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132951 Commits (7fc91c141346caffb546d73bf7cacef169ec587f)

Author SHA1 Message Date
Sharlatan Hellseher 38b6670c7a
gnu: python-astropy: Improve packages style. 
* gnu/packages/astronomy.scm (python-astropy): Adjust package style.
[arguments] <#:phases>: Simplify 'preparations, move step setting up
HOME env to 'prepare-test-environment phase.
Add 'prepare-test-environment phase, consolidating all pre test
procedures.
{check}: Add option to run test in parallel to accelerate them. Remove
from disabled list tests which were passed successfully.

Change-Id: I306ab60b6e155c81035de9584fbd9d06a6381045
 2024-02-27 22:51:57 +00:00
Sharlatan Hellseher e8c1c87c34
gnu: python-astropy: Update to 6.0.0. 
* gnu/packages/astronomy.scm (python-astropy): Update to 6.0.0.
[arguments] <#:phases>: Adjust 'preparations phase to be compatible with
the new code layout. In 'check phase, silent one more failing test.
[propagated-inputs]: Add python-astropy-iers-data.
[native-inputs]: Remove python-cython; add python-cython-3,
python-matplotlib and python-pytest-mpl.

Change-Id: Id48a7cf05c30c1a1f7799fdc162b910316743f7c
 2024-02-27 22:51:57 +00:00
Sharlatan Hellseher bf2633a065
gnu: Add python-astropy-iers-data. 
* gnu/packages/astronomy.scm (python-astropy-iers-data): New variable.

Change-Id: Idd2e099013a4c6a6a28fc3dc8aa656bb58b3d697
 2024-02-27 22:51:56 +00:00
Sharlatan Hellseher 7d92083027
gnu: python-aioftp: Update to 0.22.3. 
* gnu/packages/python-web.scm (python-aioftp): Update to 0.22.3.
[build-system]: Swap to pyproject-build-system, there is no setup.py in
new release.
[arguments] <#:phases>: Use standard 'check phase.

Change-Id: I8e6a145da86e5ed56eb184d98d54bc8093a3bd1f
 2024-02-27 22:51:56 +00:00
Sharlatan Hellseher 991e41553c
gnu: siril: Update to 1.2.1. 
* gnu/packages/astronomy.scm (siril): Update to 1.2.1.

Change-Id: I52492a51ad5205914b9bfa930db22809b968e5a7
 2024-02-27 22:51:56 +00:00
Sharlatan Hellseher 63bcebd90e
gnu: parfive: Simplify package. 
* gnu/packages/python-web.scm (parfive) [build-system]: Swap to
pyproject-build-system.
[arguments] <#:phases>: Use standard 'check phase. <#:test-flags>: Move
disabled tests here and remove 'disable-test-requiring-network phase.

Change-Id: I08b67b2aa7027ac37e0a3df4da7ebb01ea3c451e
 2024-02-27 22:51:56 +00:00
Sharlatan Hellseher bcf5143c1f
gnu: parfive: Update to 2.0.2. 
* gnu/packages/python-web.scm (parfive): Update to 2.0.2.

Change-Id: I3890cbae4d706c5f3391809fc6b4ce36140f059d
 2024-02-27 22:51:56 +00:00
Sharlatan Hellseher 4e213f7da6
gnu: phd2: Update to 2.6.13. 
* gnu/packages/astronomy.scm (phd2): Update to 2.6.13.

Change-Id: Iac8d1e00be3ea9137b10f2608c149fcbde539c7b
 2024-02-27 22:51:56 +00:00
Sharlatan Hellseher 55e9878cf5
gnu: indi-2.0: Update to 2.0.6. 
* gnu/packages/astronomy.scm (indi-2.0): Update to 2.0.6.

Change-Id: Id8e9243639beadc3a9bd854af92797643b5d62d8
 2024-02-27 22:51:56 +00:00
Sharlatan Hellseher 533942d513
gnu: giza: Update to 1.4.1. 
* gnu/packages/maths.scm (giza): Update to 1.4.1.

Change-Id: I7e6087e22cc6dea4a680fa45db155e42a724b50d
 2024-02-27 22:51:56 +00:00
Sharlatan Hellseher 299d1f104a
gnu: calceph: Update to 3.5.5. 
* gnu/packages/astronomy.scm (calceph): Update to 3.5.5.

Change-Id: Ie8963af1d30ad153be17e342c9f698a078279308
 2024-02-27 22:51:56 +00:00
Vagrant Cascadian 16ab67182b
gnu: diffoscope: Update to 258. 
* gnu/packages/diffoscope.scm (diffoscope): Update to 258.
 2024-02-27 14:42:20 -08:00
Wilko Meyer c99069e629
gnu: linux-libre 4.19: Update to 4.19.307. 
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.307.
(linux-libre-4.19-pristine-source): Update hash.

Change-Id: Ib88b6bac125a919706202a975311201478251030
Signed-off-by: Leo Famulari <leo@famulari.name>
 2024-02-27 13:44:28 -05:00
Wilko Meyer 4a0adb3d29
gnu: linux-libre 5.4: Update to 5.4.269. 
* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.269.
(linux-libre-5.4-pristine-source): Update hash.

Change-Id: I5d0ac105976a12b8233804a35080838099f3f7e4
Signed-off-by: Leo Famulari <leo@famulari.name>
 2024-02-27 13:44:28 -05:00
Wilko Meyer 7d579dcb5e
gnu: linux-libre 5.10: Update to 5.10.210. 
* gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.210.
(linux-libre-5.10-pristine-source): Update hash.

Change-Id: I707cd72140fe0f0879082668cd5aa8346df1aab3
Signed-off-by: Leo Famulari <leo@famulari.name>
 2024-02-27 13:44:27 -05:00
Wilko Meyer bf572b6538
gnu: linux-libre 5.15: Update to 5.15.149. 
* gnu/packages/linux.scm (linux-libre-5.15-version): Update to 5.15.149.
(linux-libre-5.15-pristine-source): Update hash.

Change-Id: I7c129f78db381e7733d240d77de534f8b5b387ad
Signed-off-by: Leo Famulari <leo@famulari.name>
 2024-02-27 13:44:27 -05:00
Wilko Meyer 29f6bdb03c
gnu: linux-libre 6.1: Update to 6.1.79. 
* gnu/packages/linux.scm (linux-libre-6.1-version): Update to 6.1.79.
(linux-libre-6.1-pristine-source, deblob-scripts-6.1): Update hashes.

Change-Id: I280553d8efd294ac044765629c920e593185e3c8
Signed-off-by: Leo Famulari <leo@famulari.name>
 2024-02-27 13:44:27 -05:00
Wilko Meyer d076b7a487
gnu: linux-libre 6.6: Update to 6.6.18. 
* gnu/packages/linux.scm (linux-libre-6.6-version): Update to 6.6.18.
(linux-libre-6.6-pristine-source): Update hash.

Change-Id: I1167a7aeb1118f8aaf6c74306e82f8e33f73f0e8
Signed-off-by: Leo Famulari <leo@famulari.name>
 2024-02-27 13:44:27 -05:00
Wilko Meyer 11d3149771
gnu: linux-libre 6.7: Update to 6.7.6. 
* gnu/packages/linux.scm (linux-libre-6.7-version): Update to 6.7.6.
(linux-libre-6.7-pristine-source): Update hash.

Change-Id: Ic1511423b3894c5a80240bebe369c861de6384a3
Signed-off-by: Leo Famulari <leo@famulari.name>
 2024-02-27 13:44:17 -05:00
Greg Hogan 75bad75367
gnu: gdb: Update to 14.1. 
* gnu/packages/gdb.scm (gdb-12): Rename to ...
(gdb-14): ... and update to 14.1.
(avr-gdb, gdb-minimal, gdb-multiarch): Inherit from GDB-14.

Change-Id: I1396ba885fc97a8b0387a4b8e4c04ff018eba23f
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-02-27 11:51:07 +01:00
Greg Hogan 3f0efd6a58
gnu: googlebenchmark: Update to 1.8.3. 
* gnu/packages/check.scm (googlebenchmark): Update to 1.8.3.

Change-Id: I7fb761304e180f5b1cd5031a970909fba2dca1d7
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-02-27 11:51:07 +01:00
chris 78b5cc4e3b
gnu: Add yambar-wayland. 
* gnu/packages/wm.scm (yambar-wayland): New variable.

Change-Id: I7b1d5d3626b915261b5b3f7fea3a3ace03adbf11
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-02-27 11:51:07 +01:00
Carlo Zancanaro e64617c5fa
doc: Document required setup steps for Nix service. 
* doc/guix.texi (Nix service): Add specific channel setup commands, add
commands to create profile directory.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-02-27 11:51:07 +01:00
Andy Tai ce5f756375
gnu: pspp: Update to 2.0.0. 
* gnu/packages/statistics.scm (pspp): Update to 2.0.0
  [arguments](phases): Patch test case to make pass due to locale
  [native-inputs]: Switch from Python 2 to Python 3

Change-Id: I9feeab72789347033d2df8f23bda9ea27aaa7dd9
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-02-27 11:51:07 +01:00
Lars Bilke dcdc0a5592
gnu: petsc: Reduce closure size. 
Reduces closure size from 828 MiB to 463 MiB (44%) by removing
references to build dependencies such as GCC.

* gnu/packages/maths.scm (petsc)[arguments]: Add
‘clear-reference-to-compiler’ phase.
In ‘clean-install’ phase, also remove “configure-hash”.

Change-Id: I2e6900747b2118546f0a39ceb109b3f2f90e6949
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-02-27 11:51:06 +01:00
Efraim Flashner f5f64cd773
gnu: python-databind-json: Allow newer versions of typing-extensions. 
* gnu/packages/python-xyz.scm (python-databind-json)[source]: Add
snippet to allow newer versions of python-typing-extensions.

Change-Id: I9a8ec799d273ba6f92029afd2f5d2007f3579eb3
 2024-02-27 10:59:00 +02:00
Efraim Flashner 99e5f3cd14
gnu: libgit2-1.4: Update to 1.4.6. 
* gnu/packages/version-control.scm (libgit2-1.4): Update to 1.4.6.

Change-Id: Ieb470e93d6be9a2e45585b747efb695ef9f33161
 2024-02-27 08:26:21 +02:00
Efraim Flashner 5bf912330b
gnu: l2md: Fix build on 32-bit systems. 
* gnu/packages/mail.scm (l2md)[source]: Add snippet to gate macOS build
fix to only apply when building for Apple devices.

Change-Id: Id303a89ec78ce160cfb6ebed232a841c8283e812
 2024-02-27 08:26:21 +02:00
Efraim Flashner 9ee57722ce
gnu: libgit2-1.7: Update to 1.7.2. 
* gnu/packages/version-control.scm (libgit2-1.7): Update to 1.7.2.

Change-Id: I60ad4aa2a5b29b027755cf8add848bd4a8b71282
 2024-02-27 08:26:20 +02:00
Ludovic Courtès 4b60a39aa5
gnu: libgit2: Introduce ‘libgit2-1.5’ variable. 
* gnu/packages/version-control.scm (libgit2): Rename to…
(libgit2-1.5): … this.
(libgit2): Alias for ‘libgit2-1.5’.

Change-Id: I7f6aff23df3b968d914736fe723dcdd435176ce2
 2024-02-26 23:41:36 +01:00
Ludovic Courtès 9f00975f55
gnu: guile-git: Depend on libgit2 1.7. 
* gnu/packages/guile.scm (guile-git)[inputs]: Replace LIBGIT2-1.3 with
LIBGIT2-1.7.

Change-Id: Ia386f977b0888b7bd9b26443ac6150428fda2155
 2024-02-26 23:41:36 +01:00
Ludovic Courtès d2159ee9d1
gnu: guile-git: Update to 0.6.0. 
* gnu/packages/guile.scm (guile-git): Update to 0.6.0.
[source]: Remove ‘patches’ field.
* gnu/packages/patches/guile-git-adjust-for-libgit2-1.2.0.patch: Remove.
* gnu/local.mk (dist_patch_DATA): Remove it.

Change-Id: I49300461389bc24a9802fbda5e374a330ffc3715
 2024-02-26 23:41:36 +01:00
Ludovic Courtès 2a7f7af87c
gnu: libgit2: Set ‘GITTEST_FLAKY_STAT’ when running tests on GNU/Hurd. 
* gnu/packages/version-control.scm (libgit2)[arguments]: Install
‘pre-check’ phase when ‘target-hurd?’ returns true.

Change-Id: I664d4aa2a0ad76a10a47ae7bc3c5912756972b46
 2024-02-26 23:41:36 +01:00
Ricardo Wurmus b6604de226
gnu: Remove python-nltk-3.4. 
* gnu/packages/python-xyz.scm (python-nltk-3.4): Remove variable.

Change-Id: I865380c0428d459147c0980065719c32bf67075a
 2024-02-26 22:53:23 +01:00
Ricardo Wurmus a15404a592
gnu: python-lunr: Update to 0.7.0.post1. 
* gnu/packages/python-xyz.scm (python-lunr): Update to 0.7.0.post1.
[build-system]: Use pyproject-build-system.
[arguments]: Disable tests that need nodejs.
[native-inputs]: Remove python-mock; add python-coverage,
python-hatch-fancy-pypi-readme, python-hatchling, python-pytest-timeout, and
python-tox.
[propagated-inputs]: Remove python-nltk-3.4; add python-importlib-metadata and
python-typing-extensions.

Change-Id: Ide9b0d98878dd8972d883c1c0e391a9a4b660eba
 2024-02-26 22:53:23 +01:00
Christian Miller via Guix-patches via bf17a01e06
gnu: Add pass-coffin 
* gnu/packages/password-utils.scm (pass-coffin): New variable.

