added dups parameter to chimera.uchime. working on make.contigs command.

[mothur.git] / pcoacommand.h

diff --git a/pcoacommand.h b/pcoacommand.h
index ea4d2b381e8c5b60a3d7006e51d128dda72081bb..93feefa3dec06bc6084055fc701a6cd8baf058de 100644 (file)
--- a/pcoacommand.h
+++ b/pcoacommand.h
@@ -25,8 +25,11 @@ public:
        vector<string> setParameters();
        string getCommandName()                 { return "pcoa";                                        }
        string getCommandCategory()             { return "Hypothesis Testing";          }
+       string getOutputFileNameTag(string, string);
        string getHelpString(); 
-       
+       string getCitation() { return "McCune B, Grace JB, Urban DL (2002). Analysis of ecological communities. MjM Software Design: Gleneden Beach, OR. \nLegendre P, Legendre L (1998). Numerical Ecology. Elsevier: New York. \nhttp://www.mothur.org/wiki/Pcoa"; }
+       string getDescription()         { return "pcoa"; }
+
        int execute();
        void help() { m->mothurOut(getHelpString()); }