add r-madseq

2 files changed, 78 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..8a8b7a7d631e
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,31 @@
+pkgbase = r-madseq
+	pkgdesc = Mosaic Aneuploidy Detection and Quantification using Massive Parallel Sequencing Data
+	pkgver = 1.22.0
+	pkgrel = 1
+	url = https://bioconductor.org/packages/MADSEQ
+	arch = any
+	license = GPL
+	depends = r
+	depends = r-biostrings
+	depends = r-bsgenome
+	depends = r-bsgenome.hsapiens.ucsc.hg19
+	depends = r-coda
+	depends = r-genomeinfodb
+	depends = r-genomicalignments
+	depends = r-genomicranges
+	depends = r-iranges
+	depends = r-preprocesscore
+	depends = r-rjags
+	depends = r-rsamtools
+	depends = r-rtracklayer
+	depends = r-s4vectors
+	depends = r-summarizedexperiment
+	depends = r-variantannotation
+	depends = r-vcfr
+	depends = r-vgam
+	depends = r-zlibbioc
+	optdepends = r-knitr
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/MADSEQ_1.22.0.tar.gz
+	sha256sums = 4ec5eda7ebba04db9899834f6e67099efb54c459bb6fd257a7bfea5b61606673
+
+pkgname = r-madseq
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..1afa481c875b
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,47 @@
+# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
+
+_pkgname=MADSEQ
+_pkgver=1.22.0
+pkgname=r-${_pkgname,,}
+pkgver=1.22.0
+pkgrel=1
+pkgdesc='Mosaic Aneuploidy Detection and Quantification using Massive Parallel Sequencing Data'
+arch=('any')
+url="https://bioconductor.org/packages/${_pkgname}"
+license=('GPL')
+depends=(
+  r
+  r-biostrings
+  r-bsgenome
+  r-bsgenome.hsapiens.ucsc.hg19
+  r-coda
+  r-genomeinfodb
+  r-genomicalignments
+  r-genomicranges
+  r-iranges
+  r-preprocesscore
+  r-rjags
+  r-rsamtools
+  r-rtracklayer
+  r-s4vectors
+  r-summarizedexperiment
+  r-variantannotation
+  r-vcfr
+  r-vgam
+  r-zlibbioc
+)
+optdepends=(
+  r-knitr
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+sha256sums=('4ec5eda7ebba04db9899834f6e67099efb54c459bb6fd257a7bfea5b61606673')
+
+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: