# Segmentation fault classify.seqs

**URL:** <https://forum.mothur.org/t/segmentation-fault-classify-seqs/3450>\
**Category:** mothur bugs\
**Created:** [November 27, 2017, 1:32pm UTC](https://forum.mothur.org/t/segmentation-fault-classify-seqs/3450 "2017-11-27T13:32:58Z")\
**Posts on this page:** 4\
**Page:** 1

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**Author:** ![vimac](https://avatars.discourse-cdn.com/v4/letter/v/a88e57/32.png) [@vimac](https://forum.mothur.org/u/vimac)\
**Post date:** [November 27, 2017, 1:32pm UTC](https://forum.mothur.org/t/segmentation-fault-classify-seqs/3450/1 "2017-11-27T13:32:58Z")

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Dear all,

I have a 'Segmentation fault" problem when running mothur v.1.36.1. I’ve been using this version without a problem and done most of my analysis with it but suddenly it keeps on crashing during the “classify.seqs” step in batch mode in which I get the following error:

mothur \> classify.seqs(fasta=current, count=current, reference=/home/vimac/Databases/Silva/SILVA\_128/SSURef\_NR99\_v128/silva.nr\_v128/silva.nr\_v128.align, taxonomy=/home/vimac/Databases/Silva/SILVA\_128/SSURef\_NR99\_v128/silva.nr\_v128/silva.nr\_v128.tax, cutoff=80)  
Using G1\_cDNAs.stability.trim.contigs.good.unique.good.filter.unique.precluster.denovo.uchime.pick.count\_table as input file for the count parameter.  
Using G1\_cDNAs.stability.trim.contigs.good.unique.good.filter.unique.precluster.pick.fasta as input file for the fasta parameter.

Using 4 processors.  
Reading template taxonomy… DONE.  
Reading template probabilities… Segmentation fault

When checking at the log file there is not much more info:  
Using 4 processors.  
Reading template taxonomy… DONE.

I tried re-running old data which worked fine before and it crashes at the same step.

I’m running mothur on a Biolinux 8 with 32GB RAM and 1TB of disk so memory should not be a problem.

Any ideas on how to solve this?

Thank you.

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**Author:** ![pschloss](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/pschloss/32/4_2.png) [@pschloss](https://forum.mothur.org/u/pschloss)\
**Post date:** [December 4, 2017, 3:53pm UTC](https://forum.mothur.org/t/segmentation-fault-classify-seqs/3450/2 "2017-12-04T15:53:35Z")

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Could you try it with 2 or even 1 processor?

Pat

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**Author:** ![vimac](https://avatars.discourse-cdn.com/v4/letter/v/a88e57/32.png) [@vimac](https://forum.mothur.org/u/vimac)\
**Post date:** [December 19, 2017, 10:36am UTC](https://forum.mothur.org/t/segmentation-fault-classify-seqs/3450/3 "2017-12-19T10:36:52Z")

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Hi Pat,

I tried running it again with 1, 2 and 8 processors and I always get the same segmentation fault error. I even tried with the mothur example data and it also crashes.

Any idea of how to proceed?

Thanks

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<div class="post-metadata">

**Author:** ![pschloss](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/pschloss/32/4_2.png) [@pschloss](https://forum.mothur.org/u/pschloss)\
**Post date:** [December 21, 2017, 2:09pm UTC](https://forum.mothur.org/t/segmentation-fault-classify-seqs/3450/4 "2017-12-21T14:09:39Z")

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Sorry, I missed that you are using v.1.36. You really should update hte version to 1.39.5 and try again.

Pat