1 files changed, 39 insertions, 0 deletions
diff --git a/sci-biology/gatk/gatk-2.4.ebuild b/sci-biology/gatk/gatk-2.4.ebuild
new file mode 100644
index 000000000000..53bc0dc1b50b
--- /dev/null
+++ b/sci-biology/gatk/gatk-2.4.ebuild
@@ -0,0 +1,39 @@
+# Copyright 1999-2013 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+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
+}