r-scanmir: fix depends, use metadata checks

BioArchLinux/r-scanmir/PKGBUILD

@@ -1,16 +1,15 @@
 # Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
 
 _pkgname=scanMiR
-_pkgver=1.8.0
+_pkgver=1.8.2
 pkgname=r-${_pkgname,,}
-pkgver=1.8.0
-pkgrel=1
-pkgdesc='scanMiR'
-arch=('any')
-url="https://bioconductor.org/packages/${_pkgname}"
-license=('GPL')
+pkgver=${_pkgver//-/.}
+pkgrel=0
+pkgdesc="scanMiR"
+arch=(any)
+url="https://bioconductor.org/packages/$_pkgname"
+license=('GPL-3.0-only')
 depends=(
-  r
   r-biocparallel
   r-biostrings
   r-cowplot
@@ -18,9 +17,9 @@ depends=(
   r-genomeinfodb
   r-genomicranges
   r-ggplot2
-  r-ggseqlogo
   r-iranges
   r-s4vectors
+  r-seqlogo
   r-stringi
 )
 optdepends=(
@@ -30,14 +29,15 @@ optdepends=(
   r-testthat
 )
 source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
-sha256sums=('2b4d42e569b32bb091afde6e880833481b9be61c4260b3911329d1d4fb7ae49c')
+md5sums=('7d358cc7346de7793cded5df405fa6a8')
+b2sums=('751a0c13561ad5841122d0546a0600f4b09bc020fee5b37274fba3529620f562292ccee63ee391a307ff91020fc365aebabd25d7290c3a3bd6086ccd0bc0e8eb')
 
 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-scanmir/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-scanmir/lilac.yaml

@@ -10,12 +10,13 @@ repo_depends:
 - r-genomeinfodb
 - r-genomicranges
 - r-ggplot2
-- r-ggseqlogo
 - r-iranges
 - r-s4vectors
+- r-seqlogo
 - r-stringi
 update_on:
-- regex: scanMiR_([\d._-]+).tar.gz
-  source: regex
-  url: https://bioconductor.org/packages/scanMiR
+- source: rpkgs
+  pkgname: scanMiR
+  repo: bioc
+  md5: true
 - alias: r