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Author SHA1 Message Date
Ludovic Courtès
f9d8206e5b
news: Fix typo. 
* etc/news.scm: Remove 'x' introduced by mistake in
dfdcd9d812.
 2021-06-08 09:07:36 +02:00
Efraim Flashner
61bce4d143
gnu: python-mappy: Move to (gnu packages bioinformatics). 
* gnu/packages/python-xyz.scm (python-mappy): Move to ...
* gnu/packages/bioinformatics.scm: ... here.
 2021-06-08 09:50:55 +03:00
Maxim Cournoyer
fa43419a0f
gnu: jami: Update to 20210606.1.e2f9490. 
* gnu/packages/jami.scm (jami): Update to 20210606.1.e2f9490.
(pjproject-jami)[0019-ignore-down-interfaces]: Apply new custom patch.
(jami-qt)[source]: Use %jami-sources, which now includes the Qt client.
[phases]{change-directory}: New phase.
 2021-06-08 00:04:07 -04:00
Maxim Cournoyer
6bd47fc826
gnu: jami: Always include the custom Jami patches with the sources. 
Before this change, there was a Jami origin containing the sources with the
patches, and another one containing the sources but with the patches removed.
Unify the source to always contain the patches, which adds just 1 MiB to the
corresponding tarball and simplifies things.

* gnu/packages/jami.scm (%jami-sources): Make it a simple variable.  Move the
docstring to a comment.  Only remove the tarballs, always keeping the patches
with the sources.  Adjust the comments.
(%sfl-patches): Remove variable.
(jami-apply-dependency-patches): Rename to...
(jami-apply-custom-patches): ... this.  Adjust the input label used to
'jami-sources'.
(pjproject-jami): Replace %sfl-patches by %jami-sources.  Adjust following the
renaming of the jami-apply-custom-patches procedure.
(ffmpeg-jami): Likewise.  Do not make a temporary binding, simply call the
unquoted jami-apply-custom-patches procedure.
 2021-06-08 00:03:59 -04:00
Maxim Cournoyer
d2686be816
gnu: opendht: Update to 2.2.0rc7-1.c8a0b44. 
* gnu/packages/networking.scm (opendht): Update to 2.2.0rc7-1.c8a0b44.
 2021-06-08 00:02:13 -04:00
Leo Famulari
b1372ad8cb
gnu: Add l3afpad. 
* gnu/packages/text-editors.scm (l3afpad): New variable.
 2021-06-07 19:23:39 -04:00
Ricardo Wurmus
4a01e00a13
gnu: pigx-rnaseq: Update to 0.0.17. 
* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.17.
[arguments]: Remove "use-latest-salmon" phase; add "set-timezone" phase.
[inputs]: Replace r-gprofiler with r-gprofiler2; add r-ggpubr and
python-deeptools.
[native-inputs]: Add tzdata.
 2021-06-08 00:53:06 +02:00
Leo Famulari
fc58d9ac66
gnu: ghostwriter: Update to 2.0.1. 
* gnu/packages/text-editors.scm (ghostwriter): Update to 2.0.1.
 2021-06-07 18:20:07 -04:00
Nicolas Goaziou
69f56c2767
gnu: python-pikepdf: Update to 2.12.2. 
* gnu/packages/python-xyz.scm (python-pikepdf): Update to 2.12.2.
 2021-06-07 23:29:52 +02:00
Jack Hill
732da2201e
gnu: dino: Update to 0.2.1 [fixes CVE-2021-33896]. 
* gnu/packages/messaging.scm (dino): Update to 0.2.1.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2021-06-07 16:51:38 -04:00
Sergey Trofimov
68dcdf6ea7
gnu: qtwebengine: Enable H.264 WebRTC encoding. 
* gnu/packages/qt.scm (qtwebengine)[inputs]: Add openh264.
[source]: Remove bundled openh264.
[arguments]: Adjust build scripts accordingly in the 'substitute-source' phase.
Pass '-webengine-proprietary-codecs' in the custom 'configure' phase.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2021-06-07 16:51:35 -04:00
Xinglu Chen
920dd34a34
gnu: youtube-dl: Update to 2021.06.06. 
* gnu/packages/video.scm (youtube-dl): Update to 2021.06.06.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
 2021-06-07 21:52:37 +02:00
Xinglu Chen
245a65bbe1
gnu: isync: Update to 1.4.2. 
* gnu/packages/mail.scm (isync): Update to 1.4.2.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
 2021-06-07 21:52:31 +02:00
Ricardo Wurmus
be067c908c
gnu: pigx-rnaseq: Adjust to upgrade of salmon. 
* gnu/packages/bioinformatics.scm (pigx-rnaseq)[arguments]: Add phase
"use-latest-salmon".
 2021-06-07 16:50:33 +02:00
Ricardo Wurmus
bb38287570
gnu: salmon: Update to 1.4.0. 
* gnu/packages/bioinformatics.scm (salmon): Update to 1.4.0.
[arguments]: Remove unnecessary flags, add other soon-to-be-unnecessary flags;
remove "prepare-rapmap" phase, add "prepare-pufferfish" phase, add
"fix-error-message-in-tests" phase, simplify "use-system-libraries" phase.
[inputs]: Add curl and pufferfish sources; remove libdivsufsort and rapmap
sources.
 2021-06-07 16:50:33 +02:00
Ricardo Wurmus
483cdf36a5
gnu: cereal: Update to 1.3.0. 
* gnu/packages/serialization.scm (cereal): Update to 1.3.0.
 2021-06-07 16:50:33 +02:00
Ricardo Wurmus
9875dae429
gnu: macs: Update to 2.2.7.1. 
* gnu/packages/bioinformatics.scm (macs): Update to 2.2.7.1.
 2021-06-07 16:50:33 +02:00
Ricardo Wurmus
1ace395f9c
gnu: libgff: Update to 2.0.0. 
* gnu/packages/bioinformatics.scm (libgff): Update to 2.0.0.
[home-page]: Update to new home.
 2021-06-07 16:50:33 +02:00
Ricardo Wurmus
176513f5f3
gnu: jellyfish: Update to 2.3.0. 
* gnu/packages/bioinformatics.scm (jellyfish): Update to 2.3.0.
[arguments]: Disable SSE to avoid tuning to the build node's CPU.
[native-inputs]: Replace python-2 with python-wrapper.
[license]: Update.
 2021-06-07 16:50:33 +02:00
Pierre Neidhardt
e3611cc412
gnu: sbcl-fof: Update to 0.2.0. 
* gnu/packages/lisp-xyz.scm (sbcl-fof): Update to 0.2.0.
 2021-06-07 14:00:18 +02:00
Christopher Baines
26499816a9
etc: Add "bordeaux.guix.gnu.org.pub" public key file. 
* etc/substitutes/bordeaux.guix.gnu.org.pub: New file.
* Makefile.am (dist_pkgdata_DATA): Add it.
* guix/self.scm (miscellaneous-files): Add
"share/guix/bordeaux.guix.gnu.org.pub".
 2021-06-07 11:31:17 +01:00
Christopher Baines
e536fc1786
gnu: guix-build-coordinator: Update to 0-31.4a47417. 
* gnu/packages/package-management.scm (guix-build-coordinator): Update to
0-31.4a47417.
 2021-06-07 10:35:42 +01:00
Ricardo Wurmus
1ac8f05103
gnu: multiqc: Update to 1.10.1. 
* gnu/packages/bioinformatics.scm (multiqc): Update to 1.10.1.
[arguments]: Remove build phase "relax-requirements"; replace "check" phase.
[propagated-inputs]: Add python-coloredlogs, python-future, python-networkx,
and python-rich; remove python-nose.
[native-inputs]: Add python-pytest and the test suite.
 2021-06-07 10:53:16 +02:00
Ricardo Wurmus
856de4f61c
gnu: Add python-rich. 
* gnu/packages/python-xyz.scm (python-rich): New variable.
 2021-06-07 10:53:16 +02:00
Ricardo Wurmus
17f3194150
gnu: python-dataclasses: Update to 0.8. 
* gnu/packages/python-xyz.scm (python-dataclasses): Update to 0.8.
 2021-06-07 10:53:16 +02:00
Ricardo Wurmus
f41e56dcf1
gnu: python-attrs: Update to 21.2.0. 
* gnu/packages/python-xyz.scm (python-attrs): Update to 21.2.0.
(python-attrs-bootstrap): Keep this at 19.3.0 to avoid mass rebuilds.
 2021-06-07 10:53:16 +02:00
Ricardo Wurmus
12964df69a
gnu: python-attrs: Conditionally execute tests. 
* gnu/packages/python-xyz.scm (python-attrs)[arguments]: Wrap "check" phase in
conditional expression.
 2021-06-07 10:53:16 +02:00
Mădălin Ionel Patrașcu
a8c653f0fc
gnu: python-hic2cool: Update to 0.8.3. 
* gnu/packages/bioinformatics.scm (python-hic2cool): Update to 0.8.3.
[source]: Download using git-fetch.
[arguments]: Enable tests. Add phase to make test data writable.
[propagated-inputs]: Add python-h5py, python-numpy, python-pandas,
python-scipy.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-06-07 10:38:54 +03:00
Vinicius Monego
e05100aafd
gnu: gtg: Update to 0.5. 
* gnu/packages/gnome.scm (gtg): Update to 0.5.
[inputs]: Add gdk-pixbuf+svg, pango, python-lxml.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-06-07 10:38:54 +03:00
Vinicius Monego
1acc0cfbb9
gnu: srain: Update to 1.2.2. 
* gnu/packages/irc.scm (srain): Update to 1.2.2.
[build-system]: Switch to meson-build-system.
[arguments]: Add #:glib-or-gtk?. Remove 'fix-permissions phase.
[native-inputs]: Add python-sphinx.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-06-07 10:38:54 +03:00
Matthew James Kraai
d0b3af53e0
gnu: xf86-video-vesa: Update to 2.5.0. 
* gnu/packages/xorg.scm (xf86-video-vesa): Update to 2.5.0.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-06-07 10:38:54 +03:00
Lars-Dominik Braun
dbe607925a
gnu: xpra: Update to 4.2. 
Fixes <https://issues.guix.gnu.org/issue/48890>.

* gnu/packages/xorg.scm (xpra): Update to 4.2.
[source]: Switch to ".tar.gz" archive and update patch file.
[native-inputs]: Add pandoc.
[arguments]: Adjust custom 'fix-paths phase for changes in source.
* gnu/packages/patches/xpra-4.2-systemd-run.patch: Adapt to new version
and rename file.
* gnu/local.mk (dist_patch_DATA): Rename file.

Signed-off-by: Lars-Dominik Braun <lars@6xq.net>
 2021-06-07 09:33:57 +02:00
Ludovic Courtès
4604d43c0e
gnu: gnutls@3.6.16: Fix cross-compilation. 
Fixes <https://bugs.gnu.org/48771>.
Reported by Eric Brown <ecbrown@ericcbrown.com>.

* gnu/packages/tls.scm (gnutls-3.6.16)[arguments]: New field.
 2021-06-06 23:12:18 +02:00
Vinicius Monego
c335fbf3cb
gnu: libheif: Update to 1.12.0. 
* gnu/packages/image.scm (libheif): Update to 1.12.0.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-06-06 23:12:18 +02:00
Vinicius Monego
13d8443acf
gnu: homebank: Update to 5.5.2. 
* gnu/packages/finance.scm (homebank): Update to 5.5.2.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-06-06 23:12:18 +02:00
Vinicius Monego
436dcb4ffa
gnu: cozy: Update to 1.0.3. 
* gnu/packages/ebook.scm (cozy): Update to 1.0.3.
[inputs]: Add granite, libgee.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-06-06 23:12:18 +02:00
Vinicius Monego
a3082797b3
gnu: drawing: Update to 0.8.0. 
* gnu/packages/gnome.scm (drawing): Update to 0.8.0.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-06-06 23:12:18 +02:00
c4droid
018e09d4c8
gnu: Add pwntools. 
* gnu/packages/cybersecurity.scm (pwntools): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-06-06 23:12:17 +02:00
Xinglu Chen
b8baebae6a
doc: Add reference for ‘git-version’ and ‘hg-version’. 
* doc/contributing.texi (Version Numbers): Document ‘git-version’ and
  ‘hg-version’.
* doc/guix.texi (package Reference): Reference ‘Version Numbers’ section for
  version naming guidelines.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-06-06 23:12:17 +02:00
Leo Prikler
bde4fc00c0
gnu: komikku: Update to 0.29.1. 
* gnu/packages/gnome.scm (komikku): Update to 0.29.1.
 2021-06-06 21:56:35 +02:00
Tobias Geerinckx-Rice
d102e9a139
gnu: dash: Update to 0.5.11.4. 
* gnu/packages/shells.scm (dash): Update to 0.5.11.4.
 2021-06-06 20:51:21 +02:00
Tobias Geerinckx-Rice
5c38e5e24e
gnu: pidgin: Update to 2.14.5. 
* gnu/packages/messaging.scm (pidgin): Update to 2.14.5.
 2021-06-06 20:51:20 +02:00
Mathieu Othacehe
a068ed6a5f
scripts: substitute: Cache connection when looking for narinfos. 
The process-substitution procedure is opening two distinct connections. The
first one when looking for narinfo by calling lookup-narinfo and the other one
when fetching nar files.

Cache the connection when looking for narinfos so that process-substitution
only opens one connection.

* guix/scripts/substitute.scm (lookup-narinfo): Cache connection by using
open-connection-for-uri/cached.
 2021-06-06 18:54:29 +02:00
Maxime Devos
82b0e27de1
lint: tests-true: Check if tests are enabled when cross-compiling. 
* guix/lint.scm (check-tests-true): New linter.
(%local-checkers)[tests-true]: Add it.
* tests/lint.scm ("tests-true: #:tests? must not be set to #t")
("tests-true: absent #:tests? is acceptable")
("tests-true: #:tests? #f is acceptable")
("tests-true: #:tests? #t acceptable when compiling natively"): Test it.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2021-06-06 18:49:12 +02:00
Solene Rapenne via Guix-patches via
e2ad110f4c
gnu: vlc: Update to 3.0.14. 
* gnu/packages/video.scm (vlc): Update to 3.0.14.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
 2021-06-06 18:34:12 +02:00
Tobias Geerinckx-Rice
d00713d49e
gnu: git: Update to 2.32.0. 
* gnu/packages/version-control.scm (git): Update to 2.32.0.
 2021-06-06 18:34:12 +02:00
Denis 'GNUtoo' Carikli
3c401ca6df
gnu: Add matterbridge. 
* gnu/packages/messaging.scm (matterbridge): New variable.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2021-06-06 18:29:36 +02:00
Hartmut Goebel
5d4bd2ee94
gnu: Add python-pytest-mp. 
* gnu/packages/python-check.scm (python-pytest-mp): New variable.
 2021-06-06 17:50:33 +02:00
Hartmut Goebel
d8fed768a8
gnu: Add python-asn1tools. 
* gnu/packages/python-xyz.scm (python-asn1tools): New variable.
 2021-06-06 17:50:33 +02:00
pukkamustard
52dc188e12
gnu: Add ocaml-ppx-cold. 
* gnu/packages/ocaml.scm (ocaml-ppx-cold): New variable.

Signed-off-by: Julien Lepiller <julien@lepiller.eu>
 2021-06-06 17:17:22 +02:00