summaryrefslogtreecommitdiff
path: root/gnu/packages/python-science.scm
AgeCommit message (Collapse)Author
2025-04-16gnu: Add python-snakemake-interface-report-plugins.Nicolas Graves
* gnu/packages/python-science.scm (python-snakemake-interface-report-plugins): New variable. Change-Id: I8705ba63df668d46ffda575b18ee97bb65acdc6c Signed-off-by: Steve George <steve@futurile.net>
2025-04-16gnu: Add python-snakemake-interface-executor-plugins.Nicolas Graves
* gnu/packages/python-science.scm (python-snakemake-interface-executor-plugins): New variable. Change-Id: I6bd9c6aec7293b8412c20dac04f82d867400d71c Signed-off-by: Steve George <steve@futurile.net>
2025-04-16gnu: Add python-snakemake-interface-common.Nicolas Graves
* gnu/packages/python-science.scm (python-snakemake-interface-common): New variable. Change-Id: Iaac3acb7f57c3b6aedda7fe48daccbd952faddd5 Signed-off-by: Steve George <steve@futurile.net>
2025-04-16gnu: python-pyglm: Move to maths.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-pyglm): Move from here ... * gnu/packages/maths.scm: ... to here. * gnu/packages/gnome-xyz.scm: Add (gnu packages maths); remove (gnu packages python-science). Change-Id: I49ab732c1070210d005f8753c1e894c9abc3ee8b
2025-04-16gnu: python-pyglm: Update to 2.8.1.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-pyglm): Update to 2.8.1. [native-inputs]: Add python-pytest, python-setuptools, and python-wheel. Change-Id: I38ebaa301c3f08f1c011b8695a5595fffbebc06e
2025-04-16gnu: python-vaex-core: Update to 4.17.1.Nicolas Graves
* gnu/packages/python-science.scm (python-vaex-core): Update to 4.17.1. * gnu/packages/patches/python-vaex-core-fix-tsl-use.patch: Add patch. * gnu/local.mk: Record patch. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2025-04-16gnu: python-pytensor: Update to 2.28.3.Nicolas Graves
* gnu/packages/python-science.scm (python-pytensor): Update to 2.28.3. [arguments]{test-flags}: Use field. {phases}: Remove 'check phase replacement. Simplify 'versioneer. Add phase 'pre-check. Co-authored-by: Sharlatan Hellseher <sharlatanus@gmail.com> Change-Id: I8f324863438356ebc1ad3d62e86b5b17c416cd02 Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2025-04-16gnu: python-numdifftools: Skip some tests.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-numdifftools) [arguments] <test-flags>: Skip 7 tests failing with a NumPy 1.26.2. Change-Id: I5dc5865d0ac1ba47e79aac57d4e1768ecdb590be
2025-04-16gnu: python-unyt: Avoid deprecation failure in tests.Nicolas Graves
* gnu/packages/python-science.scm (python-unyt)[arguments] {test-flags}: Ignore failing test. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2025-04-16gnu: python-opt-einsum: Use pyproject-build-system.Ricardo Wurmus
* gnu/packages/python-science.scm (python-opt-einsum)[build-system]: Use pyproject-build-system. [arguments]: Remove. [native-inputs]: Remove python-pytest-pep8; add python-setuptools and python-wheel. Change-Id: I6da632c3c7e02ec13ab61124ce2984aa2675d996
2025-04-16gnu: python-paramz: Fix tests.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-paramz) [arguments] <test-flags>: Make them compatible with Pytest to allow some adjustments. [native-inputs]: Remove python-nose; add python-pytest. Change-Id: I66fbd374ce30e80f02fe43784740389a33783011
2025-04-16gnu: Update references to python3.10 directory.Ricardo Wurmus
* gnu/packages/admin.scm (ansible)[native-search-paths]: Refer to python3.11 directory. * gnu/packages/bioinformatics.scm (scvelo)[arguments]: Same. * gnu/packages/ebook.scm (calibre)[arguments]: Same. * gnu/packages/engineering.scm (cadabra2)[arguments]: Same. * gnu/packages/gnuzilla.scm (make-l10n-package)[arguments]: Same. * gnu/packages/machine-learning.scm (python-vosk)[arguments]: Same. * gnu/packages/python-science.scm (python-pandas-2)[arguments]: Same. * gnu/packages/version-control.scm (mercurial)[native-search-paths]: Same. * gnu/packages/irc.scm (go-gopkg-in-irc-v3): Update comment. Change-Id: If2ea1060b42b137474d5cfda6611df6e6fc85270
2025-03-31gnu: Add python-numdifftools.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-numdifftools): New variable. Change-Id: I0b5899e0bff10b488df5377c274eca63b26f9751
2025-03-31gnu: Add python-algopy.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-algopy): New variable. Change-Id: I6630f4677e0bd33f321cce9e6d1f40a6bf36c625
2025-03-30gnu: python-bottleneck: Update to 1.4.2.Vinicius Monego
* gnu/packages/python-science.scm (python-bottleneck): Update to 1.4.2. [source]: Update URI. [build-system]: Use pyproject-build-system. [arguments]: Use G-Expressions. <#:phases>: Add phase 'rebuild-ext before 'check. Do not override the 'check phase. [native-inputs]: Remove python-hypothesis, python-pytest-runner. Add python-setuptools, python-wheel. Change-Id: I7a79b126d2bd069eaa4e3cf7d5f05bcb482fb67c
2025-03-23gnu: python-vedo: Update to 2025.5.3.Sharlatan Hellseher
fenics is no longer required and it fails to build, see #77195. * gnu/packages/python-science.scm (python-vedo): Update to 2025.5.3, fix build. [build-system]: Swap to pyproject-build-system. [arguments] <tests?>: Disable as depend on remote data. <phases>: Remove 'fix-tests, 'mpi-setup, use default 'check, keep 'sanity-check; add 'relax-requirements. [propagated-inputs]: Remove fenics; add python-pygments. [native-inputs]: Add python-setuptools and python-wheel. Change-Id: Ifbe63d794f592083f2e65366404f152fda9b3136
2025-03-23gnu: python-tdda: Update to 2.2.17.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-tdda): Update to 2.2.17. [arguments] <test-flags>: Skip one failing test. <phases>: Use default 'check, add 'fix-Python3.11-datetime.UTC. [native-inputs]: Add python-chardet, python-pyarrow, python-pytest, and python-rich. Change-Id: I9d268a8656f51484c3d6c59a86b7537e50f864dc
2025-03-23gnu: python-gpy: Move to machine-learning.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-gpy): Move from here ... * gnu/packages/machine-learning.scm: ... to here. Change-Id: Id1c8574c166014c87ffa484ea84f798eb7f53844
2025-03-23gnu: python-gpy: Update to 1.13.2.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-gpy): Update to 1.13.2. Fix build and refresh package style. [native-inputs]: Add python-setuptools and python-wheel. Change-Id: I446821dace8cc9c99543f0940e400ca4fc081b08
2025-03-16gnu: python-pint: Move to python-science.Sharlatan Hellseher
* gnu/packages/python-xyz.scm (python-pint): Move from here ... * gnu/packages/python-science.scm: ... to here. Change-Id: Iabfce6ac788e01d42307a678979077cd61618693
2025-03-03gnu: python-trimesh: Skip tests requiring network.Lars Bilke
* gnu/packages/python-science (python-trimesh)[arguments]<#:test-flags>: Skip network tests. Change-Id: I82389eca3baf14322875daa9aa33f74a1066c8e3 Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
2025-03-03gnu: python-pandas: Skip some tests on 32bit systems.Efraim Flashner
* gnu/packages/python-science.scm (python-pandas)[arguments]: Adjust the test-flags when not building on a 64bit system to skip some incompatible tests. Change-Id: Ic581cc6bf4ade2d92425c38df10bc45beaf4009e
2025-02-28gnu: Add python-mpsplines.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-mpsplines): New variable. Change-Id: I1ae05c5bff783f7716e578bfc01699a10d13c337
2025-02-28gnu: Add python-cmocean.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-cmocean): New variable. Change-Id: I8b304c0280832f202714df278960493cbd3b12df
2025-02-28gnu: python-mpl-scatter-density: Update to 0.8.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-mpl-scatter-density): Update to 0.8. [source] <uri>: Adjust it as PyPI archive name has been changed upstream. Change-Id: Ic049ea153503cfa92c5d19b272afb00e64f7a28e
2025-02-27gnu: python-vaex-core: Update to 4.17.1.Ricardo Wurmus
* gnu/packages/python-science.scm (python-vaex-core): Update to 4.17.1. [arguments]: Remove phase 'patch-for-pydantic. [native-inputs]: Use python-cython-3 instead of python-cython. Change-Id: I5fdb8f19b5d334058c5ece215a288ac4abd7647f
2025-02-27gnu: python-pandera: Use Pydantic 2.Ricardo Wurmus
* gnu/packages/python-science.scm (python-pandera)[propagated-inputs]: Replace python-pydantic with python-pydantic-2. [arguments]: Disable one test. Change-Id: Ie222a484f4d8a540ffdf6db6da09e600723169d7
2025-02-27gnu: python-vaex-core: Use pyproject-build-system and Pydantic 2.Ricardo Wurmus
* gnu/packages/python-science.scm (python-vaex-core)[build-system]: Use pyproject-build-system. [arguments]: Remove custom 'check phase; add phase 'patch-for-pydantic. [propagated-inputs]: Replace python-pydantic with python-pydantic-2; add python-pydantic-settings. [native-inputs]: Add python-setuptools and python-wheel. Change-Id: I0e3d4d30940f55e234a5971431dc1c3fec2abce3
2025-02-25gnu: python-pyvista: Update to 0.44.2.reza
* gnu/packages/python-science.scm (python-pyvista): Update to 0.44.2 [build-system]: Change to pyproject-build-system. [native-inputs]: Add native-inputs for testing. [modify-phases]: Enable sanity-check and check phase, disable failing tests and vtk dependency check and redirect $HOME variable. Change-Id: I4293e99be12d096e639e47b8066116ba519909a8 Signed-off-by: Christopher Baines <mail@cbaines.net>
2025-02-19gnu: Fix some misspellings.Efraim Flashner
Change-Id: I316652aff7418af4b8e83bea24638b1513f8aa97
2025-02-15gnu: python-plotnine: Update to 0.14.5.Ricardo Wurmus
* gnu/packages/python-science.scm (python-plotnine): Update to 0.14.5. [arguments]: Disable more image tests; add phase 'pretend-version. Change-Id: I7ba5cc47ff93187785b0d8c2f5e294e0d08c9f54
2025-02-11gnu: Add python-imagehash.Vinicius Monego
* gnu/packages/python-science.scm (python-imagehash): New variable. Co-authored-by: Sharlatan Hellseher <sharlatanus@gmail.com> Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com> Change-Id: Ie773b4504d97ac2678e0776a27eb661d909fed47
2025-02-10gnu: Add python-nibabel.Vinicius Monego
* gnu/packages/python-science.scm (python-nibabel): New variable. Change-Id: I27d3841def6f360ae3996aacb787142bcfa92291 Signed-off-by: Andreas Enge <andreas@enge.fr>
2025-02-07gnu: python-pandas-1: Disable failing test.Ricardo Wurmus
* gnu/packages/python-science.scm (python-pandas-1):[arguments]: Disable failing test_nat_comparisons. Change-Id: Ifdd3cfb244e03b9412c7caa458557ce3fd30e38a
2025-01-28gnu: python-unyt: Update to 3.0.3, fix build.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-unyt): Update to 3.0.3. Fix build. Change-Id: Ic894ddfa982b9d41b40fc7e18149de099dd705f6
2025-01-28gnu: Add python-scikit-misc.Ricardo Wurmus
* gnu/packages/python-science.scm (python-scikit-misc): New variable. Change-Id: I8fb3c46fe8a927e5d2fbd3222a423330e771379e
2025-01-27gnu: python-deepdish: Fix indentation.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-deepdish): Fix indentation. Change-Id: Idf8a0b5cdb9e371cb5d1f5f51f993da6209342d5
2025-01-27gnu: python-deepdish: Update to 0.3.7-0.3f2dff7, fix build.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-deepdish): Update to 0.3.7-0.3f2dff7. [source]: Swap to git checkout containing fixes for NumPy. [native-inputs]: Add python-pytest. Change-Id: Icbc8c0895bcac0bdfede65ac7b6006186c684a70
2025-01-27gnu: python-pods: Update to 0.1.17.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-pods): Update to 0.1.17. [native-inputs]: Remove python-setuptools and python-wheel; add python-poetry-core. Change-Id: I68db152ec47c54ffb92528863e9faedec11440ac
2025-01-27gnu: python-paramz: Add missing inputs, fix build.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-paramz): [native-inputs]: Add python-setuptools and python-wheel. Change-Id: I3d33d04f523a214995e82d03d5bb1ce669962398
2025-01-27gnu: python-pods: Fix build.Felix Gruber
* gnu/packages/python-science.scm (python-pods): Fix build. [native-inputs]: Add python-setuptools and python-wheel. Change-Id: I758d7a45e8e7baf436abe3c0b2ad92241c0bab48
2025-01-20gnu: python-libneuroml: Update to 0.6.5.Sharlatan Hellseher
* gnu/packages/python-science.scm (python-libneuroml): Update to 0.6.5. Fix build. [propagated-inputs]: Remove python-six; add python-natsort and python-networkx. Change-Id: I750f90cebdeba46286239b18569300a2e4ce8c80
2025-01-20gnu: python-modin: Update to 0.32.0.Ricardo Wurmus
* gnu/packages/python-science.scm (python-modin): Update to 0.32.0. [build-system]: Use pyproject-build-system. [arguments]: Remove phase 'make-files-writable; disable one test; update custom 'check phase. [propagated-inputs]: Add python-s3fs. [native-inputs]: Add python-boto3 and python-wheel. Change-Id: I1d74013902e3387945586192b88c1e4fd8256733
2025-01-20gnu: python-pynetdicom: Update to 2.1.1.Ricardo Wurmus
* gnu/packages/python-science.scm (python-pynetdicom): Update to 2.1.1. [native-inputs]: Add python-codespell, python-coverage, python-poetry-core, python-pytest-cov, python-pytest-xdist, python-sphinx, and python-sphinx-rtd-theme; remove python-pyfakefs, python-setuptools, and python-wheel. [propagated-inputs]: Add python-mypy, python-numpydoc, and python-pyfakefs. Change-Id: Ic0089df89cd34b50c31370581db7a6e88884199c
2025-01-20gnu: python-spin: Fix build.宋文武
* gnu/packages/python-science.scm (python-spin)[native-inputs]: Add python-setuptools and python-wheel. Change-Id: Ieeaa5f7186e51a16022910da89704e8cc282d935
2025-01-20gnu: python-xarray-schema: Add missing inputs.Ricardo Wurmus
* gnu/packages/python-science.scm (python-xarray-schema)[native-inputs]: Add python-setuptools and python-wheel. Change-Id: I7cecc17468f94c9987ed349b0dd0d319e175e399
2025-01-20gnu: python-xarray-datatree: Add missing inputs.Ricardo Wurmus
* gnu/packages/python-science.scm (python-xarray-datatree)[native-inputs]: Add python-setuptools and python-wheel. Change-Id: I5c2d5ec44b13c82e7400687accccf81427aa0da9
2025-01-20gnu: python-fastcluster: Add missing inputs.Ricardo Wurmus
* gnu/packages/python-science.scm (python-fastcluster)[native-inputs]: Add python-setuptools and python-wheel. Change-Id: I2fa034054f5183e04c2f1e673f841f07799a7b94
2025-01-20gnu: python-cvxpy: Add missing input.Ricardo Wurmus
* gnu/packages/python-science.scm (python-cvxpy)[native-inputs]: Add python-wheel. Change-Id: I66f4f504a0a4101abc845b7b7d0a0fccbd6b91b9
2025-01-20gnu: python-scikit-survival: Add missing input.Ricardo Wurmus
* gnu/packages/python-science.scm (python-scikit-survival)[native-inputs]: Add python-setuptools. Change-Id: I52e98c787cec226590f21c98e4287a41fb41f3d3
generated by cgit v1.2.3 (git 2.50.1) at 2025-08-04 00:45:27 +0000