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gnu: r-txdb-hsapiens-ucsc-hg19-knowngene: Move to (gnu packages bioconductor).

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* gnu/packages/bioinformatics.scm (r-txdb-hsapiens-ucsc-hg19-knowngene): Move
from here...
* gnu/packages/bioconductor.scm (r-txdb-hsapiens-ucsc-hg19-knowngene): ...to
here.
This commit is contained in:
Ricardo Wurmus 2019-03-06 21:16:33 +01:00
parent bfb93b4889
commit 66e35ce63b
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2 changed files with 32 additions and 32 deletions
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32
gnu/packages/bioconductor.scm
View File

@ -224,6 +224,38 @@ based on mapping using Entrez Gene identifiers.")
genomes and gene ID formats, largely based on the UCSC table browser.")
(license license:lgpl2.0+)))
(define-public r-txdb-hsapiens-ucsc-hg19-knowngene
(package
(name "r-txdb-hsapiens-ucsc-hg19-knowngene")
(version "3.2.2")
(source (origin
(method url-fetch)
;; We cannot use bioconductor-uri here because this tarball is
;; located under "data/annotation/" instead of "bioc/".
(uri (string-append "https://bioconductor.org/packages/"
"release/data/annotation/src/contrib"
"/TxDb.Hsapiens.UCSC.hg19.knownGene_"
version ".tar.gz"))
(sha256
(base32
"1sajhcqqwazgz2lqbik7rd935i7kpnh08zxbp2ra10j72yqy4g86"))))
(properties
`((upstream-name . "TxDb.Hsapiens.UCSC.hg19.knownGene")))
(build-system r-build-system)
;; As this package provides little more than a very large data file it
;; doesn't make sense to build substitutes.
(arguments `(#:substitutable? #f))
(propagated-inputs
`(("r-genomicfeatures" ,r-genomicfeatures)))
(home-page
"https://bioconductor.org/packages/TxDb.Hsapiens.UCSC.hg19.knownGene/")
(synopsis "Annotation package for human genome in TxDb format")
(description
"This package provides an annotation database of Homo sapiens genome
data. It is derived from the UCSC hg19 genome and based on the \"knownGene\"
track. The database is exposed as a @code{TxDb} object.")
(license license:artistic2.0)))
(define-public r-txdb-mmusculus-ucsc-mm9-knowngene
(package
(name "r-txdb-mmusculus-ucsc-mm9-knowngene")

32
gnu/packages/bioinformatics.scm
View File

@ -6709,38 +6709,6 @@ annotation infrastructure.")
"This package provides a pipeline for the analysis of GRO-seq data.")
(license license:gpl3+)))
(define-public r-txdb-hsapiens-ucsc-hg19-knowngene
(package
(name "r-txdb-hsapiens-ucsc-hg19-knowngene")
(version "3.2.2")
(source (origin
(method url-fetch)
;; We cannot use bioconductor-uri here because this tarball is
;; located under "data/annotation/" instead of "bioc/".
(uri (string-append "https://bioconductor.org/packages/"
"release/data/annotation/src/contrib"
"/TxDb.Hsapiens.UCSC.hg19.knownGene_"
version ".tar.gz"))
(sha256
(base32
"1sajhcqqwazgz2lqbik7rd935i7kpnh08zxbp2ra10j72yqy4g86"))))
(properties
`((upstream-name . "TxDb.Hsapiens.UCSC.hg19.knownGene")))
(build-system r-build-system)
;; As this package provides little more than a very large data file it
;; doesn't make sense to build substitutes.
(arguments `(#:substitutable? #f))
(propagated-inputs
`(("r-genomicfeatures" ,r-genomicfeatures)))
(home-page
"https://bioconductor.org/packages/TxDb.Hsapiens.UCSC.hg19.knownGene/")
(synopsis "Annotation package for human genome in TxDb format")
(description
"This package provides an annotation database of Homo sapiens genome
data. It is derived from the UCSC hg19 genome and based on the \"knownGene\"
track. The database is exposed as a @code{TxDb} object.")
(license license:artistic2.0)))
(define-public r-sparql
(package
(name "r-sparql")