bd0fc238f8
gnu: kpmcore: Fix indentation.
...
* gnu/packages/kde-frameworks.scm (kpmcore): Fix indentation.
2016-10-29 23:51:43 +02:00
443a60aaae
gnu: gpgmepp: Update to 16.08.2.
...
* gnu/packages/kde-frameworks (gpgmepp): Update to 16.08.2.
2016-10-29 23:51:43 +02:00
1c484e980f
gnu: extra-cmake-modules: Update to 5.27.0.
...
* gnu/packages/kde-frameworks.scm (extra-cmake-modules): Update to
5.27.0.
2016-10-29 23:51:43 +02:00
b68bf48af9
gnu: Add flex-2.6.1.
...
* gnu/packages/flex.scm (flex-2.6.1): New variable.
2016-10-29 23:51:43 +02:00
ee5fb7ee50
gnu: Add python2-rpython.
...
* gnu/packages/python.scm (python2-rpython): New variable.
2016-10-29 23:49:05 +02:00
8f210c0e0e
gnu: ccache: Update to 3.3.3.
...
* gnu/packages/ccache.scm (ccache): Update to 3.3.3.
2016-10-30 00:05:26 +03:00
7dd55dfeca
gnu: python-waf: Update to 1.9.5.
...
* gnu/packages/python.scm (python-waf): Update to 1.9.5.
[arguments]: Shorten custom build phase.
[source]: Use http.
[home-page]: Use http.
2016-10-30 00:05:13 +03:00
603d55de4a
gnu: ffmpeg: Update to 3.2.
...
* gnu/packages/video.scm (ffmpeg): Update to 3.2.
2016-10-29 22:16:44 +03:00
0b37c4cda7
gnu: vapoursynth: Update to 35.
...
* gnu/packages/video.scm (vapoursynth): Update to 35.
2016-10-29 22:16:44 +03:00
812de5bf1e
gnu: offlineimap: Update to 7.0.9.
...
* gnu/packages/mail.scm (offlineimap): Update to 7.0.9.
2016-10-29 22:16:43 +03:00
4d73cb5441
gnu: chess: Update to 6.2.4.
...
* gnu/packages/games.scm (chess): Update to 6.2.4.
[home-page]: Use https.
2016-10-29 22:16:42 +03:00
a7e75125c8
gnu: vim: Update to 8.0.0054.
...
* gnu/packages/vim.scm (vim): Update to 8.0.0054.
2016-10-29 20:04:57 +01:00
dadf6622e9
gnu: borg: Update to 1.0.8.
...
* gnu/packages/backup.scm (borg): Update to 1.0.8.
2016-10-29 14:24:51 +02:00
58c4f11e43
gnu: Add radeontop.
...
* gnu/packages/linux.scm (radeontop): New variable.
2016-10-29 14:19:01 +02:00
b8df914f37
gnu: linux-libre: Update to 4.8.5.
...
* gnu/packages/linux.scm (%linux-libre-version, %linux-libre-hash)
(linux-libre): Update to 4.8.5.
2016-10-28 20:11:20 -04:00
a56b3229f4
gnu: linux-libre@4.4: Update to 4.4.28.
...
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.28.
2016-10-28 20:09:02 -04:00
fba78d18c2
gnu: mumps: Upgrade to 5.0.2.
...
* gnu/packages/maths.scm (mumps): Upgrade to 5.0.2.
[arguments]: Properly return boolean from install phase.
2016-10-28 15:53:32 -05:00
a9afb956b3
gnu: vim: Update to 8.0.0051.
...
* gnu/packages/vim.scm (vim): Update to 8.0.0051.
[source]: Change to github release archive.
2016-10-28 20:55:09 +01:00
044ac8d294
gnu: python-twobitreader: Update to 3.1.4.
...
* gnu/packages/bioinformatics.scm (python-twobitreader, python2-twobitreader):
Update to 3.1.4.
2016-10-28 13:59:11 -04:00
900fb8d005
gnu: python-twobitreader: Disable the test suite.
...
The tests were silently skipped with Python 3.4. With Python 3.5, this caused
the build of python-twobitreader to fail.
* gnu/packages/bioinformatics.scm (python-twobitreader,
python2-twobitreader)[arguments]: Disable the tests.
2016-10-28 13:59:11 -04:00
ed8bc028f7
gnu: Add emacs-org-trello.
...
* gnu/packages/emacs.scm (emacs-org-trello): New variable.
2016-10-28 19:50:32 +02:00
e359b31a60
gnu: python-wsgiproxy2: Disable the test suite.
...
* gnu/packages/python.scm (python-wsgiproxy2, python2-wsgiproxy2)[arguments]:
Disable the tests.
2016-10-28 13:39:38 -04:00
67fd4a12cb
gnu: python-beautifulsoup4: Update to 4.5.1.
...
* gnu/packages/python.scm (python-beautifulsoup4, python2-beautifulsoup4):
Update to 4.5.1.
2016-10-28 13:39:38 -04:00
5f37f0b66e
gnu: python-beautifulsoup4: Run the test suite.
...
* gnu/packages/python.scm (python-beautifulsoup4)[arguments]: Add field
run python-2 -> python-3 conversion script and test suite.
(python2-beautifulsoup4)[arguments]: Specify use of python-2.
2016-10-28 13:39:37 -04:00
92c3ef2cf3
gnu: python-feedparser: Disable the test suite.
...
The tests were silently skipped with Python 3.4. With Python 3.5, this caused
the build of python-feedparser to fail.
* gnu/packages/python.scm (python-feedparser, python2-feedparser)[arguments]:
Disable the tests.
2016-10-28 13:39:37 -04:00
95bff4f697
gnu: libwebp: Fix CVE-2016-9085.
...
* gnu/packages/patches/libwebp-CVE-2016-9085.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/image.scm (libwebp)[source]: Use it.
2016-10-28 13:39:37 -04:00
b2ed5ca7aa
gnu: libwebp: Update to 0.5.1.
...
* gnu/packages/image.scm (libwebp): Update to 0.5.1.
2016-10-28 13:39:33 -04:00
36e5d10387
gnu: Add emacs-request.
...
* gnu/packages/emacs.scm (emacs-request): New variable.
2016-10-28 19:29:35 +02:00
fc381a3325
gnu: Add qwt.
...
* gnu/packages/qt.scm (qwt): New variable.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2016-10-28 14:47:36 +01:00
7500e42b3e
gnu: Add r-mutationalpatterns.
...
* gnu/packages/bioinformatics.scm (r-mutationalpatterns): New variable.
2016-10-27 20:07:05 +02:00
327be74720
gnu: jasper: Updat eto 1.900.16.
...
* gnu/packages/image.scm (japer): Update to 1.900.16.
2016-10-27 20:14:17 +03:00
233fbb6102
gnu: windowmaker: Add support for more image formats.
...
* gnu/packages/gnustep.scm (windowmaker)[inputs]: Add giflib, libpng,
and libtiff.
2016-10-27 10:51:05 -04:00
b5ce25cc0e
gnu: r: Use uname from Guix
...
* gnu/packages/statistics.scm (r): Use uname from Guix.
2016-10-27 16:37:24 +02:00
6178274d19
gnu: python-urllib3: Update to 1.18.1.
...
* gnu/packages/python.scm (python-urllib3): Update to 1.18.1.
[home-page]: Use https URL.
2016-10-27 14:03:07 +01:00
245cc5f5d5
tests: Test installation with a RAID root partition.
...
* gnu/tests/install.scm (%raid-root-os, %raid-root-os-source)
(%raid-root-installation-script, %test-raid-root-os): New variables.
2016-10-27 13:48:52 +02:00
49baaff4d2
file-systems: 'disk-partitions' detected partitions from mapped devices.
...
Previously, partitions of mdadm- or cryptsetup-produced block devices
would not be returned by 'disk-partitions'.
* gnu/build/file-systems.scm (disk-partitions)[last-character]: New
procedure.
[partition?]: Add 'name' parameter and rewrite. Adjust caller.
* gnu/build/file-systems.scm (ENOENT-safe): Silently ignore ENOMEDIUM.
2016-10-27 13:48:52 +02:00
b800b8da21
tests: Add #:memory-size parameter for the command to run the installed OS.
...
* gnu/tests/install.scm (qemu-command/writable-image): Add #:memory-size
parameter and honor it.
2016-10-27 13:48:52 +02:00
4ed2f515d6
mapped-devices: Use 'mdadm-static' in 'raid-device-mapping'.
...
* gnu/system/mapped-devices.scm (open-raid-device, close-raid-device):
Use MDADM-STATIC instead of MDADM. Use 'file-append'.
2016-10-27 13:48:52 +02:00
631fda7e90
gnu: Add mdadm-static.
...
* gnu/packages/linux.scm (mdadm-static): New variable.
2016-10-27 13:48:52 +02:00
7d876afdd8
gnu: libmikmod: Update to 3.3.10.
...
* gnu/packages/sdl.scm (libmikmod): Update to 3.3.10.
2016-10-27 12:23:04 +03:00
355d8e873b
gnu: sdl2: Update to 2.0.5.
...
* gnu/packages/sdl.scm (sdl2): Update to 2.0.5.
2016-10-27 12:23:04 +03:00
5d5790ce44
gnu: Use 'https' for libsdl urls.
...
* gnu/packages/sdl.scm (sdl, sdl2, sdl-image, sdl-mixer, sdl-net)
(sdl-ttf, sdl2-image, sdl2-ttf)[source]: Use https.
[home-page]: Use https.
2016-10-27 12:23:03 +03:00
483b7ce7ae
gnu: mcelog: Update to 144.
...
* gnu/packages/linux.scm (mcelog): Update to 144.
2016-10-27 11:03:34 +02:00
6270769dc2
gnu: btrfs-progs: Update to 4.8.2.
...
* gnu/packages/linux.scm (btrfs-progs): Update to 4.8.2.
2016-10-27 11:03:34 +02:00
cd9ed6c1cb
gnu: gnupg: Add support for pcsc-lite.
...
* gnu/packages/gnupg.scm (gnupg)[inputs]: Add pcsc-lite.
[arguments]: Rename phase 'patch-config-files' to 'patch-paths'. Patch
`scd/scdaemon.c' with absolute path of libpcsclite.so.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2016-10-27 09:56:54 +01:00
a6b256affc
gnu: Add pcsc-lite.
...
* gnu/packages/security-token.scm (pcsc-lite): New variable.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2016-10-27 09:56:52 +01:00
8888fe826c
gnu: Add dbacl.
...
* gnu/packages/textutils.scm (dbacl): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-27 11:42:39 +03:00
5fd84e288c
gnu: valgrind: Use 'modify-phases' syntax.
...
* gnu/packages/valgrind.scm (valgrind)[arguments]: Use 'modify-phases'
syntax.
2016-10-27 11:42:38 +03:00
e68168eb87
gnu: valgrind: Update to 3.12.0.
...
* gnu/packages/valgrind.scm (valgrind): Update to 3.12.0.
2016-10-27 11:42:29 +03:00
49a531f545
gnu: python-pathlib2: Add comment.
...
As suggested by Efraim Flashner.
* gnu/packages/python.scm (python-pathlib2): Add comment.
2016-10-27 10:09:10 +02:00
522fc32ebd
gnu: shotwell: Update to 0.25.0.
...
* gnu/packages/gnome.scm (shotwell): Update to 0.25.0.
[inputs]: Add gcr.
2016-10-26 20:10:05 -04:00
30b1267830
gnu: vdirsyncer: Update to 0.14.0.
...
* gnu/packages/dav.scm (vdirsyncer): Update to 0.14.0.
2016-10-26 19:56:15 -04:00
5479aa2b7c
tests: Test installation with store on a separate partition.
...
This is a followup to 0f65f54ebd
2016-10-27 01:00:42 +02:00
5d73e30000
gnu: Add lci.
...
* gnu/packages/lolcode.scm: New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-26 20:39:27 +03:00
8caeb11772
gnu: Add autossh.
...
* gnu/packages/ssh.scm (autossh): New variable.
2016-10-26 11:22:17 -05:00
aba6463975
gnu: r: Update to 3.3.1.
...
* gnu/packages/statistics.scm (r): Update to 3.3.1.
2016-10-26 18:14:17 +02:00
a8e893b0b8
gnu: r-matrixstats: Update to 0.51.0.
...
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.51.0.
2016-10-26 16:23:32 +02:00
fd54f65e72
gnu: r-r-utils: Update to 2.4.0.
...
* gnu/packages/statistics.scm (r-r-utils): Update to 2.4.0.
2016-10-26 16:23:32 +02:00
89242ea47f
gnu: r-irlba: Update to 2.1.2.
...
* gnu/packages/statistics.scm (r-irlba): Update to 2.1.2.
2016-10-26 16:23:31 +02:00
4f2ebc16ce
gnu: r-codetools: Update to 0.2-15.
...
* gnu/packages/statistics.scm (r-codetools): Update to 0.2-15.
2016-10-26 16:23:31 +02:00
cf738e961e
gnu: r-snow: Update to 0.4-2.
...
* gnu/packages/statistics.scm (r-snow): Update to 0.4-2.
2016-10-26 16:23:31 +02:00
41bc22a7de
gnu: r-backports: Update to 1.0.4.
...
* gnu/packages/statistics.scm (r-backports): Update to 1.0.4.
2016-10-26 16:23:30 +02:00
72263db73d
gnu: r-foreign: Update to 0.8-67.
...
* gnu/packages/statistics.scm (r-foreign): Update to 0.8-67.
