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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=1.86.0
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}_${_pkgver}.tar.gz")
md5sums=('06361873f725e1263c24980aa9ab3cc9')
b2sums=('3730cff19fbf4730a3ddb1aa9cceb42b6b11db99563643021a32991a3cb93e2e7e365cbb185b0103cc99dd997491d8247888af29ee9526a98d8195afce3caa25')
build() {
mkdir build
R CMD INSTALL -l build "$_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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