Version 1.38.0

3 files changed, 115 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..4e53161e9433
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,40 @@
+pkgbase = r-interactivedisplay
+	pkgdesc = Package for enabling powerful shiny web displays of Bioconductor objects
+	pkgver = 1.38.0
+	pkgrel = 1
+	url = https://bioconductor.org/packages/interactiveDisplay
+	arch = any
+	license = Artistic2.0
+	depends = r-annotationdbi
+	depends = r-biocgenerics
+	depends = r-category
+	depends = r-ggplot2
+	depends = r-gridsvg
+	depends = r-interactivedisplaybase
+	depends = r-plyr
+	depends = r-rcolorbrewer
+	depends = r-reshape2
+	depends = r-shiny
+	depends = r-xml
+	optdepends = r-biobase
+	optdepends = r-genomicranges
+	optdepends = r-ggbio
+	optdepends = r-go.db
+	optdepends = r-gostats
+	optdepends = r-gplots
+	optdepends = r-gviz
+	optdepends = r-hgu95av2.db
+	optdepends = r-knitr
+	optdepends = r-metagenomeseq
+	optdepends = r-rtracklayer
+	optdepends = r-runit
+	optdepends = r-summarizedexperiment
+	optdepends = r-vegan
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/interactiveDisplay_1.38.0.tar.gz
+	source = fix-install.patch
+	md5sums = 32075538ec509a9743bb5e6baf5b0655
+	md5sums = f3e9aa31acfa87ff679676bd8e433bf8
+	sha256sums = f4eba334421b210ddcf9852222c9f1a9b982c59d5122e921cf4fadf0af6d2ef9
+	sha256sums = b97b524b191dca4ee18526716d5c5c9c0798558718835c7758a23eb5c547caac
+
+pkgname = r-interactivedisplay
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..6d434c14aa5d
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,62 @@
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+# Contributor: Guoyi Zhang <guoyizhang at malacology dot net>
+
+_pkgname=interactiveDisplay
+_pkgver=1.38.0
+pkgname=r-${_pkgname,,}
+pkgver=${_pkgver//-/.}
+pkgrel=1
+pkgdesc="Package for enabling powerful shiny web displays of Bioconductor objects"
+arch=(any)
+url="https://bioconductor.org/packages/${_pkgname}"
+license=(Artistic2.0)
+depends=(
+  r-annotationdbi
+  r-biocgenerics
+  r-category
+  r-ggplot2
+  r-gridsvg
+  r-interactivedisplaybase
+  r-plyr
+  r-rcolorbrewer
+  r-reshape2
+  r-shiny
+  r-xml
+)
+optdepends=(
+  r-biobase
+  r-genomicranges
+  r-ggbio
+  r-go.db
+  r-gostats
+  r-gplots
+  r-gviz
+  r-hgu95av2.db
+  r-knitr
+  r-metagenomeseq
+  r-rtracklayer
+  r-runit
+  r-summarizedexperiment
+  r-vegan
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz"
+        "fix-install.patch")
+md5sums=('32075538ec509a9743bb5e6baf5b0655'
+         'f3e9aa31acfa87ff679676bd8e433bf8')
+sha256sums=('f4eba334421b210ddcf9852222c9f1a9b982c59d5122e921cf4fadf0af6d2ef9'
+            'b97b524b191dca4ee18526716d5c5c9c0798558718835c7758a23eb5c547caac')
+
+prepare() {
+  # prevent unintended installing of BiocManager
+  patch -Np1 -i fix-install.patch
+}
+
+build() {
+  mkdir -p build
+  R CMD INSTALL "$_pkgname" -l build
+}
+
+package() {
+  install -d "$pkgdir/usr/lib/R/library"
+  cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
+}
diff --git a/fix-install.patch b/fix-install.patch
new file mode 100644
index 000000000000..7d4a91ead974
--- /dev/null
+++ b/fix-install.patch
@@ -0,0 +1,13 @@
+diff --git a/interactiveDisplay/R/interactiveDisplay.R b/interactiveDisplay/R/interactiveDisplay.R
+index 2de4775..311cc1a 100644
+--- a/interactiveDisplay/R/interactiveDisplay.R
++++ b/interactiveDisplay/R/interactiveDisplay.R
+@@ -23,8 +23,6 @@ function(object){
+ ###   Helper Functions

+ ################################################################################

+ 

+-if (!requireNamespace("BiocManager", quietly=TRUE))
+-    install.packages("BiocManager")
+ .usePackage <- function(p) {

+   if (!is.element(p, installed.packages()[,1])){

+     stop(paste("The required package, '",p,"', is missing.  Please install it by