f5ca44b86e
gnu: glade: Update to 3.18.5.
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* gnu/packages/gnome.scm (glade): Update to 3.18.5.
[arguments]: Disable tests; add "fix-docbook" phase.
[inputs]: Replace "gtk+-2" with "gtk+".
[native-inputs]: Add "itstool", "libxslt", "docbook-xml", "docbook-xsl";
replace "python" with "python-2".
2016-01-15 22:29:37 +01:00
45f2ffb48c
gnu: openssh: Update to 7.1p2.
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* gnu/packages/ssh.scm (openssh): Update to 7.1p2.
2016-01-15 02:46:12 -05:00
1beec63ac8
Revert "gnu: openssh: Update to 7.1p2 [fixes CVE-0216-0778]."
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This reverts commit 6d139e53b5
2016-01-15 02:45:58 -05:00
6d139e53b5
gnu: openssh: Update to 7.1p2 [fixes CVE-0216-0778].
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* gnu/packages/ssh.scm (openssh): Update to 7.1p2.
2016-01-14 10:39:00 -05:00
df1f1d6936
gnu: Add docker-compose.
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* gnu/packages/docker.scm (docker-compose): New variable.
2016-01-14 09:17:12 -05:00
b42c9c8124
gnu: Add python-dockerpty.
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* gnu/packages/docker.scm (python-dockerpty): New variable.
2016-01-14 09:16:22 -05:00
d020bfc2df
gnu: Add python-docker-py.
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* gnu/packages/docker.scm: New file.
* Makefile.am (GNU_SYSTEM_MODULES): Add it.
2016-01-14 09:16:22 -05:00
67c52bb3e7
gnu: Add python-websocket-client.
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* gnu/packages/python.scm (python-websocket-client): New variable.
2016-01-14 09:12:23 -05:00
210bf49754
gnu: Add python-texttable.
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* gnu/packages/python.scm (python-texttable, python2-texttable): New
variables.
2016-01-14 09:12:23 -05:00
b3667afbd2
gnu: Update python-jsonschema to 2.5.1.
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* gnu/packages/python.scm (python-jsonschema): Update to 2.5.1.
[inputs]: Add python-vcversioner.
2016-01-14 09:12:06 -05:00
ea521b42c2
gnu: Add python-vcversioner.
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* gnu/packages/python.scm (python-vcversioner, python2-vcversioner): New
variables.
2016-01-14 09:05:19 -05:00
e90051808b
gnu: Add version 2.7 variant of python-requests.
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* gnu/packages/python.scm (python-requests-2.7): New variable.
2016-01-14 09:05:19 -05:00
3141b83d4d
gnu: r-go-db: Add missing input.
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* gnu/packages/bioinformatics.scm (r-go-db)[propagated-inputs]: Add
"r-annotationdbi".
2016-01-14 14:43:59 +01:00
d7786ce9b0
gnu: r-sparsem: Add missing "gfortran" input.
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* gnu/packages/statistics.scm (r-sparsem)[inputs]: Add "gfortran".
2016-01-14 14:43:59 +01:00
0047d26a22
gnu: bowtie: Update to 2.2.6.
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* gnu/packages/bioinformatics.scm (bowtie): Update to 2.2.6.
[source]: Remove patch; do not set CC and CPP variables.
[inputs]: Add "tbb".
[arguments]: Pass "prefix" and "WITH_TBB" make flags; remove custom
"install" phase.
* gnu/packages/patches/bowtie-fix-makefile.patch: Remove file.
* gnu-system.am (dist_patch_DATA): Remove patch file.
2016-01-14 14:43:25 +01:00
2d12284d38
gnu: gnupg: Add TOFU support.
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* gnu/packages/gnupg.scm (gnupg)[inputs]: Add sqlite.
2016-01-14 15:05:36 +02:00
869cda545d
import: gem: Beautify description field.
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* guix/import/gem.scm (gem->guix-package): Use 'beautify-description'.
2016-01-14 19:44:40 +10:00
2028a2c960
import: cran: Move beautify-description to utils module.
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* guix/import/cran.scm (beautify-description): Move from here...
* guix/import/utils.scm: ... to here.
2016-01-14 19:44:36 +10:00
6b3a1ce8d7
emacs: Fix heading face in "Package Info".
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Reported by Ludovic Courtès <ludo@gnu.org> on #guix.
This fixes a regression introduced in commit 7171d824
2016-01-14 01:12:24 +03:00
6b6f7d6a0e
gnu: orfm: Update to 0.5.3.
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* gnu/packages/bioinformatics.scm (orfm): Update to 0.5.3.
[native-inputs]: Add inputs required for tests.
[description]: Add commas.
2016-01-14 08:00:10 +10:00
3d84a99e73
gnu: Add ruby-bio-commandeer.
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* gnu/packages/ruby.scm (ruby-bio-commandeer): New variable.
2016-01-14 08:00:02 +10:00
7c033c4627
gnu: Add ruby-systemu.
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* gnu/packages/ruby.scm (ruby-systemu): New variable.
2016-01-14 07:51:44 +10:00
7a2eed3aac
hydra: Add missing phase and inputs for 'make dist' job.
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* build-aux/hydra/guix.scm (tarball-package): Inherit from 'guix-devel'
rather than 'guix'. Pass #:phases to 'dist-package'.
2016-01-13 17:43:21 +01:00
b8a35309f8
build-system/gnu: 'dist-package' can be passed the phases.
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* guix/build-system/gnu.scm (dist-package): Add #:phases parameter and
honor it.
2016-01-13 17:43:21 +01:00
8c9ef2c3a2
monad-repl: Close connection when leaving the monad REPL.
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* guix/monad-repl.scm (store-monad-language): Add 'store' parameter and
use it. Remove call to 'open-connection'.
(enter-store-monad): Use 'with-store' and pass the store to
'store-monad-language.
2016-01-13 17:43:21 +01:00
e5a19fed19
gnu: julia: Update to 0.4.3.
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* gnu/packages/julia.scm (julia): Update to 0.4.3.
(libuv-julia): Update to 07730c4bd595.
2016-01-13 17:05:38 +01:00
6d268e5281
emacs: Move loading packages to "guix-emacs.el".
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* emacs/guix-init.el: Move the code for auto-loading Emacs packages to...
(guix-package-enable-at-startup): Move to...
* emacs/guix-emacs.el (guix-package-enable-at-startup): ... here.
2016-01-13 17:56:14 +03:00
e4e2154644
emacs: Make "guix-emacs.el" independent.
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"guix-emacs.el" may be used just for "instructing" Emacs where to find
Emacs packages installed with Guix, so it should have as few
dependencies as possible.
See <http://lists.gnu.org/archive/html/guix-devel/2016-01/msg00022.html >.
* emacs/guix-emacs.el: Require 'guix-profiles' optionally.
(guix-emacs-load-autoloads): Use 'guix-profile-prompt' only if it is
available.
2016-01-13 17:56:14 +03:00
08207339aa
emacs: Complete --file in 'guix build' popup.
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* emacs/guix-command.el (guix-command-improve-build-argument): Use
'guix-read-file-name' to complete --file option.
2016-01-13 17:55:47 +03:00
883fc5ed42
emacs: Add missing shell completions.
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* emacs/guix-pcomplete.el (guix-pcomplete-complete-option-arg): Complete
file name for '--install-from-file' option of 'guix package' command,
and for '--file' and '--with-source' options of 'guix build' command.
2016-01-13 17:55:47 +03:00
75418ae0fd
gnu: isc-dhcp: Update to 4.3.3-P1 [fixes CVE-2015-8605].
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* gnu/packages/admin.scm (isc-dhcp): Update to 4.3.3-P1.
2016-01-13 09:38:57 -05:00
c44734115a
gnu: samtools: Update to 1.3.
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* gnu/packages/bioinformatics.scm (samtools): Update to 1.3.
[arguments]: Enable tests for all architectures; set ncurses in
configure-flags instead of make-flags; simplify "patch-tests" phase;
restore "configure" phase.
2016-01-13 15:12:22 +01:00
93ce8a8e00
build: Use 127 as the Linux hash-bang limit.
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Reported by taylanbayirli@gmail.com (Taylan Ulrich Bayırlı/Kammer).
* m4/guix.m4 (LINUX_HASH_BANG_LIMIT): Set to 127.
2016-01-13 11:13:34 +01:00
98f2339189
gnu: skribilo: Update to 0.9.3.
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* gnu/packages/skribilo.scm (skribilo): Update to 0.9.3.
[native-inputs]: New field.
2016-01-13 11:13:34 +01:00
0917e80ea8
doc: Fix typo in "Build Systems".
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* doc/guix.texi (Build Systems): Remove extra 's'.
2016-01-12 17:55:59 -05:00
c91d3fb7f4
gnu: boost: Update to 1.60.0.
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* gnu/packages/boost.scm (boost): Update to 1.60.0.
[source]: Remove patch.
* gnu/packages/patches/boost-mips-avoid-m32.patch: Delete patch
* gnu-system.am (dist_patch_DATA): Remove patch.
Also fix dependent packages:
* gnu/packages/patches/csound-header-ordering.patch: New patch.
* gnu/packages/audio.scm (csound)[source]: Use it.
[arguments]: Add 'set-flags phase.
