if (it != groupmap.end()) { //sequence name was in group file
return it->second;
}else {
+ //look for it in names of groups to see if the user accidently used the wrong file
+ if (m->inUsersGroups(sequenceName, namesOfGroups)) {
+ m->mothurOut("[WARNING]: Your group or design file contains a group named " + sequenceName + ". Perhaps you are used a group file instead of a design file? A common cause of this is using a tree file that relates your groups (created by the tree.shared command) with a group file that assigns sequences to a group."); m->mothurOutEndLine();
+ }
return "not found";
}
}