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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=customProDB
_pkgver=1.44.0
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}_${_pkgver}.tar.gz")
md5sums=('fbeece69015d5687c3cc2ff4cd0b6544')
b2sums=('2191f16d8759b32453cc923b72d7c1af4340b12c75f54604e07e7217b0759cdfa61a47ad85d1c46202d9f458d93159f2284c78b106b0a98e25f7b3cfb754a5f4')
build() {
mkdir build
R CMD INSTALL -l build "$_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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