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Author SHA1 Message Date
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
Ricardo Wurmus b92c230185
gnu: r-coro: Update to 1.0.4. 
* gnu/packages/cran.scm (r-coro): Update to 1.0.4.

Change-Id: I42900489764208510b0f80c910954c6b5214d51d
 2024-03-19 14:43:23 +01:00
Ricardo Wurmus 6b1b84d482
gnu: r-psych: Update to 2.4.3. 
* gnu/packages/cran.scm (r-psych): Update to 2.4.3.

Change-Id: Ib7e464f2e2ec9a6d6eb5768e9ac8160f403777df
 2024-03-19 14:43:23 +01:00
Ricardo Wurmus 57d336ca1f
gnu: r-pkgbuild: Update to 1.4.4. 
* gnu/packages/cran.scm (r-pkgbuild): Update to 1.4.4.

Change-Id: Ie936c7da08a22bb41dc77a42b05dfccf794af1cb
 2024-03-19 14:43:23 +01:00
Ricardo Wurmus 5e2048a840
gnu: r-sass: Update to 0.4.9. 
* gnu/packages/cran.scm (r-sass): Update to 0.4.9.

Change-Id: I4e2e0d7ea1ba6ded92b254436ac7d401a62c667a
 2024-03-19 14:43:23 +01:00
Ricardo Wurmus d2f5a08a1f
gnu: r-zcompositions: Update to 1.5.0-3. 
* gnu/packages/cran.scm (r-zcompositions): Update to 1.5.0-3.

Change-Id: Ic234af6e5fbcae562107b382a0bfaafaae948bb8
 2024-03-19 14:43:23 +01:00
Ricardo Wurmus 1f1b0ea838
gnu: r-gwasexacthw: Update to 1.2. 
* gnu/packages/cran.scm (r-gwasexacthw): Update to 1.2.

Change-Id: I385f01483d7fdc09d80af927ddba3953f6b0c169
 2024-03-19 14:43:23 +01:00
Ricardo Wurmus ed30db3349
gnu: r-igraph: Update to 2.0.3. 
* gnu/packages/cran.scm (r-igraph): Update to 2.0.3.
[inputs]: Remove gmp.

Change-Id: If54bcfc50b631a81b25a25829ab4aa3fcfd2ed29
 2024-03-19 14:40:48 +01:00
Ricardo Wurmus f3958db4ad
gnu: snakemake-5: Use G-expression. 
* gnu/packages/python-xyz.scm (snakemake-5)[arguments]: Use #$output instead
of referencing "out" in outputs.

Change-Id: Ie3d6d5788c4db4060e26079cb81441f5bc6f08e8
 2024-03-19 14:39:21 +01:00
Ricardo Wurmus 8b8e7971ba
gnu: r-arrow: Update to 15.0.1. 
* gnu/packages/cran.scm (r-arrow): Update to 15.0.1.

Change-Id: If22201b2e8f15bb13fdb9dc3d03b95cb4a437e78
 2024-03-19 14:38:27 +01:00
Ricardo Wurmus 9ffed4af70
gnu: apache-arrow: Update to 15.0.1. 
* gnu/packages/databases.scm (apache-arrow): Update to 15.0.1.

Change-Id: I68b1eca089e7bb2a6d6a034264b99dc6fb2a8851
 2024-03-19 14:38:14 +01:00
Ricardo Wurmus 5bef5f4c7c
gnu: r-dyngen: Move to (gnu packages cran). 
* gnu/packages/bioinformatics.scm (r-dyngen): Move variable from here...
* gnu/packages/cran.scm (r-dyngen): ...to here.

Change-Id: Id181200fb4cbf268542d93e79e43fdeffa99410d
 2024-03-19 14:33:24 +01:00
Ricardo Wurmus 16855a1c9e
gnu: r-tictoc: Update to 1.2.1. 
* gnu/packages/bioinformatics.scm (r-tictoc): Move variable from here...
* gnu/packages/cran.scm (r-tictoc): ...to here; update to 1.2.1.

Change-Id: I3fc9dde3928a6c5cbe0e25eba8ec001c16e2b66f
 2024-03-19 14:30:40 +01:00
Ricardo Wurmus df1cfbe439
gnu: r-genomeinfodb: Update to 1.38.8. 
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.38.8.
[propagated-inputs]: Add r-rcurl.

Change-Id: Icd046f9d32486d1ec104d5e564177382616b7290
 2024-03-19 14:23:16 +01:00
宋文武 83c5e7169d
gnu: xfce4-cpugraph-plugin: Update to 1.2.10. 
* gnu/packages/xfce.scm (xfce4-cpugraph-plugin): Update to 1.2.10.

Change-Id: I1c68847916b4075c24baa80578ff2f5b167a9bd3
 2024-03-19 19:11:09 +08:00
宋文武 068d998432
gnu: xfce4-weather-plugin: Update to 0.11.2. 
* gnu/packages/xfce.scm (xfce4-weather-plugin): Update to 0.11.2.
[inputs]: Add json-c.

Change-Id: I45f70797ac7c3d29abae69afc65e6c37c5c434b7
 2024-03-19 19:11:09 +08:00
宋文武 dd288551c2
gnu: xfce4-genmon-plugin: Update to 4.2.0. 
* gnu/packages/xfce.scm (xfce4-genmon-plugin): Update to 4.2.0.

Change-Id: Iec9dd94ac046cd944861483726f95efd008750d4
 2024-03-19 19:11:09 +08:00