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         vector<string> getRequiredParameters();
  22         vector<string> getValidParameters();
  23         vector<string> getRequiredFiles();
  24         map<string, vector<string> > getOutputFiles() { return outputTypes; }
  25         int execute();
  26         void help();
  27
  28 private:
  29
  30         string fastaFileName, groups, outputDir, filename, output;
  31         vector<string> fastaFileNames;
  32         vector<string> groupsNames, outputNames;
  33         map<string, vector<string> > outputTypes;
  34
  35         bool abort;
  36 };
  37
  38 #endif
  39