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49 lines
1.2 KiB
Bash
49 lines
1.2 KiB
Bash
# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
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_pkgname=oncoscanR
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_pkgver=1.8.0
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pkgname=r-${_pkgname,,}
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pkgver=${_pkgver//-/.}
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pkgrel=1
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pkgdesc="Secondary analyses of CNV data (HRD and more)"
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arch=(any)
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url="https://bioconductor.org/packages/$_pkgname"
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license=('MIT')
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depends=(
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r-genomicranges
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r-iranges
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r-magrittr
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r-readr
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r-s4vectors
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)
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checkdepends=(
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r-testthat
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)
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optdepends=(
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r-biocstyle
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r-jsonlite
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r-knitr
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r-rmarkdown
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r-testthat
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)
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source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
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md5sums=('41a3ad0c018823770001a20a8a1625ac')
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b2sums=('391cb89f72d68aea4f4162efcb9e9570fc24471dc4880e5c2d5c7558c1a05708d1ae4cbcd2995df79750af52d88051e909163dccacb6b4a7ea7f07a8a7d0cf19')
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build() {
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mkdir build
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R CMD INSTALL -l build "$_pkgname"
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}
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check() {
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cd "$_pkgname/tests"
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R_LIBS="$srcdir/build" NOT_CRAN=true Rscript --vanilla testthat.R
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}
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package() {
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install -d "$pkgdir/usr/lib/R/library"
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cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
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install -d "$pkgdir/usr/share/licenses/$pkgname"
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ln -s "/usr/lib/R/library/$_pkgname/LICENSE" "$pkgdir/usr/share/licenses/$pkgname"
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}
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