Actual source code: aij.h
5: #include private/matimpl.h
6: /*
7: Struct header shared by SeqAIJ, SeqBAIJ and SeqSBAIJ matrix formats
8: */
9: #define SEQAIJHEADER(datatype) \
10: PetscTruth roworiented; /* if true, row-oriented input, default */\
11: PetscInt nonew; /* 1 don't add new nonzeros, -1 generate error on new */\
12: PetscInt nounused; /* -1 generate error on unused space */\
13: PetscTruth singlemalloc; /* if true a, i, and j have been obtained with one big malloc */\
14: PetscInt maxnz; /* allocated nonzeros */\
15: PetscInt *imax; /* maximum space allocated for each row */\
16: PetscInt *ilen; /* actual length of each row */\
17: PetscInt reallocs; /* number of mallocs done during MatSetValues() \
18: as more values are set than were prealloced */\
19: PetscInt rmax; /* max nonzeros in any row */\
20: PetscTruth keepzeroedrows; /* keeps matrix structure same in calls to MatZeroRows()*/\
21: PetscTruth ignorezeroentries; \
22: PetscInt *xtoy,*xtoyB; /* map nonzero pattern of X into Y's, used by MatAXPY() */\
23: Mat XtoY; /* used by MatAXPY() */\
24: PetscTruth free_ij; /* free the column indices j and row offsets i when the matrix is destroyed */ \
25: PetscTruth free_a; /* free the numerical values when matrix is destroy */ \
26: Mat_CompressedRow compressedrow; /* use compressed row format */ \
27: PetscInt nz; /* nonzeros */ \
28: PetscInt *i; /* pointer to beginning of each row */ \
29: PetscInt *j; /* column values: j + i[k] - 1 is start of row k */ \
30: PetscInt *diag; /* pointers to diagonal elements */ \
31: datatype *a; /* nonzero elements */ \
32: PetscScalar *solve_work; /* work space used in MatSolve */ \
33: IS row, col, icol /* index sets, used for reorderings */
35: /*
36: MATSEQAIJ format - Compressed row storage (also called Yale sparse matrix
37: format) or compressed sparse row (CSR). The i[] and j[] arrays start at 0. For example,
38: j[i[k]+p] is the pth column in row k. Note that the diagonal
39: matrix elements are stored with the rest of the nonzeros (not separately).
40: */
42: /* Info about i-nodes (identical nodes) helper class for SeqAIJ */
43: typedef struct {
44: MatScalar *bdiag,*ibdiag; /* diagonal blocks of matrix used for MatRelax_Inode() */
45: PetscInt bdiagsize; /* length of bdiag and ibdiag */
46: PetscTruth ibdiagvalid; /* do ibdiag[] and bdiag[] contain the most recent values */
48: PetscTruth use;
49: PetscInt node_count; /* number of inodes */
50: PetscInt *size; /* size of each inode */
51: PetscInt limit; /* inode limit */
52: PetscInt max_limit; /* maximum supported inode limit */
53: PetscTruth checked; /* if inodes have been checked for */
54: } Mat_Inode;
56: EXTERN PetscErrorCode MatView_Inode(Mat,PetscViewer);
57: EXTERN PetscErrorCode MatAssemblyEnd_Inode(Mat,MatAssemblyType);
58: EXTERN PetscErrorCode MatDestroy_Inode(Mat);
59: EXTERN PetscErrorCode MatCreate_Inode(Mat);
60: EXTERN PetscErrorCode MatSetOption_Inode(Mat,MatOption,PetscTruth);
61: EXTERN PetscErrorCode MatDuplicate_Inode(Mat,MatDuplicateOption,Mat*);
62: EXTERN PetscErrorCode MatILUDTFactor_Inode(Mat,IS,IS,const MatFactorInfo*,Mat*);
63: EXTERN PetscErrorCode MatLUFactorSymbolic_Inode(Mat,Mat,IS,IS,const MatFactorInfo*);
64: EXTERN PetscErrorCode MatILUFactorSymbolic_Inode(Mat,Mat,IS,IS,const MatFactorInfo*);
67: typedef struct {
68: SEQAIJHEADER(MatScalar);
69: Mat_Inode inode;
70: MatScalar *saved_values; /* location for stashing nonzero values of matrix */
72: PetscScalar *idiag,*mdiag,*ssor_work; /* inverse of diagonal entries, diagonal values and workspace for Eisenstat trick */
73: PetscTruth idiagvalid; /* current idiag[] and mdiag[] are valid */
74: PetscScalar fshift,omega; /* last used omega and fshift */
76: ISColoring coloring; /* set with MatADSetColoring() used by MatADSetValues() */
77: } Mat_SeqAIJ;
79: /*
80: Frees the a, i, and j arrays from the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types
81: */
84: PETSC_STATIC_INLINE PetscErrorCode MatSeqXAIJFreeAIJ(Mat AA,MatScalar **a,PetscInt **j,PetscInt **i)
85: {
87: Mat_SeqAIJ *A = (Mat_SeqAIJ*) AA->data;
88: if (A->singlemalloc) {
89: PetscFree3(*a,*j,*i);
90: } else {
91: if (A->free_a && *a) {PetscFree(*a);}
92: if (A->free_ij && *j) {PetscFree(*j);}
93: if (A->free_ij && *i) {PetscFree(*i);}
94: }
95: *a = 0; *j = 0; *i = 0;
96: return 0;
97: }
99: /*
100: Allocates larger a, i, and j arrays for the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types
101: */
102: #define MatSeqXAIJReallocateAIJ(Amat,AM,BS2,NROW,ROW,COL,RMAX,AA,AI,AJ,RP,AP,AIMAX,NONEW,datatype) \
103: if (NROW >= RMAX) {\
104: Mat_SeqAIJ *Ain = (Mat_SeqAIJ*)Amat->data;\
105: /* there is no extra room in row, therefore enlarge */ \
106: PetscInt new_nz = AI[AM] + CHUNKSIZE,len,*new_i=0,*new_j=0; \
107: datatype *new_a; \
108: \
109: if (NONEW == -2) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"New nonzero at (%D,%D) caused a malloc",ROW,COL); \
110: /* malloc new storage space */ \
111: PetscMalloc3(BS2*new_nz,datatype,&new_a,new_nz,PetscInt,&new_j,AM+1,PetscInt,&new_i);\
112: \
113: /* copy over old data into new slots */ \
114: for (ii=0; ii<ROW+1; ii++) {new_i[ii] = AI[ii];} \
115: for (ii=ROW+1; ii<AM+1; ii++) {new_i[ii] = AI[ii]+CHUNKSIZE;} \
116: PetscMemcpy(new_j,AJ,(AI[ROW]+NROW)*sizeof(PetscInt)); \
117: len = (new_nz - CHUNKSIZE - AI[ROW] - NROW); \
118: PetscMemcpy(new_j+AI[ROW]+NROW+CHUNKSIZE,AJ+AI[ROW]+NROW,len*sizeof(PetscInt)); \
119: PetscMemcpy(new_a,AA,BS2*(AI[ROW]+NROW)*sizeof(datatype)); \
120: PetscMemzero(new_a+BS2*(AI[ROW]+NROW),BS2*CHUNKSIZE*sizeof(datatype));\
121: PetscMemcpy(new_a+BS2*(AI[ROW]+NROW+CHUNKSIZE),AA+BS2*(AI[ROW]+NROW),BS2*len*sizeof(datatype)); \
