mothur

Chimera.vsearch error


#1

Hi_

I was running chimera.vsearch for a couple hours.
It seems the program run all the samples (n=32) and then I got this message:

[ERROR]: M03309-237-000000000-BC7WH_1_2115-9831-1180 (Thousands of different numbers appeared here, that I think represent each sequence I got for this sample) is not in your count table. Please correct.

The output files that I got are:

diversi.trim.contigs.good.unique.good.filter.unique.precluster.denovo.vsearch.pick.count_table
diversi.trim.contigs.good.unique.good.filter.unique.precluster.denovo.vsearch.accnos
diversi.trim.contigs.good.unique.good.filter.unique.precluster.denovo.vsearch.chimeras
diversi.trim.contigs.good.unique.good.filter.unique.precluster.denovo.vsearch.chimerasFS-8
diversi.trim.contigs.good.unique.good.filter.unique.precluster.denovo.vsearch.chimerasFS-8vsearch_out
diversi.trim.contigs.good.unique.good.filter.unique.precluster.temp

When I set the command remove.seqs, just 1 sequence was removed.

What should I do?

Thank you.

Barros_EM


#2

Hi,

Can you post the commands you are running upstream of this command? That will help us to debug what’s going on.

Pat