[2023.06]{2023a} R-bundle-Bioconductor v3.18 #533

bedroge · 2024-04-05T09:55:55Z

5 out of 156 required modules missing:

* RapidJSON/1.1.0-20230928-GCCcore-12.3.0 (RapidJSON-1.1.0-20230928-GCCcore-12.3.0.eb)
* utf8proc/2.8.0-GCCcore-12.3.0 (utf8proc-2.8.0-GCCcore-12.3.0.eb)
* Arrow/14.0.1-gfbf-2023a (Arrow-14.0.1-gfbf-2023a.eb)
* arrow-R/14.0.1-foss-2023a-R-4.3.2 (arrow-R-14.0.1-foss-2023a-R-4.3.2.eb)
* R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2 (R-bundle-Bioconductor-3.18-foss-2023a-R-4.3.2.eb)

eessi-bot · 2024-04-05T09:55:57Z

Instance eessi-bot-mc-aws is configured to build:

arch x86_64/generic for repo eessi-hpc.org-2023.06-compat
arch x86_64/generic for repo eessi-hpc.org-2023.06-software
arch x86_64/generic for repo eessi.io-2023.06-compat
arch x86_64/generic for repo eessi.io-2023.06-software
arch x86_64/intel/haswell for repo eessi-hpc.org-2023.06-compat
arch x86_64/intel/haswell for repo eessi-hpc.org-2023.06-software
arch x86_64/intel/haswell for repo eessi.io-2023.06-compat
arch x86_64/intel/haswell for repo eessi.io-2023.06-software
arch x86_64/intel/skylake_avx512 for repo eessi-hpc.org-2023.06-compat
arch x86_64/intel/skylake_avx512 for repo eessi-hpc.org-2023.06-software
arch x86_64/intel/skylake_avx512 for repo eessi.io-2023.06-compat
arch x86_64/intel/skylake_avx512 for repo eessi.io-2023.06-software
arch x86_64/amd/zen2 for repo eessi-hpc.org-2023.06-compat
arch x86_64/amd/zen2 for repo eessi-hpc.org-2023.06-software
arch x86_64/amd/zen2 for repo eessi.io-2023.06-compat
arch x86_64/amd/zen2 for repo eessi.io-2023.06-software
arch x86_64/amd/zen3 for repo eessi-hpc.org-2023.06-compat
arch x86_64/amd/zen3 for repo eessi-hpc.org-2023.06-software
arch x86_64/amd/zen3 for repo eessi.io-2023.06-compat
arch x86_64/amd/zen3 for repo eessi.io-2023.06-software
arch aarch64/generic for repo eessi-hpc.org-2023.06-compat
arch aarch64/generic for repo eessi-hpc.org-2023.06-software
arch aarch64/generic for repo eessi.io-2023.06-compat
arch aarch64/generic for repo eessi.io-2023.06-software
arch aarch64/neoverse_n1 for repo eessi-hpc.org-2023.06-compat
arch aarch64/neoverse_n1 for repo eessi-hpc.org-2023.06-software
arch aarch64/neoverse_n1 for repo eessi.io-2023.06-compat
arch aarch64/neoverse_n1 for repo eessi.io-2023.06-software
arch aarch64/neoverse_v1 for repo eessi-hpc.org-2023.06-compat
arch aarch64/neoverse_v1 for repo eessi-hpc.org-2023.06-software
arch aarch64/neoverse_v1 for repo eessi.io-2023.06-compat
arch aarch64/neoverse_v1 for repo eessi.io-2023.06-software

bedroge · 2024-04-05T09:56:39Z

bot: build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3

eessi-bot · 2024-04-05T09:56:41Z

Updates by the bot instance eessi-bot-mc-aws (click for details)

received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- submitted job 9092, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)

eessi-bot · 2024-04-05T09:56:45Z

New job on instance eessi-bot-mc-aws for architecture x86_64-amd-zen3 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9092

date	job status	comment
Apr 05 09:56:44 UTC 2024	submitted	job id `9092` awaits release by job manager
Apr 05 09:57:01 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 05 09:58:11 UTC 2024	running	job `9092` is running
Apr 05 10:11:17 UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-9092.out` ❌ found message matching `ERROR:` ✅ no message matching `FAILED:` ❌ found message matching `required modules missing:` ❌ no message matching `No missing installations` ✅ found message matching `.tar.gz created!` Artefacts No artefacts were created or found.
Apr 05 10:11:17 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-9092.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

bedroge · 2024-04-05T11:04:32Z

bot: build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3

eessi-bot · 2024-04-05T11:04:34Z

Updates by the bot instance eessi-bot-mc-aws (click for details)

received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- submitted job 9096, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)

eessi-bot · 2024-04-05T11:04:39Z

New job on instance eessi-bot-mc-aws for architecture x86_64-amd-zen3 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9096

date	job status	comment
Apr 05 11:04:38 UTC 2024	submitted	job id `9096` awaits release by job manager
Apr 05 11:05:03 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 05 11:06:10 UTC 2024	running	job `9096` is running
Apr 05 12:42:04 UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-9096.out` ❌ found message matching `ERROR:` ❌ found message matching `FAILED:` ❌ found message matching `required modules missing:` ❌ no message matching `No missing installations` ✅ found message matching `.tar.gz created!` Artefacts `eessi-2023.06-software-linux-x86_64-amd-zen3-1712319840.tar.gz` size: 68 MiB (72054896 bytes) entries: 1478 modules under 2023.06/software/linux/x86_64/amd/zen3/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.0.2-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/x86_64/amd/zen3/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.0.2-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/x86_64/amd/zen3 no other files in tarball
Apr 05 12:42:04 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-9096.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

bedroge · 2024-04-05T12:10:22Z

bot: build repo:eessi.io-2023.06-software arch:aarch64/generic
bot: build repo:eessi.io-2023.06-software arch:aarch64/neoverse_n1
bot: build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1

eessi-bot · 2024-04-05T12:10:25Z

Updates by the bot instance eessi-bot-mc-aws (click for details)

received bot command build repo:eessi.io-2023.06-software arch:aarch64/generic from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/generic
received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_n1 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_n1
received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1
handling command build repository:eessi.io-2023.06-software architecture:aarch64/generic resulted in:
- submitted job 9097, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_n1 resulted in:
- submitted job 9098, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1 resulted in:
- submitted job 9099, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)

eessi-bot · 2024-04-05T12:10:30Z

New job on instance eessi-bot-mc-aws for architecture aarch64-generic for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9097

date	job status	comment
Apr 05 12:10:29 UTC 2024	submitted	job id `9097` awaits release by job manager
Apr 05 12:10:48 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 05 12:11:55 UTC 2024	running	job `9097` is running
Apr 05 13:11:39 UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-9097.out` ❌ found message matching `ERROR:` ❌ found message matching `FAILED:` ❌ found message matching `required modules missing:` ❌ no message matching `No missing installations` ✅ found message matching `.tar.gz created!` Artefacts `eessi-2023.06-software-linux-aarch64-generic-1712321453.tar.gz` size: 41 MiB (43596242 bytes) entries: 1431 modules under 2023.06/software/linux/aarch64/generic/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/aarch64/generic/software `Arrow/14.0.1-gfbf-2023a` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/aarch64/generic no other files in tarball
Apr 05 13:11:39 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-9097.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

eessi-bot · 2024-04-05T12:10:34Z

New job on instance eessi-bot-mc-aws for architecture aarch64-neoverse_n1 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9098

date	job status	comment
Apr 05 12:10:33 UTC 2024	submitted	job id `9098` awaits release by job manager
Apr 05 12:10:50 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 05 12:11:57 UTC 2024	running	job `9098` is running
Apr 05 13:11:41 UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-9098.out` ❌ found message matching `ERROR:` ❌ found message matching `FAILED:` ❌ found message matching `required modules missing:` ❌ no message matching `No missing installations` ✅ found message matching `.tar.gz created!` Artefacts `eessi-2023.06-software-linux-aarch64-neoverse_n1-1712321484.tar.gz` size: 41 MiB (43635743 bytes) entries: 1431 modules under 2023.06/software/linux/aarch64/neoverse_n1/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/aarch64/neoverse_n1/software `Arrow/14.0.1-gfbf-2023a` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/aarch64/neoverse_n1 no other files in tarball
Apr 05 13:11:41 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-9098.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

