Commit graph

152807 commits

Author SHA1 Message Date
Sharlatan Hellseher
e5a8ecfe3d
gnu: python-geopy: Update to 2.4.1.
* gnu/packages/geo.scm (python-geopy): Update to 2.4.1.
[build-system]: Swap to pyproject-build-system.
[arguments] <test-flags>: Skip tests requiring Internet.
[native-inputs]: Remove python-async-generator, python-coverage,
python-flake8, python-isort, python-pytest-aiohttp, and
python-readme-renderer; add python-docutils, python-pytest-asyncio,
python-setuptools, and python-wheel.

Change-Id: I051f6b9a98e6adb0e72dd3e57a73ee66c5df4b86
2025-01-17 15:28:05 +00:00
Sharlatan Hellseher
e5b86b18e7
gnu: python-geographiclib: Update to 2.0.
* gnu/packages/geo.scm (python-geographiclib): Update to 2.0.
[build-system]: Swap to pyproject-build-system.
[native-inputs]: Add python-pytest, python-setuptools, and python-wheel.

Change-Id: I066cecab0a6934a5f18867b248b97d7a193c1d36
2025-01-17 15:27:45 +00:00
Ricardo Wurmus
2e0a4d9a86
gnu: python-pandas-vet: Update to 2023.8.2.
* gnu/packages/python-check.scm (python-pandas-vet): Update to 2023.8.2.
[arguments]: Add phase 'set-version.
[native-inputs]: Add python-hatchling and python-pytest-cov.

Change-Id: I2b6352ba70b8862a1103983a0574ab4d635942ab
2025-01-17 14:03:04 +01:00
Ricardo Wurmus
1e036a619b
gnu: python-bigfloat: Fix build.
* gnu/packages/python-xyz.scm (python-bigfloat)[source]: Add snippet to delete
generated file.
[build-system]: Use pyproject-build-system.
[arguments]: Disable one test; add phase 'cythonize.
[native-inputs]: Add python-cython, python-pytest, python-setuptools, and
python-wheel.

Change-Id: If535051bbe7f223feb2a04b0b044a631c906f213
2025-01-17 13:46:51 +01:00
Ricardo Wurmus
a3beb97865
gnu: python-ipfsspec: Add missing inputs.
* gnu/packages/python-xyz.scm (python-ipfsspec)[native-inputs]: Add
python-setuptools and python-wheel.

Change-Id: I763c22207f1b1bb5af5eb5667a060ab01757c864
2025-01-17 13:34:39 +01:00
Ricardo Wurmus
a435fafb7c
gnu: python-contexttimer: Add missing inputs.
* gnu/packages/python-xyz.scm (python-contexttimer)[native-inputs]: Add
python-setuptools and python-wheel.

Change-Id: I1d6e1efe869624c1da47332c8a000f88b458c193
2025-01-17 13:33:31 +01:00
Ricardo Wurmus
aa26ab7ceb
gnu: python-psycopg: Update to 3.2.4.
* gnu/packages/databases.scm (python-psycopg): Update to 3.2.4.
[build-system]: Use pyproject-build-system.
[arguments]: Simplify phases; restore 'sanity-check.
[native-inputs]: Add python-setuptools and python-wheel.

Change-Id: Iec2949c7e01e0dff2893181c3a49e8e3a3319446
2025-01-17 10:42:04 +01:00
Ricardo Wurmus
c61038d20c
gnu: python-sphinx-5: Disable one failing test.
* gnu/packages/sphinx.scm (python-sphinx-5)[arguments]: Disable one test.

Change-Id: I97e5d4df511e11ac1335baaf99df839d5e58ed18
2025-01-17 10:22:29 +01:00
Ricardo Wurmus
1a18583eaf
gnu: python-apiron: Add missing inputs.
* gnu/packages/python-web.scm (python-apiron)[native-inputs]: Add
python-setuptools and python-wheel.

Change-Id: I98c35266870e2b2a9fa59f933350592cd0269721
2025-01-17 10:21:59 +01:00
Ricardo Wurmus
d8d24d5e63
gnu: Move python-pysnptools to (gnu packages bioinformatics).
* gnu/packages/python-xyz.scm (python-pysnptools): Move from here...
* gnu/packages/bioinformatics.scm (python-pysnptools): ...to here.

