jackhill/guix/guix.git
3 years agognu: linux-libre 4.9: Update to 4.9.271.
Leo Famulari [Thu, 3 Jun 2021 20:17:42 +0000 (16:17 -0400)]
gnu: linux-libre 4.9: Update to 4.9.271.

* gnu/packages/linux.scm (linux-libre-4.9-version): Update to 4.9.271.
(linux-libre-4.9-pristine-source): Update hash.

3 years agognu: linux-libre 4.14: Update to 4.14.235.
Leo Famulari [Thu, 3 Jun 2021 20:17:24 +0000 (16:17 -0400)]
gnu: linux-libre 4.14: Update to 4.14.235.

* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.235.
(linux-libre-4.14-pristine-source): Update hash.

3 years agognu: linux-libre 4.19: Update to 4.19.193.
Leo Famulari [Thu, 3 Jun 2021 20:17:06 +0000 (16:17 -0400)]
gnu: linux-libre 4.19: Update to 4.19.193.

* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.193.
(linux-libre-4.19-pristine-source): Update hash.

3 years agognu: linux-libre 5.4: Update to 5.4.124.
Leo Famulari [Thu, 3 Jun 2021 20:11:05 +0000 (16:11 -0400)]
gnu: linux-libre 5.4: Update to 5.4.124.

* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.124.
(linux-libre-5.4-pristine-source): Update hash.

3 years agognu: linux-libre 5.10: Update to 5.10.42.
Leo Famulari [Thu, 3 Jun 2021 20:10:48 +0000 (16:10 -0400)]
gnu: linux-libre 5.10: Update to 5.10.42.

* gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.42.
(linux-libre-5.10-pristine-source): Update hash.
(deblob-scripts-5.10): Update hash.

3 years agognu: linux-libre: Update to 5.12.9.
Leo Famulari [Thu, 3 Jun 2021 20:10:18 +0000 (16:10 -0400)]
gnu: linux-libre: Update to 5.12.9.

* gnu/packages/linux.scm (linux-libre-5.12-version): Update to 5.12.9.
(linux-libre-5.12-pristine-source): Update hash.
(deblob-scripts-5.12): Update hash.

3 years agolicenses: Add BSD-1-Clause license.
Xinglu Chen [Thu, 3 Jun 2021 17:47:42 +0000 (19:47 +0200)]
licenses: Add BSD-1-Clause license.

* licenses.scm (bsd-1): New variable.

3 years agognu: komikku: Update to 0.29.0.
Leo Prikler [Thu, 3 Jun 2021 19:46:28 +0000 (21:46 +0200)]
gnu: komikku: Update to 0.29.0.

* gnu/packages/gnome.scm (komikku): Update to 0.29.0.

3 years agognu: emacs-calibredb: Update to 2.10.0.
Nicolas Goaziou [Thu, 3 Jun 2021 19:13:23 +0000 (21:13 +0200)]
gnu: emacs-calibredb: Update to 2.10.0.

* gnu/packages/emacs-xyz.scm (emacs-calibredb): Update to 2.10.0.

3 years agodoc: Fix example iptables configuration.
Eric Brown [Sun, 30 May 2021 21:00:52 +0000 (22:00 +0100)]
doc: Fix example iptables configuration.

* doc/guix.texi (Networking Services): Allow established and related incoming
connections in example iptables configuration.

Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
3 years agognu: Add rfcat.
Guillaume Le Vaillant [Thu, 3 Jun 2021 16:17:07 +0000 (18:17 +0200)]
gnu: Add rfcat.

* gnu/packages/radio.scm (rfcat): New variable.

3 years agognu: rasdaemon: Update to 0.6.7.
Tobias Geerinckx-Rice [Wed, 2 Jun 2021 23:30:06 +0000 (01:30 +0200)]
gnu: rasdaemon: Update to 0.6.7.

* gnu/packages/linux.scm (rasdaemon): Update to 0.6.7.
[arguments]: Add a "--with-sysconfdefdir" configure flag.

3 years agognu: php: Update to 7.4.20.
Tobias Geerinckx-Rice [Thu, 3 Jun 2021 16:23:06 +0000 (18:23 +0200)]
gnu: php: Update to 7.4.20.

* gnu/packages/php.scm (php): Update to 7.4.20.

3 years agognu: fltk: Update to 1.3.6.
Tobias Geerinckx-Rice [Thu, 3 Jun 2021 10:40:52 +0000 (12:40 +0200)]
gnu: fltk: Update to 1.3.6.

* gnu/packages/fltk.scm (fltk): Update to 1.3.6.

3 years agognu: amule: Use HTTPS home page.
Tobias Geerinckx-Rice [Wed, 2 Jun 2021 23:31:56 +0000 (01:31 +0200)]
gnu: amule: Use HTTPS home page.

* gnu/packages/networking.scm (amule)[home-page]: Use HTTPS.

3 years agognu: amule: Update to 2.3.3.
Tobias Geerinckx-Rice [Wed, 2 Jun 2021 23:31:27 +0000 (01:31 +0200)]
gnu: amule: Update to 2.3.3.

* gnu/packages/networking.scm (amule): Update to 2.3.3.
[source]: Remove patch.
* gnu/packages/patches/amule-crypto-6.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.

3 years agognu: mtools: Update to 4.0.29.
Tobias Geerinckx-Rice [Wed, 2 Jun 2021 23:30:37 +0000 (01:30 +0200)]
gnu: mtools: Update to 4.0.29.

* gnu/packages/mtools.scm (mtools): Update to 4.0.29.

3 years agognu: emacs-epkg: Update to 3.3.0.
Nicolas Goaziou [Thu, 3 Jun 2021 12:49:15 +0000 (14:49 +0200)]
gnu: emacs-epkg: Update to 3.3.0.

* gnu/packages/emacs-xyz.scm (emacs-epkg): Update to 3.3.0.

3 years agognu: emacs-closql: Update to 1.0.5.
Nicolas Goaziou [Thu, 3 Jun 2021 12:45:13 +0000 (14:45 +0200)]
gnu: emacs-closql: Update to 1.0.5.

* gnu/packages/emacs-xyz.scm (emacs-closql): Update to 1.0.5.

3 years agognu: emacs-ebdb: Update to 0.6.23.
Nicolas Goaziou [Thu, 3 Jun 2021 12:29:08 +0000 (14:29 +0200)]
gnu: emacs-ebdb: Update to 0.6.23.

* gnu/packages/emacs-xyz.scm (emacs-ebdb): Update to 0.6.23.

3 years agognu: monolith: Update to 2.5.0.
Nicolas Goaziou [Wed, 2 Jun 2021 20:43:09 +0000 (22:43 +0200)]
gnu: monolith: Update to 2.5.0.

* gnu/packages/web.scm (monolith): Update to 2.5.0.

3 years agognu: rust-regex-1: Update to 1.5.4.
Nicolas Goaziou [Wed, 2 Jun 2021 20:42:14 +0000 (22:42 +0200)]
gnu: rust-regex-1: Update to 1.5.4.

* gnu/packages/crates-io.scm (rust-regex-1): Update to 1.5.4.

3 years agognu: rust-aho-corasick-0.7: Update to 0.7.18.
Nicolas Goaziou [Wed, 2 Jun 2021 20:41:16 +0000 (22:41 +0200)]
gnu: rust-aho-corasick-0.7: Update to 0.7.18.

* gnu/packages/crates-io.scm (rust-aho-corasick-0.7): Update to 0.7.18.

3 years agognu: rust-memchr-2: Update to 2.4.0.
Nicolas Goaziou [Wed, 2 Jun 2021 20:40:46 +0000 (22:40 +0200)]
gnu: rust-memchr-2: Update to 2.4.0.

* gnu/packages/crates-io.scm (rust-memchr-2): Update to 2.4.0.

3 years agognu: rust-regex-syntax-0.6: Update to 0.6.25.
Nicolas Goaziou [Wed, 2 Jun 2021 20:40:16 +0000 (22:40 +0200)]
gnu: rust-regex-syntax-0.6: Update to 0.6.25.

* gnu/packages/crates-io.scm (rust-regex-syntax-0.6): Update to 0.6.25.

3 years agognu: rust-reqwest-0.11: Fix build.
Nicolas Goaziou [Thu, 3 Jun 2021 12:23:37 +0000 (14:23 +0200)]
gnu: rust-reqwest-0.11: Fix build.

* gnu/packages/crates-io.scm (rust-reqwest-0.11)[arguments]: Add missing Cargo
development inputs.

3 years agognu: rust-reqwest-0.11: Update to 0.11.3.
Nicolas Goaziou [Wed, 2 Jun 2021 20:39:14 +0000 (22:39 +0200)]
gnu: rust-reqwest-0.11: Update to 0.11.3.

* gnu/packages/crates-io.scm (rust-reqwest-0.11): Update to 0.11.3.

3 years agognu: rust-sha2-0.9: Update to 0.9.5.
Nicolas Goaziou [Wed, 2 Jun 2021 20:38:04 +0000 (22:38 +0200)]
gnu: rust-sha2-0.9: Update to 0.9.5.

* gnu/packages/crates-io.scm (rust-sha2-0.9): Update to 0.9.5.

3 years agognu: Add rust-cpufeatures-0.1.
Nicolas Goaziou [Wed, 2 Jun 2021 20:37:04 +0000 (22:37 +0200)]
gnu: Add rust-cpufeatures-0.1.

* gnu/packages/crates-io.scm (rust-cpufeatures-0.1): New variable.

3 years agognu: Add rust-sha2-asm-0.6.
Nicolas Goaziou [Wed, 2 Jun 2021 20:33:50 +0000 (22:33 +0200)]
gnu: Add rust-sha2-asm-0.6.

* gnu/packages/crates-io.scm (rust-sha2-asm-0.6): New variable.
(rust-sha2-asm-0.5): Inherit from above.

3 years agognu: rust-url-2: Update to 2.2.2.
Nicolas Goaziou [Wed, 2 Jun 2021 20:32:08 +0000 (22:32 +0200)]
gnu: rust-url-2: Update to 2.2.2.

* gnu/packages/crates-io.scm (rust-url-2): Update to 2.2.2.

3 years agognu: rust-assert-cmd-1: Update to 1.0.4.
Nicolas Goaziou [Wed, 2 Jun 2021 20:31:25 +0000 (22:31 +0200)]
gnu: rust-assert-cmd-1: Update to 1.0.4.

* gnu/packages/crates-io.scm (rust-assert-cmd-1): Update to 1.0.4.

3 years agonews: Add entry for 'guix import egg'.
Xinglu Chen [Thu, 3 Jun 2021 11:06:52 +0000 (13:06 +0200)]
news: Add entry for 'guix import egg'.

* etc/news.scm: Add entry.

3 years agoimport: Add CHICKEN egg importer.
Xinglu Chen [Wed, 2 Jun 2021 15:18:22 +0000 (17:18 +0200)]
import: Add CHICKEN egg importer.

* guix/import/egg.scm: New file.
* guix/scripts/import/egg.scm: New file.
* tests/egg.scm: New file.
* Makefile.am (MODULES, SCM_TESTS): Register them.
* po/guix/POTFILES.in: Likewise.
* guix/scripts/import.scm (importers): Add egg importer.
* doc/guix.texi (Invoking guix import, Invoking guix refresh): Document it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
3 years agognu-maintenance: 'generic-html' computes the right source URL.
Ludovic Courtès [Thu, 3 Jun 2021 10:58:41 +0000 (12:58 +0200)]
gnu-maintenance: 'generic-html' computes the right source URL.

Fixes a regression introduced in
84f8bae0f85de081bbc55aa54ad6a50981a06a43, whereby the URL computed for
the new ffmpeg (for instance) would be:

  https://ffmpeg.org/ffmpeg-4.4.tar.xz

instead of:

  https://ffmpeg.org/releases/ffmpeg-4.4.tar.xz

Reported by Maxim Cournoyer.

* guix/gnu-maintenance.scm (latest-html-release)[url->release]: Adjust
computation in the case of a URI-reference with a relative path.

3 years agomachine: ssh: Respect calling convention for monadic procedures.
Ludovic Courtès [Thu, 3 Jun 2021 10:33:08 +0000 (12:33 +0200)]
machine: ssh: Respect calling convention for monadic procedures.

Fixes a regression introduced in
2885c3568edec35086f8feeae5b60259cbea407c.

Reported by Mathieu Othacehe.

* gnu/machine/ssh.scm (deploy-managed-host)[eval/error-handling]: Return
two values in the standard case.

3 years agognu: Add fit-sne.
Ricardo Wurmus [Thu, 3 Jun 2021 10:18:35 +0000 (12:18 +0200)]
gnu: Add fit-sne.

* gnu/packages/bioinformatics.scm (fit-sne): New variable.

3 years agognu: r-with-tests: Use patched texlive-amsfonts.
Lars-Dominik Braun [Thu, 3 Jun 2021 09:18:03 +0000 (11:18 +0200)]
gnu: r-with-tests: Use patched texlive-amsfonts.

See commit 75af43162e58a0b3fdc804963809ecb801fb81b7.

* gnu/packages/statistics.scm (r-with-tests)[native-inputs]: Replace
texlive-amsfonts with texlive-amsfonts/patched.

3 years agognu: openshot: Use free font.
Leo Prikler [Thu, 3 Jun 2021 06:49:18 +0000 (08:49 +0200)]
gnu: openshot: Use free font.

* gnu/packages/video.scm (openshot)[inputs]: Use font-dejavu.
[patch-font-location]: Adjust accordingly.

3 years agognu: Remove font-ubuntu.
Leo Prikler [Thu, 3 Jun 2021 06:26:23 +0000 (08:26 +0200)]
gnu: Remove font-ubuntu.

The Ubuntu Font License has not been approved by the FSF and is considered
non-free by Debian and Fedora, see <https://bugs.gnu.org/48802>.

* gnu/packages/fonts.scm (font-ubuntu): Removed variable.

3 years agognu: Add legit.
Pierre Neidhardt [Thu, 3 Jun 2021 06:23:23 +0000 (08:23 +0200)]
gnu: Add legit.

* gnu/packages/lisp-xyz.scm (cl-legit, ecl-legit, sbcl-legit): New variables.

3 years agognu: Add simple-inferiors.
Pierre Neidhardt [Thu, 3 Jun 2021 06:23:13 +0000 (08:23 +0200)]
gnu: Add simple-inferiors.

* gnu/packages/lisp-xyz.scm (cl-simple-inferiors, ecl-simple-inferiors,
sbcl-simple-inferiors): New variables.

3 years agognu: curl: Update to 7.77.0 [fixes CVE-2021-{22897,22898,22901}].
Leo Famulari [Tue, 1 Jun 2021 00:08:40 +0000 (20:08 -0400)]
gnu: curl: Update to 7.77.0 [fixes CVE-2021-{22897,22898,22901}].

* gnu/packages/curl.scm (curl/fixed): Replace with ...
(curl-7.77.0): ... new variable.
(curl)[replacement]: Use curl-7.77.0.

3 years agognu: expat: Replace with 2.4.1 [fixes CVE-2013-0340].
Marius Bakke [Sun, 23 May 2021 12:22:16 +0000 (14:22 +0200)]
gnu: expat: Replace with 2.4.1 [fixes CVE-2013-0340].

* gnu/packages/xml.scm (expat-2.4.1): New variable.
(expat)[replacement]: New field.

Co-authored-by: Leo Famulari <leo@famulari.name>
3 years agognu: Add emacs-org-pandoc-import.
Xinglu Chen [Wed, 26 May 2021 14:16:04 +0000 (16:16 +0200)]
gnu: Add emacs-org-pandoc-import.

* gnu/packages/emacs-xyz.scm (emacs-org-pandoc-import): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
3 years agognu: pioneer: Build with model files.
Diego Nicola Barbato [Thu, 25 Feb 2021 09:00:13 +0000 (10:00 +0100)]
gnu: pioneer: Build with model files.

Fixes <https://bugs.gnu.org/48686>.

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

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
3 years agognu: r-robustbase: Update to 0.93-8.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:08 +0000 (17:23 +0200)]
gnu: r-robustbase: Update to 0.93-8.

* gnu/packages/statistics.scm (r-robustbase): Update to 0.93-8.

3 years agognu: r-deoptimr: Update to 1.0-9.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:08 +0000 (17:23 +0200)]
gnu: r-deoptimr: Update to 1.0-9.

* gnu/packages/statistics.scm (r-deoptimr): Update to 1.0-9.

3 years agognu: r-beeswarm: Update to 0.4.0.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:08 +0000 (17:23 +0200)]
gnu: r-beeswarm: Update to 0.4.0.

* gnu/packages/statistics.scm (r-beeswarm): Update to 0.4.0.

3 years agognu: r-fastcluster: Update to 1.2.3.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:08 +0000 (17:23 +0200)]
gnu: r-fastcluster: Update to 1.2.3.

* gnu/packages/statistics.scm (r-fastcluster): Update to 1.2.3.

3 years agognu: r-matrixstats: Update to 0.59.0.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:08 +0000 (17:23 +0200)]
gnu: r-matrixstats: Update to 0.59.0.

* gnu/packages/statistics.scm (r-matrixstats): Update to 0.59.0.

3 years agognu: r-e1071: Update to 1.7-7.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:08 +0000 (17:23 +0200)]
gnu: r-e1071: Update to 1.7-7.

* gnu/packages/statistics.scm (r-e1071): Update to 1.7-7.

3 years agognu: r-rcpparmadillo: Update to 0.10.5.0.0.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:08 +0000 (17:23 +0200)]
gnu: r-rcpparmadillo: Update to 0.10.5.0.0.

* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.10.5.0.0.

3 years agognu: r-rversions: Update to 2.1.1.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:07 +0000 (17:23 +0200)]
gnu: r-rversions: Update to 2.1.1.

* gnu/packages/statistics.scm (r-rversions): Update to 2.1.1.

3 years agognu: r-formatr: Update to 1.11.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:07 +0000 (17:23 +0200)]
gnu: r-formatr: Update to 1.11.

* gnu/packages/statistics.scm (r-formatr): Update to 1.11.

3 years agognu: r-mgcv: Update to 1.8-36.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:07 +0000 (17:23 +0200)]
gnu: r-mgcv: Update to 1.8-36.

* gnu/packages/statistics.scm (r-mgcv): Update to 1.8-36.

3 years agognu: r-matrix: Update to 1.3-4.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:07 +0000 (17:23 +0200)]
gnu: r-matrix: Update to 1.3-4.

* gnu/packages/statistics.scm (r-matrix): Update to 1.3-4.

3 years agognu: r-textshape: Update to 1.7.3.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:07 +0000 (17:23 +0200)]
gnu: r-textshape: Update to 1.7.3.

* gnu/packages/cran.scm (r-textshape): Update to 1.7.3.

3 years agognu: r-calculus: Update to 0.3.1.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:07 +0000 (17:23 +0200)]
gnu: r-calculus: Update to 0.3.1.

* gnu/packages/cran.scm (r-calculus): Update to 0.3.1.

3 years agognu: r-seurat: Update to 4.0.2.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:07 +0000 (17:23 +0200)]
gnu: r-seurat: Update to 4.0.2.

* gnu/packages/cran.scm (r-seurat): Update to 4.0.2.

3 years agognu: r-parsnip: Update to 0.1.6.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:06 +0000 (17:23 +0200)]
gnu: r-parsnip: Update to 0.1.6.

* gnu/packages/cran.scm (r-parsnip): Update to 0.1.6.
[propagated-inputs]: Add r-lifecycle.

3 years agognu: r-clusterr: Update to 1.2.5.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:06 +0000 (17:23 +0200)]
gnu: r-clusterr: Update to 1.2.5.

* gnu/packages/cran.scm (r-clusterr): Update to 1.2.5.

3 years agognu: r-rsconnect: Update to 0.8.18.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:06 +0000 (17:23 +0200)]
gnu: r-rsconnect: Update to 0.8.18.

* gnu/packages/cran.scm (r-rsconnect): Update to 0.8.18.

3 years agognu: r-forecast: Update to 8.15.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:06 +0000 (17:23 +0200)]
gnu: r-forecast: Update to 8.15.

* gnu/packages/cran.scm (r-forecast): Update to 8.15.

3 years agognu: r-archivist: Update to 2.3.6.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:06 +0000 (17:23 +0200)]
gnu: r-archivist: Update to 2.3.6.

* gnu/packages/cran.scm (r-archivist): Update to 2.3.6.

3 years agognu: r-biclust: Update to 2.0.3.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:06 +0000 (17:23 +0200)]
gnu: r-biclust: Update to 2.0.3.

* gnu/packages/cran.scm (r-biclust): Update to 2.0.3.

3 years agognu: r-actuar: Update to 3.1-4.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:05 +0000 (17:23 +0200)]
gnu: r-actuar: Update to 3.1-4.

* gnu/packages/cran.scm (r-actuar): Update to 3.1-4.

3 years agognu: r-gdina: Update to 2.8.7.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:05 +0000 (17:23 +0200)]
gnu: r-gdina: Update to 2.8.7.

* gnu/packages/cran.scm (r-gdina): Update to 2.8.7.

3 years agognu: r-parameters: Update to 0.14.0.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:05 +0000 (17:23 +0200)]
gnu: r-parameters: Update to 0.14.0.

* gnu/packages/cran.scm (r-parameters): Update to 0.14.0.

3 years agognu: r-leiden: Update to 0.3.8.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:05 +0000 (17:23 +0200)]
gnu: r-leiden: Update to 0.3.8.

* gnu/packages/cran.scm (r-leiden): Update to 0.3.8.

3 years agognu: r-plot3d: Update to 1.4.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:05 +0000 (17:23 +0200)]
gnu: r-plot3d: Update to 1.4.

* gnu/packages/cran.scm (r-plot3d): Update to 1.4.

3 years agognu: r-dalex: Update to 2.2.1.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:05 +0000 (17:23 +0200)]
gnu: r-dalex: Update to 2.2.1.

* gnu/packages/cran.scm (r-dalex): Update to 2.2.1.

3 years agognu: r-spdep: Update to 1.1-8.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:04 +0000 (17:23 +0200)]
gnu: r-spdep: Update to 1.1-8.

* gnu/packages/cran.scm (r-spdep): Update to 1.1-8.
[source]: Remove generated files, including Rmarkdown files whose outputs
conflict with the main Rmarkdown file.

3 years agognu: r-tidytree: Update to 0.3.4.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:04 +0000 (17:23 +0200)]
gnu: r-tidytree: Update to 0.3.4.

* gnu/packages/cran.scm (r-tidytree): Update to 0.3.4.

3 years agognu: r-ks: Update to 1.13.1.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:04 +0000 (17:23 +0200)]
gnu: r-ks: Update to 1.13.1.

* gnu/packages/cran.scm (r-ks): Update to 1.13.1.
[propagated-inputs]: Add r-pracma.

3 years agognu: r-weights: Update to 1.0.2.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:04 +0000 (17:23 +0200)]
gnu: r-weights: Update to 1.0.2.

* gnu/packages/cran.scm (r-weights): Update to 1.0.2.
[propagated-inputs]: Add r-lme4.

3 years agognu: r-mvabund: Update to 4.1.12.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:04 +0000 (17:23 +0200)]
gnu: r-mvabund: Update to 4.1.12.

* gnu/packages/cran.scm (r-mvabund): Update to 4.1.12.

3 years agognu: r-sjplot: Update to 2.8.8.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:03 +0000 (17:23 +0200)]
gnu: r-sjplot: Update to 2.8.8.

* gnu/packages/cran.scm (r-sjplot): Update to 2.8.8.

3 years agognu: r-effectsize: Update to 0.4.5.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:03 +0000 (17:23 +0200)]
gnu: r-effectsize: Update to 0.4.5.

* gnu/packages/cran.scm (r-effectsize): Update to 0.4.5.

3 years agognu: r-bayestestr: Update to 0.10.0.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:03 +0000 (17:23 +0200)]
gnu: r-bayestestr: Update to 0.10.0.

* gnu/packages/cran.scm (r-bayestestr): Update to 0.10.0.

3 years agognu: r-emmeans: Update to 1.6.1.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:03 +0000 (17:23 +0200)]
gnu: r-emmeans: Update to 1.6.1.

* gnu/packages/cran.scm (r-emmeans): Update to 1.6.1.

3 years agognu: r-manipulatewidget: Update to 0.11.0.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:03 +0000 (17:23 +0200)]
gnu: r-manipulatewidget: Update to 0.11.0.

* gnu/packages/cran.scm (r-manipulatewidget): Update to 0.11.0.
[propagated-inputs]: Add r-shinyjs.
[native-inputs]: Add r-knitr.

3 years agognu: r-insight: Update to 0.14.1.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:02 +0000 (17:23 +0200)]
gnu: r-insight: Update to 0.14.1.

* gnu/packages/cran.scm (r-insight): Update to 0.14.1.

3 years agognu: r-rdpack: Update to 2.1.2.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:02 +0000 (17:23 +0200)]
gnu: r-rdpack: Update to 2.1.2.

* gnu/packages/cran.scm (r-rdpack): Update to 2.1.2.

3 years agognu: r-fansi: Update to 0.5.0.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:02 +0000 (17:23 +0200)]
gnu: r-fansi: Update to 0.5.0.

* gnu/packages/cran.scm (r-fansi): Update to 0.5.0.

3 years agognu: r-zip: Update to 2.2.0.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:02 +0000 (17:23 +0200)]
gnu: r-zip: Update to 2.2.0.

* gnu/packages/cran.scm (r-zip): Update to 2.2.0.

3 years agognu: r-signal: Update to 0.7-7.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:01 +0000 (17:23 +0200)]
gnu: r-signal: Update to 0.7-7.

* gnu/packages/cran.scm (r-signal): Update to 0.7-7.

3 years agognu: r-tinytex: Update to 0.32.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:01 +0000 (17:23 +0200)]
gnu: r-tinytex: Update to 0.32.

* gnu/packages/cran.scm (r-tinytex): Update to 0.32.

3 years agognu: r-fitdistrplus: Update to 1.1-5.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:01 +0000 (17:23 +0200)]
gnu: r-fitdistrplus: Update to 1.1-5.

* gnu/packages/cran.scm (r-fitdistrplus): Update to 1.1-5.

3 years agognu: r-inline: Update to 0.3.19.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:01 +0000 (17:23 +0200)]
gnu: r-inline: Update to 0.3.19.

* gnu/packages/cran.scm (r-inline): Update to 0.3.19.

3 years agognu: r-extremes: Update to 2.1-1.
Ricardo Wurmus [Wed, 2 Jun 2021 15:23:01 +0000 (17:23 +0200)]
gnu: r-extremes: Update to 2.1-1.

* gnu/packages/cran.scm (r-extremes): Update to 2.1-1.

3 years agognu: r-bisquerna: Update to 1.0.5.
Ricardo Wurmus [Wed, 2 Jun 2021 15:22:57 +0000 (17:22 +0200)]
gnu: r-bisquerna: Update to 1.0.5.

* gnu/packages/bioconductor.scm (r-bisquerna): Update to 1.0.5.
[native-inputs]: Add r-knitr.

3 years agognu: python-django@2.2: Update to 2.2.24 [fixes CVE-2021-33203, CVE-2021-33571].
Marius Bakke [Wed, 2 Jun 2021 12:41:29 +0000 (14:41 +0200)]
gnu: python-django@2.2: Update to 2.2.24 [fixes CVE-2021-33203, CVE-2021-33571].

* gnu/packages/django.scm (python-django-2.2): Update to 2.2.24.

3 years agognu: python-django: Update to 3.2.4 [fixes CVE-2021-33203, CVE-2021-33571].
Marius Bakke [Wed, 2 Jun 2021 12:39:06 +0000 (14:39 +0200)]
gnu: python-django: Update to 3.2.4 [fixes CVE-2021-33203, CVE-2021-33571].

* gnu/packages/django.scm (python-django): Update to 3.2.4.

3 years agognu: Add udftools.
Ron Nazarov via Guix-patches via [Wed, 2 Jun 2021 12:32:45 +0000 (13:32 +0100)]
gnu: Add udftools.

* gnu/packages/file-systems.scm (udftools): New variable.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
3 years agognu: ispell: Update to 3.4.03.
Tobias Geerinckx-Rice [Wed, 2 Jun 2021 11:40:01 +0000 (13:40 +0200)]
gnu: ispell: Update to 3.4.03.

* gnu/packages/aspell.scm (ispell): Update to 3.4.03.

3 years agognu: Add biobambam2.
Ricardo Wurmus [Wed, 2 Jun 2021 11:45:54 +0000 (13:45 +0200)]
gnu: Add biobambam2.

* gnu/packages/bioinformatics.scm (biobambam2): New variable.

3 years agognu: Add libmaus2.
Ricardo Wurmus [Wed, 2 Jun 2021 10:12:00 +0000 (12:12 +0200)]
gnu: Add libmaus2.

* gnu/packages/bioinformatics.scm (libmaus2): New variable.

3 years agognu: r-with-tests: Update to 4.1.0.
Ricardo Wurmus [Wed, 2 Jun 2021 08:52:24 +0000 (10:52 +0200)]
gnu: r-with-tests: Update to 4.1.0.

* gnu/packages/statistics.scm (r-with-tests): Update to 4.1.0.

3 years agognu: memtester: Update to 4.5.1.
Tobias Geerinckx-Rice [Tue, 1 Jun 2021 23:37:45 +0000 (01:37 +0200)]
gnu: memtester: Update to 4.5.1.

* gnu/packages/hardware.scm (memtester): Update to 4.5.1.