1 2 #if !defined(__AIJ_H) 3 #define __AIJ_H 4 5 #include <petsc/private/matimpl.h> 6 #include <petscctable.h> 7 8 /* Operations provided by MATSEQAIJ and its subclasses */ 9 typedef struct { 10 PetscErrorCode (*getarray)(Mat,PetscScalar **); 11 PetscErrorCode (*restorearray)(Mat,PetscScalar **); 12 PetscErrorCode (*getarrayread)(Mat,const PetscScalar **); 13 PetscErrorCode (*restorearrayread)(Mat,const PetscScalar **); 14 PetscErrorCode (*getarraywrite)(Mat,PetscScalar **); 15 PetscErrorCode (*restorearraywrite)(Mat,PetscScalar **); 16 } Mat_SeqAIJOps; 17 18 /* 19 Struct header shared by SeqAIJ, SeqBAIJ and SeqSBAIJ matrix formats 20 */ 21 #define SEQAIJHEADER(datatype) \ 22 PetscBool roworiented; /* if true, row-oriented input, default */ \ 23 PetscInt nonew; /* 1 don't add new nonzeros, -1 generate error on new */ \ 24 PetscInt nounused; /* -1 generate error on unused space */ \ 25 PetscBool singlemalloc; /* if true a, i, and j have been obtained with one big malloc */ \ 26 PetscInt maxnz; /* allocated nonzeros */ \ 27 PetscInt *imax; /* maximum space allocated for each row */ \ 28 PetscInt *ilen; /* actual length of each row */ \ 29 PetscInt *ipre; /* space preallocated for each row by user */ \ 30 PetscBool free_imax_ilen; \ 31 PetscInt reallocs; /* number of mallocs done during MatSetValues() \ 32 as more values are set than were prealloced */\ 33 PetscInt rmax; /* max nonzeros in any row */ \ 34 PetscBool keepnonzeropattern; /* keeps matrix structure same in calls to MatZeroRows()*/ \ 35 PetscBool ignorezeroentries; \ 36 PetscBool free_ij; /* free the column indices j and row offsets i when the matrix is destroyed */ \ 37 PetscBool free_a; /* free the numerical values when matrix is destroy */ \ 38 Mat_CompressedRow compressedrow; /* use compressed row format */ \ 39 PetscInt nz; /* nonzeros */ \ 40 PetscInt *i; /* pointer to beginning of each row */ \ 41 PetscInt *j; /* column values: j + i[k] - 1 is start of row k */ \ 42 PetscInt *diag; /* pointers to diagonal elements */ \ 43 PetscInt nonzerorowcnt; /* how many rows have nonzero entries */ \ 44 PetscBool free_diag; \ 45 datatype *a; /* nonzero elements */ \ 46 PetscScalar *solve_work; /* work space used in MatSolve */ \ 47 IS row, col, icol; /* index sets, used for reorderings */ \ 48 PetscBool pivotinblocks; /* pivot inside factorization of each diagonal block */ \ 49 Mat parent; /* set if this matrix was formed with MatDuplicate(...,MAT_SHARE_NONZERO_PATTERN,....); \ 50 means that this shares some data structures with the parent including diag, ilen, imax, i, j */\ 51 Mat_SubSppt *submatis1; /* used by MatCreateSubMatrices_MPIXAIJ_Local */ \ 52 Mat_SeqAIJOps ops[1] /* operations for SeqAIJ and its subclasses */ 53 54 typedef struct { 55 MatTransposeColoring matcoloring; 56 Mat Bt_den; /* dense matrix of B^T */ 57 Mat ABt_den; /* dense matrix of A*B^T */ 58 PetscBool usecoloring; 59 } Mat_MatMatTransMult; 60 61 typedef struct { /* used by MatTransposeMatMult() */ 62 Mat At; /* transpose of the first matrix */ 63 Mat mA; /* maij matrix of A */ 64 Vec bt,ct; /* vectors to hold locally transposed arrays of B and C */ 65 PetscBool updateAt; /* flg to avoid recomputing At in MatProductNumeric_AtB_SeqAIJ_SeqAIJ() */ 66 /* used by PtAP */ 67 void *data; 68 PetscErrorCode (*destroy)(void*); 69 } Mat_MatTransMatMult; 70 71 typedef struct { 72 PetscInt *api,*apj; /* symbolic structure of A*P */ 73 PetscScalar *apa; /* temporary array for storing one row of A*P */ 74 } Mat_AP; 75 76 typedef struct { 77 MatTransposeColoring matcoloring; 78 Mat Rt; /* sparse or dense matrix of R^T */ 79 Mat RARt; /* dense matrix of R*A*R^T */ 80 Mat ARt; /* A*R^T used for the case -matrart_color_art */ 81 MatScalar *work; /* work array to store columns of A*R^T used in MatMatMatMultNumeric_SeqAIJ_SeqAIJ_SeqDense() */ 82 /* free intermediate products needed for PtAP */ 83 void *data; 84 PetscErrorCode (*destroy)(void*); 85 } Mat_RARt; 86 87 typedef struct { 88 Mat BC; /* temp matrix for storing B*C */ 89 } Mat_MatMatMatMult; 90 91 /* 92 MATSEQAIJ format - Compressed row storage (also called Yale sparse matrix 93 format) or compressed sparse row (CSR). The i[] and j[] arrays start at 0. For example, 94 j[i[k]+p] is the pth column in row k. Note that the diagonal 95 matrix elements are stored with the rest of the nonzeros (not separately). 96 */ 97 98 /* Info about i-nodes (identical nodes) helper class for SeqAIJ */ 99 typedef struct { 100 MatScalar *bdiag,*ibdiag,*ssor_work; /* diagonal blocks of matrix used for MatSOR_SeqAIJ_Inode() */ 101 PetscInt bdiagsize; /* length of bdiag and ibdiag */ 102 PetscBool ibdiagvalid; /* do ibdiag[] and bdiag[] contain the most recent values */ 103 104 PetscBool use; 105 PetscInt node_count; /* number of inodes */ 106 PetscInt *size; /* size of each inode */ 107 PetscInt limit; /* inode limit */ 108 PetscInt max_limit; /* maximum supported inode limit */ 109 PetscBool checked; /* if inodes have been checked for */ 110 PetscObjectState mat_nonzerostate; /* non-zero state when inodes were checked for */ 111 } Mat_SeqAIJ_Inode; 112 113 PETSC_INTERN PetscErrorCode MatView_SeqAIJ_Inode(Mat,PetscViewer); 114 PETSC_INTERN PetscErrorCode MatAssemblyEnd_SeqAIJ_Inode(Mat,MatAssemblyType); 115 PETSC_INTERN PetscErrorCode MatDestroy_SeqAIJ_Inode(Mat); 116 PETSC_INTERN PetscErrorCode MatCreate_SeqAIJ_Inode(Mat); 117 PETSC_INTERN PetscErrorCode MatSetOption_SeqAIJ_Inode(Mat,MatOption,PetscBool); 118 PETSC_INTERN PetscErrorCode MatDuplicate_SeqAIJ_Inode(Mat,MatDuplicateOption,Mat*); 119 PETSC_INTERN PetscErrorCode MatDuplicateNoCreate_SeqAIJ(Mat,Mat,MatDuplicateOption,PetscBool); 120 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_Inode_inplace(Mat,Mat,const MatFactorInfo*); 121 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_Inode(Mat,Mat,const MatFactorInfo*); 122 PETSC_INTERN PetscErrorCode MatSeqAIJGetArray_SeqAIJ(Mat,PetscScalar**); 123 PETSC_INTERN PetscErrorCode MatSeqAIJRestoreArray_SeqAIJ(Mat,PetscScalar**); 124 125 typedef struct { 126 SEQAIJHEADER(MatScalar); 127 Mat_SeqAIJ_Inode inode; 128 MatScalar *saved_values; /* location for stashing nonzero values of matrix */ 129 130 PetscScalar *idiag,*mdiag,*ssor_work; /* inverse of diagonal entries, diagonal values and workspace for Eisenstat trick */ 131 PetscBool idiagvalid; /* current idiag[] and mdiag[] are valid */ 132 PetscScalar *ibdiag; /* inverses of block diagonals */ 133 PetscBool ibdiagvalid; /* inverses of block diagonals are valid. */ 134 PetscBool diagonaldense; /* all entries along the diagonal have been set; i.e. no missing diagonal terms */ 135 PetscScalar fshift,omega; /* last used omega and fshift */ 136 } Mat_SeqAIJ; 137 138 /* 139 Frees the a, i, and j arrays from the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types 140 */ 141 PETSC_STATIC_INLINE PetscErrorCode MatSeqXAIJFreeAIJ(Mat AA,MatScalar **a,PetscInt **j,PetscInt **i) 142 { 143 PetscErrorCode ierr; 144 Mat_SeqAIJ *A = (Mat_SeqAIJ*) AA->data; 145 if (A->singlemalloc) { 146 ierr = PetscFree3(*a,*j,*i);CHKERRQ(ierr); 147 } else { 148 if (A->free_a) {ierr = PetscFree(*a);CHKERRQ(ierr);} 149 if (A->free_ij) {ierr = PetscFree(*j);CHKERRQ(ierr);} 150 if (A->free_ij) {ierr = PetscFree(*i);CHKERRQ(ierr);} 151 } 152 return 0; 153 } 154 /* 155 Allocates larger a, i, and j arrays for the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types 156 This is a macro because it takes the datatype as an argument which can be either a Mat or a MatScalar 157 */ 158 #define MatSeqXAIJReallocateAIJ(Amat,AM,BS2,NROW,ROW,COL,RMAX,AA,AI,AJ,RP,AP,AIMAX,NONEW,datatype) \ 159 if (NROW >= RMAX) { \ 160 Mat_SeqAIJ *Ain = (Mat_SeqAIJ*)Amat->data; \ 161 /* there is no extra room in row, therefore enlarge */ \ 162 PetscInt CHUNKSIZE = 15,new_nz = AI[AM] + CHUNKSIZE,len,*new_i=NULL,*new_j=NULL; \ 163 datatype *new_a; \ 164 \ 165 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); \ 166 /* malloc new storage space */ \ 167 ierr = PetscMalloc3(BS2*new_nz,&new_a,new_nz,&new_j,AM+1,&new_i);CHKERRQ(ierr); \ 168 \ 169 /* copy over old data into new slots */ \ 170 for (ii=0; ii<ROW+1; ii++) {new_i[ii] = AI[ii];} \ 171 for (ii=ROW+1; ii<AM+1; ii++) {new_i[ii] = AI[ii]+CHUNKSIZE;} \ 172 ierr = PetscArraycpy(new_j,AJ,AI[ROW]+NROW);CHKERRQ(ierr); \ 173 len = (new_nz - CHUNKSIZE - AI[ROW] - NROW); \ 174 ierr = PetscArraycpy(new_j+AI[ROW]+NROW+CHUNKSIZE,AJ+AI[ROW]+NROW,len);CHKERRQ(ierr); \ 175 ierr = PetscArraycpy(new_a,AA,BS2*(AI[ROW]+NROW));CHKERRQ(ierr); \ 176 ierr = PetscArrayzero(new_a+BS2*(AI[ROW]+NROW),BS2*CHUNKSIZE);CHKERRQ(ierr); \ 177 ierr = PetscArraycpy(new_a+BS2*(AI[ROW]+NROW+CHUNKSIZE),AA+BS2*(AI[ROW]+NROW),BS2*len);CHKERRQ(ierr); \ 178 /* free up old matrix storage */ \ 179 ierr = MatSeqXAIJFreeAIJ(A,&Ain->a,&Ain->j,&Ain->i);CHKERRQ(ierr); \ 180 AA = new_a; \ 181 Ain->a = (MatScalar*) new_a; \ 182 AI = Ain->i = new_i; AJ = Ain->j = new_j; \ 183 Ain->singlemalloc = PETSC_TRUE; \ 184 \ 185 RP = AJ + AI[ROW]; AP = AA + BS2*AI[ROW]; \ 186 RMAX = AIMAX[ROW] = AIMAX[ROW] + CHUNKSIZE; \ 187 Ain->maxnz += BS2*CHUNKSIZE; \ 188 Ain->reallocs++; \ 189 } \ 190 191 #define MatSeqXAIJReallocateAIJ_structure_only(Amat,AM,BS2,NROW,ROW,COL,RMAX,AI,AJ,RP,AIMAX,NONEW,datatype) \ 192 if (NROW >= RMAX) { \ 193 Mat_SeqAIJ *Ain = (Mat_SeqAIJ*)Amat->data; \ 194 /* there is no extra room in row, therefore enlarge */ \ 195 PetscInt CHUNKSIZE = 15,new_nz = AI[AM] + CHUNKSIZE,len,*new_i=NULL,*new_j=NULL; \ 196 \ 197 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); \ 198 /* malloc new storage space */ \ 199 ierr = PetscMalloc1(new_nz,&new_j);CHKERRQ(ierr); \ 200 ierr = PetscMalloc1(AM+1,&new_i);CHKERRQ(ierr);\ 201 \ 202 /* copy over old data into new slots */ \ 203 for (ii=0; ii<ROW+1; ii++) {new_i[ii] = AI[ii];} \ 204 for (ii=ROW+1; ii<AM+1; ii++) {new_i[ii] = AI[ii]+CHUNKSIZE;} \ 205 ierr = PetscArraycpy(new_j,AJ,AI[ROW]+NROW);CHKERRQ(ierr); \ 206 len = (new_nz - CHUNKSIZE - AI[ROW] - NROW); \ 207 ierr = PetscArraycpy(new_j+AI[ROW]+NROW+CHUNKSIZE,AJ+AI[ROW]+NROW,len);CHKERRQ(ierr); \ 208 \ 209 /* free up old matrix storage */ \ 210 ierr = MatSeqXAIJFreeAIJ(A,&Ain->a,&Ain->j,&Ain->i);CHKERRQ(ierr); \ 211 Ain->a = NULL; \ 212 AI = Ain->i = new_i; AJ = Ain->j = new_j; \ 213 Ain->singlemalloc = PETSC_FALSE; \ 214 Ain->free_a = PETSC_FALSE; \ 215 \ 216 RP = AJ + AI[ROW]; \ 217 RMAX = AIMAX[ROW] = AIMAX[ROW] + CHUNKSIZE; \ 218 Ain->maxnz += BS2*CHUNKSIZE; \ 219 Ain->reallocs++; \ 220 } \ 221 222 PETSC_INTERN PetscErrorCode MatSeqAIJSetPreallocation_SeqAIJ(Mat,PetscInt,const PetscInt*); 223 PETSC_INTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,IS,const MatFactorInfo*); 224 PETSC_INTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ(Mat,Mat,IS,IS,const MatFactorInfo*); 225 PETSC_INTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ_ilu0(Mat,Mat,IS,IS,const MatFactorInfo*); 226 227 PETSC_INTERN PetscErrorCode MatICCFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,const MatFactorInfo*); 228 PETSC_INTERN PetscErrorCode MatICCFactorSymbolic_SeqAIJ(Mat,Mat,IS,const MatFactorInfo*); 229 PETSC_INTERN PetscErrorCode MatCholeskyFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,const MatFactorInfo*); 230 PETSC_INTERN PetscErrorCode MatCholeskyFactorSymbolic_SeqAIJ(Mat,Mat,IS,const MatFactorInfo*); 231 PETSC_INTERN PetscErrorCode MatCholeskyFactorNumeric_SeqAIJ_inplace(Mat,Mat,const MatFactorInfo*); 232 PETSC_INTERN PetscErrorCode MatCholeskyFactorNumeric_SeqAIJ(Mat,Mat,const MatFactorInfo*); 233 PETSC_INTERN PetscErrorCode MatDuplicate_SeqAIJ(Mat,MatDuplicateOption,Mat*); 234 PETSC_INTERN PetscErrorCode MatCopy_SeqAIJ(Mat,Mat,MatStructure); 235 PETSC_INTERN PetscErrorCode MatMissingDiagonal_SeqAIJ(Mat,PetscBool*,PetscInt*); 236 PETSC_INTERN PetscErrorCode MatMarkDiagonal_SeqAIJ(Mat); 237 PETSC_INTERN PetscErrorCode MatFindZeroDiagonals_SeqAIJ_Private(Mat,PetscInt*,PetscInt**); 238 239 PETSC_INTERN PetscErrorCode MatMult_SeqAIJ(Mat,Vec,Vec); 240 PETSC_INTERN PetscErrorCode MatMult_SeqAIJ_Inode(Mat,Vec,Vec); 241 PETSC_INTERN PetscErrorCode MatMultAdd_SeqAIJ(Mat,Vec,Vec,Vec); 242 PETSC_INTERN PetscErrorCode MatMultAdd_SeqAIJ_Inode(Mat,Vec,Vec,Vec); 243 PETSC_INTERN PetscErrorCode MatMultTranspose_SeqAIJ(Mat,Vec,Vec); 244 PETSC_INTERN PetscErrorCode MatMultTransposeAdd_SeqAIJ(Mat,Vec,Vec,Vec); 245 PETSC_INTERN PetscErrorCode MatSOR_SeqAIJ(Mat,Vec,PetscReal,MatSORType,PetscReal,PetscInt,PetscInt,Vec); 246 PETSC_INTERN PetscErrorCode MatSOR_SeqAIJ_Inode(Mat,Vec,PetscReal,MatSORType,PetscReal,PetscInt,PetscInt,Vec); 247 248 PETSC_INTERN PetscErrorCode MatSetOption_SeqAIJ(Mat,MatOption,PetscBool); 249 250 PETSC_INTERN PetscErrorCode MatGetSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]); 251 PETSC_INTERN PetscErrorCode MatGetSymbolicTransposeReduced_SeqAIJ(Mat,PetscInt,PetscInt,PetscInt *[],PetscInt *[]); 252 PETSC_INTERN PetscErrorCode MatRestoreSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]); 253 PETSC_INTERN PetscErrorCode MatTransposeSymbolic_SeqAIJ(Mat,Mat*); 254 PETSC_INTERN PetscErrorCode MatTranspose_SeqAIJ(Mat,MatReuse,Mat*); 255 PETSC_INTERN PetscErrorCode MatToSymmetricIJ_SeqAIJ(PetscInt,PetscInt*,PetscInt*,PetscBool,PetscInt,PetscInt,PetscInt**,PetscInt**); 256 PETSC_INTERN PetscErrorCode MatLUFactorSymbolic_SeqAIJ_inplace(Mat,Mat,IS,IS,const MatFactorInfo*); 257 PETSC_INTERN PetscErrorCode MatLUFactorSymbolic_SeqAIJ(Mat,Mat,IS,IS,const MatFactorInfo*); 258 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_inplace(Mat,Mat,const MatFactorInfo*); 259 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ(Mat,Mat,const MatFactorInfo*); 260 PETSC_INTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_InplaceWithPerm(Mat,Mat,const MatFactorInfo*); 261 PETSC_INTERN PetscErrorCode MatLUFactor_SeqAIJ(Mat,IS,IS,const MatFactorInfo*); 262 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_inplace(Mat,Vec,Vec); 263 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ(Mat,Vec,Vec); 264 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_Inode_inplace(Mat,Vec,Vec); 265 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_Inode(Mat,Vec,Vec); 266 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering_inplace(Mat,Vec,Vec); 267 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering(Mat,Vec,Vec); 268 PETSC_INTERN PetscErrorCode MatSolve_SeqAIJ_InplaceWithPerm(Mat,Vec,Vec); 269 PETSC_INTERN PetscErrorCode MatSolveAdd_SeqAIJ_inplace(Mat,Vec,Vec,Vec); 270 PETSC_INTERN PetscErrorCode MatSolveAdd_SeqAIJ(Mat,Vec,Vec,Vec); 271 PETSC_INTERN PetscErrorCode MatSolveTranspose_SeqAIJ_inplace(Mat,Vec,Vec); 272 PETSC_INTERN PetscErrorCode MatSolveTranspose_SeqAIJ(Mat,Vec,Vec); 273 PETSC_INTERN PetscErrorCode MatSolveTransposeAdd_SeqAIJ_inplace(Mat,Vec,Vec,Vec); 274 PETSC_INTERN PetscErrorCode MatSolveTransposeAdd_SeqAIJ(Mat,Vec,Vec,Vec); 275 PETSC_INTERN PetscErrorCode MatMatSolve_SeqAIJ_inplace(Mat,Mat,Mat); 276 PETSC_INTERN PetscErrorCode MatMatSolve_SeqAIJ(Mat,Mat,Mat); 277 PETSC_INTERN PetscErrorCode MatEqual_SeqAIJ(Mat,Mat,PetscBool*); 278 PETSC_INTERN PetscErrorCode MatFDColoringCreate_SeqXAIJ(Mat,ISColoring,MatFDColoring); 279 PETSC_INTERN PetscErrorCode MatFDColoringSetUp_SeqXAIJ(Mat,ISColoring,MatFDColoring); 280 PETSC_INTERN PetscErrorCode MatFDColoringSetUpBlocked_AIJ_Private(Mat,MatFDColoring,PetscInt); 281 PETSC_INTERN PetscErrorCode MatLoad_AIJ_HDF5(Mat,PetscViewer); 282 PETSC_INTERN PetscErrorCode MatLoad_SeqAIJ_Binary(Mat,PetscViewer); 283 PETSC_INTERN PetscErrorCode MatLoad_SeqAIJ(Mat,PetscViewer); 284 PETSC_INTERN PetscErrorCode RegisterApplyPtAPRoutines_Private(Mat); 285 286 #if defined(PETSC_HAVE_HYPRE) 287 PETSC_INTERN PetscErrorCode MatProductSetFromOptions_Transpose_AIJ_AIJ(Mat); 288 #endif 289 PETSC_INTERN PetscErrorCode MatProductSetFromOptions_SeqAIJ(Mat); 290 291 PETSC_INTERN PetscErrorCode MatProductSymbolic_SeqAIJ_SeqAIJ(Mat); 292 PETSC_INTERN PetscErrorCode MatProductSymbolic_PtAP_SeqAIJ_SeqAIJ(Mat); 293 PETSC_INTERN PetscErrorCode MatProductSymbolic_RARt_SeqAIJ_SeqAIJ(Mat); 294 295 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat); 296 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_Sorted(Mat,Mat,PetscReal,Mat); 297 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqDense_SeqAIJ(Mat,Mat,PetscReal,Mat); 298 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_Scalable(Mat,Mat,PetscReal,Mat); 299 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_Scalable_fast(Mat,Mat,PetscReal,Mat); 300 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_Heap(Mat,Mat,PetscReal,Mat); 301 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_BTHeap(Mat,Mat,PetscReal,Mat); 302 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_RowMerge(Mat,Mat,PetscReal,Mat); 303 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ_LLCondensed(Mat,Mat,PetscReal,Mat); 304 #if defined(PETSC_HAVE_HYPRE) 305 PETSC_INTERN PetscErrorCode MatMatMultSymbolic_AIJ_AIJ_wHYPRE(Mat,Mat,PetscReal,Mat); 306 #endif 307 308 PETSC_INTERN PetscErrorCode MatMatMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 309 PETSC_INTERN PetscErrorCode MatMatMultNumeric_SeqAIJ_SeqAIJ_Sorted(Mat,Mat,Mat); 310 311 PETSC_INTERN PetscErrorCode MatMatMultNumeric_SeqDense_SeqAIJ(Mat,Mat,Mat); 312 PETSC_INTERN PetscErrorCode MatMatMultNumeric_SeqAIJ_SeqAIJ_Scalable(Mat,Mat,Mat); 313 314 PETSC_INTERN PetscErrorCode MatPtAPSymbolic_SeqAIJ_SeqAIJ_SparseAxpy(Mat,Mat,PetscReal,Mat); 315 PETSC_INTERN PetscErrorCode MatPtAPNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 316 PETSC_INTERN PetscErrorCode MatPtAPNumeric_SeqAIJ_SeqAIJ_SparseAxpy(Mat,Mat,Mat); 317 318 PETSC_INTERN PetscErrorCode MatRARtSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat); 319 PETSC_INTERN PetscErrorCode MatRARtSymbolic_SeqAIJ_SeqAIJ_matmattransposemult(Mat,Mat,PetscReal,Mat); 320 PETSC_INTERN PetscErrorCode MatRARtSymbolic_SeqAIJ_SeqAIJ_colorrart(Mat,Mat,PetscReal,Mat); 321 PETSC_INTERN PetscErrorCode MatRARtNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 322 PETSC_INTERN PetscErrorCode MatRARtNumeric_SeqAIJ_SeqAIJ_matmattransposemult(Mat,Mat,Mat); 323 PETSC_INTERN PetscErrorCode MatRARtNumeric_SeqAIJ_SeqAIJ_colorrart(Mat,Mat,Mat); 324 325 PETSC_INTERN PetscErrorCode MatTransposeMatMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat); 326 PETSC_INTERN PetscErrorCode MatTransposeMatMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 327 PETSC_INTERN PetscErrorCode MatDestroy_SeqAIJ_MatTransMatMult(void*); 328 329 PETSC_INTERN PetscErrorCode MatMatTransposeMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat); 330 PETSC_INTERN PetscErrorCode MatMatTransposeMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat); 331 PETSC_INTERN PetscErrorCode MatTransposeColoringCreate_SeqAIJ(Mat,ISColoring,MatTransposeColoring); 332 PETSC_INTERN PetscErrorCode MatTransColoringApplySpToDen_SeqAIJ(MatTransposeColoring,Mat,Mat); 333 PETSC_INTERN PetscErrorCode MatTransColoringApplyDenToSp_SeqAIJ(MatTransposeColoring,Mat,Mat); 334 335 PETSC_INTERN PetscErrorCode MatMatMatMultSymbolic_SeqAIJ_SeqAIJ_SeqAIJ(Mat,Mat,Mat,PetscReal,Mat); 336 PETSC_INTERN PetscErrorCode MatMatMatMultNumeric_SeqAIJ_SeqAIJ_SeqAIJ(Mat,Mat,Mat,Mat); 337 338 PETSC_INTERN PetscErrorCode MatSetRandomSkipColumnRange_SeqAIJ_Private(Mat,PetscInt,PetscInt,PetscRandom); 339 PETSC_INTERN PetscErrorCode MatSetValues_SeqAIJ(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[],const PetscScalar[],InsertMode); 340 PETSC_INTERN PetscErrorCode MatGetRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**); 341 PETSC_INTERN PetscErrorCode MatRestoreRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**); 342 PETSC_INTERN PetscErrorCode MatScale_SeqAIJ(Mat,PetscScalar); 343 PETSC_INTERN PetscErrorCode MatDiagonalScale_SeqAIJ(Mat,Vec,Vec); 344 PETSC_INTERN PetscErrorCode MatDiagonalSet_SeqAIJ(Mat,Vec,InsertMode); 345 PETSC_INTERN PetscErrorCode MatAXPY_SeqAIJ(Mat,PetscScalar,Mat,MatStructure); 346 PETSC_INTERN PetscErrorCode MatGetRowIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 347 PETSC_INTERN PetscErrorCode MatRestoreRowIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 348 PETSC_INTERN PetscErrorCode MatGetColumnIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 349 PETSC_INTERN PetscErrorCode MatRestoreColumnIJ_SeqAIJ(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscBool*); 350 PETSC_INTERN PetscErrorCode MatGetColumnIJ_SeqAIJ_Color(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscInt *[],PetscBool*); 351 PETSC_INTERN PetscErrorCode MatRestoreColumnIJ_SeqAIJ_Color(Mat,PetscInt,PetscBool,PetscBool,PetscInt*,const PetscInt *[],const PetscInt *[],PetscInt *[],PetscBool*); 352 PETSC_INTERN PetscErrorCode MatDestroy_SeqAIJ(Mat); 353 PETSC_INTERN PetscErrorCode MatSetUp_SeqAIJ(Mat); 354 PETSC_INTERN PetscErrorCode MatView_SeqAIJ(Mat,PetscViewer); 355 356 PETSC_INTERN PetscErrorCode MatSeqAIJInvalidateDiagonal(Mat); 357 PETSC_INTERN PetscErrorCode MatSeqAIJInvalidateDiagonal_Inode(Mat); 358 PETSC_INTERN PetscErrorCode MatSeqAIJCheckInode(Mat); 359 PETSC_INTERN PetscErrorCode MatSeqAIJCheckInode_FactorLU(Mat); 360 361 PETSC_INTERN PetscErrorCode MatAXPYGetPreallocation_SeqAIJ(Mat,Mat,PetscInt*); 362 363 #if defined(PETSC_HAVE_MATLAB_ENGINE) 364 PETSC_EXTERN PetscErrorCode MatlabEnginePut_SeqAIJ(PetscObject,void*); 365 PETSC_EXTERN PetscErrorCode MatlabEngineGet_SeqAIJ(PetscObject,void*); 366 #endif 367 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqSBAIJ(Mat,MatType,MatReuse,Mat*); 368 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqBAIJ(Mat,MatType,MatReuse,Mat*); 369 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqDense(Mat,MatType,MatReuse,Mat*); 370 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJCRL(Mat,MatType,MatReuse,Mat*); 371 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_Elemental(Mat,MatType,MatReuse,Mat*); 372 #if defined(PETSC_HAVE_SCALAPACK) 373 PETSC_INTERN PetscErrorCode MatConvert_AIJ_ScaLAPACK(Mat,MatType,MatReuse,Mat*); 374 #endif 375 PETSC_INTERN PetscErrorCode MatConvert_AIJ_HYPRE(Mat,MatType,MatReuse,Mat*); 376 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJPERM(Mat,MatType,MatReuse,Mat*); 377 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJSELL(Mat,MatType,MatReuse,Mat*); 378 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJMKL(Mat,MatType,MatReuse,Mat*); 379 PETSC_INTERN PetscErrorCode MatConvert_SeqAIJ_SeqAIJViennaCL(Mat,MatType,MatReuse,Mat*); 380 PETSC_INTERN PetscErrorCode MatReorderForNonzeroDiagonal_SeqAIJ(Mat,PetscReal,IS,IS); 381 PETSC_INTERN PetscErrorCode