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

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* gnu/packages/bioinformatics.scm (r-rsamtools): Move from here...
* gnu/packages/bioconductor.scm (r-rsamtools): ...to here.
This commit is contained in:
zimoun 2021-03-15 19:09:03 +01:00 committed by Ricardo Wurmus
parent b1a19ab6e2
commit adf45daae9
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2 changed files with 43 additions and 43 deletions
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43
gnu/packages/bioconductor.scm
View file

@ -2147,6 +2147,49 @@ (define-public r-reportingtools
browser.")
(license license:artistic2.0)))
(define-public r-rsamtools
(package
(name "r-rsamtools")
(version "2.6.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "Rsamtools" version))
(sha256
(base32
"040pggkwglc6wy90qnc7xcdnaj0v3iqlykvvsl74241409qly554"))))
(properties
`((upstream-name . "Rsamtools")))
(build-system r-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(add-after 'unpack 'use-system-zlib
(lambda _
(substitute* "DESCRIPTION"
(("zlibbioc, ") ""))
(substitute* "NAMESPACE"
(("import\\(zlibbioc\\)") ""))
#t)))))
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-biocparallel" ,r-biocparallel)
("r-biostrings" ,r-biostrings)
("r-bitops" ,r-bitops)
("r-genomeinfodb" ,r-genomeinfodb)
("r-genomicranges" ,r-genomicranges)
("r-iranges" ,r-iranges)
("r-rhtslib" ,r-rhtslib)
("r-s4vectors" ,r-s4vectors)
("r-xvector" ,r-xvector)))
(home-page "https://bioconductor.org/packages/release/bioc/html/Rsamtools.html")
(synopsis "Interface to samtools, bcftools, and tabix")
(description
"This package provides an interface to the @code{samtools},
@code{bcftools}, and @code{tabix} utilities for manipulating SAM (Sequence
Alignment / Map), FASTA, binary variant call (BCF) and compressed indexed
tab-delimited (tabix) files.")
(license license:expat)))
(define-public r-shortread
(package
(name "r-shortread")

43
gnu/packages/bioinformatics.scm
View file

@ -7691,49 +7691,6 @@ (define-public bio-vcf
(home-page "https://github.com/vcflib/bio-vcf")
(license license:expat)))
(define-public r-rsamtools
(package
(name "r-rsamtools")
(version "2.6.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "Rsamtools" version))
(sha256
(base32
"040pggkwglc6wy90qnc7xcdnaj0v3iqlykvvsl74241409qly554"))))
(properties
`((upstream-name . "Rsamtools")))
(build-system r-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(add-after 'unpack 'use-system-zlib
(lambda _
(substitute* "DESCRIPTION"
(("zlibbioc, ") ""))
(substitute* "NAMESPACE"
(("import\\(zlibbioc\\)") ""))
#t)))))
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-biocparallel" ,r-biocparallel)
("r-biostrings" ,r-biostrings)
("r-bitops" ,r-bitops)
("r-genomeinfodb" ,r-genomeinfodb)
("r-genomicranges" ,r-genomicranges)
("r-iranges" ,r-iranges)
("r-rhtslib" ,r-rhtslib)
("r-s4vectors" ,r-s4vectors)
("r-xvector" ,r-xvector)))
(home-page "https://bioconductor.org/packages/release/bioc/html/Rsamtools.html")
(synopsis "Interface to samtools, bcftools, and tabix")
(description
"This package provides an interface to the @code{samtools},
@code{bcftools}, and @code{tabix} utilities for manipulating SAM (Sequence
Alignment / Map), FASTA, binary variant call (BCF) and compressed indexed
tab-delimited (tabix) files.")
(license license:expat)))
(define-public r-delayedarray
(package
(name "r-delayedarray")