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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
Sharlatan Hellseher bb38261b5d
gnu: python-pytest-doctestplus: Update to 0.12.1. 
* gnu/packages/python-check.scm (python-pytest-doctestplus): Update to
0.12.1.
[build-system]: Use pyproject-build-system.
[arguments]<phases>: Remove modify-phases and add test-flags option
instead.
[native-inputs]: Add python-numpy.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:08 +03:00
Raphaël Mélotte 476f764f07
gnu: tio: Update to 2.5. 
* gnu/packages/terminals.scm (tio): Update to 2.5.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:08 +03:00
Yovan Naumovski 8bd5b3a373
gnu: openttd-engine: Update to 13.1. 
* gnu/packages/games.scm (openttd-engine): Update to 13.1.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-08 12:42:08 +03:00
Mădălin Ionel Patrașcu 0e09e8ab15
gnu: Add r-multibac. 
* gnu/packages/bioconductor.scm (r-multibac): New variable.
 2023-05-08 10:34:06 +02:00
Maxim Cournoyer b7e7744626
Revert "doc: Update all menus." 
This reverts commit 9719d7d2b0.  It breaks Guix
pull, building the 'guix-manual' for reasons that currently escape me.
 2023-05-07 22:49:29 -04:00
Maxim Cournoyer 9719d7d2b0
doc: Update all menus. 
Automated via 'M-x texinfo-all-menus-update' in Emacs, and dropping
the *Contributing menu removal, which is erroneously removed because defined
in a different Texinfo file.

* doc/guix.texi: Update all menus.
* doc/contributing.texi (Submitting Patches): Likewise.
 2023-05-07 21:51:27 -04:00
Maxim Cournoyer 26a788ae06
doc: Add some information/recommendation regarding --sysconfdir. 
* doc/contributing.texi (Building from Git): Mention sysconfdir along
localstatedir.
* doc/guix.texi (Requirements): Likewise.
 2023-05-07 21:51:27 -04:00
Maxim Cournoyer d1aba42ad4
gnu: nss-certs: Update to 3.88.1. 
* gnu/packages/certs.scm (nss-certs): Update to 3.88.1.
 2023-05-07 13:04:25 -04:00
Maxim Cournoyer 62f31c9d50
gnu: libva-utils: Update home page. 
* gnu/packages/video.scm (libva-utils) [home-page]: Update URL.
 2023-05-07 13:04:25 -04:00
Maxim Cournoyer 260bb2c320
gnu: vdpauinfo: Update to 1.5. 
* gnu/packages/video.scm (vdpauinfo): Update to 1.5.
 2023-05-07 13:04:24 -04:00
Maxim Cournoyer 69f55d1115
gnu: libva-utils: Update to 2.18.1. 
* gnu/packages/video.scm (libva-utils): Update to 2.18.1.
 2023-05-07 13:04:24 -04:00
Maxim Cournoyer 0bb691d7d3
gnu: libva: Update to 2.18.0. 
* gnu/packages/video.scm (libva): Update to 2.18.0.
 2023-05-07 13:04:24 -04:00
Kaelyn Takata 0be7838105
gnu: mesa: Update to 23.0.3. 
* gnu/packages/gl.scm (mesa): Update to 23.0.3.
[source]: Remove obsolete patch and update HTTPS url.
[arguments]: Enable the crocus gallium driver.
* gnu/packages/patches/mesa-fix-sporadic-test-failures.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2023-05-07 13:04:24 -04:00
Kaelyn Takata cf79468720
gnu: mesa: Use gexps instead of quasiquote. 
* gnu/packages/gl.scm (mesa)[arguments]: Use gexps instead of quasiquote.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-05-07 13:04:24 -04:00
Kaelyn Takata 02995444db
gnu: mesa: Fix hardware video decoding. 
* gnu/packages/gl.scm (mesa): Fix hardware video decoding.
