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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
# Contributor: Viktor Drobot (aka dviktor) linux776 [at] gmail [dot] com
_pkgname=gpart
_pkgver=1.13.0
pkgname=r-${_pkgname,,}
pkgver=1.13.0
pkgrel=4
pkgdesc='Human genome partitioning of dense sequencing data by identifying haplotype blocks'
arch=('x86_64')
url="https://bioconductor.org/packages/3.15/${_pkgname}"
license=('MIT')
depends=(
r
r-annotationdbi
r-biomart
r-data.table
r-genomicranges
r-homo.sapiens
r-igraph
r-iranges
r-organismdbi
r-rcpp
r-txdb.hsapiens.ucsc.hg38.knowngene
)
makedepends=(
patch
)
optdepends=(
r-biocstyle
r-knitr
r-rmarkdown
r-testthat
)
source=("https://bioconductor.org/packages/3.15/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz"
"fix_pi.patch")
sha256sums=('4d8b149f072e10ad1ad149bf09325871cb08d740511bcaef9b4c08aea6e42894'
'033774f380e8c8edbe056b8dd2b076bcd408895a4ecaa75eb6da5e1c99caae70')
prepare() {
cd "${srcdir}/${_pkgname}"
# fix misspelled PI macro/variable
patch -Np0 -i "${srcdir}/fix_pi.patch"
}
build() {
# create staging directory for installation
mkdir -p "${srcdir}/staged"
R CMD INSTALL "${_pkgname}" -l "${srcdir}/staged"
}
package() {
install -dm0755 "${pkgdir}/usr/lib/R/library"
cp -a --no-preserve=ownership "${srcdir}/staged/${_pkgname}" "${pkgdir}/usr/lib/R/library"
install -Dm644 "${_pkgname}/LICENSE" -t "${pkgdir}/usr/share/licenses/${pkgname}"
}
# vim:set ts=2 sw=2 et:
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