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70f1bc051a
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9267 Commits

Author SHA1 Message Date
Ben Woodcroft
70f1bc051a
gnu: Add bpp-seq. 
* gnu/packages/bioinformatics.scm (bpp-seq): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
985d841144
gnu: Add bpp-core. 
* gnu/packages/bioinformatics.scm (bpp-core): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
791c11d6a0
gnu: Add mcl. 
* gnu/packages/machine-learning.scm (mcl): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
f559472939
gnu: Add perl-env-path. 
* gnu/packages/perl.scm (perl-env-path): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
f82cef25ca
gnu: Add perl-test-files. 
* gnu/packages/perl.scm (perl-test-files): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
67cc6d7380
gnu: Add perl-array-utils. 
* gnu/packages/perl.scm (perl-array-utils): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
b33fdcc488
gnu: Add perl-file-grep. 
* gnu/packages/perl.scm (perl-file-grep): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
b1ed9cf191
gnu: Add perl-file-path. 
* gnu/packages/perl.scm (perl-file-path): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
8a525c3f08
gnu: Add perl-file-slurper. 
* gnu/packages/perl.scm (perl-file-slurper): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
5eec378b79
gnu: Add perl-graph-readwrite. 
* gnu/packages/xml.scm (perl-graph-readwrite): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
085f59a50e
gnu: Add perl-graph. 
* gnu/packages/perl.scm (perl-graph): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
5e2b27b045
gnu: Add perl-parse-yapp. 
* gnu/packages/perl.scm (perl-parse-yapp): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
176345c5b2
gnu: Add perl-xml-writer. 
* gnu/packages/perl.scm (perl-xml-writer): New variable.
 2016-08-08 22:08:17 +10:00
Ben Woodcroft
47bc991f71
gnu: parallel: Use full paths for executables. 
* gnu/packages/parallel.scm (parallel)[inputs]: Add procps.
[arguments]: New field.
 2016-08-08 22:07:49 +10:00
Efraim Flashner
7d229e2602
gnu: offlineimap: Update to 7.0.4. 
* gnu/packages/mail.scm (offlineimap): Update to 7.0.4.
 2016-08-07 21:44:51 +03:00
ng0
99840fbbee
gnu: Add ii. 
* gnu/packages/irc.scm (ii): New variable.

Signed-off-by: Alex Kost <alezost@gmail.com>
 2016-08-07 16:54:30 +03:00
ng0
8a48353a4f
gnu: zathura-pdf-poppler: Update to 0.2.6. 
* gnu/packages/pdf.scm (zathura-pdf-poppler): Update to 0.2.6.

Signed-off-by: Alex Kost <alezost@gmail.com>
 2016-08-07 16:54:30 +03:00
ng0
b7f3e363ee
gnu: zathura-djvu: Update to 0.2.5. 
* gnu/packages/pdf.scm (zathura-djvu): Update to 0.2.5.

Signed-off-by: Alex Kost <alezost@gmail.com>
 2016-08-07 16:54:30 +03:00
ng0
402a754724
gnu: zathura-ps: Update to 0.2.3. 
* gnu/packages/pdf.scm (zathura-ps): Update to 0.2.3.

Signed-off-by: Alex Kost <alezost@gmail.com>
 2016-08-07 16:54:30 +03:00
ng0
8dd739e1de
gnu: zathura-cb: Update to 0.1.5. 
* gnu/packages/pdf.scm (zathura-cb): Update to 0.1.5.

Signed-off-by: Alex Kost <alezost@gmail.com>
 2016-08-07 16:54:30 +03:00
ng0
860086529f
gnu: zathura: Update to 0.3.6. 
* gnu/packages/pdf.scm (zathura): Update to 0.3.6.

Signed-off-by: Alex Kost <alezost@gmail.com>
 2016-08-07 16:54:30 +03:00
ng0
97b66a91dd
gnu: girara: Update to 0.2.6. 
* gnu/packages/gtk.scm (girara): Update to 0.2.6.

Signed-off-by: Alex Kost <alezost@gmail.com>
 2016-08-07 16:54:30 +03:00
Leo Famulari
1ae44b802b
gnu: Add python-pythondialog. 
* gnu/packages/python.scm (python-pythondialog): New variable.
(python2-pythondialog): Inherit from PYTHON-PYTHONDIALOG.

Co-authored-by: Vincent Legoll <vincent.legoll@idgrilles.fr>
 2016-08-06 22:55:36 -04:00
Alex Griffin
e87c7ec2de
gnu: Add bs1770gain. 
* gnu/packages/video.scm (bs1770gain): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2016-08-06 22:50:15 -04:00
Ben Woodcroft
1817d30ad3
gnu: ruby-cucumber-core: Update to 1.5.0. 
* gnu/packages/ruby.scm (ruby-cucumber-core): Update to 1.5.0.
 2016-08-06 21:37:37 +10:00
Ben Woodcroft
9e12eba866
gnu: Add python-biom-format. 
* gnu/packages/bioinformatics.scm (python-biom-format,
python2-biom-format): New variables.
 2016-08-06 09:44:28 +10:00
Ben Woodcroft
da4ac1aaa4
gnu: Add python-future. 
* gnu/packages/python.scm (python-future, python2-future): New
variables.
 2016-08-06 09:44:28 +10:00
Leo Famulari
fd34d4f449
gnu: icedtea-8: Update to 3.1.0. 
Fixes CVE-2016-{3458,3485,3500,3508,3550,3587,3606,3598,3610}.

* gnu/packages/java.scm (icedtea-8): Update to 3.1.0.
[native-inputs]: Add SHENANDOAH-DROP.
 2016-08-05 18:43:19 -04:00
Leo Famulari
2b836df375
gnu: icedtea-7: Update to 2.6.7. 
Fixes CVE-2016-{3458,3485,3500,3508,3550,3598,3606,3610}.

* gnu/packages/java.scm (icedtea-7):  Update to 2.6.7.
 2016-08-05 18:43:19 -04:00
David Craven
e02cd2b8fe
gnu: spice-vdagent: Set Exec path in spice-vdagent.desktop. 
* gnu/packages/spice.scm (spice-vdagent): Set Exec path in
spice-vdagent.desktop.
 2016-08-05 21:48:43 +02:00
David Craven
38b9ce44db
gnu: qemu: Enable spice support. 
* gnu/packages/qemu.scm (qemu)[inputs]: Add SPICE and VIRGLRENDERER.
  (qemu-minimal)[inputs]: Remove SPICE and VIRGLRENDERER.
 2016-08-05 21:48:43 +02:00
David Craven
2f04282297
gnu: qemu: Reorder inputs alphabetically. 
* gnu/packages/qemu.scm (qemu): Reorder inputs alphabetically.
 2016-08-05 21:48:43 +02:00
ng0
4cc4d363f2
gnu: tor: Update to 0.2.8.6. 
* gnu/packages/tor.scm (tor): Update to 0.2.8.6.

Signed-off-by: Andreas Enge <andreas@enge.fr>
 2016-08-05 21:18:34 +02:00
Andreas Enge
a1e0652dd8
gnu: qjson: Remove package. 
* gnu/packages/qt.scm (qjson): Delete variable.
 2016-08-05 21:16:36 +02:00
ng0
c744f5c0ad
gnu: Add ircii. 
* gnu/packages/irc.scm (ircii): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2016-08-05 15:10:04 -04:00
Erik Edrosa
e28e74a518
gnu: Add guile-commonmark 
* gnu/packages/guile.scm (guile-commonmark): New variable.
 2016-08-05 09:25:41 +02:00
Ricardo Wurmus
f467c35261
gnu: tuxguitar: Update to 1.3.2. 
* gnu/packages/music.scm (tuxguitar): Update to 1.3.2.
[arguments]: Use ant-build-system and rearrange build phases.
[native-inputs]: Remove field.
 2016-08-04 21:32:13 +02:00
Ludovic Courtès
7912677c1e
gnu: gcc: Reintroduce dependency on Texinfo. 
This partly reverts 868c13c53a, which
introduced a regression whereby gcc@5 and gcc@6 would no longer contain
their Info manual.

* gnu/packages/gcc.scm (gcc-5)[native-inputs]: Remove.
 2016-08-04 19:38:33 +02:00
Leo Famulari
e686e633ad
gnu: curl: Replace with 7.50.1 [fixes CVE-2016-{3739,4802,5419,5420,5421]. 
* gnu/packages/curl.scm (curl)[replacement]: New field.
(curl-7.50.1): New variable.
 2016-08-04 12:57:36 -04:00
Tobias Geerinckx-Rice
7ccb874a29
gnu: zsh: Move to shells.scm. 
* gnu/packages/zsh.scm (zsh): Move from here ...
* gnu/packages/shells.scm (zsh): ... to here.
* gnu/packages/zsh.scm: Delete file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Remove zsh.scm.
 2016-08-04 08:17:39 -04:00
Mark H Weaver
536fc5f8cd
Merge branch 'core-updates' 2016-08-04 08:17:05 -04:00
Mark H Weaver
0832787e5c
Revert "Merge branch 'core-updates'" 
This reverts commit 455859a50f.
 2016-08-04 08:16:38 -04:00
Mark H Weaver
5b098cc4b9
Revert "gnu: zsh: Move to shells.scm." 
This reverts commit 12b63ab505.
 2016-08-04 08:16:27 -04:00
Ricardo Wurmus
8b52167e77
gnu: python-statsmodels: Fix tests. 
* gnu/packages/statistics.scm (python-statsmodels): Add patch to fix tests.
(python2-statsmodels)[propagated-inputs]: Add python2-pytz.
* gnu/packages/patches/python-statsmodels-fix-tests.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
 2016-08-04 13:40:13 +02:00
Andreas Enge
6ad08117d9
gnu: gtk-doc: Disable parallel tests. 
* gnu/packages/gtk.scm (gtk-doc)[arguments]: Disable parallel tests.
 2016-08-04 12:46:28 +02:00
Andreas Enge
9d19e18d24
gnu: gtk-doc: Update to 1.25. 
* gnu/packages/gtk.scm (gtk-doc): Update to 1.25.
 2016-08-04 12:46:28 +02:00
Ben Woodcroft
752bb44794
gnu: python2-bz2file: Use python-2. 
This is a followup to 124df723a0.
Problem reported by Andreas Enge <andreas@enge.fr>.

* gnu/packages/python.scm (python2-bz2file)[arguments]: Use python-2.
 2016-08-04 20:09:40 +10:00
Andreas Enge
2470d779c9
gnu: qt: Update to 5.6.1-1. 
* gnu/packages/qt.scm (qt): Update to 5.6.1-1.

Co-authored-by: David Craven <david@craven.ch>
 2016-08-04 09:56:03 +02:00
Andreas Enge
cce28b0c3a
gnu: qt: Use modify-phases syntax. 
* gnu/packages/qt.scm (qt): Use modify-phases syntax.
 2016-08-04 09:56:03 +02:00
Andreas Enge
7972d8a2e9
gnu: qtbase: Modify .cmake files to enable modules in different packages. 
* gnu/packages/qt.scm (qtbase)[arguments]: In the configure phase, modify
.cmake and .cmake.in files so that find_package honors CMAKE_PREFIX_PATH.
 2016-08-04 01:19:12 +02:00