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Author SHA1 Message Date
Ricardo Wurmus
228ee09d35
gnu: r-with-tests: Update to 4.3.3. 
* gnu/packages/statistics.scm (r-with-tests): Update to 4.3.3.

Change-Id: Ida43d1e7f747245b01aa6fc73716b79611f0bbfd
 2024-03-06 23:47:00 +01:00
Zheng Junjie
64d269b983
gnu: libtheora: Fix cross-compiling to riscv64-linux. 
* gnu/packages/xiph.scm (libtheora):
[native-inputs]: When cross compiling to riscv64-linux-gnu, add config.
[arguments]: When target riscv64-linux-gnu, add update-config phase.

Change-Id: Ie055cd4f6cb9d2a4601b93d1f9db227598349c7c
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-03-06 23:25:51 +01:00
Zheng Junjie
5980c8a6b1
gnu: libtheora: Use Gexps. 
* gnu/packages/xiph.scm (libtheora): Use Gexps.

Change-Id: Ie055cd4f6cb9d2a4601b93d1f9db227598349c7c
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-03-06 23:25:51 +01:00
Giacomo Leidi
01f685d560
gnu: home: dotfiles: Properly support both plain and Stow directory layouts. 
Fixes <https://issues.guix.gnu.org/68848>.

The current implementation of the home-dotfiles-service-type contradicts
the Guix manual.  This patch properly implements both the plain and Stow
dotfiles directory layouts.

It does so by refactoring home-dotfiles-configuration adding a new
packages field to support GNU Stow's users workflow and introducing
a new layout field to switch between the two directory layouts.

* gnu/home/services/dotfiles (home-dotfiles-configuration): Migrate to
(gnu services configuration);
[packages]: new field;
[layout]: new field;
(strip-stow-dotfile): new variable;
(strip-plain-dotfile): new variable;
(home-dotfiles-configuration->files): use the new fields;
[directory-contents]: allow for
selecting a subset of application dotfile directories;
* doc/guix.texi: document the new layouts.

Change-Id: I2e96037608353e360828290f055ec5271cfdfd48
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-03-06 23:25:51 +01:00
Ludovic Courtès
9e3061a163
services: virtual-build-machine: Disable substitutes by default. 
These are useless when offloading yet were causing problems on systems
where the default substitute servers are unreachable.

* gnu/services/virtualization.scm (%virtual-build-machine-operating-system):
Add ‘use-substitutes?’ field to ‘guix-configuration’.

Change-Id: I7d5e380a6f2e2d537de43fdb3c550958ed4db255
 2024-03-06 23:25:51 +01:00
Ludovic Courtès
364422d0ac
doc: Fix typo in “Getting Started with the System”. 
* doc/guix.texi (Getting Started with the System): Fix typo.

Change-Id: Idc52b9a4d5f5003899613595b6b275e098f6a3a8
 2024-03-06 23:25:51 +01:00
Ricardo Wurmus
06e61f9cd2
gnu: r-seuratdata: Update to 0.2.2.9001-1.4dc08e0. 
* gnu/packages/cran.scm (r-seuratdata): Update to 0.2.2.9001-1.4dc08e0.
[propagated-inputs]: Add r-seurat and r-seuratobject.

Change-Id: I8bf21d23ec0bdfbc0b8930673ac5750d081ac780
 2024-03-06 15:44:45 +01:00
Ricardo Wurmus
f3ea06baca
gnu: r-snprelate: Update to 1.36.1. 
* gnu/packages/bioconductor.scm (r-snprelate): Update to 1.36.1.

Change-Id: I5cf14d463c0f4ca3707a8ac33c7a06baa4337789
 2024-03-06 11:31:32 +01:00
Ricardo Wurmus
82a449419c
gnu: r-s4arrays: Update to 1.2.1. 
* gnu/packages/bioconductor.scm (r-s4arrays): Update to 1.2.1.

