Error while running Humann

Hello,

I am getting this error when running Humann. Thanks for any help!

FATAL:   While checking container encryption: could not open image /cvmfs/singularity.galaxyproject.org/all/humann:3.9--py312hdfd78af_0: failed to retrieve path for /cvmfs/singularity.galaxyproject.org/all/humann:3.9--py312hdfd78af_0: lstat /cvmfs/singularity.galaxyproject.org: no such file or directory

I think I may have to bypass the initial screen, I am trying that to see how it goes.

Welcome @Ben7124

Thanks for sharing the job logs! Very helpful.

For this error, I would suggest trying a rerun. It seems the job container didn’t initialize correctly. This can be a transient problem .. simply due to the very large number of concurrent jobs some tiny fraction will fail by chance!

I’ll also run a tool test the UseGalaxy.eu server. To make sure I am reviewing the correct tool, this is the tool version you are using?

  • HUMAnN to profile presence/absence and abundance of microbial pathways and gene families (Galaxy Version 3.9+galaxy1)

If you want to confirm or clarify, that would be helpful too! You can also post back a share link to your history that contains the error and we can review your failure case specifically for feedback!

Let’s start there! :slight_smile:

Hello yes that is the tool I am using (HUMAnN to profile presence/absence and abundance of microbial pathways and gene families (Galaxy Version 3.9+galaxy1)

The strange thing is that when I do the run on usegalaxydotorg, it seems to be running ok (not completed yet). But the usegalaxydoteu produces an error. I will try it again maybe tomorrow to see if it persists.

Thank you for your help!

Hi @Ben7124

Great, thanks for clarifying the tool! The EU server is currently restarting, so perhaps your error was related to that. Let’s catch up in a few hours or possibly tomorrow if this takes longer. Xref → https://status.galaxyproject.org/

Hello @Ben7124

Yesterday one of our nodes had problems mounting cvmfs. That should be fixed.

Sorry for the inconvenient :slight_smile:

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