gnu: Add r-vegan.
* gnu/packages/bioinformatics.scm (r-vegan): New variable.
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@ -3815,6 +3815,57 @@ data in the form of VCF files.")
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;; at https://vcftools.github.io/license.html
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;; at https://vcftools.github.io/license.html
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(license license:lgpl3)))
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(license license:lgpl3)))
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(define-public r-vegan
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(package
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(name "r-vegan")
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(version "2.4-0")
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(source
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(origin
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(method url-fetch)
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(uri (cran-uri "vegan" version))
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(sha256
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(base32
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"10cygzkyg2m0y054ygivqxrkvqz792qsg6bmbdfzaqq37qv4wc7z"))))
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(build-system r-build-system)
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(arguments
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`(#:phases
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(modify-phases %standard-phases
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(add-after 'unpack 'revert-test-deletion
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;; The distributed sources do not include tests with the CRAN
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;; package. Here we revert the commit
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;; `591d0e8ba1deaaf82445474ec6619c0b43db4e63' which deletes these
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;; tests. There are plans to not delete tests in future as
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;; documented at https://github.com/vegandevs/vegan/issues/181.
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(lambda* (#:key inputs #:allow-other-keys)
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(zero?
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(system* "patch" "-R" "-p1" "-i"
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(assoc-ref inputs "r-vegan-delete-tests-patch"))))))))
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(native-inputs
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`(("gfortran" ,gfortran)
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("r-knitr" ,r-knitr)
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("r-vegan-delete-tests-patch"
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,(origin
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(method url-fetch)
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(uri (string-append
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"https://github.com/vegandevs/vegan/commit/"
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"591d0e8ba1deaaf82445474ec6619c0b43db4e63.patch"))
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(sha256
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(base32
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"0b1bi7y4jjdl3ph721vm9apm51dr2z9piwvhy4355sf2b4kyyj5a"))))))
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(propagated-inputs
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`(("r-cluster" ,r-cluster)
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("r-lattice" ,r-lattice)
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("r-mgcv" ,r-mgcv)
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("r-permute" ,r-permute)))
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(home-page "https://cran.r-project.org/web/packages/vegan")
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(synopsis "Functions for community ecology")
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(description
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"The vegan package provides tools for descriptive community ecology. It
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has most basic functions of diversity analysis, community ordination and
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dissimilarity analysis. Most of its multivariate tools can be used for other
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data types as well.")
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(license license:gpl2+)))
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(define-public vsearch
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(define-public vsearch
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(package
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(package
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(name "vsearch")
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(name "vsearch")
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