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2026-05-18gnu: python-dcor: Fix tests.Nicolas Graves
* gnu/packages/statistics.scm (python-dcor)[arguments] <#:phases>: Add phase 'drop-custom-test-configuration. Change-Id: I7afb7a7930682672565bdc69fe67e72243b32124 Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2026-05-18gnu: python-rpy2: Update to 3.6.7.Sharlatan Hellseher
* gnu/packages/statistics.scm (python-rpy2): Update to 3.6.7. [arguments] <tests?>: Disable, the Python module was split into one meta package with two subpackages, the former has no tests. [inputs]: Remove icu4c, libdeflate, pcre, python-numpy, readline, r-minimal, r-survival, r-ggplot2, r-rsqlite, r-dplyr, r-dbplyr, and zlib. [propagated-inputs]: Remove python-cffi, python-jinja2, python-numpy, python-pandas, python-pytz, python-ipython, and python-tzlocal; add python-rpy2-rinterface and python-rpy2-robjects. [native-inputs]: Remove python-pytest-8. Change-Id: I0002688e5b79c98d26b747b744b89101af4ccc65
2026-05-18gnu: Add python-rpy2-robjects.Sharlatan Hellseher
* gnu/packages/statistics.scm (python-rpy2-robjects): New variable. Change-Id: If0aa8aaf301ebaf9f76ae2c6bf934ab02c85e5f9
2026-05-18gnu: Add python-rpy2-rinterface.Sharlatan Hellseher
* gnu/packages/statistics.scm (python-rpy2-rinterface): New variable. Change-Id: I6ac4a3f8469ff04b4052b08fbc7781454169e588
2026-05-18gnu: python-rchitect: Update to 0.4.10.Nicolas Graves
* gnu/packages/statistics.scm (python-rchitect): Update to 0.4.10. [propagated-inputs]: Drop python-six. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2026-05-18guix: build-system: Set pypi-uri in pyproject, drop python module.Nicolas Graves
After this commit, when both modules are imported: - if pyproject is imported before, the warning is 'pypi-uri' is deprecated, use '(@ (guix build-system pyproject) pypi-uri)' instead - if python is imported before, the warning is `pypi-uri' imported from both (guix build-system python) and (guix build-system pyproject) This seems convenient enough to warn for deprecation in the short term, while avoiding any breaking changes. * guix/build-system/pyproject.scm (pypi-uri): Move the procedure from (guix build-system python) here. * guix/build-system/python (pypi-uri): Drop definition, import it from (guix build-system pyproject) and deprecate it. * gnu/packages/openldap.scm: Reorder modules to get the right warning. * gnu/packages/pypy.scm: Likewise. * gnu/packages/*.scm : Drop module (guix build-system python). * tests/import/pypi.scm: Likewise. Merges: https://codeberg.org/guix/guix/pulls/7448 Change-Id: Ib42f53bc545052eb7918a25afe9db6d5fc2cb834 Reviewed-by: Nguyễn Gia Phong <cnx@loang.net> Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2026-05-18gnu: packages: Remove some comments.Nicolas Graves
The previous commit removed some packages without proper handling of comments. This commit correct those comments. * gnu/packages/django.scm (python-django-extensions, python-django-cleanup): Correct comments. * gnu/packages/jupyter.scm (python-ipykernel-7): Likewise. * gnu/packages/python-check.scm (python-hypothesmith, python-pytest-celery): Likewise. * gnu/packages/python-xyz.scm (python-mir-eval, python-click-repl, python-nb-clean): Likewise. * gnu/packages/statistics.scm (python-dcor): Likewise. Change-Id: I1ee52361f627a71716c20ccff3a0cd1678a00b7d Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2026-05-18gnu: packages: Remove python-pytest-cov native-inputs.Nicolas Graves
