X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=command.hpp;h=22f118164eb04e7d22c0438e3e42c56b79ed0f3d;hb=e0ce7cbc93d7d2fbb753ca694182db092a0ea0e7;hp=fd80ad1e9fc786fece31e00525476c453c6c2344;hpb=ca9ac1d80c62f57270b0dcd49410ebe08a8aecd6;p=mothur.git

diff --git a/command.hpp b/command.hpp
index fd80ad1..22f1181 100644
--- a/command.hpp
+++ b/command.hpp
@@ -1,6 +1,6 @@
 #ifndef COMMAND_HPP
 #define COMMAND_HPP
-
+//test2
 /*
  *  command.h
  *  
@@ -29,6 +29,8 @@ class Command {
 		virtual string getCommandName() = 0;
 		virtual string getCommandCategory() = 0;
 		virtual string getHelpString() = 0;
+		virtual string getCitation() = 0;
+		virtual string getDescription() = 0;
 		
 		virtual map<string, vector<string> > getOutputFiles() { return outputTypes; }
 		virtual vector<string> setParameters() = 0; //to fill parameters
@@ -36,6 +38,7 @@ class Command {
 	
 		virtual int execute() = 0;
 		virtual void help() = 0;
+		void citation() { m->mothurOutEndLine(); m->mothurOut(getCitation()); m->mothurOutEndLine(); }
 		virtual ~Command() { }
 	
 	protected: