From 9e156c9739df39150e99aaee78ec32d633341bb7 Mon Sep 17 00:00:00 2001
From: Pekka Ristola <pekkarr@protonmail.com>
Date: Fri, 29 Dec 2023 19:46:12 +0200
Subject: [PATCH] r-samspectral: use metadata checks

---
 BioArchLinux/r-samspectral/PKGBUILD   | 21 +++++++++++----------
 BioArchLinux/r-samspectral/lilac.py   | 11 ++++++-----
 BioArchLinux/r-samspectral/lilac.yaml |  7 ++++---
 3 files changed, 21 insertions(+), 18 deletions(-)

diff --git a/BioArchLinux/r-samspectral/PKGBUILD b/BioArchLinux/r-samspectral/PKGBUILD
index 78d37f6352..8b43ecac47 100644
--- a/BioArchLinux/r-samspectral/PKGBUILD
+++ b/BioArchLinux/r-samspectral/PKGBUILD
@@ -3,24 +3,25 @@
 _pkgname=SamSPECTRAL
 _pkgver=1.56.0
 pkgname=r-${_pkgname,,}
-pkgver=1.56.0
+pkgver=${_pkgver//-/.}
 pkgrel=1
-pkgdesc='Identifies cell population in flow cytometry data'
-arch=('x86_64')
-url="https://bioconductor.org/packages/${_pkgname}"
-license=('GPL')
+pkgdesc="Identifies cell population in flow cytometry data"
+arch=(x86_64)
+url="https://bioconductor.org/packages/$_pkgname"
+license=(GPL)
 depends=(
   r
 )
 source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
-sha256sums=('49814844e37282fde405c3217ae222637583a0a0ca4f3008194b148f576b74f0')
+md5sums=('2724bc54054c093fac88a672a6b173d6')
+b2sums=('527fa7185b84b646ce1652967f5a1ce3b47c9dafabad9877aebd3b6addf07f84082a863f28d6122145440c629c4f36560cd3ae7103aec19863b4c8f39a316e53')
 
 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-samspectral/lilac.py b/BioArchLinux/r-samspectral/lilac.py
index bd219c037c..b5cdb057c5 100644
--- a/BioArchLinux/r-samspectral/lilac.py
+++ b/BioArchLinux/r-samspectral/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-samspectral/lilac.yaml b/BioArchLinux/r-samspectral/lilac.yaml
index 6af9924e5f..0b25a87dec 100644
--- a/BioArchLinux/r-samspectral/lilac.yaml
+++ b/BioArchLinux/r-samspectral/lilac.yaml
@@ -3,7 +3,8 @@ maintainers:
 - github: starsareintherose
   email: kuoi@bioarchlinux.org
 update_on:
-- regex: SamSPECTRAL_([\d._-]+).tar.gz
-  source: regex
-  url: https://bioconductor.org/packages/SamSPECTRAL
+- source: rpkgs
+  pkgname: SamSPECTRAL
+  repo: bioc
+  md5: true
 - alias: r