jackhill/guix/guix.git
6 years agognu: ghc: Make memory allocator decommit memory on Linux < 4.5.
Danny Milosavljevic [Thu, 15 Feb 2018 16:19:28 +0000 (17:19 +0100)]
gnu: ghc: Make memory allocator decommit memory on Linux < 4.5.

* gnu/packages/patches/ghc-8.0-fall-back-to-madv_dontneed.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/haskell.scm (ghc-8): Use it.

6 years agognu: java-jeromq: Update to 0.4.3.
Ricardo Wurmus [Thu, 15 Feb 2018 13:57:13 +0000 (14:57 +0100)]
gnu: java-jeromq: Update to 0.4.3.

* gnu/packages/java.scm (java-jeromq): Update to 0.4.3.
[arguments]: Disable DealerSpecTest.

6 years agognu: java-testng: Update to 6.14.2.
Ricardo Wurmus [Thu, 15 Feb 2018 13:41:44 +0000 (14:41 +0100)]
gnu: java-testng: Update to 6.14.2.

* gnu/packages/java.scm (java-testng): Update to 6.14.2.
[arguments]: Delete failing tests and those requiring groovy.
[native-inputs]: Add java-mockito-1.

6 years agognu: Add python-loompy.
Ricardo Wurmus [Wed, 14 Feb 2018 13:28:00 +0000 (14:28 +0100)]
gnu: Add python-loompy.

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

6 years agognu: Add r-dropbead.
Ricardo Wurmus [Wed, 14 Feb 2018 13:27:50 +0000 (14:27 +0100)]
gnu: Add r-dropbead.

* gnu/packages/bioinformatics.scm (r-dropbead): New variable.

6 years agognu: Add r-delayedmatrixstats.
Ricardo Wurmus [Wed, 14 Feb 2018 13:27:43 +0000 (14:27 +0100)]
gnu: Add r-delayedmatrixstats.

* gnu/packages/bioinformatics.scm (r-delayedmatrixstats): New variable.

6 years agognu: Add python-typing.
Ricardo Wurmus [Wed, 14 Feb 2018 13:27:26 +0000 (14:27 +0100)]
gnu: Add python-typing.

* gnu/packages/python.scm (python-typing, python2-typing): New variables.

6 years agognu: Add python-future-fstrings.
Ricardo Wurmus [Wed, 14 Feb 2018 13:27:16 +0000 (14:27 +0100)]
gnu: Add python-future-fstrings.

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

6 years agognu: Add python-tokenize-rt.
Ricardo Wurmus [Wed, 14 Feb 2018 13:26:54 +0000 (14:26 +0100)]
gnu: Add python-tokenize-rt.

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

6 years agognu: augeas: Update to 1.10.1.
Ricardo Wurmus [Sat, 10 Feb 2018 22:58:10 +0000 (23:58 +0100)]
gnu: augeas: Update to 1.10.1.

* gnu/packages/augeas.scm (augeas): Update to 1.10.1.

6 years agognu: magit: Do not set 'magit-git-executable' to absolute file name.
Mark H Weaver [Wed, 14 Feb 2018 08:25:38 +0000 (03:25 -0500)]
gnu: magit: Do not set 'magit-git-executable' to absolute file name.

Fixes <https://bugs.gnu.org/30434>.
Reported by Ricardo Wurmus <rekado@elephly.net>.

* gnu/packages/emacs.scm (magit)[arguments]: Do not modify the default value
of 'magit-git-executable'.  Remove "#:modules" and "#:imported-modules".

6 years agognu: shepherd: 'herd status' now sorts the result.
Mark H Weaver [Wed, 14 Feb 2018 07:06:21 +0000 (02:06 -0500)]
gnu: shepherd: 'herd status' now sorts the result.

Add a patch by Ludovic Courtès <ludo@gnu.org> from the upstream
shepherd repository to partially fix <https://bugs.gnu.org/30299>.

* gnu/packages/patches/shepherd-herd-status-sorted.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/admin.scm (shepherd)[source]: Add patch.

6 years agoMerge branch 'master' into core-updates
Mark H Weaver [Wed, 14 Feb 2018 08:40:08 +0000 (03:40 -0500)]
Merge branch 'master' into core-updates

6 years agodoc: Mention starting GNOME on Wayland manually.
Rutger Helling [Wed, 14 Feb 2018 07:45:52 +0000 (08:45 +0100)]
doc: Mention starting GNOME on Wayland manually.

