andreas pushed a change to branch python-team
in repository guix.
at 6dd0d0fd90 gnu: Add snakemake.
This branch includes the following new commits:
new 96012e341c gnu: python-pytest-black: Update to 0.6.0.
new 79904458f9 gnu: python-pytest-black: Move to python-check.
new fb4f9823fb gnu: Add python-3.11.
new af689c9765 gnu: Default to Python 3.11.
new dead8b3a52 gnu: Update references to python3.10 directory.
new b9caaf767e gnu: jack-2: Make compatible with Python 3.11.
new 90ee5a3fbc gnu: python-pympler: Update to 1.1.
new b5b0e98364 gnu: python-zope-testing: Update to 5.0.1.
new 70ba232d6e gnu: Add python-pytest-freezer.
new 98d32f6dfa gnu: python-virtualenv: Update to 20.29.1.
new 3eca105304 gnu: python-objgraph: Update to 3.6.2.
new 1a781c2271 gnu: python-sphinx: Skip one more test.
new 89a47ee98d gnu: python-objgraph: Adjust inputs.
new 5b82522e08 gnu: python-parameterized: Update to 0.9.0.
new e0dad8b7a1 gnu: Remove python-parameterized-next.
new f372684b14 gnu: python-argcomplete: Update to 3.5.3.
new f36dfb732b gnu: python-cached-property: Update to 2.0.1.
new fadd26395d gnu: python-frozenlist: Update to 1.3.3.
new c3bdbea4b9 gnu: pybind11: Update to 2.13.6.
new 176fb23102 gnu: python-uvloop: Fix build, improve style.
new 87cf0c3e87 gnu: python-anyio: Adjust inputs, fix build.
new 31ca7ed743 gnu: python-h2: Fix build.
new f29219345d gnu: python-certauth: Add missing inputs and adjust
disabled tests.
new e779b2c67c gnu: python-manuel: Update to 1.13.0.
new cbda85ccd2 gnu: python-pytest-subprocess: Update to 1.5.3.
new 924fc862d0 gnu: python-pydevd: Skip one more test.
new 85ec639473 gnu: python-pytest-regressions: Update to 2.7.0.
new d8128447e0 gnu: python-tblib: Update to 2.0.0.
new 1e62855b54 gnu: python-toolz: Update to 1.0.0.
new 815a70440f gnu: python-3.11: Build with libxcrypt.
new f22b9b9815 gnu: python-passlib: Use pyproject-build-system.
new 64135bd534 gnu: python-sql: Update to 1.5.2.
new 4fbac2167e gnu: python-relatorio: Use pyproject-build-system.
new eee5857dbb gnu: trytond: Update to 7.4.4.
new 947c94ac51 gnu: tryton: Update to 7.4.4.
new 27ed080daa gnu: python-proteus: Update to 7.4.1.
new d87896da28 gnu: python-requests-unixsocket: Update to 0.4.2.
new 445565521b gnu: python-patsy: Update to 1.0.1.
new 2d1582cd92 gnu: python-nbclassic: Restore 'sanity-check phase.
new 5b6a692ed3 gnu: python-cattrs: Disable failing test.
new f6ac61a1be gnu: python-zarr: Update list of disabled tests.
new c5b627045d gnu: python-scanpy: Patch broken version check.
new 17be2f2af7 gnu: scvelo: Remove custom 'check phase.
new e78754408a gnu: streamlink: Update to 7.1.2.
new f5b677e762 gnu: python-frozendict: Update to 2.4.6.
new 0c90d3e2af gnu: mozjs: Fix build with Python 3.11.
new 23ecf0bc36 gnu: mozjs-78: Fix build with Python 3.11.
new e8e3684665 gnu: python-numpy: Update to 1.26.2.
new c8435ea369 gnu: python-wcwidth: Update to 0.2.13.
new 50cd73c12e gnu: python-cmd2: Update to 2.5.11.
new 6abfc4a723 gnu: python-pywavelets: Update to 1.8.0.
new c8bd224e07 gnu: python-paramz: Fix tests.
new 03a873278c gnu: python-astropy: Skip one more test.
new b9cfda4fa4 gnu: Remove python-pyblake2.
new c080336271 gnu: Remove python-contextlib2.
new be8ff088ec gnu: python-ml-collections: Update to 1.0.0.
new 0c7debdcd1 gnu: protobuf: Update to 3.20.3.
new b0faa68d52 gnu: python-protobuf: Update to 3.20.3.
new 8224c56e00 gnu: Remove python-flake8-pie.
new f5ace3d164 gnu: python-dill: Update to 0.3.9.
new d6de00627e gnu: python-multiprocess: Update to 0.70.17.
new 9ba755e015 gnu: python-shortuuid: Update to 1.0.13.
new 70b3077d7b gnu: d-feet: Deprecate.
new e3cfbd0c15 gnu: python-pytest-flakes: Use pyproject-build-system.
new d97df2b206 gnu: python-opt-einsum: Use pyproject-build-system.
new 3f9037890e gnu: Add rust-notify-types-1.
new b18cac33b4 gnu: Add rust-notify-7.
new 1e099d3e47 gnu: python-watchgod: Rename package to python-watchfiles.
new a35f661489 gnu: python-uvicorn: Rename python-watchgod native-input.
new 7e8f8c0d3d gnu: python-pillow-heif: Update test-flags.
new 6783699f74 gnu: python-beartype: Update to 0.19.0.
new 090f572edf gnu: python-cftime: Update to 1.6.4.
new b160f49b59 gnu: python-multiprocessing-on-dill: Use
pyproject-build-system.
new 8195252da9 gnu: python-pykdtree: Update to 1.3.9.
new fb00a1ec45 gnu: python-peachpy: Update to 0.2.0-3.349e8f8.
new 5a13bc717a gnu: sdkmanager: Update python-urllib3.
new 31eb603647 gnu: python-pytest-runner: Update to 6.0.1.
new 0165b28b86 gnu: Remove python-rednose.
new 20c8141746 gnu: python-vcrpy: Update to 7.0.0.
new 2fbc7fb085 gnu: python-pyparsing: Update to 3.2.1.
new 885b745e15 gnu: behave: Remove python-nose native-input.
new 6838baeffc gnu: Remove python-dictpath.
new e78dfd6b7b gnu: python-ipympl: Update to 0.9.2.
new 24ad03da5a gnu: python-anndata: Ignore failing test.
new fcc266cf25 gnu: python-h2: Fix test-flags.
new a41f421b66 gnu: python-unyt: Avoid deprecation failure in tests.
new ae7d115436 gnu: Remove python-pep8.
new de961c303b gnu: Remove python-pytest-pep8.
new a5b507230c gnu: python-cftime: Fix tests.
new 43bd9c7f77 gnu: python-asyncpg: Update to 0.30.0.
new 18e9141d01 gnu: python-uvloop: Fix indentation.
new 907ae7b07d gnu: python-uvloop: Fix build.
new 09ebf09185 gnu: python-debug: Use G-Expressions.
new bd5df72ce9 gnu: python-sanic: Scip more tests, simplify.
new d722e9ef15 gnu: python-glue-astronomy: Avoid deprecation failure in
tests.
new 158323faa6 gnu: zbar: Update to 0.23.93.
new 7af8a3ad8d gnu: Add python-throttler.
new 9ebcce5a92 gnu: Add python-reretry.
new bcf4ab7511 gnu: python-toposort: Update to 1.10.
new 1dc317fbbd gnu: snakemake-7: Update to 7.32.4.
new f7ac711df5 gnu: python-dpath: Update to 2.2.0.
new ce8db9583b gnu: python-yte: Update to 1.7.0.
new 62853330ed gnu: snakemake: Disable one more test.
new 7ff7963cd9 gnu: snakemake-6: Disable one more test.
new 6309ac44c6 gnu: python-ratelimiter: Update to 1.2.0.post1.
new 89408dc096 gnu: htslib: Update to 1.21.
new cd8d613e0e gnu: bcftools: Update to 1.21.
new 80bdd80e52 gnu: htscodecs: Update to 1.6.1.
new 6fa27ee0f4 gnu: python-pysam: Update to 0.23.0.
new 6cdede88e9 gnu: python-duckdb: Disable one more test.
new 309373b9a9 gnu: python-dask-image: Update to 2024.5.3.
new cfb0fc85ef gnu: python-pecan: Update to 1.6.1.
new fb347f8789 gnu: ams-lv2: Make compatible with Python 3.11.
new eb70b7c57f gnu: bedtools: Update to 2.31.1.
new a330b7acff gnu: Remove python-anyio/without-dataclasses.
new 71f392ca8d gnu: tensorflow: Fix build.
new 81baead2c4 gnu: python-numpy: Disable test on 32 bit systems.
new 1e73912d34 gnu: make-llvm: Remove dynamic linker cache phase also with
version 15.0.
new ebf1da0700 gnu: Add python-authlib.
new ccc67fb775 gnu: python-flask-oidc: Update to 2.3.1.
new 474dc182b7 gnu: python-werkzeug-1.0: Do not abort on warnings.
new b835357bf2 gnu: python-strict-rfc3339: Disable more tests on 32-bit
platforms.
new fce83fe319 gnu: python-gpg: Fix build on 32-bit platforms.
new 631c03a80a gnu: python-jsondiff: Update to 2.2.1.
new b744e8a144 gnu: python-funsor: Disable one test.
new 93878712a2 gnu: Add python-pyemd.
new 5d9eb70354 gnu: aubio: Make compatible with Python 3.11.
new c683efc2ef gnu: aubio: Use JACK 2.
new f4579a4fdb gnu: blueman: Update to 2.4.4.
new 96d6060e7c gnu: blueman: Use G-expressions.
new 589a74c25a gnu: mypaint: Make compatible with Python 3.11.
new 7628b065f0 gnu: guitarix: Make compatible with Python 3.11.
new 842cca0056 gnu: mididings: Update to 0-2.bc71ea9.
new 177935dc70 gnu: cpp-httplib: Update to 0.20.0.
new ca3d1683d7 gnu: python-biopython: Update to 1.85.
new 8a0e82f26d gnu: python-biopython-1.73: Make compatible with Python
3.11.
new 8618fd5283 gnu: Remove python-nose-randomly.
new ec5a9784c9 gnu: gita: Update to 0.16.7.2.
new 799383555a gnu: gita: Fix indentation.
new 633e0ca804 gnu: gita: Improve package style.
new 5101eb697e gnu: nikola: Skip one test.
new 2999dea81b gnu: python-asn1tools: Update to 0.167.0 and fix build.
new 9c3f7ebb9c gnu: python-asyncua: Fix build.
new aae586b0e0 gnu: Remove python-asynctest.
new d8b3d0ec8e gnu: python-biom-format: Update to 2.1.16.
new 591908f804 gnu: pairadise: Add missing native-inputs.
new c83fe9e840 gnu: python-cleanlab: Update to 2.7.1.
new 26826a0728 gnu: python-cesium: Move to (gnu packages astronomy).
new 5b6622c4e9 gnu: python-bx-python: Update to 0.13.0.
new 7bf4329019 gnu: crossmap: Add missing python-pyparsing native-input.
new 0edfbc0475 gnu: python-cell2cell: Update to 0.7.4.
new 91677b47b2 gnu: python-ncls: Update to 0.0.68.
new c88c55d894 gnu: python-nptyping: Ignore failing test.
new a759a6f342 gnu: python-pegasusio: Update to 0.9.1.
new 6b143b10eb gnu: Add python-colored-traceback.
new 624f485fdb gnu: Add python-unix-ar.
new 0941987161 gnu: pwntools: Update to 4.4.0.
new 4528a0c866 gnu: python-debtcollector: Update to 3.0.0.
new 1fb50c3762 gnu: Standardize python-oslo.* package names.
new f4a21e1848 gnu: python-netaddr: Move to (gnu packages python-web).
new e156116942 gnu: python-netaddr: Update to 1.3.0.
new ab3a8e1096 gnu: python-aiosmtpd: Update to 1.4.6.
new 7b6f6e9604 gnu: python-autograd: Update to 1.7.0.
new 3f8bd3b983 gnu: python-autograd: Fix indentation.
new 51bd111732 gnu: python-pyopenssl: Skip TestDTLS::test_timeout.
new c01033e3fa gnu: python-astroml: Disable more tests.
new a7885e4b3d gnu: python-parabam: Add a maintenance note.
new 18a2ef9c62 gnu: python-gffutils: Update to 0.13 and fix build.
new 8afbc6f9ac gnu: python-peaks2utr: Update to 1.4.1 and fix build.
new f7cc9940e0 gnu: python-orthopy: Skip some tests, fix build.
new 2e7ba7a88e gnu: python-quadpy: Deselect one failing test.
new 3fd29e131b gnu: python-crosshair: Update to 0.0.84, fix build.
new 5737570c2a gnu: python-fastparquet: Update to 2024.11.0, fix build.
new b58bf70620 gnu: python-docrepr: Disable tests.
new 2e3f8619a3 gnu: labelme: Update to 5.2.1, fix build.
new 1e46fbd812 gnu: python-iced: Update to 0.5.13.
new a56bfbb4e9 gnu: python-js2py: Update to 0.74.
new 1a3482af80 gnu: python-ont-fast5-api: Update to 4.1.3.
new b86e8f8ce1 gnu: python-uqbar: Update to 0.7.2.
new cb42767a79 gnu: abjad-ext-rmakers: Adjust inputs.
new 0ba4394718 gnu: python-css-parser: Update to 1.0.10.
new e1b1759832 gnu: python-zeroc-ice: Update to 3.7.10.1.
new f6d9a7cc79 gnu: python-cchardet: Update to 2.2.0a2.
new 7780df4ee7 gnu: python-databricks-cli: Update to 0.18.0.
new 55d4ab9a08 gnu: python-jsonargparse: Update to 4.37.0.
new 31a494c658 gnu: python-pyvcf: Use the fork python-pyvcf3.
new ae23597c2e gnu: Remove python-parameterizedtestcase.
new 0e5db833b3 gnu: Remove python-anyjson.
new e8cdc2d6fb gnu: python-pyquery: Update to 2.0.1.
new 71e787161c gnu: python-locust: Update to 2.33.2.
new 0b875355d5 gnu: rseqc: Switch to pyproject-build-system.
new 4d8be83440 gnu: seqmagick: Update to 0.8.6-0.dee6ab9.
new 5139f5e47f gnu: Remove python-pyfasta.
new a5d3be8a89 gnu: taxtastic: Update to 0.11.1.
new ce93d3697d gnu: python-rstr: Update to 3.2.2. Enable tests.
new 8088bd7604 gnu: python-sip: Update to 6.10.0.
new 5676350d87 gnu: Add python-pybktree.
new 29661328c7 gnu: umi-tools: Update to 1.1.6.
new b0c6e6017e gnu: cpplint: Update to 2.0.0.
new f806aa80aa gnu: python-patch-ng: Update to 1.18.1.
new 2be1c0e507 gnu: veusz: Update to 3.6.2.
new 356e356ee7 gnu: conan: Update to 2.7.1.
new 5cbb9d2166 gnu: python-cu2qu: Fix tests.
new 0f30a646cd gnu: libei: Update to 1.4.0.
new f8cedfb8c0 gnu: openmolar: Fix build.
new 36949b911d gnu: python-mechanize: Update to 0.4.10.
new bc4c4b0a88 gnu: python-numdifftools: Skip some tests.
new 8cd6103d8d gnu: Add clipper2.
new 576ffc088a gnu: labelme: Add missing native-inputs.
new 89a891a7e1 gnu: scregseg: Add missing native-inputs.
new ec22768c11 gnu: autokey: Add missing native-inputs.
new e01edc1146 gnu: mageck: Add missing native-inputs.
new 5300ed2893 gnu: python-pytorch-geometric: Skip failing tests.
new 2d30f21fb9 gnu: Add string-view-lite.
new 58ca499bff gnu: python-pytensor: Update to 2.28.3.
new ac5a45243a gnu: python-vaex-core: Update to 4.17.1.
new 1c27ceac65 gnu: Remove pybind11-2.3.
new e4750cbff9 gnu: python-property-cached: Fix build.
new a081c80b2f gnu: python-attr: Update to 0.3.2.
new 88866dd4aa gnu: python-serpent: Update to 1.41.
new a2b0677470 gnu: python-pyro4: Update to 4.82.
new c1b3887d56 gnu: python-lcapy: Add missing native-inputs.
new c326653ea5 gnu: python-linear-operator: Update to 0.6.
new fd9b448bed gnu: python-gpytorch: Remove uneeded inputs.
new 691ef2ca0f gnu: python-botorch: Add missing native-inputs.
new 81265ddfa7 gnu: python-gpytorch: Update to 1.14.
new 984a35fbde gnu: python-botorch: Update to 0.13.0.
new c42f6d6a18 gnu: python-pgmpy: Update to 1.0.0.
new e8e46bbeb5 gnu: python-qasync: Ignore failing test.
new db14ce5c4d gnu: python-bed-reader: Fix build and enable tests.
new e58d654373 gnu: python-pysnptools: Fix build and enable tests.
new f29a7770d3 gnu: Add python-poetry-core-next.
new 9938b7cc49 gnu: python-duniterpy: Update to 1.2.1.
new 6363f5002c gnu: python-pgpy: Fix tests.
new 22416fb20d gnu: python-furl: Update to 2.1.4.
new b717b894a0 gnu: python-rq: Update to 2.3.1.
new 4fe1a73ab8 gnu: python-crontab: Update to 3.2.0.
new 180a69e23a gnu: python-stone: Update to 3.3.9.
new 8021ffb34c gnu: python-rq-scheduler: Update to 0.14.
new d7817735b2 gnu: python-port-for: Update to 0.7.4.
new c4bc6cf49f gnu: Remove python-cookies.
new 01c5ceeb46 gnu: python-django-rq: Update to 3.0.0.
new 22c2ef5fcf gnu: python-flask-seasurf: Update to 2.0.0.
new 42b7d5b777 gnu: python-country-converter: Add missing native-input.
new 400b431b03 gnu: python-itemloaders: Update to 1.3.2.
new 6cd3a6595f gnu: python-decoupler-py: Update to 1.8.0.
new 77a60228ed gnu: python-scrapy: Run test in parallel.
new 32b3bcefd1 gnu: python-dropbox: Move python-web.
new c5a3f8f9c6 gnu: python-dropbox: Enable tests.
new 5533ba9fdb gnu: python-pymc: Update to 5.21.0.
new d78bd13918 gnu: python-orange-canvas-core: Fix tests.
new 10f551614b gnu: python-sanic: Update to 25.3.0.
new 27858d9aff gnu: python-stem: Update to 1.8.2.
new 0a369a73cb gnu: python-lazr-delegates: Update to 2.1.1.
new e4cdcbbcbb gnu: python-lazr-config: Update to 3.1.
new 95e8a42360 gnu: python-lap: Update to 0.5.12.
new fd03c6feed gnu: Remove python-pydiff.
new b708d41795 gnu: pomegranate: Disable tests.
new 4056a5eb3b gnu: python-pymodbus: Update to 3.8.6.
new b26969865f gnu: python-flufl-lock: Update to 8.1.0.
new 0d41651da2 gnu: python-flufl-i18n: Update to 5.1.0.
new ea99274af3 gnu: cnvkit: Update to 0.9.12.
