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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=demuxSNP
_pkgver=1.2.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="scRNAseq demultiplexing using cell hashing and SNPs"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-only')
depends=(
r-biocgenerics
r-demuxmix
r-dplyr
r-ensembldb
r-genomeinfodb
r-iranges
r-kernelknn
r-matrixgenerics
r-singlecellexperiment
r-summarizedexperiment
r-variantannotation
)
checkdepends=(
r-ensdb.hsapiens.v86
r-seurat
r-testthat
)
optdepends=(
r-biocstyle
r-complexheatmap
r-dittoseq
r-ensdb.hsapiens.v86
r-ggpubr
r-knitr
r-refmanager
r-rmarkdown
r-seurat
r-testthat
r-viridislite
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('696b03cdca6d6ff4288288ca4e8a636d')
b2sums=('2a6ae121f0592df9f936bf6bc48a4408f9d6dae89d4448edc0c7abb517e74c9d08ec6b467bfa1288ed2abdc7d07bb12262da9c7e6fea3e27bd2472dcb8cdce84')
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
check() {
cd "$_pkgname/tests"
R_LIBS="$srcdir/build" NOT_CRAN=true Rscript --vanilla testthat.R
}
package() {
install -d "$pkgdir/usr/lib/R/library"
cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
}
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