private:
bool abort, pickedGroups, allLines, persample;
- string listfile, groupfile, countfile, sharedfile, rabundfile, sabundfile, fastafile, namefile;
+ string listfile, groupfile, countfile, sharedfile, rabundfile, sabundfile, fastafile, namefile, taxonomyfile;
set<string> labels; //holds labels to be used
string groups, label, outputDir;
vector<string> Groups, outputNames;
int processList(ListVector*&, ofstream&, set<string>&);
int getNames();
int readNames();
+ int getTax(set<string>&);
};