Reviewed-by: Steve George <steve@futurile.net>

Change-Id: I2fdf6c755b9b75780c5a3c0304e5b961a15640a4
Signed-off-by: Andreas Enge <andreas@enge.fr>
 2024-02-26 16:48:41 +01:00
Andreas Enge 8842826609
gnu: Add paritwine. 
* gnu/packages/algebra.scm (paritwine): New variable.

Change-Id: If2a55dd4a42d4d27a67249bd11592635ade20351
 2024-02-26 15:54:03 +01:00
Andreas Enge baf4cd20d1
gnu: cm: Update to 0.4.3. 
* gnu/packages/algebra.scm (cm): Update to 0.4.3.
[inputs]: Add flint.

Change-Id: Icb1a01a2abcdf6a0685503a0d032a21b42d464d6
 2024-02-26 15:02:32 +01:00
Ricardo Wurmus cb4785033d
gnu: r-dmrseq: Update to 1.22.1. 
* gnu/packages/bioconductor.scm (r-dmrseq): Update to 1.22.1.

Change-Id: I7c05a4927a3984917c6de7bc5daa3f28794894d7
 2024-02-26 13:03:14 +01:00
Ricardo Wurmus 7d69eb77b6
gnu: r-beachmat: Update to 2.18.1. 
* gnu/packages/bioconductor.scm (r-beachmat): Update to 2.18.1.

Change-Id: I854c4c21cad66e3fb2bfe63fe01c31c3aff7d109
 2024-02-26 13:03:14 +01:00
Ricardo Wurmus 9eb9e1a5be
gnu: r-hdf5array: Update to 1.30.1. 
* gnu/packages/bioconductor.scm (r-hdf5array): Update to 1.30.1.

Change-Id: I48d733554b9c74e10d29b123008ba6d20fa85641
 2024-02-26 13:03:14 +01:00
Ricardo Wurmus 01c7155764
gnu: r-variancepartition: Update to 1.32.5. 
* gnu/packages/bioconductor.scm (r-variancepartition): Update to 1.32.5.

Change-Id: I9195cbe28f85001bcd91fa3d57f0017db5b352b7
 2024-02-26 13:03:13 +01:00
Ricardo Wurmus bff1489062
gnu: r-a4: Update to 1.50.1. 
* gnu/packages/bioconductor.scm (r-a4): Update to 1.50.1.

Change-Id: If07b255590ad99146a81729af073aac67cd535d4
 2024-02-26 13:03:13 +01:00
Ricardo Wurmus a12dd734dd
gnu: r-chippeakanno: Update to 3.36.1. 
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.36.1.

Change-Id: I133f7ca3032f5f5722a8d5d9cbf1bf1da42ff4a9
 2024-02-26 13:03:13 +01:00
Ricardo Wurmus 66b1080b8d
gnu: r-seqarray: Update to 1.42.2. 
* gnu/packages/bioconductor.scm (r-seqarray): Update to 1.42.2.

Change-Id: I6b4915c8dbdf14054125cac33bfddde4605fbc58
 2024-02-26 13:03:12 +01:00
Ricardo Wurmus 63622bf34e
gnu: r-edger: Update to 4.0.16. 
* gnu/packages/bioconductor.scm (r-edger): Update to 4.0.16.

Change-Id: I542bbe7f290a5282f76eea7b88f605f6fa714624
 2024-02-26 13:03:12 +01:00
Ricardo Wurmus 52c373f107
gnu: r-anf: Update to 1.24.1. 
* gnu/packages/bioconductor.scm (r-anf): Update to 1.24.1.

Change-Id: I5843d257e4312101fb1b0dc9bbb49bd088bb3b91
 2024-02-26 13:03:12 +01:00
Ricardo Wurmus 866fbcc629
gnu: r-anvil: Update to 1.14.2. 
* gnu/packages/bioconductor.scm (r-anvil): Update to 1.14.2.

Change-Id: I91fa1253e5f174d9d1d445edd873ceb23a783787
 2024-02-26 13:03:11 +01:00
Ricardo Wurmus 1d85f921f6
gnu: r-mclust: Update to 6.1. 
* gnu/packages/statistics.scm (r-mclust): Update to 6.1.

Change-Id: I52a5bd83b26e0d1d35e494e6dab1e6dec594fdfc
 2024-02-26 12:34:11 +01:00
Ricardo Wurmus 13fc90e284
gnu: r-runit: Update to 0.4.33. 
* gnu/packages/statistics.scm (r-runit): Update to 0.4.33.

Change-Id: I0690643ff91f9ec7e41d1dba68d23eae1d981d8b
 2024-02-26 12:34:11 +01:00