Version 1.6.1

2 files changed, 134 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..6e1f74b3b350
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,54 @@
+pkgbase = r-epimutacions
+	pkgdesc = Robust outlier identification for DNA methylation data
+	pkgver = 1.6.1
+	pkgrel = 1
+	url = https://bioconductor.org/packages/epimutacions
+	arch = x86_64
+	license = MIT
+	checkdepends = r-testthat
+	depends = r-annotationdbi
+	depends = r-annotationhub
+	depends = r-biocgenerics
+	depends = r-biocparallel
+	depends = r-biomart
+	depends = r-bumphunter
+	depends = r-ensembldb
+	depends = r-epimutacionsdata
+	depends = r-experimenthub
+	depends = r-genomeinfodb
+	depends = r-genomicfeatures
+	depends = r-genomicranges
+	depends = r-ggplot2
+	depends = r-ggrepel
+	depends = r-gridextra
+	depends = r-gviz
+	depends = r-homo.sapiens
+	depends = r-illuminahumanmethylation450kanno.ilmn12.hg19
+	depends = r-illuminahumanmethylation450kmanifest
+	depends = r-illuminahumanmethylationepicanno.ilm10b2.hg19
+	depends = r-illuminahumanmethylationepicmanifest
+	depends = r-iranges
+	depends = r-isotree
+	depends = r-matrixstats
+	depends = r-minfi
+	depends = r-purrr
+	depends = r-reshape2
+	depends = r-robustbase
+	depends = r-rtracklayer
+	depends = r-s4vectors
+	depends = r-summarizedexperiment
+	depends = r-tibble
+	depends = r-txdb.hsapiens.ucsc.hg18.knowngene
+	depends = r-txdb.hsapiens.ucsc.hg19.knowngene
+	depends = r-txdb.hsapiens.ucsc.hg38.knowngene
+	optdepends = r-a4base
+	optdepends = r-biocstyle
+	optdepends = r-kableextra
+	optdepends = r-knitr
+	optdepends = r-rmarkdown
+	optdepends = r-testthat
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/epimutacions_1.6.1.tar.gz
+	md5sums = 73fdaf9db5e5d035601282d6e5d832fd
+	sha256sums = ea5dafb2dd4141bb1ba7ab35a8c2e209932dc47d77afe6eb6ccc0032a12378be
+
+pkgname = r-epimutacions
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..01fc8d3a654b
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,80 @@
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+
+_pkgname=epimutacions
+_pkgver=1.6.1
+pkgname=r-${_pkgname,,}
+pkgver=${_pkgver//-/.}
+pkgrel=1
+pkgdesc="Robust outlier identification for DNA methylation data"
+arch=(x86_64)
+url="https://bioconductor.org/packages/${_pkgname}"
+license=(MIT)
+depends=(
+  r-annotationdbi
+  r-annotationhub
+  r-biocgenerics
+  r-biocparallel
+  r-biomart
+  r-bumphunter
+  r-ensembldb
+  r-epimutacionsdata
+  r-experimenthub
+  r-genomeinfodb
+  r-genomicfeatures
+  r-genomicranges
+  r-ggplot2
+  r-ggrepel
+  r-gridextra
+  r-gviz
+  r-homo.sapiens
+  r-illuminahumanmethylation450kanno.ilmn12.hg19
+  r-illuminahumanmethylation450kmanifest
+  r-illuminahumanmethylationepicanno.ilm10b2.hg19
+  r-illuminahumanmethylationepicmanifest
+  r-iranges
+  r-isotree
+  r-matrixstats
+  r-minfi
+  r-purrr
+  r-reshape2
+  r-robustbase
+  r-rtracklayer
+  r-s4vectors
+  r-summarizedexperiment
+  r-tibble
+  r-txdb.hsapiens.ucsc.hg18.knowngene
+  r-txdb.hsapiens.ucsc.hg19.knowngene
+  r-txdb.hsapiens.ucsc.hg38.knowngene
+)
+checkdepends=(
+  r-testthat
+)
+optdepends=(
+  r-a4base
+  r-biocstyle
+  r-kableextra
+  r-knitr
+  r-rmarkdown
+  r-testthat
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('73fdaf9db5e5d035601282d6e5d832fd')
+sha256sums=('ea5dafb2dd4141bb1ba7ab35a8c2e209932dc47d77afe6eb6ccc0032a12378be')
+
+build() {
+  mkdir -p build
+  R CMD INSTALL "$_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" "$pkgdir/usr/lib/R/library"
+
+  install -d "$pkgdir/usr/share/licenses/$pkgname"
+  ln -s "/usr/lib/R/library/$_pkgname/LICENSE" "$pkgdir/usr/share/licenses/$pkgname"
+}