add r-chimeraviz

1 files changed, 63 insertions, 0 deletions

diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..7711a10e1b67
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,63 @@
+# system requirements: bowtie, samtools, and egrep are required for somefunctionalities
+# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
+
+_pkgname=chimeraviz
+_pkgver=1.22.0
+pkgname=r-${_pkgname,,}
+pkgver=1.22.0
+pkgrel=1
+pkgdesc='Visualization tools for gene fusions'
+arch=('any')
+url="https://bioconductor.org/packages/${_pkgname}"
+license=('Artistic2.0')
+depends=(
+  r
+  r-annotationdbi
+  r-annotationfilter
+  r-biocstyle
+  r-biostrings
+  r-checkmate
+  r-data.table
+  r-dplyr
+  r-dt
+  r-ensembldb
+  r-genomeinfodb
+  r-genomicalignments
+  r-genomicranges
+  r-graph
+  r-gtools
+  r-gviz
+  r-iranges
+  r-magick
+  r-org.hs.eg.db
+  r-org.mm.eg.db
+  r-plyr
+  r-rcircos
+  r-rcolorbrewer
+  r-rgraphviz
+  r-rmarkdown
+  r-rsamtools
+  r-s4vectors
+  bowtie
+  samtools
+)
+optdepends=(
+  r-devtools
+  r-knitr
+  r-lintr
+  r-roxygen2
+  r-testthat
+  grep
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+sha256sums=('80c0e18e4b8295fa638b8a293612b31653cced6abf5881f2a8d03a905603a61a')
+
+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"
+}
+# vim:set ts=2 sw=2 et: