fe418cc5b2
gnu: armadillo: Change license to ASL 2.0.
...
Armadillo versions 7.800 and onwards are licensed under the Apache License
2.0.
* gnu/packages/maths.scm (armadillo)[license]: Change to ASL 2.0.
2017-04-06 15:42:18 +02:00
2aa78c8f04
gnu: re2: Update to 2017-04-01.
...
* gnu/packages/regex.scm (re2): Update to 2017-04-01.
2017-04-06 15:07:55 +02:00
fdcc9163d5
gnu: feh: Update to 2.18.3.
...
* gnu/packages/image-viewers.scm (feh): Update to 2.18.3.
2017-04-06 15:05:40 +02:00
2c273a82f3
gnu: libusb: Update to 1.0.21.
...
* gnu/packages/libusb.scm (libusb): Update to 1.0.21.
[home-page]: Update to new URL.
2017-04-06 15:03:07 +02:00
05b662663d
gnu: libmtp: Update to 1.1.13 [security fixes].
...
* gnu/packages/libusb.scm (libmtp): Update to 1.1.13.
2017-04-06 14:58:05 +02:00
c9dccf7917
gnu: r-sourcetools: Update to 0.1.6.
...
* gnu/packages/statistics.scm (r-sourcetools): Update to 0.1.6.
2017-04-06 14:39:23 +02:00
e18c731ba0
gnu: r-seqinr: Update to 3.3-6.
...
* gnu/packages/bioinformatics.scm (r-seqinr): Update to 3.3-6.
2017-04-06 14:39:22 +02:00
498d2553ed
gnu: Remove armadillo-for-rcpparmadillo.
...
This package is no longer useful, because upstream does not keep the tarballs
of older releases. We use the bundled armadillo sources in the
r-rccparmadillo package instead.
* gnu/packages/maths.scm (armadillo-for-rcpparmadillo): Remove variable.
2017-04-06 14:39:22 +02:00
0685fe3c86
gnu: r-rcpparmadillo: Update to 0.7.700.0.0.
...
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.7.700.0.0.
[source]: Do not delete bundled armadillo sources, because upstream no longer
hosts previous versions.
[propagated-inputs]: Remove "armadillo-for-rcpparmadillo".
[arguments]: Remove because we no longer need to link with the armadillo
library.
* gnu/packages/bioinformatics.scm (r-deseq2)[arguments]: Remove because we no
longer need to link with armadillo library.
2017-04-06 14:39:22 +02:00
133cba8cb5
gnu: armadillo: Update to 7.800.2.
...
* gnu/packages/maths.scm (armadillo): Update to 7.800.2.
2017-04-06 14:39:22 +02:00
a3656b11d2
gnu: r-annotationforge: Update to 1.16.1.
...
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.16.1.
2017-04-06 14:39:22 +02:00
e0d7b31820
gnu: r-shortread: Update to 1.32.1.
...
* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.32.1.
2017-04-06 14:39:21 +02:00
2cea968e41
gnu: r-s4vectors: Update to 0.12.2.
...
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.12.2.
2017-04-06 14:39:21 +02:00
7d05eb2dcc
gnu: r-iranges: Update to 2.8.2.
...
* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.8.2.
2017-04-06 14:39:21 +02:00
e89cf15091
gnu: r-variantannotation: Update to 1.20.3.
...
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.20.3.
2017-04-06 14:39:21 +02:00
3506a62762
gnu: r-limma: Update to 3.30.13.
...
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.30.13.
2017-04-06 14:39:21 +02:00
4cd4721dbb
gnu: r-genomicranges: Update to 1.26.4.
...
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.26.4.
2017-04-06 14:39:20 +02:00
69b356efce
gnu: r-annotationdbi: Update to 1.36.2.
...
* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.36.2.
2017-04-06 14:39:20 +02:00
5cc3b7a548
gnu: r-genomicalignments: Update to 1.10.1.
...
* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.10.1.
2017-04-06 14:39:20 +02:00
25d8854723
gnu: r-rtracklayer: Update to 1.34.2.
...
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.34.2.
2017-04-06 14:39:20 +02:00
9ce6cb082e
gnu: r-genomicfeatures: Update to 1.26.4.
...
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.26.4.
2017-04-06 14:39:20 +02:00
57ac1d2f03
gnu: r-seqminer: Update to 5.7.
...
* gnu/packages/bioinformatics.scm (r-seqminer): Update to 5.7.
