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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=GenomicInteractionNodes
_pkgver=1.16.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="A R/Bioconductor package to detect the interaction nodes from HiC/HiChIP/HiCAR data"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('Apache-2.0')
depends=(
r-annotationdbi
r-genomicfeatures
r-genomicranges
r-go.db
r-graph
r-iranges
r-rbgl
r-s4vectors
r-seqinfo
)
checkdepends=(
r-org.hs.eg.db
r-testthat
r-txdb.hsapiens.ucsc.hg19.knowngene
)
optdepends=(
r-biocstyle
r-knitr
r-org.hs.eg.db
r-rmarkdown
r-rtracklayer
r-runit
r-testthat
r-txdb.hsapiens.ucsc.hg19.knowngene
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('4dbe58cd747b660c511a7ba244401f5a')
b2sums=('cd4e4db2c33b3bd80e40d58a7ef137f04a9c5e294e742b68b11b5808b51ddcbbde46bcaa8949a1e0207e889638c80f805194bcac7b77cf224d30eb92e2f96c4a')
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
check() {
cd "$_pkgname/tests"
R_LIBS="$srcdir/build" NOT_CRAN=true Rscript --vanilla runTests.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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