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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=ppcseq
_pkgver=1.12.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Probabilistic Outlier Identification for RNA Sequencing Generalized Linear Models"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-only')
depends=(
onetbb
r-benchmarkme
r-dplyr
r-edger
r-foreach
r-ggplot2
r-lifecycle
r-magrittr
r-purrr
r-rcpp
r-rcppparallel
r-rlang
r-rstan
r-rstantools
r-tibble
r-tidybayes
r-tidyr
)
makedepends=(
r-bh
r-rcppeigen
r-stanheaders
)
checkdepends=(
r-testthat
)
optdepends=(
r-biocstyle
r-knitr
r-rmarkdown
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('a7035475c1010a58c51d389e5f96699c')
b2sums=('78ebbb160ed4c5e02e5d5c40213df6c841e75d02e63b4c276a0e496ba8daf240df72e342416d44891701ba785f37ddc6aff6ceca0d6e3c5324b137a0daecf1db')
build() {
mkdir build
R CMD INSTALL -l build "$_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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