MatRARt_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*); 382 PETSC_EXTERN PetscErrorCode MatCreate_SeqAIJ(Mat); 383 PETSC_INTERN PetscErrorCode MatAssemblyEnd_SeqAIJ(Mat,MatAssemblyType); 384 PETSC_EXTERN PetscErrorCode MatZeroEntries_SeqAIJ(Mat); 385 386 PETSC_INTERN PetscErrorCode MatAXPYGetPreallocation_SeqX_private(PetscInt,const PetscInt*,const PetscInt*,const PetscInt*,const PetscInt*,PetscInt*); 387 PETSC_INTERN PetscErrorCode MatCreateMPIMatConcatenateSeqMat_SeqAIJ(MPI_Comm,Mat,PetscInt,MatReuse,Mat*); 388 PETSC_INTERN PetscErrorCode MatCreateMPIMatConcatenateSeqMat_MPIAIJ(MPI_Comm,Mat,PetscInt,MatReuse,Mat*); 389 390 PETSC_INTERN PetscErrorCode MatSetSeqMat_SeqAIJ(Mat,IS,IS,MatStructure,Mat); 391 PETSC_INTERN PetscErrorCode MatDestroySubMatrix_Private(Mat_SubSppt*); 392 PETSC_INTERN PetscErrorCode MatDestroySubMatrix_SeqAIJ(Mat); 393 PETSC_INTERN PetscErrorCode MatDestroySubMatrix_Dummy(Mat); 394 PETSC_INTERN PetscErrorCode MatDestroySubMatrices_Dummy(PetscInt, Mat*[]); 395 PETSC_INTERN PetscErrorCode MatCreateSubMatrix_SeqAIJ(Mat,IS,IS,PetscInt,MatReuse,Mat*); 396 397 PETSC_INTERN PetscErrorCode MatSeqAIJCompactOutExtraColumns_SeqAIJ(Mat,ISLocalToGlobalMapping*); 398 PETSC_INTERN PetscErrorCode MatSetSeqAIJWithArrays_private(MPI_Comm,PetscInt,PetscInt,PetscInt[],PetscInt[],PetscScalar[],MatType,Mat); 399 400 /* 401 PetscSparseDenseMinusDot - The inner kernel of triangular solves and Gauss-Siedel smoothing. \sum_i xv[i] * r[xi[i]] for CSR storage 402 403 Input Parameters: 404 + nnz - the number of entries 405 . r - the array of vector values 406 . xv - the matrix values for the row 407 - xi - the column indices of the nonzeros in the row 408 409 Output Parameter: 410 . sum - negative the sum of results 411 412 PETSc compile flags: 413 + PETSC_KERNEL_USE_UNROLL_4 414 - PETSC_KERNEL_USE_UNROLL_2 415 416 Developer Notes: 417 The macro changes sum but not other parameters 418 419 .seealso: PetscSparseDensePlusDot() 420 421 */ 422 #if defined(PETSC_KERNEL_USE_UNROLL_4) 423 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) { \ 424 if (nnz > 0) { \ 425 PetscInt nnz2=nnz,rem=nnz&0x3; \ 426 switch (rem) { \ 427 case 3: sum -= *xv++ *r[*xi++]; \ 428 case 2: sum -= *xv++ *r[*xi++]; \ 429 case 1: sum -= *xv++ *r[*xi++]; \ 430 nnz2 -= rem;} \ 431 while (nnz2 > 0) { \ 432 sum -= xv[0] * r[xi[0]] + xv[1] * r[xi[1]] + \ 433 xv[2] * r[xi[2]] + xv[3] * r[xi[3]]; \ 434 xv += 4; xi += 4; nnz2 -= 4; \ 435 } \ 436 xv -= nnz; xi -= nnz; \ 437 } \ 438 } 439 440 #elif defined(PETSC_KERNEL_USE_UNROLL_2) 441 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) { \ 442 PetscInt __i,__i1,__i2; \ 443 for (__i=0; __i<nnz-1; __i+=2) {__i1 = xi[__i]; __i2=xi[__i+1]; \ 444 sum -= (xv[__i]*r[__i1] + xv[__i+1]*r[__i2]);} \ 445 if (nnz & 0x1) sum -= xv[__i] * r[xi[__i]];} 446 447 #else 448 #define PetscSparseDenseMinusDot(sum,r,xv,xi,nnz) { \ 449 PetscInt __i; \ 450 for (__i=0; __i<nnz; __i++) sum -= xv[__i] * r[xi[__i]];} 451 #endif 452 453 /* 454 PetscSparseDensePlusDot - The inner kernel of matrix-vector product \sum_i xv[i] * r[xi[i]] for CSR storage 455 456 Input Parameters: 457 + nnz - the number of entries 458 . r - the array of vector values 459 . xv - the matrix values for the row 460 - xi - the column indices of the nonzeros in the row 461 462 Output Parameter: 463 . sum - the sum of results 464 465 PETSc compile flags: 466 + PETSC_KERNEL_USE_UNROLL_4 467 - PETSC_KERNEL_USE_UNROLL_2 468 469 Developer Notes: 470 The macro changes sum but not other parameters 471 472 .seealso: PetscSparseDenseMinusDot() 473 474 */ 475 #if defined(PETSC_KERNEL_USE_UNROLL_4) 476 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) { \ 477 if (nnz > 0) { \ 478 PetscInt nnz2=nnz,rem=nnz&0x3; \ 479 switch (rem) { \ 