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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=PanomiR
_pkgver=1.6.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=3
pkgdesc="Detection of miRNAs that regulate interacting groups of pathways"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('MIT')
depends=(
r-clusterprofiler
r-dplyr
r-forcats
r-gseabase
r-igraph
r-limma
r-metap
r-org.hs.eg.db
r-preprocesscore
r-rcolorbrewer
r-rlang
r-tibble
r-withr
)
checkdepends=(
r-testthat
)
optdepends=(
r-biocstyle
r-knitr
r-rmarkdown
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('a8f96cdc267551107e69e8cb260a05c0')
b2sums=('3d51974f50a8785a4f1abd5fad731fcae3e048aac6da149d2176187ca930bcc4e300de3bc1fcd05b870502ad795328d35857c27ef4e119ee3aa3a36b77676c07')
build() {
mkdir build
R CMD INSTALL -l build "$_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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