Skip to content

bump RnBeads.hg38 extension from 1.42.0 to 1.42.1 in easyconfig for R-bundle-Bioconductor v3.22#25303

Merged
boegel merged 2 commits intoeasybuilders:developfrom
Crivella:fix-rbundlebio_bump_deps
Feb 18, 2026
Merged

bump RnBeads.hg38 extension from 1.42.0 to 1.42.1 in easyconfig for R-bundle-Bioconductor v3.22#25303
boegel merged 2 commits intoeasybuilders:developfrom
Crivella:fix-rbundlebio_bump_deps

Conversation

@Crivella
Copy link
Copy Markdown
Contributor

@Crivella Crivella commented Feb 17, 2026

It seems RnBeads.hg38 was updated to 1.42.1 and 1.42.0 will fail to download

@Crivella
Copy link
Copy Markdown
Contributor Author

Crivella commented Feb 17, 2026

@boegelbot please test @ jsc-zen3

@github-actions github-actions Bot added 2025a issues & PRs related to 2025a common toolchains 2025b issues & PRs related to 2025b common toolchains change labels Feb 17, 2026
@boegelbot
Copy link
Copy Markdown
Collaborator

boegelbot commented Feb 17, 2026

@Crivella: 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=25303 EB_ARGS= EB_CONTAINER= EB_REPO=easybuild-easyconfigs EB_BRANCH=develop /opt/software/slurm/bin/sbatch --job-name test_PR_25303 --ntasks=8 ~/boegelbot/eb_from_pr_upload_jsc-zen3.sh' executed!

  • exit code: 0
  • output:
Submitted batch job 9718

Test results coming soon (I hope)...

Details

- notification for comment with ID 3913402737 processed

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).

@boegel boegel added this to the next release (5.2.1) milestone Feb 17, 2026
@boegel boegel removed the change label Feb 17, 2026
boegel
boegel approved these changes Feb 17, 2026
View reviewed changes
Copy link
Copy Markdown
Member

@boegel boegel left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

lgtm

@jfgrimm
Copy link
Copy Markdown
Member

jfgrimm commented Feb 17, 2026

Test report by @jfgrimm
SUCCESS
Build succeeded for 2 out of 2 (total: 2 hours 46 mins 0 secs) (2 easyconfigs in total)
node126.viking2.yor.alces.network - Linux Rocky Linux 8.10, x86_64, AMD EPYC 7643 48-Core Processor, Python 3.6.8
See https://gist.github.com/jfgrimm/28342fdcd330b714bb906d467b62aea1 for a full test report.

@boegel
Copy link
Copy Markdown
Member

boegel commented Feb 17, 2026

Test report by @boegel
SUCCESS
Build succeeded for 2 out of 2 (total: 7 hours 29 mins 51 secs) (2 easyconfigs in total)
node4218.shinx.os - Linux RHEL 9.6, x86_64, AMD EPYC 9654 96-Core Processor (zen4), Python 3.9.21
See https://gist.github.com/boegel/a921084bb23811159f63292ac713973d for a full test report.

@Crivella
Copy link
Copy Markdown
Contributor Author

Crivella commented Feb 17, 2026

Test report by @Crivella
SUCCESS
Build succeeded for 25 out of 25 (total: 12 hours 43 mins 57 secs) (2 easyconfigs in total)
crivella-desktop - Linux Ubuntu 22.04.5 LTS (Jammy Jellyfish), x86_64, 13th Gen Intel(R) Core(TM) i9-13900K (skylake), Python 3.11.14
See https://gist.github.com/Crivella/624cb79c36f4501e50ae9d8551d7265a for a full test report.

@Crivella
Copy link
Copy Markdown
Contributor Author

Crivella commented Feb 17, 2026

Build succeeded for 2 out of 2 (total: 2 hours 46 mins 0 secs) (2 easyconfigs in total)

I guess --parallel-extensions-install exists for this R packages 😅

@boegelbot
Copy link
Copy Markdown
Collaborator

boegelbot commented Feb 18, 2026

Test report by @boegelbot
SUCCESS
Build succeeded for 2 out of 2 (total: 15 hours 55 mins 8 secs) (2 easyconfigs in total)
jsczen3c1.int.jsc-zen3.fz-juelich.de - Linux Rocky Linux 9.7, x86_64, AMD EPYC-Milan Processor (zen3), Python 3.9.23
See https://gist.github.com/boegelbot/5840e51b6d4b224ccebe4173f8cb28cd for a full test report.

@boegel
Copy link
Copy Markdown
Member

boegel commented Feb 18, 2026

Going in, thanks @Crivella!

@boegel boegel merged commit 0d05d17 into easybuilders:develop Feb 18, 2026
8 checks passed
@jfgrimm
Copy link
Copy Markdown
Member

jfgrimm commented Feb 18, 2026

Build succeeded for 2 out of 2 (total: 2 hours 46 mins 0 secs) (2 easyconfigs in total)

I guess --parallel-extensions-install exists for this R packages 😅

Yup :)

@Crivella Crivella deleted the fix-rbundlebio_bump_deps branch February 18, 2026 09:42
@boegel boegel changed the title R-bundle-Bioconductor v3.22: RnBeads.hg38 moved from 1.42.0 to 1.42.1 bump RnBeads.hg38 extension from 1.42.0 to 1.42.1 in easyconfig for R-bundle-Bioconductor v3.22 Feb 19, 2026
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment

Reviewers

@boegel boegel boegel approved these changes

@jfgrimm jfgrimm jfgrimm approved these changes

Assignees

No one assigned

Labels

2025a issues & PRs related to 2025a common toolchains 2025b issues & PRs related to 2025b common toolchains bug fix

Projects

None yet

Milestone

5.2.1

Development

Successfully merging this pull request may close these issues.

4 participants

@Crivella @boegelbot @jfgrimm @boegel