eessi-bot · 2024-04-05T12:10:38Z

New job on instance eessi-bot-mc-aws for architecture aarch64-neoverse_v1 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9099

date	job status	comment
Apr 05 12:10:37 UTC 2024	submitted	job id `9099` awaits release by job manager
Apr 05 12:10:51 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 05 12:16:12 UTC 2024	running	job `9099` is running
Apr 05 13:03:23 UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-9099.out` ❌ found message matching `ERROR:` ❌ found message matching `FAILED:` ❌ found message matching `required modules missing:` ❌ no message matching `No missing installations` ✅ found message matching `.tar.gz created!` Artefacts `eessi-2023.06-software-linux-aarch64-neoverse_v1-1712321154.tar.gz` size: 41 MiB (43751512 bytes) entries: 1431 modules under 2023.06/software/linux/aarch64/neoverse_v1/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/aarch64/neoverse_v1/software `Arrow/14.0.1-gfbf-2023a` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/aarch64/neoverse_v1 no other files in tarball
Apr 05 13:03:23 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-9099.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

bedroge · 2024-04-08T11:53:19Z

bot: build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3

eessi-bot · 2024-04-08T11:53:22Z

Updates by the bot instance eessi-bot-mc-aws (click for details)

received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- submitted job 9205, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)

eessi-bot · 2024-04-08T11:53:27Z

New job on instance eessi-bot-mc-aws for architecture x86_64-amd-zen3 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9205

date	job status	comment
Apr 08 11:53:26 UTC 2024	submitted	job id `9205` awaits release by job manager
Apr 08 11:53:35 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 08 11:58:39 UTC 2024	running	job `9205` is running
Apr 08 16:32:31 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-9205.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-x86_64-amd-zen3-1712592593.tar.gz` size: 7257 MiB (7610093850 bytes) entries: 40199 modules under 2023.06/software/linux/x86_64/amd/zen3/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.0.2-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/x86_64/amd/zen3/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.0.2-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/x86_64/amd/zen3 no other files in tarball
Apr 08 16:32:31 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-9205.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

bedroge · 2024-04-08T18:16:53Z

bot: build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1

eessi-bot · 2024-04-08T18:16:55Z

Updates by the bot instance eessi-bot-mc-aws (click for details)

received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1 resulted in:
- submitted job 9216, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)

eessi-bot · 2024-04-08T18:16:59Z

New job on instance eessi-bot-mc-aws for architecture aarch64-neoverse_v1 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9216

date	job status	comment
Apr 08 18:16:58 UTC 2024	submitted	job id `9216` awaits release by job manager
Apr 08 18:17:45 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 08 18:22:49 UTC 2024	running	job `9216` is running
Apr 08 19:09:16 UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-9216.out` ❌ found message matching `ERROR:` ❌ found message matching `FAILED:` ❌ found message matching `required modules missing:` ❌ no message matching `No missing installations` ✅ found message matching `.tar.gz created!` Artefacts `eessi-2023.06-software-linux-aarch64-neoverse_v1-1712602347.tar.gz` size: 41 MiB (43756201 bytes) entries: 1431 modules under 2023.06/software/linux/aarch64/neoverse_v1/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/aarch64/neoverse_v1/software `Arrow/14.0.1-gfbf-2023a` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/aarch64/neoverse_v1 no other files in tarball
Apr 08 19:09:16 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-9216.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

bedroge · 2024-04-08T20:21:48Z

New job on instance eessi-bot-mc-aws for architecture aarch64-neoverse_v1 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9216

date job status comment
Apr 08 18:16:58 UTC 2024 submitted job id 9216 awaits release by job manager
Apr 08 18:17:45 UTC 2024 released job awaits launch by Slurm scheduler
Apr 08 18:22:49 UTC 2024 running job 9216 is running
Apr 08 19:09:16 UTC 2024 finished
😢 FAILURE (click triangle for details)
Apr 08 19:09:16 UTC 2024 test result
😁 SUCCESS (click triangle for details)

