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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=scifer
_pkgver=1.6.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Single-Cell Immunoglobulin Filtering of Sanger Sequences"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('MIT')
depends=(
r-biostrings
r-data.table
r-decipher
r-dplyr
r-flowcore
r-ggplot2
r-gridextra
r-kableextra
r-knitr
r-plyr
r-rlang
r-rmarkdown
r-sangerseqr
r-scales
r-stringr
r-tibble
)
checkdepends=(
r-testthat
)
optdepends=(
r-biocstyle
r-fs
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('92ff7394e0644ff2533e941cd2bf52bd')
b2sums=('05b987ad730db1846feaceb81ceecabe447550b9245c7195439f8c86cd4d88f7ee3d83c971c5c3fa75de41a6446df5513808ed19f4070c1ed16c7f4b75c426b9')
build() {
mkdir build
R CMD INSTALL -l build "$_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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