1 files changed, 0 insertions, 47 deletions
diff --git a/sci-biology/gatk/gatk-3.6.ebuild b/sci-biology/gatk/gatk-3.6.ebuild
deleted file mode 100644
index bdbf14e9b..000000000
--- a/sci-biology/gatk/gatk-3.6.ebuild
+++ /dev/null
@@ -1,47 +0,0 @@
-# Copyright 1999-2016 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
-	dev-java/maven-bin:*
-	dev-java/cofoja
-	${COMMON_DEPS}"
-RDEPEND="
-	>=virtual/jre-1.6
-	>=sci-biology/SnpEff-2.0.5
-	${COMMON_DEPS}"
-
-src_prepare() {
-	sh ant-bridge.sh || die # BUG: this download and compiles lot of stuff
-	java-pkg-2_src_prepare
-}
-
-src_install() {
-	mvn install -Dmaven.repo.local="${WORKDIR}"/.m2/repository || die
-	find public -name \*.jar | grep -v tests | grep -v cofoja | while read f; do \
-		java-pkg_dojar $f # FIXME: Java QA Notice: installing versioned jar 'gatk-tools-public-3.6.jar'
-	done
-}
-
-pkg_postinst(){
-	einfo "The ebuild also installs bundled SnpEff-2.0.5.jar file until the"
-	einfo "installation layout gets more testing"
-}