| # Copyright 1999-2011 Gentoo Foundation |
| # Distributed under the terms of the GNU General Public License v2 |
| # $Id$ |
| |
| EAPI=4 |
| |
| ESVN_REPO_URI="https://pbtech-vc.med.cornell.edu/public/svn/icb/trunk/goby" |
| EANT_GENTOO_CLASSPATH="commons-logging,commons-lang-2.1,commons-io-1,protobuf,fastutil-5.0,log4j,jsap,commons-configuration,commons-math-2" |
| EANT_GENTOO_CLASSPATH_EXTRA="lib/icb-utils.jar:lib/edu.mssm.crover.cli.jar:lib/JRI.jar:lib/dsiutils-1.0.12.jar" |
| |
| JAVA_ANT_REWRITE_CLASSPATH="true" |
| |
| #inherit java-pkg-2 java-ant-2 subversion |
| inherit java-pkg-2 java-ant-2 |
| |
| MY_P="${PN}_${PV}" |
| |
| DESCRIPTION="A DNA sequencing data management framework" |
| HOMEPAGE="http://campagnelab.org/software/goby/" |
| SRC_URI="http://chagall.med.cornell.edu/goby/releases/archive/release-${MY_P}/${MY_P}-src.zip |
| http://chagall.med.cornell.edu/goby/releases/archive/release-${MY_P}/${MY_P}-deps.zip" |
| |
| LICENSE="GPL-3 LGPL-3" |
| SLOT="0" |
| IUSE="+cpp" |
| KEYWORDS="~amd64 ~x86" |
| |
| COMMON_DEPS="dev-java/commons-logging |
| dev-java/commons-lang:2.1 |
| dev-java/commons-io:1 |
| dev-libs/protobuf[java] |
| dev-java/fastutil:5.0 |
| dev-java/log4j |
| dev-java/jsap |
| dev-java/commons-configuration |
| dev-java/commons-math:2" |
| DEPEND=">=virtual/jdk-1.6 |
| ${COMMON_DEPS}" |
| RDEPEND=">=virtual/jre-1.6 |
| ${COMMON_DEPS} |
| cpp? ( ~sci-biology/goby-cpp-${PV} )" |
| |
| S="${WORKDIR}/${MY_P}" |
| |
| src_prepare() { |
| sed -i '/sge/ d' build.xml || die |
| java-pkg-2_src_prepare |
| } |
| |
| src_install() { |
| java-pkg_dojar goby*.jar |
| java-pkg_dolauncher goby --jar goby.jar |
| |
| insinto /usr/share/${PN} |
| doins -r python |
| dodoc CHANGES.txt |
| } |
