PKGBUILD


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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>

_pkgname=TEKRABber
_pkgver=1.10.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="An R package estimates the correlations of orthologs and transposable elements between two species"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('LGPL-3.0-or-later')
depends=(
  r-apeglm
  r-biomart
  r-deseq2
  r-doparallel
  r-dplyr
  r-foreach
  r-genomeinfodb
  r-magrittr
  r-rcpp
  r-rtracklayer
  r-scbn
)
checkdepends=(
  r-testthat
)
optdepends=(
  r-biocstyle
  r-bslib
  r-ggplot2
  r-ggpubr
  r-knitr
  r-plotly
  r-rmarkdown
  r-shiny
  r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('06eae4ec275e8f28223fa119009b3dc6')
b2sums=('68870c7a749ae298d254177172fcd82a8db511879d3de252cbccb033543e8330379c4fbf25b456186b4a98cbccb1c97409bb36ac09ddc353388faea70229bdbe')

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"
}