gnu: r-txdb-hsapiens-ucsc-hg19-knowngene: Move to (gnu packages bioconductor).
* 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.
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@ -224,6 +224,38 @@ based on mapping using Entrez Gene identifiers.")
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genomes and gene ID formats, largely based on the UCSC table browser.")
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genomes and gene ID formats, largely based on the UCSC table browser.")
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(license license:lgpl2.0+)))
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(license license:lgpl2.0+)))
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(define-public r-txdb-hsapiens-ucsc-hg19-knowngene
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(package
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(name "r-txdb-hsapiens-ucsc-hg19-knowngene")
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(version "3.2.2")
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(source (origin
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(method url-fetch)
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;; We cannot use bioconductor-uri here because this tarball is
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;; located under "data/annotation/" instead of "bioc/".
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(uri (string-append "https://bioconductor.org/packages/"
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"release/data/annotation/src/contrib"
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"/TxDb.Hsapiens.UCSC.hg19.knownGene_"
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version ".tar.gz"))
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(sha256
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(base32
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"1sajhcqqwazgz2lqbik7rd935i7kpnh08zxbp2ra10j72yqy4g86"))))
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(properties
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`((upstream-name . "TxDb.Hsapiens.UCSC.hg19.knownGene")))
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(build-system r-build-system)
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;; As this package provides little more than a very large data file it
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;; doesn't make sense to build substitutes.
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(arguments `(#:substitutable? #f))
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(propagated-inputs
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`(("r-genomicfeatures" ,r-genomicfeatures)))
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(home-page
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"https://bioconductor.org/packages/TxDb.Hsapiens.UCSC.hg19.knownGene/")
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(synopsis "Annotation package for human genome in TxDb format")
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(description
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"This package provides an annotation database of Homo sapiens genome
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data. It is derived from the UCSC hg19 genome and based on the \"knownGene\"
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track. The database is exposed as a @code{TxDb} object.")
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(license license:artistic2.0)))
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(define-public r-txdb-mmusculus-ucsc-mm9-knowngene
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(define-public r-txdb-mmusculus-ucsc-mm9-knowngene
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(package
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(package
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(name "r-txdb-mmusculus-ucsc-mm9-knowngene")
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(name "r-txdb-mmusculus-ucsc-mm9-knowngene")
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@ -6709,38 +6709,6 @@ annotation infrastructure.")
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"This package provides a pipeline for the analysis of GRO-seq data.")
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"This package provides a pipeline for the analysis of GRO-seq data.")
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(license license:gpl3+)))
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(license license:gpl3+)))
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(define-public r-txdb-hsapiens-ucsc-hg19-knowngene
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(package
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(name "r-txdb-hsapiens-ucsc-hg19-knowngene")
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(version "3.2.2")
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(source (origin
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(method url-fetch)
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;; We cannot use bioconductor-uri here because this tarball is
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;; located under "data/annotation/" instead of "bioc/".
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(uri (string-append "https://bioconductor.org/packages/"
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"release/data/annotation/src/contrib"
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"/TxDb.Hsapiens.UCSC.hg19.knownGene_"
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version ".tar.gz"))
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(sha256
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(base32
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"1sajhcqqwazgz2lqbik7rd935i7kpnh08zxbp2ra10j72yqy4g86"))))
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(properties
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`((upstream-name . "TxDb.Hsapiens.UCSC.hg19.knownGene")))
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(build-system r-build-system)
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;; As this package provides little more than a very large data file it
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;; doesn't make sense to build substitutes.
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(arguments `(#:substitutable? #f))
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(propagated-inputs
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`(("r-genomicfeatures" ,r-genomicfeatures)))
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(home-page
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"https://bioconductor.org/packages/TxDb.Hsapiens.UCSC.hg19.knownGene/")
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(synopsis "Annotation package for human genome in TxDb format")
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(description
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"This package provides an annotation database of Homo sapiens genome
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data. It is derived from the UCSC hg19 genome and based on the \"knownGene\"
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track. The database is exposed as a @code{TxDb} object.")
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(license license:artistic2.0)))
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(define-public r-sparql
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(define-public r-sparql
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(package
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(package
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(name "r-sparql")
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(name "r-sparql")
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