added amova command

[mothur.git] / setdircommand.h

diff --git a/setdircommand.h b/setdircommand.h
index 663496523e55a9cd2e2a8999043a8eeb743a8b7b..1afab07244ef9f9464b98224249fea447f00402e 100644 (file)
--- a/setdircommand.h
+++ b/setdircommand.h
@@ -12,6 +12,7 @@
 
 #include "command.hpp"
 #include "commandfactory.hpp"
+#include "globaldata.hpp"
 
 /**********************************************************/
 
@@ -19,14 +20,21 @@ class SetDirectoryCommand : public Command {
        
 public:
        SetDirectoryCommand(string);
+       SetDirectoryCommand() {}
        ~SetDirectoryCommand();
+       vector<string> getRequiredParameters();
+       vector<string> getValidParameters();
+       vector<string> getRequiredFiles();
+       map<string, vector<string> > getOutputFiles() { return outputTypes; }
        int execute();
        void help();
        
 private:
        CommandFactory* commandFactory;
-       string output, input;
+       string output, input, tempdefault;
        bool abort;
+       vector<string> outputNames;
+       map<string, vector<string> > outputTypes;
                
 };