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2023-05-08gnu: guile-openai: Update to 0.1-2.9265b64.Ricardo Wurmus
* gnu/packages/guile-xyz.scm (guile-openai): Update to 0.1-2.9265b64.
2023-05-08gnu: Add homer.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (homer): New variable.
2023-05-08Partly reinstate "doc: Update all menus."Maxim Cournoyer
This partly reinstates commit 9719d7d ("doc: Update all menus."), omitting the hunk touching doc/contributing.texi. * doc/guix.texi: Update all menus.
2023-05-08gnu: python-bleach: Don't vendor python-html5lib.Efraim Flashner
* gnu/packages/python-xyz.scm (python-bleach)[source]: Add snippet to remove vendored library and references to it. [propagated-inputs]: Add python-html5lib.
2023-05-08gnu: python-bleach: Update to 5.0.1.Ricardo Wurmus
* gnu/packages/python-xyz.scm (python-bleach): Update to 5.0.1. [build-system]: Use pyproject-build-system. [arguments]: Remove custom 'check phase.
2023-05-08gnu: Add r-seurat5.Ricardo Wurmus
* gnu/packages/cran.scm (r-seurat5): New variable.
2023-05-08gnu: Add r-seurat5object.Ricardo Wurmus
* gnu/packages/cran.scm (r-seurat5object): New variable.
2023-05-08gnu: python-bottleneck: Honor #:tests? flag.Efraim Flashner
* gnu/packages/python-science.scm (python-bottleneck)[arguments]: Adjust custom 'check phase to honor the #:tests? flag.
2023-05-08gnu: python-bottleneck: Update to 1.3.7.Efraim Flashner
* gnu/packages/python-science.scm (python-bottleneck): Update to 1.3.7.
2023-05-08gnu: python-astropy: Update to 5.2.2.Sharlatan Hellseher
* 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>
2023-05-08gnu: python-pytest-mpl: Update to 0.16.1.Sharlatan Hellseher
* 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>
2023-05-08gnu: python-pytest-arraydiff: Update to 0.5.0.Sharlatan Hellseher
* 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>
2023-05-08gnu: python-pytest-remotedata: Update to 0.4.0.Sharlatan Hellseher
* 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>
2023-05-08gnu: python-skyfield: Update to 1.46.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-skyfield): Update to 1.46. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08gnu: python-jplephem: Update to 2.18.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-jplephem): Update to 2.18. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08gnu: python-extension-helpers: Update to 1.0.0.Sharlatan Hellseher
* 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>
2023-05-08gnu: python-pytest-astropy: Simplify package.Sharlatan Hellseher
* 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>
2023-05-08gnu: python-pytest-filter-subpackage: Update to 0.1.2.Sharlatan Hellseher
* 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>
2023-05-08gnu: Add python-timezonefinder.Sharlatan Hellseher
* 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>
2023-05-08gnu: Add python-h3.Sharlatan Hellseher
* gnu/packages/geo.scm (python-h3): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08gnu: Sort use-module alphabetically in (gnu packages geo).Sharlatan Hellseher
* gnu/packages/geo.scm: Sort use-module alphabetically to ease maintenance. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08gnu: Add h3.Sharlatan Hellseher
* gnu/packages/geo.scm (h3): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08gnu: python-pytest-doctestplus: Update to 0.12.1.Sharlatan Hellseher
* 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>
2023-05-08gnu: tio: Update to 2.5.Raphaël Mélotte
* gnu/packages/terminals.scm (tio): Update to 2.5. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08gnu: openttd-engine: Update to 13.1.Yovan Naumovski
* gnu/packages/games.scm (openttd-engine): Update to 13.1. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2023-05-08gnu: Add r-multibac.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-multibac): New variable.
2023-05-07Revert "doc: Update all menus."Maxim Cournoyer
This reverts commit 9719d7d2b0733c57e30bff3180ff0fa25c34c66f. It breaks Guix pull, building the 'guix-manual' for reasons that currently escape me.
2023-05-07doc: Update all menus.Maxim Cournoyer
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.
2023-05-07doc: Add some information/recommendation regarding --sysconfdir.Maxim Cournoyer
* doc/contributing.texi (Building from Git): Mention sysconfdir along localstatedir. * doc/guix.texi (Requirements): Likewise.
2023-05-07gnu: nss-certs: Update to 3.88.1.Maxim Cournoyer
* gnu/packages/certs.scm (nss-certs): Update to 3.88.1.
2023-05-07gnu: libva-utils: Update home page.Maxim Cournoyer
* gnu/packages/video.scm (libva-utils) [home-page]: Update URL.
