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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=phenomis
_pkgver=1.6.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Postprocessing and univariate analysis of omics data"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('CECILL-2.0')
depends=(
r-biobase
r-biodb
r-biodbchebi
r-data.table
r-futile.logger
r-ggplot2
r-ggrepel
r-htmlwidgets
r-igraph
r-limma
r-multiassayexperiment
r-multidataset
r-plotly
r-pmcmrplus
r-ranger
r-rcolorbrewer
r-ropls
r-summarizedexperiment
r-tibble
r-tidyr
r-venndiagram
)
checkdepends=(
r-testthat
)
optdepends=(
r-biocgenerics
r-biocstyle
r-biosigner
r-cll
r-knitr
r-omicade4
r-rmarkdown
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz"
"$_pkgname-LICENSE::http://www.cecill.info/licences/Licence_CeCILL_V2-en.txt")
md5sums=('71c26eac707af335ae9a86875eb63b8d'
'599cf91b33571e942d3ba5f9623b8011')
b2sums=('1caf0457c2b9718c787e515984e9d2ef0af428d6c2313857ca0d8fa855bac595372d5f37662fbd4785e579278344995c95e11c124654c06bc2992780560ea409'
'ff97dacc39b8597e670dbaf5bc0f0e4db73eada273708433fc227fa72c054a30a67dbc7b2416089d68f09ab65da721e5b30711022c41047d9cf706731d568038')
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 -Dm644 "$_pkgname-LICENSE" "$pkgdir/usr/share/licenses/$pkgname/LICENSE"
}
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