X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=splitgroupscommand.cpp;h=88292bd2694e4dd044bcacc8c38d5c2c34a7d204;hb=aca78ed4a47dff8672ea8fd93cef0dfbaf0f7495;hp=c15ba3a4d588b3eedcaca7713c6d5acb8610aee2;hpb=af0a94ea8f02421b2b73e77e68753a2b4c37768e;p=mothur.git

diff --git a/splitgroupscommand.cpp b/splitgroupscommand.cpp
index c15ba3a..88292bd 100644
--- a/splitgroupscommand.cpp
+++ b/splitgroupscommand.cpp
@@ -320,7 +320,7 @@ int SplitGroupCommand::runCount(){
 	try {
         
         CountTable ct;
-        ct.readTable(countfile, true);
+        ct.readTable(countfile, true, false);
         if (!ct.hasGroupInfo()) { m->mothurOut("[ERROR]: your count file does not contain group info, cannot split by group.\n"); m->control_pressed = true; }
         
         if (m->control_pressed) { return 0; }
@@ -362,7 +362,7 @@ int SplitGroupCommand::runCount(){
                 for (int i = 0; i < thisSeqsGroups.size(); i++) {
                     if (m->inUsersGroups(thisSeqsGroups[i], Groups)) { //if this sequence belongs to a group we want them print
                         seq.printSequence(*(ffiles[thisSeqsGroups[i]]));
-                        int numSeqs = ct.getGroupCount(seq.getName(), Groups[i]);
+                        int numSeqs = ct.getGroupCount(seq.getName(), thisSeqsGroups[i]);
                         (*(cfiles[thisSeqsGroups[i]])) << seq.getName() << '\t' << numSeqs << '\t' << numSeqs << endl;
                     }
                 }