fix LAMMPS 3Mar2020 easyconfigs using intel toolchain on AMD CPUs by patching out hardcoded -xHost

[hajgato]

No description provided.

[boegel]

Test report by @boegel
FAILED
Build succeeded for 1 out of 2 (2 easyconfigs in total)
node3570.doduo.os - Linux RHEL 8.2, x86_64, AMD EPYC 7552 48-Core Processor (zen2), Python 3.6.8
See https://gist.github.com/9fe4c2e977155154f936e40ea78681ae for a full test report.

[hajgato]

@boegel

BlockingIOError: [Errno 11] Resource temporarily unavailable: '/kyukon/home/gent/400/vsc40003/.local/share/virtualenv/seed-app-data/v1.0.1/3.8/image/CopyPipInstall/pip-20.0.2-py2.py3-none-any/pip/_vendor/distlib/w32.exe' -> '/tmp/vsc40003/easybuild/LAMMPS/3Mar2020/intel-2020a-Python-3.8.2-kokkos/easybuild_obj/docenv/lib/python3.8/site-packages/pip/_vendor/distlib/w32.exe'

[hajgato]

@boegel plus the patch does not work.

[hajgato]

@boegel I do not have any idea how could I fix this BlockingIOError: [Errno 11] problem on RHEL8

[boegel]

@hajgato My home dir was close to being full, that may be the problem... I'll try again.

[boegel]

@boegelbot please test @ generoso

[boegelbot]

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

PR test command 'EB_PR=11577 EB_ARGS= /apps/slurm/default/bin/sbatch --job-name test_PR_11577 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

• exit code: 0
• output:

Submitted batch job 8204

Test results coming soon (I hope)...

- notification for comment with ID 717460098 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 2 out of 2 (2 easyconfigs in total)
generoso-x-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/6dd8083c70dd5eb09aaa1e011c2f884f for a full test report.

[hajgato]

Adding configopts = "-DBUILD_DOC=off " solves the problem. I have the feeling that this problem specifically relates to our system.

[boegel]

Test report by @boegel
SUCCESS
Build succeeded for 2 out of 2 (2 easyconfigs in total)
node3407.kirlia.os - Linux centos linux 7.8.2003, x86_64, Intel(R) Xeon(R) Gold 6240 CPU @ 2.60GHz (cascadelake), Python 2.7.5
See https://gist.github.com/b0134cb5b42f8b3d8921866120d781a6 for a full test report.

[ocaisa]

Looks like there is no need for the patch, you can use the CMake configopt -DCMAKE_TUNE_DEFAULT="" which should have the same effect (not tested!)

My bad, didn't look at the patch hard enough

[boegel]

@hajgato That BlockingIOError is a GPFS bug, for which a workaround is available by patching Python, right? Do we have that documented somewhere?

[hajgato]

@boegel The workaround is documented in #11581

[boegel]

@boegelbot please test @ generoso
CORE_CNT=16

[boegelbot]

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

PR test command 'EB_PR=11577 EB_ARGS= /apps/slurm/default/bin/sbatch --job-name test_PR_11577 --ntasks="16" ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

• exit code: 0
• output:

Submitted batch job 18280

Test results coming soon (I hope)...

- notification for comment with ID 912537738 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 4 out of 4 (4 easyconfigs in total)
generoso-x-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/1b52861e29c1e1a6d4bc74b1bef72c92 for a full test report.

[boegel]

Test report by @boegel
SUCCESS
Build succeeded for 9 out of 9 (4 easyconfigs in total)
node2605.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/f45cfd25455bb97d7203e7f71fb291ab for a full test report.

[boegel]

Test report by @boegel
SUCCESS
Build succeeded for 8 out of 8 (4 easyconfigs in total)
node3528.doduo.os - Linux RHEL 8.2, x86_64, AMD EPYC 7552 48-Core Processor (zen2), Python 3.6.8
See https://gist.github.com/8c99b8e8e837037d70eb6d2d5ce436d4 for a full test report.

[boegel]

lgtm

[boegel]

Going in, thanks @hajgato!