added warning about average neighbor merges around cutoff. fixed little bugs.

[mothur.git] / mgclustercommand.cpp

diff --git a/mgclustercommand.cpp b/mgclustercommand.cpp
index fad0ed64ff58e58a3bc3bfaa6c432f899f6f1eea..81e80ccaf6ee82a0bbed8cd5a757a4502fd5449d 100644 (file)
--- a/mgclustercommand.cpp
+++ b/mgclustercommand.cpp
@@ -153,9 +153,9 @@ int MGClusterCommand::execute(){
                        delete read;
                
                        //create cluster
-                       if (method == "furthest")       {       cluster = new CompleteLinkage(rabund, list, distMatrix); }
-                       else if(method == "nearest"){   cluster = new SingleLinkage(rabund, list, distMatrix); }
-                       else if(method == "average"){   cluster = new AverageLinkage(rabund, list, distMatrix); }
+                       if (method == "furthest")       {       cluster = new CompleteLinkage(rabund, list, distMatrix, cutoff); }
+                       else if(method == "nearest"){   cluster = new SingleLinkage(rabund, list, distMatrix, cutoff); }
+                       else if(method == "average"){   cluster = new AverageLinkage(rabund, list, distMatrix, cutoff); }
                        cluster->setMapWanted(true);
                        
                        //cluster using cluster classes