* Mothur
*
* Created by Thomas Ryabin on 2/2/09.
- * Copyright 2009 __MyCompanyName__. All rights reserved.
+ * Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
*
*/
-#include <iostream>
-#include <fstream>
#include "command.hpp"
-#include "readmatrix.hpp"
-
-class GlobalData;
+#include "globaldata.hpp"
class GetgroupCommand : public Command {
public:
+ GetgroupCommand(string);
GetgroupCommand();
~GetgroupCommand();
+ vector<string> getRequiredParameters();
+ vector<string> getValidParameters();
+ vector<string> getRequiredFiles();
+ map<string, vector<string> > getOutputFiles() { return outputTypes; }
int execute();
+ void help();
private:
GlobalData* globaldata;
GroupMap* groupMap;
+ string outputFile, sharedfile;
+ vector<string> outputNames;
+ map<string, vector<string> > outputTypes;
+ ofstream out;
+ ifstream in;
+ bool abort;
+
};
#endif