Set locale to avoid apptainer warnings on HPC - Githubissues

sigven / pcgr

Personal Cancer Genome Reporter (PCGR)

https://sigven.github.io/pcgr

MIT License

251 stars 47 forks source link

Set locale to avoid apptainer warnings on HPC #242

Closed pdiakumis closed 2 months ago

pdiakumis commented 2 months ago

This is to hopefully help with the following warning we're getting after using Singularity on HPC:

warning: setlocale: LC_ALL: cannot change locale (en_US.UTF-8)

Docker:
- use base-glibc-debian-bash instead of base-glibc-busybox-bash
- this one has the locale set up which should sort out the above warnings: https://github.com/bioconda/bioconda-containers/blob/d0c22d/images/base-glibc-debian-bash/Dockerfile
GitHub Actions:
- re-enable free-disk-space since we were getting no-more-space errors
- only publish pkgdown website when bumping master branch
pcgrr: removing quarto tmp parent folder