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Author SHA1 Message Date
Ben Woodcroft
af8de20386
gnu: vsearch: Update to 2.1.1. 
* gnu/packages/bioinformatics.scm (vsearch): Update to 2.1.1.
 2016-09-26 20:35:32 +10:00
Ricardo Wurmus
204adc3017
gnu: azr3: Fix libsigc++ build errors. 
* gnu/packages/audio.scm (azr3)[arguments]: Add "-std=gnu++11" flag.
[source]: Add patch.
* gnu/packages/patches/azr3.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
 2016-09-26 10:47:58 +02:00
Ricardo Wurmus
3ef08dceb3
gnu: qtractor: Update to 0.7.9. 
* gnu/packages/music.scm (qtractor): Update to 0.7.9.
 2016-09-26 08:16:13 +02:00
Ricardo Wurmus
7ddc178093
profiles: Build GTK+ input module cache. 
* guix/profiles.scm (gtk-im-modules): New procedure.
(%default-profile-hooks): Add it.
 2016-09-26 07:58:17 +02:00
Ricardo Wurmus
2c9f4786c9
profiles: manifest-lookup-package: Optionally match version prefix. 
* guix/profiles.scm (manifest-lookup-package): Optionally filter store
item matches by version prefix.
 2016-09-26 07:58:17 +02:00
Ricardo Wurmus
f3cfe4515a
gnu: Add r-txdb-hsapiens-ucsc-hg19-knowngene. 
* gnu/packages/bioinformatics.scm (r-txdb-hsapiens-ucsc-hg19-knowngene):
  New variable.
 2016-09-26 07:47:55 +02:00
Ricardo Wurmus
684f29bd2e
gnu: Add r-grohmm. 
* gnu/packages/bioinformatics.scm (r-grohmm): New variable.
 2016-09-26 07:47:55 +02:00
Ricardo Wurmus
7f903d7300
gnu: Add r-systempiper. 
* gnu/packages/bioinformatics.scm (r-systempiper): New variable.
 2016-09-26 07:47:55 +02:00
Ricardo Wurmus
cb99d457f0
gnu: Add r-shortread. 
* gnu/packages/bioinformatics.scm (r-shortread): New variable.
 2016-09-26 07:47:54 +02:00
Ricardo Wurmus
89f40c5e4e
gnu: Add r-gostats. 
* gnu/packages/bioinformatics.scm (r-gostats): New variable.
 2016-09-26 07:47:54 +02:00
Ricardo Wurmus
1a1931f7e0
gnu: Add r-category. 
* gnu/packages/bioinformatics.scm (r-category): New variable.
 2016-09-26 07:47:54 +02:00
Ricardo Wurmus
ad740ff818
gnu: Add r-gseabase. 
* gnu/packages/bioinformatics.scm (r-gseabase): New variable.
 2016-09-26 07:47:53 +02:00
Ricardo Wurmus
cd9e7dc7ff
gnu: Add r-rbgl. 
* gnu/packages/bioinformatics.scm (r-rbgl): New variable.
 2016-09-26 03:25:23 +02:00
Ricardo Wurmus
e816377374
gnu: Add r-annotationforge. 
* gnu/packages/bioinformatics.scm (r-annotationforge): New variable.
 2016-09-26 03:25:17 +02:00
Ricardo Wurmus
