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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=CytoPipeline
_pkgver=1.4.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Automation and visualization of flow cytometry data analysis pipelines"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-only')
depends=(
r-biocfilecache
r-biocparallel
r-diagram
r-flowai
r-flowcore
r-ggcyto
r-ggplot2
r-jsonlite
r-peacoqc
r-rlang
r-scales
r-withr
)
checkdepends=(
r-testthat
r-vdiffr
)
optdepends=(
r-biocstyle
r-diffviewer
r-dplyr
r-knitr
r-reshape2
r-rmarkdown
r-testthat
r-vdiffr
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('72f1c9750d747024d3815e7d14d9213d')
b2sums=('675b54fd1a8fdabf57631b5bc50625b04105b5a3bba52a045efd79e22aa20985f77ebfdf87912da9fcd205a2b54a251e0844238ed8835d89d17bf886f1e532e8')
build() {
mkdir build
R CMD INSTALL -l build "$_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"
}
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