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2019-03-26gnu: current-guix: Delay effectful bits.Ludovic Courtès
* gnu/packages/package-management.scm (current-guix): Delay 'repository-root'.
2019-03-26gnu: python-scanpy: Update to 1.4.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (python-scanpy): Update to 1.4. [source]: Fetch from git. [arguments]: Disable broken tests. [native-inputs]: Add python-pytest. [home-page]: Use HTTPS.
2019-03-26gnu: python-anndata: Update to 0.6.18.Ricardo Wurmus
* gnu/packages/python-xyz.scm (python-anndata): Update to 0.6.18.
2019-03-26gnu: trim-galore: Update to 0.6.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (trim-galore): Update to 0.6.1. [arguments]: Adjust patching.
2019-03-26gnu: cutadapt: Update to 2.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (cutadapt): Update to 2.1. [source]: Fetch from pypi. [native-inputs]: Add python-setuptools-scm.
2019-03-26gnu: python-xopen: Update to 0.5.0.Ricardo Wurmus
* gnu/packages/python-xyz.scm (python-xopen): Update to 0.5.0.
2019-03-26gnu: edgar: Rename package to the-legend-of-edgar.Pierre Neidhardt
* gnu/packages/games.scm (edgar): Define in terms of 'deprecated-package'. (the-legend-of-edgar): New variable, formerly known as "edgar".
2019-03-26gnu: btanks: Rename package to battle-tanks.Pierre Neidhardt
* gnu/packages/games.scm (btanks): Define in terms of 'deprecated-package'. (battle-tanks): New variable, formerly known as "btanks".
2019-03-26gnu: tome4: Rename package to tales-of-maj-eyal.Pierre Neidhardt
* gnu/packages/games.scm (tome4): Define in terms of 'deprecated-package'. (tales-of-maj-eyal): New variable, formerly known as "tome4".
2019-03-26gnu: crawl-tiles: Rename package to dungeon-crawl-stone-soup-tiles.Pierre Neidhardt
* gnu/packages/games.scm (crawl-tiles): Define in terms of 'deprecated-package'. (dungeon-crawl-stone-soup-tiles): New variable, formerly known as "crawl-tiles".
2019-03-26gnu: crawl: Rename package to dungeon-crawl-stone-soup.Pierre Neidhardt
* gnu/packages/games.scm (crawl): Define in terms of 'deprecated-package'. (dungeon-crawl-stone-soup): New variable, formerly known as "crawl".
2019-03-26gnu: fillets-ng: Rename package to fish-fillets-ng.Pierre Neidhardt
* gnu/packages/games.scm (fillets-ng): Define in terms of 'deprecated-package'. (fish-fillets-ng): New variable, formerly known as "fillets-ng".
2019-03-26gnu: kiki: Rename package to kiki-the-nano-bot.Pierre Neidhardt
* gnu/packages/games.scm (kiki): Define in terms of 'deprecated-package'. (kiki-the-nano-bot): New variable, formerly known as "kiki".
2019-03-26gnu: starfighter: Rename package to project-starfighter.Pierre Neidhardt
* gnu/packages/games.scm (starfighter): Define in terms of 'deprecated-package'. (project-starfighter): New variable, formerly known as "starfighter".
2019-03-26gnu: wesnoth-server: Rename package to the-battle-for-wesnoth-server.Pierre Neidhardt
* gnu/packages/games.scm (wesnoth-server): Define in terms of 'deprecated-package'. (the-battle-for-wesnoth-server): New variable, formerly known as "wesnoth-server".
2019-03-26gnu: wesnoth: Rename package to the-battle-for-wesnoth.Pierre Neidhardt
* gnu/packages/games.scm (wesnoth): Define in terms of 'deprecated-package'. (the-battle-for-wesnoth): New variable, formerly known as "wesnoth".
2019-03-26gnu: abbaye: Rename package to l-abbaye-des-morts.Pierre Neidhardt
* gnu/packages/games.scm (abbaye): Define in terms of 'deprecated-package'. (l-abbaye-des-morts): New variable, formerly known as "abbaye".
2019-03-26gnu: gnubg: Rename package to gnubackgammon.Pierre Neidhardt
* gnu/packages/games.scm (gnubg): Define in terms of 'deprecated-package'. (gnubackgammon): New variable, formerly known as "gnubg".
2019-03-26gnu: cataclysm-dda: Rename package to cataclysm-dark-days-ahead.Pierre Neidhardt
* gnu/packages/games.scm (cataclysm-dda): Define in terms of 'deprecated-package'. (cataclysm-dark-days-ahead): New variable, formerly known as "cataclysm-dda".
2019-03-26gnu: armagetronad: Rename package to armagetron-advanced.Pierre Neidhardt
* gnu/packages/games.scm (armagetronad): Define in terms of 'deprecated-package'. (armagetron-advanced): New variable, formerly known as "armagetronad".
2019-03-26gnu: docker: Use disjunct temp directories for probing.Danny Milosavljevic
* gnu/packages/patches/docker-use-fewer-modprobes.patch: Use disjunct temp directories for probing.
2019-03-26gnu: docker: Add comment.Danny Milosavljevic
* gnu/packages/patches/docker-use-fewer-modprobes.patch: Add comment.
2019-03-26packages: Adjust to new calling convention for "thunked" fields.Ludovic Courtès
Fixes <https://bugs.gnu.org/34995>. This is a followup to abd4d6b33dba4de228e90ad15a8efb456fcf7b6e. * guix/packages.scm (package->bag): Adjust calls to INPUTS, PROPAGATED-INPUTS, NATIVE-INPUTS, and ARGS, passing them SELF as an argument. * gnu/packages/gnucash.scm (gnucash)[arguments]: Use (package-inputs this-record) intead of (inputs). * gnu/packages/version-control.scm (git)[arguments]: Likewise.
2019-03-25gnu: gzdoom: Update to 3.7.2.nee
* gnu/packages/games.scm (gzdoom): Update to 3.7.2. [source](uri): Update path. [source](snippet): Bundled libjpeg directory has been renamed. Signed-off-by: Kei Kebreau <kkebreau@posteo.net>
2019-03-25system: Add 'essential-services' field to <operating-system>.Ludovic Courtès
* gnu/system.scm (<operating-system>)[essential-services]: New field. (operating-system-directory-base-entries): Remove #:container? keyword and keep only the not-container branch. (essential-services): Likewise. (operating-system-services): Likewise, and call 'operating-system-essential-services' instead of 'essential-services'. (operating-system-activation-script): Remove #:container?. (operating-system-boot-script): Likewise. (operating-system-derivation): Likewise. * gnu/system/linux-container.scm (container-essential-services): New procedure. (containerized-operating-system): Use it and set the 'essential-services' field. (container-script): Remove call to 'operating-system-derivation'. * gnu/system/vm.scm (system-docker-image): Likewise. * doc/guix.texi (operating-system Reference): Document 'essential-services'.
2019-03-25accounts: Add default value for the 'home-directory' field of <user-account>.Ludovic Courtès
* gnu/system/accounts.scm (<user-account>)[home-directory]: Mark as thunked and add a default value. (default-home-directory): New procedure. * doc/guix.texi (User Accounts): Remove 'home-directory' from example. * gnu/system/examples/bare-bones.tmpl: Likewise. * gnu/system/examples/beaglebone-black.tmpl: Likewise. * gnu/system/examples/desktop.tmpl: Likewise. * gnu/system/examples/docker-image.tmpl: Likewise. * gnu/system/examples/lightweight-desktop.tmpl: Likewise. * gnu/system/install.scm (installation-os): Likewise. * gnu/tests.scm (%simple-os): Likewise. * gnu/tests/install.scm (%minimal-os, %minimal-os-on-vda): (%separate-home-os, %encrypted-root-os, %btrfs-root-os): Likewise. * tests/accounts.scm ("allocate-passwd") ("allocate-passwd with previous state"): Likewise.
2019-03-25installer: Set the system's 'keyboard-layout' field.Ludovic Courtès
* gnu/installer/newt/keymap.scm (keyboard-layout->configuration): New procedure. * gnu/installer.scm (compute-keymap-step): Return RESULT. (installer-steps) <'keymap>: Add 'configuration-formatter' field. (installer-program): Use (gnu installer newt keymap). * gnu/installer/parted.scm (bootloader-configuration): Set 'keyboard-layout'.
2019-03-25gnu: guix: Update to f970946.Ludovic Courtès
* gnu/packages/package-management.scm (guix): Update to f970946.
2019-03-25gnu: docker: Use fewer modprobes.Danny Milosavljevic
Fixes <https://bugs.gnu.org/34333>. Reported by Allan Adair <allan@adair.io>. * gnu/packages/patches/docker-use-fewer-modprobes.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/docker.scm (docker)[source]: Use it.
2019-03-25gnu: nano: Update to 4.0.Leo Famulari
* gnu/packages/nano.scm (nano): Update to 4.0.
2019-03-25services: SDDM: Specify absolute path to the X server.Marius Bakke
I'm not sure how this service ever worked, but SDDM started consistently failing on one machine seemingly because of this setting. * gnu/services/sddm.scm (sddm-configuration-file): Append /bin/X to the ServerPath setting.
2019-03-25gnu: Add r-svmisc.Ricardo Wurmus
* gnu/packages/cran.scm (r-svmisc): New variable.
2019-03-25gnu: Add r-rjava.Ricardo Wurmus
* gnu/packages/cran.scm (r-rjava): New variable.
2019-03-25gnu: Add r-r2html.Ricardo Wurmus
* gnu/packages/cran.scm (r-r2html): New variable.
2019-03-25gnu: Add r-sampling.Ricardo Wurmus
* gnu/packages/cran.scm (r-sampling): New variable.
2019-03-25gnu: r-gsl: Update to 2.1-6.Ricardo Wurmus
* gnu/packages/cran.scm (r-gsl): Update to 2.1-6.
2019-03-25gnu: Add r-sigpathway.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-sigpathway): New variable.
2019-03-25gnu: Add r-anota.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-anota): New variable.
2019-03-25gnu: Add r-gosemsim.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-gosemsim): New variable.
2019-03-25gnu: Add r-heatplus.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-heatplus): New variable.
2019-03-25gnu: Add r-varianttools.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-varianttools): New variable.
2019-03-25gnu: Add r-triform.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-triform): New variable.
2019-03-25gnu: Add r-hapassoc.Ricardo Wurmus
* gnu/packages/cran.scm (r-hapassoc): New variable.
2019-03-25gnu: Add r-hierfstat.Ricardo Wurmus
* gnu/packages/cran.scm (r-hierfstat): New variable.
2019-03-25gnu: Add brightnessctl.Vagrant Cascadian
* gnu/packages/linux.scm (brightnessctl): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-03-25gnu: r-gkmsvm: Move to (gnu packages bioconductor).Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gkmsvm): Move from here... * gnu/packages/bioconductor.scm (r-gkmsvm): ...to here.
2019-03-25gnu: r-kernlab: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/machine-learning.scm (r-kernlab): Move from here... * gnu/packages/cran.scm (r-kernlab): ...to here.
2019-03-25gnu: r-wgcna: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-wgcna): Move from here... * gnu/packages/cran.scm (r-wgcna): ...to here.
2019-03-25gnu: r-optparse: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-optparse): Move from here... * gnu/packages/cran.scm (r-optparse): ...to here.
2019-03-25gnu: r-bookdown: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-bookdown): Move from here... * gnu/packages/cran.scm (r-bookdown): ...to here.
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