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16149 commits

Author SHA1 Message Date
Marius Bakke
564324f457
gnu: xapian: Update to 1.4.4. 
* gnu/packages/search.scm (xapian): Update to 1.4.4.
 2017-04-29 23:50:57 +02:00
Ricardo Wurmus
b2fd8f6367
gnu: glibc/linux: Fix runtime crashes on i686 systems. 
* gnu/packages/patches/glibc-memchr-overflow-i686.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/commencement.scm (glibc-final-with-bootstrap-bash)[native-inputs]:
Add the patch conditionally for i686 systems.
* gnu/packages/base.scm (glibc/linux)[native-inputs]: Add the patch
conditionally for i686 systems.
[arguments]: Apply the patch conditionally on i686 systems.
 2017-04-29 23:31:35 +02:00
Efraim Flashner
e18e17ea4e
gnu: lsof: Update to 4.89. 
* gnu/packages/lsof.scm (lsof): Update to 4.89.
 2017-04-29 23:41:06 +03:00
Efraim Flashner
4ae3549f7c
gnu: lsof: Shorten 'install phase. 
* gnu/packages/lsof.scm (lsof)[arguments]: Use 'install-file during the
'install phase.
 2017-04-29 23:41:05 +03:00
Efraim Flashner
b6ea329a32
gnu: lsof: Use 'modify-phases' syntax. 
* gnu/packages/lsof.scm (lsof)[arguments]: Use 'modify-phases' syntax.
 2017-04-29 23:25:22 +03:00
Efraim Flashner
d5fa9fd1fe
gnu: lsof: Add to mirror list. 
* gnu/packages/lsof.scm (lsof)[source]: Add to mirror list.
 2017-04-29 23:20:47 +03:00
Efraim Flashner
90f83099e8
gnu: r-genomeinfodbdata: Fix source url. 
* gnu/packages/bioinformatics.scm (r-genomeinfodbdata)[source]: Use
source uri and not bioconductor-uri shortener.
 2017-04-29 22:53:43 +03:00
Leo Famulari
86f48a8dbf
gnu: freetype: Fix CVE-2017-{8105,8287}. 
* gnu/packages/patches/freetype-CVE-2017-8105.patch,
gnu/packages/patches/freetype-CVE-2017-8287.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/fontutils.scm (freetype)[replacement]: New field.
(freetype/fixed): New variable.
 2017-04-29 12:14:03 -04:00
Julien Lepiller
e24d527131
gnu: ocaml-qtest: Use ocaml-qcheck. 
* gnu/packages/ocaml.scm (ocaml-qtest)[propagated-inputs]: Add ocaml-qcheck.
 2017-04-29 17:51:49 +02:00
Julien Lepiller
2c6ef0dd3b
gnu: Add ocaml-qcheck. 
* gnu/packages/ocaml.scm (ocaml-qcheck): New variable.
 2017-04-29 17:51:27 +02:00
Danny Milosavljevic
0660d3276c
gnu: python-openid: Fix package. 
Fixes <https://bugs.gnu.org/26692>.

* gnu/packages/python.scm (python-openid)[arguments]: Replace 'check phase.
[propagated-inputs]: Add python-defusedxml.
[native-inputs]: Add python-psycopg2, python-django.
 2017-04-29 10:52:55 +02:00
Leo Famulari
45fe973645
gnu: ghostscript-with-cups: Avoid inheriting replacement field. 
This is a followup to commit a01f15759a.

* gnu/packages/cups.scm (ghostscript/cups)[replacement]: New field.
 2017-04-29 01:16:57 -04:00
Tobias Geerinckx-Rice
a7c61512e4
gnu: radeontop: Update to 1.0. 
* gnu/packages/linux.scm (radeontop): Update to 1.0.
[inputs]: Add libxcb.
 2017-04-29 01:03:02 +02:00
Leo Famulari
a01f15759a
gnu: ghostscript: Fix CVE-2017-8291. 
* gnu/packages/patches/ghostscript-CVE-2017-8291.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/ghostscript.scm (ghostscript)[replacement]: New field.
(ghostscript/fixed): New variable.
(ghostscript-with-x)[replacement]: New field.
 2017-04-28 17:02:42 -04:00
Arun Isaac
73749ae9f1
gnu: youtube-dl: Update to 2017.04.28. 
* gnu/packages/video.scm (youtube-dl): Update to 2017.04.28.
 2017-04-28 22:06:58 +05:30
Ricardo Wurmus
162a4a0323
gnu: Add enigma. 
* gnu/packages/games.scm (enigma): New variable.
 2017-04-28 17:46:39 +02:00
Ricardo Wurmus
d00d6cea66
gnu: Add xerces-c. 
* gnu/packages/xml.scm (xerces-c): New variable.
 2017-04-28 17:46:39 +02:00
Kei Kebreau
8832c96340
gnu: schismtracker: Update to 20170420. 
* gnu/packages/music.scm (schismtracker): Update to 20170420.
 2017-04-28 11:34:13 -04:00
David Thompson
0cb9fba3dc
gnu: awscli: Add python-pyyaml input. 
Without this input, 'aws ec2 import-key-pair' doesn't work.

* gnu/packages/python.scm (awscli)[propagated-inputs]: Add python-pyyaml.
 2017-04-28 09:20:37 -04:00
宋文武
28172178b1
gnu: virt-manager: Update to 1.4.1. 
* gnu/packages/qemu.scm (virt-manager): Update to 1.4.1.
 2017-04-28 21:01:01 +08:00
宋文武
9271dfddc9
gnu: python-libvirt: Update to 3.2.0. 
* gnu/packages/qemu.scm (python-libvirt, python2-libvirt): Update to 3.2.0.
 2017-04-28 20:53:15 +08:00
宋文武
c3c0316215
gnu: libvirt-glib: Update to 1.0.0. 
* gnu/packages/qemu.scm (libvirt-glib): Update to 1.0.0.
 2017-04-28 20:23:56 +08:00
宋文武
52caf4b9fd
gnu: libvirt: Update to 3.2.0. 
* gnu/packages/qemu.scm (libvirt): Update to 3.2.0.
 2017-04-28 20:19:20 +08:00
Roel Janssen
4646a79c65
gnu: r-preprocesscore: Update to 1.38.0. 
* gnu/packages/statistics.scm (r-preprocesscore): Update to 1.38.0.
 2017-04-28 11:05:43 +02:00
Roel Janssen
524bfe2dbf
gnu: r-msnid: Update to 1.10.0. 
* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.10.0.
 2017-04-28 11:05:42 +02:00
Roel Janssen
82359c72cb
gnu: r-msnbase: Update to 2.2.0. 
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.2.0.
 2017-04-28 11:05:41 +02:00
Roel Janssen
5bfa6e090d
gnu: r-pcamethods: Update to 1.68.0. 
* gnu/packages/bioinformatics.scm (r-pcamethods): Update to 1.68.0.
 2017-04-28 11:05:40 +02:00
Roel Janssen
63bf2102cd
gnu: r-mzid: Update to 1.14.0. 
* gnu/packages/bioinformatics.scm (r-mzid): Update to 1.14.0.
 2017-04-28 11:05:38 +02:00
Roel Janssen
60c08b2ff4
gnu: r-vsn: Update to 3.44.0. 
* gnu/packages/bioinformatics.scm (r-vsn):
[source]: Update to 3.44.0,
[propagated-inputs]: Add r-hexbin.
 2017-04-28 11:05:37 +02:00
Roel Janssen
bd3cc4cc52
gnu: r-affy: Update to 1.54.0. 
* gnu/packages/bioinformatics.scm (r-affy): Update to 1.54.0.
 2017-04-28 11:05:37 +02:00
Roel Janssen
71abcc4cbf
gnu: r-affyio: Update to 1.46.0. 
* gnu/packages/bioinformatics.scm (r-affyio): Update to 1.46.0.
 2017-04-28 11:05:36 +02:00
Roel Janssen
e440ad6d4f
gnu: r-mzr: Update to 2.10.0. 
* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.10.0.
 2017-04-28 11:05:35 +02:00
Roel Janssen
5b1337cc60
gnu: r-protgenerics: Update to 1.8.0. 
* gnu/packages/bioinformatics.scm (r-protgenerics): Update to 1.8.0.