Failing in the arrow-R installation:

installing to /cvmfs/software.eessi.io/versions/2023.06/software/linux/aarch64/neoverse_v1/software/arrow-R/14.0.0.2-foss-2023a-R-4.3.2/00LOCK-arrow/00new/arrow/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
Error: package or namespace load failed for arrow in dyn.load(file, DLLpath = DLLpath, ...):
 unable to load shared object '/cvmfs/software.eessi.io/versions/2023.06/software/linux/aarch64/neoverse_v1/software/arrow-R/14.0.0.2-foss-2023a-R-4.3.2/00LOCK-arrow/00new/arrow/libs/arrow.so':
  /cvmfs/software.eessi.io/versions/2023.06/software/linux/aarch64/neoverse_v1/software/arrow-R/14.0.0.2-foss-2023a-R-4.3.2/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined symbol: _ZN4absl12lts_2023012519str_format_internal13FormatArgImpl8DispatchIlEEbNS2_4DataENS1_24FormatConversionSpecImplEPv
Error: loading failed
Execution halted
ERROR: loading failed

bedroge · 2024-04-09T14:52:58Z

Failing in the arrow-R installation:

installing to /cvmfs/software.eessi.io/versions/2023.06/software/linux/aarch64/neoverse_v1/software/arrow-R/14.0.0.2-foss-2023a-R-4.3.2/00LOCK-arrow/00new/arrow/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
Error: package or namespace load failed for arrow in dyn.load(file, DLLpath = DLLpath, ...):
 unable to load shared object '/cvmfs/software.eessi.io/versions/2023.06/software/linux/aarch64/neoverse_v1/software/arrow-R/14.0.0.2-foss-2023a-R-4.3.2/00LOCK-arrow/00new/arrow/libs/arrow.so':
  /cvmfs/software.eessi.io/versions/2023.06/software/linux/aarch64/neoverse_v1/software/arrow-R/14.0.0.2-foss-2023a-R-4.3.2/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined symbol: _ZN4absl12lts_2023012519str_format_internal13FormatArgImpl8DispatchIlEEbNS2_4DataENS1_24FormatConversionSpecImplEPv
Error: loading failed
Execution halted
ERROR: loading failed

easybuilders/easybuild-easyconfigs#20324 should probably fix this.

…-layer into bioconductor-3.18-2023a

bedroge · 2024-04-19T08:31:44Z

bot: build repo:eessi.io-2023.06-software arch:aarch64/generic
bot: build repo:eessi.io-2023.06-software arch:aarch64/neoverse_n1
bot: build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1
bot: build repo:eessi.io-2023.06-software arch:x86_64/generic
bot: build repo:eessi.io-2023.06-software arch:x86_64/amd/zen2
bot: build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3
bot: build repo:eessi.io-2023.06-software arch:x86_64/intel/haswell
bot: build repo:eessi.io-2023.06-software arch:x86_64/intel/skylake_avx512

eessi-bot · 2024-04-19T08:31:46Z

Updates by the bot instance eessi-bot-mc-aws (click for details)

received bot command build repo:eessi.io-2023.06-software arch:aarch64/generic from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/generic
received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_n1 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_n1
received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1
received bot command build repo:eessi.io-2023.06-software arch:x86_64/generic from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/generic
received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen2 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen2
received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
received bot command build repo:eessi.io-2023.06-software arch:x86_64/intel/haswell from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/intel/haswell
received bot command build repo:eessi.io-2023.06-software arch:x86_64/intel/skylake_avx512 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/intel/skylake_avx512
handling command build repository:eessi.io-2023.06-software architecture:aarch64/generic resulted in:
- submitted job 9625, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_n1 resulted in:
- submitted job 9626, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1 resulted in:
- submitted job 9627, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:x86_64/generic resulted in:
- submitted job 9628, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen2 resulted in:
- submitted job 9629, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- submitted job 9630, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:x86_64/intel/haswell resulted in:
- submitted job 9631, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:x86_64/intel/skylake_avx512 resulted in:
- submitted job 9632, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)

eessi-bot · 2024-04-19T08:31:51Z

New job on instance eessi-bot-mc-aws for architecture aarch64-generic for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9625