2023-05-07gnu: vdpauinfo: Update to 1.5.Maxim Cournoyer
* gnu/packages/video.scm (vdpauinfo): Update to 1.5.
2023-05-07gnu: libva-utils: Update to 2.18.1.Maxim Cournoyer
* gnu/packages/video.scm (libva-utils): Update to 2.18.1.
2023-05-07gnu: libva: Update to 2.18.0.Maxim Cournoyer
* gnu/packages/video.scm (libva): Update to 2.18.0.
2023-05-07gnu: mesa: Update to 23.0.3.Kaelyn Takata
* 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.
2023-05-07gnu: mesa: Use gexps instead of quasiquote.Kaelyn Takata
* gnu/packages/gl.scm (mesa)[arguments]: Use gexps instead of quasiquote. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
2023-05-07gnu: mesa: Fix hardware video decoding.Kaelyn Takata
* 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>
2023-05-07gnu: mesa: Fix library paths in Vulkan layer manifests.Kaelyn Takata
* gnu/packages/gl.scm (mesa): Fix library paths in Vulkan layer manifests. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
2023-05-07gnu: Add emacs-next-pgtk-xwidgets.Antero Mejr
* gnu/packages/emacs.scm (emacs-next-pgtk-xwidgets): New variable. Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
2023-05-07gnu: ppsspp: Update to 1.14.4.Liliana Marie Prikler
* gnu/packages/emulators.scm (ppsspp): Update to 1.14.4. [source]<snippet>: Adjust accordingly. [arguments]<#:configure-flags>: Add “-DARMIPS_USE_STD_FILESYSTEM=ON” and “-DUSE_SYSTEM_ZSTD=ON”. <#:phases>: Drop replacement for ‘check’ phase. Drop ‘fix-unittest-build’. Do not add sources for pspautotests -- they are not tested in ‘check’ and some of them fail. * gnu/packages/patches/ppsspp-disable-upgrade-and-gold.patch: Adjust accordingly.
2023-05-07gnu: armips: Update to 0.11.0-1-6719ede.Liliana Marie Prikler
* gnu/packages/assembly.scm (armips): Update to 0.11.0-1-6719ede. [source]: Add snippet to fix “Core/Types.h”. [arguments]<#:configure-flags>: Add “-DARMIPS_USE_STD_FILESYSTEM=ON”.
2023-05-07gnu: python-sphinx-4: Fix sanity-check failureZongyuan Li
* gnu/packages/sphinx.scm (python-sphinx-4)[propagated-inputs]: Downgrades python-docutils to v0.15 Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
2023-05-07gnu: Add python-ccdproc.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-ccdproc): New variable. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
2023-05-07gnu: python-astroalign: Update to 2.4.2.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-astroalign): Update to 2.4.2. [source]: Use git checkout instead PyPI to enable tests. [build-system]: Use pyproject-build-system. [propagated-inputs]: Migrate from inputs. Remove labels. Add optional python-bottleneck. [native-inputs]: Add python-astropy, python-ccdproc, python-pillow. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
2023-05-07gnu: Add python-memory-profiler.Sharlatan Hellseher
* gnu/packages/python-check.scm (python-memory-profiler): New variable. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com> Modified-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
2023-05-07gnu: Add python-astroscrappy.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-astroscrappy): New variable. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
2023-05-07Makefile.am: Use --add flag to "git config".Mekeor Melire
Without the "--add" flag to "git config include.path ...", the command fails if the user already has a configuration entry of "include.path". Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
2023-05-07gnu: findutils: Update XFAIL_TESTS for the hurd.Christopher Baines
This could do with more investigating, but this reflects what I see locally. * gnu/packages/base.scm (findutils)[arguments]: Update XFAIL_TESTS for the hurd. * gnu/packages/commencement.scm (findutils-boot0): Stop clearing the make-flags, so the above change applies to findutils-boot0.
2023-05-07Revert "gnu: gcc-11: Adapt patching for hurd to not use gexp's."Christopher Baines
This reverts commit 08acdd0765b5f4fbfafa699a823ea7985d4d35a7. This change is now unnecessary now that gcc-boot0 uses gexps (a795a02a9d988be5a762886620f7bb6a95e7ffdb). * gnu/packages/gcc.scm (gcc-11)[arguments]: Use gexp for modify-phases. [native-inputs]: Remove. * gnu/packages/commencement.scm (gcc-boot0)[native-inputs]: Remove.
2023-05-07gnu: neovim update to 0.9.0.Benjamin
* gnu/packages/vim.scm (neovim): Update to 0.9.0. [arguments]: Adjust phase 'prevent-embedding-gcc-store-path to changes in the source code. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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