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gnu: python-pysnptools: Update to 0.5.14.

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* 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
This commit is contained in:
Ricardo Wurmus 2025-01-16 22:51:36 +01:00
parent 69e8a3f2f2
commit 84119015a3
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GPG key ID: 197A5888235FACAC
1 changed files with 17 additions and 16 deletions
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gnu/packages/python-xyz.scm
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@ -10524,35 +10524,36 @@ the results.")
(define-public python-pysnptools (define-public python-pysnptools
(package (package
(name "python-pysnptools") (name "python-pysnptools")
(version "0.4.11") (version "0.5.14")
(source (source
(origin (origin
(method url-fetch) (method url-fetch)
(uri (pypi-uri "pysnptools" version)) (uri (pypi-uri "pysnptools" version))
(sha256 (sha256
(base32 (base32
"0gxr0bjix307wvk0qh7vkafbxbzfpdmq0wlswpxyyaymy0fwcypv")))) "1babnyky5fk93as1ybdvpz9x3x5099gkgscxflngzfswin23mspk"))))
(build-system python-build-system) (build-system pyproject-build-system)
(arguments ;; Tests require test data from python-bed-reader, which fetches data with
`(#:tests? #f ; no test data are included ;; python-pooch.
#:phases (arguments (list #:tests? #f))
(modify-phases %standard-phases
(replace 'check
(lambda* (#:key inputs outputs tests? #:allow-other-keys)
(if tests?
(begin
(add-installed-pythonpath inputs outputs)
(invoke "python3" "pysnptools/test.py"))
#t))))))
(propagated-inputs (propagated-inputs
(list python-dill (list python-bed-reader
python-cloudpickle
python-h5py python-h5py
python-more-itertools
python-numpy python-numpy
python-pandas python-pandas
python-psutil python-psutil
python-scipy)) python-scipy))
(native-inputs (native-inputs
(list python-cython)) (list python-pytest
python-pytest-cov
python-pytest-datadir
python-pytest-doctestplus
python-setuptools
python-sphinx
python-sphinx-rtd-theme
python-wheel))
(home-page "http://microsoftgenomics.github.io/PySnpTools/") (home-page "http://microsoftgenomics.github.io/PySnpTools/")
(synopsis "Library for reading and manipulating genetic data") (synopsis "Library for reading and manipulating genetic data")
(description (description