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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=OUTRIDER
_pkgver=1.22.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="OUTlier in RNA-Seq fInDER"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('MIT')
depends=(
blas
r-bbmisc
r-biocgenerics
r-biocparallel
r-data.table
r-deseq2
r-generics
r-genomicfeatures
r-genomicranges
r-ggplot2
r-ggrepel
r-heatmaply
r-iranges
r-matrixstats
r-pcamethods
r-pheatmap
r-plotly
r-plyr
r-prroc
r-rcolorbrewer
r-reshape2
r-s4vectors
r-scales
r-summarizedexperiment
r-txdbmaker
)
makedepends=(
r-rcpp
r-rcpparmadillo
)
optdepends=(
r-annotationdbi
r-beeswarm
r-biocstyle
r-biovizbase
r-covr
r-genomeinfodb
r-ggbio
r-knitr
r-org.hs.eg.db
r-rmariadb
r-rmarkdown
r-testthat
r-txdb.hsapiens.ucsc.hg19.knowngene
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('39a17844ae7054189d35ce3f356eb777')
b2sums=('1d673713354345fba605bb68cbe4fab15e5e5d0a6d74a333866bc49101cbb77bf12d0bc73b12831069f58a1201f248a0573c553042d933bfabfd020095ae2d73')
build() {
mkdir build
R CMD INSTALL -l build "$_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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