreallocation_SeqAIJ(Mat,PetscInt,const PetscInt*); 217 PETSC_INTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,IS,const MatFactorInfo*); 218 PETSC_INTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ(Mat,Mat,IS,IS,const MatFactorInfo*); 219 PETSC_INTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ_ilu0(Mat,Mat,IS,IS,const MatFactorInfo*); 220 221 PETSC_INTERN PetscErrorCode MatICCFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,const MatFactorInfo*); 222 PETSC_INTERN PetscErrorCode MatICCFactorSymbolic_SeqAIJ(Mat,Mat,IS,const MatFactorInfo*); 223 PETSC_INTERN PetscErrorCode MatCholeskyFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,const MatFactorInfo*); 224 PETSC_INTERN PetscErrorCode MatCholeskyFactorSymbolic_SeqAIJ(Mat,Mat,IS,const MatFactorInfo*); 225 PETSC_INTERN PetscErrorCode MatCholeskyFactorNumeric_SeqAIJ_inplace(Mat,Mat,const MatFactorInfo*); 226 PETSC_INTERN PetscErrorCode MatCholeskyFactorNumeric_SeqAIJ(Mat,Mat,const MatFactorInfo*); 227 PETSC_INTERN PetscErrorCode MatDuplicate_SeqAIJ(Mat,MatDuplicateOption,Mat*); 228 PETSC_INTERN PetscErrorCode MatCopy_SeqAIJ(Mat,Mat,MatStructure); 229 PETSC_INTERN PetscErrorCode MatMissingDiagonal_SeqAIJ(Mat,PetscBool*,PetscInt*); 230 PETSC_INTERN PetscErrorCode MatMarkDiagonal_SeqAIJ(Mat); 231 PETSC_INTERN PetscErrorCode MatFindZeroDiagonals_SeqAIJ_Private(Mat,PetscInt*,PetscInt**); 232 233 PETSC_INTERN PetscErrorCode MatMult_SeqAIJ(Mat A,Vec,Vec); 234 PETSC_INTERN PetscErrorCode MatMultAdd_SeqAIJ(Mat A,Vec,Vec,Vec); 235 PETSC_INTERN PetscErrorCode MatMultTranspose_SeqAIJ(Mat A,Vec,Vec); 236 PETSC_INTERN PetscErrorCode MatMultTransposeAdd_SeqAIJ(Mat A,Vec,Vec,Vec); 237 PETSC_INTERN PetscErrorCode MatSOR_SeqAIJ(Mat,Vec,PetscReal,MatSORType,PetscReal,PetscInt,PetscInt,Vec); 238 239 PETSC_INTERN PetscErrorCode MatSetOption_SeqAIJ(Mat,MatOption,PetscBool); 240 241 PETSC_INTERN PetscErrorCode MatGetSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]); 242 PETSC_INTERN PetscErrorCode MatGetSymbolicTransposeReduced_SeqAIJ(Mat,PetscInt,PetscInt,PetscInt *[],PetscInt *[]); 243 PETSC_INTERN PetscErrorCode MatTranspose_SeqAIJ_FAST(Mat,MatReuse,Mat *); 244 PETSC_INTERN PetscErrorCode MatRestoreSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]); 245 PETSC_INTERN PetscErrorCode MatTransposeSymbolic_SeqAIJ(Mat,Mat*); 246 PETSC_INTERN PetscErrorCode MatTranspose_SeqAIJ(Mat,MatReuse,Mat*); 247 PETSC_INTERN PetscErrorCode MatToSymmetricIJ_SeqAIJ(PetscInt,PetscInt*,PetscInt*,PetscBool,PetscInt,PetscInt,PetscInt**,PetscInt**); 248 PETSC_INTERN PetscErrorCode MatLUFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,IS,const MatFactorInfo*); 249 PETSC_INTERN PetscErrorCode MatLUFactorSymbolic_SeqAIJ(Mat,Mat,IS,IS,const MatFactorInfo*); 250 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_inplace(Mat,Mat,const MatFactorInfo*); 251 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ(Mat,Mat,const MatFactorInfo*); 252 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_InplaceWithPerm(Mat,Mat,const MatFactorInfo*); 253 PETSC_INTERN PetscErrorCode MatLUFactor_SeqAIJ(Mat,IS,IS,const MatFactorInfo*); 254 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_inplace(Mat,Vec,Vec); 255 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ(Mat,Vec,Vec); 256 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_Inode_inplace(Mat,Vec,Vec); 257 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_Inode(Mat,Vec,Vec); 258 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering_inplace(Mat,Vec,Vec); 259 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering(Mat,Vec,Vec); 260 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_InplaceWithPerm(Mat,Vec,Vec); 261 PETSC_INTERN PetscErrorCode MatSolveAdd_SeqAIJ_inplace(Mat,Vec,Vec,Vec); 262 PETSC_INTERN PetscErrorCode MatSolveAdd_SeqAIJ(Mat,Vec,Vec,Vec); 263 PETSC_INTERN PetscErrorCode MatSolveTranspose_SeqAIJ_inplace(Mat,Vec,Vec); 264 PETSC_INTERN PetscErrorCode MatSolveTranspose_SeqAIJ(Mat,Vec,Vec); 265 PETSC_INTERN PetscErrorCode MatSolveTransposeAdd_SeqAIJ_inplace(Mat,Vec,Vec,Vec); 266 PETSC_INTERN PetscErrorCode MatSolveTransposeAdd_SeqAIJ(Mat,Vec,Vec,Vec); 267 PETSC_INTERN PetscErrorCode MatMatSolve_SeqAIJ_inplace(Mat,Mat,Mat); 268 PETSC_INTERN PetscErrorCode MatMatSolve_SeqAIJ(Mat,Mat,Mat); 269 PETSC_INTERN PetscErrorCode MatEqual_SeqAIJ(Mat,Mat,PetscBool*); 270 PETSC_INTERN PetscErrorCode MatFDColoringCreate_SeqXAIJ(Mat,ISColoring,MatFDColoring); 271 PETSC_INTERN PetscErrorCode MatFDColoringSetUp_SeqXAIJ(Mat,ISColoring,MatFDColoring); 272 PETSC_INTERN PetscErrorCode MatFDColoringSetUpBlocked_AIJ_Private(Mat,MatFDColoring,PetscInt); 273 PETSC_INTERN PetscErrorCode MatLoad_AIJ_HDF5(Mat,PetscViewer); 274 PETSC_INTERN PetscErrorCode MatLoad_SeqAIJ_Binary(Mat,PetscViewer); 275 PETSC_INTERN PetscErrorCode MatLoad_SeqAIJ(Mat,PetscViewer); 276 PETSC_INTERN PetscErrorCode RegisterApplyPtAPRoutines_Private(Mat); 277 278 PETSC_INTERN PetscErrorCode MatMatMult_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*); 279 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*); 280 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqDense_SeqAIJ(Mat,Mat,PetscReal,Mat*); 281 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_Scalable(Mat,Mat,PetscReal,Mat*); 282 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_Scalable_fast(Mat,Mat,PetscReal,Mat*); 283 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_Heap(Mat,Mat,PetscReal,Mat*); 284 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_BTHeap(Mat,Mat,PetscReal,Mat*); 285 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_RowMerge(Mat,Mat,PetscReal,Mat*); 286 PETSC_INTERN PetscErrorCode MatMatMult_SeqAIJ_SeqAIJ_Combined(Mat,Mat,PetscReal,Mat*); 287 PETSC_INTERN PetscErrorCode MatMatMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 288 PETSC_INTERN PetscErrorCode MatMatMultNumeric_SeqDense_SeqAIJ(Mat,Mat,Mat); 289 PETSC_INTERN PetscErrorCode MatMatMultNumeric_SeqAIJ_SeqAIJ_Scalable(Mat,Mat,Mat); 290 291 PETSC_INTERN PetscErrorCode MatPtAP_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*); 292 PETSC_INTERN PetscErrorCode MatPtAPSymbolic_SeqAIJ_SeqAIJ_SparseAxpy(Mat,Mat,PetscReal,Mat*); 293 PETSC_INTERN PetscErrorCode MatPtAPNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 294 PETSC_INTERN PetscErrorCode MatPtAPNumeric_SeqAIJ_SeqAIJ_SparseAxpy(Mat,Mat,Mat); 295 296 PETSC_INTERN PetscErrorCode MatRARtSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*); 297 PETSC_INTERN PetscErrorCode MatRARtSymbolic_SeqAIJ_SeqAIJ_matmattransposemult(Mat,Mat,PetscReal,Mat*); 298 PETSC_INTERN PetscErrorCode MatRARtSymbolic_SeqAIJ_SeqAIJ_colorrart(Mat,Mat,PetscReal,Mat*); 299 PETSC_INTERN PetscErrorCode MatRARtNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 300 PETSC_INTERN PetscErrorCode MatRARtNumeric_SeqAIJ_SeqAIJ_matmattransposemult(Mat,Mat,Mat); 301 PETSC_INTERN PetscErrorCode MatRARtNumeric_SeqAIJ_SeqAIJ_colorrart(Mat,Mat,Mat); 302 303 PETSC_INTERN PetscErrorCode MatTransposeMatMult_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*); 304 PETSC_INTERN PetscErrorCode MatTransposeMatMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*); 305 PETSC_INTERN PetscErrorCode MatTransposeMatMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 306 PETSC_INTERN PetscErrorCode MatDestroy_SeqAIJ_MatTransMatMult(Mat); 307 308 PETSC_INTERN PetscErrorCode MatTransposeMatMult_SeqAIJ_SeqDense(Mat,Mat,MatReuse,PetscReal,Mat*); 309 PETSC_INTERN PetscErrorCode MatTransposeMatMultSymbolic_SeqAIJ_SeqDense(Mat,Mat,PetscReal,Mat*); 310 PETSC_INTERN PetscErrorCode MatTransposeMatMultNumeric_SeqAIJ_SeqDense(Mat,Mat,Mat); 311 312 PETSC_INTERN PetscErrorCode MatMatTransposeMult_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*); 313 PETSC_INTERN PetscErrorCode MatMatTransposeMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*); 314 PETSC_INTERN PetscErrorCode MatMatTransposeMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 315 PETSC_INTERN PetscErrorCode MatTransposeColoringCreate_SeqAIJ(Mat,ISColoring,MatTransposeColoring); 316 PETSC_INTERN PetscErrorCode MatTransColoringApplySpToDen_SeqAIJ(MatTransposeColoring,Mat,Mat); 317 PETSC_INTERN PetscErrorCode MatTransColoringApplyDenToSp_SeqAIJ(MatTransposeColoring,Mat,Mat); 318 319 PETSC_INTERN PetscErrorCode MatMatMatMult_SeqAIJ_SeqAIJ_SeqAIJ(Mat,Mat,Mat,MatReuse,PetscReal,Mat*); 320 PETSC_INTERN PetscErrorCode MatMatMatMultSymbolic_SeqAIJ_SeqAIJ_SeqAIJ(Mat,Mat,Mat,PetscReal,Mat*); 321 PETSC_INTERN PetscErrorCode MatMatMatMultNumeric_SeqAIJ_SeqAIJ_SeqAIJ(Mat,Mat,Mat,Mat); 322 323 PETSC_INTERN PetscErrorCode MatSetValues_SeqAIJ(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[],const PetscScalar[],InsertMode); 324 PETSC_INTERN PetscErrorCode MatGetRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**); 325 PETSC_INTERN PetscErrorCode MatRestoreRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**); 326 PETSC_INTERN PetscErrorCode MatScale_SeqAIJ(Mat,PetscScalar); 327 PETSC_INTERN PetscErrorCode MatDiagonalScale_SeqAIJ(Mat,Vec,Vec); 328 PETSC_INTERN PetscErrorCode MatDiagonalSet_SeqAIJ(Mat,Vec,InsertMode); 329 PETSC_INTERN PetscErrorCode MatAXPY_SeqAIJ(Mat,PetscScalar,Mat,MatStructure); 330 PETSC_INTERN PetscErrorCode MatGetRowIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 331 PETSC_INTERN PetscErrorCode MatRestoreRowIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 332 PETSC_INTERN PetscErrorCode MatGetColumnIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 333 PETSC_INTERN PetscErrorCode MatRestoreColumnIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 334 PETSC_INTERN PetscErrorCode MatGetColumnIJ_SeqAIJ_Color(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscInt *[],PetscBool*); 335 PETSC_INTERN