[arguments]: Add -Dvideo-codecs to the #:configure-flags
[native-search-paths]: Add VDPAU_DRIVER_PATH so libvdpau can find the drivers.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-05-07 13:04:24 -04:00
Kaelyn Takata 61a3264424
gnu: mesa: Fix library paths in Vulkan layer manifests. 
* gnu/packages/gl.scm (mesa): Fix library paths in Vulkan layer manifests.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-05-07 13:04:23 -04:00
Pierre Langlois de490476ca
gnu: tree-sitter-cli: Fix build with 0.20.8 version. 
* gnu/packages/tree-sitter.scm (tree-sitter-cli)[arguments]
<#:cargo-inputs>: Update rust-tiny-http and rust-webbrowser.
<#:cargo-development-inputs>: Add rust-ctor, rust-rand, rust-tempfile and
rust-unindent.
<#:phases>: Remove unneeded 'delete-cargo-lock phase.

Modified-by: Efraim Flashner <efraim@flashner.co.il>
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-07 19:37:56 +03:00
Pierre Langlois 84c70fd18a
gnu: Add rust-webbrowser-0.8. 
* gnu/packages/crates-io.scm (rust-webbrowser-0.8): New variable.
(rust-webbrowser-0.5): Inherit from rust-webbrowser-0.8.
* gnu/packages/patches/rust-webbrowser-remove-unsupported-os.patch: New file.
* gnu/local.mk: Register it.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-07 19:29:43 +03:00
Pierre Langlois b783b4a074
gnu: Update rust-tiny-http to 0.12.0. 
* gnu/packages/crates-io.scm (rust-tiny-http-0.8): Rename to...
(rust-tiny-http-0.12): ... this.
[arguments]: Remove rust-chrono and rust-url dependencies, add rust-httparse,
httpdate, rustls and rustls-pemfile.
(rust-tiny-http-0.6): Inherit from rust-tiny-http-0.12.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2023-05-07 19:29:43 +03:00
Efraim Flashner 0867ffbc62
gnu: librsvg-for-system: Choose librsvg based on package support. 
* gnu/packages/gnome.scm (librsvg-for-system): Adjust the logic to
choose which librsvg based on which version is supported.
 2023-05-07 19:29:43 +03:00
Efraim Flashner 9566721292
gnu: rust: Re-enable aarch64-linux support. 
* gnu/packages/rust.scm (rust)[arguments]: Only enable parallel-builds
on x86_64-linux. Add a make-flag to adjust CFLAGS. In the custom 'build
phase remove an unneeded environment variable.
[supported-architectures]: Add aarch64-linux.
 2023-05-07 19:29:43 +03:00
Efraim Flashner f88591857e
gnu: gdb/pinned: Move to gdb-12.1. 
* gnu/packages/gdb.scm (gdb/pinned): Refer to gdb-12.1.
[properties]: Hide the package.
(gdb-12): Inherit from gdb/pinned.
 2023-05-07 19:29:42 +03:00
Efraim Flashner 635fc04314
gnu: rust-gmp-mpfr-sys-1: Remove bundled libraries. 
* gnu/packages/crates-io.scm (rust-gmp-mpfr-sys-1)[source]: Add snippet
to remove bundled libraries and build without them.
[arguments]: Remove custom phase to help build bundled libraries.
[native-inputs]: Remove bash-minimal, m4.
[inputs]: Add gmp, mpc, mpfr.
(rust-rug-1)[arguments]: Remove custom phase to help build bundled
libraries.
[native-inputs]: Remove bash-minimal, m4.
[inputs]: Add gmp, mpc, mpfr.
 2023-05-07 19:29:42 +03:00
Efraim Flashner e855da63b4
gnu: rust-hashbrown-0.8: Update to 0.8.2. 
* gnu/packages/crates-io.scm (rust-hashbrown-0.8): Update to 0.8.2.
[source]: Add snippet to allow newer versions of rustc-hash.
[cargo-inputs]: Add rust-autocfg-1.
 2023-05-07 19:29:42 +03:00
Efraim Flashner 4c51d30199
gnu: rust-globwalk-0.8: Build with newer rust-backtrace. 
* gnu/packages/crates-io.scm (rust-globwalk-0.8)[source]: Add snippet to
accept newer versions of rust-backtrace.
[cargo-development-inputs]: Replace rust-backtrace-0.3.35 with 0.3.
(rust-backtrace-0.3.35): Remove variable.
 2023-05-07 19:29:42 +03:00
Efraim Flashner 5368830fe1
gnu: rust-webpki-0.18: Fix build. 
* gnu/packages/crates-io.scm (rust-webpki-0.18)[inherit]: Inherit from
rust-webpki-0.19.
[arguments]: Add a phase to build the curve25519 tables.
 2023-05-07 19:29:42 +03:00
Efraim Flashner abef54ef4d
gnu: rust-webpki-0.19: Fix build. 
* gnu/packages/crates-io.scm (rust-webpki-0.19)[arguments]: Add a phase
to build the curve25519 tables.
[native-inputs]: Add clang, perl, python-2.
 2023-05-07 19:29:42 +03:00
Efraim Flashner 1a17603940
gnu: rust-sct-0.5: Fix build. 
* gnu/packages/crates-io.scm (rust-sct-0.5)[arguments]: Add a phase to
build the curve25519 tables.
[native-inputs]: Add clang, perl, python-2.
 2023-05-07 19:29:42 +03:00
Efraim Flashner dc2fa72266
gnu: rust-ct-logs-0.8: Add missing input. 
* gnu/packages/crates-io.scm (rust-ct-logs-0.8)[native-inputs]: Add perl.
 2023-05-07 19:29:42 +03:00
Efraim Flashner 62af7f1dd9
gnu: rust-tokio-rustls-0.23: Add missing input. 
* gnu/packages/crates-io.scm (rust-tokio-rustls-0.23)[native-inputs]:
Add perl.
 2023-05-07 19:29:42 +03:00
Efraim Flashner bbe8e580c3
gnu: rust-trust-dns-rustls-0.19: Add missing input. 
* gnu/packages/crates-io.scm (rust-trust-dns-rustls-0.19)
[native-inputs]: Add perl.
 2023-05-07 19:29:42 +03:00
Efraim Flashner 1a1261daff
gnu: rust-password-hash-0.3: Fix inputs. 
* gnu/packages/crates-io.scm (rust-password-hash-0.3)[arguments]: Don't
skip build.
[cargo-inputs]: Replace rust-base64ct-1 with 1.0.1.
 2023-05-07 19:29:41 +03:00
Efraim Flashner 8a2740c851
gnu: rust-security-framework-0.2: Skip build. 
* gnu/packages/crates-io.scm (rust-security-framework-0.2)[arguments]:
Skip the build.
 2023-05-07 19:29:41 +03:00
Efraim Flashner b440ef2f97
gnu: rust-criterion-0.3: Update to 0.3.6. 
* gnu/packages/crates-io.scm (rust-criterion-0.3): Update to 0.3.6.
[cargo-inputs]: Replace rust-cast-0.2 with 0.3.
 2023-05-07 19:29:41 +03:00
Efraim Flashner 316edc268c
gnu: rust-webpki-roots-0.22: Add missing input. 
* gnu/packages/crates-io.scm (rust-webpki-roots-0.22)[native-inputs]:
Add perl.
 2023-05-07 19:29:41 +03:00
Efraim Flashner 0313eb4b7d
gnu: rust-webpki-0.22: Add missing input. 
* gnu/packages/crates-io.scm (rust-webpki-0.22)[native-inputs]: Add perl.
 2023-05-07 19:29:41 +03:00
Efraim Flashner d939400cb3
gnu: rust-selectors-0.21: Fix cargo inputs. 
* gnu/packages/crates-io.scm (rust-selectors-0.21)[cargo-inputs]: Don't
inherit field.
 2023-05-07 19:29:41 +03:00