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2022-10-28gnu: Add r-dama.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-dama): New variable.
2022-10-28gnu: Add ghc-6.6.Ricardo Wurmus
* gnu/packages/haskell.scm (ghc-6.6): New variable.
2022-10-28gnu: ghc-6.0: Adjust configuration.Ricardo Wurmus
* gnu/packages/haskell.scm (ghc-6.0)[arguments]: Pass --enable-src-tree-happy option; remove --with-hc option because we use the same GHC for everything; add --with-gcc option to embed absolute file name of GCC. [native-inputs]: Remove unused python-2.
2022-10-28gnu: ghc-4: Embed absolute file name of GCC in GHC.Ricardo Wurmus
* gnu/packages/haskell.scm (ghc-4)[arguments]: Pass "--with-gcc" option to configure script.
2022-10-28gnu: flair: Update to 1.6.4.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (flair): Update to 1.6.4. [propagated-inputs]: Add python-numpy and python-scipy.
2022-10-28gnu: flair: Set R_HOME.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (flair)[arguments]: Set R_HOME.
2022-10-28gnu: flair: Add missing R package.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (flair)[inputs]: Add r-apeglm.
2022-10-28gnu: Add r-debcam.Mădălin Ionel Patrașcu
* gnu/packages/bioconductor.scm (r-debcam): New variable.
2022-10-28gnu: Add r-dmwr2.Mădălin Ionel Patrașcu
* gnu/packages/cran.scm (r-dmwr2): New variable.
2022-10-28gnu: emacs-modus-themes: Update to 3.0.0.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-modus-themes): Update to 3.0.0.
2022-10-28gnu: emacs-ediprolog: Update to 2.2.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-ediprolog): Update to 2.2.
2022-10-28gnu: emacs-subed: Update to 1.0.16.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-subed): Update to 1.0.16.
2022-10-28gnu: emacs-mmm-mode: Update to 0.5.9.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-mmm-mode): Update to 0.5.9.
2022-10-28gnu: emacs-ement: Update to 0.4.1.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-ement): Update to 0.4.1.
2022-10-28gnu: r-mixedpower: Fix faulty commit.Lars-Dominik Braun
Fix previous commit, which did not contain the following changes: * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/statistics.scm (r-mixedpower)[source]: Use it.
2022-10-28gnu: icedove: Update to 102.4.1.Jonathan Brielmaier
* gnu/packages/gnuzilla.scm (%icedove-build-id, %icedove-version) Update to 102.4.1.
2022-10-28gnu: r-mixedpower: Improve compatibility with R>=4.2.Lars-Dominik Braun
Upstream’s fix is incomplete and thus commit 7871447cf5d9fc5a7b5fe5277fc5e111e5ce32d7 was insufficient. * gnu/packages/patches/r-mixedpower-r2power.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/statistics.scm (r-mixedpower)[source]: Use it.
2022-10-27gnu: rottlog: Apply patch adding a Texinfo direntry.Maxim Cournoyer
Relates to <https://issues.guix.gnu.org/58821>. * gnu/packages/patches/rottlog-direntry.patch: Add patch. * gnu/packages/admin.scm (rottlog): Apply it. * gnu/local.mk (dist_patch_DATA): Register it.
2022-10-27gnu: rottlog: Use gexps and bootstrap Autotools build system.Maxim Cournoyer
* gnu/packages/admin.scm (rottlog) [snippet]: Delete build system files. Delete trailing #t. Patch Makefile.am instead of Makefile.in. Do not patch INSTALL_RC and INSTALL_SCRIPT variables default values. [arguments]: Use gexps. Delete trailing #t. [make-flags]: Override INSTALL_RC and INSTALL_SCRIPT. [phases]{fix-configure}: Delete phase. [native-inputs]: Add autoconf. Sort inputs.
2022-10-27profiles: info-dir-file: Remove install-info '--silent' option.Maxim Cournoyer
Relates to <https://issues.guix.gnu.org/58821>. Revert 4fef1e850e4872f2bc7c1f0a10cbac176b50895f, which silenced useful information such as the following warning: install-info: warning: no info dir entry in `/gnu/store/...-rottlog-0.72.2/share/info/rottlog.info.gz' Rationale: profile hooks output is now hidden by default, and can be made visible via the --verbosity option.
2022-10-27gnu: linux-libre: Update to 5.19.17.Leo Famulari
* gnu/packages/linux.scm (linux-libre-5.19-version): Update to 5.19.17. (linux-libre-5.19-pristine-source): Update hash.
2022-10-28gnu: findutils: Skip failing test on GNU/Hurd.Ludovic Courtès
* gnu/packages/base.scm (findutils)[arguments]: Add #:make-flags. * gnu/packages/commencement.scm (findutils-boot0)[arguments]: Likewise.
2022-10-28gnu: grep: Skip failing tests on GNU/Hurd.Ludovic Courtès
* gnu/packages/base.scm (grep)[arguments]: Add #:make-flags.
2022-10-28gnu: coreutils: Skip failing tests on GNU/Hurd.Ludovic Courtès
* gnu/packages/base.scm (coreutils)[arguments]: Add "tests/df/unreadable.sh" and "test-perror2" to the 'XFAIL_TESTS' list.
