1 #ifndef NORMALIZESHAREDCOMMAND_H
2 #define NORMALIZESHAREDCOMMAND_H
5 * normalizesharedcommand.h
8 * Created by westcott on 9/15/10.
9 * Copyright 2010 Schloss Lab. All rights reserved.
13 #include "command.hpp"
14 #include "inputdata.h"
16 #include "sharedrabundvector.h"
20 class NormalizeSharedCommand : public Command {
23 NormalizeSharedCommand(string);
24 ~NormalizeSharedCommand();
29 GlobalData* globaldata;
32 vector<SharedRAbundVector*> lookup;
34 bool abort, allLines, pickedGroups;
35 set<string> labels; //holds labels to be used
36 string groups, label, outputDir, method;
38 vector<string> Groups;
40 int normalize(vector<SharedRAbundVector*>&, ofstream&);
41 int eliminateZeroOTUS(vector<SharedRAbundVector*>& thislookup);