/*****************************************************************************
 * score.h
 *****************************************************************************/

/*****************************************************************************
 * PAYOFF
 *****************************************************************************/
typedef struct
{
    int match;
    int mismatch;
    int open;
    int extend;
} Payoff;

typedef Payoff Align__NW__Payoff;

extern Payoff *payoff_new    (int match, int mismatch, int open, int extend);
extern void    payoff_DESTROY(Payoff *pPayoff);


/*****************************************************************************
 * CELL
 *****************************************************************************/
typedef struct Cell
{
    int          row;
    int          col;
    int          score;
    struct Cell *prev;
} Cell;


typedef Cell   Align__NW__Cell;

extern int   cell_row  (Cell *pCell);
extern int   cell_col  (Cell *pCell);
extern int   cell_score(Cell *pCell);
extern Cell *cell_prev (Cell *pCell);


/*****************************************************************************
 * MATRIX
 *****************************************************************************/
typedef struct
{
    Payoff   payoff;
    char    *pszA;
    char    *pszB;
    int      nRows;
    int      nCols;
    Cell   **ppCell;
} Matrix;


typedef Matrix Align__NW__Matrix;


extern Matrix *matrix_new    (char *pszA, char *pszB, Payoff *pPayoff);
extern void    matrix_DESTROY(Matrix *pMatrix);
extern void    matrix_score  (Matrix *pMatrix);
extern void    matrix_dump   (Matrix *pMatrix);
extern Cell   *matrix_cell   (Matrix *pMatrix, int nRow, int nCol);