{lib}[foss/2023a] CellTypist v1.6.2, igraph v0.10.10, python-igraph v0.11.4, leidenalg v0.10.2, libleidenalg v0.11.0 by pavelToman · Pull Request #19981 · easybuilders/easybuild-easyconfigs

pavelToman · 2024-02-27T13:10:44Z

(created using eb --new-pr)

…ss-2023a.eb, python-igraph-0.11.4-foss-2023a.eb, libleidenalg-0.11.1-foss-2023a.eb, leidenalg-0.10.2-foss-2023a.eb

pavelToman · 2024-02-27T13:11:54Z

@boegelbot please test @ generoso

boegelbot · 2024-02-27T13:15:08Z

@pavelToman: Request for testing this PR well received on login1

PR test command 'EB_PR=19981 EB_ARGS= EB_CONTAINER= EB_REPO=easybuild-easyconfigs /opt/software/slurm/bin/sbatch --job-name test_PR_19981 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

exit code: 0
output:

Submitted batch job 12974

Test results coming soon (I hope)...

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easybuild/easyconfigs/c/CellTypist/CellTypist-1.6.2-foss-2023a.eb

easybuild/easyconfigs/p/python-igraph/python-igraph-0.11.4-foss-2023a.eb

boegelbot · 2024-02-27T13:29:17Z

Test report by @boegelbot
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in total)
cns1 - Linux Rocky Linux 8.9, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/boegelbot/4950ca9b8a61ebda0b44b25349a8ee64 for a full test report.

pavelToman · 2024-02-27T13:34:47Z

@boegelbot please test @ jsc-zen3

boegelbot · 2024-02-27T13:40:07Z

@pavelToman: Request for testing this PR well received on jsczen3l1.int.jsc-zen3.fz-juelich.de

PR test command 'if [[ develop != 'develop' ]]; then EB_BRANCH=develop ./easybuild_develop.sh 2> /dev/null 1>&2; EB_PREFIX=/home/boegelbot/easybuild/develop source init_env_easybuild_develop.sh; fi; EB_PR=19981 EB_ARGS= EB_CONTAINER= EB_REPO=easybuild-easyconfigs EB_BRANCH=develop /opt/software/slurm/bin/sbatch --job-name test_PR_19981 --ntasks=8 ~/boegelbot/eb_from_pr_upload_jsc-zen3.sh' executed!

exit code: 0
output:

Submitted batch job 3682

Test results coming soon (I hope)...

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boegelbot · 2024-02-27T17:47:07Z

Test report by @boegelbot
FAILED
Build succeeded for 3 out of 6 (5 easyconfigs in total)
jsczen3c1.int.jsc-zen3.fz-juelich.de - Linux Rocky Linux 9.3, x86_64, AMD EPYC-Milan Processor (zen3), Python 3.9.18
See https://gist.github.com/boegelbot/b864f431d6a84eb84f8b3e39b553c6de for a full test report.

pavelToman · 2024-02-27T18:36:01Z

Test report by @boegelbot FAILED Build succeeded for 3 out of 6 (5 easyconfigs in total) jsczen3c1.int.jsc-zen3.fz-juelich.de - Linux Rocky Linux 9.3, x86_64, AMD EPYC-Milan Processor (zen3), Python 3.9.18 See https://gist.github.com/boegelbot/b864f431d6a84eb84f8b3e39b553c6de for a full test report.

Seems LD_LIBRARY_PATH is set wrong? https://doc.courtbouillon.org/cairocffi/stable/overview.html#importing

jfgrimm · 2024-02-28T14:25:30Z

@pavelToman it's missing a dependency on cairo at the very least:

== 2024-02-27 17:46:58,029 build_log.py:171 ERROR EasyBuild crashed with an error (at easybuild/easybuild-framework/easybuild/base/exceptions.py:126 in __init__): Sanity check failed: sanity check command python -c 'from igraph.drawing.cairo.utils import find_cairo; cairo = find_cairo(); cairo.Context' exited with code 1 (output: Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/project/def-maintainers/boegelbot/rocky9/zen3/software/python-igraph/0.11.4-foss-2023a/lib/python3.11/site-packages/igraph/drawing/utils.py", line 428, in __getattr__
    raise AttributeError(self._message)
AttributeError: Plotting not available; please install pycairo or cairocffi
)
extensions sanity check failed for 1 extensions: cairocffi
failing sanity check for 'cairocffi' extension: command "python -c "import cairocffi"" failed; output:
Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/project/def-maintainers/boegelbot/rocky9/zen3/software/python-igraph/0.11.4-foss-2023a/lib/python3.11/site-packages/cairocffi/__init__.py", line 47, in <module>
    cairo = dlopen(
            ^^^^^^^
  File "/project/def-maintainers/boegelbot/rocky9/zen3/software/python-igraph/0.11.4-foss-2023a/lib/python3.11/site-packages/cairocffi/__init__.py", line 44, in dlopen
    raise OSError(error_message)  # pragma: no cover
    ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
OSError: no library called "cairo-2" was found
no library called "cairo" was found
no library called "libcairo-2" was found

pavelToman · 2024-02-28T16:56:46Z

@boegelbot please test @ jsc-zen3

boegelbot · 2024-02-28T17:00:08Z

@pavelToman: Request for testing this PR well received on jsczen3l1.int.jsc-zen3.fz-juelich.de

PR test command 'if [[ develop != 'develop' ]]; then EB_BRANCH=develop ./easybuild_develop.sh 2> /dev/null 1>&2; EB_PREFIX=/home/boegelbot/easybuild/develop source init_env_easybuild_develop.sh; fi; EB_PR=19981 EB_ARGS= EB_CONTAINER= EB_REPO=easybuild-easyconfigs EB_BRANCH=develop /opt/software/slurm/bin/sbatch --job-name test_PR_19981 --ntasks=8 ~/boegelbot/eb_from_pr_upload_jsc-zen3.sh' executed!

exit code: 0
output:

Submitted batch job 3695

Test results coming soon (I hope)...

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boegelbot · 2024-02-28T17:07:51Z

Test report by @boegelbot
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in total)
jsczen3c1.int.jsc-zen3.fz-juelich.de - Linux Rocky Linux 9.3, x86_64, AMD EPYC-Milan Processor (zen3), Python 3.9.18
See https://gist.github.com/boegelbot/8490686f9f999071fd66a7657a4aea3b for a full test report.

boegel · 2024-03-01T11:02:20Z

@boegelbot please test @ generoso

boegelbot · 2024-03-01T11:05:09Z

@boegel: Request for testing this PR well received on login1

PR test command 'EB_PR=19981 EB_ARGS= EB_CONTAINER= EB_REPO=easybuild-easyconfigs /opt/software/slurm/bin/sbatch --job-name test_PR_19981 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

exit code: 0
output:

Submitted batch job 13003

Test results coming soon (I hope)...

Details

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Message to humans: this is just bookkeeping information for me,
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boegel

lgtm

boegelbot · 2024-03-01T11:19:24Z

Test report by @boegelbot
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in total)
cns1 - Linux Rocky Linux 8.9, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/boegelbot/af3b2f4257bb5cb1bca38a3ef952b767 for a full test report.

boegel · 2024-03-01T11:41:07Z

Test report by @boegel
SUCCESS
Build succeeded for 8 out of 8 (5 easyconfigs in total)
node3102.skitty.os - Linux RHEL 8.8, x86_64, Intel(R) Xeon(R) Gold 6140 CPU @ 2.30GHz, Python 3.6.8
See https://gist.github.com/boegel/272dfd3c5e00ecbb7c48bd5e8a860ea6 for a full test report.

boegel · 2024-03-01T12:32:25Z

Going in, thanks @pavelToman!

adding easyconfigs: CellTypist-1.6.2-foss-2023a.eb, igraph-0.10.10-fo…

c8c7b62

…ss-2023a.eb, python-igraph-0.11.4-foss-2023a.eb, libleidenalg-0.11.1-foss-2023a.eb, leidenalg-0.10.2-foss-2023a.eb

pavelToman mentioned this pull request Feb 27, 2024

Single-cell python bundle request vscentrum/vsc-software-stack#214

Closed

32 tasks

boegel requested changes Feb 27, 2024

View reviewed changes

replace some deps by Python-bundle-PyPI

8e41f74

pavelToman mentioned this pull request Feb 28, 2024

{data}[foss/2023a] scib v1.1.4, pyparsing v3.1.1, pydot v2.0.0, Deprecated 1.2.14, scikit-misc v0.3.1 #19994

Merged

add cairo dep

5d32235

boegel changed the title ~~{lib}[foss/2023a] CellTypist v1.6.2, igraph v0.10.10, python-igraph v0.11.4, ...~~ {lib}[foss/2023a] CellTypist v1.6.2, igraph v0.10.10, python-igraph v0.11.4, leidenalg v0.10.2, libleidenalg v0.11.0 Mar 1, 2024

boegel added the update label Mar 1, 2024

boegel added this to the release after 4.9.0 milestone Mar 1, 2024

boegel approved these changes Mar 1, 2024

View reviewed changes

boegel merged commit d5b5079 into easybuilders:develop Mar 1, 2024

pavelToman mentioned this pull request Mar 14, 2024

{bio}[foss/2023a] Single-cell-python-bundle v2024.02 #20116

Merged

38 tasks

Crivella mentioned this pull request Sep 3, 2025

{lib}[foss/2023a] igraph v0.10.10, python-igraph v0.11.4 #19957

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pavelToman commented Feb 27, 2024

Uh oh!

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