*
*/
-#include "mothur.h"
#include "command.hpp"
-#include "globaldata.hpp"
class ReverseSeqsCommand : public Command {
public:
ReverseSeqsCommand(string);
+ ReverseSeqsCommand();
~ReverseSeqsCommand();
+ vector<string> getRequiredParameters();
+ vector<string> getValidParameters();
+ vector<string> getRequiredFiles();
+ map<string, vector<string> > getOutputFiles() { return outputTypes; }
int execute();
void help();
private:
- GlobalData* globaldata;
- OptionParser* parser;
- map<string, string> parameters;
- map<string, string>::iterator it;
- bool abort;
- string fasta;
+ bool abort;
+ string fastaFileName, qualFileName, outputDir;
+ vector<string> outputNames;
+ map<string, vector<string> > outputTypes;
};