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67359 Commits

Author SHA1 Message Date
Lars-Dominik Braun
82344f5936
gnu: Add r-stars. 
* gnu/packages/cran.scm (r-stars): New variable.
 2021-03-15 10:53:15 +01:00
Lars-Dominik Braun
a1dd43e4cd
gnu: Add r-lwgeom. 
* gnu/packages/cran.scm (r-lwgeom): New variable.
 2021-03-15 10:53:14 +01:00
Lars-Dominik Braun
5ce5e49c10
gnu: Add r-packcircles. 
* gnu/packages/cran.scm (r-packcircles): New variable.
 2021-03-15 10:53:13 +01:00
Lars-Dominik Braun
5d719fe608
gnu: Add r-readtext. 
* gnu/packages/cran.scm (r-readtext): New variable.
 2021-03-15 10:53:12 +01:00
Lars-Dominik Braun
6f688733b5
gnu: Add r-antiword. 
* gnu/packages/cran.scm (r-antiword): New variable.
 2021-03-15 10:53:11 +01:00
Lars-Dominik Braun
275b7987c0
gnu: Add r-pdftools. 
* gnu/packages/cran.scm (r-pdftools): New variable.
 2021-03-15 10:53:10 +01:00
Lars-Dominik Braun
52c70fb66e
gnu: Add r-qpdf. 
Cannot add to (gnu packages pdf) due to circular module dependency.

* gnu/packages/cran.scm (r-qpdf): New variable.
 2021-03-15 10:53:10 +01:00
Lars-Dominik Braun
03af89bd9e
gnu: Add r-readods. 
* gnu/packages/cran.scm (r-readods): New variable.
 2021-03-15 10:53:09 +01:00
Lars-Dominik Braun
cb360afd66
gnu: Add r-streamr 
* gnu/packages/cran.scm (r-streamr): New variable.
 2021-03-15 10:53:08 +01:00
Lars-Dominik Braun
a64e355ea6
gnu: Add r-ndjson. 
* gnu/packages/cran.scm (r-ndjson): New variable.
 2021-03-15 10:53:07 +01:00
Lars-Dominik Braun
ee4ba54271
gnu: gzstream: Add PIC flag. 
* gnu/packages/compression.scm (gzstream) [arguments]: Add phase 'use-pic.
 2021-03-15 10:53:04 +01:00
Lars-Dominik Braun
e415003202
gnu: Add r-striprtf. 
* gnu/packages/cran.scm (r-striprtf): New variable.
 2021-03-15 10:53:03 +01:00
Lars-Dominik Braun
804fad34e8
gnu: Add r-textclean. 
* gnu/packages/cran.scm (r-textclean): New variable.
 2021-03-15 10:53:02 +01:00
Lars-Dominik Braun
584c868fbd
gnu: Add r-english. 
* gnu/packages/cran.scm (r-english): New variable.
 2021-03-15 10:53:01 +01:00
Lars-Dominik Braun
c3a1373c15
gnu: Add r-lexicon. 
* gnu/packages/cran.scm (r-lexicon): New variable.
 2021-03-15 10:53:00 +01:00
Lars-Dominik Braun
bc82567b0b
gnu: Add r-syuzhet. 
* gnu/packages/cran.scm (r-syuzhet): New variable.
 2021-03-15 10:52:59 +01:00
Lars-Dominik Braun
d332c5c7f2
gnu: Add r-textshape. 
* gnu/packages/cran.scm (r-textshape): New variable.
 2021-03-15 10:52:58 +01:00
Lars-Dominik Braun
ed48898931
gnu: Add r-dtt. 
* gnu/packages/algebra.scm (r-dtt): New variable.
 2021-03-15 10:52:57 +01:00
Lars-Dominik Braun
4bc1707dba
gnu: Add r-mgsub. 
* gnu/packages/cran.scm (r-mgsub): New variable.
 2021-03-15 10:52:56 +01:00
Lars-Dominik Braun
ae807fdb37
gnu: Add r-qdapregex. 
* gnu/packages/cran.scm (r-qdapregex): New variable.
 2021-03-15 10:52:55 +01:00
Lars-Dominik Braun
c4e826bbd2
gnu: Add r-esc. 
* gnu/packages/statistics.scm (r-esc): New variable.
 2021-03-15 10:52:52 +01:00
Mark H Weaver
d059485257
gnu: unzip: Remove redundant and unused "unzip-symlink.patch". 
This is a followup to commit 31d289a475,
which added, but did not use, "unzip-symlink.patch", which is
redundant with the pre-existing "unzip-initialize-symlink-flag.patch".

* gnu/packages/patches/unzip-symlink.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2021-03-14 19:16:17 -04:00
Leo Famulari
b082ea9406
gnu: OpenSSL: Refer to the version number in a more robust way. 
* gnu/packages/tls.scm (openssl)[arguments]: Replace use of VERSION with
(PACKAGE-VERSION THIS-PACKAGE).
(openssl/fixed): Adjust accordingly.
 2021-03-14 16:33:12 -04:00
Leo Famulari
bb2427fa28
gnu: ImageMagick: Refer to the version number in a more robust way. 
* gnu/packages/imagemagick.scm (imagemagick)[arguments]: Replace use of VERSION
with (PACKAGE-VERSION THIS-PACKAGE).
(imagemagick/fixed): Adjust accordingly.
 2021-03-14 16:33:12 -04:00
Leo Famulari
43cbb05f4b
gnu: libtiff: Refer to the version number in a more robust way. 
* gnu/packages/image.scm (libtiff)[arguments]: Replace use of VERSION
with (PACKAGE-VERSION THIS-PACKAGE).
(libtiff/fixed): Adjust accordingly.
 2021-03-14 16:33:08 -04:00
Leo Prikler
d4e29f3628
gnu: libhandy: Update to 1.2.0. 
* gnu/packages/gnome.scm (libhandy): Update to 1.2.0.
 2021-03-14 19:47:08 +01:00
Mathieu Othacehe
cbfcbb79df
ci: Support packages with multiple channels. 
This is a follow-up of 61a1165340. For packages
provided by external channels, package-channels procedure will return at least
two channels. Take it into account.

* gnu/ci.scm (cuirass-jobs): Fix channels subset argument.
 2021-03-14 19:43:35 +01:00
Eric Bavier
b76762a9b7
gnu: Update OnionShare to 2.3.1. 
* gnu/packages/tor.scm (onionshare-cli): New variable.
(onionshare): Inherit from onionshare-cli.
[arguments]: Add patch-tests and install-data phases.  Adjust check phase for
new tests.
[inputs]: Remove python-pycryptodome, python-nautilus, python-sip,
python-stem, and python-pyqt.  Add onionshare-cli, python-shiboken-2,
python-pyside-2, python-qrcode.
[description]: Use new upstream description.
 2021-03-14 13:24:22 -05:00
Eric Bavier
620206b680
gnu: python-eventlet: Add missing dependencies. 
* gnu/packages/python-xyz.scm (python-eventlet)[propagated-inputs]: Add
python-dnspython and python-monotonic.
 2021-03-14 13:24:22 -05:00
Eric Bavier
5a31eb7d35
gnu: Add python-flask-socketio. 
* gnu/packages/python-web.scm (python-flask-socketio): New variable.
 2021-03-14 13:24:21 -05:00
Eric Bavier
078f3288e2
gnu: Add python-socketio. 
* gnu/packages/python-web.scm (python-socketio): New variable.
 2021-03-14 13:24:21 -05:00
Eric Bavier
7164d2105a
gnu: Add python-engineio 
* gnu/packages/python-web.scm (python-engineio): New variable.
 2021-03-14 13:24:21 -05:00
Eric Bavier
af25357b7d
gnu: Add python-bidict. 
* gnu/packages/python-xyz.scm (python-bidict): New variable.
 2021-03-14 13:24:21 -05:00
Eric Bavier
30f5381487
gnu: Add python-sortedcollections. 
* gnu/packages/python-xyz.scm (python-sortedcollections): New variable.
 2021-03-14 13:24:21 -05:00
Eric Bavier
207aa62e6b
gnu: Add python-sphinx-autodoc-typehints. 
* gnu/packages/sphinx.scm (python-sphinx-autodoc-typehints): New variable.
 2021-03-14 13:24:21 -05:00
Eric Bavier
b15720182e
gnu: Add python-sphobjinv. 
* gnu/packages/sphinx.scm (python-sphobjinv): New variable.
 2021-03-14 13:24:21 -05:00
Nicolas Goaziou
2babf7d831
gnu: pdfarranger: Update to 1.7.1. 
* gnu/packages/pdf.scm (pdfarranger): Update to 1.7.1.
 2021-03-14 19:16:55 +01:00
Efraim Flashner
e598556ee5
gnu: alacritty: Adjust to changes in the cargo-build-system. 
* gnu/packages/terminals.scm (alacritty)[arguments]: Add flag to not
install source.
 2021-03-14 19:52:44 +02:00
Efraim Flashner
21ead0fc5b
gnu: newsboat: Adjust to changes in cargo-build-system. 
* gnu/packages/syndication.scm (newsboat)[arguments]: Add flag to not
install source.
 2021-03-14 19:52:44 +02:00
Efraim Flashner
7af3daa757
gnu: librsvg-next: Adjust to changes in cargo-build-system. 
* gnu/packages/gnome.scm (librsvg-next)[arguments]: Add flag to not
install source.
 2021-03-14 19:52:44 +02:00
Mathieu Othacehe
61a1165340
ci: Add channel subset support. 
* gnu/ci.scm (cuirass-jobs): Add channel subset support.
 2021-03-14 18:19:41 +01:00
Jan (janneke) Nieuwenhuizen
7327295462
gnu: mes: Remove aarch64-linux from supported-systems. 
* gnu/packages/mes.scm (mes)[supported-systems]: Remove aarch64-linux.
Thinko: mes only builds on aarch64-linux using --system=armhf-linux.
 2021-03-14 17:32:01 +01:00
Jan (janneke) Nieuwenhuizen
7982adb40a
gnu: mescc-tools: Build for armhf-linux and aarch64-linux too. 
* gnu/packages/mes.scm (mescc-tools)[supported-systems]: New field, overriding
the v0.5.2 version.
 2021-03-14 16:49:49 +01:00
Jan (janneke) Nieuwenhuizen
a9d537594d
bootstrap: mescc-tools-static: Base arguments on version 0.5.2. 
* gnu/packages/make-bootstrap.scm (%mescc-tools-static)[arguments]: Use
fixed package-arguments of mescc-tools-0.5.2.
 2021-03-14 16:43:46 +01:00
Jan (janneke) Nieuwenhuizen
1d684aedf8
gnu: mes: Update to 0.23. 
* gnu/packages/mes.scm (mes)[source]: Update to 0.23.
[supported-systems]: Add aarch64-linux, armhf-linux.
(mes-rb5)[version,source,supported-systems]: Revert to v0.22.
 2021-03-14 12:10:07 +01:00
Jan (janneke) Nieuwenhuizen
ba485217b8
gnu: mes: Update to nyacc-1.00.2. 
* gnu/packages/mes.scm (mes)[propagated-inputs]: Use nyacc-1.00.2.
 2021-03-14 11:50:55 +01:00
Jan (janneke) Nieuwenhuizen
8b05461cab
gnu: Add nyacc-1.00.2. 
* gnu/packages/mes.scm (nyacc-1.00.2): New variable.
 2021-03-14 11:50:51 +01:00
Jan (janneke) Nieuwenhuizen
87a8eaf671
gnu: mescc-tools: Update to 0.7.0. 
* gnu/packages/mes.scm (mescc-tools)[source]: Update to 0.7.0.
[arguments]: Add patch-prefix phase to remove hardcoded "/usr/bin".
 2021-03-14 11:50:43 +01:00
Lars-Dominik Braun
930d22883d
gnu: font-libertinus: Update to 7.040. 
* gnu/packages/fonts.scm (font-libertinus): Update to 7.040.
 2021-03-14 10:45:58 +01:00
Lars-Dominik Braun
cd3b4c85f9
gnu: font-abattis-cantarell: Update to 0.301. 
* gnu/packages/fonts.scm (font-abattis-cantarell): Update to 0.301.
 2021-03-14 10:39:43 +01:00
Lars-Dominik Braun
dc1e643601
gnu: font-ibm-plex: Update to 5.1.3. 
* gnu/packages/fonts.scm (font-ibm-plex): Update to 5.1.3.
 2021-03-14 10:30:35 +01:00
Léo Le Bouter
703843922a
gun: unzip/fixed: Fix tests on 32-bit systems. 
* gnu/packages/patches/unzip-32bit-zipbomb-fix.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/compression.scm (unzip/fixed): Apply patch.
 2021-03-14 09:09:45 +01:00
Efraim Flashner
699a56e3a3
gnu: unzip: Fix patch name. 
This is what happens when you push without testing your changes :/

* gnu/packages/compression.scm (unzip)[source]: Adjust patch name.
 2021-03-14 09:27:43 +02:00
Efraim Flashner
cd73a812a3
gnu: unzip: Rename patch. 
* gnu/packages/patches/unzip-case-insensitive.patch: Rename from
unzip-caseinsensitive.patch.
 2021-03-14 09:25:21 +02:00
Léo Le Bouter
31d289a475
gnu: unzip: Add patches from Fedora [security fixes]. 
Non-exhaustively fixes CVE-2016-9844, CVE-2018-1000035, CVE-2018-18384, and
CVE-2019-13232.

* gnu/packages/patches/unzip-COVSCAN-fix-unterminated-string.patch,
gnu/packages/patches/unzip-CVE-2016-9844.patch,
gnu/packages/patches/unzip-CVE-2018-1000035.patch,
gnu/packages/patches/unzip-CVE-2018-18384.patch,
gnu/packages/patches/unzip-case-insensitive.patch,
gnu/packages/patches/unzip-alt-iconv-utf8-print.patch,
gnu/packages/patches/unzip-alt-iconv-utf8.patch,
gnu/packages/patches/unzip-close.patch,
gnu/packages/patches/unzip-exec-shield.patch,
gnu/packages/patches/unzip-fix-recmatch.patch,
gnu/packages/patches/unzip-manpage-fix.patch,
gnu/packages/patches/unzip-overflow.patch,
gnu/packages/patches/unzip-symlink.patch,
gnu/packages/patches/unzip-timestamp.patch,
gnu/packages/patches/unzip-valgrind.patch,
gnu/packages/patches/unzip-x-option.patch,
gnu/packages/patches/unzip-zipbomb-manpage.patch,
gnu/packages/patches/unzip-zipbomb-part1.patch,
gnu/packages/patches/unzip-zipbomb-part2.patch,
gnu/packages/patches/unzip-zipbomb-part3.patch: New patches.
* gnu/local.mk (dist_patch_DATA): Register them.
* gnu/packages/compression.scm (unzip/fixed): New variable. Apply patches.
(unzip)[replacement]: Graft.
 2021-03-14 06:11:20 +01:00
Léo Le Bouter
92d0949a26
gnu: webkitgtk: Enable WOFF2 support. 
* gnu/packages/webkit.scm (webkitgtk):
[arguments]<#:configure-flags>: Remove "-DUSE_WOFF2=OFF".
[inputs]: Add woff2.
 2021-03-14 06:07:10 +01:00
Léo Le Bouter
37b5e79154
gnu: wpewebkit: Update to 2.30.5 [security fixes]. 
* gnu/packages/webkit.scm (wpewebkit): Update to 2.30.5.
[arguments]<#:configure-flags>: Add "-DUSE_SYSTEMD=OFF" and
"-DUSE_GSTREAMER_GL=OFF". Change "-DENABLE_ENCRYPTED_MEDIA=ON" to
"-DENABLE_ENCRYPTED_MEDIA=OFF" (DRM).
 2021-03-14 06:04:33 +01:00
Ludovic Courtès
8154beffd8
gnu: guix: Update to c8887a5. 
* gnu/packages/package-management.scm (guix): Update to c8887a5.
 2021-03-13 23:59:03 +01:00
Ludovic Courtès
c8887a5c6e
gnu: emacs-elfeed-score: Fix description Texinfo syntax. 
* gnu/packages/emacs-xyz.scm (emacs-elfeed-score)[description]:
Remove extra "@".
 2021-03-13 23:22:37 +01:00
Tobias Geerinckx-Rice
faf271e96e
gnu: sudo: Update to 1.9.6. 
* gnu/packages/admin.scm (sudo): Update to 1.9.6.
 2021-03-13 22:16:56 +01:00
Tobias Geerinckx-Rice
15b39826ff
gnu: quagga: Use archived source tarball. 
* gnu/packages/networking.scm (quagga)[source]: Download from Fossies archive.
 2021-03-13 17:06:50 +01:00
Tobias Geerinckx-Rice
ca8c2d1750
gnu: console-setup: Update to 1.201. 
* gnu/packages/xorg.scm (console-setup): Update to 1.201.
 2021-03-13 15:36:53 +01:00
Tobias Geerinckx-Rice
8698829587
gnu: qjackctl: Update to 0.9.1. 
* gnu/packages/audio.scm (qjackctl): Update to 0.9.1.
 2021-03-13 15:36:53 +01:00
Gerd Heber
cb70485201
gnu: Add syscall-intercept. 
* gnu/packages/engineering.scm (syscall-intercept): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 15:11:46 +01:00
Xinglu Chen
aa0598974b
gnu: Add guile-f-scm. 
* gnu/packages/guile-xyz.scm (guile-f-scm): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 14:58:28 +01:00
Xinglu Chen
e06b1ebcaa
gnu: Add l2md. 
* gnu/packages/mail.scm (l2md): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 14:52:37 +01:00
Andy Tai
80a4b150fc
gnu: terminator: Update to 2.1.0. 
* gnu/packages/gnome.scm (terminator): Update to 2.1.0.
[inputs]: Add python, python-dbus, python-notify2.
[arguments]: Add a phase to handle Python DBus. Disable tests.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 14:43:49 +01:00
Milkey Mouse
de84dfbed5
gnu: opencl-headers: Update to 2020.12.18 
* gnu/packages/opencl.scm (opencl-headers): Update to 2020.12.18.
[version]: Use the latest tagged version, now that they exist.
[arguments]: Replace all phases with trivial header copy.
[license]: Change license to Apache 2.0 (happened in March 2020).

