source: branches/port5/PRIMER_DESIGN/PRD_Item.hxx

#ifndef PRD_ITEM_HXX
#define PRD_ITEM_HXX

#include <cstdio>
#ifndef   PRD_GLOBALS_HXX
#include "PRD_Globals.hxx"
#endif

class Item {

public:

    PRD_Sequence_Pos end_pos;
    PRD_Sequence_Pos start_pos;           // index in sequence (or -1 if not yet calcutaled)
    PRD_Sequence_Pos offset;              // index of base in sequence : left = index of first base of primer, right = index of last base of primer
    int              length;              // count of bases in primer

    int              GC_ratio;            // GC-ratio of primer
    int              temperature;         // temperature of primer

    Item *next;

    Item ( PRD_Sequence_Pos pos_, PRD_Sequence_Pos offset_, int length_, int ratio_, int temperature_, Item *next_ );
    Item ();
    ~Item () {};

    void  print             ( const char *prefix_, const char *suffix_ ); // print Items's values
    int   sprint            ( char *buf, const char *prefix_, const char *suffix_ , int max_primer_length, int max_position_length, int max_length_length );
    char* getPrimerSequence ( const char *sequence_ );            // return the string the Item describes
};

#else
#error PRD_Item.hxx included twice
#endif // PRD_ITEM_HXX