FIxed PKGBUILD

3 files changed, 48 insertions, 27 deletions

diff --git a/.SRCINFO b/.SRCINFO
index d0ff658b4fc2..c5bd5dba253f 100644
--- a/.SRCINFO
+++ b/.SRCINFO
@@ -1,20 +1,35 @@
 pkgbase = r-summarizedexperiment
 	pkgdesc = SummarizedExperiment container
-	pkgver = 1.16.0
+	pkgver = 1.16.1
 	pkgrel = 1
 	url = https://bioconductor.org/packages/release/bioc/html/SummarizedExperiment.html
-	arch = x86_64
+	arch = any
 	license = Artistic-2.0
-	depends = r
-	depends = r-genomeinfodb
-	depends = r-iranges
-	depends = r-biocgenerics
-	depends = r-s4vectors
-	depends = r-genomicranges
+	depends = r>=3.2
+	depends = r-genomicranges>=1.33.6
 	depends = r-biobase
-	depends = r-delayedarray
-	source = https://bioconductor.org/packages/release/bioc/src/contrib/SummarizedExperiment_1.16.0.tar.gz
-	sha1sums = a56b0817ad6a3c182c0da68a5b6f5433907a24a3
+	depends = r-delayedarray>=0.3.20
+	depends = r-biocgenerics>=0.15.3
+	depends = r-s4vectors>=0.23.20
+	depends = r-iranges>=2.13.16
+	depends = r-genomeinfodb>=1.13.1
+	optdepends = r-annotate
+	optdepends = r-annotationdbi
+	optdepends = r-hgu95av2.db
+	optdepends = r-genomicfeatures
+	optdepends = r-txdb.hsapiens.ucsc.hg19.knowngene
+	optdepends = r-biocstyle
+	optdepends = r-knitr
+	optdepends = r-rmarkdown
+	optdepends = r-digest
+	optdepends = r-jsonlite
+	optdepends = r-rhdf5
+	optdepends = r-hdf5array
+	optdepends = r-airway
+	optdepends = r-runit
+	optdepends = r-testthat
+	source = https://bioconductor.org/packages/release/bioc/src/contrib/SummarizedExperiment_1.16.1.tar.gz
+	md5sums = 33fbb7b4c9bad189ecfa7b0e3830d0d9
 
 pkgname = r-summarizedexperiment
 
diff --git a/.gitignore b/.gitignore
deleted file mode 100644
index 6ae0b18a1f6c..000000000000
--- a/.gitignore
+++ /dev/null
@@ -1,4 +0,0 @@
-/pkg
-/src
-*.tar.gz
-*.tar.xz
diff --git a/PKGBUILD b/PKGBUILD
index f744b3c2844b..7ee5fdb7b118 100644
--- a/PKGBUILD
+++ b/PKGBUILD
@@ -1,19 +1,29 @@
+# Contributor: Viktor Drobot (aka dviktor) linux776 [at] gmail [dot] com
 # Contributor: Grey Christoforo <first name at last name dot net>
-pkgname=r-summarizedexperiment
-_bc_name=SummarizedExperiment
-pkgver=1.16.0
+
+_bcname=SummarizedExperiment
+_bcver=1.16.1
+pkgname=r-${_bcname,,}
+pkgver=${_bcver//[:-]/.}
 pkgrel=1
 pkgdesc="SummarizedExperiment container"
-url="https://bioconductor.org/packages/release/bioc/html/${_bc_name}.html"
-arch=("x86_64")
-license=('Artistic-2.0')
-depends=('r' 'r-genomeinfodb' 'r-iranges' 'r-biocgenerics' 'r-s4vectors' 'r-genomicranges' 'r-biobase' 'r-delayedarray')
-source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_bc_name}_${pkgver}.tar.gz")
-sha1sums=('a56b0817ad6a3c182c0da68a5b6f5433907a24a3')
+arch=(any)
+url="https://bioconductor.org/packages/release/bioc/html/${_bcname}.html"
+license=(Artistic-2.0)
+depends=('r>=3.2' 'r-genomicranges>=1.33.6' r-biobase 'r-delayedarray>=0.3.20' 'r-biocgenerics>=0.15.3' 'r-s4vectors>=0.23.20' 'r-iranges>=2.13.16' 'r-genomeinfodb>=1.13.1')
+optdepends=(r-annotate r-annotationdbi r-hgu95av2.db r-genomicfeatures r-txdb.hsapiens.ucsc.hg19.knowngene r-biocstyle r-knitr r-rmarkdown r-digest r-jsonlite r-rhdf5 r-hdf5array r-airway r-runit r-testthat)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_bcname}_${_bcver}.tar.gz")
+md5sums=('33fbb7b4c9bad189ecfa7b0e3830d0d9')
+
+build() {
+  cd "${srcdir}"
+
+  R CMD INSTALL ${_bcname}_${_bcver}.tar.gz -l ${srcdir}
+}
 
 package() {
- mkdir -p $pkgdir/usr/lib/R/library
- cd $srcdir
+  cd "${srcdir}"
 
- R CMD INSTALL -l $pkgdir/usr/lib/R/library ./${_bc_name}
+  install -dm0755 "${pkgdir}/usr/lib/R/library"
+  cp -a --no-preserve=ownership "${_bcname}" "${pkgdir}/usr/lib/R/library"
 }