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2017-07-09gnu: deeptools: Update to 2.5.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (deeptools): Update to 2.5.1. [arguments]: Remove. [native-inputs]: Use "python-" instead of "python2-" variants. [inputs]: Likewise; add python-py2bit.
2017-07-09gnu: Add python-py2bit.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (python-py2bit): New variable.
2017-07-09gnu: Add java-jgit-4.2.Ricardo Wurmus
* gnu/packages/version-control.scm (java-jgit-4.2): New variable.
2017-07-09gnu: Add java-jgit.Ricardo Wurmus
* gnu/packages/version-control.scm (java-jgit): New variable.
2017-07-09gnu: Add java-slf4j-api.Ricardo Wurmus
* gnu/packages/java.scm (java-slf4j-api): New variable.
2017-07-09gnu: Add java-javaewah.Ricardo Wurmus
* gnu/packages/java.scm (java-javaewah): New variable.
2017-07-09gnu: Add java-classpathx-servletapiRicardo Wurmus
* gnu/packages/java.scm (java-classpathx-servletapi): New variable.
2017-07-09gnu: youtube-dl: Update to 2017.07.09.Tobias Geerinckx-Rice
* gnu/packages/video.scm (youtube-dl): Update to 2017.07.09.
2017-07-09gnu: libjpeg-turbo: Update to 1.5.2.Marius Bakke
* gnu/packages/image.scm (libjpeg-turbo): Update to 1.5.2. [arguments]<#:phases>: Remove.
2017-07-09gnu: you-get: Update to 0.4.775.Feng Shu
* gnu/packages/video.scm (you-get): Update to 0.4.775. Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
2017-07-09gnu: poppler: Use an ABI-compatible replacement to fix CVE-2017-9776.Leo Famulari
This is a followup to commit 95bbaa02aa63bc5eae36f686f1ed9915663aa4cf. See <https://bugs.gnu.org/27621> for more information. Poppler 0.56.0's ABI is not compatible with Poppler 0.52.0, so it's not possible to graft the newer version in place of the older one. This change leaves CVE-2017-9775 unfixed for now. * gnu/packages/patches/poppler-CVE-2017-9776.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/pdf.scm (poppler-0.56.0): Replace with ... (poppler/fixed): ... new variable. (poppler)[replacement]: Replaced with poppler/fixed.
2017-07-09gnu: sshuttle: Update to 0.78.3.Tobias Geerinckx-Rice
* gnu/packages/vpn.scm (sshuttle): Update to 0.78.3.
2017-07-08gnu: wxmaxima: Update to 17.05.0.Kei Kebreau
* gnu/packages/maths.scm (wxmaxima): Update to 17.05.0. [source]: Update URL and add file-name. [native-inputs]: Add autoconf, automake and gettext-minimal. [arguments]: Add 'autoconf' phase.
2017-07-08gnu: font-gnu-unifont: Update to 10.0.04.Efraim Flashner
* gnu/packages/fonts.scm (font-gnu-unifont): Update to 10.0.04.
2017-07-08gnu: blast+: Update to 2.6.0.Ben Woodcroft
* gnu/packages/bioinformatics.scm (blast+): Update to 2.6.0. [origin]: Remove bundled pcre. Add patch. [arguments]: Replace paths in run_with_lock.c. Configure with pcre. [inputs]: Add pcre, perl, python. * gnu/packages/patches/blast+-fix-makefile.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it.
2017-07-07gnu: maxima: Ensure gcc is available at runtime.Kei Kebreau
* gnu/packages/maths.scm (maxima)[inputs]: Add gcc. [arguments]: Use modify-phases syntax. Add 'set-gcc-path' phase.
2017-07-07gnu: perl-dbd-mysql: Update to 4.043.Leo Famulari
* gnu/packages/databases.scm (perl-dbd-mysql): Update to 4.043.
2017-07-07gnu: python-pyopenssl: Fix test failure on 32-bit platforms.Marius Bakke
* gnu/packages/patches/python-pyopenssl-17.1.0-test-overflow.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/python.scm (python-pyopenssl)[source]: Use it.
2017-07-07gnu: irssi: Update to 1.0.4 [fixes CVE-2017-{10965,10966}].Leo Famulari
* gnu/packages/irc.scm (irssi): Update to 1.0.4.
2017-07-07gnu: webkitgtk: Update to 2.16.5.Mark H Weaver
* gnu/packages/webkit.scm (webkitgtk): Update to 2.16.5.
2017-07-07gnu: rdma-core: Update to 14.Tobias Geerinckx-Rice
* gnu/packages/linux.scm (rdma-core): Update to 14.
2017-07-07gnu: catimg: Update to 2.3.2.Tobias Geerinckx-Rice
* gnu/packages/image-viewers.scm (catimg): Update to 2.3.2.
2017-07-07gnu: python-parsedatetime: Update to 2.4.Leo Famulari
* gnu/packages/python.scm (python-parsedatetime, python2-parsedatetime): Update to 2.4.
2017-07-07gnu: python-icalendar: Update to 3.11.5.Leo Famulari
* gnu/packages/python.scm (python-icalendar): Update to 3.11.5.
2017-07-07gnu: libtiff: Fix CVE-2017-{9936,10688}.Alex Vong
* gnu/packages/patches/libtiff-CVE-2017-9936.patch, gnu/packages/patches/libtiff-CVE-2017-10688.patch: New files. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/image.scm (libtiff-4.0.8)[source]: Use them. Signed-off-by: Leo Famulari <leo@famulari.name>
2017-07-06gnu: xorg-server: Fix CVE-2017-{10971,10972}.Kei Kebreau
* gnu/packages/patches/xorg-server-CVE-2017-10971.patch, gnu/packages/patches/xorg-server-CVE-2017-10972.patch: New files. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/xorg.scm (xorg-server)[source]: Use them. Signed-off-by: Leo Famulari <leo@famulari.name>
2017-07-07gnu: youtube-dl: Update to 2017.07.02.Alex Vong
* gnu/packages/video.scm (youtube-dl): Update to 2017.07.02. Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
2017-07-06Revert "gnu: blast+: Update to 2.6.0."Leo Famulari
This reverts commit 18dea67dc3a42d782b34b551304748346f173184.
2017-07-07gnu: shadow: Correctly match the system type.Ludovic Courtès
* gnu/packages/admin.scm (shadow)[inputs]: Use 'string-contains' instead of 'string-prefix?' when matching the system type.
2017-07-06gnu: linux-libre@4.9: Update to 4.9.36.Mark H Weaver
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.36.
2017-07-06gnu: linux-libre@4.4: Update to 4.4.76.Mark H Weaver
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.76.
2017-07-06gnu: iproute: Update to 4.12.0.Tobias Geerinckx-Rice
* gnu/packages/linux.scm (iproute): Update to 4.12.0.
2017-07-06gnu: xpra: Update to 2.0.3.Rutger Helling
* gnu/packages/xorg.scm (xpra): Update to 2.0.3. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
2017-07-06gnu: freeipmi: Remove readline from inputs.Efraim Flashner
This is a follow-up to 694b7c3180bd8711843f904a4ea0ec5ad4d3f2bb. * gnu/packages/freeimpi.scm (freeipmi)[inputs]: Really remove readline.
2017-07-06gnu: freeipmi: Update to 1.5.6.Efraim Flashner
* gnu/packages/freeipmi.scm (freeipmi): Update to 1.5.6. [inputs]: Remove readline.
2017-07-06gnu: zstd: Update to 1.3.0.Tobias Geerinckx-Rice
* gnu/packages/compression.scm (zstd): Update to 1.3.0.
2017-07-06gnu: libvirt: Update to 3.5.0.Tobias Geerinckx-Rice
* gnu/packages/qemu.scm (libvirt): Update to 3.5.0.
2017-07-06gnu: bash-completion: Update to 2.6.Tobias Geerinckx-Rice
* gnu/packages/bash.scm (bash-completion): Update to 2.6.
2017-07-06gnu: mariadb: Update to 10.1.25.Marius Bakke
* gnu/packages/databases.scm (mariadb): Update to 10.1.25.
2017-07-06gnu: strace: Update to 4.18.Marius Bakke
* gnu/packages/linux.scm (strace): Update to 4.18.
2017-07-06gnu: xscreensaver: Update to 5.37.Marius Bakke
* gnu/packages/xdisorg.scm (xscreensaver): Update to 5.37.
2017-07-06gnu: artanis: Update source URL.Ludovic Courtès
* gnu/packages/guile.scm (artanis)[source]: Change URL to mirror://gnu.
2017-07-05gnu: julia: Add support for aarch64-linux.Efraim Flashner
* gnu/packages/julia.scm (julia)[arguments]: Add make-flag argument for aarch64-linux. [supported-systems]: Add aarch64-linux.
2017-07-05gnu: gcompris: Update to 17.05.Efraim Flashner
* gnu/packages/education.scm (gcompris): Update to 17.05.
2017-07-05gnu: gcc@6: Update to 6.4.0.Efraim Flashner
* gnu/packages/gcc.scm (gcc@6, gfortran@6): Update to 6.4.0.
2017-07-05gnu: net-tools: Remove `hostname` from description.Leo Famulari
This is a followup to commit c9e0a44eec12a1e673b518264a7cbc0883670cf5. * gnu/packages/linux.scm (net-tools)[description]: Update description.
2017-07-05gnu: inet-utils: Mention `hostname` in description.Leo Famulari
* gnu/packages/admin.scm (inetutils)[description]: Update description.
2017-07-05gnu: tmux: Update to 2.5.Stefan Reichör
* gnu/packages/tmux.scm (tmux): Update to 2.5. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2017-07-05gnu: alpine: Use new URL.ng0
* gnu/packages/mail.scm (alpine)[source]: Use new URL for download. (home-page): Use new URL. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2017-07-04gnu: shepherd: Allow cross-compilation.Ludovic Courtès
* gnu/packages/admin.scm (shepherd)[native-inputs]: Add GUILE-2.0.
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