X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=secondarystructurecommand.h;fp=secondarystructurecommand.h;h=4e7bdea09cac0d1bd86d780eb92e499bbe9bfc69;hb=a44542a3c740cf957cff72ac71742f2fe48b0eaf;hp=daee85a37fd4e13df952ea363da36227dde85143;hpb=f2408a11ad53c148e3a3329018ca7d04b567f11d;p=mothur.git

diff --git a/secondarystructurecommand.h b/secondarystructurecommand.h
index daee85a..4e7bdea 100644
--- a/secondarystructurecommand.h
+++ b/secondarystructurecommand.h
@@ -41,6 +41,8 @@ class AlignCheckCommand : public Command {
 		string getCommandCategory()		{ return "Sequence Processing";		}
 		string getHelpString();	
 		string getCitation() { return "http://www.mothur.org/wiki/Align.check"; }
+		string getDescription()		{ return "calculate the number of potentially misaligned bases in a 16S rRNA gene sequence alignment"; }
+
 	
 		int execute(); 
 		void help() { m->mothurOut(getHelpString()); }