X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=countgroupscommand.cpp;h=83c2d315d0b8f781caa02c04c4fed5e1cb6b6a0d;hp=6da077485c5fcd7641d759ceb6820dc9652033a7;hb=df7e3ff9f68ef157b0328a2d353c3258c5d45d89;hpb=eb71e28b7b7afd82540f4a8f0bac9429c5b9d713

diff --git a/countgroupscommand.cpp b/countgroupscommand.cpp
index 6da0774..83c2d31 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);
             
 			//make sure groups are valid
 			//takes care of user setting groupNames that are invalid or setting groups=all