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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=gemma.R
_pkgver=3.0.3
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="A wrapper for Gemma's Restful API to access curated gene expression data and differential expression analyses"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=(Apache)
depends=(
r-assertthat
r-biobase
r-bit64
r-data.table
r-digest
r-glue
r-httr
r-jsonlite
r-lubridate
r-magrittr
r-memoise
r-rappdirs
r-rlang
r-s4vectors
r-stringr
r-summarizedexperiment
r-tibble
r-tidyr
)
checkdepends=(
r-microbenchmark
r-shiny
r-testthat
)
optdepends=(
r-biocstyle
r-covr
r-dplyr
r-ggplot2
r-ggrepel
r-kableextra
r-knitr
r-listviewer
r-magick
r-microbenchmark
r-pheatmap
r-poolr
r-purrr
r-rmarkdown
r-shiny
r-testthat
r-viridis
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('1ca13068e8b84972ec15f7b37fedd1eb')
b2sums=('51f2dbd529d953d7ade94c979127d78d004e26342b79f8577e0edc3556dc2cceb314c181a4803366e6d01523c40582d083860d6a6dcb9faac701109545f3a5ed')
build() {
mkdir build
R CMD INSTALL -l build "$_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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