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2023-04-29import/cran: Add "unix" to list of invalid packages.•••* guix/import/cran.scm (invalid-packages): Add "unix". Ricardo Wurmus
2023-04-29gnu: r-with-tests: Update to 4.3.0.•••* gnu/packages/statistics.scm (r-with-tests): Update to 4.3.0. [arguments]: Move 'set-timezone before 'configure. Ricardo Wurmus
2023-04-29guix: Upgrade to Bioconductor 3.16.•••* guix/build-system/r.scm (bioconductor-uri): Bump Bioconductor version to 3.17. * guix/import/cran.scm (%bioconductor-version): Same. Ricardo Wurmus
2023-04-29import/pypi: Generate packages using pyproject-build-system.•••* guix/import/pypi.scm (make-pypi-sexp): Generate PACKAGE expression where the value for the BUILD-SYSTEM field is PYPROJECT-BUILD-SYSTEM instead of PYTHON-BUILD-SYSTEM. Ricardo Wurmus
2023-04-29gnu: libpotassco: Unbundle catch.•••This patch incidentally fixes a build failure caused by the bundled catch. * gnu/packages/potassco.scm (libpotassco)[source]: Unbundle catch. [native-inputs]: Add catch2-1. Liliana Marie Prikler
2023-04-28gnu: libexpected: Update to 1.1.0.•••* gnu/packages/patches/libexpected-use-provided-catch2.patch: Add new patch. * gnu/packages/patches/libexpected-nofetch.patch: Remove unused patch. * gnu/local.mk (dist_patch_DATA): Register changes. * gnu/packages/cpp.scm (libexpected): Update to 1.1.0, and use new patch. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Josselin Poiret
2023-04-28gnu: fwupd: Update to 1.8.14.•••* gnu/packages/firmware.scm (fwupd): Update to 1.8.14. Also, change two files' timestamp because they are zipped up by Python. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Josselin Poiret
2023-04-28gnu: maven-embedder: Fix build.•••* gnu/packages/maven (maven-embedder)[arguments]: Add the'add-sisu-shebang phase after unpack. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Aleksandr Vityazev
2023-04-28gnu: maven-core-bootstrap: Fix build.•••* gnu/packages/maven (maven-core-bootstrap)[arguments]: Add the'add-sisu-shebang phase after unpack. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Aleksandr Vityazev
2023-04-28gnu: maven-resolver-provider: Fix build.•••* gnu/packages/maven (maven-resolver-provider)[arguments]: Add the'add-sisu-shebang phase after unpack. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Aleksandr Vityazev
2023-04-28gnu: maven-model-builder: Fix build.•••* gnu/packages/maven (maven-model-builder)[arguments]: Add the'add-sisu-shebang phase after unpack. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Aleksandr Vityazev
2023-04-28gnu: maven-settings-builder: Fix build.•••* gnu/packages/maven (maven-settings-builder)[arguments]: Add the'add-sisu-shebang phase after unpack. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Aleksandr Vityazev
2023-04-28gnu: Fix supercollider.•••Message-Id: <f67786eb958a65ba778f67a8f443fa3d24293438.1682453413.git.gabriel@erlikon.ch> From: Gabriel Wicki <gabriel@erlikon.ch> Date: Tue, 25 Apr 2023 22:03:03 +0200 Subject: [PATCH 1/2] gnu: Fix supercollider. * gnu/packages/audio.scm (supercollider): Fix the build. [configure-flags] Re-enable DLIBSCSYNTH. [phases] New phase fix-struct-SOUNDFILE-tag. [inputs] Add ruby and python to appease the build process. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Gabriel Wicki
2023-04-28tests: guix-graph.sh: Fix expected path from emacs to libffi.•••* tests/guix-graph.sh: Change the expected path from emacs to libffi. `guix graph --path` outputs only one possible path, and the one it outputs for this case has changed. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Josselin Poiret
2023-04-28tests: guix-build.sh: Don't use hidden gcc for transformation tests.•••* tests/guix-build.sh: Do not try to rewrite gcc, it is hidden and so will not be rewritten, as per eee95b5a879b7096dffd533f24107cf8926b621e. Instead, try to build grep with coreutils rewritten to hello. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Josselin Poiret
2023-04-28gnu: dovecot: Fix build.•••* gnu/packages/mail.scm (dovecot)[source]: Add patch for OpenSSL v3. * gnu/packages/patches/dovecot-opensslv3.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. 宋文武
2023-04-28gnu: mumble: Update to 1.4.287, fix build.•••* gnu/packages/telephony.scm (mumble): Update to 1.4.287. [inputs]: Use openssl-1.1. 宋文武
2023-04-28gnu: python-ipy: Update to 1.01.•••* gnu/packages/networking.scm (python-ipy): Update to 1.01. 宋文武
2023-04-27gnu: ncdu-1: Update to 1.18.1.•••* gnu/packages/ncdu.scm (ncdu-1): Update to 1.18.1. Efraim Flashner
2023-04-27gnu: sleef: Adjust inputs.•••* gnu/packages/maths.scm (sleef)[inputs]: Replace openssl with openssl-1.1; remove mpfr. [arguments]: Remove custom phase 'make-git-checkout-writable; use G-expression for configure-flags. Ricardo Wurmus
2023-04-27gnu: gloo: Use OpenSSL 1.1.•••* gnu/packages/machine-learning.scm (gloo)[inputs]: Use openssl-1.1 instead of openssl. Ricardo Wurmus
2023-04-27gnu: yubico-piv-tool: Update to 2.3.1.•••* gnu/packages/security-token.scm (yubico-piv-tool): Update to 2.3.1. [source]: Fetch from Github repository. [build-system]: Use cmake-build-system. Ricardo Wurmus
2023-04-27gnu: Add cl-prompter.•••* gnu/packages/lisp-xyz.scm (cl-prompter, ecl-prompter, sbcl-prompter): New variables. Pierre Neidhardt
2023-04-27gnu: python-docutils-0.15: Add missing input.•••* gnu/packages/python-xyz.scm (python-docutils-0.15)[native-inputs]: Add python-setuptools-57. Ricardo Wurmus
2023-04-27gnu: gdcm: Disable dependent tests.•••* gnu/packages/bioinformatics.scm (gdcm)[arguments]: Disable tests that depend on the output of a disabled test. Ricardo Wurmus
2023-04-27gnu: freebayes: Update to 1.3.7.•••* gnu/packages/bioinformatics.scm (freebayes): Update to 1.3.7. [arguments]: Do not use "grep -P" in tests; drop trailing #T. Ricardo Wurmus
2023-04-27gnu: vcflib: Use libwfa2.pc.•••* gnu/packages/bioinformatics.scm (vcflib)[source]: Use pkg-config to look for libwfa2. [inputs]: Move wfa2-lib from here... [propagated-inputs]: ...to here. [arguments]: Drop WFA_LINK_LIBRARIES option; fix typo in build phase name; patch IntervalTree.h includes; add libwfa2 to pkg-config file. Ricardo Wurmus
2023-04-27gnu: wfa2-lib: Install pkg-config file.•••* gnu/packages/bioinformatics.scm (wfa2-lib)[arguments]: Install libwfa2.pc. Ricardo Wurmus
2023-04-27gnu: express: Adjust bamtools location.•••* gnu/packages/bioinformatics.scm (express)[arguments]: Modify location of libbamtools.so in 'use-shared-boost-libs-and-set-bamtools-paths; drop trailing #T. Ricardo Wurmus
2023-04-27gnu: python-tinycss2: Simplify.•••* gnu/packages/python-web.scm (python-tinycss2)[build-system]: Use pyproject-build-system. [arguments]: Remove. Ricardo Wurmus
2023-04-27gnu: python-openapi-core: Add missing input.•••* gnu/packages/python-web.scm (python-openapi-core)[build-system]: Use pyproject-build-system. [arguments]: Do not override 'check phase; specify #:test-flags. [native-inputs]: Add python-mock. Ricardo Wurmus
2023-04-27gnu: libwebsockets: Update to 4.3.2.•••* gnu/packages/web.scm (libwebsockets): Update to 4.3.2. [arguments]: Remove. [source]: Use GIT-FILE-NAME. Ricardo Wurmus
2023-04-27gnu: python-google-cloud-storage: Add missing input.•••* gnu/packages/python-web.scm (python-google-cloud-storage)[native-inputs]: Add python-mock. Ricardo Wurmus
2023-04-27gnu: python-google-resumable-media: Add missing input.•••* gnu/packages/python-web.scm (python-google-resumable-media)[native-inputs]: Add python-mock. Ricardo Wurmus
2023-04-27gnu: python-aws-xray-sdk: Update to 2.12.0.•••* gnu/packages/python-web.scm (python-aws-xray-sdk): Update to 2.12.0. [build-system]: Use pyproject-build-system. [arguments]: Specify #:test-flags; do not override 'check phase; add 'pre-check phase. [native-inputs]: Add python-httpx, python-mock, python-pytest-asyncio, and python-pytest-benchmark. Ricardo Wurmus
