PKGBUILD


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

_pkgname=BOBaFIT
_pkgver=1.16.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Refitting diploid region profiles using a clustering procedure"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-or-later')
depends=(
  r-dplyr
  r-genomicranges
  r-ggbio
  r-ggforce
  r-ggplot2
  r-magrittr
  r-nbclust
  r-plyranges
  r-stringr
  r-tidyr
)
checkdepends=(
  r-testthat
)
optdepends=(
  r-biocstyle
  r-knitr
  r-markdown
  r-rmarkdown
  r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('2bbb9629f898b05e78340d4e8882bf04')
b2sums=('942a2818038c6e083144567f6727b0957fbb407070b5154142d22363e4febe40f642c2cb4569dcd092e75fe6d5c2ced5f636e08e529b3d5dbdffbae9d720c48f')

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"
}