PetscErrorCode MatRestoreColumnIJ_SeqAIJ_Color(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscInt *[],PetscBool*); 336 PETSC_INTERN PetscErrorCode MatDestroy_SeqAIJ(Mat); 337 PETSC_INTERN PetscErrorCode MatSetUp_SeqAIJ(Mat); 338 PETSC_INTERN PetscErrorCode MatView_SeqAIJ(Mat,PetscViewer); 339 340 PETSC_INTERN PetscErrorCode MatSeqAIJInvalidateDiagonal(Mat); 341 PETSC_INTERN PetscErrorCode MatSeqAIJInvalidateDiagonal_Inode(Mat); 342 PETSC_INTERN PetscErrorCode MatSeqAIJCheckInode(Mat); 343 PETSC_INTERN PetscErrorCode MatSeqAIJCheckInode_FactorLU(Mat); 344 345 PETSC_INTERN PetscErrorCode MatAXPYGetPreallocation_SeqAIJ(Mat,Mat,PetscInt*); 346 347 PETSC_INTERN PetscErrorCode MatMatMatMult_Transpose_AIJ_AIJ(Mat,Mat,Mat,MatReuse,PetscReal,Mat*); 348 #if defined(PETSC_HAVE_MATLAB_ENGINE) 349 PETSC_EXTERN PetscErrorCode MatlabEnginePut_SeqAIJ(PetscObject,void*); 350 PETSC_EXTERN PetscErrorCode MatlabEngineGet_SeqAIJ(PetscObject,void*); 351 #endif 352 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqSBAIJ(Mat,MatType,MatReuse,Mat*); 353 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqBAIJ(Mat,MatType,MatReuse,Mat*); 354 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqDense(Mat,MatType,MatReuse,Mat*); 355 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJCRL(Mat,MatType,MatReuse,Mat*); 356 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_Elemental(Mat,MatType,MatReuse,Mat*); 357 PETSC_INTERN PetscErrorCode MatConvert_AIJ_HYPRE(Mat,MatType,MatReuse,Mat*); 358 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJPERM(Mat,MatType,MatReuse,Mat*); 359 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJSELL(Mat,MatType,MatReuse,Mat*); 360 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJMKL(Mat,MatType,MatReuse,Mat*); 361 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJViennaCL(Mat,MatType,MatReuse,Mat*); 362 PETSC_INTERN PetscErrorCode MatReorderForNonzeroDiagonal_SeqAIJ(Mat,PetscReal,IS,IS); 363 PETSC_INTERN PetscErrorCode MatMatMult_SeqDense_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*); 364 PETSC_INTERN PetscErrorCode MatRARt_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*); 365 PETSC_EXTERN PetscErrorCode MatCreate_SeqAIJ(Mat); 366 PETSC_INTERN PetscErrorCode MatAssemblyEnd_SeqAIJ(Mat,MatAssemblyType); 367 368 PETSC_INTERN PetscErrorCode MatAXPYGetPreallocation_SeqX_private(PetscInt,const PetscInt*,const PetscInt*,const PetscInt*,const PetscInt*,PetscInt*); 369 PETSC_INTERN PetscErrorCode MatCreateMPIMatConcatenateSeqMat_SeqAIJ(MPI_Comm,Mat,PetscInt,MatReuse,Mat*); 370 PETSC_INTERN PetscErrorCode MatCreateMPIMatConcatenateSeqMat_MPIAIJ(MPI_Comm,Mat,PetscInt,MatReuse,Mat*); 371 372 PETSC_INTERN PetscErrorCode MatSetSeqMat_SeqAIJ(Mat,IS,IS,MatStructure,Mat); 373 PETSC_INTERN PetscErrorCode MatDestroySubMatrix_Private(Mat_SubSppt*); 374 PETSC_INTERN PetscErrorCode MatDestroySubMatrix_SeqAIJ(Mat); 375 PETSC_INTERN PetscErrorCode MatDestroySubMatrix_Dummy(Mat); 376 PETSC_INTERN PetscErrorCode MatDestroySubMatrices_Dummy(PetscInt, Mat*[]); 377 PETSC_INTERN PetscErrorCode MatCreateSubMatrix_SeqAIJ(Mat,IS,IS,PetscInt,MatReuse,Mat*); 378 379 /* 380 PetscSparseDenseMinusDot - The inner kernel of triangular solves and Gauss-Siedel smoothing. \sum_i xv[i] * r[xi[i]] for CSR storage 381 382 Input Parameters: 383 + nnz - the number of entries 384 . r - the array of vector values 385 . xv - the matrix values for the row 386 - xi - the column indices of the nonzeros in the row 387 388 Output Parameter: 389 . sum - negative the sum of results 390 391 PETSc compile flags: 392 + PETSC_KERNEL_USE_UNROLL_4 393 - PETSC_KERNEL_USE_UNROLL_2 394 395 Developer Notes: 396 The macro changes sum but not other parameters 397 398 .seealso: PetscSparseDensePlusDot() 399 400 */ 401 #if defined(PETSC_KERNEL_USE_UNROLL_4) 402 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) { \ 403 if (nnz > 0) { \ 404 PetscInt nnz2=nnz,rem=nnz&0x3; \ 405 switch (rem) { \ 406 case 3: sum -= *xv++ *r[*xi++]; \ 407 case 2: sum -= *xv++ *r[*xi++]; \ 408 case 1: sum -= *xv++ *r[*xi++]; \ 409 nnz2 -= rem;} \ 410 while (nnz2 > 0) { \ 411 sum -= xv[0] * r[xi[0]] + xv[1] * r[xi[1]] + \ 412 xv[2] * r[xi[2]] + xv[3] * r[xi[3]]; \ 413 xv += 4; xi += 4; nnz2 -= 4; \ 414 } \ 415 xv -= nnz; xi -= nnz; \ 416 } \ 417 } 418 419 #elif defined(PETSC_KERNEL_USE_UNROLL_2) 420 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) { \ 421 PetscInt __i,__i1,__i2; \ 422 for (__i=0; __i<nnz-1; __i+=2) {__i1 = xi[__i]; __i2=xi[__i+1]; \ 423 sum -= (xv[__i]*r[__i1] + xv[__i+1]*r[__i2]);} \ 424 if (nnz & 0x1) sum -= xv[__i] * r[xi[__i]];} 425 426 #else 427 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) { \ 428 PetscInt __i; \ 429 for (__i=0; __i<nnz; __i++) sum -= xv[__i] * r[xi[__i]];} 430 #endif 431 432 433 434 /* 435 PetscSparseDensePlusDot - The inner kernel of matrix-vector product \sum_i xv[i] * r[xi[i]] for CSR storage 436 437 Input Parameters: 438 + nnz - the number of entries 439 . r - the array of vector values 440 . xv - the matrix values for the row 441 - xi - the column indices of the nonzeros in the row 442 443 Output Parameter: 444 . sum - the sum of results 445 446 PETSc compile flags: 447 + PETSC_KERNEL_USE_UNROLL_4 448 - PETSC_KERNEL_USE_UNROLL_2 449 450 Developer Notes: 451 The macro changes sum but not other parameters 452 453 .seealso: PetscSparseDenseMinusDot() 454 455 */ 456 #if defined(PETSC_KERNEL_USE_UNROLL_4) 457 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) { \ 458 if (nnz > 0) { \ 459 PetscInt nnz2=nnz,rem=nnz&0x3; \ 460 switch (rem) { \ 461 case 3: sum += *xv++ *r[*xi++]; \ 462 case 2: sum += *xv++ *r[*xi++]; \ 463 case 1: sum += *xv++ *r[*xi++]; \ 464 nnz2 -= rem;} \ 465 while (nnz2 > 0) { \ 466 sum += xv[0] * r[xi[0]] + xv[1] * r[xi[1]] + \ 467 xv[2] * r[xi[2]] + xv[3] * r[xi[3]]; \ 468 xv += 4; xi += 4; nnz2 -= 4; \ 469 } \ 470 xv -= nnz; xi -= nnz; \ 471 } \ 472 } 473 474 #elif defined(PETSC_KERNEL_USE_UNROLL_2) 475 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) { \ 476 PetscInt __i,__i1,__i2; \ 477 for (__i=0; __i<nnz-1; __i+=2) {__i1 = xi[__i]; __i2=xi[__i+1]; \ 478 sum += (xv[__i]*r[__i1] + xv[__i+1]*r[__i2]);} \ 479 if (nnz & 0x1) sum += xv[__i] * r[xi[__i]];} 480 481 #elif defined(PETSC_USE_AVX512_KERNELS) && defined(PETSC_HAVE_IMMINTRIN_H) && defined(__AVX512F__) && defined(PETSC_USE_REAL_DOUBLE) && !defined(PETSC_USE_COMPLEX) && !defined(PETSC_USE_64BIT_INDICES) 482 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) PetscSparseDensePlusDot_AVX512_Private(&(sum),(r),(xv),(xi),(nnz)) 