PKGBUILD


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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>

_pkgname=biodbHmdb
_pkgver=1.8.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=4
pkgdesc="a library for connecting to the HMDB Database"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('AGPL-3.0-only')
depends=(
  r-biodb
  r-r6
  r-rcpp
  r-zip
)
makedepends=(
  r-testthat
)
checkdepends=(
  r-xml2
)
optdepends=(
  r-biocstyle
  r-covr
  r-devtools
  r-knitr
  r-lgr
  r-rmarkdown
  r-roxygen2
  r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('b34c06c2ce8865b7eebedb869a1ab505')
b2sums=('5f0fa6b83049d8dbd334d94b52bbf05a87727a55e02bb075fc3440c5ec7d9e885f6e7403ea12087b0f89a877e251268aa72aee25e16c8f174f51009822cfa160')

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"
}