From 9cd513717e26ee3fcc0cbc123b75becb4f4860c7 Mon Sep 17 00:00:00 2001 From: Andrey Kislyuk Date: Sun, 21 Mar 2010 01:21:23 +0000 Subject: [PATCH] Drop old version Package-Manager: portage-2.2_rc67/cvs/Linux x86_64 --- sci-biology/beast-mcmc/ChangeLog | 7 +- sci-biology/beast-mcmc/Manifest | 4 +- .../beast-mcmc/beast-mcmc-1.5.1.ebuild | 82 ------------------- 3 files changed, 6 insertions(+), 87 deletions(-) delete mode 100644 sci-biology/beast-mcmc/beast-mcmc-1.5.1.ebuild diff --git a/sci-biology/beast-mcmc/ChangeLog b/sci-biology/beast-mcmc/ChangeLog index 484953414278..7990118817a7 100644 --- a/sci-biology/beast-mcmc/ChangeLog +++ b/sci-biology/beast-mcmc/ChangeLog @@ -1,6 +1,9 @@ # ChangeLog for sci-biology/beast-mcmc -# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/beast-mcmc/ChangeLog,v 1.3 2009/10/19 15:07:01 weaver Exp $ +# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/beast-mcmc/ChangeLog,v 1.4 2010/03/21 01:21:23 weaver Exp $ + + 20 Mar 2010; Andrey Kislyuk -beast-mcmc-1.5.1.ebuild: + Drop old version *beast-mcmc-1.5.2 (19 Oct 2009) diff --git a/sci-biology/beast-mcmc/Manifest b/sci-biology/beast-mcmc/Manifest index 87484fd44f78..4fc0aa320a47 100644 --- a/sci-biology/beast-mcmc/Manifest +++ b/sci-biology/beast-mcmc/Manifest @@ -1,7 +1,5 @@ -DIST beast-mcmc-1.5.1.tar.bz2 32191300 RMD160 c9e9b5e5283e537a61c8656a093cb267dd2533dc SHA1 7750af1dcbfe65c949aabf5390ca36a6f45b3013 SHA256 f64bc0e6be372ef4ed7e3e287c99e5b9da2f7d961cd1c7eca9483ae70ab3ba5b DIST beast-mcmc-1.5.2.tar.bz2 38834702 RMD160 c4d954c604ae021afb6c1c19e041c5153ffad42b SHA1 fffd35a05b0cbcca74a491ef06cd7ea7e8c9d3c9 SHA256 f7312c6a7a14f6b32e9701a6386ff87728574460b7861880aa2cb87290756ea1 -EBUILD beast-mcmc-1.5.1.ebuild 2917 RMD160 54c28423917fde18e23a78309aa4efcd55c9039c SHA1 575f4d65ab003d0700e76082fbab90aa393ed393 SHA256 106b6f5e544b9faf284082c5eba261097d29e0782c826218fa1dee398fb81126 EBUILD beast-mcmc-1.5.2.ebuild 2919 RMD160 6a8f3e6cba0c36aec30e2bcd859f7d9cdc8e667d SHA1 e8ea8734d19934828659b048f99b1e967f4daa58 SHA256 44f00122a5707c5dae92fe346056f71b1183ac75ae106eb7d89e21a35fb66c9c EBUILD beast-mcmc-9999.ebuild 2869 RMD160 d00e3cb3826dce6ae8b1ed3db890597e0eec9249 SHA1 1555bb80c11a071d41af58e2bf4288422d6652c9 SHA256 ef97822c25a76d3ebd0e8902d6dc8960c6a2b1d258d83a6449889cb5d022a87e -MISC ChangeLog 684 RMD160 eadf4b6cc547c997e2c06751c9c819191f760416 SHA1 b419b8882b9d70f055cc137409b1eade1ac384a2 SHA256 eab79e2ce760c62a8fd99b47ba6ec9b44dd18861099195e62c7cccc69d4a9eeb +MISC ChangeLog 780 RMD160 56bc9dce0dcc75eb3112ae724911ae0288eb29c0 SHA1 5836db21e5d735a7bf09bcd7bc84413d2ae77b0f SHA256 58f2b2a964d980ac2169686441e650e80fd6177557422352bc45943a676b51a2 MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110 diff --git a/sci-biology/beast-mcmc/beast-mcmc-1.5.1.ebuild b/sci-biology/beast-mcmc/beast-mcmc-1.5.1.ebuild deleted file mode 100644 index cf908ae9abdc..000000000000 --- a/sci-biology/beast-mcmc/beast-mcmc-1.5.1.ebuild +++ /dev/null @@ -1,82 +0,0 @@ -# Copyright 1999-2009 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/beast-mcmc/beast-mcmc-1.5.1.ebuild,v 1.1 2009/10/02 21:47:11 weaver Exp $ - -EAPI="2" - -ESVN_REPO_URI="http://beast-mcmc.googlecode.com/svn/trunk/" - -WANT_ANT_TASKS="ant-junit4" -EANT_GENTOO_CLASSPATH="colt,jdom-1.0,itext,junit-4,jebl,matrix-toolkits-java,commons-math-1,jdom-jaxen-1.0" -JAVA_ANT_REWRITE_CLASSPATH="true" -JAVA_ANT_ENCODING="latin1" -JAVA_PKG_BSFIX_NAME="build.xml build_BEAST_MCMC.xml build_coalsim.xml build_development.xml build_pathogen.xml build_release.xml build_treestat.xml build_vcs.xml" - -#inherit java-pkg-2 java-ant-2 eutils subversion -inherit java-pkg-2 java-ant-2 eutils - -DESCRIPTION="Bayesian MCMC of Evolution & Phylogenetics using Molecular Sequences" -HOMEPAGE="http://code.google.com/p/beast-mcmc/" -#SRC_URI="" -SRC_URI="mirror://gentoo/${P}.tar.bz2" - -LICENSE="LGPL-3" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="" - -# TODO: sys-cluster/mpijava -COMMON_DEPS="dev-java/colt:0 - dev-java/jdom:1.0 - dev-java/itext:0 - dev-java/junit:4 - dev-java/jebl:0 - dev-java/matrix-toolkits-java - dev-java/commons-math:1 - dev-java/jdom-jaxen:1.0" -DEPEND=">=virtual/jdk-1.5 - ${COMMON_DEPS}" -RDEPEND=">=virtual/jre-1.5 - ${COMMON_DEPS}" - -S="${WORKDIR}/beast_release_${PV//./_}" - -src_prepare() { - sed -i '/BEAST_LIB/ s|$BEAST|/usr/share/beast|' "${S}"/scripts/* || die - cd lib - rm -v colt.jar junit-*.jar itext-*.jar jdom.jar jebl.jar mtj.jar commons-math-*.jar || die - java-pkg_jar-from jdom-1.0 - java-pkg_jar-from colt - java-pkg_jar-from itext - java-pkg_jar-from jebl - java-pkg_jar-from matrix-toolkits-java - java-pkg_jar-from commons-math-1 - java-pkg-2_src_prepare -} - -src_compile() { - eant dist_all_BEAST -f build_BEAST_MCMC.xml \ - -Dgentoo.classpath=$(java-pkg_getjars ${EANT_GENTOO_CLASSPATH}):$(for i in lib/*.jar; do echo -n "$i:"; done) || die - eant dist -f build_pathogen.xml \ - -Dgentoo.classpath=$(java-pkg_getjars ${EANT_GENTOO_CLASSPATH}):$(for i in lib/*.jar; do echo -n "$i:"; done) || die -} - -src_install() { - java-pkg_dojar bin/dist/*.jar dist/*.jar - - java-pkg_dolauncher beauti --jar beauti.jar --java_args '-Xms64m -Xmx256m' -# java-pkg_dolauncher beauti --main dr.app.beauti.BeautiApp --java_args '-Xms64m -Xmx256m' - java-pkg_dolauncher beast --main dr.app.beast.BeastMain --java_args '-Xms64m -Xmx256m' - java-pkg_dolauncher loganalyser --main dr.app.tools.LogAnalyser --java_args '-Xms64m -Xmx256m' - java-pkg_dolauncher logcombiner --main dr.app.tools.LogCombiner --java_args '-Xms64m -Xmx256m' - java-pkg_dolauncher treeannotator --main dr.app.tools.TreeAnnotator --java_args '-Xms64m -Xmx256m' - - insinto /usr/share/${PN} - doins -r examples || die - dodoc NOTIFY doc/*.pdf -} - -src_test() { - eant junit -f build_BEAST_MCMC.xml \ - -Dgentoo.classpath=$(java-pkg_getjars ${EANT_GENTOO_CLASSPATH}):$(for i in lib/*.jar; do echo -n "$i:"; done) || die -} -- 2.26.2