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2024-02-10gnu: Add python-scikit-opt.TimotheeMathieu
* gnu/packages/python-science.scm (python-scikit-opt): New variable. Change-Id: I47d6b35d9658a37a242b4db61d293fa7efd33802 Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2024-02-06gnu: python-traittypes: Simplify package.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-traittypes) [build-system]: Swap to pyproject-build-system. [arguments]: Move excluded tests to <#:test-flags>. Use standard 'check phase. Change-Id: I4cab0c94036a7e5f0851edf2833dfac2f675d2a0
2024-02-06gnu: python-pynrrd: Update to 1.0.0.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-pynrrd): Update to 1.0.0. [arguments]: Keep 'ensure-no-mtimes-pre-1980 phase as it's building with it successfully. [propagated-inputs]: Add python-nptyping and python-typing-extensions. Change-Id: Ic4dcd0825e71d3eb4acd39694bee9e22e8485f9f
2024-02-06gnu: python-pynrrd: Improve description.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-pynrrd) [description]: Add definition of NRRD. Change-Id: I0335df0eb4be600d81799da64374ddfb49b06720
2024-02-06gnu: Add python-pynrrd.Antero Mejr
* gnu/packages/python-science.scm (python-pynrrd): New variable. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-02-01gnu: Add python-pandarallel.Wiktor Żelazny
* gnu/packages/python-science.scm (python-pandarallel): New variable. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-01-30gnu: python-scipy: Enable building on more architectures.Efraim Flashner
* gnu/packages/python-science.scm (python-scipy)[propagated-inputs]: Only include python-jupytext on systems where it is supported. Change-Id: Ic085094e4e3977e4c0698e8c03de09ee8e70f144
2024-01-29gnu: Add python-pyjanitor.Troy Figiel
* gnu/packages/python-science.scm (python-pyjanitor): New variable. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-01-29gnu: Add python-unyt.Troy Figiel
* gnu/packages/python-science.scm (python-unyt): New variable. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-01-28gnu: python-pyamg: Regenerate bundled files.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-pyamg) [source]: Delete auto-generated files. [arguments] <#:phases>: Add 'amg-core-bind-them phase to re-generate *_bind.cpp files deleted in snippet. [native-inputs]: Add python-cppheaderparser and python-pyyaml. [description]: Improve style, omit implementation details. Change-Id: I6f68914cd912e6f4592e51c21b129847e73be847
2024-01-28gnu: python-trimesh: Enable tests.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-trimesh): Enable tests and apply new package style. [source]: Use git checkout which has working test suit. [arguments] <#:test-flags>: Disable tests requiring optional Python modules. [propagated-inputs]: Add python-chardet, python-colorlog python-httpx python-jsonschema python-lxml python-networkx python-pillow python-requests python-rtree python-scipy python-setuptools python-shapely python-sympy and python-xxhash. Change-Id: I1aa363053c2d736bc44b8f9071c637256cc2d952
2024-01-28gnu: python-trimesh: Update to 4.0.10.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-trimesh): Update to 4.0.10. [build-system]: Swap to pyproject-build-system. Change-Id: I757b4c27db9969d42021434883a057debbbc83fd
2024-01-24gnu: python-xarray-einstats: Update to 0.7.0.Vinicius Monego
* gnu/packages/python-science.scm (python-xarray-einstats): Update to 0.7.0. Change-Id: Iddd1fca8c37f05a928d20b90f9f95814f31435b2
2024-01-24gnu: python-pyts: Update to 0.13.0.Ricardo Wurmus
* gnu/packages/python-science.scm (python-pyts): Update to 0.13.0. [build-system]: Use pyproject-build-system. [arguments]: Remove custom 'check phase; enable all tests. [propagated-inputs]: Remove python-matplotlib. Change-Id: Iafcc047d8bb14e1eef514fd92aa53f8fda38eab0
2024-01-23gnu: python-pydicom: Update to 2.4.4.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-pydicom): Update to 2.4.4. Change-Id: I996115fb3bdf0bd61d2b2dcdb2500b31ce104597
2024-01-23gnu: python-pydicom: Simplify package style.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-pydicom)[build-system]: Swap to pyproject-build-system. [description]: Simplify wording, indent. Change-Id: I7ef413ea2da6cbb83eb33424c559f7ac5ed549cb
2024-01-23gnu: python-pynetdicom: Simplify package style.Sharlatan Hellseher
* gnu/package/python-science.scm (python-pynetdicom)[build-system]: Swap to pyproject-build-system. [description]: Simplify wording, indent. Change-Id: If4e80d06edb0080685d0695f30abc2f9db669f45
2024-01-23gnu: Add python-pynetdicom.Antero Mejr
* gnu/packages/python-science.scm (python-pynetdicom): New variable. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-01-23gnu: python-scipy: Update to 1.12.0.Ricardo Wurmus
* gnu/packages/python-science.scm (python-scipy): Update to 1.12.0. [propagated-inputs]: Add python-jupytext, python-mpmath, python-mypy, python-numpydoc, python-pydata-sphinx-theme, python-pydevtool, python-rich-click, python-sphinx, python-threadpoolctl, and python-typing-extensions; remove python-pyparsing. [native-inputs]: Add python-hypothesis, python-pycodestyle, python-pytest-cov, and python-pytest-xdist; remove python-threadpoolctl. Change-Id: I81a4831e3d94c58416f7d35ec47de90370b88210
2024-01-22gnu: python-tdda: Remove relax-requirements phase.Troy Figiel
* gnu/packages/python-science.scm (python-tdda)[arguments]<#:phases>: Remove relax-requirements phase. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-01-21gnu: python-scikit-fem: Update to 9.0.1.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-scikit-fem): Update to 9.0.1. [arguments]<#:test-flags>: Drop it to activate all tests. [native-inputs]: Add python-autograd, python-pyamg, and python-shapely. Change-Id: Ic4706196026bd5756b4db8230b15efacdca7d463
2024-01-21gnu: Add python-pyamg.Felix Gruber
* gnu/packages/python-science.scm (python-pyamg): New variable. Change-Id: Ibf39fecd14d4e6fd72078b217737e5e5cbbf2321 Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-01-20gnu: python-pandera: Fix build.Troy Figiel
* gnu/packages/python-science.scm (python-pandera): Fix build. [source]: Delete tests/modin directory. [native-inputs]: Remove python-modin. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-01-20gnu: python-pandas-stubs: Update to 1.5.3.230321.Troy Figiel
* gnu/packages/python-science.scm (python-pandas-stubs): Update to 1.5.3.230321. [arguments]<#:test-flags>: Ignore tests that require a version of python-pyarrow with ORC integration. [native-inputs]: Add python-odfpy. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-01-18gnu: python-plotnine: Reformat with guix style.Troy Figiel
* gnu/packages/python-science.scm (python-plotnine): Reformat with guix style. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-01-18gnu: python-plotnine: Fix build.Troy Figiel
* gnu/packages/python-science.scm (python-plotnine): Fix build. [arguments]<#:test-flags>: Add test_custom_shape to ignored tests. Co-authored-by: Sharlatan Hellseher <sharlatanus@gmail.com> Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-01-17gnu: Add python-pandera.Troy Figiel
* gnu/packages/python-science.scm (python-pandera): New variable.
2024-01-17gnu: Add python-pandas-stubs.Troy Figiel
* gnu/packages/python-science.scm (python-pandas-stubs): New variable.
2024-01-16gnu: python-deepdish: Fix build.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-deepdish): Fix build. [build-system]: Swap to pyproject-build-system. [arguments]<#:test-flags>: Silent failing tests. Change-Id: I4c4df66fc80434aaf5b95a7a62b83e0c1c02a4c6
2024-01-16gnu: python-xarray: Update to 2023.12.0.Ricardo Wurmus
* gnu/packages/python-science.scm (python-xarray): Update to 2023.12.0. [arguments]: Ignore one test file. [propagated-inputs]: Add python-packaging. Change-Id: I6b70f59670f7bc8b56787fe3436579db8ac113bb
2024-01-16gnu: python-pandas: Update to 1.5.3.Ricardo Wurmus
* gnu/packages/python-science.scm (python-pandas): Update to 1.5.3. [build-system]: Use pyproject-build-system. [arguments]: Use G-expression; move test flags to #:test-flags; add phase 'patch-build-system; fix substitution of "which" executable; remove 'enable-parallel-build; remove custom 'check phase; add 'pre-check phase. [propagated-inputs]: Add python-matplotlib. [native-inputs]: Replace python-cython with python-cython-0.29.35. Change-Id: I9d09971f707b925f469e29be67fe040c181314ff
2024-01-16gnu: python-scikit-optimize: Make compatible with latest sklearn.Ricardo Wurmus
* gnu/packages/python-science.scm (python-scikit-optimize)[source]: Add snippet to fix outdated use of "max_features" option. Change-Id: I4272ffc82b4951315b74b4adee27527e8d513fca
2024-01-16gnu: python-scikit-image: Update to 0.22.0.Ricardo Wurmus
* gnu/packages/python-science.scm (python-scikit-image): Update to 0.22.0. [source]: Fetch from git repository. [build-system]: Use pyproject-build-system. [arguments]: Use G-expression; remove custom 'build phase; simplify 'check phase; enable all tests. [propagated-inputs]: Add python-lazy-loader. [native-inputs]: Add meson-python, python-numpydoc, python-packaging, and python-wheel. Change-Id: I00ede026a7941eae36157106f753a21fb64099c3
2024-01-16gnu: python-scipy: Update to 1.11.4.Ricardo Wurmus
* gnu/packages/python-science.scm (python-scipy): Update to 1.11.4. [arguments]: Use mesonpy backend. [inputs]: Replace pybind11 with pybind11-2.10. [native-inputs]: Add python-click, python-doit, python-pooch, and python-pydevtool; replace python-cython with python-cython-0.29.35. Change-Id: I4b26e1b6382899bba24f84461f154e97765e08f5
2024-01-10gnu: python-distributed: Disable breaking test.Ricardo Wurmus
This test times out since the merge of the mesa-updates branch. * gnu/packages/python-science.scm (python-distributed)[arguments]: Disable test_tell_workers_when_peers_have_left. Change-Id: Ib65b971a3a821ea13d36a4be60658ffc366ca6ac
2023-12-15gnu: python-vaex-core: Add missing input.Ricardo Wurmus
* gnu/packages/python-science.scm (python-vaex-core)[propagated-inputs]: Add python-click. Change-Id: Id91e925832ed107d5b346ba513a9825dc31481f6
2023-12-05gnu: python-pytensor: Update to 2.18.1.Vinicius Monego
* gnu/packages/python-science.scm (python-pytensor): Update to 2.18.1. Change-Id: I7992d8a00c378c008995df3d026c3e05c235ae6d
2023-12-05gnu: python-gpy: Adjust for newer python.Efraim Flashner
* gnu/packages/python-science.scm (python-gpy)[source]: Add snippet to adjust python module imports. Change-Id: I0772febb97d75e0a0caa331913c9e7453d11e70d
2023-12-04gnu: Add python-pyfma.Felix Gruber
* gnu/packages/python-science.scm (python-pyfma): New variable. Change-Id: I354d3d56f2799c8c9ac9b868fcacbf88dcc5c25d Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-12-04gnu: Add python-meshzoo.Felix Gruber
* gnu/packages/python-science.scm (python-meshzoo): New variable. Change-Id: Ia41d62ebd6c4cb3c22ebe0668c36279a9ca191ac Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-11-15gnu: Add python-tdda.Troy Figiel
* gnu/packages/python-science.scm (python-tdda): New variable. Change-Id: I456aa236b3348e5b990289d8a381c2d5276a12f1 Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-11-03gnu: python-pytensor: Update to 2.17.3.Vinicius Monego
* gnu/packages/python-science.scm (python-pytensor): Update to 2.17.3. Change-Id: I2843aca1df4d43883bf643e6e363bd3700202c45
2023-11-03gnu: Add python-salib.Vinicius Monego
* gnu/packages/python-science.scm (python-salib): New variable.
2023-10-17gnu: python-trimesh: Update to 3.23.5.Paul A. Patience
* gnu/packages/python-science.scm (python-trimesh): Update to 3.23.5. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-17gnu: python-pyvista: Update to 0.42.3.Paul A. Patience
* gnu/packages/python-science.scm (python-pyvista): Update to 0.42.3. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-08gnu: python-distributed: Disable failing tests.Nicolas Graves
* gnu/packages/python-science.scm (python-distributed): Disable failing tests. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-09-30gnu: Add python-numpoly.Vinicius Monego
* gnu/packages/python-science.scm (python-numpoly): New variable.
2023-08-05gnu: python-pytensor: Update to 2.14.2.Vinicius Monego
* gnu/packages/python-science.scm (python-pytensor): Update to 2.14.2. [native-inputs]: Add python-pytest-mock.
2023-07-29gnu: Add python-scikit-fem.Vinicius Monego
* gnu/packages/python-science.scm (python-scikit-fem): New variable.
2023-07-15gnu: python-distributed: Update to 2023.7.0.Ricardo Wurmus
* gnu/packages/python-science.scm (python-distributed): Update to 2023.7.0.
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