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104865 Commits (2344ccee2f28f790fa0b69ecb1916c162c1f8c50)

Author SHA1 Message Date
Ricardo Wurmus 0616939641
gnu: Add python-docrep.
* gnu/packages/python-xyz.scm (python-docrep): New variable.
2023-05-11 17:12:54 +02:00
Ricardo Wurmus 0a8c46e89f
gnu: Add python-pytest-enabler.
* gnu/packages/python-check.scm (python-pytest-enabler): New variable.
2023-05-11 17:12:54 +02:00
Ricardo Wurmus 5e07608a30
gnu: Add python-adjusttext.
* gnu/packages/python-xyz.scm (python-adjusttext): New variable.
2023-05-11 17:12:54 +02:00
Bruno Victal 1e4c45b0dc
tests: Add vnstat tests.
* gnu/tests/vnstat.scm: New file.
* gnu/local.mk: Register it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 16:38:29 +02:00
Bruno Victal ca52cdd647
services: inetd: Export accessors.
* gnu/services/networking.scm: Export inetd-configuration?,
inetd-configuration-program, inetd-configuration-entries, inetd-entry?,
inetd-entry-node, inetd-entry-name, inetd-entry-socket-type,
inetd-entry-protocol, inetd-entry-wait?, inetd-entry-user, inetd-entry-program
and inetd-entry-arguments.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 16:38:29 +02:00
Bruno Victal 0e3bb48d36
services: Add vnstat-service-type.
* gnu/services/monitoring.scm (vnstat-service-type): New variable.
* doc/guix.texi (Monitoring Services): Document it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 16:38:29 +02:00
Simon Tournier b8e912c35f
gnu: barrier: Include NULL compatibility.
Fixes <https://bugs.gnu.org/63244>.
Reported by <john@fremlin.org>

* gnu/packages/barrier.scm (barrier)[arguments]: Use G-exp, add phases
including NULL macro.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 16:38:28 +02:00
Greg Hogan 92a7817fcb
gnu: git: Update to 2.40.1 [security fixes].
Fixes CVE-2023-25652 and CVE-2023-29007.

* gnu/packages/version-control.scm (git): Update to 2.40.1.
(git-minimal)[arguments]: Rewrite to use gexps.  In
'remove-unusable-perl-commands' phase, make "git-add--interactive"
removal conditional.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 16:38:28 +02:00
Ivana Drazovic b984ac16dc
gnu: laby: Add patch for being able to execute game code.
Reported upstream at https://github.com/sgimenez/laby/pull/68

* gnu/packages/patches/laby-use-tmpdir-from-runtime.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/games.scm (laby)[source]: Use it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 16:38:28 +02:00
Ivana Drazovic 8cb6fc32a6
gnu: laby: Make laby function in pure environments.
* gnu/packages/games.scm (laby)
[build-system]: Switch to 'glib-or-gtk-build-system'.
[inputs]: Add 'gdk-pixbuf' and 'librsvg-for-system'.
[arguments]: Wrap to use SVG-enabled pixbuf loaders.cache.

Co-authored-by: Florian Pelz <pelzflorian@pelzflorian.de>
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 16:38:28 +02:00
Ivana Drazovic 420b6a8555
gnu: laby: Use new package style.
* gnu/packages/games.scm (laby)[arguments]: Use gexps.
Use "this-package-input" to locate package input.

Co-authored-by: Florian Pelz <pelzflorian@pelzflorian.de>
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 16:38:28 +02:00
Sergey Trofimov 61031dd32f
services: dhcp-client-configuration: Add 'shepherd-requirement' field.
* gnu/services/networking.scm (<dhcp-client-configuration>)
[shepherd-requirement]: New field.
(dhcp-client-shepherd-service): Honor it.
(dhcp-client-configuration-shepherd-requirement): Export accessor.
* doc/guix.texi (Networking Setup): Document it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 16:38:28 +02:00
Andrew Patterson 8d442e8a53
gnu: home: services: fontutils: Add support for SXML fragments.
* gnu/home/services/fontutils.scm (add-fontconfig-config-file): Add
support for adding arbitrary SXML configuration into fonts.conf;
* doc/guix.texi (Fonts Services): Update the documentation.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 16:38:27 +02:00
zamfofex b718e42c96
gnu: Add oneDNN.
* gnu/packages/machine-learning.scm (oneapi-dnnl): New variable.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2023-05-11 22:19:08 +08:00
zamfofex af6ed2fc14
gnu: Add ISPC.
* gnu/packages/c.scm (ispc): New variable.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2023-05-11 22:19:08 +08:00
Ricardo Wurmus 4557c83a7d
gnu: python-distributed: Update to 2023.4.1.
* gnu/packages/python-science.scm (python-distributed): Update to 2023.4.1.
[source]: Remove snippet.
[arguments]: Update build phase 'versioneer; restore 'sanity-check phase;
simplify custom 'check phase; add 'fix-pytest-config phase; use #:test-flags.
[build-system]: Use pyproject-build-system.
[native-inputs]: Add python-importlib-metadata.
2023-05-11 15:59:22 +02:00
Ricardo Wurmus aa17958ca9
gnu: python-zict: Update to 3.0.0.
* gnu/packages/python-xyz.scm (python-zict): Update to 3.0.0.
[build-system]: Use pyproject-build-system.
[arguments]: Ignore optional lmdb test.
[native-inputs]: Add python-pytest-asyncio, python-pytest-repeat, and
python-pytest-timeout.
2023-05-11 15:59:22 +02:00
Ricardo Wurmus ab91da5004
gnu: python-dask: Update to 2023.4.1.
* gnu/packages/python-xyz.scm (python-dask): Update to 2023.4.1.
[source]: Remove snippet.
[build-system]: Use pyproject-build-system.
[arguments]: Remove custom 'check phase; update 'versioneer phase; add
'fix-pytest-config and 'pre-check phases; set #:test-flags.
[native-inputs]: Add python-click and python-importlib-metadata.
2023-05-11 15:59:22 +02:00
Ricardo Wurmus e1c3adb27d
gnu: python-fsspec: Update to 2023.5.0.
* gnu/packages/python-xyz.scm (python-fsspec): Update to 2023.5.0.
[native-inputs]: Add python-pytest, python-pytest-mock, and python-numpy.
[propagated-inputs]: Add python-aiohttp, python-libarchive-c, python-requests,
and python-tqdm.
[arguments]: Add phase to embed the correct version string; disable tests that
need internet access.
[build-system]: Use pyproject-build-system.
[source]: Ftech sources with git to include tests.
2023-05-11 15:59:22 +02:00
Ludovic Courtès 468b5d9548
gnu: guile-gnutls: Fix cross-compilation.
The patch was inadvertently removed in
5e1e674421.

* gnu/packages/tls.scm (guile-gnutls)[source]: Re-add 'gnutls-cross.patch'.
2023-05-11 13:21:45 +02:00
Josselin Poiret c970edad23
services: elogind: Add elogind as a shepherd PAM requirement.
* gnu/services/desktop.scm (pam-extension-procedure): Add the elogind shepherd
requirement to the PAM extension.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 13:21:45 +02:00
Josselin Poiret 2df5d4fd18
system: pam: Let PAM extensions add shepherd requirements.
* gnu/system/pam.scm (<pam-extension>): New record type.
(pam-shepherd-service): Add Shepherd synchronization point.

* gnu/services/mail.scm (dovecot-shepherd-service)
* gnu/services/lightdm.scm (lightdm-shepherd-service)
* gnu/services/mail.scm (opensmtpd-shepherd-service)
* gnu/services/sddm.scm (sddm-shepherd-service)
* gnu/services/ssh.scm (lsh-shepherd-service, openssh-shepherd-service)
* gnu/services/xorg.scm (slim-shepherd-service, gdm-shepherd-service)
* gnu/services/base.scm (greetd-shepherd-services): Add PAM requirement.

* gnu/system/pam.scm (/etc-entry, extend-configuration,
pam-root-service-type, pam-root-service)
* gnu/services/authentication.scm (pam-ldap-pam-service)
* gnu/services/base.scm (pam-limits-service-type)
(greetd-pam-service)
* gnu/services/desktop.scm (pam-gnome-keyring)
* gnu/services/kerberos.scm (pam-krb5-pam-service)
* gnu/services/pam-mount.scm (pam-mount-pam-service): Adapt to use
pam-extension.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-05-11 13:21:45 +02:00
Ludovic Courtès b2a65b4c8c
tests: openvswitch: Wait for 'openvswitch-configuration' to be up.
Checking for "br0" should only be done once the
'openvswitch-configuration' service is up because it's the one that sets
it up.

* gnu/tests/networking.scm (run-openvswitch-test)["openvswitch-configuration
is running"]: New test.
2023-05-11 13:21:45 +02:00
Ludovic Courtès 695042ff10
services: syslog: Do not call 'umask' in PID 1.
Fixes a race condition when starting services in parallel with shepherd
0.10.x whereby a service might create files and directories with umask #o137.

An example is the bitlbee service with its least-authority wrapper: the
wrapper would create a tree with directories set to #o640, thereby
making the whole directory tree inaccessible.

* gnu/services/base.scm (syslog-shepherd-service): Pass #:file-creation-mask
to 'make-forkexec-constructor' instead of calling 'umask' in PID 1.
2023-05-11 13:21:45 +02:00
Ludovic Courtès 3a00aba9e9
services: dicod, bitlbee: Pass 'make-inetd-constructor' a list of endpoints.
'make-inetd-constructor' accepts a list of endpoints since version 0.9.1
of the Shepherd (released in May 2022).

* gnu/services/dict.scm (dicod-shepherd-service): Pass
'make-inetd-constructor' a list of endpoints.
* gnu/services/messaging.scm (bitlbee-shepherd-service): Likewise.
2023-05-11 13:21:45 +02:00
Zhu Zihao 4c7b5207cb
gnu: supercollider: Update to 3.13.0.
* gnu/packages/audio.scm (supercollider): Update to 3.13.0.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2023-05-11 18:46:04 +08:00
Zhu Zihao 3972d5f03c
gnu: supercollider: Use G-expressions.
* gnu/packages/audio.scm (supercollider)[source]: Use G-expression in snippet.
[arguments]: Use G-expressions.
<#:phases>: Replace `(assoc-ref outputs ...)` with `#$output`.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2023-05-11 18:29:57 +08:00
Lu Hui c2cac2e985
gnu: ftxui: Update to 4.0.0.
* gnu/packages/cpp.scm (ftxui): Update to 4.0.0.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2023-05-11 18:15:25 +08:00
kiasoc5 f2a5a32618
gnu: mpv-mpris: Update to 1.0.
* gnu/packages/video.scm (mpv-mpris): Update to 1.0.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-11 12:27:03 +03:00
Lars-Dominik Braun 3d05d54918
gnu: python-pyopengl-accelerate: Update to 3.1.6.
Restores compatibility with Python 3.10.

* gnu/packages/python-xyz.scm (python-pyopengl-accelerate): Update
to 3.1.6.
2023-05-11 09:43:41 +02:00
Lars-Dominik Braun a13b742fa7
gnu: python-pyopengl: Update to 3.1.6.
* gnu/packages/python-xyz.scm (python-pyopengl): Update to 3.1.6.
2023-05-11 09:43:39 +02:00
Janneke Nieuwenhuizen 705ddc6a4f
gnu: automake: Fix cross-build.
This is a follow-up to commit
    ea908c1c04
    gnu: automake: Remove input labels.

* gnu/packages/autotools.scm (automake)[arguments]: Use "#~" instead of "'".
2023-05-11 09:03:44 +02:00
Janneke Nieuwenhuizen 741a587958
gnu: autoconf: Fix cross-build.
This is a follow-up to commit
    8fa17cb6d5
    gnu: autoconf: Remove input labels.

