After chimera.vsearch, "Error in reading your fastafile, at position -1. Blank name."

Commands in mothur
1

Hi,
I’m a PhD student, and I’m using a modified version of the MiSeq SOP to fit my data.

I encountered an error message during the chimera.vsearch step:
Error in reading your fastafile, at position -1. Blank name.

I tried reducing the number of processors (from 16 to 2) and also updated vsearch to the latest version (from 2.27.0 to 2.28.1), but the same error keeps occurring.
I used the latest version (1.48.1) of Mothur, too!

I checked the fasta file used in chimera.vsearch, and there are no blank headers.
I’m not sure where the problem is.

I’m scheduled to attend a conference, so I would appreciate a prompt reply. ㅠ_ㅠ

If there are any other files needed to solve this problem, please let me know the email address to send them to.

Logfile
Logfile1462×710 131 KB

Thank you always.
Jiwon from S. Korea

2

Hi,
I changed the command and tried again, and the issue was resolved.

The command I initially tried was:
chimera.vsearch(vsearch=/home/user12/mothur_config/vsearch-2.28.1-linux-x86_64, fasta=current, count=current, dereplicate=t)

The command I tried again was:
chimera.vsearch(fasta=current, count=current, dereplicate=t)

I hope this helps someone.

Best regards,
Jiwon :slight_smile:

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