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17405 Commits

Author SHA1 Message Date
Mike Gerwitz cd9ed6c1cb
gnu: gnupg: Add support for pcsc-lite. 
* gnu/packages/gnupg.scm (gnupg)[inputs]: Add pcsc-lite.
[arguments]: Rename phase 'patch-config-files' to 'patch-paths'.  Patch
`scd/scdaemon.c' with absolute path of libpcsclite.so.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2016-10-27 09:56:54 +01:00
Mike Gerwitz a6b256affc
gnu: Add pcsc-lite. 
* gnu/packages/security-token.scm (pcsc-lite): New variable.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2016-10-27 09:56:52 +01:00
ng0 8888fe826c
gnu: Add dbacl. 
* gnu/packages/textutils.scm (dbacl): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2016-10-27 11:42:39 +03:00
Efraim Flashner 5fd84e288c
gnu: valgrind: Use 'modify-phases' syntax. 
* gnu/packages/valgrind.scm (valgrind)[arguments]: Use 'modify-phases'
syntax.
 2016-10-27 11:42:38 +03:00
Efraim Flashner e68168eb87
gnu: valgrind: Update to 3.12.0. 
* gnu/packages/valgrind.scm (valgrind): Update to 3.12.0.
 2016-10-27 11:42:29 +03:00
Hartmut Goebel 49a531f545
gnu: python-pathlib2: Add comment. 
As suggested by Efraim Flashner.

* gnu/packages/python.scm (python-pathlib2): Add comment.
 2016-10-27 10:09:10 +02:00
Leo Famulari f02fb6dd6b
gnu: btrfs-progs: Update to 4.8.2. 
* gnu/packages/linux.scm (btrfs-progs): Update to 4.8.2.
 2016-10-27 00:43:37 -04:00
Leo Famulari 9045c086df
gnu: blender: Update to 2.78a. 
* gnu/packages/graphics.scm (blender): Update to 2.78a.
 2016-10-27 00:30:47 -04:00
Leo Famulari fad8bf977d
gnu: python-s3transfer: Run the tests. 
* 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
Leo Famulari 522fc32ebd
gnu: shotwell: Update to 0.25.0. 
* gnu/packages/gnome.scm (shotwell): Update to 0.25.0.
[inputs]: Add gcr.
 2016-10-26 20:10:05 -04:00
Leo Famulari 30b1267830
gnu: vdirsyncer: Update to 0.14.0. 
* gnu/packages/dav.scm (vdirsyncer): Update to 0.14.0.
 2016-10-26 19:56:15 -04:00
Ludovic Courtès 5479aa2b7c
tests: Test installation with store on a separate partition. 
This is a followup to 0f65f54ebd.

* gnu/tests/install.scm (%separate-store-os, %separate-store-os-source)
(%separate-store-installation-script, %test-separate-store-os): New
variables.
 2016-10-27 01:00:42 +02:00
Ludovic Courtès d88767a399
tests: Use #:fallback? #t when building system tests. 
* build-aux/run-system-tests.scm (run-system-tests): Pass #:fallback? #t
to 'set-build-options*'.
 2016-10-27 01:00:41 +02:00
Ludovic Courtès d6aca5835a
tests: Adjust pypi test to recent importer change. 
This is a followup to b5c347ad3d.

* tests/pypi.scm ("pypi->guix-package"): Expect 'propagated-inputs', not
'inputs'.
("pypi->guix-package, wheels"): Likewise.
 2016-10-27 01:00:41 +02:00
Ludovic Courtès a91d75ecbd
tests: Skip 'pivot-root' test on Linux > 4.7.5. 
* tests/syscalls.scm ("pivot-root"): Skip when 'uname' returns a
'utsname:release' > 4.7.5.
 2016-10-27 01:00:41 +02:00
Leo Famulari 02c73adcdf
Merge branch 'master' into core-updates 2016-10-26 19:00:06 -04:00
Leo Famulari a19da40630
gnu: perl-www-curl: Fix build failure. 
* 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
ng0 5d73e30000
gnu: Add lci. 
* 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
Christopher Allan Webber 8caeb11772
gnu: Add autossh. 
* gnu/packages/ssh.scm (autossh): New variable.
 2016-10-26 11:22:17 -05:00
Ricardo Wurmus aba6463975
gnu: r: Update to 3.3.1. 
* gnu/packages/statistics.scm (r): Update to 3.3.1.
 2016-10-26 18:14:17 +02:00
Ricardo Wurmus a8e893b0b8
gnu: r-matrixstats: Update to 0.51.0. 
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.51.0.
 2016-10-26 16:23:32 +02:00
Ricardo Wurmus fd54f65e72
gnu: r-r-utils: Update to 2.4.0. 
* gnu/packages/statistics.scm (r-r-utils): Update to 2.4.0.
 2016-10-26 16:23:32 +02:00
Ricardo Wurmus 89242ea47f
gnu: r-irlba: Update to 2.1.2. 
* gnu/packages/statistics.scm (r-irlba): Update to 2.1.2.
 2016-10-26 16:23:31 +02:00
Ricardo Wurmus 4f2ebc16ce
gnu: r-codetools: Update to 0.2-15. 
* gnu/packages/statistics.scm (r-codetools): Update to 0.2-15.
 2016-10-26 16:23:31 +02:00
Ricardo Wurmus cf738e961e
gnu: r-snow: Update to 0.4-2. 
* gnu/packages/statistics.scm (r-snow): Update to 0.4-2.
 2016-10-26 16:23:31 +02:00
Ricardo Wurmus 41bc22a7de
gnu: r-backports: Update to 1.0.4. 
* gnu/packages/statistics.scm (r-backports): Update to 1.0.4.
 2016-10-26 16:23:30 +02:00
Ricardo Wurmus 72263db73d
gnu: r-foreign: Update to 0.8-67. 
* gnu/packages/statistics.scm (r-foreign): Update to 0.8-67.
 2016-10-26 16:23:30 +02:00
Ricardo Wurmus 130410d941
gnu: r-cluster: Update to 2.0.5. 
* gnu/packages/statistics.scm (r-cluster): Update to 2.0.5.
 2016-10-26 16:23:29 +02:00
Ricardo Wurmus e7622804aa
gnu: r-acepack: Update to 1.4.0. 
* gnu/packages/statistics.scm (r-acepack): Update to 1.4.0.
 2016-10-26 16:23:29 +02:00
Ricardo Wurmus bff4dc6324
gnu: r-r6: Update to 2.2.0. 
* gnu/packages/statistics.scm (r-r6): Update to 2.2.0.
 2016-10-26 16:23:29 +02:00
Ricardo Wurmus e0a9093139
gnu: r-evaluate: Update to 0.10. 
* gnu/packages/statistics.scm (r-evaluate): Update to 0.10.
 2016-10-26 16:23:28 +02:00
Ricardo Wurmus 2d9da70bbe
gnu: r-reshape2: Update to 1.4.2. 
* gnu/packages/statistics.scm (r-reshape2): Update to 1.4.2.
 2016-10-26 16:23:28 +02:00
Ricardo Wurmus 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
Ricardo Wurmus 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
Ricardo Wurmus 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
Ricardo Wurmus e1c2b7e2e1
gnu: r-jsonlite: Update to 1.1. 
* gnu/packages/web.scm (r-jsonlite): Update to 1.1.
 2016-10-26 16:23:27 +02:00
Ricardo Wurmus 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
Ricardo Wurmus 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
Ricardo Wurmus 062737a178
gnu: r-rcpparmadillo: Update to 0.7.500.0.0. 
* 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
Ricardo Wurmus 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
Ricardo Wurmus 8e1369f19a
gnu: r-rmarkdown: Update to 1.1. 
* 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
Ricardo Wurmus 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
Marius Bakke 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.

* gnu/packages/patches/mupdf-CVE-2016-8674.patch: Adapt to 1.9a.
 2016-10-26 15:03:42 +01:00
Roel Janssen e95ae7c223
guix package: Display generation diffs. 
* guix/ui.scm (display-profile-content-diff): New variable.
* guix/scripts/package.scm (process-query): Use display-profile-content-diff.

In collaboration with Benz Schenk.
 2016-10-26 14:53:29 +02:00
ng0 b2a2232c33
gnu: python-certifi: Update to 2016.8.31. 
* 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
Marius Bakke 07b1fb8675
gnu: security-token: Use 'license:' prefix. 
* gnu/packages/security-token.scm (libyubikey)[license]: Add prefix.
(ykclient)[license]: Add prefix.
 2016-10-26 11:00:58 +01:00
Marius Bakke f9c339603d
gnu: yubico.scm: Rename to security-token.scm. 
* 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
Marius Bakke 7a6213cbd7
gnu: offlineimap: Install documentation. 
* 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
Marius Bakke d2a9b531fb
gnu: notmuch: Update to 0.23.1. 
* 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
Efraim Flashner 8f5f6c922f
gnu: vlc: Add x265 support. 
* gnu/packages/video.scm (vlc)[inputs]: Add x265.
 2016-10-26 12:19:19 +03:00