Hi, I am totally new to Mothur and Next-gen sequencing, so forgive me if this is an easy to solve problem.
I am basically following the example MiSeq SOP given in the wiki but using my own data. I have produced aligned sequences and generated stability.trim.contigs.good.unique.align, however when I try to run the command summary.seqs(fasta=stability.trim.contigs.good.unique.align, count=stability.trim.contigs.good.count_table) I recieve the following message “Error in reading your fastfile at position -1. Blank name”
Error: process 0 only processed 1 of 237812 sequences assigned to it, quitting
I am running Mothur v 1.33 on Windows 7 - any help much appreciated