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Author SHA1 Message Date
Ben Woodcroft 171ba2480f
gnu: diamond: Update to 0.9.12. 
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.12.
 2017-11-04 10:51:44 +10:00
Marius Bakke d3f140218b
gnu: sssd: Disable failing test. 
* gnu/packages/sssd.scm (sssd)[arguments]<#:phases>: Add substitution to
'disable-failing-test' phase.
 2017-11-04 00:07:40 +01:00
Marius Bakke f1ae27b608
gnu: samba: Update to 4.7.1. 
* gnu/packages/samba.scm (samba): Update to 4.7.1.
 2017-11-04 00:07:40 +01:00
Marius Bakke ad25310dd5
gnu: ldb: Update to 1.3.0. 
* gnu/packages/samba.scm (ldb): Update to 1.3.0.
 2017-11-04 00:07:40 +01:00
Marius Bakke d94c679254
gnu: re2: Update to 2017-11-01. 
* gnu/packages/regex.scm (re2): Update to 2017-11-01.
 2017-11-04 00:07:39 +01:00
Marius Bakke 1695bd788d
gnu: libxfont@1: Update to 1.5.3. 
* gnu/packages/xorg.scm (libxfont): Update to 1.5.3.
[source](patches): Remove.
 2017-11-04 00:07:39 +01:00
Ricardo Wurmus 66865ab8ac
gnu: multiqc: Update to 1.3. 
* gnu/packages/bioinformatics.scm (multiqc): Update to 1.3.
[propagated-inputs]: Add python-enum34.
[license]: The license was changed to "GPLv3 or later" with this release.
 2017-11-03 17:18:52 +01:00
Kei Kebreau 416ad6feaa
gnu: iso-codes: Update to 3.76. 
* gnu/packages/iso-codes.scm (iso-codes): Update to 3.76.
 2017-11-03 09:34:13 -04:00
Ricardo Wurmus b12c6a664d
gnu: r-ape: Update to 5.0. 
* gnu/packages/bioinformatics.scm (r-ape): Update to 5.0.
[propagated-inputs]: Add r-rcpp.
 2017-11-03 14:14:38 +01:00
Ricardo Wurmus 840782204f
gnu: r-bbmle: Update to 1.0.20. 
* gnu/packages/cran.scm (r-bbmle): Update to 1.0.20.
 2017-11-03 14:14:38 +01:00
Ricardo Wurmus 1a1b4f0571
gnu: r-proxy: Update to 0.4-19. 
* gnu/packages/cran.scm (r-proxy): Update to 0.4-19.
 2017-11-03 14:14:38 +01:00
Ricardo Wurmus a8a2871f71
gnu: r-glue: Update to 1.2.0. 
* gnu/packages/cran.scm (r-glue): Update to 1.2.0.
 2017-11-03 14:14:38 +01:00
Ricardo Wurmus a6ec5b7043
gnu: r-withr: Update to 2.1.0. 
* gnu/packages/statistics.scm (r-withr): Update to 2.1.0.
[propagated-inputs]: Add r-lattice.
 2017-11-03 14:14:37 +01:00
Ricardo Wurmus fd9afcf4ea
gnu: r-quantreg: Update to 5.34. 
* gnu/packages/statistics.scm (r-quantreg): Update to 5.34.
 2017-11-03 14:14:37 +01:00
Ricardo Wurmus 1fe75660c0
gnu: r-robustbase: Update to 0.92-8. 
* gnu/packages/statistics.scm (r-robustbase): Update to 0.92-8.
 2017-11-03 14:14:37 +01:00
Ricardo Wurmus 1fb415cb50
gnu: r-purrr: Update to 0.2.4. 
* gnu/packages/statistics.scm (r-purrr): Update to 0.2.4.
 2017-11-03 14:14:37 +01:00
Ricardo Wurmus c8818f5577
gnu: r-irlba: Update to 2.3.1. 
* gnu/packages/statistics.scm (r-irlba): Update to 2.3.1.
 2017-11-03 14:14:37 +01:00
Ricardo Wurmus 116e9837b5
gnu: r-checkmate: Update to 1.8.5. 
* gnu/packages/statistics.scm (r-checkmate): Update to 1.8.5.
 2017-11-03 14:14:36 +01:00
Ricardo Wurmus fde66e3018
gnu: r-multitaper: Update to 1.0-14. 
* gnu/packages/statistics.scm (r-multitaper): Update to 1.0-14.
 2017-11-03 14:14:36 +01:00
Ricardo Wurmus 0a123e0609
gnu: r-data-table: Update to 1.10.4-3. 
* gnu/packages/statistics.scm (r-data-table): Update to 1.10.4-3.
 2017-11-03 14:14:36 +01:00
Ricardo Wurmus b5a2f37157
gnu: r-pryr: Update to 0.1.3 
* gnu/packages/statistics.scm (r-pryr): Update to 0.1.3.
 2017-11-03 14:14:36 +01:00
Ricardo Wurmus bc409c8d3b
gnu: r-lazyeval: Update to 0.2.1. 
* gnu/packages/statistics.scm (r-lazyeval): Update to 0.2.1.
 2017-11-03 14:14:36 +01:00
Ricardo Wurmus 6b968c4cd3
gnu: Add r-corrplot. 
* gnu/packages/cran.scm (r-corrplot): New variable.
 2017-11-03 10:34:24 +01:00
Ricardo Wurmus 81e0b62502
gnu: Add r-ggrepel. 
* gnu/packages/cran.scm (r-ggrepel): New variable.
 2017-11-03 10:34:23 +01:00
Mark H Weaver 0f3142e7c3
gnu: linux-libre: Update to 4.13.11. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.13.11.
(%linux-libre-hash): Update hash.
 2017-11-03 01:31:06 -04:00
Mark H Weaver 336b8d422d
gnu: linux-libre@4.9: Update to 4.9.60. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.60.
 2017-11-03 01:30:25 -04:00
Mark H Weaver 15d44dfe22
gnu: linux-libre@4.4: Update to 4.4.96. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.96.
 2017-11-03 01:29:33 -04:00
Oleg Pykhalov 72df48dbad
gnu: Add kodi-cli. 
* gnu/packages/kodi.scm (kodi-cli): New variable.
 2017-11-03 06:46:03 +03:00
Ricardo Wurmus 1d84500a72
gnu: conda: Fix environment scripts. 
* gnu/packages/package-management.scm (conda)[arguments]: Add phase
"undo-wrap".
 2017-11-03 00:12:46 +01:00
Marius Bakke ada53b1d50
Revert "gnu: itstool: Update to 2.0.4." 
This reverts commit 13fbd174b5.
 2017-11-02 23:00:23 +01:00
Marius Bakke 77576be41f
gnu: openssl@1.1: Update to 1.1.0g [fixes CVE-2017-3735, CVE-2017-2736]. 
* gnu/packages/tls.scm (openssl-next): Update to 1.1.0g.
[source]: Add HTTPS mirror.
 2017-11-02 22:21:59 +01:00
Marius Bakke 1df4f5c919
gnu: openssl@1.0: Replace with 1.0.2m [fixes CVE-2017-3735, CVE-2017-2736]. 
* gnu/packages/tls.scm (openssl)[replacement]: New field.
(openssl-1.0.2m): New public variable.
 2017-11-02 22:21:59 +01:00
Efraim Flashner 22bf67d1f4
gnu: enlightenment: Update to 0.22.0. 
* gnu/packages/enlightenment.scm (enlightenment): Update to 0.22.0.
 2017-11-02 23:05:11 +02:00
Efraim Flashner 41b5408235
gnu: efl: Update to 1.20.5. 
* gnu/packages/enlightenment.scm (efl): Update to 1.20.5.
 2017-11-02 23:05:09 +02:00
Marius Bakke bc183968f5
gnu: vte-ng: Update to 0.50.2.a. 
* gnu/packages/gnome.scm (vte-ng): Update to 0.50.2.a.
 2017-11-02 21:17:41 +01:00
Tobias Geerinckx-Rice 52995941bc
gnu: gnome-todo: Update to 3.26.2. 
* gnu/packages/gnome.scm (gnome-todo): Update to 3.26.2.
 2017-11-02 21:10:21 +01:00
Tobias Geerinckx-Rice 92c9392767
gnu: dconf-editor: Update to 3.26.2. 
* gnu/packages/gnome.scm (dconf-editor): Update to 3.26.2.
 2017-11-02 21:10:21 +01:00
Tobias Geerinckx-Rice b39e612115
gnu: gnome-clocks: Update to 3.26.1. 
* gnu/packages/gnome.scm (gnome-clocks): Update to 3.26.1.
 2017-11-02 21:10:20 +01:00
Tobias Geerinckx-Rice 1b59d45ee4
gnu: file-roller: Update to 3.26.2. 
gnu/packages/gnome.scm (file-roller): Update to 3.26.2.
 2017-11-02 21:10:20 +01:00
Tobias Geerinckx-Rice 46994d0d4c
gnu: aisleriot: Update to 3.22.4. 
* gnu/packages/gnome.scm (aisleriot): Update to 3.22.4.
 2017-11-02 21:10:19 +01:00
Tobias Geerinckx-Rice 03e775d4e8
gnu: knot: Update to 2.6.1. 
* gnu/packages/dns.scm (knot): Update to 2.6.1.
 2017-11-02 21:10:18 +01:00
Tobias Geerinckx-Rice 73b80ff924
gnu: miniupnpc: Update to 2.0.20171102. 
* gnu/packages/upnp.scm (miniupnpc): Update to 2.0.20171102.
 2017-11-02 21:10:18 +01:00
Rutger Helling 3440f12a7e
gnu: mpv: enable Wayland support. 
* gnu/packages/video.scm (mpv)[inputs]: Add wayland and libxkbcommon.
 2017-11-02 16:03:25 -04:00
Kei Kebreau 13fbd174b5
gnu: itstool: Update to 2.0.4. 
* gnu/packages/glib.scm (itstool): Update to 2.0.4.
[inputs]: Replace python and python-libxml2 with python-2 and python2-libxml2.
 2017-11-02 15:37:22 -04:00
Kei Kebreau 67bd376b1a
gnu: gnome-maps: Update to 3.26.2. 
* gnu/packages/geo.scm (gnome-maps): Update to 3.26.2.
[arguments]: In 'install' phase, add webkitgtk to LD_LIBRARY_PATH.
 2017-11-02 14:42:58 -04:00
Kei Kebreau 4dd137d508
gnu: libgweather: Update to 3.26.0. 
* gnu/packages/gnome.scm (libgweather): Update to 3.26.0.
 2017-11-02 12:05:03 -04:00
Julien Lepiller bb27eb0dbf
gnu: Add java-plexus-classworlds. 
* gnu/packages/java.scm (java-plexus-classworlds): New variable.
 2017-11-02 13:07:38 +01:00
Julien Lepiller 4d50897515
gnu: Add java-powermock-api-easymock. 
* gnu/packages/java.scm (java-powermock-api-easymock): New variable.
 2017-11-02 13:07:30 +01:00
Julien Lepiller 33db168181
gnu: Add java-powermock-modules-junit4. 
* gnu/packages/java.scm (java-powermock-modules-junit4): New variable.
 2017-11-02 13:07:27 +01:00
Julien Lepiller 6c21d46c70
gnu: Add java-powermock-modules-junit4-common. 
* gnu/packages/java.scm (java-powermock-modules-junit4-common): New
variable.
 2017-11-02 13:07:24 +01:00
Julien Lepiller 2d5d65d7dd
gnu: Add java-powermock-api-support. 
* gnu/packages/java.scm (java-powermock-api-support): New variable.
 2017-11-02 13:07:22 +01:00
Julien Lepiller d4a4d5da60
gnu: Add java-powermock-core. 
* gnu/packages/java.scm (java-powermock-core): New variable.
 2017-11-02 13:07:19 +01:00
Julien Lepiller 8d6a48150a
gnu: Add java-powermock-reflect. 
* gnu/packages/java.scm (java-powermock-reflect): New variable.
* gnu/packages/patches/java-powermock-fix-java-files.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
 2017-11-02 13:07:17 +01:00
Julien Lepiller 5619556b24
gnu: Add java-xerial-core. 
* gnu/packages/java.scm (java-xerial-core): New variable.
 2017-11-02 13:07:15 +01:00
Julien Lepiller a53d9ac0f2
gnu: Add java-lmax-disruptor. 
* gnu/packages/java.scm (java-lmax-disruptor): New variable.
 2017-11-02 13:07:12 +01:00
Julien Lepiller 3120836732
gnu: Add java-bouncycastle-bcpkix. 
* gnu/packages/java.scm (java-bouncycastle-bcpkix): New variable.
 2017-11-02 13:07:09 +01:00
Julien Lepiller 62315865df
gnu: Add java-bouncycastle-bcprov. 
* gnu/packages/java.scm (java-bouncycastle-bcprov): New variable.
 2017-11-02 13:07:07 +01:00
Julien Lepiller d54d7d31ac
gnu: Add java-lz4. 
* gnu/packages/java.scm (java-lz4): New variable.
 2017-11-02 13:07:04 +01:00
Julien Lepiller eaf3cb7a41
gnu: Add java-mvel2. 
* gnu/packages/java.scm (java-mvel2): New variable.
 2017-11-02 13:07:01 +01:00
Julien Lepiller 1717a7de7b
gnu: Add java-jnacl. 
* gnu/packages/java.scm (java-jnacl): New variable.
 2017-11-02 13:06:59 +01:00
Julien Lepiller 0442d897e9
gnu: Add java-testng. 
* gnu/packages/java.scm (java-testng): New variable.
 2017-11-02 13:06:56 +01:00
Julien Lepiller ca98e4481f
gnu: Add java-fest-assert. 
* gnu/packages/java.scm (java-fest-assert): New variable.
 2017-11-02 13:06:54 +01:00
Julien Lepiller 3c6c835806
gnu: Add java-fest-test. 
* gnu/packages/java.scm (java-fest-test): New variable.
 2017-11-02 13:06:51 +01:00
Julien Lepiller 7a343e971a
gnu: Add java-fest-util. 
* gnu/packages/java.scm (java-fest-util): New variable.
 2017-11-02 13:06:48 +01:00
Julien Lepiller e84b899d50
gnu: Add java-jmock-legacy. 
* gnu/packages/java.scm (java-jmock-legacy): New variable.
 2017-11-02 13:06:46 +01:00
Julien Lepiller 25436c6d03
gnu: Add java-jmock-junit4. 
* gnu/packages/java.scm (java-jmock-junit4): New variable.
 2017-11-02 13:06:43 +01:00
Julien Lepiller 045124ae2f
gnu: Add java-jmock. 
* gnu/packages/java.scm (java-jmock): New variable.
 2017-11-02 13:06:41 +01:00
Julien Lepiller 11bc385b7b
gnu: Add java-bsh. 
* gnu/packages/java.scm (java-bsh): New variable.
 2017-11-02 13:06:38 +01:00
Julien Lepiller a6dd06d0e2
gnu: Add java-jcommander. 
* gnu/packages/java.scm (java-jcommander): New variable.
 2017-11-02 13:06:19 +01:00
Kei Kebreau 2524a2a17a
gnu: five-or-more: Update to 3.26.0. 
* gnu/packages/gnome.scm (five-or-more): Update to 3.26.0.
 2017-11-02 07:36:58 -04:00
Efraim Flashner 30ee6bf5d2
gnu: dejagnu: Update to 1.6.1. 
* gnu/packages/dejagnu.scm (dejagnu): Update to 1.6.1.
 2017-11-02 13:12:15 +02:00
Oleg Pykhalov 50e3f2a5a4
gnu: emacs-helm-make: Update to 0.1.0-1.21c1bfa. 
* gnu/packages/emacs.scm (emacs-helm-make): Update to 0.1.0-1.21c1bfa.
 2017-11-02 11:05:46 +03:00
Eric Bavier a254971350
gnu: units: Add readline input. 
* gnu/packages/maths.scm (units)[inputs]: Add readline.
 2017-11-01 17:17:01 -05:00
Eric Bavier 0498d24866
gnu: units: Add python input. 
* gnu/packages/maths.scm (units)[inputs]: New field.
[arguments]: New field.  Add 'wrap-units_cur phase.
 2017-11-01 17:15:10 -05:00
Eric Bavier f11d2849a1
gnu: units: Update to 2.16. 
* gnu/packages/maths.scm (units): Update to 2.16.
 2017-11-01 17:11:15 -05:00
Kei Kebreau 55ed15baba
gnu: gnome-mines: Update to 3.26.0. 
* gnu/packages/gnome.scm (gnome-mines): Update to 3.26.0.
 2017-11-01 19:49:46 -04:00
Marius Bakke 88b35013b7
gnu: git: Update to 2.15.0. 
* gnu/packages/version-control.scm (git): Update to 2.15.0.
 2017-11-01 21:26:58 +01:00
Marius Bakke 61e1d6a791
gnu: imagemagick: Update to 6.9.9-21. 
* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.9-21.
[home-page]: Use HTTPS.
 2017-11-01 21:26:50 +01:00
Marius Bakke 449ad88bb5
gnu: libass: Update to 0.14.0. 
* gnu/packages/video.scm (libass): Update to 0.14.0.
[native-inputs]: Change from YASM to NASM.
 2017-11-01 20:29:32 +01:00
Marius Bakke 5d7141cd28
tests: ssh: Make sure we can run executables from PATH. 
* gnu/tests/ssh.scm (run-ssh-test): Add tests for running commands in system
and user profile.
 2017-11-01 20:29:32 +01:00
Marius Bakke 2c16be569c
system: Return early in skeleton '.bashrc' when the shell is non-interactive. 
* gnu/system/shadow.scm (default-skeletons)[bashrc]: Add return statement.
 2017-11-01 20:29:32 +01:00
Marius Bakke 0ab59dd8b8
system: Test for interactive shell instead of cat in skeleton '.bashrc'. 
* gnu/system/shadow.scm (default-skeletons)[bashrc]: Wrap $SSH_CLIENT test in
a conditional testing for interactive shell.
 2017-11-01 20:29:32 +01:00
Marius Bakke 83a7a88f93
gnu: feh: Enable tests. 
* gnu/packages/image-viewers.scm (feh)[arguments]: Remove #:tests?.  Add
 #:test-target.
[native-inputs]: Add PERL and PERL-TEST-COMMAND.  New field.
 2017-11-01 20:29:32 +01:00
Marius Bakke 6b520156c2
gnu: Add perl-test-command. 
* gnu/packages/perl.scm (perl-test-command): New public variable.
 2017-11-01 20:29:32 +01:00
Efraim Flashner 5010d0e364
gnu: wine64: Add aarch64-linux to supported-systems. 
* gnu/packages/wine.scm (wine64)[supported-systems]: Add aarch64-linux.
 2017-11-01 10:17:18 +02:00
Ben Woodcroft 03d6e9dd08
gnu: vsearch: Update to 2.5.2. 
* gnu/packages/bioinformatics.scm (vsearch): Update to 2.5.2.
 2017-11-01 10:57:05 +10:00
Ben Woodcroft e126b79736
gnu: diamond: Update to 0.9.11. 
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.11.
 2017-11-01 10:57:03 +10:00
Tobias Geerinckx-Rice e6ee13599d
gnu: libfilezilla: Update to 0.11.1. 
* gnu/packages/ftp.scm (libfilezilla): Update to 0.11.1.
 2017-11-01 01:02:04 +01:00
Tobias Geerinckx-Rice 9b5db24e7a
gnu: gnome-mpv: Update to 0.13. 
* gnu/packages/video.scm (gnome-mpv): Update to 0.13.
 2017-11-01 01:02:04 +01:00
Tobias Geerinckx-Rice 78ab71ce1d
gnu: you-get: Update to 0.4.939. 
* gnu/packages/video.scm (you-get): Update to 0.4.939.
 2017-11-01 01:02:03 +01:00
Leo Famulari bc8bd40e6a
gnu: ncmpcpp: Update to 0.8.1. 
* gnu/packages/mpd.scm (ncmpcpp): Update to 0.8.1.
 2017-10-31 18:13:53 -04:00
Oleg Pykhalov cd5c3979d1
gnu: Add emacs-ggtags. 
* gnu/packages/emacs.scm (emacs-ggtags): New variable.
 2017-10-31 20:08:00 +03:00
Kei Kebreau 90bf26088e
gnu: Add sakura. 
* gnu/packages/terminals.scm (sakura): New variable.
 2017-10-31 09:41:52 -04:00
Oleg Pykhalov 016590a951
gnu: Add emacs-company-quickhelp. 
* gnu/packages/emacs.scm (emacs-company-quickhelp): New variable.
 2017-10-31 14:55:18 +03:00
宋文武 56295c5160
gnu: lxc: Update to 2.1.1. 
* gnu/packages/virtualization.scm (lxc): Update to 2.1.1.
 2017-10-31 19:28:09 +08:00
Oleg Pykhalov 2e4bb8c817
gnu: Add emacs-helm-make. 
* gnu/packages/emacs.scm (emacs-helm-make): New variable.
 2017-10-31 14:10:37 +03:00
Ricardo Wurmus 7bf59f7021
gnu: Remove cufflinks. 
Cufflinks includes essential non-free code.
Fixes <https://bugs.gnu.org/28946>.

* gnu/packages/bioinformatics.scm (cufflinks): Remove variable.
 2017-10-31 08:17:06 +01:00
Leo Famulari b275cd22d4
gnu: apr-util: Update to 1.6.1 [fixes CVE-2017-12618]. 
* gnu/packages/apr.scm (apr): Update to 1.6.1.
 2017-10-30 21:46:18 -04:00
Leo Famulari b614c48017
gnu: apr: Update to 1.6.3 [fixes CVE-2017-12613]. 
* gnu/packages/apr.scm (apr): Update to 1.6.3.
 2017-10-30 21:46:18 -04:00
Leo Famulari 3022680aba
gnu: mpd: Update to 0.20.11. 
* gnu/packages/mpd.scm (mpd): Update to 0.20.11.
 2017-10-30 21:46:14 -04:00