fixed bug with dist.shared subsampling. added mode parameter to dist.shared so...

[mothur.git] / systemcommand.h

diff --git a/systemcommand.h b/systemcommand.h
index 892ac96268baeb2557c51cc67dd0fc571ea4dbfa..6a4b884cba8ee21629219593cf43eae7b4c02447 100644 (file)
--- a/systemcommand.h
+++ b/systemcommand.h
@@ -18,14 +18,16 @@ class SystemCommand : public Command {
        public:
        
                SystemCommand(string);  
-               SystemCommand() { abort = true; calledHelp = true; }
+               SystemCommand() { setParameters(); abort = true; calledHelp = true; }
                ~SystemCommand(){}
        
-               vector<string> setParameters() { return outputNames; } //dummy does not do anything
+               vector<string> setParameters();
                string getCommandName()                 { return "system";              }
                string getCommandCategory()             { return "General";             }
                string getHelpString(); 
-       
+               string getCitation() { return "http://www.mothur.org/wiki/System"; }
+               string getDescription()         { return "execute system commands from within mothur"; }
+
                int execute(); 
                void help() { m->mothurOut(getHelpString()); }