Commit Graph

36622 Commits

Author SHA1 Message Date
Maxim Cournoyer da6026792b
gnu: Add libmemcached.
* gnu/packages/databases.scm (libmemcached): New variable.
2019-05-09 00:22:37 -04:00
Mark H Weaver c526b3176f
gnu: linux-libre: Update to 5.0.14.
* gnu/packages/linux.scm (%linux-libre-version): Update to 5.0.14.
(%linux-libre-hash): Update hash.
2019-05-08 22:51:27 -04:00
Mark H Weaver 013130cf0b
gnu: linux-libre@4.19: Update to 4.19.41.
* gnu/packages/linux.scm (%linux-libre-4.19-version): Update to 4.19.41.
(%linux-libre-4.19-hash): Update hash.
2019-05-08 22:19:29 -04:00
Mark H Weaver f9ab5c47bd
gnu: linux-libre@4.14: Update to 4.14.117.
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.117.
(%linux-libre-4.14-hash): Update hash.
2019-05-08 22:18:13 -04:00
Mark H Weaver 9902e3dfd8
gnu: linux-libre@4.9: Update to 4.9.174.
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.174.
2019-05-08 22:17:31 -04:00
Tobias Geerinckx-Rice 429a38a009
gnu: usbutils: Add ‘python’ output.
* gnu/packages/linux.scm (usbutils)[outputs]: Add ‘python’.
[arguments]: Add ‘separate-python-output’ phase.
2019-05-09 01:14:55 +02:00
Tobias Geerinckx-Rice a6592732cf
gnu: usbutils: Fix broken lsusb.py.
* gnu/packages/linux.scm (usbutils)[inputs]: Add python.
2019-05-09 01:14:55 +02:00
Tobias Geerinckx-Rice 5b26635893
gnu: usbutils: Update to 012.
* gnu/packages/linux.scm (usbutils): Update to 012.
[arguments]: Add ‘patch-bootstrap-scripts’ phase.
[native-inputs]: Add autoconf, automake, and libtool.
2019-05-09 01:14:55 +02:00
Marius Bakke 6346dca4bb
gnu: mariadb: Update to 10.1.40.
* gnu/packages/databases.scm (mariadb): Update to 10.1.40.
2019-05-08 23:32:54 +02:00
Marius Bakke dc80b28d4b
gnu: Valgrind: Remove version 3.14.0.
* gnu/packages/valgrind.scm (valgrind): Update to 3.15.0.
(valgrind-3.15): Remove variable.
2019-05-08 23:32:54 +02:00
Marius Bakke 8d1644a1f5
gnu: libgsf: Update to 1.14.46.
* gnu/packages/gnome.scm (libgsf): Update to 1.14.46.
2019-05-08 23:32:54 +02:00
Tobias Geerinckx-Rice 26fad5b7df
gnu: mbpfan: Update to 2.1.1.
* gnu/packages/linux.scm (mbpfan): Update to 2.1.1.
2019-05-08 23:21:34 +02:00
Tobias Geerinckx-Rice b786ae69aa
gnu: dovecot: Update to 2.3.6.
* gnu/packages/mail.scm (dovecot): Update to 2.3.6.
2019-05-08 23:21:34 +02:00
Tobias Geerinckx-Rice 05ee17872c
gnu: mpop: Update to 1.4.4.
* gnu/packages/mail.scm (mpop): Update to 1.4.4.
2019-05-08 23:21:34 +02:00
Tobias Geerinckx-Rice 3f45c6cfcb
gnu: gmime: Update to 3.2.3.
* gnu/packages/mail.scm (gmime): Update to 3.2.3.
2019-05-08 23:21:34 +02:00
Tobias Geerinckx-Rice 9f53d58ae1
gnu: opari2: Use HTTPS home page.
* gnu/packages/profiling.scm (opari2)[home-page]: Use HTTPS.
2019-05-08 23:21:34 +02:00
Tobias Geerinckx-Rice 2cea4ac780
gnu: opari2: Update to 2.0.4.
* gnu/packages/profiling.scm (opari2): Update to 2.0.4.
2019-05-08 23:21:34 +02:00
Tobias Geerinckx-Rice d21649440b
gnu: fasm: Update to 1.73.11.
* gnu/packages/assembly.scm (fasm): Update to 1.73.11.
2019-05-08 23:21:34 +02:00
Leo Famulari 5c89429586
gnu: Syncthing: Update to 1.1.2.
*  gnu/packages/syncthing.scm (syncthing): Update to 1.1.2.
2019-05-08 14:57:11 -04:00
Efraim Flashner e54a6543a0
gnu: python-efl: Update to 1.22.0.
* gnu/packages/enlightenment.scm (python-efl): Update to 1.22.0.
[source]: Use https.  Add snippet to remove files generated by cython.
2019-05-08 19:55:13 +03:00
Efraim Flashner 944bdb2afe
gnu: terminology: Update build.
* gnu/packages/enlightenment.scm (terminology)[arguments]: Add to
configure-flags.  Add custom 'set-home-directory phase.
2019-05-08 19:55:13 +03:00
Efraim Flashner 3ec29587b5
gnu: efl: Update to 1.22.2.
* gnu/packages/enlightenment.scm (efl): Update to 1.22.2.
[propagated-inputs]: Move libsndfile, pulseaudio ...
[inputs]: ... to here.
[source]: Remove patch.
* gnu/packages/patches/efl-mesa-compat.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2019-05-08 19:55:12 +03:00
Tobias Geerinckx-Rice 515a92cf20
gnu: liburcu: Update to 0.11.0.
* gnu/packages/datastructures.scm (liburcu): Update to 0.11.0.
2019-05-08 16:41:55 +02:00
Nicolas Goaziou 1a6482d43c
gnu: Add copyright header.
* gnu/packages/fonts.scm: Add copyright header.
2019-05-08 15:20:08 +02:00
Nicolas Goaziou 4b360985eb
gnu: Add font-sil-andika.
* gnu/packages/fonts.scm (font-sil-andika): New variable.
2019-05-08 15:18:55 +02:00
Rutger Helling aa986c9cd6
gnu: retroarch: Update to 1.7.7.
* gnu/packages/emulators.scm (retroarch): Update to 1.7.7.
2019-05-08 08:15:46 +02:00
Oleg Pykhalov 56aee1968f
gnu: emacs-irfc: Update to 20130824.507-1.
This commits changes package's source hash, because 'irfc.el' file was
modified. New file contains HTTPS instead of HTTP URLs.

* gnu/packages/emacs-xyz.scm (emacs-irfc): Update to 20130824.507-1.
2019-05-08 02:06:51 +03:00
Nicolas Goaziou 5d51a9771d
gnu: tlp: Update to 1.2.2.
* gnu/packages/linux.scm (tlp): Update to 1.2.2.
2019-05-07 23:41:00 +02:00
Pierre Neidhardt 338defe0cb
gnu: sbcl-next: Update to 1.2.1.
* gnu/packages/web-browsers.scm (sbcl-next): Update to 1.2.1.
2019-05-07 19:18:37 +02:00
Pierre Neidhardt cbbdc5c795
gnu: next-gtk-webkit: Update to 1.2.1.
* gnu/packages/web-browsers.scm (next-gtk-webkit): Update to 1.2.1.
2019-05-07 19:18:28 +02:00
Diego Nicola Barbato 6426a8fb6c
gnu: slim: Allow customisation of Xorg display.
Previously SLiM could only start on display :0.0.  This change makes it
possible to run multiple instances of SLiM at the same time.

* gnu/packages/patches/slim-display.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/display-managers.scm (slim): Use it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-07 15:46:54 +02:00
Ludovic Courtès 341225ac6c
gnu: gnome-control-center: Patch file name of 'nm-connection-editor'.
* gnu/packages/gnome.scm (gnome-control-center)[argument]: In
'patch-paths' phase, provide absolute file name to
'nm-connection-editor' in panels/network/*.c
2019-05-07 15:46:53 +02:00
Ludovic Courtès 1df38cfcc7
gnu: gnome-control-center: Patch file name of 'gkbd-keyboard-display'.
Fixes <https://bugs.gnu.org/35605>.
Reported by sirgazil <sirgazil@zoho.com>.

* gnu/packages/gnome.scm (gnome-control-center)[arguments]: In
'patch-paths' phase, patch "cc-region-panel.cc" and provide it with the
absolute file name of 'gkbd-keyboard-display'.
2019-05-07 15:46:53 +02:00
Pierre Neidhardt bdd30bf00b
gnu: Add sbcl-find-port, cl-find-port, and ecl-find-port.
* gnu/packages/lisp.scm (sbcl-find-port, cl-find-port, ecl-find-port): New
variables.
2019-05-07 12:43:31 +02:00
Nicolas Goaziou 08c06cd8ac
gnu: grammalecte: Update to 1.0.2.
* gnu/packages/dictionaries.scm (grammalecte): Update to 1.0.2.
2019-05-07 10:25:19 +02:00
Rutger Helling 239baad9c4
gnu: vulkan-headers: Update to 1.1.107.
* gnu/packages/vulkan.scm (vulkan-headers): Update to 1.1.107.
* gnu/packages/vulkan.scm (vulkan-loader): Update hash.
* gnu/packages/vulkan.scm (vulkan-tools): Update hash.
2019-05-07 08:38:16 +02:00
Maxim Cournoyer d9ef50b3bc
gnu: tegola: Fix build.
* gnu/packages/geo.scm (tegola)[arguments]: Adapt the "unpack-path" for the new
unpack phase.
* gnu/packages/geo.scm (tegola)[phases]{set-version}: Update the directory path.
{rename-import}: Remove phase.
2019-05-06 23:10:36 -04:00
Maxim Cournoyer bdc0c20cab
gnu: imposm3: Fix build.
* gnu/packages/geo.scm (imposm3)[arguments]: Adapt unpack-path for the new
unpack phase.
[phases]: Remove the "rename-import" phase, now obsolete.
2019-05-06 23:05:05 -04:00
Maxim Cournoyer fb09818277
gnu: restic: Fix build.
This fixes a regression introduced by commit f42e4ebb56.

* gnu/packages/backup.scm (restic)[arguments]: Remove "unpack-path" argument.
[phases]{build, check, install, install-docs}: Update the working directory to
"src/github.com/restic/restic".
2019-05-06 22:36:43 -04:00
Maxim Cournoyer d879fd80c7
gnu: syncthing: Fix build.
* gnu/packages/syncthing.scm (syncthing)[arguments]: Drop the unpack-path
  argument, made unnecessary by commit f42e4ebb56.
2019-05-06 20:50:36 -04:00
Ludovic Courtès 3bb293b6f3
gnu: mate-power-manager: License is GPLv2+.
Reported by Guy fleury <hoonandon@gmail.com>.

* gnu/packages/mate.scm (mate-power-manager): Change to GPL2+.
2019-05-06 23:21:32 +02:00
Brian Leung d6a68e9048
gnu: emacs-evil-nerd-commenter: Update to 3.3.7.
* gnu/packages/emacs-xyz.scm (emacs-evil-nerd-commenter): Update to 3.3.7.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-05-06 16:56:39 +02:00
Brian Leung 869eb264ac
gnu: emacs-elfeed: Update to 3.1.0.
* gnu/packages/emacs-xyz.scm (emacs-elfeed): Update to 3.1.0.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-05-06 16:56:13 +02:00
Brian Leung e77787ca91
gnu: emacs-hl-todo: Update to 3.0.0.
* gnu/packages/emacs-xyz.scm (emacs-hl-todo): Update to 3.0.0.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-05-06 16:55:32 +02:00
Mark H Weaver 46ce12d0a3
gnu: icecat: Move the snippet and patches out of the 'source'.
This commit changes the 'source' field of the 'icecat' package to
simply be 'icecat-source', which aims to be suitable for use on any
system that IceCat supports.

* gnu/packages/gnuzilla.scm (icecat)[source]: Change to simply
be 'icecat-source'.
[native-inputs]: Add 'patch', along with the Guix-specific patches
that were previously applied within 'source'.
[arguments]: Remove the 'ensure-no-mtimes-pre-1980' phase.
Add 'apply-guix-specific-patches' and 'remove-bundled-libraries'
phases.  Touch 'configure' in the bootstrap phase.  Return #t from
the 'augment-CPLUS_INCLUDE_PATH' phase.  Reindent.
2019-05-06 10:33:20 -04:00
Mark H Weaver 3e605b6998
gnu: icecat-source: Make sure 'makeicecat' is the right version.
* gnu/packages/gnuzilla.scm (icecat-source): Check to make sure the
value of FFMAJOR in the 'makeicecat' script matches the major version
of IceCat being generated.
2019-05-06 10:33:18 -04:00
Mark H Weaver ebff346945
gnu: icecat: Update to 60.6.2-guix1.
* gnu/packages/gnuzilla.scm (%icecat-version): Update to 60.6.2-guix1.
(icecat-source)[upstream-firefox-source]: Update hash.
2019-05-06 10:33:12 -04:00
Ricardo Wurmus 1c404e6c1a
gnu: r-gridgraphics: Update to 0.4-0.
* gnu/packages/cran.scm (r-gridgraphics): Update to 0.4-0.
2019-05-06 16:11:45 +02:00
Ricardo Wurmus 639334a962
gnu: r-checkmate: Update to 1.9.3.
* gnu/packages/statistics.scm (r-checkmate): Update to 1.9.3.
2019-05-06 16:11:33 +02:00
Ricardo Wurmus 93f8a00964
gnu: r-rgadem: Update to 2.32.0.
* gnu/packages/bioconductor.scm (r-rgadem): Update to 2.32.0.
2019-05-06 16:11:17 +02:00
Rutger Helling c5296e205b
gnu: llvm: Update to 8.0.0.
* gnu/packages/llvm.scm (llvm): Update to 8.0.0.
* gnu/packages/llvm.scm (clang-runtime): Update hash.
* gnu/packages/llvm.scm (clang): Update hash.
2019-05-06 13:29:12 +02:00
Ricardo Wurmus 94249db825
gnu: python2-terminado: Add missing input.
* gnu/packages/python-web.scm (python2-terminado)[propagated-inputs]: Add
python2-futures.
2019-05-06 12:57:10 +02:00
Brian Leung fc7d632829
gnu: Add emacs-miniedit.
* gnu/packages/emacs-xyz.scm (emacs-miniedit): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:17:23 +02:00
Brian Leung cc1d1fc8b7
gnu: Add emacs-sudo-edit.
* gnu/packages/emacs-xyz.scm (emacs-sudo-edit): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:15:31 +02:00
Brian Leung d2ca86f308
gnu: Add emacs-docker-compose-mode.
* gnu/packages/emacs-xyz.scm (emacs-docker-compose-mode): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:14:47 +02:00
Brian Leung a02198133a
gnu: Add emacs-elisp-demos.
* gnu/packages/emacs-xyz.scm (emacs-elisp-demos): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:14:10 +02:00
Brian Leung 0209661ee6
gnu: Add emacs-flycheck-flow.
* gnu/packages/emacs-xyz.scm (emacs-flycheck-flow): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:10:21 +02:00
Brian Leung df7d0dce4b
gnu: Add emacs-evil-textobj-syntax.
* gnu/packages/emacs-xyz.scm (emacs-evil-textobj-syntax): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:09:10 +02:00
Brian Leung a08530df08
gnu: Add emacs-names.
* gnu/packages/emacs-xyz.scm (emacs-names): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:08:34 +02:00
Ludovic Courtès 5e319c15c1
gnu: mate-power-manager: Placate 'guix lint'.
Reported by guy fleury iteriteka <hoonandon@gmail.com>.

* gnu/packages/mate.scm (mate-power-manager)[source]: Use mirror:// URL.
[synopsis, description]: Adjust to placate 'guix lint'.
2019-05-06 11:06:37 +02:00
Alex Griffin 623d4b4662
gnu: Add git-annex-remote-rclone.
* gnu/packages/version-control.scm (git-annex-remote-rclone): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:43:45 +02:00
Brendan Tildesley 5d6bab9e00
gnu: quickswitch-i3: Fix license field to use license:wtfpl2.
* gnu/packages/wm.scm (quickswitch-i3): Fix license field to use
  license:wtfpl2.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:28 +02:00
Brendan Tildesley 6f38ef73a5
gnu: tmux-themepack: Fix license field to refer to license:wtfpl2.
* gnu/packages/tmux.scm (tmux-themepack): Fix license field to refer to
  license:wtfpl2.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:28 +02:00
Brendan Tildesley 41ee377305
gnu: Use license: prefix in tmux.scm.
* gnu/packages/tmux.scm Use license: prefix in tmux.scm.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:28 +02:00
Brendan Tildesley 492e3a7a76
gnu: python-pyyaml: Fix license field to refer to license:wtfpl2.
* gnu/packages/python-xyz.scm (python-pyyaml): Fix license field to refer to
  license:wtfpl2.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:27 +02:00
Brendan Tildesley ac44b39a19
gnu: envstore: Fix license field to refer to license:wtfpl2.
* gnu/packages/shellutils.scm (envstore): Fix license field to refer to
  license:wtfpl2.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:27 +02:00
Brendan Tildesley e3e8924d23
gnu: Use license: prefix in shellutils.scm.
* gnu/packages/shellutils.scm Use license: prefix in all packages.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:27 +02:00
Brendan Tildesley f62e7ce442
gnu: zimg: Fix license field to refer to license:wtfpl2.
* gnu/packages/image.scm (zimg): Fix license field to refer to license:wtfpl2.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:21 +02:00
Carl Dong 0e293f75f1
gnu: gcc@9: Fix limits.h include for cross builds.
This allows us to supply gcc-9 as an optional argument to cross-gcc,
successfully constructing gcc-9-based cross-compilers.

* gnu/packages/gcc.scm (gcc-9)[source](patches): Add
  "gcc-9-asan-fix-limits-include.patch".
* gnu/packages/patches/gcc-9-asan-fix-limits-include.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add the patch.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:22:00 +02:00
Carl Dong 83b0a7f41b
gnu: cross-base: Apply gcc 8 patch to gcc >= 8.
* gnu/packages/cross-base.scm (cross-gcc): Apply gcc 8 patch to gcc >= 8.
* gnu/packages/patches/gcc-8-cross-environment-variables.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add the patch.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:21:38 +02:00
Carl Dong bdfc327639
gnu: gcc: Add 9.1.0.
* gnu/packages/gcc.scm (gcc-9): New variable.
* gnu/packages/commencement.scm (gcc-toolchain-9): New variable.
* gnu/packages/patches/gcc-9-strmov-store-file-names.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add the patch.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:18:15 +02:00
Mark H Weaver 654332f00f
gnu: linux-libre: Update to 5.0.13.
* gnu/packages/linux.scm (%linux-libre-version): Update to 5.0.13.
(%linux-libre-hash): Update hash.
2019-05-06 02:13:19 -04:00
Mark H Weaver 90f4cc4bc7
gnu: linux-libre@4.19: Update to 4.19.40.
* gnu/packages/linux.scm (%linux-libre-4.19-version): Update to 4.19.40.
(%linux-libre-4.19-hash): Update hash.
2019-05-06 02:12:31 -04:00
Mark H Weaver d40684e827
gnu: linux-libre@4.14: Update to 4.14.116.
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.116.
(%linux-libre-4.14-hash): Update hash.
2019-05-06 02:11:37 -04:00
Mark H Weaver 60065f5bd3
gnu: linux-libre@4.9: Update to 4.9.173.
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.173.
2019-05-06 02:10:51 -04:00
Maxim Cournoyer 59781b32d8
gnu: docker: Refer to xz by its absolute path.
* gnu/packages/docker.scm (docker)[inputs]: Add xz.
[phases]{patch-paths}: Patch the reference to xz.
2019-05-05 21:21:02 -04:00
Maxim Cournoyer 80fec17f39
gnu: docker: Patch the reference to the docker proxy.
* gnu/packages/docker.scm (docker)[inputs]: Add docker-libnetwork-cmd-proxy.
* gnu/packages/docker.scm (docker)[phases]{patch-paths}: Patch proxy.go to
refer to the docker-proxy binary by its absolute path.
2019-05-05 21:21:02 -04:00
Maxim Cournoyer a01d54f3bd
gnu: docker: Optimize substitution macros.
This change halves the time needed to patch the paths.

* gnu/packages/docker.scm (docker)[phases]{patch-paths}: Allow passing
multiple SOURCE-TEXT, PACKAGE and RELATIVE-PATH tuples so that the rewrite
rules can be generated and processed by a single use of the SUBSTITUTE*
macro.  Rename SUBSTITUTE-LOOKPATH to SUBSTITUTE-LOOKPATH* and
substitute-Command to SUBSTITUTE-COMMAND* to denote the change.  Adapt the
uses of SUBSTITUTE-LOOKPATH* and SUBSTITUTE-COMMAND*.
2019-05-05 21:21:02 -04:00
Maxim Cournoyer 079f0eb3d2
gnu: docker: Make macros use a relative path as argument.
* gnu/packages/docker.scm (docker)[phases]: Move implementation detail inside
the SUBSTITUTE-LOOKPATH and SUBSTITUTE-COMMAND macros definition, so that the
relative path argument can be given as a relative path.
2019-05-05 21:21:01 -04:00
Maxim Cournoyer 3f280d3950
gnu: docker: Harmonize LookPath regexes.
* gnu/packages/docker.scm (docker)[phases]: In the patch-paths phase, update
the regexes used by SUBSTITUTE-LOOKPATH and SUBSTITUTE-COMMAND to match at the
start of the word, like it's done later.
2019-05-05 21:21:01 -04:00
Maxim Cournoyer 1b14e1bccd
gnu: docker: Cleanup extraneous comments.
* gnu/packages/docker.scm (docker): Remove "parenthesis-balancing" comments.
2019-05-05 21:21:01 -04:00
Maxim Cournoyer c627932639
gnu: docker: Fix indentation.
* gnu/packages/docker.scm (docker): Fix indentation using Emacs.
2019-05-05 21:20:58 -04:00
Maxim Cournoyer 0b94911add
gnu: Add docker-libnetwork-cmd-proxy.
* gnu/packages/docker.scm (docker-libnetwork-cmd-proxy): New variable.
2019-05-05 20:14:15 -04:00
Maxim Cournoyer 9c0244abbd
gnu: Add docker-libnetwork.
* gnu/packages/docker.scm (docker-libnetwork): New private variable.
2019-05-05 20:14:15 -04:00
Maxim Cournoyer 626de0d13a
gnu: Add go-netlink.
* gnu/packages/linux.scm (go-netlink): New variable.
2019-05-05 20:14:15 -04:00
Maxim Cournoyer 03981f9064
gnu: Add go-netns.
* gnu/packages/networking.scm (go-netns): New variable.
2019-05-05 20:14:14 -04:00
Maxim Cournoyer 523533ed09
gnu: Add go-sctp.
* gnu/packages/networking.scm (go-sctp): New variable.
2019-05-05 20:14:14 -04:00
Ricardo Wurmus 85c1d20fa6
gnu: r-chippeakanno: Update to 3.18.0.
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.18.0.
[propagated-inputs]: Add r-rtracklayer.
2019-05-06 00:14:59 +02:00
Ricardo Wurmus c24adbbf07
gnu: r-arrmnormalization: Update to 1.24.0.
* gnu/packages/bioconductor.scm (r-arrmnormalization): Update to 1.24.0.
2019-05-06 00:14:59 +02:00
Ricardo Wurmus c2bfb978bf
gnu: r-progeny: Update to 1.6.0.
* gnu/packages/bioconductor.scm (r-progeny): Update to 1.6.0.
2019-05-06 00:14:59 +02:00
Ricardo Wurmus 7d33d36c52
gnu: r-rbowtie2: Update to 1.6.0.
* gnu/packages/bioconductor.scm (r-rbowtie2): Update to 1.6.0.
2019-05-06 00:14:58 +02:00
Ricardo Wurmus 02530c2821
gnu: r-zfpkm: Update to 1.6.0.
* gnu/packages/bioconductor.scm (r-zfpkm): Update to 1.6.0.
2019-05-06 00:14:58 +02:00
Ricardo Wurmus 67bc9255d5
gnu: r-webbioc: Update to 1.56.0.
* gnu/packages/bioconductor.scm (r-webbioc): Update to 1.56.0.
2019-05-06 00:14:58 +02:00
Ricardo Wurmus c881b9ef3a
gnu: r-widgettools: Update to 1.62.0.
* gnu/packages/bioconductor.scm (r-widgettools): Update to 1.62.0.
2019-05-06 00:14:58 +02:00
Ricardo Wurmus a6edf33533
gnu: r-wiggleplotr: Update to 1.8.0.
* gnu/packages/bioconductor.scm (r-wiggleplotr): Update to 1.8.0.
2019-05-06 00:14:58 +02:00
Ricardo Wurmus 07597c85d8
gnu: r-wrench: Update to 1.2.0.
* gnu/packages/bioconductor.scm (r-wrench): Update to 1.2.0.
2019-05-06 00:14:58 +02:00
Ricardo Wurmus 298f7f112f
gnu: r-xcms: Update to 3.6.0.
* gnu/packages/bioconductor.scm (r-xcms): Update to 3.6.0.
2019-05-06 00:14:58 +02:00
Ricardo Wurmus 7c888138ef
gnu: r-massspecwavelet: Update to 1.50.0.
* gnu/packages/bioconductor.scm (r-massspecwavelet): Update to 1.50.0.
2019-05-06 00:14:58 +02:00
Ricardo Wurmus 88469def75
gnu: r-xbseq: Update to 1.16.0.
* gnu/packages/bioconductor.scm (r-xbseq): Update to 1.16.0.
2019-05-06 00:14:57 +02:00
Ricardo Wurmus 0334b203d7
gnu: r-roar: Update to 1.20.0.
* gnu/packages/bioconductor.scm (r-roar): Update to 1.20.0.
2019-05-06 00:14:57 +02:00
Ricardo Wurmus 7f4957b24e
gnu: r-yarn: Update to 1.10.0.
* gnu/packages/bioconductor.scm (r-yarn): Update to 1.10.0.
2019-05-06 00:14:57 +02:00
Ricardo Wurmus 2feea2d22a
gnu: r-quantro: Update to 1.18.0.
* gnu/packages/bioconductor.scm (r-quantro): Update to 1.18.0.
2019-05-06 00:14:57 +02:00
Ricardo Wurmus f48e29daa3
gnu: r-yaqcaffy: Update to 1.44.0.
* gnu/packages/bioconductor.scm (r-yaqcaffy): Update to 1.44.0.
2019-05-06 00:14:57 +02:00
Ricardo Wurmus 38c5d13a73
gnu: r-simpleaffy: Update to 2.60.0.
* gnu/packages/bioconductor.scm (r-simpleaffy): Update to 2.60.0.
2019-05-06 00:14:57 +02:00
Ricardo Wurmus 56576bea97
gnu: r-gcrma: Update to 2.56.0.
* gnu/packages/bioconductor.scm (r-gcrma): Update to 2.56.0.
2019-05-06 00:14:57 +02:00
Ricardo Wurmus edba69b2ff
gnu: r-yapsa: Update to 1.10.0.
* gnu/packages/bioconductor.scm (r-yapsa): Update to 1.10.0.
2019-05-06 00:14:57 +02:00
Ricardo Wurmus 3cdc5d1a7b
gnu: r-somaticsignatures: Update to 2.20.0.
* gnu/packages/bioconductor.scm (r-somaticsignatures): Update to 2.20.0.
2019-05-06 00:14:56 +02:00
Ricardo Wurmus 128c6d59f0
gnu: r-gtrellis: Update to 1.16.0.
* gnu/packages/bioconductor.scm (r-gtrellis): Update to 1.16.0.
2019-05-06 00:14:56 +02:00
Ricardo Wurmus 1269a926c0
gnu: r-yamss: Update to 1.10.0.
* gnu/packages/bioconductor.scm (r-yamss): Update to 1.10.0.
2019-05-06 00:14:56 +02:00
Ricardo Wurmus 2a6d838337
gnu: r-ebimage: Update to 4.26.0.
* gnu/packages/bioconductor.scm (r-ebimage): Update to 4.26.0.
2019-05-06 00:14:56 +02:00
Ricardo Wurmus b68a9e80f4
gnu: r-aucell: Update to 1.6.0.
* gnu/packages/bioconductor.scm (r-aucell): Update to 1.6.0.
2019-05-06 00:14:56 +02:00
Ricardo Wurmus 9da2021f49
gnu: r-allelicimbalance: Update to 1.22.0.
* gnu/packages/bioconductor.scm (r-allelicimbalance): Update to 1.22.0.
2019-05-06 00:14:56 +02:00
Ricardo Wurmus ee1a45d719
gnu: r-annotationtools: Update to 1.58.0.
* gnu/packages/bioconductor.scm (r-annotationtools): Update to 1.58.0.
2019-05-06 00:14:56 +02:00
Ricardo Wurmus 69a2ec5447
gnu: r-annotationfuncs: Update to 1.34.0.
* gnu/packages/bioconductor.scm (r-annotationfuncs): Update to 1.34.0.
2019-05-06 00:14:56 +02:00
Ricardo Wurmus e2e1dea2bb
gnu: r-abaenrichment: Update to 1.14.0.
* gnu/packages/bioconductor.scm (r-abaenrichment): Update to 1.14.0.
2019-05-06 00:14:55 +02:00
Ricardo Wurmus bab06a6ff3
gnu: r-gofuncr: Update to 1.4.0.
* gnu/packages/bioconductor.scm (r-gofuncr): Update to 1.4.0.
2019-05-06 00:14:55 +02:00
Ricardo Wurmus bcc233c1a6
gnu: r-atacseqqc: Update to 1.8.0.
* gnu/packages/bioconductor.scm (r-atacseqqc): Update to 1.8.0.
[propagated-inputs]: Add r-edger.
2019-05-06 00:14:55 +02:00
Ricardo Wurmus 19ee76379c
gnu: r-genomicscores: Update to 1.8.0.
* gnu/packages/bioconductor.scm (r-genomicscores): Update to 1.8.0.
2019-05-06 00:14:55 +02:00
Ricardo Wurmus aa0ebfd2eb
gnu: r-motifstack: Update to 1.28.0.
* gnu/packages/bioconductor.scm (r-motifstack): Update to 1.28.0.
[propagated-inputs]: Replace r-grimport with r-grimport2.
2019-05-06 00:14:55 +02:00
Ricardo Wurmus f7a495b159
gnu: r-motiv: Update to 1.40.0.
* gnu/packages/bioconductor.scm (r-motiv): Update to 1.40.0.
2019-05-06 00:14:55 +02:00
Ricardo Wurmus a5860ebe87
gnu: r-rgadem: Update to 2.31.0.
* gnu/packages/bioconductor.scm (r-rgadem): Update to 2.31.0.
2019-05-06 00:14:54 +02:00
Ricardo Wurmus e33c25ff2c
gnu: r-bacon: Update to 1.12.0.
* gnu/packages/bioconductor.scm (r-bacon): Update to 1.12.0.
2019-05-06 00:14:54 +02:00
Ricardo Wurmus b7ddf0f048
gnu: r-abseqr: Update to 1.2.0.
* gnu/packages/bioconductor.scm (r-abseqr): Update to 1.2.0.
2019-05-06 00:14:54 +02:00
Ricardo Wurmus 1aadddeaa9
gnu: r-a4: Update to 1.32.0.
* gnu/packages/bioconductor.scm (r-a4): Update to 1.32.0.
2019-05-06 00:14:54 +02:00
Ricardo Wurmus ae1730ae1a
gnu: r-a4base: Update to 1.32.0.
* gnu/packages/bioconductor.scm (r-a4base): Update to 1.32.0.
2019-05-06 00:14:54 +02:00
Ricardo Wurmus e5a36543ac
gnu: r-a4reporting: Update to 1.32.0.
* gnu/packages/bioconductor.scm (r-a4reporting): Update to 1.32.0.
2019-05-06 00:14:54 +02:00
Ricardo Wurmus 0b6091621f
gnu: r-a4preproc: Update to 1.32.0.
* gnu/packages/bioconductor.scm (r-a4preproc): Update to 1.32.0.
2019-05-06 00:14:54 +02:00
Ricardo Wurmus 82de77da5a
gnu: r-a4classif: Update to 1.32.0.
* gnu/packages/bioconductor.scm (r-a4classif): Update to 1.32.0.
2019-05-06 00:14:53 +02:00
Ricardo Wurmus b077e3db2a
gnu: r-a4core: Update to 1.32.0.
* gnu/packages/bioconductor.scm (r-a4core): Update to 1.32.0.
2019-05-06 00:14:53 +02:00
Ricardo Wurmus 8bef9df4d4
gnu: r-annaffy: Update to 1.56.0.
* gnu/packages/bioconductor.scm (r-annaffy): Update to 1.56.0.
2019-05-06 00:14:53 +02:00
Ricardo Wurmus 8265a1115e
gnu: r-mlinterfaces: Update to 1.64.0.
* gnu/packages/bioconductor.scm (r-mlinterfaces): Update to 1.64.0.
2019-05-06 00:14:53 +02:00
Ricardo Wurmus 1a3e33be23
gnu: r-clusterprofiler: Update to 3.12.0.
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 3.12.0.
2019-05-06 00:14:53 +02:00
Ricardo Wurmus 77d28d665c
gnu: r-enrichplot: Update to 1.4.0.
* gnu/packages/bioconductor.scm (r-enrichplot): Update to 1.4.0.
2019-05-06 00:14:53 +02:00
Ricardo Wurmus 1990ff9d10
gnu: r-dose: Update to 3.10.0.
* gnu/packages/bioconductor.scm (r-dose): Update to 3.10.0.
2019-05-06 00:14:53 +02:00
Ricardo Wurmus ebffd24c10
gnu: r-fgsea: Update to 1.10.0.
* gnu/packages/bioconductor.scm (r-fgsea): Update to 1.10.0.
[propagated-inputs]: Add r-bh.
2019-05-06 00:14:53 +02:00
Ricardo Wurmus 3e5ee6f69f
gnu: r-sigpathway: Update to 1.52.0.
* gnu/packages/bioconductor.scm (r-sigpathway): Update to 1.52.0.
2019-05-06 00:14:53 +02:00
Ricardo Wurmus 0a41b5db95
gnu: r-anota: Update to 1.32.0.
* gnu/packages/bioconductor.scm (r-anota): Update to 1.32.0.
2019-05-06 00:14:52 +02:00
Ricardo Wurmus 24cf7bad99
gnu: r-gosemsim: Update to 2.10.0.
* gnu/packages/bioconductor.scm (r-gosemsim): Update to 2.10.0.
2019-05-06 00:14:52 +02:00
Ricardo Wurmus 376d1fe759
gnu: r-heatplus: Update to 2.30.0.
* gnu/packages/bioconductor.scm (r-heatplus): Update to 2.30.0.
2019-05-06 00:14:52 +02:00
Ricardo Wurmus c2effdedc0
gnu: r-varianttools: Update to 1.26.0.
* gnu/packages/bioconductor.scm (r-varianttools): Update to 1.26.0.
2019-05-06 00:14:52 +02:00
Ricardo Wurmus bc083ecab8
gnu: r-triform: Update to 1.26.0.
* gnu/packages/bioconductor.scm (r-triform): Update to 1.26.0.
2019-05-06 00:14:52 +02:00
Ricardo Wurmus 2ee91179d1
gnu: r-ioniser: Update to 2.8.0.
* gnu/packages/bioconductor.scm (r-ioniser): Update to 2.8.0.
2019-05-06 00:14:52 +02:00
Ricardo Wurmus 48c2a7eb39
gnu: r-linnorm: Update to 2.8.0.
* gnu/packages/bioconductor.scm (r-linnorm): Update to 2.8.0.
2019-05-06 00:14:52 +02:00
Ricardo Wurmus 5551b07cde
gnu: r-lumi: Update to 2.36.0.
* gnu/packages/bioconductor.scm (r-lumi): Update to 2.36.0.
2019-05-06 00:14:51 +02:00
Ricardo Wurmus 2986b51ffe
gnu: r-methylumi: Update to 2.30.0.
* gnu/packages/bioconductor.scm (r-methylumi): Update to 2.30.0.
2019-05-06 00:14:51 +02:00
Ricardo Wurmus 8c0fae3cd4
gnu: r-minfi: Update to 1.30.0.
* gnu/packages/bioconductor.scm (r-minfi): Update to 1.30.0.
2019-05-06 00:14:51 +02:00
Ricardo Wurmus 693a98056c
gnu: r-bumphunter: Update to 1.26.0.
* gnu/packages/bioconductor.scm (r-bumphunter): Update to 1.26.0.
2019-05-06 00:14:51 +02:00
Ricardo Wurmus 409f4dd652
gnu: r-siggenes: Update to 1.58.0.
* gnu/packages/bioconductor.scm (r-siggenes): Update to 1.58.0.
[propagated-inputs]: Add r-scrime.
2019-05-06 00:14:51 +02:00
Ricardo Wurmus fadc6db82d
gnu: r-illuminaio: Update to 0.26.0.
* gnu/packages/bioconductor.scm (r-illuminaio): Update to 0.26.0.
2019-05-06 00:14:51 +02:00
Ricardo Wurmus 2d4430877a
gnu: r-geoquery: Update to 2.52.0.
* gnu/packages/bioconductor.scm (r-geoquery): Update to 2.52.0.
2019-05-06 00:14:51 +02:00
Ricardo Wurmus 26c72fffc1
gnu: r-scone: Update to 1.8.0.
* gnu/packages/bioconductor.scm (r-scone): Update to 1.8.0.
2019-05-06 00:14:50 +02:00
Ricardo Wurmus 7baa59ed4d
gnu: r-scdd: Update to 1.8.0.
* gnu/packages/bioconductor.scm (r-scdd): Update to 1.8.0.
2019-05-06 00:14:50 +02:00
Ricardo Wurmus 6a2c58b7e0
gnu: r-noiseq: Update to 2.28.0.
* gnu/packages/bioconductor.scm (r-noiseq): Update to 2.28.0.
2019-05-06 00:14:50 +02:00
Ricardo Wurmus 78b6326785
gnu: r-monocle: Update to 2.12.0.
* gnu/packages/bioconductor.scm (r-monocle): Update to 2.12.0.
2019-05-06 00:14:50 +02:00
Ricardo Wurmus a0ff725d6a
gnu: r-mast: Update to 1.10.0.
* gnu/packages/bioconductor.scm (r-mast): Update to 1.10.0.
[propagated-inputs]: Add r-blme.
2019-05-06 00:14:50 +02:00
Ricardo Wurmus 3fd2ea8883
gnu: r-icobra: Update to 1.12.0.
* gnu/packages/bioconductor.scm (r-icobra): Update to 1.12.0.
2019-05-06 00:14:50 +02:00
Ricardo Wurmus bcd8b7a9bd
gnu: r-ihw: Update to 1.12.0.
* gnu/packages/bioconductor.scm (r-ihw): Update to 1.12.0.
2019-05-06 00:14:50 +02:00
Ricardo Wurmus 61c79d55e3
gnu: r-lpsymphony: Update to 1.12.0.
* gnu/packages/bioconductor.scm (r-lpsymphony): Update to 1.12.0.
2019-05-06 00:14:49 +02:00
Ricardo Wurmus 4a3c47e940
gnu: r-ebseq: Update to 1.24.0.
* gnu/packages/bioconductor.scm (r-ebseq): Update to 1.24.0.
2019-05-06 00:14:49 +02:00
Ricardo Wurmus 301c4ff12a
gnu: r-deds: Update to 1.58.0.
* gnu/packages/bioconductor.scm (r-deds): Update to 1.58.0.
2019-05-06 00:14:49 +02:00
Ricardo Wurmus d5f3c0d09e
gnu: r-dnacopy: Update to 1.58.0.
* gnu/packages/bioconductor.scm (r-dnacopy): Update to 1.58.0.
2019-05-06 00:14:49 +02:00
Ricardo Wurmus d941918599
gnu: r-copynumber: Update to 1.24.0.
* gnu/packages/bioconductor.scm (r-copynumber): Update to 1.24.0.
2019-05-06 00:14:49 +02:00
Ricardo Wurmus 58a43fc28e
gnu: r-chipexoqual: Update to 1.8.0.
* gnu/packages/bioconductor.scm (r-chipexoqual): Update to 1.8.0.
2019-05-06 00:14:49 +02:00
Ricardo Wurmus 8d3d0c3abe
gnu: r-savr: Update to 1.22.0.
* gnu/packages/bioconductor.scm (r-savr): Update to 1.22.0.
2019-05-06 00:14:49 +02:00
Ricardo Wurmus 0aa72f2d1e
gnu: r-destiny: Update to 2.14.0.
* gnu/packages/bioconductor.scm (r-destiny): Update to 2.14.0.
[propagated-inputs]: Remove r-fnn and r-hmisc; add r-ggplot2.
2019-05-06 00:14:48 +02:00
Ricardo Wurmus 6fc161fc3e
gnu: r-biocneighbors: Update to 1.2.0.
* gnu/packages/bioconductor.scm (r-biocneighbors): Update to 1.2.0.
[propagated-inputs]: Add r-biocgenerics and r-rcpphnsw.
2019-05-06 00:14:48 +02:00
Ricardo Wurmus d8771f5fd6
gnu: r-ruvseq: Update to 1.18.0.
* gnu/packages/bioconductor.scm (r-ruvseq): Update to 1.18.0.
2019-05-06 00:14:48 +02:00
Ricardo Wurmus 774e499cec
gnu: r-dnabarcodes: Update to 1.14.0.
* gnu/packages/bioconductor.scm (r-dnabarcodes): Update to 1.14.0.
2019-05-06 00:14:48 +02:00
Ricardo Wurmus 3649d046a6
gnu: r-inspect: Update to 1.14.0.
* gnu/packages/bioconductor.scm (r-inspect): Update to 1.14.0.
2019-05-06 00:14:48 +02:00
Ricardo Wurmus 5dce71535f
gnu: r-plgem: Update to 1.56.0.
* gnu/packages/bioconductor.scm (r-plgem): Update to 1.56.0.
2019-05-06 00:14:48 +02:00
Ricardo Wurmus 5bf7eb49f6
gnu: r-rots: Update to 1.12.0.
* gnu/packages/bioconductor.scm (r-rots): Update to 1.12.0.
2019-05-06 00:14:48 +02:00
Ricardo Wurmus 07252952b7
gnu: r-glimma: Update to 1.12.0.
* gnu/packages/bioconductor.scm (r-glimma): Update to 1.12.0.
2019-05-06 00:14:47 +02:00
Ricardo Wurmus 40f0ee43a0
gnu: r-goseq: Update to 1.36.0.
* gnu/packages/bioconductor.scm (r-goseq): Update to 1.36.0.
2019-05-06 00:14:47 +02:00
Ricardo Wurmus 7a5d729af1
gnu: r-ctc: Update to 1.58.0.
* gnu/packages/bioconductor.scm (r-ctc): Update to 1.58.0.
2019-05-06 00:14:47 +02:00
Ricardo Wurmus 1236ce8e22
gnu: r-genomicinteractions: Update to 1.18.0.
* gnu/packages/bioconductor.scm (r-genomicinteractions): Update to 1.18.0.
2019-05-06 00:14:47 +02:00
Ricardo Wurmus 176a264c7c
gnu: r-interactionset: Update to 1.12.0.
* gnu/packages/bioconductor.scm (r-interactionset): Update to 1.12.0.
2019-05-06 00:14:47 +02:00
Ricardo Wurmus eff6b2eb12
gnu: r-riboseqr: Update to 1.18.0.
* gnu/packages/bioconductor.scm (r-riboseqr): Update to 1.18.0.
2019-05-06 00:14:47 +02:00
Ricardo Wurmus 7d5acf7a25
gnu: r-riboprofiling: Update to 1.14.0.
* gnu/packages/bioconductor.scm (r-riboprofiling): Update to 1.14.0.
2019-05-06 00:14:47 +02:00
Ricardo Wurmus 1ddd4af5a0
gnu: r-chipcomp: Update to 1.14.0.
* gnu/packages/bioconductor.scm (r-chipcomp): Update to 1.14.0.
2019-05-06 00:14:47 +02:00
Ricardo Wurmus c38de81594
gnu: r-bayseq: Update to 2.18.0.
* gnu/packages/bioconductor.scm (r-bayseq): Update to 2.18.0.
2019-05-06 00:14:46 +02:00
Ricardo Wurmus 4f4bed7de5
gnu: r-qdnaseq: Update to 1.20.0.
* gnu/packages/bioconductor.scm (r-qdnaseq): Update to 1.20.0.
2019-05-06 00:14:46 +02:00
Ricardo Wurmus 2317730994
gnu: r-cghcall: Update to 2.46.0.
* gnu/packages/bioconductor.scm (r-cghcall): Update to 2.46.0.
2019-05-06 00:14:46 +02:00
Ricardo Wurmus 8efb842f11
gnu: r-cghbase: Update to 1.44.0.
* gnu/packages/bioconductor.scm (r-cghbase): Update to 1.44.0.
2019-05-06 00:14:46 +02:00
Ricardo Wurmus bcb95b7aac
gnu: r-marray: Update to 1.62.0.
* gnu/packages/bioconductor.scm (r-marray): Update to 1.62.0.
2019-05-06 00:14:46 +02:00
Ricardo Wurmus a61bcb28f7
gnu: r-graph: Update to 1.62.0.
* gnu/packages/bioconductor.scm (r-graph): Update to 1.62.0.
2019-05-06 00:14:46 +02:00
Ricardo Wurmus 588b63c2af
gnu: r-multtest: Update to 2.40.0.
* gnu/packages/bioconductor.scm (r-multtest): Update to 2.40.0.
2019-05-06 00:14:45 +02:00
Ricardo Wurmus 0968a44874
gnu: r-ripseeker: Update to 1.24.0.
* gnu/packages/bioconductor.scm (r-ripseeker): Update to 1.24.0.
2019-05-06 00:14:45 +02:00
Ricardo Wurmus 4c221b3bbf
gnu: r-diffbind: Update to 2.12.0.
* gnu/packages/bioconductor.scm (r-diffbind): Update to 2.12.0.
[propagated-inputs]: Add r-rhtslib; remove r-zlibbioc.
2019-05-06 00:14:45 +02:00
Ricardo Wurmus e02162f7ba
gnu: r-qvalue: Update to 2.16.0.
* gnu/packages/bioconductor.scm (r-qvalue): Update to 2.16.0.
2019-05-06 00:14:45 +02:00
Ricardo Wurmus 3e1bc88c1f
gnu: r-geneplotter: Update to 1.62.0.
* gnu/packages/bioconductor.scm (r-geneplotter): Update to 1.62.0.
2019-05-06 00:14:45 +02:00
Ricardo Wurmus 4b53d55e98
gnu: r-regioner: Update to 1.16.0.
* gnu/packages/bioconductor.scm (r-regioner): Update to 1.16.0.
2019-05-06 00:14:45 +02:00
Ricardo Wurmus 43a23a0733
gnu: r-hpar: Update to 1.26.0.
* gnu/packages/bioconductor.scm (r-hpar): Update to 1.26.0.
2019-05-06 00:14:44 +02:00
Ricardo Wurmus 0c53332a27
gnu: r-annotate: Update to 1.62.0.
* gnu/packages/bioconductor.scm (r-annotate): Update to 1.62.0.
2019-05-06 00:14:44 +02:00
Ricardo Wurmus 81a1c45df5
gnu: r-biocgenerics: Update to 0.30.0.
* gnu/packages/bioconductor.scm (r-biocgenerics): Update to 0.30.0.
2019-05-06 00:14:44 +02:00
Ricardo Wurmus 3addf736d5
gnu: r-systempiper: Update to 1.18.0.
* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.18.0.
[propagated-inputs]: Replace r-batchjobs with r-batchtools; add r-yaml.
2019-05-06 00:14:44 +02:00
Ricardo Wurmus 9bcbca135b
gnu: r-rsamtools: Update to 2.0.0.
* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 2.0.0.
[propagated-inputs]: Add r-rhtslib.
2019-05-06 00:14:44 +02:00
Ricardo Wurmus 82d9340b0c
gnu: r-impute: Update to 1.58.0.
* gnu/packages/bioinformatics.scm (r-impute): Update to 1.58.0.
[inputs]: Move gfortran from here...
[native-inputs]: ...to here.
2019-05-06 00:14:44 +02:00
Ricardo Wurmus 2b4ac1d77e
gnu: r-rcas: Update to 1.10.0.
* gnu/packages/bioinformatics.scm (r-rcas): Update to 1.10.0.
[propagated-inputs]: Add ghc-pandoc.
2019-05-06 00:14:43 +02:00
Ricardo Wurmus 8322c860f9
gnu: r-methylkit: Update to 1.10.0.
* gnu/packages/bioinformatics.scm (r-methylkit): Update to 1.10.0.
[propagated-inputs]: Add r-mgcv.
2019-05-06 00:14:43 +02:00
Ricardo Wurmus b173dbe617
gnu: r-annotationhub: Update to 2.16.0.
* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.16.0.
[propagated-inputs]: Add r-biocfilecache, r-dplyr, and r-rappdirs.
2019-05-06 00:14:43 +02:00
Ricardo Wurmus a8abc8dd3a
gnu: r-fastseg: Update to 1.30.0.
* gnu/packages/bioinformatics.scm (r-fastseg): Update to 1.30.0.
2019-05-06 00:14:43 +02:00
Ricardo Wurmus e699e8e599
gnu: r-keggrest: Update to 1.24.0.
* gnu/packages/bioinformatics.scm (r-keggrest): Update to 1.24.0.
2019-05-06 00:14:43 +02:00
Ricardo Wurmus c798455d87
gnu: r-gage: Update to 2.34.0.
* gnu/packages/bioinformatics.scm (r-gage): Update to 2.34.0.
2019-05-06 00:14:43 +02:00
Ricardo Wurmus d4ef1d59cc
gnu: r-genomicfiles: Update to 1.20.0.
* gnu/packages/bioinformatics.scm (r-genomicfiles): Update to 1.20.0.
2019-05-06 00:14:43 +02:00
Ricardo Wurmus 70a3e4499d
gnu: r-complexheatmap: Update to 2.0.0.
* gnu/packages/bioinformatics.scm (r-complexheatmap): Update to 2.0.0.
[propagated-inputs]: Add r-clue and r-png.
2019-05-06 00:14:43 +02:00
Ricardo Wurmus e2cb23404c
gnu: r-dirichletmultinomial: Update to 1.26.0.
* gnu/packages/bioinformatics.scm (r-dirichletmultinomial): Update to 1.26.0.
2019-05-06 00:14:42 +02:00
Ricardo Wurmus 0af6efa3c5
gnu: r-ensembldb: Update to 2.8.0.
* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.8.0.
2019-05-06 00:14:42 +02:00
Ricardo Wurmus 96f98c5b72
gnu: r-organismdbi: Update to 1.26.0.
* gnu/packages/bioinformatics.scm (r-organismdbi): Update to 1.26.0.
2019-05-06 00:14:42 +02:00
Ricardo Wurmus a98c3b4ae4
gnu: r-biovizbase: Update to 1.32.0.
* gnu/packages/bioinformatics.scm (r-biovizbase): Update to 1.32.0.
2019-05-06 00:14:42 +02:00
Ricardo Wurmus d38fbacad1
gnu: r-ggbio: Update to 1.32.0.
* gnu/packages/bioinformatics.scm (r-ggbio): Update to 1.32.0.
2019-05-06 00:14:42 +02:00
Ricardo Wurmus 623be1a443
gnu: r-gqtlbase: Update to 1.16.0.
* gnu/packages/bioinformatics.scm (r-gqtlbase): Update to 1.16.0.
2019-05-06 00:14:42 +02:00
Ricardo Wurmus ed7de45655
gnu: r-snpstats: Update to 1.34.0.
* gnu/packages/bioinformatics.scm (r-snpstats): Update to 1.34.0.
2019-05-06 00:14:42 +02:00
Ricardo Wurmus 3c5f5b4154
gnu: r-erma: Update to 1.0.0.
* gnu/packages/bioinformatics.scm (r-erma): Update to 1.0.0.
2019-05-06 00:14:41 +02:00
Ricardo Wurmus 89ba9a7226
gnu: r-ldblock: Update to 1.14.0.
* gnu/packages/bioinformatics.scm (r-ldblock): Update to 1.14.0.
2019-05-06 00:14:41 +02:00
Ricardo Wurmus a349d57a46
gnu: r-gqtlstats: Update to 1.16.0.
* gnu/packages/bioinformatics.scm (r-gqtlstats): Update to 1.16.0.
2019-05-06 00:14:41 +02:00
Ricardo Wurmus 105d9e2cb4
gnu: r-gviz: Update to 1.28.0.
* gnu/packages/bioinformatics.scm (r-gviz): Update to 1.28.0.
2019-05-06 00:14:41 +02:00
Ricardo Wurmus 1b454f9f69
gnu: r-gwascat: Update to 2.16.0.
* gnu/packages/bioinformatics.scm (r-gwascat): Update to 2.16.0.
[propagated-inputs]: Remove r-annotationhub, r-ggbio, r-ggplot2, r-gqtlstats,
r-graph, r-gviz, r-snpstats, r-summarizedexperiment, and r-variantannotation.
2019-05-06 00:14:41 +02:00
Ricardo Wurmus 256609eb46
gnu: r-sushi: Update to 1.22.0.
* gnu/packages/bioinformatics.scm (r-sushi): Update to 1.22.0.
2019-05-06 00:14:41 +02:00
Ricardo Wurmus 7705165882
gnu: r-fithic: Update to 1.10.0.
* gnu/packages/bioinformatics.scm (r-fithic): Update to 1.10.0.
2019-05-06 00:14:40 +02:00
Ricardo Wurmus e998a26e1d
gnu: r-hitc: Update to 1.28.0.
* gnu/packages/bioinformatics.scm (r-hitc): Update to 1.28.0.
2019-05-06 00:14:40 +02:00
Ricardo Wurmus 65925573be
gnu: r-hdf5array: Update to 1.12.0.
* gnu/packages/bioinformatics.scm (r-hdf5array): Update to 1.12.0.
[inputs]: Add zlib.
[propagated-inputs]: Add r-rhdf5lib.
2019-05-06 00:14:40 +02:00
Ricardo Wurmus d5625b3a9e
gnu: r-rhdf5lib: Update to 1.6.0.
* gnu/packages/bioinformatics.scm (r-rhdf5lib): Update to 1.6.0.
2019-05-06 00:14:40 +02:00
Ricardo Wurmus 583b4fd6e3
gnu: r-beachmat: Update to 2.0.0.
* gnu/packages/bioinformatics.scm (r-beachmat): Update to 2.0.0.
[inputs]: Remove hdf5 and zlib.
[propagated-inputs]: Rmeove r-hdf5array, r-rcpp, r-rhdf5, and r-rhdf5lib.
2019-05-06 00:14:40 +02:00
Ricardo Wurmus 029cefdd90
gnu: r-singlecellexperiment: Update to 1.6.0.
* gnu/packages/bioinformatics.scm (r-singlecellexperiment): Update to 1.6.0.
2019-05-06 00:14:40 +02:00
Ricardo Wurmus 70d04dc183
gnu: r-scater: Update to 1.12.0.
* gnu/packages/bioinformatics.scm (r-scater): Update to 1.12.0.
[propagated-inputs]: Add r-biocneighbors and r-biocsingular; remove r-plyr,
r-reshape2, and r-rhdf5lib.
2019-05-06 00:14:40 +02:00
Ricardo Wurmus 4540727a21
gnu: r-scran: Update to 1.12.0.
* gnu/packages/bioinformatics.scm (r-scran): Update to 1.12.0.
[propagated-inputs]: Add r-bh, r-biocsingular, and r-dqrng; remove r-rhdf5lib.
2019-05-06 00:14:39 +02:00
Ricardo Wurmus f2a63d1588
gnu: r-delayedmatrixstats: Update to 1.6.0.
* gnu/packages/bioinformatics.scm (r-delayedmatrixstats): Update to 1.6.0.
2019-05-06 00:14:39 +02:00
Ricardo Wurmus fbf3494972
gnu: Add r-biocfilecache.
* gnu/packages/bioconductor.scm (r-biocfilecache): New variable.
2019-05-06 00:14:39 +02:00
Ricardo Wurmus fab5f7c8d9
gnu: r-interactivedisplaybase: Update to 1.22.0.
* gnu/packages/bioinformatics.scm (r-interactivedisplaybase): Update to 1.22.0.
2019-05-06 00:14:39 +02:00
Ricardo Wurmus 975b72fa10
gnu: r-edaseq: Update to 2.18.0.
* gnu/packages/bioinformatics.scm (r-edaseq): Update to 2.18.0.
2019-05-06 00:14:39 +02:00
Ricardo Wurmus b765fc4a4c
gnu: r-deseq: Update to 1.36.0.
* gnu/packages/bioinformatics.scm (r-deseq): Update to 1.36.0.
2019-05-06 00:14:39 +02:00
Ricardo Wurmus 95f3a46630
gnu: r-aroma-light: Update to 3.14.0.
* gnu/packages/bioinformatics.scm (r-aroma-light): Update to 3.14.0.
2019-05-06 00:14:39 +02:00
Ricardo Wurmus dd03589939
gnu: r-msnid: Update to 1.18.0.
* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.18.0.
2019-05-06 00:14:38 +02:00
Ricardo Wurmus b65c264907
gnu: r-msnbase: Update to 2.10.0.
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.10.0.
2019-05-06 00:14:38 +02:00
Ricardo Wurmus ee386fcb1a
gnu: r-pcamethods: Update to 1.76.0.
* gnu/packages/bioinformatics.scm (r-pcamethods): Update to 1.76.0.
2019-05-06 00:14:38 +02:00
Ricardo Wurmus f955afdabf
gnu: r-mzid: Update to 1.22.0.
* gnu/packages/bioinformatics.scm (r-mzid): Update to 1.22.0.
2019-05-06 00:14:38 +02:00
Ricardo Wurmus 9421e6b610
gnu: r-vsn: Update to 3.52.0.
* gnu/packages/bioinformatics.scm (r-vsn): Update to 3.52.0.
2019-05-06 00:14:38 +02:00
Ricardo Wurmus 15f240e317
gnu: r-affy: Update to 1.62.0.
* gnu/packages/bioinformatics.scm (r-affy): Update to 1.62.0.
2019-05-06 00:14:38 +02:00
Ricardo Wurmus fdbaa5c1e5
gnu: r-affyio: Update to 1.54.0.
* gnu/packages/bioinformatics.scm (r-affyio): Update to 1.54.0.
2019-05-06 00:14:38 +02:00
Ricardo Wurmus 5498cc46b3
gnu: r-mzr: Update to 2.18.0.
* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.18.0.
2019-05-06 00:14:37 +02:00
Ricardo Wurmus 24aabd8fd9
gnu: r-protgenerics: Update to 1.16.0.
* gnu/packages/bioinformatics.scm (r-protgenerics): Update to 1.16.0.
2019-05-06 00:14:37 +02:00
Ricardo Wurmus 10cb9919fc
gnu: r-sva: Update to 3.32.0.
* gnu/packages/bioinformatics.scm (r-sva): Update to 3.32.0.
2019-05-06 00:14:37 +02:00
Ricardo Wurmus 59bef6eaee
gnu: r-copywriter: Update to 2.16.0.
* gnu/packages/bioinformatics.scm (r-copywriter): Update to 2.16.0.
2019-05-06 00:14:37 +02:00
Ricardo Wurmus 70c44443c3
gnu: r-chipseq: Update to 1.34.0.
* gnu/packages/bioinformatics.scm (r-chipseq): Update to 1.34.0.
2019-05-06 00:14:37 +02:00
Ricardo Wurmus dbb4aa4a34
gnu: r-annotationfilter: Update to 1.8.0.
* gnu/packages/bioinformatics.scm (r-annotationfilter): Update to 1.8.0.
2019-05-06 00:14:37 +02:00
Ricardo Wurmus f6ecdafa11
gnu: r-rhdf5: Update to 2.28.0.
* gnu/packages/bioinformatics.scm (r-rhdf5): Update to 2.28.0.
2019-05-06 00:14:37 +02:00
Ricardo Wurmus c030eb50c5
gnu: r-tximport: Update to 1.12.0.
* gnu/packages/bioinformatics.scm (r-tximport): Update to 1.12.0.
2019-05-06 00:14:36 +02:00
Ricardo Wurmus 5b65a85949
gnu: r-mutationalpatterns: Update to 1.10.0.
* gnu/packages/bioinformatics.scm (r-mutationalpatterns): Update to 1.10.0.
2019-05-06 00:14:36 +02:00
Ricardo Wurmus 45aeb4eb1d
gnu: r-bamsignals: Update to 1.16.0.
* gnu/packages/bioinformatics.scm (r-bamsignals): Update to 1.16.0.
2019-05-06 00:14:36 +02:00
Ricardo Wurmus 23ce7f3b0b
gnu: r-rhtslib: Update to 1.16.1.
* gnu/packages/bioinformatics.scm (r-rhtslib): Update to 1.16.1.
2019-05-06 00:14:36 +02:00
Ricardo Wurmus c648e672b7
gnu: r-zlibbioc: Update to 1.30.0.
* gnu/packages/bioinformatics.scm (r-zlibbioc): Update to 1.30.0.
2019-05-06 00:14:36 +02:00
Ricardo Wurmus 3be113b706
gnu: r-motifrg: Update to 1.28.0.
* gnu/packages/bioinformatics.scm (r-motifrg): Update to 1.28.0.
2019-05-06 00:14:35 +02:00
Ricardo Wurmus a7143246f8
gnu: r-seqlogo: Update to 1.50.0.
* gnu/packages/bioinformatics.scm (r-seqlogo): Update to 1.50.0.
2019-05-06 00:14:35 +02:00
Ricardo Wurmus 6ef47ac82e
gnu: r-genomation: Update to 1.16.0.
* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.16.0.
2019-05-06 00:14:35 +02:00
Ricardo Wurmus d726689a70
gnu: r-seqpattern: Update to 1.16.0.
* gnu/packages/bioinformatics.scm (r-seqpattern): Update to 1.16.0.
2019-05-06 00:14:35 +02:00
Ricardo Wurmus 651b62c697
gnu: r-bsgenome: Update to 1.52.0.
* gnu/packages/bioinformatics.scm (r-bsgenome): Update to 1.52.0.
2019-05-06 00:14:35 +02:00
Ricardo Wurmus 971df3a784
gnu: r-topgo: Update to 2.36.0.
* gnu/packages/bioinformatics.scm (r-topgo): Update to 2.36.0.
2019-05-06 00:14:34 +02:00
Ricardo Wurmus d31f8d1bd8
gnu: r-genomicfeatures: Update to 1.36.0.
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.36.0.
2019-05-06 00:14:34 +02:00
Ricardo Wurmus 40d97367f0
gnu: r-rtracklayer: Update to 1.44.0.
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.44.0.
2019-05-06 00:14:34 +02:00
Ricardo Wurmus 6ff6973502
gnu: r-genomicalignments: Update to 1.20.0.
* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.20.0.
2019-05-06 00:14:34 +02:00
Ricardo Wurmus 8671d1e9d6
gnu: r-summarizedexperiment: Update to 1.14.0.
* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.14.0.
2019-05-06 00:14:34 +02:00
Ricardo Wurmus 14561bb9e7
gnu: r-delayedarray: Update to 0.10.0.
* gnu/packages/bioinformatics.scm (r-delayedarray): Update to 0.10.0.
[propagated-inputs]: Add r-matrix.
2019-05-06 00:14:34 +02:00
Ricardo Wurmus d2e165496b
gnu: r-biostrings: Update to 2.52.0.
* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.52.0.
2019-05-06 00:14:33 +02:00
Ricardo Wurmus e10b67c797
gnu: r-biocparallel: Update to 1.18.0.
* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.18.0.
2019-05-06 00:14:33 +02:00
Ricardo Wurmus 933571ddcd
gnu: r-biomart: Update to 2.40.0.
* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.40.0.
2019-05-06 00:14:33 +02:00
Ricardo Wurmus a1b9378a8e
gnu: r-annotationdbi: Update to 1.46.0.
* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.46.0.
2019-05-06 00:14:33 +02:00
Ricardo Wurmus 4aadfcd296
gnu: r-biobase: Update to 2.44.0.
* gnu/packages/bioinformatics.scm (r-biobase): Update to 2.44.0.
2019-05-06 00:14:33 +02:00
Ricardo Wurmus b35bc56a8a
gnu: r-genomicranges: Update to 1.36.0.
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.36.0.
2019-05-06 00:14:33 +02:00
Ricardo Wurmus bc0e5bc12e
gnu: r-xvector: Update to 0.24.0.
* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.24.0.
2019-05-06 00:14:32 +02:00
Ricardo Wurmus 5fadf39280
gnu: r-limma: Update to 3.40.0.
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.40.0.
2019-05-06 00:14:32 +02:00
Ricardo Wurmus 0d094ad9ab
gnu: r-variantannotation: Update to 1.30.0.
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.30.0.
[propagated-inputs]: Add r-rhtslib.
2019-05-06 00:14:32 +02:00
Ricardo Wurmus 1e3f53a489
gnu: r-edger: Update to 3.26.0.
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.26.0.
2019-05-06 00:14:32 +02:00
Ricardo Wurmus 6dc05d0a86
gnu: r-genomeinfodb: Update to 1.20.0.
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.20.0.
2019-05-06 00:14:32 +02:00
Ricardo Wurmus 38142114b7
gnu: r-iranges: Update to 2.18.0.
* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.18.0.
2019-05-06 00:14:32 +02:00
Ricardo Wurmus 192ddab3e5
gnu: r-s4vectors: Update to 0.22.0.
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.22.0.
2019-05-06 00:14:31 +02:00
Ricardo Wurmus 8bdf7d55be
gnu: r-bioccheck: Update to 1.20.0.
* gnu/packages/bioinformatics.scm (r-bioccheck): Update to 1.20.0.
2019-05-06 00:14:31 +02:00
Ricardo Wurmus e01b72d225
gnu: r-biocstyle: Update to 2.12.0.
* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.12.0.
2019-05-06 00:14:31 +02:00
Ricardo Wurmus 440af6482a
gnu: r-biocviews: Update to 1.52.0.
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.52.0.
2019-05-06 00:14:31 +02:00
Ricardo Wurmus ce52cab000
gnu: r-grohmm: Update to 1.18.0.
* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.18.0.
2019-05-06 00:14:31 +02:00
Ricardo Wurmus 49f30903f0
gnu: r-shortread: Update to 1.42.0.
* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.42.0.
2019-05-06 00:14:31 +02:00
Ricardo Wurmus fe40f55094
gnu: r-gostats: Update to 2.50.0.
* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.50.0.
2019-05-06 00:14:30 +02:00
Ricardo Wurmus 4d88dbe6eb
gnu: r-category: Update to 2.50.0.
* gnu/packages/bioinformatics.scm (r-category): Update to 2.50.0.
2019-05-06 00:14:30 +02:00
Ricardo Wurmus 08d2a26d47
gnu: r-gseabase: Update to 1.46.0.
* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.46.0.
2019-05-06 00:14:30 +02:00
Ricardo Wurmus aa51a241c5
gnu: r-rbgl: Update to 1.60.0.
* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.60.0.
[propagated-inputs]: Add r-bh.
2019-05-06 00:14:30 +02:00
Ricardo Wurmus 7f737246d8
gnu: r-annotationforge: Update to 1.26.0.
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.26.0.
2019-05-06 00:14:30 +02:00
Ricardo Wurmus 0a58282de7
gnu: r-dexseq: Update to 1.30.0.
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.30.0.
2019-05-06 00:14:30 +02:00
Ricardo Wurmus 9a39193d45
gnu: r-deseq2: Update to 1.24.0.
* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.24.0.
2019-05-06 00:14:30 +02:00
Ricardo Wurmus 0183163d1e
gnu: r-genefilter: Update to 1.66.0.
* gnu/packages/bioinformatics.scm (r-genefilter): Update to 1.66.0.
2019-05-06 00:14:29 +02:00
Ricardo Wurmus 295f35dfb9
gnu: r-preprocesscore: Update to 1.46.0.
* gnu/packages/statistics.scm (r-preprocesscore): Update to 1.46.0.
2019-05-06 00:14:29 +02:00
Ricardo Wurmus 52b4703c08
gnu: r-rgraphviz: Update to 2.28.0.
* gnu/packages/graph.scm (r-rgraphviz): Update to 2.28.0.
2019-05-06 00:14:29 +02:00
Ricardo Wurmus 3b13b6d777
gnu: r-units: Update to 0.6-3.
* gnu/packages/cran.scm (r-units): Update to 0.6-3.
2019-05-06 00:14:29 +02:00
Ricardo Wurmus 3961b3b900
gnu: Add r-dqrng.
* gnu/packages/cran.scm (r-dqrng): New variable.
2019-05-06 00:14:29 +02:00
Ricardo Wurmus b8d6dffbdd
gnu: Add r-sitmo.
* gnu/packages/cran.scm (r-sitmo): New variable.
2019-05-06 00:14:29 +02:00
Ricardo Wurmus 0c8960df13
gnu: Add r-clue.
* gnu/packages/cran.scm (r-clue): New variable.
2019-05-06 00:14:29 +02:00
Ricardo Wurmus be23c491cb
gnu: Add r-batchtools.
* gnu/packages/cran.scm (r-batchtools): New variable.
2019-05-06 00:14:28 +02:00
Ricardo Wurmus 04bf86ba9f
gnu: Add r-blme.
* gnu/packages/cran.scm (r-blme): New variable.
2019-05-06 00:14:28 +02:00
Ricardo Wurmus 2b9d4f5866
gnu: Add r-scrime.
* gnu/packages/cran.scm (r-scrime): New variable.
2019-05-06 00:14:28 +02:00
Ricardo Wurmus 78735b9f34
gnu: Add r-grimport2.
* gnu/packages/cran.scm (r-grimport2): New variable.
2019-05-06 00:14:28 +02:00
Ricardo Wurmus 8128189976
gnu: Add r-rcpphnsw.
* gnu/packages/cran.scm (r-rcpphnsw): New variable.
2019-05-06 00:14:28 +02:00
Ricardo Wurmus 993912905d
gnu: Add r-biocsingular.
* gnu/packages/bioconductor.scm (r-biocsingular): New variable.
2019-05-06 00:14:28 +02:00
Ricardo Wurmus 72032c9d5f
gnu: Add r-base64url.
* gnu/packages/cran.scm (r-base64url): New variable.
2019-05-06 00:14:27 +02:00
Efraim Flashner ba4c0d69b0
gnu: mesa: Update gallium drivers.
* gnu/packages/gl.scm (mesa)[arguments]: Update configure-flags for
aarch64 and armhf for gallium drivers.
2019-05-05 20:34:59 +03:00
Brendan Tildesley dcfa0acd7b
Correct email and license info for Brendan Tildesley.
* gnu/packages/audio.scm: Correct email and license info.
* gnu/packages/ebook.scm: Correct email and license info.
* gnu/packages/fonts.scm: Correct email and license info.
* gnu/packages/freedesktop.scm: Correct email and license info.
* gnu/packages/gnome.scm: Correct email and license info.
* gnu/packages/linux.scm: Correct email and license info.
* gnu/packages/lxde.scm: Correct email and license info.
* gnu/packages/python-web.scm: Correct email and license info.
* gnu/packages/python-xyz.scm: Correct email and license info.
* gnu/packages/python.scm: Correct email and license info.
* gnu/packages/video.scm: Correct email and license info.
* gnu/packages/web.scm: Correct email and license info.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 17:16:51 +02:00
Marius Bakke 996186b64d
gnu: lz4: Update to 1.9.1.
* gnu/packages/compression.scm (lz4): Update to 1.9.1.
2019-05-05 15:33:39 +02:00
Danny Milosavljevic ee3ce0d71d
gnu: calibre: Update to 3.42.0.
* gnu/packages/ebook.scm (calibre): Update to 3.42.0.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
Brendan Tildesley 421c5e92f9
gnu: calibre: Shorten long line.
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[build-extra]: Shorten long line.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
Brendan Tildesley d6dfe8b634
gnu: calibre: Install man pages.
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[install-man-pages]:
New phase.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
Brendan Tildesley f3f017dbf0
gnu: calibre: Delete various junk from source.
* gnu/packages/ebook.scm (calibre)[source](snippet): Delete various junk from
source.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
Brendan Tildesley 62a97dc0fb
gnu: calibre: Remove libxrender as an input.
* gnu/packages/ebook.scm (calibre)[inputs]: Remove libxrender.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
Brendan Tildesley 68435a7f55
gnu: calibre: Unbundle python2-odfpy.
* gnu/packages/ebook.scm (calibre)[snippet]: Remove all of src/odf.
[inputs]: Add python2-odfpy.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
Brendan Tildesley 7312a7d073
gnu: calibre: Remove some comments.
* gnu/packages/ebook.scm (calibre): There is no unrar in Guix currently, and
  pdftohtml is in poppler, so we can remove this comment.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
Brendan Tildesley eb5f620134
gnu: calibre: Enable tests.
* gnu/packages/ebook.scm (calibre): Enable tests.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley cbe399e736
gnu: calibre: Disable sqlite test.
* gnu/packages/patches/calibre-remove-test-sqlite.patch: New file.
* gnu/packages/ebook.scm (calibre)[source]: Use it.
* gnu/local.mk (dist_patch_DATA): Add it.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley 4bcd0647b7
gnu: calibre: Disable Qt test.
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[configure]: Disable
Qt test.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley f89f5abada
gnu: calibre: Disable bs4 test.
* gnu/packages/patches/calibre-remove-test-bs4.patch: New file.
* gnu/packages/ebook.scm (calibre)[source]: Use it.
* gnu/local.mk (dist_patch_DATA): Add it.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley 6e1ab5fadb
gnu: calibre: Use "linux.py" to install desktop files.
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[configure]: Modify.
[install-mimetypes]: Remove.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley ad74978a95
gnu: Add python-soupsieve, python2-soupsieve.
* gnu/packages/python-xyz.scm (python-soupsieve): New variable.
(python2-soupsieve): New variable.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley b01cde1ac9
gnu: calibre: Disable tests that require networking.
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[configure]: Modify.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley 15871b4087
gnu: calibre: Remove unrar test.
* gnu/packages/patches/calibre-remove-test-unrar.patch: New file.
* gnu/packages/ebook.scm (calibre)[source]: Use it.
* gnu/local.mk (dist_patch_DATA): Add it.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley c187c9d786
gnu: python-regex, python2-regex: Update to 2019.04.14.
* gnu/packages/python.scm (python-regex, python2-regex): Update to 2019.04.14.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley adc25b68b1
gnu: calibre: Add python2-html2text as an input.
* gnu/packages/ebook.scm (calibre)[inputs]: Add python2-html2text.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley 7a82ceb7bb
gnu: Add python-html2text, python2-html2text.
* gnu/packages/python-web.scm (python-html2text): New variable.
(python2-html2text): New variable.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley 13068a8ccf
gnu: calibre: Move font unbundling to after check phase.
* gnu/packages/ebook.scm (calibre)[snippet]: Modify.
[native-inputs]: Remove font-liberation.
[inputs]: Add font-liberation.
[arguments]<#:phases>[install-font-liberation]: Delete phase.
[unbundle-font-liberation]: New phase.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley 4f29902080
gnu: calibre: Add missing dependencies as indicated by tests.
* gnu/packages/ebook.scm (calibre)[inputs]: Add python2-html5lib,
python2-psutil.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
Brendan Tildesley b0038957f5
gnu: calibre: Build rapydscript.
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[build-extra]: Modify.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:19 +02:00
Brendan Tildesley d243b41dd0
gnu: calibre: Use system mathjax.
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[build-extra]:
New phase.
[inputs]: Add js-mathjax.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:19 +02:00
Brendan Tildesley 4e6f8a1442
gnu: calibre: Update to 3.41.3.
* gnu/packages/ebook.scm (calibre): Update to 3.41.3.
[inputs]: Replace python2-cssutils by python2-css-parser.
[snippet]: Modify.
* gnu/packages/patches/calibre-use-packaged-feedparser.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove patch.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:19 +02:00
Tobias Geerinckx-Rice c8e214e80d
gnu: wgetpaste: Make all dependencies explicit.
* gnu/packages/wget.scm (wgetpaste)[arguments]: Replace limited
‘use-inputs’ phase with a ‘wrap-program’ one.
2019-05-05 00:10:44 +02:00
Tobias Geerinckx-Rice 4d3990c9f3
gnu: wgetpaste: Return #t from all phases.
* gnu/packages/wget.scm (wgetpaste)[arguments]: Return #t from ‘install’ phase.
2019-05-05 00:10:44 +02:00
Tobias Geerinckx-Rice fbc2531395
gnu: tor: Remove explicit hardening flags.
* gnu/packages/tor.scm (tor)[arguments]: Remove #:configure-flags that
merely confirm the defaults.
2019-05-05 00:10:24 +02:00
Leo Famulari 0d6cfaa3dd
gnu: nano: Update to 4.2.
* gnu/packages/nano.scm (nano): Update to 4.2.
2019-05-04 15:43:22 -04:00
Maxim Cournoyer 4e933afda4
gnu: python-cffi: Fix tests.
Fixes issue #35371 (see: https://bugs.gnu.org/35371).

* gnu/packages/libffi.scm (python-cffi)[phases]
{patch-paths-of-dynamically-loaded-libraries}: Add phase.
[home-page]: Update URL.
2019-05-04 13:52:57 -04:00
Julien Lepiller 8aeef53497
gnu: coq-bignums: Update to 8.9.0.
* gnu/packages/coq.scm (coq-bignums): Update to 8.9.0.
2019-05-04 19:41:44 +02:00
Julien Lepiller f5b0d90490
gnu: coq-mathcomp: Update to 1.8.0.
* gnu/packages/coq.scm (coq-mathcomp): Update to 1.8.0.
2019-05-04 19:41:35 +02:00
Julien Lepiller 1f1ea9c0cb
gnu: coq-gappa: Update to 1.3.4.
* gnu/packages/coq.scm (coq-gappa): Update to 1.3.4.
2019-05-04 19:41:28 +02:00
Julien Lepiller e03e1b5584
gnu: coq: Update to 8.9.0.
* gnu/packages/coq.scm (coq): Update to 8.9.0.
(coq-autosubst): Update to latest commit.
(coq-equations): Update to 1.2-beta2.
2019-05-04 19:41:04 +02:00
Marius Bakke a8bb8fccd8
gnu: harfbuzz: Update source hash.
The previous tarball was modified in-place; see
<https://github.com/harfbuzz/harfbuzz/issues/1641>.

* gnu/packages/gtk.scm (harfbuzz)[source](sha256): Update.
2019-05-04 18:01:12 +02:00
Marius Bakke 57e839a26d
gnu: opus: Update to 1.3.1.
* gnu/packages/xiph.scm (opus): Update to 1.3.1.
2019-05-04 16:53:49 +02:00
Marius Bakke baff6b5e85
gnu: libdrm: Update to 2.4.98.
* gnu/packages/xdisorg.scm (libdrm): Update to 2.4.98.
2019-05-04 16:53:49 +02:00
Marius Bakke 111adbd338
gnu: libpsl: Update to 0.21.0.
* gnu/packages/web.scm (libpsl): Update to 0.21.0.
2019-05-04 16:53:49 +02:00
Marius Bakke 11bab809e1
gnu: python-cython: Update to 0.29.7.
* gnu/packages/python-xyz.scm (python-cython): Update to 0.29.7.
2019-05-04 16:53:49 +02:00
Marius Bakke 9adae0a017
gnu: pcre2: Update to 10.33.
* gnu/packages/pcre.scm (pcre2): Update to 10.33.
2019-05-04 16:53:49 +02:00
Marius Bakke 569f53e1a8
gnu: imagemagick: Update to 6.9.10-42.
* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.10-42.
2019-05-04 16:53:49 +02:00
Marius Bakke 87d336e20f
gnu: gtk+: Update to 3.24.8.
* gnu/packages/gtk.scm (gtk+): Update to 3.24.8.
[source](snippet): Remove.
2019-05-04 16:53:49 +02:00
Marius Bakke c9c63edbde
gnu: gstreamer: Update to 1.16.0.
* gnu/packages/gstreamer.scm (gstreamer, gst-plugins-base, gst-plugins-bad,
gst-plugins-ugly, python-gst): Update to 1.16.0.
(gst-plugins-good): Likewise.
[source](patches): Remove.
[arguments]: Remove #:make-flags.
(gst-libav): Update to 1.16.0.
[inputs]: Change FFMPEG-3.4 to FFMPEG.
* gnu/packages/patches/gst-plugins-good-libvpx-compat.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
2019-05-04 16:53:48 +02:00
Marius Bakke 46c39e1e47
gnu: orc: Update to 0.4.29.
* gnu/packages/gstreamer.scm (orc): Update to 0.4.29.
2019-05-04 16:53:48 +02:00
Marius Bakke 1ce1ebc303
gnu: mesa: Update to 19.0.3.
* gnu/packages/gl.scm (mesa): Update to 19.0.3.
2019-05-04 16:53:48 +02:00
Marius Bakke 420b013724
gnu: libpng: Don't build 'libpng16.a'.
* gnu/packages/image.scm (libpng)[arguments]: Add #:configure-flags.
2019-05-04 16:25:54 +02:00
Marius Bakke 3784b580ef
gnu: QPDF: Update to 8.4.1.
* gnu/packages/pdf.scm (qpdf): Update to 8.4.1.
2019-05-04 16:25:53 +02:00
Marius Bakke ae528aaf19
gnu: perl: Update to 5.28.2.
* gnu/packages/perl.scm (perl): Update to 5.28.2.
2019-05-04 16:25:53 +02:00
Marius Bakke 45a3ad2ea6
gnu: nghttp2: Update to 1.38.0.
* gnu/packages/web.scm (nghttp2): Update to 1.38.0.
2019-05-04 16:25:53 +02:00
Marius Bakke 63432c9647
gnu: SQLite: Update to 3.28.0.
* gnu/packages/sqlite.scm (sqlite): Update to 3.28.0.
2019-05-04 16:25:53 +02:00
Marius Bakke e77412362f
gnu: OpenBLAS: Update to 0.3.6.
* gnu/packages/maths.scm (openblas): Update to 0.3.6.
2019-05-04 16:25:53 +02:00
Marius Bakke 27ed6960be
gnu: icu4c: Update to 64.2.
* gnu/packages/icu4c.scm (icu4c): Update to 64.2.
[native-inputs]: Add PYTHON.
2019-05-04 16:25:52 +02:00
Marius Bakke 3b08c873d8
gnu: fontforge: Update to 20190413.
* gnu/packages/fontutils.scm (fontforge): Update to 20190413.
2019-05-04 16:25:52 +02:00
Marius Bakke de7dae6e10
gnu: CMake: Update to 3.14.3.
* gnu/packages/cmake.scm (cmake-minimal): Update to 3.14.3.
2019-05-04 16:25:52 +02:00
Marius Bakke 176003dafe
gnu: meson: Update to 0.50.1.
* gnu/packages/build-tools.scm (meson): Update to 0.50.1.
2019-05-04 16:25:52 +02:00
Maxim Cournoyer a5e9413ce8
gnu: python: Disable failing test.
Fixes issue #35556 (see: https://bugs.gnu.org/35556).

* gnu/packages/python.scm (python-3.7)[make-flags]: Exclude the test "test_asyncio",
which currently fails.
2019-05-03 23:46:29 -04:00
gabrielhdt 187f9636f1
gnu: ocaml-menhir: Update to 20181113.
* gnu/packages/ocaml.scm (ocaml-menhir): Update to 20181113.

Signed-off-by: Julien Lepiller <julien@lepiller.eu>
2019-05-03 20:46:22 +02:00
Sam 52c3cb2687
gnu: Add python-django-extensions.
* gnu/packages/django.scm (python-django-extensions): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-03 17:47:30 +02:00
Sam 8d73558d50
gnu: Add python-django-taggit.
* gnu/packages/django.scm (python-django-taggit): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-03 17:47:30 +02:00
Tobias Geerinckx-Rice c8bb86f51c
gnu: tor: Update to 0.4.0.5.
* gnu/packages/tor.scm (tor): Update to 0.4.0.5.
2019-05-03 15:22:22 +02:00
Brendan Tildesley 02eb70bd21
gnu: Add python-css-parser, python2-css-parser.
* gnu/packages/python-web.scm (python-css-parser, python2-css-parser): New
variables.

Signed-off-by: Andreas Enge <andreas@enge.fr>
2019-05-03 13:58:22 +02:00
Brendan Tildesley c2dd07aba5
gnu: web: Change 'l:' prefix to 'license:'.
* gnu/packages/web.scm: Change #:prefix l: to #:prefix license:.

Signed-off-by: Andreas Enge <andreas@enge.fr>
2019-05-03 13:58:21 +02:00
ison 3e85909044
Correct email address for ison.
* .mailmap, gnu/packages/lxde.scm: Update email address.

Signed-off-by: Andreas Enge <andreas@enge.fr>
2019-05-03 08:45:55 +02:00
Ricardo Wurmus d7afe74d60
gnu: r-cluster: Update to 2.0.9.
* gnu/packages/statistics.scm (r-cluster): Update to 2.0.9.
[inputs]: Move gfortran from here...
[native-inputs]: ...to here.
2019-05-03 08:00:54 +02:00
Ricardo Wurmus f66f40400c
gnu: r-irkernel: Update to 1.0.1.
* gnu/packages/cran.scm (r-irkernel): Update to 1.0.1.
2019-05-03 08:00:54 +02:00
Ricardo Wurmus 27b4bfbe4b
gnu: r-ouch: Update to 2.14-1.
* gnu/packages/cran.scm (r-ouch): Update to 2.14-1.
2019-05-03 08:00:53 +02:00
Ricardo Wurmus dea3df2bd1
gnu: r-fs: Update to 1.3.0.
* gnu/packages/cran.scm (r-fs): Update to 1.3.0.
2019-05-03 08:00:49 +02:00
Mark H Weaver 8d5edc9cea
gnu: linux-libre: Update to 5.0.11.
* gnu/packages/linux.scm (%linux-libre-version): Update to 5.0.11.
(%linux-libre-hash): Update hash.
2019-05-02 22:50:01 -04:00
Mark H Weaver c52fb6e11d
gnu: linux-libre@4.19: Update to 4.19.38.
* gnu/packages/linux.scm (%linux-libre-4.19-version): Update to 4.19.38.
(%linux-libre-4.19-hash): Update hash.
2019-05-02 22:49:14 -04:00
Mark H Weaver 4dc3f7c7dc
gnu: linux-libre@4.14: Update to 4.14.115.
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.115.
(%linux-libre-4.14-hash): Update hash.
2019-05-02 22:48:26 -04:00
Mark H Weaver e2474df6ee
gnu: linux-libre@4.9: Update to 4.9.172.
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.172.
2019-05-02 22:47:46 -04:00
Ricardo Wurmus 82329a17f4
gnu: pluma: Use older version of gtksourceview.
Reported by L p R n d n <guix@lprndn.info>.
Fixes <https://bugs.gnu.org/35535>.

* gnu/packages/mate.scm (pluma)[inputs]: Replace gtksourceview with
gtksourceview-3.
2019-05-02 23:12:39 +02:00
Ricardo Wurmus 2f869b0279
gnu: mate-applets: Use older version of gtksourceview.
Reported by L p R n d n <guix@lprndn.info>.

* gnu/packages/mate.scm (mate-applets)[inputs]: Replace gtksourceview with
gtksourceview-3.
2019-05-02 23:12:38 +02:00
宋文武 48f19e60c4
gnu: le-certs: Update hashes.
They added the 3 missing '^M' to all pem certs.

* gnu/packages/certs.scm (le-certs)[inputs]: Update the hashes of
isrgrootx1.pem, letsencryptauthorityx3.pem, letsencryptauthorityx4.pem.
2019-05-02 21:40:41 +08:00
Ludovic Courtès 746ac457cc
Merge branch 'version-1.0.0' 2019-05-02 15:32:30 +02:00
Julien Lepiller c457f109be
gnu: php: Update to 7.3.5.
* gnu/packages/php.scm (php): Update to 7.3.5.
2019-05-02 14:53:23 +02:00
Pierre Neidhardt d5f4d5b683
gnu: emacs-emms: Update to 5.2.
* gnu/packages/emacs-xyz.scm (emacs-emms): Update to 5.2.
2019-05-02 11:54:39 +02:00
Nicolas Goaziou 5f83b5153a
gnu: python-duniterpy: Update to 0.53.1.
* gnu/packages/finance.scm (python-duniterpy): Update to 0.53.1.
2019-05-02 10:22:36 +02:00
Nicolas Goaziou 45a37f5b05
gnu: emacs-relint: Update to 1.7.
* gnu/packages/emacs-xyz.scm (emacs-relint): Update to 1.7.
2019-05-02 10:14:18 +02:00
Nicolas Goaziou d34984b9fe
gnu: emacs-xr: Update to 1.11.
* gnu/packages/emacs-xyz.scm (emacs-xr): Update to 1.11.
2019-05-02 10:13:20 +02:00
Rutger Helling c2974d1e46
gnu: faudio: Update to 19.05.
* gnu/packages/audio.scm (faudio): Update to 19.05.
2019-05-02 08:57:24 +02:00
Tobias Geerinckx-Rice 9bec3ba4ca
gnu: python-flexmock: Update to 0.10.4.
* gnu/packages/check.scm (python-flexmock): Update to 0.10.4.
2019-05-02 00:52:33 +02:00
Marius Bakke 123bba720d
gnu: python-hypothesis: Update to 4.18.3.
* gnu/packages/check.scm (python-hypothesis): Update to 4.18.3.
2019-05-02 00:38:53 +02:00
Marius Bakke 56e95d54d2
gnu: python-pytest: Update to 4.4.1.
* gnu/packages/check.scm (python-pytest): Update to 4.4.1.
[arguments]: Enable previously failing tests.
2019-05-02 00:38:53 +02:00
Marius Bakke f1e9999b5f
gnu: boost: Update to 1.70.0.
* gnu/packages/boost.scm (boost): Update to 1.70.0.
2019-05-02 00:38:53 +02:00
Marius Bakke 0a404bdb5e
gnu: libuv: Update to 1.28.0.
* gnu/packages/libevent.scm (libuv): Update to 1.28.0.
2019-05-02 00:38:53 +02:00
Marius Bakke 3d8f6577bf
gnu: util-linux: Update to 2.33.2.
* gnu/packages/linux.scm (util-linux): Update to 2.33.2.
2019-05-02 00:38:53 +02:00
Marius Bakke 46d258cbe2
gnu: pixman: Update to 0.38.4.
* gnu/packages/xdisorg.scm (pixman): Update to 0.38.4.
2019-05-02 00:38:53 +02:00
Marius Bakke f6e25b3358
gnu: python: Update to 3.7.3.
* gnu/packages/python.scm (python-3.7): Update to 3.7.3.
2019-05-02 00:38:53 +02:00
Marius Bakke 1f62621607
gnu: python-more-itertools: Update to 7.0.0.
* gnu/packages/python-xyz.scm (python-more-itertools): Update to 7.0.0.
2019-05-02 00:38:53 +02:00
Marius Bakke 922fbf8a66
gnu: jemalloc: Update to 5.2.0.
* gnu/packages/jemalloc.scm (jemalloc): Update to 5.2.0.
2019-05-02 00:38:53 +02:00
Marius Bakke 2da9b81837
gnu: harfbuzz: Update to 2.4.0.
* gnu/packages/gtk.scm (harfbuzz): Update to 2.4.0.
2019-05-02 00:38:52 +02:00
Marius Bakke 1ec290e27a
gnu: curl: Update to 7.64.1.
* gnu/packages/curl.scm (curl): Update to 7.64.1.
2019-05-02 00:38:52 +02:00
Marius Bakke 8b5b3acab3
gnu: libpng: Remove graft for 1.6.37.
* gnu/packages/image.scm (libpng): Update to 1.6.37.
[replacement]: Remove field.
(libpng-1.6.37): Remove variable.
2019-05-02 00:38:52 +02:00
Marius Bakke 8de1979d7c
gnu: openjpeg: Don't build 'libopenjp2.a'.
* gnu/packages/image.scm (openjpeg)[arguments]: Add #:configure-flags.
2019-05-02 00:38:52 +02:00
Marius Bakke de1b5e4959
gnu: openjpeg: Incorporate grafted changes.
* gnu/packages/image.scm (openjpeg): Update to 2.3.1.
[replacement]: Remove.
[source]: Change to GIT-FETCH.
2019-05-02 00:38:52 +02:00
Marius Bakke 50943b4878
gnu: lcms: Incorporate grafted changes.
* gnu/packages/ghostscript.scm (lcms)[replacement]: Remove.
[source](patches): New field.
(lcms/fixed): Remove variable.
2019-05-02 00:38:52 +02:00
Marius Bakke c078f1b08b
gnu: texlive-bin: Adapt to Poppler 0.75.
This is a follow-up to commit 2eb92ce85f.

* gnu/packages/patches/texlive-bin-luatex-poppler-compat.patch: Update for
Poppler 0.75.
* gnu/packages/tex.scm (texlive-bin)[source](patches): Update pdftex-poppler-0.75.patch.
[arguments]: Adjust accordingly.
2019-05-02 00:38:52 +02:00
Marius Bakke 3b458d5462
Merge branch 'master' into core-updates 2019-05-01 23:11:41 +02:00
Marius Bakke 14da3daafc
gnu: termite: Update to 15.
* gnu/packages/terminals.scm (termite): Update to 15.
2019-05-01 22:15:02 +02:00
Marius Bakke 03c59a2525
gnu: vte-ng: Update to 0.56.2.a.
* gnu/packages/gnome.scm (vte-ng): Update to 0.56.2.a.
[native-inputs]: Add GCC-7.
[arguments]: Add GCC7 workaround.
2019-05-01 22:15:02 +02:00
Marius Bakke a0d44bb09f
gnu: spice: Update to 0.14.2 [fixes CVE-2019-3813].
* gnu/packages/spice.scm (spice): Update to 0.14.2.
2019-05-01 22:15:01 +02:00
Marius Bakke a550da6247
gnu: spice-protocol: Update to 0.14.0.
* gnu/packages/spice.scm (spice-protocol): Update to 0.14.0.
(spice-protocol-0.12): New public variable.
(spice-gtk)[propagated-inputs]: Change SPICE-PROTOCOL to SPICE-PROTOCOL-0.12.
2019-05-01 22:15:01 +02:00
Marius Bakke 15ada26abb
gnu: signify: Update to 25.
* gnu/packages/crypto.scm (signify): Update to 25.
2019-05-01 22:15:01 +02:00
Marius Bakke a5006ede7f
gnu: signify: Don't use unstable tarball.
* gnu/packages/crypto.scm (signify)[source]: Change to GIT-FETCH.
2019-05-01 22:15:01 +02:00
Marius Bakke f99418e3f3
gnu: ungoogled-chromium: Update to 74.0.3729.131-0.9e33022 [fixes CVE-2019-5824].
* gnu/packages/chromium.scm (%chromium-version): Update to 74.0.3729.131.
(ungoogled-chromium-source): Update Chromium hash.
2019-05-01 22:15:01 +02:00
Marius Bakke ca86b0bae3
gnu: ungoogled-chromium: Unbundle openjpeg again.
This is a follow-up to commit 40594fdcb9e360d68e5444771b5467ba5bbbfcf2.

* gnu/packages/chromium.scm (%preserved-third-party-files): Remove
'third_party/pdfium/third_party/libopenjpeg20'.
(ungoogled-chromium)[arguments]: Fix typo in #:configure-flags.
2019-05-01 22:15:01 +02:00
Julien Lepiller bd9d5dbb86
gnu: php: Disable failing tests on armhf.
* gnu/packages/php.scm (php)[arguments]: Disable two failing tests on
armhf.
2019-05-01 21:13:34 +02:00
Ludovic Courtès 17acc215bf
gnu: guix: Update to 326dcbf. 2019-05-01 17:29:02 +02:00
Ludovic Courtès 326dcbf1b3
gnu: guix: Update to 1.0.0. 2019-05-01 14:11:34 +02:00
Ricardo Wurmus ae66feeee0
gnu: r-irkernel: Update to 1.0.0.
* gnu/packages/cran.scm (r-irkernel): Update to 1.0.0.
2019-05-01 11:13:38 +02:00
Ricardo Wurmus 944d4c483a
gnu: r-officer: Update to 0.3.4.
* gnu/packages/cran.scm (r-officer): Update to 0.3.4.
2019-05-01 10:10:04 +02:00
Ricardo Wurmus 0b5b9d69a8
gnu: r-lmtest: Update to 0.9-37.
* gnu/packages/cran.scm (r-lmtest): Update to 0.9-37.
2019-05-01 10:09:52 +02:00
Ricardo Wurmus 8bc8cea987
gnu: r-shinyfiles: Update to 0.7.3.
* gnu/packages/cran.scm (r-shinyfiles): Update to 0.7.3.
2019-05-01 10:09:10 +02:00
Marius Bakke af74e4350f
gnu: ungoogled-chromium: Update to 74.0.3729.108-0.9e33022.
* gnu/packages/chromium.scm (%preserved-third-party-files): Add four new
directories, delete three obsolete.
(%chromium-version, %ungoogled-revision, %debian-revision): Update for 74.
(ungoogled-chromium-source): Update hashes.  Ignore Debians GCC6 patches.
(ungoogled-chromium)[arguments]: Add "use_system_openjpeg" to #:configure-flags.
2019-05-01 01:31:31 +02:00
Marius Bakke 947134492e
gnu: Remove greenisland.
* gnu/packages/display-managers.scm (greenisland): Remove variable.
2019-05-01 01:31:31 +02:00
Vagrant Cascadian 4ee55938de
gnu: u-boot-tools: Only run full test suite on x86_64.
* gnu/packages/bootloaders (u-boot-tools)[arguments]<#:phases>[check]:
Modify phase.
[check-x86]: New phase.
[patch]: New phase.
2019-04-30 13:58:37 -07:00
Tobias Geerinckx-Rice 8d2d68a5fb
gnu: ocaml-migrate-parsetree: Name checkout.
* gnu/packages/ocaml.scm (ocaml-migrate-parsetree)[source]: Add FILE-NAME.
2019-04-30 21:07:13 +02:00
Tobias Geerinckx-Rice b7a4cb5206
gnu: ocaml-opam-file-format: Name checkout.
* gnu/packages/ocaml.scm (ocaml-opam-file-format)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
Tobias Geerinckx-Rice ad09f3b024
gnu: sbcl-cl-syntax: Name checkout.
* gnu/packages/lisp.scm (sbcl-cl-syntax)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
Tobias Geerinckx-Rice 2af4698016
gnu: emacs-dired-sidebar: Name checkout.
* gnu/packages/emacs-xyz.scm (emacs-dired-sidebar)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
Tobias Geerinckx-Rice 0abf2d91cf
gnu: sbcl-rfc2388: Name checkout.
* gnu/packages/lisp.scm (sbcl-rfc2388)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
Tobias Geerinckx-Rice 7026f6b27e
gnu: ocaml-ppx-typerep-conv: Name checkout.
* gnu/packages/ocaml.scm (ocaml-ppx-typerep-conv)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
Tobias Geerinckx-Rice 3a75925e73
gnu: ocaml-ppx-hash: Name checkout.
* gnu/packages/ocaml.scm (ocaml-ppx-hash)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
Tobias Geerinckx-Rice 4a6de00217
gnu: ocaml-ppx-enumerate: Name checkout.
* gnu/packages/ocaml.scm (ocaml-ppx-enumerate)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
Tobias Geerinckx-Rice fbd08d42a6
gnu: ocaml-core: Name checkout.
* gnu/packages/ocaml.scm (ocaml-core)[source]: Add FILE-NAME.
2019-04-30 21:07:11 +02:00
Tobias Geerinckx-Rice 5924f621bb
gnu: sbcl-trivial-backtrace: Name checkout.
* gnu/packages/lisp.scm (sbcl-trivial-backtrace)[source]: Add FILE-NAME.
2019-04-30 21:07:11 +02:00
Tobias Geerinckx-Rice a97fc9cd8e
gnu: sbcl-myway: Name checkout.
* gnu/packages/lisp.scm (sbcl-myway)[source]: Add FILE-NAME.
2019-04-30 21:07:11 +02:00
Tobias Geerinckx-Rice 8f4b57000d
gnu: emacs-helm-pass: Name checkout.
* gnu/packages/emacs-xyz.scm (emacs-helm-pass)[source]: Add FILE-NAME.
2019-04-30 21:07:11 +02:00
Tobias Geerinckx-Rice 2ba3dc0bdf
gnu: emacs-zotxt: Name checkout.
* gnu/packages/emacs-xyz.scm (emacs-zotxt)[source]: Add FILE-NAME.
2019-04-30 21:07:11 +02:00
Vagrant Cascadian 6f5be83cd7
gnu: u-boot-tools: Only run full test suite on x86_64.
* gnu/packages/bootloaders (u-boot-tools)[arguments]<#:phases>[check]:
Modify phase.
[check-x86]: New phase.
[patch]: New phase.
2019-04-30 19:49:16 +02:00
Ludovic Courtès 094aaa1a1e
gnu: gexiv2: Skip failing test on 32-bit platforms.
* gnu/packages/gnome.scm (gexiv2)[arguments]: New field.
2019-04-30 18:29:10 +02:00
Tobias Geerinckx-Rice 9b241d4ce2
gnu: python-nose-timer: Update to 0.7.5.
* gnu/packages/check.scm (python-nose-timer): Update to 0.7.5.
2019-04-30 17:11:52 +02:00
Tobias Geerinckx-Rice e976e199c4
gnu: sbcl-cl+ssl: Name checkout.
* gnu/packages/lisp.scm (sbcl-cl+ssl)[source]: Add FILE-NAME.
2019-04-30 17:11:36 +02:00
Tobias Geerinckx-Rice e76a972bde
gnu: ghc-esqueleto: Name checkout.
* gnu/packages/haskell.scm (ghc-esqueleto)[source]: Add FILE-NAME.
2019-04-30 17:05:22 +02:00
Tobias Geerinckx-Rice 9e6cce4440
gnu: ocaml-ppx-tools: Name checkout.
* gnu/packages/ocaml.scm (ocaml-ppx-tools)[source]: Add FILE-NAME.
2019-04-30 17:04:13 +02:00
Tobias Geerinckx-Rice 45ea12f31e
gnu: sbcl-cl-base64: Name checkout.
* gnu/packages/lisp.scm (sbcl-cl-base64)[source]: Add FILE-NAME.
2019-04-30 17:03:08 +02:00
Tobias Geerinckx-Rice 4fdad3edc3
gnu: eid-mw: Name checkout.
* gnu/packages/security-token.scm (eid-mw)[source]:
Add FILE-NAME.
2019-04-30 17:02:38 +02:00
Ludovic Courtès e4b2866cd0
gnu: libplist: Run tests sequentially.
Fixes <https://bugs.gnu.org/35501>.
Reported by Brendan Tildesley <mail@brendan.scot>.

* gnu/packages/libusb.scm (libplist)[arguments]: New field.
2019-04-30 16:47:29 +02:00
Marius Bakke 5a3d3d6a3b
gnu: Add i3lock.
* gnu/packages/wm.scm (i3lock): New public variable.

(cherry picked from commit b6afc35051)
2019-04-30 15:09:49 +02:00
Tobias Geerinckx-Rice 378b8a6446
gnu: youtube-dl: Update to 2019.04.30.
* gnu/packages/video.scm (youtube-dl): Update to 2019.04.30.
2019-04-30 14:30:18 +02:00
Tobias Geerinckx-Rice eea094ccdc
gnu: ruby-rest-client: Fix lost ,s.
* gnu/packages/ruby.scm (ruby-rest-client)[native-inputs]:
Move unquotes to their operands.
2019-04-30 13:03:56 +02:00
Julien Lepiller b77c8ddbe1
gnu: maven: Update to 3.6.1.
* gnu/packages/maven.scm (maven-artifact): Update to 3.6.1.
2019-04-30 12:41:19 +02:00
Julien Lepiller 6f737ae68f
gnu: java-plexus-archiver: Update to 4.1.0.
* gnu/packages/java.scm (java-plexus-archiver): Update to 4.1.0.
2019-04-30 12:41:11 +02:00
Julien Lepiller 0cd8efcc8c
gnu: java-plexus-utils: Update to 3.2.0.
* gnu/packages/java.scm (java-plexus-utils): Update to 3.2.0.
2019-04-30 12:41:06 +02:00
Nicolas Goaziou 45fb7b404d
gnu: Rename some games to match upstream project name.
* gnu/packages/games.scm (armagetronad):
(cataclysm-dda):
(abbaye):
(wesnoth):
(wesnoth-server):
(starfighter):
(kiki):
(fillets-ng):
(crawl):
(crawl-tiles):
(tome4):
(btanks):
(battle-tanks):
(edgar): Use these as the package definition.
(armagetron-advanced):
(cataclysm-dark-days-ahead):
(l-abbaye-des-morts):
(the-battle-for-wesnoth):
(the-battle-for-wesnoth-server):
(project-starfighter):
(kiki-the-nano-bot):
(fish-fillets-ng):
(dungeon-crawl-stone-soup):
(dungeon-crawl-stone-soup-tiles):
(tales-of-maj-eyal):
(the-legend-of-edgar): Turn these into obsolete aliases.

This reverts renames made by the following commits:
f95e33a7ad
b1aee9fce2
f6a21d61de
24a67aef2a
36a0b5b48c
8b6e2bc15f
6639295f2f
184f5c8db1
ecdb1348ad
375cb94130
c91ed484d0
973bd8a62c
df42e0f9c9
2019-04-30 10:42:00 +02:00
Julien Lepiller 6215132155
gnu: ocaml-camomile: Install data in the store.
* gnu/packages/ocaml.scm (ocaml-camomile)[arguments]: Fix configuration
to look for and install data in the store.
2019-04-30 10:28:21 +02:00
Timothy Sample f420d639df
gnu: i3-wm: Use absolute paths in session files.
* gnu/packages/wm.scm (i3-wm)[arguments]: Add a phase to patch the
session '.desktop' files to use the absolute paths of the 'i3' and
'i3-with-shmlog' binaries.
2019-04-29 23:04:35 -04:00
Timothy Sample 9aa470e912
gnu: awesome: Use absolute paths in session file.
* gnu/packages/wm.scm (awesome)[arguments]: Add a phase to patch the
session '.desktop' file to use the absolute path of the 'awesome'
binary.
2019-04-29 23:04:35 -04:00
Timothy Sample 5aafccebbe
gnu: gdm: Avoid selecting the placeholder session.
This fixes <https://bugs.gnu.org/35484>.

* gnu/packages/gnome.scm (gdm)[arguments]: Modify the pre-configure phase to
patch GDM to only select the placeholder session if there are no others.
2019-04-29 23:04:27 -04:00
Timothy Sample aa7cdc57dc
gnu: i3-wm: Use absolute paths in session files.
* gnu/packages/wm.scm (i3-wm)[arguments]: Add a phase to patch the
session '.desktop' files to use the absolute paths of the 'i3' and
'i3-with-shmlog' binaries.
2019-04-29 22:36:27 -04:00
Timothy Sample 4ec42524dd
gnu: awesome: Use absolute paths in session file.
* gnu/packages/wm.scm (awesome)[arguments]: Add a phase to patch the
session '.desktop' file to use the absolute path of the 'awesome'
binary.
2019-04-29 20:54:43 -04:00
Timothy Sample e8c6e771c1
gnu: gdm: Avoid selecting the placeholder session.
This fixes <https://bugs.gnu.org/35484>.

* gnu/packages/gnome.scm (gdm)[arguments]: Modify the pre-configure phase to
patch GDM to only select the placeholder session if there are no others.
2019-04-29 20:54:43 -04:00
Nicolas Goaziou 649220adae
gnu: Rename some games to match upstream project name.
* gnu/packages/games.scm (armagetronad):
(cataclysm-dda):
(abbaye):
(wesnoth):
(wesnoth-server):
(starfighter):
(kiki):
(fillets-ng):
(crawl):
(crawl-tiles):
(tome4):
(btanks):
(battle-tanks):
(edgar): Use these as the package definition.
(armagetron-advanced):
(cataclysm-dark-days-ahead):
(l-abbaye-des-morts):
(the-battle-for-wesnoth):
(the-battle-for-wesnoth-server):
(project-starfighter):
(kiki-the-nano-bot):
(fish-fillets-ng):
(dungeon-crawl-stone-soup):
(dungeon-crawl-stone-soup-tiles):
(tales-of-maj-eyal):
(the-legend-of-edgar): Turn these into obsolete aliases.

This reverts renames made by the following commits:
f95e33a7ad
b1aee9fce2
f6a21d61de
24a67aef2a
36a0b5b48c
8b6e2bc15f
6639295f2f
184f5c8db1
ecdb1348ad
375cb94130
c91ed484d0
973bd8a62c
df42e0f9c9
2019-04-30 02:02:39 +02:00
Ricardo Wurmus 6f7f8543c5
gnu: r-rcpparmadillo: Update to 0.9.400.2.0.
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.9.400.2.0.
2019-04-30 00:33:55 +02:00
Ricardo Wurmus 8b96b86065
gnu: r-repr: Update to 1.0.0.
* gnu/packages/cran.scm (r-repr): Update to 1.0.0.
[propagated-inputs]: Add r-pillar.
2019-04-30 00:33:55 +02:00
Ricardo Wurmus 5fce90135c
gnu: r-ipred: Update to 0.9-9.
* gnu/packages/cran.scm (r-ipred): Update to 0.9-9.
2019-04-30 00:33:55 +02:00
Marius Bakke b6afc35051
gnu: Add i3lock.
* gnu/packages/wm.scm (i3lock): New public variable.
2019-04-29 20:10:43 +02:00
Marius Bakke 05e1534ee8
gnu: kodi: Update to 18.2.
* gnu/packages/kodi.scm (kodi): Update to 18.2.
* gnu/packages/patches/kodi-set-libcurl-ssl-parameters.patch: Adjust for
upstream changes.
2019-04-29 20:10:43 +02:00
Marius Bakke 06c86f166d
gnu: msmtp: Update to 1.8.4.
* gnu/packages/mail.scm (msmtp): Update to 1.8.4.
2019-04-29 20:10:43 +02:00
Marius Bakke b339f14cb2
gnu: elogind: Update to 241.3.
* gnu/packages/freedesktop.scm (elogind): Update to 241.3.
2019-04-29 20:10:42 +02:00
Marius Bakke 2e652add1f
gnu: ftgl: Don't build libftgl.a.
* gnu/packages/gl.scm (ftgl)[arguments]: Add "--disable-static" to #:configure-flags.
2019-04-29 20:10:42 +02:00
Marius Bakke a1570c89fe
gnu: qemu: Build verbosely.
* gnu/packages/virtualization.scm (qemu)[arguments]: Remove phase
'make-gtester-verbose' in favor of #:make-flags.
2019-04-29 20:10:42 +02:00
Ricardo Wurmus 4267481a4e
gnu: Remove scmutils.
Fixes <https://bugs.gnu.org/34203>.

* gnu/packages/scheme.scm (scmutils): Remove variable.
2019-04-29 17:20:44 +02:00
Julien Lepiller 373a2a0797
gnu: ocaml-yojson: Update to 1.7.0.
* gnu/packages/ocaml.scm (ocaml-yojson): Update to 1.7.0.
(ocaml-merlin): Use jbuild to prevent a build failure due to a
deprecation warning.
2019-04-29 15:44:14 +02:00
Nicolas Goaziou fdd9ab3721
gnu: Add missing module in games.scm. 2019-04-29 15:08:59 +02:00
Nicolas Goaziou 1abe2e2a29
gnu: Add missing modules in games.scm. 2019-04-29 14:56:32 +02:00
Nicolas Goaziou a3d4a631fe
gnu: Add hedgewars.
* gnu/packages/games.scm (hedgewars): New variable.
2019-04-29 14:37:58 +02:00
Nicolas Goaziou e8a0696d56
gnu: Add jumpnbump.
* gnu/packages/games.scm (jumpnbump): New variable.
2019-04-29 14:37:01 +02:00
Nicolas Goaziou 1a8984536f
gnu: Add sdl2-net.
* gnu/packages/sdl.scm (sdl2-net): New variable.
2019-04-29 14:37:01 +02:00
Vagrant Cascadian 6b99afeef8
gnu: u-boot: Update to 2019.04.
* gnu/packages/bootloaders.scm (u-boot): Update to 2019.04.
[source]: Add patch.
(u-boot-novena): Update dynamic patch to handle config key rename.
(u-boot-am335x-evm): New variable.
(u-boot-am335x-boneblack): Build with modified am335x-evm config.
(u-boot-novena): Fix typo in description.
* gnu/bootloader/u-boot.scm (u-boot-beaglebone-black-bootloader): Use
u-boot-am335x-boneblack.
* gnu/packages/patches/u-boot-fix-mkimage-header-verification.patch: New file.
* gnu/local.mk (dist_patch_DATA): Update accordingly.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-04-29 12:35:04 +02:00
Ludovic Courtès 4c89dc354e
gnu: font-public-sans: Adjust synopsis and description.
* gnu/packages/fonts.scm (font-public-sans)[synopsis, description]:
Adjust.
2019-04-29 09:53:06 +02:00
Jens M 245aa0e344
gnu: Add font-public-sans.
* gnu/packages/fonts.scm (font-public-sans): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-04-29 09:51:41 +02:00
Vagrant Cascadian c31bec88a8
gnu: diffoscope: Update to 114.
* gnu/packages/package-management (diffoscope): Update to 114.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-04-29 09:33:55 +02:00
Christopher Baines fdb513a704
gnu: Fix missing bison package in (gnu packages algebra).
This fixes a regression introduced in
6d3896b9fc.

* gnu/packages/algebra.scm: Use the (gnu packages bison) module.
2019-04-28 23:58:13 +01:00
Christopher Baines 81aa6c721b
gnu: direnv: Change to the go-build-system.
The go-build-system is slightly more appropriate, and switching resolves an
issue with combining the 'unpack phase from the gnu-build-system, and the
'setup-go-environment from the go-build-system. With both of those phases
creating a directory, the first-subdirectory call at the end of the 'unpack
phase can return different values depending on the filesystem ordering.

* gnu/packages/shellutils.scm (direnv)[source]: Use the git repository, as
this works better with the go-build-system.
[build-system]: Change to the go-build-system.
[arguments]: Adjust for the go-build-system.
[native-inputs]: Remove go.
2019-04-28 23:13:31 +01:00
Nicolas Goaziou e0f3a4feb5
gnu: Fix typo.
* gnu/packages/algebra.scm (giac-xcas): Fix typo.
2019-04-28 22:16:03 +02:00
Nicolas Goaziou 7fc0e3dbbb
gnu: giac-xcas: Rename to "giac" to match upstream name.
* gnu/packages/algebra.scm (giac): New variable.
(giac-xcas): Deprecate.
2019-04-28 21:41:57 +02:00
Nicolas Goaziou 6d3896b9fc
gnu: giac-xcas: Add inputs.
* gnu/packages/algebra.scm (giac-xcas)[inputs]: Add glpk, libsamplerate, bison
  and flex.
2019-04-28 21:35:39 +02:00
Nicolas Goaziou 9f73ac242c
gnu: giac-xcas: Fix documentation.
* gnu/packages/algebra.scm (giac-xcas): Use a single output.  Fix licensing
  issues in documentation.

Xcas expects documentation to be located at a fixed location, not compatible
with a "doc" output.
2019-04-28 21:35:37 +02:00
Mark H Weaver 0e09c099cb
gnu: linux-libre: Update to 5.0.10.
* gnu/packages/linux.scm (%linux-libre-version): Update to 5.0.10.
(%linux-libre-hash): Update hash.
2019-04-28 13:35:43 -04:00
Mark H Weaver e9ef345508
gnu: linux-libre@4.19: Update to 4.19.37.
* gnu/packages/linux.scm (%linux-libre-4.19-version): Update to 4.19.37.
(%linux-libre-4.19-hash): Update hash.
2019-04-28 13:34:57 -04:00
Mark H Weaver 4943ddf878
gnu: linux-libre@4.14: Update to 4.14.114.
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.114.
(%linux-libre-4.14-hash): Update hash.
2019-04-28 13:34:06 -04:00
Mark H Weaver a7dad69a32
gnu: linux-libre@4.9: Update to 4.9.171.
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.171.
2019-04-28 13:33:36 -04:00
Mark H Weaver 4987e2b3b1
gnu: linux-libre@4.4: Update to 4.4.179.
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.179.
2019-04-28 13:32:54 -04:00
Christopher Baines bf949323b9
gnu: Add cloud-utils.
* gnu/packages/admin.scm (cloud-utils): New variable.
2019-04-28 17:37:17 +01:00
Ricardo Wurmus 6b1c7ac8ed
gnu: hypre: Unconditionally return #T from build phases.
* gnu/packages/maths.scm (hypre)[arguments]: Use INVOKE and unconditionally
return #T from build phases.
2019-04-28 16:05:57 +02:00
Ricardo Wurmus 9cd82b1c9d
gnu: jacal: Unconditionally return #T from configure phase.
* gnu/packages/maths.scm (jacal)[arguments]: Use INVOKE in configure phase.
2019-04-28 16:05:57 +02:00
Ricardo Wurmus 32d5360f43
gnu: z3: Unconditionally return #T from build phases.
* gnu/packages/maths.scm (z3)[arguments]: Use INVOKE in build phases.
2019-04-28 16:05:56 +02:00
Ricardo Wurmus cb6f44d4e4
gnu: atlas: Always return #T from build phases.
* gnu/packages/maths.scm (atlas)[arguments]: Always return #T from build
phases; use INVOKE.
2019-04-28 16:05:56 +02:00
Ricardo Wurmus 1ec1782106
gnu: make-blis: Always return #T from configure phase.
* gnu/packages/maths.scm (make-blis)[arguments]: Use INVOKE.
2019-04-28 16:05:56 +02:00
Ricardo Wurmus 7055407770
gnu: kdevplatform: Use INVOKE.
* gnu/packages/kde.scm (kdevplatform)[arguments]: Use INVOKE and return #T
unconditionally.
2019-04-28 16:05:53 +02:00
Ludovic Courtès 7d62fa206b
Merge branch 'staging' 2019-04-28 14:45:35 +02:00
Ricardo Wurmus c5db31d414
gnu: gnome-shell: Add gdk-pixbuf+svg to inputs.
* gnu/packages/gnome.scm (gnome-shell)[inputs]: Add gdk-pixbuf+svg.
2019-04-27 22:57:03 +02:00
Ricardo Wurmus 3153ca9d5f
gnu: r-rhtslib: Fix build.
* gnu/packages/bioinformatics.scm (r-rhtslib)[arguments]: Add
"--no-staged-install" to configure flags.
2019-04-27 22:45:02 +02:00
Ricardo Wurmus fc3ebc3023
gnu: r-ggbio: Fix build.
* gnu/packages/bioinformatics.scm (r-ggbio)[arguments]: Add build phase to
patch out typo.
2019-04-27 20:45:21 +02:00
Ricardo Wurmus d22d790409
gnu: r-sjplot: Update to 2.6.3.
* gnu/packages/cran.scm (r-sjplot): Update to 2.6.3.
[propagated-inputs]: Add r-bayestestr, r-insight, and r-performance.
2019-04-27 20:45:20 +02:00
Ricardo Wurmus 711a2f0611
gnu: Add r-performance.
* gnu/packages/cran.scm (r-performance): New variable.
2019-04-27 20:45:20 +02:00