Obtained with ./pre-inst-env guix style -S remove-native-inputs -t python-pytest-cov on top of https://codeberg.org/guix/guix/pulls/5862 For this reason, I don't think it's relevant to generate a GNU Style Changelog. Change-Id: I58fe10452d7eaf2e8bb4dc88dfac5b4a5ee46165 Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2026-05-18build-system/pyproject: Remove python-pytest-cov native-input.Nicolas Graves
* gnu/packages/astronomy.scm (python-wiimatch) * gnu/packages/audio.scm (python-resampy, python-librosa) * gnu/packages/backup.scm (borgmatic) * gnu/packages/bioinformatics.scm (python-bed-reader, python-pysnptool) (python-pairtools): * gnu/packages/check.scm (python-pytest-nunit, python-pytest-perf) * gnu/packages/dav.scm (vdirsyncer, radicale) * gnu/packages/django.scm (python-django-redis) * gnu/packages/engineering.scm (python-scikit-rf) * gnu/packages/fediverse.scm (python-mastodon-py) * gnu/packages/fontutils.scm (psautohint) * gnu/packages/geo.scm (python-pyogrio) * gnu/packages/graphviz.scm (python-uqbar) * gnu/packages/jupyter.scm (python-jupyterlab-server python-nbclient, python-jupyterlite-core, python-ipydatawidgets) * gnu/packages/machine-learning.scm (python-pymanopt, python-tensorly, python-torchmetrics) * gnu/packages/maths.scm (python-libensemble) * gnu/packages/music.scm (stargate) * gnu/packages/python-check.scm (python-atpublic, python-vcrpy) * gnu/packages/python-compression.scm (python-zipstream-ng) * gnu/packages/python-science.scm (python-plotnine, python-pandaparallel, python-pyts, python-pingouin) * gnu/packages/python-web.scm (python-devpi-process, python-cheroot, python-jsonpickle, python-flask-babel, python-url-normalize, python-elasticsearch, python-hupper, python-simple-websocket, python-apiron, python-huggingface-hub, python-aiosignal, python-ovh, python-cbor2, python-zeep, hypercorn, python-warcio, python-aioftp, python-oauthlib, python-tinycss2, python-cssselect2, python-httpcore, python-wsgiprox, python-venusian, gunicorn) * gnu/packages/python-xyz.scm (python-janus, python-affine, python-contourpy, python-echo, python-rasterio, python-rich-tables, python-babel, python-pymarshal, python-portalocker, python-expandvars, python-mizani, python-cligj, autokey, python-robotframework-pythonlibcore, python-lsp-jsonrpc, python-numpydoc, python-pillow, python-manimpango, python-cairocffi, python-pubmed-parser, python-sentry-sdk, python-prettytable, python-sniffio, python-ipywidgets, python-pyproject-api, python-pymemcache, python-async-lru, python-numcodecs, python-mwclient, python-cmd2, python-pyan3, python-platformdirs, python-multipart, python-shtab, python-scooby) * gnu/packages/rdf.scm (python-rdflib-6) * gnu/packages/simulation.scm (python-fenics-dijitso) * gnu/packages/sphinx.scm (python-sphinx-design) * gnu/packages/statistics.scm (python-patsy, python-rchitect) * gnu/packages/task-management.scm (todoman) * gnu/packages/vpn.scm (sshuttle) * gnu/packages/web.scm (anonip, python-tibanna) [native-inputs]: Remove python-pytest-cov. Change-Id: I32f027794e90333c27fdff5871180779f603846c Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2026-05-18gnu: Remove phase done by set-version in pyproject-build-system.Nguyễn Gia Phong
