PKGBUILD


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

_pkgname=ISLET
_pkgver=1.8.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Individual-Specific ceLl typE referencing Tool"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-2.0-only')
depends=(
  r-abind
  r-biocgenerics
  r-biocparallel
  r-lme4
  r-nnls
  r-purrr
  r-summarizedexperiment
)
checkdepends=(
  r-runit
)
optdepends=(
  r-biocstyle
  r-dplyr
  r-htmltools
  r-knitr
  r-rmarkdown
  r-runit
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('dee7246f762794b535f67abf34b9a2d9')
b2sums=('bed43f4ed48e7966b992215d4072448f3ce1cbe073d1b72533fcacd1177f21bf3e21e91a5a1238d99b0ef1e75f02d51c916eb4c9c4a1bab93635442e067f5c29')

build() {
  mkdir build
  R CMD INSTALL -l build "$_pkgname"
}

check() {
  cd "$_pkgname/tests"
  R_LIBS="$srcdir/build" Rscript --vanilla runTests.R
}

package() {
  install -d "$pkgdir/usr/lib/R/library"
  cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
}