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author | Pekka Ristola | 2023-10-22 14:33:03 +0300 |
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committer | Pekka Ristola | 2023-10-22 14:33:03 +0300 |
commit | d4e8641d9a9af09a14859f2b63227e4b482f394f (patch) | |
tree | 267b9d05d448b2c9c55c14e8d2894be02de8f79b /PKGBUILD | |
download | aur-d4e8641d9a9af09a14859f2b63227e4b482f394f.tar.gz |
Version 1.0.0
Diffstat (limited to 'PKGBUILD')
-rw-r--r-- | PKGBUILD | 60 |
1 files changed, 60 insertions, 0 deletions
diff --git a/PKGBUILD b/PKGBUILD new file mode 100644 index 000000000000..6ab89a97f153 --- /dev/null +++ b/PKGBUILD @@ -0,0 +1,60 @@ +# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com> + +_pkgname=HiCExperiment +_pkgver=1.0.0 +pkgname=r-${_pkgname,,} +pkgver=${_pkgver//-/.} +pkgrel=1 +pkgdesc="Bioconductor class for interacting with Hi-C files in R" +arch=(any) +url="https://bioconductor.org/packages/${_pkgname}" +license=(MIT) +depends=( + r-biocgenerics + r-biocio + r-biocparallel + r-dplyr + r-genomeinfodb + r-genomicranges + r-interactionset + r-iranges + r-rhdf5 + r-s4vectors + r-strawr + r-vroom +) +checkdepends=( + r-hicontactsdata + r-testthat +) +optdepends=( + r-biocfilecache + r-biocstyle + r-hicontacts + r-hicontactsdata + r-knitr + r-rmarkdown + r-rtracklayer + r-testthat +) +source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz") +md5sums=('9208ad11b1c8c4b78cfd51e1f02c0c6e') +sha256sums=('39e8d6ec871c78eb179a47108e7a6d4a9f35f7c098cad45f8e5cf65f512717c9') + +build() { + mkdir -p build + R CMD INSTALL "$_pkgname" -l build +} + +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" "$pkgdir/usr/lib/R/library" + + install -d "$pkgdir/usr/share/licenses/$pkgname" + ln -s "/usr/lib/R/library/$_pkgname/LICENSE" "$pkgdir/usr/share/licenses/$pkgname" +} |