{2023.06}[foss/2022a] bio packages - set 1 #179

trz42 · 2023-10-05T20:41:20Z

Will install a first set of bio packages (incl dependencies). For each package the licenses are listed too.

BAMM-2.5.0-foss-2022a.eb "GNU General Public License v2.0"
BamTools-2.5.2-GCC-11.3.0.eb "The MIT License”
BCFtools-1.15.1-GCC-11.3.0.eb "The MIT/Expat License”
- GSL-2.7-GCC-11.3.0.eb "GNU General Public License v3.0"
- HTSlib-1.15.1-GCC-11.3.0.eb "The MIT/Expat License”
Bowtie2-2.4.5-GCC-11.3.0.eb "GNU General Public License v3.0”
FastTree-2.1.11-GCCcore-11.3.0.eb “GNU General Public License v2.0“
SAMtools-1.16.1-GCC-11.3.0.eb "The MIT/Expat License”

nessi-bot · 2023-10-05T20:41:24Z

Instance AWS-NESSI is configured to build:

arch x86_64/generic for repo nessi-2022.11-swl-deb10
arch x86_64/generic for repo nessi-2023.06-cl
arch x86_64/generic for repo nessi-2023.06-swl-deb10
arch x86_64/generic for repo nessi-2023.06-swl-deb11
arch x86_64/intel/skylake_avx512 for repo nessi-2022.11-swl-deb10
arch x86_64/intel/skylake_avx512 for repo nessi-2023.06-cl
arch x86_64/intel/skylake_avx512 for repo nessi-2023.06-swl-deb10
arch x86_64/intel/skylake_avx512 for repo nessi-2023.06-swl-deb11
arch x86_64/intel/cascadelake for repo nessi-2022.11-swl-deb10
arch x86_64/intel/cascadelake for repo nessi-2023.06-cl
arch x86_64/intel/cascadelake for repo nessi-2023.06-swl-deb10
arch x86_64/intel/cascadelake for repo nessi-2023.06-swl-deb11
arch x86_64/amd/zen2 for repo nessi-2022.11-swl-deb10
arch x86_64/amd/zen2 for repo nessi-2023.06-cl
arch x86_64/amd/zen2 for repo nessi-2023.06-swl-deb10
arch x86_64/amd/zen2 for repo nessi-2023.06-swl-deb11
arch aarch64/generic for repo nessi-2022.11-swl-deb10
arch aarch64/generic for repo nessi-2023.06-cl
arch aarch64/generic for repo nessi-2023.06-swl-deb10
arch aarch64/generic for repo nessi-2023.06-swl-deb11

nessi-bot · 2023-10-05T20:41:25Z

Instance eX3-NESSI is configured to build:

arch x86_64/amd/zen2 for repo nessi-2022.11-swl-deb10
arch x86_64/amd/zen2 for repo nessi-2023.06-cl
arch x86_64/amd/zen2 for repo nessi-2023.06-swl-deb10
arch x86_64/amd/zen2 for repo nessi-2023.06-swl-deb11
arch aarch64/generic for repo nessi-2022.11-swl-deb10
arch aarch64/generic for repo nessi-2023.06-cl
arch aarch64/generic for repo nessi-2023.06-swl-deb10
arch aarch64/generic for repo nessi-2023.06-swl-deb11

nessi-bot · 2023-10-05T20:41:25Z

Instance Saga-NESSI is configured to build:

arch x86_64/intel/cascadelake for repo nessi-2022.11-swl-deb10
arch x86_64/intel/cascadelake for repo nessi-2023.06-cl
arch x86_64/intel/cascadelake for repo nessi-2023.06-swl-deb10
arch x86_64/intel/cascadelake for repo nessi-2023.06-swl-deb11
arch x86_64/intel/skylake_avx512 for repo nessi-2022.11-swl-deb10
arch x86_64/intel/skylake_avx512 for repo nessi-2023.06-cl
arch x86_64/intel/skylake_avx512 for repo nessi-2023.06-swl-deb10
arch x86_64/intel/skylake_avx512 for repo nessi-2023.06-swl-deb11
arch x86_64/generic for repo nessi-2022.11-swl-deb10
arch x86_64/generic for repo nessi-2023.06-cl
arch x86_64/generic for repo nessi-2023.06-swl-deb10
arch x86_64/generic for repo nessi-2023.06-swl-deb11

nessi-bot · 2023-10-05T20:41:25Z

Instance Fram-NESSI is configured to build:

arch x86_64/generic for repo nessi-2022.11-swl-deb10
arch x86_64/generic for repo nessi-2023.06-cl
arch x86_64/generic for repo nessi-2023.06-swl-deb10
arch x86_64/generic for repo nessi-2023.06-swl-deb11
arch x86_64/intel/broadwell for repo nessi-2022.11-swl-deb10
arch x86_64/intel/broadwell for repo nessi-2023.06-cl
arch x86_64/intel/broadwell for repo nessi-2023.06-swl-deb10
arch x86_64/intel/broadwell for repo nessi-2023.06-swl-deb11

trz42 · 2023-10-05T20:42:56Z

bot: build inst:AWS arch:x86_64/generic repo:nessi-2023.06-swl-deb11
bot: build inst:eX3 arch:x86_64/amd/zen2 repo:nessi-2023.06-swl-deb11
bot: build inst:eX3 arch:aarch64/generic repo:nessi-2023.06-swl-deb11
bot: build inst:Fram arch:x86_64/intel/broadwell repo:nessi-2023.06-swl-deb10
bot: build inst:AWS arch:x86_64/intel/cascadelake repo:nessi-2023.06-swl-deb11
bot: build inst:AWS arch:x86_64/intel/skylake repo:nessi-2023.06-swl-deb11

nessi-bot · 2023-10-05T20:42:58Z

Updates by the bot instance eX3-NESSI (click for details)

received bot command build inst:AWS arch:x86_64/generic repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/generic repository:nessi-2023.06-swl-deb11
received bot command build inst:eX3 arch:x86_64/amd/zen2 repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:eX3 architecture:x86_64/amd/zen2 repository:nessi-2023.06-swl-deb11
received bot command build inst:eX3 arch:aarch64/generic repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:eX3 architecture:aarch64/generic repository:nessi-2023.06-swl-deb11
received bot command build inst:Fram arch:x86_64/intel/broadwell repo:nessi-2023.06-swl-deb10 from trz42
- expanded format: build instance:Fram architecture:x86_64/intel/broadwell repository:nessi-2023.06-swl-deb10
received bot command build inst:AWS arch:x86_64/intel/cascadelake repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/intel/cascadelake repository:nessi-2023.06-swl-deb11
received bot command build inst:AWS arch:x86_64/intel/skylake repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/intel/skylake repository:nessi-2023.06-swl-deb11
handling command build instance:AWS architecture:x86_64/generic repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:eX3 architecture:x86_64/amd/zen2 repository:nessi-2023.06-swl-deb11 resulted in:
- submitted job 13909, for details & status see {2023.06}[foss/2022a] bio packages - set 1 #179 (comment)
handling command build instance:eX3 architecture:aarch64/generic repository:nessi-2023.06-swl-deb11 resulted in:
- submitted job 13910, for details & status see {2023.06}[foss/2022a] bio packages - set 1 #179 (comment)
handling command build instance:Fram architecture:x86_64/intel/broadwell repository:nessi-2023.06-swl-deb10 resulted in:
- no jobs were submitted
handling command build instance:AWS architecture:x86_64/intel/cascadelake repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:AWS architecture:x86_64/intel/skylake repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted

nessi-bot · 2023-10-05T20:42:58Z

Updates by the bot instance Fram-NESSI (click for details)

received bot command build inst:AWS arch:x86_64/generic repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/generic repository:nessi-2023.06-swl-deb11
received bot command build inst:eX3 arch:x86_64/amd/zen2 repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:eX3 architecture:x86_64/amd/zen2 repository:nessi-2023.06-swl-deb11
received bot command build inst:eX3 arch:aarch64/generic repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:eX3 architecture:aarch64/generic repository:nessi-2023.06-swl-deb11
received bot command build inst:Fram arch:x86_64/intel/broadwell repo:nessi-2023.06-swl-deb10 from trz42
- expanded format: build instance:Fram architecture:x86_64/intel/broadwell repository:nessi-2023.06-swl-deb10
received bot command build inst:AWS arch:x86_64/intel/cascadelake repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/intel/cascadelake repository:nessi-2023.06-swl-deb11
received bot command build inst:AWS arch:x86_64/intel/skylake repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/intel/skylake repository:nessi-2023.06-swl-deb11
handling command build instance:AWS architecture:x86_64/generic repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:eX3 architecture:x86_64/amd/zen2 repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:eX3 architecture:aarch64/generic repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:Fram architecture:x86_64/intel/broadwell repository:nessi-2023.06-swl-deb10 resulted in:
- submitted job 5423431, for details & status see {2023.06}[foss/2022a] bio packages - set 1 #179 (comment)
handling command build instance:AWS architecture:x86_64/intel/cascadelake repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:AWS architecture:x86_64/intel/skylake repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted

nessi-bot · 2023-10-05T20:42:58Z

Updates by the bot instance AWS-NESSI (click for details)

received bot command build inst:AWS arch:x86_64/generic repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/generic repository:nessi-2023.06-swl-deb11
received bot command build inst:eX3 arch:x86_64/amd/zen2 repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:eX3 architecture:x86_64/amd/zen2 repository:nessi-2023.06-swl-deb11
received bot command build inst:eX3 arch:aarch64/generic repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:eX3 architecture:aarch64/generic repository:nessi-2023.06-swl-deb11
received bot command build inst:Fram arch:x86_64/intel/broadwell repo:nessi-2023.06-swl-deb10 from trz42
- expanded format: build instance:Fram architecture:x86_64/intel/broadwell repository:nessi-2023.06-swl-deb10
received bot command build inst:AWS arch:x86_64/intel/cascadelake repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/intel/cascadelake repository:nessi-2023.06-swl-deb11
received bot command build inst:AWS arch:x86_64/intel/skylake repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/intel/skylake repository:nessi-2023.06-swl-deb11
handling command build instance:AWS architecture:x86_64/generic repository:nessi-2023.06-swl-deb11 resulted in:
- submitted job 7735, for details & status see {2023.06}[foss/2022a] bio packages - set 1 #179 (comment)
handling command build instance:eX3 architecture:x86_64/amd/zen2 repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:eX3 architecture:aarch64/generic repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:Fram architecture:x86_64/intel/broadwell repository:nessi-2023.06-swl-deb10 resulted in:
- no jobs were submitted
handling command build instance:AWS architecture:x86_64/intel/cascadelake repository:nessi-2023.06-swl-deb11 resulted in:
- submitted job 7736, for details & status see {2023.06}[foss/2022a] bio packages - set 1 #179 (comment)
handling command build instance:AWS architecture:x86_64/intel/skylake repository:nessi-2023.06-swl-deb11 resulted in:
- submitted job 7737, for details & status see {2023.06}[foss/2022a] bio packages - set 1 #179 (comment)

nessi-bot · 2023-10-05T20:42:59Z

Updates by the bot instance Saga-NESSI (click for details)

received bot command build inst:AWS arch:x86_64/generic repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/generic repository:nessi-2023.06-swl-deb11
received bot command build inst:eX3 arch:x86_64/amd/zen2 repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:eX3 architecture:x86_64/amd/zen2 repository:nessi-2023.06-swl-deb11
received bot command build inst:eX3 arch:aarch64/generic repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:eX3 architecture:aarch64/generic repository:nessi-2023.06-swl-deb11
received bot command build inst:Fram arch:x86_64/intel/broadwell repo:nessi-2023.06-swl-deb10 from trz42
- expanded format: build instance:Fram architecture:x86_64/intel/broadwell repository:nessi-2023.06-swl-deb10
received bot command build inst:AWS arch:x86_64/intel/cascadelake repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/intel/cascadelake repository:nessi-2023.06-swl-deb11
received bot command build inst:AWS arch:x86_64/intel/skylake repo:nessi-2023.06-swl-deb11 from trz42
- expanded format: build instance:AWS architecture:x86_64/intel/skylake repository:nessi-2023.06-swl-deb11
handling command build instance:AWS architecture:x86_64/generic repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:eX3 architecture:x86_64/amd/zen2 repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:eX3 architecture:aarch64/generic repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:Fram architecture:x86_64/intel/broadwell repository:nessi-2023.06-swl-deb10 resulted in:
- no jobs were submitted
handling command build instance:AWS architecture:x86_64/intel/cascadelake repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted
handling command build instance:AWS architecture:x86_64/intel/skylake repository:nessi-2023.06-swl-deb11 resulted in:
- no jobs were submitted

nessi-bot · 2023-10-05T20:43:03Z

New job on instance eX3-NESSI for architecture x86_64-amd-zen2 for repository nessi-2023.06-swl-deb11 in job dir /home/thomarob/pilot.nessi.no/PR155/jobs/2023.10/pr_179/13909

date	job status	comment
Oct 05 08:42:39 PM UTC 2023	submitted	job id `13909` awaits release by job manager
Oct 05 08:58:01 PM UTC 2023	released	job awaits launch by Slurm scheduler
Oct 05 09:03:14 PM UTC 2023	running	job `13909` is running
Oct 05 09:08:21 PM UTC 2023	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-13909.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-zen2-1696540004.tar.gz` size: 26 MiB (27647982 bytes) entries: 736 modules under 2023.06/software/linux/x86_64/amd/zen2/modules/all `BAMM/2.5.0-foss-2022a.lua` `BamTools/2.5.2-GCC-11.3.0.lua` `BCFtools/1.15.1-GCC-11.3.0.lua` `Bowtie2/2.4.5-GCC-11.3.0.lua` `FastTree/2.1.11-GCCcore-11.3.0.lua` `GSL/2.7-GCC-11.3.0.lua` `HTSlib/1.15.1-GCC-11.3.0.lua` `SAMtools/1.16.1-GCC-11.3.0.lua` software under 2023.06/software/linux/x86_64/amd/zen2/software `BAMM/2.5.0-foss-2022a` `BamTools/2.5.2-GCC-11.3.0` `BCFtools/1.15.1-GCC-11.3.0` `Bowtie2/2.4.5-GCC-11.3.0` `FastTree/2.1.11-GCCcore-11.3.0` `GSL/2.7-GCC-11.3.0` `HTSlib/1.15.1-GCC-11.3.0` `SAMtools/1.16.1-GCC-11.3.0` other under 2023.06/software/linux/x86_64/amd/zen2 `.lmod/cache/spiderT.lua` `.lmod/cache/spiderT.luac_5.1` `.lmod/cache/timestamp`
Oct 06 06:09:51 AM UTC 2023	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-amd-zen2-1696540004.tar.gz` to S3 bucket succeeded
Oct 06 06:17:46 AM UTC 2023	staged	tarball `eessi-2023.06-software-linux-x86_64-amd-zen2-1696540004.tar.gz` downloaded to Stratum-0
Oct 06 06:18:27 AM UTC 2023	pr_opened	merge PR https://github.com/NorESSI/staging/pull/558 to approve ingest
Oct 06 01:32:30 PM UTC 2023	approved	👍 tarball `eessi-2023.06-software-linux-x86_64-amd-zen2-1696540004.tar.gz` approved, see PR https://github.com/NorESSI/staging/pull/558
Oct 06 01:33:30 PM UTC 2023	ingested	🎉 tarball `eessi-2023.06-software-linux-x86_64-amd-zen2-1696540004.tar.gz` successfully ingested at `2023.06/software/linux/x86_64/amd/zen2/`

nessi-bot · 2023-10-05T20:43:05Z

New job on instance AWS-NESSI for architecture x86_64-generic for repository nessi-2023.06-swl-deb11 in job dir /mnt/shared/home/nessibot/pilot.nessi.no/PR155/jobs/2023.10/pr_179/7735

date	job status	comment
Oct 05 08:43:04 PM UTC 2023	submitted	job id `7735` awaits release by job manager
Oct 05 08:44:49 PM UTC 2023	released	job awaits launch by Slurm scheduler
Oct 05 08:46:54 PM UTC 2023	running	job `7735` is running
Oct 05 09:01:21 PM UTC 2023	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-7735.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-1696539645.tar.gz` size: 25 MiB (27179019 bytes) entries: 736 modules under 2023.06/software/linux/x86_64/generic/modules/all `BAMM/2.5.0-foss-2022a.lua` `BamTools/2.5.2-GCC-11.3.0.lua` `BCFtools/1.15.1-GCC-11.3.0.lua` `Bowtie2/2.4.5-GCC-11.3.0.lua` `FastTree/2.1.11-GCCcore-11.3.0.lua` `GSL/2.7-GCC-11.3.0.lua` `HTSlib/1.15.1-GCC-11.3.0.lua` `SAMtools/1.16.1-GCC-11.3.0.lua` software under 2023.06/software/linux/x86_64/generic/software `BAMM/2.5.0-foss-2022a` `BamTools/2.5.2-GCC-11.3.0` `BCFtools/1.15.1-GCC-11.3.0` `Bowtie2/2.4.5-GCC-11.3.0` `FastTree/2.1.11-GCCcore-11.3.0` `GSL/2.7-GCC-11.3.0` `HTSlib/1.15.1-GCC-11.3.0` `SAMtools/1.16.1-GCC-11.3.0` other under 2023.06/software/linux/x86_64/generic `.lmod/cache/spiderT.lua` `.lmod/cache/spiderT.luac_5.1` `.lmod/cache/timestamp`
Oct 06 06:08:48 AM UTC 2023	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-generic-1696539645.tar.gz` to S3 bucket succeeded
Oct 06 06:17:48 AM UTC 2023	staged	tarball `eessi-2023.06-software-linux-x86_64-generic-1696539645.tar.gz` downloaded to Stratum-0
Oct 06 06:18:31 AM UTC 2023	pr_opened	merge PR https://github.com/NorESSI/staging/pull/559 to approve ingest
Oct 06 01:32:33 PM UTC 2023	approved	👍 tarball `eessi-2023.06-software-linux-x86_64-generic-1696539645.tar.gz` approved, see PR https://github.com/NorESSI/staging/pull/559
Oct 06 01:34:14 PM UTC 2023	ingested	🎉 tarball `eessi-2023.06-software-linux-x86_64-generic-1696539645.tar.gz` successfully ingested at `2023.06/software/linux/x86_64/generic/`

nessi-bot · 2023-10-05T20:43:06Z

New job on instance Fram-NESSI for architecture x86_64-intel-broadwell for repository nessi-2023.06-swl-deb10 in job dir /cluster/projects/nn9992k/pilot.nessi.no/PR155/jobs/2023.10/pr_179/5423431

date	job status	comment
Oct 05 20:43:05 UTC 2023	submitted	job id `5423431` awaits release by job manager
Oct 05 20:46:19 UTC 2023	released	job awaits launch by Slurm scheduler
Oct 05 20:51:21 UTC 2023	running	job `5423431` is running
Oct 05 21:01:24 UTC 2023	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-5423431.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-broadwell-1696539382.tar.gz` size: 26 MiB (27759794 bytes) entries: 736 modules under 2023.06/software/linux/x86_64/intel/broadwell/modules/all `BAMM/2.5.0-foss-2022a.lua` `BamTools/2.5.2-GCC-11.3.0.lua` `BCFtools/1.15.1-GCC-11.3.0.lua` `Bowtie2/2.4.5-GCC-11.3.0.lua` `FastTree/2.1.11-GCCcore-11.3.0.lua` `GSL/2.7-GCC-11.3.0.lua` `HTSlib/1.15.1-GCC-11.3.0.lua` `SAMtools/1.16.1-GCC-11.3.0.lua` software under 2023.06/software/linux/x86_64/intel/broadwell/software `BAMM/2.5.0-foss-2022a` `BamTools/2.5.2-GCC-11.3.0` `BCFtools/1.15.1-GCC-11.3.0` `Bowtie2/2.4.5-GCC-11.3.0` `FastTree/2.1.11-GCCcore-11.3.0` `GSL/2.7-GCC-11.3.0` `HTSlib/1.15.1-GCC-11.3.0` `SAMtools/1.16.1-GCC-11.3.0` other under 2023.06/software/linux/x86_64/intel/broadwell `.lmod/cache/spiderT.lua` `.lmod/cache/spiderT.luac_5.1` `.lmod/cache/timestamp`
Oct 06 06:08:51 UTC 2023	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-intel-broadwell-1696539382.tar.gz` to S3 bucket succeeded
Oct 06 06:17:51 AM UTC 2023	staged	tarball `eessi-2023.06-software-linux-x86_64-intel-broadwell-1696539382.tar.gz` downloaded to Stratum-0
Oct 06 06:18:35 AM UTC 2023	pr_opened	merge PR https://github.com/NorESSI/staging/pull/560 to approve ingest
Oct 06 06:49:56 AM UTC 2023	approved	👍 tarball `eessi-2023.06-software-linux-x86_64-intel-broadwell-1696539382.tar.gz` approved, see PR https://github.com/NorESSI/staging/pull/560
Oct 06 06:50:43 AM UTC 2023	ingested	🎉 tarball `eessi-2023.06-software-linux-x86_64-intel-broadwell-1696539382.tar.gz` successfully ingested at `2023.06/software/linux/x86_64/intel/broadwell/`

nessi-bot · 2023-10-05T20:43:07Z

New job on instance eX3-NESSI for architecture aarch64-generic for repository nessi-2023.06-swl-deb11 in job dir /home/thomarob/pilot.nessi.no/PR155/jobs/2023.10/pr_179/13910

