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 } Mat_MatMatTransMult; 49 50 typedef struct { /* used by MatTransposeMatMult() */ 51 Mat At; /* transpose of the first matrix */ 52 Mat mA; /* maij matrix of A */ 53 Vec bt,ct; /* vectors to hold locally transposed arrays of B and C */ 54 PetscBool updateAt; /* flg to avoid recomputing At in MatProductNumeric_AtB_SeqAIJ_SeqAIJ() */ 55 /* used by PtAP */ 56 void *data; 57 PetscErrorCode (*destroy)(void*); 58 } Mat_MatTransMatMult; 59 60 typedef struct { 61 PetscInt *api,*apj; /* symbolic structure of A*P */ 62 PetscScalar *apa; /* temporary array for storing one row of A*P */ 63 } Mat_AP; 64 65 typedef struct { 66 MatTransposeColoring matcoloring; 67 Mat Rt; /* sparse or dense matrix of R^T */ 68 Mat RARt; /* dense matrix of R*A*R^T */ 69 Mat ARt; /* A*R^T used for the case -matrart_color_art */ 70 MatScalar *work; /* work array to store columns of A*R^T used in MatMatMatMultNumeric_SeqAIJ_SeqAIJ_SeqDense() */ 71 /* free intermediate products needed for PtAP */ 72 void *data; 73 PetscErrorCode (*destroy)(void*); 74 } Mat_RARt; 75 76 typedef struct { 77 Mat BC; /* temp matrix for storing B*C */ 78 } Mat_MatMatMatMult; 79 80 /* 81 MATSEQAIJ format - Compressed row storage (also called Yale sparse matrix 82 format) or compressed sparse row (CSR). The i[] and j[] arrays start at 0. For example, 83 j[i[k]+p] is the pth column in row k. Note that the diagonal 84 matrix elements are stored with the rest of the nonzeros (not separately). 85 */ 86 87 /* Info about i-nodes (identical nodes) helper class for SeqAIJ */ 88 typedef struct { 89 MatScalar *bdiag,*ibdiag,*ssor_work; /* diagonal blocks of matrix used for MatSOR_SeqAIJ_Inode() */ 90 PetscInt bdiagsize; /* length of bdiag and ibdiag */ 91 PetscBool ibdiagvalid; /* do ibdiag[] and bdiag[] contain the most recent values */ 92 93 PetscBool use; 94 PetscInt node_count; /* number of inodes */ 95 PetscInt *size; /* size of each inode */ 96 PetscInt limit; /* inode limit */ 97 PetscInt max_limit; /* maximum supported inode limit */ 98 PetscBool checked; /* if inodes have been checked for */ 99 PetscObjectState mat_nonzerostate; /* non-zero state when inodes were checked for */ 100 } Mat_SeqAIJ_Inode; 101 102 PETSC_INTERN PetscErrorCode MatView_SeqAIJ_Inode(Mat,PetscViewer); 103 PETSC_INTERN PetscErrorCode MatAssemblyEnd_SeqAIJ_Inode(Mat,MatAssemblyType); 104 PETSC_INTERN PetscErrorCode MatDestroy_SeqAIJ_Inode(Mat); 105 PETSC_INTERN PetscErrorCode MatCreate_SeqAIJ_Inode(Mat); 106 PETSC_INTERN PetscErrorCode MatSetOption_SeqAIJ_Inode(Mat,MatOption,PetscBool); 107 PETSC_INTERN PetscErrorCode MatDuplicate_SeqAIJ_Inode(Mat,MatDuplicateOption,Mat*); 108 PETSC_INTERN PetscErrorCode MatDuplicateNoCreate_SeqAIJ(Mat,Mat,MatDuplicateOption,PetscBool); 109 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_Inode_inplace(Mat,Mat,const MatFactorInfo*); 110 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_Inode(Mat,Mat,const MatFactorInfo*); 111 PETSC_INTERN PetscErrorCode MatSeqAIJGetArray_SeqAIJ(Mat,PetscScalar**); 112 PETSC_INTERN PetscErrorCode MatSeqAIJRestoreArray_SeqAIJ(Mat,PetscScalar**); 113 114 typedef struct { 115 SEQAIJHEADER(MatScalar); 116 Mat_SeqAIJ_Inode inode; 117 MatScalar *saved_values; /* location for stashing nonzero values of matrix */ 118 119 PetscScalar *idiag,*mdiag,*ssor_work; /* inverse of diagonal entries, diagonal values and workspace for Eisenstat trick */ 120 PetscBool idiagvalid; /* current idiag[] and mdiag[] are valid */ 121 PetscScalar *ibdiag; /* inverses of block diagonals */ 122 PetscBool ibdiagvalid; /* inverses of block diagonals are valid. */ 123 PetscBool diagonaldense; /* all entries along the diagonal have been set; i.e. no missing diagonal terms */ 124 PetscScalar fshift,omega; /* last used omega and fshift */ 125 } Mat_SeqAIJ; 126 127 /* 128 Frees the a, i, and j arrays from the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types 129 */ 130 PETSC_STATIC_INLINE PetscErrorCode MatSeqXAIJFreeAIJ(Mat AA,MatScalar **a,PetscInt **j,PetscInt **i) 131 { 132 PetscErrorCode ierr; 133 Mat_SeqAIJ *A = (Mat_SeqAIJ*) AA->data; 134 if (A->singlemalloc) { 135 ierr = PetscFree3(*a,*j,*i);CHKERRQ(ierr); 136 } else { 137 if (A->free_a) {ierr = PetscFree(*a);CHKERRQ(ierr);} 138 if (A->free_ij) {ierr = PetscFree(*j);CHKERRQ(ierr);} 139 if (A->free_ij) {ierr = PetscFree(*i);CHKERRQ(ierr);} 140 } 141 return 0; 142 } 143 /* 144 Allocates larger a, i, and j arrays for the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types 145 This is a macro because it takes the datatype as an argument which can be either a Mat or a MatScalar 146 */ 147 #define MatSeqXAIJReallocateAIJ(Amat,AM,BS2,NROW,ROW,COL,RMAX,AA,AI,AJ,RP,AP,AIMAX,NONEW,datatype) \ 148 if (NROW >= RMAX) { \ 149 Mat_SeqAIJ *Ain = (Mat_SeqAIJ*)Amat->data; \ 150 /* there is no extra room in row, therefore enlarge */ \ 151 PetscInt CHUNKSIZE = 15,new_nz = AI[AM] + CHUNKSIZE,len,*new_i=0,*new_j=0; \ 152 datatype *new_a; \ 153 \ 154 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); \ 155 /* malloc new storage space */ \ 156 ierr = PetscMalloc3(BS2*new_nz,&new_a,new_nz,&new_j,AM+1,&new_i);CHKERRQ(ierr); \ 157 \ 158 /* copy over old data into new slots */ \ 159 for (ii=0; ii<ROW+1; ii++) {new_i[ii] = AI[ii];} \ 160 for (ii=ROW+1; ii<AM+1; ii++) {new_i[ii] = AI[ii]+CHUNKSIZE;} \ 161 ierr = PetscArraycpy(new_j,AJ,AI[ROW]+NROW);CHKERRQ(ierr); \ 162 len = (new_nz - CHUNKSIZE - AI[ROW] - NROW); \ 163 ierr = PetscArraycpy(new_j+AI[ROW]+NROW+CHUNKSIZE,AJ+AI[ROW]+NROW,len);CHKERRQ(ierr); \ 164 ierr = PetscArraycpy(new_a,AA,BS2*(AI[ROW]+NROW));CHKERRQ(ierr); \ 165 ierr = PetscArrayzero(new_a+BS2*(AI[ROW]+NROW),BS2*CHUNKSIZE);CHKERRQ(ierr); \ 166 ierr = PetscArraycpy(new_a+BS2*(AI[ROW]+NROW+CHUNKSIZE),AA+BS2*(AI[ROW]+NROW),BS2*len);CHKERRQ(ierr); \ 167 /* free up old matrix storage */ \ 168 ierr = MatSeqXAIJFreeAIJ(A,&Ain->a,&Ain->j,&Ain->i);CHKERRQ(ierr); \ 169 AA = new_a; \ 170 Ain->a = (MatScalar*) new_a; \ 171 AI = Ain->i = new_i; AJ = Ain->j = new_j; \ 172 Ain->singlemalloc = PETSC_TRUE; \ 173 \ 174 RP = AJ + AI[ROW]; AP = AA + BS2*AI[ROW]; \ 175 RMAX = AIMAX[ROW] = AIMAX[ROW] + CHUNKSIZE; \ 176 Ain->maxnz += BS2*CHUNKSIZE; \ 177 Ain->reallocs++; \ 178 } \ 179 180 #define MatSeqXAIJReallocateAIJ_structure_only(Amat,AM,BS2,NROW,ROW,COL,RMAX,AI,AJ,RP,AIMAX,NONEW,datatype) \ 181 if (NROW >= RMAX) { \ 182 Mat_SeqAIJ *Ain = (Mat_SeqAIJ*)Amat->data; \ 183 /* there is no extra room in row, therefore enlarge */ \ 184 PetscInt CHUNKSIZE = 15,new_nz = AI[AM] + CHUNKSIZE,len,*new_i=0,*new_j=0; \ 185 \ 186 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); \ 187 /* malloc new storage space */ \ 188 ierr = PetscMalloc1(new_nz,&new_j);CHKERRQ(ierr); \ 189 ierr = PetscMalloc1(AM+1,&new_i);CHKERRQ(ierr);\ 190 \ 191 /* copy over old data into new slots */ \ 192 for (ii=0; ii<ROW+1; ii++) {new_i[ii] = AI[ii];} \ 193 for (ii=ROW+1; ii<AM+1; ii++) {new_i[ii] = AI[ii]+CHUNKSIZE;} \ 194 ierr = PetscArraycpy(new_j,AJ,AI[ROW]+NROW);CHKERRQ(ierr); \ 195 len = (new_nz - CHUNKSIZE - AI[ROW] - NROW); \ 196 ierr = PetscArraycpy(new_j+AI[ROW]+NROW+CHUNKSIZE,AJ+AI[ROW]+NROW,len);CHKERRQ(ierr); \ 197 \ 198 /* free up old matrix storage */ \ 199 ierr = MatSeqXAIJFreeAIJ(A,&Ain->a,&Ain->j,&Ain->i);CHKERRQ(ierr); \ 200 Ain->a = NULL; \ 201 AI = Ain->i = new_i; AJ = Ain->j = new_j; \ 202 Ain->singlemalloc = PETSC_FALSE; \ 203 Ain->free_a = PETSC_FALSE; \ 204 \ 205 RP = AJ + AI[ROW]; \ 206 RMAX = AIMAX[ROW] = AIMAX[ROW] + CHUNKSIZE; \ 207 Ain->maxnz += BS2*CHUNKSIZE; \ 208 Ain->reallocs++; \ 209 } \ 210 211 PETSC_INTERN PetscErrorCode MatSeqAIJSetPreallocation_SeqAIJ(Mat,PetscInt,const PetscInt*); 212 PETSC_INTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,IS,const MatFactorInfo*); 213 PETSC_INTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ(Mat,Mat,IS,IS,const MatFactorInfo*); 214 PETSC_INTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ_ilu0(Mat,Mat,IS,IS,const MatFactorInfo*); 215 216 PETSC_INTERN PetscErrorCode MatICCFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,const MatFactorInfo*); 217 PETSC_INTERN PetscErrorCode MatICCFactorSymbolic_SeqAIJ(Mat,Mat,IS,const MatFactorInfo*); 218 PETSC_INTERN PetscErrorCode MatCholeskyFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,const MatFactorInfo*); 219 PETSC_INTERN PetscErrorCode MatCholeskyFactorSymbolic_SeqAIJ(Mat,Mat,IS,const MatFactorInfo*); 220 PETSC_INTERN PetscErrorCode MatCholeskyFactorNumeric_SeqAIJ_inplace(Mat,Mat,const MatFactorInfo*); 221 PETSC_INTERN PetscErrorCode MatCholeskyFactorNumeric_SeqAIJ(Mat,Mat,const MatFactorInfo*); 222 PETSC_INTERN PetscErrorCode MatDuplicate_SeqAIJ(Mat,MatDuplicateOption,Mat*); 223 PETSC_INTERN PetscErrorCode MatCopy_SeqAIJ(Mat,Mat,MatStructure); 224 PETSC_INTERN PetscErrorCode MatMissingDiagonal_SeqAIJ(Mat,PetscBool*,PetscInt*); 225 PETSC_INTERN PetscErrorCode MatMarkDiagonal_SeqAIJ(Mat); 226 PETSC_INTERN PetscErrorCode MatFindZeroDiagonals_SeqAIJ_Private(Mat,PetscInt*,PetscInt**); 227 228 PETSC_INTERN PetscErrorCode MatMult_SeqAIJ(Mat A,Vec,Vec); 229 PETSC_INTERN PetscErrorCode MatMultAdd_SeqAIJ(Mat A,Vec,Vec,Vec); 230 PETSC_INTERN PetscErrorCode MatMultTranspose_SeqAIJ(Mat A,Vec,Vec); 231 PETSC_INTERN PetscErrorCode MatMultTransposeAdd_SeqAIJ(Mat A,Vec,Vec,Vec); 232 PETSC_INTERN PetscErrorCode MatSOR_SeqAIJ(Mat,Vec,PetscReal,MatSORType,PetscReal,PetscInt,PetscInt,Vec); 233 234 PETSC_INTERN PetscErrorCode MatSetOption_SeqAIJ(Mat,MatOption,PetscBool); 235 236 PETSC_INTERN PetscErrorCode MatGetSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]); 237 PETSC_INTERN PetscErrorCode MatGetSymbolicTransposeReduced_SeqAIJ(Mat,PetscInt,PetscInt,PetscInt *[],PetscInt *[]); 238 PETSC_INTERN PetscErrorCode MatRestoreSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]); 239 PETSC_INTERN PetscErrorCode MatTransposeSymbolic_SeqAIJ(Mat,Mat*); 240 PETSC_INTERN PetscErrorCode MatTranspose_SeqAIJ(Mat,MatReuse,Mat*); 241 PETSC_INTERN PetscErrorCode MatToSymmetricIJ_SeqAIJ(PetscInt,PetscInt*,PetscInt*,PetscBool,PetscInt,PetscInt,PetscInt**,PetscInt**); 242 PETSC_INTERN PetscErrorCode MatLUFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,IS,const MatFactorInfo*); 243 PETSC_INTERN PetscErrorCode MatLUFactorSymbolic_SeqAIJ(Mat,Mat,IS,IS,const MatFactorInfo*); 244 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_inplace(Mat,Mat,const MatFactorInfo*); 245 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ(Mat,Mat,const MatFactorInfo*); 246 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_InplaceWithPerm(Mat,Mat,const MatFactorInfo*); 247 PETSC_INTERN PetscErrorCode MatLUFactor_SeqAIJ(Mat,IS,IS,const MatFactorInfo*); 248 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_inplace(Mat,Vec,Vec); 249 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ(Mat,Vec,Vec); 250 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_Inode_inplace(Mat,Vec,Vec); 251 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_Inode(Mat,Vec,Vec); 252 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering_inplace(Mat,Vec,Vec); 253 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering(Mat,Vec,Vec); 254 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_InplaceWithPerm(Mat,Vec,Vec); 255 PETSC_INTERN PetscErrorCode MatSolveAdd_SeqAIJ_inplace(Mat,Vec,Vec,Vec); 256 PETSC_INTERN PetscErrorCode MatSolveAdd_SeqAIJ(Mat,Vec,Vec,Vec); 257 PETSC_INTERN PetscErrorCode MatSolveTranspose_SeqAIJ_inplace(Mat,Vec,Vec); 258 PETSC_INTERN PetscErrorCode MatSolveTranspose_SeqAIJ(Mat,Vec,Vec); 259 PETSC_INTERN PetscErrorCode MatSolveTransposeAdd_SeqAIJ_inplace(Mat,Vec,Vec,Vec); 260 PETSC_INTERN PetscErrorCode MatSolveTransposeAdd_SeqAIJ(Mat,Vec,Vec,Vec); 261 PETSC_INTERN PetscErrorCode MatMatSolve_SeqAIJ_inplace(Mat,Mat,Mat); 262 PETSC_INTERN PetscErrorCode MatMatSolve_SeqAIJ(Mat,Mat,Mat); 263 PETSC_INTERN PetscErrorCode MatEqual_SeqAIJ(Mat,Mat,PetscBool*); 264 PETSC_INTERN PetscErrorCode MatFDColoringCreate_SeqXAIJ(Mat,ISColoring,MatFDColoring); 265 PETSC_INTERN PetscErrorCode MatFDColoringSetUp_SeqXAIJ(Mat,ISColoring,MatFDColoring); 266 PETSC_INTERN PetscErrorCode MatFDColoringSetUpBlocked_AIJ_Private(Mat,MatFDColoring,PetscInt); 267 PETSC_INTERN PetscErrorCode MatLoad_AIJ_HDF5(Mat,PetscViewer); 268 PETSC_INTERN PetscErrorCode MatLoad_SeqAIJ_Binary(Mat,PetscViewer); 269 PETSC_INTERN PetscErrorCode MatLoad_SeqAIJ(Mat,PetscViewer); 270 PETSC_INTERN PetscErrorCode RegisterApplyPtAPRoutines_Private(Mat); 271 272 #if defined(PETSC_HAVE_HYPRE) 273 PETSC_INTERN PetscErrorCode MatProductSetFromOptions_Transpose_AIJ_AIJ(Mat); 274 #endif 275 PETSC_INTERN PetscErrorCode MatProductSetFromOptions_SeqAIJ(Mat); 276 277 PETSC_INTERN PetscErrorCode MatProductSymbolic_SeqAIJ_SeqAIJ(Mat); 278 PETSC_INTERN PetscErrorCode MatProductSymbolic_PtAP_SeqAIJ_SeqAIJ(Mat); 279 PETSC_INTERN PetscErrorCode MatProductSymbolic_RARt_SeqAIJ_SeqAIJ(Mat); 280 281 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat); 282 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_Sorted(Mat,Mat,PetscReal,Mat); 283 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqDense_SeqAIJ(Mat,Mat,PetscReal,Mat); 284 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_Scalable(Mat,Mat,PetscReal,Mat); 285 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_Scalable_fast(Mat,Mat,PetscReal,Mat); 286 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_Heap(Mat,Mat,PetscReal,Mat); 287 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_BTHeap(Mat,Mat,PetscReal,Mat); 288 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_RowMerge(Mat,Mat,PetscReal,Mat); 289 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_LLCondensed(Mat,Mat,PetscReal,Mat); 290 #if defined(PETSC_HAVE_HYPRE) 291 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_AIJ_AIJ_wHYPRE(Mat,Mat,PetscReal,Mat); 292 #endif 293 294 PETSC_INTERN PetscErrorCode MatMatMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 295 PETSC_INTERN PetscErrorCode MatMatMultNumeric_SeqAIJ_SeqAIJ_Sorted(Mat,Mat,Mat); 296 297 PETSC_INTERN PetscErrorCode MatMatMultNumeric_SeqDense_SeqAIJ(Mat,Mat,Mat); 298 PETSC_INTERN PetscErrorCode MatMatMultNumeric_SeqAIJ_SeqAIJ_Scalable(Mat,Mat,Mat); 299 300 PETSC_INTERN PetscErrorCode MatPtAPSymbolic_SeqAIJ_SeqAIJ_SparseAxpy(Mat,Mat,PetscReal,Mat); 301 PETSC_INTERN PetscErrorCode MatPtAPNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 302 PETSC_INTERN PetscErrorCode MatPtAPNumeric_SeqAIJ_SeqAIJ_SparseAxpy(Mat,Mat,Mat); 303 304 PETSC_INTERN PetscErrorCode MatRARtSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat); 305 PETSC_INTERN PetscErrorCode MatRARtSymbolic_SeqAIJ_SeqAIJ_matmattransposemult(Mat,Mat,PetscReal,Mat); 306 PETSC_INTERN PetscErrorCode MatRARtSymbolic_SeqAIJ_SeqAIJ_colorrart(Mat,Mat,PetscReal,Mat); 307 PETSC_INTERN PetscErrorCode MatRARtNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 308 PETSC_INTERN PetscErrorCode MatRARtNumeric_SeqAIJ_SeqAIJ_matmattransposemult(Mat,Mat,Mat); 309 PETSC_INTERN PetscErrorCode MatRARtNumeric_SeqAIJ_SeqAIJ_colorrart(Mat,Mat,Mat); 310 311 PETSC_INTERN PetscErrorCode MatTransposeMatMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat); 312 PETSC_INTERN PetscErrorCode MatTransposeMatMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 313 PETSC_INTERN PetscErrorCode MatDestroy_SeqAIJ_MatTransMatMult(void*); 314 315 PETSC_INTERN PetscErrorCode MatMatTransposeMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat); 316 PETSC_INTERN PetscErrorCode MatMatTransposeMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 317 PETSC_INTERN PetscErrorCode MatTransposeColoringCreate_SeqAIJ(Mat,ISColoring,MatTransposeColoring); 318 PETSC_INTERN PetscErrorCode MatTransColoringApplySpToDen_SeqAIJ(MatTransposeColoring,Mat,Mat); 319 PETSC_INTERN PetscErrorCode MatTransColoringApplyDenToSp_SeqAIJ(MatTransposeColoring,Mat,Mat); 320 321 PETSC_INTERN PetscErrorCode MatMatMatMultSymbolic_SeqAIJ_SeqAIJ_SeqAIJ(Mat,Mat,Mat,PetscReal,Mat); 322 PETSC_INTERN PetscErrorCode MatMatMatMultNumeric_SeqAIJ_SeqAIJ_SeqAIJ(Mat,Mat,Mat,Mat); 323 324 PETSC_INTERN PetscErrorCode MatSetRandomSkipColumnRange_SeqAIJ_Private(Mat,PetscInt,PetscInt,PetscRandom); 325 PETSC_INTERN PetscErrorCode MatSetValues_SeqAIJ(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[],const PetscScalar[],InsertMode); 326 PETSC_INTERN PetscErrorCode MatGetRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**); 327 PETSC_INTERN PetscErrorCode MatRestoreRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**); 328 PETSC_INTERN PetscErrorCode MatScale_SeqAIJ(Mat,PetscScalar); 329 PETSC_INTERN PetscErrorCode MatDiagonalScale_SeqAIJ(Mat,Vec,Vec); 330 PETSC_INTERN PetscErrorCode MatDiagonalSet_SeqAIJ(Mat,Vec,InsertMode); 331 PETSC_INTERN PetscErrorCode MatAXPY_SeqAIJ(Mat,PetscScalar,Mat,MatStructure); 332 PETSC_INTERN PetscErrorCode MatGetRowIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 333 PETSC_INTERN PetscErrorCode MatRestoreRowIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 334 PETSC_INTERN PetscErrorCode MatGetColumnIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 335 PETSC_INTERN PetscErrorCode MatRestoreColumnIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 336 PETSC_INTERN PetscErrorCode MatGetColumnIJ_SeqAIJ_Color(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscInt *[],PetscBool*); 337 PETSC_INTERN PetscErrorCode MatRestoreColumnIJ_SeqAIJ_Color(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscInt *[],PetscBool*); 338 PETSC_INTERN PetscErrorCode MatDestroy_SeqAIJ(Mat); 339 PETSC_INTERN PetscErrorCode MatSetUp_SeqAIJ(Mat); 340 PETSC_INTERN PetscErrorCode MatView_SeqAIJ(Mat,PetscViewer); 341 342 PETSC_INTERN PetscErrorCode MatSeqAIJInvalidateDiagonal(Mat); 343 PETSC_INTERN PetscErrorCode MatSeqAIJInvalidateDiagonal_Inode(Mat); 344 PETSC_INTERN PetscErrorCode MatSeqAIJCheckInode(Mat); 345 PETSC_INTERN PetscErrorCode MatSeqAIJCheckInode_FactorLU(Mat); 346 347 PETSC_INTERN PetscErrorCode MatAXPYGetPreallocation_SeqAIJ(Mat,Mat,PetscInt*); 348 349 #if defined(PETSC_HAVE_MATLAB_ENGINE) 350 PETSC_EXTERN PetscErrorCode MatlabEnginePut_SeqAIJ(PetscObject,void*); 351 PETSC_EXTERN PetscErrorCode MatlabEngineGet_SeqAIJ(PetscObject,void*); 352 #endif 353 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqSBAIJ(Mat,MatType,MatReuse,Mat*); 354 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqBAIJ(Mat,MatType,MatReuse,Mat*); 355 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqDense(Mat,MatType,MatReuse,Mat*); 356 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJCRL(Mat,MatType,MatReuse,Mat*); 357 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_Elemental(Mat,MatType,MatReuse,Mat*); 358 PETSC_INTERN PetscErrorCode MatConvert_AIJ_HYPRE(Mat,MatType,MatReuse,Mat*); 359 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJPERM(Mat,MatType,MatReuse,Mat*); 360 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJSELL(Mat,MatType,MatReuse,Mat*); 361 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJMKL(Mat,MatType,MatReuse,Mat*); 362 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJViennaCL(Mat,MatType,MatReuse,Mat*); 363 PETSC_INTERN PetscErrorCode MatReorderForNonzeroDiagonal_SeqAIJ(Mat,PetscReal,IS,IS); 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 PETSC_INTERN PetscErrorCode MatSeqAIJCompactOutExtraColumns_SeqAIJ(Mat,ISLocalToGlobalMapping*); 380 PETSC_INTERN PetscErrorCode MatSetSeqAIJWithArrays_private(MPI_Comm,PetscInt,PetscInt,PetscInt[],PetscInt[],PetscScalar[],MatType,Mat); 381 382 /* 383 PetscSparseDenseMinusDot - The inner kernel of triangular solves and Gauss-Siedel smoothing. \sum_i xv[i] * r[xi[i]] for CSR storage 384 385 Input Parameters: 386 + nnz - the number of entries 387 . r - the array of vector values 388 . xv - the matrix values for the row 389 - xi - the column indices of the nonzeros in the row 390 391 Output Parameter: 392 . sum - negative the sum of results 393 394 PETSc compile flags: 395 + PETSC_KERNEL_USE_UNROLL_4 396 - PETSC_KERNEL_USE_UNROLL_2 397 398 Developer Notes: 399 The macro changes sum but not other parameters 400 401 .seealso: PetscSparseDensePlusDot() 402 403 */ 404 #if defined(PETSC_KERNEL_USE_UNROLL_4) 405 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) { \ 406 if (nnz > 0) { \ 407 PetscInt nnz2=nnz,rem=nnz&0x3; \ 408 switch (rem) { \ 409 case 3: sum -= *xv++ *r[*xi++]; \ 410 case 2: sum -= *xv++ *r[*xi++]; \ 411 case 1: sum -= *xv++ *r[*xi++]; \ 412 nnz2 -= rem;} \ 413 while (nnz2 > 0) { \ 414 sum -= xv[0] * r[xi[0]] + xv[1] * r[xi[1]] + \ 415 xv[2] * r[xi[2]] + xv[3] * r[xi[3]]; \ 416 xv += 4; xi += 4; nnz2 -= 4; \ 417 } \ 418 xv -= nnz; xi -= nnz; \ 419 } \ 420 } 421 422 #elif defined(PETSC_KERNEL_USE_UNROLL_2) 423 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) { \ 424 PetscInt __i,__i1,__i2; \ 425 for (__i=0; __i<nnz-1; __i+=2) {__i1 = xi[__i]; __i2=xi[__i+1]; \ 426 sum -= (xv[__i]*r[__i1] + xv[__i+1]*r[__i2]);} \ 427 if (nnz & 0x1) sum -= xv[__i] * r[xi[__i]];} 428 429 #else 430 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) { \ 431 PetscInt __i; \ 432 for (__i=0; __i<nnz; __i++) sum -= xv[__i] * r[xi[__i]];} 433 #endif 434 435 436 437 /* 438 PetscSparseDensePlusDot - The inner kernel of matrix-vector product \sum_i xv[i] * r[xi[i]] for CSR storage 439 440 Input Parameters: 441 + nnz - the number of entries 442 . r - the array of vector values 443 . xv - the matrix values for the row 444 - xi - the column indices of the nonzeros in the row 445 446 Output Parameter: 447 . sum - the sum of results 448 449 PETSc compile flags: 450 + PETSC_KERNEL_USE_UNROLL_4 451 - PETSC_KERNEL_USE_UNROLL_2 452 453 Developer Notes: 454 The macro changes sum but not other parameters 455 456 .seealso: PetscSparseDenseMinusDot() 457 458 */ 459 #if defined(PETSC_KERNEL_USE_UNROLL_4) 460 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) { \ 461 if (nnz > 0) { \ 462 PetscInt nnz2=nnz,rem=nnz&0x3; \ 463 switch (rem) { \ 464 case 3: sum += *xv++ *r[*xi++]; \ 465 case 2: sum += *xv++ *r[*xi++]; \ 466 case 1: sum += *xv++ *r[*xi++]; \ 467 nnz2 -= rem;} \ 468 while (nnz2 > 0) { \ 469 sum += xv[0] * r[xi[0]] + xv[1] * r[xi[1]] + \ 470 xv[2] * r[xi[2]] + xv[3] * r[xi[3]]; \ 471 xv += 4; xi += 4; nnz2 -= 4; \ 472 } \ 473 xv -= nnz; xi -= nnz; \ 474 } \ 475 } 476 477 #elif defined(PETSC_KERNEL_USE_UNROLL_2) 478 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) { \ 479 PetscInt __i,__i1,__i2; \ 480 for (__i=0; __i<nnz-1; __i+=2) {__i1 = xi[__i]; __i2=xi[__i+1]; \ 481 sum += (xv[__i]*r[__i1] + xv[__i+1]*r[__i2]);} \ 482 if (nnz & 0x1) sum += xv[__i] * r[xi[__i]];} 483 484 #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) && !defined(PETSC_SKIP_IMMINTRIN_H_CUDAWORKAROUND) 