classify.seqs summary file fix

[mothur.git] / parsesffcommand.h

diff --git a/parsesffcommand.h b/parsesffcommand.h
index 409293c36c2030730bd89b2831f307dd0458344b..9dfa083369d2241b428709119e2c2508bd667867 100644 (file)
--- a/parsesffcommand.h
+++ b/parsesffcommand.h
@@ -10,13 +10,18 @@
  *
  */
 
-#include "mothur.h"
+
 #include "command.hpp"
 
 class ParseSFFCommand : public Command {
 public:
        ParseSFFCommand(string);
+       ParseSFFCommand();
        ~ParseSFFCommand();
+       vector<string> getRequiredParameters();
+       vector<string> getValidParameters();
+       vector<string> getRequiredFiles();
+       map<string, vector<string> > getOutputFiles() { return outputTypes; }
        int execute();
        void help();    
        
@@ -42,6 +47,7 @@ private:
        map<string, int> barcodes;
        vector<string> groupVector;
        vector<string> outputNames;
+       map<string, vector<string> > outputTypes;
 
 //     string stripSeqQual(string, int, int);
 //     string stripQualQual(string, int, int);