e91d362e48
gnu: Add BiocParallel.
...
* gnu/packages/bioinformatics.scm (r-biocparallel): New variable.
2016-01-07 17:18:16 +01:00
c465fa72ed
gnu: Add biomaRt.
...
* gnu/packages/bioinformatics.scm (r-biomart): New variable.
2016-01-07 17:18:16 +01:00
8b7bce740d
gnu: Add AnnotationDbi.
...
* gnu/packages/bioinformatics.scm (r-annotationdbi): New variable.
2016-01-07 17:18:16 +01:00
555e3399dc
gnu: Add Biobase.
...
* gnu/packages/bioinformatics.scm (r-biobase): New variable.
2016-01-07 17:18:16 +01:00
bc899123e7
gnu: Add snow.
...
* gnu/packages/statistics.scm (r-snow): New variable.
2016-01-07 17:18:16 +01:00
6b82f56cf9
gnu: Add futile.logger.
...
* gnu/packages/statistics.scm (r-futile-logger): New variable.
2016-01-07 17:18:16 +01:00
b9ff33b50e
gnu: Add futile.options.
...
* gnu/packages/statistics.scm (r-futile-options): New variable.
2016-01-07 17:18:16 +01:00
ca65d387fd
gnu: Add lambda.r.
...
* gnu/packages/statistics.scm (r-lambda-r): New variable.
2016-01-07 17:18:16 +01:00
543ded3619
gnu: Add r-xml.
...
* gnu/packages/statistics.scm (r-xml): New variable.
2016-01-07 17:18:16 +01:00
cefaa79c9e
gnu: Add RCurl.
...
* gnu/packages/statistics.scm (r-rcurl): New variable.
2016-01-07 17:18:16 +01:00
21e4d6a9cf
gnu: Add RSQLite.
...
* gnu/packages/statistics.scm (r-rsqlite): New variable.
2016-01-07 17:18:15 +01:00
fe9451c50a
gnu: Add xmlstarlet.
...
* gnu/packages/xml.scm (xmlstarlet): New variable.
2016-01-07 16:00:00 +01:00
29e255ca83
gnu: zita-convolver: Drop the '-march=native' optimization.
...
* gnu/packages/audio.scm (zita-convolver)[source]: Add snippet.
2016-01-07 22:47:32 +08:00
6dff495580
gnu: zita-resampler: Drop the '-march=native' optimization.
...
* gnu/packages/audio.scm (zita-resampler)[source]: Add snippet.
2016-01-07 22:47:32 +08:00
7d3a1a2dd2
gnu: Add ruby-ansi.
...
* gnu/packages/ruby.scm (ruby-ansi): New variable.
2016-01-07 15:36:05 +01:00
5dfd276602
gnu: edirect: Update to 3.50.
...
* gnu/packages/bioinformatics.scm (edirect): Update to 3.50.
[native-inputs]: Remove "unzip".
2016-01-07 11:25:24 +01:00
62339e2d49
gnu: w3m: Enable SSL, disable broken protocols and ciphers.
...
Fixes <http://bugs.gnu.org/16791 >.
* gnu/packages/patches/w3m-force-ssl_verify_server-on.patch: New file.
* gnu/packages/patches/w3m-disable-sslv2-and-sslv3.patch: New file.
* gnu/packages/patches/w3m-disable-weak-ciphers.patch: New file.
* gnu/packages/w3m.scm (w3m)[source]: Add patches.
* gnu-system.am (dist_patch_DATA): Add the new files.
2016-01-07 02:35:38 -05:00
e6352001c4
gnu: w3m: Update patch to use '-p1'.
...
* gnu/packages/patches/w3m-fix-compile.patch: Rename this file...
* gnu/packages/patches/w3m-libgc.patch: ...to this, and adjust patch
prefix level to '-p1'.
* gnu-system.am (dist_patch_DATA): Update patch name.
* gnu/packages/w3m.scm (w3m)[source]: Update patch name.
[source]: Drop patch flag -p0.
2016-01-07 02:35:38 -05:00
d4aaf95401
build-system/gnu: Make 'package-with-explicit-inputs' idempotent.
...
* guix/build-system/gnu.scm (package-with-explicit-inputs): Use
'ensure-keyword-arguments' instead of appending to ARGS.
* gnu/packages/commencement.scm (static-bash-for-glibc): Add missing
#:guile argument.
2016-01-06 23:08:22 +01:00
dff9141c5e
gnu: guix: Update development snapshot to f888c0b.
...
* gnu/packages/package-management.scm (guix-devel): Update to f888c0b
2016-01-06 23:08:22 +01:00
c7b08410de
gnu: gmsh: Update to 2.11.0.
...
* gnu/packages/maths.scm (gmsh): Update to 2.11.0.
[arguments]: Replace 'check phase.
2016-01-06 10:49:23 -06:00
7b78f359d1
gnu: sudo: Use /var/run/sudo instead of /run/sudo.
...
* gnu/packages/admin.scm (sudo)[arguments]: Pass
--with-rundir=/var/run/sudo since /var/run is cleaned up at boot time on
GuixSD whereas /run is not.
2016-01-06 15:51:31 +01:00
341ae58213
gnu: ldc: Fix license.
...
* gnu/packages/ldc.scm (ldc)[license]: Replace invalid use of
'license:x11-style' by LICENSE:BOOST1.0.
2016-01-06 14:21:53 +01:00
a243e12aba
gnu: icedtea7: Rename to icedtea-7.
...
* gnu/packages/java.scm (icedtea7): Rename variable to...
(icedtea-7): ...this.
(icedtea): Refer to "icedtea-7".
2016-01-06 11:38:50 +01:00
d028740622
gnu: icedtea6: Rename to icedtea-6.
...
* gnu/packages/java.scm (icedtea6): Rename variable to...
(icedtea-6): ...this.
2016-01-06 11:38:50 +01:00
5452588c1a
gnu: icedtea6, icedtea7: Rename package to "icedtea".
...
* gnu/packages/java.scm (icedtea6): Change package name to "icedtea".
(icedtea7): Inherit package name.
2016-01-06 11:38:50 +01:00
d2540f80c2
gnu: Add and use default IcedTea.
...
* gnu/packages/java.scm (icedtea): New variable.
(swt)[native-inputs]: Replace "icedtea6" with "icedtea".
* gnu/packages/bioinformatics.scm (htsjdk)[native-inputs]: Likewise.
(ngs-java)[inputs]: Likewise.
* gnu/packages/kodi.scm (kodi)[native-inputs]: Replace "icedtea7" with
"icedtea".
* gnu/packages/ruby.scm (ruby-rjb)[native-inputs]: Replace "icedtea7"
with "icedtea".
2016-01-06 11:38:50 +01:00
d91488908b
gnu: icedtea6, icedtea7: Unpack to "openjdk.src".
...
* gnu/packages/java.scm (icedtea6)[arguments]: Unpack OpenJDK sources to
"openjdk.src".
(icedtea7)[arguments]: Inherit "--with-openjdk-src-dir" flag; refer to
"openjdk.src" in build phases; simplify "unpack" phase.
[native-inputs]: Rename "openjdk-drop" to "openjdk-src".
2016-01-06 11:38:50 +01:00
43c565d2e7
gnu: Add Jellyfish.
...
* gnu/packages/bioinformatics.scm (jellyfish): New variable.
2016-01-06 11:10:46 +01:00
7d1f8d4f52
gnu: calibre: Update to 2.48.0.
...
* gnu/packages/ebook.scm (calibre): Update to 2.48.0.
2016-01-05 22:46:54 +01:00
a7ec569c98
gnu: Add LDC.
...
* gnu/packages/ldc.scm: New file.
* gnu/packages/patches/ldc-disable-tests.patch: New file.
* gnu-system.am (GNU_SYSTEM_MODULES): Add ldc.scm.
