1 #ifndef GETRABUNDCOMMAND_H
2 #define GETRABUNDCOMMAND_H
8 * Created by Sarah Westcott on 6/2/09.
9 * Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
14 #include "command.hpp"
15 #include "inputdata.h"
16 #include "listvector.hpp"
19 class GetRAbundCommand : public Command {
21 GetRAbundCommand(string);
25 vector<string> setParameters();
26 string getCommandName() { return "get.rabund"; }
27 string getCommandCategory() { return "OTU-Based Approaches"; }
28 string getHelpString();
29 string getCitation() { return "http://www.mothur.org/wiki/Get.rabund"; }
32 void help() { m->mothurOut(getHelpString()); }
37 string filename, listfile, sabundfile, inputfile, format, outputDir;
41 vector<string> outputNames;
43 bool abort, allLines, sorted;
44 set<string> labels; //holds labels to be used