X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=removerarecommand.cpp;h=c378e41447013ba021935d07e76af3ae029ad1b0;hb=499f4ac6e321f9f03d4c3aa25c3b6880892c8b83;hp=a551681fb6721e4b3670fe912e1b6bfe909dd388;hpb=af0a94ea8f02421b2b73e77e68753a2b4c37768e;p=mothur.git

diff --git a/removerarecommand.cpp b/removerarecommand.cpp
index a551681..c378e41 100644
--- a/removerarecommand.cpp
+++ b/removerarecommand.cpp
@@ -411,7 +411,7 @@ int RemoveRareCommand::processList(){
 			util.setGroups(Groups, namesGroups);
 			m->openOutputFile(outputGroupFileName, outGroup);
 		}else if (countfile != "") {
-            ct.readTable(countfile, true);
+            ct.readTable(countfile, true, false);
             if (ct.hasGroupInfo()) {
                 vector<string> namesGroups = ct.getNamesOfGroups();
                 SharedUtil util;
@@ -850,7 +850,7 @@ int RemoveRareCommand::processLookup(vector<SharedRAbundVector*>& lookup){
 				
 				//eliminates zero otus
 				if (allZero) { for (int j = 0; j < newRabunds.size(); j++) {  newRabunds[j].pop_back(); } }
-                else { headers.push_back(m->currentBinLabels[i]); }
+                else { headers.push_back(m->currentSharedBinLabels[i]); }
 			}
 		}else {
 			//for each otu
@@ -867,7 +867,7 @@ int RemoveRareCommand::processLookup(vector<SharedRAbundVector*>& lookup){
 				
 				//eliminates otus below rare cutoff
 				if (totalAbund <= nseqs) { for (int j = 0; j < newRabunds.size(); j++) {  newRabunds[j].pop_back(); } }
-                else { headers.push_back(m->currentBinLabels[i]); }
+                else { headers.push_back(m->currentSharedBinLabels[i]); }
 			}
 		}