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gnu: packages/astronomy: Sort.
* gnu/packages/astronomy.scm (python-asdf-compression, python-astropy, python-astropy-minimal, python-ci-watson, python-cmyt): Sort variables alphabetically. Change-Id: Ibeb5759dae1eb1f92fd31f889f1df4f27771bdcc
This commit is contained in:
Sharlatan Hellseher
parent
6315f3ff4d
commit
36f6c720c1
1 changed files with 256 additions and 256 deletions
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@ -1757,6 +1757,51 @@ implementation of the ASDF Standard.")
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Astropy objects.")
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Astropy objects.")
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(license license:bsd-3)))
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(license license:bsd-3)))
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(define-public python-asdf-compression
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;; TODO: No release, change to tag when it's ready.
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(let ((commit "7cfd07c6f789d4919e5730e0cda150fb20da4139")
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(revision "1"))
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(package
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(name "python-asdf-compression")
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(version (git-version "0.0.1" revision commit))
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(source
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(origin
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(method git-fetch)
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(uri (git-reference
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(url "https://github.com/asdf-format/asdf-compression")
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(commit commit)))
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(file-name (git-file-name name version))
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(sha256
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(base32 "198y3mnl9kvhva479k6g9zbynjg8apsrwy7lq26g5q6v55s16hgc"))))
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(build-system pyproject-build-system)
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(arguments
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(list
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#:phases
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#~(modify-phases %standard-phases
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(add-before 'build 'set-version
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(lambda _
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(setenv "SETUPTOOLS_SCM_PRETEND_VERSION" "0.0.1"))))))
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(native-inputs
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(list python-numpy
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python-pytest
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python-setuptools
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python-setuptools-scm
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python-wheel))
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(propagated-inputs
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(list python-asdf
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python-blosc
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python-lz4
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python-zstandard))
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(home-page "https://github.com/asdf-format/asdf-compression")
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(synopsis "ASDF extension to support various compression algorithms")
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(description
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"This package includes a plugin for the Python library ASDF to add
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support for reading and writing various compression algorithms including:
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@url{https://www.blosc.org/python-blosc/reference.html,Blosc},
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@url{https://python-lz4.readthedocs.io/en/stable/lz4.frame.html,LZ4 Frame},
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@url{http://facebook.github.io/zstd/,Zstandard}.")
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(license license:bsd-3))))
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(define-public python-asdf-zarr
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(define-public python-asdf-zarr
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(package
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(package
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(name "python-asdf-zarr")
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(name "python-asdf-zarr")
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@ -2042,6 +2087,140 @@ simulated Astronomical data in Python.")
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mining in astronomy.")
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mining in astronomy.")
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(license license:bsd-2)))
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(license license:bsd-2)))
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;; XXX: Upgrading to the latest version requires Python3.11+ and fresh
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;; versions of numpy, PyYAML, packaging, Pandas and matplotlib, see
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;; <https://github.com/astropy/astropy/blob/v7.0.0/CHANGES.rst
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;; #other-changes-and-additions>.
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(define-public python-astropy
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(package
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(name "python-astropy")
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(version "6.1.7")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "astropy" version))
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(sha256
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(base32 "1vspagb4vbmkl6fm3mr78577dgdq992ggwkd5qawpdh6cccaq1d4"))
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(modules '((guix build utils)))
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(snippet
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'(begin
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;; Remove Python bundles.
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(with-directory-excursion "astropy/extern"
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(for-each delete-file-recursively '("ply" "configobj")))
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;; Remove cextern bundles. Check bundled versions against available
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;; in Guix in the future update of astropy.
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;; Linking against an external cfitsio version has been removed,
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;; see https://github.com/astropy/astropy/pull/14311
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(with-directory-excursion "cextern"
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(for-each delete-file-recursively '("expat" "wcslib")))))))
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(build-system pyproject-build-system)
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(arguments
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(list
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#:test-flags
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#~(list "--pyargs" "astropy"
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"--numprocesses" (number->string (parallel-job-count))
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"-k" (string-join
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;; Skip tests that need remote data.
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(list "not remote_data"
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;; ValueError: The truth value of an array with more than
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;; one element is ambiguous. Use a.any() or a.all()
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"test_table_comp[t16-t26]"
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;; UnboundLocalError: local variable 'ihd'
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;; referenced before assignment
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"test_delay_doc_updates")
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" and not "))
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#:phases
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#~(modify-phases %standard-phases
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(add-after 'unpack 'preparations
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(lambda _
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;; Use our own libraries in place of bundles.
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(setenv "ASTROPY_USE_SYSTEM_ALL" "1")
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;; Relax xfail tests.
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(substitute* "pyproject.toml"
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(("xfail_strict = true") "xfail_strict = false"))
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;; Replace reference to external ply.
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(substitute* "astropy/utils/parsing.py"
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(("astropy.extern.ply") "ply"))
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;; Replace reference to external configobj.
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(substitute* "astropy/config/configuration.py"
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(("from astropy.extern.configobj ") ""))))
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;; This file is opened in both install and check phases.
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(add-before 'install 'writable-compiler
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(lambda _
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(make-file-writable "astropy/_compiler.c")))
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(replace 'check
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(lambda* (#:key tests? test-flags #:allow-other-keys)
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(when tests?
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(setenv "HOME" "/tmp")
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;; Step out of the source directory to avoid interference; we
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;; want to run the installed code with extensions etc.
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(with-directory-excursion #$output
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(apply invoke "pytest" "-vv" test-flags))))))))
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(native-inputs
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(list nss-certs-for-test
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pkg-config
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python-cython-3
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python-extension-helpers
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python-ipython
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python-objgraph
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python-pandas
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python-pytest
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python-pytest-astropy
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python-pytest-astropy-header
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python-pytest-mpl
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python-pytest-xdist
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python-scikit-image
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python-setuptools
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python-setuptools-scm
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python-sgp4
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python-skyfield
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python-threadpoolctl
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python-timezonefinder
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python-wheel))
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(inputs
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(list expat wcslib))
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(propagated-inputs
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(list python-astropy-iers-data
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python-configobj
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python-h5py
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python-jplephem
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python-matplotlib
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python-numpy
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python-packaging
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python-ply
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python-pyarrow
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python-pyerfa
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python-pyyaml
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python-scipy))
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(home-page "https://www.astropy.org/")
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(synopsis "Core package for Astronomy in Python")
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(description
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"Astropy is a single core package for Astronomy in Python. It contains
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much of the core functionality and some common tools needed for performing
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astronomy and astrophysics.")
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(license license:bsd-3)))
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;; A bare minimal package, mainly to use in tests and reduce closure
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;; size. Tests are left out in the main package to slim down native-inputs.
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(define-public python-astropy-minimal
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(package/inherit python-astropy
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(name "python-astropy-minimal")
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(arguments
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(substitute-keyword-arguments (package-arguments python-astropy)
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((#:tests? _ #t) #f)))
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(native-inputs
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||||||
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(list nss-certs-for-test
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pkg-config
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python-cython-3
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python-extension-helpers
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python-setuptools
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python-setuptools-scm
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python-wheel))
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(propagated-inputs
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(modify-inputs (package-propagated-inputs python-astropy)
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(delete python-matplotlib
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python-scipy)))))
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(define-public python-bayesicfitting
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(define-public python-bayesicfitting
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(package
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(package
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(name "python-bayesicfitting")
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(name "python-bayesicfitting")
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@ -2232,6 +2411,83 @@ attempting to maintain ISTP compliance
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@end itemize")
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@end itemize")
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(license license:expat)))
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(license license:expat)))
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(define-public python-ci-watson
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(package
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(name "python-ci-watson")
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(version "0.8.0")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "ci_watson" version))
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(sha256
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||||||
|
(base32 "1rlhs8y0splmzr76z1s35zl68qm748nlayha8m81b0zhkhicxvhg"))))
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|
(build-system pyproject-build-system)
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||||||
|
(arguments
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||||||
|
(list
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||||||
|
#:phases
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||||||
|
#~(modify-phases %standard-phases
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(add-after 'unpack 'patch-pypojrect-toml
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(lambda _
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(substitute* "setup.cfg"
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|
;; ImportError: Error importing plugin " no:legacypath": No
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||||||
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;; module named ' no:legacypath'
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(("-p no:legacypath") "")))))))
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||||||
|
(native-inputs
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||||||
|
(list python-pytest-astropy-header
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|
python-setuptools
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||||||
|
python-wheel))
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||||||
|
(propagated-inputs
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||||||
|
(list python-crds
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|
python-pytest
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||||||
|
python-readchar
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|
python-requests))
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||||||
|
(home-page "https://github.com/spacetelescope/ci_watson")
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||||||
|
(synopsis "Helper functions for STScI software")
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|
(description
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||||||
|
"This package contains a helper functionality to test ROMAN and JWST.")
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|
(license license:bsd-3)))
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(define-public python-cmyt
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|
(package
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(name "python-cmyt")
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(version "2.0.2")
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|
(source
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||||||
|
(origin
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||||||
|
(method git-fetch) ; no tests in the PyPI tarball
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|
(uri (git-reference
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||||||
|
(url "https://github.com/yt-project/cmyt")
|
||||||
|
(commit (string-append "v" version))))
|
||||||
|
(file-name (git-file-name name version))
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||||||
|
(sha256
|
||||||
|
(base32 "1d257xlgxc06x47k07xn5ml2kjqzc7dgjal4bl9x2w6b90xn0pm1"))))
|
||||||
|
(build-system pyproject-build-system)
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||||||
|
(arguments
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|
(list
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||||||
|
#:phases
|
||||||
|
#~(modify-phases %standard-phases
|
||||||
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(add-after 'unpack 'relax-requirements
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(lambda _
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(substitute* "pyproject.toml"
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||||||
|
;; numpy>=1.26
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|
((">=1.26") ">=1.23")))))))
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|
(native-inputs
|
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|
(list python-colorspacious
|
||||||
|
python-pytest
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||||||
|
python-pytest-mpl
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||||||
|
python-hatchling))
|
||||||
|
(propagated-inputs
|
||||||
|
(list python-matplotlib
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|
python-numpy))
|
||||||
|
(home-page "https://yt-project.org/")
|
||||||
|
(synopsis "Matplotlib colormaps from the yt project")
|
||||||
|
(description
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||||||
|
"This package provides a range of colormaps designed for scientific use
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|
with Matplotlib. It includes perceptually uniform sequential colormaps such
|
||||||
|
as @code{abre}, @code{dusk}, @code{kepl}, and @code{octarine}, as well as
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||||||
|
monochromatic sequential colormaps like @code{blue}, @code{green}, and
|
||||||
|
@code{red}, and others (@code{algae}, @code{pastel}, and @code{xray}).")
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||||||
|
(license license:bsd-3)))
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||||||
|
|
||||||
(define-public python-coolest
|
(define-public python-coolest
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||||||
(package
|
(package
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||||||
(name "python-coolest")
|
(name "python-coolest")
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||||||
|
|
@ -3883,140 +4139,6 @@ instruments.")
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||||||
"This package provides an image processing toolbox for Solar Physics.")
|
"This package provides an image processing toolbox for Solar Physics.")
|
||||||
(license license:bsd-2)))
|
(license license:bsd-2)))
|
||||||
|
|
||||||
;; XXX: Upgrading to the latest version requires Python3.11+ and fresh
|
|
||||||
;; versions of numpy, PyYAML, packaging, Pandas and matplotlib, see
|
|
||||||
;; <https://github.com/astropy/astropy/blob/v7.0.0/CHANGES.rst
|
|
||||||
;; #other-changes-and-additions>.
|
|
||||||
(define-public python-astropy
|
|
||||||
(package
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|
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(name "python-astropy")
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|
||||||
(version "6.1.7")
|
|
||||||
(source
|
|
||||||
(origin
|
|
||||||
(method url-fetch)
|
|
||||||
(uri (pypi-uri "astropy" version))
|
|
||||||
(sha256
|
|
||||||
(base32 "1vspagb4vbmkl6fm3mr78577dgdq992ggwkd5qawpdh6cccaq1d4"))
|
|
||||||
(modules '((guix build utils)))
|
|
||||||
(snippet
|
|
||||||
'(begin
|
|
||||||
;; Remove Python bundles.
|
|
||||||
(with-directory-excursion "astropy/extern"
|
|
||||||
(for-each delete-file-recursively '("ply" "configobj")))
|
|
||||||
;; Remove cextern bundles. Check bundled versions against available
|
|
||||||
;; in Guix in the future update of astropy.
|
|
||||||
;; Linking against an external cfitsio version has been removed,
|
|
||||||
;; see https://github.com/astropy/astropy/pull/14311
|
|
||||||
(with-directory-excursion "cextern"
|
|
||||||
(for-each delete-file-recursively '("expat" "wcslib")))))))
|
|
||||||
(build-system pyproject-build-system)
|
|
||||||
(arguments
|
|
||||||
(list
|
|
||||||
#:test-flags
|
|
||||||
#~(list "--pyargs" "astropy"
|
|
||||||
"--numprocesses" (number->string (parallel-job-count))
|
|
||||||
"-k" (string-join
|
|
||||||
;; Skip tests that need remote data.
|
|
||||||
(list "not remote_data"
|
|
||||||
;; ValueError: The truth value of an array with more than
|
|
||||||
;; one element is ambiguous. Use a.any() or a.all()
|
|
||||||
"test_table_comp[t16-t26]"
|
|
||||||
;; UnboundLocalError: local variable 'ihd'
|
|
||||||
;; referenced before assignment
|
|
||||||
"test_delay_doc_updates")
|
|
||||||
" and not "))
|
|
||||||
#:phases
|
|
||||||
#~(modify-phases %standard-phases
|
|
||||||
(add-after 'unpack 'preparations
|
|
||||||
(lambda _
|
|
||||||
;; Use our own libraries in place of bundles.
|
|
||||||
(setenv "ASTROPY_USE_SYSTEM_ALL" "1")
|
|
||||||
;; Relax xfail tests.
|
|
||||||
(substitute* "pyproject.toml"
|
|
||||||
(("xfail_strict = true") "xfail_strict = false"))
|
|
||||||
;; Replace reference to external ply.
|
|
||||||
(substitute* "astropy/utils/parsing.py"
|
|
||||||
(("astropy.extern.ply") "ply"))
|
|
||||||
;; Replace reference to external configobj.
|
|
||||||
(substitute* "astropy/config/configuration.py"
|
|
||||||
(("from astropy.extern.configobj ") ""))))
|
|
||||||
;; This file is opened in both install and check phases.
|
|
||||||
(add-before 'install 'writable-compiler
|
|
||||||
(lambda _
|
|
||||||
(make-file-writable "astropy/_compiler.c")))
|
|
||||||
(replace 'check
|
|
||||||
(lambda* (#:key tests? test-flags #:allow-other-keys)
|
|
||||||
(when tests?
|
|
||||||
(setenv "HOME" "/tmp")
|
|
||||||
;; Step out of the source directory to avoid interference; we
|
|
||||||
;; want to run the installed code with extensions etc.
|
|
||||||
(with-directory-excursion #$output
|
|
||||||
(apply invoke "pytest" "-vv" test-flags))))))))
|
|
||||||
(native-inputs
|
|
||||||
(list nss-certs-for-test
|
|
||||||
pkg-config
|
|
||||||
python-cython-3
|
|
||||||
python-extension-helpers
|
|
||||||
python-ipython
|
|
||||||
python-objgraph
|
|
||||||
python-pandas
|
|
||||||
python-pytest
|
|
||||||
python-pytest-astropy
|
|
||||||
python-pytest-astropy-header
|
|
||||||
python-pytest-mpl
|
|
||||||
python-pytest-xdist
|
|
||||||
python-scikit-image
|
|
||||||
python-setuptools
|
|
||||||
python-setuptools-scm
|
|
||||||
python-sgp4
|
|
||||||
python-skyfield
|
|
||||||
python-threadpoolctl
|
|
||||||
python-timezonefinder
|
|
||||||
python-wheel))
|
|
||||||
(inputs
|
|
||||||
(list expat wcslib))
|
|
||||||
(propagated-inputs
|
|
||||||
(list python-astropy-iers-data
|
|
||||||
python-configobj
|
|
||||||
python-h5py
|
|
||||||
python-jplephem
|
|
||||||
python-matplotlib
|
|
||||||
python-numpy
|
|
||||||
python-packaging
|
|
||||||
python-ply
|
|
||||||
python-pyarrow
|
|
||||||
python-pyerfa
|
|
||||||
python-pyyaml
|
|
||||||
python-scipy))
|
|
||||||
(home-page "https://www.astropy.org/")
|
|
||||||
(synopsis "Core package for Astronomy in Python")
|
|
||||||
(description
|
|
||||||
"Astropy is a single core package for Astronomy in Python. It contains
|
|
||||||
much of the core functionality and some common tools needed for performing
|
|
||||||
astronomy and astrophysics.")
|
|
||||||
(license license:bsd-3)))
|
|
||||||
|
|
||||||
;; A bare minimal package, mainly to use in tests and reduce closure
|
|
||||||
;; size. Tests are left out in the main package to slim down native-inputs.
|
|
||||||
(define-public python-astropy-minimal
|
|
||||||
(package/inherit python-astropy
|
|
||||||
(name "python-astropy-minimal")
|
|
||||||
(arguments
|
|
||||||
(substitute-keyword-arguments (package-arguments python-astropy)
|
|
||||||
((#:tests? _ #t) #f)))
|
|
||||||
(native-inputs
|
|
||||||
(list nss-certs-for-test
|
|
||||||
pkg-config
|
|
||||||
python-cython-3
|
|
||||||
python-extension-helpers
|
|
||||||
python-setuptools
|
|
||||||
python-setuptools-scm
|
|
||||||
python-wheel))
|
|
||||||
(propagated-inputs
|
|
||||||
(modify-inputs (package-propagated-inputs python-astropy)
|
|
||||||
(delete python-matplotlib
|
|
||||||
python-scipy)))))
|
|
||||||
|
|
||||||
(define-public python-astropy-healpix
|
(define-public python-astropy-healpix
|
||||||
(package
|
(package
|
||||||
(name "python-astropy-healpix")
|
(name "python-astropy-healpix")
|
||||||
|
|
@ -4271,83 +4393,6 @@ be as fast as possible so some of the readability has been sacrificed,
|
||||||
specifically in the C code.")
|
specifically in the C code.")
|
||||||
(license license:bsd-3)))
|
(license license:bsd-3)))
|
||||||
|
|
||||||
(define-public python-ci-watson
|
|
||||||
(package
|
|
||||||
(name "python-ci-watson")
|
|
||||||
(version "0.8.0")
|
|
||||||
(source
|
|
||||||
(origin
|
|
||||||
(method url-fetch)
|
|
||||||
(uri (pypi-uri "ci_watson" version))
|
|
||||||
(sha256
|
|
||||||
(base32 "1rlhs8y0splmzr76z1s35zl68qm748nlayha8m81b0zhkhicxvhg"))))
|
|
||||||
(build-system pyproject-build-system)
|
|
||||||
(arguments
|
|
||||||
(list
|
|
||||||
#:phases
|
|
||||||
#~(modify-phases %standard-phases
|
|
||||||
(add-after 'unpack 'patch-pypojrect-toml
|
|
||||||
(lambda _
|
|
||||||
(substitute* "setup.cfg"
|
|
||||||
;; ImportError: Error importing plugin " no:legacypath": No
|
|
||||||
;; module named ' no:legacypath'
|
|
||||||
(("-p no:legacypath") "")))))))
|
|
||||||
(native-inputs
|
|
||||||
(list python-pytest-astropy-header
|
|
||||||
python-setuptools
|
|
||||||
python-wheel))
|
|
||||||
(propagated-inputs
|
|
||||||
(list python-crds
|
|
||||||
python-pytest
|
|
||||||
python-readchar
|
|
||||||
python-requests))
|
|
||||||
(home-page "https://github.com/spacetelescope/ci_watson")
|
|
||||||
(synopsis "Helper functions for STScI software")
|
|
||||||
(description
|
|
||||||
"This package contains a helper functionality to test ROMAN and JWST.")
|
|
||||||
(license license:bsd-3)))
|
|
||||||
|
|
||||||
(define-public python-cmyt
|
|
||||||
(package
|
|
||||||
(name "python-cmyt")
|
|
||||||
(version "2.0.2")
|
|
||||||
(source
|
|
||||||
(origin
|
|
||||||
(method git-fetch) ; no tests in the PyPI tarball
|
|
||||||
(uri (git-reference
|
|
||||||
(url "https://github.com/yt-project/cmyt")
|
|
||||||
(commit (string-append "v" version))))
|
|
||||||
(file-name (git-file-name name version))
|
|
||||||
(sha256
|
|
||||||
(base32 "1d257xlgxc06x47k07xn5ml2kjqzc7dgjal4bl9x2w6b90xn0pm1"))))
|
|
||||||
(build-system pyproject-build-system)
|
|
||||||
(arguments
|
|
||||||
(list
|
|
||||||
#:phases
|
|
||||||
#~(modify-phases %standard-phases
|
|
||||||
(add-after 'unpack 'relax-requirements
|
|
||||||
(lambda _
|
|
||||||
(substitute* "pyproject.toml"
|
|
||||||
;; numpy>=1.26
|
|
||||||
((">=1.26") ">=1.23")))))))
|
|
||||||
(native-inputs
|
|
||||||
(list python-colorspacious
|
|
||||||
python-pytest
|
|
||||||
python-pytest-mpl
|
|
||||||
python-hatchling))
|
|
||||||
(propagated-inputs
|
|
||||||
(list python-matplotlib
|
|
||||||
python-numpy))
|
|
||||||
(home-page "https://yt-project.org/")
|
|
||||||
(synopsis "Matplotlib colormaps from the yt project")
|
|
||||||
(description
|
|
||||||
"This package provides a range of colormaps designed for scientific use
|
|
||||||
with Matplotlib. It includes perceptually uniform sequential colormaps such
|
|
||||||
as @code{abre}, @code{dusk}, @code{kepl}, and @code{octarine}, as well as
|
|
||||||
monochromatic sequential colormaps like @code{blue}, @code{green}, and
|
|
||||||
@code{red}, and others (@code{algae}, @code{pastel}, and @code{xray}).")
|
|
||||||
(license license:bsd-3)))
|
|
||||||
|
|
||||||
(define-public python-hvpy
|
(define-public python-hvpy
|
||||||
(package
|
(package
|
||||||
(name "python-hvpy")
|
(name "python-hvpy")
|
||||||
|
|
@ -6461,51 +6506,6 @@ PYSYNPHOT, utilizing Astropy and covering the non-instrument specific portions
|
||||||
of the old packages.")
|
of the old packages.")
|
||||||
(license license:bsd-3)))
|
(license license:bsd-3)))
|
||||||
|
|
||||||
(define-public python-asdf-compression
|
|
||||||
;; TODO: No release, change to tag when it's ready.
|
|
||||||
(let ((commit "7cfd07c6f789d4919e5730e0cda150fb20da4139")
|
|
||||||
(revision "1"))
|
|
||||||
(package
|
|
||||||
(name "python-asdf-compression")
|
|
||||||
(version (git-version "0.0.1" revision commit))
|
|
||||||
(source
|
|
||||||
(origin
|
|
||||||
(method git-fetch)
|
|
||||||
(uri (git-reference
|
|
||||||
(url "https://github.com/asdf-format/asdf-compression")
|
|
||||||
(commit commit)))
|
|
||||||
(file-name (git-file-name name version))
|
|
||||||
(sha256
|
|
||||||
(base32 "198y3mnl9kvhva479k6g9zbynjg8apsrwy7lq26g5q6v55s16hgc"))))
|
|
||||||
(build-system pyproject-build-system)
|
|
||||||
(arguments
|
|
||||||
(list
|
|
||||||
#:phases
|
|
||||||
#~(modify-phases %standard-phases
|
|
||||||
(add-before 'build 'set-version
|
|
||||||
(lambda _
|
|
||||||
(setenv "SETUPTOOLS_SCM_PRETEND_VERSION" "0.0.1"))))))
|
|
||||||
(native-inputs
|
|
||||||
(list python-numpy
|
|
||||||
python-pytest
|
|
||||||
python-setuptools
|
|
||||||
python-setuptools-scm
|
|
||||||
python-wheel))
|
|
||||||
(propagated-inputs
|
|
||||||
(list python-asdf
|
|
||||||
python-blosc
|
|
||||||
python-lz4
|
|
||||||
python-zstandard))
|
|
||||||
(home-page "https://github.com/asdf-format/asdf-compression")
|
|
||||||
(synopsis "ASDF extension to support various compression algorithms")
|
|
||||||
(description
|
|
||||||
"This package includes a plugin for the Python library ASDF to add
|
|
||||||
support for reading and writing various compression algorithms including:
|
|
||||||
@url{https://www.blosc.org/python-blosc/reference.html,Blosc},
|
|
||||||
@url{https://python-lz4.readthedocs.io/en/stable/lz4.frame.html,LZ4 Frame},
|
|
||||||
@url{http://facebook.github.io/zstd/,Zstandard}.")
|
|
||||||
(license license:bsd-3))))
|
|
||||||
|
|
||||||
(define-public python-asdf-standard
|
(define-public python-asdf-standard
|
||||||
(package
|
(package
|
||||||
(name "python-asdf-standard")
|
(name "python-asdf-standard")
|
||||||
|
|
|
||||||
Loading…
Add table
Add a link
Reference in a new issue