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enable Quarto in RStudio 2024.12 + add patch to allow passing through environment#24542

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bedroge merged 1 commit intoeasybuilders:developfrom
ocaisa:20251113125225_new_pr_RStudio-Server2024120+467
Nov 14, 2025
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enable Quarto in RStudio 2024.12 + add patch to allow passing through environment#24542
bedroge merged 1 commit intoeasybuilders:developfrom
ocaisa:20251113125225_new_pr_RStudio-Server2024120+467

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@ocaisa ocaisa commented Nov 13, 2025

(created using eb --new-pr)

@github-actions github-actions Bot added 2024a issues & PRs related to 2024a common toolchains change labels Nov 13, 2025
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ocaisa commented Nov 13, 2025

@boegelbot please test @ jsc-zen3

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@ocaisa: Request for testing this PR well received on jsczen3l1.int.jsc-zen3.fz-juelich.de

PR test command 'if [[ develop != 'develop' ]]; then EB_BRANCH=develop ./easybuild_develop.sh 2> /dev/null 1>&2; EB_PREFIX=/home/boegelbot/easybuild/develop source init_env_easybuild_develop.sh; fi; EB_PR=24542 EB_ARGS= EB_CONTAINER= EB_REPO=easybuild-easyconfigs EB_BRANCH=develop /opt/software/slurm/bin/sbatch --job-name test_PR_24542 --ntasks=8 ~/boegelbot/eb_from_pr_upload_jsc-zen3.sh' executed!

  • exit code: 0
  • output:
Submitted batch job 8750

Test results coming soon (I hope)...

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Message to humans: this is just bookkeeping information for me,
it is of no use to you (unless you think I have a bug, which I don't).

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Test report by @boegelbot
SUCCESS
Build succeeded for 1 out of 1 (total: 21 mins 49 secs) (1 easyconfigs in total)
jsczen3c1.int.jsc-zen3.fz-juelich.de - Linux Rocky Linux 9.6, x86_64, AMD EPYC-Milan Processor (zen3), Python 3.9.21
See https://gist.github.com/boegelbot/bae2d59f11cfaf63fb6ab7039d59983c for a full test report.

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ocaisa commented Nov 13, 2025

I tested this setup quite a bit. Quarto works just fine and has Arm support for quite a while.

The environment patch is very useful. It means the default terminal environment is the same as the environment RStudio was started in. It also means that any additional R/Python modules loaded before starting the server are also available in the RStudio environment (think Bioconductor, SciPy-bundle,...).

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bedroge commented Nov 14, 2025

Test report by @bedroge
SUCCESS
Build succeeded for 1 out of 1 (1 easyconfigs in total)
interactive2 - Linux Rocky Linux 8.10, x86_64, AMD EPYC-Milan Processor (zen3), Python 3.6.8
See https://gist.github.com/bedroge/380822a423f4b8398c819acfc355de51 for a full test report.

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Lgtm, also plenty of successful builds in EESSI/software-layer#1300.

@bedroge bedroge added this to the next release (5.2.0?) milestone Nov 14, 2025
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bedroge commented Nov 14, 2025

Going in, thanks @ocaisa!

@bedroge bedroge merged commit 8f91c62 into easybuilders:develop Nov 14, 2025
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@boegel boegel changed the title Enable Quarto in RStudio 2024.12 and allow passing through environment enable Quarto in RStudio 2024.12 + add patch to allow passing through environment Dec 19, 2025
@ocaisa ocaisa deleted the 20251113125225_new_pr_RStudio-Server2024120+467 branch April 8, 2026 13:45
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