fad8bf977d
gnu: python-s3transfer: Run the tests.
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* gnu/packages/python.scm (python-s3transfer, python2-s3transfer)[arguments]:
Use python-nose to run the tests.
[native-inputs]: Add python-mock and python-nose.
2016-10-26 21:41:28 -04:00
02c73adcdf
Merge branch 'master' into core-updates
2016-10-26 19:00:06 -04:00
a19da40630
gnu: perl-www-curl: Fix build failure.
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* gnu/packages/patches/perl-www-curl-remove-symbol.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/web.scm (perl-www-curl)[source]: Use it.
2016-10-26 18:44:16 -04:00
5d73e30000
gnu: Add lci.
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* gnu/packages/lolcode.scm: New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-26 20:39:27 +03:00
8caeb11772
gnu: Add autossh.
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* gnu/packages/ssh.scm (autossh): New variable.
2016-10-26 11:22:17 -05:00
aba6463975
gnu: r: Update to 3.3.1.
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* gnu/packages/statistics.scm (r): Update to 3.3.1.
2016-10-26 18:14:17 +02:00
a8e893b0b8
gnu: r-matrixstats: Update to 0.51.0.
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* gnu/packages/statistics.scm (r-matrixstats): Update to 0.51.0.
2016-10-26 16:23:32 +02:00
fd54f65e72
gnu: r-r-utils: Update to 2.4.0.
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* gnu/packages/statistics.scm (r-r-utils): Update to 2.4.0.
2016-10-26 16:23:32 +02:00
89242ea47f
gnu: r-irlba: Update to 2.1.2.
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* gnu/packages/statistics.scm (r-irlba): Update to 2.1.2.
2016-10-26 16:23:31 +02:00
4f2ebc16ce
gnu: r-codetools: Update to 0.2-15.
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* gnu/packages/statistics.scm (r-codetools): Update to 0.2-15.
2016-10-26 16:23:31 +02:00
cf738e961e
gnu: r-snow: Update to 0.4-2.
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* gnu/packages/statistics.scm (r-snow): Update to 0.4-2.
2016-10-26 16:23:31 +02:00
41bc22a7de
gnu: r-backports: Update to 1.0.4.
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* gnu/packages/statistics.scm (r-backports): Update to 1.0.4.
2016-10-26 16:23:30 +02:00
72263db73d
gnu: r-foreign: Update to 0.8-67.
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* gnu/packages/statistics.scm (r-foreign): Update to 0.8-67.
2016-10-26 16:23:30 +02:00
130410d941
gnu: r-cluster: Update to 2.0.5.
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* gnu/packages/statistics.scm (r-cluster): Update to 2.0.5.
2016-10-26 16:23:29 +02:00
e7622804aa
gnu: r-acepack: Update to 1.4.0.
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* gnu/packages/statistics.scm (r-acepack): Update to 1.4.0.
2016-10-26 16:23:29 +02:00
bff4dc6324
gnu: r-r6: Update to 2.2.0.
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* gnu/packages/statistics.scm (r-r6): Update to 2.2.0.
2016-10-26 16:23:29 +02:00
e0a9093139
gnu: r-evaluate: Update to 0.10.
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* gnu/packages/statistics.scm (r-evaluate): Update to 0.10.
2016-10-26 16:23:28 +02:00
2d9da70bbe
gnu: r-reshape2: Update to 1.4.2.
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* gnu/packages/statistics.scm (r-reshape2): Update to 1.4.2.
2016-10-26 16:23:28 +02:00
c2a9e99134
gnu: r-stringi: Update to 1.1.2.
...
* gnu/packages/statistics.scm (r-stringi): Update to 1.1.2.
2016-10-26 16:23:28 +02:00
03f72a1e1f
gnu: r-matrix: Update to 1.2-7.1.
...
* gnu/packages/statistics.scm (r-matrix): Update to 1.2-7.1.
2016-10-26 16:23:27 +02:00
9e087a1fde
gnu: r-colorspace: Update to 1.2-7.
...
* gnu/packages/statistics.scm (r-colorspace): Update to 1.2-7.
2016-10-26 16:23:27 +02:00
e1c2b7e2e1
gnu: r-jsonlite: Update to 1.1.
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* gnu/packages/web.scm (r-jsonlite): Update to 1.1.
2016-10-26 16:23:27 +02:00
2ffcd6607b
gnu: r-curl: Update to 2.2.
...
* gnu/packages/web.scm (r-curl): Update to 2.2.
2016-10-26 16:23:26 +02:00
a46cc723ff
gnu: r-seqinr: Update to 3.3-3.
...
* gnu/packages/bioinformatics.scm (r-seqinr): Update to 3.3-3.
2016-10-26 16:23:26 +02:00
062737a178
gnu: r-rcpparmadillo: Update to 0.7.500.0.0.
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* gnu/packages/maths.scm (armadillo-for-rcpparmadillo): Update to
7.500.0.
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.7.500.0.0.
2016-10-26 16:23:25 +02:00
7397cd9e3f
gnu: armadillo: Update to 7.500.0.
...
* gnu/packages/maths.scm (armadillo): Update to 7.500.0.
2016-10-26 16:23:25 +02:00
8e1369f19a
gnu: r-rmarkdown: Update to 1.1.
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* gnu/packages/statistics.scm (r-rmarkdown): Update to 1.1.
[propagated-inputs]: Add r-evaluate, r-tibble.
2016-10-26 16:23:25 +02:00
c70271ec48
gnu: bioperl-minimal: Update to 1.7.0.
...
* gnu/packages/bioinformatics.scm (bioperl-minimal): Update to 1.7.0.
2016-10-26 16:23:24 +02:00
39df253e2b
gnu: mupdf: Modify CVE-2016-8674 patch to apply to 1.9a.
...
The fix from upstream did not apply cleanly due to many context changes.
This was adapted by cloning mupdf 1.9a from git and fixing conflicts
after applying our patches and cherry-picking upstream commit 1e03c06.
This is a follow-up to 47a04fca99
2016-10-26 15:03:42 +01:00
b2a2232c33
gnu: python-certifi: Update to 2016.8.31.
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* gnu/packages/python.scm (python-certifi): Update to 2016.8.31.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-26 14:31:16 +03:00
07b1fb8675
gnu: security-token: Use 'license:' prefix.
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* gnu/packages/security-token.scm (libyubikey)[license]: Add prefix.
(ykclient)[license]: Add prefix.
2016-10-26 11:00:58 +01:00
f9c339603d
gnu: yubico.scm: Rename to security-token.scm.
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* gnu/packages/yubico.scm: Delete file.
* gnu/packages/security-token.scm: New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Adjust accordingly.
2016-10-26 10:45:49 +01:00
7a6213cbd7
gnu: offlineimap: Install documentation.
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* gnu/packages/mail.scm (offlineimap)[native-inputs]: Add asciidoc and
libxslt.
[arguments]: Add phases 'build-documentation' and
'install-documentation' to build and install manpages. Also remove
unneeded key 'inputs' from 'wrap-binary' phase.
2016-10-26 10:45:49 +01:00
d2a9b531fb
gnu: notmuch: Update to 0.23.1.
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* gnu/packages/patches/notmuch-emacs-25-compatibility-fix.patch: Delete
file.
* gnu/local.mk (dist_patch_DATA): Remove it.
* gnu/packages/mail.scm (notmuch): Update to 0.23.1. Remove patch.
2016-10-26 10:45:49 +01:00
8f5f6c922f
gnu: vlc: Add x265 support.
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* gnu/packages/video.scm (vlc)[inputs]: Add x265.
2016-10-26 12:19:19 +03:00
e3cb00d210
gnu: gst-plugins-bad: Add x265 support.
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* gnu/packages/gstreamer.scm (gst-plugins-bad)[inputs]: Add x265.
2016-10-26 12:19:18 +03:00
d505801a06
gnu: ffmpeg: Add x265 support.
...
* gnu/packages/video.scm (ffmpeg)[inputs]: Add x265.
[arguments]: Add '--enable-libx265' flag.
2016-10-26 12:19:18 +03:00
7bc7ffc243
gnu: Add x265.
...
* gnu/packages/video.scm (x265): New variable.
2016-10-26 12:19:18 +03:00
1df790d50d
gnu: Add psyclpc.
...
* gnu/packages/psyc.scm (psyclpc): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2016-10-26 11:29:35 +03:00
19262a718e
gnu: opensmtpd: Fix 'license' field.
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* gnu/packages/mail.scm (opensmtpd)[license]: Use LICENSE:OPENSSL, not
OPENSSL.
(opensmtpd-extras)[license]: Likewise.
2016-10-26 10:19:18 +02:00
59198f8fff
gnu: r-genomationdata: Update to 1.6.0.
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* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.6.0.
2016-10-26 09:28:23 +02:00
e357bec836
gnu: r-bamsignals: Update to 1.6.0.
...
* gnu/packages/bioinformatics.scm (r-bamsignals): Update to 1.6.0.
2016-10-26 09:28:23 +02:00
53ca52f013
gnu: r-rhtslib: Update to 1.6.0.
...
* gnu/packages/bioinformatics.scm (r-rhtslib): Update to 1.6.0.
[native-inputs]: Add autoconf.
2016-10-26 09:28:23 +02:00
da22da862b
gnu: r-zlibbioc: Update to 1.20.0.
...
* gnu/packages/bioinformatics.scm (r-zlibbioc): Update to 1.20.0.
2016-10-26 09:28:22 +02:00
809251e164
gnu: r-motifrg: Update to 1.18.0.
...
* gnu/packages/bioinformatics.scm (r-motifrg): Update to 1.18.0.
2016-10-26 09:28:22 +02:00
21d6c7a3e1
gnu: r-seqlogo: Update to 1.40.0.
...
* gnu/packages/bioinformatics.scm (r-seqlogo): Update to 1.40.0.
2016-10-26 09:28:22 +02:00
51c3c4900f
gnu: r-genomation: Update to 1.6.0.
...
* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.6.0.
[propagated-inputs]: Add r-rcpp, r-htslib, r-runit, r-s4vectors.
[inputs]: Add zlib.
2016-10-26 09:28:21 +02:00
e92dd6f5e0
gnu: r-seqpattern: Update to 1.6.0.
...
* gnu/packages/bioinformatics.scm (r-seqpattern): Update to 1.6.0.
[propagated-inputs]: Add r-kernsmooth.
2016-10-26 09:28:21 +02:00
acf6f7e0c3
gnu: r-impute: Update to 1.48.0.
...
* gnu/packages/bioinformatics.scm (r-impute): Update to 1.48.0.
2016-10-26 09:28:21 +02:00
3d74c04451
gnu: r-bsgenome: Update to 1.42.0.
...
* gnu/packages/bioinformatics.scm (r-bsgenome): Update to 1.42.0.
2016-10-26 09:28:20 +02:00
Leo Famulari