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Document squashfs module requirement for Apptainer - #1118

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Document squashfs module requirement for Apptainer#1118
FredDroest wants to merge 2 commits into
nf-core:masterfrom
FredDroest:patch-3

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@FredDroest

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Added information about loading the squashfs module for container image handling in Apptainer, required for using certain nf-core pipelines on the LRZ HPC cluster.


name: New Config
about: A new cluster config

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  • If your PR is a work in progress, include [WIP] in its title
  • Your PR targets the master branch
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Steps for adding a new config profile:

  • Add your custom config file to the conf/ directory
  • Add your documentation file to the docs/ directory
  • Add your custom profile to the nfcore_custom.config file in the top-level directory
  • Add your profile name to the profile: scope in .github/workflows/main.yml
  • OPTIONAL: Add your custom profile path and GitHub user name to .github/CODEOWNERS (**/<custom-profile>** @<github-username>)

Added information about loading the squashfs module for container image handling in Apptainer, required for using certain nf-core pipelines on the LRZ HPC cluster.
@FredDroest
FredDroest requested a review from nschan as a code owner May 22, 2026 10:36

@nschan nschan left a comment

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This is a good point. The squashfs module is loaded automatically when loading the apptainer module, maybe it would then be more convenient to load the whole apptainer+squashfs thing via module instead?

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4 participants