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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=demuxSNP
_pkgver=1.4.0
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}_${_pkgver}.tar.gz")
md5sums=('3b31e85995d4a7c5a2f43a26bc515cfe')
b2sums=('ed1e28739f08c4ef17e83dee59439141c23c9ea00b47c417e50250a6de9c24a1d48c149b8b229b87d583abec74d65904dfde9bb91fc89c7f3924a32e3b3458e3')
build() {
mkdir build
R CMD INSTALL -l build "$_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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