add r-rhisat2

2 files changed, 59 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..c4369bc657bd
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,20 @@
+pkgbase = r-rhisat2
+	pkgdesc = R Wrapper for HISAT2 Aligner
+	pkgver = 1.12.0
+	pkgrel = 1
+	url = https://bioconductor.org/packages/Rhisat2
+	arch = x86_64
+	license = GPL
+	depends = r
+	depends = r-genomicfeatures
+	depends = r-genomicranges
+	depends = r-sgseq
+	optdepends = r-biocstyle
+	optdepends = r-knitr
+	optdepends = r-rmarkdown
+	optdepends = r-testthat
+	options = !makeflags
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/Rhisat2_1.12.0.tar.gz
+	sha256sums = 67db7bbed7ec845a826b6f3e99374a0bba4b864a26b4eaa7fff3101a488eea43
+
+pkgname = r-rhisat2
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..1fdd10c48fdb
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,39 @@
+# system requirements: GNU make
+# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
+# Contributor: Viktor Drobot (aka dviktor) linux776 [at] gmail [dot] com
+
+_pkgname=Rhisat2
+_pkgver=1.12.0
+pkgname=r-${_pkgname,,}
+pkgver=1.12.0
+pkgrel=1
+pkgdesc='R Wrapper for HISAT2 Aligner'
+arch=('x86_64')
+url="https://bioconductor.org/packages/${_pkgname}"
+license=('GPL')
+depends=(
+  r
+  r-genomicfeatures
+  r-genomicranges
+  r-sgseq
+)
+optdepends=(
+  r-biocstyle
+  r-knitr
+  r-rmarkdown
+  r-testthat
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+sha256sums=('67db7bbed7ec845a826b6f3e99374a0bba4b864a26b4eaa7fff3101a488eea43')
+# parallel compilation leads to the race conditions and installation fail
+options=(!makeflags)
+
+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: