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2016-10-26gnu: r-xvector: Update to 0.14.0....* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.14.0. Ricardo Wurmus
2016-10-26gnu: r-limma: Update to 3.30.0....* gnu/packages/bioinformatics.scm (r-limma): Update to 3.30.0. Ricardo Wurmus
2016-10-26gnu: r-variantannotation: Update to 1.20.0....* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.20.0. [propagated-inputs]: Add r-biobase, r-biostrings, r-iranges, r-rtracklayer, r-s4vectors, r-xvector. Ricardo Wurmus
2016-10-26gnu: r-edger: Update to 3.16.0....* gnu/packages/bioinformatics.scm (r-edger): Update to 3.16.0. [propagated-inputs]: Add r-locfit. Ricardo Wurmus
2016-10-26gnu: r-genomeinfodb: Update to 1.10.0....* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.10.0. Ricardo Wurmus
2016-10-26gnu: r-iranges: Update to 2.8.0....* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.8.0. Ricardo Wurmus
2016-10-26gnu: r-s4vectors: Update to 0.12.0....* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.12.0. Ricardo Wurmus
2016-10-26gnu: r-dnacopy: Update to 1.48.0....* gnu/packages/bioinformatics.scm (r-dnacopy): Update to 1.48.0. Ricardo Wurmus
2016-10-26gnu: r-biocinstaller: Update to 1.24.0....* gnu/packages/bioinformatics.scm (r-biocinstaller): Update to 1.24.0. Ricardo Wurmus
2016-10-26gnu: r-biocgenerics: Update to 0.20.0....* gnu/packages/bioinformatics.scm (r-biocgenerics): Update to 0.20.0. Ricardo Wurmus
2016-10-26gnu: r-grohmm: Update to 1.8.0....* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.8.0. Ricardo Wurmus
2016-10-26gnu: r-systempiper: Update to 1.8.1....* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.8.1. Ricardo Wurmus
2016-10-26gnu: r-shortread: Update to 1.32.0....* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.32.0. Ricardo Wurmus
2016-10-26gnu: r-gostats: Update to 2.40.0....* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.40.0. Ricardo Wurmus
2016-10-26gnu: r-category: Update to 2.40.0....* gnu/packages/bioinformatics.scm (r-category): Update to 2.40.0. Ricardo Wurmus
2016-10-26gnu: r-gseabase: Update to 1.36.0....* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.36.0. Ricardo Wurmus
2016-10-26gnu: r-rbgl: Update to 1.50.0....* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.50.0. Ricardo Wurmus
2016-10-26gnu: r-annotationforge: Update to 1.16.0....* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.16.0. [propagated-inputs]: Add r-rcurl. Ricardo Wurmus
2016-10-26gnu: r-deseq2: Update to 1.14.0....* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.14.0. Ricardo Wurmus
2016-10-26gnu: r-genefilter: Update to 1.56.0....* gnu/packages/bioinformatics.scm (r-genefilter): Update to 1.56.0. Ricardo Wurmus
2016-10-26gnu: r-geneplotter: Update to 1.52.0....* gnu/packages/bioinformatics.scm (r-geneplotter): Update to 1.52.0. Ricardo Wurmus
2016-10-26gnu: r-annotate: Update to 1.52.0....* gnu/packages/bioinformatics.scm (r-annotate): Update to 1.52.0. Ricardo Wurmus
2016-10-26gnu: Add r-kernsmooth....* gnu/packages/statistics.scm (r-kernsmooth): New variable. Ricardo Wurmus
2016-10-26gnu: emacs-emms-player-mpv: Update to 0.0.10....* gnu/packages/emacs.scm (emacs-emms-player-mpv): Update to 0.0.10. Ricardo Wurmus
2016-10-26import cran: Use URL for Bioconductor 3.4....* guix/import/cran.scm (%bioconductor-svn-url): Update to release URL for version 3.4. Ricardo Wurmus
2016-10-25gnu: elfutils: Update to 0.167....* gnu/packages/elf.scm (elfutils): Update to 0.167. Leo Famulari
2016-10-25gnu: gtk+-2: Update to 2.24.31 [fixes CVE-2013-7447]....* gnu/packages/gtk.scm (gtk+-2): Update to 2.24.31. Leo Famulari
2016-10-25gnu: mupdf: Fix CVE-2016-8674....* gnu/packages/patches/mupdf-CVE-2016-8674.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/pdf.scm (mupdf): Use it. Kei Kebreau
2016-10-25gnu: coda: Remove bundled libraries....* gnu/packages/maths.scm (coda): Remove bundled libraries. [source]: Add patch and snippet to remove bundled zlib, pcre and expat. [inputs]: Add system zlib, pcre and expat. * gnu/packages/patches/coda-use-system-libs.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Thomas Danckaert
2016-10-25build: 'guilemoduledir' honors $GUILE_EFFECTIVE_VERSION....* configure.ac: Define 'guilemoduledir' as a function of $GUILE_EFFECTIVE_VERSION. Ludovic Courtès
2016-10-25svg: Autoload Guile-RSVG and Guile-Cairo....Fixes compilation by 'guix pull' where Guile-{RSVG,Cairo} are missing. Reported by Efraim Flashner. * gnu/build/svg.scm: Use 'module-autoload!' rather than 'module-use!'. Ludovic Courtès
2016-10-24gnu: linux-libre@4.1: Update to 4.1.35....* gnu/packages/linux.scm (linux-libre-4.1): Update to 4.1.35. Remove patch. * gnu/packages/patches/linux-libre-4.1-CVE-2016-5195.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Mark H Weaver
2016-10-25system: grub: Use Guile-{RSVG,Cairo} instead of Inkscape + ImageMagick....Based on a suggestion by Andy Wingo at <https://lists.gnu.org/archive/html/guix-devel/2015-08/msg00753.html>. * gnu/build/svg.scm: New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it. * gnu/system/grub.scm (svg->png): Add #:width and #:height. Rewrite to use (gnu build svg). (resize-image): Remove. (grub-background-image): Adjust accordingly. Ludovic Courtès
2016-10-24gnu: Add coda....* gnu/packages/maths.scm (coda): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Thomas Danckaert
2016-10-24gnu: Add hdf-eos2....* gnu/packages/maths.scm (hdf-eos2): New variable. * gnu/packages/patches/hdf-eos2-build-shared.patch: New file. * gnu/packages/patches/hdf-eos2-remove-gctp.patch: New file. * gnu/packages/patches/hdf-eos2-fortrantests.patch: New file. * gnu/local.mk (dist_patch_DATA): Add patches. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Thomas Danckaert
2016-10-24gnu: Add guile-bytestructures...* gnu/packages/guile.scm (guile-bytestructures): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Amirouche
2016-10-24services: nginx: Virtual hosts are first-class configuration items....* gnu/services/web.scm (<nginx-vhost-configuration>): New record type. (config-domain-strings): New procedure. (config-index-strings): New procedure. (default-nginx-vhost-config): New procedure. (default-nginx-config): Add vhost support and temporary directories (nginx-activation): Create temporary directories (nginx-service): Add vhost-list key. * doc/guix.texi (Web Services): Document 'nginx-vhost-configuration'. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Julien Lepiller
2016-10-24gnu: efl: Update to 1.18.2....* gnu/packages/enlightenment.scm (efl): Update to 1.18.2. Efraim Flashner
2016-10-24gnu: red-eclipse: Update to 1.5.6....* gnu/packages/games.scm (red-eclipse): Update to 1.5.6. [arguments]: Adjust phases. Kei Kebreau
2016-10-24gnu: Add whois....* gnu/packages/networking.scm (whois): New variable. Signed-off-by: Marius Bakke <mbakke@fastmail.com> ng0
2016-10-24gnu: gnumeric: Use 'glib-or-gtk-build-system'....Reported by Pjotr Prins <pjotr.public12@thebird.nl>. * gnu/packages/gnome.scm (gnumeric)[build-systems]: Switch to GLIB-OR-GTK-BUILD-SYSTEM. 宋文武
2016-10-23gnu: musl: Fix CVE-2016-8859....* gnu/packages/patches/musl-CVE-2016-8859.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/musl.scm (musl)[source]: Use it. Leo Famulari
2016-10-23gnu: windowmaker: Update to 0.95.7....* gnu/packages/gnustep.scm (windowmaker): Update to 0.95.7. Kei Kebreau
2016-10-23gnu: gajim: Update to 0.16.6....* gnu/packages/messaging.scm (gajim): Update to 0.16.6. Signed-off-by: Leo Famulari <leo@famulari.name> Arun Isaac
2016-10-23gnu: gajim: License is "version 3 only"....* gnu/packages/messaging.scm (gajim)[license]: Change to GPL3. Signed-off-by: Leo Famulari <leo@famulari.name> Arun Isaac
2016-10-23nls: Update 'fr' translation.Leo Famulari
2016-10-23gnu: weechat: Update to 1.6....* gnu/packages/irc.scm (weechat): Update to 1.6. Signed-off-by: Leo Famulari <leo@famulari.name> ng0
2016-10-23gnu: Add python-flask-sqlalchemy....* gnu/packages/python.scm (python-flask-sqlalchemy): New variable. Danny Milosavljevic
2016-10-23gnu: Add python-flask-basicauth....* gnu/packages/python.scm (python-flask-basicauth): New variable. Danny Milosavljevic
2016-10-23gnu: Add python-flask-restful....* gnu/packages/python.scm (python-flask-restful): New variable. Danny Milosavljevic
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