Question: ERROR IN Mothur tool
0
gravatar for haddadfatiha62
4 months ago by
haddadfatiha620 wrote:

Hi, I am working on Metagenome analysis using Mothur. I am very naive to this tool… and processing the data with example data-sets as mentioned in the tutorial FROM MiSeq SOP Everything was going fine as mentioned in the tutorial until I got stuck at chimera.vsearch command.

Using ReadLine,Boost,HDF5
mothur v.1.41.0
Last updated: 04/25/2019


mothur > chimera.vsearch(fasta=stability.trim.contigs.good.unique.good.filter.unique.precluster.fasta, count=stability.trim.contigs.good.unique.good.filter.unique.precluster.count_table, dereplicate=t)

Using  64 processors.
Checking sequences from stability.trim.contigs.good.unique.good.filter.unique.precluster.fasta …
[ERROR]: M00967_43_000000000-A3JHG_1_1114_15978_19655 is not in your count table. Please correct.
Segmentation fault (core dumped)

can you help me please to knew where i went wrong!!! thank you

software error • 171 views
ADD COMMENTlink modified 4 months ago • written 4 months ago by haddadfatiha620

There was no error/warnings before you encountered this one? Did all outputs match what is shown in the tutorial? Are you sure you did not skip any steps?

ADD REPLYlink written 4 months ago by genomax71k

Segmentation fault (core dumped) generally relates to an issue with memory / RAM

ADD REPLYlink written 4 months ago by Kevin Blighe48k

M00967_43_000000000-A3JHG_1_1114_15978_19655 is not in your count table. Please correct.

Surely this would be the place to start.

ADD REPLYlink written 4 months ago by WouterDeCoster40k

NO, i didn't have any problem before this command , I have the same results like tutorial but when I run chemira.vsearch i got error ,i tried to update mothur tool but nothing change

ADD REPLYlink written 4 months ago by haddadfatiha620
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