From 83a7a9f1de2e36ef01f902c707040e7462fdb529 Mon Sep 17 00:00:00 2001
From: Pekka Ristola <pekkarr@protonmail.com>
Date: Mon, 4 Mar 2024 12:17:08 +0200
Subject: [PATCH] r-multicrispr: use metadata checks

---
 BioArchLinux/r-multicrispr/PKGBUILD   | 28 +++++++++++++++------------
 BioArchLinux/r-multicrispr/lilac.py   | 11 ++++++-----
 BioArchLinux/r-multicrispr/lilac.yaml | 13 +++++++++----
 3 files changed, 31 insertions(+), 21 deletions(-)

diff --git a/BioArchLinux/r-multicrispr/PKGBUILD b/BioArchLinux/r-multicrispr/PKGBUILD
index c28fbf599f..059639c1a4 100644
--- a/BioArchLinux/r-multicrispr/PKGBUILD
+++ b/BioArchLinux/r-multicrispr/PKGBUILD
@@ -3,15 +3,18 @@
 _pkgname=multicrispr
 _pkgver=1.12.3
 pkgname=r-${_pkgname,,}
-pkgver=1.12.3
+pkgver=${_pkgver//-/.}
 pkgrel=1
-pkgdesc='Multi-locus multi-purpose Crispr/Cas design'
-arch=('any')
-url="https://bioconductor.org/packages/${_pkgname}"
-license=('GPL')
+pkgdesc="Multi-locus multi-purpose Crispr/Cas design"
+arch=(any)
+url="https://bioconductor.org/packages/$_pkgname"
+license=('GPL-2.0-only')
 depends=(
-  r
-  r-assertive
+  r-assertive.base
+  r-assertive.files
+  r-assertive.numbers
+  r-assertive.reflection
+  r-assertive.sets
   r-biocgenerics
   r-biostrings
   r-bsgenome
@@ -46,14 +49,15 @@ optdepends=(
   r-txdb.mmusculus.ucsc.mm10.knowngene
 )
 source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
-sha256sums=('abf0ec2d4d8e9030e86a42449b5729a08e292040e4af711bcc72ca72bbdb508d')
+md5sums=('d0bbc847e39772348376d944c884290a')
+b2sums=('ed79977a043b0bf57b139d7f304568fd88d7bb7317c673e58f459908fb0330c545243798cdaec86fd56bdf3f0c2e67270e67e0f8f341d280b35b130d4d898be8')
 
 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:
diff --git a/BioArchLinux/r-multicrispr/lilac.py b/BioArchLinux/r-multicrispr/lilac.py
index bd219c037c..b5cdb057c5 100644
--- a/BioArchLinux/r-multicrispr/lilac.py
+++ b/BioArchLinux/r-multicrispr/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()
diff --git a/BioArchLinux/r-multicrispr/lilac.yaml b/BioArchLinux/r-multicrispr/lilac.yaml
index 279c407a26..b11af3aeef 100644
--- a/BioArchLinux/r-multicrispr/lilac.yaml
+++ b/BioArchLinux/r-multicrispr/lilac.yaml
@@ -3,7 +3,11 @@ maintainers:
 - github: starsareintherose
   email: kuoi@bioarchlinux.org
 repo_depends:
-- r-assertive
+- r-assertive.base
+- r-assertive.files
+- r-assertive.numbers
+- r-assertive.reflection
+- r-assertive.sets
 - r-biocgenerics
 - r-biostrings
 - r-bsgenome
@@ -23,7 +27,8 @@ repo_depends:
 - r-tidyr
 - r-tidyselect
 update_on:
-- regex: multicrispr_([\d._-]+).tar.gz
-  source: regex
-  url: https://bioconductor.org/packages/multicrispr
+- source: rpkgs
+  pkgname: multicrispr
+  repo: bioc
+  md5: true
 - alias: r