Version 2.0.0

2 files changed, 111 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..242a83f1ebf6
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,44 @@
+pkgbase = r-geotcgadata
+	pkgdesc = Processing Various Types of Data on GEO and TCGA
+	pkgver = 2.0.0
+	pkgrel = 1
+	url = https://bioconductor.org/packages/GeoTcgaData
+	arch = any
+	license = Artistic2.0
+	checkdepends = r-clusterprofiler
+	checkdepends = r-edger
+	checkdepends = r-limma
+	checkdepends = r-org.hs.eg.db
+	checkdepends = r-testthat
+	depends = r-cqn
+	depends = r-data.table
+	depends = r-plyr
+	depends = r-summarizedexperiment
+	depends = r-topconfects
+	optdepends = r-biocgenerics
+	optdepends = r-catt
+	optdepends = r-champ
+	optdepends = r-clusterprofiler
+	optdepends = r-dearseq
+	optdepends = r-deseq2
+	optdepends = r-edger
+	optdepends = r-enrichplot
+	optdepends = r-geoquery
+	optdepends = r-illuminahumanmethylation450kanno.ilmn12.hg19
+	optdepends = r-impute
+	optdepends = r-knitr
+	optdepends = r-limma
+	optdepends = r-minfi
+	optdepends = r-noiseq
+	optdepends = r-org.hs.eg.db
+	optdepends = r-quantreg
+	optdepends = r-rmarkdown
+	optdepends = r-s4vectors
+	optdepends = r-tcgabiolinks
+	optdepends = r-testthat
+	optdepends = r-tidyr
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/GeoTcgaData_2.0.0.tar.gz
+	md5sums = 463ef0f64e092337495a3f6da55b224a
+	sha256sums = 314062425c9e61fc002de591495c9fa57821fe8163c0e41542d7d0c14f4d6f39
+
+pkgname = r-geotcgadata
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..24daa5c18a13
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,67 @@
+# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
+
+_pkgname=GeoTcgaData
+_pkgver=2.0.0
+pkgname=r-${_pkgname,,}
+pkgver=${_pkgver//-/.}
+pkgrel=1
+pkgdesc="Processing Various Types of Data on GEO and TCGA"
+arch=(any)
+url="https://bioconductor.org/packages/${_pkgname}"
+license=(Artistic2.0)
+depends=(
+  r-cqn
+  r-data.table
+  r-plyr
+  r-summarizedexperiment
+  r-topconfects
+)
+checkdepends=(
+  r-clusterprofiler
+  r-edger
+  r-limma
+  r-org.hs.eg.db
+  r-testthat
+)
+optdepends=(
+  r-biocgenerics
+  r-catt
+  r-champ
+  r-clusterprofiler
+  r-dearseq
+  r-deseq2
+  r-edger
+  r-enrichplot
+  r-geoquery
+  r-illuminahumanmethylation450kanno.ilmn12.hg19
+  r-impute
+  r-knitr
+  r-limma
+  r-minfi
+  r-noiseq
+  r-org.hs.eg.db
+  r-quantreg
+  r-rmarkdown
+  r-s4vectors
+  r-tcgabiolinks
+  r-testthat
+  r-tidyr
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+md5sums=('463ef0f64e092337495a3f6da55b224a')
+sha256sums=('314062425c9e61fc002de591495c9fa57821fe8163c0e41542d7d0c14f4d6f39')
+
+build() {
+  mkdir -p build
+  R CMD INSTALL "$_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"
+}