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# Maintainer: Grey Christoforo <first name [at] last name [dot] net>
pkgname=ucsc-kent-genome-tools
pkgver=347
pkgrel=1
pkgdesc="UCSC genome browser 'kent' bioinformatic utilities"
arch=('i686' 'x86_64')
url="http://hgdownload.soe.ucsc.edu/admin/exe/"
license=('other')
install=$pkgname.install
depends=('mariadb-clients' 'libpng' 'openssl')
source=(http://hgdownload.soe.ucsc.edu/admin/exe/userApps.v${pkgver}.src.tgz)
sha1sums=('25b6351f795f11e95e061b00dfd1b027dc4dd776')
prepare() {
cd "${srcdir}/userApps/"
make clean
}
build() {
cd "${srcdir}/userApps/"
# don't know why I need the next three lines
make libs
cp kent/src/lib/x86_64/* kent/src/lib/local/.
cp kent/src/lib/local/* kent/src/lib/x86_64/.
make all
}
package() {
cd "${srcdir}/userApps/"
mkdir -p "${pkgdir}/opt/${pkgname}/"
cp -a * "${pkgdir}/opt/${pkgname}/."
rm -rf "${pkgdir}/opt/${pkgname}/kent"
mkdir -p "$pkgdir/etc/profile.d"
echo "export PATH=/opt/${pkgname}/bin:"'$PATH' > "$pkgdir/etc/profile.d/${pkgname}.sh"
chmod +x "$pkgdir/etc/profile.d/${pkgname}.sh"
cat > "${pkgdir}/opt/${pkgname}/.hg.conf" <<EOF
db.host=genome-mysql.cse.ucsc.edu
db.user=genomep
db.password=password
central.db=hgcentral
EOF
install -D -m644 licenseUcscGenomeBrowser.txt "${pkgdir}/usr/share/licenses/${pkgname}/licenseUcscGenomeBrowser.txt"
install -D -m644 GenomeBrowserLicense.pdf "${pkgdir}/usr/share/licenses/${pkgname}/GenomeBrowserLicense.pdf"
install -D -m644 licenseBlat.txt "${pkgdir}/usr/share/licenses/${pkgname}/licenseBlat.txt"
}
# vim:set ts=2 sw=2 et:
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