1 #ifndef DEGAPSEQSCOMMAND_H
2 #define DEGAPSEQSCOMMAND_H
8 * Created by westcott on 6/21/10.
9 * Copyright 2010 Schloss Lab. All rights reserved.
14 #include "command.hpp"
16 class DegapSeqsCommand : public Command {
18 DegapSeqsCommand(string);
22 vector<string> setParameters();
23 string getCommandName() { return "degap.seqs"; }
24 string getCommandCategory() { return "Sequence Processing"; }
26 string getHelpString();
27 string getOutputPattern(string);
28 string getCitation() { return "http://www.mothur.org/wiki/Degap.seqs"; }
29 string getDescription() { return "removes gap characters from sequences"; }
32 void help() { m->mothurOut(getHelpString()); }
37 string fastafile, outputDir;
38 vector<string> outputNames;
39 vector<string> fastaFileNames;