add r-derfinder

2 files changed, 98 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..d392fca73694
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,41 @@
+pkgbase = r-derfinder
+	pkgdesc = Annotation-agnostic differential expression analysis of RNA-seq data at base-pair resolution via the DER Finder approach
+	pkgver = 1.30.0
+	pkgrel = 1
+	url = https://bioconductor.org/packages/derfinder
+	arch = any
+	license = Artistic2.0
+	depends = r
+	depends = r-annotationdbi
+	depends = r-biocgenerics
+	depends = r-biocparallel
+	depends = r-bumphunter
+	depends = r-derfinderhelper
+	depends = r-genomeinfodb
+	depends = r-genomicalignments
+	depends = r-genomicfeatures
+	depends = r-genomicfiles
+	depends = r-genomicranges
+	depends = r-hmisc
+	depends = r-iranges
+	depends = r-qvalue
+	depends = r-rsamtools
+	depends = r-rtracklayer
+	depends = r-s4vectors
+	optdepends = r-biocstyle
+	optdepends = r-covr
+	optdepends = r-derfinderdata
+	optdepends = r-derfinderplot
+	optdepends = r-deseq2
+	optdepends = r-ggplot2
+	optdepends = r-knitr
+	optdepends = r-limma
+	optdepends = r-refmanager
+	optdepends = r-rmarkdown
+	optdepends = r-sessioninfo
+	optdepends = r-testthat
+	optdepends = r-txdb.hsapiens.ucsc.hg19.knowngene
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/derfinder_1.30.0.tar.gz
+	sha256sums = 3b9f4aea71f556219d262b216dcd5d7d38f5b0d4c09de9b466baa269c477d9ff
+
+pkgname = r-derfinder
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..cd3b83c22824
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,57 @@
+# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
+
+_pkgname=derfinder
+_pkgver=1.30.0
+pkgname=r-${_pkgname,,}
+pkgver=1.30.0
+pkgrel=1
+pkgdesc='Annotation-agnostic differential expression analysis of RNA-seq data at base-pair resolution via the DER Finder approach'
+arch=('any')
+url="https://bioconductor.org/packages/${_pkgname}"
+license=('Artistic2.0')
+depends=(
+  r
+  r-annotationdbi
+  r-biocgenerics
+  r-biocparallel
+  r-bumphunter
+  r-derfinderhelper
+  r-genomeinfodb
+  r-genomicalignments
+  r-genomicfeatures
+  r-genomicfiles
+  r-genomicranges
+  r-hmisc
+  r-iranges
+  r-qvalue
+  r-rsamtools
+  r-rtracklayer
+  r-s4vectors
+)
+optdepends=(
+  r-biocstyle
+  r-covr
+  r-derfinderdata
+  r-derfinderplot
+  r-deseq2
+  r-ggplot2
+  r-knitr
+  r-limma
+  r-refmanager
+  r-rmarkdown
+  r-sessioninfo
+  r-testthat
+  r-txdb.hsapiens.ucsc.hg19.knowngene
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+sha256sums=('3b9f4aea71f556219d262b216dcd5d7d38f5b0d4c09de9b466baa269c477d9ff')
+
+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: