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{2025.06} Zen5 easystacks 030 (remaining part) - 032#1429

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{2025.06} Zen5 easystacks 030 (remaining part) - 032#1429
bedroge wants to merge 2 commits intoEESSI:mainfrom
bedroge:zen5_30-32

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@bedroge bedroge commented Mar 1, 2026

The issue with GDAL (see #1428) was due to a rebuild of EasyBuild, which revealed an issue with the GDAL easyconfig, and which was then solved in easybuilders/easybuild-easyconfigs#24883. For the other targets, GDAL was built with the unpatched EB.

@bedroge bedroge added 2025.06-software.eessi.io 2025.06 version of software.eessi.io zen5 labels Mar 1, 2026
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bedroge commented Mar 1, 2026

bot: build repo:eessi.io-2025.06-software instance:eessi-bot-aws-eu-south for:arch=x86_64/amd/zen5

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eessi-bot-aws-eu-south bot commented Mar 1, 2026 •
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New job on instance eessi-bot-aws-eu-south for repository eessi.io-2025.06-software
Building on: amd-zen5
Building for: x86_64/amd/zen5
Job dir: /project/def-users/SHARED/jobs/2026.03/pr_1429/58

date job status comment
Mar 01 08:40:45 UTC 2026 submitted job id 58 awaits release by job manager
Mar 01 08:41:13 UTC 2026 released job awaits launch by Slurm scheduler
Mar 01 08:46:16 UTC 2026 running job 58 is running
Mar 01 12:57:42 UTC 2026 finished
😢 FAILURE (click triangle for details)
Details
✅ job output file slurm-58.out
✅ no message matching FATAL:
❌ found message matching ERROR:
❌ found message matching FAILED:
❌ found message matching required modules missing:
✅ found message(s) matching No missing installations
✅ found message matching .tar.* created!
Artefacts
eessi-2025.06-software-linux-x86_64-amd-zen5-17723696090.tar.zstsize: 2879 MiB (3019759098 bytes)
entries: 92678
modules under 2025.06/software/linux/x86_64/amd/zen5/modules/all
ant/1.10.12-Java-17.lua
Arrow/17.0.0-gfbf-2024a.lua
arrow-R/17.0.0.1-foss-2024a-R-4.4.2.lua
beagle-lib/4.0.1-GCC-14.2.0.lua
CoinUtils/2.11.12-GCC-13.3.0.lua
expecttest/0.2.1-GCCcore-13.3.0.lua
FLAC/1.4.3-GCCcore-13.3.0.lua
Flye/2.9.5-GCC-13.3.0.lua
Flye/2.9.6-GCC-14.2.0.lua
GDAL/3.10.0-foss-2024a.lua
GLPK/5.0-GCCcore-13.3.0.lua
gmpy2/2.2.0-GCCcore-13.3.0.lua
GROMACS/2025.2-foss-2025a.lua
Java/21.0.8.lua
Java/.modulerc.lua
libogg/1.3.5-GCCcore-13.3.0.lua
libopus/1.5.2-GCCcore-13.3.0.lua
libsndfile/1.2.2-GCCcore-13.3.0.lua
libvorbis/1.3.7-GCCcore-13.3.0.lua
libxslt/1.1.42-GCCcore-13.3.0.lua
libyaml/0.2.5-GCCcore-13.3.0.lua
lxml/5.3.0-GCCcore-13.3.0.lua
METIS/5.1.0-GCCcore-13.3.0.lua
MPC/1.3.1-GCCcore-13.3.0.lua
MPFR/4.2.1-GCCcore-13.3.0.lua
mpi4py/4.1.0-gompi-2025a.lua
MrBayes/3.2.7-gompi-2025a.lua
nettle/3.10-GCCcore-13.3.0.lua
networkx/3.4.2-gfbf-2024a.lua
networkx/3.5-gfbf-2025a.lua
optree/0.14.1-GCCcore-13.3.0.lua
parameterized/0.9.0-GCCcore-13.3.0.lua
PostgreSQL/16.4-GCCcore-13.3.0.lua
pytest-flakefinder/1.1.0-GCCcore-13.3.0.lua
pytest-rerunfailures/15.0-GCCcore-13.3.0.lua
pytest-shard/0.1.2-GCCcore-13.3.0.lua
pytest-subtests/0.13.1-GCCcore-13.3.0.lua
PyYAML/6.0.2-GCCcore-13.3.0.lua
RapidJSON/1.1.0-20240815-GCCcore-13.3.0.lua
R-bundle-CRAN/2024.11-foss-2024a.lua
RStudio-Server/2024.12.0+467-foss-2024a-R-4.4.2.lua
SCOTCH/7.0.6-gompi-2024a.lua
SOCI/4.0.3-GCC-13.3.0.lua
sympy/1.13.3-gfbf-2024a.lua
tlparse/0.3.37-GCCcore-13.3.0.lua
unittest-xml-reporting/3.1.0-GCCcore-13.3.0.lua
utf8proc/2.9.0-GCCcore-13.3.0.lua
Xvfb/21.1.14-GCCcore-13.3.0.lua
yaml-cpp/0.8.0-GCCcore-13.3.0.lua
Z3/4.13.0-GCCcore-13.3.0.lua
software under 2025.06/software/linux/x86_64/amd/zen5/software
ant/1.10.12-Java-17
Arrow/17.0.0-gfbf-2024a
arrow-R/17.0.0.1-foss-2024a-R-4.4.2
beagle-lib/4.0.1-GCC-14.2.0
CoinUtils/2.11.12-GCC-13.3.0
expecttest/0.2.1-GCCcore-13.3.0
FLAC/1.4.3-GCCcore-13.3.0
Flye/2.9.5-GCC-13.3.0
Flye/2.9.6-GCC-14.2.0
GDAL/3.10.0-foss-2024a
GLPK/5.0-GCCcore-13.3.0
gmpy2/2.2.0-GCCcore-13.3.0
GROMACS/2025.2-foss-2025a
Java/21.0.8
libogg/1.3.5-GCCcore-13.3.0
libopus/1.5.2-GCCcore-13.3.0
libsndfile/1.2.2-GCCcore-13.3.0
libvorbis/1.3.7-GCCcore-13.3.0
libxslt/1.1.42-GCCcore-13.3.0
libyaml/0.2.5-GCCcore-13.3.0
lxml/5.3.0-GCCcore-13.3.0
METIS/5.1.0-GCCcore-13.3.0
MPC/1.3.1-GCCcore-13.3.0
MPFR/4.2.1-GCCcore-13.3.0
mpi4py/4.1.0-gompi-2025a
MrBayes/3.2.7-gompi-2025a
nettle/3.10-GCCcore-13.3.0
networkx/3.4.2-gfbf-2024a
networkx/3.5-gfbf-2025a
optree/0.14.1-GCCcore-13.3.0
parameterized/0.9.0-GCCcore-13.3.0
PostgreSQL/16.4-GCCcore-13.3.0
pytest-flakefinder/1.1.0-GCCcore-13.3.0
pytest-rerunfailures/15.0-GCCcore-13.3.0
pytest-shard/0.1.2-GCCcore-13.3.0
pytest-subtests/0.13.1-GCCcore-13.3.0
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RapidJSON/1.1.0-20240815-GCCcore-13.3.0
R-bundle-CRAN/2024.11-foss-2024a
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SCOTCH/7.0.6-gompi-2024a
SOCI/4.0.3-GCC-13.3.0
sympy/1.13.3-gfbf-2024a
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Xvfb/21.1.14-GCCcore-13.3.0
yaml-cpp/0.8.0-GCCcore-13.3.0
Z3/4.13.0-GCCcore-13.3.0
reprod directories under 2025.06/software/linux/x86_64/amd/zen5/reprod
ant/1.10.12-Java-17/20260301_112612UTC
Arrow/17.0.0-gfbf-2024a/20260301_123015UTC
arrow-R/17.0.0.1-foss-2024a-R-4.4.2/20260301_123239UTC
beagle-lib/4.0.1-GCC-14.2.0/20260301_121348UTC
CoinUtils/2.11.12-GCC-13.3.0/20260301_125027UTC
expecttest/0.2.1-GCCcore-13.3.0/20260301_121845UTC
FLAC/1.4.3-GCCcore-13.3.0/20260301_091724UTC
Flye/2.9.5-GCC-13.3.0/20260301_112608UTC
Flye/2.9.6-GCC-14.2.0/20260301_121251UTC
GDAL/3.10.0-foss-2024a/20260301_090416UTC
GLPK/5.0-GCCcore-13.3.0/20260301_090941UTC
gmpy2/2.2.0-GCCcore-13.3.0/20260301_122306UTC
GROMACS/2025.2-foss-2025a/20260301_121200UTC
Java/21.0.8/20260301_121325UTC
libogg/1.3.5-GCCcore-13.3.0/20260301_091651UTC
libopus/1.5.2-GCCcore-13.3.0/20260301_091804UTC
libsndfile/1.2.2-GCCcore-13.3.0/20260301_091912UTC
libvorbis/1.3.7-GCCcore-13.3.0/20260301_091739UTC
libxslt/1.1.42-GCCcore-13.3.0/20260301_090916UTC
libyaml/0.2.5-GCCcore-13.3.0/20260301_121801UTC
lxml/5.3.0-GCCcore-13.3.0/20260301_121703UTC
METIS/5.1.0-GCCcore-13.3.0/20260301_124954UTC
MPC/1.3.1-GCCcore-13.3.0/20260301_122253UTC
MPFR/4.2.1-GCCcore-13.3.0/20260301_090709UTC
mpi4py/4.1.0-gompi-2025a/20260301_113930UTC
MrBayes/3.2.7-gompi-2025a/20260301_121421UTC
nettle/3.10-GCCcore-13.3.0/20260301_091006UTC
networkx/3.4.2-gfbf-2024a/20260301_121856UTC
networkx/3.5-gfbf-2025a/20260301_113800UTC
optree/0.14.1-GCCcore-13.3.0/20260301_121447UTC
parameterized/0.9.0-GCCcore-13.3.0/20260301_121428UTC
PostgreSQL/16.4-GCCcore-13.3.0/20260301_091639UTC
pytest-flakefinder/1.1.0-GCCcore-13.3.0/20260301_121750UTC
pytest-rerunfailures/15.0-GCCcore-13.3.0/20260301_121728UTC
pytest-shard/0.1.2-GCCcore-13.3.0/20260301_121735UTC
pytest-subtests/0.13.1-GCCcore-13.3.0/20260301_121743UTC
PyYAML/6.0.2-GCCcore-13.3.0/20260301_121834UTC
RapidJSON/1.1.0-20240815-GCCcore-13.3.0/20260301_121811UTC
R-bundle-CRAN/2024.11-foss-2024a/20260301_112453UTC
RStudio-Server/2024.12.0+467-foss-2024a-R-4.4.2/20260301_113710UTC
SCOTCH/7.0.6-gompi-2024a/20260301_125202UTC
SOCI/4.0.3-GCC-13.3.0/20260301_112642UTC
sympy/1.13.3-gfbf-2024a/20260301_124935UTC
tlparse/0.3.37-GCCcore-13.3.0/20260301_121532UTC
unittest-xml-reporting/3.1.0-GCCcore-13.3.0/20260301_121710UTC
utf8proc/2.9.0-GCCcore-13.3.0/20260301_121819UTC
Xvfb/21.1.14-GCCcore-13.3.0/20260301_091452UTC
yaml-cpp/0.8.0-GCCcore-13.3.0/20260301_112650UTC
Z3/4.13.0-GCCcore-13.3.0/20260301_122134UTC
other under 2025.06/software/linux/x86_64/amd/zen5
no other files in tarball
Mar 01 12:57:42 UTC 2026 test result
😁 SUCCESS (click triangle for details)
ReFrame Summary
[ OK ] (1/5) EESSI_GROMACS %benchmark_info=HECBioSim/Crambin %nb_impl=cpu %scale=1_node %module_name=GROMACS/2025.2-foss-2025a /2dc0ad8e @BotBuildTests:x86-64-zen5+default
P: perf: 226.59 ns/day (r:0, l:None, u:None)
[ OK ] (2/5) EESSI_OSU_coll %benchmark_info=mpi.collective.osu_allreduce %module_name=OSU-Micro-Benchmarks/7.5-gompi-2025a %scale=1_node %device_type=cpu /e4bf9965 @BotBuildTests:x86-64-zen5+default
P: latency: 1.28 us (r:0, l:None, u:None)
[ OK ] (3/5) EESSI_OSU_coll %benchmark_info=mpi.collective.osu_alltoall %module_name=OSU-Micro-Benchmarks/7.5-gompi-2025a %scale=1_node %device_type=cpu /3da4890b @BotBuildTests:x86-64-zen5+default
P: latency: 2.88 us (r:0, l:None, u:None)
[ OK ] (4/5) EESSI_OSU_pt2pt_CPU %benchmark_info=mpi.pt2pt.osu_latency %module_name=OSU-Micro-Benchmarks/7.5-gompi-2025a %scale=1_node /3255009a @BotBuildTests:x86-64-zen5+default
P: latency: 0.18 us (r:0, l:None, u:None)
[ OK ] (5/5) EESSI_OSU_pt2pt_CPU %benchmark_info=mpi.pt2pt.osu_bw %module_name=OSU-Micro-Benchmarks/7.5-gompi-2025a %scale=1_node /59f4b331 @BotBuildTests:x86-64-zen5+default
P: bandwidth: 58863.37 MB/s (r:0, l:None, u:None)
[ PASSED ] Ran 5/5 test case(s) from 5 check(s) (0 failure(s), 0 skipped, 0 aborted)
Details
✅ job output file slurm-58.out
❌ found message matching ERROR:
✅ no message matching [\s*FAILED\s*].*Ran .* test case

@bedroge
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bedroge commented Mar 1, 2026

This error again, now for PostgreSQL:

gcc: fatal error: cannot execute ‘as’: execvp: No such file or directory

It happened before for another package, and then another attempt worked just fine...

@bedroge
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bedroge commented Mar 1, 2026

bot: build repo:eessi.io-2025.06-software instance:eessi-bot-aws-eu-south for:arch=x86_64/amd/zen5

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eessi-bot-aws-eu-south bot commented Mar 1, 2026 •
edited
Loading

New job on instance eessi-bot-aws-eu-south for repository eessi.io-2025.06-software
Building on: amd-zen5
Building for: x86_64/amd/zen5
Job dir: /project/def-users/SHARED/jobs/2026.03/pr_1429/59

date job status comment
Mar 01 21:53:26 UTC 2026 submitted job id 59 awaits release by job manager
Mar 01 21:54:24 UTC 2026 released job awaits launch by Slurm scheduler
Mar 01 22:00:27 UTC 2026 running job 59 is running

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