diff --git a/fail/r-affypara/PKGBUILD b/BioArchLinux/r-affypara/PKGBUILD
similarity index 53%
rename from fail/r-affypara/PKGBUILD
rename to BioArchLinux/r-affypara/PKGBUILD
index 9d2cc41c3e..31fe38e36e 100644
--- a/fail/r-affypara/PKGBUILD
+++ b/BioArchLinux/r-affypara/PKGBUILD
@@ -1,13 +1,13 @@
_pkgname=affyPara
-_pkgver=1.34.0
+_pkgver=1.54.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//[:-]/.}
pkgrel=1
pkgdesc='Sample size for RNAseq studies'
arch=('any')
url="https://bioconductor.org/packages/${_pkgname}"
-license=('GPL')
+license=('GPL3')
depends=(
r
r-affy
@@ -27,6 +27,18 @@ optdepends=(
source=("git+https://git.bioconductor.org/packages/${_pkgname}.git")
sha256sums=('SKIP')
+prepare(){
+ # remove 22c `assign(".affyParaInternalEnv", .affyParaInternalEnv, envir=topenv(parent.frame()))`
+ # adapted from
+ # https://github.com/tidyverse/ggplot2/blob/7ebb6bd9d664f58794078afdb5a8ff71d5edf96d/R/ggplot-global.R#L4
+ sed -i '/assign(".affyParaInternalEnv/d' ${_pkgname}/R/zzz.R
+
+ # mv .affyParaInternalEnv <- new.env(parent=emptyenv()) to top of the file.
+ grep -E '^\s+.affyParaInternalEnv' ${_pkgname}/R/zzz.R > tmpzzz.R
+ grep -vE '^\s+.affyParaInternalEnv' ${_pkgname}/R/zzz.R >> tmpzzz.R
+ mv tmpzzz.R ${_pkgname}/R/zzz.R
+}
+
build() {
tar -zcvf ${_pkgname}.tar.gz ${_pkgname}
R CMD INSTALL ${_pkgname}.tar.gz -l "${srcdir}"
diff --git a/fail/r-affypara/lilac.py b/BioArchLinux/r-affypara/lilac.py
similarity index 100%
rename from fail/r-affypara/lilac.py
rename to BioArchLinux/r-affypara/lilac.py
diff --git a/fail/r-affypara/lilac.yaml b/BioArchLinux/r-affypara/lilac.yaml
similarity index 77%
rename from fail/r-affypara/lilac.yaml
rename to BioArchLinux/r-affypara/lilac.yaml
index 7fa4ef63e8..045f8b919e 100644
--- a/fail/r-affypara/lilac.yaml
+++ b/BioArchLinux/r-affypara/lilac.yaml
@@ -11,4 +11,4 @@ repo_depends:
update_on:
- regex:
(\d+.\d+.\d+) |
source: regex
- url: https://bioconductor.org/packages/affyPara
+ url: https://bioconductor.org/packages/3.14/bioc/html/affyPara.html
diff --git a/BioArchLinux/r-hgu95av2cdf/PKGBUILD b/BioArchLinux/r-hgu95av2cdf/PKGBUILD
new file mode 100644
index 0000000000..5c8a9a30e6
--- /dev/null
+++ b/BioArchLinux/r-hgu95av2cdf/PKGBUILD
@@ -0,0 +1,27 @@
+# Maintainer: sukanka
+
+_pkgname=hgu95av2cdf
+_pkgver=2.18.0
+pkgname=r-${_pkgname,,}
+pkgver=${_pkgver//[:-]/.}
+pkgrel=1
+pkgdesc='hgu95av2cdf'
+arch=('any')
+url="https://bioconductor.org/packages/${_pkgname}"
+license=('LGPL')
+depends=(
+ r
+ r-annotationdbi
+)
+source=("https://bioconductor.org/packages/release/data/annotation/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+sha256sums=('d449a06a2f55a5a1f942710c8da2a37a81e20342b6e600669df94ecb55f1e1fe')
+
+build() {
+ R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
+}
+
+package() {
+ install -dm0755 "${pkgdir}/usr/lib/R/library"
+ cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
+}
+# vim:set ts=2 sw=2 et:
diff --git a/BioArchLinux/r-hgu95av2cdf/lilac.py b/BioArchLinux/r-hgu95av2cdf/lilac.py
new file mode 100644
index 0000000000..620556bc87
--- /dev/null
+++ b/BioArchLinux/r-hgu95av2cdf/lilac.py
@@ -0,0 +1,12 @@
+#!/usr/bin/env python3
+from lilaclib import *
+
+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('-', '.'))
+
+def post_build():
+ git_pkgbuild_commit()
diff --git a/BioArchLinux/r-hgu95av2cdf/lilac.yaml b/BioArchLinux/r-hgu95av2cdf/lilac.yaml
new file mode 100644
index 0000000000..e60d9a6b93
--- /dev/null
+++ b/BioArchLinux/r-hgu95av2cdf/lilac.yaml
@@ -0,0 +1,9 @@
+build_prefix: extra-x86_64
+maintainers:
+ - github: sukanka
+repo_depends:
+ - r-annotationdbi
+update_on:
+ - regex: hgu95av2cdf_([\d._-]+).tar.gz
+ source: regex
+ url: https://bioconductor.org/packages/hgu95av2cdf