2016-10-26 16:23:30 +02:00
130410d941
gnu: r-cluster: Update to 2.0.5.
...
* gnu/packages/statistics.scm (r-cluster): Update to 2.0.5.
2016-10-26 16:23:29 +02:00
e7622804aa
gnu: r-acepack: Update to 1.4.0.
...
* gnu/packages/statistics.scm (r-acepack): Update to 1.4.0.
2016-10-26 16:23:29 +02:00
bff4dc6324
gnu: r-r6: Update to 2.2.0.
...
* gnu/packages/statistics.scm (r-r6): Update to 2.2.0.
2016-10-26 16:23:29 +02:00
e0a9093139
gnu: r-evaluate: Update to 0.10.
...
* gnu/packages/statistics.scm (r-evaluate): Update to 0.10.
2016-10-26 16:23:28 +02:00
2d9da70bbe
gnu: r-reshape2: Update to 1.4.2.
...
* gnu/packages/statistics.scm (r-reshape2): Update to 1.4.2.
2016-10-26 16:23:28 +02:00
c2a9e99134
gnu: r-stringi: Update to 1.1.2.
...
* gnu/packages/statistics.scm (r-stringi): Update to 1.1.2.
2016-10-26 16:23:28 +02:00
03f72a1e1f
gnu: r-matrix: Update to 1.2-7.1.
...
* gnu/packages/statistics.scm (r-matrix): Update to 1.2-7.1.
2016-10-26 16:23:27 +02:00
9e087a1fde
gnu: r-colorspace: Update to 1.2-7.
...
* gnu/packages/statistics.scm (r-colorspace): Update to 1.2-7.
2016-10-26 16:23:27 +02:00
e1c2b7e2e1
gnu: r-jsonlite: Update to 1.1.
...
* gnu/packages/web.scm (r-jsonlite): Update to 1.1.
2016-10-26 16:23:27 +02:00
2ffcd6607b
gnu: r-curl: Update to 2.2.
...
* gnu/packages/web.scm (r-curl): Update to 2.2.
2016-10-26 16:23:26 +02:00
a46cc723ff
gnu: r-seqinr: Update to 3.3-3.
...
* gnu/packages/bioinformatics.scm (r-seqinr): Update to 3.3-3.
2016-10-26 16:23:26 +02:00
062737a178
gnu: r-rcpparmadillo: Update to 0.7.500.0.0.
...
* gnu/packages/maths.scm (armadillo-for-rcpparmadillo): Update to
7.500.0.
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.7.500.0.0.
2016-10-26 16:23:25 +02:00
7397cd9e3f
gnu: armadillo: Update to 7.500.0.
...
* gnu/packages/maths.scm (armadillo): Update to 7.500.0.
2016-10-26 16:23:25 +02:00
8e1369f19a
gnu: r-rmarkdown: Update to 1.1.
...
* gnu/packages/statistics.scm (r-rmarkdown): Update to 1.1.
[propagated-inputs]: Add r-evaluate, r-tibble.
2016-10-26 16:23:25 +02:00
c70271ec48
gnu: bioperl-minimal: Update to 1.7.0.
...
* gnu/packages/bioinformatics.scm (bioperl-minimal): Update to 1.7.0.
2016-10-26 16:23:24 +02:00
39df253e2b
gnu: mupdf: Modify CVE-2016-8674 patch to apply to 1.9a.
...
The fix from upstream did not apply cleanly due to many context changes.
This was adapted by cloning mupdf 1.9a from git and fixing conflicts
after applying our patches and cherry-picking upstream commit 1e03c06.
This is a follow-up to 47a04fca99
2016-10-26 15:03:42 +01:00
b2a2232c33
gnu: python-certifi: Update to 2016.8.31.
...
* gnu/packages/python.scm (python-certifi): Update to 2016.8.31.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-26 14:31:16 +03:00
07b1fb8675
gnu: security-token: Use 'license:' prefix.
...
* gnu/packages/security-token.scm (libyubikey)[license]: Add prefix.
(ykclient)[license]: Add prefix.
2016-10-26 11:00:58 +01:00
f9c339603d
gnu: yubico.scm: Rename to security-token.scm.
...
* gnu/packages/yubico.scm: Delete file.
* gnu/packages/security-token.scm: New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Adjust accordingly.
2016-10-26 10:45:49 +01:00
7a6213cbd7
gnu: offlineimap: Install documentation.
...
* gnu/packages/mail.scm (offlineimap)[native-inputs]: Add asciidoc and
libxslt.
[arguments]: Add phases 'build-documentation' and
'install-documentation' to build and install manpages. Also remove
unneeded key 'inputs' from 'wrap-binary' phase.
2016-10-26 10:45:49 +01:00
d2a9b531fb
gnu: notmuch: Update to 0.23.1.
...
* gnu/packages/patches/notmuch-emacs-25-compatibility-fix.patch: Delete
file.
* gnu/local.mk (dist_patch_DATA): Remove it.
* gnu/packages/mail.scm (notmuch): Update to 0.23.1. Remove patch.
2016-10-26 10:45:49 +01:00
8f5f6c922f
gnu: vlc: Add x265 support.
...
* gnu/packages/video.scm (vlc)[inputs]: Add x265.
2016-10-26 12:19:19 +03:00
e3cb00d210
gnu: gst-plugins-bad: Add x265 support.
...
* gnu/packages/gstreamer.scm (gst-plugins-bad)[inputs]: Add x265.
2016-10-26 12:19:18 +03:00
d505801a06
gnu: ffmpeg: Add x265 support.
...
* gnu/packages/video.scm (ffmpeg)[inputs]: Add x265.
[arguments]: Add '--enable-libx265' flag.
2016-10-26 12:19:18 +03:00
7bc7ffc243
gnu: Add x265.
...
* gnu/packages/video.scm (x265): New variable.
2016-10-26 12:19:18 +03:00
1df790d50d
gnu: Add psyclpc.
...
* gnu/packages/psyc.scm (psyclpc): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-26 11:29:35 +03:00
19262a718e
gnu: opensmtpd: Fix 'license' field.
...
* gnu/packages/mail.scm (opensmtpd)[license]: Use LICENSE:OPENSSL, not
OPENSSL.
(opensmtpd-extras)[license]: Likewise.
2016-10-26 10:19:18 +02:00
59198f8fff
gnu: r-genomationdata: Update to 1.6.0.
...
* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.6.0.
2016-10-26 09:28:23 +02:00
e357bec836
gnu: r-bamsignals: Update to 1.6.0.
...
* gnu/packages/bioinformatics.scm (r-bamsignals): Update to 1.6.0.
2016-10-26 09:28:23 +02:00
53ca52f013
gnu: r-rhtslib: Update to 1.6.0.
...
* gnu/packages/bioinformatics.scm (r-rhtslib): Update to 1.6.0.
[native-inputs]: Add autoconf.
2016-10-26 09:28:23 +02:00
da22da862b
gnu: r-zlibbioc: Update to 1.20.0.
...
* gnu/packages/bioinformatics.scm (r-zlibbioc): Update to 1.20.0.
2016-10-26 09:28:22 +02:00
809251e164
gnu: r-motifrg: Update to 1.18.0.
...
* gnu/packages/bioinformatics.scm (r-motifrg): Update to 1.18.0.
2016-10-26 09:28:22 +02:00
21d6c7a3e1
gnu: r-seqlogo: Update to 1.40.0.
...
* gnu/packages/bioinformatics.scm (r-seqlogo): Update to 1.40.0.
2016-10-26 09:28:22 +02:00
51c3c4900f
gnu: r-genomation: Update to 1.6.0.
...
* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.6.0.
[propagated-inputs]: Add r-rcpp, r-htslib, r-runit, r-s4vectors.
[inputs]: Add zlib.
2016-10-26 09:28:21 +02:00
e92dd6f5e0
gnu: r-seqpattern: Update to 1.6.0.
...
* gnu/packages/bioinformatics.scm (r-seqpattern): Update to 1.6.0.
[propagated-inputs]: Add r-kernsmooth.
2016-10-26 09:28:21 +02:00
acf6f7e0c3
gnu: r-impute: Update to 1.48.0.
...
* gnu/packages/bioinformatics.scm (r-impute): Update to 1.48.0.
2016-10-26 09:28:21 +02:00
3d74c04451
gnu: r-bsgenome: Update to 1.42.0.
...
* gnu/packages/bioinformatics.scm (r-bsgenome): Update to 1.42.0.
2016-10-26 09:28:20 +02:00
30ec4de738
gnu: r-topgo: Update to 2.26.0.
...
* gnu/packages/bioinformatics.scm (r-topgo): Update to 2.26.0.
[propagated-inputs]: Add r-dbi.
2016-10-26 09:28:20 +02:00
3587b464fc
gnu: r-graph: Update to 1.52.0.
...
* gnu/packages/bioinformatics.scm (r-graph): Update to 1.52.0.
2016-10-26 09:28:19 +02:00
d1b1587cad
gnu: r-go-db: Update to 3.4.0.
...
* gnu/packages/bioinformatics.scm (r-go-db): Update to 3.4.0.
2016-10-26 09:28:19 +02:00
b17aac083e
gnu: r-genomicfeatures: Update to 1.26.0.
...
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.26.0.
2016-10-26 09:28:18 +02:00
6a45fd9aea
gnu: r-rtracklayer: Update to 1.34.0.
...
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.34.0.
2016-10-26 09:28:18 +02:00
4ab32f0cd6
gnu: r-genomicalignments: Update to 1.10.0.
...
* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to
1.10.0.
2016-10-26 09:28:18 +02:00
08da08d296
gnu: r-summarizedexperiment: Update to 1.4.0.
...
* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to
1.4.0.
2016-10-26 09:28:17 +02:00
c0ccef41ae
gnu: r-rsamtools: Update to 1.26.1.
...
* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 1.26.1.
2016-10-26 09:28:17 +02:00
47d39b6e7a
gnu: r-biostrings: Update to 2.42.0.
...
* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.42.0.
2016-10-26 09:28:17 +02:00
89559a124e
gnu: r-biocparallel: Update to 1.8.0.
...
* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.8.0.
2016-10-26 09:28:16 +02:00
9405333186
gnu: r-biomart: Update to 2.30.0.
...
* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.30.0.
2016-10-26 09:28:16 +02:00
e45dc05781
gnu: r-annotationdbi: Update to 1.36.0.
...
* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.36.0.
2016-10-26 09:28:16 +02:00
464870caf7
gnu: r-biobase: Update to 2.34.0.
...
* gnu/packages/bioinformatics.scm (r-biobase): Update to 2.34.0.
2016-10-26 09:28:15 +02:00
92a740afac
gnu: r-genomicranges: Update to 1.26.1.
...
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.26.1.
[propagated-inputs]: Add r-iranges, r-s4vectors.
2016-10-26 09:28:15 +02:00
1d048589ca
gnu: r-xvector: Update to 0.14.0.
...
* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.14.0.
2016-10-26 09:28:14 +02:00
753bc32b8e
gnu: r-limma: Update to 3.30.0.
...
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.30.0.
2016-10-26 09:28:14 +02:00
37d96f1dde
gnu: r-variantannotation: Update to 1.20.0.
...
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to
1.20.0.
[propagated-inputs]: Add r-biobase, r-biostrings, r-iranges,
r-rtracklayer, r-s4vectors, r-xvector.
2016-10-26 09:28:14 +02:00
5e48005fa9
gnu: r-edger: Update to 3.16.0.
...
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.16.0.
[propagated-inputs]: Add r-locfit.
2016-10-26 09:28:14 +02:00
dece310a25
gnu: r-genomeinfodb: Update to 1.10.0.
...
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.10.0.
2016-10-26 09:28:13 +02:00
7f354dafb1
gnu: r-iranges: Update to 2.8.0.
...
* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.8.0.
2016-10-26 09:28:13 +02:00
b120c5f3a2
gnu: r-s4vectors: Update to 0.12.0.
...
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.12.0.
2016-10-26 09:28:13 +02:00
22c5d736af
gnu: r-dnacopy: Update to 1.48.0.
...
* gnu/packages/bioinformatics.scm (r-dnacopy): Update to 1.48.0.
2016-10-26 09:28:12 +02:00
5c7b04e0c3
gnu: r-biocinstaller: Update to 1.24.0.
...
* gnu/packages/bioinformatics.scm (r-biocinstaller): Update to 1.24.0.
2016-10-26 09:28:12 +02:00
f0b297e17b
gnu: r-biocgenerics: Update to 0.20.0.
...
* gnu/packages/bioinformatics.scm (r-biocgenerics): Update to 0.20.0.
2016-10-26 09:28:11 +02:00
c9b5046a18
gnu: r-grohmm: Update to 1.8.0.
...
* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.8.0.
2016-10-26 09:28:11 +02:00
1265d3877b
gnu: r-systempiper: Update to 1.8.1.
...
* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.8.1.
2016-10-26 09:28:11 +02:00
b87b41a74d
gnu: r-shortread: Update to 1.32.0.
...
* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.32.0.
2016-10-26 09:28:10 +02:00
ae6899b683
gnu: r-gostats: Update to 2.40.0.
...
* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.40.0.
2016-10-26 09:28:10 +02:00
816599c1e7
gnu: r-category: Update to 2.40.0.
...
* gnu/packages/bioinformatics.scm (r-category): Update to 2.40.0.
2016-10-26 09:28:10 +02:00
558d02c361
gnu: r-gseabase: Update to 1.36.0.
...
* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.36.0.
2016-10-26 09:28:09 +02:00
700c780dcf
gnu: r-rbgl: Update to 1.50.0.
...
* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.50.0.
2016-10-26 09:28:09 +02:00
55cd914c3d
gnu: r-annotationforge: Update to 1.16.0.
...
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.16.0.
[propagated-inputs]: Add r-rcurl.
2016-10-26 09:28:09 +02:00
e1db8dd813
gnu: r-deseq2: Update to 1.14.0.
...
* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.14.0.
2016-10-26 09:28:08 +02:00
1e66e71921
gnu: r-genefilter: Update to 1.56.0.
...
* gnu/packages/bioinformatics.scm (r-genefilter): Update to 1.56.0.
2016-10-26 09:28:08 +02:00
6faa2a48f0
gnu: r-geneplotter: Update to 1.52.0.
...
* gnu/packages/bioinformatics.scm (r-geneplotter): Update to 1.52.0.
2016-10-26 09:28:08 +02:00
9beba74f66
gnu: r-annotate: Update to 1.52.0.
...
* gnu/packages/bioinformatics.scm (r-annotate): Update to 1.52.0.
2016-10-26 09:28:07 +02:00
557a4b8e61
gnu: Add r-kernsmooth.
...
* gnu/packages/statistics.scm (r-kernsmooth): New variable.
2016-10-26 09:28:07 +02:00
f9875807e8
gnu: emacs-emms-player-mpv: Update to 0.0.10.
...
* gnu/packages/emacs.scm (emacs-emms-player-mpv): Update to 0.0.10.
2016-10-26 09:28:07 +02:00
6c18c4f603
gnu: elfutils: Update to 0.167.
...
* gnu/packages/elf.scm (elfutils): Update to 0.167.
2016-10-25 22:11:59 -04:00
3de764f7a7
gnu: gtk+-2: Update to 2.24.31 [fixes CVE-2013-7447].
...
* gnu/packages/gtk.scm (gtk+-2): Update to 2.24.31.
2016-10-25 16:33:13 -04:00
47a04fca99
gnu: mupdf: Fix CVE-2016-8674.
...
* gnu/packages/patches/mupdf-CVE-2016-8674.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/pdf.scm (mupdf): Use it.
2016-10-25 12:50:50 -04:00
4b12fe5cab
gnu: coda: Remove bundled libraries.
...
* gnu/packages/maths.scm (coda): Remove bundled libraries.
[source]: Add patch and snippet to remove bundled zlib, pcre and expat.
[inputs]: Add system zlib, pcre and expat.
* gnu/packages/patches/coda-use-system-libs.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-10-25 14:56:37 +02:00
8ce84bf1f5
svg: Autoload Guile-RSVG and Guile-Cairo.
...
Fixes compilation by 'guix pull' where Guile-{RSVG,Cairo} are missing.
Reported by Efraim Flashner.
* gnu/build/svg.scm: Use 'module-autoload!' rather than 'module-use!'.
2016-10-25 13:57:28 +02:00
e9a19bde40
gnu: linux-libre@4.1: Update to 4.1.35.
...
* gnu/packages/linux.scm (linux-libre-4.1): Update to 4.1.35. Remove
patch.
* gnu/packages/patches/linux-libre-4.1-CVE-2016-5195.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2016-10-24 22:53:18 -04:00
ffde82c9ec
system: grub: Use Guile-{RSVG,Cairo} instead of Inkscape + ImageMagick.
...
Based on a suggestion by Andy Wingo at
<https://lists.gnu.org/archive/html/guix-devel/2015-08/msg00753.html >.
* gnu/build/svg.scm: New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu/system/grub.scm (svg->png): Add #:width and #:height. Rewrite to
use (gnu build svg).
(resize-image): Remove.
(grub-background-image): Adjust accordingly.
2016-10-25 01:21:28 +02:00
d91025e3d0
gnu: Add coda.
...
* gnu/packages/maths.scm (coda): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-10-24 23:14:52 +02:00
d3c4f3bb00
gnu: Add hdf-eos2.
...
* gnu/packages/maths.scm (hdf-eos2): New variable.
* gnu/packages/patches/hdf-eos2-build-shared.patch: New file.
* gnu/packages/patches/hdf-eos2-remove-gctp.patch: New file.
* gnu/packages/patches/hdf-eos2-fortrantests.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add patches.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-10-24 23:05:20 +02:00
3b5783fcd9
gnu: Add guile-bytestructures
...
* gnu/packages/guile.scm (guile-bytestructures): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-10-24 22:51:52 +02:00
8c00b83818
services: nginx: Virtual hosts are first-class configuration items.
...
* gnu/services/web.scm (<nginx-vhost-configuration>): New record type.
(config-domain-strings): New procedure.
(config-index-strings): New procedure.
(default-nginx-vhost-config): New procedure.
(default-nginx-config): Add vhost support and temporary directories
(nginx-activation): Create temporary directories
(nginx-service): Add vhost-list key.
* doc/guix.texi (Web Services): Document 'nginx-vhost-configuration'.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-10-24 22:50:40 +02:00
405be8dceb
gnu: efl: Update to 1.18.2.
...
* gnu/packages/enlightenment.scm (efl): Update to 1.18.2.
2016-10-24 22:01:00 +03:00
c201b28bfa
gnu: red-eclipse: Update to 1.5.6.
...
* gnu/packages/games.scm (red-eclipse): Update to 1.5.6.
[arguments]: Adjust phases.
2016-10-24 13:25:39 -04:00
9c798f9036
gnu: Add whois.
...
* gnu/packages/networking.scm (whois): New variable.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2016-10-24 17:40:53 +01:00
bd1b1e0517
gnu: gnumeric: Use 'glib-or-gtk-build-system'.
...
Reported by Pjotr Prins <pjotr.public12@thebird.nl>.
* gnu/packages/gnome.scm (gnumeric)[build-systems]: Switch to
GLIB-OR-GTK-BUILD-SYSTEM.
2016-10-24 19:19:34 +08:00
02cfea6627
gnu: musl: Fix CVE-2016-8859.
...
* gnu/packages/patches/musl-CVE-2016-8859.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/musl.scm (musl)[source]: Use it.
2016-10-23 18:08:17 -04:00
8e3017cc65
gnu: windowmaker: Update to 0.95.7.
...
* gnu/packages/gnustep.scm (windowmaker): Update to 0.95.7.
2016-10-23 17:52:28 -04:00
0f6b6cb996
gnu: gajim: Update to 0.16.6.
...
* gnu/packages/messaging.scm (gajim): Update to 0.16.6.
Signed-off-by: Leo Famulari <leo@famulari.name>
2016-10-23 17:40:50 -04:00
d6465efaa9
gnu: gajim: License is "version 3 only".
...
* gnu/packages/messaging.scm (gajim)[license]: Change to GPL3.
Signed-off-by: Leo Famulari <leo@famulari.name>
2016-10-23 17:40:50 -04:00
2dfa90721d
gnu: weechat: Update to 1.6.
...
* gnu/packages/irc.scm (weechat): Update to 1.6.
Signed-off-by: Leo Famulari <leo@famulari.name>
2016-10-23 17:10:22 -04:00
903276d066
gnu: Add python-flask-sqlalchemy.
...
* gnu/packages/python.scm (python-flask-sqlalchemy): New variable.
2016-10-23 19:41:11 +02:00
31288222d4
gnu: Add python-flask-basicauth.
...
* gnu/packages/python.scm (python-flask-basicauth): New variable.
2016-10-23 19:41:10 +02:00
999d964d64
gnu: Add python-flask-restful.
...
* gnu/packages/python.scm (python-flask-restful): New variable.
2016-10-23 19:31:39 +02:00
0990edfecb
gnu: Add python-aniso8601.
...
* gnu/packages/python.scm (python-aniso8601): New variable.
2016-10-23 19:31:39 +02:00
04ce840a82
gnu: Add bluefish.
...
* gnu/packages/gnome.scm (bluefish): New variable.
2016-10-23 19:26:30 +02:00
373e765ec3
gnu: openconnect: Update to 7.07.
...
* gnu/packages/vpn.scm (openconnect): Update to 7.07.
2016-10-23 16:33:04 +02:00
bdc74f07c3
gnu: weex: Use ‘modify-phases’.
...
* gnu/packages/ftp.scm (weex): Use the ‘modify-phases’ syntax.
2016-10-23 16:33:04 +02:00
5f5b57681c
gnu: Add guitarix-lv2.
...
* gnu/packages/audio.scm (guitarix-lv2): New variable.
2016-10-23 15:47:35 +02:00
84d53724ba
gnu: Add mod-utilities.
...
* gnu/packages/music.scm (mod-utilities): New variable.
2016-10-23 15:47:35 +02:00
3d4b1bb9a1
gnu: Add jalv-select.
...
* gnu/packages/music.scm (jalv-select): New variable.
2016-10-23 15:47:35 +02:00
c2c9e74891
gnu: Add mod-host.
...
* gnu/packages/music.scm (mod-host): New variable.
2016-10-23 15:47:35 +02:00
875dc49b00
gnu: jasper: Update to 1.900.13.
...
* gnu/packages/image.scm (jasper): Update to 1.900.13.
[arguments]: Build with -std=c99 support.
2016-10-23 16:32:04 +03:00
5cb7974109
gnu: Add libpsyc.
...
* gnu/packages/psyc.scm (libpsyc): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-23 16:32:03 +03:00
3a14b2bcf6
gnu: Add perl-net-psyc.
...
* gnu/packages/psyc.scm: New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-23 16:32:03 +03:00
860eda621b
gnu: vmpk: Remove package.
...
The vmpk package has been broken for a while and attempts to fix it have
failed. The package "jack-keyboard" offers similar features.
* gnu/packages/music.scm (vmpk): Remove variable.
2016-10-23 15:06:36 +02:00
1a0633e79b
gnu: Add supertuxkart.
...
* gnu/packages/games.scm (supertuxkart): New variable.
2016-10-23 15:05:19 +02:00
9ba88890f7
gnu: gambit-c: Update to 4.8.5.
...
* gnu/packages/scheme.scm (gambit-c): Update to 4.8.5.
[source]: Update source tarball name.
2016-10-23 14:37:36 +03:00
27668c79de
gnu: gambit-c: Use 'modify-phases' syntax.
...
* gnu/packages/scheme.scm (gambit-c)[arguments]: Use 'modify-phases'
syntax.
2016-10-23 14:37:36 +03:00
71dcdaf31f
gnu: gambit-c: Update to 4.7.9.
...
* gnu/packages/scheme.scm (gambit-c): Update to 4.7.9.
2016-10-23 14:37:36 +03:00
fb685df8f8
gnu: bigloo: Use 'modify-phases' syntax.
...
* gnu/packages/scheme.scm (bigloo)[arguments]: Use 'modify-phases' syntax.
2016-10-23 14:37:36 +03:00
04014de6f5
gnu: hop: Use 'modify-phases' syntax.
...
* gnu/packages/scheme.scm (hop)[arguments]: Use 'modify-phases' syntax.
2016-10-23 14:37:35 +03:00
eccd1d24c9
gnu: hop: Update to 2.5.1.
...
* gnu/packages/scheme.scm (hop): Update to 2.5.1.
[source]: Remove patch.
* gnu/packages/patches/hop-bigloo-4.0b.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2016-10-23 14:37:28 +03:00
5ed7f28da5
gnu: mpg321: Update to 0.3.2.
...
* gnu/packages/mp3.scm (mpg321): Update to 0.3.2.
2016-10-23 05:01:02 -04:00
d78b652c16
gnu: mpg123: Update to 1.23.8.
...
* gnu/packages/mp3.scm (mpg123): Update to 1.23.8.
2016-10-23 04:55:26 -04:00
844f4f6e62
gnu: beast: Disable parallel-build.
...
* gnu/packages/music.scm (beast)[arguments]: Disable parallel builds to
prevent a race condition.
2016-10-23 07:47:03 +03:00
d661894159
gnu: infamous-plugins: Remove compiler optimizations.
...
* gnu/packages/audio.scm (infamous-plugins)[arguments]: Add phase
removing built-in compiler optimizations in the source code.
2016-10-23 07:47:03 +03:00
7ca6830482
gnu: python2-validictory: Add missing input.
...
* gnu/packages/python.scm (python2-validictory)[native-inputs]: Add
python2-setuptools.
(python-validictory)[properties]: New field.
2016-10-23 07:47:03 +03:00
ff1e2b59bf
gnu: ffmpeg: Update to 3.1.5.
...
* gnu/packages/video.scm (ffmpeg): Update to 3.1.5.
2016-10-23 07:47:03 +03:00
04ed5444fe
gnu: mutt: Update to 1.7.1.
...
* gnu/packages/mail.scm (mutt): Update to 1.7.1.
2016-10-23 07:47:03 +03:00
ad6198a5f9
gnu: Add vim-full.
...
* gnu/packages/vim.scm (vim-full): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-23 07:47:02 +03:00
84a79b8c42
gnu: aria2: Update to 1.28.0.
...
* gnu/packages/bittorrent.scm (aria2): Update to 1.28.0.
2016-10-23 07:46:49 +03:00
35680748a6
gnu: linux-libre: Update to 4.8.4.
...
* gnu/packages/linux.scm (%linux-libre-version, %linux-libre-hash)
(linux-libre): Update to 4.8.4.
2016-10-23 00:21:20 -04:00
62cf3ae09b
gnu: linux-libre@4.4: Update to 4.4.27.
...
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.27.
