X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=setcurrentcommand.h;h=e741399844347f3db0a936cd2581ce9ba45dd7b2;hb=6c2b1e530a5c0bb87040e58a3e410097acdfcc3d;hp=5a40e4a20f97377e86d973c2412cc17e12e3fcb0;hpb=ca9ac1d80c62f57270b0dcd49410ebe08a8aecd6;p=mothur.git

diff --git a/setcurrentcommand.h b/setcurrentcommand.h
index 5a40e4a..e741399 100644
--- a/setcurrentcommand.h
+++ b/setcurrentcommand.h
@@ -23,8 +23,11 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "set.current";	}
 	string getCommandCategory()		{ return "General";		}
+	string getOutputFileNameTag(string, string) { return ""; }
 	string getHelpString();	
-	
+	string getCitation() { return "http://www.mothur.org/wiki/Set.current"; }
+	string getDescription()		{ return "set current files for mothur"; }
+
 	int execute(); 
 	void help() { m->mothurOut(getHelpString()); }	
 	
@@ -36,8 +39,8 @@ private:
 	string clearTypes;
 	vector<string> types;
 	
-	string accnosfile, phylipfile, columnfile, listfile, rabundfile, sabundfile, namefile, groupfile, designfile, taxonomyfile;
-	string orderfile, treefile, sharedfile, ordergroupfile, relabundfile, fastafile, qualfile, sfffile, oligosfile;
+	string accnosfile, phylipfile, columnfile, listfile, rabundfile, sabundfile, namefile, groupfile, designfile, taxonomyfile, biomfile, countfile;
+	string orderfile, treefile, sharedfile, ordergroupfile, relabundfile, fastafile, qualfile, sfffile, oligosfile, processors, flowfile;
 
 	
 };