changes while testing

[mothur.git] / getoturepcommand.cpp

diff --git a/getoturepcommand.cpp b/getoturepcommand.cpp
index a041b38aadac3c3cc28bf7313eeb4e8bde6e4535..dbd19a8bfc7d5a266b131e74b18f3f2980c40aba 100644 (file)
--- a/getoturepcommand.cpp
+++ b/getoturepcommand.cpp
@@ -261,7 +261,7 @@ GetOTURepCommand::GetOTURepCommand(string option)  {
                        else if (countfile == "not open") { abort = true; countfile =  ""; }    
                        else {   
                 m->setCountTableFile(countfile); 
-                ct.readTable(countfile);
+                ct.readTable(countfile, true);
                 if (ct.hasGroupInfo()) { hasGroups = true; }
             }
             
@@ -1106,7 +1106,7 @@ int GetOTURepCommand::processFastaNames(string filename, string label, FastaMap*
         
         CountTable thisCt;
         if (countfile != "") {
-            thisCt.readTable(countfile);
+            thisCt.readTable(countfile, true);
             if (tempGroup != "noGroup") { out2 << "Representative_Sequence\ttotal\t" << tempGroup << endl; }
         }
     
@@ -1253,7 +1253,7 @@ int GetOTURepCommand::processNames(string filename, string label) {
         
         CountTable thisCt;
         if (countfile != "") {
-            thisCt.readTable(countfile);
+            thisCt.readTable(countfile, true);
             if (tempGroup != "noGroup") { out2 << "Representative_Sequence\ttotal\t" << tempGroup << endl; }
         }