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gnu: packages/python-science: Sort packages.
* gnu/packages/python-science.scm (python-bottleneck, python-dask-expr, python-mpsplines, python-salib, python-unyt, python-vedo): Sort variables alphabetically. Change-Id: I767f6959dd5727cee22e07d49de28af244985c22
This commit is contained in:
Sharlatan Hellseher
parent
0f10ad2f3d
commit
638777f627
1 changed files with 238 additions and 238 deletions
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@ -399,6 +399,35 @@ higher scores.")
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one of the fastest libraries for histogramming.")
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(license license:bsd-3)))
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(define-public python-bottleneck
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(package
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(name "python-bottleneck")
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(version "1.4.2")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "bottleneck" version))
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(sha256
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(base32 "1x29yj4yr12v646si63gkxj9b6lx1xk65536wqy4i9fyk4bqx3ps"))))
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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 'check 'rebuild-ext
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(lambda _
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(invoke "python" "setup.py" "build_ext" "--inplace"))))))
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(native-inputs (list python-pytest
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python-setuptools
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python-wheel))
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(propagated-inputs (list python-numpy))
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(home-page "https://github.com/pydata/bottleneck")
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(synopsis "Fast NumPy array functions written in C")
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(description
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"Bottleneck is a collection of fast, NaN-aware NumPy array functions
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written in C.")
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(license license:bsd-2)))
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(define-public python-clarabel
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(package
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(name "python-clarabel")
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@ -589,6 +618,59 @@ it can be used for displaying many qualitatively different samples.")
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optimization problems in Python.")
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(license license:asl2.0)))
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(define-public python-dask-expr
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(package
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(name "python-dask-expr")
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(version "1.0.14")
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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/dask/dask-expr")
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(commit (string-append "v" version))))
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(file-name (git-file-name name version))
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(sha256
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(base32 "0c2q8w8wl5d2hycbjp9vavkl5f36kaz390wxlis2d8d43jnqhf0d"))))
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(build-system pyproject-build-system)
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(arguments
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(list
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#:tests? #false ;need python-distributed, which needs dask-expr.
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#:phases
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#~(modify-phases %standard-phases
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(add-after 'unpack 'versioneer
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(lambda _
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;; Our version of versioneer needs setup.cfg. This is adapted
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;; from pyproject.toml.
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(with-output-to-file "setup.cfg"
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(lambda ()
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(display "\
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[versioneer]
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VCS = git
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style = pep440
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versionfile_source = dask_expr/_version.py
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versionfile_build = dask_expr/_version.py
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tag_prefix =
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parentdir_prefix = dask_expr-
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")))
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(invoke "versioneer" "install")
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(substitute* "setup.py"
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(("versioneer.get_version\\(\\)")
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(string-append "\"" #$version "\""))))))))
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(propagated-inputs (list python-pandas python-pyarrow))
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(native-inputs
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;; We use python-dask/bootstrap so that python-dask can propagate this
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;; package without creating a mutually recursive dependency.
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(list python-dask/bootstrap
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python-pytest
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python-setuptools
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python-versioneer
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python-wheel))
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(home-page "https://github.com/dask/dask-expr")
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(synopsis "Dask DataFrames with query optimization")
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(description "This is a rewrite of Dask DataFrame that includes query
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optimization and generally improved organization.")
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(license license:bsd-3)))
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(define-public python-decaylanguage
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(package
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(name "python-decaylanguage")
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@ -959,6 +1041,39 @@ spheres, cubes, etc.")
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density maps, both for interactive and non-interactive use.")
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(license license:bsd-2)))
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(define-public python-mpsplines
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;; No release on PyPI no git tag, use the latest commit.
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(let ((commit "4967655fca8f4d0fc0685486c8ec2f1fe2f199d2")
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(revision "0"))
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(package
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(name "python-mpsplines")
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(version (git-version "0.0.0" 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/jararias/mpsplines")
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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 "1wqfvjp1d6xzb07qnq72h76f0mx7za9pasgw3qp3ciaycmlkvdr3"))))
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(build-system pyproject-build-system)
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(arguments
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(list #:tests? #f)) ; no tests provided
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(native-inputs
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(list python-setuptools
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python-wheel))
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(propagated-inputs
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(list python-scipy
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python-numpy
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python-loguru))
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(home-page "https://github.com/jararias/mpsplines")
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(synopsis "Mean preserving interpolation with splines")
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(description
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"Thi package implements a functionality for mean-preserving
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interpolation of 1D data (for example, time series) with splines.")
