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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=cytolib
_pkgver=2.16.0
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}_${_pkgver}.tar.gz"
"shared-cytolib.patch")
md5sums=('d1e9330d121cc509f9f0353bd1d33526'
'9bd107e22883f8ae7c72f8fc3fca9c96')
b2sums=('904d438d72d26e1e9379215b714cee0cf397e0c3cc16c5ddd5b0aa6e102dd08b91d081fb2772546acbc24feaf582b0ddd31d707e88dd2cac7467acd7e8b968af'
'1d838f25582856c2a7ba811999ae92808265720e8bd6079b4396d3722bab3f445ec7e70722badac2d5617439784a279abacda788f66e49906b35120f12037bcb')
prepare() {
# build cytolib as a shared library
patch -Np1 -i shared-cytolib.patch
}
build() {
mkdir build
R CMD INSTALL -l build "$_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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