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# system requirements: C++11, GNU make
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=scPipe
_pkgver=2.4.0
pkgname=r-${_pkgname,,}
pkgver=2.4.0
pkgrel=1
pkgdesc='pipeline for single cell RNA-seq data analysis'
arch=('x86_64')
url="https://bioconductor.org/packages/${_pkgname}"
license=('GPL')
depends=(
gcc
make
r
r-annotationdbi
r-basilisk
r-biocgenerics
r-biomart
r-biostrings
r-data.table
r-dplyr
r-dropletutils
r-flexmix
r-genomicalignments
r-genomicranges
r-ggally
r-ggplot2
r-glue
r-hash
r-iranges
r-magrittr
r-mclust
r-multiassayexperiment
r-org.hs.eg.db
r-org.mm.eg.db
r-purrr
r-rcpp
r-reshape
r-reticulate
r-rhtslib
r-rlang
r-robustbase
r-rsamtools
r-rsubread
r-rtracklayer
r-s4vectors
r-scales
r-singlecellexperiment
r-stringr
r-summarizedexperiment
r-testthat
r-tibble
r-tidyr
r-vctrs
r-zlibbioc
)
optdepends=(
r-biocstyle
r-dt
r-genomicfeatures
r-grid
r-igraph
r-kableextra
r-knitr
r-locstra
r-plotly
r-rann
r-rcolorbrewer
r-readr
r-reshape2
r-rmarkdown
r-scater
r-shiny
r-testthat
r-umap
r-xml2
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
sha256sums=('09202204de64c8581ad5062ad7593aa1effa76727a91e8107a2abad93b36e858')
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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