2022-10-27gnu: swftools: Fix typos.Vagrant Cascadian
* gnu/packages/animation.scm (swftools)[description]: Avoid uses of "allows to".
2022-10-27gnu: pypy: Remove unused module imports.Marius Bakke
This is a follow-up to commit 6e7ed040339d815c3a3f72706b75bd0162969c9d. * gnu/packages/pypy.scm: Remove unused modules.
2022-10-27build-system/pyproject: Always run tests verbosely for supported backends.Marius Bakke
* guix/build-system/pyproject.scm (pyproject-build): Default to '() instead of #false for TEST-FLAGS. * guix/build/pyproject-build-system.scm (check): Unconditionally enable verbose test flags. * doc/guix.texi (Build Systems): Document this change. * gnu/packages/fontutils.scm (python-glyphslib)[arguments]: Remove verbosity from #:test-flags. * gnu/packages/pdf.scm (python-pydyf, weasyprint)[arguments]: Likewise. * gnu/packages/python-web.scm (python-openapi-spec-validator)[arguments]: Likewise. * gnu/packages/python-xyz.scm (python-path, python-tempora)[arguments]: Likewise.
2022-10-27build-system/pyproject: Adjust indentation.Marius Bakke
* guix/build/pyproject-build-system.scm: Adjust indentation.
2022-10-27gnu: python-deepmerge: Use pyproject-build-system.Marius Bakke
* gnu/packages/python-xyz.scm (python-deepmerge)[build-system]: Set to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove obsolete phases. [native-inputs]: Remove PYTHON-PYPA-BUILD and PYTHON-WHEEL.
2022-10-27gnu: python-scikit-build: Switch to pyproject-build-system.Marius Bakke
* gnu/packages/python-xyz.scm (python-scikit-build)[build-system]: Set to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove obsolete phases. [native-inputs]: Remove PYTHON-PYPA-BUILD and PYTHON-WHEEL.
2022-10-27gnu: python-cattrs: Use pyproject-build-system.Marius Bakke
* gnu/packages/python-xyz.scm (python-cattrs)[build-system]: Set to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove obsolete phases. [native-inputs]: Remove PYTHON-PYPA-BUILD.
2022-10-27gnu: python-path: Use pyproject-build-system.Marius Bakke
* gnu/packages/python-xyz.scm (python-path-bootstrap)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove #:phases. [native-inputs]: Remove PYTHON-PYPA-BUILD. (python-path): Remove #:phases. Add #:test-flags.
2022-10-27gnu: python-openapi-spec-validator: Use pyproject-build-system.Marius Bakke
* gnu/packages/python-web.scm (python-openapi-spec-validator)[build-system]: Set to PYPROJECT-BUILD-SYSTEM. [arguments]: Add #:test-flags. Remove obsolete phases. [native-inputs]: Remove PYTHON-PYPA-BUILD.
2022-10-27gnu: python-openapi-schema-validator: Use pyproject-build-system.Marius Bakke
* gnu/packages/python-web.scm (python-openapi-schema-validator)[build-system]: Set to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove redundant phases. [native-inputs]: Remove PYTHON-PYPA-BUILD.
2022-10-27gnu: zabbix-cli: Switch to pyproject-build-system.Marius Bakke
* gnu/packages/monitoring.scm (zabbix-cli)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove check phase.
2022-10-27gnu: python-pygmsh: Use pyproject-build-system.Marius Bakke
* gnu/packages/simulation.scm (python-pygmsh)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove redundant phases. [native-inputs]: Remove PYTHON-PYPA-BUILD.
2022-10-27gnu: python-tempora: Switch to pyproject-build-system.Marius Bakke
* gnu/packages/python-xyz.scm (python-tempora)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Add #:test-flags. Remove #:phases. [native-inputs]: Remove PYTHON-PYPA-BUILD.
2022-10-27gnu: python-mypy-protobuf: Switch to pyproject-build-system.Marius Bakke
* gnu/packages/protobuf.scm (python-mypy-protobuf)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove redundant phases. [native-inputs]: Remove PYTHON-PYPA-BUILD.
2022-10-27gnu: python-ufolib2: Use pyproject-build-system.Marius Bakke
* gnu/packages/fontutils.scm (python-ufolib2)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove. [native-inputs]: Remove PYTHON-PYPA-BUILD and PYTHON-WHEEL.
2022-10-27gnu: python-statmake: Use pyproject-build-system.Marius Bakke
* gnu/packages/fontutils.scm (python-statmake)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove redundant phases. [native-inputs]: Remove PYTHON-PYPA-BUILD.
2022-10-27gnu: python-glyphslib: Use pyproject-build-system.Marius Bakke
* 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.
2022-10-27gnu: weasyprint: Use pyproject-build-system.Marius Bakke
* 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.
2022-10-27gnu: python-pydyf: Use pyproject-build-system.Marius Bakke
* 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.
2022-10-27gnu: python-autopage: Use pyproject-build-system.Marius Bakke
* gnu/packages/python-xyz.scm (python-autopage)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove redundant phases.
2022-10-27news: Add entry for 'pyproject-build-system'.Marius Bakke
* etc/news.scm: Add entry. Co-authored-by: Florian Pelz <pelzflorian@pelzflorian.de> Co-authored-by: Julien Lepiller <julien@lepiller.eu>
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.
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