added hcluster command and fixed some bugs, namely one with smart distancing.

[mothur.git] / treegroupscommand.h

diff --git a/treegroupscommand.h b/treegroupscommand.h
index 76124f5f7ff3cb2d312eac3091ec1d7b2c727d03..3f2822cfae2abe2929b8ac8f2b94b0e5b9236503 100644 (file)
--- a/treegroupscommand.h
+++ b/treegroupscommand.h
@@ -59,18 +59,15 @@ private:
        InputData* input;
        ValidCalculators* validCalculator;
        vector<SharedRAbundVector*> lookup;
-       vector<SharedRAbundVector*> lastLookup;
+       string lastLabel;
        string format, outputFile, groupNames, filename;
        int numGroups;
        ofstream out;
        float precision, cutoff;
-       OptionParser* parser;
-       map<string, string> parameters;
-       map<string, string>::iterator it;
+
        bool abort, allLines;
-       set<int> lines; //hold lines to be used
        set<string> labels; //holds labels to be used
-       string phylipfile, columnfile, namefile, calc, groups, line, label;
+       string phylipfile, columnfile, namefile, calc, groups, label;
        vector<string>  Estimators, Groups; //holds estimators to be used
        
        //if the users enters label "0.06" and there is no "0.06" in their file use the next lowest label.