makegroupcommand.h

   1 #ifndef MAKEGROUPCOMMAND_H
   2 #define MAKEGROUPCOMMAND_H
   3
   4 /*
   5  *  makegroupcommand.h
   6  *  Mothur
   7  *
   8  *  Created by westcott on 5/7/10.
   9  *  Copyright 2010 Schloss Lab. All rights reserved.
  10  *
  11  */
  12
  13 #include "command.hpp"
  14
  15 class MakeGroupCommand : public Command {
  16
  17 public:
  18         MakeGroupCommand(string);
  19         MakeGroupCommand();
  20         ~MakeGroupCommand(){}
  21
  22         vector<string> setParameters();
  23         string getCommandName()                 { return "make.group";  }
  24         string getCommandCategory()             { return "General";             }
  25
  26         string getHelpString();
  27     string getOutputPattern(string);
  28         string getCitation() { return "http://www.mothur.org/wiki/Make.group"; }
  29         string getDescription()         { return "creates a group file"; }
  30
  31         int execute();
  32         void help() { m->mothurOut(getHelpString()); }
  33
  34 private:
  35
  36         string fastaFileName, groups, outputDir, filename, output;
  37         vector<string> fastaFileNames;
  38         vector<string> groupsNames, outputNames;
  39
  40         bool abort;
  41 };
  42
  43 #endif
  44