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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=SOMNiBUS
_pkgver=1.12.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Smooth modeling of bisulfite sequencing"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('MIT')
depends=(
r-annotatr
r-biocmanager
r-bsseq
r-data.table
r-genomeinfodb
r-genomicranges
r-ggplot2
r-iranges
r-reshape2
r-rtracklayer
r-s4vectors
r-tidyr
r-vgam
r-yaml
)
optdepends=(
r-biocstyle
r-covr
r-devtools
r-dplyr
r-knitr
r-magick
r-org.hs.eg.db
r-rmarkdown
r-testthat
r-txdb.hsapiens.ucsc.hg19.knowngene
r-txdb.hsapiens.ucsc.hg38.knowngene
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('4f727e61b5b6b4a7a3cf2416ba02338e')
b2sums=('4049ae039a337dc924436ec475b8bccd2fe7792fc1b30eba48a0f0acd730d534a525530c657a24640cf24b26778d309aa09a2cf4ca599c77d1a98fb834375d29')
build() {
mkdir build
R CMD INSTALL -l build "$_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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