{vis}[GCCcore/11.3.0] OpenEXR v3.1.5, libwebp v1.2.4, OpenCV v4.6.0 ... w/ Python 3.10.4 by robogast · Pull Request #16276 · easybuilders/easybuild-easyconfigs

robogast · 2022-09-21T10:45:08Z

(created using eb --new-pr)

…Ccore-11.3.0.eb, OpenCV-4.6.0-foss-2022a-contrib.eb

casparvl · 2022-09-21T13:11:12Z

Some context for the reviewer on the use of FFmpeg 5.0.1:

Based on #15918 that was already the FFmpeg that we intended to use in this toolchain generation. Note that also e.g. #16162 and #15924 use FFmpeg 5.0.1.

However, #15938, which was merged recently, uses an older FFmpeg, specifically because ParaView was said to not be compatible with FFmpeg 5.0.1. My proposal is that we put this exception in the CI and stick with 5.0.1 as the main version for FFmpeg in this toolchain. I've never done this before though, I think it requires a framework change, right?

branfosj · 2022-09-21T13:21:08Z

Some context for the reviewer on the use of FFmpeg 5.0.1:

Based on #15918 that was already the FFmpeg that we intended to use in this toolchain generation. Note that also e.g. #16162 and #15924 use FFmpeg 5.0.1.

However, #15938, which was merged recently, uses an older FFmpeg, specifically because ParaView was said to not be compatible with FFmpeg 5.0.1. My proposal is that we put this exception in the CI and stick with 5.0.1 as the main version for FFmpeg in this toolchain. I've never done this before though, I think it requires a framework change, right?

Exceptions are added to https://github.com/easybuilders/easybuild-easyconfigs/blob/develop/test/easyconfigs/easyconfigs.py#L487 - something like the following - note that it requires specifying the exception for both ParaView and applications that depend on it - i.e. OpenFOAM:

            # ParaView 5.10.x requires FFmpeg 4.x
            'FFmpeg': [(r'4\.4\.', [r'ParaView-5\.10\.', 'OpenFOAM-v2206'])],

casparvl · 2022-09-21T16:20:42Z

@boegelbot please test @ generoso

boegelbot · 2022-09-21T16:25:12Z

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

PR test command 'EB_PR=16276 EB_ARGS= /opt/software/slurm/bin/sbatch --job-name test_PR_16276 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

exit code: 0
output:

Submitted batch job 9173

Test results coming soon (I hope)...

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boegelbot · 2022-09-21T17:07:31Z

Test report by @boegelbot
SUCCESS
Build succeeded for 3 out of 3 (3 easyconfigs in total)
cns1 - Linux Rocky Linux 8.5, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/f670bdf082214b9f0e71038c8920ac23 for a full test report.

casparvl · 2022-09-22T13:49:24Z

Test report by @casparvl
SUCCESS
Build succeeded for 3 out of 3 (3 easyconfigs in total)
software1.lisa.surfsara.nl - Linux debian 10.13, x86_64, Intel(R) Xeon(R) Silver 4110 CPU @ 2.10GHz, Python 3.7.3
See https://gist.github.com/0a65a8f936f99ce9d733b9916562e0d1 for a full test report.

casparvl · 2022-09-22T14:02:58Z

Test report by @casparvl
SUCCESS
Build succeeded for 3 out of 3 (3 easyconfigs in total)
tcn1 - Linux RHEL 8.4, x86_64, AMD EPYC 7H12 64-Core Processor, Python 3.6.8
See https://gist.github.com/20413b700e0f01b60b3c8518a24c8583 for a full test report.

boegelbot · 2022-09-23T15:01:20Z

@robogast: Tests failed in GitHub Actions, see https://github.com/easybuilders/easybuild-easyconfigs/actions/runs/3112484305
Last 100 lines of output from first failing test suite run:

    EasyConfigTest.parse_all_easyconfigs()
  File "test/easyconfigs/easyconfigs.py", line 202, in parse_all_easyconfigs
    cls._parsed_easyconfigs.extend(process_easyconfig(spec))
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/framework/easyconfig/easyconfig.py", line 2071, in process_easyconfig
    raise EasyBuildError("Failed to process easyconfig %s: %s", spec, err.msg)
EasyBuildError: 'Failed to process easyconfig /home/runner/work/easybuild-easyconfigs/easybuild-easyconfigs/easybuild/easyconfigs/l/libwebp/libwebp-1.2.4-GCCcore-11.3.0.eb: Parsing easyconfig file failed: invalid syntax (<string>, line 32)'

