Commit Graph

70442 Commits

Author SHA1 Message Date
Nicolas Goaziou
c0796540de
gnu: rust-reqwest-0.11: Update to 0.11.3.
* gnu/packages/crates-io.scm (rust-reqwest-0.11): Update to 0.11.3.
2021-06-03 14:24:33 +02:00
Nicolas Goaziou
c695df8c5f
gnu: rust-sha2-0.9: Update to 0.9.5.
* gnu/packages/crates-io.scm (rust-sha2-0.9): Update to 0.9.5.
2021-06-03 14:24:33 +02:00
Nicolas Goaziou
adc7fc093e
gnu: Add rust-cpufeatures-0.1.
* gnu/packages/crates-io.scm (rust-cpufeatures-0.1): New variable.
2021-06-03 14:24:32 +02:00
Nicolas Goaziou
558db7b6e5
gnu: Add rust-sha2-asm-0.6.
* gnu/packages/crates-io.scm (rust-sha2-asm-0.6): New variable.
(rust-sha2-asm-0.5): Inherit from above.
2021-06-03 14:24:32 +02:00
Nicolas Goaziou
11d84f4b7f
gnu: rust-url-2: Update to 2.2.2.
* gnu/packages/crates-io.scm (rust-url-2): Update to 2.2.2.
2021-06-03 14:24:32 +02:00
Nicolas Goaziou
e4283e03a3
gnu: rust-assert-cmd-1: Update to 1.0.4.
* gnu/packages/crates-io.scm (rust-assert-cmd-1): Update to 1.0.4.
2021-06-03 14:24:31 +02:00
Ludovic Courtès
fe509e017f
machine: ssh: Respect calling convention for monadic procedures.
Fixes a regression introduced in
2885c3568e.

Reported by Mathieu Othacehe.

* gnu/machine/ssh.scm (deploy-managed-host)[eval/error-handling]: Return
two values in the standard case.
2021-06-03 13:04:20 +02:00
Ricardo Wurmus
0928e55266
gnu: Add fit-sne.
* gnu/packages/bioinformatics.scm (fit-sne): New variable.
2021-06-03 12:22:29 +02:00
Lars-Dominik Braun
13b737f132
gnu: r-with-tests: Use patched texlive-amsfonts.
See commit 75af43162e.

* gnu/packages/statistics.scm (r-with-tests)[native-inputs]: Replace
texlive-amsfonts with texlive-amsfonts/patched.
2021-06-03 11:18:03 +02:00
Leo Prikler
f6a979860c
gnu: openshot: Use free font.
* gnu/packages/video.scm (openshot)[inputs]: Use font-dejavu.
[patch-font-location]: Adjust accordingly.
2021-06-03 08:49:18 +02:00
Leo Prikler
a923127d30
gnu: Remove font-ubuntu.
The Ubuntu Font License has not been approved by the FSF and is considered
non-free by Debian and Fedora, see <https://bugs.gnu.org/48802>.

* gnu/packages/fonts.scm (font-ubuntu): Removed variable.
2021-06-03 08:29:04 +02:00
Pierre Neidhardt
80a6de6b3a
gnu: Add legit.
* gnu/packages/lisp-xyz.scm (cl-legit, ecl-legit, sbcl-legit): New variables.
2021-06-03 08:23:28 +02:00
Pierre Neidhardt
929b72dd58
gnu: Add simple-inferiors.
* gnu/packages/lisp-xyz.scm (cl-simple-inferiors, ecl-simple-inferiors,
sbcl-simple-inferiors): New variables.
2021-06-03 08:23:28 +02:00
Leo Famulari
9e7d93f675
gnu: curl: Update to 7.77.0 [fixes CVE-2021-{22897,22898,22901}].
* gnu/packages/curl.scm (curl/fixed): Replace with ...
(curl-7.77.0): ... new variable.
(curl)[replacement]: Use curl-7.77.0.
2021-06-02 23:13:16 -04:00
Marius Bakke
6d71f6a73c
gnu: expat: Replace with 2.4.1 [fixes CVE-2013-0340].
* gnu/packages/xml.scm (expat-2.4.1): New variable.
(expat)[replacement]: New field.

Co-authored-by: Leo Famulari <leo@famulari.name>
2021-06-02 17:07:15 -04:00
Xinglu Chen
f32e6e1e2c
gnu: Add emacs-org-pandoc-import.
* gnu/packages/emacs-xyz.scm (emacs-org-pandoc-import): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2021-06-02 21:51:06 +02:00
Diego Nicola Barbato
5be7870a8d
gnu: pioneer: Build with model files.
Fixes <https://bugs.gnu.org/48686>.

* gnu/packages/games.scm (pioneer)[arguments]: Add make-flags for building
with model files.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2021-06-02 21:38:32 +02:00
Ricardo Wurmus
b851f38a2f
gnu: r-robustbase: Update to 0.93-8.
* gnu/packages/statistics.scm (r-robustbase): Update to 0.93-8.
2021-06-02 17:27:10 +02:00
Ricardo Wurmus
02efdd3abf
gnu: r-deoptimr: Update to 1.0-9.
* gnu/packages/statistics.scm (r-deoptimr): Update to 1.0-9.
2021-06-02 17:27:10 +02:00
Ricardo Wurmus
08de5b0689
gnu: r-beeswarm: Update to 0.4.0.
* gnu/packages/statistics.scm (r-beeswarm): Update to 0.4.0.
2021-06-02 17:27:10 +02:00
Ricardo Wurmus
c6be262b78
gnu: r-fastcluster: Update to 1.2.3.
* gnu/packages/statistics.scm (r-fastcluster): Update to 1.2.3.
2021-06-02 17:27:10 +02:00
Ricardo Wurmus
350489b331
gnu: r-matrixstats: Update to 0.59.0.
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.59.0.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
3319e97c40
gnu: r-e1071: Update to 1.7-7.
* gnu/packages/statistics.scm (r-e1071): Update to 1.7-7.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
a3268eb598
gnu: r-rcpparmadillo: Update to 0.10.5.0.0.
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.10.5.0.0.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
a8313bfbae
gnu: r-rversions: Update to 2.1.1.
* gnu/packages/statistics.scm (r-rversions): Update to 2.1.1.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
80f2d363b8
gnu: r-formatr: Update to 1.11.
* gnu/packages/statistics.scm (r-formatr): Update to 1.11.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
61d7869e89
gnu: r-mgcv: Update to 1.8-36.
* gnu/packages/statistics.scm (r-mgcv): Update to 1.8-36.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
fdc6bfa2aa
gnu: r-matrix: Update to 1.3-4.
* gnu/packages/statistics.scm (r-matrix): Update to 1.3-4.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
72e8eabc3a
gnu: r-textshape: Update to 1.7.3.
* gnu/packages/cran.scm (r-textshape): Update to 1.7.3.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
0af6a92695
gnu: r-calculus: Update to 0.3.1.
* gnu/packages/cran.scm (r-calculus): Update to 0.3.1.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
9b9bb2b732
gnu: r-seurat: Update to 4.0.2.
* gnu/packages/cran.scm (r-seurat): Update to 4.0.2.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
d9d8a1cdc0
gnu: r-parsnip: Update to 0.1.6.
* gnu/packages/cran.scm (r-parsnip): Update to 0.1.6.
[propagated-inputs]: Add r-lifecycle.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
f6ae19fedc
gnu: r-clusterr: Update to 1.2.5.
* gnu/packages/cran.scm (r-clusterr): Update to 1.2.5.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
17bd981986
gnu: r-rsconnect: Update to 0.8.18.
* gnu/packages/cran.scm (r-rsconnect): Update to 0.8.18.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
318808dcdd
gnu: r-forecast: Update to 8.15.
* gnu/packages/cran.scm (r-forecast): Update to 8.15.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
317267c460
gnu: r-archivist: Update to 2.3.6.
* gnu/packages/cran.scm (r-archivist): Update to 2.3.6.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
b3aad04bed
gnu: r-biclust: Update to 2.0.3.
* gnu/packages/cran.scm (r-biclust): Update to 2.0.3.
2021-06-02 17:27:09 +02:00
Ricardo Wurmus
83fa31438d
gnu: r-actuar: Update to 3.1-4.
* gnu/packages/cran.scm (r-actuar): Update to 3.1-4.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
184b3c500c
gnu: r-gdina: Update to 2.8.7.
* gnu/packages/cran.scm (r-gdina): Update to 2.8.7.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
47cdb9c9a8
gnu: r-parameters: Update to 0.14.0.
* gnu/packages/cran.scm (r-parameters): Update to 0.14.0.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
8998ed1d8e
gnu: r-leiden: Update to 0.3.8.
* gnu/packages/cran.scm (r-leiden): Update to 0.3.8.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
81bb987e7e
gnu: r-plot3d: Update to 1.4.
* gnu/packages/cran.scm (r-plot3d): Update to 1.4.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
509eea0f5d
gnu: r-dalex: Update to 2.2.1.
* gnu/packages/cran.scm (r-dalex): Update to 2.2.1.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
37fc760ef1
gnu: r-spdep: Update to 1.1-8.
* gnu/packages/cran.scm (r-spdep): Update to 1.1-8.
[source]: Remove generated files, including Rmarkdown files whose outputs
conflict with the main Rmarkdown file.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
0a6526ebfd
gnu: r-tidytree: Update to 0.3.4.
* gnu/packages/cran.scm (r-tidytree): Update to 0.3.4.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
ee285cb4ce
gnu: r-ks: Update to 1.13.1.
* gnu/packages/cran.scm (r-ks): Update to 1.13.1.
[propagated-inputs]: Add r-pracma.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
caeed0e512
gnu: r-weights: Update to 1.0.2.
* gnu/packages/cran.scm (r-weights): Update to 1.0.2.
[propagated-inputs]: Add r-lme4.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
eb991f3168
gnu: r-mvabund: Update to 4.1.12.
* gnu/packages/cran.scm (r-mvabund): Update to 4.1.12.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
a9ecb3cf20
gnu: r-sjplot: Update to 2.8.8.
* gnu/packages/cran.scm (r-sjplot): Update to 2.8.8.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
0bc5c20756
gnu: r-effectsize: Update to 0.4.5.
* gnu/packages/cran.scm (r-effectsize): Update to 0.4.5.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
3a5b90d0ab
gnu: r-bayestestr: Update to 0.10.0.
* gnu/packages/cran.scm (r-bayestestr): Update to 0.10.0.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
0d813e0275
gnu: r-emmeans: Update to 1.6.1.
* gnu/packages/cran.scm (r-emmeans): Update to 1.6.1.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
304d9c5dd3
gnu: r-manipulatewidget: Update to 0.11.0.
* gnu/packages/cran.scm (r-manipulatewidget): Update to 0.11.0.
[propagated-inputs]: Add r-shinyjs.
[native-inputs]: Add r-knitr.
2021-06-02 17:27:08 +02:00
Ricardo Wurmus
8b459409a9
gnu: r-insight: Update to 0.14.1.
* gnu/packages/cran.scm (r-insight): Update to 0.14.1.
2021-06-02 17:27:07 +02:00
Ricardo Wurmus
6c5543d1d7
gnu: r-rdpack: Update to 2.1.2.
* gnu/packages/cran.scm (r-rdpack): Update to 2.1.2.
2021-06-02 17:27:07 +02:00
Ricardo Wurmus
27bff67ea9
gnu: r-fansi: Update to 0.5.0.
* gnu/packages/cran.scm (r-fansi): Update to 0.5.0.
2021-06-02 17:27:07 +02:00
Ricardo Wurmus
e6068fe401
gnu: r-zip: Update to 2.2.0.
* gnu/packages/cran.scm (r-zip): Update to 2.2.0.
2021-06-02 17:27:07 +02:00
Ricardo Wurmus
ec1666550d
gnu: r-signal: Update to 0.7-7.
* gnu/packages/cran.scm (r-signal): Update to 0.7-7.
2021-06-02 17:27:07 +02:00
Ricardo Wurmus
c4ca93cec9
gnu: r-tinytex: Update to 0.32.
* gnu/packages/cran.scm (r-tinytex): Update to 0.32.
2021-06-02 17:27:07 +02:00
Ricardo Wurmus
52eaf9d864
gnu: r-fitdistrplus: Update to 1.1-5.
* gnu/packages/cran.scm (r-fitdistrplus): Update to 1.1-5.
2021-06-02 17:27:07 +02:00
Ricardo Wurmus
05ee34f0de
gnu: r-inline: Update to 0.3.19.
* gnu/packages/cran.scm (r-inline): Update to 0.3.19.
2021-06-02 17:27:07 +02:00
Ricardo Wurmus
375fea067d
gnu: r-extremes: Update to 2.1-1.
* gnu/packages/cran.scm (r-extremes): Update to 2.1-1.
2021-06-02 17:27:07 +02:00
Ricardo Wurmus
8cc146b24a
gnu: r-bisquerna: Update to 1.0.5.
* gnu/packages/bioconductor.scm (r-bisquerna): Update to 1.0.5.
[native-inputs]: Add r-knitr.
2021-06-02 17:27:07 +02:00
Marius Bakke
882ec50ca1
gnu: python-django@2.2: Update to 2.2.24 [fixes CVE-2021-33203, CVE-2021-33571].
* gnu/packages/django.scm (python-django-2.2): Update to 2.2.24.
2021-06-02 17:05:55 +02:00
Marius Bakke
e17b8d5e3f
gnu: python-django: Update to 3.2.4 [fixes CVE-2021-33203, CVE-2021-33571].
* gnu/packages/django.scm (python-django): Update to 3.2.4.
2021-06-02 17:05:55 +02:00
Ron Nazarov via Guix-patches via
10343994dc
gnu: Add udftools.
* gnu/packages/file-systems.scm (udftools): New variable.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
2021-06-02 15:40:03 +02:00
Tobias Geerinckx-Rice
1bd85824c7
gnu: ispell: Update to 3.4.03.
* gnu/packages/aspell.scm (ispell): Update to 3.4.03.
2021-06-02 15:40:03 +02:00
Ricardo Wurmus
011d586c2c
gnu: Add biobambam2.
* gnu/packages/bioinformatics.scm (biobambam2): New variable.
2021-06-02 13:54:15 +02:00
Ricardo Wurmus
18e0081045
gnu: Add libmaus2.
* gnu/packages/bioinformatics.scm (libmaus2): New variable.
2021-06-02 13:54:15 +02:00
Ricardo Wurmus
f01215635a
gnu: r-with-tests: Update to 4.1.0.
* gnu/packages/statistics.scm (r-with-tests): Update to 4.1.0.
2021-06-02 13:54:15 +02:00
Tobias Geerinckx-Rice
6fee3239b3
gnu: memtester: Update to 4.5.1.
* gnu/packages/hardware.scm (memtester): Update to 4.5.1.
2021-06-02 12:53:10 +02:00
Tobias Geerinckx-Rice
fa26ca54f9
gnu: osip: Update to 5.2.1.
* gnu/packages/telephony.scm (osip): Update to 5.2.1.
2021-06-02 12:53:10 +02:00
Tobias Geerinckx-Rice
6c0a09b341
gnu: retroarch: Update to 1.9.4.
* gnu/packages/emulators.scm (retroarch): Update to 1.9.4.
2021-06-02 12:53:09 +02:00
Tobias Geerinckx-Rice
57278dc214
gnu: libavif: Update to 0.9.1.
* gnu/packages/image.scm (libavif): Update to 0.9.1.
2021-06-02 12:53:09 +02:00
Paul Garlick
da340369ac
gnu: python-vedo: Make pkg-config a native input.
* gnu/packages/python-science.scm (python-vedo)[inputs]: Move pkg-config to...
[native-inputs]: ...here.
2021-06-02 10:27:59 +01:00
Mark H Weaver
873c6b4f21
gnu: icecat: Update to 78.11.0-guix0-preview1 [fixes CVE-2021-29967].
* gnu/packages/gnuzilla.scm (%icecat-version, %icecat-build-id): Update.
(icecat-source): Update upstream source hash.
2021-06-02 04:28:52 -04:00
Xinglu Chen
49e40006f6
gnu: python-hg-evolve: Update to 10.3.1.
* gnu/packages/version-control.scm (python-hg-evolve): Update to 10.3.1.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-06-02 10:36:12 +03:00
Vinicius Monego
51e8539566
gnu: python-sphinx-gallery: Update to 0.9.0.
* gnu/packages/sphinx.scm (python-sphinx-gallery): Update to 0.9.0.
[source]: Build from PyPI.
[arguments]: Enable tests. Add custom 'check phase and phase to make
test files writable.
[native-inputs]: Add python-joblib, python-matplotlib, python-numpy,
python-pillow, python-pytest, python-pytest-cov, python-sphinx. Remove
python-pytest-runner.
[home-page]: Follow redirect.
(python2-sphinx-gallery): Remove package.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-06-02 10:22:01 +03:00
Simon Streit
841edfa491
gnu: redis: Update to 6.2.4 [security fixes].
Fixes CVE-2021-29477.

* gnu/packages/databases.scm (redis): Update to 6.2.4.
[arguments]: Disable the 'integration/failover' test.

Signed-off-by: Leo Famulari <leo@famulari.name>
2021-06-02 00:54:39 -04:00
Julien Lepiller
b94bc3ea30
gnu: Add frama-c.
* gnu/packages/maths.scm (frama-c): New variable.
2021-06-02 03:10:12 +02:00
Julien Lepiller
c9b3627d56
gnu: Add why3.
* gnu/packages/maths.scm (why3): New variable.
2021-06-02 03:10:04 +02:00
Zhu Zihao
2df1c4f134
gnu: rtl8821ce-linux-module: Update to 0.0.0-3.897e7c4.
Fix the broken build with linux-libre 5.12.

* gnu/packages/linux.scm (rtl8821ce-linux-module): Update to 0.0.0-3.897e7c4.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2021-06-01 23:26:08 +02:00
Ludovic Courtès
2885c3568e
machine: ssh: Gracefully handle failure of the effectful bits.
Previously, '&inferior-exception' raised by 'upgrade-shepherd-services'
and co. would go through as-is, leaving users with an ugly backtrace.

* gnu/machine/ssh.scm (deploy-managed-host): Define
'eval/error-handling' and use it in lieu of EVAL as arguments to
'switch-to-system', 'upgrade-shepherd-services', and
'install-bootloader'.
2021-06-01 23:26:07 +02:00
Ludovic Courtès
0db906c52c
services: cuirass: Do not export record type descriptors.
* gnu/services/cuirass.scm (<cuirass-remote-server-configuration>)
(<cuirass-configuration>, <cuirass-remote-worker-configuration>): Do not
export.
2021-06-01 23:26:07 +02:00
Ludovic Courtès
ec9307ea07
services: cuirass: Create the profile and GC root directory.
* gnu/services/cuirass.scm (cuirass-activation): Create
/var/guix/profiles/per-user/cuirass/cuirass or similar.
2021-06-01 23:26:07 +02:00
Ludovic Courtès
82d8ab01f5
maint: Require Guile 3.0.
* configure.ac: Require Guile 3.0.
* doc/guix.texi (Requirements): Adjust accordingly.
* gnu/packages/package-management.scm (guile2.2-guix): Remove.
* guix/lint.scm (exception-with-kind-and-args?): Remove 'cond-expand'.
* guix/scripts/deploy.scm (deploy-machine*): Likewise.
* guix/store.scm (call-with-store): Likewise.
* guix/swh.scm (http-get*, http-post*): Likewise.
* guix/ui.scm (without-compiler-optimizations, guard*)
(call-with-error-handling): Likewise.
2021-06-01 23:26:07 +02:00
Efraim Flashner
49b15701ad
gnu: llvm-7: Update to 7.1.0.
* gnu/packages/llvm.scm (llvm-7): Update to 7.1.0.
2021-06-01 22:50:47 +03:00
Marius Bakke
8d14d602ea
gnu: unbound: Enable DoH support.
* gnu/packages/dns.scm (unbound)[inputs]: Add NGHTTP2:LIB.
[arguments]: Add "--with-libnghttp2" to #:configure-flags.
2021-06-01 20:21:54 +02:00
Marius Bakke
304895d5e0
gnu: ungoogled-chromium: Update to 91.0.4472.77-0.6802c88.
* gnu/packages/chromium.scm (%preserved-third-party-files): Adjust for 91.
(%chromium-version): Set to 91.0.4472.77.
(%ungoogled-revision): Set to 91.0.4472.77-1-0-g6802c88.
(%debian-patches): Remove obsolete patch.
(%ungoogled-origin): Update hash.
(ungoogled-chromium-snippet): Add substitution for an unbundling file.
(ungoogled-chromium): Update hash.
[arguments]: Add a substitution previously provided by a Debian patch.
[inputs]: Change from ICU-68 to ICU-69.
2021-06-01 20:21:54 +02:00
Marius Bakke
e54c03c1f5
gnu: icu4c: Add 69.1.
* gnu/packages/icu4c.scm (icu4c-69): New public variable.
2021-06-01 20:21:54 +02:00
Efraim Flashner
9ea6e3f4d8
gnu: gcc-9: Update to 9.4.0.
* gnu/packages/gcc.scm (gcc-9): Update to 9.4.0.
2021-06-01 20:54:06 +03:00
Leo Prikler
cb821238ed
gnu: musescore: Add missing QML imports.
This fixes an issue wherein the palettes sidebar would turn up empty.

* gnu/packages/music.scm (musescore)[build-system]: Use qt-build-systems.
[inputs]: Add qtgraphicaleffects.
2021-06-01 18:52:48 +02:00
Jonathan Brielmaier
776a21a096
gnu: rust-cbindgen@0.17: Update to 0.19.0.
* gnu/packages/rust-apps.scm (rust-cbindgen-0.17): Update to 0.19.0 and
rename to rust-cbindgen-0.19.
2021-06-01 17:59:34 +02:00
Mathieu Othacehe
0b76b25a0e
tests: hpcguix-web: Fix it.
* gnu/tests/web.scm (run-hpcguix-web-server-test): Increase the VM memory size
and add retries for the http-get test.
2021-06-01 14:33:27 +02:00
Roel Janssen
7ae2b1f2dc
gnu: Add bamutils.
* gnu/packages/bioinformatics.scm (bamutils): New variable.
2021-06-01 13:14:38 +02:00
Pierre Neidhardt
b4e3b77270
gnu: sbcl: Update to 2.1.5.
* gnu/packages/lisp.scm (sbcl): Update to 2.1.5.
2021-06-01 12:01:24 +02:00
Paul Garlick
641a88e8c8
gnu: Add python-vedo.
* gnu/packages/python-science.scm (python-vedo): New variable.
2021-06-01 10:24:46 +01:00
Paul Garlick
d769fcd683
gnu: vtk: Wrap python modules.
* gnu/packages/image-processing.scm (vtk)[inputs]: Add python.
[arguments]: Add VTK_WRAP_PYTHON and VTK_PYTHON_VERSION flags.
2021-06-01 10:19:48 +01:00
Mathieu Othacehe
fd0650eebe
gnu: guix: Update to 1.3.0-3.50dfbbf.
* gnu/packages/package-management.scm (guix): Update to 1.3.0-3.50dfbbf.
2021-06-01 11:03:45 +02:00
Roel Janssen
50dfbbf8ef
gnu: Add python-sinfo.
* gnu/packages/python-xyz.scm (python-sinfo): New variable.
2021-06-01 10:18:00 +02:00
Roel Janssen
b346a7c7db
gnu: Add python-stdlib-list.
* gnu/packages/python-xyz.scm (python-stdlib-list): New variable.
2021-06-01 10:13:38 +02:00
Christopher Baines
a6a1939251
gnu: guix-build-coordinator: Update to 0-30.f9af463.
* gnu/packages/package-management.scm (guix-build-coordinator): Update to 0-30.f9af463.
2021-06-01 09:01:58 +01:00
Brice Waegeneire
ea55e1355b
services: dnsmasq: Extend 'activation-service'.
* gnu/services/dns.scm (dnsmasq-activation): New procedure …
(dnsmasq-service-type): … use it.
2021-05-31 22:06:54 +02:00
Brice Waegeneire
62a8d487d6
services: hostapd: Use package from configuration.
* gnu/services/networking.scm (hostapd-shepherd-services): Replace
'hostapd' by the package specified in the configuration.
2021-05-31 22:04:57 +02:00
Brice Waegeneire
8a0dc5f1bf
tests: Fix loadable-kernel-modules-service tests.
* gnu/tests/linux-modules.scm
(run-loadable-kernel-modules-service-test): Actually load the modules
with kernel-module-loader-service-type.  Use a singleton service instead
of defining a custom one.
* doc/guix.texi (Service Reference): To give an example of
linux-loadable-module-service-type use a singleton instead of defining a
new service.
2021-05-31 21:57:26 +02:00
Nicolas Goaziou
eb8928eeba
gnu: emacs-tramp: Update to 2.5.0.5.
* gnu/packages/emacs-xyz.scm (emacs-tramp): Update to 2.5.0.5.
2021-05-31 21:37:53 +02:00
Nicolas Goaziou
93744e470b
gnu: emacs-solaire-mode: Update to 2.0.0.
* gnu/packages/emacs-xyz.scm (emacs-solaire-mode): Update to 2.0.0.
2021-05-31 21:37:15 +02:00
Nicolas Goaziou
4e74d25d85
gnu: texmacs: Update to 1.99.21.
* gnu/packages/text-editors.scm (texmacs): Update to 1.99.21.
2021-05-31 21:35:53 +02:00
Nicolas Goaziou
5af640b6d7
gnu: emacs-moody: Update to 0.5.5.
* gnu/packages/emacs-xyz.scm (emacs-moody): Update to 0.5.5.
2021-05-31 21:25:28 +02:00
Nicolas Goaziou
6cdc1c72f1
gnu: emacs-posframe: Update to 1.0.3.
* gnu/packages/emacs-xyz.scm (emacs-posframe): Update to 1.0.3.
2021-05-31 21:24:15 +02:00
Solene Rapenne via Guix-patches via
4092813037
gnu: lagrange: Update to 1.5.0.
* gnu/packages/web-browsers.scm (lagrange): Update to 1.5.0.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2021-05-31 21:06:36 +02:00
Stefan Reichör
d16ddafcc7
gnu: Add emacs-eyebrowse.
* gnu/packages/emacs-xyz.scm (emacs-eyebrowse): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2021-05-31 21:05:57 +02:00
Stefan Reichör
71854b7dfe
gnu: Add python-easy-ansi.
* gnu/packages/python-xyz.scm (python-easy-ansi): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2021-05-31 21:05:03 +02:00
Xinglu Chen
dafd3265ad
gnu: Add emacs-evil-paredit.
* gnu/packages/emacs-xyz.scm (emacs-evil-paredit): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2021-05-31 21:03:09 +02:00
Solene Rapenne via Guix-patches via
f7825ee85a
gnu: tome4: Update to 1.7.3.
* gnu/packages/games.scm (tome4): Update to 1.7.3.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2021-05-31 20:59:29 +02:00
Ricardo Wurmus
f463f376e9
gnu: bits: Use git-version and git-file-name.
* gnu/packages/bioinformatics.scm (bits)[version]: Use git-version.
[source]: Use git-file-name.
2021-05-31 16:10:20 +02:00
Ricardo Wurmus
d1e1c02e28
gnu: piranha: Use git-version.
* gnu/packages/bioinformatics.scm (piranha)[version]: Use git-version.
2021-05-31 16:10:00 +02:00
Ricardo Wurmus
8c033085cc
gnu: r-chipkernels: Use git-version and git-file-name.
* gnu/packages/bioinformatics.scm (r-chipkernels)[version]: Use git-version.
[source]: Use git-file-name.
2021-05-31 16:09:35 +02:00
Ricardo Wurmus
3acfbd4811
gnu: f-seq: Use git-version and git-file-name.
* gnu/packages/bioinformatics.scm (f-seq)[version]: Use git-version.
[source]: Use git-file-name.
2021-05-31 16:09:07 +02:00
Ricardo Wurmus
09b50a6ec2
gnu: bismark: Use git-file-name.
* gnu/packages/bioinformatics.scm (bismark)[source]: Use git-file-name.
2021-05-31 16:08:47 +02:00
Ricardo Wurmus
f383f9e311
gnu: filevercmp: Use git-version.
* gnu/packages/bioinformatics.scm (filevercmp)[version]: Use git-version; bind
"revision" in outer let.
2021-05-31 16:08:12 +02:00
Ricardo Wurmus
ec543ba672
gnu: r-chipseeker: Move out of experiment section.
* gnu/packages/bioconductor.scm (r-chipseeker): Move the package from the
"experiment" section to the section for regular Bioconductor packages.
2021-05-31 15:54:41 +02:00
Ricardo Wurmus
a6e7afd4d5
gnu: r-spp: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-spp): Move from here...
* gnu/packages/bioconductor.scm (r-spp): ...to here.
2021-05-31 15:53:20 +02:00
Ricardo Wurmus
1a6108ce2b
gnu: r-geneoverlap: Move out of experiment section.
* gnu/packages/bioconductor.scm (r-geneoverlap): Move the package definition
out of the "experiment" section into the section for regular Bioconductor
packages.
2021-05-31 15:53:09 +02:00
Ricardo Wurmus
b0ecd6cea9
gnu: r-phantompeakqualtools: Let-bind commit, set revision to 1.
* gnu/packages/bioinformatics.scm (r-phantompeakqualtools): Bind the commit
outside of the package value.
[version]: Use git-version.
[source]: Use git-file-name.
2021-05-31 15:46:30 +02:00
zimoun
c294c0d782
gnu: r-methylkit: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-methylkit): Move from here...
* gnu/packages/bioconductor.scm (r-methylkit): ...to here.
2021-05-31 15:39:49 +02:00
zimoun
7ab44aeed6
gnu: r-copywriter: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-copywriter): Move from here...
* gnu/packages/bioconductor.scm (r-copywriter): ...to here.
2021-05-31 15:39:49 +02:00
zimoun
36cb01066c
gnu: r-copyhelper: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-copyhelper): Move from here...
* gnu/packages/bioconductor.scm (r-copyhelper): ...to here.
[source]: Repalce 'string-append' by 'bioconductor-uri' with 'experiment.
2021-05-31 15:39:47 +02:00
zimoun
31e50e1f48
gnu: r-chipseq: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-chipseq): Move from here...
* gnu/packages/bioconductor.scm (r-chipseq): ...to here.
2021-05-31 15:39:00 +02:00
zimoun
0eaa75c811
gnu: r-rhdf5: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-rhdf5): Move from here...
* gnu/packages/bioconductor.scm (r-rhdf5): ...to here.
2021-05-31 15:39:00 +02:00
zimoun
cc1dbea883
gnu: r-annotationfilter: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-annotationfilter): Move from here...
* gnu/packages/bioconductor.scm (r-annotationfilter): ...to here.
2021-05-31 15:39:00 +02:00
zimoun
67e99369c1
gnu: r-rhdf5filters: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-rhdf5filters): Move from here...
* gnu/packages/bioconductor.scm (r-rhdf5filters): ...to here.
2021-05-31 15:39:00 +02:00
zimoun
b6e84d30eb
gnu: r-tximport: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-tximport): Move from here...
* gnu/packages/bioconductor.scm (r-tximport): ...to here.
2021-05-31 15:39:00 +02:00
zimoun
bf8f502956
gnu: r-mutationalpatterns: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-mutationalpatterns): Move from here...
* gnu/packages/bioconductor.scm (r-mutationalpatterns): ...to here.
2021-05-31 15:39:00 +02:00
zimoun
7360dea624
gnu: r-rcas: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-rcas): Move from here...
* gnu/packages/bioconductor.scm (r-rcas): ...to here.
2021-05-31 15:39:00 +02:00
zimoun
45b6db4fb4
gnu: r-bamsignals: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-bamsignals): Move from here...
* gnu/packages/bioconductor.scm (r-bamsignals): ...to here.
2021-05-31 15:38:59 +02:00
zimoun
043c309d15
gnu: r-rhtslib: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-rhtslib): Move from here...
* gnu/packages/bioconductor.scm (r-rhtslib): ...to here.
2021-05-31 15:38:59 +02:00
zimoun
e0c81584ea
gnu: r-zlibbioc: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-zlibbioc): Move from here...
* gnu/packages/bioconductor.scm (r-zlibbioc): ...to here.
2021-05-31 15:38:58 +02:00
zimoun
0006a66415
gnu: r-seqlogo: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-seqlogo): Move from here...
* gnu/packages/bioconductor.scm (r-seqlogo): ...to here.
2021-05-31 15:38:21 +02:00
zimoun
c2a18aee16
gnu: r-motifrg: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-motifrg): Move from here...
* gnu/packages/bioconductor.scm (r-motifrg): ...to here.
2021-05-31 15:38:00 +02:00
zimoun
621aa3b442
gnu: r-sva: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-sva): Move from here...
* gnu/packages/bioconductor.scm (r-sva): ...to here.
2021-05-31 15:38:00 +02:00
zimoun
900ef8fb1e
gnu: r-protgenerics: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-protgenerics): Move from here...
* gnu/packages/bioconductor.scm (r-protgenerics): ...to here.
2021-05-31 15:38:00 +02:00
zimoun
720d2694a5
gnu: r-mzr: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-mzr): Move from here...
* gnu/packages/bioconductor.scm (r-mzr): ...to here.
2021-05-31 15:38:00 +02:00
zimoun
88cf24febb
gnu: r-ensembldb: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-ensembldb): Move from here...
* gnu/packages/bioconductor.scm (r-ensembldb): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
fea33b9d1e
gnu: r-biovizbase: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-biovizbase): Move from here...
* gnu/packages/bioconductor.scm (r-biovizbase): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
8d4311bb8e
gnu: r-vsn: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-vsn): Move from here...
* gnu/packages/bioconductor.scm (r-vsn): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
96ae9822c4
gnu: r-affyio: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-affyio): Move from here...
* gnu/packages/bioconductor.scm (r-affyio): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
8182e6a6fd
gnu: r-organismdbi: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-organismdbi): Move from here...
* gnu/packages/bioconductor.scm (r-organismdbi): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
d1ea2b7c8b
gnu: r-dirichletmultinomial: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-dirichletmultinomial): Move from here...
* gnu/packages/bioconductor.scm (r-dirichletmultinomial): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
0b5b41c561
gnu: r-genomicfiles: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-genomicfiles): Move from here...
* gnu/packages/bioconductor.scm (r-genomicfiles): ...to here.
2021-05-31 15:37:59 +02:00