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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=customProDB
_pkgver=1.48.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Generate customized protein database from NGS data, with a focus on RNA-Seq data, for proteomics search"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('Artistic-2.0')
depends=(
r-ahocorasicktrie
r-annotationdbi
r-biomart
r-biostrings
r-dbi
r-genomeinfodb
r-genomicalignments
r-genomicfeatures
r-genomicranges
r-iranges
r-plyr
r-rcurl
r-rsamtools
r-rsqlite
r-rtracklayer
r-s4vectors
r-stringr
r-txdbmaker
r-variantannotation
)
optdepends=(
r-bsgenome.hsapiens.ucsc.hg19
r-rmariadb
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('b5e72b855c59ca46b0edf160740c3ba1')
b2sums=('74c4c6e52c51192f4df6b0c7722141299ba02b96aaaa665e92544854ca1a1aaee0b0331d50e888986c22770cac13b94746e0829700029016f477acf7d1b4bacc')
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
package() {
install -d "$pkgdir/usr/lib/R/library"
cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
}
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