date	job status	comment
Apr 19 08:31:50 UTC 2024	submitted	job id `9625` awaits release by job manager
Apr 19 08:32:32 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 19 08:37:13 UTC 2024	running	job `9625` is running
Apr 19 09:04:57 UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-9625.out` ❌ found message matching `ERROR:` ❌ found message matching `FAILED:` ❌ found message matching `required modules missing:` ❌ no message matching `No missing installations` ✅ found message matching `.tar.gz created!` Artefacts `eessi-2023.06-software-linux-aarch64-generic-1713516879.tar.gz` size: 0 MiB (453885 bytes) entries: 141 modules under 2023.06/software/linux/aarch64/generic/modules/all `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/aarch64/generic/software `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/aarch64/generic no other files in tarball
Apr 19 09:04:57 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-9625.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

eessi-bot · 2024-04-19T09:50:58Z

New job on instance eessi-bot-mc-aws for architecture x86_64-amd-zen3 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9638

date	job status	comment
Apr 19 09:50:57 UTC 2024	submitted	job id `9638` awaits release by job manager
Apr 19 09:51:27 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 19 09:55:45 UTC 2024	running	job `9638` is running
Apr 19 14:31:49 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-9638.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-x86_64-amd-zen3-1713535703.tar.gz` size: 7238 MiB (7590293971 bytes) entries: 40199 modules under 2023.06/software/linux/x86_64/amd/zen3/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.1-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/x86_64/amd/zen3/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.1-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/x86_64/amd/zen3 no other files in tarball
Apr 19 14:31:49 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-9638.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

eessi-bot · 2024-04-19T09:51:02Z

New job on instance eessi-bot-mc-aws for architecture x86_64-intel-haswell for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9639

date	job status	comment
Apr 19 09:51:01 UTC 2024	submitted	job id `9639` awaits release by job manager
Apr 19 09:51:32 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 19 09:53:06 UTC 2024	running	job `9639` is running
Apr 19 15:58:00 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-9639.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-x86_64-intel-haswell-1713540501.tar.gz` size: 7238 MiB (7590436722 bytes) entries: 40199 modules under 2023.06/software/linux/x86_64/intel/haswell/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.1-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/x86_64/intel/haswell/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.1-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/x86_64/intel/haswell no other files in tarball
Apr 19 15:58:00 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-9639.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

eessi-bot · 2024-04-19T09:51:06Z

New job on instance eessi-bot-mc-aws for architecture x86_64-intel-skylake_avx512 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/9640

date	job status	comment
Apr 19 09:51:05 UTC 2024	submitted	job id `9640` awaits release by job manager
Apr 19 09:51:34 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 19 09:53:10 UTC 2024	running	job `9640` is running
Apr 19 15:07:54 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-9640.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-x86_64-intel-skylake_avx512-1713537531.tar.gz` size: 7238 MiB (7590085836 bytes) entries: 40199 modules under 2023.06/software/linux/x86_64/intel/skylake_avx512/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.1-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/x86_64/intel/skylake_avx512/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.1-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/x86_64/intel/skylake_avx512 no other files in tarball
Apr 19 15:07:54 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-9640.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

bedroge · 2024-04-19T14:48:00Z

This one shouldn't be deployed yet, as we probably first want to fix an issue with its dependencies: see #546.

…-layer into bioconductor-3.18-2023a

bedroge · 2024-04-30T19:22:05Z

bot: build repo:eessi.io-2023.06-software arch:aarch64/generic
bot: build repo:eessi.io-2023.06-software arch:aarch64/neoverse_n1
bot: build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1
bot: build repo:eessi.io-2023.06-software arch:x86_64/generic
bot: build repo:eessi.io-2023.06-software arch:x86_64/amd/zen2
bot: build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3
bot: build repo:eessi.io-2023.06-software arch:x86_64/intel/haswell
bot: build repo:eessi.io-2023.06-software arch:x86_64/intel/skylake_avx512

eessi-bot · 2024-04-30T19:22:08Z

Updates by the bot instance eessi-bot-mc-aws (click for details)

