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Author SHA1 Message Date
Ricardo Wurmus
bd3ef47877
gnu: r-biomartr: Update to 1.0.3. 
* gnu/packages/bioconductor.scm (r-biomartr): Update to 1.0.3.
 2023-05-09 15:24:13 +02:00
Ricardo Wurmus
7668d7f16b
gnu: r-profvis: Update to 0.3.8. 
* gnu/packages/cran.scm (r-profvis): Update to 0.3.8.
[propagated-inputs]: Add r-purrr, r-rlang, and r-vctrs.
 2023-05-09 15:24:13 +02:00
Ricardo Wurmus
ab140eb2f8
gnu: r-arrow: Update to 12.0.0. 
* gnu/packages/cran.scm (r-arrow): Update to 12.0.0.
 2023-05-09 15:24:12 +02:00
Ricardo Wurmus
1dac05b225
gnu: apache-arrow: Update to 12.0.0. 
* gnu/packages/databases.scm (apache-arrow): Update to 12.0.0.
 2023-05-09 15:24:12 +02:00
Ricardo Wurmus
7a4456b047
gnu: apache-arrow: Drop package labels. 
* gnu/packages/databases.scm (apache-arrow)[inputs]: Drop labels.
 2023-05-09 15:24:12 +02:00
Ricardo Wurmus
a0fe6bec4b
gnu: apache-arrow: Use G-expressions. 
* gnu/packages/databases.scm (apache-arrow)[arguments]: Use G-expressions to
refer to inputs without assoc-ref.
 2023-05-09 15:24:12 +02:00
Tanguy Le Carrour
76a3deb867
gnu: python-leather: Update to 0.3.4. 
* gnu/packages/wireservice.scm (python-leather): Update to 0.3.4.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2023-05-09 14:20:11 +02:00
Guillaume Le Vaillant
f5a2c6c2ab
gnu: txr: Update to 286. 
* gnu/packages/lisp.scm (txr): Update to 286.
 2023-05-09 14:15:23 +02:00
Pierre Neidhardt
5aae6c99c2
gnu: Update sbcl-nclasses to 0.5.0. 
* gnu/packages/lisp-xyz.scm (sbcl-nclasses): Update to 0.5.0.

Signed-off-by: Pierre Neidhardt <mail@ambrevar.xyz>
 2023-05-09 13:33:32 +02:00
Efraim Flashner
649ce7b433
Merge branch 'rust-team' 2023-05-09 09:56:33 +03:00
Efraim Flashner
c56d57110d
gnu: rust-bootstrap: Remove aarch64 as a supported architecture. 
This is so that we can merge the branch, building rust for aarch64-linux
on CI is very time intensive.

* gnu/packages/rust.scm (rust-bootstrap)[supported-systems]: Remove
aarch64-linux.
 2023-05-09 09:54:37 +03:00
Efraim Flashner
1bb29cd49c
gnu: gcc: Update cpu tuning architectures. 
* gnu/packages/gcc.scm (%gcc-7.5-armhf-micro-architectures): Add missing
micro-architecture.
(%gcc-10-armhf-micro-architectures): Adjust accordingly.
(%gcc-11-aarch64-micro-architectures): Add missing micro-architecture.
(%gcc-12-aarch64-micro-architectures, %gcc-12-armhf-micro-architectures,
%gcc-12-x86_64-micro-architectures, %gcc-13-aarch64-micro-architectures,
%gcc-13-armhf-micro-architectures, %gcc-13-x86_64-micro-architectures):
New variables.
(gcc-12)[properties]: Use new compiler-cpu-architectures.
* guix/cpu.scm (cpu->gcc-architecture): Update entries for Intel, AMD,
x86_64 fallback and aarch64.
 2023-05-09 09:52:24 +03:00
Efraim Flashner
23d4ebdaac
gnu: gcc-12: Update to 12.3.0. 
* gnu/packages/gcc.scm (gcc-12): Update to 12.3.0.
 2023-05-09 08:39:19 +03:00
Efraim Flashner
cdba1d8e2e
gnu: gimp: Build with librsvg-for-system. 
* gnu/packages/gimp.scm (gimp)[inputs]: Replace librsvg with
librsvg-for-system.
 2023-05-09 08:23:05 +03:00
Efraim Flashner
3d6f7a45d9
gnu: gegl: Build with librsvg-for-system. 
* gnu/packages/gimp.scm (gegl)[inputs]: Replace librsvg with
librsvg-for-system.
 2023-05-09 08:23:01 +03:00
Jelle Licht
50249cab3a
gnu: foot: Add search path for 'TERMINFO_DIRS'. 
* gnu/packages/terminals.scm (foot)[native-search-paths]: New field.
 2023-05-08 22:28:47 +02:00
Benjamin
5f024ef3af
gnu: foot: Update to 1.14.0. 
* gnu/packages/terminals.scm (foot): Update to 1.14.0.

Signed-off-by: Jelle Licht <jlicht@fsfe.org>
 2023-05-08 22:28:13 +02:00
Benjamin
2b99492f5d
gnu: tllist: Update to 1.1.0. 
* gnu/packages/datastructures.scm (tllist): Update to 1.1.0.

Signed-off-by: Jelle Licht <jlicht@fsfe.org>
 2023-05-08 22:28:13 +02:00
Nicolas Goaziou
28c2c570f8
gnu: emacs-tmr: Fix ffplay invocation. 
This fixes <https://issues.guix.gnu.org/63350>.

* gnu/packages/emacs-xyz.scm (emacs-tmr)[arguments]<#:phases>: Fix search
string.
 2023-05-08 19:21:58 +02:00
Simon Josefsson
26897e3c41
gnu: Add emacs-eweouz. 
* gnu/packages/emacs-xyz.scm (emacs-eweouz): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-05-08 19:21:46 +02:00
David Thompson
56774726dc
gnu: guile-goblins: Update to 0.11.0. 
* gnu/packages/guile-xyz.scm (guile-goblins): Update to 0.11.0.
 2023-05-08 13:09:28 -04:00
Ricardo Wurmus
e9f19cfa35
gnu: guile-openai: Update to 0.1-2.9265b64. 
* gnu/packages/guile-xyz.scm (guile-openai): Update to 0.1-2.9265b64.
 2023-05-08 18:53:30 +02:00
Ricardo Wurmus
42e9e8ba2e
gnu: Add homer. 
* gnu/packages/bioinformatics.scm (homer): New variable.
 2023-05-08 18:50:38 +02:00
Maxim Cournoyer
4228d3c358
Partly reinstate "doc: Update all menus." 
This partly reinstates commit 9719d7d ("doc: Update all menus."), omitting the
hunk touching doc/contributing.texi.

