1.18.1

[mothur.git] / clustercommand.cpp

diff --git a/clustercommand.cpp b/clustercommand.cpp
index cdcc6ca9745d8bdf3509c3505ef5c15dc61fd991..25ab61b9f7068f7d5a36df3bd2e4596fd0905078 100644 (file)
--- a/clustercommand.cpp
+++ b/clustercommand.cpp
@@ -149,10 +149,10 @@ ClusterCommand::ClusterCommand(string option)  {
                                //is there are current file available for either of these?
                                //give priority to column, then phylip
                                columnfile = m->getColumnFile(); 
-                               if (columnfile != "") {  m->mothurOut("Using " + columnfile + " as input file for the column parameter."); m->mothurOutEndLine(); }
+                               if (columnfile != "") {  distfile = columnfile; format = "column"; m->mothurOut("Using " + columnfile + " as input file for the column parameter."); m->mothurOutEndLine(); }
                                else { 
                                        phylipfile = m->getPhylipFile(); 
-                                       if (phylipfile != "") {  m->mothurOut("Using " + phylipfile + " as input file for the phylip parameter."); m->mothurOutEndLine(); }
+                                       if (phylipfile != "") { distfile = phylipfile;  format = "phylip"; m->mothurOut("Using " + phylipfile + " as input file for the phylip parameter."); m->mothurOutEndLine(); }
                                        else { 
                                                m->mothurOut("No valid current files. You must provide a phylip or column file before you can use the cluster command."); m->mothurOutEndLine(); 
                                                abort = true;