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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=HIBAG
_pkgver=1.44.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="HLA Genotype Imputation with Attribute Bagging"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-only')
depends=(
onetbb
r-rcppparallel
)
checkdepends=(
r-gdsfmt
r-ggplot2
r-reshape2
r-snprelate
)
optdepends=(
r-gdsfmt
r-ggplot2
r-knitr
r-markdown
r-reshape2
r-rmarkdown
r-rsamtools
r-seqarray
r-snprelate
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('cd15b667714357759dc3b06ff49ee544')
b2sums=('6935e61746c95d24a12332576c3de73bfe76da7b436157babea064a9d397faf2f7c069374fc0437747705ae79b103b3bc86f31dc894ec4f5db01e854e8574ca4')
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
check() {
cd "$_pkgname/tests"
R_LIBS="$srcdir/build" Rscript --vanilla runTests.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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