fd11c0fd3d
gnu: KDE Frameworks: Update to 5.54.0.
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* gnu/packages/patches/kio-search-smbd-on-PATH.patch: Adjust context.
* gnu/packages/kde-frameworks.scm (kconfig): Update to 5.54.0.
[native-inputs]: Add DBUS.
[arguments]: Run tests with "dbus-launch".
(kio): Update to 5.54.1.
[inputs]: Add KCRASH.
(breeze-icons): Update to 5.54.0.
[arguments]: Remove.
(extra-cmake-modules, attica, bluez-qt, kapidox, karchive,
kcodecs, kcoreaddons, kdbusaddons, kdnssd, kguiaddons, ki18n, kidletime,
kirigami, kitemmodels, kitemviews, kplotting, ksyntaxhighlighting, kwayland,
kwidgetsaddons, kwindowsystem, modemmanager-qt, networkmanager-qt,
oxygen-icons, prison, qqc2-desktop-style, solid, sonnet, threadweaver,
kactivities, kauth, kcompletion, kcrash, kdoctools, kfilemetadata,
kimageformats, kjobwidgets, knotifications, kpackage, kpty, kunitconversion,
baloo, kactivities-stats, kbookmarks, kcmutils, kconfigwidgets, kdeclarative,
kded, kdesignerplugin, kdesu, kdewebkit, kemoticons, kglobalaccel,
kiconthemes, kinit, knewstuff, knotifyconfig, kparts, kpeople, krunner,
kservice, ktexteditor, ktextwidgets, kwallet, kxmlgui, kxmlrpcclient,
plasma-framework, kde-frameworkintegration, kdelibs4support, khtml, kjs,
kjsembed, kmediaplayer, kross): Update to 5.54.0.
2019-02-12 23:49:02 +01:00
cdf7fea183
gnu: Add copyright line for commit c1144c78ad.
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* gnu/packages/kde-plasma.scm: Add copyright header.
2019-02-12 23:49:02 +01:00
bec2a2e10e
gnu: Move KDE Plasma components to separate module.
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* gnu/packages/kde.scm (libkscreen, libksysguard): Move from here ...
* gnu/packages/kde-plasma.scm: ... to here. New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Adjust accordingly.
2019-02-12 23:49:02 +01:00
60562ec26b
gnu: libjpeg: Use HTTPS URLs.
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* gnu/packages/image.scm (libjpeg, libjpeg-8)[source, home-page]: Use HTTPS.
2019-02-12 23:49:02 +01:00
be4d840cca
gnu: Add python-language-server.
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* gnu/packages/python-xyz.scm (python-language-server): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-02-12 23:30:17 +01:00
56f4ad47bd
gnu: Add python-docstyle.
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* gnu/packages/python-xyz.scm (python-docstyle): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-02-12 23:30:16 +01:00
346c87522e
gnu: Add python-jsonrpc-server.
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* gnu/packages/python-xyz.scm (python-jsonrpc-server): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-02-12 23:30:16 +01:00
2c880ef4e5
gnu: Add python-rope.
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* gnu/packages/python-xyz.scm (python-rope): New variable.
Co-authored-by: Brett Gilio <brettg@posteo.net>
2019-02-12 23:30:16 +01:00
afb2971506
gnu: python2-rope: Change comment to reflect partial python3 support
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* gnu/packages/python-xyz.scm (python2-rope): Change comment to reflect
partial python 3 support
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-02-12 23:30:16 +01:00
201253674b
pull: Speed up the new/upgraded package computation.
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* guix/scripts/pull.scm (new/upgraded-packages): OLD no longer stores
all the versions of each package. Remove 'vhash-fold*' call and reduce
the number of 'version>?' calls when computing UPGRADED.
2019-02-12 23:30:16 +01:00
cf0eacceb4
pull: Move profile comparison to 'new/upgraded-packages'.
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* guix/scripts/pull.scm (new/upgraded-packages): New procedure, with
code formerly in 'display-new/upgraded-packages'.
(display-new/upgraded-packages): Use it.
2019-02-12 23:30:16 +01:00
739380542d
inferior: Add 'inferior-available-packages'.
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* guix/inferior.scm (inferior-available-packages): New procedure.
* tests/inferior.scm ("inferior-available-packages"): New test.
2019-02-12 23:30:16 +01:00
46765f82db
pull: Use 'fold-available-packages' for the current package list.
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* guix/scripts/pull.scm (display-profile-news): Use
'fold-available-packages' instead of 'fold-packages' to compute OLD.
(profile-package-alist): Use 'inferior-available-packages'.
2019-02-12 23:30:16 +01:00
e2760d1a8b
gnu: Flatpak: Update to 1.2.3 [security fixes].
