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Author SHA1 Message Date
Sharlatan Hellseher
f59f85bdeb
gnu: go-github-com-blang-semver: Fix indentation. 
* gnu/packages/golang-xyz.scm (go-github-com-blang-semver): Fix
indentation.

Change-Id: I9b5e792f2ef859ad7a9d799ba1e369f96e53294b
 2024-03-15 23:33:12 +00:00
Sharlatan Hellseher
74cab6cd03
gnu: go-github-com-blang-semver: Update to 3.8.0. 
* gnu/packages/golang-xyz.scm (go-github-com-blang-semver): Update to 3.8.0.

Change-Id: I5f1eec936236e4f8984d6aabbab9a9ce99e291a3
 2024-03-15 23:33:12 +00:00
Ilya Chernyshov
868e21bb76
gnu: guile-scheme-json-rpc: Update to 0.4.5a. 
Shift some inputs requiring during runtime.

* gnu/packages/guile-xyz.scm (guile-scheme-json-rpc): Update to 0.4.5a.
[inputs]: Remove guile-srfi-145 and guile-srfi-180.
[propagated-inputs]: Add guile-srfi-145 and guile-srfi-180.

Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Change-Id: If1c6ffaf6269c36ec857fd6f0aec444869468d24
 2024-03-15 23:24:56 +00:00
Ricardo Wurmus
10345d2f63
gnu: r-clusterprofiler: Update to 4.10.1. 
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 4.10.1.

Change-Id: I05b41c27d1e1ac8b2887845df5a4a75d45513929
 2024-03-15 23:54:35 +01:00
Ricardo Wurmus
48e458e662
gnu: r-zlibbioc: Update to 1.48.2. 
* gnu/packages/bioconductor.scm (r-zlibbioc): Update to 1.48.2.
[native-inputs]: Add r-knitr.

Change-Id: Iee1c599473d30532660eb3770cf471ff979530dd
 2024-03-15 23:54:35 +01:00
Ricardo Wurmus
b11f7c18bd
gnu: r-stringdb: Update to 2.14.3. 
* gnu/packages/bioconductor.scm (r-stringdb): Update to 2.14.3.
[propagated-inputs]: Remove r-rcurl; add r-httr.

Change-Id: Id46873bee69cdd1047002db3505ff5420097e9e9
 2024-03-15 23:54:35 +01:00
Ricardo Wurmus
74066baa0b
gnu: r-gsva: Update to 1.50.1. 
* gnu/packages/bioconductor.scm (r-gsva): Update to 1.50.1.

Change-Id: Ib298992cb9ea4615fe3888e799c332e778a7b5be
 2024-03-15 23:54:35 +01:00
Ricardo Wurmus
7416d0f273
gnu: r-genomicfeatures: Update to 1.54.4. 
* gnu/packages/bioconductor.scm (r-genomicfeatures): Update to 1.54.4.
[propagated-inputs]: Remove r-rcurl; add r-httr and r-rjson.

Change-Id: Iaed5177d04bc1c292dfad607f82401f45cfd02bc
 2024-03-15 23:54:35 +01:00
Ricardo Wurmus
df26e72fd6
gnu: r-genomeinfodb: Update to 1.38.7. 
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.38.7.
[propagated-inputs]: Remove r-rcurl.

Change-Id: Ifc265a49ed946f3548ff279b930a8346c42025a8
 2024-03-15 23:54:35 +01:00
Ricardo Wurmus
b49398487c
gnu: r-deseq2: Update to 1.42.1. 
* gnu/packages/bioconductor.scm (r-deseq2): Update to 1.42.1.

Change-Id: Ida0b7ad662c44b2b12af487bb6aa8364874ce3da
 2024-03-15 23:54:35 +01:00
Ricardo Wurmus
db7d9e6cab
gnu: r-biostrings: Update to 2.70.3. 
* gnu/packages/bioconductor.scm (r-biostrings): Update to 2.70.3.

Change-Id: I4a921a148d9f54be13967ed0e3092353a683f20f
 2024-03-15 23:54:35 +01:00
Ricardo Wurmus
f97a8a8650
gnu: r-coregx: Update to 2.6.1. 
* gnu/packages/bioconductor.scm (r-coregx): Update to 2.6.1.

Change-Id: Icb0eb5a7697811f4272cda3d42d3c428bb59bd23
 2024-03-15 23:54:35 +01:00
Ricardo Wurmus
900ad49572
gnu: r-asics: Update to 2.18.1. 
* gnu/packages/bioconductor.scm (r-asics): Update to 2.18.1.

Change-Id: I760771fd8fe57984ae1d0c96b72cb63562a1b43e
 2024-03-15 23:54:35 +01:00
Clément Lassieur
93aefca7ba
gnu: alacritty: Fix loading of libxkbcommon-x11.so. 
* gnu/packages/terminals.scm (alacritty)[arguments]: Handle
libxkbcommon-x11.so in the ‘add-absolute-library-references’ phase.

This fixes this error:

thread 'main' panicked at /tmp/guix-build-alacritty-0.13.1.drv-0/source/guix-vendor/rust-xkbcommon-dl-0.4.1.tar.gz/src/x11.rs:59:28:
Library libxkbcommon-x11.so could not be loaded.
note: run with `RUST_BACKTRACE=1` environment variable to display a backtrace

Change-Id: Ifbf19b4962bc3d9eeba6acdf32ca66b0c662f493
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2024-03-15 10:32:03 +02:00
Sharlatan Hellseher
646810ab6a
gnu: python-pycurl: Disable one failing test. 
* gnu/packages/python-web.com (python-pycurl) [arguments]
<#:test-flags>: Disable one more failing test which occurs on CI with
CPU thread count more than 16.

Change-Id: Ie772a7f096357b541cc8baa2349a524f05500e52
 2024-03-15 07:48:08 +00:00
Leo Famulari
e1e6116e05
Revert "gnu: linux-libre-documentation: Fix compilation." 
This bug was fixed upstream in 6.7.6.

This reverts commit b6f82b9ef1a3d51a39995598eab9f793656e9123.

Change-Id: Ia756a62b29ad1f342b0e7430a0cb88cc140974eb
 2024-03-15 01:41:23 -04:00
Leo Famulari
f28802a813
gnu: linux-libre 4.19: Update to 4.19.309. 
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.309.
(linux-libre-4.19-pristine-source): Update hash.

Change-Id: If579a8179ded35cb4269e733bd96ee6f7c5d5360
 2024-03-15 01:41:23 -04:00
Leo Famulari
557fc25caa
gnu: linux-libre 5.4: Update to 5.4.271. 
* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.271.
(linux-libre-5.4-pristine-source): Update hash.

Change-Id: Iaf7277f1f4ec3f106b8f0b82aef5a8be953972bd
 2024-03-15 01:41:22 -04:00
Leo Famulari
65d12a4a97
gnu: linux-libre 5.10: Update to 5.10.212. 
* gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.212.
(linux-libre-5.10-pristine-source): Update hash.

Change-Id: I620729ec22cd67bbe22dc808ba6b4d74d2c0479d
 2024-03-15 01:41:22 -04:00
Leo Famulari
cc2b28975b
gnu: linux-libre 5.15: Update to 5.15.151. 
* gnu/packages/linux.scm (linux-libre-5.15-version): Update to 5.15.151.
(linux-libre-5.15-pristine-source): Update hash.

Change-Id: I83ddffad4f1ce05723faa5d243e8345b21e39edb
 2024-03-15 01:41:22 -04:00
Leo Famulari
c6d2fa1139
gnu: linux-libre 6.1: Update to 6.1.81. 
* gnu/packages/linux.scm (linux-libre-6.1-version): Update to 6.1.81.
(linux-libre-6.1-pristine-source, deblob-scripts-6.1): Update hashes.

Change-Id: Iaec9f01a190d67bcab490c318456241ea8eabf22
 2024-03-15 01:41:22 -04:00
Leo Famulari
1e568b2ed3
gnu: linux-libre 6.6: Update to 6.6.21. 
* gnu/packages/linux.scm (linux-libre-6.6-version): Update to 6.6.21.
(linux-libre-6.6-pristine-source): Update hash.

Change-Id: Ic2f197add55f89196010c32957e10d3683cb8c01
 2024-03-15 01:41:21 -04:00
Leo Famulari
019fb14b1e
gnu: linux-libre: Update to 6.7.9. 
* gnu/packages/linux.scm (linux-libre-6.7-version): Update to 6.7.9.
(linux-libre-6.7-pristine-source): Update hash.

Change-Id: I9d3e3907623b17f1a47b78ea00e9b7a5cf428ff6
 2024-03-15 01:41:21 -04:00
Sharlatan Hellseher
a862a99bb3
gnu: python-pycurl: Enable tests. 
* gnu/packages/python-web.scm (python-pycurl): Enable most of the tests.
[build-system]: Swap to pyproject-build-system.
[arguments] <#:tests?>: Enable them.
<#:test-arguments>: Disable some failing and hanging tests.
[native-inputs]: Add python-flaky, python-pytest, and
python-pytest-xdist.

Change-Id: Ie222aa1111720f2e39b950b79d9e707401be7e8f
 2024-03-14 23:29:02 +00:00
Sharlatan Hellseher
2187ac84d0
gnu: packages: python-web: Sort use-modules alphabetically. 
* gnu/packages/python-web.scm: Sort #:use-module alphabetically to ease
maintenance.

Change-Id: Id01b66ff7eaf610895c1275c2abfd9de2e537d8e
 2024-03-14 23:28:52 +00:00
Troy Figiel
e22175655d
gnu: Add python-zodb. 
* gnu/packages/python-web.scm (python-zodb): New variable.

Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2024-03-14 22:49:59 +00:00
Troy Figiel
36da1ad73d
gnu: Add python-zodbpickle. 
* gnu/packages/python-web.scm (python-zodbpickle): New variable.

Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2024-03-14 22:49:51 +00:00
Troy Figiel
fb377b4af7
gnu: Add python-zconfig. 
* gnu/packages/python-web.scm (python-zconfig): New variable.

Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2024-03-14 22:22:45 +00:00
Ricardo Wurmus
efe62c5ed3
gnu: Add morpheus. 
* gnu/packages/bioinformatics.scm (morpheus): New variable.

Co-authored-by: Navid Afkhami <navid.afkhami@mdc-berlin.de>
Change-Id: I4bf14414f497ff17690b1d26420d442d236fd6b5
 2024-03-14 21:01:37 +01:00
Jean-Pierre De Jesus DIAZ
8166d5b81e
gnu: raspi-gpio: Make public. 
As it's unclear why it's not.

* gnu/packages/raspberry-pi.scm (raspi-gpio): Make variable public.

Change-Id: Iaf2789120a726d702d97c3a30a32e3b2cf5da3f1
Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-14 13:42:42 +00:00
Christopher Baines
0e00d2ced1
gnu: combinatorial-blas: Update source hash. 
Diffoscope shows there are changes, but they don't look significant.

* gnu/packages/maths.scm (combinatorial-blas): Update source hash.

Change-Id: I32db6df0ef7c652572b1e874fe22175a4b66af6e
 2024-03-14 13:40:31 +00:00
Greg Hogan
b5bd0d3a7e
gnu: openjdk21: Update to 21.0.2. 
* gnu/packages/java.scm (openjdk21): Update to 21.0.2.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-14 13:27:14 +00:00
Greg Hogan
37073f9dd2
gnu: openjdk20: Update to 20.0.2. 
* gnu/packages/java.scm (openjdk20): Update to 20.0.2.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-14 13:27:13 +00:00
Greg Hogan
289666a09c
gnu: openjdk18: Update to 18.0.2.1. 
* gnu/packages/java.scm (openjdk18): Update to 18.0.2.1.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-14 13:27:13 +00:00
Greg Hogan
b844b81dce
gnu: openjdk17: Update to 17.0.10. 
* gnu/packages/java.scm (openjdk17): Update to 17.0.10.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-14 13:27:13 +00:00
Greg Hogan
62c7f9947e
gnu: openjdk15: Update to 15.0.10. 
* gnu/packages/java.scm (openjdk15): Update to 15.0.10.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-14 13:27:13 +00:00
Greg Hogan
6d96d7c4e7
gnu: openjdk13: Update to 13.0.14. 
* gnu/packages/java.scm (openjdk13): Update to 13.0.14.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-14 13:27:13 +00:00
Greg Hogan
d200159b8e
gnu: openjdk12: Update source hash. 
* gnu/packages/java.scm (openjdk12): Update source hash.

Signed-off-by: Christopher Baines <mail@cbaines.net>
Change-Id: I03cbaf3fc21c045c67cd89bb37e232716b03bb30
 2024-03-14 13:26:44 +00:00
Greg Hogan
59bd15a7c6
gnu: openjdk11: Update to 11.0.22. 
* gnu/packages/java.scm (openjdk11): Update to 11.0.22.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-14 13:26:30 +00:00
cage
dc4842797b
gnu: tinmop: Update to 0.9.9.141421356. 
* gnu/packages/web-browsers.scm (tinmop): Update to 0.9.9.141421356.

Change-Id: Ibf43c33b2581a78d5a4050493049db73f77c896b
Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2024-03-14 11:09:03 +01:00
cage
6e4b1b450c
gnu: cl-croatoan: Update to 0.2-1.282145f. 
* gnu/packages/lisp-xyz.scm (sbcl-croatoan): Update to 0.2-1.282145f.

Change-Id: I8a7e93e9f0dabfa42e35845e610dd5bd2b63cec9
Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2024-03-14 11:04:18 +01:00
Andrew Tropin
507315643e
gnu: emacs-arei: Update to 0.9.3. 
* gnu/packages/emacs-xyz.scm (emacs-arei): Update to 0.9.3.

Change-Id: I4cbdc4d5b65038c34912575a4f106993972c2a6f
 2024-03-14 11:30:45 +03:00
Andrew Tropin
bed706f1ff
gnu: guile-ares-rs: Update to 0.9.3. 
* gnu/packages/guile-xyz.scm (guile-ares-rs): Update to 0.9.3.

Change-Id: Iabe57fcb4f1947eb0908109333e4432b8e554cfe
 2024-03-14 11:30:44 +03:00
Nicolas Goaziou
76a3414a1b
gnu: emacs-hyperbole: Update to 9.0.1. 
Fixes <https://issues.guix.gnu.org/69776>.

* gnu/packages/emacs-xyz.scm (emacs-hyperbole): Update to 9.0.1.
[arguments]<#:include>: Add HY-NEWS.

Change-Id: I9d8c4be3d1a1af30f69ac87cf5d0f1db29d5d935
 2024-03-13 21:47:22 +01:00
Efraim Flashner
cee74f3725
gnu: rust: Make all intermediate packages public. 
* gnu/packages/rust.scm (rust-1.74, rust-1.75): Make package public.

Change-Id: Id45d6e8c6e6c42811d4cbc3ab50c61045a7c9090
 2024-03-13 21:14:46 +02:00
Efraim Flashner
4e26331a5e
gnu: llvm-17: Fix building on riscv64-linux. 
* gnu/packages/llvm.scm (%llvm-patches): Add a patch for 17.0.6.
* gnu/packages/patches/clang-17.0-link-dsymutil-latomic.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.

Change-Id: I9dfd23d2f0fb10620c4aa73a6480151d6e6daa9a
 2024-03-13 17:36:37 +02:00
cage
7b5c030684
gnu: cl-nodgui: Update to 0.6.0.2. 
* gnu/packages/lisp-xyz.scm (sbcl-nodgui): Update to 0.6.0.2.
[inputs]: Add sbcl-cl-opengl, sbcl-sdl2 and sbcl-zpng.

Change-Id: I6fc569d4a32b1f8fc256ae17de186145caa2ac30
Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-13 12:59:42 +00:00
Tomas Volf
ca66f63600
gnu: cni-plugins: Update to 1.4.1. 
* gnu/packages/containers.scm (cni-plugins): Update to 1.4.1.

Change-Id: I770504d4f3cf2c74cb14ce8ea37055742529db94
Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-13 12:59:42 +00:00
Andy Tai
a68288c7d0
gnu: slib: Update to 3c1. 
* gnu/packages/scheme.scm (slib): Update to 3c1.

Change-Id: Ic887b7600173f96bd2ca74c9adadf42780a18ce6
Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-13 12:59:42 +00:00
terramorpha
a00341c9e6
gnu: zig-zls: Update to 0.10.0. 
* gnu/packages/zig-xyz.scm (zig-zls): Update to 0.10.0.
[build-system]: Switch to the zig-build-system.
[inputs]: Switch to zig-0.10.
[arguments]: Remove #:phases and skip tests.

Change-Id: Ie062067854ba1087b0394128c66e060df3ef5abf
Signed-off-by: Christopher Baines <mail@cbaines.net>
 2024-03-13 12:59:42 +00:00