some bug fixes

[mothur.git] / parsimonycommand.h

diff --git a/parsimonycommand.h b/parsimonycommand.h
index 0f12d421ab291e176df2415c70b2ee27365a92ad..6fa1914f31e320517ff89389a34fc3e5a1cd6dc6 100644 (file)
--- a/parsimonycommand.h
+++ b/parsimonycommand.h
@@ -38,7 +38,7 @@ private:
        TreeMap* savetmap;
        Parsimony* pars;
        vector<string> groupComb; // AB. AC, BC...
-       string sumFile, randomtree, allGroups;
+       string sumFile, randomtree, allGroups, outputDir;
        int iters, numGroups, numComp, counter;
        vector<int> numEachGroup; //vector containing the number of sequences in each group the users wants for random distrib.
        vector< vector<float> > userTreeScores; //scores for users trees for each comb.
@@ -56,10 +56,10 @@ private:
 
        bool abort;
        string groups, itersString;
-       vector<string> Groups; //holds groups to be used
+       vector<string> Groups, outputNames; //holds groups to be used
 
        void printParsimonyFile();  
-       void printUSummaryFile();
+       int printUSummaryFile();
        void getUserInput();
        
 };