* doc/guix.texi (Desktop Services): Mention starting GNOME on Wayland manually.

6 years agognu: mpv: Enable Vulkan support.
Rutger Helling [Wed, 14 Feb 2018 07:13:17 +0000 (08:13 +0100)]
gnu: mpv: Enable Vulkan support.

* gnu/packages/video.scm (mpv)[inputs]: Add shaderc and vulkan-icd-loader.

6 years agognu: Add shaderc.
Rutger Helling [Wed, 31 Jan 2018 14:26:18 +0000 (15:26 +0100)]
gnu: Add shaderc.

* gnu/packages/vulkan.scm (shaderc): New variable.

6 years agognu: icecat: Add more fixes from upstream mozilla-esr52.
Mark H Weaver [Tue, 13 Feb 2018 20:33:07 +0000 (15:33 -0500)]
gnu: icecat: Add more fixes from upstream mozilla-esr52.

* gnu/packages/gnuzilla.scm (icecat)[source]: Add selected fixes from the
upstream mozilla-esr52 repository.

6 years agognu: freeipmi: Update to 1.6.1.
Marius Bakke [Tue, 13 Feb 2018 22:52:39 +0000 (23:52 +0100)]
gnu: freeipmi: Update to 1.6.1.

* gnu/packages/freeipmi.scm (freeipmi): Update to 1.6.1.

6 years agosystem: make-u-boot-package: Install configuration file.
Danny Milosavljevic [Tue, 13 Feb 2018 21:35:41 +0000 (22:35 +0100)]
system: make-u-boot-package: Install configuration file.

* gnu/packages/bootloaders.scm (make-u-boot-package): Install configuration
file.

6 years agognu: efivar: Update to 34.
Marius Bakke [Tue, 13 Feb 2018 21:35:21 +0000 (22:35 +0100)]
gnu: efivar: Update to 34.

* gnu/packages/linux.scm (efivar): Update to 34.
[arguments]: Add CC_FOR_BUILD=gcc to #:make-flags.

6 years agognu: feh: Update to 2.23.2.
Marius Bakke [Tue, 13 Feb 2018 21:32:14 +0000 (22:32 +0100)]
gnu: feh: Update to 2.23.2.

* gnu/packages/image-viewers.scm (feh): Update to 2.23.2.

6 years agognu: vsearch: Update to 2.7.0.
Ben Woodcroft [Tue, 13 Feb 2018 21:43:19 +0000 (07:43 +1000)]
gnu: vsearch: Update to 2.7.0.

* gnu/packages/bioinformatics.scm (vsearch): Update to 2.7.0.

6 years agognu: libdvdnav@4: Remove variable.
Efraim Flashner [Tue, 13 Feb 2018 20:48:46 +0000 (22:48 +0200)]
gnu: libdvdnav@4: Remove variable.

* gnu/packages/video.scm (libdvdnav@4): Remove variable.

6 years agognu: libdvdnav: Update to 6.0.0.
Efraim Flashner [Tue, 13 Feb 2018 20:44:06 +0000 (22:44 +0200)]
gnu: libdvdnav: Update to 6.0.0.

* gnu/packages/video.scm (libdvdnav): Update to 6.0.0.

6 years agognu: libdvdread: Update to 6.0.0.
Efraim Flashner [Tue, 13 Feb 2018 20:41:02 +0000 (22:41 +0200)]
gnu: libdvdread: Update to 6.0.0.

* gnu/packages/video.scm (libdvdread): Update to 6.0.0.

6 years ago.gitignore: Add guix-daemon SELinux policy.
Efraim Flashner [Tue, 13 Feb 2018 20:13:03 +0000 (22:13 +0200)]
.gitignore: Add guix-daemon SELinux policy.

* .gitignore: Add etc/guix-daemon.cil

6 years agognu: x265: Update to 2.6.
Efraim Flashner [Tue, 13 Feb 2018 20:07:10 +0000 (22:07 +0200)]
gnu: x265: Update to 2.6.

* gnu/packages/video.scm (x265): Update to 2.6.

6 years agognu: ffmpeg: Update to 3.4.2.
Efraim Flashner [Tue, 13 Feb 2018 19:48:14 +0000 (21:48 +0200)]
gnu: ffmpeg: Update to 3.4.2.

* gnu/packages/video.scm (ffmpeg): Update to 3.4.2.

6 years agognu: python-icalendar: Update to 4.0.1.
Leo Famulari [Tue, 13 Feb 2018 19:30:44 +0000 (14:30 -0500)]
gnu: python-icalendar: Update to 4.0.1.

* gnu/packages/python.scm (python-icalendar): Update to 4.0.1.

6 years agoMerge branch 'master' into core-updates
Mark H Weaver [Tue, 13 Feb 2018 18:17:15 +0000 (13:17 -0500)]
Merge branch 'master' into core-updates

6 years agognu: linux-libre: Update to 4.15.3.
Mark H Weaver [Tue, 13 Feb 2018 18:08:30 +0000 (13:08 -0500)]
gnu: linux-libre: Update to 4.15.3.

* gnu/packages/linux.scm (%linux-libre-version): Update to 4.15.3.
(%linux-libre-hash): Update hash.

6 years agognu: linux-libre@4.14: Update to 4.14.19.
Mark H Weaver [Tue, 13 Feb 2018 18:07:24 +0000 (13:07 -0500)]
gnu: linux-libre@4.14: Update to 4.14.19.

* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.19.
(%linux-libre-4.14-hash): Update hash.

6 years agognu: linux-libre@4.9: Update to 4.9.81.
Mark H Weaver [Tue, 13 Feb 2018 18:06:28 +0000 (13:06 -0500)]
gnu: linux-libre@4.9: Update to 4.9.81.

* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.81.

6 years agognu: r-htmltable: Update to 1.11.2.
Ricardo Wurmus [Tue, 13 Feb 2018 15:14:52 +0000 (16:14 +0100)]
gnu: r-htmltable: Update to 1.11.2.

* gnu/packages/web.scm (r-htmltable): Update to 1.11.2.
[propagated-inputs]: Remove r-dplyr and r-tidyr.

6 years agognu: r-htmlwidgets: Update to 1.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:14:33 +0000 (16:14 +0100)]
gnu: r-htmlwidgets: Update to 1.0.

* gnu/packages/web.scm (r-htmlwidgets): Update to 1.0.

6 years agognu: r-lubridate: Update to 1.7.2.
Ricardo Wurmus [Tue, 13 Feb 2018 15:14:17 +0000 (16:14 +0100)]
gnu: r-lubridate: Update to 1.7.2.

* gnu/packages/statistics.scm (r-lubridate): Update to 1.7.2.

6 years agognu: r-ranger: Update to 0.9.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:14:04 +0000 (16:14 +0100)]
gnu: r-ranger: Update to 0.9.0.

* gnu/packages/statistics.scm (r-ranger): Update to 0.9.0.

6 years agognu: r-lme4: Update to 1.1-15.
Ricardo Wurmus [Tue, 13 Feb 2018 15:13:41 +0000 (16:13 +0100)]
gnu: r-lme4: Update to 1.1-15.

* gnu/packages/statistics.scm (r-lme4): Update to 1.1-15.

6 years agognu: r-quantreg: Update to 5.35.
Ricardo Wurmus [Tue, 13 Feb 2018 15:13:21 +0000 (16:13 +0100)]
gnu: r-quantreg: Update to 5.35.

* gnu/packages/statistics.scm (r-quantreg): Update to 5.35.

6 years agognu: r-rcppeigen: Update to 0.3.3.4.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:13:06 +0000 (16:13 +0100)]
gnu: r-rcppeigen: Update to 0.3.3.4.0.

* gnu/packages/statistics.scm (r-rcppeigen): Update to 0.3.3.4.0.

6 years agognu: r-pbapply: Update to 1.3-4.
Ricardo Wurmus [Tue, 13 Feb 2018 15:12:49 +0000 (16:12 +0100)]
gnu: r-pbapply: Update to 1.3-4.

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

6 years agognu: r-vgam: Update to 1.0-5.
Ricardo Wurmus [Tue, 13 Feb 2018 15:12:33 +0000 (16:12 +0100)]
gnu: r-vgam: Update to 1.0-5.

* gnu/packages/statistics.scm (r-vgam): Update to 1.0-5.

6 years agognu: r-fpc: Update to 2.1-11.
Ricardo Wurmus [Tue, 13 Feb 2018 15:12:14 +0000 (16:12 +0100)]
gnu: r-fpc: Update to 2.1-11.

* gnu/packages/statistics.scm (r-fpc): Update to 2.1-11.

6 years agognu: r-pcapp: Update to 1.9-73.
Ricardo Wurmus [Tue, 13 Feb 2018 15:12:00 +0000 (16:12 +0100)]
gnu: r-pcapp: Update to 1.9-73.

* gnu/packages/statistics.scm (r-pcapp): Update to 1.9-73.

6 years agognu: r-zoo: Update to 1.8-1.
Ricardo Wurmus [Tue, 13 Feb 2018 15:11:46 +0000 (16:11 +0100)]
gnu: r-zoo: Update to 1.8-1.

* gnu/packages/statistics.scm (r-zoo): Update to 1.8-1.

6 years agognu: r-hmisc: Update to 4.1-1.
Ricardo Wurmus [Tue, 13 Feb 2018 15:11:33 +0000 (16:11 +0100)]
gnu: r-hmisc: Update to 4.1-1.

* gnu/packages/statistics.scm (r-hmisc): Update to 4.1-1.

6 years agognu: r-tidyr: Update to 0.8.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:11:20 +0000 (16:11 +0100)]
gnu: r-tidyr: Update to 0.8.0.

* gnu/packages/statistics.scm (r-tidyr): Update to 0.8.0.

6 years agognu: r-viridislite: Update to 0.3.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:11:06 +0000 (16:11 +0100)]
gnu: r-viridislite: Update to 0.3.0.

* gnu/packages/statistics.scm (r-viridislite): Update to 0.3.0.

6 years agognu: r-viridis: Update to 0.5.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:10:52 +0000 (16:10 +0100)]
gnu: r-viridis: Update to 0.5.0.

* gnu/packages/statistics.scm (r-viridis): Update to 0.5.0.

6 years agognu: r-matrixstats: Update to 0.53.1.
Ricardo Wurmus [Tue, 13 Feb 2018 15:10:38 +0000 (16:10 +0100)]
gnu: r-matrixstats: Update to 0.53.1.

* gnu/packages/statistics.scm (r-matrixstats): Update to 0.53.1.

6 years agognu: r-mvtnorm: Update to 1.0-7.
Ricardo Wurmus [Tue, 13 Feb 2018 15:10:23 +0000 (16:10 +0100)]
gnu: r-mvtnorm: Update to 1.0-7.

* gnu/packages/statistics.scm (r-mvtnorm): Update to 1.0-7.

6 years agognu: r-r-rsp: Update to 0.42.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:09:58 +0000 (16:09 +0100)]
gnu: r-r-rsp: Update to 0.42.0.

* gnu/packages/statistics.scm (r-r-rsp): Update to 0.42.0.
[propagated-inputs]: Add r-digest.

6 years agognu: r-r-cache: Update to 0.13.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:09:35 +0000 (16:09 +0100)]
gnu: r-r-cache: Update to 0.13.0.

* gnu/packages/statistics.scm (r-r-cache): Update to 0.13.0.

6 years agognu: r-bigmemory: Update to 4.5.33.
Ricardo Wurmus [Tue, 13 Feb 2018 15:09:20 +0000 (16:09 +0100)]
gnu: r-bigmemory: Update to 4.5.33.

* gnu/packages/statistics.scm (r-bigmemory): Update to 4.5.33.

6 years agognu: r-synchronicity: Update to 1.3.2.
Ricardo Wurmus [Tue, 13 Feb 2018 15:09:01 +0000 (16:09 +0100)]
gnu: r-synchronicity: Update to 1.3.2.

* gnu/packages/statistics.scm (r-synchronicity): Update to 1.3.2.
[propagated-inputs]: Add r-uuid.

6 years agognu: r-irlba: Update to 2.3.2.
Ricardo Wurmus [Tue, 13 Feb 2018 15:08:43 +0000 (16:08 +0100)]
gnu: r-irlba: Update to 2.3.2.

* gnu/packages/statistics.scm (r-irlba): Update to 2.3.2.

6 years agognu: r-dt: Update to 0.4.
Ricardo Wurmus [Tue, 13 Feb 2018 15:08:21 +0000 (16:08 +0100)]
gnu: r-dt: Update to 0.4.

* gnu/packages/statistics.scm (r-dt): Update to 0.4.
[propagated-inputs]: Add r-crosstalk.

6 years agognu: r-rprojroot: Update to 1.3-2.
Ricardo Wurmus [Tue, 13 Feb 2018 15:08:06 +0000 (16:08 +0100)]
gnu: r-rprojroot: Update to 1.3-2.

* gnu/packages/statistics.scm (r-rprojroot): Update to 1.3-2.

6 years agognu: r-hms: Update to 0.4.1.
Ricardo Wurmus [Tue, 13 Feb 2018 15:07:52 +0000 (16:07 +0100)]
gnu: r-hms: Update to 0.4.1.

* gnu/packages/statistics.scm (r-hms): Update to 0.4.1.

6 years agognu: r-withr: Update to 2.1.1.
Ricardo Wurmus [Tue, 13 Feb 2018 15:07:34 +0000 (16:07 +0100)]
gnu: r-withr: Update to 2.1.1.

* gnu/packages/statistics.scm (r-withr): Update to 2.1.1.
[propagated-inputs]: Remove r-lattice.

6 years agognu: r-git2r: Update to 0.21.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:07:17 +0000 (16:07 +0100)]
gnu: r-git2r: Update to 0.21.0.

* gnu/packages/statistics.scm (r-git2r): Update to 0.21.0.

6 years agognu: r-openssl: Update to 1.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:07:03 +0000 (16:07 +0100)]
gnu: r-openssl: Update to 1.0.

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

6 years agognu: r-xml2: Update to 1.2.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:06:29 +0000 (16:06 +0100)]
gnu: r-xml2: Update to 1.2.0.

* gnu/packages/statistics.scm (r-xml2): Update to 1.2.0.
[native-inputs]: Add pkg-config.
[propagated-inputs]: Remove r-bh.
[inputs]: Add zlib.

6 years agognu: r-chron: Update to 2.3-52.
Ricardo Wurmus [Tue, 13 Feb 2018 15:06:12 +0000 (16:06 +0100)]
gnu: r-chron: Update to 2.3-52.

* gnu/packages/statistics.scm (r-chron): Update to 2.3-52.

6 years agognu: r-dbplyr: Update to 1.2.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:05:47 +0000 (16:05 +0100)]
gnu: r-dbplyr: Update to 1.2.0.

* gnu/packages/statistics.scm (r-dbplyr): Update to 1.2.0.
[propagated-inputs]: Add r-tidyselect.

6 years agognu: r-tibble: Update to 1.4.2.
Ricardo Wurmus [Tue, 13 Feb 2018 15:04:57 +0000 (16:04 +0100)]
gnu: r-tibble: Update to 1.4.2.

* gnu/packages/statistics.scm (r-tibble): Update to 1.4.2.
[propagated-inputs]: Add r-cli, r-crayon, and r-pillar; remove r-rcpp.

6 years agognu: r-rlang: Update to 0.1.6.
Ricardo Wurmus [Tue, 13 Feb 2018 15:04:38 +0000 (16:04 +0100)]
gnu: r-rlang: Update to 0.1.6.

* gnu/packages/statistics.scm (r-rlang): Update to 0.1.6.

6 years agognu: r-microbenchmark: Update to 1.4-4.
Ricardo Wurmus [Tue, 13 Feb 2018 15:04:15 +0000 (16:04 +0100)]
gnu: r-microbenchmark: Update to 1.4-4.

* gnu/packages/statistics.scm (r-microbenchmark): Update to 1.4-4.
[propagated-inputs]: Remove r-ggplot2.

6 years agognu: r-knitr: Update to 1.19.
Ricardo Wurmus [Tue, 13 Feb 2018 15:03:54 +0000 (16:03 +0100)]
gnu: r-knitr: Update to 1.19.

* gnu/packages/statistics.scm (r-knitr): Update to 1.19.
[propagated-inputs]: Remove r-digest.

6 years agognu: r-estimability: Update to 1.3.
Ricardo Wurmus [Tue, 13 Feb 2018 15:03:44 +0000 (16:03 +0100)]
gnu: r-estimability: Update to 1.3.

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

6 years agognu: r-digest: Update to 0.6.15.
Ricardo Wurmus [Tue, 13 Feb 2018 15:03:30 +0000 (16:03 +0100)]
gnu: r-digest: Update to 0.6.15.

* gnu/packages/statistics.scm (r-digest): Update to 0.6.15.

