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2018-04-21gnu: r-gprofiler: Update to 0.6.6.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gprofiler): Update to 0.6.6.
2018-04-21gnu: r-ggbio: Update to 1.26.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-ggbio): Update to 1.26.1.
2018-04-21gnu: r-genomicalignments: Update to 1.14.2.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.14.2.
2018-04-21gnu: r-dexseq: Update to 1.24.4.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.24.4.
2018-04-21gnu: r-vegan: Update to 2.5-1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-vegan): Update to 2.5-1. [propagated-inputs]: Add r-knitr.
2018-04-21gnu: r-mapproj: Update to 1.2.6.Ricardo Wurmus
* gnu/packages/geo.scm (r-mapproj): Update to 1.2.6.
2018-04-21gnu: r-maps: Update to 3.3.0.Ricardo Wurmus
* gnu/packages/geo.scm (r-maps): Update to 3.3.0.
2018-04-21gnu: r-igraph: Update to 1.2.1.Ricardo Wurmus
* gnu/packages/graph.scm (r-igraph): Update to 1.2.1. [inputs]: Add glpk and zlib. [propagated-inputs]: Remove r-irlba.
2018-04-21gnu: r-subplex: Update to 1.5-4.Ricardo Wurmus
* gnu/packages/maths.scm (r-subplex): Update to 1.5-4.
2018-04-21gnu: r-shinydashboard: Update to 0.7.0.Ricardo Wurmus
* gnu/packages/web.scm (r-shinydashboard): Update to 0.7.0.
2018-04-21gnu: r-htmlwidgets: Update to 1.2.Ricardo Wurmus
* gnu/packages/web.scm (r-htmlwidgets): Update to 1.2.
2018-04-21gnu: r-lme4: Update to 1.1-17.Ricardo Wurmus
* gnu/packages/statistics.scm (r-lme4): Update to 1.1-17.
2018-04-21gnu: r-futile-options: Update to 1.0.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-futile-options): Update to 1.0.1.
2018-04-21gnu: r-xml: Update to .Ricardo Wurmus
* gnu/packages/statistics.scm (r-xml): Update to .
2018-04-21gnu: r-rsqlite: Update to 2.1.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rsqlite): Update to 2.1.0.
2018-04-21gnu: r-survival: Update to 2.42-3.Ricardo Wurmus
* gnu/packages/statistics.scm (r-survival): Update to 2.42-3.
2018-04-21gnu: r-nlme: Update to 3.1-137.Ricardo Wurmus
* gnu/packages/statistics.scm (r-nlme): Update to 3.1-137.
2018-04-21gnu: r-cluster: Update to 2.0.7-1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-cluster): Update to 2.0.7-1.
2018-04-21gnu: r-minimal: Update to 3.4.4.Ricardo Wurmus
* gnu/packages/statistics.scm (r-minimal): Update to 3.4.4.
2018-04-21gnu: spindle: Limit supported systems.Efraim Flashner
* gnu/packages/admin.scm (spindle)[supported-system]: New field.
2018-04-21gnu: freefall: Fix compilation error.Efraim Flashner
* gnu/packages/linux.scm (freefall)[arguments]: Add make-flag to set CC=gcc.
2018-04-21gnu: python-onetimepass: Make python-six a propagated input.Tomáš Čech
* gnu/packages/python.scm (python-onetimepass)[inputs]: Move python-six from here... [propagated-inputs]: ...to here.
2018-04-21gnu: go-github-com-vitrun-qart-qr: Remove duplicate 'description' field.Mark H Weaver
* gnu/packages/syncthing.scm (go-github-com-vitrun-qart-qr)[description]: Remove duplicate 'description' field.
2018-04-21gnu: uget: Remove duplicate 'native-inputs' field.Mark H Weaver
* gnu/packages/bittorrent.scm (uget)[native-inputs]: Remove duplicate field initializer.
2018-04-21gnu: linux-libre@4.9: Update to 4.9.95.Mark H Weaver
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.95.
2018-04-21gnu: Add osc.Tomáš Čech
* gnu/packages/build-tools.scm (osc): New variable.
2018-04-21gnu: Add python-m2crypto, python2-m2crypto.Tomáš Čech
* gnu/packages/python-crypto.scm (python-m2crypto): New variable. (python2-m2crypto): New variable.
2018-04-21gnu: Add python2-urlgrabber.Tomáš Čech
* gnu/packages/python-web (python2-urlgrabber): New variable.
2018-04-21gnu: Add python-onetimepass.Tomáš Čech
* gnu/packages/python.scm (python-onetimepass): New variable.
2018-04-21gnu: perl: Hack the replacement perl to think it is version 5.26.1.Mark H Weaver
Fixes <https://bugs.gnu.org/31216>. This is a followup to commits 217b8c2e061a5b637e198f1ed9960d4abe2b0a46, 44b98b00026e62766620dbc4330a305282d61069, and 35fbe194c3da264859a5addc661b9fbc2dc8ecc7. Complications arise when grafting perl unless the version of the replacement perl matches that of the original. So, here we add 'perl/fixed', which is built from the perl-5.26.2 source but hacked to believe it is version 5.26.1. * gnu/packages/perl.scm (perl)[replacement]: Use perl/fixed, not perl-5.26.2. (perl-5.26.2): Remove compatibility symlinks. (perl/fixed): New variable.
2018-04-20gnu: perl: Add more compatibility symlinks to the replacement perl.Mark H Weaver
Fixes <https://bugs.gnu.org/31216>. Reported by Julien Lepiller <julien@lepiller.eu>. * gnu/packages/perl.scm (perl-5.26.2)[arguments]: Rename the 'workaround-grafting-version-bug' phase to 'install-compatibility-symlinks'. Install symlinks in $out/lib/perl5/site_perl/5.26.1 and $out/bin/perl5.26.1, in addition to $out/lib/perl5/5.26.1. Simplify the code a bit.
2018-04-20gnu: emacs-org, emacs-org-contrib: Update version.Nicolas Goaziou
* gnu/packages/emacs.scm (emacs-org): Update to 9.1.10. (emacs-org-contrib): Update to 20180416.
2018-04-20gnu: emacs-sx: Fix byte compilation.Maxim Cournoyer
The package would fail building when attempting to create a cache directory. This has been fixed upstream but not in a tagged release. * gnu/packages/emacs.scm (emacs-sx): Update to latest git version. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
2018-04-20gnu: emacs-esxml: Fix byte compilation.Maxim Cournoyer
* gnu/packages/emacs.scm (emacs-esxml)[arguments]: Add fix-sources phase. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
2018-04-20gnu: Add emacs-kv.Maxim Cournoyer
* gnu/packages/emacs.scm (emacs-kv): New variable. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
2018-04-20gnu: lvm2: Enable pkg-config files generation.Tomáš Čech
* gnu/packages/linux.scm (lvm2)[arguments]: Enable pkg-config files generation via configure flag.
2018-04-20gnu: Add go-golang-org-x-crypto-ssh-terminal.Tomáš Čech
* gnu/packages/golang.scm (go-golang-org-x-crypto-ssh-terminal): New variable.
2018-04-20gnu: emacs-realgud: Update to 1.4.5.Arun Isaac
* gnu/packages/emacs.scm (emacs-realgud): Update to 1.4.5.
2018-04-20gnu: emacs-realgud: Fix autogen.sh after EMACSLOADPATH is set.Maxim Cournoyer
* gnu/packages/emacs.scm (emacs-realgud)[arguments]: Move the fix-autogen-script phase to after the set-emacs-load-path phase. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
2018-04-19gnu: linux-libre: Update to 4.16.3.Mark H Weaver
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.16.3. (%linux-libre-hash): Update hash.
2018-04-19gnu: linux-libre@4.14: Update to 4.14.35.Mark H Weaver
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.35. (%linux-libre-4.14-hash): Update hash.
2018-04-20gnu: emacs-deferred: Enable tests.Maxim Cournoyer
* gnu/packages/emacs.scm (emacs-deferred)[arguments]: Add fix-makefile phase. Set #:test-command, and enable tests. [native-inputs]: Add emacs-ert-expectations, emacs-undercover and ert-runner. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
2018-04-20gnu: emacs-memoize: Update to 1.1.Arun Isaac
* gnu/packages/emacs.scm (emacs-memoize): Update to 1.1. Re-indent. [source]: Switch to release tarball. [arguments]: Remove "-l" "memoize.el" from #:test-command.
2018-04-19gnu: guix: Add po4a input.Julien Lepiller
* gnu/packages/package-management.scm (guix)[inputs]: Add po4a.
2018-04-20gnu: ert-runner: Adjust ert-runner wrapper to honor EMACSLOADPATH.Maxim Cournoyer
* gnu/packages/emacs.scm (ert-runner): Use 'prefix instead of '= for setting the EMACSLOADPATH environment variable. Reuse the already computed EMACSLOADPATH for wrap-program. Specify the dependencies directly in the inputs field. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
2018-04-20gnu: Adapt Emacs packages to use the new check phase.Maxim Cournoyer
* gnu/packages/emacs.scm (emacs-dash, emacs-s, emacs-string-inflection, emacs-company, emacs-clojure-mode, emacs-julia-mode, emacs-elfeed, emacs-memoize, emacs-use-package, emacs-xmlgen, emacs-json-reformat, emacs-which-key, emacs-ws-butler, emacs-git-messenger, emacs-browse-at-remote, emacs-evil-quickscope)[arguments]: Add #:tests? and #:test-command arguments to use the new check phase. (emacs-json-reformat)[inputs]: Move emacs-dash and emacs-shut-up to ... [native-inputs]: here. Add ert-runner. (emacs-company)[arguments]: Refactor fix-bin-dir phase. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
2018-04-20gnu: emacs-pdf-tools: Fix byte compilation.Maxim Cournoyer
* gnu/packages/emacs.scm (emacs-pdf-tools)[arguments]: Add emacs-set-emacs-load-path phase. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
2018-04-19gnu: u-boot-odroid-c2: Remove variable.Efraim Flashner
U-boot for this target requires a binary blob to boot correctly. * gnu/packages/bootloaders.scm (u-boot-odroid-c2): Remove variable.
2018-04-19gnu: python-bcrypt: Move to (gnu packages python-crypto).Marius Bakke
* gnu/packages/password-utils.scm (python-bcrypt, python2-bcrypt): Move to ... * gnu/packages/python-crypto.scm (python-bcrypt, python2-bcrypt): ... here. * gnu/packages/python.scm: Remove unused (gnu packages password-utils) import.
2018-04-19gnu: Perl: Fix a grafting failure due to a path that includes the package ↵Leo Famulari
version. Fixes <https://bugs.gnu.org/31210>. * gnu/packages/perl.scm (perl-5.26.2): Don't use package/inherit. [arguments]: Add a 'workaround-grafting-version-bug' phase.
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