#if !defined(__AIJ_H)
#define __AIJ_H

#include "include/private/matimpl.h"
/*  
    Struct header shared by SeqAIJ, SeqBAIJ and SeqSBAIJ matrix formats
*/
#define SEQAIJHEADER(datatype)	\
  PetscTruth        sorted;           /* if true, rows are sorted by increasing columns */\
  PetscTruth        roworiented;      /* if true, row-oriented input, default */\
  PetscInt          nonew;            /* 1 don't add new nonzeros, -1 generate error on new */\
  PetscTruth        singlemalloc;     /* if true a, i, and j have been obtained with one big malloc */\
  PetscInt          maxnz;            /* allocated nonzeros */\
  PetscInt          *imax;            /* maximum space allocated for each row */\
  PetscInt          *ilen;            /* actual length of each row */\
  PetscInt          reallocs;         /* number of mallocs done during MatSetValues() \
                                        as more values are set than were prealloced */\
  PetscInt          rmax;             /* max nonzeros in any row */\
  PetscTruth        keepzeroedrows;   /* keeps matrix structure same in calls to MatZeroRows()*/\
  PetscTruth        ignorezeroentries; \
  PetscInt          *xtoy,*xtoyB;     /* map nonzero pattern of X into Y's, used by MatAXPY() */\
  Mat               XtoY;             /* used by MatAXPY() */\
  PetscTruth        free_ij;          /* free the column indices j and row offsets i when the matrix is destroyed */ \
  PetscTruth        free_a;           /* free the numerical values when matrix is destroy */ \
  Mat_CompressedRow compressedrow;    /* use compressed row format */                      \
  PetscInt          nz;               /* nonzeros */                                       \
  PetscInt          *i;               /* pointer to beginning of each row */               \
  PetscInt          *j;               /* column values: j + i[k] - 1 is start of row k */  \
  PetscInt          *diag;            /* pointers to diagonal elements */                  \
  datatype          *a;               /* nonzero elements */                               \
  PetscScalar       *solve_work;      /* work space used in MatSolve */                    \
  IS                row, col, icol    /* index sets, used for reorderings */               

/*  
  MATSEQAIJ format - Compressed row storage (also called Yale sparse matrix
  format) or compressed sparse row (CSR).  The i[] and j[] arrays start at 0. For example,
  j[i[k]+p] is the pth column in row k.  Note that the diagonal
  matrix elements are stored with the rest of the nonzeros (not separately).
*/

/* Info about i-nodes (identical nodes) helper class for SeqAIJ */
typedef struct {
  PetscTruth use;
  PetscInt   node_count;                    /* number of inodes */
  PetscInt   *size;                         /* size of each inode */
  PetscInt   limit;                         /* inode limit */
  PetscInt   max_limit;                     /* maximum supported inode limit */
  PetscTruth checked;                       /* if inodes have been checked for */
} Mat_Inode;

EXTERN PetscErrorCode MatView_Inode(Mat,PetscViewer);
EXTERN PetscErrorCode MatAssemblyEnd_Inode(Mat,MatAssemblyType);
EXTERN PetscErrorCode MatDestroy_Inode(Mat);
EXTERN PetscErrorCode MatCreate_Inode(Mat);
EXTERN PetscErrorCode MatSetOption_Inode(Mat,MatOption);
EXTERN PetscErrorCode MatDuplicate_Inode(Mat A,MatDuplicateOption cpvalues,Mat *B);
EXTERN PetscErrorCode MatILUDTFactor_Inode(Mat A,IS isrow,IS iscol,MatFactorInfo *info,Mat *fact);
EXTERN PetscErrorCode MatLUFactorSymbolic_Inode(Mat A,IS isrow,IS iscol,MatFactorInfo *info,Mat *fact);
EXTERN PetscErrorCode MatILUFactorSymbolic_Inode(Mat A,IS isrow,IS iscol,MatFactorInfo *info,Mat *fact);


typedef struct {
  SEQAIJHEADER(PetscScalar);
  Mat_Inode    inode;
  PetscScalar  *saved_values;    /* location for stashing nonzero values of matrix */
  PetscScalar  *idiag,*ssor;     /* inverse of diagonal entries; space for eisen */
  ISColoring   coloring;         /* set with MatADSetColoring() used by MatADSetValues() */
} Mat_SeqAIJ;

/*
    Frees the a, i, and j arrays from the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types
*/
#undef __FUNCT__  
#define __FUNCT__ "MatSeqXAIJFreeAIJ"
PETSC_STATIC_INLINE PetscErrorCode MatSeqXAIJFreeAIJ(Mat AA,PetscScalar **a,PetscInt **j,PetscInt **i) {
                                     PetscErrorCode ierr;
                                     Mat_SeqAIJ     *A = (Mat_SeqAIJ*) AA->data;
                                     if (A->singlemalloc) {
                                       ierr = PetscFree3(*a,*j,*i);CHKERRQ(ierr);
                                     } else {
                                       if (A->free_a  && *a) {ierr = PetscFree(*a);CHKERRQ(ierr);}
                                       if (A->free_ij && *j) {ierr = PetscFree(*j);CHKERRQ(ierr);}
                                       if (A->free_ij && *i) {ierr = PetscFree(*i);CHKERRQ(ierr);}
                                     }
                                     *a = 0; *j = 0; *i = 0;
                                     return 0;
                                   }

/*
    Allocates larger a, i, and j arrays for the XAIJ (AIJ, BAIJ, and SBAIJ) matrix types
*/
#define MatSeqXAIJReallocateAIJ(Amat,AM,BS2,NROW,ROW,COL,RMAX,AA,AI,AJ,RP,AP,AIMAX,NONEW,datatype) \
  if (NROW >= RMAX) {\
	Mat_SeqAIJ *Ain = (Mat_SeqAIJ*)Amat->data;\
        /* there is no extra room in row, therefore enlarge */ \
        PetscInt   new_nz = AI[AM] + CHUNKSIZE,len,*new_i=0,*new_j=0; \
        datatype   *new_a; \
 \
        if (NONEW == -2) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"New nonzero at (%D,%D) caused a malloc",ROW,COL); \
        /* malloc new storage space */ \
        ierr = PetscMalloc3(BS2*new_nz,datatype,&new_a,new_nz,PetscInt,&new_j,AM+1,PetscInt,&new_i);CHKERRQ(ierr);\
 \
        /* copy over old data into new slots */ \
        for (ii=0; ii<ROW+1; ii++) {new_i[ii] = AI[ii];} \
        for (ii=ROW+1; ii<AM+1; ii++) {new_i[ii] = AI[ii]+CHUNKSIZE;} \
        ierr = PetscMemcpy(new_j,AJ,(AI[ROW]+NROW)*sizeof(PetscInt));CHKERRQ(ierr); \
        len = (new_nz - CHUNKSIZE - AI[ROW] - NROW); \
        ierr = PetscMemcpy(new_j+AI[ROW]+NROW+CHUNKSIZE,AJ+AI[ROW]+NROW,len*sizeof(PetscInt));CHKERRQ(ierr); \
        ierr = PetscMemcpy(new_a,AA,BS2*(AI[ROW]+NROW)*sizeof(datatype));CHKERRQ(ierr); \
        ierr = PetscMemzero(new_a+BS2*(AI[ROW]+NROW),BS2*CHUNKSIZE*sizeof(datatype));CHKERRQ(ierr);\
        ierr = PetscMemcpy(new_a+BS2*(AI[ROW]+NROW+CHUNKSIZE),AA+BS2*(AI[ROW]+NROW),BS2*len*sizeof(datatype));CHKERRQ(ierr);  \
        /* free up old matrix storage */ \
        ierr = MatSeqXAIJFreeAIJ(A,&Ain->a,&Ain->j,&Ain->i);CHKERRQ(ierr);\
        AA = new_a; \
        Ain->a = (MatScalar*) new_a;		   \
        AI = Ain->i = new_i; AJ = Ain->j = new_j;  \
        Ain->singlemalloc = PETSC_TRUE; \
 \
        RP          = AJ + AI[ROW]; AP = AA + BS2*AI[ROW]; \
        RMAX        = AIMAX[ROW] = AIMAX[ROW] + CHUNKSIZE; \
        Ain->maxnz += CHUNKSIZE; \
        Ain->reallocs++; \
      } \

EXTERN_C_BEGIN
EXTERN PetscErrorCode MatSeqAIJSetPreallocation_SeqAIJ(Mat,PetscInt,PetscInt*);
EXTERN_C_END
EXTERN PetscErrorCode MatILUFactorSymbolic_SeqAIJ(Mat,IS,IS,MatFactorInfo*,Mat *);
EXTERN PetscErrorCode MatICCFactorSymbolic_SeqAIJ(Mat,IS,MatFactorInfo*,Mat *);
EXTERN PetscErrorCode MatCholeskyFactorSymbolic_SeqAIJ(Mat,IS,MatFactorInfo*,Mat*);
EXTERN PetscErrorCode MatCholeskyFactorNumeric_SeqAIJ(Mat,MatFactorInfo*,Mat*);
EXTERN PetscErrorCode MatDuplicate_SeqAIJ(Mat,MatDuplicateOption,Mat*);
EXTERN PetscErrorCode MatMissingDiagonal_SeqAIJ(Mat,PetscTruth*,PetscInt*);
EXTERN PetscErrorCode MatMarkDiagonal_SeqAIJ(Mat);

EXTERN PetscErrorCode MatMult_SeqAIJ(Mat A,Vec,Vec);
EXTERN PetscErrorCode MatMultAdd_SeqAIJ(Mat A,Vec,Vec,Vec);
EXTERN PetscErrorCode MatMultTranspose_SeqAIJ(Mat A,Vec,Vec);
EXTERN PetscErrorCode MatMultTransposeAdd_SeqAIJ(Mat A,Vec,Vec,Vec);
EXTERN PetscErrorCode MatRelax_SeqAIJ(Mat,Vec,PetscReal,MatSORType,PetscReal,PetscInt,PetscInt,Vec);

EXTERN PetscErrorCode MatSetColoring_SeqAIJ(Mat,ISColoring);
EXTERN PetscErrorCode MatSetValuesAdic_SeqAIJ(Mat,void*);
EXTERN PetscErrorCode MatSetValuesAdifor_SeqAIJ(Mat,PetscInt,void*);

EXTERN PetscErrorCode MatGetSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]);
EXTERN PetscErrorCode MatGetSymbolicTransposeReduced_SeqAIJ(Mat,PetscInt,PetscInt,PetscInt *[],PetscInt *[]);
EXTERN PetscErrorCode MatRestoreSymbolicTranspose_SeqAIJ(Mat,PetscInt *[],PetscInt *[]);
EXTERN PetscErrorCode MatToSymmetricIJ_SeqAIJ(PetscInt,PetscInt*,PetscInt*,PetscInt,PetscInt,PetscInt**,PetscInt**);
EXTERN PetscErrorCode MatLUFactorSymbolic_SeqAIJ(Mat,IS,IS,MatFactorInfo*,Mat*);
EXTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ(Mat,MatFactorInfo*,Mat*);
EXTERN PetscErrorCode MatLUFactorNumeric_SeqAIJ_InplaceWithPerm(Mat,MatFactorInfo*,Mat*);
EXTERN PetscErrorCode MatLUFactor_SeqAIJ(Mat,IS,IS,MatFactorInfo*);
EXTERN PetscErrorCode MatSolve_SeqAIJ(Mat,Vec,Vec);
EXTERN PetscErrorCode MatSolve_SeqAIJ_InplaceWithPerm(Mat,Vec,Vec);
EXTERN PetscErrorCode MatSolveAdd_SeqAIJ(Mat,Vec,Vec,Vec);
EXTERN PetscErrorCode MatSolveTranspose_SeqAIJ(Mat,Vec,Vec);
EXTERN PetscErrorCode MatSolveTransposeAdd_SeqAIJ(Mat,Vec,Vec,Vec);
EXTERN PetscErrorCode MatMatSolve_SeqAIJ(Mat,Mat,Mat);
EXTERN PetscErrorCode MatEqual_SeqAIJ(Mat A,Mat B,PetscTruth* flg);
EXTERN PetscErrorCode MatFDColoringCreate_SeqAIJ(Mat,ISColoring,MatFDColoring);
EXTERN PetscErrorCode MatILUDTFactor_SeqAIJ(Mat,IS,IS,MatFactorInfo*,Mat*);
EXTERN PetscErrorCode MatLoad_SeqAIJ(PetscViewer, MatType,Mat*);
EXTERN PetscErrorCode RegisterApplyPtAPRoutines_Private(Mat);
EXTERN PetscErrorCode MatMatMult_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*);
EXTERN PetscErrorCode MatMatMultSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*);
EXTERN PetscErrorCode MatMatMultNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat);
EXTERN PetscErrorCode MatPtAPSymbolic_SeqAIJ(Mat,Mat,PetscReal,Mat*);
EXTERN PetscErrorCode MatPtAPNumeric_SeqAIJ(Mat,Mat,Mat);
EXTERN PetscErrorCode MatPtAPSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*);
EXTERN PetscErrorCode MatPtAPNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat);
EXTERN PetscErrorCode MatMatMultTranspose_SeqAIJ_SeqAIJ(Mat,Mat,MatReuse,PetscReal,Mat*);
EXTERN PetscErrorCode MatMatMultTransposeSymbolic_SeqAIJ_SeqAIJ(Mat,Mat,PetscReal,Mat*);
EXTERN PetscErrorCode MatMatMultTransposeNumeric_SeqAIJ_SeqAIJ(Mat,Mat,Mat);
EXTERN PetscErrorCode MatSetValues_SeqAIJ(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[],const PetscScalar[],InsertMode);
EXTERN PetscErrorCode MatGetRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**);
EXTERN PetscErrorCode MatRestoreRow_SeqAIJ(Mat,PetscInt,PetscInt*,PetscInt**,PetscScalar**);
EXTERN PetscErrorCode MatAXPY_SeqAIJ(Mat,PetscScalar,Mat,MatStructure);

EXTERN_C_BEGIN
EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_SeqAIJ_SeqSBAIJ(Mat, MatType,MatReuse,Mat*);
EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_SeqAIJ_SeqBAIJ(Mat, MatType,MatReuse,Mat*);
EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_SeqAIJ_SeqCSRPERM(Mat,MatType,MatReuse,Mat*);
EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatReorderForNonzeroDiagonal_SeqAIJ(Mat,PetscReal,IS,IS);
EXTERN_C_END

#endif