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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>
# Contributor: Nick B <Shirakawasuna at gmail _dot_com>
_pkgname=annotate
_pkgver=1.86.1
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Annotation for microarrays"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('Artistic-2.0')
depends=(
r-annotationdbi
r-biobase
r-biocgenerics
r-dbi
r-httr
r-xml
r-xtable
)
checkdepends=(
r-org.hs.eg.db
r-runit
)
optdepends=(
r-biocstyle
r-biostrings
r-genefilter
r-go.db
r-hgu95av2.db
r-humanchrloc
r-iranges
r-knitr
r-org.hs.eg.db
r-org.mm.eg.db
r-rae230a.db
r-rae230aprobe
r-rgraphviz
r-runit
r-tkwidgets
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('e4437c3d24aab11be8bc7f59f83ce82a')
b2sums=('e07d48b9a80d3e5082fcc2406d5f35b1eb5b03fea8a37987d5ccb0364b6a35eadc9b9ccae45a76868b0aa86de9a739f4d6dd94f8df86fb1fa3f709effc04cfc2')
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
check() {
cd "$_pkgname/tests"
R_LIBS="$srcdir/build" Rscript --vanilla annotate_unit_tests.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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