480 case 3: sum += *xv++ *r[*xi++]; \ 481 case 2: sum += *xv++ *r[*xi++]; \ 482 case 1: sum += *xv++ *r[*xi++]; \ 483 nnz2 -= rem;} \ 484 while (nnz2 > 0) { \ 485 sum += xv[0] * r[xi[0]] + xv[1] * r[xi[1]] + \ 486 xv[2] * r[xi[2]] + xv[3] * r[xi[3]]; \ 487 xv += 4; xi += 4; nnz2 -= 4; \ 488 } \ 489 xv -= nnz; xi -= nnz; \ 490 } \ 491 } 492 493 #elif defined(PETSC_KERNEL_USE_UNROLL_2) 494 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) { \ 495 PetscInt __i,__i1,__i2; \ 496 for (__i=0; __i<nnz-1; __i+=2) {__i1 = xi[__i]; __i2=xi[__i+1]; \ 497 sum += (xv[__i]*r[__i1] + xv[__i+1]*r[__i2]);} \ 498 if (nnz & 0x1) sum += xv[__i] * r[xi[__i]];} 499 500 #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) 501 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) PetscSparseDensePlusDot_AVX512_Private(&(sum),(r),(xv),(xi),(nnz)) 502 503 #else 504 #define PetscSparseDensePlusDot(sum,r,xv,xi,nnz) { \ 505 PetscInt __i; \ 506 for (__i=0; __i<nnz; __i++) sum += xv[__i] * r[xi[__i]];} 507 #endif 508 509 #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) 510 #include <immintrin.h> 511 #if !defined(_MM_SCALE_8) 512 #define _MM_SCALE_8 8 513 #endif 514 515 PETSC_STATIC_INLINE void PetscSparseDensePlusDot_AVX512_Private(PetscScalar *sum,const PetscScalar *x,const MatScalar *aa,const PetscInt *aj,PetscInt n) 516 { 517 __m512d vec_x,vec_y,vec_vals; 518 __m256i vec_idx; 519 __mmask8 mask; 520 PetscInt j; 521 522 vec_y = _mm512_setzero_pd(); 523 for (j=0; j<(n>>3); j++) { 524 vec_idx = _mm256_loadu_si256((__m256i const*)aj); 525 vec_vals = _mm512_loadu_pd(aa); 526 vec_x = _mm512_i32gather_pd(vec_idx,x,_MM_SCALE_8); 527 vec_y = _mm512_fmadd_pd(vec_x,vec_vals,vec_y); 528 aj += 8; aa += 8; 529 } 530 /* masked load does not work on KNL, it requires avx512vl */ 531 if ((n&0x07)>2) { 532 mask = (__mmask8)(0xff >> (8-(n&0x07))); 533 vec_idx = _mm256_loadu_si256((__m256i const*)aj); 534 vec_vals = _mm512_loadu_pd(aa); 535 vec_x = _mm512_mask_i32gather_pd(vec_x,mask,vec_idx,x,_MM_SCALE_8); 536 vec_y = _mm512_mask3_fmadd_pd(vec_x,vec_vals,vec_y,mask); 537 } else if ((n&0x07)==2) { 538 *sum += aa[0]*x[aj[0]]; 539 *sum += aa[1]*x[aj[1]]; 540 } else if ((n&0x07)==1) { 541 *sum += aa[0]*x[aj[0]]; 542 } 543 if (n>2) *sum += _mm512_reduce_add_pd(vec_y); 544 /* 545 for (j=0;j<(n&0x07);j++) *sum += aa[j]*x[aj[j]]; 546 */ 547 } 548 #endif 549 550 /* 551 PetscSparseDenseMaxDot - The inner kernel of a modified matrix-vector product \max_i xv[i] * r[xi[i]] for CSR storage 552 553 Input Parameters: 554 + nnz - the number of entries 555 . r - the array of vector values 556 . xv - the matrix values for the row 557 - xi - the column indices of the nonzeros in the row 558 559 Output Parameter: 560 . max - the max of results 561 562 .seealso: PetscSparseDensePlusDot(), PetscSparseDenseMinusDot() 563 564 */ 565 #define PetscSparseDenseMaxDot(max,r,xv,xi,nnz) { \ 566 PetscInt __i; \ 567 for (__i=0; __i<nnz; __i++) max = PetscMax(PetscRealPart(max), PetscRealPart(xv[__i] * r[xi[__i]]));} 568 569 /* 570 Add column indices into table for counting the max nonzeros of merged rows 571 */ 572 #define MatRowMergeMax_SeqAIJ(mat,nrows,ta) { \ 573 PetscInt _j,_row,_nz,*_col; \ 574 if (mat) { \ 575 for (_row=0; _row<nrows; _row++) { \ 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 } 584 585 /* 586 Add column indices into table for counting the nonzeros of merged rows 587 */ 588 #define MatMergeRows_SeqAIJ(mat,nrows,rows,ta) { \ 589 PetscInt _j,_row,_nz,*_col,_i; \ 590 for (_i=0; _i<nrows; _i++) {\ 591 _row = rows[_i]; \ 592 _nz = mat->i[_row+1] - mat->i[_row]; \ 593 for (_j=0; _j<_nz; _j++) { \ 594 _col = _j + mat->j + mat->i[_row]; \ 595 PetscTableAdd(ta,*_col+1,1,INSERT_VALUES); \ 596 } \ 597 } \ 598 } 599 600 #endif 601