oligo file not separating barcodes


I’m trying to separate all my sequence reads by barcode. I’ve been using the command with an associated oligo file to do this.

After running the command, oligos=oligowadapter.tsv), the only files it outputs are a single: fasta, qual, and scrap fasta, qual, fastq.

I’m running the most recent version of mothur. There isn’t another reverse fastq file. I’ve tried providing the full path to the fastq and oligo file. I’ve run this command before with the exact same fasta and oligo file with no issues.