9e330278ee
gnu: Add r-batchjobs. 
* gnu/packages/statistics.scm (r-batchjobs): New variable.
 2016-09-26 03:25:11 +02:00
Ricardo Wurmus
dc4fb16d25
gnu: Add r-fail. 
* gnu/packages/statistics.scm (r-fail): New variable.
 2016-09-26 03:25:06 +02:00
Ricardo Wurmus
cd26ec3bbf
gnu: Add r-bbmisc. 
* gnu/packages/statistics.scm (r-bbmisc): New variable.
 2016-09-26 03:25:02 +02:00
Ricardo Wurmus
929d4aaea1
gnu: Add r-checkmate. 
* gnu/packages/statistics.scm (r-checkmate): New variable.
 2016-09-26 03:24:59 +02:00
Ricardo Wurmus
0d90462fa3
gnu: Add r-backports. 
* gnu/packages/statistics.scm (r-backports): New variable.
 2016-09-26 03:24:55 +02:00
Ricardo Wurmus
8e1bfc7e8c
gnu: Add r-sendmailr. 
* gnu/packages/statistics.scm (r-sendmailr): New variable.
 2016-09-26 03:24:50 +02:00
Ricardo Wurmus
0c77fd50f8
gnu: Add r-pheatmap. 
* gnu/packages/statistics.scm (r-pheatmap): New variable.
 2016-09-26 03:24:44 +02:00
Ricardo Wurmus
092197a548
gnu: Add r-matrix. 
* gnu/packages/statistics.scm (r-matrix): New variable.
 2016-09-26 03:21:32 +02:00
Ricardo Wurmus
ad34f0ac96
gnu: Add r-deseq2. 
* gnu/packages/bioinformatics.scm (r-deseq2): New variable.
 2016-09-26 03:21:27 +02:00
Ricardo Wurmus
2301fd3e4d
gnu: Add r-genefilter. 
* gnu/packages/bioinformatics.scm (r-genefilter): New variable.
 2016-09-26 03:21:19 +02:00
Ricardo Wurmus
2d21d44dbd
gnu: Add r-hmisc. 
* gnu/packages/statistics.scm (r-hmisc): New variable.
 2016-09-26 03:21:13 +02:00
Ricardo Wurmus
07a664cde0
gnu: Add r-geneplotter. 
* gnu/packages/bioinformatics.scm (r-geneplotter): New variable.
 2016-09-26 03:21:07 +02:00
Ricardo Wurmus
8c6de58849
gnu: Add r-annotate. 
* gnu/packages/bioinformatics.scm (r-annotate): New variable.
 2016-09-26 03:20:59 +02:00
Ricardo Wurmus
2213730c5b
gnu: Add r-rpart. 
* gnu/packages/statistics.scm (r-rpart): New variable.
 2016-09-26 03:20:52 +02:00
Ricardo Wurmus
356c6d61a6
gnu: Add r-rjson. 
* gnu/packages/web.scm (r-rjson): New variable.
 2016-09-26 03:20:44 +02:00
Ricardo Wurmus
bbed0ab6b4
gnu: Add r-hwriter. 
* gnu/packages/web.scm (r-hwriter): New variable.
 2016-09-26 03:20:19 +02:00
Ricardo Wurmus
57a31efb4b
gnu: tcc: Disable build on MIPS. 
* gnu/packages/c.scm (tcc)[supported-systems]: Disable build on
mips64el.
 2016-09-26 03:01:06 +02:00
Arun Isaac
9311722703
gnu: Add optipng. 
* gnu/packages/image.scm (optipng): New variable.

Signed-off-by: Kei Kebreau <kei@openmailbox.org>
 2016-09-25 16:53:00 -04:00
Ludovic Courtès
5babe521c8
system: Don't emit a GRUB 'search' command when passed a GRUB file name. 
Reported by Tomáš Čech <tcech@suse.com>
at <http://debbugs.gnu.org/cgi/bugreport.cgi?bug=20067#26>.

* gnu/system/grub.scm (grub-root-search): Don't emit anything when FILE
is a string that does not denote an absolute file name.
 2016-09-26 00:18:39 +09:00
Ricardo Wurmus
7acd71d13d
gnu: epiphany: Drop NSS and libwnck. 
These dependencies were dropped in Epiphany 3.21.x.

* gnu/packages/gnome.scm (epiphany)[inputs]: Remove "nss" and "libwnck".
 2016-09-25 13:04:00 +02:00
Ricardo Wurmus
9f58932ecc
gnu: epiphany: Update to 3.22.0. 
* gnu/packages/gnome.scm (epiphany): Update to 3.22.0.
 2016-09-25 13:04:00 +02:00
Ricardo Wurmus
58d04dbaf0
gnu: python-virtualenv: Update to 15.0.3. 
* gnu/packages/python.scm (python-virtualenv): Update to 15.0.3.
[arguments]: Disable failing test.
 2016-09-25 13:04:00 +02:00
Mark H Weaver
1535c0a6b6
gnu: linux-libre: Update to 4.7.5. 
* gnu/packages/linux.scm (linux-libre): Update to 4.7.5.
 2016-09-25 03:57:57 -04:00
Mark H Weaver
dfcce0cc8d
gnu: linux-libre@4.4: Update to 4.4.22. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.22.
 2016-09-25 03:55:37 -04:00
John Darrington
94c5dc8c03
gnu: Add pam-krb5 
* gnu/packages/admin.scm (pam-krb5): New variable.
 2016-09-25 06:40:29 +02:00
Efraim Flashner
a8f3d49280
gnu: privoxy: Update to 3.0.26. 
* gnu/packages/tor.scm (privoxy): Update to 3.0.26.
[home-page]: Use https.
 2016-09-24 23:09:14 +03:00
Efraim Flashner
0ab57b0d04
gnu: tor: Update to 0.2.8.8. 
* gnu/packages/tor.scm (tor): Update to 0.2.8.8.
[source]: Update source url.
[home-page]: Use https.
 2016-09-24 22:27:16 +03:00
Carlos Sánchez de La Lama
0f65f54ebd
system: grub.cfg uses correct file names when store is not in root partition. 
Fixes <http://bugs.gnu.org/24346>.
Reported by csanchezdll@gmail.com (Carlos Sánchez de La Lama).

* guix/scripts/system.scm (previous-grub-entries): Get the initrd file
name from PARAMS.
* gnu/system.scm (operating-system-grub.cfg): Use
'operating-system-initrd-file' to retrieve the initrd file name.
* gnu/system/grub.scm (strip-mount-point): New procedure.
(grub-configuration-file)[entry->gexp]: Call 'strip-mount-point' for
LINUX and INITRD.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
 2016-09-24 17:48:13 +09:00
Ludovic Courtès
d7b342d815
system: 'read-boot-parameters' reads the 'initrd' parameter. 
* gnu/system.scm (<boot-parameters>)[initrd]: New field.
(read-boot-parameters): Read the 'initrd' element and fill in the
'initrd' field of the result.
 2016-09-24 17:48:12 +09:00
ng0
6fc48c2ee2
gnu: Add gforth. 
* gnu/packages/gforth.scm: New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.

Co-authored-by: 宋文武 <iyzsong@gmail.com>
 2016-09-24 14:07:12 +08:00
Rene Saavedra
54021cd8c6
gnu: Add gnome-calculator. 
* gnu/packages/gnome.scm (gnome-calculator): New variable.

Signed-off-by: Kei Kebreau <kei@openmailbox.org>
 2016-09-24 00:51:52 -04:00
Erik Edrosa
8058880017
gnu: Add cmark. 
* gnu/packages/markdown.scm (cmark): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2016-09-23 20:56:51 -04:00
ng0
93666cf783
gnu: Add enet. 
* gnu/packages/networking.scm (enet): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2016-09-23 19:18:10 -04:00
Danny Milosavljevic
03ddad84ba
gnu: flashrom: Update to 0.9.9 
* gnu/packages/flashing-tools.scm (flashrom): Update to 0.9.9.
[source]: Use HTTPS URL. Remove "flashrom-use-libftdi1.patch".
[aruments]: Add 'CONFIG_ENABLE_LIBUSB0_PROGRAMMERS=no' to #:make-flags.
* gnu/packages/patches/flashrom-use-libftdi1.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2016-09-23 19:03:19 -04:00
ng0
0f5de84e98
gnu: Add nickle. 
* gnu/packages/nickle.scm: New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2016-09-23 18:54:24 -04:00
Efraim Flashner
047cd01d11
gnu: orpheus: Use 'modify-phases'. 
* gnu/packages/orpheus.scm (orpheus)[arguments]: Use the 'modify-phases'
syntax.
 2016-09-23 17:38:25 +03:00