483 484 #else 485 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) { \ 486 PetscInt __i; \ 487 for (__i=0; __i<nnz; __i++) sum += xv[__i] * r[xi[__i]];} 488 #endif 489 490 #if defined(PETSC_USE_AVX512_KERNELS) && defined(PETSC_HAVE_IMMINTRIN_H) && defined(__AVX512F__) && defined(PETSC_USE_REAL_DOUBLE) && !defined(PETSC_USE_COMPLEX) && !defined(PETSC_USE_64BIT_INDICES) 491 #include <immintrin.h> 492 #if !defined(_MM_SCALE_8) 493 #define _MM_SCALE_8 8 494 #endif 495 496 PETSC_STATIC_INLINE void PetscSparseDensePlusDot_AVX512_Private(PetscScalar *sum,const PetscScalar *x,const MatScalar *aa,const PetscInt *aj,PetscInt n) 497 { 498 __m512d vec_x,vec_y,vec_vals; 499 __m256i vec_idx; 500 __mmask8 mask; 501 PetscInt j; 502 503 vec_y = _mm512_setzero_pd(); 504 for (j=0; j<(n>>3); j++) { 505 vec_idx = _mm256_loadu_si256((__m256i const*)aj); 506 vec_vals = _mm512_loadu_pd(aa); 507 vec_x = _mm512_i32gather_pd(vec_idx,x,_MM_SCALE_8); 508 vec_y = _mm512_fmadd_pd(vec_x,vec_vals,vec_y); 509 aj += 8; aa += 8; 510 } 511 /* masked load does not work on KNL, it requires avx512vl */ 512 if ((n&0x07)>2) { 513 mask = (__mmask8)(0xff >> (8-(n&0x07))); 514 vec_idx = _mm256_loadu_si256((__m256i const*)aj); 515 vec_vals = _mm512_loadu_pd(aa); 516 vec_x = _mm512_mask_i32gather_pd(vec_x,mask,vec_idx,x,_MM_SCALE_8); 517 vec_y = _mm512_mask3_fmadd_pd(vec_x,vec_vals,vec_y,mask); 518 } else if ((n&0x07)==2) { 519 *sum += aa[0]*x[aj[0]]; 520 *sum += aa[1]*x[aj[1]]; 521 } else if ((n&0x07)==1) { 522 *sum += aa[0]*x[aj[0]]; 523 } 524 if (n>2) *sum += _mm512_reduce_add_pd(vec_y); 525 /* 526 for(j=0;j<(n&0x07);j++) *sum += aa[j]*x[aj[j]]; 527 */ 528 } 529 #endif 530 531 /* 532 PetscSparseDenseMaxDot - The inner kernel of a modified matrix-vector product \max_i xv[i] * r[xi[i]] for CSR storage 533 534 Input Parameters: 535 + nnz - the number of entries 536 . r - the array of vector values 537 . xv - the matrix values for the row 538 - xi - the column indices of the nonzeros in the row 539 540 Output Parameter: 541 . max - the max of results 542 543 .seealso: PetscSparseDensePlusDot(), PetscSparseDenseMinusDot() 544 545 */ 546 #define PetscSparseDenseMaxDot(max,r,xv,xi,nnz) { \ 547 PetscInt __i; \ 548 for (__i=0; __i<nnz; __i++) max = PetscMax(PetscRealPart(max), PetscRealPart(xv[__i] * r[xi[__i]]));} 549 550 /* 551 Add column indices into table for counting the max nonzeros of merged rows 552 */ 553 #define MatRowMergeMax_SeqAIJ(mat,nrows,ta) { \ 554 PetscInt _j,_row,_nz,*_col; \ 555 if (mat) { \ 556 for (_row=0; _row<nrows; _row++) { \ 557 _nz = mat->i[_row+1] - mat->i[_row]; \ 558 for (_j=0; _j<_nz; _j++) { \ 559 _col = _j + mat->j + mat->i[_row]; \ 560 PetscTableAdd(ta,*_col+1,1,INSERT_VALUES); \ 561 } \ 562 } \ 563 } \ 564 } 565 566 /* 567 Add column indices into table for counting the nonzeros of merged rows 568 */ 569 #define MatMergeRows_SeqAIJ(mat,nrows,rows,ta) { \ 570 PetscInt _j,_row,_nz,*_col,_i; \ 571 for (_i=0; _i<nrows; _i++) {\ 572 _row = rows[_i]; \ 573 _nz = mat->i[_row+1] - mat->i[_row]; \ 574 for (_j=0; _j<_nz; _j++) { \ 575 _col = _j + mat->j + mat->i[_row]; \ 576 PetscTableAdd(ta,*_col+1,1,INSERT_VALUES); \ 577 } \ 578 } \ 579 } 580 581 #endif 582