received bot command build repo:eessi.io-2023.06-software arch:aarch64/generic from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/generic
received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_n1 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_n1
received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1
received bot command build repo:eessi.io-2023.06-software arch:x86_64/generic from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/generic
received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen2 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen2
received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
received bot command build repo:eessi.io-2023.06-software arch:x86_64/intel/haswell from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/intel/haswell
received bot command build repo:eessi.io-2023.06-software arch:x86_64/intel/skylake_avx512 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/intel/skylake_avx512
handling command build repository:eessi.io-2023.06-software architecture:aarch64/generic resulted in:
- submitted job 10033, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_n1 resulted in:
- submitted job 10034, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1 resulted in:
- submitted job 10035, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:x86_64/generic resulted in:
- submitted job 10036, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen2 resulted in:
- submitted job 10037, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- submitted job 10038, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:x86_64/intel/haswell resulted in:
- submitted job 10039, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)
handling command build repository:eessi.io-2023.06-software architecture:x86_64/intel/skylake_avx512 resulted in:
- submitted job 10040, for details & status see [2023.06]{2023a} R-bundle-Bioconductor v3.18 #533 (comment)

eessi-bot · 2024-04-30T19:22:08Z

Updates by the bot instance eessi-bot-mc-azure (click for details)

received bot command build repo:eessi.io-2023.06-software arch:aarch64/generic from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/generic
received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_n1 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_n1
received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1
received bot command build repo:eessi.io-2023.06-software arch:x86_64/generic from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/generic
received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen2 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen2
received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
received bot command build repo:eessi.io-2023.06-software arch:x86_64/intel/haswell from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/intel/haswell
received bot command build repo:eessi.io-2023.06-software arch:x86_64/intel/skylake_avx512 from bedroge
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/intel/skylake_avx512
handling command build repository:eessi.io-2023.06-software architecture:aarch64/generic resulted in:
- no jobs were submitted
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_n1 resulted in:
- no jobs were submitted
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1 resulted in:
- no jobs were submitted
handling command build repository:eessi.io-2023.06-software architecture:x86_64/generic resulted in:
- no jobs were submitted
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen2 resulted in:
- no jobs were submitted
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- no jobs were submitted
handling command build repository:eessi.io-2023.06-software architecture:x86_64/intel/haswell resulted in:
- no jobs were submitted
handling command build repository:eessi.io-2023.06-software architecture:x86_64/intel/skylake_avx512 resulted in:
- no jobs were submitted

eessi-bot · 2024-04-30T19:22:12Z

New job on instance eessi-bot-mc-aws for architecture aarch64-generic for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/10033

date	job status	comment
Apr 30 19:22:11 UTC 2024	submitted	job id `10033` awaits release by job manager
Apr 30 19:22:35 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 30 19:28:04 UTC 2024	running	job `10033` is running
May 01 00:34:07 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-10033.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-aarch64-generic-1714522173.tar.gz` size: 7231 MiB (7583280883 bytes) entries: 40201 modules under 2023.06/software/linux/aarch64/generic/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.1-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/aarch64/generic/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.1-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/aarch64/generic no other files in tarball
May 01 00:34:07 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-10033.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 01 06:32:56 UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-aarch64-generic-1714522173.tar.gz` to S3 bucket succeeded

eessi-bot · 2024-04-30T19:22:16Z

New job on instance eessi-bot-mc-aws for architecture aarch64-neoverse_n1 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/10034

date	job status	comment
Apr 30 19:22:15 UTC 2024	submitted	job id `10034` awaits release by job manager
Apr 30 19:22:38 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 30 19:28:07 UTC 2024	running	job `10034` is running
May 01 00:28:37 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-10034.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-aarch64-neoverse_n1-1714521778.tar.gz` size: 7231 MiB (7582734232 bytes) entries: 40201 modules under 2023.06/software/linux/aarch64/neoverse_n1/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.1-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/aarch64/neoverse_n1/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.1-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/aarch64/neoverse_n1 no other files in tarball
May 01 00:28:37 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-10034.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 01 06:34:26 UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-aarch64-neoverse_n1-1714521778.tar.gz` to S3 bucket succeeded

eessi-bot · 2024-04-30T19:22:20Z

New job on instance eessi-bot-mc-aws for architecture aarch64-neoverse_v1 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/10035

