blob: 0a89e1523dded86c99d4fa54e4ccdb615aa90f30 (
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
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
|
# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=extraChIPs
_pkgver=1.8.1
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Additional functions for working with ChIP-Seq data"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-only')
depends=(
r-biocio
r-biocparallel
r-broom
r-complexupset
r-csaw
r-dplyr
r-edger
r-forcats
r-genomeinfodb
r-genomicinteractions
r-genomicranges
r-ggforce
r-ggplot2
r-ggrepel
r-ggside
r-glue
r-interactionset
r-iranges
r-matrixstats
r-patchwork
r-rcolorbrewer
r-rlang
r-rsamtools
r-rtracklayer
r-s4vectors
r-scales
r-stringr
r-summarizedexperiment
r-tibble
r-tidyr
r-tidyselect
r-vctrs
r-venndiagram
)
checkdepends=(
r-deseq2
r-enrichedheatmap
r-harmonicmeanp
r-testthat
)
optdepends=(
r-biocstyle
r-covr
r-cqn
r-deseq2
r-enrichedheatmap
r-gviz
r-harmonicmeanp
r-here
r-knitr
r-limma
r-magrittr
r-plyranges
r-quantro
r-rmarkdown
r-testthat
r-tidyverse
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('0afeb5903409d749f90b4e5a3aab9fad')
b2sums=('4fcd2558a82f28d88d6e79e513a5024c575cd58e90ca5258e35a8783ea815c800fc99ec68a420ad16067d2f1d7010576fc3151c8dc7622c9d1224e2c24d11b81')
build() {
mkdir build
R CMD INSTALL -l build "$_pkgname"
}
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"
}
|