* doc/guix.texi: Update all menus.
 2023-05-08 09:57:09 -04:00
Efraim Flashner
e15d2655cb
gnu: python-bleach: Don't vendor python-html5lib. 
* gnu/packages/python-xyz.scm (python-bleach)[source]: Add snippet to
remove vendored library and references to it.
[propagated-inputs]: Add python-html5lib.
 2023-05-08 15:45:44 +03:00
Ricardo Wurmus
030a90bf9c
gnu: python-bleach: Update to 5.0.1. 
* gnu/packages/python-xyz.scm (python-bleach): Update to 5.0.1.
[build-system]: Use pyproject-build-system.
[arguments]: Remove custom 'check phase.
 2023-05-08 14:31:09 +02:00
Ricardo Wurmus
e118b92cfe
gnu: Add r-seurat5. 
* gnu/packages/cran.scm (r-seurat5): New variable.
 2023-05-08 11:53:29 +02:00
Ricardo Wurmus
c2a2d40e6d
gnu: Add r-seurat5object. 
* gnu/packages/cran.scm (r-seurat5object): New variable.
 2023-05-08 11:53:29 +02:00
Efraim Flashner
12c529c071
gnu: python-bottleneck: Honor #:tests? flag. 
* gnu/packages/python-science.scm (python-bottleneck)[arguments]: Adjust
custom 'check phase to honor the #:tests? flag.
 2023-05-08 12:42:10 +03:00
Efraim Flashner
4a23812c7c
gnu: python-bottleneck: Update to 1.3.7. 
* gnu/packages/python-science.scm (python-bottleneck): Update to 1.3.7.
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
02dbaa0311
gnu: python-astropy: Update to 5.2.2. 
* gnu/packages/astronomy.scm (python-astropy): Update to 5.2.2.
[arguments]<phases>{check}: Skip 2 more failing tests.
[native-inputs]: Add python-colorlog, python-h5py, python-pandas,
python-pyarrow, python-pytest-astropy-header, python-scikit-image,
python-scipy, python-timezonefinder.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
596f3beeb7
gnu: python-pytest-mpl: Update to 0.16.1. 
* gnu/packages/python-check.scm (python-pytest-mpl): Update to 0.16.1.
[build-system]: Use pyproject-build-system.
[arguments]<phases>: Simplify phases by removing redundant modification
and use <test-flags> instead.
[propagated-inputs]: Add python-jinja2, python-packaging.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
3a5c78b287
gnu: python-pytest-arraydiff: Update to 0.5.0. 
* gnu/packages/python-check.scm (python-pytest-arraydiff): Update to
0.5.0.
[native-inputs]: Add python-setuptools-scm.
[propagated-inputs]: Remove python-six.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
16e83296d7
gnu: python-pytest-remotedata: Update to 0.4.0. 
* gnu/packages/python-check.scm (python-pytest-remotedata): Update to
0.4.0.
[build-system]: Use pyproject-build-system.
[arguments]<phases>: Simplify by removing not required phase
modification and use <test-flags> instead.
[native-inputs]: Add python-setuptools-scm.
[propagated-inputs]: Delete python-six, add python-packaging.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
a1baa54b8a
gnu: python-skyfield: Update to 1.46. 
* gnu/packages/astronomy.scm (python-skyfield): Update to 1.46.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
e48105bc55
gnu: python-jplephem: Update to 2.18. 
* gnu/packages/astronomy.scm (python-jplephem): Update to 2.18.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
450185df4e
gnu: python-extension-helpers: Update to 1.0.0. 
* gnu/packages/python-xyz.scm (python-extension-helpers): Update to
1.0.0.
[build-system]: Use pyproject-build-system.
[arguments]<tests>: Disable them, as pytest can't load the test suite.
[native-inputs]: Add python-setuptools-scm.
[home-page]: Re-point to actual project home page.
[synopsis]: Adjust it to cover actual project.
[description]: ... as above.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
2f9173430f
gnu: python-pytest-astropy: Simplify package. 
* gnu/package/python-check.scm (python-pytest-astropy): Simplify package.
[arguments]<phases>: Remove remove-requirement phase.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
735513e93e
gnu: python-pytest-filter-subpackage: Update to 0.1.2. 
* gnu/packages/python-check.scm (python-pytest-filter-subpackage):
Update to 0.1.2.
[build-system]: Use pyproject-build-system.
[arguments]: Drop no more required phases.
[native-inputs]: Add python-setuptools-scm.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
5a70b9b924
gnu: Add python-timezonefinder. 
* gnu/packages/time.scm (python-timezonefinder): New variable.
* gnu/packages/geo.scm (h3-3, python-h3-3): New variables. The latest
compatible versions to build python-timezonefinder.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
424ba87292
gnu: Add python-h3. 
* gnu/packages/geo.scm (python-h3): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:09 +03:00
Sharlatan Hellseher
af3742b160
gnu: Sort use-module alphabetically in (gnu packages geo). 
* gnu/packages/geo.scm: Sort use-module alphabetically to ease
maintenance.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:08 +03:00
Sharlatan Hellseher
53809e5f4b
gnu: Add h3. 
* gnu/packages/geo.scm (h3): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:08 +03:00
Sharlatan Hellseher
bb38261b5d
gnu: python-pytest-doctestplus: Update to 0.12.1. 
* gnu/packages/python-check.scm (python-pytest-doctestplus): Update to
0.12.1.
[build-system]: Use pyproject-build-system.
[arguments]<phases>: Remove modify-phases and add test-flags option
instead.
[native-inputs]: Add python-numpy.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:08 +03:00
Raphaël Mélotte
476f764f07
gnu: tio: Update to 2.5. 
* gnu/packages/terminals.scm (tio): Update to 2.5.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:08 +03:00
Yovan Naumovski
8bd5b3a373
gnu: openttd-engine: Update to 13.1. 
* gnu/packages/games.scm (openttd-engine): Update to 13.1.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:08 +03:00
Mădălin Ionel Patrașcu
0e09e8ab15
gnu: Add r-multibac. 
* gnu/packages/bioconductor.scm (r-multibac): New variable.
 2023-05-08 10:34:06 +02:00
Maxim Cournoyer
b7e7744626
Revert "doc: Update all menus." 
This reverts commit 9719d7d2b0.  It breaks Guix
pull, building the 'guix-manual' for reasons that currently escape me.
 2023-05-07 22:49:29 -04:00
Maxim Cournoyer
9719d7d2b0
doc: Update all menus. 
Automated via 'M-x texinfo-all-menus-update' in Emacs, and dropping
the *Contributing menu removal, which is erroneously removed because defined
in a different Texinfo file.

* doc/guix.texi: Update all menus.
* doc/contributing.texi (Submitting Patches): Likewise.
 2023-05-07 21:51:27 -04:00
Maxim Cournoyer
26a788ae06
doc: Add some information/recommendation regarding --sysconfdir. 
* doc/contributing.texi (Building from Git): Mention sysconfdir along
localstatedir.
* doc/guix.texi (Requirements): Likewise.
 2023-05-07 21:51:27 -04:00