2016-10-23 00:18:42 -04:00
0881b616f4
gnu: guile-ncurses: Update to version 2.0.
...
* gnu/packages/guile.scm (guile-ncurses): Update version to 2.0.
2016-10-22 17:24:39 +02:00
ed53a07145
gnu: perl-test-mockobject: Update to 1.20150527.
...
* gnu/packages/perl.scm (perl-test-mockobject): Update to 1.20150527.
Signed-off-by: Leo Famulari <leo@famulari.name>
2016-10-22 02:20:15 -04:00
3ae48df120
gnu: wireshark: Update to 2.2.1.
...
* gnu/packages/networking.scm (wireshark): Update to 2.2.1.
Signed-off-by: Leo Famulari <leo@famulari.name>
2016-10-22 02:20:15 -04:00
a4c7f40cec
gnu: giac-xcas: Update to 1.2.2-95.
...
* gnu/packages/algebra.scm (giac-xcas): Update to 1.2.2-95.
Signed-off-by: Leo Famulari <leo@famulari.name>
2016-10-22 02:20:10 -04:00
a861665b75
gnu: linux-libre@4.1: Add fix for CVE-2016-5195.
...
* gnu/packages/patches/linux-libre-4.1-CVE-2016-5195.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/linux.scm (linux-libre-4.1): Add patch.
2016-10-22 00:30:38 -04:00
64de7d1ceb
gnu: make-linux-libre: Add #:patches keyword argument.
...
* gnu/packages/linux.scm (make-linux-libre): Add 'patches' keyword
argument.
2016-10-22 00:22:31 -04:00
57147c5d34
gnu: go-1.7: Update to 1.7.3.
...
* gnu/packages/golang.scm (go-1.7): Update to 1.7.3.
2016-10-21 19:03:21 -04:00
bc8aa24b15
gnu: mpv: Update to 0.21.0.
...
* gnu/packages/video.scm (mpv): Update to 0.21.0.
2016-10-21 15:56:43 -04:00
7d2ee59b4a
gnu: slim: Fix line numbers in slim-login.patch.
...
This was causing build failures.
* gnu/packages/patches/slim-login.patch: Fix line numbers.
2016-10-21 12:51:33 -05:00
666619d088
gnu: lrzip: Update to 0.631.
...
* gnu/packages/compression.scm (lrzip): Update to 0.631.
2016-10-21 05:14:32 +02:00
17d50dfdbb
gnu: slim: Display login message.
...
* gnu/packages/patches/slim-login.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/display-managers.scm (slim)[source]: Use it.
2016-10-20 16:47:20 -05:00
0b71c15c80
gnu: slim: Do not reset session after failed login.
...
* gnu/packages/patches/slim-reset.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/display-managers.scm (slim)[source]: Use it.
2016-10-20 16:47:19 -05:00
5d5cdb7ca4
gnu: linux-libre-4.4: Update to 4.4.26.
...
* gnu/packages/linux.scm (linux-libre): Update to 4.4.26.
2016-10-20 17:42:49 -04:00
88576735bf
gnu: linux-libre: Update to 4.8.3.
...
* gnu/packages/linux.scm (%linux-libre-version, %linux-libre-hash)
(linux-libre): Update to 4.8.3.
2016-10-20 17:42:49 -04:00
d6e5de1ed2
gnu: Add emacs-d-mode.
...
* gnu/packages/emacs.scm (emacs-d-mode): New variable.
2016-10-20 22:26:41 +02:00
7f8393f3eb
gnu: python-mailmanclient: Fix typo.
...
* gnu/packages/mail.scm (python-mailmanclient)[properties]: Fix typo.
2016-10-20 15:44:48 +02:00
dc0322b511
services: ntpd: Add 'allow-large-adjustment?' knob.
...
Suggested by Leo Famulari.
* gnu/services/networking.scm (<ntp-configuration>)[allow-large-adjustment?]:
New field.
(ntp-shepherd-service): Honor it.
(ntp-service): Add #:allow-large-adjustment? and honor it.
* doc/guix.texi (Networking Services): Document it.
2016-10-20 15:43:59 +02:00
6d3dda4ff5
gnu: Add python-mailmanclient.
...
* gnu/packages/mail.scm (python-mailmanclient): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-20 11:47:12 +03:00
162e42d8c0
gnu: Add python-validictory and python2-validictory.
...
* gnu/packages/python.scm (python-validictory, python2-validictory):
New variables.
2016-10-20 10:27:22 +02:00
b7703c8131
gnu: Add python2-pathlib2.
...
Adding only the Python 2 variant, since for Python 3 our minimum version
is 3.4 which already includes this package as part of the standard library.
gnu/packages/python.scm (python2-pathlib2): New variable.
2016-10-20 10:09:59 +02:00
8ab59181a4
gnu: Add python-setproctitle and python2-setproctitle.
...
* gnu/packages/python.scm (python-setproctitle, python2-setproctitle):
New variables.
2016-10-20 09:55:19 +02:00
9518fde1a1
gnu: Add chromaprint.
...
* gnu/packages/mp3.scm (chromaprint): New variable.
2016-10-20 09:55:19 +02:00
4644644ace
gnu: Add r-bioccheck.
...
* gnu/packages/bioinformatics.scm (r-bioccheck): New variable.
2016-10-20 09:53:02 +02:00
c645cef7da
gnu: openssh: Fix CVE-2016-8858.
...
* gnu/packages/patches/openssh-memory-exhaustion.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/ssh.scm (openssh)[source]: Use it.
2016-10-19 18:02:39 -04:00
3ad7dce1d9
gnu: Add gucharmap.
...
* gnu/packages/gnome.scm (gucharmap): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-10-19 23:20:19 +02:00
80c9164fd7
gnu: %static-inputs: Use bash from PATH in bootstrap tar.
...
gnu/packages/make-bootstrap.scm (%static-inputs): Use bash from PATH.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-10-19 23:20:19 +02:00
c21b1a1fbb
gnu: borg: Install more documentation.
...
* gnu/packages/backup.scm (borg)[arguments]: Install more documentation in
'install-doc' phase. Use (srfi srfi-26).
2016-10-19 16:00:26 -04:00
b332c823b7
gnu: gparted: Update to 0.27.0.
...
* gnu/packages/disk.scm (gparted): Update to 0.27.0.
2016-10-19 19:34:17 +02:00
f5d3773268
gnu: ncftp: Use ‘modify-phases’.
...
* gnu/packages/ftp.scm (ncftp): Use the ‘modify-phases’ syntax.
2016-10-19 19:34:17 +02:00
c17b5986f2
gnu: mcelog: Update to 143.
...
* gnu/packages/linux.scm (mcelog): Update to 143.
2016-10-19 19:34:17 +02:00
5e270e8e8f
gnu: lftp: Update to 4.7.3.
...
* gnu/packages/ftp.scm (lftp): Update to 4.7.3.
