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Author SHA1 Message Date
Ricardo Wurmus
0944c5b028
gnu: Add pairadise. 
* gnu/packages/bioinformatics.scm (pairadise): New variable.

Change-Id: I4ad543dea3ddcafd5cbf07623f1faaabb954ba40
 2024-03-21 14:33:47 +01:00
Efraim Flashner
ec0e5e9369
gnu: universal-ctags: Update to 6.1.20240317.0. 
* gnu/packages/code.scm (universal-ctags): Update to 6.1.20240317.0.

Change-Id: I035bc73702fbe9951820e176f09bde16bd9049c6
 2024-03-21 14:08:05 +02:00
Efraim Flashner
7f4cd6c50c
gnu: global: Update to 6.6.12. 
* gnu/packages/code.scm (global): Update to 6.6.12.

Change-Id: If073f74f55199bfbc9f29b95e9e3db3a6cf00548
 2024-03-21 14:08:05 +02:00
Efraim Flashner
4005c5da6d
gnu: toot: Update to 0.42.0. 
* gnu/packages/mastodon.scm (toot): Update to 0.42.0.
[build-system]: Switch to pyproject-build-system.
[native-inputs]: Add python-pyyaml, python-typing-extensions.
[inputs]: Add python-click, python-urwidgets.

Change-Id: I085531e63e6f811319715cfddfad9f17c877897d
 2024-03-21 13:57:33 +02:00
Efraim Flashner
1f6474a819
gnu: Add python-urwidgets. 
* gnu/packages/python-xyz.scm (python-urwidgets): New variable.

Change-Id: I34a1cff78d9e930b13c01d53ab34f7ee57478a39
 2024-03-21 13:57:15 +02:00
Efraim Flashner
2f4f6db30b
gnu: libportal: Update to 0.7.1. 
* gnu/packages/freedesktop.scm (libportal): Update to 0.7.1.

Change-Id: Iab3cf48ce63e2149b5680dbc852d0ed4483de6cc
 2024-03-21 13:43:47 +02:00
Efraim Flashner
51ea39b2c7
gnu: xdg-desktop-portal-wlr: Update to 0.7.1. 
* gnu/packages/freedesktop.scm (xdg-desktop-portal-wlr): Update to 0.7.1.

Change-Id: Id716cffe6db65fd3827dd52871b0620187466c5d
 2024-03-21 13:43:14 +02:00
Efraim Flashner
972f2c4926
gnu: khard: Update to 0.19.1. 
* gnu/packages/mail.scm (khard): Update to 0.19.1.

Change-Id: Ic091cc761920776f03a0d69189dc0b117db3786f
 2024-03-21 13:22:20 +02:00
Efraim Flashner
c415e9e253
gnu: khal: Update to 0.11.3. 
* gnu/packages/calendar.scm (khal): Update to 0.11.3.

Change-Id: I848166bfe9469ee37b8acd126fdc3a307914a63b
 2024-03-21 13:22:20 +02:00
Efraim Flashner
8b462c34a2
gnu: wgetpaste: Update to 2.34. 
* gnu/packages/wget.scm (wgetpaste): Update to 2.34.
[arguments]: Remove custom 'change-unfriendly-default phase.

Change-Id: I5677881702ffce7846552552bb7bceec81177843
 2024-03-21 13:08:06 +02:00
Giacomo Leidi
69951a61a1
gnu: emacs-extempore-mode: Update to 0.0.0-1.92e0fff. 
* gnu/packages/emacs-xyz.scm (emacs-extempore-mode): Update to to 0.0.0-1.92e0fff.

Change-Id: I1e4cfebedf5450384e40425619925ecdf7465a64
Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-20 14:52:34 +00:00
apoorv569
9b611cd175
gnu: emacs-evil-collection: Update to 0.0.10. 
* gnu/packages/emacs-xyz.scm (emacs-evil-collection): Update to 0.0.10.

Signed-off-by: Christopher Baines <mail@cbaines.net>
Change-Id: I864c9a6434e9ba46cfb510183962aa6b3739b32a
 2024-03-20 14:44:46 +00:00
Nicolas Graves
a24aa227f7
gnu: python-joblib: Update to 1.3.2. 
* gnu/packages/python-xyz.scm (python-joblib): Update to 1.3.2.
[build-system]: Update to pyproject-build-system.
[arguments]
  <#:phases>: Remove check phase.
  <#:test-flags>: Keep former test flag.
[propagated-inputs]: Add python-psutil.

Change-Id: Ide110a19431b1d26e1d7dd8d1adc3b3f0f417749
Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-20 14:33:05 +00:00
Christopher Baines
5d1ba303df
gnu: xfce4-dev-tools: Add libxslt as a native-input. 
As the configure script is looking for it.

* gnu/packages/xfce.scm (xfce4-dev-tools)[native-inputs]: Add libxslt.

Change-Id: Ia7ab573bbdf7461fc68053667a5962717afd0015
 2024-03-20 14:30:22 +00:00
Guillaume Le Vaillant
6cb181c07f
gnu: electron-cash: Update to 4.4.0. 
* gnu/packages/finance.scm (electron-cash): Update to 4.4.0.

Change-Id: Ibe9ee61d4d2817b68fb36fb3072c6d16b8bc1016
 2024-03-20 13:24:34 +01:00
Andre A. Gomes
dfd929b3b1
gnu: nyxt: Update to 3.11.5. 
* gnu/packages/web-browsers.scm (nyxt): Update to 3.11.5.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2024-03-20 13:13:57 +01:00
Andre A. Gomes
3f5fe4503c
gnu: sbcl-slime-swank: Update to 2.29.1. 
* gnu/packages/lisp-xyz.scm (sbcl-slime-swank): Update to 2.29.1.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2024-03-20 12:56:33 +01:00
Andre A. Gomes
fa36331344
gnu: emacs-slime: Update to 2.29.1. 
* gnu/packages/emacs-xyz.scm (emacs-slime): Update to 2.29.1.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2024-03-20 12:56:06 +01:00
Guillaume Le Vaillant
be88124ebc
gnu: txr: Update to 294. 
* gnu/packages/lisp.scm (txr): Update to 294.

Change-Id: I53693122aaf5b2c0ae8f7f13e846de81f1525fc1
 2024-03-20 11:57:38 +01:00
Giacomo Leidi
b7eb1a8116
gnu: Add alsa-midi-latency-test. 
* gnu/packages/audio.scm (alsa-midi-latency-test): New variable.

Change-Id: I35d3047cb997c5787de515a38ae0a0eb8f12600d
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-03-19 17:31:40 +01:00
Romain GARBAGE
b213afbf58
gnu: combinatorial-blas: Skip failing tests. 
* gnu/packages/maths.scm (combinatorial-blas): Add new phase.

Change-Id: Ifefb2b17e6758547d38290753a7cd338032a6abb
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-03-19 17:31:32 +01:00
Tanguy Le Carrour
74533133d3
gnu: Add python-pypugjs. 
* gnu/packages/python-xyz.scm (python-pypugjs): New variable.

Change-Id: I050ab42d0149fcffddcf6b12dd9c1ddea23f84c9
Signed-off-by: Tanguy Le Carrour <tanguy@bioneland.org>
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-03-19 17:19:01 +01:00
stuebinm
d082573db1
gnu: hikari: Build against wlroots@0.15. 
It fails to build with versions of wlroots newer than 0.15, which
seems unlikey to be fixed https://hub.darcs.net/raichoo/hikari/issue/45

* gnu/packages/wm.scm (wlroots-0.15): New variable.
(hikari)[inputs]: Replace wlroots with wlroots-0.15.

Change-Id: Id90e1e1ff399afe54fff68167f497f0484d2c218
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2024-03-19 17:02:53 +01:00
Ludovic Courtès
176e2eda7f
doc: cookbook: Account for ‘guix pull’ in /etc/profile instructions. 
* doc/guix-cookbook.texi (Setting Up Compute Nodes): Include
$HOME/.config/guix/current.

Change-Id: I6c1c42394991af8f1fa7c2630bdb4b0aef946c2b
 2024-03-19 17:02:15 +01:00
Ludovic Courtès
b7931e6f5d
git authenticate: Document ‘--end’. 
* guix/scripts/git/authenticate.scm (show-help): Document ‘--end’.
* doc/guix.texi (Invoking guix git authenticate): Likewise.

Reported-by: Tomas Volf <~@wolfsden.cz>
Change-Id: Ia646203ce2f721487de547c76b9488754c70db66
 2024-03-19 17:02:14 +01:00
Ludovic Courtès
c90a4e8dcd
describe: Try harder to find the ‘guix pull’ profile. 
Fixes <https://issues.guix.gnu.org/66705>.

The strategy used by ‘current-profile’ so far would fail to find the
right profile (the one created by ‘guix pull’ or ‘guix time-machine’) in
cases where said profile is itself included in another profile.  This
happens, for instance, when running ‘guix shell -CW -- guix describe’,
which, as a result, would display nothing but the ‘guix’ channel.

This patch fixes that by having ‘current-profile’ not just check for the
presence of a ‘manifest’ file but also parse it to determine whether
it’s a ‘guix pull’ kind of manifest.

* guix/describe.scm (find-profile): New procedure.
(current-profile): Adjust to use it.

Change-Id: I9194f54ce1496a6591e247c76203f497f28c330b
 2024-03-19 17:02:14 +01:00
Ludovic Courtès
06baf4d6ba
profiles: ‘read-manifest’ raises to ‘&profile-error’ upon version mismatch. 
* guix/profiles.scm (sexp->manifest): In the catch-all clause, raise to
‘&profile-error’ in addition to ‘&message’.

Change-Id: Ieb08187b388531c2157bfe67fb1b7319dbbb4ff3
 2024-03-19 17:02:14 +01:00
Mark H Weaver
ee11b22fcc
gnu: icecat: Update to 115.9.0-guix0-preview1 [security fixes]. 
Includes fixes for CVE-2023-5388, CVE-2024-0743, CVE-2024-2605,
CVE-2024-2607, CVE-2024-2608, CVE-2024-2610, CVE-2024-2611,
CVE-2024-2612, CVE-2024-2614, and CVE-2024-2616.

* gnu/packages/gnuzilla.scm (%icecat-base-version, %icecat-build-id): Update.
(icecat-source): Update gnuzilla commit, base version, and hashes.
 2024-03-19 10:16:35 -04:00
Ricardo Wurmus
26aa8fc87e
gnu: snakemake-7: Patch tibanna command line. 
* gnu/packages/python-xyz.scm (snakemake-7)[arguments]: Remove store reference
in tibanna command line.

Change-Id: I339f4c3133a0e687723a53277818749a8e5fc97a
 2024-03-19 15:01:38 +01:00
Ricardo Wurmus
7286a4569d
gnu: r-hmisc: Update to 5.1-2. 
* gnu/packages/statistics.scm (r-hmisc): Update to 5.1-2.

Change-Id: I6b6ab9916f58323f0bc523e3c8ff0a22e59d63b5
 2024-03-19 14:43:27 +01:00
Ricardo Wurmus
c81807e871
gnu: r-tidyselect: Update to 1.2.1. 
* gnu/packages/statistics.scm (r-tidyselect): Update to 1.2.1.

Change-Id: Id5cddcbd6180070c16651634eff8cd9c4839c104
 2024-03-19 14:43:27 +01:00
Ricardo Wurmus
9b32c43908
gnu: r-digest: Update to 0.6.35. 
* gnu/packages/statistics.scm (r-digest): Update to 0.6.35.

Change-Id: I054d6daa5b056241547411e83a30a7d1e7afd2d1
 2024-03-19 14:43:27 +01:00
Ricardo Wurmus
8b46813272
gnu: r-ragg: Update to 1.3.0. 
* gnu/packages/cran.scm (r-ragg): Update to 1.3.0.

Change-Id: I3e44fe7dab732944082223cbde4f6cbd2800714f
 2024-03-19 14:43:26 +01:00
Ricardo Wurmus
11395f5682
gnu: r-mlr3learners: Update to 0.6.0. 
* gnu/packages/cran.scm (r-mlr3learners): Update to 0.6.0.

Change-Id: Iac86172bfc5d3d3b719ccacb4b87c120ce2cc596
 2024-03-19 14:43:26 +01:00
Ricardo Wurmus
baa0e92947
gnu: r-seurat: Update to 5.0.3. 
* gnu/packages/cran.scm (r-seurat): Update to 5.0.3.

Change-Id: Id86830ab2ce8122989bf88149fb9d733b8a458fa
 2024-03-19 14:43:26 +01:00
Ricardo Wurmus
4286ff407e
gnu: r-erm: Update to 1.0-6. 
* gnu/packages/cran.scm (r-erm): Update to 1.0-6.

Change-Id: I2bfd514d63ee0ae873d4368f7fb2ba9798998cd5
 2024-03-19 14:43:26 +01:00
Ricardo Wurmus
9e31e0a0a0
gnu: r-gamlss-data: Update to 6.0-6. 
* gnu/packages/cran.scm (r-gamlss-data): Update to 6.0-6.

Change-Id: I6bb7a4ae35b7c83d132979a6024d4cedabe97eb3
 2024-03-19 14:43:26 +01:00
Ricardo Wurmus
d2cb6f5cb2
gnu: r-parameters: Update to 0.21.6. 
* gnu/packages/cran.scm (r-parameters): Update to 0.21.6.

Change-Id: Ie0c10257117909ca246eb01b9a15b94adbf6d85c
 2024-03-19 14:43:26 +01:00
Ricardo Wurmus
4e9e8aa341
gnu: r-rms: Update to 6.8-0. 
* gnu/packages/cran.scm (r-rms): Update to 6.8-0.

Change-Id: If854e5151f3821f6a4c660e268ebd4ff063521dd
 2024-03-19 14:43:25 +01:00
Ricardo Wurmus
2722baf843
gnu: r-bigrquery: Update to 1.5.1. 
* gnu/packages/cran.scm (r-bigrquery): Update to 1.5.1.

Change-Id: I6aca258386093f1eb6fed5b6501b28b26d05b31f
 2024-03-19 14:43:25 +01:00
Ricardo Wurmus
943519beea
gnu: r-tm: Update to 0.7-12. 
* gnu/packages/cran.scm (r-tm): Update to 0.7-12.

Change-Id: Ie148245220ef5ea28d118696b92078dd7a84dd3e
 2024-03-19 14:43:25 +01:00
Ricardo Wurmus
5b1c38cdb8
gnu: r-remotes: Update to 2.5.0. 
* gnu/packages/cran.scm (r-remotes): Update to 2.5.0.

Change-Id: Ie68b8b2a04fb6d2b0d2d15936e25e7d026a8d1b6
 2024-03-19 14:43:25 +01:00
Ricardo Wurmus
93bb0037c6
gnu: r-targets: Update to 1.6.0. 
* gnu/packages/cran.scm (r-targets): Update to 1.6.0.

Change-Id: I4e72c19c1aa0c9486f5b495e60e969f043a6936e
 2024-03-19 14:43:25 +01:00
Ricardo Wurmus
0838412b99
gnu: r-tarchetypes: Update to 0.8.0. 
* gnu/packages/cran.scm (r-tarchetypes): Update to 0.8.0.

Change-Id: I934c092307515bb316c0265bc9145ec9b6a15e4d
 2024-03-19 14:43:25 +01:00
Ricardo Wurmus
6aae048cd6
gnu: r-wrs2: Update to 1.1-6. 
* gnu/packages/cran.scm (r-wrs2): Update to 1.1-6.

Change-Id: If0f280067722cddf1dd3024076a4e19faeea652b
 2024-03-19 14:43:24 +01:00
Ricardo Wurmus
1554d2154f
gnu: r-insight: Update to 0.19.9. 
* gnu/packages/cran.scm (r-insight): Update to 0.19.9.

Change-Id: I1f48e61ac918c1b60f3962a79793994fc7de6243
 2024-03-19 14:43:24 +01:00
Ricardo Wurmus
471686e07c
gnu: r-ggsci: Update to 3.0.2. 
* gnu/packages/cran.scm (r-ggsci): Update to 3.0.2.

Change-Id: I0b241d7bf9dd12c14a687e8a9132db1ac7bb71a9
 2024-03-19 14:43:24 +01:00
Ricardo Wurmus
c0649e8d3f
gnu: r-nestedcv: Update to 0.7.8. 
* gnu/packages/cran.scm (r-nestedcv): Update to 0.7.8.
[propagated-inputs]: Remove r-magrittr; add r-rocr.

Change-Id: Icf9c947cea5e88395eb036bb2ea12004e49141bf
 2024-03-19 14:43:24 +01:00
Ricardo Wurmus
3deab18d67
gnu: r-tinytex: Update to 0.50. 
* gnu/packages/cran.scm (r-tinytex): Update to 0.50.

Change-Id: Icfeb215ccd37ad816719639f925cde545196bbde
 2024-03-19 14:43:24 +01:00
Ricardo Wurmus
46b6eaa664
gnu: r-processx: Update to 3.8.4. 
* gnu/packages/cran.scm (r-processx): Update to 3.8.4.

Change-Id: Ie11b9d8a99df3e316b61a74f9bd12cbb0ab7dbb3
 2024-03-19 14:43:24 +01:00