done testing 1.14.0

[mothur.git] / removeseqscommand.cpp

diff --git a/removeseqscommand.cpp b/removeseqscommand.cpp
index afba6514e0ea1360ef78f65d9470f89e63e18d53..f1804ed8b826d00b4993a708804733335bb1b194 100644 (file)
--- a/removeseqscommand.cpp
+++ b/removeseqscommand.cpp
@@ -26,6 +26,7 @@ vector<string> RemoveSeqsCommand::getValidParameters(){
 //**********************************************************************************************************************
 RemoveSeqsCommand::RemoveSeqsCommand(){        
        try {
+               abort = true;
                //initialize outputTypes
                vector<string> tempOutNames;
                outputTypes["fasta"] = tempOutNames;
@@ -403,7 +404,7 @@ int RemoveSeqsCommand::readName(){
                while(!in.eof()){
                        if (m->control_pressed) { in.close();  out.close();  remove(outputFileName.c_str());  return 0; }
 
-                       in >> firstCol;                         
+                       in >> firstCol;         m->gobble(in);          
                        in >> secondCol;                        
 
                        vector<string> parsedNames;