57 lines
1.6 KiB
Bash
57 lines
1.6 KiB
Bash
# Copyright 1999-2012 Gentoo Foundation
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# Distributed under the terms of the GNU General Public License v2
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# $Header: /var/cvsroot/gentoo-x86/sci-biology/goby/goby-1.9.8.1.ebuild,v 1.1 2012/01/05 23:00:11 weaver Exp $
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EAPI=4
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ESVN_REPO_URI="https://pbtech-vc.med.cornell.edu/public/svn/icb/trunk/goby"
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EANT_GENTOO_CLASSPATH="commons-logging,commons-lang-2.1,commons-io-1,protobuf,fastutil-5.0,log4j,jsap,commons-configuration,commons-math-2"
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EANT_GENTOO_CLASSPATH_EXTRA="lib/icb-utils.jar:lib/edu.mssm.crover.cli.jar:lib/JRI.jar:lib/dsiutils-1.0.12.jar"
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JAVA_ANT_REWRITE_CLASSPATH="true"
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#inherit java-pkg-2 java-ant-2 subversion
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inherit java-pkg-2 java-ant-2
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MY_P="${PN}_${PV}"
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DESCRIPTION="A DNA sequencing data management framework"
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HOMEPAGE="http://campagnelab.org/software/goby/"
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SRC_URI="http://chagall.med.cornell.edu/goby/releases/archive/release-${MY_P}/${MY_P}-src.zip
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http://chagall.med.cornell.edu/goby/releases/archive/release-${MY_P}/${MY_P}-deps.zip"
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LICENSE="GPL-3 LGPL-3"
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SLOT="0"
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IUSE="+cpp"
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KEYWORDS="~amd64 ~x86"
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COMMON_DEPS="dev-java/commons-logging
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dev-java/commons-lang:2.1
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dev-java/commons-io:1
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dev-libs/protobuf[java]
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dev-java/fastutil:5.0
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dev-java/log4j
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dev-java/jsap
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dev-java/commons-configuration
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dev-java/commons-math:2"
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DEPEND=">=virtual/jdk-1.6
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${COMMON_DEPS}"
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RDEPEND=">=virtual/jre-1.6
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${COMMON_DEPS}
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cpp? ( ~sci-biology/goby-cpp-${PV} )"
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S="${WORKDIR}/${MY_P}"
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src_prepare() {
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sed -i '/sge/ d' build.xml || die
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java-pkg-2_src_prepare
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}
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src_install() {
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java-pkg_dojar goby*.jar
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java-pkg_dolauncher goby --jar goby.jar
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insinto /usr/share/${PN}
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doins -r python
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dodoc CHANGES.txt
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}
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