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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=FLAMES
_pkgver=1.10.3
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Full Length Analysis of Mutations and Splicing in long read RNA-seq data"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-or-later')
depends=(
bzip2
curl
r-bambu
r-basilisk
r-biocgenerics
r-biostrings
r-circlize
r-complexheatmap
r-cowplot
r-dplyr
r-dropletutils
r-future
r-genomeinfodb
r-genomicalignments
r-genomicfeatures
r-genomicranges
r-ggbio
r-ggplot2
r-gridextra
r-igraph
r-iranges
r-jsonlite
r-magrittr
r-multiassayexperiment
r-rcolorbrewer
r-reticulate
r-rsamtools
r-rtracklayer
r-s4vectors
r-scater
r-scran
r-scuttle
r-singlecellexperiment
r-stringr
r-summarizedexperiment
r-tibble
r-tidyr
r-tidyselect
r-txdbmaker
r-withr
r-zlibbioc
xz
zlib
)
makedepends=(
r-rcpp
r-rhtslib
r-testthat
)
optdepends=(
r-biocfilecache
r-biocstyle
r-geoquery
r-knitr
r-markdown
r-r.utils
r-rmarkdown
r-shortread
r-testthat
r-uwot
r-xml2
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('25ace98ee5b53939615415685a153947')
b2sums=('0756518538a3fd8049d0623c04f7278753945a6a18a54de6dd3cfcf3a7baf7d06771db63a64c35b95c51031b223fe22c50bd5d3f1a4a8c7c4c51a13736f60080')
build() {
mkdir build
R CMD INSTALL -l build "$_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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