{2023.06}[foss/2023a] GATK v4.5.0.0 #381

trz42 · 2024-05-27T20:31:52Z

Add GATK v4.5.0.0

SPDX license identifier: Apache-2.0

Missing packages:

3 out of 12 required modules missing:

* Java/17.0.6 (Java-17.0.6.eb)
* Java/17 (Java-17.eb)
* GATK/4.5.0.0-GCCcore-12.3.0-Java-17 (GATK-4.5.0.0-GCCcore-12.3.0-Java-17.eb)

nessi-bot · 2024-05-27T20:31:56Z

Instance AWS-MC-NESSI is configured to build for:

architectures: x86_64/generic, x86_64/intel/skylake_avx512, x86_64/amd/zen2, aarch64/generic
repositories: nessi-2023.06-swl-deb11, nessi-2023.06-cl, nessi-2023.06-swl-deb10

nessi-bot · 2024-05-27T20:31:56Z

Instance eX3-NESSI is configured to build for:

architectures: x86_64/amd/zen2, aarch64/generic
repositories: nessi-2023.06-swl-deb10, nessi-2023.06-cl, nessi-2023.06-swl-deb11

nessi-bot · 2024-05-27T20:31:56Z

Instance Fram-NESSI is configured to build for:

architectures: x86_64/generic, x86_64/intel/broadwell
repositories: nessi-2023.06-swl-deb10, nessi-2023.06-cl, nessi-2023.06-swl-deb11

nessi-bot · 2024-05-27T20:31:56Z

Instance Saga-NESSI is configured to build for:

architectures: x86_64/intel/skylake_avx512, x86_64/intel/broadwell, x86_64/generic
repositories: nessi-2023.06-swl-deb10, nessi-2023.06-cl, nessi-2023.06-swl-deb11

trz42 · 2024-05-27T20:33:27Z

bot: build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell
bot: build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/skylake
bot: build inst:eX3-NESSI repo:nessi-2023.06-swl-deb10 arch:aarch64/generic
bot: build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:zen2
bot: build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/generic

nessi-bot · 2024-05-27T20:33:30Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/skylake from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/skylake
received bot command build inst:eX3-NESSI repo:nessi-2023.06-swl-deb10 arch:aarch64/generic from trz42
- expanded format: build instance:eX3-NESSI repository:nessi-2023.06-swl-deb10 architecture:aarch64/generic
received bot command build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:zen2 from trz42
- expanded format: build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:zen2
received bot command build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/generic from trz42
- expanded format: build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- no jobs were submitted
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/skylake resulted in:
- no jobs were submitted
handling command build instance:eX3-NESSI repository:nessi-2023.06-swl-deb10 architecture:aarch64/generic resulted in:
- no jobs were submitted
handling command build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:zen2 resulted in:
- submitted job 11570, for details & status see {2023.06}[foss/2023a] GATK v4.5.0.0 #381 (comment)
handling command build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic resulted in:
- submitted job 11571, for details & status see {2023.06}[foss/2023a] GATK v4.5.0.0 #381 (comment)

nessi-bot · 2024-05-27T20:33:30Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/skylake from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/skylake
received bot command build inst:eX3-NESSI repo:nessi-2023.06-swl-deb10 arch:aarch64/generic from trz42
- expanded format: build instance:eX3-NESSI repository:nessi-2023.06-swl-deb10 architecture:aarch64/generic
received bot command build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:zen2 from trz42
- expanded format: build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:zen2
received bot command build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/generic from trz42
- expanded format: build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- no jobs were submitted
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/skylake resulted in:
- no jobs were submitted
handling command build instance:eX3-NESSI repository:nessi-2023.06-swl-deb10 architecture:aarch64/generic resulted in:
- submitted job 213241, for details & status see {2023.06}[foss/2023a] GATK v4.5.0.0 #381 (comment)
handling command build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:zen2 resulted in:
- no jobs were submitted
handling command build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic resulted in:
- no jobs were submitted

nessi-bot · 2024-05-27T20:33:30Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/skylake from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/skylake
received bot command build inst:eX3-NESSI repo:nessi-2023.06-swl-deb10 arch:aarch64/generic from trz42
- expanded format: build instance:eX3-NESSI repository:nessi-2023.06-swl-deb10 architecture:aarch64/generic
received bot command build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:zen2 from trz42
- expanded format: build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:zen2
received bot command build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/generic from trz42
- expanded format: build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- submitted job 11680383, for details & status see {2023.06}[foss/2023a] GATK v4.5.0.0 #381 (comment)
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/skylake resulted in:
- submitted job 11680384, for details & status see {2023.06}[foss/2023a] GATK v4.5.0.0 #381 (comment)
handling command build instance:eX3-NESSI repository:nessi-2023.06-swl-deb10 architecture:aarch64/generic resulted in:
- no jobs were submitted
handling command build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:zen2 resulted in:
- no jobs were submitted
handling command build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic resulted in:
- no jobs were submitted

nessi-bot · 2024-05-27T20:33:30Z

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

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

nessi-bot · 2024-05-27T20:33:36Z

New job on instance eX3-NESSI for architecture aarch64-generic for repository nessi-2023.06-swl-deb10 in job dir /home/thomarob/pilot.nessi.no/jobs/2024.05/pr_381/213241

date	job status	comment
May 27 08:33:35 PM UTC 2024	submitted	job id `213241` awaits release by job manager
May 27 08:33:45 PM UTC 2024	released	job awaits launch by Slurm scheduler
May 27 08:34:51 PM UTC 2024	running	job `213241` is running
May 27 09:15:46 PM UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-213241.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-1716842835.tar.gz` size: 887 MiB (930901048 bytes) entries: 1477 modules under 2023.06/software/linux/aarch64/generic/modules/all `GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua` `Java/17.0.6.lua` `Java/.modulerc.lua` software under 2023.06/software/linux/aarch64/generic/software `GATK/4.5.0.0-GCCcore-12.3.0-Java-17` `Java/17.0.6` other under 2023.06/software/linux/aarch64/generic no other files in tarball
May 27 09:15:46 PM UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 7/7 test case(s) from 7 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-213241.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 28 10:03:32 PM UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-aarch64-generic-1716842835.tar.gz` to S3 bucket succeeded
May 28 10:11:29 PM UTC 2024	staged	tarball `eessi-2023.06-software-linux-aarch64-generic-1716842835.tar.gz` downloaded to Stratum-0
May 28 10:13:22 PM UTC 2024	pr_opened	merge PR https://github.com/NorESSI/2024-staging/pull/406 to approve ingest
May 28 10:20:47 PM UTC 2024	approved	👍 tarball `eessi-2023.06-software-linux-aarch64-generic-1716842835.tar.gz` approved, see PR https://github.com/NorESSI/2024-staging/pull/406
May 28 10:24:56 PM UTC 2024	ingested	🎉 tarball `eessi-2023.06-software-linux-aarch64-generic-1716842835.tar.gz` successfully ingested at `2023.06/software/linux/aarch64/generic/`

nessi-bot · 2024-05-27T20:33:36Z

New job on instance AWS-MC-NESSI for architecture x86_64-amd-zen2 for repository nessi-2023.06-swl-deb11 in job dir /project/def-nessi/SHARED/jobs/2024.05/pr_381/11570

date	job status	comment
May 27 20:33:35 UTC 2024	submitted	job id `11570` awaits release by job manager
May 27 20:34:00 UTC 2024	released	job awaits launch by Slurm scheduler
May 27 20:39:04 UTC 2024	running	job `11570` is running
May 27 21:10:53 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-11570.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-zen2-1716843115.tar.gz` size: 889 MiB (932194392 bytes) entries: 1478 modules under 2023.06/software/linux/x86_64/amd/zen2/modules/all `GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua` `Java/17.0.6.lua` `Java/.modulerc.lua` software under 2023.06/software/linux/x86_64/amd/zen2/software `GATK/4.5.0.0-GCCcore-12.3.0-Java-17` `Java/17.0.6` other under 2023.06/software/linux/x86_64/amd/zen2 no other files in tarball
May 27 21:10:53 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 7/7 test case(s) from 7 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-11570.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 28 22:03:38 UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-amd-zen2-1716843115.tar.gz` to S3 bucket succeeded
May 28 10:11:54 PM UTC 2024	staged	tarball `eessi-2023.06-software-linux-x86_64-amd-zen2-1716843115.tar.gz` downloaded to Stratum-0
May 28 10:13:44 PM UTC 2024	pr_opened	merge PR https://github.com/NorESSI/2024-staging/pull/407 to approve ingest
May 28 10:20:51 PM UTC 2024	approved	👍 tarball `eessi-2023.06-software-linux-x86_64-amd-zen2-1716843115.tar.gz` approved, see PR https://github.com/NorESSI/2024-staging/pull/407
May 28 10:27:19 PM UTC 2024	ingested	🎉 tarball `eessi-2023.06-software-linux-x86_64-amd-zen2-1716843115.tar.gz` successfully ingested at `2023.06/software/linux/x86_64/amd/zen2/`

nessi-bot · 2024-05-27T20:33:39Z

New job on instance AWS-MC-NESSI for architecture x86_64-generic for repository nessi-2023.06-swl-deb11 in job dir /project/def-nessi/SHARED/jobs/2024.05/pr_381/11571

date	job status	comment
May 27 20:33:39 UTC 2024	submitted	job id `11571` awaits release by job manager
May 27 20:34:02 UTC 2024	released	job awaits launch by Slurm scheduler
May 27 20:53:20 UTC 2024	finished	🤷 UNKNOWN (click triangle for details) Job results file `_bot_job11571.result` does not exist in job directory, or parsing it failed. No artefacts were found/reported.
May 27 20:53:20 UTC 2024	test result	🤷 UNKNOWN (click triangle for details) Job test file `_bot_job11571.test` does not exist in job directory, or parsing it failed.

nessi-bot · 2024-05-27T20:33:42Z

New job on instance Saga-NESSI for architecture x86_64-intel-broadwell for repository nessi-2023.06-swl-deb11 in job dir /cluster/projects/nn9992k/pilot.nessi.no/jobs/2024.05/pr_381/11680383

date	job status	comment
May 27 08:33:41 PM UTC 2024	submitted	job id `11680383` awaits release by job manager
May 27 08:34:42 PM UTC 2024	released	job awaits launch by Slurm scheduler
May 28 05:46:01 AM UTC 2024	running	job `11680383` is running
May 28 07:15:57 AM UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-11680383.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-1716876351.tar.gz` size: 889 MiB (932199221 bytes) entries: 1478 modules under 2023.06/software/linux/x86_64/intel/broadwell/modules/all `GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua` `Java/17.0.6.lua` `Java/.modulerc.lua` software under 2023.06/software/linux/x86_64/intel/broadwell/software `GATK/4.5.0.0-GCCcore-12.3.0-Java-17` `Java/17.0.6` other under 2023.06/software/linux/x86_64/intel/broadwell no other files in tarball
May 28 07:15:57 AM UTC 2024	test result	🤷 UNKNOWN (click triangle for details) Job test file `_bot_job11680383.test` does not exist in job directory, or parsing it failed.

nessi-bot · 2024-05-27T20:33:53Z

New job on instance Saga-NESSI for architecture x86_64-intel-skylake_avx512 for repository nessi-2023.06-swl-deb11 in job dir /cluster/projects/nn9992k/pilot.nessi.no/jobs/2024.05/pr_381/11680384

date	job status	comment
May 27 08:33:52 PM UTC 2024	submitted	job id `11680384` awaits release by job manager
May 27 08:34:44 PM UTC 2024	released	job awaits launch by Slurm scheduler
May 27 08:35:50 PM UTC 2024	running	job `11680384` is running
May 27 09:20:16 PM UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-11680384.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_avx512-1716843185.tar.gz` size: 889 MiB (932208791 bytes) entries: 1478 modules under 2023.06/software/linux/x86_64/intel/skylake_avx512/modules/all `GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua` `Java/17.0.6.lua` `Java/.modulerc.lua` software under 2023.06/software/linux/x86_64/intel/skylake_avx512/software `GATK/4.5.0.0-GCCcore-12.3.0-Java-17` `Java/17.0.6` other under 2023.06/software/linux/x86_64/intel/skylake_avx512 no other files in tarball
May 27 09:20:16 PM UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 7/7 test case(s) from 7 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-11680384.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 28 10:04:55 PM UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-intel-skylake_avx512-1716843185.tar.gz` to S3 bucket succeeded
May 28 10:12:43 PM UTC 2024	staged	tarball `eessi-2023.06-software-linux-x86_64-intel-skylake_avx512-1716843185.tar.gz` downloaded to Stratum-0
May 28 10:14:51 PM UTC 2024	pr_opened	merge PR https://github.com/NorESSI/2024-staging/pull/410 to approve ingest
May 28 10:21:02 PM UTC 2024	approved	👍 tarball `eessi-2023.06-software-linux-x86_64-intel-skylake_avx512-1716843185.tar.gz` approved, see PR https://github.com/NorESSI/2024-staging/pull/410
May 28 10:36:02 PM UTC 2024	ingested	🎉 tarball `eessi-2023.06-software-linux-x86_64-intel-skylake_avx512-1716843185.tar.gz` successfully ingested at `2023.06/software/linux/x86_64/intel/skylake_avx512/`

trz42 · 2024-05-27T20:51:47Z

bot: build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/generic

nessi-bot · 2024-05-27T20:51:50Z

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

received bot command build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/generic from trz42
- expanded format: build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic
handling command build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic resulted in:
- no jobs were submitted

nessi-bot · 2024-05-27T20:51:50Z

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

received bot command build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/generic from trz42
- expanded format: build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic
handling command build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic resulted in:
- no jobs were submitted

nessi-bot · 2024-05-27T20:51:50Z

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

received bot command build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/generic from trz42
- expanded format: build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic
handling command build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic resulted in:
- no jobs were submitted

nessi-bot · 2024-05-27T20:51:50Z

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

received bot command build inst:AWS-MC-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/generic from trz42
- expanded format: build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic
handling command build instance:AWS-MC-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/generic resulted in:
- submitted job 11572, for details & status see {2023.06}[foss/2023a] GATK v4.5.0.0 #381 (comment)

nessi-bot · 2024-05-27T20:51:57Z

New job on instance AWS-MC-NESSI for architecture x86_64-generic for repository nessi-2023.06-swl-deb11 in job dir /project/def-nessi/SHARED/jobs/2024.05/pr_381/11572

date	job status	comment
May 27 20:51:56 UTC 2024	submitted	job id `11572` awaits release by job manager
May 27 20:52:18 UTC 2024	released	job awaits launch by Slurm scheduler
May 27 20:56:26 UTC 2024	running	job `11572` is running
May 27 21:33:16 UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-11572.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-1716844214.tar.gz` size: 889 MiB (932193561 bytes) entries: 1478 modules under 2023.06/software/linux/x86_64/generic/modules/all `GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua` `Java/17.0.6.lua` `Java/.modulerc.lua` software under 2023.06/software/linux/x86_64/generic/software `GATK/4.5.0.0-GCCcore-12.3.0-Java-17` `Java/17.0.6` other under 2023.06/software/linux/x86_64/generic no other files in tarball
May 27 21:33:16 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 7/7 test case(s) from 7 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-11572.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 28 22:04:54 UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-generic-1716844214.tar.gz` to S3 bucket succeeded
May 28 10:12:05 PM UTC 2024	staged	tarball `eessi-2023.06-software-linux-x86_64-generic-1716844214.tar.gz` downloaded to Stratum-0
May 28 10:14:07 PM UTC 2024	pr_opened	merge PR https://github.com/NorESSI/2024-staging/pull/408 to approve ingest
May 28 10:20:55 PM UTC 2024	approved	👍 tarball `eessi-2023.06-software-linux-x86_64-generic-1716844214.tar.gz` approved, see PR https://github.com/NorESSI/2024-staging/pull/408
May 28 10:29:43 PM UTC 2024	ingested	🎉 tarball `eessi-2023.06-software-linux-x86_64-generic-1716844214.tar.gz` successfully ingested at `2023.06/software/linux/x86_64/generic/`

trz42 · 2024-05-28T08:09:40Z

Repeat job on Broadwell

bot: build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell

nessi-bot · 2024-05-28T08:09:43Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- no jobs were submitted

nessi-bot · 2024-05-28T08:09:43Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell

nessi-bot · 2024-05-28T08:09:43Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- submitted job 11683754, for details & status see {2023.06}[foss/2023a] GATK v4.5.0.0 #381 (comment)

nessi-bot · 2024-05-28T08:09:44Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- no jobs were submitted

nessi-bot · 2024-05-28T08:09:54Z

New job on instance Saga-NESSI for architecture x86_64-intel-broadwell for repository nessi-2023.06-swl-deb11 in job dir /cluster/projects/nn9992k/pilot.nessi.no/jobs/2024.05/pr_381/11683754

date	job status	comment
May 28 08:09:53 AM UTC 2024	submitted	job id `11683754` awaits release by job manager
May 28 08:10:08 AM UTC 2024	released	job awaits launch by Slurm scheduler
May 28 08:11:10 AM UTC 2024	running	job `11683754` is running
May 28 10:02:44 AM UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-11683754.out` ❌ found message matching `ERROR:` ✅ no message matching `FAILED:` ✅ no 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-intel-broadwell-1716884956.tar.gz` size: 889 MiB (932202713 bytes) entries: 1478 modules under 2023.06/software/linux/x86_64/intel/broadwell/modules/all `GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua` `Java/17.0.6.lua` `Java/.modulerc.lua` software under 2023.06/software/linux/x86_64/intel/broadwell/software `GATK/4.5.0.0-GCCcore-12.3.0-Java-17` `Java/17.0.6` other under 2023.06/software/linux/x86_64/intel/broadwell no other files in tarball
May 28 10:02:44 AM UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 7/7 test case(s) from 7 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-11683754.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

…into nessi-2023.06-GATK-4.5.0.0-2023a

trz42 · 2024-05-28T20:44:31Z

Repeat job on Broadwell (after fixing ipympl issue and pruning number of ReFrame tests run after build step)...

bot: build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell

nessi-bot · 2024-05-28T20:44:33Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- no jobs were submitted

nessi-bot · 2024-05-28T20:44:33Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- no jobs were submitted

nessi-bot · 2024-05-28T20:44:33Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- no jobs were submitted

nessi-bot · 2024-05-28T20:44:33Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- submitted job 11692397, for details & status see {2023.06}[foss/2023a] GATK v4.5.0.0 #381 (comment)

nessi-bot · 2024-05-28T20:44:40Z

New job on instance Saga-NESSI for architecture x86_64-intel-broadwell for repository nessi-2023.06-swl-deb11 in job dir /cluster/projects/nn9992k/pilot.nessi.no/jobs/2024.05/pr_381/11692397

date	job status	comment
May 28 08:44:39 PM UTC 2024	submitted	job id `11692397` awaits release by job manager
May 28 08:45:14 PM UTC 2024	released	job awaits launch by Slurm scheduler
May 28 08:46:17 PM UTC 2024	running	job `11692397` is running
May 28 09:18:08 PM UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-11692397.out` ❌ found message matching `ERROR:` ✅ no message matching `FAILED:` ✅ no 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-intel-broadwell-1716930209.tar.gz` size: 889 MiB (932205386 bytes) entries: 1478 modules under 2023.06/software/linux/x86_64/intel/broadwell/modules/all `GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua` `Java/17.0.6.lua` `Java/.modulerc.lua` software under 2023.06/software/linux/x86_64/intel/broadwell/software `GATK/4.5.0.0-GCCcore-12.3.0-Java-17` `Java/17.0.6` other under 2023.06/software/linux/x86_64/intel/broadwell no other files in tarball
May 28 09:18:08 PM UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 4/4 test case(s) from 4 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-11692397.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

…into nessi-2023.06-GATK-4.5.0.0-2023a

trz42 · 2024-05-28T21:12:36Z

Checklist before starting deployment (setting bot:deploy label):

Check if the SPDX license identifier is provided
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)
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 · 2024-05-28T21:21:37Z

Repeat job on Broadwell (after fixing ipympl issue and pruning number of ReFrame tests run after build step)...

bot: build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell

nessi-bot · 2024-05-28T21:21:40Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- no jobs were submitted

nessi-bot · 2024-05-28T21:21:40Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- no jobs were submitted

nessi-bot · 2024-05-28T21:21:40Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- no jobs were submitted

nessi-bot · 2024-05-28T21:21:40Z

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

received bot command build inst:Saga-NESSI repo:nessi-2023.06-swl-deb11 arch:x86_64/intel/broadwell from trz42
- expanded format: build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell
handling command build instance:Saga-NESSI repository:nessi-2023.06-swl-deb11 architecture:x86_64/intel/broadwell resulted in:
- submitted job 11692623, for details & status see {2023.06}[foss/2023a] GATK v4.5.0.0 #381 (comment)

nessi-bot · 2024-05-28T21:21:53Z

New job on instance Saga-NESSI for architecture x86_64-intel-broadwell for repository nessi-2023.06-swl-deb11 in job dir /cluster/projects/nn9992k/pilot.nessi.no/jobs/2024.05/pr_381/11692623

date	job status	comment
May 28 09:21:52 PM UTC 2024	submitted	job id `11692623` awaits release by job manager
May 28 09:22:12 PM UTC 2024	released	job awaits launch by Slurm scheduler
May 28 09:23:15 PM UTC 2024	running	job `11692623` is running
May 28 09:57:10 PM UTC 2024	finished	😁 SUCCESS (click triangle for details) Details ✅ job output file `slurm-11692623.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-1716932535.tar.gz` size: 889 MiB (932198670 bytes) entries: 1478 modules under 2023.06/software/linux/x86_64/intel/broadwell/modules/all `GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua` `Java/17.0.6.lua` `Java/.modulerc.lua` software under 2023.06/software/linux/x86_64/intel/broadwell/software `GATK/4.5.0.0-GCCcore-12.3.0-Java-17` `Java/17.0.6` other under 2023.06/software/linux/x86_64/intel/broadwell no other files in tarball
May 28 09:57:10 PM UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 4/4 test case(s) from 4 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-11692623.out` ✅ no message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`
May 28 10:03:39 PM UTC 2024	uploaded	transfer of `eessi-2023.06-software-linux-x86_64-intel-broadwell-1716932535.tar.gz` to S3 bucket succeeded
May 28 10:12:32 PM UTC 2024	staged	tarball `eessi-2023.06-software-linux-x86_64-intel-broadwell-1716932535.tar.gz` downloaded to Stratum-0
May 28 10:14:28 PM UTC 2024	pr_opened	merge PR https://github.com/NorESSI/2024-staging/pull/409 to approve ingest
May 28 10:20:59 PM UTC 2024	approved	👍 tarball `eessi-2023.06-software-linux-x86_64-intel-broadwell-1716932535.tar.gz` approved, see PR https://github.com/NorESSI/2024-staging/pull/409
May 28 10:32:29 PM UTC 2024	ingested	🎉 tarball `eessi-2023.06-software-linux-x86_64-intel-broadwell-1716932535.tar.gz` successfully ingested at `2023.06/software/linux/x86_64/intel/broadwell/`

trz42 · 2024-05-28T22:10:37Z

Target architectures

x86_64-intel-broadwell
x86_64-intel-skylake_avx512
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 staged tarball was a PR for approval/rejection opened
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)
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

BASE_DIR=/cvmfs/pilot.nessi.no/versions/2023.06/software/linux \
ARCHS=() \
ARCHS+=("aarch64/generic") ; \
ARCHS+=("x86_64/generic") ; \
ARCHS+=("x86_64/amd/zen2") ; \
ARCHS+=("x86_64/intel/broadwell") ; \
ARCHS+=("x86_64/intel/skylake_avx512") ; \
for arch in "${ARCHS[@]}"; do \
ls -l \
${BASE_DIR}/${arch}/{software,modules/all}/GATK/4.5.0.0-GCCcore-12.3.0-Java-17* \
${BASE_DIR}/${arch}/{software,modules/all}/Java/17.0.6* ; \
done

log - BEFORE ingestion

ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/aarch64/generic/software/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/aarch64/generic/modules/all/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/aarch64/generic/software/Java/17.0.6.lua*': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/aarch64/generic/modules/all/Java/17.0.6.lua*': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/generic/software/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/generic/modules/all/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/generic/software/Java/17.0.6.lua*': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/generic/modules/all/Java/17.0.6.lua*': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/amd/zen2/software/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/amd/zen2/modules/all/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/amd/zen2/software/Java/17.0.6.lua*': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/amd/zen2/modules/all/Java/17.0.6.lua*': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/broadwell/software/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/broadwell/modules/all/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/broadwell/software/Java/17.0.6.lua*': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/broadwell/modules/all/Java/17.0.6.lua*': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/skylake_avx512/software/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/skylake_avx512/modules/all/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/skylake_avx512/software/Java/17.0.6.lua*': No such file or directory
ls: cannot access '/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/skylake_avx512/modules/all/Java/17.0.6.lua*': No such file or directory

log - AFTER ingestion

-rw-r--r--  1 cvmfs cvmfs 1968 May 27 22:44 /cvmfs/pilot.nessi.no/versions/2023.06/software/linux/aarch64/generic/modules/all/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua
-rw-r--r--  1 cvmfs cvmfs 1143 May 27 22:43 /cvmfs/pilot.nessi.no/versions/2023.06/software/linux/aarch64/generic/modules/all/Java/17.0.6.lua

/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/aarch64/generic/software/GATK/4.5.0.0-GCCcore-12.3.0-Java-17:
total 759574
dr-xr-xr-x 3 cvmfs cvmfs      4096 May 27 22:44 easybuild
-r-xr-xr-x 1 cvmfs cvmfs     21097 Dec 13 17:44 gatk
-r--r--r-- 1 cvmfs cvmfs   1040338 Dec 13 17:44 gatk-completion.sh
-r--r--r-- 1 cvmfs cvmfs      4249 Dec 13 17:44 gatkcondaenv.yml
-r--r--r-- 1 cvmfs cvmfs      3630 Dec 13 17:44 GATKConfig.EXAMPLE.properties
dr-xr-xr-x 2 cvmfs cvmfs      4096 Dec 13 17:44 gatkdoc
-r--r--r-- 1 cvmfs cvmfs 442046045 Dec 13 17:44 gatk-package-4.5.0.0-local.jar
-r--r--r-- 1 cvmfs cvmfs 334511810 Dec 13 17:44 gatk-package-4.5.0.0-spark.jar
-r--r--r-- 1 cvmfs cvmfs    119765 Dec 13 17:44 gatkPythonPackageArchive.zip
-r--r--r-- 1 cvmfs cvmfs     40565 Dec 13 17:44 README.md
dr-xr-xr-x 5 cvmfs cvmfs      4096 Dec 13 17:44 scripts

/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/aarch64/generic/software/Java/17.0.6:
total 41
dr-xr-xr-x  2 cvmfs cvmfs 4096 Jan 18  2023 bin
dr-xr-xr-x  5 cvmfs cvmfs 4096 Jan 18  2023 conf
dr-xr-xr-x  3 cvmfs cvmfs 4096 May 27 22:43 easybuild
dr-xr-xr-x  3 cvmfs cvmfs 4096 Jan 18  2023 include
dr-xr-xr-x  2 cvmfs cvmfs 4096 Jan 18  2023 jmods
dr-xr-xr-x 72 cvmfs cvmfs 4096 Jan 18  2023 legal
dr-xr-xr-x  5 cvmfs cvmfs 4096 Jan 18  2023 lib
lrwxrwxrwx  1 cvmfs cvmfs    3 May 27 22:43 lib64 -> lib
dr-xr-xr-x  3 cvmfs cvmfs 4096 Jan 18  2023 man
-r--r--r--  1 cvmfs cvmfs 2439 Jan 18  2023 NOTICE
-r--r--r--  1 cvmfs cvmfs 1594 Jan 18  2023 release
-rw-rw-r--  1 cvmfs cvmfs 1967 May 27 23:08 /cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/generic/modules/all/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua
-rw-rw-r--  1 cvmfs cvmfs 1141 May 27 23:07 /cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/generic/modules/all/Java/17.0.6.lua

/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/generic/software/GATK/4.5.0.0-GCCcore-12.3.0-Java-17:
total 759574
dr-xr-xr-x 3 cvmfs cvmfs      4096 May 27 23:08 easybuild
-r-xr-xr-x 1 cvmfs cvmfs     21097 Dec 13 18:44 gatk
-r--r--r-- 1 cvmfs cvmfs   1040338 Dec 13 18:44 gatk-completion.sh
-r--r--r-- 1 cvmfs cvmfs      4249 Dec 13 18:44 gatkcondaenv.yml
-r--r--r-- 1 cvmfs cvmfs      3630 Dec 13 18:44 GATKConfig.EXAMPLE.properties
dr-xr-xr-x 2 cvmfs cvmfs      4096 Dec 13 18:44 gatkdoc
-r--r--r-- 1 cvmfs cvmfs 442046045 Dec 13 18:44 gatk-package-4.5.0.0-local.jar
-r--r--r-- 1 cvmfs cvmfs 334511810 Dec 13 18:44 gatk-package-4.5.0.0-spark.jar
-r--r--r-- 1 cvmfs cvmfs    119765 Dec 13 18:44 gatkPythonPackageArchive.zip
-r--r--r-- 1 cvmfs cvmfs     40565 Dec 13 18:44 README.md
dr-xr-xr-x 5 cvmfs cvmfs      4096 Dec 13 18:44 scripts

