blob: e837f655dc062785ed81f297a0b6f9c7abfdaaec (
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
56
57
58
59
60
61
62
63
64
65
|
# system requirements: systemPipeR can be used to run externalcommand-line software (e.g. short read aligners), but thecorresponding tool needs to be installed on a system.
# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
_pkgname=systemPipeR
_pkgver=2.10.0
pkgname=r-${_pkgname,,}
pkgver=2.10.0
pkgrel=1
pkgdesc='systemPipeR: NGS workflow and report generation environment'
arch=('any')
url="https://bioconductor.org/packages/${_pkgname}"
license=('Artistic2.0')
depends=(
r
r-biocgenerics
r-biostrings
r-crayon
r-genomicranges
r-ggplot2
r-htmlwidgets
r-magrittr
r-rsamtools
r-s4vectors
r-shortread
r-stringr
r-summarizedexperiment
r-yaml
)
optdepends=(
r-annotate
r-annotationdbi
r-batchtools
r-biocstyle
r-deseq2
r-dplyr
r-dt
r-edger
r-genomeinfodb
r-genomicalignments
r-genomicfeatures
r-go.db
r-grid
r-iranges
r-kableextra
r-knitr
r-limma
r-rjson
r-rmarkdown
r-rtracklayer
r-systempiperdata
r-testthat
r-variantannotation
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
sha256sums=('dde61514c472f019a4e8a5bc46b09c4ec7daac41ec994ddf2fc443583c66bd8f')
build() {
R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
}
package() {
install -dm0755 "${pkgdir}/usr/lib/R/library"
cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
}
# vim:set ts=2 sw=2 et:
|