Question: Deseq2 error slurmstepd: error: xcgroup_instantiate: unable to create cgroup '/sys/fs/cgroup/memory/slurm/uid_819800/job_14640588' : No space left on device sl
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trevor.blain • 10 wrote:
slurmstepd: error: xcgroup_instantiate: unable to create cgroup '/sys/fs/cgroup/memory/slurm/uid_819800/job_14640588' : No space left on device
I get this error on galaxy when attempting to run Deseq2 on my counts data. Any idea what's causing this?
This is occurring at https://usegalaxy.org, correct?
Our admin will be looking into this -- it is the only current report of the problem so far.
Please try a re-run for now, maybe a few. We use multiple clusters and only one may be impacted. At least one of those rerun jobs is likely to hit a different cluster. This happens every so often, so if the job was run sometimes earlier, the problem could be related to a prior issue that has since been resolved.
If you can't get a successful job now, please send in a bug report from one of the error datasets for troubleshooting. Please leave all inputs/output undeleted, including the additional reruns. Including a link to this Biostars post in the bug report comments will help to link it the email to this post.
Thanks! Jen, Galaxy team