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# Maintainer: Grey Christoforo <first name [at] last name [dot] net>
pkgname=homer
pkgver=4.10
pkgrel=1
pkgdesc="Hypergeometric Optimization of Motif EnRichment"
url="http://homer.salk.edu/"
arch=('i686' 'x86_64')
license=('GPLv3')
optdepends=('ucsc-kent-genome-tools: for the blat tool, required for removing redundant sequences during motif finding'
'ghostscript: required for making motif logos')
depends=('perl' 'weblogo2' 'wget')
source=("http://homer.salk.edu/homer/data/software/homer.v${pkgver}.zip" "homer.sh")
md5sums=('25af6351d2b114237f35abaffd17b521'
'81a149ed531dcca7f0096901fd88ddeb')
install=homer.install
prepare(){
cd ${srcdir}/cpp
make clean
}
build(){
#cd ${srcdir}
#perl configureHomer.pl -install homer
cd ${srcdir}/cpp
make # this actually also copies the exes to bin/ then clean can't clean them
make clean
}
package() {
# just put everything into opt
mkdir -p "${pkgdir}/opt/${pkgname}"
cp -a ${srcdir}/* "${pkgdir}/opt/${pkgname}/."
# link the main perl script
mkdir -p ${pkgdir}/usr/bin
chmod 755 "${pkgdir}/opt/${pkgname}/configureHomer.pl"
ln -s /opt/${pkgname}/configureHomer.pl ${pkgdir}/usr/bin/.
# install profile file
install -m755 -D "${srcdir}/homer.sh" -t "${pkgdir}/etc/profile.d"
# install license file
install -m644 -D "${srcdir}/COPYING" -t "${pkgdir}/usr/share/licenses/${pkgname}"
}
# vim:set ts=2 sw=2 et:#
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