add wrapper for Julia with linking safeguards and delegate environment setup to JuliaPackage

[lexming]

(created using eb --new-pr)

Fixes #17692
Alternative fix for #19650

Depends on:

• make a project environment and manage LOAD_PATH for JuliaPackage easybuild-easyblocks#3239

Changelog:

• remove modextravars, the depot path will be set by the JuliaPackage easyblock with make a project environment and manage LOAD_PATH for JuliaPackage easybuild-easyblocks#3239
• execute julia through a wrapper to ensure that the libraries bundled in Julia have precedence

[lexming]

@boegelbot: please test @ generoso

[boegelbot]

@lexming: Request for testing this PR well received on login1

PR test command 'EB_PR=20103 EB_ARGS= EB_CONTAINER= EB_REPO=easybuild-easyconfigs /opt/software/slurm/bin/sbatch --job-name test_PR_20103 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

• exit code: 0
• output:

Submitted batch job 13092

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).

[boegelbot]

Test report by @boegelbot
FAILED
Build succeeded for 14 out of 15 (15 easyconfigs in total)
cns2 - Linux Rocky Linux 8.9, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/boegelbot/c1e1c468ed754bb3f8efaa3c6a2ede97 for a full test report.

[lexming]

@boegelbot: please test @ generoso
EB_ARGS="Julia-1.10.0-linux-x86_64.eb Julia-1.6.5-linux-x86_64.eb Julia-1.6.6-linux-x86_64.eb Julia-1.6.7-linux-x86_64.eb Julia-1.7.0-linux-x86_64.eb Julia-1.7.1-linux-x86_64.eb Julia-1.7.2-linux-x86_64.eb Julia-1.7.3-linux-x86_64.eb Julia-1.8.0-linux-x86_64.eb Julia-1.8.2-linux-x86_64.eb Julia-1.8.5-linux-x86_64.eb Julia-1.9.0-linux-x86_64.eb Julia-1.9.2-linux-x86_64.eb Julia-1.9.3-linux-x86_64.eb"

[boegelbot]

@lexming: Request for testing this PR well received on login1

PR test command 'EB_PR=20103 EB_ARGS="Julia-1.10.0-linux-x86_64.eb Julia-1.6.5-linux-x86_64.eb Julia-1.6.6-linux-x86_64.eb Julia-1.6.7-linux-x86_64.eb Julia-1.7.0-linux-x86_64.eb Julia-1.7.1-linux-x86_64.eb Julia-1.7.2-linux-x86_64.eb Julia-1.7.3-linux-x86_64.eb Julia-1.8.0-linux-x86_64.eb Julia-1.8.2-linux-x86_64.eb Julia-1.8.5-linux-x86_64.eb Julia-1.9.0-linux-x86_64.eb Julia-1.9.2-linux-x86_64.eb Julia-1.9.3-linux-x86_64.eb" EB_CONTAINER= EB_REPO=easybuild-easyconfigs /opt/software/slurm/bin/sbatch --job-name test_PR_20103 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

• exit code: 0
• output:

Submitted batch job 13093

Test results coming soon (I hope)...

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Message to humans: this is just bookkeeping information for me,
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[boegelbot]

Test report by @boegelbot
SUCCESS
Build succeeded for 14 out of 14 (14 easyconfigs in total)
cns2 - Linux Rocky Linux 8.9, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/boegelbot/9ef90dbf705e2642e958f984db2deca0 for a full test report.

[lexming]

@boegelbot: please test @ jsc-zen3
EB_ARGS="Julia-1.10.0-linux-x86_64.eb Julia-1.6.5-linux-x86_64.eb Julia-1.6.6-linux-x86_64.eb Julia-1.6.7-linux-x86_64.eb Julia-1.7.0-linux-x86_64.eb Julia-1.7.1-linux-x86_64.eb Julia-1.7.2-linux-x86_64.eb Julia-1.7.3-linux-x86_64.eb Julia-1.8.0-linux-x86_64.eb Julia-1.8.2-linux-x86_64.eb Julia-1.8.5-linux-x86_64.eb Julia-1.9.0-linux-x86_64.eb Julia-1.9.2-linux-x86_64.eb Julia-1.9.3-linux-x86_64.eb"

[boegelbot]

@lexming: 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=20103 EB_ARGS="Julia-1.10.0-linux-x86_64.eb Julia-1.6.5-linux-x86_64.eb Julia-1.6.6-linux-x86_64.eb Julia-1.6.7-linux-x86_64.eb Julia-1.7.0-linux-x86_64.eb Julia-1.7.1-linux-x86_64.eb Julia-1.7.2-linux-x86_64.eb Julia-1.7.3-linux-x86_64.eb Julia-1.8.0-linux-x86_64.eb Julia-1.8.2-linux-x86_64.eb Julia-1.8.5-linux-x86_64.eb Julia-1.9.0-linux-x86_64.eb Julia-1.9.2-linux-x86_64.eb Julia-1.9.3-linux-x86_64.eb" EB_CONTAINER= EB_REPO=easybuild-easyconfigs EB_BRANCH=develop /opt/software/slurm/bin/sbatch --job-name test_PR_20103 --ntasks=8 ~/boegelbot/eb_from_pr_upload_jsc-zen3.sh' executed!

• exit code: 0
• output:

Submitted batch job 3761

Test results coming soon (I hope)...

- notification for comment with ID 1994731844 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).

[boegelbot]

Test report by @boegelbot
SUCCESS
Build succeeded for 14 out of 14 (14 easyconfigs in total)
jsczen3c1.int.jsc-zen3.fz-juelich.de - Linux Rocky Linux 9.3, x86_64, AMD EPYC-Milan Processor (zen3), Python 3.9.18
See https://gist.github.com/boegelbot/9ab99dcc62c3d8f6d499f02652b9d5f3 for a full test report.

[jfgrimm]

an alternative solution would be to replace the RUNPATH sections of all binaries/libraries in the Julia install dir with RPATH instead (so it takes precedence over LD_LIBRARY_PATH)

I played around with this, and something like this would do the trick:

find . -type f -exec sh -c "readelf -d {} | grep -Po1 '(?<=Library runpath: \[).*(?=\])' | xargs -r -I rpth patchelf --set-rpath \'rpth\' --force-rpath {}" \;