(dist_patch_DATA): Add patch file.
2016-01-05 16:24:57 +01:00
1075b43737
gnu: Add emacs-undo-tree.
...
* gnu/packages/emacs.scm (emacs-undo-tree): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-01-05 00:28:42 +01:00
fe542b9762
gnu: emacs: Remove 'info.info'.
...
* gnu/packages/emacs.scm (emacs)[arguments]: Use 'modify-phases'. Add
'remove-info.info' phase.
2016-01-05 00:28:42 +01:00
4828ff91ff
gnu: gtk+: Add patch to support GUIX_GTK3_PATH.
...
* gnu/packages/patches/gtk3-respect-GUIX_GTK3_PATH: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/gtk.scm (gtk+) [source]: Add patch.
[native-search-paths]: Add search path for GUIX_GTK3_PATH.
2016-01-04 16:11:10 -05:00
2a6afac905
gnu: gtk+-2: Add patch to support GUIX_GTK2_PATH.
...
* gnu/packages/patches/gtk2-respect-GUIX_GTK2_PATH: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/gtk.scm (gtk+-2) [source]: Add patch.
[native-search-paths]: Add search path for GUIX_GTK2_PATH.
2016-01-04 16:11:10 -05:00
c2e87caaa6
gnu: julia: Update to 0.4.2.
...
* gnu/packages/patches/julia-0.3.10-fix-empty-array.patch: Remove file.
* gnu-system.am (dist_patch_DATA): Remove it.
* gnu/packages/julia.scm (julia): Update to 0.4.2.
[arguments]: Remove phase "fix-building-with-mcjit-llvm"; replace phase
"patch-include-path" with "fix-include-and-link-paths"; add phase
"hardcode-paths"; add missing make-flags.
[inputs]: Replace "pcre" with "pcre2"; replace "git" with "libgit2"; add
"coreutils"; add "libuv-julia"; add "wget"; add "which".
[native-inputs]: Remove "which".
2016-01-04 11:35:57 +01:00
50b40d0709
gnu: Add libuv-julia.
...
* gnu/packages/julia.scm (libuv-julia): New variable.
2016-01-04 11:35:57 +01:00
f1e3a8aed2
gnu: utf8proc: Update to 1.3.1.
...
* gnu/packages/textutils.scm (utf8proc): Update to 1.3.1.
[arguments]: Remove custom "install" phase.
2016-01-04 11:35:57 +01:00
77553dff86
gnu: samba: Update to 4.3.3.
...
Fixes CVE-2015-{3223,5252,5299,5296,8467,5330}.
* gnu/packages/samba.scm (samba): Update to 4.3.3.
2016-01-03 14:59:49 -05:00
f6cddbefcc
gnu: ldb: Update to 1.1.24.
...
Required for samba-4.3.3 in order to fix CVE-2015-5330 and
CVE-2015-3223.
* gnu/packages/samba.scm (ldb): Update to 1.2.24.
2016-01-03 14:59:49 -05:00
209778717a
gnu: Add Asymptote.
...
* gnu/packages/bdw-gc.scm (libgc-for-c++): New variable.
* gnu/packages/plotutils.scm (asymptote): New variable.
* gnu/packages/patches/asymptote-gsl2.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
2016-01-02 16:04:55 -06:00
b989390889
gnu: Add python-markdown.
...
* gnu/packages/python.scm (python-markdown, python2-markdown): New
variables.
Signed-off-by: Leo Famulari <leo@famulari.name>
2016-01-02 00:07:29 -05:00
05d48c5243
gnu: love: Update to 0.10.0.
...
* gnu/packages/game-development.scm (love): Update to 0.10.0.
2016-01-02 10:31:53 +08:00
319007c507
gnu: guile-ssh: Update to 0.9.0.
...
* gnu/packages/ssh.scm (guile-ssh): Update to 0.9.0.
2016-01-01 22:59:20 +01:00
45147b0caa
gnu: Add xaos.
...
* gnu/packages/maths.scm (xaos): New variable.
Signed-off-by: Alex Kost <alezost@gmail.com>
2015-12-31 11:29:43 +03:00
658212ebf7
gnu: Move cursynth to (gnu packages music).
...
* gnu/packages/cursynth.scm: Remove.
* gnu/packages/music.scm (cursynth): New variable, from cursynth.scm.
* gnu-system.am (GNU_SYSTEM_MODULES): Remove cursynth.scm.
2015-12-30 21:26:05 -05:00
2ef8bbc3ae
gnu: libcue: Update source URL.
...
* gnu/packages/cdrom.scm (libcue)[source]: Update URL.
2015-12-30 19:59:58 -05:00
34da7af4c1
gnu: python-mox3: Update to 0.13.0.
...
* gnu/packages/openstack.scm (python-mox3): Update to 0.13.0.
2015-12-30 23:16:09 +02:00
13fcc6df37
gnu: python-fixtures: Update to 1.4.0.
...
* gnu/packages/python.scm (python-fixtures): Update to 1.4.0.
2015-12-30 23:16:09 +02:00
af1ab77312
gnu: python-pyld: Update to 0.6.8.
...
* gnu/packages/python.scm (python-pyld): Update to 0.6.8.
2015-12-30 23:16:09 +02:00
1780424035
gnu: python-virtualenv: Update to 13.1.2.
...
* gnu/packages/python.scm (python-virtualenv): Update to 13.1.2.
[arguments]: Custom test command.
[inputs]: Remove python-nose, add python-pytest.
2015-12-30 23:16:09 +02:00
ec89a25cad
gnu: python-oslosphinx: Update to 4.2.0.
...
* gnu/packages/openstack.scm (python-oslosphinx): Update to 4.2.0.
2015-12-30 23:16:09 +02:00
f66bb273de
gnu: python-oslo.serialization: Update to 2.2.0.
...
* gnu/packages/openstack.scm (python-oslo.serialization): Update to 2.2.0.
2015-12-30 23:16:09 +02:00
4768988887
gnu: python-os-testr: Update to 0.5.0.
...
* gnu/packages/openstack.scm (python-os-testr): Update to 0.5.0.
2015-12-30 23:16:09 +02:00
45f4c28d80
gnu: python-stevedore: Update to 1.10.0.
...
* gnu/packages/openstack.scm (python-stevedore): Update to 1.10.0.
2015-12-30 23:16:09 +02:00
622d21bba9
gnu: python-tempest-lib: Update to 0.12.0.
...
* gnu/packages/openstack.scm (python-tempest-lib): Update to 0.12.0.
2015-12-30 23:16:09 +02:00
690e8c6637
gnu: python-passlib: Update to 1.6.5.
...
* gnu/packages/python.scm (python-passlib): Update to 1.6.5.
2015-12-30 23:16:09 +02:00
03fd001cef
gnu: python-libarchive-c: Update to 2.2.
...
* gnu/packages/python.scm (python-libarchive-c): Update to 2.2.
2015-12-30 23:16:09 +02:00
99b00dc796
gnu: python-tlsh: Update to 3.4.4.
...
* gnu/packages/python.scm (python-tlsh): Update to 3.4.4.
2015-12-30 23:16:09 +02:00
b8834c219e
gnu: python-webob: Update to 1.5.1.
...
* gnu/packages/python.scm (python-webob): Update to 1.5.1.
2015-12-30 23:16:09 +02:00
1b99553317
gnu: python-flake8: Update to 2.5.1.
...
* gnu/packages/python.scm (python-flake8): Update to 2.5.1.
2015-12-30 23:16:09 +02:00
2abc397225
gnu: python-pyflakes: Update to 1.0.0.
...
* gnu/packages/python.scm (python-pyflakes): Update to 1.0.0.
2015-12-30 23:16:09 +02:00
3655ee76a6
gnu: python-pyzmq: Update to 15.1.0.
...
