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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=easylift
_pkgver=1.4.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="An R package to perform genomic liftover"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('MIT')
depends=(
r-biocfilecache
r-genomeinfodb
r-genomicranges
r-r.utils
r-rtracklayer
)
checkdepends=(
r-testthat
)
optdepends=(
r-biocstyle
r-iranges
r-knitr
r-rmarkdown
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('ffc5f970619f6de99418696f4534c2c6')
b2sums=('c67003752d06c362dce84181a4f864748a6c52146b8134c2bc28eefda61dc16683b35a08a76a502cfe2c436d71174185258e00f7d71eb477a5e8479ed4c8aea8')
build() {
mkdir build
R CMD INSTALL -l build "$_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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