diff options
| -rw-r--r-- | PKGBUILD | 12 |
1 files changed, 8 insertions, 4 deletions
@@ -1,21 +1,25 @@ # Contributor: Sauliusl <luksaulius at gmail> pkgname=phantompeakqualtools pkgver=1.1 -pkgrel=1 +pkgrel=2 pkgdesc="Computes quick but highly informative enrichment and quality measures for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data. It can also be used to obtain robust estimates of the predominant fragment length or characteristic tag shift values in these assays." arch=('i686' 'x86_64') url="https://code.google.com/p/phantompeakqualtools/" license=('MIT') -depends=('r' 'r-catools' 'r-snow' 'samtools' 'boost' 'boost-libs') +depends=('r' 'r-cran-catools' 'r-snow' 'samtools' 'boost' 'boost-libs') source=("https://phantompeakqualtools.googlecode.com/files/ccQualityControl.v.${pkgver}.tar.gz") md5sums=('66cfe40711edb914cd0fd69778a54e37') package() { - + cd $srcdir/phantompeakqualtools install -d $pkgdir/usr/lib/R/library - R CMD INSTALL -l $pkgdir/usr/lib/R/library spp_1.10.1.tar.gz + tar -xzf spp_1.10.1.tar.gz + # Below is requried for this to work with gcc6 + sed -i "s/PKG_CXXFLAGS=/PKG_CXXFLAGS=-std=gnu++98 /g" spp/src/Makevars.in + + R CMD INSTALL -l $pkgdir/usr/lib/R/library spp install -d $pkgdir/usr/share/${pkgname}/ install -Dm0644 run_spp.R $pkgdir/usr/share/${pkgname}/ |