[lilac] updated to 2.26.1-2

1 files changed, 42 insertions, 18 deletions

diff --git a/PKGBUILD b/PKGBUILD
index 88f04644b406..bbbe0908ca07 100644
--- a/PKGBUILD
+++ b/PKGBUILD
@@ -1,30 +1,39 @@
-# system requirements: GNU make, pandoc (>= 1.12.3), pandoc-citeproc
-# Maintainer: sukanka <su975853527@gmail.com>
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+# Contributor: sukanka <su975853527@gmail.com>
 
 _pkgname=rstanarm
 _pkgver=2.26.1
 pkgname=r-${_pkgname,,}
-pkgver=2.26.1
-pkgrel=1
-pkgdesc='Bayesian Applied Regression Modeling via Stan'
-arch=('x86_64')
+pkgver=${_pkgver//-/.}
+pkgrel=2
+pkgdesc="Bayesian Applied Regression Modeling via Stan"
+arch=(x86_64)
 url="https://cran.r-project.org/package=${_pkgname}"
-license=('GPL')
+license=(GPL3)
 depends=(
-  r
+  pandoc
   r-bayesplot
-  r-bh
   r-ggplot2
   r-lme4
   r-loo
+  r-posterior
   r-rcpp
-  r-rcppeigen
   r-rcppparallel
   r-rstan
   r-rstantools
   r-shinystan
+)
+makedepends=(
+  r-bh
+  r-rcppeigen
   r-stanheaders
-  pandoc
+)
+checkdepends=(
+  r-betareg
+  r-biglm
+  r-data.table
+  r-hsaur3
+  r-testthat
 )
 optdepends=(
   r-betareg
@@ -35,24 +44,39 @@ optdepends=(
   r-gridextra
   r-hsaur3
   r-knitr
-  r-mass
-  r-mgcv
   r-rmarkdown
   r-roxygen2
   r-shiny
   r-stanheaders
   r-testthat
 )
-makedepends=('make')
 source=("https://cran.r-project.org/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('8505a33ae9ff139e9f0b3d5b8cc6ee7e')
 sha256sums=('4a54792d6e035931b613647aebfc98b81d1aac646a5a3f6f116b6f560d544444')
 
+prepare() {
+  cd "$_pkgname/tests/testthat"
+  # skip tests that make a coredump
+  sed -e '/"stan_betareg ok when modeling x and z (link.phi = '\'sqrt\'')"/a\ \ skip("dumps core")' \
+      -e '/"heavy tailed priors work with stan_betareg"/a\ \ skip("dumps core")' \
+      -i test_stan_betareg.R
+  sed -i '1i skip("dumps core")' test_stan_jm.R
+  sed -i '/"multiple grouping factors are ok"/a\ \ skip("dumps core")' test_stan_mvmer.R
+}
+
 build() {
-  R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
+  mkdir -p build
+  # compilation needs a lot of memory
+  MAKEFLAGS+=" -j1"
+  R CMD INSTALL "$_pkgname" -l build
+}
+
+check() {
+  cd "$_pkgname/tests"
+  R_LIBS="$srcdir/build" NOT_CRAN=true Rscript --vanilla testthat.R
 }
 
 package() {
-  install -dm0755 "${pkgdir}/usr/lib/R/library"
-  cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
+  install -d "$pkgdir/usr/lib/R/library"
+  cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
 }
-# vim:set ts=2 sw=2 et: