4d79f072cc
environment: Fix '--root' option with relative file name.
...
The path normalization of `--root` option of `guix environment` was
buggy as it appended full argument after normalized directory. This
patch fixes it.
* guix/scripts/environment.scm (register-gc-root): Fix gc-root path
normalization.
* tests/guix-environment.sh: Add test.
Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2021-01-19 17:45:38 +01:00
f97ee77418
modules: Recognize #:re-export-and-replace.
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* guix/modules.scm (extract-dependencies): Recognize
#:re-export-and-replace, which was introduced in Guile 3.0.
2021-01-19 17:45:38 +01:00
e74baa1245
system: Rename 'disk-image' command 'image'.
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* guix/scripts/system.scm (system-derivation-for-action): Rename 'disk-image'
command 'image'. Warn when using the now deprecated 'disk-image' command.
(show-help): Adapt accordingly.
(guix-system): Ditto.
* tests/guix-system.sh: Ditto.
* gnu/system/examples/bare-hurd.tmpl: Ditto.
* doc/guix.texi (Building the Installation Image,
Building the Installation Image for ARM Boards,
Invoking guix pack,
Invoking guix system): Adapt documentation.
2021-01-19 17:16:56 +01:00
868c4dec0f
gnu: terminology: Update to 1.9.0.
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* gnu/packages/enlightenment.scm (terminology): Update to 1.9.0.
[arguments]: Add configure-flag to find more binaries.
2021-01-19 18:11:50 +02:00
cb68ae668a
doc: Fix typo.
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Fixes <http://bugs.gnu.org/35004 >.
* doc/guix.texi (Invoking guix package): Fix typo.
Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
2021-01-19 11:57:16 +01:00
b3e39a475f
gnu: freebayes: Update source, home-page URIs.
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* gnu/packages/bioinformatics.scm (freebayes)[source]: Update to new
upstream URI.
[home-page]: Same.
2021-01-19 11:48:38 +02:00
1d92fb08cf
gnu: terminator: Adjust description.
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* gnu/packages/gnome.scm (terminator)[description): Remove stray '+'.
2021-01-19 11:46:41 +02:00
99043adf46
gnu: freebayes: Don't include vcflib sources.
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* gnu/packages/bioinformatics.scm (freebayes)[native-inputs]: Remove
vcflib-source, intervaltree-source. Move vcflib ...
[inputs]: ... to here.
[arguments]: Adjust 'patch-source and 'unpack-submodule-sources for
changes in vendored code.
* gnu/packages/patches/freebayes-devendor-deps.patch: Update patch.
2021-01-19 11:41:07 +02:00
1bbfe1789d
gnu: vcflib: Add pkg-config file.
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* gnu/packages/bioinformatics.scm (vcflib)[arguments]: Add phase to
create pkg-config file.
2021-01-19 11:36:01 +02:00
d6a8148c8d
gnu: vcflib: Build a shared library.
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* gnu/packages/bioinformatics.scm (vcflib)[arguments]: Add phase to
build a shared library instead of a static one.
2021-01-19 10:43:06 +02:00
797585746b
gnu: freebayes: Extend test timeout on slower architectures.
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* gnu/packages/bioinformatics.scm (freebayes)[arguments]: Use custom
'check phase on aarch64-linux and armhf-linux to extend the test timeout.
2021-01-19 10:33:19 +02:00
63806fedf2
gnu: xpra: Add more encoding options.
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* gnu/packages/xorg.scm (xpra)[inputs]: Add libx264, x265, libvpx.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-01-19 09:54:07 +02:00
d34573f3df
gnu: xpra: Update to 4.0.6.
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* gnu/packages/xorg.scm (xpra): Update to 4.0.6.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-01-19 09:54:04 +02:00
ac3c4e3247
gnu: libid3tag: Add comment justifying the 'install-pkg-config phase.
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* gnu/packages/mp3.scm (libid3tag)[arguments]: Add a comment about Audacity
requiring a pkg-config file for libid3tag.
2021-01-18 18:59:48 -05:00
eb9d366702
gnu: libmad: Add comment justifying the 'install-pkg-config phase.
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* gnu/packages/mp3.scm (libmad)[arguments]: Add a comment about Audacity
requiring a pkg-config file for libmad.
2021-01-18 18:59:48 -05:00
559feb6661
gnu: Add guile-libyaml.
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* gnu/packages/guile-xyz.scm (guile-libyaml): New variable.
2021-01-18 23:26:53 +01:00
c0afd8044f
gnu: Add r-snapatac.
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* gnu/packages/bioinformatics.scm (r-snapatac): New variable.
2021-01-18 23:26:53 +01:00
2d9c6542c8
gnu: mafft: Update to 7.475.
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* gnu/packages/bioinformatics.scm (mafft): Update to 7.475.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-01-18 11:57:28 +02:00
973a1e5272
gnu: musl: Update to 1.2.2.
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* gnu/packages/musl.scm (musl): Update to 1.2.2.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-01-18 11:54:37 +02:00
6cb86e23a9
gnu: ruby-bio-vcf: Rename to bio-vcf.
...
This package is widely known in select circles specifically as 'bio-vcf'.
* gnu/packages/bioinformatics.scm (ruby-bio-vcf): Rename to bio-vcf.
2021-01-18 11:19:37 +02:00
9b6cddd32d
gnu: Add ruby-bio-vcf.
...
* gnu/packages/bioinformatics.scm (ruby-bio-vcf): New variable.
2021-01-18 10:41:46 +02:00
c20eee77a1
gnu: linux-libre 4.4: Update to 4.4.252.
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* gnu/packages/linux.scm (linux-libre-4.4-version): Update to 4.4.252.
(linux-libre-4.4-pristine-source): Update hash.
2021-01-18 02:42:21 -05:00
2c0f457968
gnu: linux-libre 4.9: Update to 4.9.252.
...
* gnu/packages/linux.scm (linux-libre-4.9-version): Update to 4.9.252.
(linux-libre-4.9-pristine-source): Update hash.
2021-01-18 02:42:20 -05:00
83c99f3767
gnu: linux-libre 4.14: Update to 4.14.216.
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* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.216.
(linux-libre-4.14-pristine-source): Update hash.
2021-01-18 02:42:20 -05:00
7cd85dae00
gnu: linux-libre 4.19: Update to 4.19.168.
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* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.168.
(linux-libre-4.19-pristine-source): Update hash.
2021-01-18 02:42:20 -05:00
5a748524ee
gnu: linux-libre 5.4: Update to 5.4.90.
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* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.90.
(linux-libre-5.4-pristine-source): Update hash.
2021-01-18 02:42:20 -05:00
4b3f5bef4b
gnu: linux-libre: Update to 5.10.8.
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* gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.8.
(linux-libre-5.10-pristine-source): Update hash.
2021-01-18 02:42:20 -05:00
cbc2c28ad4
gnu: xapian, python-xapian-bindings: Update to 1.4.18.
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* gnu/packages/search.scm (xapian, python-xapian-bindings): Update to 1.4.18.
2021-01-18 01:34:53 +01:00
ca16ca5428
gnu: iptables: Update to 1.8.7.
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* gnu/packages/linux.scm (iptables): Update to 1.8.7.
2021-01-18 01:34:53 +01:00
c65e3c9d41
gnu: nftables: Update to 0.9.8.
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* gnu/packages/linux.scm (nftables): Update to 0.9.8.
2021-01-18 01:34:53 +01:00
e5a806a43a
gnu: libnftnl: Update to 1.1.9.
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* gnu/packages/linux.scm (libnftnl): Update to 1.1.9.
2021-01-18 01:34:52 +01:00
a1093d73c3
gnu: ktouch: Update to 20.12.1.
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* gnu/packages/education.scm (ktouch): Update to 20.12.1.
2021-01-18 01:34:52 +01:00
f5f642058a
gnu: wxmaxima: Update to 20.12.2.
...
* gnu/packages/maths.scm (wxmaxima): Update to 20.12.2.
[arguments]: Remove #:test-target and disable tests. Remove 'pre-check
phase.
[native-inputs]: Remove xorg-server-for-tests.
[inputs]: Add libomp.
2021-01-17 18:07:29 -05:00
9aa0a98ea0
gnu: gnuplot: Update to 5.4.1.
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* gnu/packages/maths.scm (gnuplot): Update to 5.4.1.
[arguments]: Set GNUTERM in #:make-flags.
2021-01-17 18:07:29 -05:00
1b2c32dc91
gnu: Add emacs-org-mime
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* gnu/packages/emacs-xyz.scm (emacs-org-mime): New variable.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2021-01-17 23:53:54 +01:00
1c33b1b8e8
gnu: nbd: Update to 3.21.
