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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=MsQuality
_pkgver=1.4.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Quality metric calculation from Spectra and MsExperiment objects"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-only')
depends=(
r-biocparallel
r-ggplot2
r-htmlwidgets
r-msdata
r-msexperiment
r-plotly
r-protgenerics
r-rlang
r-rmzqc
r-shiny
r-shinydashboard
r-spectra
r-stringr
r-tibble
r-tidyr
)
checkdepends=(
r-mzr
r-s4vectors
r-testthat
)
optdepends=(
r-biocgenerics
r-biocstyle
r-dplyr
r-knitr
r-mzr
r-rmarkdown
r-s4vectors
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('02b69afab89b5a5555705937db09a190')
b2sums=('a055218459c1144c26a99d967973dbab7f7f63ddd18daecc0e38428bffb7430a54bd00cb94fa73dcf23b520289bc3a266c07e7b98309d0bf9dbbfbd872764450')
build() {
mkdir build
R CMD INSTALL -l build "$_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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