PKGBUILD


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

# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>

_pkgname=monocle
_pkgver=2.32.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Clustering, differential expression, and trajectory analysis for single- cell RNA-Seq"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=('Artistic-2.0')
depends=(
  r-biobase
  r-biocgenerics
  r-biocviews
  r-combinat
  r-ddrtree
  r-dplyr
  r-fastica
  r-ggplot2
  r-hsmmsinglecell
  r-igraph
  r-irlba
  r-leidenbase
  r-limma
  r-matrixstats
  r-pheatmap
  r-plyr
  r-proxy
  r-rann
  r-rcpp
  r-reshape2
  r-rtsne
  r-slam
  r-stringr
  r-tibble
  r-vgam
  r-viridis
)
optdepends=(
  r-destiny
  r-hmisc
  r-knitr
  r-scater
  r-seurat
  r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
md5sums=('f33d42592765d11736e33103ef476b1f')
b2sums=('ebf9126a13bb42b8392df8f5db3130c71d44b8629f9d94d2cb7456b0ac2009f58556ceaf985ed8379d3ced26e72cda11c826c494d65e3169a5a3b4db13dd1599')

build() {
  mkdir build
  R CMD INSTALL -l build "$_pkgname"
}

package() {
  install -d "$pkgdir/usr/lib/R/library"
  cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
}