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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=CompoundDb
_pkgver=1.10.0
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}_${_pkgver}.tar.gz")
md5sums=('c79d6a2cc057e9505a1016d679642870')
b2sums=('4d273a4481778213b3a4568e97e768d26063e48e845705574103fa0a3247e56c6b21de442984e58bbd5cecfc684ee63165af02ce0630c5e607889b77599ac44b')
build() {
mkdir build
R CMD INSTALL -l build "$_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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