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# Maintainer: peippo <christoph+aur@christophfink.com>
# Maintainer: Grey Christoforo <first name at last name dot net>
_cranname=BiocManager
_cranver=1.30.22
pkgname=r-${_cranname,,}
pkgver=${_cranver//[:-]/.}
pkgrel=1
pkgdesc="A convenient tool to install and update Bioconductor packages."
arch=("i686" "x86_64")
url="https://CRAN.R-project.org/package=${_cranname}"
license=("Artistic2.0")
depends=(
r
)
optdepends=(
r-biocversion
r-curl
r-knitr
r-remotes
r-rmarkdown
r-withr
)
# The unittests for `r-biocmanager` have multiple circular
# dependency chains.
# As such, the tests can not be run on first build.
# While R packages from CRAN, generally, are well-tested
# before they are released, in some situations, you want to
# have thorough testing on your own end.
# To run the tests, first build this package without `check()`
# (i.e., as-is) to bootstrap `r-biocmanager`. Then, on subsequent builds,
# (assumining you have a local repository that is accessible from
# the build chroot), uncomment the lines defining `checkdepends`, below,
# as well as the `check()` function further down
# checkdepends=(
# "${optdepends[@]}"
# "r-testthat>=3.0.0"
# )
source=("https://cran.r-project.org/src/contrib/${_cranname}_${_cranver}.tar.gz")
b2sums=("8b9244eab5977598a70f2578b2915b3db884ba84927b25a7689b9467cb52136f5c79381190ec6eb76562f0db518c037a2c6b28c69d12248608b7c35befd33a6e")
build() {
mkdir -p "${srcdir}/build/"
R CMD INSTALL ${_cranname}_${_cranver}.tar.gz -l "${srcdir}/build/"
}
# check() {
# export R_LIBS="build/"
# R CMD check --no-manual "${_cranname}"
# }
package() {
install -dm0755 "${pkgdir}/usr/lib/R/library"
cp -a --no-preserve=ownership "${srcdir}/build/${_cranname}" "${pkgdir}/usr/lib/R/library"
if [[ -f "${_cranname}/LICENSE" ]]; then
install -Dm0644 "${_cranname}/LICENSE" "${pkgdir}/usr/share/licenses/${pkgname}/LICENSE"
fi
}
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