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25425 Commits

Author SHA1 Message Date
Ben Woodcroft 6f141eff47
gnu: bwa: Update to 0.7.17. 
* gnu/packages/bioinformatics.scm (bwa): Update to 0.7.17.
 2017-10-25 09:29:22 +10:00
Ben Woodcroft ae6e00f6f9
gnu: bwa: Change source URL to GitHub. 
* gnu/packages/bioinformatics.scm (bwa)[source]: Change source URL to
GitHub.
 2017-10-25 09:29:22 +10:00
Petter 85c991b029
gnu: Add perl-moox-options. 
* gnu/packages/perl.scm (perl-moox-options): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 23:30:25 +02:00
Ricardo Wurmus 68998abd4f
gnu: perl-getopt-long-descriptive: Update to 0.100. 
* gnu/packages/perl.scm (perl-getopt-long-descriptive): Update to 0.100.
[native-inputs]: Add perl-cpan-meta-check.
 2017-10-24 23:30:24 +02:00
Petter b936ddf312
gnu: Add perl-moox-configfromfile. 
* gnu/packages/perl.scm (perl-moox-configfromfile): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 23:30:24 +02:00
Petter 8df39f572c
gnu: Add perl-moox-file-configdir. 
* gnu/packages/perl.scm (perl-moox-file-configdir): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 23:30:24 +02:00
Petter 658a4976fa
gnu: Add perl-moox-cmd. 
* gnu/packages/perl.scm (perl-moox-cmd): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 23:30:24 +02:00
Ricardo Wurmus b547ef1d09
gnu: perl-list-moreutils: Update to 0.426. 
* gnu/packages/perl.scm (perl-list-moreutils): Update to 0.426.
[arguments]: Work around dotless @INC problem.
[native-inputs]: Add perl-test-leaktrace; remove perl-inc-latest and
perl-test-writevariants.
[propagated-inputs]: Add perl-list-moreutils-xs.
 2017-10-24 23:30:24 +02:00
Ricardo Wurmus 189bfb1112
gnu: Add perl-list-moreutils-xs. 
* gnu/packages/perl.scm (perl-list-moreutils-xs): New variable.
 2017-10-24 23:30:24 +02:00
Petter 544dc8d46b
gnu: Add perl-libintl-perl. 
* gnu/packages/perl.scm (perl-libintl-perl): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 23:30:23 +02:00
Petter 180411e3f4
gnu: Add perl-file-configdir. 
* gnu/packages/perl.scm (perl-file-configdir): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 23:30:23 +02:00
Petter 987232e67d
gnu: Add perl-data-record. 
* gnu/packages/perl.scm (perl-data-record): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 23:30:23 +02:00
Petter 8dca3bde0e
gnu: Add perl-data-printer. 
* gnu/packages/perl.scm (perl-data-printer): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 23:30:23 +02:00
Petter 857d75388b
gnu: Add perl-clone-pp. 
* gnu/packages/perl.scm (perl-clone-pp): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 23:30:23 +02:00
Petter 0de1e5e557
gnu: Add perl-data. 
* gnu/packages/perl.scm (perl-data): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 23:30:23 +02:00
ng0 6bf249211d
gnu: gnurl: Update to 7.56.1. 
* gnu/packages/gnunet.scm (gnurl): Update to 7.56.1.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2017-10-24 17:19:15 -04:00
Leo Famulari c27e8c1abd
gnu: util-linux: Update to 2.31. 
* gnu/packages/linux.scm (util-linux): Update to 2.31.
 2017-10-24 16:47:18 -04:00
Marius Bakke 67d527e35e
gnu: glibc: Update to 2.26. 
* gnu/packages/base.scm (glibc/linux): Update to 2.26.
[source](patches): Remove 'glibc-memchr-overflow-i686.patch',
'glibc-o-largefile.patch', 'glibc-vectorized-strcspn-guards.patch,
'glibc-CVE-2017-1000366-pt1.patch', 'glibc-CVE-2017-1000366-pt2.patch' and
'glibc-CVE-2017-1000366-pt3.patch'.
(glibc-2.25): New public variable.
 2017-10-24 22:15:10 +02:00
Marius Bakke 2cce5fc598
gnu: glibc: Incorporate grafted changes. 
* gnu/packages/base.scm (glibc/linux)[source](patches): Add
'glibc-CVE-2017-15670-15671.patch'.
(glibc/fixed): Remove variable.
 2017-10-24 22:04:29 +02:00
Marius Bakke a9c4f1ba51
gnu: curl: Remove graft for 7.56.1. 
* gnu/packages/curl.scm (curl): Update to 7.56.1.
(curl-7.56.1): Remove variable.
 2017-10-24 22:02:27 +02:00
Marius Bakke ca4fd41de8
Merge branch 'master' into core-updates 2017-10-24 22:00:23 +02:00
Leo Famulari 7276eca4dc
gnu: lzo: Update to 2.10. 
* gnu/packages/compression.scm (lzo): Update to 2.10.
 2017-10-24 15:58:53 -04:00
Tobias Geerinckx-Rice dac2a05690
gnu: lzip: Update to 1.19. 
* gnu/packages/compression.scm (lzip): Update to 1.19.
[description]: Fix minor typo.
 2017-10-24 15:56:34 -04:00
Leo Famulari f19d9db538
gnu: libpng: Update to 1.6.34. 
* gnu/packages/image.scm (libpng): Update to 1.6.34.
 2017-10-24 15:56:33 -04:00
Leo Famulari 2738dd99f9
gnu: xz: Update to 5.2.3. 
* gnu/packages/compression.scm (xz): Update to 5.2.3.
 2017-10-24 15:56:30 -04:00
Efraim Flashner 648c896ad3
gnu: screen: Update to 4.6.2. 
* gnu/packages/screen.scm (screen): Update to 4.6.2.
 2017-10-24 21:26:19 +03:00
Leo Famulari ae7e24c421
gnu: mupdf: Fix CVE-2017-{14685,14686,14687}. 
* gnu/packages/patches/mupdf-CVE-2017-14685.patch,
gnu/packages/patches/mupdf-CVE-2017-14686.patch,
gnu/packages/patches/mupdf-CVE-2017-14687.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/pdf.scm (mupdf)[source]: Use them.
 2017-10-24 13:44:34 -04:00
Leo Famulari 6dcc8239be
gnu: icu4c: Fix CVE-2017-14952. 
* gnu/packages/patches/icu4c-CVE-2017-14952.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/icu4c.scm (icu4c)[replacement]: New field.
(icu4c-fixed): New variable.
 2017-10-24 13:10:35 -04:00
Leo Famulari c330c27f7f
gnu: syncthing: Split into two outputs. 
* gnu/packages/syncthing.scm (syncthing)[outputs]: New field.
[arguments]: Change the 'install' and 'install-docs' phases to install to the
two outputs.
 2017-10-24 13:10:35 -04:00
Leo Famulari 1899ef0b83
gnu: syncthing: Use install-source? to disable installing the source code. 
* gnu/packages/syncthing.scm (syncthing): Set #:install-source? #f
instead of deleting the install-source phase.
 2017-10-24 13:10:35 -04:00
Leo Famulari c10851cf91
build-system/go: Parameterize installing the source code. 
* guix/build-system/go.scm (go-build): Add install-source? key.
* guix/build/go-build-system.scm (install-source): Check if
install-source? is true.
 2017-10-24 13:10:34 -04:00
Leo Famulari 1c37f839fb
build-system/go: Strip the Go binaries with the native tool. 
* guix/build/go-build-system.scm (build): Tell the Go linker to strip some
symbol tables and debugging information.
 2017-10-24 13:10:34 -04:00
Petter 22473f6964
gnu: Add perl-types-path-tiny. 
* gnu/packages/perl.scm (perl-types-path-tiny): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 18:38:32 +02:00
Petter 35aaf4b1bd
gnu: Add perl-type-tiny-xs. 
* gnu/packages/perl.scm (perl-type-tiny-xs): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 18:38:32 +02:00
Petter 237edb6d1f
gnu: Add perl-test-taint. 
* gnu/packages/perl.scm (perl-test-taint): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 18:38:32 +02:00
Petter cb2f48e7f2
gnu: Add perl-term-size-any. 
* gnu/packages/perl.scm (perl-term-size-any): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 18:38:32 +02:00
Petter fcbc997e03
gnu: Add perl-term-size-perl. 
* gnu/packages/perl.scm (perl-term-size-perl): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 18:38:32 +02:00
Petter a1798ee3c7
gnu: Add perl-devel-hide. 
* gnu/packages/perl.scm (perl-devel-hide): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 18:38:31 +02:00
Petter 8ae0558aad
gnu: Add perl-sort-naturally. 
* gnu/packages/perl.scm (perl-sort-naturally): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 18:38:31 +02:00
Petter b6cd89084d
gnu: Add perl-proc-invokeeditor. 
* gnu/packages/perl.scm (perl-proc-invokeeditor): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 18:38:31 +02:00
Petter b44ecca691
gnu: Add perl-archive-extract. 
* gnu/packages/compression.scm (perl-archive-extract): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 18:38:31 +02:00
Ricardo Wurmus 5aeb661134
gnu: Add perl-gnupg-interface. 
* gnu/packages/gnupg.scm (perl-gnupg-interface): New variable.

Co-authored-by: Petter <petter@mykolab.ch>
 2017-10-24 18:38:31 +02:00
Leo Famulari 6ee4fd2ae1
gnu: borg: Split up the monolithic man page. 
* gnu/packages/backup.scm (borg)[arguments]: Rewrite 'install-docs'
phase to install one man page per Borg sub-command.
 2017-10-24 10:21:51 -04:00
Leo Famulari db4411b42b
gnu: python-docutils: Update to 0.14. 
* gnu/packages/python.scm (python-docutils, python2-docutils): Update to 0.14.
 2017-10-24 10:21:51 -04:00
Petter 85f225fbf7
gnu: Add perl-xml-twig. 
* gnu/packages/xml.scm (perl-xml-twig): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2017-10-24 10:40:49 +02:00
Marius Bakke 91f2daa58d
gnu: curl: Update replacement to 7.56.1 [fixes CVE-2017-1000257]. 
* gnu/packages/curl.scm (curl-7.56.0): Rename to ...
(curl-7.56.1): ... this.  Update to 7.56.1.
(curl)[replacement]: Adjust accordingly.
 2017-10-24 08:09:47 +02:00
Danny Milosavljevic fc9a93cbf9
gnu: claws-mail: Re-enable vcalendar. 
* gnu/packages/mail.scm (claws-mail): Use module (gnu packages calendar).
[inputs]: Add libical.
 2017-10-24 08:07:24 +02:00
Marius Bakke 62d48234e2
gnu: git: Update to 2.14.3. 
* gnu/packages/version-control.scm (git): Update to 2.14.3.
 2017-10-24 07:55:34 +02:00
Ricardo Wurmus 306556528e
gnu: Add sorcer. 
* gnu/packages/music.scm (sorcer): New variable.
 2017-10-24 07:54:43 +02:00
Ricardo Wurmus 2809a355b6
gnu: Add papagayo. 
* gnu/packages/animation.scm (papagayo): New variable.
 2017-10-24 07:54:43 +02:00