{2023.06}[foss/2023a] Single-cell-python-bundle 2024.02 #637

boegel · 2024-07-06T09:19:01Z

83 out of 303 required modules missing:

* gawk/5.3.0-GCC-12.3.0 (gawk-5.3.0-GCC-12.3.0.eb)
* mm-common/1.0.6-GCCcore-12.3.0 (mm-common-1.0.6-GCCcore-12.3.0.eb)
* sparsehash/2.0.4-GCCcore-12.3.0 (sparsehash-2.0.4-GCCcore-12.3.0.eb)
* libsigc++/3.6.0-GCCcore-12.3.0 (libsigc++-3.6.0-GCCcore-12.3.0.eb)
* Boost.Python/1.82.0-GCC-12.3.0 (Boost.Python-1.82.0-GCC-12.3.0.eb)
* tqdm/4.66.1-GCCcore-12.3.0 (tqdm-4.66.1-GCCcore-12.3.0.eb)
* PyCairo/1.25.0-GCCcore-12.3.0 (PyCairo-1.25.0-GCCcore-12.3.0.eb)
* cairomm/1.16.2-GCC-12.3.0 (cairomm-1.16.2-GCC-12.3.0.eb)
* PyGObject/3.46.0-GCCcore-12.3.0 (PyGObject-3.46.0-GCCcore-12.3.0.eb)
* LLVM/14.0.6-GCCcore-12.3.0-llvmlite (LLVM-14.0.6-GCCcore-12.3.0-llvmlite.eb)
* numba/0.58.1-foss-2023a (numba-0.58.1-foss-2023a.eb)
* Pyomo/6.7.3-foss-2023a (Pyomo-6.7.3-foss-2023a.eb)
* statsmodels/0.14.1-gfbf-2023a (statsmodels-0.14.1-gfbf-2023a.eb)
* scikit-misc/0.3.1-foss-2023a (scikit-misc-0.3.1-foss-2023a.eb)
* anndata/0.10.5.post1-foss-2023a (anndata-0.10.5.post1-foss-2023a.eb)
* pydot/2.0.0-GCCcore-12.3.0 (pydot-2.0.0-GCCcore-12.3.0.eb)
* openpyxl/3.1.2-GCCcore-12.3.0 (openpyxl-3.1.2-GCCcore-12.3.0.eb)
* umap-learn/0.5.5-foss-2023a (umap-learn-0.5.5-foss-2023a.eb)
* Seaborn/0.13.2-gfbf-2023a (Seaborn-0.13.2-gfbf-2023a.eb)
* scanpy/1.9.8-foss-2023a (scanpy-1.9.8-foss-2023a.eb)
* Rust/1.75.0-GCCcore-12.3.0 (Rust-1.75.0-GCCcore-12.3.0.eb)
* maturin/1.4.0-GCCcore-12.3.0-Rust-1.75.0 (maturin-1.4.0-GCCcore-12.3.0-Rust-1.75.0.eb)
* poetry/1.7.1-GCCcore-12.3.0 (poetry-1.7.1-GCCcore-12.3.0.eb)
* loompy/3.0.7-foss-2023a (loompy-3.0.7-foss-2023a.eb)
* scVelo/0.3.1-foss-2023a (scVelo-0.3.1-foss-2023a.eb)
* dm-tree/0.1.8-GCCcore-12.3.0 (dm-tree-0.1.8-GCCcore-12.3.0.eb)
* igraph/0.10.10-foss-2023a (igraph-0.10.10-foss-2023a.eb)
* Deprecated/1.2.14-foss-2023a (Deprecated-1.2.14-foss-2023a.eb)
* libleidenalg/0.11.1-foss-2023a (libleidenalg-0.11.1-foss-2023a.eb)
* Clang/16.0.6-GCCcore-12.3.0 (Clang-16.0.6-GCCcore-12.3.0.eb)
* python-igraph/0.11.4-foss-2023a (python-igraph-0.11.4-foss-2023a.eb)
* epiScanpy/0.4.0-foss-2023a (epiScanpy-0.4.0-foss-2023a.eb)
* leidenalg/0.10.2-foss-2023a (leidenalg-0.10.2-foss-2023a.eb)
* scib/1.1.4-foss-2023a (scib-1.1.4-foss-2023a.eb)
* CellTypist/1.6.2-foss-2023a (CellTypist-1.6.2-foss-2023a.eb)
* biom-format/2.1.15-foss-2023a (biom-format-2.1.15-foss-2023a.eb)
* aiohttp/3.8.5-GCCcore-12.3.0 (aiohttp-3.8.5-GCCcore-12.3.0.eb)
* wandb/0.16.1-GCC-12.3.0 (wandb-0.16.1-GCC-12.3.0.eb)
* scikit-bio/0.6.0-foss-2023a (scikit-bio-0.6.0-foss-2023a.eb)
* infercnvpy/0.4.3-foss-2023a (infercnvpy-0.4.3-foss-2023a.eb)
* graph-tool/2.59-foss-2023a (graph-tool-2.59-foss-2023a.eb)
* xarray/2023.9.0-gfbf-2023a (xarray-2023.9.0-gfbf-2023a.eb)
* deepdiff/6.7.1-GCCcore-12.3.0 (deepdiff-6.7.1-GCCcore-12.3.0.eb)
* imageio/2.33.1-gfbf-2023a (imageio-2.33.1-gfbf-2023a.eb)
* netcdf4-python/1.6.4-foss-2023a (netcdf4-python-1.6.4-foss-2023a.eb)
* scikit-image/0.22.0-foss-2023a (scikit-image-0.22.0-foss-2023a.eb)
* pySCENIC/0.12.1-20240311-foss-2023a (pySCENIC-0.12.1-20240311-foss-2023a.eb)
* h5netcdf/1.2.0-foss-2023a (h5netcdf-1.2.0-foss-2023a.eb)
* tensorboardX/2.6.2.2-foss-2023a (tensorboardX-2.6.2.2-foss-2023a.eb)
* pyro-ppl/1.9.0-foss-2023a (pyro-ppl-1.9.0-foss-2023a.eb)
* tensorflow-probability/0.20.0-foss-2023a (tensorflow-probability-0.20.0-foss-2023a.eb)
* ArviZ/0.16.1-foss-2023a (ArviZ-0.16.1-foss-2023a.eb)
* adjustText/0.7.3-foss-2023a (adjustText-0.7.3-foss-2023a.eb)
* pydantic/2.5.3-GCCcore-12.3.0 (pydantic-2.5.3-GCCcore-12.3.0.eb)
* ml-collections/0.1.1-foss-2023a (ml-collections-0.1.1-foss-2023a.eb)
* ml_dtypes/0.3.2-gfbf-2023a (ml_dtypes-0.3.2-gfbf-2023a.eb)
* py-cpuinfo/9.0.0-GCCcore-12.3.0 (py-cpuinfo-9.0.0-GCCcore-12.3.0.eb)
* pytest/7.4.2-GCCcore-12.3.0 (pytest-7.4.2-GCCcore-12.3.0.eb)
* PyTorch-Lightning/2.2.1-foss-2023a (PyTorch-Lightning-2.2.1-foss-2023a.eb)
* zarr/2.17.1-foss-2023a (zarr-2.17.1-foss-2023a.eb)
* pytest-xdist/3.3.1-GCCcore-12.3.0 (pytest-xdist-3.3.1-GCCcore-12.3.0.eb)
* CellRank/2.0.2-foss-2023a (CellRank-2.0.2-foss-2023a.eb)
* jax/0.4.25-foss-2023a (jax-0.4.25-foss-2023a.eb)
* scib-metrics/0.5.1-foss-2023a (scib-metrics-0.5.1-foss-2023a.eb)
* Optax/0.2.2-foss-2023a (Optax-0.2.2-foss-2023a.eb)
* scvi-tools/1.1.2-foss-2023a (scvi-tools-1.1.2-foss-2023a.eb)
* scArches/0.6.1-foss-2023a (scArches-0.6.1-foss-2023a.eb)
* mpmath/1.3.0-GCCcore-12.3.0 (mpmath-1.3.0-GCCcore-12.3.0.eb)
* parasail/2.6.2-GCC-12.3.0 (parasail-2.6.2-GCC-12.3.0.eb)
* python-parasail/1.3.4-foss-2023a (python-parasail-1.3.4-foss-2023a.eb)
* PyGEOS/0.14-gfbf-2023a (PyGEOS-0.14-gfbf-2023a.eb)
* Shapely/2.0.1-gfbf-2023a (Shapely-2.0.1-gfbf-2023a.eb)
* psycopg2/2.9.9-GCCcore-12.3.0 (psycopg2-2.9.9-GCCcore-12.3.0.eb)
* SQLAlchemy/2.0.25-GCCcore-12.3.0 (SQLAlchemy-2.0.25-GCCcore-12.3.0.eb)
* ETE/3.1.3-foss-2023a (ETE-3.1.3-foss-2023a.eb)
* Cassiopeia/2.0.0-foss-2023a (Cassiopeia-2.0.0-foss-2023a.eb)
* pyproj/3.6.0-GCCcore-12.3.0 (pyproj-3.6.0-GCCcore-12.3.0.eb)
* Fiona/1.9.5-foss-2023a (Fiona-1.9.5-foss-2023a.eb)
* rpy2/3.5.15-foss-2023a (rpy2-3.5.15-foss-2023a.eb)
* geopandas/0.14.2-foss-2023a (geopandas-0.14.2-foss-2023a.eb)
* scCODA/0.1.9-foss-2023a (scCODA-0.1.9-foss-2023a.eb)
* Squidpy/1.4.1-foss-2023a (Squidpy-1.4.1-foss-2023a.eb)
* Single-cell-python-bundle/2024.02-foss-2023a (Single-cell-python-bundle-2024.02-foss-2023a.eb)