6 years agognu: r-rpart: Update to 4.1-12.
Ricardo Wurmus [Tue, 13 Feb 2018 15:03:10 +0000 (16:03 +0100)]
gnu: r-rpart: Update to 4.1-12.

* gnu/packages/statistics.scm (r-rpart): Update to 4.1-12.

6 years agognu: r-mgcv: Update to 1.8-23.
Ricardo Wurmus [Tue, 13 Feb 2018 15:02:54 +0000 (16:02 +0100)]
gnu: r-mgcv: Update to 1.8-23.

* gnu/packages/statistics.scm (r-mgcv): Update to 1.8-23.

6 years agognu: r-mass: Update to 7.3-48.
Ricardo Wurmus [Tue, 13 Feb 2018 15:02:40 +0000 (16:02 +0100)]
gnu: r-mass: Update to 7.3-48.

* gnu/packages/statistics.scm (r-mass): Update to 7.3-48.

6 years agognu: r-gprofiler: Update to 0.6.3.
Ricardo Wurmus [Tue, 13 Feb 2018 15:02:13 +0000 (16:02 +0100)]
gnu: r-gprofiler: Update to 0.6.3.

* gnu/packages/bioinformatics.scm (r-gprofiler): Update to 0.6.3.

6 years agognu: r-ensembldb: Update to 2.2.1.
Ricardo Wurmus [Tue, 13 Feb 2018 15:02:00 +0000 (16:02 +0100)]
gnu: r-ensembldb: Update to 2.2.1.

* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.2.1.

6 years agognu: r-gage: Update to 2.28.2.
Ricardo Wurmus [Tue, 13 Feb 2018 15:01:49 +0000 (16:01 +0100)]
gnu: r-gage: Update to 2.28.2.

* gnu/packages/bioinformatics.scm (r-gage): Update to 2.28.2.

6 years agognu: r-keggrest: Update to 1.18.1.
Ricardo Wurmus [Tue, 13 Feb 2018 15:01:35 +0000 (16:01 +0100)]
gnu: r-keggrest: Update to 1.18.1.

* gnu/packages/bioinformatics.scm (r-keggrest): Update to 1.18.1.

6 years agognu: r-seurat: Update to 2.2.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:00:56 +0000 (16:00 +0100)]
gnu: r-seurat: Update to 2.2.0.

* gnu/packages/bioinformatics.scm (r-seurat): Update to 2.2.0.
[propagated-inputs]: Remove r-ggjoy; add r-rcppeigen and r-ggridges.

6 years agognu: r-msnbase: Update to 2.4.2.
Ricardo Wurmus [Tue, 13 Feb 2018 15:00:32 +0000 (16:00 +0100)]
gnu: r-msnbase: Update to 2.4.2.

* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.4.2.

6 years agognu: r-methylkit: Update to 1.4.1.
Ricardo Wurmus [Tue, 13 Feb 2018 15:00:18 +0000 (16:00 +0100)]
gnu: r-methylkit: Update to 1.4.1.

* gnu/packages/bioinformatics.scm (r-methylkit): Update to 1.4.1.

6 years agognu: r-gkmsvm: Update to 0.79.0.
Ricardo Wurmus [Tue, 13 Feb 2018 15:00:03 +0000 (16:00 +0100)]
gnu: r-gkmsvm: Update to 0.79.0.

* gnu/packages/bioinformatics.scm (r-gkmsvm): Update to 0.79.0.

6 years agognu: r-wgcna: Update to 1.62.
Ricardo Wurmus [Tue, 13 Feb 2018 14:59:50 +0000 (15:59 +0100)]
gnu: r-wgcna: Update to 1.62.

* gnu/packages/bioinformatics.scm (r-wgcna): Update to 1.62.

6 years agognu: r-genomation: Update to 1.11.3.
Ricardo Wurmus [Tue, 13 Feb 2018 14:59:36 +0000 (15:59 +0100)]
gnu: r-genomation: Update to 1.11.3.

* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.11.3.

6 years agognu: r-genomicfeatures: Update to 1.30.3.
Ricardo Wurmus [Tue, 13 Feb 2018 14:59:21 +0000 (15:59 +0100)]
gnu: r-genomicfeatures: Update to 1.30.3.

* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.30.3.

6 years agognu: r-rtracklayer: Update to 1.38.3.
Ricardo Wurmus [Tue, 13 Feb 2018 14:59:01 +0000 (15:59 +0100)]
gnu: r-rtracklayer: Update to 1.38.3.

* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.38.3.

6 years agognu: r-summarizedexperiment: Update to 1.8.1.
Ricardo Wurmus [Tue, 13 Feb 2018 14:58:47 +0000 (15:58 +0100)]
gnu: r-summarizedexperiment: Update to 1.8.1.

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

6 years agognu: r-biomart: Update to 2.34.2.
Ricardo Wurmus [Tue, 13 Feb 2018 14:58:32 +0000 (15:58 +0100)]
gnu: r-biomart: Update to 2.34.2.

* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.34.2.

6 years agognu: r-genomicranges: Update to 1.30.1.
Ricardo Wurmus [Tue, 13 Feb 2018 14:58:15 +0000 (15:58 +0100)]
gnu: r-genomicranges: Update to 1.30.1.

* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.30.1.

6 years agognu: r-limma: Update to 3.34.8.
Ricardo Wurmus [Tue, 13 Feb 2018 14:55:27 +0000 (15:55 +0100)]
gnu: r-limma: Update to 3.34.8.

* gnu/packages/bioinformatics.scm (r-limma): Update to 3.34.8.

6 years agognu: r-variantannotation: Update to 1.24.5.
Ricardo Wurmus [Tue, 13 Feb 2018 14:55:12 +0000 (15:55 +0100)]
gnu: r-variantannotation: Update to 1.24.5.

* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.24.5.

6 years agognu: r-edger: Update to 3.20.8.
Ricardo Wurmus [Tue, 13 Feb 2018 14:54:51 +0000 (15:54 +0100)]
gnu: r-edger: Update to 3.20.8.

* gnu/packages/bioinformatics.scm (r-edger): Update to 3.20.8.

6 years agognu: r-bookdown: Update to 0.6.
Ricardo Wurmus [Tue, 13 Feb 2018 14:54:25 +0000 (15:54 +0100)]
gnu: r-bookdown: Update to 0.6.

* gnu/packages/bioinformatics.scm (r-bookdown): Update to 0.6.
[propagated-inputs]: Add r-xfun and ghc-pandoc.

6 years agognu: r-vegan: Update to 2.4-6.
Ricardo Wurmus [Tue, 13 Feb 2018 14:54:09 +0000 (15:54 +0100)]
gnu: r-vegan: Update to 2.4-6.

* gnu/packages/bioinformatics.scm (r-vegan): Update to 2.4-6.

6 years agognu: r-drr: Update to 0.0.3.
Ricardo Wurmus [Tue, 13 Feb 2018 14:53:44 +0000 (15:53 +0100)]
gnu: r-drr: Update to 0.0.3.

* gnu/packages/cran.scm (r-drr): Update to 0.0.3.

6 years agognu: r-lava: Update to 1.6.
Ricardo Wurmus [Tue, 13 Feb 2018 14:53:22 +0000 (15:53 +0100)]
gnu: r-lava: Update to 1.6.

* gnu/packages/cran.scm (r-lava): Update to 1.6.
[propagated-inputs]: Add r-squarem.

6 years agognu: r-sp: Update to 1.2-7.
Ricardo Wurmus [Tue, 13 Feb 2018 14:52:57 +0000 (15:52 +0100)]
gnu: r-sp: Update to 1.2-7.

* gnu/packages/cran.scm (r-sp): Update to 1.2-7.

6 years agognu: r-proxy: Update to 0.4-21.
Ricardo Wurmus [Tue, 13 Feb 2018 14:52:38 +0000 (15:52 +0100)]
gnu: r-proxy: Update to 0.4-21.

* gnu/packages/cran.scm (r-proxy): Update to 0.4-21.

6 years agognu: r-hexbin: Update to 1.27.2.
Ricardo Wurmus [Tue, 13 Feb 2018 14:38:24 +0000 (15:38 +0100)]
gnu: r-hexbin: Update to 1.27.2.

* gnu/packages/statistics.scm (r-hexbin): Update to 1.27.2.

6 years agognu: r-dendextend: Update to 1.7.0.
Ricardo Wurmus [Tue, 13 Feb 2018 14:24:45 +0000 (15:24 +0100)]
gnu: r-dendextend: Update to 1.7.0.

* gnu/packages/cran.scm (r-dendextend): Update to 1.7.0.