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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=retrofit
_pkgver=1.4.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Reference-free deconvolution of cell mixtures in spatial transcriptomics"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-only')
depends=(
r-rcpp
)
checkdepends=(
r-testthat
)
optdepends=(
r-biocstyle
r-colorspace
r-corrplot
r-cowplot
r-desctools
r-ggplot2
r-knitr
r-pals
r-png
r-rcurl
r-reshape2
r-rmarkdown
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('c95b4ffd79d78ee34a28185190260da2')
b2sums=('0d1c5c97684854bc38ed452fc13dd1aeffaa2694f7745b10b0ce0121ab6b683b3cddedc3c66500bae75376013291c864f682d5bf669ad69c3f7f8dd948bd2f7b')
build() {
mkdir build
R CMD INSTALL -l build "$_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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