add pre_prepare hook for Pytorch which solves executable stack errors by bedroge · Pull Request #172 · EESSI/software-layer-scripts

bedroge · 2026-03-06T09:21:54Z

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bedroge · 2026-03-06T09:24:03Z

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

eessi-bot-aws-eu-south · 2026-03-06T09:24:15Z

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_172/82

date	job status	comment
Mar 06 09:24:13 UTC 2026	submitted	job id `82` awaits release by job manager
Mar 06 09:24:25 UTC 2026	released	job awaits launch by Slurm scheduler
Mar 06 09:25:33 UTC 2026	running	job `82` is running
Mar 06 09:27:52 UTC 2026	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-82.out` ✅ no message matching `FATAL:` ✅ no message matching `ERROR:` ✅ no message matching `FAILED:` ✅ no 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-zen5-17727891290.tar.zst` size: 0 MiB (26612 bytes) entries: 1 modules under 2025.06/software/linux/x86_64/amd/zen5/modules/all no module files in tarball software under 2025.06/software/linux/x86_64/amd/zen5/software no software packages in tarball reprod directories under 2025.06/software/linux/x86_64/amd/zen5/reprod no reprod directories in tarball other under 2025.06/software/linux/x86_64/amd/zen5 `2025.06/init/easybuild/eb_hooks.py`
Mar 06 09:27:52 UTC 2026	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ OK ] (1/4) 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: 1.26 us (r:0, l:None, u:None) [ OK ] (2/4) 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: 2.91 us (r:0, l:None, u:None) [ OK ] (3/4) 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: 0.2 us (r:0, l:None, u:None) [ OK ] (4/4) 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: 46387.82 MB/s (r:0, l:None, u:None) [ PASSED ] Ran 4/4 test case(s) from 4 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-82.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

bedroge · 2026-03-06T09:27:12Z

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

eessi-bot-aws-eu-south · 2026-03-06T09:27:20Z

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_172/83

date	job status	comment
Mar 06 09:27:17 UTC 2026	submitted	job id `83` awaits release by job manager
Mar 06 09:27:46 UTC 2026	released	job awaits launch by Slurm scheduler
Mar 06 09:28:57 UTC 2026	running	job `83` is running
Mar 06 09:33:21 UTC 2026	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-83.out` ✅ no message matching `FATAL:` ❌ found message matching `ERROR:` ✅ no message matching `FAILED:` ❌ found message matching `required modules missing:` ❌ no message matching `No missing installations` ✅ found message matching `.tar.* created!` Artefacts `eessi-2025.06-software-linux-x86_64-amd-zen5-17727894550.tar.zst` size: 5 MiB (5295006 bytes) entries: 1121 modules under 2025.06/software/linux/x86_64/amd/zen5/modules/all `setuptools/80.9.0-GCCcore-13.3.0.lua` `tlparse/0.4.0-GCCcore-13.3.0.lua` software under 2025.06/software/linux/x86_64/amd/zen5/software `setuptools/80.9.0-GCCcore-13.3.0` `tlparse/0.4.0-GCCcore-13.3.0` reprod directories under 2025.06/software/linux/x86_64/amd/zen5/reprod `setuptools/80.9.0-GCCcore-13.3.0/20260306_092937UTC` `tlparse/0.4.0-GCCcore-13.3.0/20260306_093026UTC` other under 2025.06/software/linux/x86_64/amd/zen5 `2025.06/init/easybuild/eb_hooks.py`
Mar 06 09:33:21 UTC 2026	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ OK ] (1/4) 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: 1.27 us (r:0, l:None, u:None) [ OK ] (2/4) 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: 2.91 us (r:0, l:None, u:None) [ OK ] (3/4) 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: 0.16 us (r:0, l:None, u:None) [ OK ] (4/4) 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: 46375.29 MB/s (r:0, l:None, u:None) [ PASSED ] Ran 4/4 test case(s) from 4 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-83.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

bedroge · 2026-03-06T09:32:35Z

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

eessi-bot-aws-eu-south · 2026-03-06T09:32:43Z

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_172/84

date	job status	comment
Mar 06 09:32:41 UTC 2026	submitted	job id `84` awaits release by job manager
Mar 06 09:33:17 UTC 2026	released	job awaits launch by Slurm scheduler
Mar 06 09:34:26 UTC 2026	running	job `84` is running
Mar 06 09:37:39 UTC 2026	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-84.out` ✅ no message matching `FATAL:` ❌ found message matching `ERROR:` ✅ no message matching `FAILED:` ❌ found message matching `required modules missing:` ❌ no message matching `No missing installations` ✅ found message matching `.tar.* created!` Artefacts `eessi-2025.06-software-linux-x86_64-amd-zen5-17727897650.tar.zst` size: 5 MiB (5291170 bytes) entries: 1121 modules under 2025.06/software/linux/x86_64/amd/zen5/modules/all `setuptools/80.9.0-GCCcore-13.3.0.lua` `tlparse/0.4.0-GCCcore-13.3.0.lua` software under 2025.06/software/linux/x86_64/amd/zen5/software `setuptools/80.9.0-GCCcore-13.3.0` `tlparse/0.4.0-GCCcore-13.3.0` reprod directories under 2025.06/software/linux/x86_64/amd/zen5/reprod `setuptools/80.9.0-GCCcore-13.3.0/20260306_093505UTC` `tlparse/0.4.0-GCCcore-13.3.0/20260306_093545UTC` other under 2025.06/software/linux/x86_64/amd/zen5 `2025.06/init/easybuild/eb_hooks.py`
Mar 06 09:37:39 UTC 2026	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ OK ] (1/4) 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 ] (2/4) 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 ] (3/4) 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: 0.19 us (r:0, l:None, u:None) [ OK ] (4/4) 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: 44563.13 MB/s (r:0, l:None, u:None) [ PASSED ] Ran 4/4 test case(s) from 4 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-84.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

bedroge · 2026-03-06T09:38:18Z

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

eessi-bot-aws-eu-south · 2026-03-06T09:38:26Z

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_172/85

date	job status	comment
Mar 06 09:38:24 UTC 2026	submitted	job id `85` awaits release by job manager
Mar 06 09:38:44 UTC 2026	released	job awaits launch by Slurm scheduler
Mar 06 09:39:49 UTC 2026	running	job `85` is running

bedroge · 2026-03-06T16:16:39Z

Meanwhile I'm doing another interactive build with LDFLAGS="-Wl,-z,noexecstack" (see conda-forge/pytorch-cpu-feedstock#355). If that works too, it's probably a better solution.

bedroge added 2 commits March 6, 2026 10:21

add hook that solves PyTorch executable stack errors

d21f92e

easystack for testing

324fab8

fix easystack file extension

8606933

self.eessi_version -> eessi_version

919f2fe

fix environment variable

fdca9e9

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add pre_prepare hook for Pytorch which solves executable stack errors#172

add pre_prepare hook for Pytorch which solves executable stack errors#172
bedroge wants to merge 5 commits intoEESSI:mainfrom
bedroge:pytorch_glibc241_execstack

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