PKGBUILD


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

_pkgname=BiocFHIR
_pkgver=1.10.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Illustration of FHIR ingestion and transformation using R"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('Artistic-2.0')
depends=(
  r-biocbaseutils
  r-dplyr
  r-dt
  r-graph
  r-jsonlite
  r-shiny
  r-tidyr
  r-visnetwork
)
checkdepends=(
  r-testthat
)
optdepends=(
  r-biocstyle
  r-igraph
  r-knitr
  r-rjsoncons
  r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('a89ac7690e2b3f8780c301be2da6a880')
b2sums=('bc8a8698c861083f2468bb44319a75bd855baaf19ebfb3aff8b6b6069a1f9444765d5368b9a4d53098a9e03496f739a83e54fb4a25bfdd8f554de647c10c1aa2')

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

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

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