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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=easylift
_pkgver=1.2.0
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}_${_pkgver}.tar.gz")
md5sums=('d2f0ec9c26dbbf78dc5f6d862d188df7')
b2sums=('1d5be52934a42cab8e102350c34e138d7ab6b7d9eb9116e0cbe0efdbc1d82c21d6b3a64ce6d0c2ddbf8ceec589d0694e2fcc96f101da38567f48d9c04b306380')
build() {
mkdir build
R CMD INSTALL -l build "$_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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