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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=zenith
_pkgver=1.6.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Gene set analysis following differential expression using linear (mixed) modeling with dream"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('Artistic-2.0')
depends=(
r-enrichmentbrowser
r-ggplot2
r-gseabase
r-limma
r-msigdbr
r-progress
r-rdpack
r-reshape2
r-rfast
r-tidyr
r-variancepartition
)
checkdepends=(
r-biocgenerics
r-runit
r-tweedeseqcountdata
)
optdepends=(
r-biocgenerics
r-biocstyle
r-edger
r-kableextra
r-knitr
r-pander
r-rmarkdown
r-runit
r-tweedeseqcountdata
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('d34baf4f9ee3435a3ddef3e1040023a4')
b2sums=('0b9c7e5811da1635f1c514ad297eefdaf570ec53473318b550afbce64e8fef93439aac53c9b3643b4499cbd8aeca7b7cca09a915aed49f7a613ccdd8352b7aec')
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
check() {
cd "$_pkgname/tests"
R_LIBS="$srcdir/build" 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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