gnu: Add ritornello.
* gnu/packages/bioinformatics.scm (ritornello): New variable.
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@ -9223,3 +9223,48 @@ (define-public sambamba
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an important subset of samtools functionality, including view, index,
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sort, markdup, and depth.")
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(license license:gpl2+)))
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(define-public ritornello
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(package
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(name "ritornello")
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(version "1.0.0")
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(source (origin
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(method url-fetch)
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(uri (string-append "https://github.com/KlugerLab/"
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"Ritornello/archive/v"
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version ".tar.gz"))
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(file-name (string-append name "-" version ".tar.gz"))
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(sha256
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(base32
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"02nik86gq9ljjriv6pamwlmqnfky3ads1fpklx6mc3hx6k40pg38"))))
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(build-system gnu-build-system)
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(arguments
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`(#:tests? #f ; there are no tests
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#:phases
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(modify-phases %standard-phases
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(add-after 'unpack 'patch-samtools-references
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(lambda* (#:key inputs #:allow-other-keys)
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(substitute* '("src/SamStream.h"
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"src/BufferedGenomeReader.h")
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(("<sam.h>") "<samtools/sam.h>"))
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#t))
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(delete 'configure)
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(replace 'install
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(lambda* (#:key inputs 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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(mkdir-p bin)
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(install-file "bin/Ritornello" bin)
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#t))))))
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(inputs
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`(("samtools" ,samtools-0.1)
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("fftw" ,fftw)
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("boost" ,boost)
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("zlib" ,zlib)))
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(home-page "https://github.com/KlugerLab/Ritornello")
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(synopsis "Control-free peak caller for ChIP-seq data")
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(description "Ritornello is a ChIP-seq peak calling algorithm based on
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signal processing that can accurately call binding events without the need to
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do a pair total DNA input or IgG control sample. It has been tested for use
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with narrow binding events such as transcription factor ChIP-seq.")
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(license license:gpl3+)))
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