[source]: Use HTTPS. Remove patch.
[arguments]: Add ‘disable-impure-tests’ phase. Add #:configure-flags with
explicit location of readline headers.
[home-page]: Use HTTPS.
* gnu/packages/patches/lftp-dont-save-unknown-host-fingerprint.patch: Delete
file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2016-10-19 19:34:17 +02:00
d5ccf71ec6
gnu: awscli: Update to 1.11.5.
...
* gnu/packages/python.scm (awscli): Update to 1.11.5.
[source]: Use pypi-uri.
[inputs]: Add python-s3transfer.
2016-10-19 13:12:48 -04:00
94cffc6386
gnu: Add python-s3transfer.
...
* gnu/packages/python.scm (python-s3transfer, python2-s3transfer): New
variable.
2016-10-19 13:12:48 -04:00
e09f952d9f
gnu: python-botocore: Update to 1.4.62.
...
* gnu/packages/python.scm (python-botocore, python2-botocore): Update to 1.4.62.
2016-10-19 13:12:47 -04:00
ecd68c53a6
gnu: python-rsa: Update to 3.4.2.
...
* gnu/packages/python.scm (python-rsa, python2-rsa): Update to 3.4.2.
2016-10-19 13:12:47 -04:00
def6213f65
gnu: Add libseccomp.
...
* gnu/packages/linux.scm (libseccomp): New variable.
2016-10-19 13:01:31 -04:00
6de9dfce80
gnu: xapian: Update to 1.4.0.
...
* gnu/packages/search.scm (xapian): Update to 1.4.0.
[source]: Use https URL.
[home-page]: Use https URL.
[arguments]: Remove 'patch-remotetcp-harness' phase. Replace 'check'
phase with a list of custom test targets.
2016-10-19 17:00:51 +01:00
16a23d4ad2
gnu: xapian: Use 'modify-phases' syntax.
...
* gnu/packages/search.scm (xapian)[arguments]: Use 'modify-phases'. Fix
'/bin/sh' substitution to use (which "sh") instead of (which "bash").
2016-10-19 17:00:43 +01:00
6cf27c89a5
gnu: notmuch: Enable tests.
...
* gnu/packages/patches/notmuch-emacs-25-compatibility-fix.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/mail.scm (notmuch)[source]: Use patch.
[arguments]: Add verbose make flags. Add phase 'patch-notmuch-lib.el' to
fix hard-coded /bin/sh. Add 'prepare-test-environment' phase to patch
test shebangs and set environment.
[native-inputs]: Change from 'emacs-minimal' to 'emacs-no-x'. Add dtach,
gnupg, man, perl and which.
2016-10-19 17:00:37 +01:00
540d6cc711
gnu: notmuch: Update to 0.23.
...
* gnu/packages/mail.scm (notmuch): Update to 0.23.
[home-page]: Use https URL.
(python-notmuch)[version]: Inherit from notmuch.
[home-page]: Ditto.
2016-10-19 17:00:24 +01:00
152ffe7cb6
gnu: Add opensmtpd-extras.
...
* gnu/packages/mail.scm (opensmtpd-extras): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-19 17:37:16 +03:00
8b53366c63
gnu: Add opensmtpd.
...
* gnu/packages/mail.scm (opensmtpd): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-19 17:32:49 +03:00
71f048c624
gnu: Add libasr.
...
* gnu/packages/dns.scm (libasr): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-19 17:28:06 +03:00
c11933c920
gnu: zile: Use 'modify-phases' syntax.
...
* gnu/packages/zile.scm (zile)[arguments]: Use 'modify-phases' syntax.
2016-10-19 17:10:17 +03:00
fa216a4d01
gnu: zile: Update to 2.4.13.
...
* gnu/packages/zile.scm (zile): Update to 2.4.13.
[home-page]: Use https.
2016-10-19 17:10:17 +03:00
4534d85e70
gnu: Add Ao.
...
* gnu/packages/engineering.scm (ao): New variable.
2016-10-19 15:54:10 +02:00
a966281f2d
gnu: glfw: Propagate the relevant inputs.
...
* gnu/packages/gl.scm (glfw)[inputs]: Rename to...
[propagated-inputs]: ... this. Add LIBXXF86VM.
2016-10-19 15:54:10 +02:00
7fee5b5397
container: Allow 'container-excursion' to the same namespaces.
...
Before that, 'container-excursion' would call 'setns' even when the
target namespace is the one the caller is already in, which would fail.
* gnu/build/linux-container.scm (container-excursion): Introduce
'source' and 'target'. Compare the result of 'readlink' on these
instead of comparing file descriptors to decide whether to call
'setns'.
* tests/containers.scm ("container-excursion, same namespace"): New test.
2016-10-19 15:54:10 +02:00
99df12cd19
gnu: Add r-biocstyle.
...
* gnu/packages/bioinformatics.scm (r-biocstyle): New variable.
2016-10-19 15:22:06 +02:00
207ce8fbe5
gnu: Add r-biocviews.
...
* gnu/packages/bioinformatics.scm (r-biocviews): New variable.
2016-10-19 15:09:55 +02:00
b747718e23
gnu: Add iperf.
...
* gnu/packages/networking.scm (iperf): New variable.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2016-10-19 13:19:07 +01:00
b5a5fb1927
gnu: python-dateutil, python-dateutil-2: Update to new home-page.
...
* gnu/packages/python.scm (python-dateutil, python2-dateutil,
python-dateutil-2, python2-dateutil-2)[home-page]: Update URL.
2016-10-19 11:52:54 +02:00
c79ad57a8d
gnu: Add r-optparse.
...
* gnu/packages/bioinformatics.scm (r-optparse): New variable.
2016-10-19 10:48:56 +02:00
2acaaee550
gnu: Add r-getopt.
...
* gnu/packages/bioinformatics.scm (r-getopt): New variable.
2016-10-19 09:55:45 +02:00
7d95c0006a
gnu: Add GHC 8.0.1.
...
* gnu/packages/haskell.scm (ghc-8): New variable.
2016-10-19 08:44:11 +02:00
1bd00f1737
gnu: Add ghc-hashtables.
...
* gnu/packages/haskell.scm (ghc-hashtables): New variable.
2016-10-19 08:44:11 +02:00
db61a00971
gnu: Add ghc-easyplot.
...
* gnu/packages/haskell.scm (ghc-easyplot): New variable.
2016-10-19 08:44:11 +02:00
4225c7116d
gnu: Add ghc-hmatrix-gsl-stats.
...
* gnu/packages/haskell.scm (ghc-hmatrix-gsl-stats): New variable.
2016-10-19 08:44:11 +02:00
271a5365aa
gnu: Add ghc-hmatrix-special.
...
* gnu/packages/haskell.scm (ghc-hmatrix-special): New variable.
2016-10-19 08:44:11 +02:00
David Craven