add r-bioconcotk

2 files changed, 126 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..5a7cebc98c57
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,55 @@
+pkgbase = r-bioconcotk
+	pkgdesc = Bioconductor components for general cancer genomics
+	pkgver = 1.16.0
+	pkgrel = 1
+	url = https://bioconductor.org/packages/BiocOncoTK
+	arch = any
+	license = Artistic2.0
+	depends = r
+	depends = r-bigrquery
+	depends = r-car
+	depends = r-complexheatmap
+	depends = r-curatedtcgadata
+	depends = r-dbi
+	depends = r-dplyr
+	depends = r-dt
+	depends = r-genomicfeatures
+	depends = r-genomicranges
+	depends = r-ggplot2
+	depends = r-ggpubr
+	depends = r-graph
+	depends = r-httr
+	depends = r-iranges
+	depends = r-magrittr
+	depends = r-plyr
+	depends = r-rgraphviz
+	depends = r-rjson
+	depends = r-s4vectors
+	depends = r-scales
+	depends = r-shiny
+	depends = r-summarizedexperiment
+	optdepends = r-annotationdbi
+	optdepends = r-biobase
+	optdepends = r-biocfilecache
+	optdepends = r-biocstyle
+	optdepends = r-dbplyr
+	optdepends = r-ensdb.hsapiens.v75
+	optdepends = r-fdb.infiniummethylation.hg19
+	optdepends = r-genomeinfodb
+	optdepends = r-knitr
+	optdepends = r-multiassayexperiment
+	optdepends = r-ontologyplot
+	optdepends = r-ontoproc
+	optdepends = r-org.hs.eg.db
+	optdepends = r-pogos
+	optdepends = r-reshape2
+	optdepends = r-restfulse
+	optdepends = r-rhdf5client
+	optdepends = r-rmarkdown
+	optdepends = r-testthat
+	optdepends = r-txdb.hsapiens.ucsc.hg18.knowngene
+	optdepends = r-txdb.hsapiens.ucsc.hg19.knowngene
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/BiocOncoTK_1.16.0.tar.gz
+	sha256sums = f11e6cd7f636c3411ec479714c60651a104d923329ddbf6b507813c4bfa697aa
+
+pkgname = r-bioconcotk
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..4e7cd83f9371
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,71 @@
+# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
+
+_pkgname=BiocOncoTK
+_pkgver=1.16.0
+pkgname=r-${_pkgname,,}
+pkgver=1.16.0
+pkgrel=1
+pkgdesc='Bioconductor components for general cancer genomics'
+arch=('any')
+url="https://bioconductor.org/packages/${_pkgname}"
+license=('Artistic2.0')
+depends=(
+  r
+  r-bigrquery
+  r-car
+  r-complexheatmap
+  r-curatedtcgadata
+  r-dbi
+  r-dplyr
+  r-dt
+  r-genomicfeatures
+  r-genomicranges
+  r-ggplot2
+  r-ggpubr
+  r-graph
+  r-httr
+  r-iranges
+  r-magrittr
+  r-plyr
+  r-rgraphviz
+  r-rjson
+  r-s4vectors
+  r-scales
+  r-shiny
+  r-summarizedexperiment
+)
+optdepends=(
+  r-annotationdbi
+  r-biobase
+  r-biocfilecache
+  r-biocstyle
+  r-dbplyr
+  r-ensdb.hsapiens.v75
+  r-fdb.infiniummethylation.hg19
+  r-genomeinfodb
+  r-knitr
+  r-multiassayexperiment
+  r-ontologyplot
+  r-ontoproc
+  r-org.hs.eg.db
+  r-pogos
+  r-reshape2
+  r-restfulse
+  r-rhdf5client
+  r-rmarkdown
+  r-testthat
+  r-txdb.hsapiens.ucsc.hg18.knowngene
+  r-txdb.hsapiens.ucsc.hg19.knowngene
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+sha256sums=('f11e6cd7f636c3411ec479714c60651a104d923329ddbf6b507813c4bfa697aa')
+
+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: