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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=CNEr
_pkgver=1.40.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="CNE Detection and Visualization"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-2.0-only AND LicenseRef-CNEr')
depends=(
r-annotate
r-biocgenerics
r-biostrings
r-dbi
r-genomeinfodb
r-genomicalignments
r-genomicranges
r-ggplot2
r-go.db
r-iranges
r-keggrest
r-powerlaw
r-pwalign
r-r.utils
r-readr
r-reshape2
r-rsqlite
r-rtracklayer
r-s4vectors
r-xvector
)
optdepends=(
r-biocstyle
r-bsgenome.drerio.ucsc.danrer10
r-bsgenome.ggallus.ucsc.galgal3
r-bsgenome.hsapiens.ucsc.hg19
r-bsgenome.hsapiens.ucsc.hg38
r-gviz
r-knitr
r-rmarkdown
r-testthat
r-txdb.drerio.ucsc.danrer10.refgene
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('be665143e17bc80ce2e839d4d05bed4b')
b2sums=('db9d2154eb34269854c55dca1fa8eccb6aab828203b2c657f743f4f35d03619c9b1fb955345c13b88f4b5092ffb09561703da117ac2ea3a5f00e9616b05a1771')
build() {
mkdir build
R CMD INSTALL -l build "$_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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