 2017-04-28 11:05:33 +02:00
Roel Janssen
1d09d017db
gnu: r-sva: Update to 3.24.0. 
* gnu/packages/bioinformatics.scm (r-sva): Update to 3.24.0.
 2017-04-28 11:05:20 +02:00
Roel Janssen
d52d2d623a
gnu: r-copywriter: Update to 2.8.0. 
* gnu/packages/bioinformatics.scm (r-copywriter): Update to 2.8.0.
 2017-04-28 11:05:19 +02:00
Roel Janssen
7d72f2a803
gnu: r-chipseq: Update to 1.26.0. 
* gnu/packages/bioinformatics.scm (r-chipseq): Update to 1.26.0.
 2017-04-28 11:05:18 +02:00
Roel Janssen
04049a5f2c
gnu: r-rhdf5: Update to 2.20.0. 
* gnu/packages/bioinformatics.scm (r-rhdf5): Update to 2.20.0.
 2017-04-28 11:05:18 +02:00
Roel Janssen
ff58a1af98
gnu: r-tximport: Update to 1.4.0. 
* gnu/packages/bioinformatics.scm (r-tximport): Update to 1.4.0.
 2017-04-28 11:05:16 +02:00
Roel Janssen
cf4ac4e465
gnu: r-mutationalpatterns: Update to 1.2.0. 
* gnu/packages/bioinformatics.scm (r-mutationalpatterns):
[source]: Update to 1.2.0,
[propagated-inputs]: Add r-bsgenome-hsapiens-1000genomes-hs37d5,
  r-bsgenome-hsapiens-ucsc-hg19.
 2017-04-28 11:05:13 +02:00
Roel Janssen
ccd2aade98
gnu: r-bamsignals: Update to 1.8.0. 
* gnu/packages/bioinformatics.scm (r-bamsignals): Update to 1.8.0.
 2017-04-28 11:05:12 +02:00
Roel Janssen
37631ddc28
gnu: r-rhtslib: Update to 1.8.0. 
* gnu/packages/bioinformatics.scm (r-rhtslib): Update to 1.8.0.
 2017-04-28 11:05:11 +02:00
Roel Janssen
8444f6067a
gnu: r-zlibbioc: Update to 1.22.0. 
* gnu/packages/bioinformatics.scm (r-zlibbioc): Update to 1.22.0.
 2017-04-28 11:05:10 +02:00
Roel Janssen
a7b90ea990
gnu: r-motifrg: Update to 1.20.0. 
* gnu/packages/bioinformatics.scm (r-motifrg): Update to 1.20.0.
 2017-04-28 11:05:09 +02:00
Roel Janssen
0fce7d9be5
gnu: r-seqlogo: Update to 1.42.0. 
* gnu/packages/bioinformatics.scm (r-seqlogo): Update to 1.42.0.
 2017-04-28 11:05:08 +02:00
Roel Janssen
3ae82c8dfe
gnu: r-genomation: Update to 1.8.0. 
* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.8.0.
 2017-04-28 11:05:07 +02:00
Roel Janssen
08b9224d2d
gnu: r-seqpattern: Update to 1.8.0. 
* gnu/packages/bioinformatics.scm (r-seqpattern): Update to 1.8.0.
 2017-04-28 11:05:06 +02:00
Roel Janssen
5999359f56
gnu: r-impute: Update to 1.50.0. 
* gnu/packages/bioinformatics.scm (r-impute): Update to 1.50.0.
 2017-04-28 11:05:06 +02:00
Roel Janssen
c54a702a28
gnu: r-bsgenome: Update to 1.44.0. 
* gnu/packages/bioinformatics.scm (r-bsgenome): Update to 1.44.0.
 2017-04-28 11:05:04 +02:00
Roel Janssen
6e70b6d63c
gnu: r-topgo: Update to 2.28.0. 
* gnu/packages/bioinformatics.scm (r-topgo): Update to 2.28.0.
 2017-04-28 11:05:03 +02:00
Roel Janssen
56373771b3
gnu: r-graph: Update to 1.54.0. 
* gnu/packages/bioinformatics.scm (r-graph): Update to 1.54.0.
 2017-04-28 11:05:02 +02:00