X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=clusterdoturcommand.cpp;h=08a5938b85b3b40f7a53619766d1a9a3e004a9a5;hb=541bab1dac00688b4c3a8c4a95ab464412663c50;hp=4463896cefd13f6bafcc625846fd94213b610ba7;hpb=deba0af0ccdcb6005ed5b2b82649b137c63fbdf7;p=mothur.git

diff --git a/clusterdoturcommand.cpp b/clusterdoturcommand.cpp
index 4463896..08a5938 100644
--- a/clusterdoturcommand.cpp
+++ b/clusterdoturcommand.cpp
@@ -226,7 +226,7 @@ int ClusterDoturCommand::execute(){
             delete nameMap;
 		}else if (countfile != "") {
             ct = new CountTable();
-            ct->readTable(countfile);
+            ct->readTable(countfile, false);
             cluster->readPhylipFile(phylipfile, ct);
             delete ct;
         }else {
@@ -244,10 +244,10 @@ int ClusterDoturCommand::execute(){
 			
         map<string, string> variables; 
         variables["[filename]"] = fileroot;
-        if (countfile != "") { variables["[tag2]"] = "unique_list"; }
         variables["[clustertag]"] = tag;
         string sabundFileName = getOutputFileName("sabund", variables);
         string rabundFileName = getOutputFileName("rabund", variables);
+        if (countfile != "") { variables["[tag2]"] = "unique_list"; }
         string listFileName = getOutputFileName("list", variables);
         
         if (countfile == "") {