2017-04-06 14:39:19 +02:00
e8bec95e69
gnu: r-maldiquant: Update to 1.16.2.
...
* gnu/packages/bioinformatics.scm (r-maldiquant): Update to 1.16.2.
2017-04-06 14:39:19 +02:00
20e97759bf
gnu: r-ranger: Update to 0.7.0.
...
* gnu/packages/statistics.scm (r-ranger): Update to 0.7.0.
2017-04-06 14:39:19 +02:00
da2260f96c
gnu: r-pbkrtest: Update to 0.4-7.
...
* gnu/packages/statistics.scm (r-pbkrtest): Update to 0.4-7.
2017-04-06 14:39:19 +02:00
4328bad2cd
gnu: r-rcppeigen: Update to 0.3.2.9.1.
...
* gnu/packages/statistics.scm (r-rcppeigen): Update to 0.3.2.9.1.
2017-04-06 14:39:19 +02:00
a977576780
gnu: r-mclust: Update to 5.2.3.
...
* gnu/packages/statistics.scm (r-mclust): Update to 5.2.3.
2017-04-06 14:39:18 +02:00
0007e645d9
gnu: r-ggthemes: Update to 3.4.0.
...
* gnu/packages/statistics.scm (r-ggthemes): Update to 3.4.0.
2017-04-06 14:39:18 +02:00
47f37fd169
gnu: r-statmod: Update to 1.4.29.
...
* gnu/packages/statistics.scm (r-statmod): Update to 1.4.29.
2017-04-06 14:39:18 +02:00
4c7ab0309a
gnu: r-vipor: Update to 0.4.5.
...
* gnu/packages/statistics.scm (r-vipor): Update to 0.4.5.
2017-04-06 14:39:18 +02:00
2fe41e0fad
gnu: r-pracma: Update to 2.0.4.
...
* gnu/packages/maths.scm (r-pracma): Update to 2.0.4.
2017-04-06 14:39:18 +02:00
2f44ef97a5
gnu: r-mixtools: Update to 1.1.0.
...
* gnu/packages/statistics.scm (r-mixtools): Update to 1.1.0.
[propagated-inputs]: Remove "r-boot", add "r-survival".
2017-04-06 14:39:17 +02:00
7a8efc81f8
gnu: r-viridis: Update to 0.4.0.
...
* gnu/packages/statistics.scm (r-viridis): Update to 0.4.0.
[propagated-inputs]: Add "r-viridislite".
2017-04-06 14:39:17 +02:00
b5d5344f32
gnu: r-viridislite: Update to 0.2.0.
...
* gnu/packages/statistics.scm (r-viridislite): Update to 0.2.0.
2017-04-06 14:39:17 +02:00
cdadca5e6f
gnu: r-matrixstats: Update to 0.52.1.
...
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.52.1.
2017-04-06 14:39:17 +02:00
af7a4cc8a8
gnu: r-mvtnorm: Update to 1.0-6.
...
* gnu/packages/statistics.scm (r-mvtnorm): Update to 1.0-6.
2017-04-06 14:39:17 +02:00
82b281fe12
gnu: r-e1071: Update to 1.6-8.
...
* gnu/packages/statistics.scm (r-e1071): Update to 1.6-8.
2017-04-06 14:39:16 +02:00
1d1fbb7336
gnu: r-sparsem: Update to 1.76.
...
* gnu/packages/statistics.scm (r-sparsem): Update to 1.76.
2017-04-06 14:39:16 +02:00
fb708a1c74
gnu: r-xml: Update to 3.98-1.6.
...
* gnu/packages/statistics.scm (r-xml): Update to 3.98-1.6.
2017-04-06 14:39:16 +02:00
1c27bb8f44
gnu: r-rsqlite: Update to 1.1-2.
...
* gnu/packages/statistics.scm (r-rsqlite): Update to 1.1-2.
2017-04-06 14:39:16 +02:00
0def707ad8
gnu: r-rmarkdown: Update to 1.4.
...
* gnu/packages/statistics.scm (r-rmarkdown): Update to 1.4.
2017-04-06 14:39:16 +02:00
ac5e810205
gnu: r-bbmisc: Update to 1.11.
...
* gnu/packages/statistics.scm (r-bbmisc): Update to 1.11.
2017-04-06 14:39:16 +02:00
f1870aef99
gnu: r-backports: Update to 1.0.5.
...
