blob: 3dc080cbe42f0980e55d89e9f2767fbbe6bafbff (
plain)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
|
# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=GenomicInteractionNodes
_pkgver=1.8.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="A R/Bioconductor package to detect the interaction nodes from HiC/HiChIP/HiCAR data"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('Apache-2.0')
depends=(
r-annotationdbi
r-genomeinfodb
r-genomicfeatures
r-genomicranges
r-go.db
r-graph
r-iranges
r-rbgl
r-s4vectors
)
checkdepends=(
r-org.hs.eg.db
r-testthat
r-txdb.hsapiens.ucsc.hg19.knowngene
)
optdepends=(
r-biocstyle
r-knitr
r-org.hs.eg.db
r-rmarkdown
r-rtracklayer
r-runit
r-testthat
r-txdb.hsapiens.ucsc.hg19.knowngene
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('db86e22bb6f88384d71ed1942d3269bb')
b2sums=('f921da5336a25bd90d4ae8f18a34044d8cb20ca5e8229e51c4411f392be3e1a744944706d7cbb07931a31a63e0d3be4c383caf0232fbb064e3838d44c93a8cb7')
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
check() {
cd "$_pkgname/tests"
R_LIBS="$srcdir/build" NOT_CRAN=true Rscript --vanilla runTests.R
}
package() {
install -d "$pkgdir/usr/lib/R/library"
cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
}
|