I am getting an error message that states “Your groupfile contains more than 1 sequence named XXXXX, sequence names must be unique. Please correct” but what its categorizing as a sequence name is actually a group name. I am wondering if I am saving the groups file as the wrong format or if I am doing something else wrong.
Thanks for any help I can get. It seems like mothur is getting confused while reading the groupfile. How did you create the groupfile? Do you have extra spaces between the sequence name and group name? If you want me to take a look at your groupfile, you can send it to