guix/gnu, branch gnome-team

gnu: libfyaml: Fix build on 32bit architectures.

2026-09-01T23:44:35+00:00

* gnu/packages/patches/libfyaml-vlsize-32bit-fixes.patch: New file.
* gnu/packages/serialization.scm (libfyaml) [source]: Apply patch.
* gnu/local.mk (dist_patch_DATA): Register it.

gnu: snakemake: Improve dependents bootstrap.

2026-09-01T23:23:38+00:00

* gnu/packages/python-science.scm
(python-snakemake-interface-logger-plugins-bootstrap): Add package.
(python-snakemake-logger-plugin-rich-bootstrap): Likewise.
(python-snakemake-interface-logger-plugins)[native-inputs]: Replace
python-snakemake-logger-plugin-rich by
python-snakemake-logger-plugin-rich-bootstrap.
(python-snakemake-logger-plugin-rich)[propagated-inputs]: Replace
python-snakemake-interface-logger-plugins-bootstrap by
python-snakemake-interface-logger-plugins.
[native-inputs]: Remove unused python-pytest.

Merges: guix/guix!10625
Reviewed-by: Hugo Buddelmeijer 
Signed-off-by: Sharlatan Hellseher

gnu: snakemake: Update to 9.25.1.

2026-09-01T23:23:29+00:00

* gnu/packages/python-science.scm (snakemake): Update to 9.25.1.
[source]: Switch to git-fetch.
[arguments]{test-flags}: Refresh them.
{phases}: Add phase 'relax-requirements, drop phase
'call-wrapper-not-wrapped-snakemake, which was not effective for some
time already.
[propagated-inputs]:  Add python-snakemake-interface-logger-plugins,
python-snakemake-interface-scheduler-plugins,
python-snakemake-interface-software-deployment-plugins,
python-sqlmodel.
[native-inputs]: Add python-pytest, python-setuptools-scm,
python-snakemake-interface-software-deployment-plugin-container,
spython-snakemake-interface-logger-plugin-envmodules.

Relates-to: guix/guix!10625
Reviewed-by: Hugo Buddelmeijer 
Signed-off-by: Sharlatan Hellseher

gnu: Add python-snakemake-storage-plugin-http.

2026-09-01T23:23:22+00:00

* gnu/packages/python-science.scm (python-snakemake-storage-plugin-http): New variable.

Relates-to: guix/guix!10625
Reviewed-by: Hugo Buddelmeijer 
Signed-off-by: Sharlatan Hellseher

gnu: Add python-snakemake-software-deployment-plugin-envmodules-bootstrap.

2026-09-01T23:23:17+00:00

* gnu/packages/python-science.scm (python-snakemake-software-deployment-plugin-envmodules-bootstrap): New variable.

Relates-to: guix/guix!10625
Reviewed-by: Hugo Buddelmeijer 
Signed-off-by: Sharlatan Hellseher

gnu: Add python-snakemake-software-deployment-plugin-envmodules.

2026-09-01T23:23:12+00:00

* gnu/packages/python-science.scm (python-snakemake-software-deployment-plugin-envmodules): New variable.

Relates-to: guix/guix!10625
Reviewed-by: Hugo Buddelmeijer 
Signed-off-by: Sharlatan Hellseher

gnu: Add python-snakemake-software-deployment-plugin-container.

2026-09-01T23:23:06+00:00

* gnu/packages/python-science.scm (python-snakemake-software-deployment-plugin-container): New variable.

Relates-to: guix/guix!10625
Reviewed-by: Hugo Buddelmeijer 
Signed-off-by: Sharlatan Hellseher

gnu: Add python-snakemake-logger-plugin-rich.

2026-09-01T23:23:02+00:00

* gnu/packages/python-science.scm (python-snakemake-logger-plugin-rich): New variable.

Relates-to: guix/guix!10625
Reviewed-by: Hugo Buddelmeijer 
Signed-off-by: Sharlatan Hellseher

gnu: python-snakemake-interface-storage-plugins: Update to 4.4.1.

2026-09-01T23:22:50+00:00

* gnu/packages/python-science.scm (python-snakemake-interface-storage-plugins): Update to 4.4.1.
[propagated-inputs]: Refresh them, add python-humanfriendly, remove
python-reretry.

Relates-to: guix/guix!10625
Reviewed-by: Hugo Buddelmeijer 
Signed-off-by: Sharlatan Hellseher

gnu: Add python-snakemake-interface-scheduler-plugins.

2026-09-01T23:22:44+00:00

* gnu/packages/python-science.scm (python-snakemake-interface-scheduler-plugins): New variable.

Relates-to: guix/guix!10625
Reviewed-by: Hugo Buddelmeijer 
Signed-off-by: Sharlatan Hellseher