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gnu: packages/python-science: Sort packages.
* gnu/packages/python-science.scm: (python-asap3, python-baycomp, python-clarabel, python-hist, python-numpoly, python-particle, python-uhi, python-vector): Sort variables alphabetically. Change-Id: Idd202a03a518774d204de6292d74fbe53ea5761e
This commit is contained in:
Sharlatan Hellseher
parent
4f2c0a5638
commit
ef5cc8ea79
1 changed files with 236 additions and 236 deletions
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@ -297,6 +297,25 @@ specification and test suite in Python.")
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supersedes the RTED algorithm for computing the tree edit distance.")
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(license license:expat))))
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(define-public python-asap3
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(package
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(name "python-asap3")
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(version "3.13.7")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "asap3" version))
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(sha256
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(base32 "0z6m9ybiy4fdnzlkfkvyxich18iwlwlgj1jd99fylyfwf8l160am"))))
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(build-system pyproject-build-system)
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(propagated-inputs (list python-ase))
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(native-inputs (list python-setuptools python-wheel which))
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(home-page "https://wiki.fysik.dtu.dk/asap")
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(synopsis "ASAP - classical potentials for Molecular Dynamics with ASE.")
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(description "This package provides accelerated simulations and potentials
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of solids.")
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(license license:lgpl3)))
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(define-public python-ase
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(package
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(name "python-ase")
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@ -327,6 +346,32 @@ setting up, manipulating, running, visualizing and analyzing atomistic
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simulations.")
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(license license:lgpl2.1+)))
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(define-public python-baycomp
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(package
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(name "python-baycomp")
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(version "1.0.3")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "baycomp" version))
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(sha256
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(base32 "1v6s4mfr6xzjbv9a2v89hywm6fbv5nii0qczvcfjanvdn7bmmcij"))))
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(build-system pyproject-build-system)
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(native-inputs
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(list python-pytest python-setuptools python-wheel))
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(propagated-inputs
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(list python-matplotlib python-numpy python-scipy))
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(home-page "https://github.com/janezd/baycomp")
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(synopsis "Library for comparison of Bayesian classifiers")
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(description
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"Baycomp is a library for Bayesian comparison of classifiers. Functions
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in the library compare two classifiers on one or on multiple data sets. They
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compute three probabilities: the probability that the first classifier has
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higher scores than the second, the probability that differences are within the
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region of practical equivalence (rope), or that the second classifier has
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higher scores.")
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(license license:expat)))
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(define-public python-boost-histogram
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(package
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(name "python-boost-histogram")
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@ -354,6 +399,62 @@ simulations.")
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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-clarabel
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(package
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(name "python-clarabel")
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(version "0.7.1")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "clarabel" version))
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(sha256
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(base32 "15k32ynvh45n9q905bxwamh5w5cia9bxzmwz69wbribmyhsv22m3"))
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(patches
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(search-patches "python-clarabel-blas.patch"))))
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(build-system cargo-build-system)
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(arguments
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(list
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#:imported-modules `(,@%cargo-build-system-modules
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,@%pyproject-build-system-modules)
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#:modules '((guix build cargo-build-system)
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((guix build pyproject-build-system) #:prefix py:)
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(guix build utils))
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#:phases
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#~(modify-phases %standard-phases
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(add-after 'build 'build-python-module
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(assoc-ref py:%standard-phases 'build))
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(add-after 'build-python-module 'install-python-module
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(assoc-ref py:%standard-phases 'install)))
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#:cargo-inputs
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`(("rust-amd" ,rust-amd-0.2)
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("rust-blas" ,rust-blas-0.22)
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("rust-cfg-if" ,rust-cfg-if-1)
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("rust-derive-builder" ,rust-derive-builder-0.11)
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("rust-enum-dispatch" ,rust-enum-dispatch-0.3) ;0.3.8
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("rust-itertools" ,rust-itertools-0.11)
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("rust-lapack" ,rust-lapack-0.19)
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("rust-lazy-static" ,rust-lazy-static-1) ;1.4
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("rust-libc" ,rust-libc-0.2)
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("rust-num-derive" ,rust-num-derive-0.2)
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("rust-num-traits" ,rust-num-traits-0.2)
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("rust-pyo3" ,rust-pyo3-0.20)
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("rust-serde" ,rust-serde-1)
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("rust-serde-json" ,rust-serde-json-1)
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("rust-thiserror" ,rust-thiserror-1))
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#:features '(list "python")
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#:install-source? #false))
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(inputs
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(list maturin))
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(native-inputs
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(list python-wrapper))
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(propagated-inputs (list python-numpy python-scipy))
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(home-page "https://github.com/oxfordcontrol/Clarabel.rs")
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(synopsis "Interior-point solver for convex conic optimisation problems")
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(description "Clarabel.rs is a Rust implementation of an interior point
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numerical solver for convex optimization problems using a novel homogeneous
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embedding.")
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(license license:asl2.0)))
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(define-public python-cmocean
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(package
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(name "python-cmocean")
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@ -632,6 +733,31 @@ constants in the HEP System of Units, as derived from the basic units
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originally defined by the CLHEP project.")
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(license license:bsd-3)))
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(define-public python-hist
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(package
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(name "python-hist")
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(version "2.8.1")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "hist" version))
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(sha256
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(base32 "17cd46c0ixq18fr2kgzam09w1sr4qkd9l6nsjdbl4vggw80ck9vx"))))
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(build-system pyproject-build-system)
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(propagated-inputs (list python-boost-histogram
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python-histoprint
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python-numpy
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python-typing-extensions))
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(native-inputs (list python-hatch-vcs
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python-hatchling
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python-pytest
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python-pytest-mpl))
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(home-page "https://hist.readthedocs.io/en/latest/")
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(synopsis "Hist classes and utilities")
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(description
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"Hist is an analyst-friendly front-end for @code{boost-histogram}.")
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(license license:bsd-3)))
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(define-public python-histoprint
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(package
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(name "python-histoprint")
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@ -842,6 +968,32 @@ allowing the user to specify whether complex-step, central, forward or
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backward differences are used.")
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(license license:bsd-3)))
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(define-public python-numpoly
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(package
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(name "python-numpoly")
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(version "1.2.11")
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(source (origin
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(method git-fetch) ;; PyPI is missing some Pytest fixtures
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(uri (git-reference
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(url "https://github.com/jonathf/numpoly")
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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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"01g21v91f4d66xd0bvap0n6d6485w2fnq1636gx6h2s42550rlbd"))))
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(build-system pyproject-build-system)
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(propagated-inputs (list python-importlib-metadata python-numpy))
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(native-inputs (list python-pytest python-setuptools python-sympy
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python-wheel))
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(home-page "https://numpoly.readthedocs.io/en/master/")
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(synopsis "Polynomials as a numpy datatype")
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(description "Numpoly is a generic library for creating, manipulating and
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evaluating arrays of polynomials based on @code{numpy.ndarray objects}.")
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;; Tests fail with dtype mismatches on 32-bit architectures, suggesting
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;; that numpoly only supports 64 bit platforms.
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(supported-systems '("x86_64-linux" "aarch64-linux" "powerpc64le-linux"))
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(license license:bsd-2)))
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(define-public python-numpy-groupies
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(package
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(name "python-numpy-groupies")
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@ -922,6 +1074,34 @@ aggregated sum and more.")
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numerical optimization package.")
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(license license:asl2.0)))
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(define-public python-particle
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(package
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(name "python-particle")
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(version "0.25.3")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "particle" version))
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(sha256
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(base32 "0as50k5hinxszsm6lnghnmx2cyjy77c0i2gvzf2q64g2x5b7xkvq"))))
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(build-system pyproject-build-system)
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(propagated-inputs (list python-attrs
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python-hepunits
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python-typing-extensions))
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(native-inputs (list python-hatch-vcs
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python-hatchling
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python-pandas
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python-pytest
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python-pytest-benchmark
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python-tabulate))
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(home-page "https://github.com/scikit-hep/particle")
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(synopsis "Extended PDG particle data and MC identification codes")
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(description
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"@code{Particle} provides a pythonic interface to the Particle Data Group
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(PDG) particle data tables and particle identification codes, with extended
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particle information and extra goodies.")
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(license license:bsd-3)))
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(define-public python-pint
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(package
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(name "python-pint")
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@ -1732,58 +1912,6 @@ its software deployment plugins.")
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Snakemake and its storage plugins.")
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(license license:expat)))
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(define-public python-uhi
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(package
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(name "python-uhi")
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(version "0.5.0")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "uhi" version))
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(sha256
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(base32 "0753b7yw0zi06g4azafnk3w8i3q6js9i6wwg3pya464gygrbnncm"))))
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(build-system pyproject-build-system)
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(propagated-inputs (list python-numpy))
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(native-inputs (list python-boost-histogram
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python-fastjsonschema
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python-hatch-vcs
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python-hatchling
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python-pytest))
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(home-page "https://github.com/scikit-hep/uhi")
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(synopsis "Universal Histogram Interface")
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(description "This is a package meant primarily for documenting histogram
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indexing and the PlottableHistogram Protocol and any future cross-library
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standards. It also contains the code for the PlottableHistogram Protocol, to
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be used in type checking libraries wanting to conform to the protocol. It is
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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-hist
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(package
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(name "python-hist")
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(version "2.8.1")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "hist" version))
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(sha256
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(base32 "17cd46c0ixq18fr2kgzam09w1sr4qkd9l6nsjdbl4vggw80ck9vx"))))
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(build-system pyproject-build-system)
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(propagated-inputs (list python-boost-histogram
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python-histoprint
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python-numpy
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python-typing-extensions))
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(native-inputs (list python-hatch-vcs
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python-hatchling
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python-pytest
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python-pytest-mpl))
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(home-page "https://hist.readthedocs.io/en/latest/")
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(synopsis "Hist classes and utilities")
|
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(description
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"Hist is an analyst-friendly front-end for @code{boost-histogram}.")
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(license license:bsd-3)))
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(define-public python-tdda
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(package
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(name "python-tdda")
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@ -1830,63 +1958,6 @@ reference testing, constraint discovery for data, automatic inference
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of regular expressions from text data and automatic test generation.")
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(license license:expat))) ; MIT License
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(define-public python-particle
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(package
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(name "python-particle")
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(version "0.25.3")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "particle" version))
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(sha256
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(base32 "0as50k5hinxszsm6lnghnmx2cyjy77c0i2gvzf2q64g2x5b7xkvq"))))
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(build-system pyproject-build-system)
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(propagated-inputs (list python-attrs
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python-hepunits
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python-typing-extensions))
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(native-inputs (list python-hatch-vcs
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python-hatchling
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python-pandas
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python-pytest
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python-pytest-benchmark
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python-tabulate))
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(home-page "https://github.com/scikit-hep/particle")
|
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(synopsis "Extended PDG particle data and MC identification codes")
|
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(description
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"@code{Particle} provides a pythonic interface to the Particle Data Group
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(PDG) particle data tables and particle identification codes, with extended
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particle information and extra goodies.")
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(license license:bsd-3)))
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(define-public python-vector
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(package
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(name "python-vector")
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(version "1.6.2")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "vector" version))
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(sha256
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(base32 "1jhfgx54a6l1cz9as2wlwrph86f8s1882biaakx1cl31igdxjnbf"))))
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(build-system pyproject-build-system)
|
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(arguments
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(list
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;; This file requires python-papermill (not yet packaged).
|
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#:test-flags #~(list "--ignore" "tests/test_notebooks.py")))
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(propagated-inputs (list python-numpy python-packaging))
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(native-inputs (list python-awkward
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python-hatch-vcs
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python-hatchling
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python-pytest
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python-sympy))
|
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(home-page "https://github.com/scikit-hep/vector")
|
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(synopsis "Arrays of 2D, 3D, and Lorentz vectors")
|
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(description "Vector is a Python library for 2D and 3D spatial vectors, as
|
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well as 4D space-time vectors. It is especially intended for performing
|
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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-traittypes
|
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(package
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(name "python-traittypes")
|
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|
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@ -2863,32 +2934,6 @@ Python module with the same interface, but (hopefully) faster.")
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written in C.")
|
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(license license:bsd-2)))
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(define-public python-numpoly
|
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(package
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(name "python-numpoly")
|
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(version "1.2.11")
|
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(source (origin
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||||
(method git-fetch) ;; PyPI is missing some Pytest fixtures
|
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(uri (git-reference
|
||||
(url "https://github.com/jonathf/numpoly")
|
||||
(commit (string-append "v" version))))
|
||||
(file-name (git-file-name name version))
|
||||
(sha256
|
||||
(base32
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||||
"01g21v91f4d66xd0bvap0n6d6485w2fnq1636gx6h2s42550rlbd"))))
|
||||
(build-system pyproject-build-system)
|
||||
(propagated-inputs (list python-importlib-metadata python-numpy))
|
||||
(native-inputs (list python-pytest python-setuptools python-sympy
|
||||
python-wheel))
|
||||
(home-page "https://numpoly.readthedocs.io/en/master/")
|
||||
(synopsis "Polynomials as a numpy datatype")
|
||||
(description "Numpoly is a generic library for creating, manipulating and
|
||||
evaluating arrays of polynomials based on @code{numpy.ndarray objects}.")
|
||||
;; Tests fail with dtype mismatches on 32-bit architectures, suggesting
|
||||
;; that numpoly only supports 64 bit platforms.
|
||||
(supported-systems '("x86_64-linux" "aarch64-linux" "powerpc64le-linux"))
|
||||
(license license:bsd-2)))
|
||||
|
||||
(define-public python-spin
|
||||
(package
|
||||
(name "python-spin")
|
||||
|
|
@ -2915,32 +2960,6 @@ changed, it made sense to abstract away the nuisance of having to re-learn
|
|||
them.")
|
||||
(license license:bsd-3)))
|
||||
|
||||
(define-public python-baycomp
|
||||
(package
|
||||
(name "python-baycomp")
|
||||
(version "1.0.3")
|
||||
(source
|
||||
(origin
|
||||
(method url-fetch)
|
||||
(uri (pypi-uri "baycomp" version))
|
||||
(sha256
|
||||
(base32 "1v6s4mfr6xzjbv9a2v89hywm6fbv5nii0qczvcfjanvdn7bmmcij"))))
|
||||
(build-system pyproject-build-system)
|
||||
(native-inputs
|
||||
(list python-pytest python-setuptools python-wheel))
|
||||
(propagated-inputs
|
||||
(list python-matplotlib python-numpy python-scipy))
|
||||
(home-page "https://github.com/janezd/baycomp")
|
||||
(synopsis "Library for comparison of Bayesian classifiers")
|
||||
(description
|
||||
"Baycomp is a library for Bayesian comparison of classifiers. Functions
|
||||
in the library compare two classifiers on one or on multiple data sets. They
|
||||
compute three probabilities: the probability that the first classifier has
|
||||
higher scores than the second, the probability that differences are within the
|
||||
region of practical equivalence (rope), or that the second classifier has
|
||||
higher scores.")
|
||||
(license license:expat)))
|
||||
|
||||
(define-public python-fastcluster
|
||||
(package
|
||||
(name "python-fastcluster")
|
||||
|
|
@ -3022,6 +3041,33 @@ analysis} (PCA), SVD, and eigendecompositions via randomized methods")
|
|||
learning frameworks.")
|
||||
(license license:expat)))
|
||||
|
||||
(define-public python-uhi
|
||||
(package
|
||||
(name "python-uhi")
|
||||
(version "0.5.0")
|
||||
(source
|
||||
(origin
|
||||
(method url-fetch)
|
||||
(uri (pypi-uri "uhi" version))
|
||||
(sha256
|
||||
(base32 "0753b7yw0zi06g4azafnk3w8i3q6js9i6wwg3pya464gygrbnncm"))))
|
||||
(build-system pyproject-build-system)
|
||||
(propagated-inputs (list python-numpy))
|
||||
(native-inputs (list python-boost-histogram
|
||||
python-fastjsonschema
|
||||
python-hatch-vcs
|
||||
python-hatchling
|
||||
python-pytest))
|
||||
(home-page "https://github.com/scikit-hep/uhi")
|
||||
(synopsis "Universal Histogram Interface")
|
||||
(description "This is a package meant primarily for documenting histogram
|
||||
indexing and the PlottableHistogram Protocol and any future cross-library
|
||||
standards. It also contains the code for the PlottableHistogram Protocol, to
|
||||
be used in type checking libraries wanting to conform to the protocol. It is
|
||||
not usually a runtime dependency, but only a type checking, testing, and/or
|
||||
docs dependency in support of other libraries.")
|
||||
(license license:bsd-3)))
|
||||
|
||||
(define-public python-upsetplot
|
||||
(package
|
||||
(name "python-upsetplot")
|
||||
|
|
@ -3047,6 +3093,35 @@ UpSet plots are used to visualize set overlaps; like Venn diagrams but more
|
|||
readable.")
|
||||
(license license:bsd-3)))
|
||||
|
||||
(define-public python-vector
|
||||
(package
|
||||
(name "python-vector")
|
||||
(version "1.6.2")
|
||||
(source
|
||||
(origin
|
||||
(method url-fetch)
|
||||
(uri (pypi-uri "vector" version))
|
||||
(sha256
|
||||
(base32 "1jhfgx54a6l1cz9as2wlwrph86f8s1882biaakx1cl31igdxjnbf"))))
|
||||
(build-system pyproject-build-system)
|
||||
(arguments
|
||||
(list
|
||||
;; This file requires python-papermill (not yet packaged).
|
||||
#:test-flags #~(list "--ignore" "tests/test_notebooks.py")))
|
||||
(propagated-inputs (list python-numpy python-packaging))
|
||||
(native-inputs (list python-awkward
|
||||
python-hatch-vcs
|
||||
python-hatchling
|
||||
python-pytest
|
||||
python-sympy))
|
||||
(home-page "https://github.com/scikit-hep/vector")
|
||||
(synopsis "Arrays of 2D, 3D, and Lorentz vectors")
|
||||
(description "Vector is a Python library for 2D and 3D spatial vectors, as
|
||||
well as 4D space-time vectors. It is especially intended for performing
|
||||
geometric calculations on arrays of vectors, rather than one vector at a time
|
||||
in a Python @code{for} loop.")
|
||||
(license license:bsd-3)))
|
||||
|
||||
(define-public python-xarray
|
||||
(package
|
||||
(name "python-xarray")
|
||||
|
|
@ -4246,62 +4321,6 @@ visual integration of spatially referenced datasets.")
|
|||
to do spectral analysis in Python.")
