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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=mastR
_pkgver=1.4.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Markers Automated Screening Tool in R"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('MIT')
depends=(
r-annotationdbi
r-biobase
r-dplyr
r-edger
r-ggplot2
r-ggpubr
r-gseabase
r-limma
r-msigdb
r-org.hs.eg.db
r-patchwork
r-seuratobject
r-singlecellexperiment
r-summarizedexperiment
r-tidyr
)
checkdepends=(
r-clusterprofiler
r-complexheatmap
r-depmap
r-rvest
r-singscore
r-testthat
r-upsetr
)
optdepends=(
r-biocmanager
r-biocstyle
r-bisquerna
r-clusterprofiler
r-complexheatmap
r-depmap
r-enrichplot
r-ggrepel
r-ggvenn
r-gridextra
r-jsonlite
r-knitr
r-rmarkdown
r-robustrankaggreg
r-rvest
r-scuttle
r-singscore
r-splatter
r-testthat
r-upsetr
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('b7c0c9ab34a2482a94ef38e389d6cb8b')
b2sums=('0461d067c030dd47fc6980a4189b468c5a48714c3f5ffd037a0e89d007f647d6119e4d75bd373fec4b1b94cdc847382aaccd0577f03014b09cbe898a1096c688')
build() {
mkdir build
R CMD INSTALL -l build "$_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" "$pkgdir/usr/lib/R/library"
install -d "$pkgdir/usr/share/licenses/$pkgname"
ln -s "/usr/lib/R/library/$_pkgname/LICENSE" "$pkgdir/usr/share/licenses/$pkgname"
}
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