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Author SHA1 Message Date
Timotej Lazar 3a5ae8c070
gnu: sssd: Update to 2.7.4.
* gnu/packages/sssd.scm (sssd): Update to 2.7.4.
* gnu/packages/patches/sssd-optional-systemd.patch: Update patch.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-06 23:17:05 +02:00
Ludovic Courtès a0c83aa04b
gnu: python-textual: Remove input labels.
* gnu/packages/python-xyz.scm (python-textual)[arguments]: Define the
'tests' origin here.
[native-inputs]: Remove "tests" input and remove input labels.
2022-10-06 23:17:04 +02:00
Brian Kubisiak 96cbfc6202
gnu: Add python-textual.
* gnu/packages/python-xyz.scm (python-textual): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-06 23:17:04 +02:00
Liliana Marie Prikler e4951f7c71
gnu: python-renpy: Update to 8.0.3.
* gnu/packages/game-development.scm (python-renpy): Update to 8.0.3.
2022-10-06 21:16:45 +02:00
Liliana Marie Prikler b60b756226
gnu: python-pygame-sdl2: Update to 2.1.0-for-renpy-8.0.3.
* gnu/packages/game-development.scm (python-pygame-sdl2): Update to
2.1.0-for-renpy-8.0.3.
2022-10-06 21:16:45 +02:00
Tanguy Le Carrour 3657b4daea
gnu: tessen: Update to 2.1.2.
* gnu/packages/password-utils.scm (tessen): Update to 2.1.2.
[arguments]: Substitute notify-send, wl-copy and xdg-open.
[inputs] Add libnotify, wl-clipboard and xdg-utils.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-06 19:49:33 +03:00
itd 0179b21641
gnu: weechat-wee-slack: Update to 2.9.0.
* gnu/packages/messaging.scm (weechat-wee-slack): Update to 2.9.0.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-06 19:35:01 +03:00
Brian Cully ac3582f990
gnu: zfs: Update to 2.1.6.
* gnu/packages/file-systems.scm (zfs): Update to 2.1.6.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-06 19:27:44 +03:00
Liliana Marie Prikler 2f88f5c06f
gnu: komikku: Update to 1.1.0.
* gnu/packages/gnome.scm (komikku): Update to 1.1.0.
2022-10-06 17:25:35 +02:00
Fredrik Salomonsson 53e086c5c6
gnu: Add waybar-cpu-histogram.
* gnu/packages/wm.scm (waybar-cpu-histogram): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2022-10-06 15:08:03 +01:00
Lu Hui eb5b104ca8
gnu: libdaemon: Fix targeting riscv64.
* gnu/packages/libdaemon.scm (libdaemon)[native-inputs,arguments]: Treat
targeting riscv64 like aarch64 is handled.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2022-10-06 15:08:03 +01:00
Paul A. Patience 52b9f0ef1e
gnu: Add discregrid.
* gnu/packages/graphics.scm (discregrid): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2022-10-06 15:08:03 +01:00
Wiktor Żelazny e4593e2114
gnu: Add r-gldex.
* gnu/packages/cran.scm (r-gldex): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2022-10-06 15:08:03 +01:00
Wiktor Żelazny 53eea4d657
gnu: Add r-spacefillr.
* gnu/packages/cran.scm (r-spacefillr): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2022-10-06 15:08:03 +01:00
( 7a271e6886
gnu: Add cpass.
* gnu/packages/password-utils.scm (cpass): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2022-10-06 15:08:03 +01:00
( 44f8aa26bc
gnu: Add wlgreet.
* gnu/packages/admin.scm (wlgreet): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2022-10-06 15:08:03 +01:00
( 829c2eaa7f
gnu: Add rust-os-pipe-0.8.
* gnu/packages/crates-io.scm (rust-os-pipe-0.8): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2022-10-06 15:08:02 +01:00
( b370ac2103
gnu: Add rust-greetd-ipc-0.8.
* gnu/packages/crates-io.scm (rust-greetd-ipc-0.8): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2022-10-06 15:08:02 +01:00
Christopher Baines 020dc0a1f1
gnu: plink: Change origin URL.
pngu.mgh.harvard.edu seems to time out.

* gnu/packages/bioinformatics.scm (plink)[origin]. Change URL.
2022-10-06 15:08:02 +01:00
Michael Rohleder b86867417f
gnu: celluloid: Do not install icon cache.
Fixes <https://issues.guix.gnu.org/58207>.

* gnu/packages/video.scm (celluloid)[arguments]: Add phase
disable-postinstall-script so postinstall-script does nothing. Build
with glib-or-gtk meson option.
[native-inputs]: Remove desktop-file-utils, gtk:bin.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-06 16:58:15 +03:00
Michael Rohleder 2408a10325
gnu: quaternion: Update to 0.0.95.1.
* gnu/packages/messaging.scm (quaternion): Update to 0.0.95.1.
[inputs]: Add qtgraphicaleffects.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-06 16:26:17 +03:00
Michael Rohleder dd7c8537d2
gnu: libqmatrixclient: Update to 0.6.11.
* gnu/packages/messaging.scm (libqmatrixclient): Update to 0.6.11.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-06 16:26:11 +03:00
David Thompson a503d0ba8c
gnu: gitolite: Switch to G-expressions.
* gnu/packages/version-control.scm (gitolite)[arguments]: Use G-expressions.
[inputs]: Add grep and sed.
2022-10-06 08:38:50 -04:00
Ricardo Wurmus e069c6df5e
gnu: Add r-dada2.
* gnu/packages/bioconductor.scm (r-dada2): New variable.
2022-10-06 12:38:34 +02:00
Efraim Flashner 40a42c4348
gnu: linux-libre: Support zram on all kernels.
* gnu/packages/linux.scm (%default-extra-linux-options): Add config
options to add zram support.
2022-10-06 09:44:54 +03:00
Leo Famulari e543bd8321
gnu: linux-libre 4.19: Update to 4.19.261.
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.261.
(linux-libre-4.19-pristine-source): Update hash.
2022-10-06 00:57:06 -04:00
Leo Famulari 1b7cb8a977
gnu: linux-libre 5.4: Update to 5.4.216.
* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.216.
(linux-libre-5.4-pristine-source, deblob-scripts-5.4): Update hashes.
2022-10-06 00:57:06 -04:00
Leo Famulari 93852b83ec
gnu: linux-libre 5.10: Update to 5.10.147.
* gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.147.
(linux-libre-5.10-pristine-source): Update hash.
2022-10-06 00:57:06 -04:00
Leo Famulari a175ef12b6
gnu: linux-libre 5.15: Update to 5.15.72.
* gnu/packages/linux.scm (linux-libre-5.15-version): Update to 5.15.72.
(linux-libre-5.15-pristine-source): Update hash.
2022-10-06 00:57:05 -04:00
Leo Famulari d912c36330
gnu: linux-libre 5.19: Update to 5.19.14.
* gnu/packages/linux.scm (linux-libre-5.19-version): Update to 5.19.14.
(linux-libre-5.19-pristine-source): Update hash.
2022-10-06 00:57:02 -04:00
Sharlatan Hellseher 43b8df4bec
gnu: Add splash.
* gnu/packages/astronomy.scm (splash): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-06 00:11:18 +02:00
Alexey Abramov 40ad967322
services: dhcp-client: Implement and use a configuration record.
* gnu/services/networking.scm (dhcp-client-configuration): New record
configuration.
(dhcp-client-shepherd-service): Implement a shepher service. Provide a
deprication message for legacy configurations.
(dhcp-client-service-type): Use dhcp-client-shepherd-service.
* doc/guix.texi (Networking Setup): Update.
* po/guix/POTFILES.in: Add 'gnu/services/networking.scm'.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2022-10-06 00:11:18 +02:00
Liliana Marie Prikler 9be5f88e18
gnu: gnome-maps: Properly wrap GI_TYPELIB_PATH.
This fixes a bug reported by pkill9 and tschilptschilp23 in IRC.
See <http://logs.guix.gnu.org/guix/2022-10-01.log#031053> and
<http://logs.guix.gnu.org/guix/2022-10-05.log#214334>.
It does so by using a snippet that's also applied in gnome-shell.

* gnu/packages/geo.scm (gnome-maps)[#:phases]: Remove ‘patch-dbus-service’.
Update ‘wrap’ so that it uses GJS-specific wrapping code rather than
wrap-program.
2022-10-05 22:05:43 +02:00
Liliana Marie Prikler ccbeb3fde6
gnu: gnome-maps: Delete trailing space.
* gnu/packages/geo.scm (gnome-maps)[inputs]: Delete trailing spaces.
2022-10-05 21:45:18 +02:00
Liliana Marie Prikler 7ddba7bf66
gnu: gnome-maps: Update to 43.0.
* gnu/packages/geo.scm (gnome-maps): Update to 43.0.
[arguments]<#:meson>: Use meson-0.63.
<#:phases>: Replace ‘skip-gtk-update-icon-cache’ with
‘skip-cache-and-database-updates’.  Update accordingly.
2022-10-05 21:44:00 +02:00
Ricardo Wurmus fd6cd9de86
gnu: Add megahit.
* gnu/packages/bioinformatics.scm (megahit): New variable.
2022-10-05 17:59:04 +02:00
Ricardo Wurmus be1d561f1a
gnu: Add cd-hit-auxtools.
* gnu/packages/bioinformatics.scm (cd-hit-auxtools): New variable.
2022-10-05 14:28:24 +02:00
Ricardo Wurmus 3f627bf56b
gnu: cd-hit: Update to 4.8.1.
* gnu/packages/bioinformatics.scm (cd-hit): Update to 4.8.1.
[arguments]: Do not use quasiquote; remove trailing #T from build phases.
[inputs]: Add zlib.
2022-10-05 13:47:57 +02:00
Ricardo Wurmus 9ed65e6af7
gnu: kaiju: Update to 1.9.0.
* gnu/packages/bioinformatics.scm (kaiju): Update to 1.9.0.
[arguments]: Use gexps; wrap scripts in install phase.
[inputs]: Add bzip2, coreutils, curl, gawk, guile-3.0, gzip,
python-wrapper, tar, and wget.
2022-10-04 23:10:56 +02:00
Liliana Marie Prikler a96ebe47b0
gnu: ibus: Build with GTK4.
* gnu/packages/ibus.scm (ibus)[arguments]: Add “--enable-gtk4”.
[inputs]: Add gtk and pango-next.
2022-10-04 20:40:46 +02:00
Liliana Marie Prikler c264265abd
gnu: sdl2: Use ibus-minimal instead of ibus.
This prevents an input cycle between GTK -> ffmpeg -> sdl2 -> ibus -> GTK.

* gnu/packages/sdl.scm (sdl2)[inputs]: Replace ibus with ibus-minimal.
2022-10-04 20:40:46 +02:00
Liliana Marie Prikler ef53c075a1
gnu: Add ibus-minimal.
* gnu/packages/ibus.scm (ibus-minimal): New variable.
(ibus): Inherit from ibus-minimal.
2022-10-04 20:40:45 +02:00
Jonathan Brielmaier 1c821a3a63
gnu: icedove: Update to 102.3.1 [security fixes].
Fixes CVE-2022-39236, CVE-2022-39249, CVE-2022-39250 and CVE-2022-39251.

* gnu/packages/gnuzilla.scm (icedove): Update to 102.3.1.
2022-10-04 20:36:24 +02:00
Ludovic Courtès ecee392ef1
gnu: eog-plugins: Fix source URL.
The incorrect URL was introduced in
d6d861c615.

* gnu/packages/gnome.scm (eog-plugins)[source]: Change directory in URL.
2022-10-04 18:15:36 +02:00
Zzull 58f6b246a6
gnu: Add awscli-2.
* gnu/packages/python-web.scm (awscli-2): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-04 18:15:36 +02:00
Zzull d7932b731f
gnu: Add python-executor.
* gnu/packages/python-xyz.scm (python-executor): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-04 18:15:36 +02:00
Zzull 0669bf64f7
gnu: Add python-property-manager.
* gnu/packages/python-xyz.scm (python-property-manager): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-04 18:15:35 +02:00
Ludovic Courtès f83622f17d
services: anonip: Bail out when the input is not a FIFO.
* gnu/services/web.scm (anonip-shepherd-service)[start]: Accept zero
arguments.  Define 'spawn'.  Print a message and return #f when #$INPUT
does not denote a FIFO.
2022-10-04 18:15:35 +02:00
Ludovic Courtès ae1af5d787
gnu: guix: Update to 17134b9.
* gnu/packages/package-management.scm (guix): Update to 17134b9.
2022-10-04 18:15:35 +02:00
( via Guix-patches via 7030f592c6
home: Add home-batsignal-service-type.
* gnu/home/services/pm.scm (home-batsignal-service-type): New variable.
(home-batsignal-configuration): New record type.
* doc/guix.texi: Document them.
* gnu/local.mk: Add gnu/home/services/pm.scm.
2022-10-04 17:04:45 +04:00
Timotej Lazar ba84c8c448
gnu: augustus: Update to 3.2.0.
* gnu/packages/games.scm (augustus): Update to 3.2.0.
[inputs]: Add expat.
[snippet]: Unbundle it. Drop trailing #t.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-10-04 13:37:43 +02:00
jgart 31e19fd874
gnu: emacs-lsp-mode: Update to 26c4d3e.
* gnu/packages/emacs-xyz.scm (emacs-lsp-mode): Update to 26c4d3e.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-10-04 13:37:43 +02:00
Michael Rohleder 7e9534150b
gnu: emacs-nov-el: Update to 0.4.0 and use gexps.
* gnu/packages/emacs-xyz.scm (emacs-nov-el): Update to 0.4.0.
[arguments]: Use gexps.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-10-04 13:37:42 +02:00
Nicolas Goaziou df5a021f66
gnu: emacs-modus-themes: Update to 2.7.1.
* gnu/packages/emacs-xyz.scm (emacs-modus-themes): Update to 2.7.1.
2022-10-04 13:37:42 +02:00
Nicolas Goaziou 5e8221822e
gnu: emacs-org-mime: Update to 0.3.2.
* gnu/packages/emacs-xyz.scm (emacs-org-mime): Update to 0.3.2.
2022-10-04 13:37:42 +02:00
kiasoc5 fd7c34f2bf
gnu: Add emacs-circadian.
* gnu/packages/emacs-xyz.scm (emacs-circadian): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-10-04 13:37:41 +02:00
Ricardo Wurmus 17134b9ec1
gnu: r-tximeta: Update to 1.14.1.
* gnu/packages/bioconductor.scm (r-tximeta): Update to 1.14.1.
2022-10-03 19:08:09 +02:00
Ricardo Wurmus 94693d1980
gnu: r-bionero: Update to 1.4.2.
* gnu/packages/bioconductor.scm (r-bionero): Update to 1.4.2.
[propagated-inputs]: Remove r-deseq2 and r-ggpubr; add r-ggrepel and r-patchwork.
2022-10-03 19:08:09 +02:00
Ricardo Wurmus 202fd44ca0
gnu: r-biodb: Update to 1.4.2.
* gnu/packages/bioconductor.scm (r-biodb): Update to 1.4.2.
2022-10-03 19:08:09 +02:00
Ricardo Wurmus 87c097631f
gnu: r-biocdockermanager: Update to 1.8.1.
* gnu/packages/bioconductor.scm (r-biocdockermanager): Update to 1.8.1.
2022-10-03 19:08:09 +02:00
Ricardo Wurmus 6bf59194a6
gnu: r-basilisk: Update to 1.8.1.
* gnu/packages/bioconductor.scm (r-basilisk): Update to 1.8.1.
2022-10-03 19:08:09 +02:00
Ricardo Wurmus 2e7872f6c9
gnu: r-bgeecall: Update to 1.12.2.
* gnu/packages/bioconductor.scm (r-bgeecall): Update to 1.12.2.
2022-10-03 19:08:09 +02:00
Ricardo Wurmus 869b1f9f5c
gnu: r-pathview: Update to 1.36.1.
* gnu/packages/bioconductor.scm (r-pathview): Update to 1.36.1.
2022-10-03 19:08:09 +02:00
Ricardo Wurmus 547d4670e7
gnu: r-delayedmatrixstats: Update to 1.18.1.
* gnu/packages/bioconductor.scm (r-delayedmatrixstats): Update to 1.18.1.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus cc719399c9
gnu: r-scran: Update to 1.24.1.
* gnu/packages/bioconductor.scm (r-scran): Update to 1.24.1.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus 1527d2e9df
gnu: r-scuttle: Update to 1.6.3.
* gnu/packages/bioconductor.scm (r-scuttle): Update to 1.6.3.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus d66a466909
gnu: r-hdf5array: Update to 1.24.2.
* gnu/packages/bioconductor.scm (r-hdf5array): Update to 1.24.2.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus 78ff15ae42
gnu: r-biocpkgtools: Update to 1.14.1.
* gnu/packages/bioconductor.scm (r-biocpkgtools): Update to 1.14.1.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus 9af834ad37
gnu: r-biocviews: Update to 1.64.1.
* gnu/packages/bioconductor.scm (r-biocviews): Update to 1.64.1.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus 8441c1f9ea
gnu: r-bioccheck: Update to 1.32.1.
* gnu/packages/bioconductor.scm (r-bioccheck): Update to 1.32.1.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus e30b2aeaa2
gnu: r-cytoml: Update to 2.8.1.
* gnu/packages/bioconductor.scm (r-cytoml): Update to 2.8.1.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus 10c006c21d
gnu: r-opencyto: Update to 2.8.4.
* gnu/packages/bioconductor.scm (r-opencyto): Update to 2.8.4.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus bceed10243
gnu: r-flowstats: Update to 4.8.2.
* gnu/packages/bioconductor.scm (r-flowstats): Update to 4.8.2.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus eed76ad91a
gnu: r-flowviz: Update to 1.60.2.
* gnu/packages/bioconductor.scm (r-flowviz): Update to 1.60.2.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus f82d20caae
gnu: r-ggcyto: Update to 1.24.1.
* gnu/packages/bioconductor.scm (r-ggcyto): Update to 1.24.1.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus 1c3750c9ea
gnu: r-ncdfflow: Update to 2.42.1.
* gnu/packages/bioconductor.scm (r-ncdfflow): Update to 2.42.1.
2022-10-03 19:08:08 +02:00
Ricardo Wurmus 23e42e77d4
gnu: r-rsubread: Update to 2.10.5.
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.10.5.
2022-10-03 19:08:07 +02:00
Ricardo Wurmus 597106f234
gnu: r-rgadem: Update to 2.44.1.
* gnu/packages/bioconductor.scm (r-rgadem): Update to 2.44.1.
2022-10-03 19:08:07 +02:00
Ricardo Wurmus 83f0c1a39d
gnu: r-enrichplot: Update to 1.16.2.
* gnu/packages/bioconductor.scm (r-enrichplot): Update to 1.16.2.
2022-10-03 19:08:07 +02:00
Ricardo Wurmus 842431a036
gnu: r-dose: Update to 3.22.1.
* gnu/packages/bioconductor.scm (r-dose): Update to 3.22.1.
2022-10-03 19:08:07 +02:00
Ricardo Wurmus 2b4a7fa22e
gnu: r-residualmatrix: Update to 1.6.1.
* gnu/packages/bioconductor.scm (r-residualmatrix): Update to 1.6.1.
2022-10-03 19:08:07 +02:00
Ricardo Wurmus 1cb30ba714
gnu: r-ggtree: Update to 3.4.4.
* gnu/packages/bioconductor.scm (r-ggtree): Update to 3.4.4.
2022-10-03 19:08:07 +02:00
Ricardo Wurmus a047448aad
gnu: r-treeio: Update to 1.20.2.
* gnu/packages/bioconductor.scm (r-treeio): Update to 1.20.2.
2022-10-03 19:08:07 +02:00
Ricardo Wurmus 41f029c12a
gnu: r-scaledmatrix: Update to 1.4.1.
* gnu/packages/bioconductor.scm (r-scaledmatrix): Update to 1.4.1.
2022-10-03 19:08:07 +02:00
Ricardo Wurmus e581479be8
gnu: r-diffbind: Update to 3.6.4.
* gnu/packages/bioconductor.scm (r-diffbind): Update to 3.6.4.
2022-10-03 19:08:07 +02:00
Ricardo Wurmus 309cfcedca
gnu: r-zellkonverter: Update to 1.6.5.
* gnu/packages/bioconductor.scm (r-zellkonverter): Update to 1.6.5.
2022-10-03 19:08:07 +02:00
Ricardo Wurmus 039d894b9d
gnu: r-limma: Update to 3.52.4.
* gnu/packages/bioconductor.scm (r-limma): Update to 3.52.4.
2022-10-03 19:08:07 +02:00
Ricardo Wurmus a16c87fae1
gnu: r-genomicfeatures: Update to 1.48.4.
* gnu/packages/bioconductor.scm (r-genomicfeatures): Update to 1.48.4.
2022-10-03 19:08:06 +02:00
Ricardo Wurmus a15ad5ebe3
gnu: r-genomeinfodb: Update to 1.32.4.
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.32.4.
2022-10-03 19:08:06 +02:00
Ricardo Wurmus ba6a3e7d39
gnu: r-gage: Update to 2.46.1.
* gnu/packages/bioconductor.scm (r-gage): Update to 2.46.1.
2022-10-03 19:08:06 +02:00
Ricardo Wurmus c82320aa21
gnu: r-complexheatmap: Update to 2.12.1.
* gnu/packages/bioconductor.scm (r-complexheatmap): Update to 2.12.1.
2022-10-03 19:08:06 +02:00
Ricardo Wurmus 038eeeaf2a
gnu: r-chipseeker: Update to 1.32.1.
* gnu/packages/bioconductor.scm (r-chipseeker): Update to 1.32.1.
[propagated-inputs]: Add r-ggvenndiagram.
2022-10-03 19:08:06 +02:00
Ricardo Wurmus 15243c2f84
gnu: r-biostrings: Update to 2.64.1.
* gnu/packages/bioconductor.scm (r-biostrings): Update to 2.64.1.
2022-10-03 19:08:06 +02:00
Ricardo Wurmus 29a947216c
gnu: r-annotationforge: Update to 1.38.1.
* gnu/packages/bioconductor.scm (r-annotationforge): Update to 1.38.1.
2022-10-03 19:08:06 +02:00
Ricardo Wurmus 96b560ac8b
gnu: r-dearseq: Update to 1.8.4.
* gnu/packages/bioconductor.scm (r-dearseq): Update to 1.8.4.
2022-10-03 19:08:03 +02:00
Maxim Cournoyer 06201b76e5
gnu: Remove ocaml-craml.
The package doesn't build from source and is unmaintained according to its
maintainer:
https://github.com/realworldocaml/craml/pull/8#issuecomment-529235628.

* gnu/packages/ocaml.scm (ocaml-craml): Delete variable.
2022-10-03 11:16:15 -04:00
Maxim Cournoyer 67e9513e40
gnu: r-spams: Update to 2.6.1.
* gnu/packages/statistics.scm (r-spams): Update to 2.6.1.
[source]: Migrate from gforge.inria.fr to gitlab.inria.fr, fetching from git.
[phases]: Use gexps.
{patch-paths, mkdist}: New phases.
{no-mtune}: Delete trailing #t.
[native-inputs]: New field.
[home-page]: Update URL.
2022-10-03 11:16:15 -04:00
Maxim Cournoyer 1390e38264
gnu: ocaml-dose3: Migrate from gforce.inria.fr.
* gnu/packages/ocaml.scm (ocaml-dose3) [source]: Fetch from git from inill's gitlab
instance.
2022-10-03 11:16:15 -04:00
Maxim Cournoyer a93781b83c
gnu: Remove unused scotch patches.
* gnu/packages/patches/scotch-build-parallelism.patch: Delete file.
* gnu/packages/patches/scotch-integer-declarations.patch: Likewise.
* gnu/local.mk (dist_patch_DATA): De-register them.
2022-10-03 11:16:15 -04:00
Maxim Cournoyer 8ad1978695
gnu: mpfi: Update to 1.5.4-1.b982534.
* gnu/packages/multiprecision.scm (mpfi): Update to 1.5.4-1.b982534.
[source]: Fetch from git and use latest commit available.
[tests?]: Delete argument, enabling test suite.
[phases]: New argument.
[native-inputs]: New field.
2022-10-03 11:16:15 -04:00
Maxim Cournoyer a001be9664
gnu: mpfi: Use gexps and remove input labels.
* gnu/packages/multiprecision.scm (mpfi) [source]: Re-indentation.
[configure-flags]: Use gexps.
[native-inputs]: Remove labels.
2022-10-03 11:16:15 -04:00
Maxim Cournoyer efb974a6fa
gnu: isl: Remove outdated comment.
* gnu/packages/gcc.scm (isl) [source]: Remove outdated comment.
2022-10-03 11:16:14 -04:00
Maxim Cournoyer 384b98028c
gnu: gappa: Honor TESTS?.
* gnu/packages/algebra.scm (gappa) [phases] {check}: Honor TESTS?.
2022-10-03 11:16:14 -04:00
Maxim Cournoyer 0f46559331
gnu: gappa: Update to 1.4.1.
* gnu/packages/algebra.scm (gappa): Update to 1.4.1.
[source]: Fetch from git.
[arguments]: Use gexps.
[phases]: Delete trailing #t.
[native-inputs]: New field.
2022-10-03 11:16:14 -04:00
Maxim Cournoyer bcc61c08be
gnu: gmp-ecm: Update to 7.0.5.
* gnu/packages/algebra.scm (gmp-ecm): Update to 7.0.5.
[source]: Fetch from git from gitlab.inria.fr.
[arguments]: Use gexps.
[phases] {patch-paths}: New phase
[native-inputs]: New field.
[home-page]: Update URL.
2022-10-03 11:16:14 -04:00
Maxim Cournoyer 795f90ea4e
gnu: gf2x: Update to 1.3.0.
* gnu/packages/algebra.scm (gf2x): Update to 1.3.0.
2022-10-03 11:16:13 -04:00
Maxim Cournoyer 2b08945cbb
gnu: gf2x: Migrate from gforge.inria.fr to gitlab.inria.fr.
* gnu/packages/algebra.scm (gf2x) [source]: Fetch from git, adjust URL.
[native-inputs]: Add autoconf, automake and libtool.
[home-site]: Update URL.
2022-10-03 11:16:13 -04:00
Michael Rohleder f64c80a538
gnu: emacs-ag: Do not propagate the-silver-searcher.
* gnu/packages/emacs-xyz.scm (emacs-ag)[phases]: Add phase substitute-ag-path
to avoid propagating ag.
[inputs]: Add the-silver-searcher.
[propagated-inputs]: Remove the-silver-searcher.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-03 10:26:42 +03:00
Michael Rohleder 3fbe68d9fc
gnu: emacs-ag: Use gexps.
* gnu/packages/emacs-xyz.scm (emacs-ag)[phases]: Use gexps.
{install-info}: Adjust for gexps.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-03 10:26:41 +03:00
Greg Hogan 582b1f626f
gnu: python-louvain: Fix test.
* gnu/packages/graph.scm (python-louvain)[source]: Add patch.
* gnu/packages/patches/python-louvain-fix-test.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register patch.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-02 23:22:07 +02:00
Greg Hogan d1c3de6583
gnu: python-setools: Update to 4.4.0.
* gnu/packages/selinux.scm (python-setools): Update to 4.4.0.
[source, home-page]: Update url.
[inputs]: Add python-pyqt.
[native-inputs]: Add python-cython.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-02 23:21:58 +02:00
Greg Hogan 35c92a6324
gnu: python-cfn-lint: Update to 0.65.0.
* gnu/packages/python-web.scm (python-cfn-lint): Update to 0.65.0.
[arguments]<#:phases>: Add 'skip-network-test.
[propagated-inputs]: Add python-importlib-resources,
python-jschema-to-python, python-sarif-om.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-02 23:21:51 +02:00
Greg Hogan 56d8907c5f
gnu: Add python-sarif-om.
* gnu/packages/python-web.scm (python-sarif-om): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-02 23:21:47 +02:00
Greg Hogan dec74d4563
gnu: Add python-jschema-to-python.
* gnu/packages/python-web.scm (python-jschema-to-python): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-02 23:21:38 +02:00
Greg Hogan 2070ce84ec
gnu: python-aws-sam-translator: Update to 1.51.0.
* gnu/packages/python-web.scm (python-aws-sam-translator): Update to 1.51.0.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-02 23:21:34 +02:00
Greg Hogan 5440d6be78
gnu: python-networkx: Update to 2.8.6.
* gnu/packages/python-xyz.scm (python-networkx): Update to 2.8.6.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-02 23:21:29 +02:00
Wiktor Żelazny b479089fdc
gnu: Add texlive-generic-xstring.
* gnu/packages/tex.scm (texlive-generic-xstring): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-02 23:20:05 +02:00
Giovanni Biscuolo 69aa41e405
gnu: emacs-telega: Use tdlib-1.8.0
emacs-telega is compatible with the latest TDLib major release 1.8.0

* gnu/packages/emacs-xyz.scm: (emacs-telega) Use tdlib-1.8.0 instead of latest tdlib

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-02 23:18:43 +02:00
Giovanni Biscuolo abc232c42d
gnu: Add tdlib-1.8.0.
This is needed for emacs-telega 0.8.3

* gnu/packages/messaging.scm (tdlib-1.8.0): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-10-02 23:18:43 +02:00
Ludovic Courtès 782c7455e1
gnu: ffmpeg@4: Build against SDL2 2.0 so 'ffplay' gets built.
Fixes <https://issues.guix.gnu.org/58090>.
Reported by Zhu Zihao <all_but_last@163.com>.

* gnu/packages/sdl.scm (sdl2-2.0): New variable.
* gnu/packages/video.scm (ffmpeg-4)[inputs]: New field.
2022-10-02 23:18:42 +02:00
Michael Rohleder bb3b810167
gnu: emacs-scratch-el: Update source and homepage.
* gnu/packages/emacs-xyz.scm (emacs-scratch-el)[source, homepage]: Update URL.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 15:40:17 +03:00
Michael Rohleder 6fc185bc79
gnu: pantalaimon: Update to 0.10.5.
* gnu/packages/matrix.scm (pantalaimon): Update to 0.10.5.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 15:34:40 +03:00
Michael Rohleder d37f4f4ac7
gnu: python-matrix-nio: Update to 0.20.0.
* gnu/packages/matrix.scm (python-matrix-nio): Update to 0.20.0.
[native-inputs]: Add python-pytest-asyncio.
[propagated-inputs]: Changed python-jsonschema to python-jsonschema-next.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 15:34:38 +03:00
Michael Rohleder 357bd133d8
gnu: python-aiohttp-socks: Update to 0.7.1.
* gnu/packages/python-web.scm (python-aiohttp-socks): Update to 0.7.1.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 15:34:36 +03:00
Michael Rohleder 6448abe39a
gnu: python-socks: Update to 2.0.3.
* gnu/packages/python-web.scm (python-socks): Update to 2.0.3.
[arguments]<#:phases>: Remove trailing #t.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 15:34:30 +03:00
Hilton Chain 5bd048debf
gnu: Add go-1.19.
* gnu/packages/golang (go-1.19,go-std-1.19): New variables.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 15:23:07 +03:00
Hilton Chain f44ba4a1ad
gnu: Add go-1.18.
* gnu/packages/golang (go-1.18,go-std-1.18): New variables.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 15:22:53 +03:00
itd 2ac5da4b5a
gnu: Add ghc-9.0.
* gnu/packages/haskell.scm (ghc-9.0): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 15:16:18 +03:00
Fulbert ae22181374
gnu: csound: Update to 6.16.2.
* gnu/packages/audio.scm (csound): Update to 6.16.2.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 14:54:21 +03:00
Mike Swanson 77bcdb7439
gnu: units: Update to 2.22.
* gnu/packages/maths.scm (units): Update to 2.22.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 14:36:23 +03:00
ギャラ 1df3af9bdf
gnu: neovim: Update to 0.8.0.
* gnu/packages/vim.scm (neovim): Update to 0.8.0.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 14:31:45 +03:00
ギャラ 09e5f9e38e
gnu: libvterm: Update to 0.3.0.
* gnu/packages/terminals.scm (libvterm): Update to 0.3.0.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-10-02 14:31:41 +03:00
Marius Bakke 78176e3a81
gnu: ungoogled-chromium: Update to 106.0.5249.91-1.
* gnu/packages/chromium.scm (%chromium-version): Set to 106.0.5249.91.
(%ungoogled-origin, ungoogled-chromium): Update hashes.
2022-10-01 23:13:13 +02:00
Efraim Flashner 821cd5651a
gnu: exercism: Remove input labels.
* gnu/packages/education.scm (exercism)[inputs]: Remove input labels.
2022-10-01 23:48:02 +03:00
Efraim Flashner 04516a7adf
gnu: exercism: Update home-page.
* gnu/packages/education.scm (exercism)[home-page]: Follow redirect.
2022-10-01 23:47:06 +03:00
Efraim Flashner 4b5ac6b226
gnu: exercism: Install shell completions.
* gnu/packages/education.scm (exercism)[arguments]: Add a phase to build
and install shell completions.
2022-10-01 23:46:12 +03:00
Guillaume Le Vaillant 461b1e4909
gnu: nanovna-saver: Update to 0.5.3.
* gnu/packages/radio.scm (nanovna-saver): Update to 0.5.3.
2022-10-01 18:22:53 +02:00
Liliana Marie Prikler 4b3493ed01
gnu: komikku: Update to 1.0.0.
* gnu/packages/gnome.scm (komikku): Update to 1.0.0.
[arguments]<#:meson>: Use meson-0.63.
<#:phases>: Adjust ‘skip-gtk-update-icon-cache’
[inputs]: Replace gtk+ with gtk.
Replace libhandy with libadwaita.
Replace webkitgtk-with-libsoup2 with webkitgtk-next.
2022-10-01 18:10:01 +02:00
Liliana Marie Prikler 46e1eb48c9
gnu: komikku: Use G-Expressions.
* gnu/packages/gnome.scm (komikku)[arguments]: Convert to list of G-Expressions.
2022-10-01 18:10:01 +02:00
Liliana Marie Prikler 7f0ff90538
gnu: gfeeds: Update to 1.0.3.
* gnu/packages/syndication.scm (gfeeds): Update to 1.0.3.
[arguments]<#:phases>: Add ‘skip-icon-cache’.
[native-inputs]: Remove gtk+:bin.  Add blueprint-compiler.
[inputs]: Replace gtk+ with gtk.
Replace libhandy with libadwaita.
Replace python-readability with python-readability-lxml.
Replace webkitgtk with webkitgtk-next.
Add python-humanize, python-magic, python-pygobject, and
syndication-domination.
2022-10-01 18:10:01 +02:00
Liliana Marie Prikler 9619a31dc3
gnu: gfeeds: Modernize package description.
* gnu/packages/syndication.scm (gfeeds)[arguments]: Convert to list of
G-Expressions.  Drop trailing #t.
[native-inputs]: Drop labels.
[inputs]: Add bash-minimal.
2022-10-01 17:56:01 +02:00
Liliana Marie Prikler e90509b627
gnu: gfeeds: Use git origin.
* gnu/packages/syndication.scm (gfeeds)[origin]: Use git-fetch and
git-reference.
2022-10-01 17:56:00 +02:00
Liliana Marie Prikler 99af12e826
gnu: Add syndication-domination.
* gnu/packages/syndication.scm (syndication-domination): New variable.
2022-10-01 17:56:00 +02:00
Liliana Marie Prikler 7b7562d930
gnu: Add python-readability-lxml.
* gnu/packages/python-xyz.scm (python-readability-lxml): New variable.
2022-10-01 17:56:00 +02:00
Liliana Marie Prikler b6b09a93fd
gnu: Add python-timeout-decorator.
* gnu/packages/python-xyz.scm (python-timeout-decorator): New variable.
2022-10-01 17:56:00 +02:00
Liliana Marie Prikler 16be8d4e7b
gnu: pugixml: Update to 1.12.1.
* gnu/packages/xml.scm (pugixml): Update to 1.12.1.
2022-10-01 17:56:00 +02:00
Liliana Marie Prikler a70372b4aa
gnu: blueprint-compiler: Wrap GUIX_PYTHONPATH and GI_TYPELIB_PATH.
* gnu/packages/gnome.scm (blueprint-compiler)[arguments]: Add
python-build-system's wrap phase, as well as a phase for GI_TYPELIB_PATH.
2022-10-01 17:56:00 +02:00
Liliana Marie Prikler 95a216c4f0
gnu: libadwaita: Update to 1.2.0.
* gnu/packages/gnome.scm (libadwaita): Update to 1.2.0.
2022-10-01 17:56:00 +02:00
Liliana Marie Prikler b3d3012f11
gnu: webkitgtk: Update to 2.38.0.
* gnu/packages/webkit.scm (webkitgtk): Update to 2.38.0.
2022-10-01 17:56:00 +02:00
Liliana Marie Prikler 85e7d3e83a
gnu: gtk: Update to 4.8.1.
* gnu/packages/gtk.scm (gtk): Update to 4.8.1.
2022-10-01 17:56:00 +02:00