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-rw-r--r--sci-biology/meme/ChangeLog9
-rw-r--r--sci-biology/meme/meme-4.8.1-r2.ebuild (renamed from sci-biology/meme/meme-4.8.1-r1.ebuild)8
-rw-r--r--sci-biology/meme/meme-4.8.1.ebuild82
3 files changed, 13 insertions, 86 deletions
diff --git a/sci-biology/meme/ChangeLog b/sci-biology/meme/ChangeLog
index eda8367c9c41..b1baa394b9f0 100644
--- a/sci-biology/meme/ChangeLog
+++ b/sci-biology/meme/ChangeLog
@@ -1,6 +1,13 @@
# ChangeLog for sci-biology/meme
# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/meme/ChangeLog,v 1.23 2013/02/01 14:51:24 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/meme/ChangeLog,v 1.24 2013/03/01 12:43:54 jlec Exp $
+
+*meme-4.8.1-r2 (01 Mar 2013)
+
+ 01 Mar 2013; Justin Lecher <jlec@gentoo.org> -meme-4.8.1.ebuild,
+ -meme-4.8.1-r1.ebuild, +meme-4.8.1-r2.ebuild:
+ Rename all binaries to meme-*; should fix all collisions in future, #458208;
+ drop old
*meme-4.8.1-r1 (01 Feb 2013)
diff --git a/sci-biology/meme/meme-4.8.1-r1.ebuild b/sci-biology/meme/meme-4.8.1-r2.ebuild
index 50c2f7fe6aee..abc810087e9a 100644
--- a/sci-biology/meme/meme-4.8.1-r1.ebuild
+++ b/sci-biology/meme/meme-4.8.1-r2.ebuild
@@ -1,6 +1,6 @@
## Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/meme/meme-4.8.1-r1.ebuild,v 1.1 2013/02/01 14:51:24 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/meme/meme-4.8.1-r2.ebuild,v 1.1 2013/03/01 12:43:54 jlec Exp $
EAPI=4
@@ -63,10 +63,12 @@ src_test() {
}
src_install() {
+ local i
default
- mv "${ED}"/usr/bin/{,meme-}tree || die
- mv "${ED}"/usr/bin/{,meme-}readseq || die
+ for i in "${ED}"/usr/bin/*; do
+ "${ED}"/usr/bin/{,meme-}${i} || die
+ done
echo "PATH=/opt/${PN}/bin" > 99${PN}
doenvd 99${PN}
diff --git a/sci-biology/meme/meme-4.8.1.ebuild b/sci-biology/meme/meme-4.8.1.ebuild
deleted file mode 100644
index dc154dd57195..000000000000
--- a/sci-biology/meme/meme-4.8.1.ebuild
+++ /dev/null
@@ -1,82 +0,0 @@
-## Copyright 1999-2011 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/meme/meme-4.8.1.ebuild,v 1.6 2013/02/01 14:51:24 jlec Exp $
-
-EAPI=4
-
-PYTHON_DEPEND="2"
-
-inherit autotools eutils python
-
-DESCRIPTION="The MEME/MAST system - Motif discovery and search"
-HOMEPAGE="http://meme.sdsc.edu/meme"
-SRC_URI="http://meme.nbcr.net/downloads/${PN}_${PV}.tar.gz"
-
-LICENSE="meme"
-SLOT="0"
-KEYWORDS="amd64 x86"
-IUSE="debug examples mpi"
-
-DEPEND="
- !app-text/tree
- app-shells/tcsh
- dev-libs/libxml2:2
- dev-libs/libxslt
- !sci-biology/readseq
- mpi? ( virtual/mpi )"
-RDEPEND="${DEPEND}"
-
-S="${WORKDIR}/${PN}_${PV}"
-
-#pkg_setup() {
- # generate meme group to restrict logging to /var/log/meme
-# enewgroup meme
-# python_pkg_setup
-# python_set_active_version 2
-#}
-
-src_prepare() {
- use examples || sed -e '/SUBDIRS/s:examples::g' -i doc/Makefile.am
- sed \
- -e '/flags/s:-O3::g' \
- -e '/opt/s:-O::g' \
- -e '/debug/s:-ggdb::' \
- -e '/debug/s:-g::' \
- -e 's:CFLAGS=:CFLAGS+=:g' \
- -i configure.ac || die
- epatch \
- "${FILESDIR}"/${P}-Makefile.am.patch
- eautoreconf
-}
-
-src_configure() {
- MY_PREFIX="${ROOT}opt/meme"
- USE_DISABLE_MPI=""; if ! use mpi; then USE_DISABLE_MPI="--enable-serial"; fi
- econf \
- --sysconfdir="${EPREFIX}/etc/meme" \
- --with-logs="${ROOT}var/log/meme" \
- $(use_enable debug) \
- $USE_DISABLE_MPI
-}
-
-src_test() {
- # bug #297070
- emake -j1 test
-}
-
-src_install() {
- default
-
- echo "PATH=/opt/${PN}/bin" > 99${PN}
- doenvd 99${PN}
-
- # allow logging only for members of meme group
- # diropts -m 0770 -g meme -o root
- diropts -m ugo+rwxt -o root
- keepdir /var/log/meme
-}
-
-#pkg_postinst() {
-# einfo 'Log files are produced in the "/var/log/meme" directory. Users'
-# einfo 'need to be part of the meme group to use this facility.'
-#}