added tree reader class to handle reading trees. Reworked the tree map to tree class...

[mothur.git] / parsimonycommand.h

diff --git a/parsimonycommand.h b/parsimonycommand.h
index 81fa99ba06c691f9e0ee06f4b73521655b046e8c..917255696166a505ae5734e20f0aaab47573876c 100644 (file)
--- a/parsimonycommand.h
+++ b/parsimonycommand.h
@@ -36,15 +36,12 @@ public:
        void help() { m->mothurOut(getHelpString()); }
        
 private:
-       ReadTree* read;
-       SharedUtil* util;
        FileOutput* output;
        vector<Tree*> T;           //user trees
        Tree* randT;  //random tree
        Tree* copyUserTree; 
        TreeMap* tmap; 
        TreeMap* savetmap;
-       Parsimony* pars;
        vector<string> groupComb; // AB. AC, BC...
        string sumFile, randomtree, allGroups, outputDir, treefile, groupfile, namefile;
        int iters, numGroups, numComp, counter, processors, numUniquesInName;