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2020-01-27gnu: r-farver: Update to 2.0.3.Ricardo Wurmus
* gnu/packages/cran.scm (r-farver): Update to 2.0.3.
2020-01-27gnu: r-adegenet: Update to 2.1.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-adegenet): Update to 2.1.2.
2020-01-27gnu: r-cobs: Update to 1.3-4.Ricardo Wurmus
* gnu/packages/cran.scm (r-cobs): Update to 1.3-4.
2020-01-27gnu: r-dorng: Update to 1.8.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-dorng): Update to 1.8.2. [propagated-inputs]: Remove r-pkgmaker.
2020-01-27gnu: r-future: Update to 1.16.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-future): Update to 1.16.0.
2020-01-27gnu: r-rmpfr: Update to 0.8-1.Ricardo Wurmus
* gnu/packages/cran.scm (r-rmpfr): Update to 0.8-1. [inputs]: Add gmp. [native-inputs]: Add pkg-config.
2020-01-27gnu: r-gmp: Update to 0.5-13.6.Ricardo Wurmus
* gnu/packages/cran.scm (r-gmp): Update to 0.5-13.6.
2020-01-27gnu: r-afex: Update to 0.26-0.Ricardo Wurmus
* gnu/packages/cran.scm (r-afex): Update to 0.26-0.
2020-01-27gnu: r-gh: Update to 1.1.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-gh): Update to 1.1.0. [propagated-inputs]: Add r-cli.
2020-01-27gnu: r-sjplot: Update to 2.8.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-sjplot): Update to 2.8.2. [propagated-inputs]: Remove r-ggrepel, r-glmmtmb, r-lme4, r-magrittr, r-modelr, and r-psych.
2020-01-27gnu: r-effectsize: Update to 0.1.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-effectsize): Update to 0.1.1.
2020-01-27gnu: r-performance: Update to 0.4.3.Ricardo Wurmus
* gnu/packages/cran.scm (r-performance): Update to 0.4.3.
2020-01-27gnu: r-bayestestr: Update to 0.5.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-bayestestr): Update to 0.5.1.
2020-01-27gnu: r-sjstats: Update to 0.17.8.Ricardo Wurmus
* gnu/packages/cran.scm (r-sjstats): Update to 0.17.8. [propagated-inputs]: Add r-effectsize.
2020-01-27gnu: r-survey: Update to 3.37.Ricardo Wurmus
* gnu/packages/cran.scm (r-survey): Update to 3.37.
2020-01-27gnu: r-magick: Update to 2.3.Ricardo Wurmus
* gnu/packages/cran.scm (r-magick): Update to 2.3.
2020-01-27gnu: r-sjlabelled: Update to 1.1.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-sjlabelled): Update to 1.1.2. [propagated-inputs]: Remove r-magrittr, r-purrr, r-rlang, and r-tidyselect.
2020-01-27gnu: r-factominer: Update to 2.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-factominer): Update to 2.1.
2020-01-27gnu: r-leaps: Update to 3.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-leaps): Update to 3.1.
2020-01-27gnu: r-vctrs: Update to 0.2.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-vctrs): Update to 0.2.2. [propagated-inputs]: Remove r-backports and r-zeallot.
2020-01-27gnu: r-tsp: Update to 1.1-8.Ricardo Wurmus
* gnu/packages/cran.scm (r-tsp): Update to 1.1-8.
2020-01-27gnu: r-xts: Update to 0.12-0.Ricardo Wurmus
* gnu/packages/cran.scm (r-xts): Update to 0.12-0.
2020-01-27gnu: r-broom: Update to 0.5.4.Ricardo Wurmus
* gnu/packages/cran.scm (r-broom): Update to 0.5.4.
2020-01-27gnu: r-lpsolve: Update to 5.6.15.Ricardo Wurmus
* gnu/packages/cran.scm (r-lpsolve): Update to 5.6.15.
2020-01-27gnu: r-prettyunits: Update to 1.1.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-prettyunits): Update to 1.1.1.
2020-01-27gnu: r-rgooglemaps: Update to 1.4.5.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-rgooglemaps): Update to 1.4.5.2.
2020-01-27gnu: r-callr: Update to 3.4.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-callr): Update to 3.4.1.
2020-01-27gnu: r-diversitree: Update to 0.9-13.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-diversitree): Update to 0.9-13.
2020-01-27gnu: r-metap: Update to 1.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-metap): Update to 1.3.
2020-01-27gnu: python-testpath: Remove incorrect #:imported-modules.Ludovic Courtès
Fixes <https://bugs.gnu.org/39298>. Reported by Clément Lassieur <clement@lassieur.org> and Ricardo Wurmus <rekado@elephly.net>. This pacakge would import (srfi srfi-1) from the host Guile, leading to build failures when the host Guile is 3.0. * gnu/packages/check.scm (python-testpath)[arguments]: Remove incorrect #:imported-modules.
2020-01-27gnu: emacs-org-make-toc: Update to 0.4.David Wilson
* gnu/packages/emacs-xyz.scm (emacs-org-make-toc): Update to 0.4
2020-01-27gnu: public-inbox: Enable support for background HTTP/NNTP daemons.宋文武
* gnu/packages/mail.scm (public-inbox)[inputs]: Add perl-net-server.
2020-01-27gnu: keepassxc: Update to 2.5.3.Efraim Flashner
* gnu/packages/password-utils.scm (keepassxc): Update to 2.5.3.
2020-01-27gnu: s6: Install documentation.宋文武
* gnu/packages/skarnet.scm (s6)[arguments]: Add 'install-doc' phase.
2020-01-27gnu: ocaml: Switch to ocaml 4.09 by default.Julien Lepiller
Bap and earley cannot be updated as they do not support 4.09 yet. Bap requires the janestreet packages, which cannot be upgraded as no version supports 4.09 and 4.07 at the same time. Moreover, newer versions of the janestreet packages have a different dependency graph, which will require a whole new set of packages. We cannot simply use package-with-ocaml4.07 on them. * gnu/packages/ocaml.scm (ocaml-sqlite3, ocaml-ppx-tools, ocaml-gen) (ocaml-sedlex, ocaml-pcre, ocaml-expect, ocaml-ezjsonm, ocaml-uri) (ocaml-piqilib, ocaml-piqi, ocaml-charinfo-width, ocaml-zed) (ocaml-lambda-term, ocaml-utop, ocaml-ppx-inline-test, ocaml-earley) (ocaml-merlin, ocaml-gsl, ocaml-gsl-1, ocaml-sexplib0, ocaml-parsexp) (ocaml-sexplib, ocaml-base, ocaml-stdio, ocaml-ppxlib, ocaml-ppx-compare) (ocaml-fieldslib, ocaml-variantslib, ocaml-ppx-fields-conv) (ocaml-ppx-sexp-conv, ocaml-ppx-variants-conv, ocaml-ppx-custom-printf) (ocaml-bin-prot, ocaml-ppx-hash, ocaml-ppx-enumerate, ocaml-ppx-bench) (ocaml-ppx-here, ocaml-ppx-typerep, ocaml-ppx-sexp-value) (ocaml-ppx-sexp-message, ocaml-ppx-pipebang, ocaml-ppx-optional) (ocaml-ppx-optcomp, ocaml-ppx-fail, ocaml-ppx-let, ocaml-ppx-assert) (ocaml-ppx-expect, ocaml-ppx-js-style, ocaml-ppx-typerep-conv) (ocaml-ppx-base, ocaml-ppx-bin-prot, ocaml-ppx-jane) (ocaml-splittable-random, ocaml-configurator, ocaml-spawn, ocaml-core) (ocaml-core-kernel, ocaml-odoc, ocaml-fftw3, ocaml-lacaml): Rename to ... (ocaml4.07-sqlite3, ocaml4.07-ppx-tools, ocaml4.07-gen, ocaml4.07-sedlex) (ocaml4.07-pcre, ocaml4.07-expect, ocaml4.07-ezjsonm, ocaml4.07-uri) (ocaml4.07-piqilib, ocaml4.07-piqi, ocaml4.07-charinfo-width) (ocaml4.07-zed, ocaml4.07-lambda-term, ocaml4.07-utop) (ocaml4.07-ppx-inline-test, ocaml4.07-earley, ocaml4.07-merlin) (ocaml4.07-gsl, ocaml4.07-gsl-1, ocaml4.07-sexplib0, ocaml4.07-parsexp) (ocaml4.07-sexplib, ocaml4.07-base, ocaml4.07-stdio, ocaml4.07-ppxlib) (ocaml4.07-ppx-compare, ocaml4.07-fieldslib, ocaml4.07-variantslib) (ocaml4.07-ppx-fields-conv, ocaml4.07-ppx-sexp-conv) (ocaml4.07-ppx-variants-conv, ocaml4.07-ppx-custom-printf) (ocaml4.07-bin-prot, ocaml4.07-ppx-hash, ocaml4.07-ppx-enumerate) (ocaml4.07-ppx-bench, ocaml4.07-ppx-here, ocaml4.07-ppx-typerep) (ocaml4.07-ppx-sexp-value, ocaml4.07-ppx-sexp-message) (ocaml4.07-ppx-pipebang, ocaml4.07-ppx-optional, ocaml4.07-ppx-optcomp) (ocaml4.07-ppx-fail, ocaml4.07-ppx-let, ocaml4.07-ppx-assert) (ocaml4.07-ppx-expect, ocaml4.07-ppx-js-style) (ocaml4.07-ppx-typerep-conv, ocaml4.07-ppx-base, ocaml4.07-ppx-bin-prot) (ocaml4.07-ppx-jane, ocaml4.07-splittable-random) (ocaml4.07-configurator, ocaml4.07-spawn, ocaml4.07-core) (ocaml4.07-core-kernel, ocaml4.07-odoc, ocaml4.07-fftw3) (ocaml4.07-lacaml): ... to this and use ocaml 4.07. (bap, unison): Use ocaml-4.07. * gnu/packages/bioinformatics.scm (pplacer): Use ocaml-4.07.
2020-01-27guix: ocaml: Also replace dune when relevant in package-with-explicit-ocaml.Julien Lepiller
* guix/build-system/ocaml.scm (package-with-explicit-ocaml): Take a dune argument and add it to transformed packages when relevant.
2020-01-27gnu: Add ocaml4.07-dune.Julien Lepiller
* gnu/packages/ocaml.scm (ocaml4.07-dune): New variable.
2020-01-27gnu: Add ocaml4.07-lablgtk.Julien Lepiller
* gnu/packages/ocaml.scm (ocaml4.07-lablgtk): New variable. (lablgtk)[properties]: Add variant.
2020-01-27gnu: ocambuild: Update to 0.14.0.Julien Lepiller
* gnu/packages/ocaml.scm (ocamlbuild): Update to 0.14.0. [build-system]: Use ocaml-build-system.
2020-01-26gnu: pcsxr: Wrap with GSETTINGS_SCHEMA_DIR path variable.Kei Kebreau
Without setting this path variable, gtk+ must be installed in the user's profile for pcsxr's GUI to work. * gnu/packages/emulators.scm (pcsxr)[arguments]: Add 'wrap-program' phase and return #t from 'cd-subdir' and 'fix-cdio-lookup' phases.
2020-01-27gnu: sicp: Remove unused module import.Marius Bakke
* gnu/packages/scheme.scm (sicp)[arguments]: Do not import (srfi srfi-1).
2020-01-27gnu: emacs-org-contrib: Update to 20200126.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-org-contrib): Update to 20200126.
2020-01-26gnu: emacs-org: Update to 9.3.2.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-org): Update to 9.3.2.
2020-01-26gnu: emacs-modus-themes: Update to 0.4.0.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-modus-themes): Update to 0.4.0.
2020-01-26Revert "gnu: Add python-pathtools."Marius Bakke
This package was already in Guix since commit dbcef44a0bdc5472cd49cd02d9d11a9c5ff037c9. This reverts commit 87435943d1cf082b64fd2ee581e9db85b373ddb9.
2020-01-26Revert "gnu: Add python-iocapture."Marius Bakke
This package was already in Guix since commit dbcef44a0bdc5472cd49cd02d9d11a9c5ff037c9. This reverts commit 2cb4ee2787281b0c155ab4794fa1251652251d3b.
2020-01-26Revert "gnu: Add python-argh."Marius Bakke
This package was already in Guix since commit db6bd842aa4a6254b185740bda36f01c83cd9779. This reverts commit fb4db07467fb764e7df64a4aacae13eaaf7f912c.
2020-01-26guix-install.sh: Correctly treat empty or unset $XDG_DATA_DIRSAlexander Krotov
If $XDG_DATA_DIRS is unset, default value of "/usr/local/share:/usr/share" is used according to XDG Base Directory Specification. However, /etc/profile.d/guix.sh treats this value as empty list when appending its own directory, so after installing Guix on the system, launchers such as Rofi stop searching for .desktop files in /usr/share/applications/ and can't launch applications other than those installed with Guix. This patch fixes the bug in generated /etc/profile.d/guix.sh * etc/guix-install.sh (sys_create_init_profile): Use default value of /usr/local/share:/usr/share/ before appending if $XDG_DATA_DIRS is not set. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-01-26guix-install.sh: Create /etc/profile.d if it does not existPrafulla Giri
* etc/guix-install.sh (sys_create_init_profile): Add code to create /etc/profile.d if it somehow does not exist; the function still carries on because it is possible that /etc/profile is still configured to read the *.sh files from /etc/profile.d, if they exist. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-01-26guix-install.sh: Export INFOPATH to contain updated guix info-pagesPrafulla Giri
* etc/guix-install.sh (sys_create_init_profile): Export INFOPATH to include the updated info-pages from ~/.config/guix/current/share/info. This also makes sure that both /usr/bin/info and $GUIX_PROFILE/bin/info can read guix info pages without throwing "no menu item 'guix' in node dir(Top)" error. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
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