X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=suffixdb.hpp;h=3796801a73c852bd61b6785d453d1cce825a0e66;hp=f211aa7ba7f612613419c54e551cb0755d2dffc7;hb=cf9987b67aa49777a4c91c2d21f96e58bf17aa82;hpb=02909d6cae9963ba00dc746969a370fa8ca934fc

diff --git a/suffixdb.hpp b/suffixdb.hpp
index f211aa7..3796801 100644
--- a/suffixdb.hpp
+++ b/suffixdb.hpp
@@ -20,18 +20,22 @@
 
 #include "mothur.h"
 #include "database.hpp"
-
-class SuffixTree;
+#include "suffixtree.hpp"
 
 class SuffixDB : public Database {
 	
 public:
-	SuffixDB(string);
+	SuffixDB(int);
+	SuffixDB();
 	~SuffixDB();
-	Sequence findClosestSequence(Sequence*);
+	
+	void generateDB() {}; //adding sequences generates the db
+	void addSequence(Sequence);
+	vector<int> findClosestSequences(Sequence*, int);
 
 private:
 	vector<SuffixTree> suffixForest;
+	int count;
 };
 
 #endif