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Author SHA1 Message Date
Andreas Enge
ff4e463ddc
gnu: graphviz: Remove version 2.38. 
This is a follow-up to commit 370cb92eaa .

* gnu/packages/graphviz.scm: Drop imported modules.
(graphviz-2.38): Remove package.
 2023-04-26 09:40:16 +02:00
Ludovic Courtès
8093c6ba21
gnu: lcov: Update to 1.16. 
* gnu/packages/code.scm (lcov): Update to 1.16.
 2023-04-25 23:43:05 +02:00
Ludovic Courtès
9fcd51280f
gnu: perl-io-compress: Update to 2.204. 
* gnu/packages/perl-compression.scm (perl-io-compress): Update to 2.204.
 2023-04-25 23:43:05 +02:00
Ludovic Courtès
70acf8b23a
gnu: perl-compress-raw-bzip2: Update to 2.204. 
* gnu/packages/perl-compression.scm (perl-compress-raw-bzip2): Update to
2.204.
 2023-04-25 23:43:05 +02:00
Ludovic Courtès
6ea4228442
gnu: perl-compress-raw-zlib: Update to 2.204. 
* gnu/packages/perl-compression.scm (perl-compress-raw-zlib): Update to
2.204.
[arguments]: Remove.
 2023-04-25 23:43:05 +02:00
Efraim Flashner
e287a0e402
gnu: gnutls: Don't embed a phase inside another phase. 
* gnu/packages/tls.scm (gnutls)[arguments]: Adjust powerpc-linux phase
'increase-test-timeout to not be embedded inside another phase.
 2023-04-25 23:32:17 +03:00
Efraim Flashner
ccf64b6a8b
gnu: mpdevil: Add missing input. 
* gnu/packages/mpd.scm (mpdevil)[native-inputs]: Add gettext-minimal.
 2023-04-25 23:08:45 +03:00
Efraim Flashner
aeda325cf1
gnu: presage: Build with c++-14. 
* gnu/packages/fcitx.scm (presage)[arguments]: Adjust configure-flags to
use c++-14 cor CFLAGS and CXXFLAGS.
 2023-04-25 23:01:56 +03:00
Efraim Flashner
97323e5262
gnu: libpst: Fix python detection. 
* gnu/packages/mail.scm (libpst)[arguments]: Add a phase to detect newer
versions of python3.
[native-inputs]: Add autoconf, automake, gettext-minimal, libool.
 2023-04-25 22:52:29 +03:00
Ricardo Wurmus
72b1c9713b
gnu: perl-data-dumper: Update to 2.183. 
* gnu/packages/perl.scm (perl-data-dumper): Update to 2.183.
 2023-04-25 21:18:36 +02:00
Ricardo Wurmus
4598928a90
gnu: cwltool: Use pyproject-build-system. 
"setup.py install is deprecated. Use build and pip and other standards-based
tools."  It then falls back to attempting to install packages via pip.

* gnu/packages/bioinformatics.scm (cwltool)[build-system]: Use
pyproject-build-system.
 2023-04-25 21:18:36 +02:00
Ricardo Wurmus
92a903499b
gnu: python-schema-salad: Use pyproject-build-system. 
The python-build-system fails with "setuptools.installer is
deprecated. Requirements should be satisfied by a PEP 517 installer."  This,
in turn, causes all Python packages to be ignored and "pip install" to be
invoked for them.

* gnu/packages/bioinformatics.scm (python-schema-salad)[build-system]: Use
pyproject-build-system.
 2023-04-25 21:18:35 +02:00
Liliana Marie Prikler
2ec69787aa
gnu: gfeeds: Add missing gettext-minimal. 
* gnu/packages/syndication.scm (gfeeds)[inputs]: Add gettext-minimal.
 2023-04-25 21:09:13 +02:00
Liliana Marie Prikler
30a252760f
gnu: syndication-domination: Update to 1.0-1-7592032. 
* gnu/packages/syndication.scm (syndication-domination): Update to
1.0-1-7592032.
 2023-04-25 21:09:13 +02:00
Liliana Marie Prikler
ff777165cb
gnu: evolution: Update to 3.46.4. 
* gnu/packages/gnome.scm (evolution): Update to 3.46.4.
 2023-04-25 21:09:13 +02:00
Liliana Marie Prikler
916df2b9eb
gnu: evolution-data-server: Update to 3.46.4. 
* gnu/packages/gnome.scm (evolution-data-server): Update to 3.46.4.
 2023-04-25 21:09:12 +02:00
Ricardo Wurmus
5a1b246736
gnu: adapterremoval: Update to 2.3.3. 
* gnu/packages/bioinformatics.scm (adapterremoval): Update to 2.3.3.
[arguments]: Simplify.
[inputs]: Reformat.
 2023-04-25 19:46:29 +02:00
Efraim Flashner
d67b8788b3
gnu: ocaml-lwt: Add ocaml4.07 variant. 
* gnu/packages/ocaml.scm (ocaml-lwt)[properties]: New field.
(ocaml4.07-lwt): New variable.
 2023-04-25 20:42:22 +03:00
Efraim Flashner
52f6ccef82
gnu: perl-crypt-openssl-rsa: Update to 0.33. 
* gnu/packages/tls.scm (perl-crypt-openssl-rsa): Update to 0.33.
 2023-04-25 20:42:22 +03:00
Ricardo Wurmus
fc80efe1a0
gnu: bedtools-2.18: Fix build. 
* gnu/packages/bioinformatics.scm (bedtools-2.18)[arguments]: Fix operators in
'compatibility phase.
 2023-04-25 19:41:05 +02:00
Ricardo Wurmus
f2e90d6f43
gnu: hisat: Build with GCC 10. 
* gnu/packages/bioinformatics.scm (hisat)[native-inputs]: Add gcc-10.
 2023-04-25 19:30:43 +02:00
Ricardo Wurmus
0a4fa99b39
gnu: kallisto: Update to 0.48.0. 
* gnu/packages/bioinformatics.scm (kallisto): Update to 0.48.0.
[arguments]: Remove trailing #T from build phase.
 2023-04-25 19:28:42 +02:00
Ricardo Wurmus
7ae5325bf1
gnu: bpp-core: Build with GCC 10. 
* gnu/packages/bioinformatics.scm (bpp-core)[native-inputs]: Add gcc-10.
 2023-04-25 19:12:57 +02:00
Ricardo Wurmus
2c09cc19e6
gnu: vcflib: Update to 1.0.9. 
* gnu/packages/bioinformatics.scm (vcflib): Update to 1.0.9.
[source]: Update snippet.
[inputs]: Add curl, pybind11, and wfa2-lib.
[arguments]: Adjust and reformat.
 2023-04-25 19:10:19 +02:00
Ricardo Wurmus
4ad51f5914
gnu: tabixpp: Update to 1.1.2. 
* gnu/packages/bioinformatics.scm (tabixpp): Update to 1.1.2.
[source]: Simplify snippet.
[inputs]: Add curl.
[arguments]: Simplify and reformat.
 2023-04-25 19:10:19 +02:00
Ricardo Wurmus
8664c6230e
gnu: Add wfa2-lib. 
* gnu/packages/bioinformatics.scm (wfa2-lib): New variable.
 2023-04-25 19:10:18 +02:00
Josselin Poiret
8c5ba69d6e
gnu: biber: Fix build with new Perl. 
* gnu/packages/patches/biber-adapt-perl-5.36.patch: Backport patch from
upstream's 760e6e4ec08a3097f7e6136331541a7b8c1c9df7.
* gnu/packages/tex.scm (biber): Use it.
* gnu/local.mk (dist_patch_DATA): Register it.

Signed-off-by: Andreas Enge <andreas@enge.fr>
 2023-04-25 18:42:22 +02:00
Vivien Kraus
74038cf66e
gnu: gcc: Do not build gcov on MinGW. 
* gnu/packages/gcc.scm (gcc-configure-flags-for-triplet): Disable gcov when
targetting mingw.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
 2023-04-25 17:20:19 +02:00
Nicolas Graves
7f0fbd0463
gnu: nerd-dictation: Add package variants. 
* gnu/packages/machine-learning.scm (nerd-dictation)[inputs]: Remove.
(nerd-dictation-gexp): New procedure.
(nerd-dictation/xdotool, nerd-dictation/sox-xdotool)
(nerd-dictation/sox-ydotool, nerd-dictation/sox-wtype): New variables

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-04-25 17:19:21 +02:00
Bruno Victal
9be1ee6a49
services: tor: Deprecate 'tor-hidden-service' procedure. 
Due to (now renamed) 'hidden-service' record type not being exported, the only
way Onion services (formely hidden services) could have worked is through the
now deprecated 'tor-hidden-service' procedure.

This commit updates the Tor service documentation, corrects some inconsistently
named accessors in <tor-configuration> record-type, renames and refactors
tor-hidden-service-configuration to tor-onion-service-configuration using
define-configuration and also exports it, allowing Onion services to be
configured directly within a <tor-configuration> record.
Lastly, it also deprecates the 'tor-hidden-service' procedure.

* doc/guix.texi (Networking Services): Substitute mentions of “Hidden services”
with “Onion Services”. Add a Tor Onion service configuration example.
Document <tor-onion-service-configuration>. Remove mention of
'tor-hidden-service' procedure.
* gnu/services/networking.scm: Export tor-configuration-tor,
tor-configuration-config-file, tor-configuration-hidden-services,
tor-configuration-socks-socket-type, tor-configuration-control-socket-path,
tor-onion-service-configuration, tor-onion-service-configuration?,
tor-onion-service-configuration-name, tor-onion-service-configuration-mapping.
(<tor-configuration>)[control-socket?]: Rename accessor.
(<hidden-service>): Replace with …
(<tor-onion-service-configuration>): … this.
(tor-configuration->torrc): Update record-type name.
(tor-activation): Ditto.
(tor-hidden-service-type): Remove variable.
(tor-hidden-service): Deprecate procedure.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-04-25 17:19:21 +02:00
Lars-Dominik Braun
c354a345b9
gnu: ghc-8.10: Avoid testsuite timeouts on i686. 
* gnu/packages/haskell.scm (ghc-8.10)[arguments]: Add new phase
'skip-failing-tests-i686-cuirass.
 2023-04-25 16:54:57 +02:00
Ricardo Wurmus
3a37e3ecd8
gnu: lofreq: Set file timestamps to 1980s. 
This keeps Python from complaining: "ZIP does not support timestamps before
1980".

* gnu/packages/bioinformatics.scm (lofreq)[arguments]: Add build phase
'set-source-file-times-to-1980.
 2023-04-25 16:17:49 +02:00
Ricardo Wurmus
0ad4a4d155
gnu: lofreq: Drop input labels. 
* gnu/packages/bioinformatics.scm (lofreq)[inputs]: Drop package labels.
 2023-04-25 16:17:49 +02:00
Ricardo Wurmus
1fca85cd88
gnu: ivar: Update to 1.4.2. 
* gnu/packages/bioinformatics.scm (ivar): Update to 1.4.2.
[arguments]: Remove -Werror flag.
 2023-04-25 16:17:49 +02:00
Ricardo Wurmus
f69f346289
gnu: propeller-gcc-4: Use MODIFY-INPUTS. 
* gnu/packages/embedded.scm (propeller-gcc-4)[native-inputs]: Use
MODIFY-INPUTS and drop package label.
 2023-04-25 16:17:49 +02:00
Ricardo Wurmus
b9162199b3
gnu: propeller-gcc-4: Use G-expression. 
* gnu/packages/embedded.scm (propeller-gcc-4)[arguments]: Use G-expression
because the parent GCC package uses them too.
 2023-04-25 16:17:49 +02:00
Andreas Enge
b380fbca88
gnu: trurl: Correct inputs. 
* gnu/packages/curl.scm (trurl): Replace non-existant input curl-7.84.0 by
curl, which is version 7.85.0.
 2023-04-25 15:21:05 +02:00
Andreas Enge
c919bfefd9
Merge remote-tracking branch 'origin/master' into core-updates 2023-04-25 15:19:29 +02:00
Lars-Dominik Braun
472706ae2f
gnu: python-asyncssh: Update to 2.13.1. 
Includes fix for python-cryptography>=39 disallowing SHA-1 signatures,
which caused the testsuite to fail.

* gnu/packages/ssh.scm (python-asyncssh): Update to 2.13.1.
 2023-04-25 14:27:14 +02:00
Efraim Flashner
0daa747de2
gnu: alacritty: Patch reference to xdg-open. 
* gnu/packages/terminals.scm (alacritty)[arguments]: Add a phase to add
an absolute reference to xdg-open.
[inputs]: Add xdg-utils.
 2023-04-25 14:06:14 +03:00
Nicolas Goaziou
95787ffaa2
gnu: emacs-eshell-syntax-highlighting: Update to 0.5. 
* gnu/packages/emacs-xyz.scm (emacs-eshell-syntax-highlighting): Update to 0.5.
 2023-04-25 11:47:52 +02:00
Nicolas Goaziou
c9c4fea7c5
gnu: nethack: Update to 3.6.7. 
* gnu/packages/games.scm (nethack): Update to 3.6.7.
 2023-04-25 11:47:51 +02:00
Sharlatan Hellseher
11f078a1fb
gnu: Add trurl. 
* gnu/packages/curl.scm (trurl): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-04-25 11:47:51 +02:00
Nicolas Goaziou
26cdc7be84
gnu: emacs-auctex: Update to 13.2.0. 
* gnu/packages/emacs-xyz.scm (emacs-auctex): Update to 13.2.0.
 2023-04-25 11:47:51 +02:00
Joseph LaFreniere
af3daff5ea
gnu: Add emacs-xonsh-mode. 
* gnu/packages/emacs-xyz.scm (emacs-xonsh-mode): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-04-25 11:47:51 +02:00
Ricardo Wurmus
ce0bdceb49
gnu: python-importlib-resources: Update to 5.12.0. 
* gnu/packages/python-xyz.scm (python-importlib-resources): Update to 5.12.0.
[build-system]: Use pyproject-build-system.
[arguments]: Add phase to avoid "pip install".
[native-inputs]: Remove python-toml; add python-flake8, python-pytest,
python-pytest-black, python-pytest-checkdocs, python-pytest-cov,
python-pytest-enabler, python-pytest-flake8, python-pytest-mypy, and
python-setuptools-57.
[propagated-inputs]: Add python-zipp.
 2023-04-25 11:32:10 +02:00
Christopher Baines
8a5b6d5382
gnu: guix-build-coordinator: Update to 0-79.6a4e827. 
* gnu/packages/package-management.scm (guix-build-coordinator): Update to
0-79.6a4e827.
 2023-04-25 10:25:55 +01:00
Antero Mejr
a50f0dc5ca
gnu: schismtracker: Update to 20221201. 
* gnu/packages/music.scm (schismtracker): Update to 20221201.
[source]: Convert snippet to gexp.
[arguments]: Convert to gexp, add configure flags for FLAC and Wayland
support.
[inputs]: Remove libx11, libxext, and sdl; add flac and sdl2.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2023-04-25 10:25:55 +01:00
Lars-Dominik Braun
54771a5b6a
gnu: python-anyio: Upgrade to 3.6.2. 
* gnu/packages/python-xyz.scm (python-anyio): Upgrade to 3.6.2.
 2023-04-25 11:08:32 +02:00
Lars-Dominik Braun
e619750d00
Revert "gnu: python-pytest-trio: Update to 0.8.0." 
Not compatible with python-trio 0.8.

This reverts commit 27a4bfbd07.
 2023-04-25 11:08:30 +02:00