From c89af1eec4a82723ac25bf3a5c427adeaf430189 Mon Sep 17 00:00:00 2001
From: Butui Hu <hot123tea123@gmail.com>
Date: Fri, 4 Mar 2022 22:25:04 +0800
Subject: [PATCH] r-rgin: fix #35

---
 {fail => BioArchLinux}/r-rgin/PKGBUILD   | 10 +++++++++-
 {fail => BioArchLinux}/r-rgin/lilac.py   |  0
 {fail => BioArchLinux}/r-rgin/lilac.yaml |  0
 3 files changed, 9 insertions(+), 1 deletion(-)
 rename {fail => BioArchLinux}/r-rgin/PKGBUILD (66%)
 rename {fail => BioArchLinux}/r-rgin/lilac.py (100%)
 rename {fail => BioArchLinux}/r-rgin/lilac.yaml (100%)

diff --git a/fail/r-rgin/PKGBUILD b/BioArchLinux/r-rgin/PKGBUILD
similarity index 66%
rename from fail/r-rgin/PKGBUILD
rename to BioArchLinux/r-rgin/PKGBUILD
index 5432647e28..3b095fe497 100644
--- a/fail/r-rgin/PKGBUILD
+++ b/BioArchLinux/r-rgin/PKGBUILD
@@ -21,13 +21,21 @@ optdepends=(
 source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
 sha256sums=('b0cbde4bdb9f19dcbc1d745efcc5eebaa853ef767b7f338eefbc74d84aa4dbbf')
 
+prepare() {
+  sed -i 's#PKG_CXXFLAGS = #PKG_CXXFLAGS = -I/usr/lib/R/library/Rcpp/include #' "${_pkgname}/src/Makevars"
+  tar cfz "${_pkgname}.tar.gz" "${_pkgname}"
+}
+
 build() {
-  R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
+  #R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
+  R CMD INSTALL ${_pkgname}.tar.gz -l "${srcdir}"
 }
 
 package() {
   install -dm0755 "${pkgdir}/usr/lib/R/library"
   cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
   install -Dm644 "${_pkgname}/LICENSE" -t "${pkgdir}/usr/share/licenses/${pkgname}"
+  # delete unneeded object files
+  find "${pkgdir}/usr/lib/R/library/${_pkgname}" -type f -name "*.o" -delete
 }
 # vim:set ts=2 sw=2 et:
diff --git a/fail/r-rgin/lilac.py b/BioArchLinux/r-rgin/lilac.py
similarity index 100%
rename from fail/r-rgin/lilac.py
rename to BioArchLinux/r-rgin/lilac.py
diff --git a/fail/r-rgin/lilac.yaml b/BioArchLinux/r-rgin/lilac.yaml
similarity index 100%
rename from fail/r-rgin/lilac.yaml
rename to BioArchLinux/r-rgin/lilac.yaml