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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=OGRE
_pkgver=1.10.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Calculate, visualize and analyse overlap between genomic regions"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('Artistic-2.0')
depends=(
r-annotationhub
r-assertthat
r-data.table
r-dt
r-genomeinfodb
r-genomicranges
r-ggplot2
r-gviz
r-iranges
r-rtracklayer
r-s4vectors
r-shiny
r-shinybs
r-shinydashboard
r-shinyfiles
r-tidyr
)
checkdepends=(
r-testthat
)
optdepends=(
r-knitr
r-rmarkdown
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('4bd09d598eb2be1c4fced58fc417b8fd')
b2sums=('c9727bc42abea85ea00fb2b548ab9261223f15ab9ef5b208c952c0e7d7bd625f54316da27d9b0139a6e4770272ac154f9df3cc3522695016d890de0a2beb9711')
build() {
mkdir build
R CMD INSTALL -l build "$_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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