add r-chromvar

2 files changed, 102 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..92eb1acc044b
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,42 @@
+pkgbase = r-chromvar
+	pkgdesc = Chromatin Variation Across Regions
+	pkgver = 1.18.0
+	pkgrel = 1
+	url = https://bioconductor.org/packages/chromVAR
+	arch = x86_64
+	license = MIT
+	depends = r
+	depends = r-biocgenerics
+	depends = r-biocparallel
+	depends = r-biostrings
+	depends = r-bsgenome
+	depends = r-dt
+	depends = r-genomeinfodb
+	depends = r-genomicranges
+	depends = r-ggplot2
+	depends = r-iranges
+	depends = r-miniui
+	depends = r-nabor
+	depends = r-plotly
+	depends = r-rcolorbrewer
+	depends = r-rcpp
+	depends = r-rcpparmadillo
+	depends = r-rsamtools
+	depends = r-rtsne
+	depends = r-s4vectors
+	depends = r-shiny
+	depends = r-summarizedexperiment
+	depends = r-tfbstools
+	depends = gcc
+	optdepends = r-bsgenome.hsapiens.ucsc.hg19
+	optdepends = r-jaspar2016
+	optdepends = r-knitr
+	optdepends = r-motifmatchr
+	optdepends = r-pheatmap
+	optdepends = r-readr
+	optdepends = r-rmarkdown
+	optdepends = r-testthat
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/chromVAR_1.18.0.tar.gz
+	sha256sums = d514d3a0da41b71daabe7c273ec38fd52577caf46a0427000096ee49eadc1a6e
+
+pkgname = r-chromvar
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..af972511fd79
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,60 @@
+# system requirements: C++11
+# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
+
+_pkgname=chromVAR
+_pkgver=1.18.0
+pkgname=r-${_pkgname,,}
+pkgver=1.18.0
+pkgrel=1
+pkgdesc='Chromatin Variation Across Regions'
+arch=('x86_64')
+url="https://bioconductor.org/packages/${_pkgname}"
+license=('MIT')
+depends=(
+  r
+  r-biocgenerics
+  r-biocparallel
+  r-biostrings
+  r-bsgenome
+  r-dt
+  r-genomeinfodb
+  r-genomicranges
+  r-ggplot2
+  r-iranges
+  r-miniui
+  r-nabor
+  r-plotly
+  r-rcolorbrewer
+  r-rcpp
+  r-rcpparmadillo
+  r-rsamtools
+  r-rtsne
+  r-s4vectors
+  r-shiny
+  r-summarizedexperiment
+  r-tfbstools
+  gcc
+)
+optdepends=(
+  r-bsgenome.hsapiens.ucsc.hg19
+  r-jaspar2016
+  r-knitr
+  r-motifmatchr
+  r-pheatmap
+  r-readr
+  r-rmarkdown
+  r-testthat
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+sha256sums=('d514d3a0da41b71daabe7c273ec38fd52577caf46a0427000096ee49eadc1a6e')
+
+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: