jackhill/guix/guix.git
6 years agognu: Add r-ripseeker.
Roel Janssen [Tue, 24 Apr 2018 11:34:29 +0000 (13:34 +0200)]
gnu: Add r-ripseeker.

* gnu/packages/bioconductor.scm (r-ripseeker): New variable.

6 years agognu: Add r-diffbind.
Roel Janssen [Tue, 24 Apr 2018 11:33:56 +0000 (13:33 +0200)]
gnu: Add r-diffbind.

* gnu/packages/bioconductor.scm (r-diffbind): New variable.

6 years agognu: virt-viewer: Update to 6.0.
Rutger Helling [Tue, 24 Apr 2018 10:13:12 +0000 (12:13 +0200)]
gnu: virt-viewer: Update to 6.0.

* gnu/packages/spice.scm (virt-viewer): Update to 6.0.

6 years agognu: android-udev-rules: Update to 20180112.
宋文武 [Tue, 24 Apr 2018 09:28:50 +0000 (17:28 +0800)]
gnu: android-udev-rules: Update to 20180112.

* gnu/packages/android.scm (android-udev-rules): Update to 20180112.

6 years agognu: toxic: Update to 0.8.2.
Rutger Helling [Tue, 24 Apr 2018 08:06:32 +0000 (10:06 +0200)]
gnu: toxic: Update to 0.8.2.

* gnu/packages/messaging.scm (toxic): Update to 0.8.2.

6 years agognu: qtox: Update to 1.15.0.
Rutger Helling [Tue, 24 Apr 2018 08:05:52 +0000 (10:05 +0200)]
gnu: qtox: Update to 1.15.0.

* gnu/packages/messaging.scm (qtox): Update to 1.15.0.

6 years agognu: utox: Update to 0.17.0.
Rutger Helling [Tue, 24 Apr 2018 08:05:06 +0000 (10:05 +0200)]
gnu: utox: Update to 0.17.0.

* gnu/packages/messaging.scm (utox): Update to 0.17.0.
[source]: Use git-fetch instead of url-fetch.
[arguments]: Add "-DENABLE_TESTS=on" configure-flag.

6 years agognu: c-toxcore: Update to 0.2.2.
Rutger Helling [Tue, 24 Apr 2018 08:03:05 +0000 (10:03 +0200)]
gnu: c-toxcore: Update to 0.2.2.

* gnu/packages/messaging.scm (c-toxcore): Update to 0.2.2.
[arguments]: Disable tests.

6 years agognu: hop: Update hash of source tarball, which was modified in place.
Ludovic Courtès [Tue, 24 Apr 2018 07:52:24 +0000 (09:52 +0200)]
gnu: hop: Update hash of source tarball, which was modified in place.

Fixes <https://bugs.gnu.org/30804>.
Reported by Tobias Geerinckx-Rice <me@tobias.gr>.

* gnu/packages/scheme.scm (hop)[source]: Update sha256.

6 years agognu: fortune-mod: Use a stable URL for the CMake rules.
Ludovic Courtès [Mon, 23 Apr 2018 16:16:45 +0000 (18:16 +0200)]
gnu: fortune-mod: Use a stable URL for the CMake rules.

* gnu/packages/games.scm (fortune-mod)[inputs]: Use a stable URL for
"cmake-rules".

6 years agognu: grammalecte: Update to 0.6.4.
Nicolas Goaziou [Mon, 23 Apr 2018 20:32:03 +0000 (22:32 +0200)]
gnu: grammalecte: Update to 0.6.4.

* gnu/packages/dictionaries.scm (grammalecte): Update to 0.6.4.
[arguments]: Remove unnecessary fix.

6 years agognu: moc: Remove obsolete snippet.
Marius Bakke [Mon, 23 Apr 2018 17:55:58 +0000 (19:55 +0200)]
gnu: moc: Remove obsolete snippet.

* gnu/packages/music.scm (moc)[source](snippet): Remove.

6 years agognu: Use ffmpeg@3.4 in packages not ready for 4.0.
Marius Bakke [Mon, 23 Apr 2018 16:18:41 +0000 (18:18 +0200)]
gnu: Use ffmpeg@3.4 in packages not ready for 4.0.

* gnu/packages/cdrom.scm (dvdstyler)[inputs]: Change FFMPEG with FFMPEG-3.4.
* gnu/packages/video.scm (mlt, motion, simplescreenrecorder)[inputs]: Likewise.
* gnu/packages/music.scm (moc, pianobar)[inputs]: Likewise.

6 years agognu: maim: Update to 5.5.
Marius Bakke [Mon, 23 Apr 2018 16:25:47 +0000 (18:25 +0200)]
gnu: maim: Update to 5.5.

* gnu/packages/xdisorg.scm (maim): Update to 5.5.

6 years agognu: slop: Update to 7.4.
Marius Bakke [Mon, 23 Apr 2018 16:25:27 +0000 (18:25 +0200)]
gnu: slop: Update to 7.4.

* gnu/packages/xdisorg.scm (slop): Update to 7.4.

6 years agognu: feh: Update to 2.26.
Marius Bakke [Sun, 22 Apr 2018 23:14:40 +0000 (01:14 +0200)]
gnu: feh: Update to 2.26.

* gnu/packages/image-viewers.scm (feh): Update to 2.26.

6 years agognu: libwebp: Update to 1.0.0.
Marius Bakke [Sun, 22 Apr 2018 23:11:23 +0000 (01:11 +0200)]
gnu: libwebp: Update to 1.0.0.

* gnu/packages/image.scm (libwebp): Update to 1.0.0.
[source]: Change to GIT-FETCH.
[arguments]: Add 'bootstrap' phase.

6 years agognu: Add wpa-supplicant-gui.
Marius Bakke [Sun, 22 Apr 2018 14:01:28 +0000 (16:01 +0200)]
gnu: Add wpa-supplicant-gui.

* gnu/packages/admin.scm (wpa-supplicant-gui): New public variable.

6 years agognu: ffmpeg: Update to 4.0.
Rutger Helling [Mon, 23 Apr 2018 06:07:10 +0000 (08:07 +0200)]
gnu: ffmpeg: Update to 4.0.

* gnu/packages/video.scm (ffmpeg): Update to 4.0.
* gnu/packages/video.scm (ffmpeg@3.4): New variable.
* gnu/packages/video.scm (ffmpeg-git): Remove variable.
* gnu/packages/video.scm (mpv)[inputs]: Build with ffmpeg instead of ffmpeg-git.
* gnu/packages/gstreamer.scm (gst-libav)[inputs]: Build with ffmpeg@3.4 instead
of ffmpeg.
* gnu/packages/messaging.scm (qtox)[inputs]: Build with ffmpeg@3.4 instead of
ffmpeg.
* gnu/packages/emulators.scm (dolphin-emu)[inputs]: Build with ffmpeg@3.4
instead of ffmpeg.
* gnu/packages/gnunet.scm (libextractor)[inputs]: Build with ffmpeg@3.4 instead
of ffmpeg.

6 years agodownload: Use ungrafted tools in 'url-fetch/tarbomb' and 'url-fetch/zipbomb'.
Ludovic Courtès [Mon, 23 Apr 2018 12:33:11 +0000 (14:33 +0200)]
download: Use ungrafted tools in 'url-fetch/tarbomb' and 'url-fetch/zipbomb'.

Fixes <https://bugs.gnu.org/31085>.
Reported by Diego Nicola Barbato <dnbarbato@posteo.de>.

* guix/download.scm (url-fetch/tarbomb): Pass #:graft? #f to
'gexp->derivation'.
(url-fetch/zipbomb): Likewise.

6 years agognu: Add runc.
宋文武 [Sun, 22 Apr 2018 11:30:08 +0000 (19:30 +0800)]
gnu: Add runc.

* gnu/packages/virtualization.scm (runc): New variable.

6 years agognu: Add src.
宋文武 [Sun, 22 Apr 2018 03:08:29 +0000 (11:08 +0800)]
gnu: Add src.

* gnu/packages/version-control.scm (src): New variable.

6 years agognu: Add ocproxy.
Pierre Langlois [Sat, 21 Apr 2018 09:37:20 +0000 (10:37 +0100)]
gnu: Add ocproxy.

* gnu/packages/vpn.scm (ocproxy): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
6 years agognu: Add emacs-elisp-slime-nav.
Konrad Hinsen [Fri, 13 Apr 2018 14:28:09 +0000 (16:28 +0200)]
gnu: Add emacs-elisp-slime-nav.

* gnu/packages/emacs.scm (emacs-elisp-slime-nav): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
6 years agobuild: Fix possible race condition in 'test-env'.
Ludovic Courtès [Sun, 22 Apr 2018 21:14:42 +0000 (23:14 +0200)]
build: Fix possible race condition in 'test-env'.

Reported by Mark H Weaver <mhw@netris.org>.

* build-aux/test-env.in: Add 'guile' invocation before 'guix download'
invocation to make sure 'guix-daemon' is listening.

6 years agognu: libfive: Snippet returns a Boolean.
Ludovic Courtès [Thu, 19 Apr 2018 15:19:02 +0000 (17:19 +0200)]
gnu: libfive: Snippet returns a Boolean.

Reported by Mark H Weaver <mhw@netris.org>.

* gnu/packages/engineering.scm (libfive)[source](snippet): Return #t.

6 years agognu: pigx-chipseq: Update to 0.0.15.
Ricardo Wurmus [Sun, 22 Apr 2018 20:59:46 +0000 (22:59 +0200)]
gnu: pigx-chipseq: Update to 0.0.15.

* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.0.15.

6 years agoaudacity: Update to 2.2.2.
Leo Famulari [Sun, 22 Apr 2018 17:30:16 +0000 (13:30 -0400)]
audacity: Update to 2.2.2.

* gnu/packages/audio.scm (audacity): Update to 2.2.2.

6 years agognu: gcompris-qt: Update to 0.90.
Efraim Flashner [Sun, 22 Apr 2018 12:56:42 +0000 (15:56 +0300)]
gnu: gcompris-qt: Update to 0.90.

* gnu/packages/education.scm (gcompris-qt): Update to 0.90.
[source, home-page]: Use https.
[arguments]: Add 'wrap-executable phase to declare the QT_PLUGIN_PATH
and QML2_IMPORT_PATH without needing propagated inputs.
[native-inputs]: Add qttools.
[inputs]: Remove qt, add qtbase, qtdeclarative, qtgraphicaleffects,
qtmultimedia, qtquickcontrols, qtsensors, qtsvg, qtxmlpatterns.

6 years agognu: freeimage: Use bundled libjxr.
Efraim Flashner [Sun, 22 Apr 2018 09:18:31 +0000 (12:18 +0300)]
gnu: freeimage: Use bundled libjxr.

* gnu/packages/image.scm (freeimage)[source]: Don't delete bundled
LibJXR directory.
[arguments]: Modify make-flags to not include external jxrlib.
[inputs]: Remove libjxr.
* gnu/packages/patches/freeimage-unbundle.patch: Modify to not unbundle
libjxr.

6 years agoservices: Add dhcpd-service-type and <dhcpd-configuration>.
Chris Marusich [Sat, 16 Dec 2017 08:52:42 +0000 (00:52 -0800)]
services: Add dhcpd-service-type and <dhcpd-configuration>.

* doc/guix.texi (Networking Services): Document it.
* gnu/services/networking.scm (dhcpd-service-type): Add it.
(dhcpd-configuration, dhcpd-configuration?): Add it.
(dhcpd-configuration-package): Add it.
(dhcpd-configuration-config-file): Add it.
(dhcpd-configuration-version): Add it.
(dhcpd-configuration-run-directory): Add it.
(dhcpd-configuration-lease-file): Add it.
(dhcpd-configuration-pid-file): Add it.
(dhcpd-configuration-interfaces): Add it.
* gnu/tests/networking.scm (minimal-dhcpd-v4-config-file)
(dhcpd-v4-configuration, %dhcpd-os, run-dhcpd-test, %test-dhcpd): New
variables.

6 years agognu: cran.scm: Add missing module.
Efraim Flashner [Sun, 22 Apr 2018 06:42:14 +0000 (09:42 +0300)]
gnu: cran.scm: Add missing module.

This is a follow-up to 9ebfdcd36c75cfa96cd5ff4fad10ec17e4103c6d.

* gnu/packages/cran.scm: Import pkg-config.

6 years agognu: r-httpuv: Update to 1.4.1.
Ricardo Wurmus [Sat, 21 Apr 2018 21:07:10 +0000 (23:07 +0200)]
gnu: r-httpuv: Update to 1.4.1.

* gnu/packages/web.scm (r-httpuv): Update to 1.4.1.

6 years agognu: r-seurat: Update to 2.3.0.
Ricardo Wurmus [Sat, 21 Apr 2018 20:25:50 +0000 (22:25 +0200)]
gnu: r-seurat: Update to 2.3.0.

* gnu/packages/bioinformatics.scm (r-seurat): Update to 2.3.0.
[propagated-inputs]: Add r-cluster, r-dosnow, r-fitdistrplus, r-foreach,
r-lmtest, r-png, and r-rann.

6 years agognu: Add r-dosnow.
Ricardo Wurmus [Sat, 21 Apr 2018 20:25:43 +0000 (22:25 +0200)]
gnu: Add r-dosnow.

* gnu/packages/cran.scm (r-dosnow): New variable.

6 years agognu: r-lambda-r: Update to 1.2.2.
Ricardo Wurmus [Sat, 21 Apr 2018 20:24:40 +0000 (22:24 +0200)]
gnu: r-lambda-r: Update to 1.2.2.

* gnu/packages/statistics.scm (r-lambda-r): Update to 1.2.2.
[arguments]: Remove.
[native-inputs]: Remove.
[propagated-inputs]: Add r-formatr.

6 years agognu: r-httpuv: Update to 1.4.0.
Ricardo Wurmus [Sat, 21 Apr 2018 07:27:35 +0000 (09:27 +0200)]
gnu: r-httpuv: Update to 1.4.0.

* gnu/packages/web.scm (r-httpuv): Update to 1.4.0.
[propagated-inputs]: Add r-bh, r-later, and r-promises.

6 years agognu: Add r-promises.
Ricardo Wurmus [Sat, 21 Apr 2018 07:27:17 +0000 (09:27 +0200)]
gnu: Add r-promises.

* gnu/packages/cran.scm (r-promises): New variable.

6 years agognu: Add r-later.
Ricardo Wurmus [Sat, 21 Apr 2018 07:27:09 +0000 (09:27 +0200)]
gnu: Add r-later.

* gnu/packages/cran.scm (r-later): New variable.

6 years agognu: r-car: Update to 3.0-0.
Ricardo Wurmus [Sat, 21 Apr 2018 07:24:06 +0000 (09:24 +0200)]
gnu: r-car: Update to 3.0-0.

* gnu/packages/statistics.scm (r-car): Update to 3.0-0.
[propagated-inputs]: Add r-abind, r-cardata, r-lme4, r-maptools, r-nlme, and
r-rio.

6 years agognu: Add r-maptools.
Ricardo Wurmus [Sat, 21 Apr 2018 07:23:50 +0000 (09:23 +0200)]
gnu: Add r-maptools.

* gnu/packages/cran.scm (r-maptools): New variable.

6 years agognu: Add r-rio.
Ricardo Wurmus [Sat, 21 Apr 2018 07:23:42 +0000 (09:23 +0200)]
gnu: Add r-rio.

* gnu/packages/cran.scm (r-rio): New variable.

6 years agognu: Add r-openxlsx.
Ricardo Wurmus [Sat, 21 Apr 2018 07:23:31 +0000 (09:23 +0200)]
gnu: Add r-openxlsx.

* gnu/packages/cran.scm (r-openxlsx): New variable.

6 years agognu: r-ggridges: Update to 0.5.0.
Ricardo Wurmus [Sat, 21 Apr 2018 07:23:06 +0000 (09:23 +0200)]
gnu: r-ggridges: Update to 0.5.0.

* gnu/packages/cran.scm (r-ggridges): Update to 0.5.0.
[propagated-inputs]: Add r-withr.

6 years agognu: r-ddalpha: Update to 1.3.2.
Ricardo Wurmus [Sat, 21 Apr 2018 07:22:34 +0000 (09:22 +0200)]
gnu: r-ddalpha: Update to 1.3.2.

* gnu/packages/cran.scm (r-ddalpha): Update to 1.3.2.
[propagated-inputs]: Add r-geometry.

6 years agognu: Add r-geometry.
Ricardo Wurmus [Sat, 21 Apr 2018 07:22:24 +0000 (09:22 +0200)]
gnu: Add r-geometry.

* gnu/packages/cran.scm (r-geometry): New variable.

6 years agognu: Add r-magic.
Ricardo Wurmus [Sat, 21 Apr 2018 07:22:14 +0000 (09:22 +0200)]
gnu: Add r-magic.

* gnu/packages/cran.scm (r-magic): New variable.

6 years agognu: Add r-cardata.
Ricardo Wurmus [Sat, 21 Apr 2018 07:21:49 +0000 (09:21 +0200)]
gnu: Add r-cardata.

* gnu/packages/statistics.scm (r-cardata): New variable.

6 years agognu: r-gsubfn: Update to 0.7.
Ricardo Wurmus [Sat, 21 Apr 2018 06:42:36 +0000 (08:42 +0200)]
gnu: r-gsubfn: Update to 0.7.

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

6 years agognu: r-psych: Update to 1.8.3.3.
Ricardo Wurmus [Sat, 21 Apr 2018 06:42:20 +0000 (08:42 +0200)]
gnu: r-psych: Update to 1.8.3.3.

* gnu/packages/cran.scm (r-psych): Update to 1.8.3.3.

6 years agognu: r-quantmod: Update to 0.4-13.
Ricardo Wurmus [Sat, 21 Apr 2018 06:42:06 +0000 (08:42 +0200)]
gnu: r-quantmod: Update to 0.4-13.

* gnu/packages/cran.scm (r-quantmod): Update to 0.4-13.

6 years agognu: r-tinytex: Update to 0.5.
Ricardo Wurmus [Sat, 21 Apr 2018 06:41:42 +0000 (08:41 +0200)]
gnu: r-tinytex: Update to 0.5.

* gnu/packages/cran.scm (r-tinytex): Update to 0.5.

6 years agognu: r-xts: Update to 0.10-2.
Ricardo Wurmus [Sat, 21 Apr 2018 06:41:24 +0000 (08:41 +0200)]
gnu: r-xts: Update to 0.10-2.

* gnu/packages/cran.scm (r-xts): Update to 0.10-2.

6 years agognu: r-stringdist: Update to 0.9.4.7.
Ricardo Wurmus [Sat, 21 Apr 2018 06:41:02 +0000 (08:41 +0200)]
gnu: r-stringdist: Update to 0.9.4.7.

* gnu/packages/cran.scm (r-stringdist): Update to 0.9.4.7.

6 years agognu: r-prodlim: Update to 2018.04.18.
Ricardo Wurmus [Sat, 21 Apr 2018 06:40:38 +0000 (08:40 +0200)]
gnu: r-prodlim: Update to 2018.04.18.

* gnu/packages/cran.scm (r-prodlim): Update to 2018.04.18.

6 years agognu: r-lava: Update to 1.6.1.
Ricardo Wurmus [Sat, 21 Apr 2018 06:40:16 +0000 (08:40 +0200)]
gnu: r-lava: Update to 1.6.1.

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

6 years agognu: r-rmpi: Update to 0.6-7.
Ricardo Wurmus [Sat, 21 Apr 2018 06:39:25 +0000 (08:39 +0200)]
gnu: r-rmpi: Update to 0.6-7.

* gnu/packages/cran.scm (r-rmpi): Update to 0.6-7.
[native-inputs]: Add pkg-config.

6 years agognu: r-globaloptions: Update to 0.0.13.
Ricardo Wurmus [Sat, 21 Apr 2018 06:39:10 +0000 (08:39 +0200)]
gnu: r-globaloptions: Update to 0.0.13.

* gnu/packages/cran.scm (r-globaloptions): Update to 0.0.13.

6 years agognu: r-bindrcpp: Update to 0.2.2.
Ricardo Wurmus [Sat, 21 Apr 2018 06:38:59 +0000 (08:38 +0200)]
gnu: r-bindrcpp: Update to 0.2.2.

* gnu/packages/cran.scm (r-bindrcpp): Update to 0.2.2.

6 years agognu: r-bindr: Update to 0.1.1.
Ricardo Wurmus [Sat, 21 Apr 2018 06:38:50 +0000 (08:38 +0200)]
gnu: r-bindr: Update to 0.1.1.

* gnu/packages/cran.scm (r-bindr): Update to 0.1.1.

6 years agognu: r-rcpp: Update to 0.12.16.
Ricardo Wurmus [Sat, 21 Apr 2018 06:38:39 +0000 (08:38 +0200)]
gnu: r-rcpp: Update to 0.12.16.

* gnu/packages/cran.scm (r-rcpp): Update to 0.12.16.

6 years agognu: r-plogr: Update to 0.2.0.
Ricardo Wurmus [Sat, 21 Apr 2018 06:38:28 +0000 (08:38 +0200)]
gnu: r-plogr: Update to 0.2.0.

* gnu/packages/cran.scm (r-plogr): Update to 0.2.0.

6 years agognu: r-readxl: Update to 1.1.0.
Ricardo Wurmus [Sat, 21 Apr 2018 06:38:13 +0000 (08:38 +0200)]
gnu: r-readxl: Update to 1.1.0.

* gnu/packages/cran.scm (r-readxl): Update to 1.1.0.

6 years agognu: r-selectr: Update to 0.4-1.
Ricardo Wurmus [Sat, 21 Apr 2018 06:37:51 +0000 (08:37 +0200)]
gnu: r-selectr: Update to 0.4-1.

* gnu/packages/cran.scm (r-selectr): Update to 0.4-1.
[propagated-inputs]: Add r-r6.

6 years agognu: r-scran: Update to 1.6.9.
Ricardo Wurmus [Sat, 21 Apr 2018 06:36:15 +0000 (08:36 +0200)]
gnu: r-scran: Update to 1.6.9.

* gnu/packages/bioinformatics.scm (r-scran): Update to 1.6.9.

6 years agognu: r-hitc: Update to 1.22.1.
Ricardo Wurmus [Sat, 21 Apr 2018 06:36:05 +0000 (08:36 +0200)]
gnu: r-hitc: Update to 1.22.1.

* gnu/packages/bioinformatics.scm (r-hitc): Update to 1.22.1.

6 years agognu: r-ldblock: Update to 1.8.1.
Ricardo Wurmus [Sat, 21 Apr 2018 06:35:55 +0000 (08:35 +0200)]
gnu: r-ldblock: Update to 1.8.1.

* gnu/packages/bioinformatics.scm (r-ldblock): Update to 1.8.1.

6 years agognu: r-erma: Update to 0.10.1.
Ricardo Wurmus [Sat, 21 Apr 2018 06:35:42 +0000 (08:35 +0200)]
gnu: r-erma: Update to 0.10.1.

* gnu/packages/bioinformatics.scm (r-erma): Update to 0.10.1.

6 years agognu: r-gprofiler: Update to 0.6.6.
Ricardo Wurmus [Sat, 21 Apr 2018 06:35:31 +0000 (08:35 +0200)]
gnu: r-gprofiler: Update to 0.6.6.

* gnu/packages/bioinformatics.scm (r-gprofiler): Update to 0.6.6.

6 years agognu: r-ggbio: Update to 1.26.1.
Ricardo Wurmus [Sat, 21 Apr 2018 06:35:20 +0000 (08:35 +0200)]
gnu: r-ggbio: Update to 1.26.1.

* gnu/packages/bioinformatics.scm (r-ggbio): Update to 1.26.1.

6 years agognu: r-genomicalignments: Update to 1.14.2.
Ricardo Wurmus [Sat, 21 Apr 2018 06:35:04 +0000 (08:35 +0200)]
gnu: r-genomicalignments: Update to 1.14.2.

* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.14.2.

6 years agognu: r-dexseq: Update to 1.24.4.
Ricardo Wurmus [Sat, 21 Apr 2018 06:34:55 +0000 (08:34 +0200)]
gnu: r-dexseq: Update to 1.24.4.

* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.24.4.

6 years agognu: r-vegan: Update to 2.5-1.
Ricardo Wurmus [Sat, 21 Apr 2018 06:34:43 +0000 (08:34 +0200)]
gnu: r-vegan: Update to 2.5-1.

* gnu/packages/bioinformatics.scm (r-vegan): Update to 2.5-1.
[propagated-inputs]: Add r-knitr.

6 years agognu: r-mapproj: Update to 1.2.6.
Ricardo Wurmus [Sat, 21 Apr 2018 06:34:15 +0000 (08:34 +0200)]
gnu: r-mapproj: Update to 1.2.6.

* gnu/packages/geo.scm (r-mapproj): Update to 1.2.6.

6 years agognu: r-maps: Update to 3.3.0.
Ricardo Wurmus [Sat, 21 Apr 2018 06:34:06 +0000 (08:34 +0200)]
gnu: r-maps: Update to 3.3.0.

* gnu/packages/geo.scm (r-maps): Update to 3.3.0.

6 years agognu: r-igraph: Update to 1.2.1.
Ricardo Wurmus [Sat, 21 Apr 2018 06:33:33 +0000 (08:33 +0200)]
gnu: r-igraph: Update to 1.2.1.

* gnu/packages/graph.scm (r-igraph): Update to 1.2.1.
[inputs]: Add glpk and zlib.
[propagated-inputs]: Remove r-irlba.

6 years agognu: r-subplex: Update to 1.5-4.
Ricardo Wurmus [Sat, 21 Apr 2018 06:33:17 +0000 (08:33 +0200)]
gnu: r-subplex: Update to 1.5-4.

* gnu/packages/maths.scm (r-subplex): Update to 1.5-4.

6 years agognu: r-shinydashboard: Update to 0.7.0.
Ricardo Wurmus [Sat, 21 Apr 2018 06:33:03 +0000 (08:33 +0200)]
gnu: r-shinydashboard: Update to 0.7.0.

* gnu/packages/web.scm (r-shinydashboard): Update to 0.7.0.

6 years agognu: r-htmlwidgets: Update to 1.2.
Ricardo Wurmus [Sat, 21 Apr 2018 06:32:50 +0000 (08:32 +0200)]
gnu: r-htmlwidgets: Update to 1.2.

* gnu/packages/web.scm (r-htmlwidgets): Update to 1.2.

6 years agognu: r-lme4: Update to 1.1-17.
Ricardo Wurmus [Sat, 21 Apr 2018 06:32:29 +0000 (08:32 +0200)]
gnu: r-lme4: Update to 1.1-17.

* gnu/packages/statistics.scm (r-lme4): Update to 1.1-17.

6 years agognu: r-futile-options: Update to 1.0.1.
Ricardo Wurmus [Sat, 21 Apr 2018 06:32:16 +0000 (08:32 +0200)]
gnu: r-futile-options: Update to 1.0.1.

* gnu/packages/statistics.scm (r-futile-options): Update to 1.0.1.

6 years agognu: r-xml: Update to .
Ricardo Wurmus [Sat, 21 Apr 2018 06:32:04 +0000 (08:32 +0200)]
gnu: r-xml: Update to .

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

6 years agognu: r-rsqlite: Update to 2.1.0.
Ricardo Wurmus [Sat, 21 Apr 2018 06:31:51 +0000 (08:31 +0200)]
gnu: r-rsqlite: Update to 2.1.0.

* gnu/packages/statistics.scm (r-rsqlite): Update to 2.1.0.

6 years agognu: r-survival: Update to 2.42-3.
Ricardo Wurmus [Sat, 21 Apr 2018 06:28:22 +0000 (08:28 +0200)]
gnu: r-survival: Update to 2.42-3.

* gnu/packages/statistics.scm (r-survival): Update to 2.42-3.

6 years agognu: r-nlme: Update to 3.1-137.
Ricardo Wurmus [Sat, 21 Apr 2018 06:28:11 +0000 (08:28 +0200)]
gnu: r-nlme: Update to 3.1-137.

* gnu/packages/statistics.scm (r-nlme): Update to 3.1-137.

6 years agognu: r-cluster: Update to 2.0.7-1.
Ricardo Wurmus [Sat, 21 Apr 2018 06:28:00 +0000 (08:28 +0200)]
gnu: r-cluster: Update to 2.0.7-1.

* gnu/packages/statistics.scm (r-cluster): Update to 2.0.7-1.

6 years agognu: r-minimal: Update to 3.4.4.
Ricardo Wurmus [Sat, 21 Apr 2018 06:27:43 +0000 (08:27 +0200)]
gnu: r-minimal: Update to 3.4.4.

* gnu/packages/statistics.scm (r-minimal): Update to 3.4.4.

6 years agognu: spindle: Limit supported systems.
Efraim Flashner [Sat, 21 Apr 2018 20:22:43 +0000 (23:22 +0300)]
gnu: spindle: Limit supported systems.

* gnu/packages/admin.scm (spindle)[supported-system]: New field.

6 years agognu: freefall: Fix compilation error.
Efraim Flashner [Sat, 21 Apr 2018 20:04:11 +0000 (23:04 +0300)]
gnu: freefall: Fix compilation error.

* gnu/packages/linux.scm (freefall)[arguments]: Add make-flag to set
CC=gcc.

6 years agognu: python-onetimepass: Make python-six a propagated input.
Tomáš Čech [Sat, 21 Apr 2018 15:37:12 +0000 (17:37 +0200)]
gnu: python-onetimepass: Make python-six a propagated input.

* gnu/packages/python.scm (python-onetimepass)[inputs]: Move python-six from
here...
[propagated-inputs]: ...to here.

6 years agognu: go-github-com-vitrun-qart-qr: Remove duplicate 'description' field.
Mark H Weaver [Sat, 21 Apr 2018 09:22:00 +0000 (05:22 -0400)]
gnu: go-github-com-vitrun-qart-qr: Remove duplicate 'description' field.

* gnu/packages/syncthing.scm (go-github-com-vitrun-qart-qr)[description]:
Remove duplicate 'description' field.

6 years agognu: uget: Remove duplicate 'native-inputs' field.
Mark H Weaver [Sat, 21 Apr 2018 09:20:24 +0000 (05:20 -0400)]
gnu: uget: Remove duplicate 'native-inputs' field.

* gnu/packages/bittorrent.scm (uget)[native-inputs]: Remove duplicate
field initializer.

6 years agognu: linux-libre@4.9: Update to 4.9.95.
Mark H Weaver [Sat, 21 Apr 2018 07:02:57 +0000 (03:02 -0400)]
gnu: linux-libre@4.9: Update to 4.9.95.

* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.95.

6 years agognu: Add osc.
Tomáš Čech [Tue, 17 Apr 2018 20:26:35 +0000 (22:26 +0200)]
gnu: Add osc.

 * gnu/packages/build-tools.scm (osc): New variable.

6 years agognu: Add python-m2crypto, python2-m2crypto.
Tomáš Čech [Tue, 17 Apr 2018 19:57:35 +0000 (21:57 +0200)]
gnu: Add python-m2crypto, python2-m2crypto.

* gnu/packages/python-crypto.scm (python-m2crypto): New variable.
(python2-m2crypto): New variable.

6 years agognu: Add python2-urlgrabber.
Tomáš Čech [Tue, 17 Apr 2018 19:28:23 +0000 (21:28 +0200)]
gnu: Add python2-urlgrabber.

* gnu/packages/python-web (python2-urlgrabber): New variable.

6 years agognu: Add python-onetimepass.
Tomáš Čech [Mon, 16 Apr 2018 09:04:19 +0000 (11:04 +0200)]
gnu: Add python-onetimepass.

* gnu/packages/python.scm (python-onetimepass): New variable.

6 years agognu: perl: Hack the replacement perl to think it is version 5.26.1.
Mark H Weaver [Sat, 21 Apr 2018 05:08:56 +0000 (01:08 -0400)]
gnu: perl: Hack the replacement perl to think it is version 5.26.1.

Fixes <https://bugs.gnu.org/31216>.

This is a followup to commits 217b8c2e061a5b637e198f1ed9960d4abe2b0a46,
44b98b00026e62766620dbc4330a305282d61069, and
35fbe194c3da264859a5addc661b9fbc2dc8ecc7.

Complications arise when grafting perl unless the version of the replacement
perl matches that of the original.  So, here we add 'perl/fixed', which is
built from the perl-5.26.2 source but hacked to believe it is version 5.26.1.

* gnu/packages/perl.scm (perl)[replacement]: Use perl/fixed, not perl-5.26.2.
(perl-5.26.2): Remove compatibility symlinks.
(perl/fixed): New variable.

6 years agognu: perl: Add more compatibility symlinks to the replacement perl.
Mark H Weaver [Sat, 21 Apr 2018 03:24:37 +0000 (23:24 -0400)]
gnu: perl: Add more compatibility symlinks to the replacement perl.

Fixes <https://bugs.gnu.org/31216>.
Reported by Julien Lepiller <julien@lepiller.eu>.

* gnu/packages/perl.scm (perl-5.26.2)[arguments]: Rename the
'workaround-grafting-version-bug' phase to 'install-compatibility-symlinks'.
Install symlinks in $out/lib/perl5/site_perl/5.26.1 and $out/bin/perl5.26.1,
in addition to $out/lib/perl5/5.26.1.  Simplify the code a bit.

6 years agognu: emacs-org, emacs-org-contrib: Update version.
Nicolas Goaziou [Fri, 20 Apr 2018 10:31:28 +0000 (12:31 +0200)]
gnu: emacs-org, emacs-org-contrib: Update version.

* gnu/packages/emacs.scm (emacs-org): Update to 9.1.10.
(emacs-org-contrib): Update to 20180416.