122: /* free up old matrix storage */ \
123: MatSeqXAIJFreeAIJ(A,&Ain->a,&Ain->j,&Ain->i);\
124: AA = new_a; \
125: Ain->a = (MatScalar*) new_a; \
126: AI = Ain->i = new_i; AJ = Ain->j = new_j; \
127: Ain->singlemalloc = PETSC_TRUE; \
128: \
129: RP = AJ + AI[ROW]; AP = AA + BS2*AI[ROW]; \
130: RMAX = AIMAX[ROW] = AIMAX[ROW] + CHUNKSIZE; \
131: Ain->maxnz += CHUNKSIZE; \
132: Ain->reallocs++; \
133: } \
136: EXTERN PetscErrorCode MatSeqAIJSetPreallocation_SeqAIJ(Mat,PetscInt,PetscInt*);
138: EXTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ(Mat,Mat,IS,IS,const MatFactorInfo*);
139: EXTERN PetscErrorCode MatICCFactorSymbolic_SeqAIJ(Mat,Mat,IS,const MatFactorInfo*);
140: EXTERN PetscErrorCode MatCholeskyFactorSymbolic_SeqAIJ(Mat,Mat,IS,const MatFactorInfo*);
141: EXTERN PetscErrorCode MatCholeskyFactorNumeric_SeqAIJ(Mat,Mat,const MatFactorInfo*);
142: EXTERN PetscErrorCode MatDuplicate_SeqAIJ(Mat,MatDuplicateOption,Mat*);
143: EXTERN PetscErrorCode MatMissingDiagonal_SeqAIJ(Mat,PetscTruth*,PetscInt*);
144: EXTERN PetscErrorCode MatMarkDiagonal_SeqAIJ(Mat);
146: EXTERN PetscErrorCode MatMult_SeqAIJ(Mat A,Vec,Vec);
147: EXTERN PetscErrorCode MatMultAdd_SeqAIJ(Mat A,Vec,Vec,Vec);
148: EXTERN PetscErrorCode MatMultTranspose_SeqAIJ(Mat A,Vec,Vec);
149: EXTERN PetscErrorCode MatMultTransposeAdd_SeqAIJ(Mat A,Vec,Vec,Vec);
150: EXTERN PetscErrorCode MatRelax_SeqAIJ(Mat,Vec,PetscReal,MatSORType,PetscReal,PetscInt,PetscInt,Vec);
152: EXTERN PetscErrorCode MatSetColoring_SeqAIJ(Mat,ISColoring);
153: EXTERN PetscErrorCode MatSetValuesAdic_SeqAIJ(Mat,void*);
154: EXTERN PetscErrorCode MatSetValuesAdifor_SeqAIJ(Mat,PetscInt,void*);
156: EXTERN PetscErrorCode MatGetSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]);
157: EXTERN PetscErrorCode MatGetSymbolicTransposeReduced_SeqAIJ(Mat,PetscInt,PetscInt,PetscInt *[],PetscInt *[]);
158: EXTERN PetscErrorCode MatRestoreSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]);
159: EXTERN PetscErrorCode MatToSymmetricIJ_SeqAIJ(PetscInt,PetscInt*,PetscInt*,PetscInt,PetscInt,PetscInt**,PetscInt**);
160: EXTERN PetscErrorCode MatLUFactorSymbolic_SeqAIJ(Mat,Mat,IS,IS,const MatFactorInfo*);
161: EXTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ(Mat,Mat,const MatFactorInfo*);
162: EXTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_InplaceWithPerm(Mat,Mat,const MatFactorInfo*);
163: EXTERN PetscErrorCode MatLUFactor_SeqAIJ(Mat,IS,IS,const MatFactorInfo*);
164: EXTERN PetscErrorCode MatSolve_SeqAIJ(Mat,Vec,Vec);
165: EXTERN PetscErrorCode MatSolve_SeqAIJ_NaturalOrdering(Mat,Vec,Vec);
166: EXTERN PetscErrorCode MatSolve_SeqAIJ_InplaceWithPerm(Mat,Vec,Vec);
167: EXTERN PetscErrorCode MatSolveAdd_SeqAIJ(Mat,Vec,Vec,Vec);
168: EXTERN PetscErrorCode MatSolveTranspose_SeqAIJ(Mat,Vec,Vec);
