r-m3drop: fix depends, use metadata checks

BioArchLinux/r-m3drop/PKGBUILD

@@ -1,16 +1,15 @@
 # Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
 
 _pkgname=M3Drop
-_pkgver=1.28.0
+_pkgver=1.28.8
 pkgname=r-${_pkgname,,}
-pkgver=1.28.0
-pkgrel=1
-pkgdesc='Michaelis-Menten Modelling of Dropouts in single-cell RNASeq'
-arch=('any')
-url="https://bioconductor.org/packages/${_pkgname}"
-license=('GPL')
+pkgver=${_pkgver//-/.}
+pkgrel=0
+pkgdesc="Michaelis-Menten Modelling of Dropouts in single-cell RNASeq"
+arch=(any)
+url="https://bioconductor.org/packages/$_pkgname"
+license=('GPL-2.0-or-later')
 depends=(
-  r
   r-bbmle
   r-gplots
   r-hmisc
@@ -19,27 +18,27 @@ depends=(
   r-numderiv
   r-rcolorbrewer
   r-reldist
+  r-scater
   r-statmod
 )
 optdepends=(
   r-biobase
   r-knitr
   r-m3dexampledata
-  r-monocle
   r-rocr
-  r-scater
   r-seurat
   r-singlecellexperiment
 )
 source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
-sha256sums=('7fde2f66d62efe74b514c50ae584beb7ac4f79e9e67f2783a390c3c3262ac476')
+md5sums=('cffb60b3200abaaad64e2d179376679a')
+b2sums=('bb47683ea9057372517bb26ecfe6ab3b40a179ba856be63dbdde7c4bf4f78c144dfa5794b30351d469faa94bafc64b8c99447de7583e529e17069844c5d472f0')
 
 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-m3drop/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-m3drop/lilac.yaml

@@ -11,9 +11,11 @@ repo_depends:
 - r-numderiv
 - r-rcolorbrewer
 - r-reldist
+- r-scater
 - r-statmod
 update_on:
-- regex: M3Drop_([\d._-]+).tar.gz
-  source: regex
-  url: https://bioconductor.org/packages/M3Drop
+- source: rpkgs
+  pkgname: M3Drop
+  repo: bioc
+  md5: true
 - alias: r