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* gnu/packages/networking.scm (nbd): Update to 3.21.
2021-01-17 23:48:12 +01:00
976d072aa2
gnu: mblaze: Update to 1.1.
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* gnu/packages/mail.scm (mblaze): Update to 1.1.
2021-01-17 23:48:12 +01:00
e48cdbb9f6
gnu: keepassxc: Update to 2.6.3.
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* gnu/packages/password-utils.scm (keepassxc): Update to 2.6.3.
2021-01-17 23:48:11 +01:00
a3e549b5a8
gnu: facter: Update to 4.0.49.
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* gnu/packages/admin.scm (facter): Update to 4.0.49.
2021-01-17 23:48:11 +01:00
ab9f194d7e
gnu: inxi-minimal: Update to 3.2.02-2.
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* gnu/packages/admin.scm (inxi-minimal): Update to 3.2.02-2.
2021-01-17 23:48:11 +01:00
f6b03a308d
gnu: oil: Update to 0.8.6.
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* gnu/packages/shells.scm (oil): Update to 0.8.6.
2021-01-17 23:19:33 +01:00
07928e11eb
gnu: pd: Update to 0.51-4.
...
* gnu/packages/music.scm (pd): Update to 0.51-4.
2021-01-17 23:19:33 +01:00
99d14e5951
gnu: libhandy: Update to 1.0.3.
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* gnu/packages/gnome.scm (libhandy): Update to 1.0.3.
2021-01-17 23:19:33 +01:00
e82a713c15
gnu: php-fpm: Ensure no duplicate group.
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* gnu/services/web.scm (php-fpm-accounts): Ensure `php-fpm` group is not
duplicated.
Signed-off-by: Leo Prikler <leo.prikler@student.tugraz.at>
2021-01-17 20:40:52 +01:00
476b333fbc
services: cups: reuse lp from %base-groups.
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* gnu/services/cups.scm (%cups-accounts): Try to reuse lp from %base-groups.
2021-01-17 20:16:05 +01:00
b57056a9fd
gnu: grub: Use installed unicode font.
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* gnu/bootloader/grub.scm (setup-gfxterm): Remove parameter font-file.
Refer to the installed font in /boot, not in the store.
(font-file): Delete obsolete function.
(install-grub): When populating a disk-image, install the unicode font, too.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2021-01-17 15:47:59 +01:00
06ab894867
gnu: sbcl-cffi: Update to 0.23.0.
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* gnu/packages/lisp-xyz.scm (sbcl-cffi): Update to 0.23.0.
Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
2021-01-17 15:27:16 +01:00
fc9fd5496f
gnu: freebayes: Update to 1.3.3.
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* gnu/packages/bioinformatics.scm (freebayes): Update to 1.3.3.
[source]: Add patch. Add snippet to remove vendored library.
[build-system]: Switch to meson-build-system.
[inputs]: Remove bamtools. Add fastahack, smithwaterman, tabixpp.
[native-inputs]: Remove procps, python-2, tabixpp source, smithwaterman
source, multichoose source, fsom source, filevercmp source, fastahack
source, bash-tap source. Add bash-tap, grep, pkg-config, simde, vcflib.
[arguments]: Drop make-flags. Don't delete 'configure phase. Delete
custom 'fix-tests, 'build-tabixpp-and-vcflib, 'fix-makefiles, 'install
phases. Adjust 'unpack-submodule-sources phase to changed native-inputs.
Add new 'patch-source phase.
2021-01-17 15:47:32 +02:00
3ddeefe854
gnu: multichoose: Install header files.
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* gnu/packages/bioinformatics.scm (multichoose)[arguments]: Adjust
'install phase to also install header files.
2021-01-17 15:47:32 +02:00
976603b909
gnu: filevercmp: Install header files.
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* gnu/packages/bioinformatics.scm (filevercmp)[arguments]: Adjust
'install phase to install header files.
2021-01-17 15:47:32 +02:00
JOULAUD François
Ludovic Courtès
Mathieu Othacehe
Efraim Flashner
Joshua C. Randall
Michael Rohleder
Kei Kebreau
Ricardo Wurmus
Mădălin Ionel Patrașcu
Vincent Legoll
Leo Famulari
Tobias Geerinckx-Rice
Ryan Desfosses
Julien Lepiller
Leo Prikler
Stefan
Aurora