* gnu/packages/autotools.scm (autoconf-2.69)[arguments]: Use "#~" instead of
"'".
2023-05-11 09:03:15 +02:00
Eric Bavier b4e5844700
gnu: kodi: Fix build against latest mesa.
* gnu/packages/patches/kodi-mesa-eglchromium.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/kodi.scm (kodi)[source]: Use it.
2023-05-10 13:56:10 -05:00
Eric Bavier 7e15287055
gnu: kodi: Fix build with latest glibc.
* gnu/packages/kodi.scm (kodi)[inputs]: Use most recent 'fmt' and 'spdlog'
packages.
* gnu/packages/logging.scm (spdlog-for-kodi): Delete.
2023-05-10 13:56:04 -05:00
Ricardo Wurmus b7534e4b5d
gnu: Add python-pytorch-lightning.
* gnu/packages/machine-learning.scm (python-pytorch-lightning): New variable.
2023-05-10 19:27:08 +02:00
Ricardo Wurmus ff59c49c44
gnu: Add python-jsonargparse.
* gnu/packages/python-xyz.scm (python-jsonargparse): New variable.
2023-05-10 19:27:08 +02:00
Ricardo Wurmus e171a8bd88
gnu: Add python-docstring-parser.
* gnu/packages/python-xyz.scm (python-docstring-parser): New variable.
2023-05-10 19:27:08 +02:00
Ricardo Wurmus 2ebd5b9adf
gnu: Add python-starsessions-for-pytorch-lightning.
* gnu/packages/python-web.scm (python-starsessions-for-pytorch-lightning): New variable.
2023-05-10 19:27:08 +02:00
Ricardo Wurmus acb958938a
gnu: Add python-typeshed-client.
* gnu/packages/python-xyz.scm (python-typeshed-client): New variable.
2023-05-10 19:27:08 +02:00
Ricardo Wurmus 7b9e90e40d
gnu: python-torchvision: Update to 0.15.2.
* gnu/packages/machine-learning.scm (python-torchvision): Update to 0.15.2.
[build-system]: Use pyproject-build-system.
[arguments]: Remove custom 'check phase.
2023-05-10 19:27:08 +02:00
Ricardo Wurmus 452fec7226
gnu: python-arrow: Update to 1.2.3.
* gnu/packages/time.scm (python-arrow): Update to 1.2.3.
2023-05-10 19:27:08 +02:00
Ricardo Wurmus 4d673ba743
gnu: Add python-types-requests.
* gnu/packages/python-xyz.scm (python-types-requests): New variable.
2023-05-10 19:27:08 +02:00
Ricardo Wurmus 26e2610673
gnu: Add python-types-urllib3.
* gnu/packages/python-xyz.scm (python-types-urllib3): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus cb37197a24
gnu: Add python-fastapi-for-pytorch-lightning.
* gnu/packages/python-web.scm (python-fastapi-for-pytorch-lightning): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus 3f05f625ea
gnu: Add python-starlette-for-fastapi-0.88.
* gnu/packages/python-web.scm (python-starlette-for-fastapi-0.88): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus 463a598585
gnu: Add python-inquirer.
* gnu/packages/machine-learning.scm (python-inquirer): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus 9220dee755
gnu: Add python-readchar.
* gnu/packages/machine-learning.scm (python-readchar): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus 96c51a9dbf
gnu: python-scikit-optimize: Fix build with newer numpy and sklearn.
* gnu/packages/patches/python-scikit-optimize-1148.patch,
gnu/packages/patches/python-scikit-optimize-1150.patch: New patches.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/python-science.scm (python-scikit-optimize)[source]: Fetch with
git and apply patches.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus ff3c55bb98
gnu: Add python-dateutils.
* gnu/packages/time.scm (python-dateutils): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus d071bc5a82
gnu: python-pillow-simd: Update to 9.2.0.
* gnu/packages/python-xyz.scm (python-pillow-simd): Update to 9.2.0.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus 9e1cbc62e5
gnu: python-blessed: Update to 1.20.0.
* gnu/packages/python-xyz.scm (python-blessed): Update to 1.20.0.
[source]: Simplify snippet.
[build-system]: Use pyproject-build-system.
[arguments]: Use test-flags to avoid pytest-coverage; remove custom 'check phase.
[propagated-inputs]: Remove python-jinxed python-six.
[native-inputs]: Remove python-mock.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus 8f97d96ddf
gnu: Add python-torchmetrics.
* gnu/packages/machine-learning.scm (python-torchmetrics): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus 1aa1a6a816
gnu: Add python-types-setuptools.
* gnu/packages/python-xyz.scm (python-types-setuptools): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus d32334eea2
gnu: Add python-mir-eval.
* gnu/packages/python-xyz.scm (python-mir-eval): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus e4480090e2
gnu: Add python-lightning-utilities.
* gnu/packages/machine-learning.scm (python-lightning-utilities): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus 7afddfbfa0
gnu: Add python-lightning-cloud.
* gnu/packages/machine-learning.scm (python-lightning-cloud): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus b6b6e89419
gnu: python-pytorch-for-r-torch: Define as alias for python-pytorch.
* gnu/packages/machine-learning.scm (python-pytorch-for-r-torch): Remove
duplicate definition.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus b60ea1cd17
gnu: python-traitlets: Update to 5.9.0.
* gnu/packages/python-xyz.scm (python-traitlets): Update to 5.9.0.
[build-system]: Use pyproject-build-system.
[native-inputs]: Add python-hatchling, python-pre-commit, and
python-pytest-mock.
[arguments]: Remove custom 'check phase.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus e43ceae59f
gnu: Add python-deepdiff.
* gnu/packages/python-xyz.scm (python-deepdiff): New variable.
2023-05-10 19:27:07 +02:00
Ricardo Wurmus e652b44725
gnu: python-pytorch: Update to 1.13.1.
* gnu/packages/machine-learning.scm (python-pytorch): Update to  1.13.1.
[source]: Update snippet.
2023-05-10 19:27:07 +02:00
Guillaume Le Vaillant e2eb43f945
gnu: python-shiboken-2: Add fix for python-pyside-2.
* gnu/packages/qt.scm (python-shiboken-2)[arguments]: Add
  'workaround-importlib-error' phase.
2023-05-10 18:00:37 +02:00
Christopher Baines e0c35d1578
gnu: guile-fibers-next: Update to 1.2.0-2.745bd40.
* gnu/packages/guile-xyz.scm (guile-fibers-next): Update to 1.2.0-2.745bd40.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-05-10 11:08:07 +01:00
Christopher Baines 98c3931641
services: guix-build-coordinator-agent: Support max-parallel-uploads.
This should be usable with the new guile-gnutls.

