1 #ifndef GETRELABUNDCOMMAND_H
2 #define GETRELABUNDCOMMAND_H
8 * Created by westcott on 6/21/10.
9 * Copyright 2010 Schloss Lab. All rights reserved.
13 #include "command.hpp"
14 #include "inputdata.h"
16 #include "sharedrabundvector.h"
20 class GetRelAbundCommand : public Command {
23 GetRelAbundCommand(string);
24 ~GetRelAbundCommand();
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, scale;
37 vector<string> Groups;
39 int getRelAbundance(vector<SharedRAbundVector*>&, ofstream&);
40 int eliminateZeroOTUS(vector<SharedRAbundVector*>& thislookup);