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| author | Pekka Ristola | 2023-11-23 21:50:33 +0200 |
|---|---|---|
| committer | Pekka Ristola | 2023-11-23 21:50:33 +0200 |
| commit | 866ffdbb43d0dd17bc14bde3579ac4c6ac7ce517 (patch) | |
| tree | 8e1366a5cf7b27ebb5c148787b230aeec03123d9 /PKGBUILD | |
| download | aur-866ffdbb43d0dd17bc14bde3579ac4c6ac7ce517.tar.gz | |
Version 1.0.0
Diffstat (limited to 'PKGBUILD')
| -rw-r--r-- | PKGBUILD | 61 |
1 files changed, 61 insertions, 0 deletions
diff --git a/PKGBUILD b/PKGBUILD new file mode 100644 index 000000000000..80f38161d0d9 --- /dev/null +++ b/PKGBUILD @@ -0,0 +1,61 @@ +# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com> + +_pkgname=gDNAx +_pkgver=1.0.0 +pkgname=r-${_pkgname,,} +pkgver=${_pkgver//-/.} +pkgrel=1 +pkgdesc="Diagnostics for assessing genomic DNA contamination in RNA-seq data" +arch=(any) +url="https://bioconductor.org/packages/${_pkgname}" +license=(Artistic2.0) +depends=( + r-annotationdbi + r-annotationhub + r-biocgenerics + r-biocparallel + r-biostrings + r-bitops + r-genomeinfodb + r-genomicalignments + r-genomicfeatures + r-genomicfiles + r-genomicranges + r-iranges + r-plotrix + r-rcolorbrewer + r-rsamtools + r-s4vectors + r-summarizedexperiment +) +checkdepends=( + r-gdnainrnaseqdata + r-runit + r-txdb.hsapiens.ucsc.hg38.knowngene +) +optdepends=( + r-biocstyle + r-gdnainrnaseqdata + r-knitr + r-rmarkdown + r-runit + r-txdb.hsapiens.ucsc.hg38.knowngene +) +source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz") +md5sums=('ca3a7370388bf64ba5ccae7161c64ebd') +sha256sums=('4b8c512d18a57fbddfe7f4625ca00e6f6d64eab31c7871a748fec7d2446aff5d') + +build() { + mkdir -p build + R CMD INSTALL "$_pkgname" -l build +} + +check() { + cd "$_pkgname/tests" + R_LIBS="$srcdir/build" Rscript --vanilla runTests.R +} + +package() { + install -d "$pkgdir/usr/lib/R/library" + cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library" +} |