* gnu/packages/astronomy.scm (python-kanon)[arguments]<#:phases>: Remove 'relax-requirements and 'set-version. * gnu/packages/machine-learning.scm (python-botorch)[arguments]<#:phases>: Remove 'pretend-version. * gnu/packages/openstack.scm (python-os-testr, python-requestsexceptions)[arguments]<#:phases>: Remove 'set-version. * gnu/packages/package-management.scm (python-conda-libmamba-solver)[arguments]<#:phases>: Remove 'set-version. * gnu/packages/patchutils.scm (pwclient)[arguments]<#:phases>: Remove 'set-PBR_VERSION. * gnu/packages/python-check.scm (python-aioresponses)[arguments]<#:phases>: Remove 'set-pbr-version. * gnu/packages/python-science.scm (python-modin, python-plotly, python-pytensor)[arguments]<#:phases>: Remove 'versioneer. (snakemake-5, snakemake-6, snakemake-7)[arguments]<#:phases>: Remove 'patch-version. * gnu/packages/python-web.scm (python-alpaca-py)[arguments]<#:phases>: Remove 'set-version. * gnu/packages/python-xyz.scm (python-logical-unification)[arguments]<#:phases>: Remove 'versioneer. (python-debugpy, python-strenum)[arguments]<#:phases>: Remove 'fix-version. (python-qstylizer)[arguments]<#:phases>: Remove 'set-pbr-version. (python-retry)[arguments]<#:phases>: Remove 'set-version. * gnu/packages/statistics.scm (python-pymc)[arguments]<#:phases>: Remove 'versioneer. Change-Id: I7b4557c576730e47575305f4f03bfe2523412c6c Reviewed-by: Nicolas Graves <ngraves@ngraves.fr> Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2026-04-28gnu: r-with-tests, r-minimal: Update to 4.6.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-with-tests, r-minimal): Update to 4.6.0. Change-Id: I790052e77690f3debbf0f8f2845b11754a358581
2026-04-14gnu: dvisvgm: Deprecate in favor of texlive-dvisvgm.Nicolas Goaziou
* gnu/packages/tex.scm (dvisvgm): Deprecate. * etc/teams/tex/tex-manifest.scm (%sundry-texlive-packages): Do not monitor dvisvgm anymore. * gnu/packages/statistics.scm (python-openturns): Use texlive-dvisvgm. Change-Id: I1903a0bdd4e66f9f2a49d21029371e87924435ac
2026-04-02gnu: Remove r-swne.Ricardo Wurmus
This package has been abandoned years ago. It depends on liger, which has been removed from CRAN on 2024-06-14. It is unlikely to work with the newer version of rliger. * gnu/packages/statistics.scm (r-swne): Remove variable. Change-Id: Ie7d7b3c9e1726b8219ad816c4b8db7621708c3b2
2026-04-02gnu: r-with-tests, r-minimal: Update to 4.5.3.Ricardo Wurmus
* gnu/packages/statistics.scm (r-with-tests, r-minimal): Update to 4.5.3. Change-Id: I34bf7bf5706192d7c90f9f29cb1f9cfcde35b7fb
2026-03-20gnu: python-dcor: Use option override.Nicolas Graves
* gnu/packages/statistics.scm (python-dcor)[arguments] <#:phases>: Drop them. <#:test-flags>: Use option override. Change-Id: Ie5598a081e892074c4b5a794fa1ea3b184686057 Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2026-03-20gnu: Reference the inherited ‘arguments’ value.Ludovic Courtès
This commit was made by running this command: sed -e's/substitute-keyword-arguments (package-arguments [a-zA-Z0-9-]\+)/substitute-keyword-arguments arguments/g' -i gnu/packages/*.scm … and then: 1. reverting changes from ‘gnu/packages/rust.scm’ and ‘gnu/packages/java.scm’ since they would incur derivation changes and/or breakage; 2. reverting the change for ‘gcc-final’ in ‘gnu/packages/commencement.scm’; 3. reverting the change for ‘onnx-optimizer’, ‘openquest’, and ‘certbot’, which use ‘substitute-keyword-arguments’ for arguments that are not inherited (and thus ‘arguments’ would be unbound); 4. reverting the change for ‘insight-toolkit-legacy’ and ‘wine64-staging’ which make bogus assumptions about inherited arguments. Change-Id: I122a7cf517b6b63cae38944b5d33ade4b1f5a89c
2026-03-19gnu: pspp: Use libc-utf-8-locales.Yelninei
