add r-orfik

1 files changed, 61 insertions, 0 deletions

diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..0be565479a8f
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,61 @@
+# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
+
+_pkgname=ORFik
+_pkgver=1.16.0
+pkgname=r-${_pkgname,,}
+pkgver=1.16.0
+pkgrel=1
+pkgdesc='Open Reading Frames in Genomics'
+arch=('x86_64')
+url="https://bioconductor.org/packages/${_pkgname}"
+license=('MIT')
+depends=(
+  r
+  r-annotationdbi
+  r-biocgenerics
+  r-biocparallel
+  r-biomartr
+  r-biostrings
+  r-bsgenome
+  r-cowplot
+  r-data.table
+  r-deseq2
+  r-fst
+  r-genomeinfodb
+  r-genomicalignments
+  r-genomicfeatures
+  r-genomicranges
+  r-ggally
+  r-ggplot2
+  r-gridextra
+  r-httr
+  r-iranges
+  r-jsonlite
+  r-r.utils
+  r-rcpp
+  r-rsamtools
+  r-rtracklayer
+  r-s4vectors
+  r-summarizedexperiment
+  r-xml2
+)
+optdepends=(
+  r-biocstyle
+  r-bsgenome.hsapiens.ucsc.hg19
+  r-knitr
+  r-rmarkdown
+  r-testthat
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+sha256sums=('d427872f43864948d9450bbb3f44ce202c428b2775b56ec4c324f3b05cbfcf19')
+
+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"
+  install -Dm644 "${_pkgname}/LICENSE" -t "${pkgdir}/usr/share/licenses/${pkgname}"
+}
+# vim:set ts=2 sw=2 et: