diff options
| -rw-r--r-- | sci-biology/gatk/ChangeLog | 7 | ||||
| -rw-r--r-- | sci-biology/gatk/gatk-1.3.ebuild | 44 |
2 files changed, 50 insertions, 1 deletions
diff --git a/sci-biology/gatk/ChangeLog b/sci-biology/gatk/ChangeLog index 2672b2663a32..9e2c8d21f8e6 100644 --- a/sci-biology/gatk/ChangeLog +++ b/sci-biology/gatk/ChangeLog @@ -1,6 +1,11 @@ # ChangeLog for sci-biology/gatk # Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/gatk/ChangeLog,v 1.1 2011/10/31 21:18:17 weaver Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/gatk/ChangeLog,v 1.2 2011/12/26 05:40:50 weaver Exp $ + +*gatk-1.3 (26 Dec 2011) + + 26 Dec 2011; Andrey Kislyuk <weaver@gentoo.org> +gatk-1.3.ebuild: + Version bump *gatk-9999 (31 Oct 2011) *gatk-1.2 (31 Oct 2011) diff --git a/sci-biology/gatk/gatk-1.3.ebuild b/sci-biology/gatk/gatk-1.3.ebuild new file mode 100644 index 000000000000..43ae46e02d20 --- /dev/null +++ b/sci-biology/gatk/gatk-1.3.ebuild @@ -0,0 +1,44 @@ +# Copyright 1999-2011 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/gatk/gatk-1.3.ebuild,v 1.1 2011/12/26 05:40:50 weaver Exp $ + +EAPI=4 + +MY_HASH=9dec377 + +EGIT_REPO_URI="https://github.com/broadgsa/gatk.git" + +EANT_BUILD_TARGET="dist" +EANT_NEEDS_TOOLS="true" +JAVA_ANT_REWRITE_CLASSPATH="true" + +#inherit java-pkg-2 java-ant-2 git +inherit java-pkg-2 java-ant-2 + +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/tarball/${PV} -> ${P}.tar.gz" + +LICENSE="as-is" +SLOT="0" +IUSE="" +KEYWORDS="~amd64" + +COMMON_DEPS="" +DEPEND=">=virtual/jdk-1.6 + ${COMMON_DEPS}" +RDEPEND=">=virtual/jre-1.6 + ${COMMON_DEPS}" + +S="${WORKDIR}/broadgsa-gatk-${MY_HASH}" + +src_prepare() { + sed -i '/property name="ivy.home"/ s|${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 +} |