* gnu/packages/statistics.scm (pspp)[native-inputs]: Replace glibc-locales with libc-utf8-locales-for-target. Change-Id: Ie036b0ee833fb9dec237e4914a8c4ac3a7c96ac3 Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2026-03-07gnu: r-tsne: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-tsne): Move from here... * gnu/packages/cran.scm (r-tsne): ...to here. Change-Id: I50f0b37af9c894e738ebe56726f70a563f1b9ec0
2026-03-07gnu: r-trimcluster: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-trimcluster): Move from here... * gnu/packages/cran.scm (r-trimcluster): ...to here. Change-Id: I353868527c835623fd18ff6123f2b4234284f7d2
2026-03-07gnu: r-tmvnsim: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-tmvnsim): Move from here... * gnu/packages/cran.scm (r-tmvnsim): ...to here. Change-Id: I57b54ad1ff2db25e3dcfa5711110fb79baa59e81
2026-03-07gnu: r-tidyselect: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-tidyselect): Move from here... * gnu/packages/cran.scm (r-tidyselect): ...to here. Change-Id: I4c38afa9a6bb029c2fdd6bd142d8a9e0c5d881f8
2026-03-07gnu: r-tidyr: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-tidyr): Move from here... * gnu/packages/cran.scm (r-tidyr): ...to here. Change-Id: Ief68dbda79958e88c9d25a6c2fe79b5d0094eb94
2026-03-07gnu: r-tibble: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-tibble): Move from here... * gnu/packages/cran.scm (r-tibble): ...to here. Change-Id: I1f37fdca754c850cbb180d2c39b3d94d45b00a19
2026-03-07gnu: r-testthat: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-testthat): Move from here... * gnu/packages/cran.scm (r-testthat): ...to here. Change-Id: Ie9ba24c0eb48f284c5d82fb0a0d0eabaee3d34ea
2026-03-07gnu: r-tclust: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-tclust): Move from here... * gnu/packages/cran.scm (r-tclust): ...to here. Change-Id: Ic9e03d1bd07792cf0c8568dc9bb25fcab95da8fb
2026-03-07gnu: r-synchronicity: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-synchronicity): Move from here... * gnu/packages/cran.scm (r-synchronicity): ...to here. Change-Id: I5cf0a6327186e4b7f9f50c01c0900017090d7f6d
2026-03-07gnu: r-statmod: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-statmod): Move from here... * gnu/packages/cran.scm (r-statmod): ...to here. Change-Id: I85e1af6c05d243b0f29cb5befc5f871c36e7e78c
2026-03-07gnu: r-sparsem: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-sparsem): Move from here... * gnu/packages/cran.scm (r-sparsem): ...to here. Change-Id: I884f50de0b1f6c4d7b398456a91605f80c0dc84e
2026-03-07gnu: r-sourcetools: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-sourcetools): Move from here... * gnu/packages/cran.scm (r-sourcetools): ...to here. Change-Id: I3ab0bcfbca1d1835fa84729d71febab0f1048d85
2026-03-07gnu: r-snow: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-snow): Move from here... * gnu/packages/cran.scm (r-snow): ...to here. Change-Id: Idec2db0264ae8ce666596be3fa0427568249b591
2026-03-07gnu: r-sn: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-sn): Move from here... * gnu/packages/cran.scm (r-sn): ...to here. Change-Id: I53e34aa96c69d861ff72fd89fdae52c7053a8a94
2026-03-07gnu: r-simr: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-simr): Move from here... * gnu/packages/cran.scm (r-simr): ...to here. Change-Id: I2a2a5c700a1177e260fc70a512737114eb32b4f6
2026-03-07gnu: r-sfsmisc: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-sfsmisc): Move from here... * gnu/packages/cran.scm (r-sfsmisc): ...to here. Change-Id: Ia11e766e872444e4c4d1f542f609d4555b1503b0
2026-03-07gnu: r-segmented: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-segmented): Move from here... * gnu/packages/cran.scm (r-segmented): ...to here. Change-Id: I2f4e9adb8c8a6739ecf6a5ff786a71150ca177ff
