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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=SPOTlight
_pkgver=1.8.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="\`SPOTlight\`: Spatial Transcriptomics Deconvolution"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-only')
depends=(
r-ggplot2
r-matrixstats
r-nmf
r-nnls
r-singlecellexperiment
r-sparsematrixstats
)
checkdepends=(
r-dropletutils
r-experimenthub
r-ggcorrplot
r-igraph
r-jpeg
r-png
r-scatterpie
r-spatialexperiment
r-tenxvisiumdata
r-testthat
)
optdepends=(
r-biocstyle
r-colorblindness
r-delayedarray
r-dropletutils
r-experimenthub
r-ggcorrplot
r-igraph
r-jpeg
r-knitr
r-png
r-rmarkdown
r-s4vectors
r-scater
r-scatterpie
r-scran
r-spatialexperiment
r-summarizedexperiment
r-tabulamurissenisdata
r-tenxvisiumdata
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('27478472e9aca4692dff302dcb4efe07')
b2sums=('2776d700ebff3f3035d64a18797402ab5455c0b2c1e3640254c7ac3db6b337f454cbc38af093e831c1e7aa8e4e0fc7e2302348915a2c2263c5c919088e6fb07f')
build() {
mkdir build
R CMD INSTALL -l build "$_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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