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59 lines
1.3 KiB
Bash
59 lines
1.3 KiB
Bash
# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
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_pkgname=demuxSNP
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_pkgver=1.0.0
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pkgname=r-${_pkgname,,}
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pkgver=${_pkgver//-/.}
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pkgrel=2
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pkgdesc="scRNAseq demultiplexing using cell hashing and SNPs"
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arch=(any)
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url="https://bioconductor.org/packages/$_pkgname"
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license=('GPL-3.0-only')
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depends=(
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r-biocgenerics
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r-combinat
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r-demuxmix
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r-ensembldb
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r-genomeinfodb
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r-iranges
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r-matrixgenerics
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r-singlecellexperiment
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r-summarizedexperiment
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r-variantannotation
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)
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checkdepends=(
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r-ensdb.hsapiens.v86
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r-seurat
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r-testthat
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)
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optdepends=(
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r-biocstyle
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r-complexheatmap
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r-dittoseq
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r-ensdb.hsapiens.v86
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r-ggpubr
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r-knitr
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r-refmanager
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r-rmarkdown
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r-seurat
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r-testthat
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r-viridislite
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)
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source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
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md5sums=('66a0ed302acbc18c7a106d99bf645133')
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b2sums=('eb2a41ca87b50cd53d98fa5de81ee0c75d6d356c100d5f49e1108cf6aeea73ec7aaaa090f23b92dbd0494253368e8996236a62ffa38e6612f32e09d9a63a5f21')
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build() {
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mkdir build
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R CMD INSTALL -l build "$_pkgname"
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}
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check() {
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cd "$_pkgname/tests"
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R_LIBS="$srcdir/build" NOT_CRAN=true Rscript --vanilla testthat.R
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}
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package() {
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install -d "$pkgdir/usr/lib/R/library"
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cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
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}
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