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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=TCGAutils
_pkgver=1.24.0
pkgname=r-${_pkgname,,}
pkgver=1.24.0
pkgrel=1
pkgdesc='TCGA utility functions for data management'
arch=('any')
url="https://bioconductor.org/packages/${_pkgname}"
license=('Artistic2.0')
depends=(
r
r-annotationdbi
r-biocbaseutils
r-biocgenerics
r-genomeinfodb
r-genomicdatacommons
r-genomicfeatures
r-genomicranges
r-iranges
r-multiassayexperiment
r-raggedexperiment
r-rvest
r-s4vectors
r-stringr
r-summarizedexperiment
r-xml2
)
optdepends=(
r-annotationhub
r-biocstyle
r-complexheatmap
r-curatedtcgadata
r-devtools
r-dplyr
r-httr
r-illuminahumanmethylation450kanno.ilmn12.hg19
r-impute
r-knitr
r-magrittr
r-mirbase.db
r-org.hs.eg.db
r-r.utils
r-rcolorbrewer
r-readr
r-rmarkdown
r-rtcgatoolbox
r-rtracklayer
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=('289385b189ac04921ae099a1931f3743e393d063917682092a9a237b1d0dbf3a')
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:
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