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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=ANCOMBC
_pkgver=2.6.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Microbiome differential abudance and correlation analyses with bias correction"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('Artistic-2.0')
depends=(
r-cvxr
r-desctools
r-doparallel
r-dorng
r-energy
r-foreach
r-gtools
r-hmisc
r-lme4
r-lmertest
r-mia
r-multcomp
r-nloptr
r-rdpack
r-s4vectors
r-singlecellexperiment
r-summarizedexperiment
r-treesummarizedexperiment
)
checkdepends=(
r-microbiome
r-testthat
)
optdepends=(
r-dplyr
r-dt
r-knitr
r-magrittr
r-microbiome
r-rmarkdown
r-testthat
r-tidyr
r-tidyverse
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('9ea99b22eb426a256081e63a7d6049f1')
b2sums=('ef90fb7af92ea9f5890ba2e7b0507f99cef1f41ecc97864c8ad875b055525c7b4507bed1005c2e6ddec08103dc1c0f1d368c5c0e219138069f34136de0a9693d')
build() {
mkdir build
R CMD INSTALL -l build "$_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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