date	job status	comment
Oct 05 08:42:43 PM UTC 2023	submitted	job id `13910` awaits release by job manager
Oct 05 08:57:56 PM UTC 2023	released	job awaits launch by Slurm scheduler
Oct 05 09:03:09 PM UTC 2023	running	job `13910` is running
Oct 05 09:13:26 PM UTC 2023	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-13910.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-1696540068.tar.gz` size: 25 MiB (26937239 bytes) entries: 736 modules under 2023.06/software/linux/aarch64/generic/modules/all `BAMM/2.5.0-foss-2022a.lua` `BamTools/2.5.2-GCC-11.3.0.lua` `BCFtools/1.15.1-GCC-11.3.0.lua` `Bowtie2/2.4.5-GCC-11.3.0.lua` `FastTree/2.1.11-GCCcore-11.3.0.lua` `GSL/2.7-GCC-11.3.0.lua` `HTSlib/1.15.1-GCC-11.3.0.lua` `SAMtools/1.16.1-GCC-11.3.0.lua` software under 2023.06/software/linux/aarch64/generic/software `BAMM/2.5.0-foss-2022a` `BamTools/2.5.2-GCC-11.3.0` `BCFtools/1.15.1-GCC-11.3.0` `Bowtie2/2.4.5-GCC-11.3.0` `FastTree/2.1.11-GCCcore-11.3.0` `GSL/2.7-GCC-11.3.0` `HTSlib/1.15.1-GCC-11.3.0` `SAMtools/1.16.1-GCC-11.3.0` other under 2023.06/software/linux/aarch64/generic `.lmod/cache/spiderT.lua` `.lmod/cache/spiderT.luac_5.1` `.lmod/cache/timestamp`
Oct 06 06:11:10 AM UTC 2023	uploaded	transfer of `eessi-2023.06-software-linux-aarch64-generic-1696540068.tar.gz` to S3 bucket succeeded
Oct 06 06:17:43 AM UTC 2023	staged	tarball `eessi-2023.06-software-linux-aarch64-generic-1696540068.tar.gz` downloaded to Stratum-0
Oct 06 06:18:22 AM UTC 2023	pr_opened	merge PR https://github.com/NorESSI/staging/pull/557 to approve ingest
Oct 06 06:20:57 AM UTC 2023	approved	👍 tarball `eessi-2023.06-software-linux-aarch64-generic-1696540068.tar.gz` approved, see PR https://github.com/NorESSI/staging/pull/557
Oct 06 06:22:13 AM UTC 2023	ingested	🎉 tarball `eessi-2023.06-software-linux-aarch64-generic-1696540068.tar.gz` successfully ingested at `2023.06/software/linux/aarch64/generic/`

nessi-bot · 2023-10-05T20:43:15Z

New job on instance AWS-NESSI for architecture x86_64-intel-cascadelake for repository nessi-2023.06-swl-deb11 in job dir /mnt/shared/home/nessibot/pilot.nessi.no/PR155/jobs/2023.10/pr_179/7736

date	job status	comment
Oct 05 08:43:14 PM UTC 2023	submitted	job id `7736` awaits release by job manager
Oct 05 08:44:47 PM UTC 2023	released	job awaits launch by Slurm scheduler
Oct 05 08:46:52 PM UTC 2023	running	job `7736` is running
Oct 05 09:01:19 PM UTC 2023	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-7736.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-cascadelake-1696539594.tar.gz` size: 26 MiB (27603946 bytes) entries: 736 modules under 2023.06/software/linux/x86_64/intel/cascadelake/modules/all `BAMM/2.5.0-foss-2022a.lua` `BamTools/2.5.2-GCC-11.3.0.lua` `BCFtools/1.15.1-GCC-11.3.0.lua` `Bowtie2/2.4.5-GCC-11.3.0.lua` `FastTree/2.1.11-GCCcore-11.3.0.lua` `GSL/2.7-GCC-11.3.0.lua` `HTSlib/1.15.1-GCC-11.3.0.lua` `SAMtools/1.16.1-GCC-11.3.0.lua` software under 2023.06/software/linux/x86_64/intel/cascadelake/software `BAMM/2.5.0-foss-2022a` `BamTools/2.5.2-GCC-11.3.0` `BCFtools/1.15.1-GCC-11.3.0` `Bowtie2/2.4.5-GCC-11.3.0` `FastTree/2.1.11-GCCcore-11.3.0` `GSL/2.7-GCC-11.3.0` `HTSlib/1.15.1-GCC-11.3.0` `SAMtools/1.16.1-GCC-11.3.0` other under 2023.06/software/linux/x86_64/intel/cascadelake `.lmod/cache/spiderT.lua` `.lmod/cache/spiderT.luac_5.1` `.lmod/cache/timestamp`
Oct 06 06:08:58 AM UTC 2023	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-intel-cascadelake-1696539594.tar.gz` to S3 bucket succeeded
Oct 06 06:17:54 AM UTC 2023	staged	tarball `eessi-2023.06-software-linux-x86_64-intel-cascadelake-1696539594.tar.gz` downloaded to Stratum-0
Oct 06 06:18:39 AM UTC 2023	pr_opened	merge PR https://github.com/NorESSI/staging/pull/561 to approve ingest
Oct 06 01:32:37 PM UTC 2023	approved	👍 tarball `eessi-2023.06-software-linux-x86_64-intel-cascadelake-1696539594.tar.gz` approved, see PR https://github.com/NorESSI/staging/pull/561
Oct 06 01:34:51 PM UTC 2023	ingested	🎉 tarball `eessi-2023.06-software-linux-x86_64-intel-cascadelake-1696539594.tar.gz` successfully ingested at `2023.06/software/linux/x86_64/intel/cascadelake/`

nessi-bot · 2023-10-05T20:43:22Z

New job on instance AWS-NESSI for architecture x86_64-intel-skylake_avx512 for repository nessi-2023.06-swl-deb11 in job dir /mnt/shared/home/nessibot/pilot.nessi.no/PR155/jobs/2023.10/pr_179/7737

