gnu: Add prank.
* gnu/packages/bioinformatics.scm (prank): New variable.
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@ -3259,6 +3259,58 @@ the phenotype as it models the data.")
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generated using the PacBio Iso-Seq protocol.")
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(license license:bsd-3))))
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(define-public prank
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(package
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(name "prank")
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(version "150803")
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(source (origin
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(method url-fetch)
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(uri (string-append
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"http://wasabiapp.org/download/prank/prank.source."
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version ".tgz"))
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(sha256
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(base32
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"0am4z94fs3w2n5xpfls9zda61vq7qqz4q2i7b9hlsxz5q4j3kfm4"))))
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(build-system gnu-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 'enter-src-dir
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(lambda _
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(chdir "src")
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#t))
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(delete 'configure)
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(replace 'install
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(lambda* (#:key outputs #:allow-other-keys)
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(let* ((out (assoc-ref outputs "out"))
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(bin (string-append out "/bin"))
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(man (string-append out "/share/man/man1"))
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(path (string-append
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(assoc-ref %build-inputs "mafft") "/bin:"
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(assoc-ref %build-inputs "exonerate") "/bin:"
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(assoc-ref %build-inputs "bppsuite") "/bin")))
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(install-file "prank" bin)
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(wrap-program (string-append bin "/prank")
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`("PATH" ":" prefix (,path)))
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(install-file "prank.1" man))
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#t)))))
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(inputs
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`(("mafft" ,mafft)
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("exonerate" ,exonerate)
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("bppsuite" ,bppsuite)))
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(home-page "http://wasabiapp.org/software/prank/")
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(synopsis "Probabilistic multiple sequence alignment program")
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(description
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"PRANK is a probabilistic multiple sequence alignment program for DNA,
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codon and amino-acid sequences. It is based on a novel algorithm that treats
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insertions correctly and avoids over-estimation of the number of deletion
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events. In addition, PRANK borrows ideas from maximum likelihood methods used
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in phylogenetics and correctly takes into account the evolutionary distances
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between sequences. Lastly, PRANK allows for defining a potential structure
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for sequences to be aligned and then, simultaneously with the alignment,
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predicts the locations of structural units in the sequences.")
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(license license:gpl2+)))
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(define-public pyicoteo
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(package
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(name "pyicoteo")
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