added forward and reverse barcodes to trim.seqs to process illumina seqs

[mothur.git] / classify.h

diff --git a/classify.h b/classify.h
index e92569d6f27defcf14b0e6d2527bf9d743bd0988..4e0354782e5063e2a52268e88a1412b40db3c28e 100644 (file)
--- a/classify.h
+++ b/classify.h
@@ -30,6 +30,7 @@ public:
        virtual ~Classify(){};
        virtual string getTaxonomy(Sequence*) = 0;
        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.
        
@@ -44,6 +45,8 @@ protected:
        
        string taxFile, templateFile, simpleTax;
        vector<string> names;
+       int threadID;
+       bool flip, flipped;
        
        int readTaxonomy(string);
        vector<string> parseTax(string);