PKGBUILD


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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>

_pkgname=CytoPipelineGUI
_pkgver=1.6.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="GUI's for visualization of flow cytometry data analysis pipelines"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-only')
depends=(
  r-cytopipeline
  r-flowcore
  r-ggplot2
  r-plotly
  r-shiny
)
checkdepends=(
  r-testthat
  r-vdiffr
)
optdepends=(
  r-biocstyle
  r-diffviewer
  r-knitr
  r-patchwork
  r-rmarkdown
  r-testthat
  r-vdiffr
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('2ff32d122269d7421aa5ab64a54387fe')
b2sums=('1b4416b315d6b47d3b4a1a335887cee4e762732ea13a8c6afbb40b38fa5b63f5847122f380d7621ab369f6a80c29e3b4fbc5e815ab9e6635d63b874e21a7dc3f')

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"
}