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Author SHA1 Message Date
Ricardo Wurmus
00feb9865a
gnu: povray: Update to 3.7.0.10. 
* gnu/packages/graphics.scm (povray): Update to 3.7.0.10.
[source]: Simplify snippet.
 2023-10-09 11:40:26 +02:00
Ricardo Wurmus
6e99158abb
gnu: povray: Drop input labels. 
* gnu/packages/graphics.scm (povray)[inputs]: Remove all input labels.
[arguments]: Use G-expression to avoid the use of %build-inputs.
 2023-10-09 11:40:26 +02:00
John Kehayias
321979a153
gnu: imgui@1.86: Adjust make-flags. 
* gnu/packages/toolkits.scm (imgui-1.86)[arguments]: Remove the
"-DIMGUI_ENABLE_FREETYPE" make-flag which breaks the display of mangohud, the
only dependent.  The "-DImDrawIdx=unsigned int" make-flag was previously
removed, so we can do both by filtering make-flags starting with "-D".
[inputs]: Remove freetype.
 2023-10-09 00:05:57 -04:00
Bruno Victal
40a1254b05
gnu: mympd: Update to 12.0.4. 
* gnu/packages/mpd.scm (mympd): Update to 12.0.4.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-08 23:43:50 +02:00
Luis Felipe
0be2108d40
gnu: Add font-orbitron. 
* gnu/packages/fonts.scm (font-orbitron): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-08 23:43:50 +02:00
Karl Hallsby
0be51fe03b
gnu: Add tree-sitter-scala. 
* gnu/packages/tree-sitter.scm (tree-sitter-scala): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-08 23:43:50 +02:00
john muhl
a44569899a
gnu: Add tree-sitter-lua. 
* gnu/packages/tree-sitter.scm (tree-sitter-lua): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-08 23:43:50 +02:00
B. Wilson
f59c31deaf
gnu: Add smithforth. 
* gnu/packages/forth (smithforth): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-08 23:43:50 +02:00
Rikard Nordgren
e1dcf86a35
gnu: Add python-beziers. 
* gnu/packages/fontutils.scm (python-beziers): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-08 23:43:50 +02:00
Nicolas Graves
e9c0bb0341
gnu: python-distributed: Disable failing tests. 
* gnu/packages/python-science.scm (python-distributed): Disable failing tests.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-08 23:43:50 +02:00
Efraim Flashner
9b77bd0b9b
gnu: vim: Update to 9.0.2001. 
* gnu/packages/vim.scm (vim): Update to 9.0.2001.
[arguments]: Skip another test.
 2023-10-08 10:19:08 +03:00
Liliana Marie Prikler
577fd21122
gnu: mpd-mpc: Install bash completions in correct location. 
* gnu/packages/mpd.scm (mpd-mpc)[#:phases]: Add ‘move-completion’.
 2023-10-08 08:48:15 +02:00
Liliana Marie Prikler
2e0ed79118
gnu: emacs-next-minimal: Apply Guix patches. 
* gnu/packages/patches/emacs-next-native-comp-driver-options.patch: Add file.
* gnu/packages/patches/emacs-next-exec-path.patch: Add file.
* gnu/local.mk (dist_patch_DATA): Register them here.
* gnu/packages/emacs.scm (emacs-next-minimal)[origin](patches): Include the
same patches as emacs-minimal, save for the variants specific to emacs-next
introduced above.

Co-Authored-By: Nicolas Graves <ngraves@ngraves.fr>
Fixes: ‘emacs-next’ is almost unusable <https://bugs.gnu.org/66227>
 2023-10-08 08:40:57 +02:00
jgart
6e63530954
gnu: python-glymur: Update to 0.12.8. 
* gnu/packages/python-xyz.scm (python-glymur): Update to 0.12.8.
[native-inputs]: Add python-scikit-image.
 2023-10-07 23:31:35 -05:00
Sergio Pastor Pérez
e328a5f746
gnu: Add gnome-shell-extension-night-theme-switcher. 
* gnu/packages/gnome-xyz.scm (gnome-shell-extension-night-theme-switcher): New variable.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-10-07 11:29:47 -04:00
Guillaume Le Vaillant
b566e1a98a
gnu: gqrx: Update to 2.17. 
* gnu/packages/radio.scm (gqrx): Update to 2.17.
 2023-10-07 11:51:43 +02:00
jgart
84431a30ea
gnu: python-openai: Update to 0.28.1. 
* gnu/packages/python-web.scm (python-openai): Update to 0.28.1.
 2023-10-07 00:04:07 -05:00
pinoaffe
6d5a75c70e
gnu: librepcb: Update to 1.0.0. 
* gnu/packages/engineering.scm (librepcb): Update to 1.0.0.
[source]: Add snippet to remove some vendored dependencies.
[build-system]: Use cmake-build-system.
[inputs]: Add fontconfig, fontobene-qt5, glu, hoedown, muparser,
opencascade-occt, clipper, qtdeclarative-5, qtquickcontrols2-5, quazip.
[native-inputs]: Add googletest, pkg-config.
[arguments]<#:configure-flags>: Add "-DUNBUNDLE_FONTOBENE_QT5=ON",
"-DUNBUNDLE_GTEST=ON", "-DUNBUNDLE_HOEDOWN=ON", "-DUNBUNDLE_MUPARSER=ON",
"-DUNBUNDLE_POLYCLIPPING=ON", "-DUNBUNDLE_QUAZIP=ON".
<#:phases>: Don't override the configure phase.  Override the check phase and
skip failing tests.
[license]: Remove licenses from unbundled dependencies.

Signed-off-by: Vinicius Monego <monego@posteo.net>
 2023-10-06 21:39:44 -03:00
pinoaffe
ced91adcc0
gnu: Add fontobene-qt5. 
* gnu/packages/fontutils.scm (fontobene-qt5): New variable.

Signed-off-by: Vinicius Monego <monego@posteo.net>
 2023-10-06 21:34:22 -03:00
Wilko Meyer
add2a22ad7
gnu: exim: Update to 4.96.1 [security updates]. 
Fixes CVE-2023-42114, CVE-2023-42115, CVE-2023-42116, CVE-2023-42117,
CVE-2023-42118, and CVE-2023-42119.  See
<https://www.exim.org/static/doc/security/CVE-2023-zdi.txt> for more details.

* gnu/packages/mail.scm (exim): Update to 4.96.1.

