add r-mungesumstats

2 files changed, 104 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..fe0397929ff6
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,44 @@
+pkgbase = r-mungesumstats
+	pkgdesc = Standardise summary statistics from GWAS
+	pkgver = 1.4.4
+	pkgrel = 3
+	url = https://bioconductor.org/packages/MungeSumstats
+	arch = any
+	license = Artistic2.0
+	depends = r
+	depends = r-biostrings
+	depends = r-bsgenome
+	depends = r-data.table
+	depends = r-dplyr
+	depends = r-genomeinfodb
+	depends = r-genomicranges
+	depends = r-googleauthr
+	depends = r-httr
+	depends = r-jsonlite
+	depends = r-magrittr
+	depends = r-r.utils
+	depends = r-rcurl
+	depends = r-rtracklayer
+	depends = r-stringr
+	depends = r-variantannotation
+	optdepends = r-biocgenerics
+	optdepends = r-biocstyle
+	optdepends = r-bsgenome.hsapiens.1000genomes.hs37d5
+	optdepends = r-bsgenome.hsapiens.ncbi.grch38
+	optdepends = r-covr
+	optdepends = r-iranges
+	optdepends = r-knitr
+	optdepends = r-markdown
+	optdepends = r-matrixgenerics
+	optdepends = r-rmarkdown
+	optdepends = r-rsamtools
+	optdepends = r-s4vectors
+	optdepends = r-seqminer
+	optdepends = r-snplocs.hsapiens.dbsnp144.grch37
+	optdepends = r-snplocs.hsapiens.dbsnp144.grch38
+	optdepends = r-testthat
+	optdepends = r-upsetr
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/MungeSumstats_1.4.4.tar.gz
+	sha256sums = 652d2ef82fc808fb8ee4e1e248c6e3962f6cf30e82759d213bdd7939bf21a93a
+
+pkgname = r-mungesumstats
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..5e0a73b5e33f
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,60 @@
+# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
+
+_pkgname=MungeSumstats
+_pkgver=1.4.4
+pkgname=r-${_pkgname,,}
+pkgver=1.4.4
+pkgrel=3
+pkgdesc='Standardise summary statistics from GWAS'
+arch=('any')
+url="https://bioconductor.org/packages/${_pkgname}"
+license=('Artistic2.0')
+depends=(
+  r
+  r-biostrings
+  r-bsgenome
+  r-data.table
+  r-dplyr
+  r-genomeinfodb
+  r-genomicranges
+  r-googleauthr
+  r-httr
+  r-jsonlite
+  r-magrittr
+  r-r.utils
+  r-rcurl
+  r-rtracklayer
+  r-stringr
+  r-variantannotation
+)
+optdepends=(
+  r-biocgenerics
+  r-biocstyle
+  r-bsgenome.hsapiens.1000genomes.hs37d5
+  r-bsgenome.hsapiens.ncbi.grch38
+  r-covr
+  r-iranges
+  r-knitr
+  r-markdown
+  r-matrixgenerics
+  r-rmarkdown
+  r-rsamtools
+  r-s4vectors
+  r-seqminer
+  r-snplocs.hsapiens.dbsnp144.grch37
+  r-snplocs.hsapiens.dbsnp144.grch38
+  r-testthat
+  r-upsetr
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+sha256sums=('652d2ef82fc808fb8ee4e1e248c6e3962f6cf30e82759d213bdd7939bf21a93a')
+
+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: