changed added group output to indicator command. a few changes to work with the guy

[mothur.git] / classifyotucommand.h

diff --git a/classifyotucommand.h b/classifyotucommand.h
index 2e76057f1219b8c44785a5be9b6962043bbb68af..c08a29b8c71552be73d7bd1d3e28c3b0a1ee2159 100644 (file)
--- a/classifyotucommand.h
+++ b/classifyotucommand.h
@@ -40,16 +40,16 @@ private:
        ListVector* list;
        InputData* input;
        string listfile, namefile, taxfile, label, outputDir, refTaxonomy, groupfile, basis, countfile;
-       bool abort, allLines, probs;
+       bool abort, allLines, probs, persample;
        int cutoff;
        set<string> labels; //holds labels to be used
-       vector<string> outputNames;
+       vector<string> outputNames, groups;
        map<string, string> nameMap;
        map<string, string> taxMap;
 
        int process(ListVector*);
        string addUnclassifieds(string, int);
-       vector<string> findConsensusTaxonomy(int, ListVector*, int&, string&);  // returns the name of the "representative" taxonomy of given bin
+       vector<string> findConsensusTaxonomy(vector<string>, int&, string&);    // returns the name of the "representative" taxonomy of given bin
        
                                                                                                
 };