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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=CompoundDb
_pkgver=1.8.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Creating and Using (Chemical) Compound Annotation Databases"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('Artistic-2.0')
depends=(
r-annotationfilter
r-biobase
r-biocgenerics
r-biocparallel
r-chemminer
r-dbi
r-dbplyr
r-dplyr
r-iranges
r-jsonlite
r-metabocoreutils
r-mscoreutils
r-protgenerics
r-rsqlite
r-s4vectors
r-spectra
r-tibble
r-xml2
)
checkdepends=(
r-testthat
)
optdepends=(
r-biocstyle
r-knitr
r-msbackendmgf
r-rmarkdown
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('c3dee935be7aa50c82f4d799a5b65f99')
b2sums=('1e422cd664795aa340ae590afe749efc90f0967db28e308bf9c44c9a980167c2f8e96a76af62d74d87ea5ca932b4d3146d36c94510064cde1b3a0af529590797')
build() {
mkdir build
R CMD INSTALL -l build "$_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"
}
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