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47565 Commits

Author SHA1 Message Date
Ricardo Wurmus f791b1eecc
gnu: r-rsubread: Update to 1.34.7. 
* gnu/packages/bioconductor.scm (r-rsubread): Update to 1.34.7.
 2019-09-08 00:30:33 +02:00
Ricardo Wurmus a39222d7e2
gnu: r-regioner: Update to 1.16.3. 
* gnu/packages/bioconductor.scm (r-regioner): Update to 1.16.3.
 2019-09-08 00:30:33 +02:00
Ricardo Wurmus d40ebbf228
gnu: r-gprofiler: Update to 0.6.8. 
* gnu/packages/bioinformatics.scm (r-gprofiler): Update to 0.6.8.
 2019-09-08 00:30:33 +02:00
Ricardo Wurmus 8e70b33c56
gnu: r-annotationhub: Update to 2.16.1. 
* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.16.1.
 2019-09-08 00:30:33 +02:00
Ricardo Wurmus f70599cb78
gnu: r-edger: Update to 3.26.8. 
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.26.8.
 2019-09-08 00:30:33 +02:00
Ricardo Wurmus 801dc98f1f
gnu: r-ggraph: Update to 2.0.0. 
* gnu/packages/cran.scm (r-ggraph): Update to 2.0.0.
[propagated-inputs]: Add r-graphlayouts, r-rlang, and r-tidygraph; remove
r-plyr.
 2019-09-08 00:30:33 +02:00
Ricardo Wurmus 995a20e892
gnu: r-msigdbr: Update to 7.0.1. 
* gnu/packages/cran.scm (r-msigdbr): Update to 7.0.1.
 2019-09-08 00:30:33 +02:00
Ricardo Wurmus f396d343b7
gnu: r-ggeffects: Update to 0.12.0. 
* gnu/packages/cran.scm (r-ggeffects): Update to 0.12.0.
 2019-09-08 00:30:33 +02:00
Ricardo Wurmus 9a4706828c
gnu: r-ggformula: Update to 0.9.2. 
* gnu/packages/cran.scm (r-ggformula): Update to 0.9.2.
 2019-09-08 00:30:33 +02:00
Ricardo Wurmus c90eebf791
gnu: r-insight: Update to 0.5.0. 
* gnu/packages/cran.scm (r-insight): Update to 0.5.0.
 2019-09-08 00:30:33 +02:00
Ricardo Wurmus f11920c759
gnu: r-ggpubr: Update to 0.2.3. 
* gnu/packages/cran.scm (r-ggpubr): Update to 0.2.3.
 2019-09-08 00:30:32 +02:00
Ricardo Wurmus 9960ad55be
gnu: r-geometry: Update to 0.4.4. 
* gnu/packages/cran.scm (r-geometry): Update to 0.4.4.
 2019-09-08 00:30:32 +02:00
Ricardo Wurmus 02efab6917
gnu: r-feather: Update to 0.3.4. 
* gnu/packages/cran.scm (r-feather): Update to 0.3.4.
 2019-09-08 00:30:32 +02:00
Ricardo Wurmus 5e7c6e54c8
gnu: r-matrixstats: Update to 0.55.0. 
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.55.0.
 2019-09-08 00:30:32 +02:00
Ricardo Wurmus de162a1509
gnu: r-rcpparmadillo: Update to 0.9.700.2.0. 
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.9.700.2.0.
 2019-09-08 00:30:32 +02:00
Ricardo Wurmus 2b705168e9
gnu: r-devtools: Update to 2.2.0. 
* gnu/packages/statistics.scm (r-devtools): Update to 2.2.0.
[propagated-inputs]: Add r-covr, r-crayon, r-desc, r-dt, r-ellipsis, r-glue,
and r-rversions.
 2019-09-08 00:30:32 +02:00
Ricardo Wurmus e5cf3722c6
gnu: r-gdtools: Update to 0.2.0. 
* gnu/packages/statistics.scm (r-gdtools): Update to 0.2.0.
[inputs]: Add freetype.
[propagated-inputs]: Add r-systemfonts; remove r-withr.
 2019-09-08 00:30:32 +02:00
Ricardo Wurmus 9567bd8dd9
gnu: Add r-tidygraph. 
* gnu/packages/cran.scm (r-tidygraph): New variable.
 2019-09-08 00:30:32 +02:00
Ricardo Wurmus 9390300915
gnu: Add r-graphlayouts. 
* gnu/packages/cran.scm (r-graphlayouts): New variable.
 2019-09-08 00:30:32 +02:00
Ricardo Wurmus 6983178b06
gnu: Add r-systemfonts. 
* gnu/packages/cran.scm (r-systemfonts): New variable.
 2019-09-08 00:30:32 +02:00
Ricardo Wurmus 7a5ed348c0
gnu: Add r-covr. 
* gnu/packages/cran.scm (r-covr): New variable.
 2019-09-08 00:30:32 +02:00
Julien Lepiller 1d03a9198d
tests: opam: Fix input type in import test. 
* tests/opam.scm: Expect propagated-inputs instead of inputs.
 2019-09-07 22:25:14 +02:00
Arun Isaac 9d280ef2a8
gnu: poussetaches: Update to 0.0.2. 
* gnu/packages/web.scm (poussetaches): Update to 0.0.2.
 2019-09-08 00:02:59 +05:30
Julien Lepiller e877f4d012
gnu: nml: Fix for newer pillow version. 
* gnu/packages/game-development.scm (nml)[arguments]: Add a phase to fix
for newer pillow.
 2019-09-07 20:14:50 +02:00
Ludovic Courtès 8ba31e8bd1
doc: Use @lisp instead of @example for Scheme snippets. 
This is a followup to f8c143a713, which
allows syntax highlighting of @lisp snippets in the HTML output.

* doc/guix.texi, doc/contributing.texi: Use @lisp instead of @example
for all the Scheme snippets.
 2019-09-07 18:42:08 +02:00
Ludovic Courtès 7854bbeb3f
doc: Work around (htmlprag) parser issue. 
* doc/build.scm (guile-lib/htmlprag-fixed): New variable.
(syntax-highlighted-html): Use it instead of GUILE-LIB.
 2019-09-07 18:42:08 +02:00
Kei Kebreau c3a7dae831
gnu: qtermwidget: Enable UTF-8 support. 
* gnu/packages/lxqt.scm (qtermwidget)[inputs]: Add utf8proc.
 2019-09-07 09:17:34 -04:00
Rutger Helling 08b3521000
gnu: wireguard: Update to 0.0.20190905. 
* gnu/packages/vpn.scm (wireguard): Update to 0.0.20190905.
 2019-09-07 11:16:24 +02:00
Mark H Weaver f66aee3d0d
gnu: linux-libre: Update to 5.2.13. 
* gnu/packages/linux.scm (linux-libre-5.2-version): Update to 5.2.13.
(linux-libre-5.2-pristine-source): Update hash.
 2019-09-06 20:42:05 -04:00
Mark H Weaver a6ec7eba26
gnu: linux-libre@4.14: Update to 4.19.71. 
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.71.
(linux-libre-4.19-pristine-source): Update hash.
 2019-09-06 20:41:23 -04:00
Mark H Weaver d45f5c40a2
gnu: linux-libre@4.14: Update to 4.14.142. 
* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.142.
(linux-libre-4.14-pristine-source): Update hash.
 2019-09-06 20:40:18 -04:00
Mark H Weaver 67ad69b768
gnu: linux-libre@4.9: Update to 4.9.191. 
* gnu/packages/linux.scm (linux-libre-4.9-version): Update to 4.9.191.
(linux-libre-4.9-pristine-source): Update hash.
 2019-09-06 20:39:13 -04:00
Mark H Weaver be0fb599e7
gnu: linux-libre@4.4: Update to 4.4.191. 
* gnu/packages/linux.scm (linux-libre-4.4-version): Update to 4.4.191.
(linux-libre-4.4-pristine-source): Update hash.
 2019-09-06 20:38:06 -04:00
Mark H Weaver 3fe53f49a7
Revert "services: Add ‘/usr/bin/env’ special file." 
This reverts commit 3b38bf141a.

The Guix project discussed this years ago and decided against including
/usr/bin/env.  That decision should not be reversed without a wider
discussion.
 2019-09-06 19:35:08 -04:00
Ricardo Wurmus a35f153d54
gnu: python-scipy: Update to 1.3.1. 
* gnu/packages/python-xyz.scm (python-scipy): Update to 1.3.1.
(python2-scipy): Keep at version 1.2.2.
 2019-09-07 00:48:12 +02:00
L p R n d n 8cc5d3dc4d
gnu: xfce4-panel: Fix tzdata path. 
* gnu/packages/xfce.scm (xfce4-panel)[inputs]: Add tzdata.
[arguments] Add Fix-tzdata-path phase.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-07 00:36:34 +02:00
L p R n d n 64200f0197
gnu: libxfce4ui: Add vendor. 
* gnu/packages/xfce.scm (libxfce4ui)[arguments]: Add #:configure-flags.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-07 00:36:34 +02:00
L p R n d n 48af935672
gnu: libxfce4ui: Add gobject-introspection support. 
* gnu/packages/xfce.scm (libxfce4ui): Add gobject-introspection to native-inputs.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-07 00:36:34 +02:00
L p R n d n 279b5730d4
gnu: xfconf: Fix tests. 
* gnu/packages/xfce.scm (xfconf)[arguments]: Rename check phase to
  custom-check.
  [native-inputs]: Add dbus.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-07 00:36:34 +02:00
L p R n d n dbfd5a1380
gnu: xfconf: Add vala support. 
* gnu/packages/xfce.scm (xfconf): Add vala to native-inputs.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-07 00:36:34 +02:00
L p R n d n 2c10c4182c
gnu: xfconf: Add support for gobject-introspection. 
* gnu/packages/xfce.scm (xfconf): Add gobject-introspection to native-inputs.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-07 00:36:34 +02:00
Ludovic Courtès f8c143a713
doc: Highlight Scheme syntax in the HTML output. 
* doc/build.scm (syntax-highlighted-html): New procedure.
(html-manual): Use it.
 2019-09-07 00:36:34 +02:00
Ludovic Courtès 4961364f16
gnu: qtwebkit: Disable non-x86 builds. 
* gnu/packages/qt.scm (qtwebkit)[supported-systems]: New field.
 2019-09-07 00:36:34 +02:00
Ludovic Courtès 61acb764ed
gnu: ecl-net.didierverna.asdf-flv: Fix variable name. 
Fixes a typo in 0403d01f01.

* gnu/packages/lisp.scm (ecl-net.didierverna.asdf-flv): New name of the
second occurrence of 'ecl-alexandria'.
 2019-09-07 00:36:34 +02:00
Ricardo Wurmus 7fc41e6e66
gnu: Add emacs-poet-theme. 
* gnu/packages/emacs-xyz.scm (emacs-poet-theme): New variable.
 2019-09-06 23:29:34 +02:00
Tobias Geerinckx-Rice ccbd1648f4
gnu: exim: Update to 4.92.2 [fixes CVE-2019-15846]. 
* gnu/packages/mail.scm (exim): Update to 4.92.2.
 2019-09-06 17:36:04 +02:00
Efraim Flashner cae5312758
gnu: crates-io.scm: Fix several home-pages. 
* gnu/packages/crates-io.scm (rust-constant-time-eq, rust-fixedbitset,
rust-futures, rust-pico-sys, rust-pkg-config, rust-quick-error,
rust-remove-dir-all, rust-spin, rust-tempdir, rust-traitobject,
rust-void)[home-page]: Update to correct home-page.
 2019-09-06 17:25:03 +03:00
Ricardo Wurmus 8205534569
gnu: Add samblaster. 
* gnu/packages/bioinformatics.scm (samblaster): New variable.
 2019-09-06 15:00:49 +02:00
Ricardo Wurmus 7cd446fd3f
gnu: Add r-txdb-celegans-ucsc-ce6-ensgene. 
* gnu/packages/bioconductor.scm (r-txdb-celegans-ucsc-ce6-ensgene): New
variable.
 2019-09-06 15:00:49 +02:00
Efraim Flashner 41ba4cf150
gnu: Add rust-parity-wasm. 
* gnu/packages/crates-io.scm (rust-parity-wasm): New variable.
 2019-09-06 15:46:04 +03:00