vector<string> Estimators, Groups; //holds estimators to be used
set<int> lines; //hold lines to be used
set<string> labels; //holds labels to be used
+ vector<string> Treenames;
string getPhylipFile();
string getColumnFile();
void clearAbund();
void parseGlobalData(string, string);
+
+ void parseTreeFile(); //parses through tree file to find names of nodes and number of them
+ //this is required in case user has sequences in the names file that are
+ //not included in the tree.
+ //only takes names from the first tree in the tree file and assumes that all trees use the same names.
+
private:
string phylipfile, columnfile, listfile, rabundfile, sabundfile, namefile, groupfile, orderfile, fastafile, treefile, sharedfile, line, label, randomtree, groups;
GlobalData();
~GlobalData();
void reset(); //clears all non filename parameters
+ void readTreeString(ifstream&);