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* gnu: python-mypy-protobuf: Switch to pyproject-build-system.Marius Bakke2022-10-27
| | | | | | | * gnu/packages/protobuf.scm (python-mypy-protobuf)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove redundant phases. [native-inputs]: Remove PYTHON-PYPA-BUILD.
* gnu: python-ufolib2: Use pyproject-build-system.Marius Bakke2022-10-27
| | | | | | | * gnu/packages/fontutils.scm (python-ufolib2)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove. [native-inputs]: Remove PYTHON-PYPA-BUILD and PYTHON-WHEEL.
* gnu: python-statmake: Use pyproject-build-system.Marius Bakke2022-10-27
| | | | | | | * gnu/packages/fontutils.scm (python-statmake)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove redundant phases. [native-inputs]: Remove PYTHON-PYPA-BUILD.
* gnu: python-glyphslib: Use pyproject-build-system.Marius Bakke2022-10-27
| | | | | | | * gnu/packages/fontutils.scm (python-glyphslib)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Add #:test-flags. Remove #:phases. [native-inputs]: Remove PYTHON-PYPA-BUILD and PYTHON-WHEEL.
* gnu: weasyprint: Use pyproject-build-system.Marius Bakke2022-10-27
| | | | | | | * gnu/packages/pdf.scm (weasyprint)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove redundant phases. Add #:test-flags. [native-inputs]: Remove PYTHON-PYPA-BUILD.
* gnu: python-pydyf: Use pyproject-build-system.Marius Bakke2022-10-27
| | | | | | | * gnu/packages/pdf.scm (python-pydyf)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove #:phases. Add #:test-flags. [native-inputs]: Remove PYTHON-PYPA-BUILD.
* gnu: python-autopage: Use pyproject-build-system.Marius Bakke2022-10-27
| | | | | | * gnu/packages/python-xyz.scm (python-autopage)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove redundant phases.
* news: Add entry for 'pyproject-build-system'.Marius Bakke2022-10-27
| | | | | | | * etc/news.scm: Add entry. Co-authored-by: Florian Pelz <pelzflorian@pelzflorian.de> Co-authored-by: Julien Lepiller <julien@lepiller.eu>
* build-system: Add pyproject-build-system.Lars-Dominik Braun2022-10-27
| | | | | | | | | | | | | | | | | | | 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>
* gnu: python-pip: Move to (gnu packages python-build).Marius Bakke2022-10-27
| | | | | * gnu/packages/python-xyz.scm (python-pip): Move from here ... * gnu/packages/python-build.scm (python-pip): ... to here.
* gnu: pypy: Move to separate module.Lars-Dominik Braun2022-10-27
| | | | | | | | | | | 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>
* gnu: python-setuptools: Move to python-build.Lars-Dominik Braun2022-10-27
| | | | | | | | | | | * 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>
* gnu: Zabbix: Update to 6.0.9.Marius Bakke2022-10-27
| | | | * gnu/packages/monitoring.scm (zabbix-agentd): Update to 6.0.9.
* gnu: zabbix-agentd: Enable TLS support.Marius Bakke2022-10-27
| | | | | | | * gnu/packages/monitoring.scm (zabbix-agentd)[arguments]: Pass "--with-gnutls" in #:configure-flags. [inputs]: Add GNUTLS. (zabbix-server): Inherit these changes.
* gnu: flair: Add missing R packages.Ricardo Wurmus2022-10-27
| | | | | | | * 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".
* gnu: emacs-buttercup: Update to 1.28.Nicolas Goaziou2022-10-27
| | | | * gnu/packages/emacs-xyz.scm (emacs-buttercup): Update to 1.28.
* gnu: Add r-aseb.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-aseb): New variable.
* gnu: Add r-asgsca.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-asgsca): New variable.
* gnu: Add r-aspli.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-aspli): New variable.
* gnu: Add r-assessorf.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-assessorf): New variable.
* gnu: Add r-asset.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-asset): New variable.
* gnu: Add r-atena.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-atena): New variable.
* gnu: Add r-atsnp.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-atsnp): New variable.
* gnu: Add r-attract.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-attract): New variable.
* gnu: Add r-awfisher.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-awfisher): New variable.
* gnu: Add r-awst.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-awst): New variable.
* gnu: ungoogled-chromium: Update to 107.0.5304.68-1.Marius Bakke2022-10-27
| | | | | | | | | | | | * 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.
* gnu: Add r-barcodetrackr.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-barcodetrackr): New variable.
* gnu: Add r-banocc.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-banocc): New variable.
* gnu: Add r-bandits.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-bandits): New variable.
* gnu: Add r-bambu.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-bambu): New variable.
* gnu: Add r-badregionfinder.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-badregionfinder): New variable.
* gnu: Add r-bader.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-bader): New variable.
* gnu: Add r-bac.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-bac): New variable.
* gnu: Add r-basespacer.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-basespacer): New variable.
* gnu: Add r-eulerr.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/cran.scm (r-eulerr): New variable.
* gnu: Add r-tximportdata.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-tximportdata): New variable.
* gnu: Add r-fishpond.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-fishpond): New variable.
* gnu: Add python-multivelo.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioinformatics.scm (python-multivelo): New variable.
* gnu: Add r-seuratwrappers.Hong.Li@mdc-berlin.de2022-10-27
| | | | * gnu/packages/bioinformatics.scm (r-seuratwrappers): New variable.
* gnu: r-seurat: Update to 4.2.0.Ricardo Wurmus2022-10-27
| | | | * gnu/packages/cran.scm (r-seurat): Update to 4.2.0.
* gnu: r-seuratobject: Update to 4.1.2.Ricardo Wurmus2022-10-27
| | | | * gnu/packages/cran.scm (r-seuratobject): Update to 4.1.2.
* gnu: Add r-baalchip.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/bioconductor.scm (r-baalchip): New variable.
* gnu: Add python-jupytext.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/python-xyz.scm (python-jupytext): New variable.
* gnu: Add python-mdit-py-plugins.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/python-xyz.scm (python-mdit-py-plugins): New variable.
* gnu: Add python-markdown-it-py.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/python-xyz.scm (python-markdown-it-py): New variable.
* gnu: Add python-mdurl.Mădălin Ionel Patrașcu2022-10-27
| | | | * gnu/packages/python-xyz.scm (python-mdurl): New variable.
* gnu: Add ghc-6.0.Ricardo Wurmus2022-10-27
| | | | * gnu/packages/haskell.scm (ghc-6.0): New variable.
* gnu: ghc-4: Build full compiler using provided *.hc files.Ricardo Wurmus2022-10-27
| | | | | | | | * 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.
* gnu: python-afdko: Skip a test.Efraim Flashner2022-10-27
| | | | | * gnu/packages/fontutils.scm (python-afdko)[arguments]: Adjust custom 'check phase to skip a test.
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