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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=comapr
_pkgver=1.10.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Crossover analysis and genetic map construction"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('MIT')
depends=(
r-biocparallel
r-circlize
r-dplyr
r-foreach
r-genomeinfodb
r-genomicranges
r-ggplot2
r-gridextra
r-gviz
r-iranges
r-plotly
r-plyr
r-rcolorbrewer
r-reshape2
r-rlang
r-s4vectors
r-scales
r-summarizedexperiment
r-tidyr
)
checkdepends=(
r-testthat
)
optdepends=(
r-biocstyle
r-knitr
r-rmarkdown
r-statmod
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('066b98a23a1f2031231e2b58f5cd3f18')
b2sums=('3f0dafc8431e76ea39fd667a08a7e8d0ece542ec0750444f8f05a150155fc85dd3d671ca9bea0eb465179f6b9962406cee0ca006a28da3173c550c12ec99c261')
build() {
mkdir build
R CMD INSTALL -l build "$_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" "$pkgdir/usr/lib/R/library"
install -d "$pkgdir/usr/share/licenses/$pkgname"
ln -s "/usr/lib/R/library/$_pkgname/LICENSE" "$pkgdir/usr/share/licenses/$pkgname"
}
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