169: EXTERN PetscErrorCode MatSolveTransposeAdd_SeqAIJ(Mat,Vec,Vec,Vec);
170: EXTERN PetscErrorCode MatMatSolve_SeqAIJ(Mat,Mat,Mat);
171: EXTERN PetscErrorCode MatEqual_SeqAIJ(Mat A,Mat B,PetscTruth* flg);
172: EXTERN PetscErrorCode MatFDColoringCreate_SeqAIJ(Mat,ISColoring,MatFDColoring);
173: EXTERN PetscErrorCode MatILUDTFactor_SeqAIJ(Mat,IS,IS,const MatFactorInfo*,Mat*);
174: EXTERN PetscErrorCode MatLoad_SeqAIJ(PetscViewer, const MatType,Mat*);
175: EXTERN PetscErrorCode RegisterApplyPtAPRoutines_Private(Mat);
176: EXTERN PetscErrorCode MatMatMult_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*);
177: EXTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*);
178: EXTERN PetscErrorCode MatMatMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat);
179: EXTERN PetscErrorCode MatPtAPSymbolic_SeqAIJ(Mat,Mat,PetscReal,Mat*);
180: EXTERN PetscErrorCode MatPtAPNumeric_SeqAIJ(Mat,Mat,Mat);
181: EXTERN PetscErrorCode MatPtAPSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*);
182: EXTERN PetscErrorCode MatPtAPNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat);
183: EXTERN PetscErrorCode MatMatMultTranspose_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*);
184: EXTERN PetscErrorCode MatMatMultTransposeSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*);
185: EXTERN PetscErrorCode MatMatMultTransposeNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat);
186: EXTERN PetscErrorCode MatSetValues_SeqAIJ(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[],const PetscScalar[],InsertMode);
187: EXTERN PetscErrorCode MatGetRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**);
188: EXTERN PetscErrorCode MatRestoreRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**);
189: EXTERN PetscErrorCode MatAXPY_SeqAIJ(Mat,PetscScalar,Mat,MatStructure);
190: EXTERN PetscErrorCode MatGetRowIJ_SeqAIJ(Mat,PetscInt,PetscTruth,PetscTruth,PetscInt*,PetscInt *[],PetscInt *[],PetscTruth *);
191: EXTERN PetscErrorCode MatRestoreRowIJ_SeqAIJ(Mat,PetscInt,PetscTruth,PetscTruth,PetscInt *,PetscInt *[],PetscInt *[],PetscTruth *);
192: EXTERN PetscErrorCode MatGetColumnIJ_SeqAIJ(Mat,PetscInt,PetscTruth,PetscTruth,PetscInt*,PetscInt *[],PetscInt *[],PetscTruth *);
193: EXTERN PetscErrorCode MatRestoreColumnIJ_SeqAIJ(Mat,PetscInt,PetscTruth,PetscTruth,PetscInt *,PetscInt *[],PetscInt *[],PetscTruth *);
194: EXTERN PetscErrorCode MatDestroy_SeqAIJ(Mat);
195: EXTERN PetscErrorCode MatView_SeqAIJ(Mat,PetscViewer);
198: EXTERN PetscErrorCode MatConvert_SeqAIJ_SeqSBAIJ(Mat,const MatType,MatReuse,Mat*);
199: EXTERN PetscErrorCode MatConvert_SeqAIJ_SeqBAIJ(Mat,const MatType,MatReuse,Mat*);
200: EXTERN PetscErrorCode MatConvert_SeqAIJ_SeqCSRPERM(Mat,const MatType,MatReuse,Mat*);
201: EXTERN PetscErrorCode MatReorderForNonzeroDiagonal_SeqAIJ(Mat,PetscReal,IS,IS);
204: #endif