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Author SHA1 Message Date
Ricardo Wurmus
5fc145ea35
gnu: r-boot: Update to 1.3-31. 
* gnu/packages/statistics.scm (r-boot): Update to 1.3-31.

Change-Id: I3c5dfecf461dd98ee7114de32d190db5743a6dab
 2024-09-06 23:53:48 +02:00
Ricardo Wurmus
3279fd63fd
gnu: r-scatterpie: Update to 0.2.4. 
* gnu/packages/cran.scm (r-scatterpie): Update to 0.2.4.
[propagated-inputs]: Add r-yulab-utils.

Change-Id: I5a2da6278bb0331dcf6383fe4d2db76c3d28332b
 2024-09-06 23:53:48 +02:00
Ricardo Wurmus
def97ed135
gnu: r-sem: Update to 3.1-16. 
* gnu/packages/cran.scm (r-sem): Update to 3.1-16.

Change-Id: I184006d0e93be4a114f0e0850e75c081449c461c
 2024-09-06 23:53:48 +02:00
Ricardo Wurmus
3ceaddc743
gnu: r-harmony: Update to 1.2.1. 
* gnu/packages/cran.scm (r-harmony): Update to 1.2.1.

Change-Id: I38a0f54024b0eb320869c079e412f7ad92e38d25
 2024-09-06 23:53:48 +02:00
Ricardo Wurmus
5d44a00f4c
gnu: r-ggfun: Update to 0.1.6. 
* gnu/packages/cran.scm (r-ggfun): Update to 0.1.6.
[propagated-inputs]: Add r-yulab-utils.

Change-Id: I33cbd8ce47b73e605ed4d6f5febd89796344dc82
 2024-09-06 23:53:48 +02:00
Ricardo Wurmus
c2370a66b9
gnu: r-nonnest2: Update to 0.5-8. 
* gnu/packages/cran.scm (r-nonnest2): Update to 0.5-8.

Change-Id: I31b07b93ea946f25c32126b9b1c987d9bf053f3b
 2024-09-06 23:53:48 +02:00
Ricardo Wurmus
91d1263b0a
gnu: r-circular: Update to 0.5-1. 
* gnu/packages/cran.scm (r-circular): Update to 0.5-1.

Change-Id: I0a33b5667eb155a7af0dae9d0c691e4ab97b5b2a
 2024-09-06 23:53:48 +02:00
Ricardo Wurmus
bfdf94748f
gnu: r-biocmanager: Update to 1.30.25. 
* gnu/packages/cran.scm (r-biocmanager): Update to 1.30.25.

Change-Id: I9565f981692c6a4932680e96f016dc9954cb9f60
 2024-09-06 23:53:48 +02:00
Ricardo Wurmus
05b194899e
gnu: r-afex: Update to 1.4-1. 
* gnu/packages/cran.scm (r-afex): Update to 1.4-1.

Change-Id: I2263d83ea2d43c6ce2632b8637394b7d63c32af2
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
af0f729823
gnu: r-ggeffects: Update to 1.7.1. 
* gnu/packages/cran.scm (r-ggeffects): Update to 1.7.1.

Change-Id: Ia9fdfd5ac287d9c85ea7b1303e176cb62670a0b2
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
c371fccfff
gnu: r-slam: Update to 0.1-53. 
* gnu/packages/cran.scm (r-slam): Update to 0.1-53.

Change-Id: Ifacc47e340dc4c7c5cc00705e661e0ad7d59ed82
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
ee67626d51
gnu: r-golem: Update to 0.5.1. 
* gnu/packages/cran.scm (r-golem): Update to 0.5.1.

Change-Id: I4dbe75ad60b944b9f620e38e78ebecd4f055da0b
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
b5c6fd5878
gnu: r-insight: Update to 0.20.4. 
* gnu/packages/cran.scm (r-insight): Update to 0.20.4.

Change-Id: I17b052a82b76c7c0e98d7a1a2c88dbeaf841c93e
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
db0649de27
gnu: r-openxlsx: Update to 4.2.7. 
* gnu/packages/cran.scm (r-openxlsx): Update to 4.2.7.

Change-Id: I8e02c793104ab017e80faf41fa043ac37d53eaf1
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
b01480a866
gnu: r-ctrdata: Update to 1.19.2. 
* gnu/packages/cran.scm (r-ctrdata): Update to 1.19.2.

Change-Id: Ib73a643b49c5ef774622bc50b294cc364a53ffe8
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
1d6d048df9
gnu: r-servr: Update to 0.31. 
* gnu/packages/cran.scm (r-servr): Update to 0.31.

Change-Id: Ia91b99deb3ca1d3e4a032017aa5d141a54e803d5
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
603397e0dc
gnu: r-vegan: Update to 2.6-8. 
* gnu/packages/cran.scm (r-vegan): Update to 2.6-8.

Change-Id: Ibcc5edca0109d1abb0c91797c839b9ad38f9f827
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
4b48e54331
gnu: r-climaemet: Update to 1.4.0. 
* gnu/packages/cran.scm (r-climaemet): Update to 1.4.0.
[propagated-inputs]: Add r-xml2.

Change-Id: I8a1250894c6daad16f113ec67e5a22543c35d395
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
0a62e33064
gnu: r-broom-helpers: Update to 1.17.0. 
* gnu/packages/cran.scm (r-broom-helpers): Update to 1.17.0.
[propagated-inputs]: Add r-cards.

Change-Id: I11f08aa6500d9d88dc32ce49d72939078c4596cf
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
d6acde89b0
gnu: r-valr: Update to 0.8.2. 
* gnu/packages/bioconductor.scm (r-valr): Update to 0.8.2.

Change-Id: Ief21d6bdf38193d996df513e16ae74350e8ff92c
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
7b6c2deac7
gnu: r-archivist: Update to 2.3.8. 
* gnu/packages/cran.scm (r-archivist): Update to 2.3.8.
[native-inputs]: Remove r-knitr.

Change-Id: I826db8b923c7954aafab2bb922ca814e6b718373
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
f46da63454
gnu: r-geometry: Update to 0.5.0. 
* gnu/packages/cran.scm (r-geometry): Update to 0.5.0.

Change-Id: I8097c44562c17e5892e55529894664ef9f1ea221
 2024-09-06 23:53:47 +02:00
Ricardo Wurmus
ab2f80e6cd
gnu: Add r-cards. 
* gnu/packages/cran.scm (r-cards): New variable.

Change-Id: I17c61d254407574610f78cb4afd21d8829632922
 2024-09-06 23:53:47 +02:00
Vagrant Cascadian
18d02443e1
gnu: lcsync: Update to 0.3.1. 
* gnu/packages/networking.scm (lcsync): Update to 0.3.1.
 2024-09-06 14:04:37 -07:00
Vagrant Cascadian
4e60d5dfb4
gnu: lcrq: Add compiler optimizations. 
* gnu/packages/networking.scm (lcrq)[arguments]: Pass compiler optimizations
to configure. [phases]: Add 'speedtest phase.
 2024-09-06 14:04:27 -07:00
Vagrant Cascadian
695eb1e41c
gnu: lcrq: Update to 0.2.1. 
* gnu/packages/networking.scm (lcrq): Update to 0.2.1.
 2024-09-06 14:04:17 -07:00
David Thompson
8485eb6e96
gnu: guile-hoot: Update to 0.5.0. 
* gnu/packages/guile-xyz.scm (guile-hoot): Update to 0.5.0.

Change-Id: I6f205218eb9b2044378ebbda736407a3a85035b1
 2024-09-06 14:09:10 -04:00
jgart
0cadadad3b
gnu: trealla: Update to 2.55.35. 
* gnu/packages/prolog.scm (trealla): Update to 2.55.35.

Change-Id: Ibdc23c3f443d55a4e2f8c256531b64a97fc42c2f
 2024-09-06 12:53:19 -05:00
jgart
2cc5c836c5
gnu: trealla: Update to 2.55.34. 
* gnu/packages/prolog.scm (trealla): Update to 2.55.34.

Change-Id: Ida254b8f5877291cbcf8ac6ccb5e45a2f6d79a7f
 2024-09-06 12:53:18 -05:00
Andreas Enge
904631033e
Add file to core-packages team. 
* etc/teams.scm (core-packages): Add multiprecision.scm, which contains
inputs for gcc.

Change-Id: I36bf34450942c55529a471838fcfca29ceb9ae45
 2024-09-06 18:41:34 +02:00
Andreas Enge
997eabecc0
Add myself to teams. 
* etc/teams.scm: Add teams to myself.

Change-Id: I4d8c5bc5144cdd094063960c079527628ace4bbc
 2024-09-06 18:41:31 +02:00
Zheng Junjie
643e7ecbe6
gnu: kmime: Disable testFancyFormat test. 
Fixes <issues.guix.gnu.org/73067>

* gnu/packages/kde-pim.scm (kmime)[arguments]: Disable testFancyFormat test.

Change-Id: Id1b459832a6a0b2d7636855774a1ffaadb1aacba
 2024-09-07 00:31:49 +08:00
Zheng Junjie
2c8e2933f4
gnu: qcoro-qt6: Adjust synopsis. 
* gnu/packages/qt.scm (qcoro-qt6)[synopsis]: Adjust it.

Change-Id: Iecd9edbacca5805a54bcaf84bcec205367b96a05
Signed-off-by: Zheng Junjie <zhengjunjie@iscas.ac.cn>
 2024-09-06 22:47:21 +08:00
Doğan Çeçen
4d19bacc8e
gnu: qcoro-qt: Build with -fPIC 
* gnu/packages/qt.scm (qcoro-qt5, qcoro-qt6)[arguments]: Adjust
  configure-flags to add -fPIC to CMAKE_CXX_FLAGS.

Change-Id: I5ed2ee18cec120b282863ce6a5f6b6b149059515
Signed-off-by: Zheng Junjie <zhengjunjie@iscas.ac.cn>
 2024-09-06 22:47:21 +08:00
Roman Scherer
e308bbe0bf
gnu: kwin: Disable failing test on aarch64. 
* gnu/packages/kde-plasma.scm (kwin)[arguments]: Disable failing test on
aarch64.

Change-Id: Iecd9edbacca5805a54bcaf84bcec205367b96a05
Signed-off-by: Zheng Junjie <zhengjunjie@iscas.ac.cn>
 2024-09-06 22:47:21 +08:00
Andy Tai
444b4bbcc5
gnu: nano: Update to 8.2. 
* gnu/packages/text-editors.scm (nano): Update to 8.2.

Change-Id: I72d3ead40cc5cabf52931567195d6bafd3e86d6e
Signed-off-by: Zheng Junjie <zhengjunjie@iscas.ac.cn>
 2024-09-06 22:47:21 +08:00
Zheng Junjie
776334bfdb
gnu: flatpak: Update to 1.14.10 [security fixes]. 
Fixes CVE-2024-42472.
Fixes <https://issues.guix.gnu.org/73059>.

* gnu/packages/package-management.scm (flatpak): Update to 1.14.10.
* gnu/packages/patches/flatpak-unset-gdk-pixbuf-for-sandbox.patch: Adjust it.

Change-Id: Ia0bd866ee46e8b0cd24d37d14df61cdc22692d4e
 2024-09-06 22:47:21 +08:00
Zheng Junjie
fc20559209
gnu: bubblewrap: Update to 0.10.0. 
* gnu/packages/virtualization.scm (bubblewrap): Update to 0.10.0.
[source]: Switch to git-fetch.
[build-system]: Switch to meson-build-system.
[native-inputs]: Add pkg-config.
[arguments]: Use G-expressions, Remove trailing #t.

Change-Id: Id1b459832a6a0b2d7636855774a1ffaadb1aacba
 2024-09-06 22:47:17 +08:00
Nicolas Goaziou
d4fbd1ab34
gnu: xournalpp: Show icons. 
Fixes: <https://issues.guix.gnu.org/51968>

* gnu/packages/pdf.scm (xournalpp)[arguments]: Add phase to wrap
GDK_PIXBUF_MODULE_FILE.
[inputs]: Add ADWAITA-ICON-THEME.

Change-Id: Ie0e20249462c66f974b2fe1e3156d5fc9cb01b62
 2024-09-06 12:02:08 +02:00
Maxime Devos
c1283e2039
activation: Fix TOCTTOU in mkdir-p/perms. 
Fixes <https://issues.guix.gnu.org/47584>.

I removed the 'Based upon mkdir-p from (guix build utils)'
comment because it's quite a bit different now.

* gnu/build/activation.scm (verify-not-symbolic): Delete.
(mkdir-p/perms): Rewrite in terms of 'openat'.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
Change-Id: Id2f5bcbb903283afd45f6109190210d02eb383c7
 2024-09-06 11:46:26 +02:00
David Elsing
571c605f17
gnu: python-pytorch-lightning: Update to commit 2064887. 
* gnu/packages/machine-learning.scm (python-pytorch-lightning): Update to
commit 2064887.
[source]: Update URL.
[arguments]<#:tests-flags>: Skip additional failing tests.
<#:phases>: Adjust 'patch-version-detection' phase.
 2024-09-06 11:46:26 +02:00
David Elsing
77f59d1458
gnu: python-torchmetrics: Update to 1.4.1. 
* gnu/packages/machine-learning.scm (python-torchmetrics): Update to 1.4.1.
[source]: Switch to GitHub repository.
[arguments]: New field.
[propagated-inputs]: Add python-lightning-utilities.
[home-page]: Update URL.
 2024-09-06 11:46:26 +02:00
David Elsing
e4b99a7918
gnu: python-lightning-utilities: Update to 0.11.6. 
* gnu/packages/machine-learning.scm (python-lightning-utilities): Update to
0.11.6.
[source] Adjust URI.
[build-system]: Move to pyproject-build-system.
 2024-09-06 11:46:25 +02:00
David Elsing
a9e4ce6a58
gnu: python-torchvision: Update to 0.19.0. 
* gnu/packages/machine-learning.scm (python-torchvision): Update to 0.19.0.
[arguments]: Add 'setenv' phase for finding libjpeg-turbo.
[inputs]: Add ffmpeg.
 2024-09-06 11:46:25 +02:00
David Elsing
b44b2e346c
gnu: python-pytorch: Update to 2.4.0. 
This also updates the qnnpack-pytorch package.

* gnu/packages/machine-learning.scm (%python-pytorch-version): Set to 2.4.0.
(%python-pytorch-src): Adjust hash accordingly.
[source]: Remove obsolete file deletions in snippet.
(python-pytorch)[arguments]<#:phases>: Disable telemetry and set Python
install directory.  Remove obsolete USE_FFMPEG, USE_OPENCV and
USE_PYTORCH_QNNPACK environment variables.
[native-inputs]: Remove python-typing-extensions.
[inputs]: Add brotli, cpp-httplib and zlib.  Remove qnnpack.  Use oneapi-dnnl,
qnnpack-pytorch and xnnpack for all systems.
[propagated-inputs]: Add onnx and python-typing-extensions.  Use cpuinfo for
all systems.
[supported-systems]: New field.
(python-pytorch-for-r-torch)[inputs]: Add qnnpack.
* gnu/packages/patches/python-pytorch-fix-codegen.patch: Adjust patch.
* gnu/packages/patches/python-pytorch-runpath.patch: Adjust patch.
* gnu/packages/patches/python-pytorch-system-libraries.patch: Adjust patch.
* gnu/packages/patches/python-pytorch-without-kineto.patch: Adjust patch.
 2024-09-06 11:46:25 +02:00
David Elsing
87fd4d217c
gnu: cpp-httplib: Update to 0.16.0. 
* gnu/packages/cpp.scm (cpp-httplib): Update to 0.16.0.
 2024-09-06 11:46:25 +02:00
David Elsing
21bacce230
gnu: gloo: Update to commit 81925d1. 
* gnu/packages/machine-learning.scm (gloo): Update to commit 81925d1.
[arguments]: Add -DCMAKE_CXX_STANDARD=17 to #:configure-flags.
[supported-systems]: New field.
 2024-09-06 11:46:25 +02:00
David Elsing
73302e3cae
gnu: onnx-optimizer: Update to 0.3.19. 
* gnu/packages/machine-learning.scm (onnx-optimizer): Update to 0.3.19.
* gnu/packages/patches/onnx-optimizer-system-library.patch: Adjust patch.

Co-authored-by: Andy Tai <atai@atai.org>
 2024-09-06 11:46:25 +02:00
David Elsing
595cc594b6
gnu: onnx: Update to 1.16.2. 
* gnu/packages/machine-learning.scm (onnx): Update to 1.16.2.
[source]: Remove patch.
[build-system]: Move to pyproject-build-system.
[arguments]<#:tests?>: Disable for systems where python-nbval is not
supported.
<#:phases>: Remove 'relax-requirements' phase.  Pass "-DONNX_BUILD_TESTS" to
CMake depending on tests?.
[native-inputs]: Add python-fb-re2 and python-parameterized-next.  Remove
python-nbval on unsupported systems.
* gnu/packages/patches/onnx-shared-libraries.patch: Adjust patch.
* gnu/packages/patches/onnx-skip-model-downloads.patch: Adjust patch.
* gnu/packages/patches/onnx-use-system-googletest.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Remove it.

Co-authored-by: Andy Tai <atai@atai.org>
 2024-09-06 11:46:25 +02:00
David Elsing
852c75a125
gnu: Remove onnx-for-torch2. 
* gnu/packages/machine-learning.scm (onnx-for-torch2): Delete variable.
 2024-09-06 11:46:25 +02:00