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 14:31:51 +01:00
Zhu Zihao
2ee7524c76
gnu: opencc: Update to 1.1.1. 
* gnu/packages/textutils.scm(opencc): Update to 1.1.1
[arguments]<#:out-of-source?>: Build in source tree.
<#:parallel-build?>: Disable.
<#:phases>: In "patch-3rd-party-references", fix the version of dependency.
Add phases "patch-python-binding-installation", "install-python-binding"
and "enable-bytecode-determinism".
[native-inputs]: Add python-setuptools and python-wheel.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 14:26:02 +01:00
Nicolas Goaziou
5e753287c8
gnu: cagebreak: Update to 1.6.0. 
* gnu/packages/wm.scm (cagebreak): Update to 1.6.0.
 2021-03-13 14:17:32 +01:00
Vinicius Monego
0455c19fa5
gnu: python-scikit-image: Enable tests. 
* gnu/packages/python-science.scm (python-scikit-image)[arguments]: Add phases
related to tests.
[native-inputs]: Add python-codecov, python-flake8, python-pytest,
python-pytest-cov, python-pytest-localserver, python-wheel.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 13:56:07 +01:00
Vinicius Monego
36062f16b6
gnu: python-scikit-image: Update to 0.18.1. 
* gnu/packages/python-science.scm (python-scikit-image): Update to 0.18.1.
[propagated-inputs]: Remove python-six.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 13:55:15 +01:00
Vinicius Monego
211c933077
gnu: Add python-pooch. 
* gnu/packages/python-xyz.scm (python-pooch): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 13:54:58 +01:00
Xinglu Chen
c0641c0965
gnu: Add emacs-org-msg. 
* gnu/packages/emacs-xyz.scm (emacs-org-msg): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 13:53:49 +01:00
Xinglu Chen
fe53300263
gnu: Add emacs-elfeed-score. 
* gnu/packages/emacs-xyz.scm (emacs-elfeed-score): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 13:50:54 +01:00
Stefan Reichör
71c97c89b0
gnu: Add xe. 
* gnu/packages/parallel.scm (xe): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 13:46:26 +01:00
LibreMiami
8dc25b4bb3
gnu: Add clikan. 
* gnu/packages/task-management.scm (clikan): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 12:22:56 +01:00
LibreMiami
e5d526d758
gnu: Add python-click-default-group. 
* /gnu/packages/python-xyz.scm (python-click-default-group): New
variable.

Co-authored-by: Raghav Gururajan <rg@raghavgururajan.name>
Co-authored-by: jgart <jgart@dismail.de>
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 12:16:22 +01:00
Xinglu Chen
339200699f
gnu: Add emacs-ox-haunt. 
* gnu/packages/emacs-xyz.scm (emacs-ox-haunt): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 12:13:03 +01:00
Nicolas Goaziou
aa59697509
gnu: emacs-ox-gemini: Fix version number. 
* gnu/packages/emacs-xyz.scm (emacs-ox-gemini)[version]: Set version number to
0 as set in the main library.
 2021-03-13 12:09:08 +01:00
Xinglu Chen
9693868579
gnu: Add emacs-ox-gemini. 
* gnu/packages/emacs-xyz.scm (emacs-ox-gemini): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 12:07:03 +01:00
Pierre Langlois
d091371c59
gnu: emacs-ivy-rich: Update to 0.1.6-1.7b9b7b2. 
* gnu/packages/emacs-xyz.scm (emacs-ivy-rich): Update to git snapshot
0.1.6-1.7b9b7b2.
 2021-03-13 10:52:51 +00:00
Mark H Weaver
74e2c0e00f
gnu: gnutls: Fix CVE-2021-20231 and CVE-2021-20232. 
* gnu/packages/patches/gnutls-CVE-2021-20231.patch,
gnu/packages/patches/gnutls-CVE-2021-20232.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/tls.scm (gnutls)[replacement]: New field.
(gnutls/fixed): New variable.
(guile2.2-gnutls): Use package/inherit.
 2021-03-13 04:58:12 -05:00
Lars-Dominik Braun
ca8fa11754
gnu: mergerfs: Update to 2.32.4. 
* gnu/packages/file-systems.scm (mergerfs): Update to 2.32.4.
 2021-03-13 09:43:09 +01:00
Nicolas Goaziou
a61bdc5887
gnu: rust-resolv-conf-0.7: Use HTTPS home page URI. 
* gnu/packages/crates-io.scm (rust-resolv-conf-0.7)[home-page]: Use HTTPS URI.
 2021-03-13 09:13:23 +01:00
Kei Kebreau
b7c19f2850
gnu: wxmaxima: Update to 21.02.0. 
* gnu/packages/maths.scm (wxmaxima): Update to 21.02.0.
 2021-03-13 00:19:00 -05:00
Léo Le Bouter
373c7b5791
gnu: Remove bsdiff. 
As discussed in
<https://lists.gnu.org/archive/html/guix-devel/2021-03/msg00154.html>, remove
because of unpatched CVE-2020-14315 with no non-FreeBSD patch in sight.

* gnu/packages/compression.scm (bsdiff): Remove.
 2021-03-13 02:31:53 +01:00
Léo Le Bouter
77f1bd9dea
gnu: rust-diesel: Update to 1.4.6 [fixes CVE-2021-28305]. 
* gnu/packages/crates-io.scm (rust-diesel): Update to 1.4.6.
[native-inputs]: Add sqlite for tests.
[arguments]<#:cargo-inputs>: Remove rust-bigdecimal-0.2 (incompatible),
rust-libsqlite3-sys-0.15, rust-num-bigint-0.3 and rust-uuid-0.7. Add
rust-bigdecimal-0.1, rust-libsqlite3-sys-0.20, rust-num-bigint-0.2,
rust-uuid-0.5 and rust-uuid-0.8.
[arguments]<#:phases>: Replace 'check phase to provide required feature
arguments and  exclude failing 'expression::count::count' test.
[synopsis]: Solve lint error by removing article at the beginning.
 2021-03-13 02:07:28 +01:00
Léo Le Bouter
372a16e5c7
gnu: rust-dotenv-0.10: Fix build by adding missing cargo input. 
* gnu/packages/crates-io.scm (rust-dotenv-0.10)[arguments]<#:cargo-inputs>:
Add rust-syn-0.11.
 2021-03-13 02:04:29 +01:00
Léo Le Bouter
62b1ae7444
gnu: Add rust-bigdecimal-0.1. 
* gnu/packages/crates-io.scm (rust-bigdecimal-0.1): New variable.
 2021-03-13 02:04:28 +01:00
Tobias Geerinckx-Rice
cad4aa667c
gnu: nginx-documentation: Update to 1.19.8-2673-4398fd0f0341. 
* gnu/packages/web.scm (nginx-documentation): Update to 1.19.8-2673-4398fd0f0341.
 2021-03-13 01:00:31 +01:00
Tobias Geerinckx-Rice
c325099535
gnu: nginx: Update to 1.19.8. 
* gnu/packages/web.scm (nginx): Update to 1.19.8.
 2021-03-13 01:00:31 +01:00
Tobias Geerinckx-Rice
347cc54200
gnu: apache-thrift: Update to 0.14.1. 
* gnu/packages/rpc.scm (apache-thrift): Update to 0.14.1.
 2021-03-13 01:00:31 +01:00
Tobias Geerinckx-Rice
fab02edde0
gnu: wireguard-tools: Update to 1.0.20210223. 
* gnu/packages/vpn.scm (wireguard-tools): Update to 1.0.20210223.
 2021-03-13 01:00:30 +01:00
Tobias Geerinckx-Rice
deb8853243
gnu: eid-mw: Update to 5.0.14. 
* gnu/packages/security-token.scm (eid-mw): Update to 5.0.14.
 2021-03-13 01:00:30 +01:00
Tobias Geerinckx-Rice
1e71578c4a
gnu: micropython: Update to 1.14. 
* gnu/packages/python.scm (micropython): Update to 1.14.
 2021-03-13 01:00:30 +01:00
Tobias Geerinckx-Rice
4ddf56c136
gnu: libfreenect: Update to 0.6.2. 
* gnu/packages/openkinect.scm (libfreenect): Update to 0.6.2.
 2021-03-13 01:00:30 +01:00
Tobias Geerinckx-Rice
6862ae1a61
gnu: photoflare: Update to 1.6.7. 
* gnu/packages/photo.scm (photoflare): Update to 1.6.7.
 2021-03-13 01:00:30 +01:00
Greg Hogan
bd0808f131
gnu: aws-sdk-cpp: Update to 1.8.159. 
* gnu/packages/cpp.scm (aws-sdk-cpp): Update to 1.8.159.
[arguments]: Build as shared library

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-03-12 23:58:55 +01:00
Greg Hogan
9719084535
gnu: aws-c-event-stream: Update to 0.2.7. 
* gnu/packages/c.scm (aws-c-event-stream): Update to 0.2.7.
[arguments]: Build as shared library.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-03-12 23:58:55 +01:00
Greg Hogan
8ea7b6f91e
gnu: Add aws-c-io. 
* gnu/packages/c.scm (aws-c-io): New variable.
* gnu/packages/patches/aws-c-io-cmake-prefix.patch,
gnu/packages/patches/aws-c-io-disable-networking-tests.patch:
New files.
* gnu/local.mk (dist_patch_DATA): Add them.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-03-12 23:58:54 +01:00
Greg Hogan
1b51888863
gnu: Add s2n. 
* gnu/packages/tls.scm (s2n): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-03-12 23:58:54 +01:00
Greg Hogan
748e2ec07a
gnu: Add aws-c-cal. 
* gnu/packages/c.scm (aws-c-cal): New variable.
* gnu/packages/patches/aws-c-cal-cmake-prefix.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-03-12 23:58:54 +01:00
Greg Hogan
cc95d03ec7
gnu: aws-checksums: Build as shared library. 
* gnu/packages/c.scm (aws-checksums)[arguments]: Build as shared library.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-03-12 23:58:54 +01:00
Greg Hogan
9d541e97e9
gnu: aws-c-common: Update to 0.5.2. 
* gnu/packages/c.scm (aws-c-common): Update to 0.5.2.
[arguments]: Build as shared library.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-03-12 23:58:54 +01:00
Leo Famulari
bb5d84a048
gnu: ImageMagick: Fix version number in build configuration of grafted replacement. 
Fixes <https://bugs.gnu.org/47110>.

This is a followup to commits 852ba914a4 and
82e887ba48.

* gnu/packages/imagemagick.scm (imagemagick/fixed)[name, arguments]: New
fields.
 2021-03-12 14:41:17 -05:00
Leo Famulari
a39faf1abd
gnu: OpenSSL: Fix version number in build configuration. 
Fixes <https://bugs.gnu.org/47108>.

This is a followup to commit 4a8b529ce1.

* gnu/packages/tls.scm (openssl/fixed)[arguments]: New field.
 2021-03-12 14:22:21 -05:00
Leo Famulari
35b3ab8e57
gnu: libtiff: Fix documentation directory name in grafted replacement. 
Fixes <https://bugs.gnu.org/47107>.

This is a followup to commit 6320700b11.

* gnu/packages/image.scm (libtiff/fixed)[name, arguments]: New fields.
 2021-03-12 14:10:31 -05:00
Nicolas Goaziou
a5a5ec5603
gnu: nushell: Update to 0.28.0. 
* gnu/packages/shells.scm (nushell):
(rust-nu-cli-0.28):
(rust-nu-command-0.28):
(rust-nu-data-0.28):
(rust-nu-engine-0.28):
(rust-nu-errors-0.28):
(rust-nu-json-0.28):
(rust-nu-plugin-0.28):
(rust-nu-plugin-binaryview-0.28):
(rust-nu-plugin-chart-0.28):
(rust-nu-plugin-fetch-0.28):
(rust-nu-plugin-from-sqlite-0.28):
(rust-nu-plugin-inc-0.28):
(rust-nu-plugin-match-0.28):
(rust-nu-plugin-post-0.28):
(rust-nu-plugin-ps-0.28):
(rust-nu-plugin-s3-0.28):
(rust-nu-plugin-sys-0.28):
(rust-nu-plugin-textview-0.28):
(rust-nu-plugin-to-bson-0.28):
(rust-nu-plugin-to-sqlite-0.28):
(rust-nu-plugin-tree-0.28):
(rust-nu-plugin-xpath-0.28):
(rust-nu-protocol-0.28):
(rust-nu-source-0.28):
(rust-nu-stream-0.28):
(rust-nu-test-support-0.28):
(rust-nu-value-ext-0.28): Update to 0.28.0.
(rust-nu-ansi-term-0.28): New variable.
 2021-03-12 16:09:37 +01:00
Nicolas Goaziou
56613cc619
gnu: Add rust-minus-3. 
* gnu/packages/crates-io.scm (rust-minus-3): New variable.
 2021-03-12 16:09:37 +01:00
Nicolas Goaziou
1fcaac7941
gnu: rust-surf-2: Update to 2.2.0. 
* gnu/packages/crates-io.scm (rust-surf-2): Update to 2.2.0.
 2021-03-12 16:09:37 +01:00
Nicolas Goaziou
7d29bfd567
gnu: rust-http-client-6: Update to 6.3.4. 
* gnu/packages/crates-io.scm (rust-http-client-6): Update to 6.3.4.
 2021-03-12 16:09:36 +01:00
Nicolas Goaziou
10a1ab0d26
gnu: Add rust-async-tls-0.10. 
* gnu/packages/crates-io.scm (rust-async-tls-0.10): New variable.
 2021-03-12 16:09:36 +01:00
Nicolas Goaziou
6fe6ab50bd
gnu: rust-webpki-0.21: Update to 0.21.4. 
* gnu/packages/crates-io.scm (rust-webpki-0.21): Update to 0.21.4.
 2021-03-12 16:09:36 +01:00
Nicolas Goaziou
a7c8060360
gnu: rust-ring-0.16: Update to 0.16.20. 
* gnu/packages/crates-io.scm (rust-ring-0.16): Update to 0.16.20.
[arguments]: Skip tests.
 2021-03-12 16:09:35 +01:00
Nicolas Goaziou
0f0589b8cd
gnu: Add rust-deadpool-0.7. 
* gnu/packages/crates-io.scm (rust-deadpool-0.7): New variable.
 2021-03-12 16:09:35 +01:00
Nicolas Goaziou
b89714b40a
gnu: rust-url-2: Update to 2.2.1. 
* gnu/packages/crates-io.scm (rust-url-2): Update to 2.2.1.
 2021-03-12 16:09:09 +01:00
Ludovic Courtès
97b45977f4
gnu: guile-zlib: Update to 0.1.0. 
* gnu/packages/guile.scm (guile-zlib): Update to 0.1.0.
 2021-03-12 15:59:45 +01:00
Sharlatan Hellseher
2e5ac371e7
gnu: Add sbcl-stumpwm-disk. 
* gnu/packages/wm.scm: (sbcl-stumpwm-disk): New variable.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2021-03-12 15:06:51 +01:00
Sharlatan Hellseher
77ee8af58c
gnu: stumpwm-contrib: Update to 0.0.1-3.a7dc1c. 
* gnu/packages/wm.scm (stumpwm-contrib): Update to 0.0.1-3.a7dc1c.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2021-03-12 15:06:51 +01:00
Guillaume Le Vaillant
a56b331e07
gnu: Add gnuais. 
* gnu/packages/radio.scm (gnuais): New variable.
 2021-03-12 15:06:50 +01:00
zimoun
df6b3c25bb
gnu: r-systempiper: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-systempiper): Move from here...
* gnu/packages/bioconductor.scm (r-systempiper): ...to here.
 2021-03-12 14:45:55 +01:00
zimoun
8957efa8ef
gnu: r-shortread: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-shortread): Move from here...
* gnu/packages/bioconductor.scm (r-shortread): ...to here.
 2021-03-12 14:45:54 +01:00
zimoun
2a97057688
gnu: r-gostats: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-gostats): Move from here...
* gnu/packages/bioconductor.scm (r-gostats): ...to here.
 2021-03-12 14:45:54 +01:00
zimoun
4e7cf96c9f
gnu: r-category: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-category): Move from here...
* gnu/packages/bioconductor.scm (r-category): ...to here.
 2021-03-12 14:45:54 +01:00
zimoun
031fdda47a
gnu: r-gseabase: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-gseabase): Move from here...
* gnu/packages/bioconductor.scm (r-gseabase): ...to here.
 2021-03-12 14:45:54 +01:00
zimoun
f44079bc21
gnu: r-rbgl: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-rbgl): Move from here...
* gnu/packages/bioconductor.scm (r-rbgl): ...to here.
 2021-03-12 14:45:54 +01:00
zimoun
ff92c2873c
gnu: r-annotationforge: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-annotationforge): Move from here...
* gnu/packages/bioconductor.scm (r-annotationforge): ...to here.
 2021-03-12 14:45:53 +01:00
zimoun
d769b10714
gnu: r-dexseq: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-dexseq): Move from here...
* gnu/packages/bioconductor.scm (r-dexseq): ...to here.
 2021-03-12 14:45:53 +01:00
zimoun
373545855d
gnu: r-deseq2: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-deseq2): Move from here...
* gnu/packages/bioconductor.scm (r-deseq2): ...to here.
 2021-03-12 14:45:53 +01:00
zimoun
a35ea5fed9
gnu: r-genefilter: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-genefilter): Move from here...
* gnu/packages/bioconductor.scm (r-genefilter): ...to here.
 2021-03-12 14:45:53 +01:00
Ricardo Wurmus
323aec6ad9
gnu: r-bioassayr: Update home page. 
* gnu/packages/bioconductor.scm (r-bioassayr)[home-page]: Follow permanent
redirect.
 2021-03-12 14:41:15 +01:00
zimoun
2528cad451
gnu: r-bioassayr: Update to 1.28.2. 
* gnu/packages/bioconductor.scm (r-bioassayr): Update to 1.28.2.
 2021-03-12 14:41:14 +01:00
zimoun
8c8d365ca3
gnu: r-chemminer: Update to 3.42.2. 
* gnu/packages/bioconductor.scm (r-chemminer): Update to 3.42.2.
 2021-03-12 14:41:14 +01:00
zimoun
4f617bfb8e
gnu: r-circrnaprofiler: Update to 1.4.2. 
* gnu/packages/bioconductor.scm (r-circrnaprofiler): Update to 1.4.2.
 2021-03-12 14:41:14 +01:00
Lars-Dominik Braun
8a8e8198ec
gnu: Add r-puniform. 
* gnu/packages/statistics.scm (r-puniform): New variable.
 2021-03-12 14:34:22 +01:00
Lars-Dominik Braun
28df54d776
gnu: Add r-clubsandwich. 
* gnu/packages/statistics.scm (r-clubsandwich): New variable.
 2021-03-12 14:34:20 +01:00
Lars-Dominik Braun
3a82f1fba2
gnu: Add r-quantpsyc. 
* gnu/packages/statistics.scm (r-quantpsyc): New variable.
 2021-03-12 14:34:19 +01:00
Lars-Dominik Braun
23bfd152c2
gnu: Add r-ez. 
* gnu/packages/cran.scm (r-ez): New variable.
 2021-03-12 14:34:18 +01:00
Lars-Dominik Braun
8a51be3cdd
gnu: Add r-prereg. 
* gnu/packages/cran.scm (r-prereg): New variable.
 2021-03-12 14:34:14 +01:00
Ricardo Wurmus
456355c253
gnu: Add python-upsetplot. 
* gnu/packages/python-science.scm (python-upsetplot): New variable.
 2021-03-12 13:56:12 +01:00
Ricardo Wurmus
4d0fdde344
gnu: Add python-statannot. 
* gnu/packages/python-science.scm (python-statannot): New variable.
 2021-03-12 13:35:02 +01:00
Pierre Neidhardt
5fa4814b4f
gnu: lisp-repl-core-dumper: Update to 0.7.0. 
* gnu/packages/lisp.scm (lisp-repl-core-dumper): Update to 0.7.0.
 2021-03-12 13:09:36 +01:00
Ricardo Wurmus
ddc1cddded
gnu: snakemake: Update to 5.32.2. 
* gnu/packages/python-xyz.scm (snakemake): Update to 5.32.2.
[arguments]: Adjust patch in call-wrapper-not-wrapped-snakemake.
 2021-03-12 13:03:33 +01:00
Mark H Weaver
825cc7e0d4
gnu: gnome-shell: Fix CVE-2020-17489. 
* gnu/packages/patches/gnome-shell-CVE-2020-17489.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/gnome.scm (gnome-shell)[source]: Add patch.
 2021-03-12 06:08:33 -05:00
Mark H Weaver
db7c3410d5
gnu: gnome-shell: Update to 3.34.5. 
* gnu/packages/gnome.scm (gnome-shell): Update to 3.34.5.
 2021-03-12 06:08:33 -05:00
Mark H Weaver
f5e1909d9f
gnu: gvfs: Update to 1.40.2 [security fixes]. 
Includes fixes for CVE-2019-12447, CVE-2019-12448, CVE-2019-12449,
and CVE-2019-12795.

* gnu/packages/gnome.scm (gvfs): Update to 1.40.2.
 2021-03-12 06:08:33 -05:00
Mark H Weaver
bc16eacc99
gnu: cairo: Fix CVE-2018-19876 and CVE-2020-35492. 
* gnu/packages/patches/cairo-CVE-2018-19876.patch,
gnu/packages/patches/cairo-CVE-2020-35492.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/gtk.scm (cairo)[replacement]: New field.
(cairo/fixed): New variable.
(cairo-xcb): Use package/inherit.
 2021-03-12 06:08:33 -05:00
Mark H Weaver
453e101fc3
gnu: gdk-pixbuf: Fix CVE-2020-29385. 
* gnu/packages/patches/gdk-pixbuf-CVE-2020-29385.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/gtk.scm (gdk-pixbuf)[replacement]: New field.
(gdk-pixbuf/fixed): New variable.
(gdk-pixbuf+svg): Use package/inherit.
 2021-03-12 06:08:32 -05:00
Ricardo Wurmus
57853d69fe
gnu: java-openjfx-graphics: Install native libraries. 
* gnu/packages/java.scm (java-openjfx-graphics)[arguments]: Add phase
copy-missing-file and build-native.
[native-inputs]: Add missing source file.
 2021-03-12 10:32:13 +01:00
Mark H Weaver
5a06b83fc9
gnu: glib: Fix CVE-2021-28153. 
* gnu/packages/patches/glib-CVE-2021-28153.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/glib.scm (glib/fixed): Add the new patch.
 2021-03-12 01:44:26 -05:00
Leo Famulari
c3a7537396
gnu: certbot, python-acme: Update to 1.13.0. 
* gnu/packages/tls.scm (python-acme): Update to 1.13.0.
[native-inputs]: Remove python-mock.
[propagated-inputs]: Remove python-six.
(certbot): Update to 1.13.0.
[propagated-inputs]: Remove python-six.
[arguments]: Remove 'build-documentation' phase.
 2021-03-11 21:41:47 -05:00
Kyle Meyer
09c05fde52
gnu: git-annex: Update to 8.20210310. 
* gnu/packages/haskell-apps.scm (git-annex): Update to 8.20210310.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2021-03-11 18:06:39 -05:00
Leo Famulari
df632e3225
gnu: linux-libre 4.4: Update to 4.4.261. 
* gnu/packages/linux.scm (linux-libre-4.4-version): Update to 4.4.261.
(linux-libre-4.4-pristine-source): Update hash.
 2021-03-11 18:06:39 -05:00
Leo Famulari
2c5aff6160
gnu: linux-libre 4.9: Update to 4.9.261. 
* gnu/packages/linux.scm (linux-libre-4.9-version): Update to 4.9.261.
(linux-libre-4.9-pristine-source): Update hash.
 2021-03-11 18:06:39 -05:00
Leo Famulari
0988cbaeab
gnu: linux-libre 4.14: Update to 4.14.225. 
* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.225.
(linux-libre-4.14-pristine-source): Update hash.
 2021-03-11 18:06:39 -05:00
Leo Famulari
129db4f104
gnu: linux-libre 4.19: Update to 4.19.180. 
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.180.
(linux-libre-4.19-pristine-source): Update hash.
 2021-03-11 18:06:39 -05:00
Leo Famulari
a4905b424e
gnu: linux-libre 5.4: Update to 5.4.105. 
* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.105.
(linux-libre-5.4-pristine-source): Update hash.
 2021-03-11 18:06:38 -05:00
Leo Famulari
234aa6c964
gnu: linux-libre 5.10: Update to 5.10.23. 
* gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.23.
(linux-libre-5.10-pristine-source): Update hash.
 2021-03-11 18:06:38 -05:00
Leo Famulari
c39d8a11c0
gnu: linux-libre: Update to 5.11.6. 
* gnu/packages/linux.scm (linux-libre-5.11-version): Update to 5.11.6.
(linux-libre-5.11-pristine-source): Update hash.
 2021-03-11 18:06:38 -05:00
Xinglu Chen
42d5efc001
gnu: guile-curl: Update to 0.9. 
* gnu/packages/curl.scm (guile-curl): Update to 0.9.
[#:phases]: Update path to module.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-03-11 23:22:04 +01:00
Tobias Geerinckx-Rice
ebd5000263
gnu: wireshark: Update to 3.4.4. 
* gnu/packages/networking.scm (wireshark): Update to 3.4.4.
 2021-03-11 23:11:58 +01:00
Tobias Geerinckx-Rice
d3e2ad740f
gnu: hangups: Update to 0.4.13. 
* gnu/packages/messaging.scm (hangups): Update to 0.4.13.
 2021-03-11 23:11:58 +01:00
Greg Hogan
47093ca4cd
gnu: fmt: Update to 7.1.3. 
* gnu/packages/pretty-print.scm (fmt): Update to 7.1.3.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
 2021-03-11 23:11:58 +01:00
Tobias Geerinckx-Rice
c518925391
gnu: btrfs-progs: Update to 5.11. 
* gnu/packages/linux.scm (btrfs-progs): Update to 5.11.
 2021-03-11 23:11:58 +01:00
Tobias Geerinckx-Rice
8a9d3e9420
gnu: libdatrie: Update to 0.2.13. 
* gnu/packages/gtk.scm (libdatrie): Update to 0.2.13.
 2021-03-11 23:11:58 +01:00
Tobias Geerinckx-Rice
ed6900f974
gnu: libinih: Update to 53. 
* gnu/packages/linux.scm (libinih): Update to 53.
 2021-03-11 23:11:57 +01:00
Léo Le Bouter
0aaac779d4
gnu: flatpak: Update to 1.10.2 [fixes CVE-2021-21381]. 
* gnu/packages/package-management.scm (flatpak): Update to 1.10.2.
 2021-03-11 22:58:05 +01:00
Efraim Flashner
aa983626a2
gnu: mongodb: Update comment about package license. 
* gnu/packages/databases.scm (mongodb): Adjust the comment about the
licensing status of the package, there are still older branches
receiving updates under the AGPL license.
 2021-03-11 23:26:01 +02:00
Efraim Flashner
2f9132e2e0
Revert "Revert "gnu: mongodb: Update to 3.4.24 [security fixes]."" 
This reverts commit feff80cec3.

I was mistaken, there are still branches of mongodb which are still
licensed under the AGPL3
 2021-03-11 23:23:00 +02:00
Pierre Neidhardt
6dda223631
gnu: Add computable-reals. 
* gnu/packages/lisp-xyz.scm (cl-computable-reals, ecl-computable-reals,
sbcl-computable-reals): New variables.
 2021-03-11 21:11:51 +01:00
Raghav Gururajan
340e6dd51b
gnu: Add python-praw. 
* gnu/packages/python-web.scm (python-raw): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-03-11 20:48:05 +02:00
Raghav Gururajan
532fc2fbaf
gnu: Add python-prawcore. 
* gnu/packages/python-web.scm (python-prawcore): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-03-11 20:48:03 +02:00
Raghav Gururajan
cfa564bcef
gnu: Add python-testfixtures. 
* gnu/packages/python-check.scm (python-testfixtures): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-03-11 20:48:01 +02:00
Raghav Gururajan
ce2637c003
gnu: Add python-betamax-serializers. 
* gnu/packages/python-web.scm (python-betamax-serializers): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-03-11 20:47:55 +02:00
Tobias Geerinckx-Rice
c47f0dea8c
gnu: jasper: Update to 2.0.26. 
* gnu/packages/image.scm (jasper): Update to 2.0.26.
 2021-03-11 18:06:56 +01:00
Tobias Geerinckx-Rice
2e2a3b248b
gnu: thermald: Update to 2.4.3. 
* gnu/packages/admin.scm (thermald): Update to 2.4.3.
 2021-03-11 18:06:56 +01:00
Tobias Geerinckx-Rice
b8f0d11f76
gnu: doctest: Update to 2.4.5. 
* gnu/packages/check.scm (doctest): Update to 2.4.5.
 2021-03-11 18:06:56 +01:00
Tobias Geerinckx-Rice
affeb3def7
gnu: jetring: Update to 0.30. 
* gnu/packages/gnupg.scm (jetring): Update to 0.30.
 2021-03-11 18:06:56 +01:00
Tobias Geerinckx-Rice
444a38b991
gnu: memkind: Remove duplicate COPYING file. 
* gnu/packages/disk.scm (memkind)[arguments]: Add the standard
"--docdir=" location to #:configure-flags.
 2021-03-11 18:06:56 +01:00
Tobias Geerinckx-Rice
36c716e1c5
gnu: memkind: Update to 1.11.0. 
* gnu/packages/disk.scm (memkind): Update to 1.11.0.
 2021-03-11 18:06:55 +01:00
raid5atemyhomework via Guix-patches via
495a68e8e5
gnu: Update zfs to 2.0.4. 
Mostly FreeBSD fixes, some documentation changes and corrections, and a few small bugfixes.

Tested with `guix build` only, no in-depth testing done.

From 6037ac6f797f37abb579278a0d30cd16e6876ec6 Mon Sep 17 00:00:00 2001
From: raid5atemyhomework <raid5atemyhomework@protonmail.com>
Date: Thu, 11 Mar 2021 12:43:58 +0000
Subject: [PATCH] gnu: Update zfs to 2.0.4.

* gnu/packages/file-systems.scm (zfs): Update to 2.0.4, rename to
OpenZFS.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
 2021-03-11 18:06:55 +01:00
Tobias Geerinckx-Rice
828b4a9156
gnu: fio: Update to 3.26. 
* gnu/packages/benchmark.scm (fio): Update to 3.26.
 2021-03-11 18:06:55 +01:00
Ricardo Wurmus
f0971dfd61
gnu: Add java-openjfx-controls. 
* gnu/packages/java.scm (java-openjfx-controls): New variable.
 2021-03-11 17:30:31 +01:00
Nicolas Goaziou
54d4b7f3ab
gnu: emacs-counsel: Update to 0.13.4. 
* gnu/packages/emacs-xyz.scm (emacs-counsel): Update to 0.13.4.
[source]: Update URI.
 2021-03-11 17:04:48 +01:00
Nicolas Goaziou
db5eb8c38f
gnu: emacs-swiper: Update to 0.13.4. 
* gnu/packages/emacs-xyz.scm (emacs-swiper): Update to 0.13.4.
[source]: Update URI.
 2021-03-11 17:03:02 +01:00
Nicolas Goaziou
49a8f88fe1
gnu: emacs-ivy: Update to 0.13.4. 
* gnu/packages/emacs-xyz.scm (emacs-ivy): Update to 0.13.4.
 2021-03-11 17:02:05 +01:00
Nicolas Goaziou
752843d923
gnu: emacs-project: Fix build. 
* gnu/packages/emacs-xyz.scm (emacs-project)[source]: Fix URI.
 2021-03-11 16:46:11 +01:00
Nicolas Goaziou
e55d35899f
gnu: emacs-map: Update to 3.0. 
* gnu/packages/emacs-xyz.scm (emacs-map): Update to 3.0.
 2021-03-11 16:45:39 +01:00
Nicolas Goaziou
8960f23de8
gnu: emacs-project: Update to 0.5.4. 
* gnu/packages/emacs-xyz.scm (emacs-project): Update to 0.5.4.
 2021-03-11 16:44:09 +01:00
Nicolas Goaziou
b814228c8b
gnu: emacs-posframe: Update to 0.8.8. 
* gnu/packages/emacs-xyz.scm (emacs-posframe): Update to 0.8.8.
 2021-03-11 16:42:52 +01:00
Efraim Flashner
5ae7414860
gnu: Add bandage. 
* gnu/packages/bioinformatics.scm (bandage): New variable.
 2021-03-11 16:54:38 +02:00
Efraim Flashner
f197964689
gnu: mongodb: Add comment about future package versions. 
* gnu/packages/databases.scm (mongodb): Add comment that the license of
the package changed after the packaged version and that it shouldn't be
updated.
 2021-03-11 15:17:26 +02:00
Efraim Flashner
feff80cec3
Revert "gnu: mongodb: Update to 3.4.24 [security fixes]." 
This reverts commit e5f89570c1.

After this version mongodb switched to the Server Side Public License
(https://www.mongodb.com/licensing/server-side-public-license) which is
not a FOSS license.
 2021-03-11 15:13:55 +02:00
Mark H Weaver
21b3b75515
gnu: glib: Fix CVE-2021-27218 and CVE-2021-27219. 
* gnu/packages/patches/glib-CVE-2021-27218.patch,
gnu/packages/patches/glib-CVE-2021-27219-01.patch,
gnu/packages/patches/glib-CVE-2021-27219-02.patch,
gnu/packages/patches/glib-CVE-2021-27219-03.patch,
gnu/packages/patches/glib-CVE-2021-27219-04.patch,
gnu/packages/patches/glib-CVE-2021-27219-05.patch,
gnu/packages/patches/glib-CVE-2021-27219-06.patch,
gnu/packages/patches/glib-CVE-2021-27219-07.patch,
gnu/packages/patches/glib-CVE-2021-27219-08.patch,
gnu/packages/patches/glib-CVE-2021-27219-09.patch,
gnu/packages/patches/glib-CVE-2021-27219-10.patch,
gnu/packages/patches/glib-CVE-2021-27219-11.patch,
gnu/packages/patches/glib-CVE-2021-27219-12.patch,
gnu/packages/patches/glib-CVE-2021-27219-13.patch,
gnu/packages/patches/glib-CVE-2021-27219-14.patch,
gnu/packages/patches/glib-CVE-2021-27219-15.patch,
gnu/packages/patches/glib-CVE-2021-27219-16.patch,
gnu/packages/patches/glib-CVE-2021-27219-17.patch,
gnu/packages/patches/glib-CVE-2021-27219-18.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/glib.scm (glib)[replacement]: New field.
(glib/fixed): New variable.
 2021-03-11 06:21:13 -05:00
Léo Le Bouter
500189b4d2
gnu: go: Update to 1.14.15 [security fixes]. 
This update will cause more than 300 packages to be rebuilt but due to how Go
works we can't graft to fix the issue since we actually need to rebuild
dependents so they include a newer version of the Go standard
library. Considering the CVEs that this fixes are in great part in the Go
standard library we can only proceed and push directly to master.

* gnu/packages/golang.scm (go): Update to 1.14.15.
[arguments]: Remove more cgo-related failing tests.
 2021-03-11 11:02:23 +01:00
Pierre Langlois
fd2751f89f
gnu: emacs-password-store: 2.1.4-1.918992c [security fix]. 
Includes a fix to no longer store clear passwords in a temporary file, see
commit 7aa17d099577730d2d65332896b74d5865b22abf for details.

* gnu/packages/emacs-xyz.scm (emacs-password-store): Update to
2.1.4-1.918992c.
[propagated-inputs]: Remove emacs-f, add emacs-auth-source-pass.
 2021-03-11 09:54:44 +00:00
Léo Le Bouter
4a8b529ce1
gnu: openssl: Update to 1.1.1j [security fixes]. 
* gnu/packages/tls.scm (openssl/fixed): New variable.
(openssl)[replacement]: Graft.
 2021-03-11 05:38:57 +01:00
Léo Le Bouter
ee8e4ba7aa
gnu: openvpn: Update to 2.5.1 [security fixes]. 
Non-exhaustively, fixes CVE-2020-7224.

* gnu/packages/vpn.scm (openvpn): Update to 2.5.1.
 2021-03-11 05:31:54 +01:00
Léo Le Bouter
826428ab5b
gnu: libx11: Update to 1.6.12 [fixes CVE-2020-14363]. 
* gnu/packages/xorg.scm (libx11/fixed): New variable.
(libx11)[replacement]: Graft.
 2021-03-11 05:25:43 +01:00
Léo Le Bouter
9d74b66de7
gnu: docker-cli: Fix source hash. 
This is a follow-up to commit 83cda00bc6.

* gnu/packages/docker.scm (docker-cli): Fix source hash caused by cascading
%docker-version variable changes.
 2021-03-11 04:36:22 +01:00
Léo Le Bouter
46a7f82882
gnu: gnome-autoar: Update to 0.3.0 [fixes CVE-2020-36241]. 
* gnu/packages/gnome.scm (gnome-autoar): Update to 0.3.0.
 2021-03-11 04:00:50 +01:00
Léo Le Bouter
2bcfb944bd
gnu: zstd-1.4.9: Fix i686-linux and arm/aarch64-linux builds. 
It's only a graft added for security so disabling tests on there seems
acceptable.

See: <https://lists.gnu.org/archive/html/guix-devel/2021-03/msg00130.html>.

* gnu/packages/compression.scm (zstd-1.4.9)[arguments]: Substitute keyword
arguments of 'zstd' to disable tests.
 2021-03-11 02:58:28 +01:00
Léo Le Bouter
1acfda2f94
gnu: geary: Fix CVE-2020-24661. 
* gnu/packages/patches/geary-CVE-2020-24661.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/gnome.scm (geary): Apply it.
 2021-03-11 02:32:19 +01:00
Léo Le Bouter
be31314638
gnu: gthumb: Update to 3.10.2 [security fixes]. 
Non-exhaustively, fixes CVE-2019-20326.

* gnu/packages/gnome.scm (gthumb): Update to 3.10.2.
 2021-03-11 02:19:53 +01:00
Léo Le Bouter
e940f6d801
gnu: libcroco: Fix CVE-2020-12825. 
* gnu/packages/patches/libcroco-CVE-2020-12825.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/gnome.scm (libcroco/fixed): New variable. Apply patch.
(libcroco)[replacement]: Graft.
 2021-03-11 02:02:24 +01:00
Léo Le Bouter
a2943e36c7
gnu: evolution: Fix CVE-2020-11879. 
* gnu/packages/patches/evolution-CVE-2020-11879.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/gnome.scm (evolution): Apply it.
 2021-03-11 01:19:40 +01:00
Léo Le Bouter
c35f87bb1a
gnu: evolution-data-server: Fix CVE-2020-14928 and CVE-2020-16117. 
* gnu/packages/patches/evolution-data-server-CVE-2020-14928.patch,
gnu/packages/patches/evolution-data-server-CVE-2020-16117.patch: New patches.
* gnu/local.mk (dist_patch_DATA): Register them.
* gnu/packages/gnome.scm (evolution-data-server): Apply them.
 2021-03-11 01:19:40 +01:00
Tobias Geerinckx-Rice
24f0bb21ab
gnu: qca: Update to 2.3.2. 
* gnu/packages/kde.scm (qca): Update to 2.3.2.
 2021-03-11 00:46:02 +01:00
Tobias Geerinckx-Rice
4c144b27d8
gnu: sooperlooper: Update to 1.7.6. 
* gnu/packages/music.scm (sooperlooper): Update to 1.7.6.
 2021-03-11 00:46:02 +01:00
Tobias Geerinckx-Rice
f4618b13d8
gnu: bindfs: Update to 1.15.1. 
* gnu/packages/file-systems.scm (bindfs): Update to 1.15.1.
 2021-03-11 00:46:02 +01:00
Tobias Geerinckx-Rice
5929668ee8
gnu: weechat: Update to 3.1. 
* gnu/packages/irc.scm (weechat): Update to 3.1.
 2021-03-11 00:46:01 +01:00
Tobias Geerinckx-Rice
6900105334
gnu: os-prober: Update to 1.78. 
* gnu/packages/bootloaders.scm (os-prober): Update to 1.78.
 2021-03-11 00:46:01 +01:00
Tobias Geerinckx-Rice
a3926c8227
gnu: mutt: Update to 2.0.6. 
* gnu/packages/mail.scm (mutt): Update to 2.0.6.
 2021-03-11 00:46:01 +01:00
Léo Le Bouter
6eea92e38b
gnu: librecad: Update to 2.2.0-rc2 [fixes CVE-2018-19105]. 
* gnu/packages/engineering.scm (librecad): Update to 2.2.0-rc2.
 2021-03-10 23:58:02 +01:00
Nicolas Goaziou
a70216c327
gnu: monolith: Update to 2.4.1. 
* gnu/packages/web.scm (monolith): Update to 2.4.1.
 2021-03-10 23:49:59 +01:00
Nicolas Goaziou
b1e4be8fea
gnu: Add rust-cssparser-0.28. 
* gnu/packages/crates-io.scm (rust-cssparser-0.28): New variable.
(rust-cssparser-0.27): Inherit from above.
 2021-03-10 23:49:59 +01:00
Nicolas Goaziou
59e0c9a439
gnu: Add rust-reqwest-0.11. 
* gnu/packages/crates-io.scm (rust-reqwest-0.11): New variable.
(rust-reqwest-0.10): Inherit from above.
 2021-03-10 23:49:58 +01:00
Nicolas Goaziou
0f0451c6cb
gnu: Add rust-tokio-util-0.4. 
* gnu/packages/crates-io.scm (rust-tokio-util-0.4): New variable.
 2021-03-10 23:49:58 +01:00
Nicolas Goaziou
0d171198a2
gnu: rust-async-compression-0.3: Update to 0.3.7. 
* gnu/packages/crates-io.scm (rust-async-compression-0.3): Update to 0.3.7.
[arguments]: Skip tests.
 2021-03-10 23:49:58 +01:00
Nicolas Goaziou
c2e5118452
gnu: Add rust-zstd-0.6. 
* gnu/packages/crates-io.scm (rust-zstd-0.6): New variable.
(rust-zstd-0.5): Inherit from above.
 2021-03-10 23:49:57 +01:00
Nicolas Goaziou
7c0565dcb5
gnu: Add rust-zstd-safe-3. 
* gnu/packages/crates-io.scm (rust-zstd-safe-3): New variable.
(rust-zstd-safe-2): Inherit from above.
 2021-03-10 23:49:57 +01:00
Nicolas Goaziou
1fa3b73618
gnu: rust-zstd-sys-1: Update to 1.4.20+zstd.1.4.9. 
* gnu/packages/crates-io.scm (rust-zstd-sys-1): Update to 1.4.20+zstd.1.4.9.
 2021-03-10 23:49:57 +01:00
Nicolas Goaziou
8a6c39e848
gnu: Add rust-bindgen-0.57. 
* gnu/packages/crates-io.scm (rust-bindgen-0.57): New variable.
(rust-bindgen-0.55): Inherit from above.
 2021-03-10 23:49:56 +01:00
Nicolas Goaziou
95b13ec637
gnu: Add rust-hyper-0.14. 
* gnu/packages/crates-io.scm (rust-hyper-0.14): New variable.
(rust-hyper-0.13): Inherit from above.
 2021-03-10 23:49:56 +01:00
Nicolas Goaziou
b31d9a2fe6
gnu: Add rust-http-body-0.4. 
* gnu/packages/crates-io.scm (rust-http-body-0.4): New variable.
(rust-http-body-0.3): Inherit from above.
 2021-03-10 23:49:56 +01:00
Nicolas Goaziou
0846ddb129
gnu: Add rust-h2-0.3. 
* gnu/packages/crates-io.scm (rust-h2-0.3): New variable.
(rust-h2-0.2): Inherit from above.
 2021-03-10 23:49:55 +01:00
Nicolas Goaziou
50f7108957
gnu: Add rust-tokio-util-0.6. 
* gnu/packages/crates-io.scm (rust-tokio-util-0.6): New variable.
(rust-tokio-util-0.3): Inherit from above.
 2021-03-10 23:49:55 +01:00
Nicolas Goaziou
92075bd48d
gnu: Add rust-httpdate-0.3. 
* gnu/packages/crates-io.scm (rust-httpdate-0.3): New variable.
 2021-03-10 23:49:55 +01:00
Nicolas Goaziou
ec64626f15
gnu: Add rust-hyper-rustls-0.22. 
* gnu/packages/crates-io.scm (rust-hyper-rustls-0.22): New variable.
(rust-hyper-rustls-0.21): Inherit from above.
 2021-03-10 23:49:54 +01:00
Nicolas Goaziou
4f2202bf30
gnu: Add rust-ct-logs-0.8. 
* gnu/packages/crates-io.scm (rust-ct-logs-0.8): New variable.
(rust-ct-logs-0.7): Inherit from above.
 2021-03-10 23:49:54 +01:00
Nicolas Goaziou
d08a4c776f
gnu: Add rust-rustls-native-certs-0.5. 
* gnu/packages/crates-io.scm (rust-rustls-native-certs-0.5): New variable.
(rust-rustls-native-certs-0.4): Inherit from above.
 2021-03-10 23:49:54 +01:00
Nicolas Goaziou
aab798976a
gnu: Add rust-webpki-roots-0.21. 
* gnu/packages/crates-io.scm (rust-webpki-roots-0.21): New variable.
(rust-webpki-roots-0.20): Inherit from above.
 2021-03-10 23:49:53 +01:00
Nicolas Goaziou
d5249b0240
gnu: Add rust-hyper-tls-0.5. 
* gnu/packages/crates-io.scm (rust-hyper-tls-0.5): New variable.
(rust-hyper-tls-0.4): Inherit from above.
 2021-03-10 23:49:53 +01:00
Nicolas Goaziou
7945e1611f
gnu: Add rust-tokio-native-tls-0.3. 
* gnu/packages/crates-io.scm (rust-tokio-native-tls-0.3): New variable.
(rust-tokio-native-tls-0.1): Inherit from above.
 2021-03-10 23:49:53 +01:00
Nicolas Goaziou
f8e2758ec4
gnu: Add rust-tokio-socks-0.5. 
* gnu/packages/crates-io.scm (rust-tokio-socks-0.5): New variable.
(rust-tokio-socks-0.3): Inherit from above.
 2021-03-10 23:49:52 +01:00
Nicolas Goaziou
aa0038b640
gnu: rust-native-tls-0.2: Update to 0.2.7. 
* gnu/packages/crates-io.scm (rust-native-tls-0.2): Update to 0.2.7.
 2021-03-10 23:49:52 +01:00
Nicolas Goaziou
74efdfc4e9
gnu: Add rust-test-cert-gen-0.1. 
* gnu/packages/crates-io.scm (rust-test-cert-gen-0.1): New variable.
 2021-03-10 23:49:52 +01:00
Nicolas Goaziou
0d279640ce
gnu: Add rust-trust-dns-resolver-0.20. 
* gnu/packages/crates-io.scm (rust-trust-dns-resolver-0.20): New variable.
(rust-trust-dns-resolver-0.19): Inherit from above.
 2021-03-10 23:49:51 +01:00
Nicolas Goaziou
785cbb0989
gnu: Add rust-resolv-conf-0.7. 
* gnu/packages/crates-io.scm (rust-resolv-conf-0.7): New variable.
(rust-resolv-conf-0.6): Inherit from above.
 2021-03-10 23:49:51 +01:00
Nicolas Goaziou
3843fc8fc8
gnu: Add rust-tokio-openssl-0.6. 
* gnu/packages/crates-io.scm (rust-tokio-openssl-0.6): New variable.
(rust-tokio-openssl-0.4): Inherit from above.
 2021-03-10 23:49:51 +01:00
Nicolas Goaziou
43212fcaf6
gnu: Add rust-trust-dns-https-0.20. 
* gnu/packages/crates-io.scm (rust-trust-dns-https-0.20): New variable.
(rust-trust-dns-https-0.19): Inherit from above.
 2021-03-10 23:49:50 +01:00
Nicolas Goaziou
46f8eecb51
gnu: Add rust-trust-dns-rustls-0.20. 
* gnu/packages/crates-io.scm (rust-trust-dns-rustls-0.20): New variable.
(rust-trust-dns-rustls-0.19): Inherit from above.
 2021-03-10 23:49:50 +01:00
Nicolas Goaziou
58e89cb0b9
gnu: Add rust-trust-dns-openssl-0.20. 
* gnu/packages/crates-io.scm (rust-trust-dns-openssl-0.20): New variable.
(rust-trust-dns-openssl-0.19): Inherit from above.
 2021-03-10 23:49:50 +01:00
Nicolas Goaziou
ba777a3cc4
gnu: Add rust-trust-dns-native-tls-0.20. 
* gnu/packages/crates-io.scm (rust-trust-dns-native-tls-0.20): New variable.
(rust-trust-dns-native-tls-0.19): Inherit from above.
 2021-03-10 23:49:49 +01:00
Nicolas Goaziou
3e6a0f1985
gnu: Add rust-trust-dns-proto-0.20. 
* gnu/packages/crates-io.scm (rust-trust-dns-proto-0.20): New variable.
(rust-trust-dns-proto-0.19): Inherit from above.
 2021-03-10 23:49:49 +01:00
Nicolas Goaziou
31be44a8aa
gnu: rust-openssl-sys-0.9: Update to 0.9.60. 
* gnu/packages/crates-io.scm (rust-openssl-sys-0.9): Update to 0.9.60.
 2021-03-10 23:49:49 +01:00
Nicolas Goaziou
b950ff3dbf
gnu: rust-backtrace-0.3: Update to 0.3.56. 
* gnu/packages/crates-io.scm (rust-backtrace-0.3): Update to 0.3.56.
 2021-03-10 23:49:48 +01:00
Nicolas Goaziou
fbc807f3b6
gnu: Add rust-addr2line-0.14. 
* gnu/packages/crates-io.scm (rust-addr2line-0.14): New variable.
(rust-addr2line-0.11): Inherit from above.
 2021-03-10 23:49:48 +01:00
Nicolas Goaziou
406fe167e1
gnu: Add rust-cpp-demangle-0.3. 
* gnu/packages/crates-io.scm (rust-cpp-demangle-0.3): New variable.
(rust-cpp-demangle-0.2): Inherit from above.
 2021-03-10 23:49:48 +01:00