11bf3b2f03
gnu: hiawatha: Update to 10.8.4.
...
* gnu/packages/web.scm (hiawatha): Update to 10.8.4.
2019-02-14 03:50:18 +01:00
811b907da7
gnu: rclone: Update to 1.46.
...
* gnu/packages/sync.scm (rclone): Update to 1.46.
[arguments]: Remove 'set-home-directory' phase.
2019-02-14 03:50:18 +01:00
d100b9bd97
gnu: rrdtool: Update to 1.7.1.
...
* gnu/packages/rrdtool.scm (rrdtool): Update to 1.7.1.
2019-02-14 03:50:18 +01:00
d71184f8a5
gnu: perl-xml-libxml: Update to 2.0134.
...
* gnu/packages/xml.scm (perl-xml-libxml): Update to 2.0134.
2019-02-14 03:50:17 +01:00
706460a357
gnu: Add trydiffoscope.
...
* gnu/packages/package-management (trydiffoscope): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
2019-02-13 18:52:19 -05:00
69c15ad8a4
gnu: qtbase: Restore compilation on linux kernels < 4.11.
...
Fixes <https://bugs.gnu.org/34431 >.
* gnu/packages/patches/qtbase-old-kernel.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register patch.
* gnu/packages/qt.scm (qtbase): Add patch.
2019-02-14 00:30:27 +01:00
58c6a93d9d
gnu: doxygen: Update home page and source URI.
...
* gnu/packages/documentation.scm (doxygen)[home-page]: Change to
<http://www.doxygen.nl >.
[source](uri): Likewise. Add sourceforge mirror.
2019-02-14 00:13:07 +01:00
fe04988953
gnu: xapian: Update to 1.4.10.
...
* gnu/packages/search.scm (xapian, python-xapian-bindings): Update to 1.4.10.
2019-02-14 00:13:07 +01:00
ce53048fb8
gnu: msmtp: Update to 1.8.3.
...
* gnu/packages/mail.scm (msmtp): Update to 1.8.3.
2019-02-14 00:13:07 +01:00
5bd0813a0f
gnu: GnuPG: Update to 2.2.13.
...
* gnu/packages/gnupg.scm (gnupg): Update to 2.2.13.
2019-02-14 00:13:07 +01:00
0988191f33
gnu: libassuan: Update to 2.5.3.
...
* gnu/packages/gnupg.scm (libassuan): Update to 2.5.3.
2019-02-14 00:13:06 +01:00
cb94d5e161
gnu: Varnish: Update to 6.1.1.
...
* gnu/packages/web.scm (varnish): Update to 6.1.1.
[native-inputs]: Add PYTHON-SPHINX.
[arguments]: Add "--disable-pcre-jit" to #:configure-flags.
2019-02-14 00:13:06 +01:00
95991e4517
gnu: Open vSwitch: Update to 2.10.1.
...
* gnu/packages/networking.scm (openvswitch): Update to 2.10.1.
2019-02-14 00:13:06 +01:00
9047603c2e
gnu: KDE Plasma: Remove unused properties.
...
* gnu/packages/kde-plasma.scm (kdecoration, kscreenlocker)[properties]: Remove.
2019-02-14 00:13:06 +01:00
d3065c8785
gnu: Restore copyright header.
...
This was mistakenly removed in bec2a2e10e
2019-02-14 00:13:06 +01:00
ed362d1652
gnu: certbot, python-acme: Update to 0.31.0.
...
* gnu/packages/tls.scm (certbot, python-acme): Update to 0.31.0.
2019-02-13 17:04:50 -05:00
8213db7c95
gnu: Add ocaml-timed.
...
* gnu/packages/ocaml.scm (ocaml-timed): New variable.
Signed-off-by: Julien Lepiller <julien@lepiller.eu>
2019-02-13 22:50:59 +01:00
7195c4f2ae
gnu: Add ocaml-bindlib.
...
* gnu/packages/ocaml.scm (ocaml-bindlib): New variable.
Signed-off-by: Julien Lepiller <julien@lepiller.eu>
2019-02-13 22:50:54 +01:00
70c7d02590
gnu: Add ocaml-earley.
...
* gnu/packages/ocaml.scm (ocaml-earley): New variable.
Signed-off-by: Julien Lepiller <julien@lepiller.eu>
2019-02-13 22:50:17 +01:00
ec23bae682
gnu: Add coq-equations.
...
* gnu/packages/coq.scm (coq-equations): New variable.
Signed-off-by: Julien Lepiller <julien@lepiller.eu>
2019-02-13 22:21:41 +01:00
6d433d6ef7
gnu: Add ELPA.
