indicator command

diff --git a/chimerauchimecommand.h b/chimerauchimecommand.h
index eb99cbfbc05562912119c1f85a70b2b1ac472205..8478117f3c99cd2f31224e614d3a95943fc1b4b0 100644 (file)
--- 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 b06742fe1c529988457300fc7d3305d98e327f0f..2d1c63e21dbcd82df19957cb533d1e420e434fdc 100644 (file)
--- 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; }