date	job status	comment
Apr 30 19:22:19 UTC 2024	submitted	job id `10035` awaits release by job manager
Apr 30 19:22:40 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 30 19:28:11 UTC 2024	running	job `10035` is running
Apr 30 23:07:38 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-10035.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-aarch64-neoverse_v1-1714517264.tar.gz` size: 7231 MiB (7583099733 bytes) entries: 40201 modules under 2023.06/software/linux/aarch64/neoverse_v1/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.1-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/aarch64/neoverse_v1/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.1-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/aarch64/neoverse_v1 no other files in tarball
Apr 30 23:07:38 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-10035.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 01 06:35:56 UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-aarch64-neoverse_v1-1714517264.tar.gz` to S3 bucket succeeded

eessi-bot · 2024-04-30T19:22:24Z

New job on instance eessi-bot-mc-aws for architecture x86_64-generic for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/10036

date	job status	comment
Apr 30 19:22:23 UTC 2024	submitted	job id `10036` awaits release by job manager
Apr 30 19:22:47 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 30 19:30:30 UTC 2024	running	job `10036` is running
May 01 01:29:32 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-10036.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-x86_64-generic-1714525169.tar.gz` size: 7237 MiB (7588905046 bytes) entries: 40201 modules under 2023.06/software/linux/x86_64/generic/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.1-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/x86_64/generic/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.1-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/x86_64/generic no other files in tarball
May 01 01:29:32 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-10036.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 01 06:37:25 UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-generic-1714525169.tar.gz` to S3 bucket succeeded

eessi-bot · 2024-04-30T19:22:28Z

New job on instance eessi-bot-mc-aws for architecture x86_64-amd-zen2 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/10037

date	job status	comment
Apr 30 19:22:27 UTC 2024	submitted	job id `10037` awaits release by job manager
Apr 30 19:22:42 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 30 19:30:25 UTC 2024	running	job `10037` is running
May 01 01:35:47 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-10037.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-x86_64-amd-zen2-1714525445.tar.gz` size: 7238 MiB (7590567283 bytes) entries: 40202 modules under 2023.06/software/linux/x86_64/amd/zen2/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.1-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/x86_64/amd/zen2/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.1-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/x86_64/amd/zen2 no other files in tarball
May 01 01:35:47 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-10037.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 01 06:38:54 UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-amd-zen2-1714525445.tar.gz` to S3 bucket succeeded

eessi-bot · 2024-04-30T19:22:32Z

New job on instance eessi-bot-mc-aws for architecture x86_64-amd-zen3 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/10038

date	job status	comment
Apr 30 19:22:31 UTC 2024	submitted	job id `10038` awaits release by job manager
Apr 30 19:22:45 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 30 19:30:28 UTC 2024	running	job `10038` is running
May 01 00:00:25 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-10038.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-x86_64-amd-zen3-1714520289.tar.gz` size: 7238 MiB (7590404035 bytes) entries: 40202 modules under 2023.06/software/linux/x86_64/amd/zen3/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.1-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/x86_64/amd/zen3/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.1-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/x86_64/amd/zen3 no other files in tarball
May 01 00:00:25 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-10038.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 01 06:31:28 UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-amd-zen3-1714520289.tar.gz` to S3 bucket succeeded

eessi-bot · 2024-04-30T19:22:36Z

New job on instance eessi-bot-mc-aws for architecture x86_64-intel-haswell for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/10039

date	job status	comment
Apr 30 19:22:35 UTC 2024	submitted	job id `10039` awaits release by job manager
Apr 30 19:23:52 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 30 19:30:32 UTC 2024	running	job `10039` is running
May 01 01:33:44 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-10039.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-x86_64-intel-haswell-1714525397.tar.gz` size: 7238 MiB (7590533792 bytes) entries: 40202 modules under 2023.06/software/linux/x86_64/intel/haswell/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.1-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/x86_64/intel/haswell/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.1-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/x86_64/intel/haswell no other files in tarball
May 01 01:33:44 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-10039.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 01 06:40:25 UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-intel-haswell-1714525397.tar.gz` to S3 bucket succeeded

