add r-oligo

2 files changed, 104 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..67d99b4cfa43
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,44 @@
+pkgbase = r-oligo
+	pkgdesc = Preprocessing tools for oligonucleotide arrays
+	pkgver = 1.60.0
+	pkgrel = 1
+	url = https://bioconductor.org/packages/oligo
+	arch = x86_64
+	license = LGPL
+	depends = r
+	depends = r-affxparser
+	depends = r-affyio
+	depends = r-biobase
+	depends = r-biocgenerics
+	depends = r-biostrings
+	depends = r-dbi
+	depends = r-ff
+	depends = r-oligoclasses
+	depends = r-preprocesscore
+	depends = r-rsqlite
+	depends = r-zlibbioc
+	optdepends = r-acme
+	optdepends = r-annotationdbi
+	optdepends = r-biocstyle
+	optdepends = r-biomart
+	optdepends = r-bsgenome.hsapiens.ucsc.hg18
+	optdepends = r-domc
+	optdepends = r-dompi
+	optdepends = r-genefilter
+	optdepends = r-hapmap100kxba
+	optdepends = r-knitr
+	optdepends = r-limma
+	optdepends = r-maqcexpression4plex
+	optdepends = r-oligodata
+	optdepends = r-pd.hg.u95av2
+	optdepends = r-pd.hg18.60mer.expr
+	optdepends = r-pd.huex.1.0.st.v2
+	optdepends = r-pd.hugene.1.0.st.v1
+	optdepends = r-pd.mapping50k.xba240
+	optdepends = r-rcolorbrewer
+	optdepends = r-rcurl
+	optdepends = r-runit
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/oligo_1.60.0.tar.gz
+	sha256sums = 7e97ad2b355b31679175634c7a8c1cb120334e1c8808dc75412b55a7b249f278
+
+pkgname = r-oligo
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..41b670dd3c48
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,60 @@
+# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
+
+_pkgname=oligo
+_pkgver=1.60.0
+pkgname=r-${_pkgname,,}
+pkgver=1.60.0
+pkgrel=1
+pkgdesc='Preprocessing tools for oligonucleotide arrays'
+arch=('x86_64')
+url="https://bioconductor.org/packages/${_pkgname}"
+license=('LGPL')
+depends=(
+  r
+  r-affxparser
+  r-affyio
+  r-biobase
+  r-biocgenerics
+  r-biostrings
+  r-dbi
+  r-ff
+  r-oligoclasses
+  r-preprocesscore
+  r-rsqlite
+  r-zlibbioc
+)
+optdepends=(
+  r-acme
+  r-annotationdbi
+  r-biocstyle
+  r-biomart
+  r-bsgenome.hsapiens.ucsc.hg18
+  r-domc
+  r-dompi
+  r-genefilter
+  r-hapmap100kxba
+  r-knitr
+  r-limma
+  r-maqcexpression4plex
+  r-oligodata
+  r-pd.hg.u95av2
+  r-pd.hg18.60mer.expr
+  r-pd.huex.1.0.st.v2
+  r-pd.hugene.1.0.st.v1
+  r-pd.mapping50k.xba240
+  r-rcolorbrewer
+  r-rcurl
+  r-runit
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+sha256sums=('7e97ad2b355b31679175634c7a8c1cb120334e1c8808dc75412b55a7b249f278')
+
+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: