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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=APL
_pkgver=1.8.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Association Plots"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-or-later')
depends=(
r-ggplot2
r-ggrepel
r-magrittr
r-org.hs.eg.db
r-org.mm.eg.db
r-plotly
r-reticulate
r-rlang
r-seurat
r-singlecellexperiment
r-summarizedexperiment
r-topgo
r-viridislite
)
checkdepends=(
python-pytorch
r-testthat
)
optdepends=(
"python-pytorch: faster singular value decomposition"
r-biocstyle
r-knitr
r-rmarkdown
r-scater
r-scran
r-scrnaseq
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('a0515d71d7bde81144faf297c5e384b2')
b2sums=('d6abf45d5e625a3c69ea26a773d9d07d453662ac71f94c88072701868578ff41c9a729a24ea988dbee8d4946929c41520f7de55ae72e5b018f75baf082c98a51')
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
# compile python bytecode
python -m compileall -o 0 -o 1 -s build -p /usr/lib/R/library "build/$_pkgname/python"
}
check() {
cd "$_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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