chopseqscommand.h

   1 #ifndef CHOPSEQSCOMMAND_H
   2 #define CHOPSEQSCOMMAND_H
   3
   4 /*
   5  *  chopseqscommand.h
   6  *  Mothur
   7  *
   8  *  Created by westcott on 5/10/10.
   9  *  Copyright 2010 Schloss Lab. All rights reserved.
  10  *
  11  */
  12
  13
  14 #include "command.hpp"
  15 #include "sequence.hpp"
  16
  17 class ChopSeqsCommand : public Command {
  18
  19         public:
  20
  21                 ChopSeqsCommand(string);
  22                 ~ChopSeqsCommand(){};
  23                 int execute();
  24                 void help();
  25
  26         private:
  27                 string fastafile, outputDir, keep;
  28                 bool abort, countGaps;
  29                 int numbases;
  30
  31                 string getChopped(Sequence);
  32
  33 };
  34
  35 #endif
  36
  37