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From 'NEWS' in the source distribution:
The CVE-2019-5736 runc vulnerability is about using /proc/self/exe
to modify the host side binary from the sandbox. This mostly does not
affect flatpak since the flatpak sandbox is not run with root permissions.
However, there is one case (running the apply_extra script for system
installs) where this happens, so this release contains a fix for that.
* Don't expose /proc in apply_extra script sandbox.
* gnu/packages/package-management.scm (flatpak): Update to 1.2.3.
2019-02-12 17:14:09 -05:00
dbf87ecb52
gnu: Add frrouting.
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* gnu/packages/networking.scm (frrouting): New variable.
2019-02-12 22:24:27 +01:00
ea7cddaac7
gnu: Docker: Update to 18.09.2.
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* gnu/packages/docker.scm (%docker-version, docker, docker-cli): Update to
18.09.2.
(docker)[arguments]: Adjust to the Debian-specific 'iptables-legacy' lookup in
the 'patch-paths' phase.
2019-02-12 12:53:12 -05:00
ce4593ec4c
gnu: runc: Update to 1.0.0-rc6 [fixes CVE-2019-5736].
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* gnu/packages/virtualization.scm (runc): Update to 1.0.0-rc6.
[source]: Use a descriptive file-name. Add 'runc-CVE-2019-5736.patch'
* gnu/packages/patches/runc-CVE-2019-5736.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
2019-02-12 12:53:12 -05:00
571a01d8fa
gnu: lzlib: Remove minilzip comment.
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It lacks lzip's dependency on libstdc++.so and libm.so and may have its
uses.
* gnu/packages/compression.scm (lzlib): Don't judge.
2019-02-12 17:38:24 +01:00
2990422377
gnu: lzlib: Update to 1.11.
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* gnu/packages/compression.scm (lzlib): Update to 1.11.
2019-02-12 17:38:24 +01:00
76b2f08468
gnu: lzlib: Don't use NAME in source URI.
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* gnu/packages/compression.scm (lzlib)[source]: Hard-code NAME.
2019-02-12 17:38:24 +01:00
11b1c71d2e
gnu: clzip: Update to 1.11.
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* gnu/packages/compression.scm (clzip): Update to 1.11.
2019-02-12 17:38:24 +01:00
39e5d3b68d
gnu: clzip: Don't use NAME in source URI.
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* gnu/packages/compression.scm (clzip)[source]: Hard-code NAME.
2019-02-12 17:38:23 +01:00
9f4f085f9b
gnu: lunzip: Update to 1.11.
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* gnu/packages/compression.scm (lunzip): Update to 1.11.
2019-02-12 17:38:23 +01:00
a28cd47702
gnu: lunzip: Don't use NAME in source URI.
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* gnu/packages/compression.scm (lunzip)[source]: Hard-code NAME.
2019-02-12 17:38:23 +01:00
ff0e1eed32
gnu: plzip: Update to 1.8.
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* gnu/packages/compression.scm (plzip): Update to 1.8.
2019-02-12 17:38:22 +01:00
894669a787
gnu: plzip: Don't use NAME in source URI.
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* gnu/packages/compression.scm (plzip)[source]: Hard-code NAME.
2019-02-12 17:38:22 +01:00
b099b4a75a
gnu: lziprecover: Update to 1.21.
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* gnu/packages/compression.scm (lziprecover): Update to 1.21.
2019-02-12 17:38:22 +01:00
f6145bb652
gnu: lziprecover: Don't use NAME in source URI.
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* gnu/packages/compression.scm (lziprecover)[source]: Hard-code NAME.
2019-02-12 17:38:22 +01:00
da93d42413
gnu: perl-dbi: Update to 1.642.
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* gnu/packages/databases.scm (perl-dbi): Update to 1.642.
2019-02-12 17:38:21 +01:00
245e7a68e7
gnu: kyotocabinet: Update to 1.2.77.
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* gnu/packages/databases.scm (kyotocabinet): Update to 1.2.77.
2019-02-12 17:38:21 +01:00
e9bdef5fb4
gnu: os-prober: Update to 1.77.
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* gnu/packages/bootloaders.scm (os-prober): Update to 1.77.
2019-02-12 17:38:21 +01:00
51a8fc8b42
gnu: feh: Update to 3.1.2.
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* gnu/packages/image-viewers.scm (feh): Update to 3.1.2.
2019-02-12 17:38:21 +01:00
155194d97d
gnu: python-pybedtools: Update to 0.8.0 and fix build.
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From 40db2b4eae5ca61a3134cdaf7b156ed1ae9f7415 Mon Sep 17 00:00:00 2001
From: Maxim Cournoyer <maxim.cournoyer@gmail.com>
Date: Sun, 10 Feb 2019 23:39:25 -0500
Subject: [PATCH] gnu: python-pybedtools: Update to 0.8.0 and fix build.
* gnu/packages/bioinformatics.scm (python-pybedtools): Update to 0.8.0.
[phases]{disable-broken-tests}: Do not disable "test_issue_157" and
"test_to_dataframe" tests. Disable the "test_getting_example_beds".
{remove-cython-generated-files}: Add phase.
{generate-cython-extensions}: Add phase.
{check}: Move from python2-pybedtools to here. Add a scripts
subdirectory of the build directory to the PATH, so that the tests can call
them. Invoke pytest rather than nosetests.
[modules]: Move from python2-pybedtools to here.
[propagated-inputs]: Depend on the current BEDTOOLS rather than version 1.26.
[native-inputs]: Replace python-nose by python-pytest and add python-psutil.
2019-02-12 17:16:05 +01:00
b856a78c94
gnu: efilinux: Set ARCH variable on some architectures.
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Even with this patch efilinux does not build for arm*.
* gnu/packages/efi.scm (efilinux)[arguments]: On armhf-linux and
aarch64-linux set the ARCH variable apropriately.
2019-02-12 18:08:19 +02:00
385d7546e1
gnu: Add cnvkit.
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* gnu/packages/bioinformatics.scm (cnvkit): New variable.
2019-02-12 15:41:02 +01:00
c18dccffa2
gnu: Add r-dnacopy.
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* gnu/packages/bioconductor.scm (r-dnacopy): New variable.
2019-02-12 15:41:02 +01:00
ab61ce3730
gnu: python-reportlab: Update to 3.5.13.
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* gnu/packages/pdf.scm (python-reportlab): Update to 3.5.13.
[inputs]: Add freetype.
2019-02-12 15:40:58 +01:00
c86b5f1b9b
gnu: glibc@2.27: fix CVE-2018-11236, CVE-2018-11237.
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* gnu/packages/base.scm (glibc@2.27 )[sources]: Add patches.
[properties]: New field, mark CVE-2017-18269 fixed.
* gnu/packages/patches/glibc-CVE-2018-11236.patch,
gnu/packages/patches/glibc-CVE-2018-11237.patch: New files.
* gnu/local.mk (dist_patch_DATA): Register them.
2019-02-12 09:08:13 +02:00
d4c95a237c
gnu: parallel: Update to 20190122.
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* gnu/packages/parallel.scm (parallel): Update to 20190122.
2019-02-12 02:33:55 +01:00
a661af5c9a
gnu: maven-resolver-api: Don't use unstable tarball.
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* gnu/packages/maven.scm (maven-resolver-api)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2019-02-12 02:33:55 +01:00
57e3f06bbd
gnu: multipath-tools: Update to 0.7.9.
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* gnu/packages/linux.scm (multipath-tools): Update to 0.7.9.
2019-02-12 02:33:55 +01:00
34920d2adf
gnu: websockify: Don't use unstable tarball.
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* gnu/packages/web.scm (websockify)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2019-02-12 02:33:55 +01:00
2772debc74
gnu: libyajl: Don't use unstable tarball.
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* gnu/packages/web.scm (libyajl)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2019-02-12 02:33:54 +01:00
3e3414efd4
gnu: rapidjson: Don't use unstable tarball.
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* gnu/packages/web.scm (rapidjson)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2019-02-12 02:33:54 +01:00
082504addf
gnu: qjson: Don't use unstable tarball.
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* gnu/packages/web.scm (qjson)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2019-02-12 02:33:54 +01:00
20ab34c16f
gnu: fcgiwrap: Don't use unstable tarball.
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* gnu/packages/web.scm (fcgiwrap)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2019-02-12 02:33:54 +01:00
bff44abb14
gnu: mod-wsgi: Don't use unstable tarball.
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* gnu/packages/web.scm (mod-wsgi)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2019-02-12 02:33:53 +01:00
95c910f499
gnu: Guix: Update snapshot to 0.16.0-10.2637cfd.
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Fixes <https://bugs.gnu.org/34444 >.
* gnu/packages/package-management.scm (guix): Update to 0.16.0-10.2637cfd.
2019-02-11 18:13:29 -05:00
2637cfd7a4
Avoid name clash with 'build' from (guix store) and (guix status).
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Since commit 976ef2d978
2019-02-11 23:23:28 +01:00
910d0121a8
pack, vm: Fix incorrect use of 'package-transitive-propagated-inputs'.
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In practice the error was not triggered because
'package-transitive-propagated-inputs' currently returns the empty list
for these two packages.
* guix/scripts/pack.scm (gcrypt-sqlite3&co): Remove labels from the
result.
* gnu/system/vm.scm (gcrypt-sqlite3&co): Likewise.
2019-02-11 23:23:28 +01:00
Marius Bakke