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2020-04-14gnu: r-lme4: Update to 1.1-23.Ricardo Wurmus
* gnu/packages/statistics.scm (r-lme4): Update to 1.1-23. [native-inputs]: Add r-knitr. [propagated-inputs]: Add r-statmod.
2020-04-14gnu: r-mclust: Update to 5.4.6.Ricardo Wurmus
* gnu/packages/statistics.scm (r-mclust): Update to 5.4.6. [native-inputs]: Add r-knitr.
2020-04-14gnu: r-sfsmisc: Update to 1.1-6.Ricardo Wurmus
* gnu/packages/statistics.scm (r-sfsmisc): Update to 1.1-6.
2020-04-14gnu: r-plotly: Update to 4.9.2.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-plotly): Update to 4.9.2.1.
2020-04-14gnu: r-devtools: Update to 2.3.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-devtools): Update to 2.3.0. [native-inputs]: Add r-knitr.
2020-04-14gnu: r-backports: Update to 1.1.6.Ricardo Wurmus
* gnu/packages/statistics.scm (r-backports): Update to 1.1.6.
2020-04-14gnu: r-xml2: Update to 1.3.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-xml2): Update to 1.3.1.
2020-04-14gnu: r-gdtools: Update to 0.2.2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-gdtools): Update to 0.2.2.
2020-04-14gnu: r-reshape2: Update to 1.4.4.Ricardo Wurmus
* gnu/packages/statistics.scm (r-reshape2): Update to 1.4.4.
2020-04-14gnu: r-survival: Update to 3.1-12.Ricardo Wurmus
* gnu/packages/statistics.scm (r-survival): Update to 3.1-12.
2020-04-14gnu: r-nlme: Update to 3.1-147.Ricardo Wurmus
* gnu/packages/statistics.scm (r-nlme): Update to 3.1-147.
2020-04-14gnu: Add rkdeveloptool.Jan (janneke) Nieuwenhuizen
* gnu/packages/hardware.scm (rkdeveloptool): New variable.
2020-04-14doc: Improve anchor collection.Ludovic Courtès
This allows us to catch "operating_002dsystem-1", for instance. * doc/build.scm (syntax-highlighted-html)[build](anchor-id->key): Drop "-1" & co. from ID.
2020-04-14doc: Avoid invalid 'match' pattern in 'syntax-highlighted-html'.Ludovic Courtès
This is a followup to da9deba13d551e316f5a99a614834efa27ddc7d1. Last-minute modification of the 'match' pattern would lead to an error: "multiple ellipsis patterns not allowed at same level" * doc/build.scm (syntax-highlighted-html)[build](collect-anchors): Add 'worthy-entry?' procedure and use it instead of the unsupported pattern for ('dt ...).
2020-04-14doc: Emit hyperlinks in HTML output for @lisp snippets.Ludovic Courtès
This makes it easier to jump to the definition of a procedure or variable when looking at a code snippet. There can be false-positive because scoping rules are ignored, for example, but it should be a good approximation. * doc/build.scm (syntax-highlighted-html)[build](highlights->sxml*): Add 'anchors' parameter. Add clause for ('symbol text). (syntax-highlight): Add 'anchors' parameter. Wrap body in named let and use it in recursive calls. Pass ANCHORS to 'highlights->sxml*'. (underscore-decode, anchor-id->key, collect-anchors, html?): New procedures. (process-file): Add 'anchors' parameter. and honor it. Rewrite mono-node and multi-node HTML files separately.
2020-04-14weather: Delete duplicate entries coming from '--manifest'.Ludovic Courtès
* guix/scripts/weather.scm (load-manifest): Call 'delete-duplicates'.
2020-04-14maint: Ensure substitutes are available for '%default-xorg-modules'.Ludovic Courtès
* etc/release-manifest.scm (%system-packages): Append %DEFAULT-XORG-MODULES.
2020-04-14maint: Actually check for the availablility of system packages.Ludovic Courtès
* etc/release-manifest.scm (%system-manifest): New variable. <top level>: Add it in 'concatenate-manifests' call.
2020-04-14gnu: Add moptilities.Pierre Neidhardt
* gnu/packages/lisp-xyz.scm (cl-moptilities, sbcl-moptilities): New variables.
2020-04-14gnu: Add perl-authen-passphrase.Paul Garlick
* gnu/packages/perl.scm (perl-authen-passphrase): New variable.
2020-04-14gnu: Add perl-digest-md4.Paul Garlick
* gnu/packages/perl.scm (perl-digest-md4): New variable.
2020-04-14gnu: Add perl-crypt-des.Paul Garlick
* gnu/packages/perl.scm (perl-crypt-des): New variable.
2020-04-14gnu: Add perl-crypt-cbc.Paul Garlick
* gnu/packages/perl.scm (perl-crypt-cbc): New variable.
2020-04-14gnu: Add perl-crypt-mysql.Paul Garlick
* gnu/packages/perl.scm (perl-crypt-mysql): New variable.
2020-04-14gnu: Add perl-crypt-passwdmd5.Paul Garlick
* gnu/packages/perl.scm (perl-crypt-passwdmd5): New variable.
2020-04-14gnu: Add perl-crypt-unixcrypt_xs.Paul Garlick
* gnu/packages/perl.scm (perl-crypt-unixcrypt_xs): New variable.
2020-04-14gnu: sbcl-cl-str: Update to 0.17.Pierre Neidhardt
* gnu/packages/lisp-xyz.scm (sbcl-cl-str): Update to 0.17.
2020-04-14gnu: Add cl-change-case.Pierre Neidhardt
* gnu/packages/lisp-xyz.scm (cl-change-case, sbcl-cl-change-case): New variables.
2020-04-14installer: Only load uvesafb kernel module when needed.Florian Pelz
This is a follow-up to commit 557e6820a77b24f8f3f03f28ee473137b1caeb64. * gnu/system/install.scm (uvesafb-shepherd-service): Check that /dev/fb0 is not already present.
2020-04-14gnu: xen: Update to 4.13.0.Danny Milosavljevic
* gnu/packages/virtualization.scm (xen): Update to 4.13.0.
2020-04-14gnu: pigx-chipseq: Update to 0.0.42.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.0.42.
2020-04-14nls: Update.Ludovic Courtès
2020-04-14installer: Open manual in the selected language on tty2.Ludovic Courtès
Fixes <https://bugs.gnu.org/40624>. Reported by Florian Pelz <[email protected]>. Regression introduced in b5c2d93d7a223155898dd0ed6932f6acf78ac454. * gnu/installer.scm (apply-locale): Remove 'lambda' around 'stop-service' and 'start-service' calls.
2020-04-14gnu: xen: Fix build failure.Danny Milosavljevic
* gnu/packages/virtualization.scm (xen)[arguments]<#:phases>[set-environment-up]: Use CPATH instead of C_INCLUDE_PATH, CPLUS_INCLUDE_PATH.
2020-04-14gnu: sbcl-ironclad: Update to 0.49.Guillaume Le Vaillant
* gnu/packages/lisp-xyz.scm (sbcl-ironclad): Update to 0.49. [inputs]: Add trivial-garbage.
2020-04-14gnu: Add emacs-typit.Alberto Eleuterio Flores Guerrero
* gnu/packages/emacs-xyz.scm (emacs-typit): New variable.
2020-04-14gnu: Add emacs-mmt.Alberto Eleuterio Flores Guerrero
* gnu/packages/emacs-xyz.scm (emacs-mmt): New variable.
2020-04-14gnu: Add emacs-uml-mode.Alberto EFG
* gnu/packages/emacs-xyz.scm (emacs-uml-mode): New variable.
2020-04-14gnu: Add emacs-org-roam.Alberto Eleuterio Flores Guerrero
* gnu/packages/emacs-xyz.scm (emacs-org-roam): New variable.
2020-04-14gnu: Add blobwars.Alberto Eleuterio Flores Guerrero
* gnu/packages/games.scm (blobwars): New variable.
2020-04-14gnu: emacs-org-make-toc: Update to 0.5.Pierre Neidhardt
* gnu/packages/emacs-xyz.scm (emacs-org-make-toc): Update to 0.5.
2020-04-14gnu: volk: Update to 2.2.1.Efraim Flashner
* gnu/packages/engineering.scm (volk): Update to 2.2.1. [source]: Download using https. [arguments]: Add phase to wrap binary in PYTHONPATH. [native-inputs]: Remove python-2, python2-cheetah. Add python-wrapper, python-mako. [home-page]: Use https.
2020-04-14gnu: kawa: Update to 3.1.1.Tobias Geerinckx-Rice
* gnu/packages/kawa.scm (kawa): Update to 3.1.1.
2020-04-14gnu: kawa: Wrap to find java.Tobias Geerinckx-Rice
* gnu/packages/kawa.scm (kawa)[arguments]: Add ‘wrap-kawa’ phase to set JAVA_HOME.
2020-04-13gnu: webkitgtk: Update to 2.28.1.Mark H Weaver
* gnu/packages/webkit.scm (webkitgtk): Update to 2.28.1.
2020-04-13gnu: Add python-diceware.Matthew Kraai
* gnu/packages/python-xyz.scm (python-diceware): New public variables. Signed-off-by: Leo Famulari <[email protected]>
2020-04-14gnu: emacs-org-ref: Update to 5bb9be2232db72b04754d7e4c02a3976ad422f6f.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-org-ref): Update to 5bb9be2232db72b04754d7e4c02a3976ad422f6f. [version]: Use `git-version'. [propagated-inputs]: Add "emacs-htmlize". Sort alphabetically. [description]: Expound it.
2020-04-13gnu: MPD: Update to 0.21.22.Leo Famulari
* gnu/packages/mpd.scm (mpd): Update to 0.21.22.
2020-04-13gnu: Mutt: Update to 1.13.5.Leo Famulari
* gnu/packages/mail.scm (mutt): Update to 1.13.5.
2020-04-13gnu: linux-libre: Update to 5.4.32.Mark H Weaver
* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.32. (linux-libre-5.4-pristine-source): Update hash.
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