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Diffstat (limited to 'sci-biology/cg-cat/cg-cat-20150130.ebuild')
| -rw-r--r-- | sci-biology/cg-cat/cg-cat-20150130.ebuild | 43 |
1 files changed, 43 insertions, 0 deletions
diff --git a/sci-biology/cg-cat/cg-cat-20150130.ebuild b/sci-biology/cg-cat/cg-cat-20150130.ebuild new file mode 100644 index 000000000..39444eccf --- /dev/null +++ b/sci-biology/cg-cat/cg-cat-20150130.ebuild @@ -0,0 +1,43 @@ +# Copyright 1999-2016 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: $ + +EAPI=5 + +inherit java-pkg-2 java-ant-2 + +DESCRIPTION="r2cat and treecat, scaffolding tools for ordering and orienting contigs" +HOMEPAGE="http://bibiserv.techfak.uni-bielefeld.de/cgcat" +SRC_URI="http://bibiserv.techfak.uni-bielefeld.de/applications/cgcat/resources/downloads/r2cat.tar.gz" +# SRC_URI="http://bibiserv.techfak.uni-bielefeld.de/applications/cgcat/resources/downloads/r2cat.jar" + +LICENSE="GPL-3" +SLOT="0" +KEYWORDS="" +IUSE="" + +DEPEND=">=virtual/jre-1.6:*" +RDEPEND="${DEPEND}" + +S="${WORKDIR}"/r2cat + +src_prepare(){ + sed -e "s#/vol/bioapps#"${D}"/usr#" -e "s#/vol/bibidev/r2cat#"${D}"/usr#" -i Makefile +} + +src_compile(){ + emake +} + +src_install(){ + # emake install dies with: + # jarsigner -tsa https://timestamp.geotrust.com/tsa -keystore /homes/phuseman/.gnupg/jarsigner_keystore_cg-cat cg-cat.jar cgcat + # Enter Passphrase for keystore: jarsigner: you must enter key password + # Makefile:44: recipe for target 'cg-cat.jar' failed + mkdir -p "${D}"/usr/share/r2cat + emake install_cebitec + emake install_bibiserv +} + +# java -Xmx1024M -jar r2cat.jar +# java -Xmx1024M -cp r2cat.jar de.bielefeld.uni.cebitec.treecat.Treecat -Xmx -d64 |