2023-04-27gnu: python-httpx: Update to 0.24.0.•••* gnu/packages/python-web.scm (python-httpx): Update to 0.24.0. [build-system]: Use pyproject-build-system. [arguments]: Remove custom check phase in favor of specifying #:test-flags. [native-inputs]: Add python-hatchling and python-hatch-fancy-pypi-readme. (python-httpx-bootstrap)[native-inputs]: Add python-hatchling and python-hatch-fancy-pypi-readme. Ricardo Wurmus
2023-04-27gnu: python-httpcore: Update to 0.17.0.•••* gnu/packages/python-web.scm (python-httpcore): Update to 0.17.0. [build-system]: Use pyproject-build-system. [arguments]: Remove custom check phase; specify #:test-flags; disable broken tests. Ricardo Wurmus
2023-04-27gnu: python-h11: Update to 0.14.0.•••* gnu/packages/python-web.scm (python-h11): Update to 0.14.0. [build-system]: Use pyproject-build-system. [arguments]: Remove. Ricardo Wurmus
2023-04-27gnu: python-wsproto: Update to 1.2.0.•••* gnu/packages/python-web.scm (python-wsproto): Update to 1.2.0. [build-system]: Use pyproject-build-system. [arguments]: Remove. Ricardo Wurmus
2023-04-26gnu: python-dendropy: Fix build.•••* gnu/packages/bioinformatics.scm (python-dendropy)[native-inputs]: Add python-pytest. [arguments]: Add phase 'python-compatibility; remove 'skip-broken-tests; add #:test-flags; do not delete test files. [build-system]: Use pyproject-build-system. Ricardo Wurmus
2023-04-26gnu: python-watchgod: Update to 0.8.1.•••* gnu/packages/python-xyz.scm (python-watchgod): Update to 0.8.1. [build-system]: Use pyproject-build-system. [arguments]: Specify #:test-flags instead of overwriting 'check phase. [native-inputs]: Add python-anyio. Ricardo Wurmus
2023-04-26gnu: python-fastjsonschema: Use pyproject-build-system.•••* gnu/packages/python-xyz.scm (python-fastjsonschema): Reindent. [build-system]: Use pyproject-build-system. [arguments]: Remove custom check phase; update comment on why tests are disabled. Ricardo Wurmus
2023-04-26gnu: python-rapidjson: Update to 1.10.•••* gnu/packages/python-web.scm (python-rapidjson): Update to 1.10. [source]: Simplify snippet. [arguments]: Run tests conditionally; do not delete test files. Ricardo Wurmus
2023-04-26gnu: rapidjson: Update to 1.1.0-1.949c771.•••* gnu/packages/patches/rapidjson-gcc-compat.patch: Remove file. * gnu/local.mk (dist_patch_DATA): Remove it. * gnu/packages/web.scm (rapidjson): Update to 1.1.0-1.949c771. [source]: Remove obsolete patch. Ricardo Wurmus
2023-04-26gnu: python-multiprocess: Update to 0.70.14.•••* gnu/packages/python-xyz.scm (python-multiprocess): Update to 0.70.14. [build-system]: Use pyproject-build-system. [arguments]: Adjust directory containing tests; disable two more tests; replace check phase instead of deleting and adding it; run tests conditionally. Ricardo Wurmus
2023-04-26gnu: python-dill: Update to 0.3.6.•••* gnu/packages/python-xyz.scm (python-dill): Update to 0.3.6. [build-system]: Use pyproject-build-system. [arguments]: Run tests conditionally; drop trailing #T from build phase. Ricardo Wurmus
2023-04-26gnu: python-jupyterlab-widgets: Update to 1.1.4.•••* gnu/packages/jupyter.scm (python-jupyterlab-widgets): Update to 1.1.4. [build-system]: Use pyproject-build-system. Ricardo Wurmus
2023-04-26gnu: python-fire: Add missing input.•••* gnu/packages/python-xyz.scm (python-fire)[native-inputs]: Add python-mock. Ricardo Wurmus
2023-04-26gnu: gitg: Fix build.•••* gnu/packages/patches/gitg-fix-positional-argument.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it here. * gnu/packages/gnome.scm (gitg)[source]<patches>: Use it here. Liliana Marie Prikler
2023-04-26gnu: gnome-2048: Fix build.•••* gnu/packages/patches/gnome-2048-fix-positional-argument.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it here. * gnu/packages/games.scm (gnome-2048)[source]<patches>: Use it here. Liliana Marie Prikler
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