* gnu/packages/patches/libcmis-fix-test-onedrive.patch: New patch.
* gnu/packages/libreoffice.scm (libcmis)[source]: Use it.
(libreoffice)[arguments]: Add LDFLAGS to #:configure-flags.
(librevenge)[inputs]: Move boost from here...
[propogated-inputs]: to here.
[arguments]: Add LDFLAGS to #:configure-flags.
* gnu/packages/patches/openimageio-boost-1.60.patch: New patch.
* gnu/packages/graphics.scm (openimageio): Use it.
* gnu-system.am (dist_patch_DATA): Add patches.
2016-01-12 21:07:53 +01:00
3abe8136fd
gnu: boost: Use modify-phases.
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* gnu/packages/boost.scm (boost)[arguments]: Use modify-phases.
2016-01-12 20:53:14 +01:00
bb25130764
build: 'make check' errors out if file name limits would be hit.
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* Makefile.am (SCM_TESTS, SH_TESTS, TESTS, AM_TESTS_ENVIRONMENT)
(SCM_LOG_COMPILER, SH_LOG_COMPILER, AM_SCM_LOG_FLAGS)
(AM_SH_LOG_FLAGS): Move within 'if CAN_RUN_TESTS'.
(check-local) [!CAN_RUN_TESTS]: New target.
* daemon.am (AM_TESTS_ENVIRONMENT, TESTS): Ditto.
* m4/guix.m4 (GUIX_CHECK_FILE_NAME_LIMITS): Add parameter and set it.
2016-01-12 17:47:36 +01:00
27ab3cee75
build: Warn against long hash bang lines for tests.
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* m4/guix.m4 (GUIX_TEST_HASH_BANG_LENGTH): New macro.
(GUIX_CHECK_FILE_NAME_LIMITS): Use it. Warn against long hash bang
lines in tests.
2016-01-12 17:47:36 +01:00
d33fa0c714
doc: Show bootstrapping at the package level.
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* doc/images/bootstrap-packages.dot: New file.
* doc.am (DOT_FILES): Add it.
* doc/guix.texi (Bootstrapping): Show 'guix graph' commands. Includes
'images/bootstrap-packages' and comment it.
2016-01-12 17:47:36 +01:00
16aa649117
gnu: sudo: Add fix for CVE-2015-5602.
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* gnu/packages/patches/sudo-CVE-2015-5602.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/admin.scm (sudo)[source]: Add patch.
2016-01-12 11:23:06 -05:00
9d9951d6a6
gnu: global: Use modify-phases syntax.
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* gnu/packages/code.scm (global)[arguments]: Use modify-phases syntax.
2016-01-12 14:47:10 +02:00
94c3a6f1a6
gnu: global: Update to 6.5.2.
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* gnu/packages/code.scm (global): Update to 6.5.2.
2016-01-12 14:39:15 +02:00
9f40b1171b
gnu: icedtea-6: Fix directory name in "unpack" phase.
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* gnu/packages/java.scm (icedtea-6)[arguments]: Change the directory
prefix in the "unpack" phase to "icedtea6-".
2016-01-12 11:39:21 +01:00
6b0d24b17c
gnu: linux-libre: Update to 4.4.
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* gnu/packages/linux.scm (linux-libre): Update to 4.4.
* gnu/packages/linux-libre-i686.conf,
gnu/packages/linux-libre-x86_64.conf: Update from
<https://jxself.org/git/kernel-configs.git >.
2016-01-11 19:13:37 -05:00
81f3e0c1f3
gnu: Add fxtract.
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* gnu/packages/bioinformatics.scm (fxtract): New variable.
2016-01-12 07:49:19 +10:00
ec70fec559
gnu: youtube-dl: Update to 2016.01.09.
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* gnu/packages/video.scm (youtube-dl): Update to 2016.01.09.
2016-01-11 13:30:50 +02:00
4879d2ff66
gnu: gp2c: Update to 0.0.9pl5.
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* gnu/packages/algebra.scm (gp2c): Update to 0.0.9pl5.
2016-01-11 11:24:52 +01:00
4a6635f353
gnu: texlive: Use modify-phases syntax.
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* gnu/packages/texlive.scm (texlive-bin, texlive-texmf): Use modify-phases
syntax.
2016-01-11 10:59:29 +01:00
a916c82649
gnu: man-pages: Update to 4.04.
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* gnu/packages/man.scm (man-pages): Update to 4.04.
[source]: Add alternate location.
2016-01-11 09:37:50 +02:00
Ricardo Wurmus
Mark H Weaver
David Thompson
Ricardo Wurmus
Efraim Flashner
Ben Woodcroft
Alex Kost
Ludovic Courtès
Leo Famulari
Eric Bavier
Andreas Enge