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gnu: Remove find-circ.
* gnu/packages/bioinformatics.scm (find-circ): Delete variable.
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@ -11677,56 +11677,6 @@ (define-public gffread
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(license (list license:expat
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license:artistic2.0)))))
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(define-public find-circ
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;; The last release was in 2015. The license was clarified in 2017, so we
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;; take the latest commit.
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(let ((commit "8655dca54970fcf7e92e22fbf57e1188724dda7d")
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(revision "1"))
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(package
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(name "find-circ")
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(version (git-version "1.2" revision commit))
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(source
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(origin
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(method git-fetch)
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(uri (git-reference
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(url "https://github.com/marvin-jens/find_circ")
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(commit commit)))
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(file-name (git-file-name name version))
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(sha256
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(base32
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"0p77pbqbclqr4srms34y1b9b4njybfpjiknc11ki84f3p8skb3cg"))))
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(build-system gnu-build-system)
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(arguments
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`(#:tests? #f ; there are none
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#:phases
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;; There is no actual build system.
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(modify-phases %standard-phases
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(delete 'configure)
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(delete 'build)
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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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(path (getenv "GUIX_PYTHONPATH")))
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(for-each (lambda (script)
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(install-file script bin)
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(wrap-program (string-append bin "/" script)
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`("GUIX_PYTHONPATH" ":" prefix (,path))))
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'("cmp_bed.py"
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"find_circ.py"
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"maxlength.py"
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"merge_bed.py"
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"unmapped2anchors.py")))
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#t)))))
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(inputs
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(list python-2 python2-pysam python2-numpy))
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(home-page "https://github.com/marvin-jens/find_circ")
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(synopsis "circRNA detection from RNA-seq reads")
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(description "This package provides tools to detect head-to-tail
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spliced (back-spliced) sequencing reads, indicative of circular RNA (circRNA)
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in RNA-seq data.")
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(license license:gpl3))))
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(define-public fit-sne
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(package
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(name "fit-sne")
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