<p>I resolved this problem by installing from source; I assume the precompiled binary was not compatible with the Arch Linux kernel.</p>

CC BY-SA 4.0
2018-10-23T18:44:16.600Z
I encountered this with several tools on arch. It looks like most tools are compatible with Ubuntu (or Debian in general) or biolinux
engineercoding
CC BY-SA 4.0
2018-10-24T03:12:58.380Z
Perhaps the authors should note the distribution of the binary build rather than denoting it as "linux"... or perhaps I shouldn't be so naive as to think such a thing could exist ;)
Scott Gigante
CC BY-SA 4.0
2018-10-23T01:37:03.230Z
2018-10-23T01:37:03.230Z
Scott Gigante
<p>I am encountering a segmentation fault when attempting to run <a href="http://bioinf.wehi.edu.au/featureCounts/" rel="nofollow noreferrer">featureCounts</a> from <code>subread-1.6.3</code> on even small test data. I installed featureCounts from <a href="https://sourceforge.net/projects/subread/files/subread-1.6.3/" rel="nofollow noreferrer">SourceForge</a> using the precompiled Linux binary.</p>

<p>Most existing help threads on this topic (<a href="http://seqanswers.com/forums/showthread.php?t=50353" rel="nofollow noreferrer">1</a>, <a href="https://www.biostars.org/p/169712/" rel="nofollow noreferrer">2</a>, <a href="https://support.bioconductor.org/p/59473/" rel="nofollow noreferrer">3</a>) show some splash screen output before the error, but I get a segmentation fault before any error is shown.</p>

<pre><code>$ featureCounts -T 1 -p -t exon -g gene_id -a /data/sai/annots/musmus_cdna_all_ensembl92.gtf -o test.txt test.bam test2.bam
Segmentation fault (core dumped)
</code></pre>

<rna-seq><sam><subread><featurecounts>
featureCounts segmentation fault on Arch Linux
# featureCounts segmentation fault on Arch Linux

(Asked by: username_0 on 2018-10-23)

I am encountering a segmentation fault when attempting to run featureCounts from subread-1.6.3 on even small test data. I installed featureCounts from SourceForge using the precompiled Linux binary.
Most existing help threads on this topic (1, 2, 3) show some splash screen output before the error, but I get a segmentation fault before any error is shown.
$ featureCounts -T 1 -p -t exon -g gene_id -a /data/sai/annots/musmus_cdna_all_ensembl92.gtf -o test.txt test.bam test2.bam
Segmentation fault (core dumped)

**Tags:** rna-seq, sam, subread, featurecounts

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## 1 answers

### Answer by username_0 on 2018-10-23. Score: 3 | Accepted answer

I resolved this problem by installing from source; I assume the precompiled binary was not compatible with the Arch Linux kernel.

> **Comments:**
> **username_1**: I encountered this with several tools on arch. It looks like most tools are compatible with Ubuntu (or Debian in general) or biolinux  
> **username_0**: Perhaps the authors should note the distribution of the binary build rather than denoting it as "linux"... or perhaps I shouldn't be so naive as to think such a thing could exist ;)  

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