new 3c62e5b2bd gnu: python-authheaders: Update to 0.16.3.
new 27fa740f79 gnu: mailman: Update to 3.3.10.
new a133331ee8 gnu: python-mailman-hyperkitty: Update to 1.2.1.
new 7de2ae6945 gnu: python-u2flib-host: Fix build.
new de25335437 gnu: python-ledgerblue: Fix version detection.
new e98fdeab2e gnu: ledger-agent: Switch to pyproject-build-system.
new 8d6d1dc611 gnu: python-gixy: Rename package to python-gixy-ng.
new 13a2c019c2 gnu: python-ujson: Update to 5.10.0.
new 239c9d829d gnu: bpytop: Switch to pyproject-build-system.
new 08c613ecb7 gnu: python-wxpython: Update to 4.2.2.
new 40015f816d gnu: python-redis: Ignore i686 failing test.
new 41b2716442 gnu: glm: Update to 1.0.1.
new 1208fe94e0 gnu: python-pyglm: Update to 2.8.1.
new 4c08d7037a gnu: python-pyglm: Move to maths.
new 149905f81b gnu: python-aenum: Update to 3.1.15.
new ae0082fb81 gnu: python-shiboken-2: Update to 5.15.16.
new baf696f281 gnu: python-urllib3-next: Update to 2.3.0.
new cf6e0232f3 gnu: python-qrcode: Update to 8.0.
new 4db0aaf4ad gnu: Add python-gevent-websocket.
new ebcf3311fa gnu: onionshare-cli: Update to 2.6.3.
new b130569ee9 gnu: python-precis-i18n: Update to 1.1.1.
new b25672f156 gnu: python-transformers: Adjust inputs.
new 168154c6b6 gnu: Remove python-caniusepython3.
new 20591361e1 gnu: Remove python-webcolors-24.
new e63728d0f0 gnu: Remove python-networkx-next.
new 78405c1df8 gnu: Remove python-sphinx-autodoc-typehints-5.
new 2b8dd22bb9 gnu: python-eventlet: Update to 0.39.1.
new 55d7b8f1f6 gnu: gunicorn: Migrate 'check phase to
pyproject-build-system.
new f1e81d8dcb gnu: python-carbon: Update to 1.1.10.
new 0fd283c178 gnu: Add python-rrdtool.
new 6b1426e755 gnu: graphite-web: Update to 1.1.10-2.49c28e2.
new 6b2c5900dd gnu: python-cfn-lint: Update to 1.28.0.
new e8600e72b0 gnu: patchwork: Update to 3.2.1.
new 303f7ced33 gnu: Remove python-django-3.2.
new a951453fb7 gnu: sphinx-5: Ignore failing test.
new 7424092d84 gnu: python-sphinx-panels: Update input to python-sphinx-5.
new 88a160fe3f gnu: scons: Update to 4.5.0.
new 9faf277083 gnu: python-numpy-documentation: Update python-sphinx
native-input.
new db1d768acb gnu: Remove python-sphinx-4.
new 568867b62e gnu: python-docutils-0.15: Update to 0.16.
new 77254ef42d gnu: python-jplephem-build: Fix build.
new b09cf29ad4 gnu: python-importlib-resources: Update python-setuptools
input.
new 581945709f gnu: python-louvain: Use pyproject-build-system.
new 0daef2ffdf gnu: Remove python-setuptools-57.
new 5fc0d555f4 gnu: Add python-argparse-dataclass.
new 18ef23a5ad gnu: Add python-snakemake-interface-common.
new ef1180807c gnu: Add python-snakemake-interface-executor-plugins.
new 499eda24b3 gnu: Add python-snakemake-interface-report-plugins.
new b6c69075cb gnu: Add
python-snakemake-interface-software-deployment-plugins.
new 5ae21052de gnu: Add python-snakemake-interface-storage-plugins.
new cdc3d522e5 gnu: Add python-conda-inject.
new 6dd0d0fd90 gnu: Add snakemake.
The 314 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "add" were already present in the repository and have only
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