Signed-off-by: John Kehayias <john.kehayias@protonmail.com>
 2023-10-06 17:04:50 -04:00
jgart
ad10bbe563
gnu: python-pudb: Update to 2023.1. 
* gnu/packages/python-xyz.scm (python-pudb): Update to 2023.1.
 2023-10-06 14:46:26 -05:00
Ricardo Wurmus
88ff6feca1
gnu: Add r-webchem. 
* gnu/packages/cran.scm (r-webchem): New variable.
 2023-10-06 16:37:16 +02:00
Ricardo Wurmus
9d4339afb1
build-system/minify: Use esbuild. 
* guix/build-system/minify.scm (default-uglify-js): Replace this procedure...
(default-esbuild): ...with this new procedure.
(lower): Use it, and add "esbuild" to build inputs.
* guix/build/minify-build-system.scm (minify): Invoke esbuild instead of
setting up a pipe to uglifyjs.
* gnu/packages/cran.scm (r-shiny)[native-inputs]: Replace node-uglify-js with
esbuild.
* gnu/packages/statistics.scm (r-dt)[native-inputs]: Same.
 2023-10-06 16:37:16 +02:00
Ricardo Wurmus
b19dfb9d3a
gnu: Add linasm. 
* gnu/packages/maths.scm (linasm): New variable.
 2023-10-06 16:37:16 +02:00
Efraim Flashner
a7e6b4c98b
gnu: openjdk-12: Fix building on aarch64-linux. 
* gnu/packages/java.scm (openjdk-12)[arugments]: When building for
aarch64-linux add a phase to remove a duplicate line.
 2023-10-06 16:21:44 +03:00
Ricardo Wurmus
8d27ef1ed3
gnu: r-dt: Update to 0.30. 
* gnu/packages/statistics.scm (r-dt): Update to 0.30.
 2023-10-06 13:01:48 +02:00
Ricardo Wurmus
326775b345
gnu: r-hunspell: Update to 3.0.3. 
* gnu/packages/cran.scm (r-hunspell): Update to 3.0.3.
 2023-10-06 13:01:48 +02:00
Ricardo Wurmus
33f4951444
gnu: r-aplot: Update to 0.2.2. 
* gnu/packages/cran.scm (r-aplot): Update to 0.2.2.
 2023-10-06 13:01:48 +02:00
Ricardo Wurmus
a7b7b9bad3
gnu: r-chk: Update to 0.9.1. 
* gnu/packages/cran.scm (r-chk): Update to 0.9.1.
 2023-10-06 13:01:48 +02:00
Ricardo Wurmus
900f67dea6
gnu: r-sungeo: Update to 1.1.1. 
* gnu/packages/cran.scm (r-sungeo): Update to 1.1.1.
[propagated-inputs]: Remove r-fasterize; add r-stringr and r-terra.
 2023-10-06 13:01:48 +02:00
David Elsing
1b5067c0d0
gnu: Add suitesparse-umfpack. 
* gnu/packages/maths.scm (suitesparse-umfpack): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:47 +02:00
David Elsing
383d54282e
gnu: Add suitesparse-spqr. 
* gnu/packages/maths.scm (suitesparse-spqr): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:47 +02:00
David Elsing
b278336180
gnu: Add suitesparse-spex. 
* gnu/packages/maths.scm (suitesparse-spex): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:47 +02:00
David Elsing
7302412676
gnu: Add suitesparse-mongoose. 
* gnu/packages/maths.scm (suitesparse-mongoose): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:46 +02:00
David Elsing
9dde72a23c
gnu: Add suitesparse-rbio. 
* gnu/packages/maths.scm (suitesparse-rbio): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:46 +02:00
David Elsing
e890349067
gnu: Add suitesparse-ldl. 
* gnu/packages/maths.scm (suitesparse-ldl): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:46 +02:00
David Elsing
4b512f5491
gnu: Add suitesparse-klu. 
* gnu/packages/maths.scm (suitesparse-klu): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:46 +02:00
David Elsing
ec2c7d2d48
gnu: Add suitesparse-cxsparse. 
* gnu/packages/maths.scm (suitesparse-cxsparse): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:46 +02:00
David Elsing
75faca26c2
gnu: Add suitesparse-cholmod. 
* gnu/packages/maths.scm (suitesparse-cholmod): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:46 +02:00
David Elsing
7c5d3592e7
gnu: Add metis-suitesparse. 
* gnu/packages/maths.scm (metis-suitesparse): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:46 +02:00
David Elsing
95ecbdc9b1
gnu: Add gklib-suitesparse. 
* gnu/packages/maths.scm (gklib-suitesparse): New variable.
* gnu/packages/patches/gklib-suitesparse.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:45 +02:00
David Elsing
9b5dbc46e6
gnu: Add metis-5.2. 
* gnu/packages/maths.scm (metis-5.2): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:45 +02:00
David Elsing
998a79355c
gnu: Add gklib. 
* gnu/packages/maths.scm (gklib): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:45 +02:00
David Elsing
a764c7c0b9
gnu: Add suitesparse-ccolamd. 
* gnu/packages/maths.scm (suitesparse-ccolamd): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:45 +02:00
David Elsing
3fc3b35738
gnu: Add suitesparse-colamd. 
* gnu/packages/maths.scm (suitesparse-colamd): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:45 +02:00
David Elsing
97edef50f4
gnu: Add suitesparse-camd. 
* gnu/packages/maths.scm (suitesparse-camd): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:45 +02:00
David Elsing
913e2dd61f
gnu: Add suitesparse-btf. 
* gnu/packages/maths.scm (suitesparse-btf): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:45 +02:00
David Elsing
2eb40f8b39
gnu: Add suitesparse-amd. 
* gnu/packages/maths.scm (suitesparse-amd): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:45 +02:00
David Elsing
a6fc1164c4
gnu: Add suitesparse-config. 
The suitesparse-source variable contains the entire SuiteSparse source code,
which is used for all subpackages.

* gnu/packages/maths.scm (suitesparse-version, suitesparse-source,
suitesparse-config): New variables.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:44 +02:00
David Elsing
4a368c3a8b
gnu: suitesparse: Tweak description. 
* gnu/packages/maths.scm (suitesparse)[description]: Mention that all
subpackages are included.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-06 12:26:44 +02:00
Ludovic Courtès
16fd9d6e3d
gnu: guix: Update to e863274. 
This includes the ‘guix perform-download’ fix from commit
762fdbdef5.

* gnu/packages/package-management.scm (guix): Update to e863274.
 2023-10-06 12:26:44 +02:00
Lars Rustand
110378934e
gnu: Add vendor-reset-linux-module. 
* gnu/packages/linux.scm (vendor-reset-linux-module): New variable.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-10-06 11:52:14 +02:00
Denis 'GNUtoo' Carikli
9d0da4ced3
gnu: matterbridge: Update to 1.26.0 
* gnu/packages/messaging.scm (matterbridge): Update to 1.26.0

Signed-off-by: Denis 'GNUtoo' Carikli <GNUtoo@cyberdimension.org>
Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-10-06 11:52:13 +02:00
Vinicius Monego
9930aeb0e3
gnu: Add python-mapie. 
* gnu/packages/statistics.scm (python-mapie): New variable.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-10-06 11:52:13 +02:00
Ricardo Wurmus
e97e708958
gnu: r-biomvrcns: Patch R constants. 
* gnu/packages/bioconductor.scm (r-biomvrcns)[arguments]: Add phase
'patch-constants.
 2023-10-06 08:55:11 +02:00
Fabio Natali
c49cc1ac12
gnu: guile-ini: Added missing propagated input ‘guile-lib’. 
Fixes <https://issues.guix.gnu.org/66315>.

* gnu/packages/guile-xyz.scm (guile-ini)[propagated-inputs]: Add
GUILE-LIB.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-05 23:14:55 +02:00
André Batista
be214b56c0
gnu: prosody: Update to 0.12.4. 
* gnu/packages/messaging.scm (prosody): Update to 0.12.4.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-05 23:14:55 +02:00
Artyom V. Poptsov
45fbcc452f
gnu: go-ipfs: Update to 0.14.0. 
* gnu/packages/ipfs.scm (go-ipfs): Update to 0.14.0.
  [source]: Change "go-ipfs" to "kubo" in the source link.
  [arguments]: Rename "go-ipfs" to "kubo".

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-05 23:14:55 +02:00
B. Wilson
87b3ac13fe
gnu: Add apple-bash. 
* gnu/packages/apple.scm: New file.
* gnu/local.mk (GNU_SYSTEM_MODELS): Add it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-05 23:14:54 +02:00
Distopico
efab2a25be
gnu: rust-trybuild: Update 1.0.19 version hash. 
Fixes <https://issues.guix.gnu.org/66345>.

* gnu/packages/crates-io.scm (rust-trybuild): Update 1.0.19 hash.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-10-05 23:14:53 +02:00
Arun Isaac
0374640618
gnu: Add cgit-pink. 
* gnu/packages/version-control.scm (cgit-pink): New variable.
 2023-10-05 17:38:33 +01:00
Arun Isaac
db52c06c3d
gnu: cgit: Fix cross compilation. 
* gnu/packages/version-control.scm (cgit)[native-inputs]: Move bzip2, gzip and
xz to ...
[inputs]: ... here. Add bash-minimal.
[arguments]: Use cc-for-target.
 2023-10-05 17:38:32 +01:00
Arun Isaac
faad060771
gnu: cgit: Update package style. 
* gnu/packages/version-control.scm (cgit)[arguments]: Rewrite using
G-expressions. Do not return #t from custom phases.
 2023-10-05 17:38:28 +01:00
Mathieu Othacehe
29243a9f39
gnu: python-pynetbox: Update to 7.2.0. 
* gnu/packages/python-web.scm (python-pynetbox): Update to 7.2.0.
 2023-10-05 18:31:11 +02:00
Timotej Lazar
21f3f30141
gnu: Add python-pynetbox. 
* gnu/packages/python-web.scm (python-pynetbox): New variable.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-10-05 17:23:48 +02:00
Sharlatan Hellseher
9917079bd7
gnu: Add WCSTools. 
* gnu/packages/astronomy.scm (wcstools): New variable.
* gnu/packages/patches/wcstools-extend-makefiles.patch: New file.
* gnu/local.mk: Add it.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-10-05 17:07:16 +02:00
Ricardo Wurmus
d37e24827a
gnu: r-bayesfactor: Update to 0.9.12-4.5. 
* gnu/packages/statistics.scm (r-bayesfactor): Update to 0.9.12-4.5.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
bba0dc6e5d
gnu: r-puniform: Update to 0.2.7. 
* gnu/packages/statistics.scm (r-puniform): Update to 0.2.7.
[propagated-inputs]: Add r-numderiv.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
a7b9a558d5
gnu: r-lubridate: Update to 1.9.3. 
* gnu/packages/statistics.scm (r-lubridate): Update to 1.9.3.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
6015f41454
gnu: r-vgam: Update to 1.1-9. 
* gnu/packages/statistics.scm (r-vgam): Update to 1.1-9.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
f3a73e9ce5
gnu: r-rmarkdown: Update to 2.25. 
* gnu/packages/statistics.scm (r-rmarkdown): Update to 2.25.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
6535a7d047
gnu: r-withr: Update to 2.5.1. 
* gnu/packages/statistics.scm (r-withr): Update to 2.5.1.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
3b9bb9c61e
gnu: r-openssl: Update to 2.1.1. 
* gnu/packages/statistics.scm (r-openssl): Update to 2.1.1.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
48dcf15dea
gnu: r-dbplyr: Update to 2.3.4. 
* gnu/packages/statistics.scm (r-dbplyr): Update to 2.3.4.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
d9993b98c6
gnu: r-markdown: Update to 1.9. 
* gnu/packages/statistics.scm (r-markdown): Update to 1.9.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
8f145cafec
gnu: r-evaluate: Update to 0.22. 
* gnu/packages/statistics.scm (r-evaluate): Update to 0.22.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
a82e566cbc
gnu: r-plyr: Update to 1.8.9. 
* gnu/packages/statistics.scm (r-plyr): Update to 1.8.9.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
07bf9f857f
gnu: r-matrix: Update to 1.6-1.1. 
* gnu/packages/statistics.scm (r-matrix): Update to 1.6-1.1.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
8b56e8fd32
gnu: r-lattice: Update to 0.21-9. 
* gnu/packages/statistics.scm (r-lattice): Update to 0.21-9.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
93f0029067
gnu: r-varhandle: Update to 2.0.6. 
* gnu/packages/cran.scm (r-varhandle): Update to 2.0.6.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
bbf8ac3229
gnu: r-mockery: Update to 0.4.4. 
* gnu/packages/cran.scm (r-mockery): Update to 0.4.4.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
9e2434a2ac
gnu: r-paws: Update to 0.4.0. 
* gnu/packages/cran.scm (r-paws): Update to 0.4.0.
[propagated-inputs]: Add r-paws-common.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
dee60226bb
gnu: r-paws-common: Update to 0.6.1. 
* gnu/packages/cran.scm (r-paws-common): Update to 0.6.1.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
5a62f0cb03
gnu: r-tensorflow: Update to 2.14.0. 
* gnu/packages/cran.scm (r-tensorflow): Update to 2.14.0.
[propagated-inputs]: Add r-lifecycle.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
9737b40053
gnu: r-exactextractr: Update to 0.10.0. 
* gnu/packages/cran.scm (r-exactextractr): Update to 0.10.0.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
bb034d5a57
gnu: r-protolite: Update to 2.3.0. 
* gnu/packages/cran.scm (r-protolite): Update to 2.3.0.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
ce99c51f8f
gnu: r-vroom: Update to 1.6.4. 
* gnu/packages/cran.scm (r-vroom): Update to 1.6.4.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
2c6fb7a21f
gnu: r-delaporte: Update to 8.3.0. 
* gnu/packages/cran.scm (r-delaporte): Update to 8.3.0.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
12774311dd
gnu: r-pdftools: Update to 3.4.0. 
* gnu/packages/cran.scm (r-pdftools): Update to 3.4.0.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
06fb5cf520
gnu: r-vdiffr: Update to 1.0.7. 
* gnu/packages/cran.scm (r-vdiffr): Update to 1.0.7.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
4d0861d307
gnu: r-mlr3misc: Update to 0.13.0. 
* gnu/packages/cran.scm (r-mlr3misc): Update to 0.13.0.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
1d7dfe2f8d
gnu: r-seurat: Update to 4.4.0. 
* gnu/packages/cran.scm (r-seurat): Update to 4.4.0.
[propagated-inputs]: Add r-purrr.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
f7b4b14d49
gnu: r-seuratobject: Update to 4.1.4. 
* gnu/packages/cran.scm (r-seuratobject): Update to 4.1.4.
 2023-10-05 15:16:29 +02:00
Ricardo Wurmus
9703a303f6
gnu: r-metafor: Update to 4.4-0. 
* gnu/packages/cran.scm (r-metafor): Update to 4.4-0.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
509ad5c498
gnu: r-brms: Update to 2.20.4. 
* gnu/packages/cran.scm (r-brms): Update to 2.20.4.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
2bcbcea451
gnu: r-projpred: Update to 2.7.0. 
* gnu/packages/cran.scm (r-projpred): Update to 2.7.0.
[propagated-inputs]: Add r-gtools.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
d1f4bc7ae1
gnu: r-rstanarm: Update to 2.26.1. 
* gnu/packages/cran.scm (r-rstanarm): Update to 2.26.1.
[propagated-inputs]: Add r-posterior.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
ee4d8fabbb
gnu: r-rsconnect: Update to 1.1.1. 
* gnu/packages/cran.scm (r-rsconnect): Update to 1.1.1.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
b5fc66d0ec
gnu: r-erm: Update to 1.0-4. 
* gnu/packages/cran.scm (r-erm): Update to 1.0-4.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
250f6b92f7
gnu: r-kutils: Update to 1.73. 
* gnu/packages/cran.scm (r-kutils): Update to 1.73.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
5767e3f443
gnu: r-rsvg: Update to 2.5.0. 
* gnu/packages/cran.scm (r-rsvg): Update to 2.5.0.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
4aef0d05e1
gnu: r-caretensemble: Update to 2.0.3. 
* gnu/packages/cran.scm (r-caretensemble): Update to 2.0.3.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
09a189941a
gnu: r-seewave: Update to 2.2.2. 
* gnu/packages/cran.scm (r-seewave): Update to 2.2.2.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
b37735ec76
gnu: r-gamlss: Update to 5.4-20. 
* gnu/packages/cran.scm (r-gamlss): Update to 5.4-20.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
0f08f438c0
gnu: r-parameters: Update to 0.21.2. 
* gnu/packages/cran.scm (r-parameters): Update to 0.21.2.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
03cec4ae27
gnu: r-graphlayouts: Update to 1.0.1. 
* gnu/packages/cran.scm (r-graphlayouts): Update to 1.0.1.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
0025676cbe
gnu: r-clue: Update to 0.3-65. 
* gnu/packages/cran.scm (r-clue): Update to 0.3-65.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
486d1f8613
gnu: r-sctransform: Update to 0.4.0. 
* gnu/packages/cran.scm (r-sctransform): Update to 0.4.0.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
e20c61e8ab
gnu: r-arrow: Update to 13.0.0.1. 
* gnu/packages/cran.scm (r-arrow): Update to 13.0.0.1.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
0910fe7048
gnu: r-ggfun: Update to 0.1.3. 
* gnu/packages/cran.scm (r-ggfun): Update to 0.1.3.
[propagated-inputs]: Add r-cli.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
52a2028760
gnu: r-europepmc: Update to 0.4.3. 
* gnu/packages/cran.scm (r-europepmc): Update to 0.4.3.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
60df6d63d7
gnu: r-polyclip: Update to 1.10-6. 
* gnu/packages/cran.scm (r-polyclip): Update to 1.10-6.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
103260da87
gnu: r-yulab-utils: Update to 0.1.0. 
* gnu/packages/cran.scm (r-yulab-utils): Update to 0.1.0.
[propagated-inputs]: Add r-cli, r-digest, and r-fs.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
1a2fac04b4
gnu: r-osqp: Update to 0.6.3.1. 
* gnu/packages/cran.scm (r-osqp): Update to 0.6.3.1.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
3a7e7842de
gnu: r-units: Update to 0.8-4. 
* gnu/packages/cran.scm (r-units): Update to 0.8-4.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
f66abe6a17
gnu: r-apcluster: Update to 1.4.11. 
* gnu/packages/cran.scm (r-apcluster): Update to 1.4.11.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
0e29b39b49
gnu: r-bayesm: Update to 3.1-6. 
* gnu/packages/cran.scm (r-bayesm): Update to 3.1-6.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
3f9381c2e5
gnu: r-iso: Update to 0.0-21. 
* gnu/packages/cran.scm (r-iso): Update to 0.0-21.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
9494ac4edd
gnu: r-gridpattern: Update to 1.1.0. 
* gnu/packages/cran.scm (r-gridpattern): Update to 1.1.0.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
cc7ba0ef28
gnu: r-qmri: Update to 1.2.7. 
* gnu/packages/cran.scm (r-qmri): Update to 1.2.7.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
6eca8ff183
gnu: r-waffle: Update to 1.0.2. 
* gnu/packages/cran.scm (r-waffle): Update to 1.0.2.
[propagated-inputs]: Add r-curl, r-dt, r-htmlwidgets, r-plyr, r-rlang, and r-stringr.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
8372038fc4
gnu: r-sodium: Update to 1.3.0. 
* gnu/packages/cran.scm (r-sodium): Update to 1.3.0.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
03de1715ea
gnu: r-activity: Update to 1.3.4. 
* gnu/packages/cran.scm (r-activity): Update to 1.3.4.
 2023-10-05 15:16:28 +02:00
Ricardo Wurmus
ab2d831a0e
gnu: r-rcpphnsw: Update to 0.5.0. 
* gnu/packages/cran.scm (r-rcpphnsw): Update to 0.5.0.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
f8d59b3c58
gnu: r-rcppalgos: Update to 2.8.2. 
* gnu/packages/cran.scm (r-rcppalgos): Update to 2.8.2.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
09c2b23bf9
gnu: r-gert: Update to 2.0.0. 
* gnu/packages/cran.scm (r-gert): Update to 2.0.0.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
7eb383815f
gnu: r-effectsize: Update to 0.8.6. 
* gnu/packages/cran.scm (r-effectsize): Update to 0.8.6.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
6049a5ce62
gnu: r-coin: Update to 1.4-3. 
* gnu/packages/cran.scm (r-coin): Update to 1.4-3.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
ee76d53dd8
gnu: r-libcoin: Update to 1.0-10. 
* gnu/packages/cran.scm (r-libcoin): Update to 1.0-10.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
f87c1c1016
gnu: r-tarchetypes: Update to 0.7.9. 
* gnu/packages/cran.scm (r-tarchetypes): Update to 0.7.9.
[propagated-inputs]: Remove r-furrr, r-future, and r-future-callr.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
7141b41835
gnu: r-magick: Update to 2.8.0. 
* gnu/packages/cran.scm (r-magick): Update to 2.8.0.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
6e74d7c1ee
gnu: r-abctools: Update to 1.1.7. 
* gnu/packages/cran.scm (r-abctools): Update to 1.1.7.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
f9e8fdcbfe
gnu: r-rootsolve: Update to 1.8.2.4. 
* gnu/packages/cran.scm (r-rootsolve): Update to 1.8.2.4.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
d3751cac6d
gnu: r-doby: Update to 4.6.19. 
* gnu/packages/cran.scm (r-doby): Update to 4.6.19.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
d1884a7225
gnu: r-getopt: Update to 1.20.4. 
* gnu/packages/cran.scm (r-getopt): Update to 1.20.4.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
f7d86f00e1
gnu: r-nodbi: Update to 0.9.8. 
* gnu/packages/cran.scm (r-nodbi): Update to 0.9.8.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
40f51a15eb
gnu: r-insight: Update to 0.19.5. 
* gnu/packages/cran.scm (r-insight): Update to 0.19.5.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
5dac9674d4
gnu: r-pupillometryr: Update to 0.0.5. 
* gnu/packages/cran.scm (r-pupillometryr): Update to 0.0.5.
[propagated-inputs]: Remove r-data-table and r-lazyeval; add r-stringr.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
de4c0a2564
gnu: r-billboarder: Update to 0.4.1. 
* gnu/packages/cran.scm (r-billboarder): Update to 0.4.1.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
b372a2c8c2
gnu: r-learnr: Update to 0.11.5. 
* gnu/packages/cran.scm (r-learnr): Update to 0.11.5.
[native-inputs]: Add esbuild.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
7694563fa1
gnu: r-renv: Update to 1.0.3. 
* gnu/packages/cran.scm (r-renv): Update to 1.0.3.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
15688b1c96
gnu: r-rio: Update to 1.0.1. 
* gnu/packages/cran.scm (r-rio): Update to 1.0.1.
[propagated-inputs]: Remove r-openxlsx; add r-lifecycle, r-r-utils, r-stringi, and
r-writexl.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
66e46a0260
gnu: r-import: Update to 1.3.1. 
* gnu/packages/cran.scm (r-import): Update to 1.3.1.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
42f5162f60
gnu: r-tinytex: Update to 0.47. 
* gnu/packages/cran.scm (r-tinytex): Update to 0.47.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
df888839a1
gnu: r-psych: Update to 2.3.9. 
* gnu/packages/cran.scm (r-psych): Update to 2.3.9.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
7f51c3790f
gnu: r-rmysql: Update to 0.10.26. 
* gnu/packages/cran.scm (r-rmysql): Update to 0.10.26.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
994a8523be
gnu: r-limsolve: Update to 1.5.7. 
* gnu/packages/cran.scm (r-limsolve): Update to 1.5.7.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
e234cecc9e
gnu: r-lamw: Update to 2.2.1. 
* gnu/packages/cran.scm (r-lamw): Update to 2.2.1.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
50f7b875a9
gnu: r-sp: Update to 2.1-0. 
* gnu/packages/cran.scm (r-sp): Update to 2.1-0.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
9aa7e46c86
gnu: r-prettyunits: Update to 1.2.0. 
* gnu/packages/cran.scm (r-prettyunits): Update to 1.2.0.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
47b8f2165a
gnu: r-ctrdata: Update to 1.15.2. 
* gnu/packages/cran.scm (r-ctrdata): Update to 1.15.2.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
5b0a691bfa
gnu: r-pkgload: Update to 1.3.3. 
* gnu/packages/cran.scm (r-pkgload): Update to 1.3.3.
[propagated-inputs]: Add r-pkgbuild.
 2023-10-05 15:16:27 +02:00
Ricardo Wurmus
1fc6c1d2ab
gnu: r-gensa: Update to 1.1.10.1. 
* gnu/packages/cran.scm (r-gensa): Update to 1.1.10.1.
 2023-10-05 15:16:26 +02:00
Ricardo Wurmus
5cac6f401c
gnu: r-d3r: Update to 1.1.0. 
* gnu/packages/cran.scm (r-d3r): Update to 1.1.0.
[propagated-inputs]: Remove r-rlang.
 2023-10-05 15:16:26 +02:00
Ricardo Wurmus
cb8c68da4b
gnu: r-jqr: Update to 1.3.0. 
* gnu/packages/cran.scm (r-jqr): Update to 1.3.0.
 2023-10-05 15:16:26 +02:00
Ricardo Wurmus
92fce36949
gnu: r-curl: Update to 5.1.0. 
* gnu/packages/cran.scm (r-curl): Update to 5.1.0.
 2023-10-05 15:16:26 +02:00
Ricardo Wurmus
4d9908cd61
gnu: r-jade: Update to 2.0-4. 
* gnu/packages/cran.scm (r-jade): Update to 2.0-4.
 2023-10-05 15:16:26 +02:00
Ricardo Wurmus
6d2df3bd9e
gnu: r-gunifrac: Update to 1.8. 
* gnu/packages/cran.scm (r-gunifrac): Update to 1.8.
[propagated-inputs]: Add r-inline.
 2023-10-05 15:16:26 +02:00
Ricardo Wurmus
fa97d8c2d0
gnu: r-ggstatsplot: Update to 0.12.1. 
* gnu/packages/cran.scm (r-ggstatsplot): Update to 0.12.1.
 2023-10-05 15:16:26 +02:00
Ricardo Wurmus
b253dbe7a0
gnu: r-datawizard: Update to 0.9.0. 
* gnu/packages/cran.scm (r-datawizard): Update to 0.9.0.
 2023-10-05 15:16:26 +02:00
Ricardo Wurmus
c64777cfe0
gnu: r-activepathways: Update to 2.0.2. 
* gnu/packages/bioconductor.scm (r-activepathways): Update to 2.0.2.
 2023-10-05 15:16:26 +02:00
Ricardo Wurmus
f1259b80be
gnu: r-valr: Update to 0.7.0. 
* gnu/packages/bioconductor.scm (r-valr): Update to 0.7.0.
[propagated-inputs]: Add r-lifecycle.
 2023-10-05 15:16:26 +02:00
Ricardo Wurmus
8c22cc96f0
gnu: r-biomartr: Update to 1.0.5. 
* gnu/packages/bioconductor.scm (r-biomartr): Update to 1.0.5.
 2023-10-05 15:16:26 +02:00
Andrew Tropin
eeb7132ec3
gnu: emacs-telega: Update to 0.8.03-1.17bfa50. 
* gnu/packages/emacs-xyz.scm (emacs-telega-server): Update to
0.8.03-1.17bfa50.
 2023-10-05 14:16:39 +04:00
Andrew Tropin
9e963c9d75
gnu: tdlib: Update to 1.8.16-0.4d1d22d. 
* gnu/packages/messaging.scm (tdlib): Update to 1.8.16-0.4d1d22d.
 2023-10-05 14:16:38 +04:00
Ricardo Wurmus
276b9287c1
gnu: r-aplot: Update to 0.2.1. 
* gnu/packages/cran.scm (r-aplot): Update to 0.2.1.
 2023-10-05 10:31:09 +02:00
Ricardo Wurmus
d841c23dc5
gnu: r-tximeta: Update to 1.18.3. 
* gnu/packages/bioconductor.scm (r-tximeta): Update to 1.18.3.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
b53f7a87b2
gnu: r-biodb: Update to 1.8.1. 
* gnu/packages/bioconductor.scm (r-biodb): Update to 1.8.1.
[propagated-inputs]: Add r-git2r.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
bf7c049147
gnu: r-gviz: Update to 1.44.2. 
* gnu/packages/bioconductor.scm (r-gviz): Update to 1.44.2.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
9220702479
gnu: r-s4vectors: Update to 0.38.2. 
* gnu/packages/bioconductor.scm (r-s4vectors): Update to 0.38.2.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
6492c6496b
gnu: r-biocstyle: Update to 2.28.1. 
* gnu/packages/bioconductor.scm (r-biocstyle): Update to 2.28.1.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
27fd2d2c2a
gnu: r-yapsa: Update to 1.26.8. 
* gnu/packages/bioconductor.scm (r-yapsa): Update to 1.26.8.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
6a1b46e7ab
gnu: r-enrichplot: Update to 1.20.3. 
* gnu/packages/bioconductor.scm (r-enrichplot): Update to 1.20.3.
[propagated-inputs]: Add r-ggfun.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
3f3c986001
gnu: r-spectra: Update to 1.10.3. 
* gnu/packages/bioconductor.scm (r-spectra): Update to 1.10.3.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
b82dc9b724
gnu: r-keggrest: Update to 1.40.1. 
* gnu/packages/bioconductor.scm (r-keggrest): Update to 1.40.1.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
b56dabc7a3
gnu: r-genomeinfodb: Update to 1.36.4. 
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.36.4.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
28b2b7c367
gnu: r-ensembldb: Update to 2.24.1. 
* gnu/packages/bioconductor.scm (r-ensembldb): Update to 2.24.1.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
fefad76048
gnu: r-ancombc: Update to 2.2.2. 
* gnu/packages/bioconductor.scm (r-ancombc): Update to 2.2.2.
 2023-10-05 10:23:27 +02:00
Ricardo Wurmus
caf9f847ef
gnu: r-omnipathr: Update to 3.8.2. 
* gnu/packages/bioconductor.scm (r-omnipathr): Update to 3.8.2.
 2023-10-05 10:23:27 +02:00
Liliana Marie Prikler
759b55712e
gnu: curl: Update to 8.3.0. 
According to upstream, the current version has 19 security issues.
See also <https://curl.se/docs/vuln-7.85.0.html>.

* gnu/packages/curl.scm (curl/fixed): New variable.
(curl): Use it as replacement.
 2023-10-05 09:41:31 +02:00
Efraim Flashner
a31725ff90
gnu: openjdk-10: Fix building on aarch64-linux. 
* gnu/packages/java.scm (openjdk-10)[arguments]: Replace inherited
'patch-for-aarch64 phase for changes in source code layout.

Co-authored-by: Christopher Baines <mail@cbaines.net>
Co-authored-by: Tim Johann <t1m@phrogstar.de>
 2023-10-05 09:54:04 +03:00
Efraim Flashner
6f8f98f334
gnu: universal-ctags: Update to 6.0.20231001.0. 
* gnu/packages/code.scm (universal-ctags): Update to 6.0.20231001.0.
 2023-10-05 09:54:04 +03:00
Kjartan Oli Agustsson
c3f47bb2ee
gnu: tree-sitter-java: Update to 0.20.1. 
* gnu/packages/tree-sitter.scm (tree-sitter-java): Update to 0.20.1.

Signed-off-by: Andrew Tropin <andrew@trop.in>
 2023-10-05 09:54:23 +04:00
Maxim Cournoyer
ecb1b335d4
gnu: emacs-elpy: Update to 1.35.0-2.7ff8ffa. 
* gnu/packages/emacs-xyz.scm (emacs-elpy): Update to 1.35.0-2.7ff8ffa.
[origin]: Apply patch.
[arguments]: Disable a new test in the disable-broken-tests phase.
* gnu/packages/patches/emacs-elpy-dup-test-name.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
 2023-10-05 01:34:21 -04:00
Maxim Cournoyer
22d2f94eb2
gnu: phoronix-test-suite: Do not propagate gcc-toolchain. 
* gnu/packages/benchmark.scm (gcc-toolchain*): Replace gcc-toolchain-12
reference with gcc-toolchain.
* gnu/packages/benchmark.scm (phoronix-test-suite): Augment wrap-binary phase
with GCC variables.
[propagated-inputs]: Delete field, moving gcc-toolchain to...
[inputs]: ... here.
[search-paths]: New field.
 2023-10-04 23:30:42 -04:00
John Kehayias
20df2ee697
gnu: libxpm: Graft with 3.5.17 [security fixes]. 
Fixes CVE-2023-43788 and CVE-2023-43789.  See the X.Org security advisory
<https://lists.x.org/archives/xorg/2023-October/061506.html> for more
information.

* gnu/packages/xorg.scm (libxpm)[replacement]: New field, set to ...
(libxpm/fixed): ... this new variable.
 2023-10-04 18:46:22 -04:00
John Kehayias
b317eb8a9e
gnu: libx11: Update replacement to 1.8.7 [security fixes]. 
Fixes CVE-2023-43785, CVE-2023-43786, and CVE-2023-43787.  See the X.Org
security advisory <https://lists.x.org/archives/xorg/2023-October/061506.html>
for more information.

* gnu/packages/xorg.scm (libx11-fixed): Update to 1.8.7.
 2023-10-04 17:57:13 -04:00
Maxim Cournoyer
de8fc548c6
gnu: emacs-debbugs: Preserve subject when replying to patch threads. 
* gnu/packages/patches/emacs-debbugs-keep-patch-subject.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/emacs-xyz.scm (emacs-debbugs) [origin]: Use it.
 2023-10-04 16:32:45 -04:00
David Elsing
e718647930
gnu: Remove suitesparse-3. 
* gnu/packages/maths.scm (suitesparse-3): Delete variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-10-04 17:59:03 +03:00
David Elsing
151687a7a2
gnu: scilab: Update to 2023.1.0. 
* gnu/packages/maths.scm (scilab): Update to 2023.1.0.
[source] Use git-fetch.
<modules>: Add (guix build utils) and (ice-9 ftw).
<patches>: Add patch for hdf5 >= 1.10.
<snippet>: Move contents of the "scilab" directory to its parents. Remove
the other files and autogenerated files.
[native-inputs]: Add autoconf, autoconf-archive, automake, bison, eigen, flex,
libtool, ocaml and ocaml-findlib.
[inputs]: Add ocaml-num, replace hdf5-1.8 by hdf5-1.14 and suitesparse-3 by
suitesparse.
[arguments]: Remove quasiquote. Add --enable-build-parser,
--with-eigen-include=..., OCAMLC=... and OCAMLOPT=... to #:configure-flags.
<#:phases>: Add fix-ocaml-num, remove-desktop-files,
bootstrap-dynamic_link-scripts and build-parsers phases. Remove fixes for
compilation and linker errors from the pre-build phase.
[home-page]: Update URL.
[description]: Add two spaces between sentences.
[license]: Update to gpl2 and bsd-3.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-10-04 17:58:22 +03:00
Andy Tai
37d0befca0
gnu: parallel: Update to 20230922. 
* gnu/packages/parallel.scm (parallel): Update to 20230922.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-10-04 17:25:46 +03:00
Timotej Lazar
264baefa88
gnu: freerdp: Update to 2.11.2. 
* gnu/packages/rdesktop.scm (freerdp): Update to 2.11.2.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-10-04 15:09:26 +02:00
Ekaitz Zarraga
c1af4060e9
gnu: guile-mastodon: Update to 0.0.1-0a94ae6b 
Message-ID: <0064c4ff9262c4906131909ae1276667033f8811.1696343806.git.ekaitz@elenq.tech>
From: Ekaitz Zarraga <ekaitz@elenq.tech>
Date: Tue, 3 Oct 2023 16:28:58 +0200
Subject: [PATCH] gnu: guile-mastodon: Update to 0.0.1-0a94ae6b

* gnu/packages/guile-xyz.scm (guile-mastodon): Update to 0.0.1-0a94ae6b

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-10-04 15:05:24 +02:00
Peter Polidoro
06e53c577e
gnu: kicad: Update to 7.0.8. 
* gnu/packages/engineering.scm (kicad): Update to 7.0.8.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-10-04 15:03:00 +02:00
Jonathan Brielmaier
4a99dd7322
gnu: ultrastar-deluxe: Update to 2023.9.0. 
* gnu/packages/games.scm (ultrastar-deluxe): Update to 2023.9.0.
[source]: Use tagged version again.

Tested-by: Jonathan Brielmaier <jonathan.brielmaier@web.de>
 2023-10-04 13:45:55 +02:00
Mădălin Ionel Patrașcu
5f2704517c
gnu: r-dofuture: Add r-markdown. 
* gnu/packages/cran.scm (r-dofuture)[native-inputs]: Add r-markdown.
 2023-10-04 11:21:52 +02:00
Mădălin Ionel Patrașcu
273ee56bc2
gnu: Add r-arrayquality. 
* gnu/packages/bioconductor.scm (r-arrayquality): New variable.
 2023-10-04 11:03:23 +02:00
Mădălin Ionel Patrașcu
4edacf416b
gnu: Add r-arraymvout. 
* gnu/packages/bioconductor.scm (r-arraymvout): New variable.
 2023-10-04 11:03:23 +02:00
Mădălin Ionel Patrașcu
4221c3d4da
gnu: Add r-parody. 
* gnu/packages/bioconductor.scm (r-parody): New variable.
 2023-10-04 11:03:23 +02:00
Mădălin Ionel Patrașcu
b84f6c2c0e
gnu: Add r-mdqc. 
* gnu/packages/bioconductor.scm (r-mdqc): New variable.
 2023-10-04 11:03:23 +02:00
Mădălin Ionel Patrașcu
9f08080b38
gnu: Add r-apcomplex. 
* gnu/packages/bioconductor.scm (r-apcomplex): New variable.
 2023-10-04 11:03:23 +02:00
Mădălin Ionel Patrașcu
e65ba1ccee
gnu: Add r-org-sc-sgd-db. 
* gnu/packages/bioconductor.scm (r-org-sc-sgd-db): New variable.
 2023-10-04 11:03:23 +02:00
Mădălin Ionel Patrașcu
1025316d80
gnu: Add r-hybridmtest. 
* gnu/packages/bioconductor.scm (r-hybridmtest): New variable.
 2023-10-04 11:03:23 +02:00
Mădălin Ionel Patrașcu
f989150083
gnu: Add r-repmis. 
* gnu/packages/cran.scm (r-repmis): New variable.
 2023-10-04 11:03:23 +02:00
Mădălin Ionel Patrașcu
58a3333f58
gnu: Add r-anota2seq. 
* gnu/packages/bioconductor.scm (r-anota2seq): New variable.
 2023-10-04 11:03:23 +02:00
Nicolas Goaziou
d0aaa5aacf
gnu: emacs-yeetube: Update to 2.0.5. 
* gnu/packages/emacs-xyz.scm (emacs-yeetube): Update to 2.0.5.
[arguments]<#:phases>: Update variable names holding executable locations.
 2023-10-04 10:58:33 +02:00
Nicolas Goaziou
d3021c4538
gnu: emacs-yaml-mode: Update to 0.0.16. 
* gnu/packages/emacs-xyz.scm (emacs-yaml-mode): Update to 0.0.16.
 2023-10-04 10:58:33 +02:00
Nicolas Goaziou
b346b93d41
gnu: emacs-org-dynamic-agenda: Update to 0.3.1. 
* gnu/packages/emacs-xyz.scm (emacs-org-dynamic-agenda): Update to 0.3.1.
 2023-10-04 10:58:33 +02:00
Nicolas Goaziou
e576f2ac3b
gnu: emacs-irony-mode: Update to 1.6.0. 
* gnu/packages/emacs-xyz.scm (emacs-irony-mode): Update to 1.6.0.
 2023-10-04 10:58:32 +02:00
Nicolas Goaziou
43741bca58
gnu: emacs-eldoc-box: Update to 1.11.1. 
* gnu/packages/emacs-xyz.scm (emacs-eldoc-box): Update to 1.11.1.
 2023-10-04 10:58:32 +02:00
Nicolas Goaziou
27e27cb3b6
gnu: emacs-corfu-terminal: Update to 0.7. 
* gnu/packages/emacs-xyz.scm (emacs-corfu-terminal): Update to 0.7.
 2023-10-04 10:58:32 +02:00
Nicolas Goaziou
71b5fdea89
gnu: emacs-clj-refactor: Update to 3.9.4. 
* gnu/packages/emacs-xyz.scm (emacs-clj-refactor): Update to 3.9.4.
 2023-10-04 10:58:32 +02:00
Charles
24fc0370d0
gnu: Add cl-ini. 
* gnu/packages/lisp-xyz.scm (sbcl-cl-ini, ecl-cl-ini, cl-ini): New variables.
 2023-10-03 20:54:40 -05:00
fanquake
0c6198319a
gnu: Add python-altgraph. 
* gnu/packages/python-xyz.scm (python-altgraph): New variable.

Co-authored-by: jgart <jgart@dismail.de>
 2023-10-03 20:46:05 -05:00
Nicolas Goaziou
8e6022732a
gnu: emacs-yeetube: Improve package style. 
* gnu/packages/emacs-xyz.scm (emacs-yeetube): Fix indentation.
[synopsis, description]: Use Texinfo markup.  Add proper capitalization.
 2023-10-03 22:09:33 +02:00
Nicolas Goaziou
761cc5ae23
gnu: emacs-yeetube: Use executables from inputs. 
* gnu/packages/emacs-xyz.scm (emacs-yeetube)[arguments]: Set locations for
"mpv" and "yt-dlp" executables from the store instead of relying on `executable-find'.
 2023-10-03 22:09:33 +02:00
Nicolas Goaziou
81fea9f445
gnu: emacs-yeetube: Update to 2.0.4. 
* gnu/packages/emacs-xyz.scm (emacs-yeetube): Update to 2.0.4.
[source]<origin>: Update URI.
[home-page]: Update it, too.
 2023-10-03 22:09:33 +02:00
Nicolas Goaziou
b5ac2e1350
gnu: emacs-yaml: Update to 0.5.4. 
* gnu/packages/emacs-xyz.scm (emacs-yaml): Update to 0.5.4.
 2023-10-03 22:09:33 +02:00
Nicolas Goaziou
1e0db9b966
gnu: emacs-web-mode: Update to 17.3.13. 
* gnu/packages/emacs-xyz.scm (emacs-web-mode): Update to 17.3.13.
 2023-10-03 22:09:32 +02:00
Nicolas Goaziou
dfeac7e477
gnu: emacs-tree-inspector: Update to 0.4. 
* gnu/packages/emacs-xyz.scm (emacs-tree-inspector): Update to 0.4.
[arguments]<#:phases>: Require `subr-x' library in order to prevent a test
failure (and probably a run-time failure) when `hash-table-keys' is called.
 2023-10-03 22:09:32 +02:00
Nicolas Goaziou
b6f274eeac
gnu: emacs-pg: Update to 0.24. 
* gnu/packages/emacs-xyz.scm (emacs-pg): Update to 0.24.
 2023-10-03 22:09:32 +02:00
Nicolas Goaziou
8463cc2efb
gnu: emacs-parseedn: Update to 1.2.0. 
* gnu/packages/emacs-xyz.scm (emacs-parseedn): Update to 1.2.0.
 2023-10-03 22:09:32 +02:00
Nicolas Goaziou
cc09b0ebfe
gnu: emacs-org-super-agenda: Use G-expressions. 
* gnu/packages/emacs-xyz.scm (emacs-org-super-agenda)[arguments]: Use G-expressions.
 2023-10-03 22:09:31 +02:00
Nicolas Goaziou
805505b600
gnu: emacs-org-super-agenda: Run tests. 
* gnu/packages/emacs-xyz.scm (emacs-org-super-agenda)[arguments]<#:tests?>:
Set to #TRUE.
<#:phases>: Re-instate two previously failing tests, skip a new one.
 2023-10-03 22:09:31 +02:00
Nicolas Goaziou
7947feb090
gnu: emacs-org-super-agenda: Update to 1.3. 
* gnu/packages/emacs-xyz.scm (emacs-org-super-agenda): Update to 1.3.
 2023-10-03 22:09:31 +02:00
Nicolas Goaziou
8d6111953e
gnu: emacs-org-re-reveal: Update to 3.23.0. 
* gnu/packages/emacs-xyz.scm (emacs-org-re-reveal): Update to 3.23.0.
 2023-10-03 22:09:31 +02:00
Nicolas Goaziou
415b4b8601
gnu: emacs-org-ql: Update to 0.7.2. 
* gnu/packages/emacs-xyz.scm (emacs-org-ql): Update to 0.7.2.
[native-inputs]: Add EMACS-XR.
 2023-10-03 22:09:31 +02:00
Nicolas Goaziou
8915d468d4
gnu: emacs-modus-themes: Update to 4.3.0. 
* gnu/packages/emacs-xyz.scm (emacs-modus-themes): Update to 4.3.0.
 2023-10-03 22:09:30 +02:00
Nicolas Goaziou
1de94ae941
gnu: emacs-mct: Update to 1.0.0. 
* gnu/packages/emacs-xyz.scm (emacs-mct): Update to 1.0.0.
 2023-10-03 22:09:30 +02:00
Nicolas Goaziou
397a0d8ac2
gnu: emacs-logview: Update to 0.17.1. 
* gnu/packages/emacs-xyz.scm (emacs-logview): Update to 0.17.1.
 2023-10-03 22:09:30 +02:00
Nicolas Goaziou
1ac4d87818
gnu: emacs-jinx: Update to 0.9. 
* gnu/packages/emacs-xyz.scm (emacs-jinx): Update to 0.9.
 2023-10-03 22:09:30 +02:00
Nicolas Goaziou
7e9825300c
gnu: emacs-inspector: Update to 0.36. 
* gnu/packages/emacs-xyz.scm (emacs-inspector): Update to 0.36.
 2023-10-03 22:09:30 +02:00
Nicolas Goaziou
4830e3d722
gnu: emacs-inf-ruby: Update to 2.8.0. 
* gnu/packages/emacs-xyz.scm (emacs-inf-ruby): Update to 2.8.0.
 2023-10-03 22:09:29 +02:00
Nicolas Goaziou
c4ec00b6b8
gnu: emacs-helm: Update to 3.9.5. 
* gnu/packages/emacs-xyz.scm (emacs-helm): Update to 3.9.5.
 2023-10-03 22:09:29 +02:00
Nicolas Goaziou
6b8abbb118
gnu: emacs-fountain-mode: Update to 3.6.3. 
* gnu/packages/emacs-xyz.scm (emacs-fountain-mode): Update to 3.6.3.
 2023-10-03 22:09:29 +02:00
Nicolas Goaziou
af71e08589
gnu: emacs-extmap: Update to 1.3. 
* gnu/packages/emacs-xyz.scm (emacs-extmap): Update to 1.3.
 2023-10-03 22:09:29 +02:00
Nicolas Goaziou
63f51e0cf5
gnu: emacs-ement: Update to 0.13. 
* gnu/packages/emacs-xyz.scm (emacs-ement): Update to 0.13.
 2023-10-03 22:09:28 +02:00
Nicolas Goaziou
ee4e9dc21f
gnu: emacs-embark: Update to 0.23. 
* gnu/packages/emacs-xyz.scm (emacs-embark): Update to 0.23.
 2023-10-03 22:09:28 +02:00
Nicolas Goaziou
d50278116d
gnu: emacs-elfeed-protocol: Update to 0.9.0. 
* gnu/packages/emacs-xyz.scm (emacs-elfeed-protocol): Update to 0.9.0.
 2023-10-03 22:09:28 +02:00
Nicolas Goaziou
c6f27febfc
gnu: emacs-ebuild-mode: Update to 1.67. 
* gnu/packages/emacs-xyz.scm (emacs-ebuild-mode): Update to 1.67.
 2023-10-03 22:09:28 +02:00
Nicolas Goaziou
2b39c78b4e
gnu: emacs-dtrt-indent: Update to 1.15. 
* gnu/packages/emacs-xyz.scm (emacs-dtrt-indent): Update to 1.15.
 2023-10-03 22:09:28 +02:00
Nicolas Goaziou
ff44d11e3b
gnu: emacs-dracula-theme: Update to 1.8.1. 
* gnu/packages/emacs-xyz.scm (emacs-dracula-theme): Update to 1.8.1.
 2023-10-03 22:09:27 +02:00
Nicolas Goaziou
668f5e0eeb
gnu: emacs-datetime: Update to 0.9.1. 
* gnu/packages/emacs-xyz.scm (emacs-datetime): Update to 0.9.1.
 2023-10-03 22:09:27 +02:00
Nicolas Goaziou
69ceab87d4
gnu: emacs-company-emoji: Update to 2.8.0. 
* gnu/packages/emacs-xyz.scm (emacs-company-emoji): Update to 2.8.0.
 2023-10-03 22:09:27 +02:00
Nicolas Goaziou
81ba1bd524
gnu: emacs-clojure-mode: Update to 5.17.0. 
* gnu/packages/emacs-xyz.scm (emacs-clojure-mode): Update to 5.17.0.
 2023-10-03 22:09:27 +02:00
Nicolas Goaziou
d8ff8fcf50
gnu: emacs-bm: Run tests. 
* gnu/packages/emacs-xyz.scm (emacs-bm)[arguments]: Run tests.
 2023-10-03 22:09:27 +02:00
Nicolas Goaziou
01ff058d5e
gnu: emacs-bm: Update to 202309. 
* gnu/packages/emacs-xyz.scm (emacs-bm): Update to 202309.
 2023-10-03 22:09:26 +02:00
Nicolas Goaziou
4007f4f317
gnu: emacs-subed: Update to 1.2.4. 
* gnu/packages/emacs-xyz.scm (emacs-subed): Update to 1.2.4.
 2023-10-03 22:09:26 +02:00
Nicolas Goaziou
d1e75f7289
gnu: emacs-seq: Update to 2.24. 
* gnu/packages/emacs-xyz.scm (emacs-seq): Update to 2.24.
 2023-10-03 22:09:26 +02:00
Nicolas Goaziou
daf02c5760
gnu: emacs-ebdb: Update to 0.8.18. 
* gnu/packages/emacs-xyz.scm (emacs-ebdb): Update to 0.8.18.
 2023-10-03 22:09:26 +02:00