Change-Id: I4dbd9cbe3f2d9a6dd4906be79b78862b39a57c28
2025-01-16 22:53:44 +01:00
Ricardo Wurmus
9fab26b565
gnu: python-pysnptools: Update to 0.5.14.
* gnu/packages/python-xyz.scm (python-pysnptools): Update to 0.5.14.
[build-system]: Use pyproject-build-system.
[arguments]: Remove custom 'check phase.
[propagated-inputs]: Remove python-dill; add python-bed-reader,
python-cloudpickle, and python-more-itertools.
[native-inputs]: Remove python-cython; add python-pytest, python-pytest-cov,
python-pytest-datadir, python-pytest-doctestplus, python-setuptools,
python-sphinx, python-sphinx-rtd-theme, and python-wheel.

Change-Id: I685f819e70ab209198b504c6e41b253dc5a1d876
2025-01-16 22:53:11 +01:00
Ricardo Wurmus
1091274ee0
gnu: Add python-bed-reader.
* gnu/packages/bioinformatics.scm (python-bed-reader): New variable.

Change-Id: Iad3f1d1c05abe706d8cd52a4d046247a5a9738e2
2025-01-16 22:51:22 +01:00
Ricardo Wurmus
251c7a2049
gnu: Add rust-numpy-0.22.
* gnu/packages/crates-io.scm (rust-numpy-0.22): New variable.

Change-Id: Iba01905cb4284671771c195f8777e4c8179683b2
2025-01-16 22:51:07 +01:00
Ricardo Wurmus
bc863f92b0
gnu: Add rust-rusoto-credential-0.48.
* gnu/packages/crates-web.scm (rust-rusoto-credential-0.48): New variable.

Change-Id: I22ff3f5a1b27bbbd3ca9204e26b9c6dadd440c53
2025-01-16 22:50:52 +01:00
Ricardo Wurmus
ff4c5090b3
gnu: Add rust-ndarray-rand-0.15.
* gnu/packages/crates-io.scm (rust-ndarray-rand-0.15): New variable.

Change-Id: I67863ccb0fdb7b74b40985a8162a2cfb6f236def
2025-01-16 22:50:35 +01:00
Ricardo Wurmus
35d6da84d7
gnu: Add rust-ndarray-npy-0.9.
* gnu/packages/crates-io.scm (rust-ndarray-npy-0.9): New variable.

Change-Id: I69bb42218e09a32250e8feeee0d6ca8e0a1a9845
2025-01-16 22:50:28 +01:00
Ricardo Wurmus
992a9a4380
gnu: Add rust-object-store-0.11.
* gnu/packages/crates-io.scm (rust-object-store-0.11): New variable.

Change-Id: If6009cfde48eeffde5bc4055c943c4fe8a6ff797
2025-01-16 22:50:04 +01:00
Ricardo Wurmus
acfbddc0ff
gnu: Add rust-statrs-0.17.
* gnu/packages/crates-io.scm (rust-statrs-0.17): New variable.

Change-Id: I3c7ea9f6ecb2d635e62f5e655d9291064ff4b25a
2025-01-16 22:49:47 +01:00
Ricardo Wurmus
7efaff9249
gnu: Add rust-py-literal-0.4.
* gnu/packages/crates-io.scm (rust-py-literal-0.4): New variable.

Change-Id: Ie5b845a642bf862f062d3160e856969da9b21f3a
2025-01-16 22:49:36 +01:00
Ricardo Wurmus
37036b5db5
gnu: Add rust-fetch-data-0.2.
* gnu/packages/crates-io.scm (rust-fetch-data-0.2): New variable.

Change-Id: Ie323074ac7bbe648b17a08ae13305d7bad466879
2025-01-16 22:49:15 +01:00
Ricardo Wurmus
047ddafae8
gnu: Add rust-dpc-pariter-0.4.
* gnu/packages/crates-io.scm (rust-dpc-pariter-0.4): New variable.

Change-Id: I6e6f278e62f3b68ce7211fb01cc109bbf5db42f1
2025-01-16 22:48:44 +01:00
Ricardo Wurmus
b8d1608db1
gnu: Add rust-cloud-file-0.2.
* gnu/packages/crates-io.scm (rust-cloud-file-0.2): New variable.

Change-Id: Ib41346daa3a225a88549c320c4f46600c6276526
2025-01-16 22:48:39 +01:00
Ricardo Wurmus
993e968294
gnu: Add rust-anyinput-0.1.
* gnu/packages/crates-io.scm (rust-anyinput-0.1): New variable.

Change-Id: I5347d8bb51b18c6de5026d0e598fdbdea360a15d
2025-01-16 22:48:29 +01:00
Ricardo Wurmus
cba7ebb064
gnu: Add rust-anyinput-derive-0.1.
* gnu/packages/crates-io.scm (rust-anyinput-derive-0.1): New variable.

Change-Id: If0e113e1822fb110ea8b11019d87aad899da90c3
2025-01-16 22:48:24 +01:00
Ricardo Wurmus
5a927dd5f8
gnu: Add rust-anyinput-core-0.1.
* gnu/packages/crates-io.scm (rust-anyinput-core-0.1): New variable.

Change-Id: I158924de285938697ad286a44936a93ecb440f4a
2025-01-16 22:48:13 +01:00
Ricardo Wurmus
a875389ba2
gnu: Add rust-ndarray-0.16.
* gnu/packages/crates-io.scm (rust-ndarray-0.16): New variable.

Change-Id: Idce1bf031c473b803d8c6e3b9cc7505277cad91c
2025-01-16 22:47:55 +01:00
Ricardo Wurmus
a4d4810b36
gnu: wllvm: Add missing inputs.
* gnu/packages/llvm.scm (wllvm)[native-inputs]: Add python-setuptools and
python-wheel.

Change-Id: I080f132763607f7bc5f4609c993bd2a067cd9be4
2025-01-16 22:14:16 +01:00
Ricardo Wurmus
1afb593149
gnu: python-more-itertools: Update to 10.6.0.
* gnu/packages/python-xyz.scm (python-more-itertools-next): Rename this
variable...
(python-more-itertools): ...to this; update to 10.6.0.
[propagated-inputs]: Remove python-six.
* gnu/packages/astronomy.scm (python-yt)[propagated-inputs]: Replace
python-more-itertools-next with python-more-itertools.

Change-Id: I2fef91f87afde2b2659dd25b831fb13b4c118454
2025-01-16 22:12:56 +01:00
Ricardo Wurmus
ada4156a6c
gnu: python-incremental: Update to 24.7.2.
* gnu/packages/python-xyz.scm (python-incremental): Update to 24.7.2.
[build-system]: Use pyproject-build-system.
[arguments]: Add phase 'patch-build-system; disable tests.
[native-inputs]: Add python-pytest, python-setuptools, and python-wheel.
[propagated-inputs]: Add python-tomli.

Change-Id: I6c49f2da746398d469f6fdc611fc08cfbe72a0e1
2025-01-16 22:12:56 +01:00
Ricardo Wurmus
9881ea646d
gnu: python-gymnasium: Add missing input.
* gnu/packages/machine-learning.scm (python-gymnasium)[native-inputs]: Add
python-wheel.

Change-Id: I118aa4283767906c59a6daa93d0ba01bfbfb6029
2025-01-16 22:12:55 +01:00
Sharlatan Hellseher
a38cf46c5a
gnu: Remove python-pytest-lazy-fixture.
Failed to build, have no users in Guix, not maintained for 3 years.
See <https://github.com/TvoroG/pytest-lazy-fixture/issues/63>.

* gnu/packages/check.scm (python-pytest-lazy-fixture): Delete variable.

Change-Id: Icce5010704f20a5530ff9fd702e5c0cc694cc0ec
2025-01-16 14:27:44 +00:00
Sharlatan Hellseher
87a358a8a3
gnu: python-cleanlab: Update to 2.7.0.
* gnu/packages/machine-learning.scm (python-cleanlab): Update to 2.7.0.
[arguments] <test-flags>: Ignore tests requiring Hugging Face datasets.
[native-inputs]: Remove python-pytest-lazy-fixture; add
python-typing-extensions.

Change-Id: I7988b4c0b6dff10a44d4a1fbffa48b950158302c
2025-01-16 14:25:45 +00:00
Ricardo Wurmus
ad7be46ae4
gnu: python-scrapy: Update to 2.12.0.
* gnu/packages/python-web.scm (python-scrapy): Update to 2.12.0.
[arguments]: Update list of disabled tests.
[propagated-inputs]: Remove python-botocore and python-setuptools; add
python-packaging and python-typing-extensions.
[native-inputs]: Add python-mypy and python-setuptools; remove
python-pyftpdlib and python-uvloop.

Change-Id: If747801ccbb6047b8d1a98714dafae8ab3743b07
2025-01-16 14:09:00 +01:00
Ricardo Wurmus
a58cb6b365
gnu: python-pplpy: Add missing inputs.
* gnu/packages/sagemath.scm (python-pplpy)[native-inputs]: Add
python-setuptools and python-wheel.

Change-Id: I1da4130ddedeefbe71ae07c3885ae0e5fa1f8204
2025-01-16 14:03:33 +01:00
Ricardo Wurmus
9107da5ff2
gnu: python-internetarchive: Update to 5.1.0.
* gnu/packages/web.scm (python-internetarchive): Update to 5.1.0.
[source]: Remove snippet.
[build-system]: Use pyproject-build-system.
[arguments]: Remove custom 'check phase; use test-flags.
[propagated-inputs]: Add python-importlib-metadata and python-tqdm; update
python-jsonpatch and python-schema.
[native-inputs]: Add nss-certs-for-test, python-setuptools, and python-wheel.

Change-Id: I8b5ea44e118ccb30b4e470957823a3f4dde89f43
2025-01-16 14:03:33 +01:00
Ricardo Wurmus
af87b23443
gnu: python-hdf4: Update to 0.9.2.
* gnu/packages/python-xyz.scm (python-hdf4): Update to 0.9.2.
[build-system]: Use pyproject-build-system.
[arguments]: Remove custom 'check phase; add phase 'build-extensions.
[native-inputs]: Remove python-nose; add python-pytest, python-setuptools, and
python-wheel.
[inputs]: Drop labels.

Change-Id: I96312f9509fae89a4c21a58b593ccb87952e0332
2025-01-16 14:03:33 +01:00
Sharlatan Hellseher
0140246528
gnu: python-maxminddb: Update to 2.6.3.
* gnu/packages/geo.scm (python-maxminddb): Update to 2.6.3.
[arguments] <tests?>: Enable them as no maxmind database is required.
[native-inputs]: Add python-pytest, python-setuptools, and python-wheel.

Change-Id: Ie4aaa559384c75942da83afdcca0a22a7c5ced1c
2025-01-16 10:26:21 +00:00
Ricardo Wurmus
e62a80adef
gnu: python-fanc: Update to 0.9.28.
* gnu/packages/bioinformatics.scm (python-fanc): Update to 0.9.28.
[arguments]: Remove custom 'check phase; disable tests that seemingly freeze.
[propagated-inputs]: Add python-imageio, python-pywavelets, and
python-tifffile; remove python-pytest.
[native-inputs]: Add python-pytest, python-setuptools, and python-wheel.

Change-Id: Ia83f5fe1d0cbbf56840061feb9561e439380e965
2025-01-16 10:19:26 +01:00
Ricardo Wurmus
b951dc9f10
gnu: Deprecate fanc.
fanc is a duplicate of python-fanc.

* gnu/packages/bioinformatics.scm (fanc): Define as deprecated name for
python-fanc.

Change-Id: I28e330d9bfe64fd59b49001ecc56e2c6fd191b55
2025-01-16 10:19:23 +01:00
Ricardo Wurmus
c515a9de91
gnu: python-nbstripout: Update to 0.8.1.
* gnu/packages/jupyter.scm (python-nbstripout): Update to 0.8.1.
[arguments]: Update test flags.
[native-inputs]: Remove python-pytest-cram, python-pytest-flake8, and
python-pytest-runner.

Change-Id: I308ae787f7777ef11661ce8ef8802e13fa743509
2025-01-16 10:17:51 +01:00
宋文武
7a2ef0a233
gnu: python-flask-misaka: Update to 1.0.1.
* gnu/packages/python-web.scm (python-flask-misaka): Update to 1.0.1.
[build-system]: Switch to pyproject-build-system.
[native-inputs]: Add python-flask, python-pytest, python-setuptools and
python-wheel.  Remove python-coverage and python-mock.
[propagated-inputs]: Add python-markupsafe.  Remove python-flask.

Change-Id: Ib737e6268f98227909606753ffe8d9f72c539f73
2025-01-16 10:17:51 +01:00
宋文武
0972668851
gnu: python-flask-migrate: Update to 4.1.0.
* gnu/packages/python-web.scm (python-flask-migrate): Update to 4.1.0.
[build-system]: Switch to pyproject-build-system.
[native-inputs]: Add python-pytest, python-setuptools and python-wheel.

Change-Id: I39742c22619c6c3fca51f954c0930c2ccf0d4577
2025-01-16 10:17:51 +01:00
宋文武
620cbd055f
gnu: python-alembic: Use python-sqlalchemy-2.
* gnu/packages/databases.scm (python-alembic)[propagated-inputs]:
Replace python-sqlalchemy with python-sqlalchemy-2.

Change-Id: I49ad961eac3bcba5eaee05083e5299f17a8fae33
2025-01-16 10:17:50 +01:00
宋文武
e53ae0b1cd
gnu: python-hsluv: Fix build.
* gnu/packages/python-xyz.scm (python-hsluv)[native-inputs]: Add
python-setuptools and python-wheel.

Change-Id: I4dbed681c4f1a83b0300dc9611cdf89072591389
2025-01-16 10:17:50 +01:00
宋文武
cb6033d088
gnu: python-gpxpy: Fix build.
* gnu/packages/python-xyz.scm (python-gpxpy)[native-inputs]: Add
python-setuptools and python-wheel.

Change-Id: I89d4360ed6502c84580bface08dba850c5d9efe1
2025-01-16 10:17:50 +01:00
宋文武
71b28bc872
gnu: python-glom: Update to 24.11.0.
* gnu/packages/python-xyz.scm (python-glom): Update to 24.11.0.

Change-Id: I37c849475cedd1ecd812f896553a9deeabb00c3d
2025-01-16 10:17:50 +01:00
宋文武
ea2f82bc96
gnu: python-daemux: Fix build.
* gnu/packages/tmux.scm (python-daemux)[native-inputs]: Add python-flake8.

Change-Id: I0e3ec537c6722643ebb9ebc243230101bb2547ca
2025-01-16 10:17:50 +01:00
宋文武
5998de1709
gnu: python-ebooklib: Fix build.
* gnu/packages/ebook.scm (python-ebooklib)[native-inputs]: Add
python-setuptools and python-wheel.

Change-Id: Iba564c2b091b4a268d7727c5ad03dcef1b59ed62
2025-01-16 10:17:50 +01:00
宋文武
4f1bcccdff
gnu: python-eliot: Update to 1.16.0.
* gnu/packages/python-xyz.scm (python-eliot): Update to 1.16.0.
[propagated-inputs]: Add python-orjson.  Remove python-six.
[native-inputs]: Add python-pytest-xdist and python-wheel.  Remove python-dask.

Change-Id: Ibc6eeb5fe4475bf2145a8ab72aa82f17a14bf9f0
2025-01-16 10:17:50 +01:00
宋文武
f1156469fb
gnu: Remove python-lirc.
Archived in 2020.11, the new way to configure keymaps is using ir-keytable
which comes with v4l-utils.

* gnu/packages/lirc.scm (python-lirc): Remove variable.

Change-Id: I7f28e6f818705f6a616904951e07a33bbfb081d9
2025-01-16 10:17:50 +01:00