gnu: r-shortread: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-shortread): Move from here... * gnu/packages/bioconductor.scm (r-shortread): ...to here.master
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@ -1845,6 +1845,49 @@ reports together for a particular project that can be viewed in a web
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browser.")
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(license license:artistic2.0)))
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(define-public r-shortread
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(package
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(name "r-shortread")
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(version "1.48.0")
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(source
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(origin
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(method url-fetch)
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(uri (bioconductor-uri "ShortRead" version))
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(sha256
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(base32
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"0w4m8d3h660mmr2ymp206r1n4aqssxmkv8yxkbr5y1swrahxzfk9"))))
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(properties `((upstream-name . "ShortRead")))
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(build-system r-build-system)
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(inputs
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`(("zlib" ,zlib)))
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(propagated-inputs
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`(("r-biobase" ,r-biobase)
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("r-biocgenerics" ,r-biocgenerics)
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("r-biocparallel" ,r-biocparallel)
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("r-biostrings" ,r-biostrings)
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("r-genomeinfodb" ,r-genomeinfodb)
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("r-genomicalignments" ,r-genomicalignments)
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("r-genomicranges" ,r-genomicranges)
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("r-rhtslib" ,r-rhtslib)
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("r-hwriter" ,r-hwriter)
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("r-iranges" ,r-iranges)
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("r-lattice" ,r-lattice)
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("r-latticeextra" ,r-latticeextra)
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("r-rsamtools" ,r-rsamtools)
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("r-s4vectors" ,r-s4vectors)
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("r-xvector" ,r-xvector)
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("r-zlibbioc" ,r-zlibbioc)))
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(home-page "https://bioconductor.org/packages/ShortRead")
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(synopsis "FASTQ input and manipulation tools")
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(description
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"This package implements sampling, iteration, and input of FASTQ files.
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It includes functions for filtering and trimming reads, and for generating a
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quality assessment report. Data are represented as
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@code{DNAStringSet}-derived objects, and easily manipulated for a diversity of
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purposes. The package also contains legacy support for early single-end,
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ungapped alignment formats.")
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(license license:artistic2.0)))
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(define-public r-geneplotter
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(package
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(name "r-geneplotter")
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@ -7387,49 +7387,6 @@ includes software to
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")
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(license license:cc0))))
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(define-public r-shortread
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(package
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(name "r-shortread")
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(version "1.48.0")
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(source
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(origin
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(method url-fetch)
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(uri (bioconductor-uri "ShortRead" version))
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(sha256
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(base32
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"0w4m8d3h660mmr2ymp206r1n4aqssxmkv8yxkbr5y1swrahxzfk9"))))
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(properties `((upstream-name . "ShortRead")))
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(build-system r-build-system)
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(inputs
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`(("zlib" ,zlib)))
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(propagated-inputs
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`(("r-biobase" ,r-biobase)
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("r-biocgenerics" ,r-biocgenerics)
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("r-biocparallel" ,r-biocparallel)
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("r-biostrings" ,r-biostrings)
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("r-genomeinfodb" ,r-genomeinfodb)
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("r-genomicalignments" ,r-genomicalignments)
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("r-genomicranges" ,r-genomicranges)
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("r-rhtslib" ,r-rhtslib)
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("r-hwriter" ,r-hwriter)
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("r-iranges" ,r-iranges)
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("r-lattice" ,r-lattice)
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("r-latticeextra" ,r-latticeextra)
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("r-rsamtools" ,r-rsamtools)
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("r-s4vectors" ,r-s4vectors)
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("r-xvector" ,r-xvector)
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("r-zlibbioc" ,r-zlibbioc)))
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(home-page "https://bioconductor.org/packages/ShortRead")
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(synopsis "FASTQ input and manipulation tools")
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(description
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"This package implements sampling, iteration, and input of FASTQ files.
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It includes functions for filtering and trimming reads, and for generating a
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quality assessment report. Data are represented as
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@code{DNAStringSet}-derived objects, and easily manipulated for a diversity of
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purposes. The package also contains legacy support for early single-end,
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ungapped alignment formats.")
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(license license:artistic2.0)))
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(define-public r-systempiper
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(package
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(name "r-systempiper")
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