This is a rich set of tools for single-cell sequence analysis, took us a long time to puzzle together (see easybuilders/easybuild-easyconfigs#20116 + vscentrum/vsc-software-stack#214).

It's a bit of a gamble whether this will work in one go, but let's give it a shot :)

eessi-bot · 2024-07-06T09:19:05Z

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

architectures: x86_64/generic, x86_64/intel/haswell, x86_64/intel/skylake_avx512, x86_64/amd/zen2, x86_64/amd/zen3, aarch64/generic, aarch64/neoverse_n1, aarch64/neoverse_v1
repositories: eessi.io-2023.06-compat, eessi-hpc.org-2023.06-software, eessi-hpc.org-2023.06-compat, eessi.io-2023.06-software

eessi-build-deploy-bot-deucalion · 2024-07-06T09:19:05Z

Instance boegel-bot-deucalion is configured to build for:

architectures: aarch64/a64fx
repositories: eessi.io-2023.06-software

eessi-bot · 2024-07-06T09:19:06Z

Instance eessi-bot-mc-azure is configured to build for:

architectures: x86_64/amd/zen4
repositories: eessi-hpc.org-2023.06-compat, eessi-hpc.org-2023.06-software, eessi.io-2023.06-software, eessi.io-2023.06-compat

boegel · 2024-07-06T09:19:19Z

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

eessi-build-deploy-bot-deucalion · 2024-07-06T09:19:22Z

Updates by the bot instance boegel-bot-deucalion (click for details)

received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1 resulted in:
- no jobs were submitted

eessi-bot · 2024-07-06T09:19:22Z

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

received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1 resulted in:
- submitted job 13969, for details & status see {2023.06}[foss/2023a] Single-cell-python-bundle 2024.02 #637 (comment)

eessi-bot · 2024-07-06T09:19:22Z

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

received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1 resulted in:
- no jobs were submitted

eessi-bot · 2024-07-06T09:19:26Z

New job on instance eessi-bot-mc-aws for architecture aarch64-neoverse_v1 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.07/pr_637/13969

date	job status	comment
Jul 06 09:19:25 UTC 2024	submitted	job id `13969` awaits release by job manager
Jul 06 09:20:15 UTC 2024	released	job awaits launch by Slurm scheduler
Jul 06 09:24:16 UTC 2024	running	job `13969` is running
Jul 06 09:42:45 UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-13969.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 No artefacts were created or found.
Jul 06 09:42:45 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 14/14 test case(s) from 14 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-13969.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

boegel · 2024-07-06T09:56:21Z

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

eessi-bot · 2024-07-06T09:56:24Z

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

received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- submitted job 13978, for details & status see {2023.06}[foss/2023a] Single-cell-python-bundle 2024.02 #637 (comment)

eessi-build-deploy-bot-deucalion · 2024-07-06T09:56:24Z

Updates by the bot instance boegel-bot-deucalion (click for details)

received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- no jobs were submitted

eessi-bot · 2024-07-06T09:56:24Z

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

received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- no jobs were submitted

eessi-bot · 2024-07-06T09:56:28Z

New job on instance eessi-bot-mc-aws for architecture x86_64-amd-zen3 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.07/pr_637/13978

date	job status	comment
Jul 06 09:56:27 UTC 2024	submitted	job id `13978` awaits release by job manager
Jul 06 09:57:11 UTC 2024	released	job awaits launch by Slurm scheduler
Jul 06 10:00:43 UTC 2024	finished	🤷 UNKNOWN (click triangle for detailed information) Job results file `_bot_job13978.result` does not exist in job directory or reading it failed. No artefacts were found/reported.
Jul 06 10:00:43 UTC 2024	test result	🤷 UNKNOWN (click triangle for detailed information) Job test file `_bot_job13978.test` does not exist in job directory or reading it failed.

edit (by @boegel): I cancelled job 13978 before it got started, new job 13979 submitted that picks up on fix in 4b3a053

easystacks/software.eessi.io/2023.06/eessi-2023.06-eb-4.9.2-2023a.yml

boegel · 2024-07-06T09:59:48Z

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

eessi-bot · 2024-07-06T09:59:51Z

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

received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- submitted job 13979, for details & status see {2023.06}[foss/2023a] Single-cell-python-bundle 2024.02 #637 (comment)

eessi-build-deploy-bot-deucalion · 2024-07-06T09:59:51Z

Updates by the bot instance boegel-bot-deucalion (click for details)

received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- no jobs were submitted

eessi-bot · 2024-07-06T09:59:51Z

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

received bot command build repo:eessi.io-2023.06-software arch:x86_64/amd/zen3 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3
handling command build repository:eessi.io-2023.06-software architecture:x86_64/amd/zen3 resulted in:
- no jobs were submitted

eessi-bot · 2024-07-06T09:59:55Z

New job on instance eessi-bot-mc-aws for architecture x86_64-amd-zen3 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.07/pr_637/13979

date	job status	comment
Jul 06 09:59:54 UTC 2024	submitted	job id `13979` awaits release by job manager
Jul 06 10:00:34 UTC 2024	released	job awaits launch by Slurm scheduler
Jul 06 10:01:50 UTC 2024	running	job `13979` is running
Jul 06 13:53:11 UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-13979.out` ❌ found message matching `ERROR:` ❌ found message matching `FAILED:` ❌ found message matching `required modules missing:` ❌ no message matching `No missing installations` ✅ found message matching `.tar.gz created!` Artefacts `eessi-2023.06-software-linux-x86_64-amd-zen3-1720273273.tar.gz` size: 171 MiB (179699984 bytes) entries: 8539 modules under 2023.06/software/linux/x86_64/amd/zen3/modules/all `anndata/0.10.5.post1-foss-2023a.lua` `igraph/0.10.10-foss-2023a.lua` `LLVM/14.0.6-GCCcore-12.3.0-llvmlite.lua` `numba/0.58.1-foss-2023a.lua` `openpyxl/3.1.2-GCCcore-12.3.0.lua` `pydot/2.0.0-GCCcore-12.3.0.lua` `scanpy/1.9.8-foss-2023a.lua` `scikit-misc/0.3.1-foss-2023a.lua` `Seaborn/0.13.2-gfbf-2023a.lua` `statsmodels/0.14.1-gfbf-2023a.lua` `tqdm/4.66.1-GCCcore-12.3.0.lua` `umap-learn/0.5.5-foss-2023a.lua` software under 2023.06/software/linux/x86_64/amd/zen3/software `anndata/0.10.5.post1-foss-2023a` `igraph/0.10.10-foss-2023a` `LLVM/14.0.6-GCCcore-12.3.0-llvmlite` `numba/0.58.1-foss-2023a` `openpyxl/3.1.2-GCCcore-12.3.0` `pydot/2.0.0-GCCcore-12.3.0` `scanpy/1.9.8-foss-2023a` `scikit-misc/0.3.1-foss-2023a` `Seaborn/0.13.2-gfbf-2023a` `statsmodels/0.14.1-gfbf-2023a` `tqdm/4.66.1-GCCcore-12.3.0` `umap-learn/0.5.5-foss-2023a` other under 2023.06/software/linux/x86_64/amd/zen3 no other files in tarball
Jul 06 13:53:11 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 14/14 test case(s) from 14 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-13979.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

boegel · 2024-07-06T15:06:40Z

Clang build fails with:

g++: fatal error: Killed signal terminated program cc1plus

No surprise, it's quite memory hungry, I'll update the hook to use only half the cores for Clang...

…ory hungry

boegel · 2024-07-06T15:07:37Z

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

eessi-build-deploy-bot-deucalion · 2024-07-06T15:07:40Z

Updates by the bot instance boegel-bot-deucalion (click for details)

received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1 resulted in:
- no jobs were submitted

eessi-bot · 2024-07-06T15:07:40Z

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

received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1 resulted in:
- submitted job 13988, for details & status see {2023.06}[foss/2023a] Single-cell-python-bundle 2024.02 #637 (comment)

eessi-bot · 2024-07-06T15:07:41Z

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

received bot command build repo:eessi.io-2023.06-software arch:aarch64/neoverse_v1 from boegel
- expanded format: build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1
handling command build repository:eessi.io-2023.06-software architecture:aarch64/neoverse_v1 resulted in:
- no jobs were submitted

eessi-bot · 2024-07-06T15:07:44Z

New job on instance eessi-bot-mc-aws for architecture aarch64-neoverse_v1 for repository eessi.io-2023.06-software in job dir /project/def-users/SHARED/jobs/2024.07/pr_637/13988

date	job status	comment
Jul 06 15:07:43 UTC 2024	submitted	job id `13988` awaits release by job manager
Jul 06 15:08:19 UTC 2024	released	job awaits launch by Slurm scheduler
Jul 06 15:13:22 UTC 2024	running	job `13988` is running
Jul 06 19:29:33 UTC 2024	finished	😢 FAILURE (click triangle for details) Details ✅ job output file `slurm-13988.out` ❌ found message matching `ERROR:` ❌ found message matching `FAILED:` ❌ found message matching `required modules missing:` ❌ no message matching `No missing installations` ✅ found message matching `.tar.gz created!` Artefacts `eessi-2023.06-software-linux-aarch64-neoverse_v1-1720292194.tar.gz` size: 162 MiB (170295758 bytes) entries: 8729 modules under 2023.06/software/linux/aarch64/neoverse_v1/modules/all `anndata/0.10.5.post1-foss-2023a.lua` `igraph/0.10.10-foss-2023a.lua` `LLVM/14.0.6-GCCcore-12.3.0-llvmlite.lua` `numba/0.58.1-foss-2023a.lua` `openpyxl/3.1.2-GCCcore-12.3.0.lua` `pydot/2.0.0-GCCcore-12.3.0.lua` `scanpy/1.9.8-foss-2023a.lua` `scikit-misc/0.3.1-foss-2023a.lua` `Seaborn/0.13.2-gfbf-2023a.lua` `statsmodels/0.14.1-gfbf-2023a.lua` `tbb/2021.11.0-GCCcore-12.3.0.lua` `tqdm/4.66.1-GCCcore-12.3.0.lua` `umap-learn/0.5.5-foss-2023a.lua` software under 2023.06/software/linux/aarch64/neoverse_v1/software `anndata/0.10.5.post1-foss-2023a` `igraph/0.10.10-foss-2023a` `LLVM/14.0.6-GCCcore-12.3.0-llvmlite` `numba/0.58.1-foss-2023a` `openpyxl/3.1.2-GCCcore-12.3.0` `pydot/2.0.0-GCCcore-12.3.0` `scanpy/1.9.8-foss-2023a` `scikit-misc/0.3.1-foss-2023a` `Seaborn/0.13.2-gfbf-2023a` `statsmodels/0.14.1-gfbf-2023a` `tbb/2021.11.0-GCCcore-12.3.0` `tqdm/4.66.1-GCCcore-12.3.0` `umap-learn/0.5.5-foss-2023a` other under 2023.06/software/linux/aarch64/neoverse_v1 `2023.06/init/easybuild/eb_hooks.py`
Jul 06 19:29:33 UTC 2024	test result	😁 SUCCESS (click triangle for details) ReFrame Summary [ PASSED ] Ran 14/14 test case(s) from 14 check(s) (0 failure(s), 0 skipped, 0 aborted) Details ✅ job output file `slurm-13988.out` ❌ found message matching `ERROR:` ✅ no message matching `[\sFAILED\s].Ran . test case`

bedroge · 2024-07-09T07:57:50Z

The Clang build now fails in the sanity check because of:

Sanity check failed: Library libhwloc.so.15 not found for /cvmfs/software.eessi.io/versions/2023.06/software/linux/aarch64/neoverse_v1/software/Clang/16.0.6-GCCcore-12.3.0/bin/llvm-omp-device-info

(and a bunch of similar errors).

