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# Copyright 1999-2013 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
EAPI=5
EANT_BUILD_TARGET="dist"
EANT_NEEDS_TOOLS="true"
JAVA_ANT_REWRITE_CLASSPATH="true"
inherit java-pkg-2 java-ant-2 vcs-snapshot
DESCRIPTION="The Genome Analysis Toolkit"
HOMEPAGE="http://www.broadinstitute.org/gsa/wiki/index.php/The_Genome_Analysis_Toolkit"
SRC_URI="https://github.com/broadgsa/gatk/archive/${PV}.tar.gz -> ${P}.tar.gz"
LICENSE="MIT"
SLOT="0"
IUSE=""
KEYWORDS="~amd64"
COMMON_DEPS=""
DEPEND="
>=virtual/jdk-1.6
${COMMON_DEPS}"
RDEPEND="
>=virtual/jre-1.6
${COMMON_DEPS}"
src_prepare() {
sed -i '/property name="ivy.home"/ s|${user.home}|'${WORKDIR}'|' build.xml || die
java-pkg-2_src_prepare
}
src_install() {
java-pkg_dojar dist/*.jar
java-pkg_dolauncher GenomeAnalysisTK --jar GenomeAnalysisTK.jar
java-pkg_dolauncher AnalyzeCovariates --jar AnalyzeCovariates.jar
}
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