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2016-07-28gnu: r-s4vectors: Update to 0.10.2.Ben Woodcroft
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.10.2.
2016-07-28gnu: mysql: Update to 5.7.13 [fixes CVE-2016-{3477,3521,3615,5440}].Leo Famulari
* gnu/packages/patches/mysql-fix-failing-test.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/databases.scm (mysql): Update to 5.7.13.
2016-07-28gnu: the-silver-searcher: Update to 0.32.0.Tomáš Čech
* gnu/packages/code.scm(the-silver-searcher): Update to 0.32.0.
2016-07-27gnu: imagemagick: Update to 6.9.5-3.Leo Famulari
* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.5-3.
2016-07-27gnu: mariadb: Update to 10.1.16.Leo Famulari
* gnu/packages/databases.scm (mariadb): Update to 10.1.16.
2016-07-27gnu: calibre: Update to 2.63.0.Alex Griffin
* gnu/packages/ebook.scm (calibre): Update to 2.63.0. [inputs]: Remove unnecessary imagemagick dependency. [phases]: Use modify-phases. * gnu/packages/patches/calibre-drop-unrar.patch: Update for new version. Signed-off-by: Roel Janssen <roel@gnu.org>
2016-07-27system: Source /etc/environment before $HOME/.guix-profile/etc/profile.Carlos Sánchez de La Lama
* gnu/system.scm (operating-system-etc-service) <profile>: Move sourcing of /etc/environment before that of $HOME/.guix-profile/etc/profile. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-07-27gnu: krona-tools: Update to 2.7.Ben Woodcroft
* gnu/packages/web.scm (krona-tools): Update to 2.7. [arguments]: Delete 'build' phase. Install new scripts.
2016-07-27gnu: diamond: Update to 0.8.16.Ben Woodcroft
* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.16.
2016-07-27gnu: guix: Update revision number in version.Andreas Enge
This is a follow-up to commit 95af24a2f1fb58eb9e6ee902c9330534f0aca9f3. Reported by Alex Kost <alezost@gmail.com>.
2016-07-27tests: Use unbuffered input ports when decompressing from 'guix publish'.Ludovic Courtès
Fixes <http://bugs.gnu.org/24060>. Reported by Chris Marusich <cmmarusich@gmail.com>. * tests/publish.scm (http-get-port): Explicitly call 'open-socket-for-uri' and add calls to 'setvbuf'.
2016-07-27zlib: Protect against non-empty port internal buffers.Ludovic Courtès
* guix/zlib.scm (make-gzip-input-port)[gzfile]: Error out if (drain-input port) returns a non-empty string. * guix/zlib.scm (make-gzip-output-port)[gzfile]: Call 'force-output'.
2016-07-27zlib: Clarify when 'gzread!' can return zero.Ludovic Courtès
* guix/zlib.scm (gzread!): Augment docstring to clarify when zero is returned (based on reading zlib code). (make-gzip-input-port)[read!]: Remove scary comment.
2016-07-27gnu: magit: Fix rebase commands that require perl.Alex Griffin
* gnu/packages/emacs.scm (magit)[inputs]: Add 'perl'. [arguments]: Adjust 'patch-exec-paths' phase to make some rebase commands find 'perl'. Signed-off-by: Alex Kost <alezost@gmail.com>
2016-07-27gnu: Add httping.Tobias Geerinckx-Rice
* gnu/packages/networking.scm (httping): New variable.
2016-07-27gnu: Add missing copyright symbol.Tobias Geerinckx-Rice
* gnu/packages/networking.scm: Add missing "©" to header comments.
2016-07-26gnu: gmime: Remove 'gpg' to 'gpg2' substitution.ng0
* gnu/packages/mail.scm (gmime)[arguments]: Remove the substitution which previously changed 'gpg' to 'gpg2' in 'patch-paths-in-tests' phase. Signed-off-by: Leo Famulari <leo@famulari.name>
2016-07-26gnu: dmd: Remove package, superseded by shepherd.Andreas Enge
* gnu/packages/admin.scm (dmd): Remove variable.
2016-07-26gnu: Add perl-db-file.Danny Milosavljevic
* gnu/packages/databases.scm (perl-db_file): New variable. Signed-off-by: Andreas Enge <andreas@enge.fr>
2016-07-26profiles: Output in 'package->manifest-entry' defaults to "out".Ludovic Courtès
Fixes <http://bugs.gnu.org/24029>. Reported by Dylan Jeffers <sapientech@openmailbox.org>. * guix/profiles.scm (package->manifest-entry): Change #:output to default to "out". (packages->manifest): Add 'package?' in second 'match' clause. * tests/profiles.scm ("package->manifest-entry defaults to \"out\""): New test.
2016-07-26environment: Set 'GUIX_ENVIRONMENT' to the profile.Ludovic Courtès
* guix/scripts/environment.scm (create-environment): Set 'GUIX_ENVIRONMENT' to PROFILE. * tests/guix-environment.sh: Test it. * doc/guix.texi (Invoking guix environment): Document it.
2016-07-26import: pypi: Correctly handle new-style URLs.Ludovic Courtès
Fixes <http://bugs.gnu.org/23997>. * guix/import/pypi.scm (guix-package->pypi-name): Rewrite using 'basename' and 'hyphen-package-name->name+version'. * tests/pypi.scm ("guix-package->pypi-name, old URL style") ("guix-package->pypi-name, new URL style"): New tests.
2016-07-26doc: Explain authentication in "System Installation".Ludovic Courtès
Suggested by Vincent Legoll <vincent.legoll@gmail.com>. * doc/guix.texi (OPENPGP-SIGNING-KEY-ID): New constant. (Binary Installation): Use it. (USB Stick Installation): Copy and adjust the authentication bit from "Binary Installation".
2016-07-26doc: Better illustration use of package revision numbers.ng0
* doc/guix.texi (Version Numbers): Add the revision to the example of the git package used in 7.6.3. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-07-26gnu: icecat: Install icons.Alex Griffin
* gnu/packages/gnuzilla.scm (icecat)[arguments]: Add 'install-icons' phase. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-07-26gnu: Add haveged.Tobias Geerinckx-Rice
* gnu/packages/linux.scm (haveged): New variable.
2016-07-26gnu: Add perceptualdiff.Tobias Geerinckx-Rice
* gnu/packages/image.scm (perceptualdiff): New variable.
2016-07-26gnu: linux-libre@4.1: Update to 4.1.28.Mark H Weaver
* gnu/packages/linux.scm (linux-libre-4.1): Update to 4.1.28.
2016-07-26gnu: linux-libre: Update to 4.7.Mark H Weaver
* gnu/packages/linux.scm (linux-libre): Update to 4.7. * gnu/packages/linux-libre-4.7-x86_64.conf, gnu/packages/linux-libre-4.7-i686.conf: New files. * gnu/packages/linux-libre-4.6-x86_64.conf, gnu/packages/linux-libre-4.6-i686.conf: Delete files. * Makefile.am (KCONFIGS): Update accordingly.
2016-07-26gnu: calibre: Build with non-modular Qt.Andreas Enge
* gnu/packages/ebook.scm (calibre)[native-inputs]: Replace QTBASE by QT. [inputs]: Replace QTBASE by QT and PYTHON2-PYQT by PYTHON2-PYQT-5.5. This essentially reverts commit 76806c54ed72f8f04079bbb187b186b833c103e1. Reported by Roel Janssen <roel@gnu.org>.
2016-07-26gnu: pyqt: Add versions based on non-modular Qt 5.5.Andreas Enge
* gnu/packages/qt.scm (python-pyqt-5.5, python2-pyqt-5.5): New variables.
2016-07-25gnu: guix: Update development snapshot.Andreas Enge
* gnu/packages/package-management.scm (guix-devel): Update to 97c8aef.
2016-07-25system: Add mapped devices for RAID.Andreas Enge
* gnu/system/mapped-devices.scm (raid-device-mapping, open-raid-device, close-raid-device): New variables. * doc/guix.texi (Mapped Devices): Add documentation for RAID devices, reorganize documentation for LUKS devices. Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2016-07-25doc: Explain when guix edit is read-only.myglc2
* doc/guix.texi (Invoking guix edit): Explain when you can and can't edit the recipe. Signed-off-by: Alex Kost <alezost@gmail.com>
2016-07-25gnu: emacs-solarized-theme: Remove unneeded dependencies.Alex Kost
* gnu/packages/emacs.scm (emacs-solarized-theme)[propagated-inputs]: Remove 'emacs-f' and 'emacs-s'.
2016-07-25gnu: emacs: Install site-start.el in non-versioned directory.Alex Kost
Reported by Ricardo Wurmus on #guix. * gnu/packages/emacs.scm (emacs)[arguments]: Put "site-start.el" in "/share/emacs/site-lisp" instead of "/share/emacs/<version>/site-lisp" to let inherited package with another version find it.
2016-07-25gnu: Add guile-daemon.Alex Kost
* gnu/packages/guile.scm (guile-daemon): New variable.
2016-07-25gnu: Add guile-xosd.Alex Kost
* gnu/packages/guile.scm (guile-xosd): New variable.
2016-07-25gnu: Add xdpyprobe.Alex Kost
* gnu/packages/xdisorg.scm (xdpyprobe): New variable.
2016-07-25doc: Describe how to make X server find TrueType fonts.Alex Kost
* doc/guix.texi (Application Setup): Document how to add TrueType fonts installed in a Guix profile to the X server font path.
2016-07-25profiles: Add fonts-dir-file hook.Alex Kost
* guix/profiles.scm (fonts-dir-file): New procedure. (%default-profile-hooks): Add it.
2016-07-25gnu: mkfontdir: Do not propagate 'mkfontscale'.Alex Kost
* gnu/packages/xorg.scm (mkfontdir)[propagated-inputs]: Move 'mkfontscale' to ... [inputs]: ... here. [arguments]: Add 'wrap-mkfontdir' phase.
2016-07-25gnu: Add xfd.Alex Kost
* gnu/packages/xorg.scm (xfd): New variable.
2016-07-25gnu: Add xfontsel.Alex Kost
* gnu/packages/xorg.scm (xfontsel): New variable.
2016-07-25gnu: sbcl: Update to 1.3.7.Andy Patterson
* gnu/packages/lisp.scm (sbcl): Update to 1.3.7. [arguments]: During the patch-unix-tool-paths phase, avoid running substitute* on a utf-16-be encoded file. Signed-off-by: 宋文武 <iyzsong@gmail.com>
2016-07-25gnu: ecl: Wrap with PATH, CPATH, LIBRARY_PATH, and LD_LIBRARY_PATH.Andy Patterson
* gnu/packages/lisp.scm (ecl)[arguments]: Add 'wrap' phase. Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2016-07-25gnu: ecl: Enable tests.Andy Patterson
* gnu/packages/lisp.scm (ecl): Enable tests. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-07-25gnu: ecl: Update to 16.1.2.Andy Patterson
* gnu/packages/lisp.scm (ecl): Update to 16.1.2. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-07-25gnu: gnupg@2.1: Use 'modify-phases'.Efraim Flashner
* gnu/packages/gnupg.scm (gnupg@2.1)[arguments]: Use 'modify-phases' syntax.
2016-07-25gnu: hdup: Update source url.Efraim Flashner
* gnu/packages/backup.scm (hdup)[source]: Update url.
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