From ae9c5b48da9047548f86fc84897926d9f5102312 Mon Sep 17 00:00:00 2001
From: westcott <westcott>
Date: Tue, 28 Jun 2011 11:57:50 +0000
Subject: [PATCH] indicator command

---
 chimerauchimecommand.h | 1 +
 indicatorcommand.cpp   | 2 +-
 2 files changed, 2 insertions(+), 1 deletion(-)

diff --git a/chimerauchimecommand.h b/chimerauchimecommand.h
index eb99cbf..8478117 100644
--- a/chimerauchimecommand.h
+++ b/chimerauchimecommand.h
@@ -27,6 +27,7 @@ public:
 	string getCommandCategory()		{ return "Sequence Processing"; }
 	string getHelpString();	
 	string getCitation() { return "uchime by Robert C. Edgar\nhttp://drive5.com/uchime\nThis code is donated to the public domain.\nhttp://www.mothur.org/wiki/Chimera.uchime\nEdgar,R.C., Haas,B.J., Clemente,J.C., Quince,C. and Knight,R. (2011), UCHIME improves sensitivity and speed of chimera detection, Bioinformatics, in press.\n"; }
+	string getDescription()		{ return "detect chimeric sequences"; }
 	
 	int execute(); 
 	void help() { m->mothurOut(getHelpString()); }		
diff --git a/indicatorcommand.cpp b/indicatorcommand.cpp
index b06742f..2d1c63e 100644
--- a/indicatorcommand.cpp
+++ b/indicatorcommand.cpp
@@ -282,7 +282,7 @@ int IndicatorCommand::execute(){
 				}
 			}
 			
-			if ((designfile != "") && (m->Treenames.size() != Groups.size())) { m->mothurOut("[ERROR]: You design file does not match your tree, aborting."); m->mothurOutEndLine(); mismatch = true; }
+			if ((designfile != "") && (m->Treenames.size() != Groups.size())) { cout << Groups.size() << '\t' << m->Treenames.size() << endl; m->mothurOut("[ERROR]: You design file does not match your tree, aborting."); m->mothurOutEndLine(); mismatch = true; }
 					
 			if (mismatch) { //cleanup and exit
 				if (designfile != "") { delete designMap; }
-- 
2.39.2