* gnu/services/guix.scm
(guix-build-coordinator-agent-configuration-max-parallel-uploads): New
procedure.
* gnu/services/guix.scm (guix-build-coordinator-agent-shepherd-services): Use
the new argument.
* doc/guix.texi (Guix Services): Document it.
2023-05-10 11:06:20 +01:00
Christopher Baines 5ff8ec12ef
gnu: guix-build-coordinator: Update to 0-81.3f6473c.
* gnu/packages/package-management.scm (guix-build-coordinator): Update to
0-81.3f6473c.
2023-05-10 11:06:02 +01:00
Christopher Baines 5e1e674421
gnu: guile-gnutls: Update to 3.7.12.
* gnu/packages/tls.scm (guile-gnutls): Update to 3.7.12.
[source]: Switch to a tarball, to avoid a circular dependency if guile-gnutls
is used in git-download.
[arguments]: Remove phase changes for building from Git.
[native-inputs]: Remove autoconf and automake as they're now unnecessary.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-05-10 10:41:03 +01:00
Ludovic Courtès 357e0b2690
gnu: cuirass: Update to 4a8a4bc.
Fixes <https://issues.guix.gnu.org/63389>.

* gnu/packages/ci.scm (cuirass): Update to 4a8a4bc.
[arguments]: Remove 'set-PATH-for-tests' and 'disable-remote-tests'
phases, which are unnecessary.  In 'wrap-program' phase, check for
"guile-gnutls".
[inputs]: Replace GUILE-FIBERS with GUILE-FIBERS-1.1 and GNUTLS with
GUILE-GNUTLS.
2023-05-10 00:23:53 +02:00
Ludovic Courtès fbea62f829
gnu: emacs-gerbil-mode: Move to scheme.scm.
This fixes a bug due to a top-level circular reference:

  $ guix show scheme48
  [...]
  ice-9/boot-9.scm:1685:16: In procedure raise-exception:
  error: gerbil: unbound variable

* gnu/packages/emacs-xyz.scm (emacs-gerbil-mode): Move to...
* gnu/packages/scheme.scm (emacs-gerbil-mode): ... here.
2023-05-10 00:23:53 +02:00
Ludovic Courtès 1be5bf5604
tests: docker-system: Add missing import.
This is a followup to f518882725.

* gnu/tests/docker.scm (run-docker-system-test)["load system image and
run it"]: Use (guix build utils).
2023-05-10 00:23:52 +02:00
Ludovic Courtès 6a33f674b9
system: Fix reference to Hurd bug in comment.
* gnu/system.scm (hurd-multiboot-modules): Fix bug reference in
comment.
2023-05-10 00:23:52 +02:00
Mark H Weaver 7f89eee664
gnu: icecat: Update to 102.11.0-guix0-preview1 [security fixes].
Includes fixes for CVE-2023-32205, CVE-2023-32206, CVE-2023-32207,
CVE-2023-32211, CVE-2023-32212, CVE-2023-32213, CVE-2023-32214, and
CVE-2023-32215.

* gnu/packages/gnuzilla.scm (%icecat-base-version, %icecat-build-id): Update.
(icecat-source): Update gnuzilla commit, base version, and hashes.
2023-05-09 14:45:39 -04:00
Liliana Marie Prikler 5b58608f56
gnu: Add python-clinguin.
* gnu/packages/potassco.scm (python-clinguin): New variable.
2023-05-09 19:54:27 +02:00
Ricardo Wurmus a9bd722d67
gnu: python-fastapi: Do not delete tests, and add orjson.
* gnu/packages/python-web.scm (python-fastapi)[arguments]: Remove all custom
phases; ignore two test files.
[propagated-inputs]: Add python-orjson.
2023-05-09 19:54:27 +02:00
Liliana Marie Prikler 0f7d8a8305
gnu: Add python-fastapi.
* gnu/packages/python-web.scm (python-fastapi): New variable.
2023-05-09 19:43:44 +02:00
Liliana Marie Prikler dd3ee6073e
gnu: python-databases: Revise description.
* gnu/packages/databases.scm (python-databases)[synopsis]: Spell out
“Asynchronous”.
[description]: Mention that it's a wrapper around other libraries using
SQLAlchemy.
2023-05-09 19:43:44 +02:00
Liliana Marie Prikler 8f01f084d3
gnu: python-databases: Update to 0.7.0.
* gnu/packages/databases.scm (python-databases): Update to 0.7.0.
2023-05-09 19:43:44 +02:00
Liliana Marie Prikler 966fd0bfdc
gnu: python-aiosqlite: Update to 0.18.0.
* gnu/packages/databases.scm (python-aiosqlite): Update to 0.18.0.
[source]: Use git-fetch and git-reference.
[build-system]: Use pyproject-build-system.
[arguments]: Adjust accordingly.
[propagated-inputs]: Remove.
[native-inputs]: Remove python-aiounittest.
Add python-flit-core, python-coverage and python-mypy.
2023-05-09 19:43:44 +02:00
Liliana Marie Prikler 3cc9e00473
gnu: python-aiomysql: Update to 0.1.1.
* gnu/packages/databases.scm (python-aiomysql): Update to 0.1.1.
[build-system]: Change to pyproject-build-system.
2023-05-09 19:43:43 +02:00
Liliana Marie Prikler 8d62db6b54
gnu: python-pymysql: Update to 1.0.2.
* gnu/packages/databases.scm (python-pymysql): Update to 1.0.2.
2023-05-09 19:43:43 +02:00
Ricardo Wurmus b09e87be26
gnu: python-sqlalchemy: Use pyproject-build-system.
* gnu/packages/databases.scm (python-sqlalchemy)[arguments]: Replace custom
'check phase with #:test-flags.
[build-system]: Use pyproject-build-system.
2023-05-09 19:43:43 +02:00
Liliana Marie Prikler 98e943435f
gnu: python-sqlalchemy: Update to 1.4.42.
* gnu/packages/databases.scm (python-sqlalchemy): Update to 1.4.42.
2023-05-09 19:20:18 +02:00
Liliana Marie Prikler 851199ef57
gnu: python-starlette: Update to 0.25.0.
* gnu/packages/python-web.scm (python-starlette): Update to 0.25.0.
[source]: Switch to git-fetch and git-reference.
[build-system]: Use pyproject-build-system.
[native-inputs]: Add python-hatchling, python-httpx, python-pytest, and
python-typing-extensions-next.
2023-05-09 19:20:18 +02:00
Christopher Baines a759cbffaf
services: guix-build-coordinator: Support extra environment vars.
I'm looking at this because I need to do some debugging of Guile's GC, and
there are some useful environment variables for that, but it should be
generally useful.

* gnu/services/guix.scm (guix-build-coordinator-configuration-extra-environment-variables):
New procedure.
(guix-build-coordinator-shepherd-services): Pass the environment variables to
the shepherd.
* doc/guix.texi (Guix Services): Document it.
2023-05-09 16:19:21 +01:00
Efraim Flashner c1ffe2f21b
service: qemu-binfmt: Remove broken qemu targets.
* gnu/services.virtualization.scm (%qemu-platforms): Remove %i486,
%aarch64be.
2023-05-09 17:27:49 +03:00
Efraim Flashner 3f00f46ada
Revert "gnu: rust-bootstrap: Remove aarch64 as a supported architecture."
This reverts commit c56d57110d.

rust-bootstrap *IS* supported on aarch64-linux, and the build farm will
catch up eventually.
2023-05-09 16:54:29 +03:00
Ricardo Wurmus 7e421c1f5a
gnu: r-scran: Update to 1.28.1.
* gnu/packages/bioconductor.scm (r-scran): Update to 1.28.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus 0880f325b7
gnu: r-scuttle: Update to 1.10.1.
* gnu/packages/bioconductor.scm (r-scuttle): Update to 1.10.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus 8c7ddd3a44
gnu: r-chromvar: Update to 1.22.1.
* gnu/packages/bioconductor.scm (r-chromvar): Update to 1.22.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus d850b72346
gnu: r-hdf5array: Update to 1.28.1.
* gnu/packages/bioconductor.scm (r-hdf5array): Update to 1.28.1.
[propagated-inputs]: Add r-s4arrays.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus 3bdd6fb256
gnu: r-s4vectors: Update to 0.38.1.
* gnu/packages/bioconductor.scm (r-s4vectors): Update to 0.38.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus da8638facb
gnu: r-preprocesscore: Update to 1.62.1.
* gnu/packages/bioconductor.scm (r-preprocesscore): Update to 1.62.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus 6b2a0aab19
gnu: r-iclusterplus: Update to 1.36.1.
* gnu/packages/bioconductor.scm (r-iclusterplus): Update to 1.36.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus c96ebf4cf9
gnu: r-clusterprofiler: Update to 4.8.1.
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 4.8.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus f7642f34d0
gnu: r-dose: Update to 3.26.1.
* gnu/packages/bioconductor.scm (r-dose): Update to 3.26.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus 4228100215
gnu: r-linnorm: Update to 2.24.1.
* gnu/packages/bioconductor.scm (r-linnorm): Update to 2.24.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus c6c69d4cc6
gnu: r-dnacopy: Update to 1.74.1.
* gnu/packages/bioconductor.scm (r-dnacopy): Update to 1.74.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus c846a694a7
gnu: r-scaledmatrix: Update to 1.8.1.
* gnu/packages/bioconductor.scm (r-scaledmatrix): Update to 1.8.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus 95d5a918a2
gnu: r-glmgampoi: Update to 1.12.1.
* gnu/packages/bioconductor.scm (r-glmgampoi): Update to 1.12.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus 75869a8a94
gnu: r-oligo: Update to 1.64.1.
* gnu/packages/bioconductor.scm (r-oligo): Update to 1.64.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus a4b04c06ab
gnu: r-summarizedexperiment: Update to 1.30.1.
* gnu/packages/bioconductor.scm (r-summarizedexperiment): Update to 1.30.1.
[propagated-inputs]: Add r-s4arrays.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus c70787f552
gnu: r-scmap: Update to 1.22.1.
* gnu/packages/bioconductor.scm (r-scmap): Update to 1.22.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus 0fd93c81be
gnu: r-rhdf5filters: Update to 1.12.1.
* gnu/packages/bioconductor.scm (r-rhdf5filters): Update to 1.12.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus 4b7a06b839
gnu: r-pcaexplorer: Update to 2.26.1.
* gnu/packages/bioconductor.scm (r-pcaexplorer): Update to 2.26.1.
2023-05-09 15:24:15 +02:00
Ricardo Wurmus 37f44c278f
gnu: r-impute: Update to 1.74.1.
* gnu/packages/bioconductor.scm (r-impute): Update to 1.74.1.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus ef3ce37eeb
gnu: r-genefilter: Update to 1.82.1.
* gnu/packages/bioconductor.scm (r-genefilter): Update to 1.82.1.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 56524dc465
gnu: r-edger: Update to 3.42.2.
* gnu/packages/bioconductor.scm (r-edger): Update to 3.42.2.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus d9d920403a
gnu: r-deseq2: Update to 1.40.1.
* gnu/packages/bioconductor.scm (r-deseq2): Update to 1.40.1.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 7a9e68f103
gnu: r-biocparallel: Update to 1.34.1.
* gnu/packages/bioconductor.scm (r-biocparallel): Update to 1.34.1.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 69e954bb0a
gnu: r-annotationdbi: Update to 1.62.1.
* gnu/packages/bioconductor.scm (r-annotationdbi): Update to 1.62.1.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 931ac0735f
gnu: r-densvis: Update to 1.10.1.
* gnu/packages/bioconductor.scm (r-densvis): Update to 1.10.1.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 06b903963c
gnu: r-delayedarray: Update to 0.26.2.
* gnu/packages/bioconductor.scm (r-delayedarray): Update to 0.26.2.
[propagated-inputs]: Add r-s4arrays.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 01faf51999
gnu: r-bandits: Update to 1.16.1.
* gnu/packages/bioconductor.scm (r-bandits): Update to 1.16.1.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 13dde61328
gnu: r-bambu: Update to 3.2.2.
* gnu/packages/bioconductor.scm (r-bambu): Update to 3.2.2.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 6401f048cf
gnu: r-amplican: Update to 1.22.1.
* gnu/packages/bioconductor.scm (r-amplican): Update to 1.22.1.
[propagated-inputs]: Remove r-clustercrit; add r-cluster.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 0861bca905
gnu: r-affyplm: Update to 1.76.1.
* gnu/packages/bioconductor.scm (r-affyplm): Update to 1.76.1.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 7a58dc01d3
gnu: Add r-s4arrays.
* gnu/packages/bioconductor.scm (r-s4arrays): New variable.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus e2c47544a5
gnu: r-deoptimr: Update to 1.0-13.
* gnu/packages/statistics.scm (r-deoptimr): Update to 1.0-13.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 4141309fcd
gnu: r-gdata: Update to 2.19.0.
* gnu/packages/statistics.scm (r-gdata): Update to 2.19.0.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 9c2d020eee
gnu: r-hmisc: Update to 5.1-0.
* gnu/packages/statistics.scm (r-hmisc): Update to 5.1-0.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 0aa29c87b6
gnu: r-viridislite: Update to 0.4.2.
* gnu/packages/statistics.scm (r-viridislite): Update to 0.4.2.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 053685b5de
gnu: r-viridis: Update to 0.6.3.
* gnu/packages/statistics.scm (r-viridis): Update to 0.6.3.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 9a3a4cc88b
gnu: r-pkgmaker: Update to 0.32.10.
* gnu/packages/statistics.scm (r-pkgmaker): Update to 0.32.10.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 89b4d2de5b
gnu: r-httr: Update to 1.4.6.
* gnu/packages/statistics.scm (r-httr): Update to 1.4.6.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 7362200a9e
gnu: r-chron: Update to 2.3-61.
* gnu/packages/statistics.scm (r-chron): Update to 2.3-61.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 2872088e42
gnu: r-testthat: Update to 3.1.8.
* gnu/packages/statistics.scm (r-testthat): Update to 3.1.8.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus ba8f4abace
gnu: r-evaluate: Update to 0.21.
* gnu/packages/statistics.scm (r-evaluate): Update to 0.21.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 87fa92288c
gnu: r-nnet: Update to 7.3-19.
* gnu/packages/statistics.scm (r-nnet): Update to 7.3-19.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 291b84b8c6
gnu: r-kernsmooth: Update to 2.23-21.
* gnu/packages/statistics.scm (r-kernsmooth): Update to 2.23-21.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 4f67571782
gnu: r-class: Update to 7.3-22.
* gnu/packages/statistics.scm (r-class): Update to 7.3-22.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 7b2e40a43b
gnu: r-mass: Update to 7.3-60.
* gnu/packages/statistics.scm (r-mass): Update to 7.3-60.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus b984ab470f
gnu: r-misctools: Update to 0.6-28.
* gnu/packages/cran.scm (r-misctools): Update to 0.6-28.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus f9a080f944
gnu: r-fauxpas: Update to 0.5.2.
* gnu/packages/cran.scm (r-fauxpas): Update to 0.5.2.
2023-05-09 15:24:14 +02:00
Ricardo Wurmus 5629f02d2a
gnu: r-mlr3: Update to 0.16.0.
* gnu/packages/cran.scm (r-mlr3): Update to 0.16.0.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus dc2e79ab9b
gnu: r-diversitree: Update to 0.9-18.
* gnu/packages/cran.scm (r-diversitree): Update to 0.9-18.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 316fe63df6
gnu: r-scattermore: Update to 1.0.
* gnu/packages/cran.scm (r-scattermore): Update to 1.0.
[native-inputs]: Add r-knitr.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 21a2f9dd2d
gnu: r-metafor: Update to 4.2-0.
* gnu/packages/cran.scm (r-metafor): Update to 4.2-0.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus b94e90a0bd
gnu: r-tidymodels: Update to 1.1.0.
* gnu/packages/cran.scm (r-tidymodels): Update to 1.1.0.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus ba846805ae
gnu: r-influencer: Update to 0.1.0.2.
* gnu/packages/cran.scm (r-influencer): Update to 0.1.0.2.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 674e393fe3
gnu: r-adabag: Update to 4.3.
* gnu/packages/cran.scm (r-adabag): Update to 4.3.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 74a85c46f5
gnu: r-showtext: Update to 0.9-6.
* gnu/packages/cran.scm (r-showtext): Update to 0.9-6.
[native-inputs]: Add r-rmarkdown.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus f0509acf25
gnu: r-graphlayouts: Update to 1.0.0.
* gnu/packages/cran.scm (r-graphlayouts): Update to 1.0.0.
[native-inputs]: Add r-knitr.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus c4b04d28d0
gnu: r-mlbench: Update to 2.1-3.1.
* gnu/packages/cran.scm (r-mlbench): Update to 2.1-3.1.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 2f365ed64d
gnu: r-rms: Update to 6.7-0.
* gnu/packages/cran.scm (r-rms): Update to 6.7-0.
[propagated-inputs]: Remove r-kableextra.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus d9d20fc2fa
gnu: r-wk: Update to 0.7.3.
* gnu/packages/cran.scm (r-wk): Update to 0.7.3.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 9e52a4c23e
gnu: r-speedglm: Update to 0.3-5.
* gnu/packages/cran.scm (r-speedglm): Update to 0.3-5.
[propagated-inputs]: Add r-biglm.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 758a371f6f
gnu: r-ggeffects: Update to 1.2.2.
* gnu/packages/cran.scm (r-ggeffects): Update to 1.2.2.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 0933e43de8
gnu: r-tarchetypes: Update to 0.7.6.
* gnu/packages/cran.scm (r-tarchetypes): Update to 0.7.6.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 26fdde288d
gnu: r-survey: Update to 4.2-1.
* gnu/packages/cran.scm (r-survey): Update to 4.2-1.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 552ed0dacf
gnu: r-later: Update to 1.3.1.
* gnu/packages/cran.scm (r-later): Update to 1.3.1.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus d3c05279a8
gnu: r-tseries: Update to 0.10-54.
* gnu/packages/cran.scm (r-tseries): Update to 0.10-54.
[propagated-inputs]: Add r-jsonlite.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus efd0365a8f
gnu: r-scatterplot3d: Update to 0.3-44.
* gnu/packages/cran.scm (r-scatterplot3d): Update to 0.3-44.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus eb70932061
gnu: r-ctrdata: Update to 1.13.1.
* gnu/packages/cran.scm (r-ctrdata): Update to 1.13.1.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 85df1d3fc5
gnu: r-sass: Update to 0.4.6.
* gnu/packages/cran.scm (r-sass): Update to 0.4.6.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus c50403d0ab
gnu: r-servr: Update to 0.27.
* gnu/packages/cran.scm (r-servr): Update to 0.27.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 2ea5346a00
gnu: r-httpuv: Update to 1.6.10.
* gnu/packages/cran.scm (r-httpuv): Update to 1.6.10.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 263f3e1ac2
gnu: r-waldo: Update to 0.5.0.
* gnu/packages/cran.scm (r-waldo): Update to 0.5.0.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 3751313f5b
gnu: r-cachem: Update to 1.0.8.
* gnu/packages/cran.scm (r-cachem): Update to 1.0.8.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 6aa299aa1c
gnu: r-ggpicrust2: Update to 1.6.3.
* gnu/packages/bioconductor.scm (r-ggpicrust2): Update to 1.6.3.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus bd3ef47877
gnu: r-biomartr: Update to 1.0.3.
* gnu/packages/bioconductor.scm (r-biomartr): Update to 1.0.3.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus 7668d7f16b
gnu: r-profvis: Update to 0.3.8.
* gnu/packages/cran.scm (r-profvis): Update to 0.3.8.
[propagated-inputs]: Add r-purrr, r-rlang, and r-vctrs.
2023-05-09 15:24:13 +02:00
Ricardo Wurmus ab140eb2f8
gnu: r-arrow: Update to 12.0.0.
* gnu/packages/cran.scm (r-arrow): Update to 12.0.0.
2023-05-09 15:24:12 +02:00
Ricardo Wurmus 1dac05b225
gnu: apache-arrow: Update to 12.0.0.
* gnu/packages/databases.scm (apache-arrow): Update to 12.0.0.
2023-05-09 15:24:12 +02:00
Ricardo Wurmus 7a4456b047
gnu: apache-arrow: Drop package labels.
* gnu/packages/databases.scm (apache-arrow)[inputs]: Drop labels.
2023-05-09 15:24:12 +02:00
Ricardo Wurmus a0fe6bec4b
gnu: apache-arrow: Use G-expressions.
* gnu/packages/databases.scm (apache-arrow)[arguments]: Use G-expressions to
refer to inputs without assoc-ref.
2023-05-09 15:24:12 +02:00
Tanguy Le Carrour 76a3deb867
gnu: python-leather: Update to 0.3.4.
* gnu/packages/wireservice.scm (python-leather): Update to 0.3.4.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
2023-05-09 14:20:11 +02:00
Guillaume Le Vaillant f5a2c6c2ab
gnu: txr: Update to 286.
* gnu/packages/lisp.scm (txr): Update to 286.
2023-05-09 14:15:23 +02:00
Pierre Neidhardt 5aae6c99c2
gnu: Update sbcl-nclasses to 0.5.0.
* gnu/packages/lisp-xyz.scm (sbcl-nclasses): Update to 0.5.0.

Signed-off-by: Pierre Neidhardt <mail@ambrevar.xyz>
2023-05-09 13:33:32 +02:00
Efraim Flashner 649ce7b433
Merge branch 'rust-team' 2023-05-09 09:56:33 +03:00
Efraim Flashner c56d57110d
gnu: rust-bootstrap: Remove aarch64 as a supported architecture.
This is so that we can merge the branch, building rust for aarch64-linux
on CI is very time intensive.

* gnu/packages/rust.scm (rust-bootstrap)[supported-systems]: Remove
aarch64-linux.
2023-05-09 09:54:37 +03:00
Efraim Flashner 1bb29cd49c
gnu: gcc: Update cpu tuning architectures.
* gnu/packages/gcc.scm (%gcc-7.5-armhf-micro-architectures): Add missing
micro-architecture.
(%gcc-10-armhf-micro-architectures): Adjust accordingly.
(%gcc-11-aarch64-micro-architectures): Add missing micro-architecture.
(%gcc-12-aarch64-micro-architectures, %gcc-12-armhf-micro-architectures,
%gcc-12-x86_64-micro-architectures, %gcc-13-aarch64-micro-architectures,
%gcc-13-armhf-micro-architectures, %gcc-13-x86_64-micro-architectures):
New variables.
(gcc-12)[properties]: Use new compiler-cpu-architectures.
* guix/cpu.scm (cpu->gcc-architecture): Update entries for Intel, AMD,
x86_64 fallback and aarch64.
2023-05-09 09:52:24 +03:00
Efraim Flashner 23d4ebdaac
gnu: gcc-12: Update to 12.3.0.
* gnu/packages/gcc.scm (gcc-12): Update to 12.3.0.
2023-05-09 08:39:19 +03:00
Efraim Flashner cdba1d8e2e
gnu: gimp: Build with librsvg-for-system.
* gnu/packages/gimp.scm (gimp)[inputs]: Replace librsvg with
librsvg-for-system.
2023-05-09 08:23:05 +03:00
Efraim Flashner 3d6f7a45d9
gnu: gegl: Build with librsvg-for-system.
* gnu/packages/gimp.scm (gegl)[inputs]: Replace librsvg with
librsvg-for-system.
2023-05-09 08:23:01 +03:00
Jelle Licht 50249cab3a
gnu: foot: Add search path for 'TERMINFO_DIRS'.
* gnu/packages/terminals.scm (foot)[native-search-paths]: New field.
2023-05-08 22:28:47 +02:00
Benjamin 5f024ef3af
gnu: foot: Update to 1.14.0.
* gnu/packages/terminals.scm (foot): Update to 1.14.0.

Signed-off-by: Jelle Licht <jlicht@fsfe.org>
2023-05-08 22:28:13 +02:00
Benjamin 2b99492f5d
gnu: tllist: Update to 1.1.0.
* gnu/packages/datastructures.scm (tllist): Update to 1.1.0.

Signed-off-by: Jelle Licht <jlicht@fsfe.org>
2023-05-08 22:28:13 +02:00
Nicolas Goaziou 28c2c570f8
gnu: emacs-tmr: Fix ffplay invocation.
This fixes <https://issues.guix.gnu.org/63350>.

* gnu/packages/emacs-xyz.scm (emacs-tmr)[arguments]<#:phases>: Fix search
string.
2023-05-08 19:21:58 +02:00
Simon Josefsson 26897e3c41
gnu: Add emacs-eweouz.
* gnu/packages/emacs-xyz.scm (emacs-eweouz): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-05-08 19:21:46 +02:00
David Thompson 56774726dc
gnu: guile-goblins: Update to 0.11.0.
* gnu/packages/guile-xyz.scm (guile-goblins): Update to 0.11.0.
2023-05-08 13:09:28 -04:00
Ricardo Wurmus e9f19cfa35
gnu: guile-openai: Update to 0.1-2.9265b64.
* gnu/packages/guile-xyz.scm (guile-openai): Update to 0.1-2.9265b64.
2023-05-08 18:53:30 +02:00
Ricardo Wurmus 42e9e8ba2e
gnu: Add homer.
* gnu/packages/bioinformatics.scm (homer): New variable.
2023-05-08 18:50:38 +02:00
Efraim Flashner e15d2655cb
gnu: python-bleach: Don't vendor python-html5lib.
* gnu/packages/python-xyz.scm (python-bleach)[source]: Add snippet to
remove vendored library and references to it.
[propagated-inputs]: Add python-html5lib.
2023-05-08 15:45:44 +03:00
Ricardo Wurmus 030a90bf9c
gnu: python-bleach: Update to 5.0.1.
* gnu/packages/python-xyz.scm (python-bleach): Update to 5.0.1.
[build-system]: Use pyproject-build-system.
[arguments]: Remove custom 'check phase.
2023-05-08 14:31:09 +02:00
Ricardo Wurmus e118b92cfe
gnu: Add r-seurat5.
* gnu/packages/cran.scm (r-seurat5): New variable.
2023-05-08 11:53:29 +02:00
Ricardo Wurmus c2a2d40e6d
gnu: Add r-seurat5object.
* gnu/packages/cran.scm (r-seurat5object): New variable.
2023-05-08 11:53:29 +02:00
Efraim Flashner 12c529c071
gnu: python-bottleneck: Honor #:tests? flag.
* gnu/packages/python-science.scm (python-bottleneck)[arguments]: Adjust
custom 'check phase to honor the #:tests? flag.
2023-05-08 12:42:10 +03:00
Efraim Flashner 4a23812c7c
gnu: python-bottleneck: Update to 1.3.7.
* gnu/packages/python-science.scm (python-bottleneck): Update to 1.3.7.
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher 02dbaa0311
gnu: python-astropy: Update to 5.2.2.
* gnu/packages/astronomy.scm (python-astropy): Update to 5.2.2.
[arguments]<phases>{check}: Skip 2 more failing tests.
[native-inputs]: Add python-colorlog, python-h5py, python-pandas,
python-pyarrow, python-pytest-astropy-header, python-scikit-image,
python-scipy, python-timezonefinder.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher 596f3beeb7
gnu: python-pytest-mpl: Update to 0.16.1.
* gnu/packages/python-check.scm (python-pytest-mpl): Update to 0.16.1.
[build-system]: Use pyproject-build-system.
[arguments]<phases>: Simplify phases by removing redundant modification
and use <test-flags> instead.
[propagated-inputs]: Add python-jinja2, python-packaging.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher 3a5c78b287
gnu: python-pytest-arraydiff: Update to 0.5.0.
* gnu/packages/python-check.scm (python-pytest-arraydiff): Update to
0.5.0.
[native-inputs]: Add python-setuptools-scm.
[propagated-inputs]: Remove python-six.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher 16e83296d7
gnu: python-pytest-remotedata: Update to 0.4.0.
* gnu/packages/python-check.scm (python-pytest-remotedata): Update to
0.4.0.
[build-system]: Use pyproject-build-system.
[arguments]<phases>: Simplify by removing not required phase
modification and use <test-flags> instead.
[native-inputs]: Add python-setuptools-scm.
[propagated-inputs]: Delete python-six, add python-packaging.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher a1baa54b8a
gnu: python-skyfield: Update to 1.46.
* gnu/packages/astronomy.scm (python-skyfield): Update to 1.46.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher e48105bc55
gnu: python-jplephem: Update to 2.18.
* gnu/packages/astronomy.scm (python-jplephem): Update to 2.18.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher 450185df4e
gnu: python-extension-helpers: Update to 1.0.0.
* gnu/packages/python-xyz.scm (python-extension-helpers): Update to
1.0.0.
[build-system]: Use pyproject-build-system.
[arguments]<tests>: Disable them, as pytest can't load the test suite.
[native-inputs]: Add python-setuptools-scm.
[home-page]: Re-point to actual project home page.
[synopsis]: Adjust it to cover actual project.
[description]: ... as above.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher 2f9173430f
gnu: python-pytest-astropy: Simplify package.
* gnu/package/python-check.scm (python-pytest-astropy): Simplify package.
[arguments]<phases>: Remove remove-requirement phase.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher 735513e93e
gnu: python-pytest-filter-subpackage: Update to 0.1.2.
* gnu/packages/python-check.scm (python-pytest-filter-subpackage):
Update to 0.1.2.
[build-system]: Use pyproject-build-system.
[arguments]: Drop no more required phases.
[native-inputs]: Add python-setuptools-scm.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher 5a70b9b924
gnu: Add python-timezonefinder.
* gnu/packages/time.scm (python-timezonefinder): New variable.
* gnu/packages/geo.scm (h3-3, python-h3-3): New variables. The latest
compatible versions to build python-timezonefinder.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher 424ba87292
gnu: Add python-h3.
* gnu/packages/geo.scm (python-h3): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:09 +03:00
Sharlatan Hellseher af3742b160
gnu: Sort use-module alphabetically in (gnu packages geo).
* gnu/packages/geo.scm: Sort use-module alphabetically to ease
maintenance.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:08 +03:00
Sharlatan Hellseher 53809e5f4b
gnu: Add h3.
* gnu/packages/geo.scm (h3): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08 12:42:08 +03:00