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

[mothur.git] / readdistcommand.h

diff --git a/readdistcommand.h b/readdistcommand.h
index 937ca3f0797c58bc24dc3a239ac5f7c0e4624339..984b4a78ec40fc5b9d643cd51434ef4255d3e239 100644 (file)
--- a/readdistcommand.h
+++ b/readdistcommand.h
@@ -27,7 +27,12 @@ class GlobalData;
 class ReadDistCommand : public Command {
 public:
        ReadDistCommand(string);
+       ReadDistCommand() {}
        ~ReadDistCommand();
+       vector<string> getRequiredParameters();
+       vector<string> getValidParameters();
+       vector<string> getRequiredFiles();
+       map<string, vector<string> > getOutputFiles() { return outputTypes; }
        int execute();
        void help();
        
@@ -41,6 +46,8 @@ private:
        string distFileName, format, method;
        string phylipfile, columnfile, namefile, groupfile, outputDir;
        NameAssignment* nameMap;
+       vector<string> outputNames;
+       map<string, vector<string> > outputTypes;
 
        bool abort, sim;