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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=NetActivity
_pkgver=1.6.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Compute gene set scores from a deep learning framework"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('MIT')
depends=(
r-airway
r-delayedarray
r-delayedmatrixstats
r-deseq2
r-netactivitydata
r-summarizedexperiment
)
checkdepends=(
r-testthat
)
optdepends=(
r-annotationdbi
r-biocstyle
r-fletcher2013a
r-knitr
r-org.hs.eg.db
r-rmarkdown
r-testthat
r-tidyverse
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('a245484dc995773bffbe02cb729fca59')
b2sums=('5b1091aa359b34a1985f5c8f16cfdf1455b3b46d4675d4931afe54b27edc7dd7073fd5ee3a82d1776cdef43efb67b78598bbd0ce31951dfffaa8118815fc79b2')
build() {
mkdir build
R CMD INSTALL -l build "$_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" "$pkgdir/usr/lib/R/library"
install -d "$pkgdir/usr/share/licenses/$pkgname"
ln -s "/usr/lib/R/library/$_pkgname/LICENSE" "$pkgdir/usr/share/licenses/$pkgname"
}
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