cluster.split command

[mothur.git] / makegroupcommand.cpp

diff --git a/makegroupcommand.cpp b/makegroupcommand.cpp
index f567fbda600cecf76338c9081e10d51a872ecbc3..57028c957397f8ead2e38cd326020391a61ef7a2 100644 (file)
--- a/makegroupcommand.cpp
+++ b/makegroupcommand.cpp
@@ -127,12 +127,16 @@ int MakeGroupCommand::execute(){
                
                for (int i = 0; i < fastaFileNames.size(); i++) {
                
+                       if (m->control_pressed) {  out.close(); remove(filename.c_str()); return 0; }
+                       
                        ifstream in;
                        openInputFile(fastaFileNames[i], in);
                        
                        while (!in.eof()) {
                                
-                               Sequence seq(in); gobble(in);
+                               Sequence seq(in, "no align"); gobble(in);
+                               
+                               if (m->control_pressed) {  in.close(); out.close(); remove(filename.c_str()); return 0; }
                                
                                if (seq.getName() != "") {      out << seq.getName() << '\t' << groupsNames[i] << endl;         }
                        }