diff options
| -rw-r--r-- | sci-biology/cg-cat/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/cg-cat/cg-cat-20150130.ebuild | 43 | ||||
| -rw-r--r-- | sci-biology/cg-cat/metadata.xml | 12 |
3 files changed, 56 insertions, 0 deletions
diff --git a/sci-biology/cg-cat/Manifest b/sci-biology/cg-cat/Manifest new file mode 100644 index 000000000..f1d64bb80 --- /dev/null +++ b/sci-biology/cg-cat/Manifest @@ -0,0 +1 @@ +DIST r2cat.tar.gz 409067 SHA256 d7db5b5a5c8475b5f7e8f49f474be01b7bc785b43a4ae68bd7de5672e7d491f3 SHA512 a837d216664fede82e147204e8f1ba07b2d5ad92ee3db6f3a1285ff4acc4fb5b70715ac272d727304901548d68cb4865c051ef24690226692c4c4d693c7988f1 WHIRLPOOL 34a103cce1556fa8fef9f1d087ea5dad307497c39f00f2e04474592faada8d515cc6022a4bcc2656e3997e4891692240cdde21711d091464cd3f88a739d4bb0a 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 diff --git a/sci-biology/cg-cat/metadata.xml b/sci-biology/cg-cat/metadata.xml new file mode 100644 index 000000000..1699e58b2 --- /dev/null +++ b/sci-biology/cg-cat/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 type="person"> + <email>mmokrejs@fold.natur.cuni.cz</email> + <name>Martin Mokrejs</name> + </maintainer> +<maintainer type="project"> + <email>sci-biology@gentoo.org</email> + <name>Gentoo Biology Project</name> + </maintainer> +</pkgmetadata> |