Version 1.6.0

2 files changed, 81 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..81cc6356692e
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,29 @@
+pkgbase = r-comethdmr
+	pkgdesc = Accurate identification of co-methylated and differentially methylated regions in epigenome-wide association studies
+	pkgver = 1.6.0
+	pkgrel = 1
+	url = https://bioconductor.org/packages/coMethDMR
+	arch = any
+	license = GPL3
+	checkdepends = r-illuminahumanmethylation450kanno.ilmn12.hg19
+	checkdepends = r-sesamedata
+	checkdepends = r-testthat
+	depends = r-annotationhub
+	depends = r-biocparallel
+	depends = r-bumphunter
+	depends = r-experimenthub
+	depends = r-genomicranges
+	depends = r-iranges
+	depends = r-lmertest
+	optdepends = r-biocstyle
+	optdepends = r-corrplot
+	optdepends = r-illuminahumanmethylation450kanno.ilmn12.hg19
+	optdepends = r-illuminahumanmethylationepicanno.ilm10b4.hg19
+	optdepends = r-knitr
+	optdepends = r-rmarkdown
+	optdepends = r-testthat
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/coMethDMR_1.6.0.tar.gz
+	md5sums = 0a6229d90868a4a60eb0f72c4499d1fc
+	sha256sums = a5d26df311e9e10344634d51e8382c5cc2a6cc11a645087fed6ffb880287bade
+
+pkgname = r-comethdmr
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..5589e474746b
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,52 @@
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+
+_pkgname=coMethDMR
+_pkgver=1.6.0
+pkgname=r-${_pkgname,,}
+pkgver=${_pkgver//-/.}
+pkgrel=1
+pkgdesc="Accurate identification of co-methylated and differentially methylated regions in epigenome-wide association studies"
+arch=(any)
+url="https://bioconductor.org/packages/${_pkgname}"
+license=(GPL3)
+depends=(
+  r-annotationhub
+  r-biocparallel
+  r-bumphunter
+  r-experimenthub
+  r-genomicranges
+  r-iranges
+  r-lmertest
+)
+checkdepends=(
+  r-illuminahumanmethylation450kanno.ilmn12.hg19
+  r-sesamedata
+  r-testthat
+)
+optdepends=(
+  r-biocstyle
+  r-corrplot
+  r-illuminahumanmethylation450kanno.ilmn12.hg19
+  r-illuminahumanmethylationepicanno.ilm10b4.hg19
+  r-knitr
+  r-rmarkdown
+  r-testthat
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('0a6229d90868a4a60eb0f72c4499d1fc')
+sha256sums=('a5d26df311e9e10344634d51e8382c5cc2a6cc11a645087fed6ffb880287bade')
+
+build() {
+  mkdir -p build
+  R CMD INSTALL "$_pkgname" -l build
+}
+
+check() {
+  cd "$_pkgname/tests"
+  R_LIBS="$srcdir/build" NOT_CRAN=true Rscript --vanilla testthat.R
+}
+
+package() {
+  install -d "$pkgdir/usr/lib/R/library"
+  cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
+}