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6748 commits

Author SHA1 Message Date
Ricardo Wurmus
bf7764b74f gnu: Add GenomeInfoDb. 
* gnu/packages/bioinformatics.scm (r-genomeinfodb): New variable.
 2015-12-21 17:22:16 +01:00
Ricardo Wurmus
78addcb0eb gnu: Add IRanges. 
* gnu/packages/bioinformatics.scm (r-iranges): New variable.
 2015-12-21 17:22:16 +01:00
Ricardo Wurmus
7485129e4f gnu: Add S4Vectors. 
* gnu/packages/bioinformatics.scm (r-s4vectors): New variable.
 2015-12-21 17:22:16 +01:00
Ricardo Wurmus
d29b25c490 gnu: Add BiocGenerics. 
* gnu/packages/bioinformatics.scm (r-biocgenerics): New variable.
 2015-12-21 17:22:16 +01:00
Ricardo Wurmus
9fba89e829 gnu: Add r-acsnminer. 
* gnu/packages/bioinformatics.scm (r-acsnminer): New variable.
 2015-12-21 17:21:26 +01:00
Ricardo Wurmus
9e47f30b08 gnu: Add r-gridextra. 
* gnu/packages/statistics.scm (r-gridextra): New variable.
 2015-12-21 17:21:26 +01:00
Ricardo Wurmus
b73751c8ff gnu: Add r-gtable. 
* gnu/packages/statistics.scm (r-gtable): New variable.
 2015-12-21 17:21:26 +01:00
Ricardo Wurmus
77bdb276e9 gnu: Add r-rmarkdown. 
* gnu/packages/statistics.scm (r-rmarkdown): New variable.
* gnu/packages/haskell.scm: Do not select libxml2 from the xml module to
  prevent circular package module imports.
 2015-12-21 17:13:44 +01:00
Ricardo Wurmus
4c1f2705b5 gnu: Add r-catools. 
* gnu/packages/statistics.scm (r-catools): New variable.
 2015-12-21 17:13:44 +01:00
Ricardo Wurmus
bb6d2dadf7 gnu: Add r-bitops. 
* gnu/packages/statistics.scm (r-bitops): New variable.
 2015-12-21 17:13:44 +01:00
Ricardo Wurmus
8406138b72 gnu: Add AdaptiveSparsity. 
* gnu/packages/machine-learning.scm (r-adaptivesparsity): New variable.
 2015-12-21 16:05:38 +01:00
Ricardo Wurmus
e22d4ca4c4 gnu: Add r-rcpparmadillo. 
* gnu/packages/maths.scm (armadillo-for-rcpparmadillo): New variable.
* gnu/packages/statistics.scm (r-rcpparmadillo): New variable.
 2015-12-21 16:05:37 +01:00
Ricardo Wurmus
b15e47f9e6 gnu: Add armadillo. 
* gnu/packages/maths.scm (armadillo): New variable.
 2015-12-21 15:47:40 +01:00
Ricardo Wurmus
086e498bcf gnu: Add libgit2. 
* gnu/packages/version-control.scm (libgit2): New variable.
 2015-12-21 15:22:14 +01:00
Ben Woodcroft
02f35bb5a7 gnu: mafft: Update to 7.267. 
* gnu/packages/bioinformatics.scm (mafft): Update to 7.267.
[arguments]: Don't include mafft-homologs manpage.
[inputs]: Add gawk and grep.
[propagated-inputs]: Add coreutils.
 2015-12-21 15:16:01 +01:00
Mathieu Lirzin
1ef3f91a70 gnu: rxvt-unicode: Install the terminal capability data. 
This provides the necessary terminal capability data, which are required
by ncurses-based applications.

* gnu/packages/xdisorg.scm (rxvt-unicode)[native-inputs]: Add ncurses.
[arguments]: Set the destination of the terminfo files.
[native-search-path]: New field.  Make them automatically available to
the user.
 2015-12-21 13:35:34 +01:00
Efraim Flashner
72d8b5baf4 gnu: msmtp: Update to 1.6.3. 
* gnu/packages/mail.scm (msmtp): Update to 1.6.3.
[inputs]: Add libsecret.
 2015-12-21 09:36:15 +02:00
Efraim Flashner
ec92806ae5 gnu: claws-mail: Update to 3.13.1. 
* gnu/packages/mail.scm (claws-mail): Update to 3.13.1.
 2015-12-21 09:17:47 +02:00
Efraim Flashner
56918e26cf gnu: python-cython: Update to 0.23.4. 
* gnu/packages/python.scm (python-cython): Update to 0.23.4.
 2015-12-21 06:55:13 +02:00
David Thompson
e99711af22 gnu: ruby: Update to 2.2.4. 
This version fixes CVE-2015-7551.

* gnu/packages/ruby.scm (ruby): Update to 2.2.4.
 2015-12-20 22:40:53 -05:00
Ludovic Courtès
724a7d9c74 packages: Remove now redundant graph procedures. 
These procedures are now redundant with those in (guix graph) and are no
longer used since commit a51cbecb.

* gnu/packages.scm (vhash-refq, package-dependencies)
(package-direct-dependents, package-transitive-dependents)
(package-covering-dependents): Remove.
 2015-12-20 22:34:22 +01:00
Efraim Flashner
54b7f63a72 gnu: offlineimap: Update to 6.6.0. 
* gnu/packages/mail.scm (offlineimap): Update to 6.6.0.
 2015-12-20 21:39:18 +02:00
Efraim Flashner
b5d47a5a53 gnu: gnupg: Update to 1.4.20. 
* gnu/packages/gnupg.scm (gnupg-1): Update to 1.4.20.
 2015-12-20 20:07:31 +02:00
宋文武
a4df575631 gnu: Add gnome-shell. 
* gnu/packages/gnome.scm (gnome-shell): New variable.
 2015-12-20 18:59:22 +08:00
宋文武
b645146f00 gnu: Add gnome-control-center. 
* gnu/packages/gnome.scm (gnome-control-center): New variable.
 2015-12-20 18:59:22 +08:00
宋文武
b96c42605b gnu: Add gnome-bluetooth. 
* gnu/packages/gnome.scm (gnome-bluetooth): New variable.
 2015-12-20 18:59:22 +08:00
宋文武
8e1dd04f45 gnu: Add libgtop. 
* gnu/packages/gnome.scm (libgtop): New variable.
 2015-12-20 18:59:21 +08:00
宋文武
e682327976 gnu: Add colord-gtk. 
* gnu/packages/freedesktop.scm (colord-gtk): New variable.
 2015-12-20 18:59:21 +08:00
宋文武
6976e7d2ff gnu: Add telepathy-logger. 
* gnu/packages/freedesktop.scm (telepathy-logger): New variable.
 2015-12-20 18:59:21 +08:00
Efraim Flashner
ff80b96378 gnu: tilda: Update to 1.3.1. 
* gnu/packages/terminals.scm (tilda): Update to 1.3.1.
 2015-12-20 09:40:56 +02:00
Ludovic Courtès
604d20a251 gnu: Add tlsdate. 
* gnu/packages/ntp.scm (tlsdate): New variable.
 2015-12-19 23:16:18 +01:00
宋文武
04dc6c9992 gnu: mpv: Update to 0.14.0. 
* gnu/packages/video.scm (mpv): Update to 0.14.0.
 2015-12-19 12:21:59 +08:00
宋文武
599fd84227 gnu: mpv: Fix build by using pkg-config for smbclient. 
This is a followup to commit 710964d.

* gnu/packages/video.scm (mpv)[arguments]: Remove 'patch-wscript' phase.
 2015-12-19 12:15:59 +08:00
Ludovic Courtès
7db0799dc9 gnu: agg: Update URLs. 
* gnu/packages/graphics.scm (agg)[source, home-page]: Add up-to-date
URLs.
 2015-12-19 00:42:10 +01:00
Ludovic Courtès
3ac732715d gnu: Use #:prefix when importing (guix licenses). 
This works around a problem with #:hide, whereby Guile would report
'zlib', 'openssl', and/or 'expat as colliding bindings at run time
despite the #:hide.

* gnu/packages/linux.scm: Use #:prefix license for (guix licenses).
* gnu/packages/haskell.scm: Likewise.
 2015-12-19 00:34:00 +01:00
Ludovic Courtès
793bcc1933 gnu: Do not #:select from (gnu packages …) modules. 
This is to avoid <http://bugs.gnu.org/15540>.