date	job status	comment
Oct 05 08:43:21 PM UTC 2023	submitted	job id `7737` awaits release by job manager
Oct 05 08:44:44 PM UTC 2023	released	job awaits launch by Slurm scheduler
Oct 05 08:48:56 PM UTC 2023	running	job `7737` is running
Oct 05 09:03:23 PM UTC 2023	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-7737.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_avx512-1696539764.tar.gz` size: 26 MiB (27604837 bytes) entries: 736 modules under 2023.06/software/linux/x86_64/intel/skylake_avx512/modules/all `BAMM/2.5.0-foss-2022a.lua` `BamTools/2.5.2-GCC-11.3.0.lua` `BCFtools/1.15.1-GCC-11.3.0.lua` `Bowtie2/2.4.5-GCC-11.3.0.lua` `FastTree/2.1.11-GCCcore-11.3.0.lua` `GSL/2.7-GCC-11.3.0.lua` `HTSlib/1.15.1-GCC-11.3.0.lua` `SAMtools/1.16.1-GCC-11.3.0.lua` software under 2023.06/software/linux/x86_64/intel/skylake_avx512/software `BAMM/2.5.0-foss-2022a` `BamTools/2.5.2-GCC-11.3.0` `BCFtools/1.15.1-GCC-11.3.0` `Bowtie2/2.4.5-GCC-11.3.0` `FastTree/2.1.11-GCCcore-11.3.0` `GSL/2.7-GCC-11.3.0` `HTSlib/1.15.1-GCC-11.3.0` `SAMtools/1.16.1-GCC-11.3.0` other under 2023.06/software/linux/x86_64/intel/skylake_avx512 `.lmod/cache/spiderT.lua` `.lmod/cache/spiderT.luac_5.1` `.lmod/cache/timestamp`
Oct 06 06:08:38 AM UTC 2023	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-intel-skylake_avx512-1696539764.tar.gz` to S3 bucket succeeded
Oct 06 06:17:57 AM UTC 2023	staged	tarball `eessi-2023.06-software-linux-x86_64-intel-skylake_avx512-1696539764.tar.gz` downloaded to Stratum-0
Oct 06 06:18:43 AM UTC 2023	pr_opened	merge PR https://github.com/NorESSI/staging/pull/562 to approve ingest
Oct 06 01:32:40 PM UTC 2023	approved	👍 tarball `eessi-2023.06-software-linux-x86_64-intel-skylake_avx512-1696539764.tar.gz` approved, see PR https://github.com/NorESSI/staging/pull/562
Oct 06 01:35:29 PM UTC 2023	ingested	🎉 tarball `eessi-2023.06-software-linux-x86_64-intel-skylake_avx512-1696539764.tar.gz` successfully ingested at `2023.06/software/linux/x86_64/intel/skylake_avx512/`

trz42 · 2023-10-05T21:15:34Z

Checklist for building:

Check whether builds for all required architectures succeed (SUCCESS message + reasonably sized tarball)
Check if the PR is up-to-date with the target branch nessi.no-2023.06 in the repository (if not what are the differences)
Assess if all requested changes are sound (checking files changed on GitHub.com)
- lacks addition of easystack file to CI $\longrightarrow$ added now
Verify that all easyconfig/s being built are included with the EB version used (if not why not)
Review changes (if any) needed to get the build(s) succeed (common changes for all architectures, changes for a single architecture, changes because of build environment specifics, etc.)

trz42 · 2023-10-06T06:14:47Z

Target architectures

x86_64-intel-broadwell
x86_64-intel-skylake_avx512
x86_64-intel-cascadelake
x86_64-amd-zen2
x86_64-generic
aarch64-generic

Checklist for deployment/ingestion

at least one tarball for each architecture has been uploaded
at least one tarball for each architecture has been staged
for each architecture one and only one tarball has been approved
for each architecture one and only one tarball was ingested
all tests in the CI have succeeded (rerun failed tests ~ 10 mins after last ingest)
- all succeeded except for aarch64/generic+eessi-2023.06-eb-4.7.2-2021a.yml due to Yambo not being supported on aarch64
- for details see https://github.com/NorESSI/software-layer/actions/runs/6431790645
has the package become available via CernVM-FS for all architectures ingested (for lmod cache updates pay attention to timestamp of files)

command & log

command

cd /cvmfs/pilot.nessi.no/versions/2023.06/software/linux ; \
ls -l \
      x86_64/{generic,amd/zen2,intel/[bsc]*}/{software,modules/all}/{BAMM,BamTools,BCFtools,Bowtie2,FastTree,SAMtools}/* \
      aarch64/generic/{software,modules/all}/{BAMM,BamTools,BCFtools,Bowtie2,FastTree,SAMtools}/*

log

-rw-r--r-- 1 cvmfs cvmfs 1233 Oct  5 20:59 aarch64/generic/modules/all/BAMM/2.5.0-foss-2022a.lua
-rw-r--r-- 1 cvmfs cvmfs 1136 Oct  5 21:00 aarch64/generic/modules/all/BamTools/2.5.2-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1441 Oct  5 21:04 aarch64/generic/modules/all/BCFtools/1.15.1-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 2028 Oct  5 21:06 aarch64/generic/modules/all/Bowtie2/2.4.5-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1266 Oct  5 21:06 aarch64/generic/modules/all/FastTree/2.1.11-GCCcore-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1397 Oct  5 21:07 aarch64/generic/modules/all/SAMtools/1.16.1-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1233 Oct  5 21:01 x86_64/amd/zen2/modules/all/BAMM/2.5.0-foss-2022a.lua
-rw-r--r-- 1 cvmfs cvmfs 1136 Oct  5 21:01 x86_64/amd/zen2/modules/all/BamTools/2.5.2-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1441 Oct  5 21:04 x86_64/amd/zen2/modules/all/BCFtools/1.15.1-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 2028 Oct  5 21:05 x86_64/amd/zen2/modules/all/Bowtie2/2.4.5-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1266 Oct  5 21:05 x86_64/amd/zen2/modules/all/FastTree/2.1.11-GCCcore-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1397 Oct  5 21:06 x86_64/amd/zen2/modules/all/SAMtools/1.16.1-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1232 Oct  5 20:53 x86_64/generic/modules/all/BAMM/2.5.0-foss-2022a.lua
-rw-r--r-- 1 cvmfs cvmfs 1135 Oct  5 20:54 x86_64/generic/modules/all/BamTools/2.5.2-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1440 Oct  5 20:57 x86_64/generic/modules/all/BCFtools/1.15.1-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 2027 Oct  5 20:59 x86_64/generic/modules/all/Bowtie2/2.4.5-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1265 Oct  5 20:59 x86_64/generic/modules/all/FastTree/2.1.11-GCCcore-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1396 Oct  5 21:00 x86_64/generic/modules/all/SAMtools/1.16.1-GCC-11.3.0.lua
-rw-rw-r-- 1 cvmfs cvmfs 1240 Oct  5 20:47 x86_64/intel/broadwell/modules/all/BAMM/2.5.0-foss-2022a.lua
-rw-rw-r-- 1 cvmfs cvmfs 1143 Oct  5 20:48 x86_64/intel/broadwell/modules/all/BamTools/2.5.2-GCC-11.3.0.lua
-rw-rw-r-- 1 cvmfs cvmfs 1448 Oct  5 20:53 x86_64/intel/broadwell/modules/all/BCFtools/1.15.1-GCC-11.3.0.lua
-rw-rw-r-- 1 cvmfs cvmfs 2035 Oct  5 20:55 x86_64/intel/broadwell/modules/all/Bowtie2/2.4.5-GCC-11.3.0.lua
-rw-rw-r-- 1 cvmfs cvmfs 1273 Oct  5 20:55 x86_64/intel/broadwell/modules/all/FastTree/2.1.11-GCCcore-11.3.0.lua
-rw-rw-r-- 1 cvmfs cvmfs 1404 Oct  5 20:56 x86_64/intel/broadwell/modules/all/SAMtools/1.16.1-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1242 Oct  5 20:53 x86_64/intel/cascadelake/modules/all/BAMM/2.5.0-foss-2022a.lua
-rw-r--r-- 1 cvmfs cvmfs 1145 Oct  5 20:53 x86_64/intel/cascadelake/modules/all/BamTools/2.5.2-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1450 Oct  5 20:56 x86_64/intel/cascadelake/modules/all/BCFtools/1.15.1-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 2037 Oct  5 20:58 x86_64/intel/cascadelake/modules/all/Bowtie2/2.4.5-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1275 Oct  5 20:58 x86_64/intel/cascadelake/modules/all/FastTree/2.1.11-GCCcore-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1406 Oct  5 20:59 x86_64/intel/cascadelake/modules/all/SAMtools/1.16.1-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1245 Oct  5 20:56 x86_64/intel/skylake_avx512/modules/all/BAMM/2.5.0-foss-2022a.lua
-rw-r--r-- 1 cvmfs cvmfs 1148 Oct  5 20:57 x86_64/intel/skylake_avx512/modules/all/BamTools/2.5.2-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1453 Oct  5 20:59 x86_64/intel/skylake_avx512/modules/all/BCFtools/1.15.1-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 2040 Oct  5 21:01 x86_64/intel/skylake_avx512/modules/all/Bowtie2/2.4.5-GCC-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1278 Oct  5 21:01 x86_64/intel/skylake_avx512/modules/all/FastTree/2.1.11-GCCcore-11.3.0.lua
-rw-r--r-- 1 cvmfs cvmfs 1409 Oct  5 21:02 x86_64/intel/skylake_avx512/modules/all/SAMtools/1.16.1-GCC-11.3.0.lua

aarch64/generic/software/BAMM/2.5.0-foss-2022a:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:59 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:00 easybuild

aarch64/generic/software/BamTools/2.5.2-GCC-11.3.0:
total 19
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:00 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:00 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:00 include
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:00 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 21:00 lib64 -> lib

aarch64/generic/software/BCFtools/1.15.1-GCC-11.3.0:
total 18
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:04 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:04 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:04 libexec
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:04 share

aarch64/generic/software/Bowtie2/2.4.5-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:06 bin
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 doc
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:06 easybuild
dr-xr-xr-x 5 cvmfs cvmfs 4096 Jan 17  2022 example
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 scripts

aarch64/generic/software/FastTree/2.1.11-GCCcore-11.3.0:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:06 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:06 easybuild

aarch64/generic/software/SAMtools/1.16.1-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:07 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:07 easybuild
dr-xr-xr-x 4 cvmfs cvmfs 4096 Oct  5 21:07 include
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:07 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 21:07 lib64 -> lib
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:07 share

x86_64/amd/zen2/software/BAMM/2.5.0-foss-2022a:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:00 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:01 easybuild

x86_64/amd/zen2/software/BamTools/2.5.2-GCC-11.3.0:
total 19
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:01 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:01 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:01 include
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:01 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 21:01 lib64 -> lib

x86_64/amd/zen2/software/BCFtools/1.15.1-GCC-11.3.0:
total 18
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:04 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:04 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:04 libexec
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:04 share

x86_64/amd/zen2/software/Bowtie2/2.4.5-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:05 bin
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 doc
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:05 easybuild
dr-xr-xr-x 5 cvmfs cvmfs 4096 Jan 17  2022 example
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 scripts

x86_64/amd/zen2/software/FastTree/2.1.11-GCCcore-11.3.0:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:05 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:05 easybuild

x86_64/amd/zen2/software/SAMtools/1.16.1-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:06 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:06 easybuild
dr-xr-xr-x 4 cvmfs cvmfs 4096 Oct  5 21:06 include
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:06 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 21:06 lib64 -> lib
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:06 share

x86_64/generic/software/BAMM/2.5.0-foss-2022a:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:53 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:53 easybuild

x86_64/generic/software/BamTools/2.5.2-GCC-11.3.0:
total 19
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:54 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:54 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:54 include
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:54 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 20:54 lib64 -> lib

x86_64/generic/software/BCFtools/1.15.1-GCC-11.3.0:
total 18
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:57 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:57 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:57 libexec
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:57 share

x86_64/generic/software/Bowtie2/2.4.5-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:58 bin
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 doc
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:59 easybuild
dr-xr-xr-x 5 cvmfs cvmfs 4096 Jan 17  2022 example
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 scripts

x86_64/generic/software/FastTree/2.1.11-GCCcore-11.3.0:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:59 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:59 easybuild

x86_64/generic/software/SAMtools/1.16.1-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:00 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:00 easybuild
dr-xr-xr-x 4 cvmfs cvmfs 4096 Oct  5 21:00 include
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:00 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 21:00 lib64 -> lib
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:00 share

x86_64/intel/broadwell/software/BAMM/2.5.0-foss-2022a:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:47 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:47 easybuild

x86_64/intel/broadwell/software/BamTools/2.5.2-GCC-11.3.0:
total 19
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:48 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:48 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:48 include
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:48 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 20:48 lib64 -> lib

x86_64/intel/broadwell/software/BCFtools/1.15.1-GCC-11.3.0:
total 18
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:53 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:53 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:53 libexec
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:53 share

x86_64/intel/broadwell/software/Bowtie2/2.4.5-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:54 bin
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 doc
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:55 easybuild
dr-xr-xr-x 5 cvmfs cvmfs 4096 Jan 17  2022 example
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 scripts

x86_64/intel/broadwell/software/FastTree/2.1.11-GCCcore-11.3.0:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:55 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:55 easybuild

x86_64/intel/broadwell/software/SAMtools/1.16.1-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:56 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:56 easybuild
dr-xr-xr-x 4 cvmfs cvmfs 4096 Oct  5 20:56 include
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:56 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 20:56 lib64 -> lib
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:56 share

x86_64/intel/cascadelake/software/BAMM/2.5.0-foss-2022a:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:52 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:53 easybuild

x86_64/intel/cascadelake/software/BamTools/2.5.2-GCC-11.3.0:
total 19
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:53 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:53 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:53 include
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:53 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 20:53 lib64 -> lib

x86_64/intel/cascadelake/software/BCFtools/1.15.1-GCC-11.3.0:
total 18
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:56 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:56 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:56 libexec
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:56 share

x86_64/intel/cascadelake/software/Bowtie2/2.4.5-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:57 bin
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 doc
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:58 easybuild
dr-xr-xr-x 5 cvmfs cvmfs 4096 Jan 17  2022 example
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 scripts

x86_64/intel/cascadelake/software/FastTree/2.1.11-GCCcore-11.3.0:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:58 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:58 easybuild

x86_64/intel/cascadelake/software/SAMtools/1.16.1-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:59 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:59 easybuild
dr-xr-xr-x 4 cvmfs cvmfs 4096 Oct  5 20:59 include
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:59 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 20:59 lib64 -> lib
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:59 share

x86_64/intel/skylake_avx512/software/BAMM/2.5.0-foss-2022a:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:56 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:56 easybuild

x86_64/intel/skylake_avx512/software/BamTools/2.5.2-GCC-11.3.0:
total 19
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:57 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:57 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:57 include
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:57 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 20:57 lib64 -> lib

x86_64/intel/skylake_avx512/software/BCFtools/1.15.1-GCC-11.3.0:
total 18
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 20:59 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:59 easybuild
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:59 libexec
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 20:59 share

x86_64/intel/skylake_avx512/software/Bowtie2/2.4.5-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:00 bin
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 doc
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:01 easybuild
dr-xr-xr-x 5 cvmfs cvmfs 4096 Jan 17  2022 example
dr-xr-xr-x 2 cvmfs cvmfs 4096 Jan 17  2022 scripts

x86_64/intel/skylake_avx512/software/FastTree/2.1.11-GCCcore-11.3.0:
total 9
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:01 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:01 easybuild

x86_64/intel/skylake_avx512/software/SAMtools/1.16.1-GCC-11.3.0:
total 23
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:02 bin
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:02 easybuild
dr-xr-xr-x 4 cvmfs cvmfs 4096 Oct  5 21:02 include
dr-xr-xr-x 2 cvmfs cvmfs 4096 Oct  5 21:02 lib
lrwxrwxrwx 1 cvmfs cvmfs    3 Oct  5 21:02 lib64 -> lib
dr-xr-xr-x 3 cvmfs cvmfs 4096 Oct  5 21:02 share

poksumdo

Looks good.

bio packages - set 1

05eba73

trz42 added the NESSI/2023.06 label Oct 5, 2023

truib added 2 commits October 5, 2023 23:17

add new easystack file to CI

2f85702

reverting change on _OVERRIDE + shorter test label

920fa09

trz42 added the bot:deploy label Oct 6, 2023

truib added 6 commits October 6, 2023 09:38

show EasyBuild config when running script

37209de

run check script with and without _OVERRIDE

54e5111

run some steps if preceeding test(s) failed

0e58034

updated CI to reduce number of tests

4872638

call 'eb --show-config' for each easystack file being processed

5300d76

revert back to have yml-file times architecture tests

7cd9277

trz42 mentioned this pull request Oct 6, 2023

CI for testing if EESSI stack is available is only checking single architecture EESSI/software-layer#349

Closed

poksumdo approved these changes Oct 6, 2023

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poksumdo merged commit b95d8c7 into NorESSI:nessi.no-2023.06 Oct 6, 2023
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trz42 added the ingested label Oct 6, 2023

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{2023.06}[foss/2022a] bio packages - set 1 #179

{2023.06}[foss/2022a] bio packages - set 1 #179

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{2023.06}[foss/2022a] bio packages - set 1 #179

{2023.06}[foss/2022a] bio packages - set 1 #179

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