private:
set<string> names;
vector<string> outputNames;
- string accnosfile, fastafile, namefile, groupfile, alignfile, listfile, taxfile, qualfile, outputDir;
+ string accnosfile, accnosfile2, fastafile, namefile, groupfile, alignfile, listfile, taxfile, qualfile, outputDir;
bool abort, dups;
map<string, vector<string> > outputTypes;
int readList();
int readTax();
int readQual();
+ int compareAccnos();
};