|
||||
(license license:expat)))
|
||||
|
||||
(define-public python-clarabel
|
||||
(package
|
||||
(name "python-clarabel")
|
||||
(version "0.7.1")
|
||||
(source
|
||||
(origin
|
||||
(method url-fetch)
|
||||
(uri (pypi-uri "clarabel" version))
|
||||
(sha256
|
||||
(base32 "15k32ynvh45n9q905bxwamh5w5cia9bxzmwz69wbribmyhsv22m3"))
|
||||
(patches
|
||||
(search-patches "python-clarabel-blas.patch"))))
|
||||
(build-system cargo-build-system)
|
||||
(arguments
|
||||
(list
|
||||
#:imported-modules `(,@%cargo-build-system-modules
|
||||
,@%pyproject-build-system-modules)
|
||||
#:modules '((guix build cargo-build-system)
|
||||
((guix build pyproject-build-system) #:prefix py:)
|
||||
(guix build utils))
|
||||
#:phases
|
||||
#~(modify-phases %standard-phases
|
||||
(add-after 'build 'build-python-module
|
||||
(assoc-ref py:%standard-phases 'build))
|
||||
(add-after 'build-python-module 'install-python-module
|
||||
(assoc-ref py:%standard-phases 'install)))
|
||||
#:cargo-inputs
|
||||
`(("rust-amd" ,rust-amd-0.2)
|
||||
("rust-blas" ,rust-blas-0.22)
|
||||
("rust-cfg-if" ,rust-cfg-if-1)
|
||||
("rust-derive-builder" ,rust-derive-builder-0.11)
|
||||
("rust-enum-dispatch" ,rust-enum-dispatch-0.3) ;0.3.8
|
||||
("rust-itertools" ,rust-itertools-0.11)
|
||||
("rust-lapack" ,rust-lapack-0.19)
|
||||
("rust-lazy-static" ,rust-lazy-static-1) ;1.4
|
||||
("rust-libc" ,rust-libc-0.2)
|
||||
("rust-num-derive" ,rust-num-derive-0.2)
|
||||
("rust-num-traits" ,rust-num-traits-0.2)
|
||||
("rust-pyo3" ,rust-pyo3-0.20)
|
||||
("rust-serde" ,rust-serde-1)
|
||||
("rust-serde-json" ,rust-serde-json-1)
|
||||
("rust-thiserror" ,rust-thiserror-1))
|
||||
#:features '(list "python")
|
||||
#:install-source? #false))
|
||||
(inputs
|
||||
(list maturin))
|
||||
(native-inputs
|
||||
(list python-wrapper))
|
||||
(propagated-inputs (list python-numpy python-scipy))
|
||||
(home-page "https://github.com/oxfordcontrol/Clarabel.rs")
|
||||
(synopsis "Interior-point solver for convex conic optimisation problems")
|
||||
(description "Clarabel.rs is a Rust implementation of an interior point
|
||||
numerical solver for convex optimization problems using a novel homogeneous
|
||||
embedding.")
|
||||
(license license:asl2.0)))
|
||||
|
||||
(define-public python-climin
|
||||
(package
|
||||
(name "python-climin")
|
||||
|
|
@ -4924,25 +4943,6 @@ applications.")
|
|||
neuronal models")
|
||||
(license license:bsd-3)))
|
||||
|
||||
(define-public python-asap3
|
||||
(package
|
||||
(name "python-asap3")
|
||||
(version "3.13.7")
|
||||
(source
|
||||
(origin
|
||||
(method url-fetch)
|
||||
(uri (pypi-uri "asap3" version))
|
||||
(sha256
|
||||
(base32 "0z6m9ybiy4fdnzlkfkvyxich18iwlwlgj1jd99fylyfwf8l160am"))))
|
||||
(build-system pyproject-build-system)
|
||||
(propagated-inputs (list python-ase))
|
||||
(native-inputs (list python-setuptools python-wheel which))
|
||||
(home-page "https://wiki.fysik.dtu.dk/asap")
|
||||
(synopsis "ASAP - classical potentials for Molecular Dynamics with ASE.")
|
||||
(description "This package provides accelerated simulations and potentials
|
||||
of solids.")
|
||||
(license license:lgpl3)))
|
||||
|
||||
(define-public snakemake
|
||||
(package
|
||||
(name "snakemake")
|
||||
|
|
|
|||
Loading…
Add table
Add a link
Reference in a new issue