X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=secondarystructurecommand.cpp;h=3354665852ce1b5a95b9ecc7cc673d5083b25d8b;hp=c1cdb6b90c910c2e58c5d016a6c2293f7d7aa8ce;hb=df7e3ff9f68ef157b0328a2d353c3258c5d45d89;hpb=1a5c2356c1b955c6ec024b2baf9f46377ee7c72e

diff --git a/secondarystructurecommand.cpp b/secondarystructurecommand.cpp
index c1cdb6b..3354665 100644
--- a/secondarystructurecommand.cpp
+++ b/secondarystructurecommand.cpp
@@ -200,7 +200,7 @@ int AlignCheckCommand::execute(){
 		if (namefile != "") { nameMap = m->readNames(namefile); }
         else if (countfile != "") {
             CountTable ct;
-            ct.readTable(countfile);
+            ct.readTable(countfile, false);
             nameMap = ct.getNameMap();
         }