started work on classify.seqs command. changed the database class so that it does...

[mothur.git] / blastdb.hpp

diff --git a/blastdb.hpp b/blastdb.hpp
index f0f17f9ce58bc8ee2b466cc9be6b95ddf53e207a..c718bb43fb29562b755cdd44e37fa893c7b57f25 100644 (file)
--- a/blastdb.hpp
+++ b/blastdb.hpp
@@ -15,10 +15,14 @@
 #include "globaldata.hpp"
 
 class BlastDB : public Database {
+
 public:
-       BlastDB(string, float, float, float, float);
+       BlastDB(float, float, float, float);
        ~BlastDB();
-       Sequence findClosestSequence(Sequence*);
+       
+       void generateDB();
+       void addSequence(Sequence);
+       vector<int> findClosestSequences(Sequence*, int);
 
 private:
        string dbFileName;
@@ -26,11 +30,11 @@ private:
        string blastFileName;
        string path;
        
+       int count;
        float gapOpen;
        float gapExtend;
        float match;
        float misMatch;
-       Sequence emptySequence;
        GlobalData* globaldata;
 };