2026-03-07gnu: r-vpc: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-vpc): Move from here... * gnu/packages/cran.scm (r-vpc): ...to here. Change-Id: I76ace8ad2afefc20bf3b6aa6ea0d215b69065a3b
2026-03-07gnu: r-rversions: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-rversions): Move from here... * gnu/packages/cran.scm (r-rversions): ...to here. Change-Id: I84f1264333cd5750af9c68963b579e988df2458e
2026-03-07gnu: r-runit: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-runit): Move from here... * gnu/packages/cran.scm (r-runit): ...to here. Change-Id: Ibc73a6f5299408ecff5a55a2043f1def973d6a94
2026-03-07gnu: r-rtsne: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-rtsne): Move from here... * gnu/packages/cran.scm (r-rtsne): ...to here. Change-Id: If7162c5d2bb248aee907b021e7c7be12142a940d
2026-03-07gnu: r-rstudioapi: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-rstudioapi): Move from here... * gnu/packages/cran.scm (r-rstudioapi): ...to here. Change-Id: I3f7861d6978a16fe7946ae15f2908d66388ac53a
2026-03-07gnu: r-rsqlite: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-rsqlite): Move from here... * gnu/packages/cran.scm (r-rsqlite): ...to here. Change-Id: I8124d4d669fbf8199e1b92d1428bd508a87d8a68
2026-03-07gnu: r-rrcov: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-rrcov): Move from here... * gnu/packages/cran.scm (r-rrcov): ...to here. Change-Id: I6a6ad60b8b74c66433ef8807c2244d70fceb32ef
2026-03-07gnu: r-rprojroot: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-rprojroot): Move from here... * gnu/packages/cran.scm (r-rprojroot): ...to here. Change-Id: I3ff698e25672459ddc8b8d03fef21804d5d7440b
2026-03-07gnu: r-roxygen2: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-roxygen2): Move from here... * gnu/packages/cran.scm (r-roxygen2): ...to here. Change-Id: I012394d29596b2f76fd48b3b1894e317b806e3f5
2026-03-07gnu: r-rocr: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-rocr): Move from here... * gnu/packages/cran.scm (r-rocr): ...to here. Change-Id: I9daabfe049a5dd6c96d09e1cda32f7036fc8d56a
2026-03-07gnu: r-robustbase: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-robustbase): Move from here... * gnu/packages/cran.scm (r-robustbase): ...to here. Change-Id: Iad59f6a5cf5e528b88056dc2a3db79b63f6d3f68
2026-03-07gnu: r-robust: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-robust): Move from here... * gnu/packages/cran.scm (r-robust): ...to here. Change-Id: I09cdf75bf7f0432dc6d3e91952dc0943903758ab
2026-03-07gnu: r-rngtools: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-rngtools): Move from here... * gnu/packages/cran.scm (r-rngtools): ...to here. Change-Id: I2c6db225baa00fb32212e68dbabe405b4352442c
2026-03-07gnu: r-rmarkdown: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-rmarkdown): Move from here... * gnu/packages/cran.scm (r-rmarkdown): ...to here. Change-Id: I2e1af52f25378236c1fcc0cdffd96e972442c7c2
2026-03-07gnu: r-rlrsim: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-rlrsim): Move from here... * gnu/packages/cran.scm (r-rlrsim): ...to here. Change-Id: I13fa5af69ebe38ae5f035d0d76eeb0ef1b4518ee
2026-03-07gnu: r-rlang: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/statistics.scm (r-rlang): Move from here... * gnu/packages/cran.scm (r-rlang): ...to here. Change-Id: Ib6a057009a73e8cdca98501ce3f7c9dce2d14a03
generated by cgit v1.3 (git 2.53.0) at 2026-07-07 08:47:38 +0000