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2022-10-27build-system: Add pyproject-build-system.Lars-Dominik Braun
This is an experimental build system based on python-build-system that implements PEP 517-compliant builds. * doc/guix.texi (Build Systems): Add pyproject-build-system section. * doc/contributing.texi (Python Modules): Mention pyproject.toml and the PYTHON-TOOLCHAIN package, as well as differences to python-build-system. * guix/build-system/pyproject.scm, guix/build/pyproject-build-system.scm, gnu/packages/aux-files/python/sanity-check-next.py, gnu/packages/python-commencement.scm: New files. * Makefile.am (MODULES): Register the new build systems. * gnu/local.mk (GNU_SYSTEM_MODULES): Add python-commencement.scm. * gnu/packages/python.scm (python-sans-pip, python-sans-pip-wrapper): New variables. Co-authored-by: Marius Bakke <marius@gnu.org>
2022-10-27gnu: python-pip: Move to (gnu packages python-build).Marius Bakke
* gnu/packages/python-xyz.scm (python-pip): Move from here ... * gnu/packages/python-build.scm (python-pip): ... to here.
2022-10-27gnu: pypy: Move to separate module.Lars-Dominik Braun
This removes the need to import (gnu packages python-xyz) in (gnu packages python), avoiding issues with circular imports. * gnu/packages/python.scm (pypy): Move… * gnu/packages/pypy.scm (pypy): …here * gnu/local.mk: Register new file. Co-authored-by: Marius Bakke <marius@gnu.org>
2022-10-27gnu: python-setuptools: Move to python-build.Lars-Dominik Braun
* gnu/packages/python-xyz.scm (python-setuptools): Move… * gnu/packages/python-build.scm: …here. * gnu/packages/chemistry.scm, gnu/packages/messaging.scm, gnu/packages/sequoia.scm, tests/lint.scm: Adjust module imports accordingly. Co-authored-by: Marius Bakke <marius@gnu.org>
2022-10-27gnu: Zabbix: Update to 6.0.9.Marius Bakke
* gnu/packages/monitoring.scm (zabbix-agentd): Update to 6.0.9.
2022-10-27gnu: zabbix-agentd: Enable TLS support.Marius Bakke
* gnu/packages/monitoring.scm (zabbix-agentd)[arguments]: Pass "--with-gnutls" in #:configure-flags. [inputs]: Add GNUTLS. (zabbix-server): Inherit these changes.
2022-10-27gnu: flair: Add missing R packages.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (flair)[propagated-inputs]: Add python-rpy2. [inputs]: Add r-minimal, r-deseq2, r-drimseq, r-ggplot2, r-lazyeval, r-qqman, and r-rlang. [arguments]: Add phase "wrap-executable".
2022-10-27gnu: emacs-buttercup: Update to 1.28.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-buttercup): Update to 1.28.
2022-10-27gnu: Add r-aseb.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-aseb): New variable.
2022-10-27gnu: Add r-asgsca.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-asgsca): New variable.
2022-10-27gnu: Add r-aspli.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-aspli): New variable.
2022-10-27gnu: Add r-assessorf.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-assessorf): New variable.
2022-10-27gnu: Add r-asset.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-asset): New variable.
2022-10-27gnu: Add r-atena.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-atena): New variable.
2022-10-27gnu: Add r-atsnp.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-atsnp): New variable.
2022-10-27gnu: Add r-attract.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-attract): New variable.
2022-10-27gnu: Add r-awfisher.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-awfisher): New variable.
2022-10-27gnu: Add r-awst.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-awst): New variable.
2022-10-27gnu: ungoogled-chromium: Update to 107.0.5304.68-1.Marius Bakke
* gnu/packages/chromium.scm (%preserved-third-party-files): Adjust for M107. (%chromium-version): Set to 107.0.5304.68. (%ungoogled-origin): Update hash. (%chromium-gcc-patchset, gcc-patch): Remove. (%gcc-patches): Empty list. (ungoogled-chromium)[source]: Update hash. [arguments]: Add clang_base_path and use_system_libwayland_server to #:configure-flags. Adjust substitutions. [inputs]: Add QTBASE-5.
2022-10-27gnu: Add r-barcodetrackr.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-barcodetrackr): New variable.
2022-10-27gnu: Add r-banocc.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-banocc): New variable.
2022-10-27gnu: Add r-bandits.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-bandits): New variable.
2022-10-27gnu: Add r-bambu.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-bambu): New variable.
2022-10-27gnu: Add r-badregionfinder.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-badregionfinder): New variable.
2022-10-27gnu: Add r-bader.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-bader): New variable.
2022-10-27gnu: Add r-bac.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-bac): New variable.
2022-10-27gnu: Add r-basespacer.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-basespacer): New variable.
2022-10-27gnu: Add r-eulerr.Mădălin Ionel Patrașcu
* gnu/packages/cran.scm (r-eulerr): New variable.
2022-10-27gnu: Add r-tximportdata.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-tximportdata): New variable.
2022-10-27gnu: Add r-fishpond.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-fishpond): New variable.
2022-10-27gnu: Add python-multivelo.Mădălin Ionel Patrașcu
* gnu/packages/bioinformatics.scm (python-multivelo): New variable.
2022-10-27gnu: Add r-seuratwrappers.Hong.Li@mdc-berlin.de
* gnu/packages/bioinformatics.scm (r-seuratwrappers): New variable.
2022-10-27gnu: r-seurat: Update to 4.2.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-seurat): Update to 4.2.0.
2022-10-27gnu: r-seuratobject: Update to 4.1.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-seuratobject): Update to 4.1.2.
2022-10-27gnu: Add r-baalchip.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-baalchip): New variable.
2022-10-27gnu: Add python-jupytext.Mădălin Ionel Patrașcu
* gnu/packages/python-xyz.scm (python-jupytext): New variable.
2022-10-27gnu: Add python-mdit-py-plugins.Mădălin Ionel Patrașcu
* gnu/packages/python-xyz.scm (python-mdit-py-plugins): New variable.
2022-10-27gnu: Add python-markdown-it-py.Mădălin Ionel Patrașcu
* gnu/packages/python-xyz.scm (python-markdown-it-py): New variable.
2022-10-27gnu: Add python-mdurl.Mădălin Ionel Patrașcu
* gnu/packages/python-xyz.scm (python-mdurl): New variable.
2022-10-27gnu: Add ghc-6.0.Ricardo Wurmus
* gnu/packages/haskell.scm (ghc-6.0): New variable.
2022-10-27gnu: ghc-4: Build full compiler using provided *.hc files.Ricardo Wurmus
* gnu/packages/haskell.scm (ghc-4)[source]: Remove patch. [arguments]: Change to build full compiler. [native-inputs]: Remove default binutils and gcc; add tarball for hc files. * gnu/packages/patches/ghc-4.patch: Delete patch. * gnu/local.mk (dist_patch_DATA): Remove it.
2022-10-27gnu: python-afdko: Skip a test.Efraim Flashner
* gnu/packages/fontutils.scm (python-afdko)[arguments]: Adjust custom 'check phase to skip a test.
2022-10-27gnu: Add emacs-clj-refactor.Andrew Tropin
* gnu/packages/emacs-xyz.scm (emacs-clj-refactor): New variable.
2022-10-27gnu: Add emacs-inflections.Andrew Tropin
* gnu/packages/emacs-xyz.scm (emacs-inflections): New variable.
2022-10-23gnu: xorriso: Update to 1.5.4.Tobias Geerinckx-Rice
* gnu/packages/cdrom.scm (xorriso): Update to 1.5.4.
2022-10-23gnu: sudo: Update to 1.9.12.Tobias Geerinckx-Rice
* gnu/packages/admin.scm (sudo): Update to 1.9.12.
2022-10-23gnu: mpv: Prepare for cross-compilation.Tobias Geerinckx-Rice
* gnu/packages/video.scm (mpv)[arguments]: Use CC-FOR-TARGET.
2022-10-23gnu: mpv: Use G-expressions.Tobias Geerinckx-Rice
* gnu/packages/video.scm (mpv)[arguments]: Rewrite as G-expressions.
2022-10-23gnu: mpv: Remove input labels.Tobias Geerinckx-Rice
* gnu/packages/video.scm (mpv)[inputs]: Remove input labels. [arguments]: Use SEARCH-INPUT-FILE instead.
2022-10-23gnu: mpv: Remove trailing #t from phases.Tobias Geerinckx-Rice
* gnu/packages/video.scm (mpv)[arguments]: Don't explicitly return #t from phases.
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