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(license license:bsd-3))))
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(define-public python-ndindex
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(package
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(name "python-ndindex")
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@ -1432,6 +1547,33 @@ factorization routine for quasi-definite linear system.")
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automated with the minimum of fuss and the least effort.")
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(license license:expat)))
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(define-public python-salib
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(package
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(name "python-salib")
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(version "1.4.7")
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(source (origin
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(method git-fetch)
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(uri (git-reference
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(url "https://github.com/SALib/SALib")
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(commit (string-append "v" version))))
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(file-name (git-file-name name version))
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(sha256
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(base32
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"18xfyzircsx2q2lmfc9lxb6xvkxicnc83qzghd7df1jsprr5ymch"))))
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(build-system pyproject-build-system)
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(propagated-inputs (list python-matplotlib
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python-multiprocess
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python-numpy
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python-pandas
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python-scipy))
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(native-inputs (list python-hatchling python-pytest python-pytest-cov))
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(home-page "https://salib.readthedocs.io/en/latest/")
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(synopsis "Tools for global sensitivity analysis")
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(description "SALib provides tools for global sensitivity analysis. It
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contains Sobol', Morris, FAST, DGSM, PAWN, HDMR, Moment Independent and
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fractional factorial methods.")
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(license license:expat)))
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(define-public python-scikit-allel
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(package
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(name "python-scikit-allel")
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@ -2316,39 +2458,6 @@ manipulation and analysis, in the style of the Polygon object in the Shapely
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library.")
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(license license:expat)))
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(define-public python-mpsplines
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;; No release on PyPI no git tag, use the latest commit.
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(let ((commit "4967655fca8f4d0fc0685486c8ec2f1fe2f199d2")
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(revision "0"))
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(package
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(name "python-mpsplines")
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(version (git-version "0.0.0" 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/jararias/mpsplines")
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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 "1wqfvjp1d6xzb07qnq72h76f0mx7za9pasgw3qp3ciaycmlkvdr3"))))
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(build-system pyproject-build-system)
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(arguments
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(list #:tests? #f)) ; no tests provided
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(native-inputs
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(list python-setuptools
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python-wheel))
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(propagated-inputs
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(list python-scipy
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python-numpy
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python-loguru))
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(home-page "https://github.com/jararias/mpsplines")
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(synopsis "Mean preserving interpolation with splines")
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(description
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"Thi package implements a functionality for mean-preserving
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interpolation of 1D data (for example, time series) with splines.")
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(license license:bsd-3))))
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(define-public python-pyamg
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(package
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(name "python-pyamg")
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@ -3104,35 +3213,6 @@ Python module with the same interface, but (hopefully) faster.")
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"This package provides a Python package for time series classification.")
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(license license:bsd-3)))
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(define-public python-bottleneck
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(package
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(name "python-bottleneck")
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(version "1.4.2")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "bottleneck" version))
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(sha256
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(base32 "1x29yj4yr12v646si63gkxj9b6lx1xk65536wqy4i9fyk4bqx3ps"))))
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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 'check 'rebuild-ext
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(lambda _
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(invoke "python" "setup.py" "build_ext" "--inplace"))))))
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(native-inputs (list python-pytest
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python-setuptools
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python-wheel))
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(propagated-inputs (list python-numpy))
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(home-page "https://github.com/pydata/bottleneck")
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(synopsis "Fast NumPy array functions written in C")
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(description
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"Bottleneck is a collection of fast, NaN-aware NumPy array functions
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written in C.")
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(license license:bsd-2)))
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(define-public python-spin
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(package
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(name "python-spin")
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@ -3247,6 +3327,43 @@ not usually a runtime dependency, but only a type checking, testing, and/or
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docs dependency in support of other libraries.")
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(license license:bsd-3)))
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(define-public python-unyt
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(package
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(name "python-unyt")
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(version "3.0.3")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "unyt" version))
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(sha256
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||||
(base32 "0jrq2vhan2h280h6cw1sm5hys2nzmf19w4py64k3nrkc320z9mni"))))
|
||||
(build-system pyproject-build-system)
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(arguments
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;; This is a Numpy DeprecationWarning, remove it on next update.
|
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(list #:test-flags ''("-k" "not test_h5_io")))
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||||
;; Pint is optional, but we do not propagate it due to its size.
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(native-inputs
|
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(list python-pint
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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))
|
||||
;; Astropy is an optional import, but we do not include it as it creates a
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;; module cycle: astronomy->python-science->astronomy.
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(propagated-inputs
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||||
(list python-h5py ; optional import
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python-matplotlib ; optional import
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||||
python-numpy
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python-sympy))
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(home-page "https://unyt.readthedocs.io")
|
||||
(synopsis "Library for working with data that has physical units")
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||||
(description
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||||
"@code{unyt} is a Python library working with data that has physical
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||||
units. It defines the @code{unyt.array.unyt_array} and
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@code{unyt.array.unyt_quantity} classes (subclasses of NumPy’s ndarray class)
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for handling arrays and scalars with units,respectively")
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(license license:bsd-3)))
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||||
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(define-public python-upsetplot
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(package
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(name "python-upsetplot")
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|
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@ -3301,6 +3418,65 @@ geometric calculations on arrays of vectors, rather than one vector at a time
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in a Python @code{for} loop.")
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(license license:bsd-3)))
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(define-public python-vedo
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(package
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(name "python-vedo")
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(version "2025.5.3")
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(source
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||||
(origin
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(method git-fetch)
|
||||
(uri (git-reference
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||||
(url "https://github.com/marcomusy/vedo")
|
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(commit (string-append "v" version))))
|
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(file-name (git-file-name name version))
|
||||
(sha256
|
||||
(base32 "0hrqyvcxxbc1wz0cnafc8rvsi5mj19kck4b6pmddh25rlhdcr5qb"))))
|
||||
(build-system pyproject-build-system)
|
||||
(arguments
|
||||
(list
|
||||
;; XXX: The whole test suite depends on the data from
|
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;; <https://vedo.embl.es/examples> providing samples which need to be
|
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;; downloaded during tests, find the way how to enable it.
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#:tests? #f
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#:phases
|
||||
#~(modify-phases %standard-phases
|
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(add-after 'unpack 'relax-requirements
|
||||
;; vtk does not provide Python metadata.
|
||||
;;
|
||||
;; ...checking requirements: ERROR: vedo==2025.5.3
|
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;; DistributionNotFound(Requirement.parse('vtk'), {'vedo'})
|
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(lambda _
|
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(substitute* "pyproject.toml"
|
||||
(("\"vtk\",") "")))))))
|
||||
(native-inputs
|
||||
(list pkg-config
|
||||
python-pkgconfig
|
||||
python-setuptools
|
||||
python-wheel))
|
||||
(propagated-inputs
|
||||
(list python-deprecated
|
||||
python-matplotlib
|
||||
python-numpy
|
||||
python-pygments
|
||||
vtk))
|
||||
(home-page "https://github.com/marcomusy/vedo")
|
||||
(synopsis
|
||||
"Analysis and visualization of 3D objects and point clouds")
|
||||
(description
|
||||
"@code{vedo} is a fast and lightweight python module for
|
||||
scientific analysis and visualization. The package provides a wide
|
||||
range of functionalities for working with three-dimensional meshes and
|
||||
point clouds. It can also be used to generate high quality
|
||||
two-dimensional renderings such as scatter plots and histograms.
|
||||
@code{vedo} is based on @code{vtk} and @code{numpy}.")
|
||||
;; vedo is released under the Expat license. Included fonts are
|
||||
;; covered by the OFL license and textures by the CC0 license.
|
||||
;; The earth images are in the public domain.
|
||||
(license (list license:expat
|
||||
license:silofl1.1
|
||||
license:cc0
|
||||
license:public-domain))))
|
||||
|
||||
(define-public python-xarray
|
||||
(package
|
||||
(name "python-xarray")
|
||||
|
|
@ -3613,102 +3789,6 @@ SCS (Splitting conic solver) library.")
|
|||
annotations on an existing boxplots and barplots generated by seaborn.")
|
||||
(license license:expat)))
|
||||
|
||||
(define-public python-unyt
|
||||
(package
|
||||
(name "python-unyt")
|
||||
(version "3.0.3")
|
||||
(source
|
||||
(origin
|
||||
(method url-fetch)
|
||||
(uri (pypi-uri "unyt" version))
|
||||
(sha256
|
||||
(base32 "0jrq2vhan2h280h6cw1sm5hys2nzmf19w4py64k3nrkc320z9mni"))))
|
||||
(build-system pyproject-build-system)
|
||||
(arguments
|
||||
;; This is a Numpy DeprecationWarning, remove it on next update.
|
||||
(list #:test-flags ''("-k" "not test_h5_io")))
|
||||
;; Pint is optional, but we do not propagate it due to its size.
|
||||
(native-inputs
|
||||
(list python-pint
|
||||
python-pytest
|
||||
python-setuptools
|
||||
python-setuptools-scm
|
||||
python-wheel))
|
||||
;; Astropy is an optional import, but we do not include it as it creates a
|
||||
;; module cycle: astronomy->python-science->astronomy.
|
||||
(propagated-inputs
|
||||
(list python-h5py ; optional import
|
||||
python-matplotlib ; optional import
|
||||
python-numpy
|
||||
python-sympy))
|
||||
(home-page "https://unyt.readthedocs.io")
|
||||
(synopsis "Library for working with data that has physical units")
|
||||
(description
|
||||
"@code{unyt} is a Python library working with data that has physical
|
||||
units. It defines the @code{unyt.array.unyt_array} and
|
||||
@code{unyt.array.unyt_quantity} classes (subclasses of NumPy’s ndarray class)
|
||||
for handling arrays and scalars with units,respectively")
|
||||
(license license:bsd-3)))
|
||||
|
||||
(define-public python-vedo
|
||||
(package
|
||||
(name "python-vedo")
|
||||
(version "2025.5.3")
|
||||
(source
|
||||
(origin
|
||||
(method git-fetch)
|
||||
(uri (git-reference
|
||||
(url "https://github.com/marcomusy/vedo")
|
||||
(commit (string-append "v" version))))
|
||||
(file-name (git-file-name name version))
|
||||
(sha256
|
||||
(base32 "0hrqyvcxxbc1wz0cnafc8rvsi5mj19kck4b6pmddh25rlhdcr5qb"))))
|
||||
(build-system pyproject-build-system)
|
||||
(arguments
|
||||
(list
|
||||
;; XXX: The whole test suite depends on the data from
|
||||
;; <https://vedo.embl.es/examples> providing samples which need to be
|
||||
;; downloaded during tests, find the way how to enable it.
|
||||
#:tests? #f
|
||||
#:phases
|
||||
#~(modify-phases %standard-phases
|
||||
(add-after 'unpack 'relax-requirements
|
||||
;; vtk does not provide Python metadata.
|
||||
;;
|
||||
;; ...checking requirements: ERROR: vedo==2025.5.3
|
||||
;; DistributionNotFound(Requirement.parse('vtk'), {'vedo'})
|
||||
(lambda _
|
||||
(substitute* "pyproject.toml"
|
||||
(("\"vtk\",") "")))))))
|
||||
(native-inputs
|
||||
(list pkg-config
|
||||
python-pkgconfig
|
||||
python-setuptools
|
||||
python-wheel))
|
||||
(propagated-inputs
|
||||
(list python-deprecated
|
||||
python-matplotlib
|
||||
python-numpy
|
||||
python-pygments
|
||||
vtk))
|
||||
(home-page "https://github.com/marcomusy/vedo")
|
||||
(synopsis
|
||||
"Analysis and visualization of 3D objects and point clouds")
|
||||
(description
|
||||
"@code{vedo} is a fast and lightweight python module for
|
||||
scientific analysis and visualization. The package provides a wide
|
||||
range of functionalities for working with three-dimensional meshes and
|
||||
point clouds. It can also be used to generate high quality
|
||||
two-dimensional renderings such as scatter plots and histograms.
|
||||
@code{vedo} is based on @code{vtk} and @code{numpy}.")
|
||||
;; vedo is released under the Expat license. Included fonts are
|
||||
;; covered by the OFL license and textures by the CC0 license.
|
||||
;; The earth images are in the public domain.
|
||||
(license (list license:expat
|
||||
license:silofl1.1
|
||||
license:cc0
|
||||
license:public-domain))))
|
||||
|
||||
(define-public python-pandas-flavor
|
||||
(package
|
||||
(name "python-pandas-flavor")
|
||||
|
|
@ -3796,59 +3876,6 @@ and more
|
|||
@end itemize")
|
||||
(license license:gpl3)))
|
||||
|
||||
(define-public python-dask-expr
|
||||
(package
|
||||
(name "python-dask-expr")
|
||||
(version "1.0.14")
|
||||
(source
|
||||
(origin
|
||||
(method git-fetch)
|
||||
(uri (git-reference
|
||||
(url "https://github.com/dask/dask-expr")
|
||||
(commit (string-append "v" version))))
|
||||
(file-name (git-file-name name version))
|
||||
(sha256
|
||||
(base32 "0c2q8w8wl5d2hycbjp9vavkl5f36kaz390wxlis2d8d43jnqhf0d"))))
|
||||
(build-system pyproject-build-system)
|
||||
(arguments
|
||||
(list
|
||||
#:tests? #false ;need python-distributed, which needs dask-expr.
|
||||
#:phases
|
||||
#~(modify-phases %standard-phases
|
||||
(add-after 'unpack 'versioneer
|
||||
(lambda _
|
||||
;; Our version of versioneer needs setup.cfg. This is adapted
|
||||
;; from pyproject.toml.
|
||||
(with-output-to-file "setup.cfg"
|
||||
(lambda ()
|
||||
(display "\
|
||||
[versioneer]
|
||||
VCS = git
|
||||
style = pep440
|
||||
versionfile_source = dask_expr/_version.py
|
||||
versionfile_build = dask_expr/_version.py
|
||||
tag_prefix =
|
||||
parentdir_prefix = dask_expr-
|
||||
")))
|
||||
(invoke "versioneer" "install")
|
||||
(substitute* "setup.py"
|
||||
(("versioneer.get_version\\(\\)")
|
||||
(string-append "\"" #$version "\""))))))))
|
||||
(propagated-inputs (list python-pandas python-pyarrow))
|
||||
(native-inputs
|
||||
;; We use python-dask/bootstrap so that python-dask can propagate this
|
||||
;; package without creating a mutually recursive dependency.
|
||||
(list python-dask/bootstrap
|
||||
python-pytest
|
||||
python-setuptools
|
||||
python-versioneer
|
||||
python-wheel))
|
||||
(home-page "https://github.com/dask/dask-expr")
|
||||
(synopsis "Dask DataFrames with query optimization")
|
||||
(description "This is a rewrite of Dask DataFrame that includes query
|
||||
optimization and generally improved organization.")
|
||||
(license license:bsd-3)))
|
||||
|
||||
(define-public python-distributed
|
||||
(package
|
||||
(name "python-distributed")
|
||||
|
|
@ -4790,33 +4817,6 @@ Out-of-Core DataFrames (similar to Pandas), to visualize and explore big
|
|||
tabular datasets. This package provides the core modules of Vaex.")
|
||||
(license license:expat)))
|
||||
|
||||
(define-public python-salib
|
||||
(package
|
||||
(name "python-salib")
|
||||
(version "1.4.7")
|
||||
(source (origin
|
||||
(method git-fetch)
|
||||
(uri (git-reference
|
||||
(url "https://github.com/SALib/SALib")
|
||||
(commit (string-append "v" version))))
|
||||
(file-name (git-file-name name version))
|
||||
(sha256
|
||||
(base32
|
||||
"18xfyzircsx2q2lmfc9lxb6xvkxicnc83qzghd7df1jsprr5ymch"))))
|
||||
(build-system pyproject-build-system)
|
||||
(propagated-inputs (list python-matplotlib
|
||||
python-multiprocess
|
||||
python-numpy
|
||||
python-pandas
|
||||
python-scipy))
|
||||
(native-inputs (list python-hatchling python-pytest python-pytest-cov))
|
||||
(home-page "https://salib.readthedocs.io/en/latest/")
|
||||
(synopsis "Tools for global sensitivity analysis")
|
||||
(description "SALib provides tools for global sensitivity analysis. It
|
||||
contains Sobol', Morris, FAST, DGSM, PAWN, HDMR, Moment Independent and
|
||||
fractional factorial methods.")
|
||||
(license license:expat)))
|
||||
|
||||
(define-public python-pylems
|
||||
(package
|
||||
(name "python-pylems")
|
||||
|
|
|
|||
Loading…
Add table
Add a link
Reference in a new issue