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2024-03-06gnu: libtheora: Fix cross-compiling to riscv64-linux.Zheng Junjie
* 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>
2024-03-06gnu: libtheora: Use Gexps.Zheng Junjie
* gnu/packages/xiph.scm (libtheora): Use Gexps. Change-Id: Ie055cd4f6cb9d2a4601b93d1f9db227598349c7c Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2024-03-06gnu: home: dotfiles: Properly support both plain and Stow directory layouts.Giacomo Leidi
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>
2024-03-06services: virtual-build-machine: Disable substitutes by default.Ludovic Courtès
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
2024-03-06gnu: r-seuratdata: Update to 0.2.2.9001-1.4dc08e0.Ricardo Wurmus
* 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
2024-03-06gnu: r-snprelate: Update to 1.36.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-snprelate): Update to 1.36.1. Change-Id: I5cf14d463c0f4ca3707a8ac33c7a06baa4337789
2024-03-06gnu: r-s4arrays: Update to 1.2.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-s4arrays): Update to 1.2.1. Change-Id: I68c0ee03264073e8816fc92fbaa97ebb6c5036ed
2024-03-06gnu: r-ggcyto: Update to 1.30.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-ggcyto): Update to 1.30.2. Change-Id: I29c123aa60347b491412631f036923c3bbb7d6c9
2024-03-06gnu: r-ggtree: Update to 3.10.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-ggtree): Update to 3.10.1. Change-Id: I62eec59a6be3f806261198a1d39eb38ee86a9a79
2024-03-06gnu: r-nebulosa: Update to 1.12.1.Ricardo Wurmus
* 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
2024-03-06gnu: r-datasaurus: Update to 0.1.8.Ricardo Wurmus
* gnu/packages/statistics.scm (r-datasaurus): Update to 0.1.8. Change-Id: Ida2de5f36bbb7bbb42f6088bffafaa0059c02ec3
2024-03-06gnu: r-naniar: Update to 1.1.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-naniar): Update to 1.1.0. [propagated-inputs]: Add r-lifecycle. Change-Id: I01815422981039a0b4c23a2d91fae37300e9d5da
2024-03-06gnu: r-rcppeigen: Update to 0.3.4.0.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rcppeigen): Update to 0.3.4.0.0. Change-Id: Ie879a04dcc7c22fac69da0f72a82868f14571f59
2024-03-06gnu: r-vgam: Update to 1.1-10.Ricardo Wurmus
* gnu/packages/statistics.scm (r-vgam): Update to 1.1-10. Change-Id: I0f116e19095577e20ac9c6644e00141dcc953d84
2024-03-06gnu: r-rcpparmadillo: Update to 0.12.8.1.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.12.8.1.0. Change-Id: Ic0e678dadd5fcbbea3b0edda60a6bc465bdbe98c
2024-03-06gnu: r-data-table: Update to 1.15.2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-data-table): Update to 1.15.2. Change-Id: I1e68949514e1f525bc70218752d3f978b787d4b6
2024-03-06gnu: r-locfit: Update to 1.5-9.9.Ricardo Wurmus
* gnu/packages/statistics.scm (r-locfit): Update to 1.5-9.9. Change-Id: I792b37ef9b5f10b95b14ca633d254843a9de9aab
2024-03-06gnu: r-gdtools: Update to 0.3.7.Ricardo Wurmus
* gnu/packages/statistics.scm (r-gdtools): Update to 0.3.7. Change-Id: I6f784e10a6856c3b651fca44f658810750a255fc
2024-03-06gnu: r-gganimate: Update to 1.0.9.Ricardo Wurmus
* 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
2024-03-06gnu: r-mlr3tuning: Update to 0.20.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-mlr3tuning): Update to 0.20.0. Change-Id: I4eff54cf5e5961ea8389e606fcdf8b197c9a0b43
2024-03-06gnu: r-bbotk: Update to 0.8.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-bbotk): Update to 0.8.0. Change-Id: I5ecb9e126b96970db6aee5374ae809cd03eab9f4
2024-03-06gnu: r-mlr3: Update to 0.18.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-mlr3): Update to 0.18.0. Change-Id: I4694be8897b834dc107b80aff89ccf2fb43759d1
2024-03-06gnu: r-seurat: Update to 5.0.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-seurat): Update to 5.0.2. Change-Id: I358d4bcab984b207ab9ee69ebdaeecf440626b70
2024-03-06gnu: r-spatstat-random: Update to 3.2-3.Ricardo Wurmus
* gnu/packages/cran.scm (r-spatstat-random): Update to 3.2-3. Change-Id: Ie8496efc4fbb4ab7ed296353ac746c7f2fb6f5ab
2024-03-06gnu: r-spatstat-geom: Update to 3.2-9.Ricardo Wurmus
* gnu/packages/cran.scm (r-spatstat-geom): Update to 3.2-9. Change-Id: I122f0f3a5ca692eb32cfa7adfb050e11a91d0a84
2024-03-06gnu: r-hrbrthemes: Update to 0.8.7.Ricardo Wurmus
* 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
2024-03-06gnu: r-erm: Update to 1.0-5.Ricardo Wurmus
* gnu/packages/cran.scm (r-erm): Update to 1.0-5. Change-Id: I2afb17f770e54a3fb33dd2decf97fa33946d65df
2024-03-06gnu: r-stanheaders: Update to 2.32.6.Ricardo Wurmus
* gnu/packages/cran.scm (r-stanheaders): Update to 2.32.6. Change-Id: I257b98c4d366644412823e7db9c077c5fa94437c
2024-03-06gnu: r-forecast: Update to 8.22.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-forecast): Update to 8.22.0. Change-Id: I866e6aa742a663fe8baa4ba5e90add41cfc9b957
2024-03-06gnu: r-fda: Update to 6.1.7.Ricardo Wurmus
* gnu/packages/cran.scm (r-fda): Update to 6.1.7. Change-Id: Ieee4094c64be5bb89b257efea788a3799baef7b7
2024-03-06gnu: r-showtext: Update to 0.9-7.Ricardo Wurmus
* gnu/packages/cran.scm (r-showtext): Update to 0.9-7. Change-Id: Iff35114553726dd2941e870de02427c73cb397f1
2024-03-06gnu: r-sysfonts: Update to 0.8.9.Ricardo Wurmus
* gnu/packages/cran.scm (r-sysfonts): Update to 0.8.9. Change-Id: I4b1398049ac0fd07dcbd56247e3808c85c1b3d7e
2024-03-06gnu: r-leidenalg: Update to 1.1.3.Ricardo Wurmus
* gnu/packages/cran.scm (r-leidenalg): Update to 1.1.3. Change-Id: I20737485f2bbeab212bb1cce2f5935f0df938741
2024-03-06gnu: r-ggraph: Update to 2.2.0.Ricardo Wurmus
* 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
2024-03-06gnu: r-tweenr: Update to 2.0.3.Ricardo Wurmus
* gnu/packages/cran.scm (r-tweenr): Update to 2.0.3. Change-Id: Ia7780ff00aeb25937a29a33cdb2d683f59067114
2024-03-06gnu: r-bookdown: Update to 0.38.Ricardo Wurmus
* gnu/packages/cran.scm (r-bookdown): Update to 0.38. Change-Id: I2dd69baf405e938626ad487691fec8ee97027b97
2024-03-06gnu: r-deldir: Update to 2.0-4.Ricardo Wurmus
* gnu/packages/cran.scm (r-deldir): Update to 2.0-4. Change-Id: I31ef8c01111569c3619b80b1178413a5cd84d07c
2024-03-06gnu: r-parallelly: Update to 1.37.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-parallelly): Update to 1.37.1. Change-Id: I6ff44227c6fcd9c49bf4eb4d172005334bb73d1f
2024-03-06gnu: r-ontologyindex: Update to 2.12.Ricardo Wurmus
* gnu/packages/cran.scm (r-ontologyindex): Update to 2.12. Change-Id: Iaa72aa3c1f01f4bdc82707aa8fbc70949647e78f
2024-03-06gnu: r-tractor-base: Update to 3.4.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-tractor-base): Update to 3.4.2. Change-Id: I86d07604a6f3bcac561d8df0e7332effdce92176
2024-03-06gnu: r-colorramps: Update to 2.3.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-colorramps): Update to 2.3.2. Change-Id: I81f7e3141c97da2f9c8a6a6fee37de98c6a7d4c8
2024-03-06gnu: r-partr2: Update to 0.9.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-partr2): Update to 0.9.2. Change-Id: Ib746e6755e2ea99ce08cdd3674b069cd14e6109d
2024-03-06gnu: r-nodbi: Update to 0.10.3.Ricardo Wurmus
* gnu/packages/cran.scm (r-nodbi): Update to 0.10.3. Change-Id: I6acc7fddf0c9bc2eb0bdc241d024431d9a0d9c4e
2024-03-06gnu: r-hdf5r: Update to 1.3.10.Ricardo Wurmus
* gnu/packages/cran.scm (r-hdf5r): Update to 1.3.10. [native-inputs]: Add pkg-config. Change-Id: Ie93236c090afef5d29178bd4b3a9152ae9298a54
2024-03-06gnu: r-factominer: Update to 2.10.Ricardo Wurmus
* gnu/packages/cran.scm (r-factominer): Update to 2.10. Change-Id: Id9f93c26d3ab7d94a2f19e9606c64d20540284e8
2024-03-06gnu: r-ggsci: Update to 3.0.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-ggsci): Update to 3.0.1. Change-Id: I95c260015b909d2c6b8da4d853f2b1a528c4ef2e
2024-03-06gnu: r-renv: Update to 1.0.5.Ricardo Wurmus
* gnu/packages/cran.scm (r-renv): Update to 1.0.5. Change-Id: Ie51126dec50f4ec3bacd0b52354fd1a4cc2a926f
2024-03-06gnu: r-n2r: Update to 1.0.3.Ricardo Wurmus
* gnu/packages/cran.scm (r-n2r): Update to 1.0.3. Change-Id: I4bd01c00d9a772b69fb69e23d94d8a98f7db6ff0
2024-03-06gnu: r-lava: Update to 1.8.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-lava): Update to 1.8.0. [propagated-inputs]: Add r-cli. Change-Id: I3cac62611057dd66efa82ef2c8f6ae460fd91ff7
2024-03-06gnu: r-bdsmatrix: Update to 1.3-7.Ricardo Wurmus
* gnu/packages/cran.scm (r-bdsmatrix): Update to 1.3-7. Change-Id: I7244cad6a9e82a0d87d5d1abcd427850994b63c0
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