bug in fasta= option in align.seqs

Commands in mothur
1

Hi, I believe the fasta= option in align.seqs can not accept ‘-’ in fasta file name. If I replace ‘-’ with ‘_’, it runs fine. See error below:

mothur > align.seqs(fasta=sample_2101-532_ada.trim.contigs.good.unique.fasta,reference=silva.nr_v123.align, processors=60)
Unable to open sample_2101. It will be disregarded.
Unable to open 532_ada.trim.contigs.good.unique.fasta. It will be disregarded.
no valid files.

2

Yep, that’s a feature, not a bug. If you want to align multiple files you separate them with hyphens.

Pat