* gnu/packages/python.scm (python-pyzmq): Update to 15.1.0.
2015-12-30 23:16:09 +02:00
f56777be0a
gnu: python-psutil: Update to 3.3.0.
...
* gnu/packages/python.scm (python-psutil): Update to 3.3.0.
2015-12-30 23:16:09 +02:00
38eb6919e1
gnu: python-pycparser: Update to 2.14.
...
* gnu/packages/python.scm (python-pycparser): Update to 2.14.
2015-12-30 23:16:09 +02:00
d9aa097b96
gnu: python-pyrfc3339: Update to 1.0.
...
* gnu/packages/python.scm (python-pyrfc3339): Update to 1.0.
2015-12-30 23:16:09 +02:00
f7cb984133
gnu: python-nose: Update to 1.3.7.
...
* gnu/packages/python.scm (python-nose): Update to 1.3.7.
2015-12-30 23:16:09 +02:00
ec3bcbc7e4
gnu: python-rpy2: Update to 2.7.6.
...
* gnu/packages/python.scm (python-rpy2): Update to 2.7.6.
2015-12-30 23:16:09 +02:00
11f97c27bc
gnu: pelican: Update to 3.6.3.
...
* gnu/packages/python.scm (pelican): Update to 3.6.3.
2015-12-30 23:16:09 +02:00
e98149b3a4
gnu: python-jinja2: Update to 2.8.
...
* gnu/packages/python.scm (python-jinja2): Update to 2.8.
2015-12-30 23:16:09 +02:00
8925d4f345
gnu: python-unidecode: Update to 0.04.18.
...
* gnu/packages/python.scm (python-unidecode): Update to 0.04.18.
2015-12-30 23:16:09 +02:00
7fb9ff4dea
gnu: python-blinker: Update to 1.4.
...
* gnu/packages/python.scm (python-blinker): Update to 1.4.
2015-12-30 23:16:09 +02:00
c2a9c1c0bc
gnu: python-dateutil: Update to 2.4.2.
...
* gnu/packages/python.scm (python-dateutil): Update to 2.4.2.
2015-12-30 23:16:09 +02:00
2c3d13fe1b
gnu: isync: Update to 1.2.1.
...
* gnu/packages/mail.scm (isync): Update to 1.2.1.
2015-12-30 23:16:09 +02:00
aadf46253a
gnu: getmail: Update to 4.48.0.
...
* gnu/packages/mail.scm (getmail): Update to 4.48.0.
2015-12-30 23:16:09 +02:00
866fade9e5
gnu: notmuch: Update to 0.21.
...
* gnu/packages/mail.scm (notmuch): Update to 0.21.
2015-12-30 23:16:09 +02:00
70e9d258c4
gnu: youtube-dl: Update to 2015.12.29.
...
* gnu/packages/video.scm (youtube-dl): Update to 2015.12.29.
2015-12-30 23:16:09 +02:00
31e98ca63f
gnu: offlineimap: Update to 6.6.1.
...
* gnu/packages/mail.scm (offlineimap): Update to 6.6.1.
2015-12-30 23:16:09 +02:00
3d5fd24090
gnu: Add Fritzing.
...
* gnu/packages/engineering.scm (fritzing): New variable.
2015-12-30 20:41:33 +01:00
0084aaf3d4
gnu: Add lcov.
...
* gnu/packages/code.scm (lcov): New variable.
2015-12-30 19:14:04 +01:00
0c1910ed03
gnu: ladspa: Update URLs.
...
* gnu/packages/audio.scm (ladspa): Update source and home page url.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2015-12-30 18:18:38 +01:00
f95dad899b
gnu: texlive: Patch texmfcnf.lua.
...
* gnu/packages/texlive.scm (texlive): Patch texmfcnf.lua to point to the
absolute texlive-texmf tree.
2015-12-30 11:24:26 +01:00
826244f01a
gnu: fuse: Fix source URI.
...
This is a followup to commit b7e7d1b9d3
2015-12-29 22:25:02 -05:00
19f4554c94
gnu: Add fraggenescan.