485 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) PetscSparseDensePlusDot_AVX512_Private(&(sum),(r),(xv),(xi),(nnz)) 486 487 #else 488 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) { \ 489 PetscInt __i; \ 490 for (__i=0; __i<nnz; __i++) sum += xv[__i] * r[xi[__i]];} 491 #endif 492 493 #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) && !defined(PETSC_SKIP_IMMINTRIN_H_CUDAWORKAROUND) 494 #include <immintrin.h> 495 #if !defined(_MM_SCALE_8) 496 #define _MM_SCALE_8 8 497 #endif 498 499 PETSC_STATIC_INLINE void PetscSparseDensePlusDot_AVX512_Private(PetscScalar *sum,const PetscScalar *x,const MatScalar *aa,const PetscInt *aj,PetscInt n) 500 { 501 __m512d vec_x,vec_y,vec_vals; 502 __m256i vec_idx; 503 __mmask8 mask; 504 PetscInt j; 505 506 vec_y = _mm512_setzero_pd(); 507 for (j=0; j<(n>>3); j++) { 508 vec_idx = _mm256_loadu_si256((__m256i const*)aj); 509 vec_vals = _mm512_loadu_pd(aa); 510 vec_x = _mm512_i32gather_pd(vec_idx,x,_MM_SCALE_8); 511 vec_y = _mm512_fmadd_pd(vec_x,vec_vals,vec_y); 512 aj += 8; aa += 8; 513 } 514 /* masked load does not work on KNL, it requires avx512vl */ 515 if ((n&0x07)>2) { 516 mask = (__mmask8)(0xff >> (8-(n&0x07))); 517 vec_idx = _mm256_loadu_si256((__m256i const*)aj); 518 vec_vals = _mm512_loadu_pd(aa); 519 vec_x = _mm512_mask_i32gather_pd(vec_x,mask,vec_idx,x,_MM_SCALE_8); 520 vec_y = _mm512_mask3_fmadd_pd(vec_x,vec_vals,vec_y,mask); 521 } else if ((n&0x07)==2) { 522 *sum += aa[0]*x[aj[0]]; 523 *sum += aa[1]*x[aj[1]]; 524 } else if ((n&0x07)==1) { 525 *sum += aa[0]*x[aj[0]]; 526 } 527 if (n>2) *sum += _mm512_reduce_add_pd(vec_y); 528 /* 529 for(j=0;j<(n&0x07);j++) *sum += aa[j]*x[aj[j]]; 530 */ 531 } 532 #endif 533 534 /* 535 PetscSparseDenseMaxDot - The inner kernel of a modified matrix-vector product \max_i xv[i] * r[xi[i]] for CSR storage 536 537 Input Parameters: 538 + nnz - the number of entries 539 . r - the array of vector values 540 . xv - the matrix values for the row 541 - xi - the column indices of the nonzeros in the row 542 543 Output Parameter: 544 . max - the max of results 545 546 .seealso: PetscSparseDensePlusDot(), PetscSparseDenseMinusDot() 547 548 */ 549 #define PetscSparseDenseMaxDot(max,r,xv,xi,nnz) { \ 550 PetscInt __i; \ 551 for (__i=0; __i<nnz; __i++) max = PetscMax(PetscRealPart(max), PetscRealPart(xv[__i] * r[xi[__i]]));} 552 553 /* 554 Add column indices into table for counting the max nonzeros of merged rows 555 */ 556 #define MatRowMergeMax_SeqAIJ(mat,nrows,ta) { \ 557 PetscInt _j,_row,_nz,*_col; \ 558 if (mat) { \ 559 for (_row=0; _row<nrows; _row++) { \ 560 _nz = mat->i[_row+1] - mat->i[_row]; \ 561 for (_j=0; _j<_nz; _j++) { \ 562 _col = _j + mat->j + mat->i[_row]; \ 563 PetscTableAdd(ta,*_col+1,1,INSERT_VALUES); \ 564 } \ 565 } \ 566 } \ 567 } 568 569 /* 570 Add column indices into table for counting the nonzeros of merged rows 571 */ 572 #define MatMergeRows_SeqAIJ(mat,nrows,rows,ta) { \ 573 PetscInt _j,_row,_nz,*_col,_i; \ 574 for (_i=0; _i<nrows; _i++) {\ 575 _row = rows[_i]; \ 576 _nz = mat->i[_row+1] - mat->i[_row]; \ 577 for (_j=0; _j<_nz; _j++) { \ 578 _col = _j + mat->j + mat->i[_row]; \ 579 PetscTableAdd(ta,*_col+1,1,INSERT_VALUES); \ 580 } \ 581 } \ 582 } 583 584 #endif 585