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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=HiCDOC
_pkgver=1.6.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="A/B compartment detection and differential analysis"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('LGPL-3.0-only')
depends=(
r-biocgenerics
r-biocparallel
r-cowplot
r-data.table
r-genomeinfodb
r-genomicranges
r-ggplot2
r-gridextra
r-gtools
r-interactionset
r-multihiccompare
r-pbapply
r-rcpp
r-s4vectors
r-summarizedexperiment
r-zlibbioc
zlib
)
checkdepends=(
r-testthat
)
optdepends=(
r-biocmanager
r-biocstyle
r-knitr
r-rhdf5
r-rmarkdown
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('ea5a91a9be89ec89bfca0613aa52816a')
b2sums=('96bb7c9c329686c425aed6fcce393e84622926c35113cb367ca122aa0967b629dbe9a5e452257fbf79098760d78c250a686e956a79255c143f3b165f0df820c7')
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
check() {
cd "$_pkgname/tests"
R_LIBS="$srcdir/build" NOT_CRAN=true Rscript --vanilla testthat.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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