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* build-system/r: Use %bioconductor-version.Ricardo Wurmus2019-09-16
| | | | | * guix/build-system/r.scm (bioconductor-uri): Use %bioconductor-version instead of hard-coding the version string.
* import/cran: Export %bioconductor-version.Ricardo Wurmus2019-09-16
| | | | * guix/import/cran.scm (%bioconductor-version): Export it.
* gnu: evolution: Wrap with required path variables.Martin Becze2019-09-16
| | | | | | | | | 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>
* gnu: Add cl-prevalence.Pierre Neidhardt2019-09-16
| | | | * gnu/packages/lisp.scm (cl-prevalence, sbcl-cl-prevalence, ecl-cl-prevalence): New variables.
* gnu: Add s-sysdeps.Pierre Neidhardt2019-09-16
| | | | * gnu/packages/lisp.scm (sbcl-s-sysdeps, cl-s-sysdeps, ecl-s-sysdeps): New variables.
* gnu: Add herbstluftwm.Kyle Andrews2019-09-16
| | | | | | * gnu/packages/wm.scm (herbstluftwm): New variable. Co-authored-by: Ludovic Courtès <ludo@gnu.org>
* gnu: emacs-dumb-jump: Update to 0.5.3.Brian Leung2019-09-16
| | | | | | * gnu/packages/emacs-xyz.scm (emacs-dumb-jump): Update to 0.5.3. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: git-annex: Update to 7.20190912.Kyle Meyer2019-09-16
| | | | | | * gnu/packages/haskell-apps.scm (git-annex): Update 7.20190912. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: git-annex: Build with MagicMime support.Kyle Meyer2019-09-16
| | | | | | | | | | 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>
* gnu: Add ghc-magic.Kyle Meyer2019-09-16
| | | | | | * gnu/packages/haskell-xyz.scm (ghc-magic): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: git-annex: Update license.Kyle Meyer2019-09-16
| | | | | | | * 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>
* pack: Provide a meaningful "repository name" for Docker.Ludovic Courtès2019-09-16
| | | | | | | | | | | | | | | | 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'.
* pack: Add packages in the order in which they appear on the command line.Ludovic Courtès2019-09-16
| | | | | * guix/scripts/pack.scm (guix-pack)[manifest-from-args](packages): Reverse order of packages taken from OPTS.
* services: certbot: Add --manual-public-ip-logging-ok for manual challengesCarlo Zancanaro2019-09-16
| | | | | | | | * 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>
* gnu: retroarch: Update to 1.7.8.4.Rutger Helling2019-09-16
| | | | * gnu/packages/emulators.scm (retroarch): Update to 1.7.8.4.
* gnu: mgba: Update to 0.7.3.Rutger Helling2019-09-16
| | | | * gnu/packages/emulators.scm (mgba): Update to 0.7.3.
* gnu: Add r-variancepartition.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-variancepartition): New variable.
* gnu: Add r-wavetiling.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-wavetiling): New variable.
* gnu: Add r-genomegraphs.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-genomegraphs): New variable.
* gnu: Add r-oligo.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-oligo): New variable.
* gnu: Add r-affxparser.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-affxparser): New variable.
* gnu: Add r-variantfiltering.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-variantfiltering): New variable.
* gnu: Add r-shinythemes.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/cran.scm (r-shinythemes): New variable.
* gnu: Add r-shinytree.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/cran.scm (r-shinytree): New variable.
* gnu: Add js-requirejs.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/javascript.scm (js-requirejs): New variable.
* gnu: Add r-reqon.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-reqon): New variable.
* gnu: Add r-seqbias.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-seqbias): New variable.
* gnu: Add r-affycoretools.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-affycoretools): New variable.
* gnu: Add r-oligoclasses.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-oligoclasses): New variable.
* gnu: Add r-reportingtools.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-reportingtools): New variable.
* gnu: Add r-pfam-db.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-pfam-db): New variable.
* gnu: Add r-affycontam.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-affycontam): New variable.
* gnu: Add r-affycompatible.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-affycompatible): New variable.
* gnu: Add r-affycomp.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-affycomp): New variable.
* gnu: Add r-affydata.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-affydata): New variable.
* gnu: Add r-timeseriesexperiment.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-timeseriesexperiment): New variable.
* gnu: Add r-wavcluster.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/bioconductor.scm (r-wavcluster): New variable.
* gnu: r-spam: Update to 2.3-0.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/cran.scm (r-spam): Update to 2.3-0.
* gnu: r-feather: Update to 0.3.5.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/cran.scm (r-feather): Update to 0.3.5.
* gnu: emacs-zerodark-theme: Update to 4.6.Giacomo Leidi2019-09-15
| | | | | * gnu/packages/emacs-xyz.scm (emacs-zerodark-theme): Update to 4.6. [source]: Update to new source uri.
* gnu: Add yubico-pam.Ricardo Wurmus2019-09-15
| | | | * gnu/packages/authentication.scm (yubico-pam): New variable.
* gnu: r-delayedmatrixstats: Update to 1.6.1.Ricardo Wurmus2019-09-14
| | | | * gnu/packages/bioinformatics.scm (r-delayedmatrixstats): Update to 1.6.1.
* gnu: r-rhdf5lib: Update to 1.6.1.Ricardo Wurmus2019-09-14
| | | | * gnu/packages/bioinformatics.scm (r-rhdf5lib): Update to 1.6.1.
* gnu: r-rtracklayer: Update to 1.44.4.Ricardo Wurmus2019-09-14
| | | | * gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.44.4.
* gnu: r-genomicranges: Update to 1.36.1.Ricardo Wurmus2019-09-14
| | | | * gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.36.1.
* gnu: r-s4vectors: Update to 0.22.1.Ricardo Wurmus2019-09-14
| | | | * gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.22.1.
* gnu: r-mixomics: Update to 6.8.4.Ricardo Wurmus2019-09-14
| | | | * gnu/packages/bioconductor.scm (r-mixomics): Update to 6.8.4.
* gnu: r-gtrellis: Update to 1.16.1.Ricardo Wurmus2019-09-14
| | | | * gnu/packages/bioconductor.scm (r-gtrellis): Update to 1.16.1.
* gnu: r-regioner: Update to 1.16.4.Ricardo Wurmus2019-09-14
| | | | * gnu/packages/bioconductor.scm (r-regioner): Update to 1.16.4.
* gnu: Add emacs-elixir-mode.Björn Höfling2019-09-14
| | | | * gnu/packages/emacs-xyz.scm (emacs-elixir-mode): New variable.
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