/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/generic/software/Java/17.0.6:
total 41
dr-xr-xr-x  2 cvmfs cvmfs 4096 Jan 18  2023 bin
dr-xr-xr-x  5 cvmfs cvmfs 4096 Jan 18  2023 conf
dr-xr-xr-x  3 cvmfs cvmfs 4096 May 27 23:07 easybuild
dr-xr-xr-x  3 cvmfs cvmfs 4096 Jan 18  2023 include
dr-xr-xr-x  2 cvmfs cvmfs 4096 Jan 18  2023 jmods
dr-xr-xr-x 72 cvmfs cvmfs 4096 Jan 18  2023 legal
dr-xr-xr-x  5 cvmfs cvmfs 4096 Jan 18  2023 lib
lrwxrwxrwx  1 cvmfs cvmfs    3 May 27 23:07 lib64 -> lib
dr-xr-xr-x  3 cvmfs cvmfs 4096 Jan 18  2023 man
-r--r--r--  1 cvmfs cvmfs 2439 Jan 18  2023 NOTICE
-r--r--r--  1 cvmfs cvmfs 1593 Jan 18  2023 release
-rw-rw-r--  1 cvmfs cvmfs 1968 May 27 22:50 /cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/amd/zen2/modules/all/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua
-rw-rw-r--  1 cvmfs cvmfs 1143 May 27 22:49 /cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/amd/zen2/modules/all/Java/17.0.6.lua

/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/amd/zen2/software/GATK/4.5.0.0-GCCcore-12.3.0-Java-17:
total 759574
dr-xr-xr-x 3 cvmfs cvmfs      4096 May 27 22:50 easybuild
-r-xr-xr-x 1 cvmfs cvmfs     21097 Dec 13 18:44 gatk
-r--r--r-- 1 cvmfs cvmfs   1040338 Dec 13 18:44 gatk-completion.sh
-r--r--r-- 1 cvmfs cvmfs      4249 Dec 13 18:44 gatkcondaenv.yml
-r--r--r-- 1 cvmfs cvmfs      3630 Dec 13 18:44 GATKConfig.EXAMPLE.properties
dr-xr-xr-x 2 cvmfs cvmfs      4096 Dec 13 18:44 gatkdoc
-r--r--r-- 1 cvmfs cvmfs 442046045 Dec 13 18:44 gatk-package-4.5.0.0-local.jar
-r--r--r-- 1 cvmfs cvmfs 334511810 Dec 13 18:44 gatk-package-4.5.0.0-spark.jar
-r--r--r-- 1 cvmfs cvmfs    119765 Dec 13 18:44 gatkPythonPackageArchive.zip
-r--r--r-- 1 cvmfs cvmfs     40565 Dec 13 18:44 README.md
dr-xr-xr-x 5 cvmfs cvmfs      4096 Dec 13 18:44 scripts

/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/amd/zen2/software/Java/17.0.6:
total 41
dr-xr-xr-x  2 cvmfs cvmfs 4096 Jan 18  2023 bin
dr-xr-xr-x  5 cvmfs cvmfs 4096 Jan 18  2023 conf
dr-xr-xr-x  3 cvmfs cvmfs 4096 May 27 22:49 easybuild
dr-xr-xr-x  3 cvmfs cvmfs 4096 Jan 18  2023 include
dr-xr-xr-x  2 cvmfs cvmfs 4096 Jan 18  2023 jmods
dr-xr-xr-x 72 cvmfs cvmfs 4096 Jan 18  2023 legal
dr-xr-xr-x  5 cvmfs cvmfs 4096 Jan 18  2023 lib
lrwxrwxrwx  1 cvmfs cvmfs    3 May 27 22:49 lib64 -> lib
dr-xr-xr-x  3 cvmfs cvmfs 4096 Jan 18  2023 man
-r--r--r--  1 cvmfs cvmfs 2439 Jan 18  2023 NOTICE
-r--r--r--  1 cvmfs cvmfs 1593 Jan 18  2023 release
-rw-rw-r--  1 cvmfs cvmfs 1975 May 28 23:39 /cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/broadwell/modules/all/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua
-rw-rw-r--  1 cvmfs cvmfs 1157 May 28 23:37 /cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/broadwell/modules/all/Java/17.0.6.lua

/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/broadwell/software/GATK/4.5.0.0-GCCcore-12.3.0-Java-17:
total 759574
dr-xr-xr-x 3 cvmfs cvmfs      4096 May 28 23:39 easybuild
-r-xr-xr-x 1 cvmfs cvmfs     21097 Dec 13 17:44 gatk
-r--r--r-- 1 cvmfs cvmfs   1040338 Dec 13 17:44 gatk-completion.sh
-r--r--r-- 1 cvmfs cvmfs      4249 Dec 13 17:44 gatkcondaenv.yml
-r--r--r-- 1 cvmfs cvmfs      3630 Dec 13 17:44 GATKConfig.EXAMPLE.properties
dr-xr-xr-x 2 cvmfs cvmfs      4096 Dec 13 17:44 gatkdoc
-r--r--r-- 1 cvmfs cvmfs 442046045 Dec 13 17:44 gatk-package-4.5.0.0-local.jar
-r--r--r-- 1 cvmfs cvmfs 334511810 Dec 13 17:44 gatk-package-4.5.0.0-spark.jar
-r--r--r-- 1 cvmfs cvmfs    119765 Dec 13 17:44 gatkPythonPackageArchive.zip
-r--r--r-- 1 cvmfs cvmfs     40565 Dec 13 17:44 README.md
dr-xr-xr-x 5 cvmfs cvmfs      4096 Dec 13 17:44 scripts

