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# system requirements: JRE 8+
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=HiCDCPlus
_pkgver=1.12.0
pkgname=r-${_pkgname,,}
pkgver=1.12.0
pkgrel=1
pkgdesc='Hi-C Direct Caller Plus'
arch=('x86_64')
url="https://bioconductor.org/packages/${_pkgname}"
license=('GPL')
depends=(
r
r-bbmle
r-biostrings
r-bsgenome
r-data.table
r-dplyr
r-genomeinfodb
r-genomicinteractions
r-genomicranges
r-interactionset
r-iranges
r-pscl
r-r.utils
r-rcpp
r-rlang
r-rtracklayer
r-s4vectors
r-tibble
r-tidyr
java-runtime
)
optdepends=(
r-biocfilecache
r-biocgenerics
r-bsgenome.hsapiens.ucsc.hg19
r-bsgenome.hsapiens.ucsc.hg38
r-bsgenome.mmusculus.ucsc.mm10
r-bsgenome.mmusculus.ucsc.mm9
r-deseq2
r-hitc
r-knitr
r-matrix
r-parallel
r-rappdirs
r-rmarkdown
r-runit
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
sha256sums=('498e0e5d304523aea6c3c0dbb73055fdc8ba8807f7e858df417a4a1c60d92575')
build() {
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
}
package() {
install -dm0755 "${pkgdir}/usr/lib/R/library"
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
}
# vim:set ts=2 sw=2 et:
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