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gnu: r-shortread: Move to (gnu packages bioconductor).

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* gnu/packages/bioinformatics.scm (r-shortread): Move from here...
* gnu/packages/bioconductor.scm (r-shortread): ...to here.
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zimoun 2021-03-08 18:58:02 +01:00 committed by Ricardo Wurmus
parent 2a97057688
commit 8957efa8ef
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2 changed files with 43 additions and 43 deletions
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43
gnu/packages/bioconductor.scm
View file

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

43
gnu/packages/bioinformatics.scm
View file

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