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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=HumanTranscriptomeCompendium
_pkgver=1.20.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Tools to work with a Compendium of 181000 human transcriptome sequencing studies"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('Artistic-2.0')
depends=(
r-biocmanager
r-s4vectors
r-shiny
r-ssrch
r-summarizedexperiment
)
checkdepends=(
r-biocfilecache
r-rhdf5client
r-testthat
)
optdepends=(
r-beeswarm
r-biocfilecache
r-biocstyle
r-dplyr
r-dt
r-knitr
r-magrittr
r-rhdf5client
r-rmarkdown
r-testthat
r-tximport
r-tximportdata
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('27bbd86aebf51ff0bfbfad400b80d69b')
b2sums=('078fedc4db598d81b05076b4f043e38b34d0e1ab9f6521d0c25f86b19d1dc811b61fd46a641b043ecaf090c609b87ca963a830c01cc51be3995e5a81b0daf44c')
build() {
mkdir build
R CMD INSTALL -l build "$_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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