...
* gnu/packages/maths.scm (elpa, elpa-openmpi): New variables.
2019-02-13 14:08:19 -06:00
aa94524052
gnu: petsc: Upgrade to 3.10.3.
...
* gnu/packages/maths.scm (petsc): Upgrade to 3.10.3.
2019-02-13 14:08:19 -06:00
f73750e6f4
gnu: scalapack: Remove use of deprecated MPI1 symbols.
...
* gnu/packages/patches/scalapack-blacs-mpi-deprecations.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/maths.scm (scalapack)[source]: Use it.
2019-02-13 14:08:19 -06:00
2385012b89
gnu: khard: Enable tests.
...
* gnu/packages/mail.scm (khard)[arguments]: Enable test suite.
2019-02-13 21:48:12 +02:00
2de52d0cbb
gnu: khard: Update to 0.13.0.
...
* gnu/packages/mail.scm (khard): Update to 0.13.0.
2019-02-13 21:48:11 +02:00
4ee3b30945
gnu: fluxbox: All phases return #t.
...
* gnu/packages/wm.scm (fluxbox)[arguments]: All phases return #t.
2019-02-13 21:48:11 +02:00
37f7853e13
gnu: fluxbox: Install vim helper files.
...
* gnu/packages/wm.scm (fluxbox)[arguments]: Add custom phase to install
vim files.
2019-02-13 21:48:10 +02:00
28388ac8f8
gnu: vim-airline: Update to 0.10.
...
* gnu/packages/vim.scm (vim-airline): Update to 0.10.
2019-02-13 21:48:10 +02:00
91b3631821
gnu: urlscan: Update to 0.9.2.
...
* gnu/packages/mail.scm (urlscan): Update to 0.9.2.
2019-02-13 21:48:06 +02:00
0a62b62ba0
gnu: linux-libre: Update to 4.20.8.
...
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.20.8.
(%linux-libre-hash): Update hash.
2019-02-13 13:28:38 -05:00
782a18dd9d
gnu: linux-libre@4.19: Update to 4.19.21.
...
* gnu/packages/linux.scm (%linux-libre-4.19-version): Update to 4.19.21.
(%linux-libre-4.19-hash): Update hash.
2019-02-13 13:27:21 -05:00
570ef8aec5
gnu: linux-libre@4.14: Update to 4.14.99.
...
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.99.
(%linux-libre-4.14-hash): Update hash.
2019-02-13 13:26:25 -05:00
b76374fbf7
gnu: linux-libre@4.9: Update to 4.9.156.
...
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.156.
2019-02-13 13:25:42 -05:00
7b9b203a52
gnu: Add burp.
...
* gnu/packages/backup.scm (burp): New variable.
2019-02-13 15:22:59 +01:00
0df201c05f
gnu: Add emacs-ledger-mode.
...
* gnu/packages/finance.scm (emacs-ledger-mode): New variable.
2019-02-13 10:55:49 +01:00
f90ed0284a
gnu: ledger: Update to 3.1.2 [security fixes].
...
* gnu/packages/finance.scm (ledger): Update to 3.1.2.
[arguments]: Remove #:modules; remove obsolete configure flags; remove make
flags; remove phase "boost-compat"; remove custom check phase; remove
"relocate-elisp" phase; disable broken test in "check-setup" phase.
[native-inputs]: Remove emacs-minimal.
[license]: Remove gpl2+.
* gnu/packages/patches/ledger-revert-boost-python-fix.patch: Remove patch.
* gnu/local.mk (dist_patch_DATA): Remove it.
2019-02-13 10:55:49 +01:00
f6974e15cf
gnu: Fix aegisub.
...
* gnu/packages/video.scm (aegisub)[arguments]: Add phase to fix
boost headers.
2019-02-13 10:23:22 +01:00
f6f4370fee
gnu: gnome: Include system-config-printer.
...
This package enables some functionality for printers within the
gnome-control-center as well as providing a standalone configuration tool.
At the moment, due to the lack of PackageKit support within Guix, the
gnome-control-center can't help users through the process of installing this,
so make it a default package.
* gnu/packages/gnome.scm (gnome)[propagated-inputs]: Add system-config-printer.
2019-02-13 08:19:05 +00:00
dd1fcddcb8
gnu: Add system-config-printer.
...
* gnu/packages/gnome.scm (system-config-printer): New variable.
2019-02-13 08:19:05 +00:00
dd6f309ded
gnu: Add python-pycups.
...
* gnu/packages/cups.scm (python-pycups): New variable.
2019-02-13 08:19:05 +00:00
12255b3dce
gnu: Add cups-pk-helper.
...
* gnu/packages/cups.scm (cups-pk-helper): New variable.
2019-02-13 08:18:59 +00:00
e7e259a503
gnu: red-eclipse: Fix build.
...
Add a patch from the upstream repository [1] that resolves some errors that
prevent the package from building [2].
1: https://github.com/red-eclipse/base/commit/b16b4963c1ad81bb9ef784bc49
2: error: ‘____gammal_r_finite’ was not declared in this scope
* gnu/packages/games.scm (red-eclipse)[source] Add patch.
* gnu/packages/patches/red-eclipse-remove-gamma-name-hack.patch: New file
* gnu/local.mk (dist_patch_DATA): Add new patch.
2019-02-13 08:03:00 +00:00
cf0913f64e
gnu: bs1770gain: Update to 0.5.2.
...
* gnu/packages/audio.scm (bs1770gain): Update to 0.5.2.
2019-02-13 05:42:59 +01:00
0e249bdecf
gnu: libdmtx: Edit description.
...
* gnu/package/aidc.scm (libdmtx)[description]: Replace redundant OS
information with fascinating barcode facts.
2019-02-13 05:42:58 +01:00
b9a807b7b8
gnu: libdmtx: Update to 0.7.5.
...
* gnu/packages/aidc.scm (libdmtx): Update to 0.7.5.
[source]: Update. Use GIT-FETCH and GIT-FILE-NAME.
[arguments]: Disable broken test suite.
[native-inputs]: Add autoconf, automake, and libtool.
[home-page]: Update.
2019-02-13 05:42:58 +01:00
de8022ec3d
gnu: s6: Update to 2.7.2.2.
...
* gnu/packages/skarnet.scm (s6): Update to 2.7.2.2.
2019-02-13 05:42:58 +01:00
d2c8a891ee
gnu: dwm: Update to 6.2.
...
* gnu/packages/suckless.scm (dwm): Update to 6.2.
2019-02-13 05:42:58 +01:00
aaa2add871
gnu: coq-mathcomp: Don't use unstable tarball.
...
* gnu/packages/coq.scm (coq-mathcomp)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2019-02-13 05:42:58 +01:00
8b9b2210dc
gnu: coq: Don't use unstable tarball.
...
* gnu/packages/coq.scm (coq)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
[arguments]: Add 'make-git-checkout-writable' phase.
2019-02-13 05:42:57 +01:00
90325cf7e2
gnu: console-setup: Update to 1.189.
...
* gnu/packages/xorg.scm (console-setup): Update to 1.189.
2019-02-13 05:42:57 +01:00
ffbaa2564e
gnu: knot: Update to 2.7.6.
...
* gnu/packages/dns.scm (knot): Update to 2.7.6.
2019-02-13 05:42:57 +01:00
db3f5226ac
gnu: knot: Don't use NAME in source URI.
...
* gnu/packages/dns.scm (knot)[source]: Hard-code NAME.
2019-02-13 05:42:57 +01:00
0a87bc9c2b
gnu: nsd: Update to 4.1.26.
...
* gnu/packages/dns.scm (nsd): Update to 4.1.26.
2019-02-13 05:42:56 +01:00
92a3336205
gnu: yadifa: Update to 2.3.9.
...
* gnu/packages/dns.scm (yadifa): Update to 2.3.9.
2019-02-13 05:42:56 +01:00
fe99b7f77e
gnu: yadifa: Don't use NAME in source URI.
...
* gnu/packages/dns.scm (yadifa)[source]: Hard-code NAME.
2019-02-13 05:42:56 +01:00
4b76868188
gnu: gparted: Update to 0.33.0.
...
* gnu/packages/disk.scm (gparted): Update to 0.33.0.
2019-02-13 05:42:56 +01:00
acc6eb89c8
gnu: duperemove: Don't use unstable tarball.
...
* gnu/packages/disk.scm (duperemove)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2019-02-13 05:42:56 +01:00
3d2386563d
gnu: duperemove: Update to 0.11.1.
...
* gnu/packages/disk.scm (duperemove): Update to 0.11.1.
2019-02-13 05:42:55 +01:00
344e0f5621
gnu: netpbm: Fix a hard-coded path.
...
Fixes <https://bugs.gnu.org/24735 >.
* gnu/packages/netpbm.scm (netpbm)[arguments]: Patch a path in the 'configure'
phase.
2019-02-12 23:23:19 -05:00
c7cf43ddec
gnu: emacs-biblio: Update to 0.2.
...
* gnu/packages/emacs-xyz.scm (emacs-biblio): Update to 0.2.
Signed-off-by: Leo Famulari <leo@famulari.name>
2019-02-12 20:33:26 -05:00
df4b9dd1a6
gnu: LXQt: Adjust imports for KDE move.
...
This is a follow-up to commit bec2a2e10e
2019-02-13 00:43:27 +01:00
3cdd2e95e9
gnu: Add font-adobe-source-serif-pro.
...
* gnu/packages/fonts.scm (font-adobe-source-serif-pro): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
2019-02-12 18:41:33 -05:00
27e65afc10
gnu: Add font-adobe-source-sans-pro.
...
* gnu/packages/fonts.scm (font-adobe-source-sans-pro): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
2019-02-12 18:41:33 -05:00
7fafdadd42
gnu: trezor-agent: Update 0.10.0.
...
Fixes <https://bugs.gnu.org/34377 >.
* gnu/packages/finance.scm (trezor-agent): Update to 0.10.0.
[arguments]<#:phases>[fixup-agent-py]: New phase.
[native-inputs]: Add python-hidapi.
[home-page]: Use https url.
2019-02-13 00:26:03 +01:00
df724c9cfc
gnu: python-trezor-agent: Update to 0.13.0.
...
* gnu/packages/finance.scm (python-trezor-agent): Update to 0.13.0.
[propagated-inputs]: Add python-configargparse, python-daemon,
python-docutils, python-mnemonic, python-pymsgbox, python-wheel.
[native-inputs]: Add gnupg.
[synopsis]: Generalize description to hardware wallets.
[arguments]<#:phases>[remove-requires-backports-shutil-which]: New phase.
2019-02-13 00:25:41 +01:00
fd56c4be53
gnu: Add kscreenlocker.
...
* gnu/packages/kde-plasma.scm (kscreenlocker): New public variable.
Co-authored-by: Marius Bakke <mbakke@fastmail.com>
2019-02-12 23:49:02 +01:00
6a97dfff19
gnu: Add kdecoration.
...
* gnu/packages/kde-plasma.scm (kdecoration): New public variable.
Co-authored-by: Marius Bakke <mbakke@fastmail.com>
2019-02-12 23:49:02 +01:00
856e3f9cb4
gnu: KDE Plasma: Update to 5.14.5.
...
* gnu/packages/kde-plasma.scm (libkscreen): Update to 5.14.5.
(libksysguard): Likewise.
[inputs]: Add KGLOBALACCEL and KIO.
2019-02-12 23:49:02 +01:00
fd11c0fd3d
gnu: KDE Frameworks: Update to 5.54.0.
...
* 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.
...
* 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.
...
* 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.
...
* 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.
...
* 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.
...
* 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.
...
* 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.
...
* 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
...
* 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
e2760d1a8b
gnu: Flatpak: Update to 1.2.3 [security fixes].
...
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.
...
* gnu/packages/networking.scm (frrouting): New variable.
2019-02-12 22:24:27 +01:00
ea7cddaac7
gnu: Docker: Update to 18.09.2.
...
* 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].
...
* 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.
...
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.
...
* 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.
...
* gnu/packages/compression.scm (lzlib)[source]: Hard-code NAME.
2019-02-12 17:38:24 +01:00
11b1c71d2e
gnu: clzip: Update to 1.11.
...
* 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.
...
* gnu/packages/compression.scm (clzip)[source]: Hard-code NAME.
2019-02-12 17:38:23 +01:00
9f4f085f9b
gnu: lunzip: Update to 1.11.
...
* 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.
...
* gnu/packages/compression.scm (lunzip)[source]: Hard-code NAME.
2019-02-12 17:38:23 +01:00
ff0e1eed32
gnu: plzip: Update to 1.8.
...
* 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.
...
* gnu/packages/compression.scm (plzip)[source]: Hard-code NAME.
2019-02-12 17:38:22 +01:00
b099b4a75a
gnu: lziprecover: Update to 1.21.
...
* 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.
...
* 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.
...
* 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.
...
* 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.
...
* 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.
...
* 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.
...
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.
...
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.
...
* gnu/packages/bioinformatics.scm (cnvkit): New variable.
2019-02-12 15:41:02 +01:00
c18dccffa2
gnu: Add r-dnacopy.
...
* gnu/packages/bioconductor.scm (r-dnacopy): New variable.
2019-02-12 15:41:02 +01:00
Tobias Geerinckx-Rice