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