virtual ~Database();
virtual void generateDB() = 0;
virtual void addSequence(Sequence) = 0; //add sequence to search engine
+ virtual string getName(int) { return ""; }
virtual vector<int> findClosestSequences(Sequence*, int) = 0; // returns indexes of n closest sequences to query
+ virtual vector<int> findClosestMegaBlast(Sequence*, int){return results;}
virtual float getSearchScore();
virtual int getLongestBase();
virtual void readKmerDB(ifstream&){};
virtual void setNumSeqs(int i) { numSeqs = i; }
virtual vector<int> getSequencesWithKmer(int){ vector<int> filler; return filler; };
virtual int getMaxKmer(){ return 1; };
-
protected:
+ MothurOut* m;
int numSeqs, longest;
float searchScore;
+ vector<int> results;
};
/**************************************************************************************************/
#endif