# system requirements: GNU make
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>

_pkgname=Rsamtools
_pkgver=2.10.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//[:-]/.}
pkgrel=1
pkgdesc='Binary alignment (BAM), FASTA, variant call (BCF), and tabix file import'
arch=('x86_64')
url="https://bioconductor.org/packages/${_pkgname}"
license=('Artistic2.0')
depends=(
  r
  r-biocgenerics
  r-biocparallel
  r-biostrings
  r-bitops
  r-genomeinfodb
  r-genomicranges
  r-iranges
  r-rhtslib
  r-s4vectors
  r-xvector
  r-zlibbioc
)
optdepends=(
  r-biocstyle
  r-bsgenome.hsapiens.ucsc.hg19
  r-genomicalignments
  r-genomicfeatures
  r-rnaseqdata.hnrnpc.bam.chr14
  r-runit
  r-shortread
  r-txdb.dmelanogaster.ucsc.dm3.ensgene
  r-txdb.hsapiens.ucsc.hg18.knowngene
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
sha256sums=('a')

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: