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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=regionalpcs
_pkgver=1.4.0
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}_${_pkgver}.tar.gz")
md5sums=('5bd633cf37f4f1e6510e072d95229143')
b2sums=('78b53c84ec2a6cd37d02f58c346a7f78b13c0b38f70c9872be7126eaf414b701058a7f91d067bba93c4d4744c00249241992f29b999c6b7a74dd484c9cecc8ba')
build() {
mkdir build
R CMD INSTALL -l build "$_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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