gnu: Add bcftools-1.9.
* gnu/packages/bioinformatics.scm (bcftools-1.9): New variable.
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@ -354,6 +354,28 @@ (define-public bcftools
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;; The sources are dual MIT/GPL, but becomes GPL-only when USE_GPL=1.
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(license (list license:gpl3+ license:expat))))
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(define-public bcftools-1.9
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(package (inherit bcftools)
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(name "bcftools")
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(version "1.9")
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(source (origin
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(method url-fetch)
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(uri (string-append "https://github.com/samtools/bcftools/"
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"releases/download/"
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version "/bcftools-" version ".tar.bz2"))
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(sha256
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(base32
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"1j3h638i8kgihzyrlnpj82xg1b23sijibys9hvwari3fy7kd0dkg"))
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(modules '((guix build utils)))
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(snippet '(begin
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;; Delete bundled htslib.
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(delete-file-recursively "htslib-1.9")
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#t))))
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(build-system gnu-build-system)
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(native-inputs
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`(("htslib" ,htslib-1.9)
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("perl" ,perl)))))
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(define-public bedops
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(package
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(name "bedops")
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@ -1955,7 +1977,7 @@ (define-public python-pysam
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;; FIXME: tests keep timing out on some systems.
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(invoke "nosetests" "-v" "--processes" "1")))))))
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(propagated-inputs
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`(("htslib" ,htslib))) ; Included from installed header files.
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`(("htslib" ,htslib-1.9))) ; Included from installed header files.
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(inputs
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`(("ncurses" ,ncurses)
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("curl" ,curl)
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@ -1963,7 +1985,7 @@ (define-public python-pysam
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(native-inputs
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`(("python-cython" ,python-cython)
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;; Dependencies below are are for tests only.
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("samtools" ,samtools)
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("samtools" ,samtools-1.9)
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("bcftools" ,bcftools)
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("python-nose" ,python-nose)))
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(home-page "https://github.com/pysam-developers/pysam")
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