...
* gnu/packages/bioinformatics.scm (fraggenescan): New variable.
2015-12-29 20:14:03 -05:00
6819a8ddd6
gnu: Add shntool.
...
* gnu/packages/audio.scm (shntool): New variable.
2015-12-29 19:55:21 -05:00
6da16993eb
gnu: Add cuetools.
...
* gnu/packages/audio.scm (cuetools): New variable.
2015-12-29 19:55:21 -05:00
11afbbc651
gnu: enlightenment: Update to 0.20.2.
...
* gnu/packages/enlightenment.scm (enlightenment): Update to 0.20.2.
2015-12-29 22:52:20 +02:00
6959a13271
gnu: sshfs-fuse: Update source URL.
...
* gnu/packages/linux.scm (sshfs-fuse)[source]: Update URL.
2015-12-29 14:20:55 -05:00
b7e7d1b9d3
gnu: fuse: Update to 2.9.4.
...
* gnu/packages/patches/fuse-CVE-2015-3202.patch: Delete file.
* gnu-system.am (dist_patch_DATA): Remove it.
* gnu/packages/linux.scm (fuse): Update to 2.9.4.
[source]: Remove patch.
2015-12-29 14:20:55 -05:00
c7d0bf0071
gnu: youtube-dl: Update to 2015.12.23.
...
* gnu/packages/video.scm (youtube-dl): Update to 2015.12.23.
2015-12-29 09:33:10 +02:00
6da2e99e2e
gnu: tuxguitar: Set missing GCJFLAGS.
...
* gnu/packages/music.scm (tuxguitar)[arguments]: Set compiler flags
"-fsource=1.4" and "-fPIC".
2015-12-29 07:52:19 +01:00
5f1c949866
gnu: tuxguitar: Use "modify-phases" syntax.
...
* gnu/packages/music.scm (tuxguitar)[arguments]: Use "modify-phases"
syntax.
2015-12-29 07:52:19 +01:00
c1ff0f2fed
gnu: irssi: Update source URL.
...
* gnu/packages/irssi.scm (irssi)[source]: Update URL.
2015-12-27 17:39:03 -05:00
85d42329b3
gnu: elementary: Update to 1.16.1.
...
* gnu/packages/enlightenment.scm (elementary): Update to 1.16.1.
2015-12-27 15:33:20 +02:00
c1a064c96e
gnu: efl: Update to 1.16.1.
...
* gnu/packages/enlightenment.scm (efl): Update to 1.16.1.
2015-12-27 14:44:29 +02:00
e21338bec5
gnu: python-decorator: Update to 4.0.6.
...
* gnu/packages/python.scm (python-decorator): Update to 4.0.6.
2015-12-26 23:10:53 +02:00
2a2d098195
gnu: python-exif-read: Update to 2.1.2.
...
* gnu/packages/python.scm (python-exif-read): Update to 2.1.2.
2015-12-26 23:10:53 +02:00
82a3c582a3
gnu: python-coverage: Update to 4.0.3.
...
* gnu/packages/python.scm (python-coverage): Update to 4.0.3.
2015-12-26 23:10:53 +02:00
9f44228512
gnu: python-pygments: Update to 2.0.2.
...
* gnu/packages/python.scm (python-pygments): Update to 2.0.2.
2015-12-26 23:10:53 +02:00
2d3a437c79
gnu: python-cffi: Update to 1.4.2.
...
* gnu/packages/python.scm (python-cffi): Update to 1.4.2.
2015-12-26 23:10:53 +02:00
Ricardo Wurmus
Raimon Grau
宋文武
Ben Woodcroft
Leo Famulari
Ludovic Courtès
Eric Bavier
Andreas Enge
Roel Janssen
Dmitry Bogatov
Ricardo Wurmus
Erik Edrosa
Fabian Harfert
Efraim Flashner
Alex Vong
Mark H Weaver
Ben Woodcroft