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# Maintainer: peippo <christoph+aur@christophfink.com>
# Contributor: Viktor Drobot (aka dviktor) linux776 [at] gmail [dot] com
# Contributor: Grey Christoforo <first name at last name dot net>
_bcname=GenomicRanges
_bcver=1.48.0
pkgname=r-${_bcname,,}
pkgver=${_bcver//[:-]/.}
pkgrel=2
pkgdesc="Representation and manipulation of genomic intervals"
arch=(i686 x86_64)
url="https://bioconductor.org/packages/release/bioc/html/${_bcname}.html"
license=(Artistic-2.0)
depends=(
"r>=4.0.0"
"r-biocgenerics>=0.37.0"
"r-s4vectors>=0.27.12"
"r-iranges>=2.23.9"
"r-genomeinfodb>=1.15.2"
"r-xvector>=0.29.2"
)
optdepends=(
r-annotate
r-annotationdbi
r-annotationhub
r-biobase
r-biocstyle
"r-biostrings>=2.25.3"
r-bsgenome
r-bsgenome.hsapiens.ucsc.hg19
r-bsgenome.mmusculus.ucsc.mm10
r-bsgenome.scerevisiae.ucsc.saccer2
r-deseq2
r-dexseq
r-digest
r-edger
r-genomicalignments
r-genomicfeatures
r-gviz
r-hgu95av2.db
r-hgu95av2probe
r-kegggraph
r-keggrest
r-knitr
r-pasillabamsubset
r-rmarkdown
r-rnaseqdata.hnrnpc.bam.chr14
"r-rsamtools>=1.13.53"
r-rtracklayer
r-runit
"r-summarizedexperiment>=0.1.5"
r-txdb.athaliana.biomart.plantsmart22
r-txdb.dmelanogaster.ucsc.dm3.ensgene
r-txdb.hsapiens.ucsc.hg19.knowngene
r-txdb.mmusculus.ucsc.mm10.knowngene
r-variantannotation
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_bcname}_${_bcver}.tar.gz")
sha256sums=("d623d25b9eb20d4b48f42f6e30771101503b8e9e1592d76e310273ca54d81921")
build() {
R CMD INSTALL ${_bcname}_${_bcver}.tar.gz -l "${srcdir}"
}
package() {
install -dm0755 "${pkgdir}/usr/lib/R/library"
cp -a --no-preserve=ownership "${_bcname}" "${pkgdir}/usr/lib/R/library"
if [[ -f "${_cranname}/LICENSE" ]]; then
install -Dm0644 "${_cranname}/LICENSE" "${pkgdir}/usr/share/licenses/${pkgname}/LICENSE"
fi
}
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