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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=rtracklayer
_pkgver=1.66.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="R interface to genome annotation files and the UCSC genome browser"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('Artistic-2.0 AND LicenseRef-rtracklayer')
depends=(
curl
openssl
r-biocgenerics
r-biocio
r-biostrings
r-curl
r-genomeinfodb
r-genomicalignments
r-genomicranges
r-httr
r-iranges
r-restfulr
r-rsamtools
r-s4vectors
r-xml
r-xvector
r-zlibbioc
zlib
)
optdepends=(
r-bsgenome
r-bsgenome.hsapiens.ucsc.hg19
r-genefilter
r-genomicfeatures
r-hgu133plus2.db
r-humanstemcell
r-limma
r-microrna
r-org.hs.eg.db
r-runit
r-txdb.hsapiens.ucsc.hg19.knowngene
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('a104b15f928583554639289984edec35')
b2sums=('0f85f8836a997aeb33ce9ccfa3c86b3141389b820a1df97fb13afa56dbe4fd08ffe3cb58eb63e62b3ee35b93da69a5cc960f28b5b1c50d2085bc0152d0223352')
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
package() {
install -d "$pkgdir/usr/lib/R/library"
cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
install -d "$pkgdir/usr/share/licenses/$pkgname"
ln -s "/usr/lib/R/library/$_pkgname/LICENSE" "$pkgdir/usr/share/licenses/$pkgname"
}
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