======================================================================
ERROR: test_pr_python_packages (test.easyconfigs.easyconfigs.EasyConfigTest)
Several checks for easyconfigs that install (bundles of) Python packages.
----------------------------------------------------------------------
Traceback (most recent call last):
  File "test/easyconfigs/easyconfigs.py", line 972, in test_pr_python_packages
    for ec in self.changed_ecs:
  File "test/easyconfigs/easyconfigs.py", line 296, in changed_ecs
    self._get_changed_easyconfigs()
  File "test/easyconfigs/easyconfigs.py", line 234, in _get_changed_easyconfigs
    for ec in self.parsed_easyconfigs:
  File "test/easyconfigs/easyconfigs.py", line 271, in parsed_easyconfigs
    EasyConfigTest.parse_all_easyconfigs()
  File "test/easyconfigs/easyconfigs.py", line 202, in parse_all_easyconfigs
    cls._parsed_easyconfigs.extend(process_easyconfig(spec))
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/framework/easyconfig/easyconfig.py", line 2071, in process_easyconfig
    raise EasyBuildError("Failed to process easyconfig %s: %s", spec, err.msg)
EasyBuildError: 'Failed to process easyconfig /home/runner/work/easybuild-easyconfigs/easybuild-easyconfigs/easybuild/easyconfigs/l/libwebp/libwebp-1.2.4-GCCcore-11.3.0.eb: Parsing easyconfig file failed: invalid syntax (<string>, line 32)'

======================================================================
ERROR: test_pr_sanity_check_paths (test.easyconfigs.easyconfigs.EasyConfigTest)
Make sure a custom sanity_check_paths value is specified for easyconfigs that use a generic easyblock.
----------------------------------------------------------------------
Traceback (most recent call last):
  File "test/easyconfigs/easyconfigs.py", line 1099, in test_pr_sanity_check_paths
    for ec in self.changed_ecs:
  File "test/easyconfigs/easyconfigs.py", line 296, in changed_ecs
    self._get_changed_easyconfigs()
  File "test/easyconfigs/easyconfigs.py", line 234, in _get_changed_easyconfigs
    for ec in self.parsed_easyconfigs:
  File "test/easyconfigs/easyconfigs.py", line 271, in parsed_easyconfigs
    EasyConfigTest.parse_all_easyconfigs()
  File "test/easyconfigs/easyconfigs.py", line 202, in parse_all_easyconfigs
    cls._parsed_easyconfigs.extend(process_easyconfig(spec))
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/framework/easyconfig/easyconfig.py", line 2071, in process_easyconfig
    raise EasyBuildError("Failed to process easyconfig %s: %s", spec, err.msg)
EasyBuildError: 'Failed to process easyconfig /home/runner/work/easybuild-easyconfigs/easybuild-easyconfigs/easybuild/easyconfigs/l/libwebp/libwebp-1.2.4-GCCcore-11.3.0.eb: Parsing easyconfig file failed: invalid syntax (<string>, line 32)'

======================================================================
ERROR: test_pr_sha256_checksums (test.easyconfigs.easyconfigs.EasyConfigTest)
Make sure changed easyconfigs have SHA256 checksums in place.
----------------------------------------------------------------------
Traceback (most recent call last):
  File "test/easyconfigs/easyconfigs.py", line 933, in test_pr_sha256_checksums
    for ec in self.changed_ecs:
  File "test/easyconfigs/easyconfigs.py", line 296, in changed_ecs
    self._get_changed_easyconfigs()
  File "test/easyconfigs/easyconfigs.py", line 234, in _get_changed_easyconfigs
    for ec in self.parsed_easyconfigs:
  File "test/easyconfigs/easyconfigs.py", line 271, in parsed_easyconfigs
    EasyConfigTest.parse_all_easyconfigs()
  File "test/easyconfigs/easyconfigs.py", line 202, in parse_all_easyconfigs
    cls._parsed_easyconfigs.extend(process_easyconfig(spec))
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/framework/easyconfig/easyconfig.py", line 2071, in process_easyconfig
    raise EasyBuildError("Failed to process easyconfig %s: %s", spec, err.msg)
EasyBuildError: 'Failed to process easyconfig /home/runner/work/easybuild-easyconfigs/easybuild-easyconfigs/easybuild/easyconfigs/l/libwebp/libwebp-1.2.4-GCCcore-11.3.0.eb: Parsing easyconfig file failed: invalid syntax (<string>, line 32)'

======================================================================
ERROR: test_r_libs_site_env_var (test.easyconfigs.easyconfigs.EasyConfigTest)
Make sure $R_LIBS_SITE is being updated, rather than $R_LIBS.
----------------------------------------------------------------------
Traceback (most recent call last):
  File "test/easyconfigs/easyconfigs.py", line 887, in test_r_libs_site_env_var
    for ec in self.parsed_easyconfigs:
  File "test/easyconfigs/easyconfigs.py", line 271, in parsed_easyconfigs
    EasyConfigTest.parse_all_easyconfigs()
  File "test/easyconfigs/easyconfigs.py", line 202, in parse_all_easyconfigs
    cls._parsed_easyconfigs.extend(process_easyconfig(spec))
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/framework/easyconfig/easyconfig.py", line 2071, in process_easyconfig
    raise EasyBuildError("Failed to process easyconfig %s: %s", spec, err.msg)
EasyBuildError: 'Failed to process easyconfig /home/runner/work/easybuild-easyconfigs/easybuild-easyconfigs/easybuild/easyconfigs/l/libwebp/libwebp-1.2.4-GCCcore-11.3.0.eb: Parsing easyconfig file failed: invalid syntax (<string>, line 32)'

======================================================================
ERROR: test_sanity_check_paths (test.easyconfigs.easyconfigs.EasyConfigTest)
Make sure specified sanity check paths adher to the requirements.
----------------------------------------------------------------------
Traceback (most recent call last):
  File "test/easyconfigs/easyconfigs.py", line 871, in test_sanity_check_paths
    for ec in self.parsed_easyconfigs:
  File "test/easyconfigs/easyconfigs.py", line 271, in parsed_easyconfigs
    EasyConfigTest.parse_all_easyconfigs()
  File "test/easyconfigs/easyconfigs.py", line 202, in parse_all_easyconfigs
    cls._parsed_easyconfigs.extend(process_easyconfig(spec))
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/framework/easyconfig/easyconfig.py", line 2071, in process_easyconfig
    raise EasyBuildError("Failed to process easyconfig %s: %s", spec, err.msg)
EasyBuildError: 'Failed to process easyconfig /home/runner/work/easybuild-easyconfigs/easybuild-easyconfigs/easybuild/easyconfigs/l/libwebp/libwebp-1.2.4-GCCcore-11.3.0.eb: Parsing easyconfig file failed: invalid syntax (<string>, line 32)'

----------------------------------------------------------------------
Ran 15369 tests in 486.979s

FAILED (errors=11)
ERROR: Not all tests were successful

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casparvl · 2022-09-30T10:22:46Z

In the conf-call of https://github.com/easybuilders/easybuild/wiki/Conference-call-notes-20220928 we discussed the FFmpeg version to use in 2022a. The decision was to stick with 4.4.2. Main reasons are to maintain compatibility with the version used in Paraview (which is not yet compatible with 5.X) and to avoid running into other software in the future that would need 4.4.2 (which would create more incompatible modules in the 2022a toolchain). Once 5.X is matured a bit, we can make the jump there in a subsequent toolchain.

@robogast Could you change the FFmpeg version used in this PR?

This reverts commit 2f0c9a0.

robogast · 2022-10-04T09:55:55Z

@casparvl done

casparvl · 2022-10-05T14:59:16Z

@boegelbot please test @ generoso

boegelbot · 2022-10-05T15:00:10Z

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

PR test command 'EB_PR=16276 EB_ARGS= /opt/software/slurm/bin/sbatch --job-name test_PR_16276 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

exit code: 0
output:

Submitted batch job 9242

Test results coming soon (I hope)...

Details

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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).

robogast · 2022-10-13T12:19:23Z

Test report by @robogast
FAILED
Build succeeded for 4 out of 5 (5 easyconfigs in total)
gcn2 - Linux RHEL 8.4, x86_64, Intel(R) Xeon(R) Platinum 8360Y CPU @ 2.40GHz, 4 x NVIDIA NVIDIA A100-SXM4-40GB, 515.43.04, Python 3.6.8
See https://gist.github.com/de29bdb3d0b01a38df418938022e859a for a full test report.

casparvl · 2022-10-13T13:12:47Z

Just checked with my colleague @robogast , the failure in OpenCV was due to the optarch we use on our system - the OpenCV EasyBlock doesn't support anything other than 'host' or 'generic' optimization by default (see here). We'll rerun the test with an optarch that does pass :)

casparvl · 2022-10-13T13:14:47Z

@boegelbot please test @ generoso

boegelbot · 2022-10-13T13:15:19Z

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

PR test command 'EB_PR=16276 EB_ARGS= /opt/software/slurm/bin/sbatch --job-name test_PR_16276 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

exit code: 0
output:

Submitted batch job 9272

Test results coming soon (I hope)...

Details

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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 · 2022-10-13T13:18:39Z

Test report by @boegelbot
FAILED
Build succeeded for 2 out of 5 (5 easyconfigs in total)
cns2 - Linux Rocky Linux 8.5, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/7e47ce14f05ed263ccea0a051967350f for a full test report.

easybuild/easyconfigs/i/Imath/Imath-3.1.5-GCCcore-11.3.0.eb

… checksums accordingly

casparvl · 2022-10-14T14:21:24Z

@boegelbot please test @ generoso

boegelbot · 2022-10-14T14:25:14Z

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

PR test command 'EB_PR=16276 EB_ARGS= /opt/software/slurm/bin/sbatch --job-name test_PR_16276 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

exit code: 0
output:

Submitted batch job 9285

Test results coming soon (I hope)...

Details

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easybuild/easyconfigs/o/OpenCV/OpenCV-4.6.0-foss-2022a-contrib.eb

casparvl · 2022-10-14T14:52:00Z

Test report by @casparvl
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in total)
software1.lisa.surfsara.nl - Linux debian 10.13, x86_64, Intel(R) Xeon(R) Silver 4110 CPU @ 2.10GHz, Python 3.7.3
See https://gist.github.com/bdac2593b362312d186cc1a35981d50d for a full test report.

boegelbot · 2022-10-14T15:10:20Z

Test report by @boegelbot
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in total)
cns3 - Linux Rocky Linux 8.5, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/a93ae7ab9793615575ebec08b51c0a08 for a full test report.

casparvl · 2022-10-14T15:12:14Z

Test report by @casparvl
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in total)
tcn1.local.snellius.surf.nl - Linux RHEL 8.4, x86_64, AMD EPYC 7H12 64-Core Processor, Python 3.6.8
See https://gist.github.com/1a9c717022a5117ce2c40c0e33856f08 for a full test report.

casparvl · 2022-10-14T15:19:34Z

Test report by @casparvl
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in total)
software1.lisa.surfsara.nl - Linux debian 10.13, x86_64, Intel(R) Xeon(R) Silver 4110 CPU @ 2.10GHz, Python 3.7.3
See https://gist.github.com/2d36869f3d63bfc7b5f8b86a5328838a for a full test report.

Micket

lgtm

casparvl · 2022-10-14T15:51:28Z

Test report by @casparvl
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in total)
software1.lisa.surfsara.nl - Linux debian 10.13, x86_64, Intel(R) Xeon(R) Silver 4110 CPU @ 2.10GHz, Python 3.7.3
See https://gist.github.com/dd1784682941a9e2f005bf245f51f1e5 for a full test report.

casparvl

Lgtm!

casparvl · 2022-10-14T16:00:39Z

Going in, thanks @robogast!

Micket · 2022-10-14T16:08:50Z

Test report by @Micket
SUCCESS
Build succeeded for 16 out of 16 (5 easyconfigs in total)
vera-c2 - Linux Rocky Linux 8.5, x86_64, Intel Xeon Processor (Skylake), Python 3.6.8
See https://gist.github.com/3152184dcd4397e2b001c427da921e77 for a full test report.

branfosj · 2022-10-27T11:34:43Z

@boegelbot please test @ jsc-zen2
EB_ARGS='--optarch="" OpenCV-4.6.0-foss-2022a-contrib.eb'

boegelbot · 2022-10-27T11:37:08Z

@branfosj: Request for testing this PR well received on jsczen2l1.int.jsc-zen2.easybuild-test.cluster

PR test command 'EB_PR=16276 EB_ARGS="--optarch="" OpenCV-4.6.0-foss-2022a-contrib.eb" /opt/software/slurm/bin/sbatch --job-name test_PR_16276 --ntasks=8 ~/boegelbot/eb_from_pr_upload_jsc-zen2.sh' executed!

exit code: 0
output:

Submitted batch job 1735

Test results coming soon (I hope)...

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boegelbot · 2022-10-27T11:50:43Z

Test report by @boegelbot
SUCCESS
Build succeeded for 1 out of 1 (1 easyconfigs in total)
jsczen2c1.int.jsc-zen2.easybuild-test.cluster - Linux Rocky Linux 8.5, x86_64, AMD EPYC 7742 64-Core Processor (zen2), Python 3.6.8
See https://gist.github.com/fceac11496b356e961200324079b2253 for a full test report.

paulmelis · 2022-11-24T12:53:51Z

Only seeing this now:

However, #15938, which was merged recently, uses an older FFmpeg, specifically because ParaView was #15938 (comment) with FFmpeg 5.0.1. My proposal is that we put this exception in the CI and stick with 5.0.1 as the main version for FFmpeg in this toolchain. I've never done this before though, I think it requires a framework change, right?

There seems to be a patch available to get ParaView to compile with FFmpeg 5.x, see https://gitlab.kitware.com/vtk/vtk/-/merge_requests/8863.patch. At least, that's the one that is used (plus a few unrelated ones) to build the Arch package for ParaView 5.10.1 against FFmpeg 5.1.2.

robogast added 4 commits September 21, 2022 12:45

adding easyconfigs: OpenEXR-3.1.5-GCCcore-11.3.0.eb, libwebp-1.2.4-GC…

c65d481

…Ccore-11.3.0.eb, OpenCV-4.6.0-foss-2022a-contrib.eb

injected checksums, removed OpenCV CPU_BASELINE configopt

d9fbc97

Downgraded OpenCV deps FFMpeg, HDF5, Java

184d5dd

Re-pinned OpenCV FFmpeg to v5.0.1

0d386aa

Added exception for FFmpeg versions for Paraview and OpenFOAM

2f0c9a0

casparvl added the update label Sep 23, 2022

casparvl added this to the next release (4.6.2?) milestone Sep 23, 2022

robogast added 2 commits September 23, 2022 13:26

re-added some nice templates from OpenCV/2021b easyconfig

ad6224a

re-added templates to OpenEXR, libwebp ec's

a873082

casparvl mentioned this pull request Sep 26, 2022

{devel}[foss/2022a] PyTorch v1.12.0 w/ Python 3.10.4 + CUDA 11.7.0 #15924

Merged

4 tasks

robogast added 3 commits September 26, 2022 12:09

fixed ec for python2.7 syntax

97b52ba

moved temp variables to single letters again

228df40

W503 fix

8e905ed

robogast mentioned this pull request Sep 28, 2022

{data,vis}[GCCcore/11.3.0] ASAP v2.1, DCMTK v3.6.7 ... w/ Python 3.10.4 #16326

Merged

1 task

robogast added 2 commits September 29, 2022 16:27

OpenEXR updated: Imath detached, zlib added

3e4ecf1

OpenEXR updated: removed stray configopt

459784b

robogast added 2 commits October 4, 2022 10:50

Revert "Added exception for FFmpeg versions for Paraview and OpenFOAM"

48ef1a4

This reverts commit 2f0c9a0.

OpenCV FFMpeg back to 4.4.2

9063cfb

casparvl requested changes Oct 13, 2022

View reviewed changes

easybuild/easyconfigs/i/Imath/Imath-3.1.5-GCCcore-11.3.0.eb Outdated Show resolved Hide resolved

Added download link to the tarbal instead of clone. Also, updated the…

0d40c7e

… checksums accordingly

Micket requested changes Oct 14, 2022

View reviewed changes

easybuild/easyconfigs/o/OpenCV/OpenCV-4.6.0-foss-2022a-contrib.eb Outdated Show resolved Hide resolved

Replace True by System for the system toolchain

fd422dd

casparvl previously approved these changes Oct 14, 2022

View reviewed changes

Now also change True to SYSTEM for ant...

8b779b2

casparvl dismissed their stale review via 8b779b2 October 14, 2022 15:23

Micket approved these changes Oct 14, 2022

View reviewed changes

casparvl approved these changes Oct 14, 2022

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casparvl merged commit f1b930b into easybuilders:develop Oct 14, 2022

easybuilders deleted a comment from boegelbot Oct 19, 2022

branfosj mentioned this pull request Oct 27, 2022

{devel,bio}[GCC/11.3.0,foss/2022a] CTPL v0.0.2, Xmipp v3.22.07-Helios w/ Python 3.10.4 #16498

Merged

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robogast commented Sep 21, 2022

Uh oh!

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paulmelis commented Nov 24, 2022

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casparvl commented Sep 30, 2022 •

edited

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