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| author |   Andrey Kislyuk <weaver@gentoo.org> | 2011-09-25 21:50:28 +0000 |
|---|---|---|
| committer | Andrey Kislyuk <weaver@gentoo.org> | 2011-09-25 21:50:28 +0000 |
| commit | 09f401a2c16b040a6d6b4cbd028ddc4d20ba3f86 (patch) | |
| tree | 280d63d4afa7163f021e44df668cc29691629b11 /sci-biology | |
| parent | Marked stable on AMD64 based on arch testing by Agostino "ago" Sarubbo & TomÃ... (diff) | |
| download | gentoo-2-09f401a2c16b040a6d6b4cbd028ddc4d20ba3f86.tar.gz gentoo-2-09f401a2c16b040a6d6b4cbd028ddc4d20ba3f86.tar.bz2 gentoo-2-09f401a2c16b040a6d6b4cbd028ddc4d20ba3f86.zip | |
New package, ebuild written by me
(Portage version: 2.2.0_alpha45/cvs/Linux x86_64)
Diffstat (limited to 'sci-biology')
| -rw-r--r-- | sci-biology/goby/ChangeLog | 10 | ||||
| -rw-r--r-- | sci-biology/goby/goby-1.9.7.3.ebuild | 57 | ||||
| -rw-r--r-- | sci-biology/goby/metadata.xml | 12 |
3 files changed, 79 insertions, 0 deletions
diff --git a/sci-biology/goby/ChangeLog b/sci-biology/goby/ChangeLog new file mode 100644 index 000000000000..217521d6dc03 --- /dev/null +++ b/sci-biology/goby/ChangeLog @@ -0,0 +1,10 @@ +# ChangeLog for sci-biology/goby +# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/goby/ChangeLog,v 1.1 2011/09/25 21:50:28 weaver Exp $ + +*goby-1.9.7.3 (25 Sep 2011) + + 25 Sep 2011; Andrey Kislyuk <weaver@gentoo.org> +goby-1.9.7.3.ebuild, + +metadata.xml: + New package, ebuild written by me + diff --git a/sci-biology/goby/goby-1.9.7.3.ebuild b/sci-biology/goby/goby-1.9.7.3.ebuild new file mode 100644 index 000000000000..4aa3c54939da --- /dev/null +++ b/sci-biology/goby/goby-1.9.7.3.ebuild @@ -0,0 +1,57 @@ +# Copyright 1999-2011 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/goby/goby-1.9.7.3.ebuild,v 1.1 2011/09/25 21:50:28 weaver Exp $ + +EAPI=4 + +ESVN_REPO_URI="https://pbtech-vc.med.cornell.edu/public/svn/icb/trunk/goby" +EANT_GENTOO_CLASSPATH="commons-logging,commons-lang-2.1,commons-io-1,protobuf,fastutil-5.0,log4j,jsap,commons-configuration,commons-math-2" +EANT_GENTOO_CLASSPATH_EXTRA="lib/icb-utils.jar:lib/edu.mssm.crover.cli.jar:lib/JRI.jar:lib/dsiutils-1.0.12.jar" + +JAVA_ANT_REWRITE_CLASSPATH="true" + +#inherit java-pkg-2 java-ant-2 subversion +inherit java-pkg-2 java-ant-2 + +MY_P="${PN}_${PV}" + +DESCRIPTION="A DNA sequencing data management framework" +HOMEPAGE="http://campagnelab.org/software/goby/" +SRC_URI="http://chagall.med.cornell.edu/goby/releases/archive/release-${MY_P}/${MY_P}-src.zip + http://chagall.med.cornell.edu/goby/releases/archive/release-${MY_P}/${MY_P}-deps.zip" + +LICENSE="GPL-3 LGPL-3" +SLOT="0" +IUSE="+cpp" +KEYWORDS="~amd64 ~x86" + +COMMON_DEPS="dev-java/commons-logging + dev-java/commons-lang:2.1 + dev-java/commons-io:1 + dev-libs/protobuf[java] + dev-java/fastutil:5.0 + dev-java/log4j + dev-java/jsap + dev-java/commons-configuration + dev-java/commons-math:2" +DEPEND=">=virtual/jdk-1.6 + ${COMMON_DEPS}" +RDEPEND=">=virtual/jre-1.6 + ${COMMON_DEPS} + cpp? ( ~sci-biology/goby-cpp-${PV} )" + +S="${WORKDIR}/${MY_P}" + +src_prepare() { + sed -i '/sge/ d' build.xml || die + java-pkg-2_src_prepare +} + +src_install() { + java-pkg_dojar goby*.jar + java-pkg_dolauncher goby --jar goby.jar + + insinto /usr/share/${PN} + doins -r python + dodoc CHANGES.txt +} diff --git a/sci-biology/goby/metadata.xml b/sci-biology/goby/metadata.xml new file mode 100644 index 000000000000..85d36ebbded8 --- /dev/null +++ b/sci-biology/goby/metadata.xml @@ -0,0 +1,12 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer> + <email>weaver@gentoo.org</email> + <name>Andrey Kislyuk</name> + </maintainer> + <herd>sci-biology</herd> + <use> + <flag name='cpp'>Compile C/C++ API</flag> + </use> +</pkgmetadata> |