* gnu/packages/statistics.scm (r-backports): Update to 1.0.5.
2017-04-06 14:39:15 +02:00
d05e45f33c
gnu: r-multitaper: Update to 1.0-13.
...
* gnu/packages/statistics.scm (r-multitaper): Update to 1.0-13.
2017-04-06 14:39:15 +02:00
0fbae8ebca
gnu: r-xml2: Update to 1.1.1.
...
* gnu/packages/statistics.scm (r-xml2): Update to 1.1.1.
2017-04-06 14:39:15 +02:00
c6e40db528
gnu: r-ade4: Update to 1.7-6.
...
* gnu/packages/statistics.scm (r-ade4): Update to 1.7-6.
2017-04-06 14:39:15 +02:00
10ffdb94e4
gnu: r-data-table: Update to 1.10.4.
...
* gnu/packages/statistics.scm (r-data-table): Update to 1.10.4.
2017-04-06 14:39:15 +02:00
9e8fac0c45
gnu: r-chron: Update to 2.3-50.
...
* gnu/packages/statistics.scm (r-chron): Update to 2.3-50.
2017-04-06 14:39:14 +02:00
b8acb5aa46
gnu: r-cluster: Update to 2.0.6.
...
* gnu/packages/statistics.scm (r-cluster): Update to 2.0.6.
2017-04-06 14:39:14 +02:00
e8988ff9a0
gnu: r-dbi: Update to 0.6-1.
...
* gnu/packages/statistics.scm (r-dbi): Update to 0.6-1.
2017-04-06 14:39:14 +02:00
5e0fa201a2
gnu: r-gdtools: Update to 0.1.4.
...
* gnu/packages/statistics.scm (r-gdtools): Update to 0.1.4.
2017-04-06 14:39:14 +02:00
7267f358a0
gnu: r-stringr: Update to 1.2.0.
...
* gnu/packages/statistics.scm (r-stringr): Update to 1.2.0.
2017-04-06 14:39:14 +02:00
5beda28f6b
gnu: r-stringi: Update to 1.1.3.
...
* gnu/packages/statistics.scm (r-stringi): Update to 1.1.3.
2017-04-06 14:39:14 +02:00
69a8ed6a12
gnu: r-rcpp: Update to 0.12.10.
...
* gnu/packages/statistics.scm (r-rcpp): Update to 0.12.10.
2017-04-06 14:39:13 +02:00
9948b8e24c
gnu: r-digest: Update to 0.6.12.
...
* gnu/packages/statistics.scm (r-digest): Update to 0.6.12.
2017-04-06 14:39:13 +02:00
344e4741a1
gnu: r-survival: Update to 2.41-3.
...
* gnu/packages/statistics.scm (r-survival): Update to 2.41-3.
2017-04-06 14:39:13 +02:00
a6dcc78cb0
gnu: r-mgcv: Update to 1.8-17.
...
* gnu/packages/statistics.scm (r-mgcv): Update to 1.8-17.
2017-04-06 14:39:13 +02:00
9704bda1b3
gnu: r-matrix: Update to 1.2-8.
...
* gnu/packages/statistics.scm (r-matrix): Update to 1.2-8.
2017-04-06 14:39:12 +02:00
9aea2cdaff
gnu: r-lattice: Update to 0.20-35.
...
* gnu/packages/statistics.scm (r-lattice): Update to 0.20-35.
2017-04-06 14:39:12 +02:00
7ceb26ee83
gnu: r-rprojroot: Update to 1.2.
...
* gnu/packages/statistics.scm (r-rprojroot): Update to 1.2.
2017-04-06 14:39:12 +02:00
e15f962fef
gnu: r-htmltable: Update to 1.9.
...
* gnu/packages/web.scm (r-htmltable): Update to 1.9.
[propagated-inputs]: Add "r-checkmate" and "r-htmlwidgets".
2017-04-06 14:39:11 +02:00
d3812fb233
gnu: r-curl: Update to 2.4.
...
* gnu/packages/web.scm (r-curl): Update to 2.4.
2017-04-06 14:39:11 +02:00
4cd07e487e
gnu: r-genomeinfodb: Update to 1.10.3.
...
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.10.3.
[propagated-inputs]: Add "r-rcurl".
2017-04-06 14:39:11 +02:00
acbeb2d56b
gnu: r-xvector: Update to 0.14.1.
...
* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.14.1.
