X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=classify.h;h=4e0354782e5063e2a52268e88a1412b40db3c28e;hb=dc383fb61b6d165a8d36e6108df8bc7129243ae6;hp=a2401dde6c10feaa4f83c6f3f7a65b8ff885dafd;hpb=6f4b9401f7deb8aaf0d87659298308f4138cc3b0;p=mothur.git

diff --git a/classify.h b/classify.h
index a2401dd..4e03547 100644
--- a/classify.h
+++ b/classify.h
@@ -27,13 +27,12 @@ class Classify {
 
 public:
 	Classify();
-	
-	virtual ~Classify(){  delete phyloTree; if (database != NULL) {  delete database; } };
+	virtual ~Classify(){};
 	virtual string getTaxonomy(Sequence*) = 0;
-	//virtual map<string, int> getConfidenceScores() { return taxConfidenceScore; }
-	//virtual vector<string> parseTax(string);
 	virtual string getSimpleTax()  { return simpleTax;	}
+	virtual bool getFlipped()  { return flipped;	}
 	virtual void generateDatabaseAndNames(string, string, string, int, float, float, float, float);
+	virtual void setDistName(string s) {} //for knn, so if distance method is selected with knn you can create the smallest distance file in the right place.
 	
 protected:
 
@@ -46,6 +45,8 @@ protected:
 	
 	string taxFile, templateFile, simpleTax;
 	vector<string> names;
+	int threadID;
+	bool flip, flipped;
 	
 	int readTaxonomy(string);
 	vector<string> parseTax(string);