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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=regionalpcs
_pkgver=1.2.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Summarizing Regional Methylation with Regional Principal Components Analysis"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('MIT')
depends=(
r-dplyr
r-genomicranges
r-pcatools
r-tibble
)
checkdepends=(
r-rmtstat
r-testthat
)
optdepends=(
r-biocstyle
r-iranges
r-knitr
r-minfidata
r-rmarkdown
r-rmtstat
r-testthat
r-tidyr
r-txdb.hsapiens.ucsc.hg19.knowngene
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('b908a64d856ff84a37e3ee9fdceb17e2')
b2sums=('6fca5d255a9d6a204e55b695032ccc9b51924ff33c402818033d42f5861ac4553fba2a2a8e203401190c8e93818d10ae0b3b9c653b1e0a616b1a15bb18f8b1ff')
build() {
mkdir build
R CMD INSTALL -l build "$_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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