filled out reference taxonomy with "unclassified" so that if a cutoff is used the...

[mothur.git] / phylotree.h

diff --git a/phylotree.h b/phylotree.h
index a57cf256ecf0e0eded1182681f7ab91601e0a1a5..2f3745074e170210bfc0b8d6b000361b4a410687 100644 (file)
--- a/phylotree.h
+++ b/phylotree.h
@@ -51,7 +51,8 @@ public:
        
 private:
        string getNextTaxon(string&);
-       void print(ofstream&, vector<TaxNode>&);
+       void print(ofstream&, vector<TaxNode>&); //used to create static reference taxonomy file
+       void fillOutTree(int, vector<TaxNode>&); //used to create static reference taxonomy file
        void binUnclassified(string);
        
        vector<TaxNode> tree;
@@ -59,6 +60,7 @@ private:
        vector<int> totals; //holds the numSeqs at each genus level taxonomy
        map<string, int> name2Taxonomy;  //maps name to index in tree
        map<int, int> uniqueTaxonomies;  //map of unique taxonomies
+       map<int, int> leafNodes; //used to create static reference taxonomy file
        //void print(int, ofstream&);
        int numNodes;
        int numSeqs;