r-glmmtmb: use metadata checks

BioArchLinux/r-glmmtmb/PKGBUILD

@@ -1,26 +1,33 @@
-# system requirements: GNU make
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
-# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
+# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>
 
 _pkgname=glmmTMB
 _pkgver=1.1.7
 pkgname=r-${_pkgname,,}
-pkgver=1.1.7
+pkgver=${_pkgver//-/.}
 pkgrel=2
-pkgdesc='Generalized Linear Mixed Models using Template Model Builder'
+pkgdesc="Generalized Linear Mixed Models using Template Model Builder"
-arch=('x86_64')
+arch=(x86_64)
 url="https://cran.r-project.org/package=${_pkgname}"
-license=('AGPL')
+license=(AGPL3)
 depends=(
-  r
   r-lme4
   r-numderiv
-  r-rcppeigen
   r-tmb
-  make
+)
+makedepends=(
+  r-rcppeigen
+)
+checkdepends=(
+  r-car
+  r-effects
+  r-emmeans
+  r-mvabund
+  r-pscl
+  r-testthat
 )
 optdepends=(
   r-bbmle
-  r-boot
   r-broom
   r-broom.mixed
   r-car
@@ -33,13 +40,10 @@ optdepends=(
   r-ggplot2
   r-huxtable
   r-knitr
-  r-lattice
-  r-mass
   r-mlmrev
   r-multcomp
   r-mumin
   r-mvabund
-  r-parallel
   r-plyr
   r-png
   r-pscl
@@ -50,14 +54,20 @@ optdepends=(
   r-xtable
 )
 source=("https://cran.r-project.org/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('97dac1dddc453e0e9b5d7c072e4d4766')
 sha256sums=('a38be6e3b8a65a928d19970aee2b13d28535e42b97a046b2f00014f78475c1f1')
 
 build() {
-  R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
+  mkdir -p build
+  R CMD INSTALL "$_pkgname" -l build
+}
+
+check() {
+  cd "$_pkgname/tests"
+  R_LIBS="$srcdir/build" NOT_CRAN=true Rscript --vanilla AAAtest-all.R
 }
 
 package() {
-  install -dm0755 "${pkgdir}/usr/lib/R/library"
+  install -d "$pkgdir/usr/lib/R/library"
-  cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
+  cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
 }
-# vim:set ts=2 sw=2 et:

BioArchLinux/r-glmmtmb/lilac.py

@@ -1,12 +1,16 @@
 #!/usr/bin/env python3
 from lilaclib import *
 
+import os
+import sys
+sys.path.append(os.path.normpath(f'{__file__}/../../../lilac-extensions'))
+from lilac_r_utils import r_pre_build
+
 def pre_build():
-    for line in edit_file('PKGBUILD'):
+    r_pre_build(
-        if line.startswith('_pkgver='):
+        _G,
-            line = f'_pkgver={_G.newver}'
+        expect_systemrequirements = "GNU make",
-        print(line)
+    )
-    update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
 
 def post_build():
     git_pkgbuild_commit()

BioArchLinux/r-glmmtmb/lilac.yaml

@@ -1,14 +1,24 @@
 build_prefix: extra-x86_64
 maintainers:
-- github: starsareintherose
+- github: pekkarr
-  email: kuoi@bioarchlinux.org
+  email: pekkarr@protonmail.com
 repo_depends:
 - r-lme4
 - r-numderiv
-- r-rcppeigen
 - r-tmb
+repo_makedepends:
+- r-rcppeigen
+- r-car
+- r-effects
+- r-emmeans
+- r-mvabund
+- r-pscl
+- r-testthat
 update_on:
-- regex: glmmTMB_([\d._-]+).tar.gz
+- source: rpkgs
-  source: regex
+  pkgname: glmmTMB
-  url: https://cran.r-project.org/package=glmmTMB
+  repo: cran
+  md5: true
 - alias: r
+update_on_build:
+- pkgbase: r-tmb

lilac-extensions/lilac_r_utils.py

@@ -185,6 +185,7 @@ class Pkgbuild:
 
 # maps the license field in the DESCRIPTION file to a PKGBUILD license value
 license_map = {
+    "AGPL-3": "AGPL3",
     "Apache License": "Apache",
     "Apache License (== 2.0)": "Apache",
     "Apache License 2.0": "Apache",