source: tags/initial/ALIV3/ali_arbdb.hxx

#ifndef _ALI_ARBDB_INC_
#define _ALI_ARBDB_INC_

#include "ali_other_stuff.hxx"
#include "ali_sequence.hxx"

/*
 * Class for accessing the database
 */
class ALI_ARBDB {
private:
   char *alignment;

public:
   GBDATA *gb_main;

   ALI_ARBDB(void) {
                alignment = 0;
                gb_main = 0;
        }
   ~ALI_ARBDB(void);

   int open(char *name, char *use_alignment = 0);
   void close(void);

        void begin_transaction(void) {
                GB_begin_transaction(gb_main);
        }
        void commit_transaction(void) {
                GB_commit_transaction(gb_main);
        }

        char *get_sequence_string(char *name, int and_mark = 0);
        ALI_SEQUENCE *get_sequence(char *name, int and_mark = 0);
        char *get_extended(char *name);
        int put_sequence_string(char *name, char *sequence, char *info = 0);
        int put_sequence(char *name, ALI_SEQUENCE *sequence, char *info = 0);
        int put_extended(char *name, char *sequence, char *info = 0);
};


#endif