2017-04-06 14:39:11 +02:00
da250f733a
gnu: r-bioccheck: Update to 1.10.1.
...
* gnu/packages/bioinformatics.scm (r-bioccheck): Update to 1.10.1.
[propagated-inputs]: Remove "r-knitr" and "r-devtools".
2017-04-06 14:39:11 +02:00
d51f05f769
gnu: r-tidyr: Update to 0.6.1.
...
* gnu/packages/statistics.scm (r-tidyr): Update to 0.6.1.
[propagated-inputs]: Add "r-tibble".
2017-04-06 14:39:10 +02:00
1db293757b
gnu: r-roxygen2: Update to 6.0.1.
...
* gnu/packages/statistics.scm (r-roxygen2): Update to 6.0.1.
[propagated-inputs]: Add "r-commonmark", "r-desc", "r-r6", and "r-xml2".
2017-04-06 14:39:10 +02:00
bf6dcf59eb
gnu: Add r-commonmark.
...
* gnu/packages/statistics.scm (r-commonmark): New variable.
2017-04-06 14:39:10 +02:00
1cbb07a8e4
gnu: Add r-desc.
...
* gnu/packages/statistics.scm (r-desc): New variable.
2017-04-06 14:39:10 +02:00
67deeea41b
gnu: r-readr: Update to 1.1.0.
...
* gnu/packages/statistics.scm (r-readr): Update to 1.1.0.
[propagated-inputs]: Remove "r-curl".
2017-04-06 14:39:09 +02:00
33eb555e6f
gnu: r-tibble: Update to 1.3.0.
...
* gnu/packages/statistics.scm (r-tibble): Update to 1.3.0.
[propagated-inputs]: Remove "r-assertthat".
2017-04-06 14:39:09 +02:00
aad7808526
gnu: r-jsonlite: Update to 1.3.
...
* gnu/packages/web.scm (r-jsonlite): Update to 1.3.
2017-04-06 14:39:09 +02:00
538bce2472
gnu: ldc-bootstrap: Delete failing test.
...
* gnu/packages/ldc.scm (ldc-bootstrap)[arguments]: Delete failing test in
build phase.
2017-04-06 14:34:12 +02:00
cb5be6df91
gnu: guile-aspell: Switch to Guile 2.2.
...
* gnu/packages/guile.scm (guile-aspell)[inputs]: Replace GUILE-2.0 with
GUILE-2.2.
2017-04-06 10:45:55 +02:00
7295087eb1
gnu: guile-aspell: Remove hard-coded "site/2.0" from $(guilesitedir).
...
* gnu/packages/guile.scm (guile-aspell)[arguments]: Remove
#:configure-flags. Add 'set-guilesitedir' phase.
2017-04-06 10:42:51 +02:00
234ea3d653
gnu: guile-aspell: Update to 0.4.
...
* gnu/packages/guile.scm (guile-aspell): Update to 0.4.
[arguments] <#:phases>: Adjust 'set-libaspell-file-name' to new source
tree layout.
2017-04-06 10:37:52 +02:00
79f912c710
Revert "gnu: openexr: Add IlmBase include sub-directory to 'OpenEXR.pc'."
...
This reverts commit 01fe019166
2017-04-05 22:45:41 +02:00
b28187cd0c
Revert "gnu: bc: Update to 1.07."
...
This reverts commit dfee7daedb
2017-04-05 21:23:41 +02:00
cd381c317b
gnu: Move audacity to audio.scm.
...
* gnu/packages/audacity.scm: Remove file and move audacity...
* gnu/packages/audio.scm: ...here.
* gnu/local.mk: Remove reference to removed file.
2017-04-05 15:08:14 -04:00
1108a920bd
gnu: sra-tools: Fix glibc naming conflict.
...
* gnu/packages/bioinformatics.scm (sra-tools)[arguments]: Add build phase
"patch-away-glibc-conflict" to fix a definition conflict with glibc 2.25.
2017-04-05 18:06:51 +02:00
beebe43176
gnu: sra-tools: Use "modify-phases" syntax.
...
* gnu/packages/bioinformatics.scm (sra-tools)[arguments]: Use "modify-phases"
syntax.
2017-04-05 18:06:51 +02:00
fc5b12879f
gnu: diamond: Update to 0.8.37.
...
* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.37.
2017-04-05 22:49:01 +10:00
52b2d666ca
gnu: kdevelop: Update to 5.1.0.
...
