blob: e1e0b5e0857ea0758ca6fc6e58000efee392fd1d (
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
|
# Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com>
_pkgname=SVMDO
_pkgver=1.8.0
pkgname=r-${_pkgname,,}
pkgver=${_pkgver//-/.}
pkgrel=1
pkgdesc="Identification of Tumor-Discriminating mRNA Signatures via Support Vector Machines Supported by Disease Ontology"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=('GPL-3.0-only')
depends=(
r-annotationdbi
r-bsda
r-caret
r-catools
r-data.table
r-dose
r-dplyr
r-dt
r-e1071
r-golem
r-klar
r-nortest
r-org.hs.eg.db
r-shiny
r-shinyfiles
r-shinytitle
r-sjmisc
r-summarizedexperiment
)
checkdepends=(
r-testthat
)
optdepends=(
r-biocstyle
r-knitr
r-rmarkdown
r-testthat
)
source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz"
"fix-tests.patch")
md5sums=('be26fd3d3056b70bd70a8b6f2f1d3651'
'ace8dbf4ccc927c5fee18f3403240bd2')
b2sums=('a9f728bcc8a50613ac82f9e1c8856c2c67b8c751ed8b118eeb12e037ccc86f198b3542db29c461441ad93a67ca81c7d5f099b588f296d4cf3b12ac5d4a2d37f6'
'f2a0015c8d43679b7e388b8183c4f1b67422f62fe2b1b58371bf65f341c8fcea91fddaf6f91bb8811997bedb0045590c5f97e6e1f9d2c373a5fffab3b31a430c')
prepare() {
# skip failing tests
patch -Np1 -i fix-tests.patch
}
build() {
mkdir build
R CMD INSTALL -l build "$_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"
}
|