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44886 Commits

Author SHA1 Message Date
Julien Lepiller 27489e7f73
gnu: php: Update to 7.3.6. 
* gnu/packages/php.scm (php): Update to 7.3.6.
 2019-05-31 14:41:32 +02:00
Ricardo Wurmus 1a24f855c8
gnu: Add r-birta. 
* gnu/packages/bioconductor.scm (r-birta): New variable.
 2019-05-31 14:40:29 +02:00
Ricardo Wurmus 81e3de01ae
gnu: Add r-birewire. 
* gnu/packages/bioconductor.scm (r-birewire): New variable.
 2019-05-31 14:40:20 +02:00
Ricardo Wurmus 95bf71c307
gnu: r-seriation: Update to 1.2-5. 
* gnu/packages/cran.scm (r-seriation): Update to 1.2-5.
 2019-05-31 14:29:32 +02:00
Brian Leung 2e62ba46e2
gnu: emacs-diff-hl: Update to 1.8.6. 
* gnu/packages/emacs-xyz.scm (emacs-diff-hl): Update to 1.8.6.
[source]: Fetch from git.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-05-31 10:21:06 +02:00
Brian Leung 66712cc0ed
gnu: emacs-helm: Update to 3.2. 
* gnu/packages/emacs-xyz.scm (emacs-helm): Update to 3.2.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-05-31 10:20:20 +02:00
Brian Leung f42399b5e5
gnu: emacs-counsel-tramp: Update to 0.6.3. 
* gnu/packages/emacs-xyz.scm (emacs-counsel-tramp): Update to 0.6.3.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-05-31 10:19:53 +02:00
Brian Leung ea82e3b266
gnu: emacs-editorconfig: Update to 0.8.0. 
* gnu/packages/emacs-xyz.scm (emacs-editorconfig): Update to 0.8.0.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-05-31 10:19:18 +02:00
Brian Leung 265ee14650
gnu: emacs-exec-path-from-shell: Update to 1.12. 
* gnu/packages/emacs-xyz.scm (emacs-exec-path-from-shell): Update to 1.12.
[source]: Use git-fetch.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-05-31 10:18:29 +02:00
LaFreniere, Joseph 8ae48674ce
gnu: Add emacs-reformatter. 
* gnu/packages/emacs-xyz.scm (emacs-reformatter): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-05-31 10:15:52 +02:00
Joseph LaFreniere b0eaead510
gnu: Add emacs-ivy-pass. 
* gnu/packages/emacs-xyz.scm (emacs-ivy-pass): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-05-31 09:56:17 +02:00
Rutger Helling e637744547
gnu: kitty: Update to 0.14.1. 
* gnu/packages/terminals.scm (kitty): Update to 0.14.1.
 2019-05-31 08:33:19 +02:00
Vagrant Cascadian ff793da669
gnu: diffoscope: Update to version 115-1.7f3416f. 
* gnu/packages/package-management (diffoscope):
  [package] Update to version 115-1.7f3416f.
  [source] Switch to using git-fetch.
  [inputs] Move python-pytest and python-chardet ...
  [native-inputs] ... to here.
  [arguments] Move comment to fit line length.
 2019-05-30 16:04:30 -07:00
Ricardo Wurmus add5ecfd68
gnu: r-biocviews: Update to 1.52.1. 
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.52.1.
 2019-05-30 13:41:10 +02:00
Ricardo Wurmus 782a7f4655
gnu: r-tibble: Update to 2.1.2. 
* gnu/packages/statistics.scm (r-tibble): Update to 2.1.2.
 2019-05-30 13:41:04 +02:00
Ricardo Wurmus d1ee1540d4
gnu: r-dose: Update to 3.10.1. 
* gnu/packages/bioconductor.scm (r-dose): Update to 3.10.1.
 2019-05-30 13:40:48 +02:00
Andy Tai 169d63f533
gnu: Add gthumb. 
* gnu/packages/gnome.scm (gthumb): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2019-05-30 11:50:05 +02:00
Reza Alizadeh Majd dc37301330
gnu: sddm: Add QtQuick-related dependencies to sddm. 
* gnu/packages/display-managers.scm (sddm): add QtQuick related
dependencies to sddm package in order to `sddm-greeter` application
to load user defined themes which are based on QtQuick.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-05-29 23:16:49 +02:00
Ludovic Courtès 73bddab545
publish: Factorize 'compress-nar'. 
* guix/scripts/publish.scm (compress-nar): New procedure.
(bake-narinfo+nar): Use it.
 2019-05-29 23:16:49 +02:00
Ludovic Courtès e84e036943
publish: Remove outdated comment. 
* guix/scripts/publish.scm (make-request-handler): Remove outdated TODO.
 2019-05-29 23:16:49 +02:00
Ricardo Wurmus 4c8603e808
gnu: r-statmod: Update to 1.4.32. 
* gnu/packages/statistics.scm (r-statmod): Update to 1.4.32.
 2019-05-29 22:38:05 +02:00
Ricardo Wurmus 765d327c85
gnu: r-fields: Update to 9.8-3. 
* gnu/packages/cran.scm (r-fields): Update to 9.8-3.
 2019-05-29 22:38:05 +02:00
Ricardo Wurmus a1ac29f80d
gnu: r-bayestestr: Update to 0.2.0. 
* gnu/packages/cran.scm (r-bayestestr): Update to 0.2.0.
 2019-05-29 22:38:05 +02:00
Carl Dong a15cee50ce
gnu: Use make-linux-libre-headers. 
* gnu/packages/linux.scm (make-linux-libre-headers): New variable.
(linux-libre): Rename to...
(linux-libre-5.1): ...this.
(linux-libre-headers): Rename to...
(linux-libre-headers-4.14.67): ...this.
(linux-libre-5.1, linux-libre-headers-4.14.67): Use make-linux-libre-headers.
(linux-libre-5.1, linux-libre-headers-5.1, linux-libre-headers-4.19,
%linux-libre-4.15-version, %linux-libre-4.15-hash, linux-libre-4.15,
linux-libre-headers-4.15, linux-libre-headers-4.14): New variables.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-29 18:19:16 +02:00
Carl Dong 2ea77d48a7
gnu: cross-base: Allow non-default linux-headers. 
* gnu/packages/cross-base.scm (cross-kernel-headers): Add
LINUX-HEADERS optional argument.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-29 15:44:54 +02:00
Carl Dong 7180dd6716
gnu: Add basic support for riscv64-linux-gnu targets. 
* gnu/packages/bootstrap.scm (glibc-dynamic-linker): Add
"riscv64-linux".
* gnu/packages/linux.scm (system->linux-architecture): Add "riscv"
prefix.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-29 15:40:31 +02:00
Nicolas Goaziou 4f963be052
gnu: Add childsplay. 
* gnu/packages/education.scm (childsplay): New variable.
 2019-05-29 13:09:53 +02:00
Mathieu Othacehe 694cb8dc62
installer: Fix wifi menu crash with hidden SSIDs. 
This fixes https://issues.guix.gnu.org/issue/35622.

* gnu/installer/connman.scm (<service>): Mention that name may be false.
* gnu/installer/newt/wifi.scm (wifi-services): Filter out wifi services
without name.

Co-authored by: Pierre Neidhardt <mail@ambrevar.xyz>
 2019-05-29 11:44:49 +02:00
Ricardo Wurmus 4b92dac20f
gnu: awscli: Add missing input. 
Fixes <https://bugs.gnu.org/35980>.

* gnu/packages/python-web.scm (awscli)[arguments]: Add build phase
"fix-reference-to-groff".
[inputs]: Add groff.
 2019-05-29 10:56:28 +02:00
Ricardo Wurmus d37ba98409
gnu: r-scran: Update to 1.12.1. 
* gnu/packages/bioinformatics.scm (r-scran): Update to 1.12.1.
 2019-05-29 00:02:42 +02:00
Ricardo Wurmus 55cd48508e
gnu: r-scater: Update to 1.12.2. 
* gnu/packages/bioinformatics.scm (r-scater): Update to 1.12.2.
 2019-05-29 00:02:37 +02:00
Ricardo Wurmus 102cf9a1ca
gnu: r-sva: Update to 3.32.1. 
* gnu/packages/bioinformatics.scm (r-sva): Update to 3.32.1.
 2019-05-29 00:02:31 +02:00
Ricardo Wurmus 24f46e6e9e
gnu: r-genomicfeatures: Update to 1.36.1. 
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.36.1.
 2019-05-29 00:02:25 +02:00
Ricardo Wurmus 4eea449aaa
gnu: r-edger: Update to 3.26.4. 
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.26.4.
 2019-05-29 00:02:17 +02:00
Ricardo Wurmus 4929a30f69
gnu: r-variantannotation: Update to 1.30.1. 
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.30.1.
 2019-05-29 00:02:10 +02:00
Ricardo Wurmus 531940d388
import: cran: Ignore invalid packages from the system requirements. 
* guix/import/cran.scm (description->package): Filter invalid packages from
the list of system requirements.
 2019-05-28 23:56:59 +02:00
Ricardo Wurmus e4519ee73d
gnu: r-atacseqqc: Update to 1.8.1. 
* gnu/packages/bioconductor.scm (r-atacseqqc): Update to 1.8.1.
 2019-05-28 23:56:36 +02:00
Ricardo Wurmus 13b49976b7
gnu: r-icobra: Update to 1.12.1. 
* gnu/packages/bioconductor.scm (r-icobra): Update to 1.12.1.
 2019-05-28 23:56:31 +02:00
Ricardo Wurmus 85d0bd5340
gnu: r-chippeakanno: Update to 3.18.1. 
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.18.1.
 2019-05-28 23:56:27 +02:00
Ricardo Wurmus f43ec9e96a
gnu: r-geosphere: Update to 1.5-10. 
* gnu/packages/cran.scm (r-geosphere): Update to 1.5-10.
 2019-05-28 23:56:15 +02:00
Ricardo Wurmus 0fe52daa59
gnu: r-ggfortify: Update to 0.4.7. 
* gnu/packages/cran.scm (r-ggfortify): Update to 0.4.7.
 2019-05-28 23:56:08 +02:00
Ricardo Wurmus 7a8577717f
gnu: r-wgcna: Update to 1.68. 
* gnu/packages/cran.scm (r-wgcna): Update to 1.68.
 2019-05-28 23:56:04 +02:00
Ricardo Wurmus 650e8defa0
gnu: r-bookdown: Update to 0.11. 
* gnu/packages/cran.scm (r-bookdown): Update to 0.11.
[propagated-inputs]: Add ghc-pandoc; remove r-yaml.
 2019-05-28 23:55:44 +02:00
Ricardo Wurmus 20656a0202
gnu: r-upsetr: Update to 1.4.0. 
* gnu/packages/cran.scm (r-upsetr): Update to 1.4.0.
 2019-05-28 23:55:38 +02:00
Ricardo Wurmus 41059f63df
gnu: r-epi: Update to 2.37. 
* gnu/packages/cran.scm (r-epi): Update to 2.37.
 2019-05-28 23:55:33 +02:00
Ricardo Wurmus 9a749cad19
gnu: r-etm: Update to 1.0.5. 
* gnu/packages/cran.scm (r-etm): Update to 1.0.5.
 2019-05-28 23:55:27 +02:00
Ricardo Wurmus 10dbc3fc54
gnu: r-cmprsk: Update to 2.2-8. 
* gnu/packages/cran.scm (r-cmprsk): Update to 2.2-8.
 2019-05-28 23:55:21 +02:00
Ricardo Wurmus fa10f0d330
gnu: r-ks: Update to 1.11.5. 
* gnu/packages/cran.scm (r-ks): Update to 1.11.5.
 2019-05-28 23:55:14 +02:00
Ricardo Wurmus 1d7bde781f
gnu: r-bayesplot: Update to 1.7.0. 
* gnu/packages/cran.scm (r-bayesplot): Update to 1.7.0.
[propagated-inputs]: Add r-glue, r-tibble, and r-tidyselect.
 2019-05-28 23:54:53 +02:00
Ricardo Wurmus 27abdb11ae
gnu: r-refgenome: Update to 1.7.7. 
* gnu/packages/cran.scm (r-refgenome): Update to 1.7.7.
 2019-05-28 23:54:46 +02:00