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

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* gnu/packages/bioinformatics.scm (r-rhtslib): Move from here...
* gnu/packages/bioconductor.scm (r-rhtslib): ...to here.
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zimoun 2021-05-21 22:26:11 +02:00 committed by Ricardo Wurmus
parent e0c81584ea
commit 043c309d15
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GPG key ID: 197A5888235FACAC
2 changed files with 32 additions and 31 deletions
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32
gnu/packages/bioconductor.scm
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@ -39,6 +39,7 @@ (define-module (gnu packages bioconductor)
#:use-module (gnu packages boost)
#:use-module (gnu packages cran)
#:use-module (gnu packages compression)
#:use-module (gnu packages curl)
#:use-module (gnu packages gcc)
#:use-module (gnu packages graph)
#:use-module (gnu packages graphviz)
@ -3037,6 +3038,37 @@ (define-public r-hpar
the Human Protein Atlas project.")
(license license:artistic2.0)))
(define-public r-rhtslib
(package
(name "r-rhtslib")
(version "1.22.0")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "Rhtslib" version))
(sha256
(base32
"18wag2jnpda6078xjkpfdvar1gkb2myhw83gg03l39sabh35qya4"))))
(properties `((upstream-name . "Rhtslib")))
(build-system r-build-system)
;; Without this a temporary directory ends up in the Rhtslib.so binary,
;; which makes R abort the build.
(arguments '(#:configure-flags '("--no-staged-install")))
(propagated-inputs
`(("curl" ,curl)
("zlib" ,zlib) ; packages using rhtslib need to link with zlib
("r-zlibbioc" ,r-zlibbioc)))
(native-inputs
`(("pkg-config" ,pkg-config)
("r-knitr" ,r-knitr)))
(home-page "https://github.com/nhayden/Rhtslib")
(synopsis "High-throughput sequencing library as an R package")
(description
"This package provides the HTSlib C library for high-throughput
nucleotide sequence analysis. The package is primarily useful to developers
of other R packages who wish to make use of HTSlib.")
(license license:lgpl2.0+)))
(define-public r-impute
(package
(name "r-impute")

31
gnu/packages/bioinformatics.scm
View file

@ -8046,37 +8046,6 @@ (define-public r-r4rna
secondary structure and comparative analysis in R.")
(license license:gpl3+)))
(define-public r-rhtslib
(package
(name "r-rhtslib")
(version "1.22.0")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "Rhtslib" version))
(sha256
(base32
"18wag2jnpda6078xjkpfdvar1gkb2myhw83gg03l39sabh35qya4"))))
(properties `((upstream-name . "Rhtslib")))
(build-system r-build-system)
;; Without this a temporary directory ends up in the Rhtslib.so binary,
;; which makes R abort the build.
(arguments '(#:configure-flags '("--no-staged-install")))
(propagated-inputs
`(("curl" ,curl)
("zlib" ,zlib) ; packages using rhtslib need to link with zlib
("r-zlibbioc" ,r-zlibbioc)))
(native-inputs
`(("pkg-config" ,pkg-config)
("r-knitr" ,r-knitr)))
(home-page "https://github.com/nhayden/Rhtslib")
(synopsis "High-throughput sequencing library as an R package")
(description
"This package provides the HTSlib C library for high-throughput
nucleotide sequence analysis. The package is primarily useful to developers
of other R packages who wish to make use of HTSlib.")
(license license:lgpl2.0+)))
(define-public r-bamsignals
(package
(name "r-bamsignals")