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Author SHA1 Message Date
Efraim Flashner 784b4c30dd
gnu: Remove rust-glib-0.8. 
* gnu/packages/crates-gtk.scm (rust-glib-0.8): Delete variable.
 2022-12-04 21:33:28 +02:00
Efraim Flashner bf09d12bb9
gnu: Remove rust-block-buffer-0.2. 
* gnu/packages/crates-io.scm (rust-block-buffer-0.2): Delete variable.
 2022-12-04 21:33:27 +02:00
Efraim Flashner c6c78cb6c2
gnu: Remove rust-chalk-derive-0.68. 
* gnu/packages/crates-io.scm (rust-chalk-derive-0.68): Delete variable.
 2022-12-04 21:33:27 +02:00
Efraim Flashner a26701cb90
gnu: Remove rust-chalk-ir-0.68. 
* gnu/packages/crates-io.scm (rust-chalk-ir-0.68): Delete variable.
 2022-12-04 21:33:23 +02:00
Maxim Cournoyer a4d52f07d7
gnu: jami: Apply a patch to fix a crash when using SIP. 
* gnu/packages/patches/jami-sipaccount-segfault.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/jami.scm (%jami-sources): Apply it.
 2022-12-04 00:57:32 -05:00
Maxim Cournoyer 93309efdce
tests: Fix guix-system.sh test. 
The regression was introduce with commit
c7793b82ef ("gnu: raspberry-pi: Add a
bootloader-chain for the Raspberry Pi and os examples.") due to the examples
needing to be built for the aarch64-linux system.

* tests/guix-system.sh: Invoke guix system build with '--system=aarch64-linux'
to build the Raspberry Pi systems.
 2022-12-04 00:50:28 -05:00
Maxim Cournoyer 08dc9f2ca2
gnu: Do not use 'local-file' in Raspberry Pi OS examples. 
As this breaks the 'tests/guix-system.sh' test.

* gnu/system/examples/raspberry-pi-64-nfs-root.tmpl (%my-public-key): Delete
variable.
(raspberry-pi-64-nfs-root) [services]: Remove key from openssh-configuration.
* gnu/system/examples/raspberry-pi-64.tmpl: Likewise.

Reported-by: Vagrant Cascadian <vagrant@debian.org>
 2022-12-04 00:37:11 -05:00
Ludovic Courtès bf46192d4c
gnu: python-protobuf@3.6: Fix inputs and arguments. 
Fixes a regression introduced in
9b016e2991, whereby the 'inputs' field
would be invalid, plus "--cpp_implementation" wouldn't work.

* gnu/packages/protobuf.scm (python-protobuf-3.6)[arguments]: New
field.
[inputs]: No longer refer to the inputs of PYTHON-PROTOBUF.
 2022-12-04 00:36:22 +01:00
Marius Bakke c3713d53e0
gnu: ungoogled-chromium: Update to 108.0.5359.94-1. 
* gnu/packages/chromium.scm (%chromium-version): Set to 108.0.5359.94.
(%ungoogled-origin, ungoogled-chromium): Update hashes.
 2022-12-03 14:30:59 +01:00
Maxim Cournoyer 9e9204958d
gnu: Add ts4900-utils. 
* gnu/packages/embedded.scm (ts4900-utils): New variable.
 2022-12-03 00:06:13 -05:00
Maxim Cournoyer b75559179e
services: configuration: Rename location accessor to "source-location". 
Fixes <https://issues.guix.gnu.org/59423>.

* gnu/services/configuration.scm (define-configuration-helper): Rename the
accessor of the %location field from "NAME-location" to
"NAME-source-location".

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
Reported-by: Pierre Langlois <pierre.langlois@gmx.com>
 2022-12-02 22:02:48 -05:00
Zhu Zihao 79a3cd34c0
gnu: loko-scheme: Update to 0.12.0. 
* gnu/packages/loko.scm (loko-scheme): Update to 0.12.0.
[arguments]<#:make-flags>: No need to specify GDB scripts directory.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-12-02 23:11:10 +01:00
Zhu Zihao 1f5241d8d5
gnu: loko-scheme: Use G-expressions. 
* gnu/packages/loko.scm (loko-scheme)[arguments]: Use G-expressions.
<#:phases>: In 'akku-fixes', replace "(assoc-ref inputs name)" with
"this-package-native-input".
[native-inputs]: Use label-less style.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-12-02 23:11:10 +01:00
Ludovic Courtès 9672db290a
modules: Recognize #:declarative?. 
This addition has become necessary since commit
54003af85c, which makes use
of #:declarative? in modules produced by 'make-config.scm'.

Reported by zimoun <zimon.toutoune@gmail.com>.

* guix/modules.scm (extract-dependencies): Recognize #:declarative?,
which was introduced in Guile 3.0.8.
 2022-12-02 23:11:09 +01:00
Ontje Lünsdorf 9b016e2991
gnu: python-protobuf: Use C++ implementation. 
* gnu/packages/protobuf.scm (python-protobuf): Use C++ implementation.
  [inputs]: Add protobuf.
  [arguments]: Add --cpp_implementation configure flags.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-12-02 23:11:09 +01:00
Marius Bakke 51d6bd3507
gnu: Add rust-k9. 
* gnu/packages/crates-io.scm (rust-k9-0.11): New variable.
 2022-12-02 22:21:42 +01:00
Marius Bakke 3c5cbd3c9d
gnu: rust-digest: Update to 0.10.6. 
* gnu/packages/crates-io.scm (rust-digest-0.10): Update to 0.10.6.
 2022-12-02 22:21:42 +01:00
Marius Bakke 2066ae53f1
gnu: QtWebEngine: Use more system libraries. 
* gnu/packages/qt.scm (qtwebengine)[source](snippet): Remove more files.
[arguments]: Pass QT_FEATURES_system_foo for all supported libraries.
[inputs]: Replace "harfbuzz" with HARFBUZZ-5.
 2022-12-02 22:21:42 +01:00
Ricardo Wurmus fd44d489b5
gnu: python-biom-format: Update to 2.1.12. 
* gnu/packages/bioinformatics.scm (python-biom-format): Update to 2.1.12.
[arguments]: Remove "relax" phase; update "disable-broken-tests" phase.
[propagated-inputs]: Add python-scikit-bio.
 2022-12-02 21:46:36 +01:00
Ricardo Wurmus b93e21a213
gnu: Add python-scikit-bio. 
* gnu/packages/bioinformatics.scm (python-scikit-bio): New variable.
 2022-12-02 21:46:36 +01:00
Ricardo Wurmus b2a9feab92
gnu: Add python-hdmedians. 
* gnu/packages/statistics.scm (python-hdmedians): New variable.
 2022-12-02 21:46:36 +01:00
Ricardo Wurmus 62da3f9837
gnu: python-pairtools: Update to 1.0.2. 
* gnu/packages/bioinformatics.scm (python-pairtools): Update to 1.0.2.
[source]: Update Github URL.
[arguments]: Update patch in "fix-references" phase.
[native-inputs]: Remove python-nose.
[inputs]: Remove.
[propagated-inputs]: Add python-bioframe, python-pandas, python-pysam,
python-pyyaml, and python-scipy.
[home-page]: Update.
 2022-12-02 21:46:36 +01:00
Ricardo Wurmus 089b2e4f65
gnu: python-pairtools: Run tests conditionally. 
* gnu/packages/bioinformatics.scm (python-pairtools)[arguments]: Run tests
conditionally.
 2022-12-02 21:46:36 +01:00
Ricardo Wurmus 631ea9a411
gnu: python-pybedtools: Use pyproject-build-system. 
* gnu/packages/bioinformatics.scm (python-pybedtools)[build-system]: Use
pyproject-build-system.
[arguments]: Import (guix build pyproject-build-system).
 2022-12-02 21:46:36 +01:00
Ricardo Wurmus a268b1ba91
gnu: python-htsget: Update to 0.2.6. 
* gnu/packages/bioinformatics.scm (python-htsget): Update to 0.2.6.
[build-system]: Use pyproject-build-system.
 2022-12-02 21:46:35 +01:00
Ricardo Wurmus 16ecce39d2
gnu: python-cellbender: Update to 0.2.2. 
* gnu/packages/bioinformatics.scm (python-cellbender): Update to 0.2.2.
[build-system]: Use pyproject-build-system.
 2022-12-02 21:46:35 +01:00
Felix Lechner 9ef6286bc3
gnu: Add bgpq3. 
* gnu/packages/networking.scm (bgpq3): New variable.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
 2022-11-27 01:00:00 +01:00
Marius Bakke 83350bf56b
gnu: rust-zerocopy: Add 0.6.1. 
* gnu/packages/crates-io.scm (rust-zerocopy-0.6): New variable.
(rust-zerocopy-0.3): Inherit from it.
 2022-12-02 19:35:46 +01:00
Marius Bakke d65afc9f5a
gnu: rust-zerocopy-derive: Add 0.3.2. 
* gnu/packages/crates-io.scm (rust-zerocopy-derive-0.3): New variable.
(rust-zerocopy-derive-0.2): Inherit from it.
 2022-12-02 19:35:46 +01:00
Marius Bakke 3c8bd23d0a
gnu: Add rust-sha1-smol. 
* gnu/packages/crates-io.scm (rust-sha1-smol-1): New variable.
 2022-12-02 19:35:46 +01:00
Marius Bakke ddb87e8acc
gnu: rust-md-5: Add 0.10.5. 
* gnu/packages/crates-io.scm (rust-md-5-0.10): New variable.
(rust-md-5-0.9): Inherit from it.
 2022-12-02 19:35:45 +01:00
Marius Bakke 3492a01928
gnu: rust-md5-asm: Update to 0.5.0. 
* gnu/packages/crates-io.scm (rust-md5-asm-0.5): New variable.
(rust-md5-asm-0.4): Inherit from it.
 2022-12-02 19:35:45 +01:00
Marius Bakke 3d90b39d9e
gnu: Add rust-atomic. 
* gnu/packages/crates-io.scm (rust-atomic-0.5): New variable.
 2022-12-02 19:35:45 +01:00
Marius Bakke 26582405c3
gnu: rust-memoffset: Add 0.7.1. 
* gnu/packages/crates-io.scm (rust-memoffset-0.7): New variable.
(rust-memoffset-0.6): Inherit from it.
 2022-12-02 19:35:45 +01:00
Marius Bakke 5e8f23a7fd
gnu: rust-gl: Add 0.14. 
* gnu/packages/crates-graphics.scm (rust-gl-0.14): New variable.
(rust-gl-0.11): Inherit.
 2022-12-02 19:35:45 +01:00
Marius Bakke 365b0b5533
gnu: ungoogled-chromium: Use git tag in ungoogled origin. 
* gnu/packages/chromium.scm (%ungoogled-origin)[uri]: Use %UNGOOGLED-REVISION
instead of commit identifier.
 2022-12-02 19:10:51 +01:00
Marius Bakke 11b0670a9d
gnu: kicad: Remove obsolete phases. 
* gnu/packages/engineering.scm (kicad)[arguments]: Remove two phases.
 2022-12-02 19:08:27 +01:00
Marius Bakke ea0e6e5d65
gnu: golly: Update to 4.2. 
* gnu/packages/games.scm (golly): Update to 4.2.
[arguments]: Remove configure phase.
[inputs]: Remove PYTHON-2 and WXWIDGETS-GTK2.  Add PYTHON, SDL2, and
WXWIDGETS.  Remove labels while at it.
 2022-12-02 19:08:27 +01:00
Marius Bakke 6aac95ae2b
gnu: python-wxpython: Update to 4.2.0. 
* gnu/packages/wxwidgets.scm (python-wxpython): Update to 4.2.0.
[propagated-inputs]: Add PYTHON-ATTRDICT.
 2022-12-02 19:08:27 +01:00
Marius Bakke f16358144f
gnu: wxWidgets: Update to 3.2.1. 
* gnu/packages/wxwidgets.scm (wxwidgets): Update to 3.2.1.
[source](modules, snippet): New fields.
[inputs]: Remove SDL.  Add CATCH-FRAMEWORK, EXPAT, GSTREAMER,
GST-PLUGINS-BASE, LIBNOTIFY, LIBPNG, LIBSECRET, PCRE, SDL2,
WEBKITGTK-WITH-LIBSOUP2, and ZLIB
[arguments]: Add "--enable-mediactrl" and "--enable-gui" to #:configure-flags.
Remove aarch64 workaround.  Install catch header in refer-to-inputs phase.
Add phase to adjust WebKitGTK version.
(wxwidgets-3.1, wxwidgets-gtk2-3.1): Remove variables.
(wxwidgets-3.0, (wxwidgets-gtk2-3.0): New variables.
(wxsvg)[inputs]: Change from WXWIDGETS-3.1 to WXWIDGETS.
* gnu/packages/audio.scm (audacity)[inputs]: Likewise.
* gnu/packages/cdrom.scm (dvdstyler)[inputs]: Likewise.
* gnu/packages/astronomy.scm (imppg)[inputs]: Change from WXWIDGETS to
WXWIDGETS-3.0.
* gnu/packages/ftp.scm (filezilla)[inputs]: Likewise.
* gnu/packages/games.scm (megaglest)[inputs]: Likewise.
* gnu/packages/geo.scm (opencpn)[inputs]: Likewise.
* gnu/packages/music.scm (sooperlooper)[inputs]: Likewise.
* gnu/packages/engineering.scm (kicad)[arguments]: Enable EGL support.
 2022-12-02 19:08:27 +01:00
Marius Bakke 8737ee0479
gnu: wxWidgets: Remove input labels. 
* gnu/packages/wxwidgets.scm (wxwidgets)[inputs]: Remove labels.
[arguments]: Use SEARCH-INPUT-FILE.
(wxwidgets-gtk2)[inputs]: Use MODIFY-INPUTS.
 2022-12-02 19:08:27 +01:00
Marius Bakke 2cf835ae28
gnu: jucipp: Update to 1.7.2. 
* gnu/packages/text-editors.scm (jucipp): Update to 1.7.2.
[arguments]: Skip one more test.
 2022-12-02 19:08:26 +01:00
Marius Bakke fa3dac025a
gnu: universal-ctags: Update to 5.9.20221127.0. 
* gnu/packages/code.scm (universal-ctags): Update to 5.9.20221127.0.
 2022-12-02 19:08:26 +01:00
Ricardo Wurmus 62ddd3bc80
gnu: Add python-fanc. 
* gnu/packages/bioinformatics.scm (python-fanc): New variable.

Co-authored-by: Navid Afkhami <navid.afkhami@mdc-berlin.de>
 2022-12-02 17:43:20 +01:00
Ricardo Wurmus ee069ec651
gnu: Add python-genomic-regions. 
* gnu/packages/bioinformatics.scm (python-genomic-regions): New variable.

Co-authored-by: Navid Afkhami <navid.afkhami@mdc-berlin.de>
 2022-12-02 17:20:54 +01:00
Navid Afkhami 9ddc4e5b03
gnu: python-msgpack-numpy: Update to 0.4.8. 
* gnu/packages/python-science.scm (python-msgpack-numpy): Update to 0.4.8.
 2022-12-02 15:04:15 +01:00
Ricardo Wurmus 0c2dad9951
gnu: Add python-pybloom-live. 
* gnu/packages/python-xyz.scm (python-pybloom-live): New variable.
 2022-12-02 15:03:00 +01:00
Ricardo Wurmus 840d543939
gnu: python-xxhash: Update to 3.1.0. 
* gnu/packages/digest.scm (python-xxhash): Update to 3.1.0.
[build-system]: Use pyproject-build-system.
[native-inputs]: Add python-setuptools-scm.
 2022-12-02 15:03:00 +01:00
Maxim Cournoyer 4781f0458d
Revert "gnu: linux-libre: Move info manual to doc output." 
This reverts commit 748ec62882.  It broke the
linux-libre-module-builder like so:

   builder for
   `/gnu/store/293jxydym9z7ck7afmrjqhiw3xpfs4i1-linux-libre-module-builder-6.0.10.drv'
   failed to produce output path
   `/gnu/store/ghmp1q5w6r1s9364rz53jd42152wgz2v-linux-libre-module-builder-6.0.10-doc'

for reasons difficult to understand.
 2022-12-01 21:37:12 -05:00
Marius Bakke 2775bb95c7
gnu: ungoogled-chromium: Update to 108.0.5359.71-1. 
* gnu/packages/chromium.scm (%preserved-third-party-files): Adjust for M108.
(%chromium-version): Set to 108.0.5359.71-1.
(%arch-revision): Bump to newer commit.
(%ungoogled-origin): Update hash.
(%gcc-patches): Remove.
(%reverse-patches): Remove one patch.
(%arch-patches): New variable.
(%patches): New variable.
(ungoogled-chromium-snippet): Apply %PATCHES instead of individual variables.
(ungoogled-chromium)[source]: Update hash.
[arguments]: Adjust configure flag.
[inputs]: Change from HARFBUZZ-3 to HARFBUZZ-5.
 2022-12-02 00:21:25 +01:00