X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=trimseqscommand.cpp;h=0d55d7c4a0b043f811d2d6b9f61ef159952ea1f9;hp=4128142448b8412314dc2b1d8ce057c6e8527519;hb=a935b75dd890da5ae7f09e5e6179f90ab2955348;hpb=d1c97b8c04bb75faca1e76ffad60b37a4d789d3d

diff --git a/trimseqscommand.cpp b/trimseqscommand.cpp
index 4128142..0d55d7c 100644
--- a/trimseqscommand.cpp
+++ b/trimseqscommand.cpp
@@ -422,7 +422,7 @@ int TrimSeqsCommand::execute(){
 		
 		if (countfile != "") {
             CountTable ct;
-            ct.readTable(countfile, true);
+            ct.readTable(countfile, true, false);
             nameCount = ct.getNameMap();
 			outputNames.push_back(trimCountFile);
 			outputNames.push_back(scrapCountFile);
@@ -540,7 +540,7 @@ int TrimSeqsCommand::execute(){
             
             if (countfile != "") { //create countfile with group info included
                 CountTable* ct = new CountTable();
-                ct->readTable(trimCountFile, true);
+                ct->readTable(trimCountFile, true, false);
                 map<string, int> justTrimmedNames = ct->getNameMap();
                 delete ct;