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gnu: grocsvs: Remove package.

This package depends on Python 2 and doesn't build anymore.  Upstream doesn't
seem active, but if they ever port it to Python 3, they should let people know
here: https://github.com/grocsvs/grocsvs/issues/6.

* gnu/packages/bioinformatics.scm (grocsvs): Delete.
This commit is contained in:
Maxim Cournoyer 2021-01-29 10:53:45 -05:00
parent de8dc9039b
commit 23a5dcce1d
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GPG key ID: 1260E46482E63562

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@ -15607,44 +15607,3 @@ biological processes. SBML is useful for models of metabolism, cell
signaling, and more. It continues to be evolved and expanded by an
international community.")
(license license:lgpl2.1+)))
(define-public grocsvs
;; The last release is out of date and new features have been added.
(let ((commit "ecd956a65093a0b2c41849050e4512d46fecea5d")
(revision "1"))
(package
(name "grocsvs")
(version (git-version "0.2.6.1" revision commit))
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/grocsvs/grocsvs")
(commit commit)))
(file-name (git-file-name name version))
(sha256
(base32 "14505725gr7qxc17cxxf0k6lzcwmgi64pija4mwf29aw70qn35cc"))
(patches (search-patches "grocsvs-dont-use-admiral.patch"))))
(build-system python-build-system)
(arguments
`(#:tests? #f ; No test suite.
#:python ,python-2)) ; Only python-2 supported.
(inputs
`(("python2-h5py" ,python2-h5py)
("python2-ipython-cluster-helper" ,python2-ipython-cluster-helper)
("python2-networkx" ,python2-networkx)
("python2-psutil" ,python2-psutil)
("python2-pandas" ,python2-pandas)
("python2-pybedtools" ,python2-pybedtools)
("python2-pyfaidx" ,python2-pyfaidx)
("python2-pygraphviz" ,python2-pygraphviz)
("python2-pysam" ,python2-pysam)
("python2-scipy" ,python2-scipy)))
(home-page "https://github.com/grocsvs/grocsvs")
(synopsis "Genome-wide reconstruction of complex structural variants")
(description
"@dfn{Genome-wide Reconstruction of Complex Structural Variants}
(GROC-SVs) is a software pipeline for identifying large-scale structural
variants, performing sequence assembly at the breakpoints, and reconstructing
the complex structural variants using the long-fragment information from the
10x Genomics platform.")
(license license:expat))))