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Author SHA1 Message Date
Ricardo Wurmus
76c0b60821
import/cran: Export %bioconductor-version. 
* guix/import/cran.scm (%bioconductor-version): Export it.
 2019-09-16 12:26:25 +02:00
Martin Becze
ad6e168b3f
gnu: evolution: Wrap with required path variables. 
Fixes <https://debbugs.gnu.org/cgi/bugreport.cgi?bug=36896>.

* gnu/packages/gnome.scm (evolution)[arguments]: Add a ‘wrap-program’
phase.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
 2019-09-16 12:17:48 +02:00
Pierre Neidhardt
eb2e9ef4d9
gnu: Add cl-prevalence. 
* gnu/packages/lisp.scm (cl-prevalence, sbcl-cl-prevalence, ecl-cl-prevalence): New variables.
 2019-09-16 11:58:40 +02:00
Pierre Neidhardt
5216632a95
gnu: Add s-sysdeps. 
* gnu/packages/lisp.scm (sbcl-s-sysdeps, cl-s-sysdeps, ecl-s-sysdeps): New variables.
 2019-09-16 11:58:21 +02:00
Kyle Andrews
1d25447e8b
gnu: Add herbstluftwm. 
* gnu/packages/wm.scm (herbstluftwm): New variable.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-16 10:57:58 +02:00
Brian Leung
a1a4a40715
gnu: emacs-dumb-jump: Update to 0.5.3. 
* gnu/packages/emacs-xyz.scm (emacs-dumb-jump): Update to 0.5.3.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-16 10:30:16 +02:00
Kyle Meyer
1ece099d5c
gnu: git-annex: Update to 7.20190912. 
* gnu/packages/haskell-apps.scm (git-annex): Update 7.20190912.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-16 10:27:36 +02:00
Kyle Meyer
f2a3ff8591
gnu: git-annex: Build with MagicMime support. 
git-annex has a mechanism for configuring whether a file is added to the annex
or stored in git.  Building with MagicMime support makes it possible to
condition the behavior on a file's MIME type.

* gnu/packages/haskell-apps.scm (git-annex)[inputs]: Add ghc-magic.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-16 10:27:32 +02:00
Kyle Meyer
e405912c20
gnu: Add ghc-magic. 
* gnu/packages/haskell-xyz.scm (ghc-magic): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-16 10:27:27 +02:00
Kyle Meyer
7e772cb66d
gnu: git-annex: Update license. 
* gnu/packages/haskell-apps.scm (git-annex)[license]: Update main license to
AGPLv3+ and include other licenses mentioned in the package's COPYRIGHT file.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-16 10:27:10 +02:00
Ludovic Courtès
0074844366
pack: Provide a meaningful "repository name" for Docker. 
Previously, images produced by 'guix pack -f docker' would always show
up as "profile" in the output of 'docker images'.  With this change,
'docker images' shows a name constructed from the packages found in the
image--e.g., "bash-coreutils-grep-sed".

* guix/docker.scm (canonicalize-repository-name): New procedure.
(generate-tag): Remove.
(manifest): Add optional 'tag' parameter and honor it.
(repositories): Likewise.
(build-docker-image): Add #:repository parameter and pass it to
'manifest' and 'repositories'.
* guix/scripts/pack.scm (docker-image)[build]: Compute 'tag' and pass it
as #:repository to 'build-docker-image'.
 2019-09-16 10:25:31 +02:00
Ludovic Courtès
9bbaf2ae72
pack: Add packages in the order in which they appear on the command line. 
* guix/scripts/pack.scm (guix-pack)[manifest-from-args](packages):
Reverse order of packages taken from OPTS.
 2019-09-16 10:25:16 +02:00
Carlo Zancanaro
ec36339dfd
services: certbot: Add --manual-public-ip-logging-ok for manual challenges 
* gnu/services/certbot.scm (certbot-command): Add
  --manual-public-ip-logging-ok flag to the certbot command when doing a
  manual challenge.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-09-16 10:22:35 +02:00
Rutger Helling
fb6e550d6b
gnu: retroarch: Update to 1.7.8.4. 
* gnu/packages/emulators.scm (retroarch): Update to 1.7.8.4.
 2019-09-16 08:25:04 +02:00
Rutger Helling
eca0f3d070
gnu: mgba: Update to 0.7.3. 
* gnu/packages/emulators.scm (mgba): Update to 0.7.3.
 2019-09-16 08:25:04 +02:00
Ricardo Wurmus
d80a15696b
gnu: Add r-variancepartition. 
* gnu/packages/bioconductor.scm (r-variancepartition): New variable.
 2019-09-15 22:57:47 +02:00
Ricardo Wurmus
2a360cf6ac
gnu: Add r-wavetiling. 
* gnu/packages/bioconductor.scm (r-wavetiling): New variable.
 2019-09-15 22:54:21 +02:00
Ricardo Wurmus
f5349b4d5a
gnu: Add r-genomegraphs. 
* gnu/packages/bioconductor.scm (r-genomegraphs): New variable.
 2019-09-15 22:51:52 +02:00
Ricardo Wurmus
4c63eeb8a4
gnu: Add r-oligo. 
* gnu/packages/bioconductor.scm (r-oligo): New variable.
 2019-09-15 22:50:31 +02:00
Ricardo Wurmus
d6a5d9b24f
gnu: Add r-affxparser. 
* gnu/packages/bioconductor.scm (r-affxparser): New variable.
 2019-09-15 22:50:25 +02:00
Ricardo Wurmus
df8576e5c9
gnu: Add r-variantfiltering. 
* gnu/packages/bioconductor.scm (r-variantfiltering): New variable.
 2019-09-15 22:41:03 +02:00
Ricardo Wurmus
fc3719cc0f
gnu: Add r-shinythemes. 
* gnu/packages/cran.scm (r-shinythemes): New variable.
 2019-09-15 22:40:25 +02:00
Ricardo Wurmus
41b8b05c9e
gnu: Add r-shinytree. 
* gnu/packages/cran.scm (r-shinytree): New variable.
 2019-09-15 22:33:50 +02:00
Ricardo Wurmus
4112ff7e74
gnu: Add js-requirejs. 
* gnu/packages/javascript.scm (js-requirejs): New variable.
 2019-09-15 21:19:53 +02:00
Ricardo Wurmus
bb0024dc69
gnu: Add r-reqon. 
* gnu/packages/bioconductor.scm (r-reqon): New variable.
 2019-09-15 21:07:57 +02:00
Ricardo Wurmus
e5dfcd8e26
gnu: Add r-seqbias. 
* gnu/packages/bioconductor.scm (r-seqbias): New variable.
 2019-09-15 21:07:56 +02:00
Ricardo Wurmus
12105c6c3a
gnu: Add r-affycoretools. 
* gnu/packages/bioconductor.scm (r-affycoretools): New variable.
 2019-09-15 20:58:26 +02:00
Ricardo Wurmus
01c7ba9982
gnu: Add r-oligoclasses. 
* gnu/packages/bioconductor.scm (r-oligoclasses): New variable.
 2019-09-15 20:58:26 +02:00
Ricardo Wurmus
15184fb386
gnu: Add r-reportingtools. 
* gnu/packages/bioconductor.scm (r-reportingtools): New variable.
 2019-09-15 20:58:25 +02:00
Ricardo Wurmus
83b4209122
gnu: Add r-pfam-db. 
* gnu/packages/bioconductor.scm (r-pfam-db): New variable.
 2019-09-15 20:57:26 +02:00
Ricardo Wurmus
4ca2d6c1a6
gnu: Add r-affycontam. 
* gnu/packages/bioconductor.scm (r-affycontam): New variable.
 2019-09-15 20:53:27 +02:00
Ricardo Wurmus
5094aa9472
gnu: Add r-affycompatible. 
* gnu/packages/bioconductor.scm (r-affycompatible): New variable.
 2019-09-15 20:53:21 +02:00
Ricardo Wurmus
5cf940de21
gnu: Add r-affycomp. 
* gnu/packages/bioconductor.scm (r-affycomp): New variable.
 2019-09-15 20:53:14 +02:00
Ricardo Wurmus
53b1e10f23
gnu: Add r-affydata. 
* gnu/packages/bioconductor.scm (r-affydata): New variable.
 2019-09-15 20:53:01 +02:00
Ricardo Wurmus
853211a51b
gnu: Add r-timeseriesexperiment. 
* gnu/packages/bioconductor.scm (r-timeseriesexperiment): New variable.
 2019-09-15 20:42:41 +02:00
Ricardo Wurmus
739b2d10f0
gnu: Add r-wavcluster. 
* gnu/packages/bioconductor.scm (r-wavcluster): New variable.
 2019-09-15 20:41:01 +02:00
Ricardo Wurmus
d77e69e9e1
gnu: r-spam: Update to 2.3-0. 
* gnu/packages/cran.scm (r-spam): Update to 2.3-0.
 2019-09-15 16:15:37 +02:00
Ricardo Wurmus
e48e476f41
gnu: r-feather: Update to 0.3.5. 
* gnu/packages/cran.scm (r-feather): Update to 0.3.5.
 2019-09-15 16:15:37 +02:00
Giacomo Leidi
21fc601295
gnu: emacs-zerodark-theme: Update to 4.6. 
* gnu/packages/emacs-xyz.scm (emacs-zerodark-theme): Update to 4.6.
[source]: Update to new source uri.
 2019-09-15 15:29:18 +03:00
Ricardo Wurmus
991c44109f
gnu: Add yubico-pam. 
* gnu/packages/authentication.scm (yubico-pam): New variable.
 2019-09-15 09:28:24 +02:00
Ricardo Wurmus
9eac315069
gnu: r-delayedmatrixstats: Update to 1.6.1. 
* gnu/packages/bioinformatics.scm (r-delayedmatrixstats): Update to 1.6.1.
 2019-09-14 23:39:39 +02:00
Ricardo Wurmus
82e343d14a
gnu: r-rhdf5lib: Update to 1.6.1. 
* gnu/packages/bioinformatics.scm (r-rhdf5lib): Update to 1.6.1.
 2019-09-14 23:39:25 +02:00
Ricardo Wurmus
cd25e29616
gnu: r-rtracklayer: Update to 1.44.4. 
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.44.4.
 2019-09-14 23:39:20 +02:00
Ricardo Wurmus
146f0ba5d1
gnu: r-genomicranges: Update to 1.36.1. 
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.36.1.
 2019-09-14 23:39:12 +02:00
Ricardo Wurmus
7f518ef70b
gnu: r-s4vectors: Update to 0.22.1. 
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.22.1.
 2019-09-14 23:39:08 +02:00
Ricardo Wurmus
11f973e093
gnu: r-mixomics: Update to 6.8.4. 
* gnu/packages/bioconductor.scm (r-mixomics): Update to 6.8.4.
 2019-09-14 23:39:03 +02:00
Ricardo Wurmus
f8fb5b75c9
gnu: r-gtrellis: Update to 1.16.1. 
* gnu/packages/bioconductor.scm (r-gtrellis): Update to 1.16.1.
 2019-09-14 23:38:58 +02:00
Ricardo Wurmus
ec0270b1e9
gnu: r-regioner: Update to 1.16.4. 
* gnu/packages/bioconductor.scm (r-regioner): Update to 1.16.4.
 2019-09-14 23:38:51 +02:00
Björn Höfling
cd75c487c8
gnu: Add emacs-elixir-mode. 
* gnu/packages/emacs-xyz.scm (emacs-elixir-mode): New variable.
 2019-09-14 19:44:40 +02:00
Rutger Helling
fda8ed0eb1
gnu: wine-staging: Update to 4.16. 
* gnu/packages/wine.scm (wine-staging-patchset-data): Update to 4.16.
* gnu/packages/wine.scm (wine-staging): Update to 4.16.
 2019-09-14 13:01:28 +02:00