* gnu/packages/kde.scm (kdevelop, kdevplatform): Update to 5.1.0.
2017-04-05 12:12:34 +02:00
dfee7daedb
gnu: bc: Update to 1.07.
...
* gnu/packages/algebra.scm (bc): Update to 1.07.
[native-inputs]: Add ed and texinfo.
[arguments]: Use default ‘configure’ phase.
2017-04-05 03:31:58 +02:00
f0bacad682
gnu: bc: Actually use readline.
...
* gnu/packages/algebra.scm (bc)[arguments]: Add ‘--with-readline’
to #:configure-flags.
2017-04-05 03:31:58 +02:00
5894b60491
gnu: algebra: Re-order imports.
...
* gnu/packages/algebra.scm: Order imports alphabetically.
2017-04-05 03:31:58 +02:00
01fe019166
gnu: openexr: Add IlmBase include sub-directory to 'OpenEXR.pc'.
...
* gnu/packages/graphics.scm (openexr)[arguments]: Add
'set-ilmbase-directory-in-pc-file' phase.
2017-04-05 00:53:03 +02:00
f84011d04a
services: cuirass: Wait for networking.
...
* gnu/services/cuirass.scm (cuirass-shepherd-service): Add 'networking'
to 'requirements'.
2017-04-05 00:53:03 +02:00
8db947169f
gnu: icecat: Use bundled ICU to avoid crashes.
...
* gnu/packages/gnuzilla.scm (icecat)[arguments] <#:configure-flags>:
Temporarily comment out "--with-system-icu".
2017-04-04 20:18:38 +02:00
cca906754d
gnu: icecat: Re-enable parallel build.
...
* gnu/packages/gnuzilla.scm (icecat)[arguments]: Re-enable parallel build.
2017-04-04 20:18:38 +02:00
33b2520175
gnu: python-django: Specify CPE name.
...
* gnu/packages/django.scm (python-django, python2-django)[properties]: Add
"cpe-name".
2017-04-04 18:30:52 +02:00
dcc9b6abc7
gnu: python-django: Update to 1.10.7 [fixes CVE-2017-7233 and CVE-2017-7234].
...
* gnu/packages/django.scm (python-django, python2-django): Update to 1.10.7.
2017-04-04 18:01:32 +02:00
4dc12417d2
gnu: gnupg: Update to 2.1.20.
...
* gnu/packages/gnupg.scm (gnupg): Update to 2.1.20.
[source]: Remove patch.
* gnu/packages/patches/gnupg-2.1-fix-Y2038-test-failure.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2017-04-04 17:46:28 +02:00
a3dea99107
gnu: python2-cython: Fix build on 32-bit platforms.
...
* gnu/packages/python.scm (python-cython, python2-cython)[source]: Add patch.
* gnu/packages/patches/python-cython-fix-tests-32bit.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
2017-04-04 17:46:28 +02:00
6beaa5a02a
gnu: moc: Add Ogg Vorbis support.
...
* gnu/packages/music.scm (moc)[inputs]: Add libogg and libvorbis.
Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
2017-04-04 15:16:25 +02:00
0d78e37746
gnu: Add qjackctl.
...
* gnu/packages/audio.scm (qjackctl): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-04-04 14:30:00 +02:00
b7506f74df
gnu: glog: Fix name demangling for GCC 5.
...
* gnu/packages/patches/glog-gcc-5-demangling.patch: New file.
* gnu/packages/logging.scm (glog)[sources]: Add it.
* gnu/local.mk (dist_patch_DATA): Add it.
2017-04-04 14:30:00 +02:00
f49ced6827
gnu: youtube-dl: Update to 2017.04.03.
...
* gnu/packages/video.scm (youtube-dl): Update to 2017.04.03.
2017-04-04 00:17:58 +02:00
f751b7596d
gnu: perl-email-simple: Update to 2.213.
...
* gnu/packages/mail.scm (perl-email-simple): Update to 2.213.
2017-04-04 00:17:58 +02:00
e26f2c67d6
gnu: perl-email-mime: Update to 1.940.
...
* gnu/packages/mail.scm (perl-email-mime): Update to 1.940.
2017-04-04 00:17:57 +02:00
Ricardo Wurmus
Marius Bakke
Ricardo Wurmus
Ludovic Courtès
Tobias Geerinckx-Rice
Kei Kebreau
Ben Woodcroft
Thomas Danckaert
Clément Lassieur
Mark Meyer