bool abort, allLines, subsample;
set<string> labels; //holds labels to be used
- string outputFile, calc, groups, label, outputDir;
+ string outputFile, calc, groups, label, outputDir, mode;
vector<string> Estimators, Groups, outputNames; //holds estimators to be used
int process(vector<SharedRAbundVector*>, string, string);
int driver(vector<SharedRAbundVector*>, int, int, vector< vector<seqDist> >&);