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# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=TreeTools
_pkgver=1.12.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Create, Modify and Analyse Phylogenetic Trees"
arch=(x86_64)
url="https://cran.r-project.org/package=$_pkgname"
license=('GPL-3.0-or-later')
depends=(
r-ape
r-bit64
r-colorspace
r-fastmatch
r-lifecycle
r-plottools
r-r.cache
r-rcurl
r-rdpack
)
makedepends=(
r-rcpp
)
checkdepends=(
r-phangorn
r-purrr
r-testthat
r-vdiffr
)
optdepends=(
r-knitr
r-phangorn
r-purrr
r-rcpp
r-rlang
r-rmarkdown
r-spelling
r-testthat
r-vdiffr
)
source=("https://cran.r-project.org/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('26dd0b07c3b9d393da04d1c40fc8ce52')
b2sums=('acc324f0995977bfe5be748c8348f66bcff4ddedd4f9e2edadcd1c1a60ce4867542ddfc8d9bde52ef0cae887874b21064273a629461d22d2794ae3efa048e160')
prepare() {
# skip failing tests
sed -e '/"Simple rogue plot"/a\ \ skip("fails")' \
-e '/"polytomy id"/a\ \ skip("fails")' \
-e '/"Complex rogue plot"/a\ \ skip("fails")' \
-i "$_pkgname/tests/testthat/test-RoguePlot.R"
}
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
check() {
cd "$_pkgname/tests"
R_LIBS="$srcdir/build" NOT_CRAN=true Rscript --vanilla testthat.R
}
package() {
install -d "$pkgdir/usr/lib/R/library"
cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
}
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