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* gnu: python-rpy2: Update to 2.9.0.Ricardo Wurmus2017-08-31
| | | | | | | * gnu/packages/python.scm (python-rpy2): Update to 2.9.0. [arguments]: Run tests before install phase; add build phase "fix-tests". [propagated-inputs]: Add python-jinja2 and python-pytz. [inputs]: Add r-ggplot2, r-rsqlite, r-dplyr, r-dbplyr, and python-numpy.
* gnu: python-rpy2: Update license.Ricardo Wurmus2017-08-31
| | | | | * gnu/packages/python.scm (python-rpy2)[license]: Correct GPLv3+ to GPLv2+; list additional licenses.
* gnu: Add r-dbplyr.Ricardo Wurmus2017-08-31
| | | | * gnu/packages/statistics.scm (r-dbplyr): New variable.
* gnu: retux: Update to 1.3.5.Kei Kebreau2017-08-31
| | | | * gnu/packages/games.scm (retux): Update to 1.3.5.
* gnu: python-tmx: Update to 1.10.Kei Kebreau2017-08-31
| | | | * gnu/packages/game-development.scm (python-tmx): Update to 1.10.
* gnu: python-sge-pygame: Update to 1.5.1.Kei Kebreau2017-08-31
| | | | | * gnu/packages/game-development.scm (python-sge-pygame, python2-sge-pygame): Update to 1.5.1.
* gnu: python-pyjwt: Update to 1.5.2 [fixes CVE-2017-11424].Marius Bakke2017-08-31
| | | | | | * gnu/packages/python.scm (python-pyjwt): Update to 1.5.2. [source]: Add snippet to remove pre-compiled files. [native-inputs]: Change PYTHON-PYTEST to PYTHON-PYTEST-3.0.
* gnu: Add emacs-idris-mode.Peter Mikkelsen2017-08-31
| | | | | | * gnu/packages/emacs.scm (emacs-idris-mode): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add emacs-prop-menu.Peter Mikkelsen2017-08-31
| | | | | | * gnu/packages/emacs.scm (emacs-prop-menu): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* services: mpd: Remove the mpd-file field.Peter Mikkelsen2017-08-31
| | | | | | | | | | | | | | | Since MPD switches user, the pid-file must be in a writable dir. This is now always /var/run/mpd/(user)/pid. * gnu/services/audio.scm (mpd-service-type): Add a activation-service extension. (<mpd-configuration>)[pid-file]: Remove. (mpd-service): Rename to... (mpd-shepherd-service): ... this. (mpd-file-name, mpd-service-activation): New procedure. * doc/guix.texi (Audio Services): Document the changes. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: knot: Update to 2.5.4.Tobias Geerinckx-Rice2017-08-31
| | | | * gnu/packages/dns.scm (knot): Update to 2.5.4.
* gnu: Add pt-scotch32.Paul Garlick2017-08-31
| | | | | | * gnu/packages/maths.scm (pt-scotch32): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add "scotch32".Paul Garlick2017-08-31
| | | | | | * gnu/packages/maths.scm (scotch32): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: bioinformatics: Work around more "dotless @INC" build failures.Ben Woodcroft2017-08-31
| | | | | * gnu/packages/bioinformatics.scm (ncbi-vdb, sra-tools)[arguments]: Add 'set-perl-search-path' phase.
* gnu: ruby-2.2.7: Fix CVE-2017-{0899,0900,0901,0902}.Ben Woodcroft2017-08-31
| | | | | | * gnu/packages/patches/ruby-2.2.7-rubygems-2613-ruby22.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/ruby.scm (ruby-2.2.7)[source]: Use it.
* gnu: ruby-2.3.4: Fix CVE-2017-{0899,0900,0901,0902}.Ben Woodcroft2017-08-31
| | | | | | * gnu/packages/patches/ruby-2.3.4-rubygems-2613-ruby23.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/ruby.scm (ruby-2.3.4)[source]: Use it.
* gnu: ruby-2.4.1: Fix CVE-2017-{0899,0900,0901,0902}.Ben Woodcroft2017-08-31
| | | | | | | * gnu/packages/patches/ruby-rubygems-2612-ruby24.patch, gnu/packages/patches/ruby-rubygems-2613-ruby24.patch: New files. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/ruby.scm (ruby-2.4.1)[source]: Use them.
* gnu: metabat: Update to 2.11.3.Ben Woodcroft2017-08-31
| | | | | | | * gnu/packages/bioinformatics.scm (metabat): Update to 2.11.3. [source]: Use git-fetch. Remove boost-related patch. * gnu/packages/patches/metabat-fix-boost-issue.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
* gnu: vlc: Fix build and clean up expression.Marius Bakke2017-08-31
| | | | | | | | | | | Commit 3e0c54bf4de0b5e9d77271613287457dbcd64103 touches 'configure.ac' which in turn regenerates 'po/Makefile.in.in' with the wrong SHELL and breaks install. While at it, consolidate the other patching phases and remove unneeded inputs. * gnu/packages/video.scm (vlc)[arguments]: Consolidate patching phases into a 'patch-source' phase and run it immediately after unpack. [native-inputs]: Remove AUTOCONF, AUTOMAKE and LIBTOOL.
* gnu: vlc: Recover lost phase.Marius Bakke2017-08-31
| | | | | | | This is a followup to eb1f2420d5d72bb5d178a744cffb4978c7446286. * gnu/packages/video.scm (vlc)[arguments]: Run the fix-livemedia-utils-prefix phase before configure.
* gnu: gd: Replace with 2.2.5.Marius Bakke2017-08-31
| | | | | | | | | | | Fixes CVE-2017-6362 and CVE-2017-7890. * gnu/packages/gd.scm (gd)[replacement]: New field. (gd-2.2.5): New variable. * gnu/packages/php.scm (gd-for-php): Remove variable (php)[inputs]: Replace GD-FOR-PHP with GD-2.2.5. * gnu/packages/patches/gd-CVE-2017-7890.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
* gnu: claws-mail: Update to 3.15.1.Tobias Geerinckx-Rice2017-08-31
| | | | * gnu/packages/mail.scm (claws-mail): Update to 3.15.1.
* gnu: Add texlive-latex-acmart.Ludovic Courtès2017-08-31
| | | | * gnu/packages/tex.scm (texlive-latex-acmart): New variable.
* gnu: mbedtls-apache: Update to 2.6.0 [fixes CVE-2017-14032].Marius Bakke2017-08-30
| | | | * gnu/packages/tls.scm (mbedtls-apache): Update to 2.6.0.
* gnu: vlc: Remove obsolete test workaround.Marius Bakke2017-08-30
| | | | | * gnu/packages/video.scm (vlc)[arguments]: Drop ac_cv_c_fast_math from #:configure-flags. Remove related 'bootstrap' phase.
* gnu: vlc: Build with modular qt.Marius Bakke2017-08-30
| | | | | | * gnu/packages/video.scm (vlc)[inputs]: Remove QT. Add QTBASE and QTX11EXTRAS. [arguments]: Add CXXFLAGS=-std=gnu++11 to #:configure-flags. Add 'fix-qt-include' phase.
* gnu: qemu: Update to 2.10.0.Marius Bakke2017-08-30
| | | | | | | | | | | | | | | | | | * gnu/packages/patches/qemu-CVE-2017-10664.patch, gnu/packages/patches/qemu-CVE-2017-10806.patch, gnu/packages/patches/qemu-CVE-2017-10911.patch, gnu/packages/patches/qemu-CVE-2017-11334.patch, gnu/packages/patches/qemu-CVE-2017-11434.patch, gnu/packages/patches/qemu-CVE-2017-12809.patch: gnu/packages/patches/qemu-CVE-2017-7493.patch, gnu/packages/patches/qemu-CVE-2017-8112.patch, gnu/packages/patches/qemu-CVE-2017-8309.patch, gnu/packages/patches/qemu-CVE-2017-8379.patch, gnu/packages/patches/qemu-CVE-2017-8380.patch, gnu/packages/patches/qemu-CVE-2017-9524.patch: Delete files. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/virtualization.scm (qemu): Update to 2.10.0. [source](patches): Remove.
* gnu: jsoncpp: Update to 1.8.2.Marius Bakke2017-08-30
| | | | * gnu/packages/serialization.scm (jsoncpp): Update to 1.8.2.
* gnu: multiqc: Update to 1.2.Ricardo Wurmus2017-08-30
| | | | | | | | | | * gnu/packages/bioinformatics.scm (multiqc): Update to 1.2. [source]: Remove patches. [arguments]: Remove to enable tests. [propagated-inputs]: Add python-spectra, python-requests, python-markdown, python-lzstring. * gnu/packages/patches/multiqc-fix-git-subprocess-error.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
* gnu: Add python-spectra.Ricardo Wurmus2017-08-30
| | | | * gnu/packages/python.scm (python-spectra, python2-spectra): New variables.
* gnu: Add python-colormath.Ricardo Wurmus2017-08-30
| | | | | * gnu/packages/python.scm (python-colormath, python2-colormath): New variables.
* gnu: python-jinja2: Update to 2.9.6.Ricardo Wurmus2017-08-30
| | | | | * gnu/packages/python.scm (python-jinja2): Update to 2.9.6. [arguments]: Add build phase "delete-incompatible-files".
* gnu: Add python-lzstring.Ricardo Wurmus2017-08-30
| | | | | * gnu/packages/compression.scm (python-lzstring, python2-lzstring): New variables.
* gnu: hyperrogue: Update to 10.0g.Kei Kebreau2017-08-30
| | | | * gnu/packages/games.scm (hyperrogue): Update to 10.0g.
* gnu: Add linkchecker.Arun Isaac2017-08-30
| | | | * gnu/packages/web.scm (linkchecker): New variable.
* gnu: kdevelop: Update to 5.1.2.Thomas Danckaert2017-08-30
| | | | * gnu/packages/kde.scm (kdevelop, kdevplatform): Update to 5.1.2.
* gnu: coda: Update to 2.18.2.Thomas Danckaert2017-08-30
| | | | * gnu/packages/maths.scm (coda): Update to 2.18.2.
* gnu: Add fzy.Stefan Reichör2017-08-30
| | | | * gnu/packages/shellutils.scm (fzy): New variable.
* gnu: wine: Update to 2.0.2.Rutger Helling2017-08-30
| | | | * gnu/packages/wine.scm (wine): Update to 2.0.2.
* gnu: electrum: Update to 2.9.3.Carlo Zancanaro2017-08-30
| | | | | * gnu/packages/finance.scm (electrum): Update to 2.9.3. [inputs]: Add python2-pyaes, python2-pysocks. Remove python2-slowaes.
* gnu: Add python-pyaes.Carlo Zancanaro2017-08-30
| | | | * gnu/packages/python.scm (python-pyaes, python2-pyaes): New variables.
* gnu: Add python-pysocks.Carlo Zancanaro2017-08-30
| | | | * gnu/packages/python.scm (python-pysocks, python2-pysocks): New variables.
* gnu: dtach: Install man page.Tobias Geerinckx-Rice2017-08-30
| | | | * gnu/packages/screen.scm (dtach)[arguments]: Install the dtach(1) man page.
* gnu: nginx: Install man page.Tobias Geerinckx-Rice2017-08-30
| | | | | * gnu/packages/web.scm (nginx)[arguments]: Install the nginx(8) man page, and add a comment about the non-GNU configure script.
* Update e-mail for Kei Kebreau.Kei Kebreau2017-08-29
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * .mailmap: Map kei@openmailbox.org to current address. * gnu/local.mk: Replace kei@openmailbox.org to current address. * gnu/packages/backup.scm: Likewise. * gnu/packages/calendar.scm: Likewise. * gnu/packages/check.scm: Likewise. * gnu/packages/compression.scm: Likewise. * gnu/packages/documentation.scm: Likewise. * gnu/packages/emacs.scm: Likewise. * gnu/packages/fltk.scm: Likewise. * gnu/packages/freedesktop.scm: Likewise. * gnu/packages/game-development.scm: Likewise. * gnu/packages/games.scm: Likewise. * gnu/packages/gnome.scm: Likewise. * gnu/packages/gnustep.scm: Likewise. * gnu/packages/gtk.scm: Likewise. * gnu/packages/hexedit.scm: Likewise. * gnu/packages/image.scm: Likewise. * gnu/packages/maths.scm: Likewise. * gnu/packages/music.scm: Likewise. * gnu/packages/xfce.scm: Likewise. * gnu/packages/python.scm: Likewise. * gnu/packages/tcl.scm: Likewise. * gnu/packages/textutils.scm: Likewise. * gnu/packages/video.scm: Likewise. * gnu/packages/w3m.scm: Likewise. * gnu/packages/web.scm: Likewise. * gnu/packages/web-browsers.scm: Likewise. * gnu/packages/patches/wmfire-update-for-new-gdk-versions.patch: Likewise.
* gnu: perl-tk: Update to 804.034.Tobias Geerinckx-Rice2017-08-29
| | | | * gnu/packages/tcl.scm (perl-tk): Update to 804.034.
* gnu: font-mathjax, js-mathjax: Remove hard-coded version.Tobias Geerinckx-Rice2017-08-29
| | | | | * gnu/package-s/javascript.scm (font-mathjax, js-mathjax)[arguments]: Re-use font-mathjax's ‘version’ field instead of duplicating the version number.
* gnu: font-mathjax: Update to 2.7.2.Tobias Geerinckx-Rice2017-08-29
| | | | * gnu/packages/javascript.scm (font-mathjax): Update to 2.7.2.
* gnu: tiled: Update to 1.0.3.Tobias Geerinckx-Rice2017-08-29
| | | | * gnu/packages/game-development.scm (tiled): Update to 1.0.3.
* gnu: libgcrypt: Fix CVE-2017-0379.Efraim Flashner2017-08-29
| | | | | * gnu/packages/gnupg.scm (libgcrypt)[replacement]: New field. (libgcrypt/fixed): New variable.
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