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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=Moonlight2R
_pkgver=1.0.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=3
pkgdesc="Identify oncogenes and tumor suppressor genes from omics data"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-only')
depends=(
r-annotationhub
r-biobase
r-circlize
r-clusterprofiler
r-complexheatmap
r-doparallel
r-dose
r-dplyr
r-easypubmed
r-foreach
r-fuzzyjoin
r-genomicranges
r-geoquery
r-gplots
r-hiver
r-magrittr
r-org.hs.eg.db
r-parmigene
r-purrr
r-qpdf
r-randomforest
r-rcolorbrewer
r-readr
r-rismed
r-rtracklayer
r-seqminer
r-stringr
r-tibble
r-tidyheatmap
r-tidyr
)
checkdepends=(
r-testthat
)
optdepends=(
r-biocstyle
r-devtools
r-knitr
r-png
r-rmarkdown
r-roxygen2
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('45af1bc580f9231cb2a83eae7517d3b8')
b2sums=('13fe521f228ce42b6693125e36e246bd09281441dc90224f891cb4e87866b94fb8ef40b6ea0ab2569bf6fa66efb16dfd55df517a3d2abde41abbdda881f4eb48')
build() {
mkdir build
R CMD INSTALL -l build "$_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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