Looks like RPATH is not set for all binaries; some have RUNPATH instead, some have neither.

laraPPr · 2025-06-27T13:03:38Z

@boegel can you retarget the branch and make the required changes to the eb_hooks.py in https://github.com/EESSI/software-layer-scripts

laraPPr · 2025-06-27T13:48:59Z

Closing this one: should be retargeted and added to a new easystack file once #1133 is deployed

boegel added the 2023.06-software.eessi.io 2023.06 version of software.eessi.io label Jul 6, 2024

{2023.06}[foss/2023a] Single-cell-python-bundle 2024.02

4b3a053

boegel commented Jul 6, 2024

View reviewed changes

easystacks/software.eessi.io/2023.06/eessi-2023.06-eb-4.9.2-2023a.yml Outdated Show resolved Hide resolved

boegel force-pushed the 2023.06-software.eessi.io_Single-cell-python-bundle-2024.02-foss-2023a branch from 30b3bfb to 4b3a053 Compare July 6, 2024 09:58

only use half the cores when building Clang, since build is quite mem…

595ebd0

…ory hungry

casparvl mentioned this pull request Sep 24, 2024

{2023.06}[foss/2023a] Clang v16.0.6 #737

Closed

laraPPr closed this Jun 27, 2025

laraPPr added the clean-up This label indicates that the pr was because the original pr required a significant update. label Jul 1, 2025

laraPPr mentioned this pull request Jul 9, 2025

{2023.06}[foss/2023a] Clang v16.0.6 #1133

Closed

{2023.06}[foss/2023a] Single-cell-python-bundle 2024.02 #637

{2023.06}[foss/2023a] Single-cell-python-bundle 2024.02 #637

Uh oh!

Conversation

boegel commented Jul 6, 2024

Uh oh!

eessi-bot bot commented Jul 6, 2024

Uh oh!

eessi-build-deploy-bot-deucalion bot commented Jul 6, 2024

Uh oh!

eessi-bot bot commented Jul 6, 2024

Uh oh!

boegel commented Jul 6, 2024

Uh oh!

eessi-build-deploy-bot-deucalion bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

boegel commented Jul 6, 2024

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-build-deploy-bot-deucalion bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited by boegel Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

Uh oh!

boegel commented Jul 6, 2024

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-build-deploy-bot-deucalion bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

boegel commented Jul 6, 2024

Uh oh!

boegel commented Jul 6, 2024

Uh oh!

eessi-build-deploy-bot-deucalion bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

eessi-bot bot commented Jul 6, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

bedroge commented Jul 9, 2024 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

laraPPr commented Jun 27, 2025

Uh oh!

laraPPr commented Jun 27, 2025

Uh oh!

Uh oh!

eessi-build-deploy-bot-deucalion bot commented Jul 6, 2024 •

edited

Loading

eessi-bot bot commented Jul 6, 2024 •

edited

Loading

eessi-bot bot commented Jul 6, 2024 •

edited

Loading

eessi-bot bot commented Jul 6, 2024 •

edited

Loading

eessi-bot bot commented Jul 6, 2024 •

edited

Loading

eessi-build-deploy-bot-deucalion bot commented Jul 6, 2024 •

edited

Loading

eessi-bot bot commented Jul 6, 2024 •

edited

Loading

eessi-bot bot commented Jul 6, 2024 •

edited by boegel

Loading

eessi-bot bot commented Jul 6, 2024 •

edited

Loading

eessi-build-deploy-bot-deucalion bot commented Jul 6, 2024 •

edited

Loading

eessi-bot bot commented Jul 6, 2024 •

edited

Loading

eessi-bot bot commented Jul 6, 2024 •

edited

Loading

eessi-build-deploy-bot-deucalion bot commented Jul 6, 2024 •

edited

Loading

eessi-bot bot commented Jul 6, 2024 •

edited

Loading

eessi-bot bot commented Jul 6, 2024 •

edited

Loading

eessi-bot bot commented Jul 6, 2024 •

edited

Loading

bedroge commented Jul 9, 2024 •

edited

Loading