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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=cytolib
_pkgver=2.24.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="C++ infrastructure for representing and interacting with the gated cytometry data"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('AGPL-3.0-only')
depends=(
boost-libs
hdf5
lapack
protobuf
r-rprotobuflib
)
makedepends=(
boost
r-bh
r-rhdf5lib
)
optdepends=(
r-knitr
r-rmarkdown
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz"
"shared-cytolib.patch")
md5sums=('9d09a83be03419372003aaaf007318c7'
'27ac0caa7d8082e707350be3de8d8222')
b2sums=('9994b2895d37adac346be3c2d47f69d915f86cfb032ac3b604c200a2b6ae7a95e61030a5072e6c0a5ef302b230aecd37626fdf1b789de2cead9374528ac37903'
'5e6674448d7e45804831d63c7adcb79921eda90c1e396fafe667dd2efb3356e1809cd7602d4cb6b74f47c4933980fd6052d7a5955d78892a1def3b2b2fafa27c')
prepare() {
# build cytolib as a shared library
patch -Np1 -i shared-cytolib.patch
}
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
package() {
install -d "$pkgdir/usr/lib/R/library"
cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
# install shared library
install -Dm755 -t "$pkgdir/usr/lib" "$_pkgname/src/libcytolib.so.$_pkgver"
ln -s "libcytolib.so.$_pkgver" "$pkgdir/usr/lib/libcytolib.so"
}
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