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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=PureCN
_pkgver=2.10.0
pkgname=r-${_pkgname,,}
pkgver=2.10.0
pkgrel=1
pkgdesc='Copy number calling and SNV classification using targeted short read sequencing'
arch=('any')
url="https://bioconductor.org/packages/${_pkgname}"
license=('Artistic2.0')
depends=(
r
r-biobase
r-biocgenerics
r-biostrings
r-data.table
r-dnacopy
r-futile.logger
r-genomeinfodb
r-genomicfeatures
r-genomicranges
r-ggplot2
r-gridextra
r-iranges
r-mclust
r-rcolorbrewer
r-rhdf5
r-rsamtools
r-rtracklayer
r-s4vectors
r-summarizedexperiment
r-variantannotation
r-vgam
)
optdepends=(
r-biocparallel
r-biocstyle
r-covr
r-genomicsdb
r-jsonlite
r-knitr
r-markdown
r-optparse
r-org.hs.eg.db
r-pscbs
r-r.utils
r-rmarkdown
r-testthat
r-txdb.hsapiens.ucsc.hg19.knowngene
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
sha256sums=('6e599102c314a3fbf2085c97f4e74f600d9bd58de6195bd5fa146f0b12dddcef')
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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