eessi-bot · 2024-04-30T19:22:40Z

New job on instance eessi-bot-mc-aws for architecture x86_64-intel-skylake_avx512 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.04/pr_533/10040

date	job status	comment
Apr 30 19:22:39 UTC 2024	submitted	job id `10040` awaits release by job manager
Apr 30 19:23:54 UTC 2024	released	job awaits launch by Slurm scheduler
Apr 30 19:31:46 UTC 2024	running	job `10040` is running
May 01 00:30:51 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-10040.out` ✅ 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.gz created!` Artefacts `eessi-2023.06-software-linux-x86_64-intel-skylake_avx512-1714521918.tar.gz` size: 7238 MiB (7590253500 bytes) entries: 40202 modules under 2023.06/software/linux/x86_64/intel/skylake_avx512/modules/all `Arrow/14.0.1-gfbf-2023a.lua` `arrow-R/14.0.1-foss-2023a-R-4.3.2.lua` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0.lua` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2.lua` `utf8proc/2.8.0-GCCcore-12.3.0.lua` software under 2023.06/software/linux/x86_64/intel/skylake_avx512/software `Arrow/14.0.1-gfbf-2023a` `arrow-R/14.0.1-foss-2023a-R-4.3.2` `RapidJSON/1.1.0-20230928-GCCcore-12.3.0` `R-bundle-Bioconductor/3.18-foss-2023a-R-4.3.2` `utf8proc/2.8.0-GCCcore-12.3.0` other under 2023.06/software/linux/x86_64/intel/skylake_avx512 no other files in tarball
May 01 00:30:51 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 9/9 test case(s) from 9 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-10040.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 01 06:41:57 UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-intel-skylake_avx512-1714521918.tar.gz` to S3 bucket succeeded

boegel · 2024-05-01T06:28:31Z

bot: status

eessi-bot · 2024-05-01T06:28:34Z

Updates by the bot instance eessi-bot-mc-aws (click for details)

received bot command status from boegel
- expanded format: status
handling command status resulted in:

eessi-bot · 2024-05-01T06:28:35Z

Updates by the bot instance eessi-bot-mc-azure (click for details)

received bot command status from boegel
- expanded format: status

boegel · 2024-05-01T07:48:32Z

all staging PRs merged

add R-bundle-Bioconductor-3.18-foss-2023a-R-4.3.2.eb

145706e

Merge branch '2023.06-software.eessi.io' into bioconductor-3.18-2023a

e6eb9a9

bedroge added 2 commits April 5, 2024 13:03

add from-pr to bioconductor

cef7a27

sync with 2023.06-software.eessi.io branch

3eaffe4

use pr 20316 for Bioconductor

3745ade

bedroge added 2 commits April 19, 2024 10:29

Merge branch '2023.06-software.eessi.io' of github.com:EESSI/software…

7d4c72c

…-layer into bioconductor-3.18-2023a

move biocondutor to 4.9.1 stack, use pr 20379

b6a2226

bedroge mentioned this pull request Apr 19, 2024

Rebuild hatchling 1.18.0, Python 3.11.*, Python-bundle-PyPI-2023.* to solve setuptools_scm issue #546

Merged

bedroge added 2 commits April 30, 2024 21:19

Merge branch '2023.06-software.eessi.io' of github.com:EESSI/software…

4b5349d

…-layer into bioconductor-3.18-2023a

move bioconductor to eb 4.9.1 file

ac82cc8

bedroge added ready-to-deploy Mark a PR as ready to deploy 2023.06-software.eessi.io 2023.06 version of software.eessi.io labels May 1, 2024

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boegel added bot:deploy Ask bot to deploy missing software installations to EESSI and removed ready-to-deploy Mark a PR as ready to deploy labels May 1, 2024

ocaisa approved these changes May 1, 2024

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ocaisa merged commit 0db3c69 into EESSI:2023.06-software.eessi.io May 1, 2024

bedroge deleted the bioconductor-3.18-2023a branch May 1, 2024 08:40

[2023.06]{2023a} R-bundle-Bioconductor v3.18 #533

[2023.06]{2023a} R-bundle-Bioconductor v3.18 #533

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