/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/broadwell/software/Java/17.0.6:
total 41
dr-xr-xr-x  2 cvmfs cvmfs 4096 Jan 18  2023 bin
dr-xr-xr-x  5 cvmfs cvmfs 4096 Jan 18  2023 conf
dr-xr-xr-x  3 cvmfs cvmfs 4096 May 28 23:38 easybuild
dr-xr-xr-x  3 cvmfs cvmfs 4096 Jan 18  2023 include
dr-xr-xr-x  2 cvmfs cvmfs 4096 Jan 18  2023 jmods
dr-xr-xr-x 72 cvmfs cvmfs 4096 Jan 18  2023 legal
dr-xr-xr-x  5 cvmfs cvmfs 4096 Jan 18  2023 lib
lrwxrwxrwx  1 cvmfs cvmfs    3 May 28 23:37 lib64 -> lib
dr-xr-xr-x  3 cvmfs cvmfs 4096 Jan 18  2023 man
-r--r--r--  1 cvmfs cvmfs 2439 Jan 18  2023 NOTICE
-r--r--r--  1 cvmfs cvmfs 1593 Jan 18  2023 release
-rw-rw-r--  1 cvmfs cvmfs 1980 May 27 22:49 /cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/skylake_avx512/modules/all/GATK/4.5.0.0-GCCcore-12.3.0-Java-17.lua
-rw-rw-r--  1 cvmfs cvmfs 1167 May 27 22:47 /cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/skylake_avx512/modules/all/Java/17.0.6.lua

/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/skylake_avx512/software/GATK/4.5.0.0-GCCcore-12.3.0-Java-17:
total 759574
dr-xr-xr-x 3 cvmfs cvmfs      4096 May 27 22:50 easybuild
-r-xr-xr-x 1 cvmfs cvmfs     21097 Dec 13 17:44 gatk
-r--r--r-- 1 cvmfs cvmfs   1040338 Dec 13 17:44 gatk-completion.sh
-r--r--r-- 1 cvmfs cvmfs      4249 Dec 13 17:44 gatkcondaenv.yml
-r--r--r-- 1 cvmfs cvmfs      3630 Dec 13 17:44 GATKConfig.EXAMPLE.properties
dr-xr-xr-x 2 cvmfs cvmfs      4096 Dec 13 17:44 gatkdoc
-r--r--r-- 1 cvmfs cvmfs 442046045 Dec 13 17:44 gatk-package-4.5.0.0-local.jar
-r--r--r-- 1 cvmfs cvmfs 334511810 Dec 13 17:44 gatk-package-4.5.0.0-spark.jar
-r--r--r-- 1 cvmfs cvmfs    119765 Dec 13 17:44 gatkPythonPackageArchive.zip
-r--r--r-- 1 cvmfs cvmfs     40565 Dec 13 17:44 README.md
dr-xr-xr-x 5 cvmfs cvmfs      4096 Dec 13 17:44 scripts

/cvmfs/pilot.nessi.no/versions/2023.06/software/linux/x86_64/intel/skylake_avx512/software/Java/17.0.6:
total 41
dr-xr-xr-x  2 cvmfs cvmfs 4096 Jan 18  2023 bin
dr-xr-xr-x  5 cvmfs cvmfs 4096 Jan 18  2023 conf
dr-xr-xr-x  3 cvmfs cvmfs 4096 May 27 22:47 easybuild
dr-xr-xr-x  3 cvmfs cvmfs 4096 Jan 18  2023 include
dr-xr-xr-x  2 cvmfs cvmfs 4096 Jan 18  2023 jmods
dr-xr-xr-x 72 cvmfs cvmfs 4096 Jan 18  2023 legal
dr-xr-xr-x  5 cvmfs cvmfs 4096 Jan 18  2023 lib
lrwxrwxrwx  1 cvmfs cvmfs    3 May 27 22:47 lib64 -> lib
dr-xr-xr-x  3 cvmfs cvmfs 4096 Jan 18  2023 man
-r--r--r--  1 cvmfs cvmfs 2439 Jan 18  2023 NOTICE
-r--r--r--  1 cvmfs cvmfs 1593 Jan 18  2023 release

poksumdo

nice

{2023.06}[foss/2023a] GATK v4.5.0.0

e2dc0db

trz42 added the NESSI/2023.06 label May 27, 2024

Merge branch 'nessi.no-2023.06' of github-trz:NorESSI/software-layer …

f2f4bc3

…into nessi-2023.06-GATK-4.5.0.0-2023a

Merge branch 'nessi.no-2023.06' of github-trz:NorESSI/software-layer …

6b10e74

…into nessi-2023.06-GATK-4.5.0.0-2023a

trz42 added the bot:deploy label May 28, 2024

poksumdo added the ingested label May 28, 2024

poksumdo approved these changes May 28, 2024

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poksumdo merged commit e06f0d4 into NorESSI:nessi.no-2023.06 May 28, 2024
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{2023.06}[foss/2023a] GATK v4.5.0.0 #381

{2023.06}[foss/2023a] GATK v4.5.0.0 #381

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