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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=ChIPpeakAnno
_pkgver=3.38.1
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Batch annotation of the peaks identified from either ChIP-seq, ChIP-chip experiments, or any experiments that result in large number of genomic interval data"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-2.0-or-later')
depends=(
r-annotationdbi
r-biocgenerics
r-biomart
r-biostrings
r-data.table
r-dbi
r-dplyr
r-ensembldb
r-genomeinfodb
r-genomicalignments
r-genomicfeatures
r-genomicranges
r-ggplot2
r-graph
r-interactionset
r-iranges
r-keggrest
r-matrixstats
r-multtest
r-pwalign
r-rbgl
r-regioner
r-rsamtools
r-rtracklayer
r-s4vectors
r-scales
r-stringr
r-summarizedexperiment
r-tibble
r-tidyr
r-universalmotif
r-venndiagram
)
optdepends=(
r-annotationhub
r-biocfilecache
r-biocmanager
r-biocstyle
r-bsgenome
r-bsgenome.celegans.ucsc.ce10
r-bsgenome.drerio.ucsc.danrer7
r-bsgenome.ecoli.ncbi.20080805
r-bsgenome.hsapiens.ucsc.hg19
r-bsgenome.hsapiens.ucsc.hg38
r-delayedarray
r-ensdb.hsapiens.v75
r-ensdb.hsapiens.v79
r-ensdb.hsapiens.v86
r-go.db
r-gplots
r-idr
r-knitr
r-limma
r-motifstack
r-org.ce.eg.db
r-org.hs.eg.db
r-organismdbi
r-reactome.db
r-reshape2
r-rmarkdown
r-seqinr
r-testthat
r-trackviewer
r-txdb.hsapiens.ucsc.hg18.knowngene
r-txdb.hsapiens.ucsc.hg19.knowngene
r-txdb.hsapiens.ucsc.hg38.knowngene
r-upsetr
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('5235bad4fe917e070b4d059fec933143')
b2sums=('341f3114b33c51403196090c1cedaa8377c2d2a2d7c102be4910485adede1ec11adfd94fb8e186aa097591222f7c1392a1c8a359a1f6fd492bd1bc58ff709fcf')
build() {
mkdir build
R CMD INSTALL -l build "$_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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