X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=database.hpp;h=9293f13d5f091251d77115d2f3dc5344868d2c5c;hb=3a13eff5c26d6fc156a299c9fa7f5497bded94a0;hp=f52cdd58be86d31be87951df68d13983dc9bc921;hpb=7b3c9ca940891c1b20b3b7ec13e05d7e7b316b63;p=mothur.git

diff --git a/database.hpp b/database.hpp
index f52cdd5..9293f13 100644
--- a/database.hpp
+++ b/database.hpp
@@ -47,18 +47,21 @@ public:
 	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