added pipeline commands which involved change to command factory and command class...

[mothur.git] / mergefilecommand.h

diff --git a/mergefilecommand.h b/mergefilecommand.h
index bd94d77aa6cd8990545953b718c9f6254f44231c..56da3152309ec3c422cccb3aa0c6abce9f92be46 100644 (file)
--- a/mergefilecommand.h
+++ b/mergefilecommand.h
@@ -16,12 +16,18 @@
 class MergeFileCommand : public Command {
 public:
        MergeFileCommand(string);
+       MergeFileCommand();
        ~MergeFileCommand();
+       vector<string> getRequiredParameters();
+       vector<string> getValidParameters();
+       vector<string> getRequiredFiles();
+       map<string, vector<string> > getOutputFiles() { return outputTypes; }
        int execute();
        void help();    
 
 private:
-       vector<string> fileNames;
+       vector<string> fileNames, outputNames;
+       map<string, vector<string> > outputTypes;
        string outputFileName;
        int numInputFiles;
        bool abort;