Change-Id: I68c0ee03264073e8816fc92fbaa97ebb6c5036ed
 2024-03-06 11:31:32 +01:00
Ricardo Wurmus
c202079ef8
gnu: r-ggcyto: Update to 1.30.2. 
* gnu/packages/bioconductor.scm (r-ggcyto): Update to 1.30.2.

Change-Id: I29c123aa60347b491412631f036923c3bbb7d6c9
 2024-03-06 11:31:32 +01:00
Ricardo Wurmus
f83fbb9353
gnu: r-ggtree: Update to 3.10.1. 
* gnu/packages/bioconductor.scm (r-ggtree): Update to 3.10.1.

Change-Id: I62eec59a6be3f806261198a1d39eb38ee86a9a79
 2024-03-06 11:31:31 +01:00
Ricardo Wurmus
7ddc66bd36
gnu: r-nebulosa: Update to 1.12.1. 
* gnu/packages/bioconductor.scm (r-nebulosa): Update to 1.12.1.
[propagated-inputs]: Remove r-seurat; add r-ggrastr and r-seuratobject.

Change-Id: If301102ec02ce618ed1ebeff17a9d7e0845e847c
 2024-03-06 11:31:31 +01:00
Carlo Zancanaro
9d9bb8955a
scripts: import: elpa: Unquote-splice package sexp contents. 
* guix/scripts/import/elpa.scm (guix-import-elpa): Unquote-splice the contents
of the package sexp so the matched package definition is returned unchanged.

Change-Id: Iaaa7e72390c73c6d6671811fe9ac284d599b44c6
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2024-03-06 11:09:55 +01:00
Ricardo Wurmus
86552708c3
gnu: r-datasaurus: Update to 0.1.8. 
* gnu/packages/statistics.scm (r-datasaurus): Update to 0.1.8.

Change-Id: Ida2de5f36bbb7bbb42f6088bffafaa0059c02ec3
 2024-03-06 09:42:06 +01:00
Ricardo Wurmus
85cdebc014
gnu: r-naniar: Update to 1.1.0. 
* gnu/packages/statistics.scm (r-naniar): Update to 1.1.0.
[propagated-inputs]: Add r-lifecycle.

Change-Id: I01815422981039a0b4c23a2d91fae37300e9d5da
 2024-03-06 09:42:06 +01:00
Ricardo Wurmus
5ec0ff2dc8
gnu: r-rcppeigen: Update to 0.3.4.0.0. 
* gnu/packages/statistics.scm (r-rcppeigen): Update to 0.3.4.0.0.

Change-Id: Ie879a04dcc7c22fac69da0f72a82868f14571f59
 2024-03-06 09:42:06 +01:00
Ricardo Wurmus
839a6ed474
gnu: r-vgam: Update to 1.1-10. 
* gnu/packages/statistics.scm (r-vgam): Update to 1.1-10.

Change-Id: I0f116e19095577e20ac9c6644e00141dcc953d84
 2024-03-06 09:42:06 +01:00
Ricardo Wurmus
91be200249
gnu: r-rcpparmadillo: Update to 0.12.8.1.0. 
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.12.8.1.0.

Change-Id: Ic0e678dadd5fcbbea3b0edda60a6bc465bdbe98c
 2024-03-06 09:42:06 +01:00
Ricardo Wurmus
3db9c83498
gnu: r-data-table: Update to 1.15.2. 
* gnu/packages/statistics.scm (r-data-table): Update to 1.15.2.

Change-Id: I1e68949514e1f525bc70218752d3f978b787d4b6
 2024-03-06 09:42:06 +01:00
Ricardo Wurmus
9519b412e7
gnu: r-locfit: Update to 1.5-9.9. 
* gnu/packages/statistics.scm (r-locfit): Update to 1.5-9.9.

Change-Id: I792b37ef9b5f10b95b14ca633d254843a9de9aab
 2024-03-06 09:42:06 +01:00
Ricardo Wurmus
17f602aec2
gnu: r-gdtools: Update to 0.3.7. 
* gnu/packages/statistics.scm (r-gdtools): Update to 0.3.7.

Change-Id: I6f784e10a6856c3b651fca44f658810750a255fc
 2024-03-06 09:42:06 +01:00
Ricardo Wurmus
f0ea78f219
gnu: r-gganimate: Update to 1.0.9. 
* gnu/packages/cran.scm (r-gganimate): Update to 1.0.9.
[propagated-inputs]: Add r-cli, r-lifecycle, r-transformr, and r-vctrs.

Change-Id: I6fbee3cf380992caeeedaa738aa21dabad670950
 2024-03-06 09:42:06 +01:00
Ricardo Wurmus
1c13f01037
gnu: r-mlr3tuning: Update to 0.20.0. 
* gnu/packages/cran.scm (r-mlr3tuning): Update to 0.20.0.

Change-Id: I4eff54cf5e5961ea8389e606fcdf8b197c9a0b43
 2024-03-06 09:42:06 +01:00
Ricardo Wurmus
85c9d158f3
gnu: r-bbotk: Update to 0.8.0. 
* gnu/packages/cran.scm (r-bbotk): Update to 0.8.0.

Change-Id: I5ecb9e126b96970db6aee5374ae809cd03eab9f4
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
74a179bc44
gnu: r-mlr3: Update to 0.18.0. 
* gnu/packages/cran.scm (r-mlr3): Update to 0.18.0.

Change-Id: I4694be8897b834dc107b80aff89ccf2fb43759d1
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
03c6a20fc1
gnu: r-seurat: Update to 5.0.2. 
* gnu/packages/cran.scm (r-seurat): Update to 5.0.2.

Change-Id: I358d4bcab984b207ab9ee69ebdaeecf440626b70
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
7b1bdd0ecc
gnu: r-spatstat-random: Update to 3.2-3. 
* gnu/packages/cran.scm (r-spatstat-random): Update to 3.2-3.

Change-Id: Ie8496efc4fbb4ab7ed296353ac746c7f2fb6f5ab
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
8337e810fc
gnu: r-spatstat-geom: Update to 3.2-9. 
* gnu/packages/cran.scm (r-spatstat-geom): Update to 3.2-9.

Change-Id: I122f0f3a5ca692eb32cfa7adfb050e11a91d0a84
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
6982f320e2
gnu: r-hrbrthemes: Update to 0.8.7. 
* gnu/packages/cran.scm (r-hrbrthemes): Update to 0.8.7.
[propagated-inputs]: Remove r-htmltools, r-knitr, and r-rmarkdown.
[native-inputs]: Remove r-knitr.

Change-Id: Id7486f175962306caea0ef290925f809e6db7972
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
06a3e957cb
gnu: r-erm: Update to 1.0-5. 
* gnu/packages/cran.scm (r-erm): Update to 1.0-5.

Change-Id: I2afb17f770e54a3fb33dd2decf97fa33946d65df
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
fc8e0c91e3
gnu: r-stanheaders: Update to 2.32.6. 
* gnu/packages/cran.scm (r-stanheaders): Update to 2.32.6.

Change-Id: I257b98c4d366644412823e7db9c077c5fa94437c
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
ac139b1644
gnu: r-forecast: Update to 8.22.0. 
* gnu/packages/cran.scm (r-forecast): Update to 8.22.0.

Change-Id: I866e6aa742a663fe8baa4ba5e90add41cfc9b957
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
d51eaad127
gnu: r-fda: Update to 6.1.7. 
* gnu/packages/cran.scm (r-fda): Update to 6.1.7.

Change-Id: Ieee4094c64be5bb89b257efea788a3799baef7b7
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
e96228adb8
gnu: r-showtext: Update to 0.9-7. 
* gnu/packages/cran.scm (r-showtext): Update to 0.9-7.

Change-Id: Iff35114553726dd2941e870de02427c73cb397f1
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
b8a4807f1a
gnu: r-sysfonts: Update to 0.8.9. 
* gnu/packages/cran.scm (r-sysfonts): Update to 0.8.9.

Change-Id: I4b1398049ac0fd07dcbd56247e3808c85c1b3d7e
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
69acd366ee
gnu: r-leidenalg: Update to 1.1.3. 
* gnu/packages/cran.scm (r-leidenalg): Update to 1.1.3.

Change-Id: I20737485f2bbeab212bb1cce2f5935f0df938741
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
e8121c0c2c
gnu: r-ggraph: Update to 2.2.0. 
* gnu/packages/cran.scm (r-ggraph): Update to 2.2.0.
[propagated-inputs]: Remove r-digest, r-gtable, and r-rcpp; add r-cpp11 and r-memoise.

Change-Id: Id5c4be4765171c0b46bd421cf13e4dbdbfa44955
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
44e4a9a3f3
gnu: r-tweenr: Update to 2.0.3. 
* gnu/packages/cran.scm (r-tweenr): Update to 2.0.3.

Change-Id: Ia7780ff00aeb25937a29a33cdb2d683f59067114
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
c8449027a0
gnu: r-bookdown: Update to 0.38. 
* gnu/packages/cran.scm (r-bookdown): Update to 0.38.

Change-Id: I2dd69baf405e938626ad487691fec8ee97027b97
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
1054398a12
gnu: r-deldir: Update to 2.0-4. 
* gnu/packages/cran.scm (r-deldir): Update to 2.0-4.

Change-Id: I31ef8c01111569c3619b80b1178413a5cd84d07c
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
9cfd5d3886
gnu: r-parallelly: Update to 1.37.1. 
* gnu/packages/cran.scm (r-parallelly): Update to 1.37.1.

Change-Id: I6ff44227c6fcd9c49bf4eb4d172005334bb73d1f
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
8f0b8ad9fc
gnu: r-ontologyindex: Update to 2.12. 
* gnu/packages/cran.scm (r-ontologyindex): Update to 2.12.

Change-Id: Iaa72aa3c1f01f4bdc82707aa8fbc70949647e78f
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
1fa13a5416
gnu: r-tractor-base: Update to 3.4.2. 
* gnu/packages/cran.scm (r-tractor-base): Update to 3.4.2.

Change-Id: I86d07604a6f3bcac561d8df0e7332effdce92176
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
7cdc494901
gnu: r-colorramps: Update to 2.3.2. 
* gnu/packages/cran.scm (r-colorramps): Update to 2.3.2.

Change-Id: I81f7e3141c97da2f9c8a6a6fee37de98c6a7d4c8
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
1e3ca80a83
gnu: r-partr2: Update to 0.9.2. 
* gnu/packages/cran.scm (r-partr2): Update to 0.9.2.

Change-Id: Ib746e6755e2ea99ce08cdd3674b069cd14e6109d
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
073bf699aa
gnu: r-nodbi: Update to 0.10.3. 
* gnu/packages/cran.scm (r-nodbi): Update to 0.10.3.

Change-Id: I6acc7fddf0c9bc2eb0bdc241d024431d9a0d9c4e
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
8ae33df24d
gnu: r-hdf5r: Update to 1.3.10. 
* gnu/packages/cran.scm (r-hdf5r): Update to 1.3.10.
[native-inputs]: Add pkg-config.

Change-Id: Ie93236c090afef5d29178bd4b3a9152ae9298a54
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
4fd4d7a953
gnu: r-factominer: Update to 2.10. 
* gnu/packages/cran.scm (r-factominer): Update to 2.10.

Change-Id: Id9f93c26d3ab7d94a2f19e9606c64d20540284e8
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
2668c97d55
gnu: r-ggsci: Update to 3.0.1. 
* gnu/packages/cran.scm (r-ggsci): Update to 3.0.1.

Change-Id: I95c260015b909d2c6b8da4d853f2b1a528c4ef2e
 2024-03-06 09:42:05 +01:00
Ricardo Wurmus
72d66dfd07
gnu: r-renv: Update to 1.0.5. 
* gnu/packages/cran.scm (r-renv): Update to 1.0.5.

Change-Id: Ie51126dec50f4ec3bacd0b52354fd1a4cc2a926f
 2024-03-06 09:42:05 +01:00