* gnu/packages/bittorrent.scm: Do not #:select from (gnu packages
compression).
* gnu/packages/dictionaries.scm: Likewise.
* gnu/packages/disk.scm: Likewise.
* gnu/packages/gimp.scm: Likewise.
* gnu/packages/haskell.scm: Likewise.
 2015-12-19 00:22:42 +01:00
Ludovic Courtès
bf46f74160 gnu: key-mon: Remove unnecessary propagated inputs. 
* gnu/packages/key-mon.scm (key-mon)[propagated-inputs]: Rename to...
[inputs]: ... this.  Propagated was unnecessary since the 'key-mon'
program is wrapped.
 2015-12-18 11:04:22 +01:00
Ludovic Courtès
594e7b479a gnu: python2-pygtk: Add "doc" output. 
* gnu/packages/gtk.scm (python2-pygtk)[outputs]: New field.
[arguments]: Add 'set-gtk-doc-directory' phase.
 2015-12-18 11:04:22 +01:00
Ludovic Courtès
ae115bc75a gnu: python2-pygtk: Use 'modify-phases'. 
* gnu/packages/gtk.scm (python2-pygtk)[arguments]: Use 'modify-phases'.
 2015-12-18 11:04:22 +01:00
Ludovic Courtès
be4fbbe01b gnu: gimp: Add "doc" output. 
* gnu/packages/gimp.scm (gimp)[outputs, arguments]: New fields.
 2015-12-18 11:04:22 +01:00
Ludovic Courtès
72a06d3e32 gnu: goffice: Add "doc" output. 
* gnu/packages/gnome.scm (goffice)[outputs, arguments]: New fields.
(goffice-0.8)[arguments]: Append arguments from GOFFICE.
 2015-12-18 11:04:22 +01:00
Andy Wingo
d8c18af834 gnu: Add dovecot service 
* gnu/services/mail.scm: New file.
(&dovecot-configuration-error, dovecot-configuration-error?)
(dovecot-service, dovecot-configuration, dict-configuration)
(passdb-configuration, userdb-configuration)
(unix-listener-configuration, fifo-listener-configuration)
(inet-listener-configuration, service-configuration)
(protocol-configuration, plugin-configuration, mailbox-configuration)
(namespace-configuration, opaque-dovecot-configuration): New public
variables.

* gnu-system.am (GNU_SYSTEM_MODULES): Add (gnu services mail).

* doc/guix.texi (Mail Services): New node.
 2015-12-18 09:24:27 +01:00
Andy Wingo
fd5c70f867 gnu: dovecot: Add linux-pam to inputs. 
* gnu/packages/mail.scm (dovecot): Add linux-pam to inputs, enabling the
  PAM auth driver.
 2015-12-18 09:24:27 +01:00
David Thompson
6a51e95b66 gnu: sdl-image: Add libwebp input. 
* gnu/packages/sdl.scm (sdl-image)[propagated-inputs]: Add libwebp.
 2015-12-17 22:32:05 -05:00
David Thompson
d3f6a1defb gnu: Add sdl2-ttf. 
* gnu/packages/sdl.scm (sdl2-ttf): New variable.
 2015-12-17 22:01:49 -05:00
David Thompson
855e293981 gnu: Add sdl2-mixer. 
* gnu/packages/sdl.scm (sdl2-mixer): New variable.
 2015-12-17 22:01:49 -05:00
David Thompson
6813f70a5c gnu: Add sdl2-image. 
* gnu/packages/sdl.scm (propagated-inputs-with-sdl2): New procedure.
(sdl2-image): New variable.
 2015-12-17 22:01:48 -05:00
宋文武
710964d179 gnu: samba: Update to 4.3.2. 
* gnu/packages/samba.scm (samba): Update to 4.3.2.  Add more inputs.
[arguments]: Remove #:modules and #:imported-modules.  Remove 'chdir'
and 'add-lib-to-runpath' from #:phases.  Use 'modify-phases' syntax.
 2015-12-18 10:30:17 +08:00
宋文武
52513595ad gnu: Add ldb. 
* gnu/packages/samba.scm (ldb): New variable.
 2015-12-18 10:30:17 +08:00
宋文武
0674b3c96d gnu: Add tevent. 
* gnu/packages/samba.scm (tevent): New variable.
 2015-12-18 10:30:17 +08:00