Add GenABEL to R-bundle-Bioconductor

[verdurin]

(created using eb --new-pr)

[boegel]

@boegelbot please test @ generoso
EB_ARGS="--skip"

[boegelbot]

@boegel: Request for testing this PR well received on generoso

PR test command 'EB_PR=12822 EB_ARGS="--skip" /apps/slurm/default/bin/sbatch --job-name test_PR_12822 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

• exit code: 0
• output:

Submitted batch job 17061

Test results coming soon (I hope)...

- notification for comment with ID 832977325 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
FAILED
Build succeeded for 0 out of 1 (1 easyconfigs in total)
generoso-c1-s-1 - Linux centos linux 8.2.2004, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/3cef24e713230976424f35b06a00905b for a full test report.

[Micket]

Does order matter here?

ERROR: dependency GenABEL.data is not available for package GenABEL

[Micket]

@boegel How is this order dependency going to affect your changes to build extensions in parallel?

[lexming]

Test report by @lexming
FAILED
Build succeeded for 0 out of 1 (1 easyconfigs in total)
node381.hydra.os - Linux centos linux 7.9.2009, x86_64, Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz, Python 2.7.5
See https://gist.github.com/fcc79cfbf2824cc332433d104db8eb69 for a full test report.

[boegel]

@boegel How is this order dependency going to affect your changes to build extensions in parallel?

It won't. The order in exts_list is largely irrelevant when the R extensions are installed in parallel, because the installation of E is only started when the required extensions for E are installed already. See the required_deps method in easybuilders/easybuild-easyblocks#2408 (which should be reworked into a standalone function, so it can be unit tested and used by other easyblocks).

[boegel]

@lexming Any idea what caused this?

** byte-compile and prepare package for lazy loading
sh: line 1:  3339 Killed                  R_TESTS= '/user/brussel/101/vsc10122/.local/easybuild-skylake/software/R/4.0.3-foss-2020b/lib64/R/bin/R' --no-save --no-restore --no-echo 2>&1 < '/user/brussel/101/vsc10122/.local/easybuild-skylake/tmp/eb-S60DbH/RtmpjfMv1K/filec7565034ebf'
ERROR: lazy loading failed for package conumee

[boegel]

@boegelbot please test @ generoso
EB_ARGS="--skip"

[boegelbot]

@boegel: Request for testing this PR well received on generoso

PR test command 'EB_PR=12822 EB_ARGS="--skip" /apps/slurm/default/bin/sbatch --job-name test_PR_12822 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

• exit code: 0
• output:

Submitted batch job 17081

Test results coming soon (I hope)...

- notification for comment with ID 839491522 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 1 out of 1 (1 easyconfigs in total)
generoso-c1-s-1 - Linux centos linux 8.2.2004, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/b3a8e3b954da14d79c4afdb1640a41aa for a full test report.

[boegel]

Test report by @boegel
SUCCESS
Build succeeded for 1 out of 1 (1 easyconfigs in total)
node3153.skitty.os - Linux centos linux 7.9.2009, x86_64, Intel(R) Xeon(R) Gold 6140 CPU @ 2.30GHz, Python 3.6.8
See https://gist.github.com/c8ac6c160f6b28151bac4136565f5455 for a full test report.

[boegel]

Test report by @boegel
SUCCESS
Build succeeded for 1 out of 1 (1 easyconfigs in total)
node2601.swalot.os - Linux centos linux 7.9.2009, x86_64, Intel(R) Xeon(R) CPU E5-2660 v3 @ 2.60GHz (haswell), Python 3.6.8
See https://gist.github.com/8d07656c0972fcf8ffa5cfe4a00319d0 for a full test report.

[boegel]

Test report by @boegel
SUCCESS
Build succeeded for 1 out of 1 (1 easyconfigs in total)
node3506.doduo.os - Linux RHEL 8.2, x86_64, AMD EPYC 7552 48-Core Processor (zen2), Python 3.6.8
See https://gist.github.com/d2fc9fa500e676de369c3447ce237688 for a full test report.

[boegel]

lgtm

[boegel]

Going in, thanks @verdurin!