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author | Saulius Lukauskas | 2015-08-05 11:47:23 +0100 |
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committer | Saulius Lukauskas | 2015-08-05 11:47:23 +0100 |
commit | 1dc6032a09421540fb911b579f7951b8941076f1 (patch) | |
tree | 5cd52c2de0abb31999f0c494e9a7e2f41bb7e8f4 /PKGBUILD | |
download | aur-1dc6032a09421540fb911b579f7951b8941076f1.tar.gz |
Initial import
Diffstat (limited to 'PKGBUILD')
-rw-r--r-- | PKGBUILD | 35 |
1 files changed, 35 insertions, 0 deletions
diff --git a/PKGBUILD b/PKGBUILD new file mode 100644 index 000000000000..9f818d459981 --- /dev/null +++ b/PKGBUILD @@ -0,0 +1,35 @@ +# Contributor: Sauliusl <luksaulius at gmail> +pkgname=phantompeakqualtools +pkgver=1.1 +pkgrel=1 +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') +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 + + install -d $pkgdir/usr/share/${pkgname}/ + install -Dm0644 run_spp.R $pkgdir/usr/share/${pkgname}/ + install -Dm0644 run_spp_nodups.R $pkgdir/usr/share/${pkgname}/ + + echo "#!/bin/bash" > run_spp.sh + echo 'Rscript /usr/share/phantompeakqualtools/run_spp.R "$@"' >> run_spp.sh + + echo "#!/bin/bash" > run_spp_nodups.sh + echo 'Rscript /usr/share/phantompeakqualtools/run_spp_nodups.R "$@"' >> run_spp_nodups.sh + + install -d $pkgdir/usr/bin/ + install -Dm0755 run_spp.sh $pkgdir/usr/bin/run_spp + install -Dm0755 run_spp_nodups.sh $pkgdir/usr/bin/run_spp_nodups + + +} |