r-tvtb: use latest sources, use metadata checks

BioArchLinux/r-tvtb/PKGBUILD

@@ -1,16 +1,15 @@
 # Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
 
 _pkgname=TVTB
-_pkgver=1.22.0
+_pkgver=1.28.0
 pkgname=r-${_pkgname,,}
-pkgver=1.22.0
-pkgrel=5
-pkgdesc='TVTB: The VCF Tool Box'
-arch=('any')
-url="https://bioconductor.org/packages/3.15/${_pkgname}"
-license=('Artistic2.0')
+pkgver=${_pkgver//-/.}
+pkgrel=0
+pkgdesc="The VCF Tool Box"
+arch=(any)
+url="https://bioconductor.org/packages/$_pkgname"
+license=('Artistic-2.0')
 depends=(
-  r
   r-annotationfilter
   r-biocgenerics
   r-biocparallel
@@ -42,15 +41,16 @@ optdepends=(
   r-shiny
   r-testthat
 )
-source=("https://bioconductor.org/packages/3.15/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
-sha256sums=('1af5da609ec7b34cc10f5fe898bebf786f4fac573044fee992c86fe15df4dd00')
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('64da00f3c21bf3f9a82dc32e451395a1')
+b2sums=('e9383fe58a3af14f9b76c2bb759e07a9ba4181daeeea7f2141744be3991226adedd33e067784adf942749ab025d40432bdd02d16674d1535bdb1fc0618c3a13d')
 
 build() {
-  R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
+  mkdir build
+  R CMD INSTALL -l build "$_pkgname"
 }
 
 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:

BioArchLinux/r-tvtb/lilac.py

@@ -1,12 +1,13 @@
 #!/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'):
-        if line.startswith('_pkgver='):
-            line = f'_pkgver={_G.newver}'
-        print(line)
-    update_pkgver_and_pkgrel(_G.newver.replace(':', '.').replace('-', '.'))
+    r_pre_build(_G)
 
 def post_build():
     git_pkgbuild_commit()

BioArchLinux/r-tvtb/lilac.yaml

@@ -22,7 +22,8 @@ repo_depends:
 - r-summarizedexperiment
 - r-variantannotation
 update_on:
-- regex: TVTB_([\d._-]+).tar.gz
-  source: regex
-  url: https://bioconductor.org/packages/3.15/TVTB
+- source: rpkgs
+  pkgname: TVTB
+  repo: bioc
+  md5: true
 - alias: r