me
/
guix
Archived
1
0
Fork 0
Code
87,344 Commits
1 Branch
0 Tags
410 MiB
Commit Graph

78125 Commits (bfa3bf0ffc42ba290014b2557b7f647bd68c0608)

Author SHA1 Message Date
Maxim Cournoyer 7ea92af545
gnu: gst-plugins-good: Update to 1.18.5. 
* gnu/packages/gstreamer.scm (gst-plugins-good): Update to 1.18.5.
[source]: Remove the CVE patches, included in the release.
* gnu/packages/patches/gst-plugins-good-CVE-2021-3497.patch: Delete file.
* gnu/packages/patches/gst-plugins-good-CVE-2021-3498.patch: Likewise.
* gnu/local.mk: De-register them.
 2021-11-11 10:31:27 -05:00
Maxim Cournoyer a87cfa250d
gnu: gst-plugins-base: Update to 1.18.5. 
* gnu/packages/gstreamer.scm (gst-plugins-base): Update to 1.18.5.
[source]: Remove patches.
[inputs]: Move wayland...
[propagated-inputs]: here.
* gnu/packages/patches/gst-plugins-base-fix-id3v2-invalid-read.patch: Delete
file.
* gnu/local.mk: De-register it.
 2021-11-11 10:31:26 -05:00
Maxim Cournoyer 553a8696cf
gnu: gstreamer: Update to 1.18.5. 
* gnu/packages/gstreamer.scm (gstreamer): Update to 1.18.5.  Remove trailing
 #t.
(%common-gstreamer-phases): Remove trailing #t.
 2021-11-11 10:31:26 -05:00
Maxim Cournoyer d8a0fc90b5
Revert gstreamer update to 1.19.2. 
This reverts commits from e49190cf2b to
b2fe4c44e3.

Reason: 1.19 is an unstable (development) release rather than a stable one.
 2021-11-11 10:31:26 -05:00
Maxim Cournoyer e151f94467
gnu: polkit: Update to 0.120 and ungraft. 
* gnu/packages/polkit.scm (polkit): Update to 0.120.
[origin]: Update URL and remove libsystemd-login substitution.  Remove
replacement.
[inputs]: Update mozjs-60 to mozjs-78.
[native-inputs]: Add libxslt and docbook-xsl for manpage generation.
[phases]{fix-manpage-generation}: New phase.
(polkit/fixed): Delete package.
* gnu/packages/patches/polkit-CVE-2021-3560.patch: Delete file.
* gnu/local.mk: De-register it.

Co-authored-by: Morgan Smith <Morgan.J.Smith@outlook.com>
 2021-11-11 10:31:26 -05:00
Maxim Cournoyer 50c00ab955
gnu: Add a missing copyright. 
This adjustment is made considering the contributions to the (gnu packages
polkit) module in commits cb151c68bf and 222e3319bd.

Suggested-by: Morgan Smith <Morgan.J.Smith@outlook.com>
 2021-11-11 10:31:26 -05:00
Maxim Cournoyer 74ca1190e9
gnu: mozjs-78: Update to 78.15.0. 
* gnu/packages/gnuzilla.scm (mozjs-78): Update to 78.15.0.
 2021-11-11 10:31:25 -05:00
Maxim Cournoyer f0ce5a6051
gnu: abseil-cpp: Update to 20210324.2. 
But keep the older variant for Tensorflow.

* gnu/packages/cpp.scm (abseil-cpp-20200923.3): Renamed older variant.
(abseil-cpp): New variable.
* gnu/packages/machine-learning.scm (tensorflow-lite)
[inputs]: Adjust to use the older abseil-cpp-20200923.3.
* gnu/packages/rpc.scm (grpc-1.16.1)[native-inputs]: Likewise.

Co-authored-by: Greg Hogan <code@greghogan.com>
 2021-11-11 10:31:25 -05:00
Maxim Cournoyer d102bd7316
gnu: abseil-cpp: Remove googletest patch. 
* gnu/packages/patches/abseil-cpp-fix-gtest.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): De-register it.
* gnu/packages/cpp.scm (abseil-cpp)[source]: Remove patch.

Co-authored-by: Greg Hogan <code@greghogan.com>
 2021-11-11 10:31:25 -05:00
Greg Hogan 169354db38
gnu: googletest: Update to 1.11.0. 
* gnu/packages/check.scm (googletest): Update to 1.11.0.
 2021-11-11 10:31:25 -05:00
Maxim Cournoyer 9c59623564
Revert commits made to resolve a gdk-pixbuf+svg propagation issue. 
Fixes <https://issues.guix.gnu.org/50957>.

This reverts the following commits:

 - 42231bc (gnu: cheese: Propagate gdk-pixbuf+svg rather than gdk-pixbuf)
 - ad6a950 (gnu: mutter: Propagate gdk-pixbuf+svg rather than gdk-pixbuf)
 - 5e02d1a (gnu: cogl: Propagate gdk-pixbuf+svg rather than gdk-pixbuf)
 - 5c467b2 (gnu: libgweather: Propagate gdk-pixbuf+svg rather than gdk-pixbuf)
 - 26487f6 (gnu: librsvg-next: Do not propagate gdk-pixbuf)
 - d891922 (gnu: librsvg: Do not propagate gdk-pixbuf)
 - 22476d3 (gnu: libgsf: Do not propagate gdk-pixbuf)
 - 099ca0e (gnu: libnotify: Propagate gdk-pixbuf+svg rather than gdk-pixbuf)
 - fb6a1ff (gnu: appstream-glib: Propagate gdk-pixbuf+svg rather than gdk-pixbuf)
 - 4fb525d (gnu: weasyprint: Propagate gdk-pixbuf+svg rather than gdk-pixbuf)

These commits were made to resolve a gdk-pixbuf loaders clash that could occur
in a profile when both gdk-pixbuf and gdk-pixbuf+svg were propagated.
Unfortunately, librsvg really needs to propagate gdk-pixbuf itself, which
would introduce a cycle.  Packages such as 'efl' were broken as a result of
not propagating gdk-pixbuf.

A more definitive fix will be proposed for core-updates, which includes a
profile hook to generate the gdk-pixbuf loaders.cache file, as well as a build
phase and search path specification, that should resolve the issue for good.
 2021-11-11 10:31:25 -05:00
Brice Waegeneire c0443cffe8
gnu: pulseaudio: Update to 15.0. 
The 'bluez5' configuration options is removed to ease transformation of the
package by users.  It is auto-enabled by Meson based on the inputs available,
so it's still enabled in this package.
* gnu/packages/pulseaudio.scm (pulseaudio): Update to 15.0.
[arguments]: Fix the 'oss-output' value and remove the 'bluez5' option.
[inputs]: Add 'elogind'.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2021-11-11 10:31:24 -05:00
Maxim Cournoyer 8ee17f03a5
gnu: lib2geom: Update to 1.1. 
* gnu/packages/graphics.scm (lib2geom): Update to 1.1.
[source]: Remove patches, modules and snippet fields.
[phases]: Remove trailing #t.
* gnu/packages/patches/lib2geom-fix-tests.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): De-register it.
 2021-11-11 10:31:24 -05:00
Maxim Cournoyer 55ad2f80f2
gnu: e2fsprogs: Update to 1.46.4. 
This resolves a test failure on armhf-linux (when building on a aarch64-linux
system).

* gnu/packages/linux.scm (e2fsprogs): Update to 1.46.4.  Remove trailing #t.
 2021-11-11 10:31:24 -05:00
Maxim Cournoyer 62683f51c3
gnu: python-gst: Update to 1.19.2. 
* gnu/packages/gstreamer.scm (python-gst): Update to 1.19.2.
[meson]: Use meson-0.55.
 2021-11-11 10:31:24 -05:00
Maxim Cournoyer 7d92a4523a
gnu: gst-editing-services: Update to 1.19.2. 
* gnu/packages/gstreamer.scm (gst-editing-services): Update to 1.19.2.
[meson]: Use meson-0.55.
 2021-11-11 10:31:24 -05:00
Maxim Cournoyer 5be7ae7bf3
gnu: gst-libav: Update to 1.19.2. 
* gnu/packages/gstreamer.scm (gst-libav): Update to 1.19.2.
[source]: Re-indent origin.  Delete patches field.
[meson]: Use meson-0.55.
* gnu/packages/patches/gst-libav-64channels-stack-corruption.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): De-register it.
 2021-11-11 10:31:23 -05:00
Maxim Cournoyer b59ad1e176
gnu: gst-plugins-ugly: Update to 1.19.2. 
* gnu/packages/gstreamer.scm (gst-plugins-ugly): Update to 1.19.2.  Delete
trailing #t.
[patches]: Delete field.
[meson]: Use meson-0.55.
* gnu/packages/patches/gst-plugins-ugly-fix-out-of-bound-reads.patch: Delete
file.
* gnu/local.mk (dist_patch_DATA): De-register it.
 2021-11-11 10:31:23 -05:00
Maxim Cournoyer 543367ae89
gnu: gst-plugins-bad: Update to 1.19.2. 
* gnu/packages/gstreamer.scm (gst-plugins-bad): Update to 1.19.2.
* gnu/packages/patches/gst-plugins-bad-fix-overflow.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): De-register it.
 2021-11-11 10:31:23 -05:00
Maxim Cournoyer 95e99e3829
gnu: zxing-cpp: Update to 1.2.0. 
* gnu/packages/aidc.scm (zxing-cpp): Update to 1.2.0.  Remove trailing #t.
[native-inputs]: Remove field.
[out-of-source?]: Remove argument.
[tests?]: Set to #f.
[configure-flags]: New argument.
[phases]: Remove argument.
 2021-11-11 10:31:23 -05:00
Maxim Cournoyer a9e83d7c7e
gnu: gst-plugins-good: Update to 1.19.2. 
* gnu/packages/gstreamer.scm (gst-plugins-good): Update to 1.19.2.  Remove
trailing #t.
[patches]: Remove.
[meson]: Use meson-0.55.
* gnu/packages/patches/gst-plugins-good-CVE-2021-3497.patch: Delete file.
* gnu/packages/patches/gst-plugins-good-CVE-2021-3498.patch: Likewise.
* gnu/packages/patches/gst-plugins-good-fix-test.patch: Likewise.
* gnu/local.mk: De-register them.
 2021-11-11 10:31:23 -05:00
Maxim Cournoyer 8f22b547ef
gnu: gst-plugins-base: Update to 1.19.2. 
* gnu/packages/gstreamer.scm (gst-plugins-base): Update to 1.19.2
[origin]: Delete patches field.  Remove trailing #t.
[meson]: Use meson-0.55.
* gnu/packages/patches/gst-plugins-base-fix-id3v2-invalid-read.patch: Delete.
* gnu/local.mk (dist_patch_DATA): De-register.
 2021-11-11 10:31:22 -05:00
Maxim Cournoyer 9b6dfe664e
gnu: gstreamer: Update to 1.19.2. 
* gnu/packages/gstreamer.scm (gstreamer): Update to 1.19.2.
[meson]: Use meson-0.55.
[phases]{disable-some-tests}: Delete phase.
 2021-11-11 10:31:22 -05:00
Maxim Cournoyer 05f5244e9f
gnu: gstreamer-docs: Update to 1.19.2. 
* gnu/packages/gstreamer.scm (gstreamer-docs): Update to 1.19.2.  Remove
trailing #t.
 2021-11-11 10:31:22 -05:00
Maxim Cournoyer 08247055a6
gnu: python-sphinx: Update to 4.2.0. 
* gnu/packages/sphinx.scm (python-sphinx): Update to 4.2.0.
 2021-11-11 10:31:22 -05:00
Maxim Cournoyer a768c3ecab
gnu: python-sphinxcontrib-serializinghtml: Update to 1.1.5. 
* gnu/packages/sphinx.scm (python-sphinxcontrib-serializinghtml): Update to 1.1.5.
 2021-11-11 10:31:22 -05:00
Maxim Cournoyer 54b2fbd4ff
gnu: python-sphinxcontrib-htmlhelp: Update to 2.0.0. 
* gnu/packages/sphinx.scm (python-sphinxcontrib-htmlhelp): Update to 2.0.0.
 2021-11-11 10:31:21 -05:00
Tobias Geerinckx-Rice 950be3ff1e
gnu: gnupg: Update to 2.2.30. 
* gnu/packages/gnupg.scm (gnupg): Update to 2.2.30.
 2021-11-11 10:31:21 -05:00
Tobias Geerinckx-Rice 55e5def90c
gnu: gnupg: Don't explicitly return #t from phases. 
* gnu/packages/gnupg.scm (gnupg)[arguments]: Don't explicitly return #t
from phases.
 2021-11-11 10:31:21 -05:00
Brice Waegeneire 325184e307
gnu: bluez: Update to 5.59. 
* gnu/packages/linux.scm (bluez): Update to 5.59.
[native-inputs]: Add python-docutils.
 2021-11-11 10:31:21 -05:00
Xinglu Chen f5f5a48d8a
gnu: python-docutils: Update to 0.17.1. 
* gnu/packages/python-xyz.scm (python-docutils): Update to 0.17.1.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-11-11 10:31:21 -05:00
Matthew James Kraai fecea3b531
gnu: libevdev: Update to 1.11.0. 
* gnu/packages/xorg.scm (libevdev): Update to 1.11.0.

Signed-off-by: Brice Waegeneire <brice@waegenei.re>
 2021-11-11 10:31:20 -05:00
Raghav Gururajan 7e3caf0077
gnu: farstream: Enable tests. 
This patch depends on gstreamer's update to 1.18.4.

* gnu/packages/patches/farstream-gupnp.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/freedesktop.scm (farstream)[patches]: Use it.
[arguments](tests?): Remove argument.
[phases](disable-timeout-tests): New phase.
 2021-11-11 10:31:20 -05:00
Solene Rapenne f8ed656fda
gnu: e2fsprogs: Update to 1.46.2. 
* gnu/packages/linux.scm (e2fsprogs): Update to 1.46.2.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2021-11-11 10:31:20 -05:00
Raghav Gururajan 595deb4f78
gnu: python-pygobject: Update to 3.40.1. 
* gnu/packages/glib.scm (python-pygobject)[version]: Update to 3.40.1.
[native-inputs]: Add python-wrapper.
 2021-11-11 10:31:20 -05:00
Raghav Gururajan 03f2055e40
gnu: gst-editing-services: Update to 1.18.4. 
* gnu/packages/gstreamer.scm (gst-editing-services)[version]: Update to 1.18.4.
[arguments](glib-or-gtk): New argument.
[inputs]: Add glib, glib-networking and gtk+. Move gst-plugins-base to ...
[propagated-inputs]: ... here. Add gstreamer.
[native-inputs]: Replace python with python-wrapper.

Co-authored-by: Leo Prikler <leo.prikler@student.tugraz.at>
 2021-11-11 10:31:19 -05:00
Raghav Gururajan 75924438e6
gnu: gst-plugins-bad: Add missing inputs to enable more features. 
* gnu/packages/gstreamer.scm (gst-plugins-bad)[inputs]: Add bzip2,
cairo, chromaprint, directfb, faac, flite, glib, glib-networking,
glu, gsm, iqa, lcms, libaom, libbs2b, libdc1394, libdca, libde265,
libdrm, libexif, libfdk, libgme, libmfx, libmms, libmpcdec, libnice,
libofa, libopenmpt, libtiff, libva, libx11, libxcb, libxext, libxshm,
lilv, lv2, mjpegtools, nettle, openh264, opensles, pango, rtmpdump, sbc,
sctp, spandsp, srt, svt-hevc, transcode, v4l-utils, vo-aacenc, vo-amrwbenc,
vulkan-headers, vulkan-loader, webrtc-audio-processing, wildmidi,
wpebackend-fdo, zbar and zxing-cpp.
[phases](adjust-tests): Disable msdkh264enc and svthevcenc tests.
Reenable line21.

Co-authored-by: Leo Prikler <leo.prikler@student.tugraz.at>
 2021-11-11 10:31:19 -05:00
Raghav Gururajan b7e3912feb
gnu: gst-plugins-bad: Update to 1.18.4. 
* gnu/packages/gstreamer.scm (gst-plugins-bad)[version]: Update to 1.18.4.
[arguments](glib-or-gtk): New argument.
[phases](adjust-tests): Disable line21.
[phases](pre-check): New phase.
[propagated-inputs]: Add gstreamer.
[native-inputs]: Add gettext-minimal, gsettings-desktop-schemas, perl and
xorg-server-for-tests. Replace python with python-wrapper.

Co-authored-by: Leo Prikler <leo.prikler@student.tugraz.at>
 2021-11-11 10:31:19 -05:00
Raghav Gururajan 5219a10b33
gnu: gst-libav: Update to 1.18.4. 
* gnu/packages/gstreamer.scm (gst-libav)[version]: Update to 1.18.4.

Co-authored-by: Leo Prikler <leo.prikler@student.tugraz.at>
 2021-11-11 10:31:19 -05:00
Raghav Gururajan 84a9a6f19a
gnu: gst-plugins-ugly: Update to 1.18.4. 
* gnu/packages/gstreamer.scm (gst-plugins-upgly)[version]: Update to 1.18.4.

Co-authored-by: Leo Prikler <leo.prikler@student.tugraz.at>
 2021-11-11 10:31:19 -05:00
Raghav Gururajan 69e3e046d6
gnu: gst-plugins-good: Update to 1.18.4. 
* gnu/packages/gstreamer.scm (gst-plugins-good)[version]: Update to 1.18.4.

Co-authored-by: Leo Prikler <leo.prikler@student.tugraz.at>
 2021-11-11 10:31:18 -05:00
Raghav Gururajan 4c0a39ee65
gnu: gst-plugins-base: Enable more features. 
* gnu/packages/gstreamer.scm (gst-plugins-base)
[inputs]: Add graphene, iso-codes, libgudev, libjpeg-turbo, libpng,
libvisual, mesa, wayland-protocols, wayland.
[native-inputs]: Add gettext-minimal and xorg-server-for-test.
[arguments]: Remove '-Dgl=disabled' from configure flags.  Add pre-check phase.

Co-authored-by: Leo Prikler <leo.prikler@student.tugraz.at>
Co-authored-by: 宋文武 <iyzsong@member.fsf.org>
 2021-11-11 10:31:18 -05:00
Raghav Gururajan a67cb232d7
gnu: gst-plugins-base: Update to 1.18.4. 
* gnu/packages/gstreamer.scm (gst-plugins-base): Update to 1.18.4.

Co-authored-by: 宋文武 <iyzsong@member.fsf.org>
 2021-11-11 10:31:18 -05:00
Raghav Gururajan 002869f3da
gnu: gstreamer: Update to 1.18.4. 
* gnu/packages/gstreamer.scm (gstreamer)[version]: Update to 1.18.4.
[propagated-inputs]: Add elfutils and libunwind.
[synopsis]: Change to "Multimedia framework".
[native-inputs]: Add bash-completion and gettext-minimal.
[inputs]: Add gmp, libcap and gsl.

Co-authored-by: Leo Prikler <leo.prikler@student.tugraz.at>
 2021-11-11 10:31:18 -05:00
Maxim Cournoyer 1f1f5b2a25
gnu: cheese: Propagate gdk-pixbuf+svg rather than gdk-pixbuf. 
Propagating gdk-pixbuf rather than gdk-pixbuf+svg is dangerous as it clashes
with GTK+'s own gdk-pixbuf+svg propagation.

* gnu/packages/gnome.scm (cheese)[propagated-inputs]: Replace gdk-pixbuf by
gdk-pixbuf+svg.
 2021-11-11 10:31:18 -05:00
Maxim Cournoyer aa09324221
gnu: mutter: Propagate gdk-pixbuf+svg rather than gdk-pixbuf. 
Propagating gdk-pixbuf rather than gdk-pixbuf+svg is dangerous as it clashes
with GTK+'s own gdk-pixbuf+svg propagation.

* gnu/packages/gnome.scm (mutter)[propagated-inputs]: Replace gdk-pixbuf by
gdk-pixbuf+svg.
 2021-11-11 10:31:17 -05:00
Maxim Cournoyer dba5c63e8c
gnu: cogl: Propagate gdk-pixbuf+svg rather than gdk-pixbuf. 
Propagating gdk-pixbuf rather than gdk-pixbuf+svg is dangerous as it clashes
with GTK+'s own gdk-pixbuf+svg propagation.

* gnu/packages/gnome.scm (cogl)[propagated-inputs]: Replace gdk-pixbuf by
gdk-pixbuf+svg.
 2021-11-11 10:31:17 -05:00
Maxim Cournoyer 4ad44af264
gnu: libgweather: Propagate gdk-pixbuf+svg rather than gdk-pixbuf. 
Propagating gdk-pixbuf rather than gdk-pixbuf+svg is dangerous as it clashes
with GTK+'s own gdk-pixbuf+svg propagation.

* gnu/packages/gnome.scm (libgweather)[propagated-inputs]: Replace gdk-pixbuf by
gdk-pixbuf+svg.
 2021-11-11 10:31:17 -05:00
Maxim Cournoyer 91e40dd2ed
gnu: librsvg-next: Do not propagate gdk-pixbuf. 
Propagating gdk-pixbuf rather than gdk-pixbuf+svg is dangerous as it clashes
with GTK+'s own gdk-pixbuf+svg propagation.

* gnu/packages/gnome.scm (librsvg-next)[propagated-inputs]: Remove gdk-pixbuf.
[inputs]: Add gdk-pixbuf+svg.
 2021-11-11 10:31:17 -05:00
Maxim Cournoyer 532292b562
gnu: libnotify: Propagate gdk-pixbuf+svg rather than gdk-pixbuf. 
Propagating gdk-pixbuf rather than gdk-pixbuf+svg is dangerous as it clashes
with GTK+'s own gdk-pixbuf+svg propagation.

* gnu/packages/gnome.scm (libnotify)[propagated-inputs]: Replace gdk-pixbuf by
gdk-pixbuf+svg.
 2021-11-11 10:31:16 -05:00
Maxim Cournoyer 30a731c274
gnu: appstream-glib: Propagate gdk-pixbuf+svg rather than gdk-pixbuf. 
Propagating gdk-pixbuf rather than gdk-pixbuf+svg is dangerous as it clashes
with GTK+'s own gdk-pixbuf+svg propagation.

* gnu/packages/glib.scm (appstream-glib)[propagated-inputs]: Replace gdk-pixbuf by
gdk-pixbuf+svg.
 2021-11-11 10:31:16 -05:00
Maxim Cournoyer 14a81366e2
gnu: librsvg: Add a debug output. 
* gnu/packages/gnome.scm (librsvg): Add a debug output.
 2021-11-11 10:31:16 -05:00
Maxim Cournoyer 7a0ef7d263
gnu: gdk-pixbuf+svg: Fix typo in comment. 
* gnu/packages/gtk.scm (gdk-pixbuf+svg): Fix typo in comment.
 2021-11-11 10:31:16 -05:00
Maxim Cournoyer 96eb3bc68a
gnu: gdk-pixbuf: Add a debug output. 
* gnu/packages/gtk.scm (gdk-pixbuf)[outputs]{debug}: New output.
[phases]: Strip trailing #t.
 2021-11-11 10:31:16 -05:00
Maxim Cournoyer 3c181f9765
gnu: gtk+: Add a debug output. 
* gnu/packages/gtk.scm (gtk+-2)[outputs]{debug}: New output.
 2021-11-11 10:31:15 -05:00
Vincent Legoll f1240adb9f
gnu: json-c: Update to 0.15. 
* gnu/packages/web.scm (json-c): Update to 0.15.
[source]: Remove obsolete patch 'json-c-CVE-2020-12762.patch'.
* gnu/packages/patches/json-c-CVE-2020-12762.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2021-11-11 10:31:15 -05:00
Brice Waegeneire f09563abb3
gnu: shadow: Set log in /var/log. 
Fixes lastlog and faillog commands which otherwise look for lastlog and
faillog files in /etc.

* gnu/packages/admin.scm (shadow)[arguments]: Add configure flag
'shadow_cv_logdir'.
 2021-11-11 10:31:15 -05:00
Brice Waegeneire f635b3cde7
gnu: pulseaudio: Use meson build system. 
* gnu/packages/pulseaudio.scm (pulseaudio)[build-system]: Switch from
gnu to meson.
[arguments]: Migrate configure flags for meson.
[propagated-inputs]: Replace 'gdbm' with 'tdb', upstream default.
 2021-11-11 10:31:15 -05:00
Brice Waegeneire 67760f9ec4
gnu: pulseaudio: Update to 14.2. 
* gnu/packages/pulseaudio.scm (pulseaudio): Update to 14.2.
 2021-11-11 10:31:14 -05:00
Jakub Kądziołka 32111eb219
gnu: rust: Update to 1.50. 
* gnu/packages/rust.scm (rust): Change to 1.50.
 2021-11-11 10:31:14 -05:00
Leo Famulari af47bb01ae
gnu: gst-plugins-base: Depend on Opus for all systems. 
* gnu/packages/gstreamer.scm (gst-plugins-base)[inputs]: Include opus
unconditionally.
 2021-11-11 10:31:14 -05:00
Vincent Legoll 2a9739b114
gnu: apr: Update to 1.7.0. 
* gnu/packages/apr.scm (apr): Update to 1.7.0.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2021-11-11 10:31:14 -05:00
Vivien Kraus d855119ece
gnu: deja-dup: Update to 42.8. 
* gnu/packages/gnome.scm (deja-dup): Update to 42.8.
* gnu/packages/gnome.scm (deja-dup)[inputs]: Add libhandy.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-09 08:54:01 +01:00
Vivien Kraus 648b81211f
gnu: unison: Fix building the manual. 
* gnu/packages/ocaml.scm (unison)[native-inputs]: Add the missing texlive inputs.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-09 00:02:46 +01:00
Vivien Kraus 32db65b787
gnu: Add texlive-dvips-l3backend. 
* gnu/packages/tex.scm (texlive-dvips-l3backend): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-09 00:02:39 +01:00
Efraim Flashner 1c94392a13
Merge remote-tracking branch 'origin/master' into core-updates-frozen 2021-11-08 09:06:14 +02:00
Tobias Geerinckx-Rice 9d25ee30b1
gnu: nginx-documentation: Update to 1.21.4-2791-9385526a9b2d. 
* gnu/packages/web.scm (nginx-documentation): Update to 1.21.4-2791-9385526a9b2d.
 2021-11-08 02:15:24 +01:00
Tobias Geerinckx-Rice 805ca61eb9
gnu: nginx: Update to 1.21.4. 
* gnu/packages/web.scm (nginx): Update to 1.21.4.
 2021-11-08 02:15:24 +01:00
Tobias Geerinckx-Rice 3f4eb02fe5
gnu: fheroes2: Update to 0.9.9. 
* gnu/packages/games.scm (fheroes2): Update to 0.9.9.
 2021-11-08 02:15:24 +01:00
Tobias Geerinckx-Rice 551047838d
gnu: knot: Update to 3.1.4. 
* gnu/packages/dns.scm (knot): Update to 3.1.4.
 2021-11-08 02:15:24 +01:00
Tobias Geerinckx-Rice e568b14076
gnu: hplip: Update to 3.21.10. 
* gnu/packages/cups.scm (hplip): Update to 3.21.10.
[snippet]: Make substitution patterns more specific.
[arguments]: Don't explicitly return #t from phases.
 2021-11-08 02:15:23 +01:00
Tobias Geerinckx-Rice e46e144b42
gnu: redkite: Update to 1.3.1. 
* gnu/packages/audio.scm (redkite): Update to 1.3.1.
 2021-11-08 02:15:23 +01:00
Tobias Geerinckx-Rice 55bdb2b33b
gnu: libebur128: Update to 1.2.6. 
* gnu/packages/audio.scm (libebur128): Update to 1.2.6.
 2021-11-08 02:15:23 +01:00
Ricardo Wurmus 30b67fdb6a
gnu: r-tximeta: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-tximeta): Update to 1.12.0.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus 76f32aae88
gnu: r-biscuiteer: Update to 1.8.0. 
* gnu/packages/bioconductor.scm (r-biscuiteer): Update to 1.8.0.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus 14ff65b0e8
gnu: r-omnipathr: Update to 3.2.0. 
* gnu/packages/bioconductor.scm (r-omnipathr): Update to 3.2.0.
[propagated-inputs]: Add r-crayon.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus 2f03e3e1ef
gnu: r-dmrseq: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-dmrseq): Update to 1.14.0.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus 86a3ae96d1
gnu: r-bsseq: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-bsseq): Update to 1.30.0.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus fd3a180b32
gnu: r-biotmle: Update to 1.18.0. 
* gnu/packages/bioconductor.scm (r-biotmle): Update to 1.18.0.
[propagated-inputs]: Remove r-dofuture and r-future.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus 494379d015
gnu: r-biotip: Update to 1.8.0. 
* gnu/packages/bioconductor.scm (r-biotip): Update to 1.8.0.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus b2b920b38e
gnu: r-bioqc: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-bioqc): Update to 1.22.0.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus 73ace000f4
gnu: r-bionetstat: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-bionetstat): Update to 1.14.0.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus 2aebb7bfab
gnu: r-bionet: Update to 1.54.0. 
* gnu/packages/bioconductor.scm (r-bionet): Update to 1.54.0.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus 95c1308b4f
gnu: r-bionero: Update to 1.2.0. 
* gnu/packages/bioconductor.scm (r-bionero): Update to 1.2.0.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus 1086cfcb7f
gnu: r-biomvrcns: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-biomvrcns): Update to 1.34.0.
 2021-11-07 22:34:59 +00:00
Ricardo Wurmus bb98b978c3
gnu: r-biomvcclass: Update to 1.62.0. 
* gnu/packages/bioconductor.scm (r-biomvcclass): Update to 1.62.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus 739c420d1e
gnu: r-mvcclass: Update to 1.68.0. 
* gnu/packages/bioconductor.scm (r-mvcclass): Update to 1.68.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus 29f14a86bf
gnu: r-biomformat: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-biomformat): Update to 1.22.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus 1503c74ce0
gnu: r-biodb: Update to 1.2.0. 
* gnu/packages/bioconductor.scm (r-biodb): Update to 1.2.0.
[propagated-inputs]: Add r-biocfilecache.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus dbfdfecfd1
gnu: r-biocdockermanager: Update to 1.6.0. 
* gnu/packages/bioconductor.scm (r-biocdockermanager): Update to 1.6.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus 79285bf0da
gnu: r-biocthis: Update to 1.4.0. 
* gnu/packages/bioconductor.scm (r-biocthis): Update to 1.4.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus a7a77af71a
gnu: r-basilisk: Update to 1.6.0. 
* gnu/packages/bioconductor.scm (r-basilisk): Update to 1.6.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus fd0d144044
gnu: r-basilisk-utils: Update to 1.6.0. 
* gnu/packages/bioconductor.scm (r-basilisk-utils): Update to 1.6.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus c91514edd1
gnu: r-dir-expiry: Update to 1.2.0. 
* gnu/packages/bioconductor.scm (r-dir-expiry): Update to 1.2.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus c14f5bd30a
gnu: r-genetclassifier: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-genetclassifier): Update to 1.34.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus b8394117f9
gnu: r-minet: Update to 3.52.0. 
* gnu/packages/bioconductor.scm (r-minet): Update to 3.52.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus 6cec550e20
gnu: r-biobtreer: Update to 1.6.0. 
* gnu/packages/bioconductor.scm (r-biobtreer): Update to 1.6.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus b223a11c41
gnu: r-bgeedb: Update to 2.20.0. 
* gnu/packages/bioconductor.scm (r-bgeedb): Update to 2.20.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus bdb55dcdf7
gnu: r-bgeecall: Update to 1.10.0. 
* gnu/packages/bioconductor.scm (r-bgeecall): Update to 1.10.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus 744c9f4351
gnu: r-beclear: Update to 2.10.0. 
* gnu/packages/bioconductor.scm (r-beclear): Update to 2.10.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus 8dd33b890a
gnu: r-megadepth: Update to 1.4.0. 
* gnu/packages/bioconductor.scm (r-megadepth): Update to 1.4.0.
 2021-11-07 22:34:58 +00:00
Ricardo Wurmus 7ed7b40b18
gnu: r-ballgown: Update to 2.26.0. 
* gnu/packages/bioconductor.scm (r-ballgown): Update to 2.26.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus 558abe3b47
gnu: r-sushi: Update to 1.31.0. 
* gnu/packages/bioconductor.scm (r-sushi): Update to 1.31.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus c7641e4327
gnu: r-guitar: Update to 2.10.0. 
* gnu/packages/bioconductor.scm (r-guitar): Update to 2.10.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus 97c0e316d3
gnu: r-chromstar: Update to 1.19.0. 
* gnu/packages/bioconductor.scm (r-chromstar): Update to 1.19.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus 41c4e6391d
gnu: r-snpstats: Update to 1.44.0. 
* gnu/packages/bioconductor.scm (r-snpstats): Update to 1.44.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus ce510880ec
gnu: r-pathview: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-pathview): Update to 1.34.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus a8fb8beb31
gnu: r-ldblock: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-ldblock): Update to 1.24.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus 7b6b39bd97
gnu: r-kegggraph: Update to 1.54.0. 
* gnu/packages/bioconductor.scm (r-kegggraph): Update to 1.54.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus ab00f1b61c
gnu: r-gwascat: Update to 2.26.0. 
* gnu/packages/bioconductor.scm (r-gwascat): Update to 2.26.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus 38a7f29374
gnu: r-gviz: Update to 1.38.0. 
* gnu/packages/bioconductor.scm (r-gviz): Update to 1.38.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus 6d193b3288
gnu: r-ggbio: Update to 1.42.0. 
* gnu/packages/bioconductor.scm (r-ggbio): Update to 1.42.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus b1de4e61a0
gnu: r-erma: Update to 1.10.0. 
* gnu/packages/bioconductor.scm (r-erma): Update to 1.10.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus eed4a322f1
gnu: r-catalyst: Update to 1.18.0. 
* gnu/packages/bioconductor.scm (r-catalyst): Update to 1.18.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus 9df8fa7b38
gnu: r-msmstests: Update to 1.32.0. 
* gnu/packages/bioconductor.scm (r-msmstests): Update to 1.32.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus 357c74ef3e
gnu: r-msmseda: Update to 1.32.0. 
* gnu/packages/bioconductor.scm (r-msmseda): Update to 1.32.0.
 2021-11-07 22:34:57 +00:00
Ricardo Wurmus 2de21518f1
gnu: r-biocio: Update to 1.4.0. 
* gnu/packages/bioconductor.scm (r-biocio): Update to 1.4.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus ffcb3606d0
gnu: r-mscoreutils: Update to 1.6.0. 
* gnu/packages/bioconductor.scm (r-mscoreutils): Update to 1.6.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus 5c75a6d18e
gnu: r-delayedmatrixstats: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-delayedmatrixstats): Update to 1.16.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus de38a03f61
gnu: r-sparsematrixstats: Update to 1.6.0. 
* gnu/packages/bioconductor.scm (r-sparsematrixstats): Update to 1.6.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus e4cfcbfda3
gnu: r-scran: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-scran): Update to 1.22.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus 980e6af8aa
gnu: r-scater: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-scater): Update to 1.22.0.
[propagated-inputs]: Add r-ggrepel.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus 08defd9cdb
gnu: r-scuttle: Update to 1.4.0. 
* gnu/packages/bioconductor.scm (r-scuttle): Update to 1.4.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus c7b54ba026
gnu: r-singlecellexperiment: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-singlecellexperiment): Update to 1.16.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus 9f7327588d
gnu: r-chromvar: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-chromvar): Update to 1.16.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus 5eb0f4d20e
gnu: r-motifmatchr: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-motifmatchr): Update to 1.16.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus d15fac3713
gnu: r-tfbstools: Update to 1.32.0. 
* gnu/packages/bioconductor.scm (r-tfbstools): Update to 1.32.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus d6130127e8
gnu: r-cner: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-cner): Update to 1.30.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus 756f5411a9
gnu: r-beachmat: Update to 2.10.0. 
* gnu/packages/bioconductor.scm (r-beachmat): Update to 2.10.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus 29111142d1
gnu: r-rhdf5lib: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-rhdf5lib): Update to 1.16.0.
 2021-11-07 22:34:56 +00:00
Ricardo Wurmus 6f2d0551f1
gnu: r-hdf5array: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-hdf5array): Update to 1.22.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus 77450726d6
gnu: r-hitc: Update to 1.38.0. 
* gnu/packages/bioconductor.scm (r-hitc): Update to 1.38.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus 2603747a56
gnu: r-fithic: Update to 1.20.0. 
* gnu/packages/bioconductor.scm (r-fithic): Update to 1.20.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus 7752397cf1
gnu: r-rgraphviz: Update to 2.38.0. 
* gnu/packages/bioconductor.scm (r-rgraphviz): Update to 2.38.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus 1417f1171c
gnu: r-s4vectors: Update to 0.32.0. 
* gnu/packages/bioconductor.scm (r-s4vectors): Update to 0.32.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus 51f9943d1e
gnu: r-preprocesscore: Update to 1.56.0. 
* gnu/packages/bioconductor.scm (r-preprocesscore): Update to 1.56.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus fdf61867d6
gnu: r-icens: Update to 1.66.0. 
* gnu/packages/bioconductor.scm (r-icens): Update to 1.66.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus 0d62874ccf
gnu: r-m3c: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-m3c): Update to 1.16.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus 1be95ea425
gnu: r-rgreat: Update to 1.26.0. 
* gnu/packages/bioconductor.scm (r-rgreat): Update to 1.26.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus af5ff34f24
gnu: r-pcatools: Update to 2.6.0. 
* gnu/packages/bioconductor.scm (r-pcatools): Update to 2.6.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus b24de9bf77
gnu: r-biodist: Update to 1.66.0. 
* gnu/packages/bioconductor.scm (r-biodist): Update to 1.66.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus b9c74b05d7
gnu: r-biocworkflowtools: Update to 1.20.0. 
* gnu/packages/bioconductor.scm (r-biocworkflowtools): Update to 1.20.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus 2e0b3797af
gnu: r-biocset: Update to 1.8.0. 
* gnu/packages/bioconductor.scm (r-biocset): Update to 1.8.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus b2253e6ceb
gnu: r-biocpkgtools: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-biocpkgtools): Update to 1.12.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus a6dd46bfc5
gnu: r-biocor: Update to 1.18.0. 
* gnu/packages/bioconductor.scm (r-biocor): Update to 1.18.0.
 2021-11-07 22:34:55 +00:00
Ricardo Wurmus b9275baa5a
gnu: r-bioconcotk: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-bioconcotk): Update to 1.14.0.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus e46b5ad21b
gnu: r-multiassayexperiment: Update to 1.20.0. 
* gnu/packages/bioconductor.scm (r-multiassayexperiment): Update to 1.20.0.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus c208e75fe4
gnu: r-grohmm: Update to 1.28.0. 
* gnu/packages/bioconductor.scm (r-grohmm): Update to 1.28.0.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus 2adab76473
gnu: r-experimenthub: Update to 2.2.0. 
* gnu/packages/bioconductor.scm (r-experimenthub): Update to 2.2.0.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus f1014a64c9
gnu: r-biocviews: Update to 1.62.1. 
* gnu/packages/bioconductor.scm (r-biocviews): Update to 1.62.1.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus d13db6d1c5
gnu: r-biocstyle: Update to 2.22.0. 
* gnu/packages/bioconductor.scm (r-biocstyle): Update to 2.22.0.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus 388fa5f020
gnu: r-biocgraph: Update to 1.56.0. 
* gnu/packages/bioconductor.scm (r-biocgraph): Update to 1.56.0.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus fa77f4f154
gnu: r-bioccheck: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-bioccheck): Update to 1.30.0.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus 755fd4d87d
gnu: r-ebarrays: Update to 2.58.0. 
* gnu/packages/bioconductor.scm (r-ebarrays): Update to 2.58.0.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus 71eae6eabe
gnu: r-reactomepa: Update to 1.38.0. 
* gnu/packages/bioconductor.scm (r-reactomepa): Update to 1.38.0.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus 7ea681d5d5
gnu: r-graphite: Update to 1.40.0. 
* gnu/packages/bioconductor.scm (r-graphite): Update to 1.40.0.
[native-inputs]: Remove r-knitr.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus 7034456e2c
gnu: r-biobroom: Update to 1.26.0. 
* gnu/packages/bioconductor.scm (r-biobroom): Update to 1.26.0.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus 27791b2517
gnu: r-bioassayr: Update to 1.32.0. 
* gnu/packages/bioconductor.scm (r-bioassayr): Update to 1.32.0.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus 9e6f77714b
gnu: r-chemminer: Update to 3.46.0. 
* gnu/packages/bioconductor.scm (r-chemminer): Update to 3.46.0.
[propagated-inputs]: Add r-jsonlite and r-stringi.
 2021-11-07 22:34:54 +00:00
Ricardo Wurmus 97e275b7b9
gnu: r-bigpint: Update to 1.10.0. 
* gnu/packages/bioconductor.scm (r-bigpint): Update to 1.10.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus 8eef74bce1
gnu: r-biggr: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-biggr): Update to 1.30.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus 2b5e606027
gnu: r-hyperdraw: Update to 1.46.0. 
* gnu/packages/bioconductor.scm (r-hyperdraw): Update to 1.46.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus 14b524486d
gnu: r-hypergraph: Update to 1.66.0. 
* gnu/packages/bioconductor.scm (r-hypergraph): Update to 1.66.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus 66674da16d
gnu: r-rsbml: Update to 2.52.0. 
* gnu/packages/bioconductor.scm (r-rsbml): Update to 2.52.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus 4100392b19
gnu: r-bifet: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-bifet): Update to 1.14.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus afb55b19d4
gnu: r-bicare: Update to 1.52.0. 
* gnu/packages/bioconductor.scm (r-bicare): Update to 1.52.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus 69362a6222
gnu: r-bhc: Update to 1.46.0. 
* gnu/packages/bioconductor.scm (r-bhc): Update to 1.46.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus 8c6a8a6072
gnu: r-bgx: Update to 1.60.0. 
* gnu/packages/bioconductor.scm (r-bgx): Update to 1.60.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus 1feba301d6
gnu: r-bgmix: Update to 1.54.0. 
* gnu/packages/bioconductor.scm (r-bgmix): Update to 1.54.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus fcaf2e80ad
gnu: r-universalmotif: Update to 1.12.1. 
* gnu/packages/bioconductor.scm (r-universalmotif): Update to 1.12.1.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus cdb78e54e6
gnu: r-unifiedwmwqpcr: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-unifiedwmwqpcr): Update to 1.30.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus f61d3ac6ce
gnu: r-htqpcr: Update to 1.48.0. 
* gnu/packages/bioconductor.scm (r-htqpcr): Update to 1.48.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus de8a55d138
gnu: r-variancepartition: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-variancepartition): Update to 1.24.0.
[propagated-inputs]: Remove r-colorramps; add r-matrix and r-rlang.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus beb530df2a
gnu: r-variantfiltering: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-variantfiltering): Update to 1.30.0.
 2021-11-07 22:34:53 +00:00
Ricardo Wurmus 8dbca889e0
gnu: r-timeseriesexperiment: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-timeseriesexperiment): Update to 1.12.0.
 2021-11-07 22:34:52 +00:00
Ricardo Wurmus a326c65428
gnu: r-wavcluster: Update to 2.28.0. 
* gnu/packages/bioconductor.scm (r-wavcluster): Update to 2.28.0.
 2021-11-07 22:34:52 +00:00
Ricardo Wurmus bbfeee3ee4
gnu: r-reqon: Update to 1.40.0. 
* gnu/packages/bioconductor.scm (r-reqon): Update to 1.40.0.
 2021-11-07 22:34:52 +00:00
Ricardo Wurmus 10a7837bb8
gnu: r-seqbias: Update to 1.42.0. 
* gnu/packages/bioconductor.scm (r-seqbias): Update to 1.42.0.
 2021-11-07 22:34:52 +00:00
Ricardo Wurmus 8305dd2411
gnu: r-bigmelon: Update to 1.20.0. 
* gnu/packages/bioconductor.scm (r-bigmelon): Update to 1.20.0.
[propagated-inputs]: Add r-illuminaio.
 2021-11-07 22:34:52 +00:00
Ricardo Wurmus 0837205009
gnu: r-gdsfmt: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-gdsfmt): Update to 1.30.0.
 2021-11-07 22:34:52 +00:00
Ricardo Wurmus f3e1fe2b2f
gnu: r-watermelon: Update to 2.0.0. 
* gnu/packages/bioconductor.scm (r-watermelon): Update to 2.0.0.
[native-inputs]: Add r-knitr.
 2021-11-07 22:34:52 +00:00
Ricardo Wurmus 316bf235c0
gnu: r-roc: Update to 1.70.0. 
* gnu/packages/bioconductor.scm (r-roc): Update to 1.70.0.
[propagated-inputs]: Remove r-knitr.
[native-inputs]: Add r-knitr.
 2021-11-07 22:34:52 +00:00
Ricardo Wurmus 26e3242dba
gnu: r-genie3: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-genie3): Update to 1.16.0.
 2021-11-07 22:34:52 +00:00
Ricardo Wurmus cace0f424b
gnu: r-circrnaprofiler: Update to 1.8.0. 
* gnu/packages/bioconductor.scm (r-circrnaprofiler): Update to 1.8.0.
 2021-11-07 22:34:52 +00:00
Ricardo Wurmus 6f9be50deb
gnu: r-cicero: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-cicero): Update to 1.12.0.
 2021-11-07 22:34:52 +00:00
Ricardo Wurmus 75aed1303a
gnu: r-chicago: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-chicago): Update to 1.22.0.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus 398007448c
gnu: r-rcistarget: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-rcistarget): Update to 1.14.0.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus 20d81fa969
gnu: r-depecher: Update to 1.10.0. 
* gnu/packages/bioconductor.scm (r-depecher): Update to 1.10.0.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus 765ed6a2c9
gnu: r-mixomics: Update to 6.17.26. 
* gnu/packages/bioconductor.scm (r-mixomics): Update to 6.17.26.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus 789958567e
gnu: r-flowsom: Update to 2.2.0. 
* gnu/packages/bioconductor.scm (r-flowsom): Update to 2.2.0.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus 76a0df65d2
gnu: r-cytoml: Update to 2.6.0. 
* gnu/packages/bioconductor.scm (r-cytoml): Update to 2.6.0.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus b6410270ba
gnu: r-opencyto: Update to 2.6.0. 
* gnu/packages/bioconductor.scm (r-opencyto): Update to 2.6.0.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus 101cad4791
gnu: r-flowstats: Update to 4.6.0. 
* gnu/packages/bioconductor.scm (r-flowstats): Update to 4.6.0.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus 42df07647a
gnu: r-flowworkspace: Update to 4.6.0. 
* gnu/packages/bioconductor.scm (r-flowworkspace): Update to 4.6.0.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus a27ff891a6
gnu: r-rprotobuflib: Update to 2.6.0. 
* gnu/packages/bioconductor.scm (r-rprotobuflib): Update to 2.6.0.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus 007e62be63
gnu: r-flowclust: Update to 3.32.0. 
* gnu/packages/bioconductor.scm (r-flowclust): Update to 3.32.0.
[inputs]: Remove gsl.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus 3bffe05708
gnu: r-flowviz: Update to 1.58.0. 
* gnu/packages/bioconductor.scm (r-flowviz): Update to 1.58.0.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus 833c945998
gnu: r-ggcyto: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-ggcyto): Update to 1.22.0.
 2021-11-07 22:34:51 +00:00
Ricardo Wurmus 224eccca7a
gnu: r-ncdfflow: Update to 2.40.0. 
* gnu/packages/bioconductor.scm (r-ncdfflow): Update to 2.40.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus 9e01b4118e
gnu: r-flowmeans: Update to 1.54.0. 
* gnu/packages/bioconductor.scm (r-flowmeans): Update to 1.54.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus fe947b3c0e
gnu: r-flowcore: Update to 2.6.0. 
* gnu/packages/bioconductor.scm (r-flowcore): Update to 2.6.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus 6e07dec942
gnu: r-cytolib: Update to 2.6.0. 
* gnu/packages/bioconductor.scm (r-cytolib): Update to 2.6.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus 9e3ee89786
gnu: r-consensusclusterplus: Update to 1.58.0. 
* gnu/packages/bioconductor.scm (r-consensusclusterplus): Update to 1.58.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus 311adddab3
gnu: r-flowutils: Update to 1.58.0. 
* gnu/packages/bioconductor.scm (r-flowutils): Update to 1.58.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus c58ed007a2
gnu: r-rsubread: Update to 2.8.0. 
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.8.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus 4940f6d680
gnu: r-annotatr: Update to 1.20.0. 
* gnu/packages/bioconductor.scm (r-annotatr): Update to 1.20.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus b960dc7be5
gnu: r-biosigner: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-biosigner): Update to 1.22.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus 1e2401b767
gnu: r-ropls: Update to 1.26.0. 
* gnu/packages/bioconductor.scm (r-ropls): Update to 1.26.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus 970e3e291e
gnu: r-multidataset: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-multidataset): Update to 1.22.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus 505b5d2685
gnu: r-birewire: Update to 3.26.0. 
* gnu/packages/bioconductor.scm (r-birewire): Update to 3.26.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus c3ce59c624
gnu: r-rqc: Update to 1.28.0. 
* gnu/packages/bioconductor.scm (r-rqc): Update to 1.28.0.
 2021-11-07 22:34:50 +00:00
Ricardo Wurmus e2aa710ca4
gnu: r-quasr: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-quasr): Update to 1.34.0.
[propagated-inputs]: Remove r-biocmanager.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus 80980d827a
gnu: r-rhisat2: Update to 1.10.0. 
* gnu/packages/bioconductor.scm (r-rhisat2): Update to 1.10.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus 0187dd1a1d
gnu: r-sgseq: Update to 1.28.0. 
* gnu/packages/bioconductor.scm (r-sgseq): Update to 1.28.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus 1b455ccb4b
gnu: r-rbowtie: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-rbowtie): Update to 1.34.0.
[inputs]: Remove zlib.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus 0e507e0059
gnu: r-iclusterplus: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-iclusterplus): Update to 1.30.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus f592a0a4ee
gnu: r-biocfilecache: Update to 2.2.0. 
* gnu/packages/bioconductor.scm (r-biocfilecache): Update to 2.2.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus 2a9f215cd1
gnu: r-arrmnormalization: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-arrmnormalization): Update to 1.34.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus 5d77708905
gnu: r-progeny: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-progeny): Update to 1.16.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus ba9573b14e
gnu: r-rbowtie2: Update to 2.0.0. 
* gnu/packages/bioconductor.scm (r-rbowtie2): Update to 2.0.0.
[inputs]: Add samtools.
[propagated-inputs]: Add r-magrittr and r-rsamtools.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus efbe72addb
gnu: r-zfpkm: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-zfpkm): Update to 1.16.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus eb5f243f1b
gnu: r-zinbwave: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-zinbwave): Update to 1.16.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus d43703c41a
gnu: r-webbioc: Update to 1.66.0. 
* gnu/packages/bioconductor.scm (r-webbioc): Update to 1.66.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus b058ff1f75
gnu: r-widgettools: Update to 1.72.0. 
* gnu/packages/bioconductor.scm (r-widgettools): Update to 1.72.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus a4ab371edf
gnu: r-wiggleplotr: Update to 1.18.0. 
* gnu/packages/bioconductor.scm (r-wiggleplotr): Update to 1.18.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus 2704f4d596
gnu: r-wrench: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-wrench): Update to 1.12.0.
 2021-11-07 22:34:49 +00:00
Ricardo Wurmus e06acf2682
gnu: r-xcms: Update to 3.16.0. 
* gnu/packages/bioconductor.scm (r-xcms): Update to 3.16.0.
[propagated-inputs]: Add r-msfeatures.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus 482cec7a53
gnu: r-massspecwavelet: Update to 1.60.0. 
* gnu/packages/bioconductor.scm (r-massspecwavelet): Update to 1.60.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus 972e9f4224
gnu: r-roar: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-roar): Update to 1.30.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus b00d8a1e74
gnu: r-yarn: Update to 1.20.0. 
* gnu/packages/bioconductor.scm (r-yarn): Update to 1.20.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus 13d51fe643
gnu: r-quantro: Update to 1.28.0. 
* gnu/packages/bioconductor.scm (r-quantro): Update to 1.28.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus 7fc5084e00
gnu: r-gcrma: Update to 2.66.0. 
* gnu/packages/bioconductor.scm (r-gcrma): Update to 2.66.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus 240e1f0598
gnu: r-yapsa: Update to 1.19.0. 
* gnu/packages/bioconductor.scm (r-yapsa): Update to 1.19.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus 2b769d0981
gnu: r-somaticsignatures: Update to 2.30.0. 
* gnu/packages/bioconductor.scm (r-somaticsignatures): Update to 2.30.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus cb48316936
gnu: r-gtrellis: Update to 1.26.0. 
* gnu/packages/bioconductor.scm (r-gtrellis): Update to 1.26.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus 6a4b381268
gnu: r-yamss: Update to 1.20.0. 
* gnu/packages/bioconductor.scm (r-yamss): Update to 1.20.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus 4c18a6b644
gnu: r-ebimage: Update to 4.36.0. 
* gnu/packages/bioconductor.scm (r-ebimage): Update to 4.36.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus a69776dcb5
gnu: r-aucell: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-aucell): Update to 1.16.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus 7b6e7ac7bf
gnu: r-allelicimbalance: Update to 1.32.0. 
* gnu/packages/bioconductor.scm (r-allelicimbalance): Update to 1.32.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus 776c53a967
gnu: r-annotationtools: Update to 1.68.0. 
* gnu/packages/bioconductor.scm (r-annotationtools): Update to 1.68.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus e79f4779ce
gnu: r-abaenrichment: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-abaenrichment): Update to 1.24.0.
 2021-11-07 22:34:48 +00:00
Ricardo Wurmus b7057dbac6
gnu: r-gofuncr: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-gofuncr): Update to 1.14.0.
 2021-11-07 22:34:47 +00:00
Ricardo Wurmus 46de5a7503
gnu: r-atacseqqc: Update to 1.18.0. 
* gnu/packages/bioconductor.scm (r-atacseqqc): Update to 1.18.0.
 2021-11-07 22:34:47 +00:00
Ricardo Wurmus 2ba1756960
gnu: r-genomicscores: Update to 2.6.0. 
* gnu/packages/bioconductor.scm (r-genomicscores): Update to 2.6.0.
 2021-11-07 22:34:47 +00:00
Ricardo Wurmus 0b8b2b63a2
gnu: r-motifstack: Update to 1.38.0. 
* gnu/packages/bioconductor.scm (r-motifstack): Update to 1.38.0.
 2021-11-07 22:34:47 +00:00
Ricardo Wurmus 9a27f82d03
gnu: r-motifbreakr: Update to 2.8.0. 
* gnu/packages/bioconductor.scm (r-motifbreakr): Update to 2.8.0.
 2021-11-07 22:34:47 +00:00
Ricardo Wurmus a906e93378
gnu: r-motifdb: Update to 1.36.0. 
* gnu/packages/bioconductor.scm (r-motifdb): Update to 1.36.0.
 2021-11-07 22:34:47 +00:00
Ricardo Wurmus 38ca6643c4
gnu: r-rgadem: Update to 2.42.0. 
* gnu/packages/bioconductor.scm (r-rgadem): Update to 2.42.0.
 2021-11-07 22:34:47 +00:00
Ricardo Wurmus 4f6f03fd6e
gnu: r-bacon: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-bacon): Update to 1.22.0.
 2021-11-07 22:34:47 +00:00
Ricardo Wurmus 6b27532fea
gnu: r-abseqr: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-abseqr): Update to 1.12.0.
 2021-11-07 22:34:47 +00:00