X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=blastdb.hpp;h=2e7423dcba612f332d7ef2f2657fac9aa16f1b79;hb=44b464979e91c2a1f144ac45ca12c14fcf6579f0;hp=a952897f05e496e09a6faaacf7c4de97d49bd132;hpb=526a868606faa50caf86e7399f7554c0335b39e5;p=mothur.git

diff --git a/blastdb.hpp b/blastdb.hpp
index a952897..2e7423d 100644
--- a/blastdb.hpp
+++ b/blastdb.hpp
@@ -12,23 +12,32 @@
  */
 
 #include "mothur.h"
+#include "globaldata.hpp"
 
 class BlastDB : public Database {
+
 public:
-	BlastDB(string, float, float, float, float);
+	BlastDB(float, float, float, float);
+	BlastDB();
 	~BlastDB();
-	Sequence* findClosestSequence(Sequence*);
-
+	
+	void generateDB();
+	void addSequence(Sequence);
+	vector<int> findClosestSequences(Sequence*, int);
+	vector<int> findClosestMegaBlast(Sequence*, int);
+	
 private:
 	string dbFileName;
 	string queryFileName;
 	string blastFileName;
+	string path;
 	
+	int count;
 	float gapOpen;
 	float gapExtend;
 	float match;
 	float misMatch;
-	Sequence* emptySequence;
+	GlobalData* globaldata;
 };
 
 #endif