X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=countgroupscommand.cpp;h=ce3358ef43b9cee9d7887314fb0378cb203b7ebe;hp=6da077485c5fcd7641d759ceb6820dc9652033a7;hb=b206f634aae1b4ce13978d203247fb64757d5482;hpb=c85db0a4be3a1f8037a71a23ca73f9762184e28a

diff --git a/countgroupscommand.cpp b/countgroupscommand.cpp
index 6da0774..ce3358e 100644
--- a/countgroupscommand.cpp
+++ b/countgroupscommand.cpp
@@ -261,7 +261,7 @@ int CountGroupsCommand::execute(){
             m->openOutputFile(outputFileName, out);
             
 			CountTable ct;
-			ct.readTable(countfile);
+			ct.readTable(countfile, true, false);
             
 			//make sure groups are valid
 			//takes care of user setting groupNames that are invalid or setting groups=all