GroupMap* groupMap;
bool abort, allLines;
set<string> labels; //holds labels to be used
- string filename, fastafile, namesfile, groupfile, label;
+ string filename, fastafile, namesfile, groupfile, label, outputDir;
ofstream out;
ifstream in, inNames;
+ vector<string> outputNames;
void readNamesFile();
int process(ListVector*);