{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.

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

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

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

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

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