diff options
| -rw-r--r-- | sci-biology/gibbs/ChangeLog | 8 | ||||
| -rw-r--r-- | sci-biology/gibbs/gibbs-1995.9.ebuild | 43 | ||||
| -rw-r--r-- | sci-biology/gibbs/gibbs-3.1.ebuild | 35 |
3 files changed, 27 insertions, 59 deletions
diff --git a/sci-biology/gibbs/ChangeLog b/sci-biology/gibbs/ChangeLog index 4f702807d9f3..0ee2a35d038c 100644 --- a/sci-biology/gibbs/ChangeLog +++ b/sci-biology/gibbs/ChangeLog @@ -1,6 +1,10 @@ # ChangeLog for sci-biology/gibbs -# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/gibbs/ChangeLog,v 1.8 2009/12/28 23:49:26 maekke Exp $ +# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/gibbs/ChangeLog,v 1.9 2012/04/26 16:17:09 jlec Exp $ + + 26 Apr 2012; Justin Lecher <jlec@gentoo.org> gibbs-3.1.ebuild, + -gibbs-1995.9.ebuild: + Move to EAPI=4, drop old 28 Dec 2009; Markus Meier <maekke@gentoo.org> gibbs-3.1.ebuild: x86 stable, bug #290933 diff --git a/sci-biology/gibbs/gibbs-1995.9.ebuild b/sci-biology/gibbs/gibbs-1995.9.ebuild deleted file mode 100644 index 054f2a6078cb..000000000000 --- a/sci-biology/gibbs/gibbs-1995.9.ebuild +++ /dev/null @@ -1,43 +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/gibbs/gibbs-1995.9.ebuild,v 1.3 2009/09/30 14:40:39 weaver Exp $ - -DESCRIPTION="The Gibbs Motif Sampler identifies motifs, conserved regions, in DNA or protein sequences" - -HOMEPAGE="http://www.people.fas.harvard.edu/~junliu/index1.html" - -SRC_NAME="gibbs9_95" # 9_95 refers to the september 1995 version -SRC_URI="http://www.fas.harvard.edu/~junliu/Software/${SRC_NAME}.tar" - -LICENSE="public-domain" - -SLOT="0" -KEYWORDS="" -IUSE="" - -S="${WORKDIR}"/${SRC_NAME}/code - -src_compile() { - LIBS="-lm" make -e || die -} - -src_install() { - cd "${WORKDIR}"/${SRC_NAME} - dobin gibbs purge scan - dobin "${FILESDIR}"/gibbs-demo - - dodoc README - - insinto /usr/share/${PN} - doins demo.out - insinto /usr/share/${PN}/examples - doins examples/* -} - -pkg_postinst() { - einfo 'Testcase: To ensure the gibbs sampler works correctly,' - einfo 'run "gibbs-demo > mydemo.out" and compare "mydemo.out"' - einfo 'with "/usr/share/gibbs/demo.out" using diff. The files' - einfo 'should differ only by their timing statistics and the' - einfo 'paths of the example files.' -} diff --git a/sci-biology/gibbs/gibbs-3.1.ebuild b/sci-biology/gibbs/gibbs-3.1.ebuild index 9aa8c38884b8..812b6b2a38f4 100644 --- a/sci-biology/gibbs/gibbs-3.1.ebuild +++ b/sci-biology/gibbs/gibbs-3.1.ebuild @@ -1,12 +1,14 @@ -# Copyright 1999-2009 Gentoo Foundation +# Copyright 1999-2012 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/gibbs/gibbs-3.1.ebuild,v 1.5 2009/12/28 23:49:26 maekke Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/gibbs/gibbs-3.1.ebuild,v 1.6 2012/04/26 16:17:09 jlec Exp $ -EAPI="2" +EAPI=4 -inherit autotools +AUTOTOOLS_AUTORECONF=yes -DESCRIPTION="The Gibbs Motif Sampler identifies motifs, conserved regions, in DNA or protein sequences" +inherit autotools-utils multilib + +DESCRIPTION="Identify motifs, conserved regions, in DNA or protein sequences" HOMEPAGE="http://bayesweb.wadsworth.org/gibbs/gibbs.html" SRC_URI="mirror://gentoo/gibbs-${PV}.tar.gz" @@ -15,29 +17,34 @@ SLOT="0" IUSE="mpi" KEYWORDS="amd64 x86" -DEPEND="mpi? ( virtual/mpi - sys-cluster/mpe2 )" +DEPEND=" + mpi? ( + virtual/mpi + sys-cluster/mpe2 )" RDEPEND="${DEPEND}" src_prepare() { - sed -i -e 's/CFLAGS="$OPTFLAGS/CFLAGS="$CFLAGS $OPTFLAGS/' \ - -e 's/-Werror//' configure.in || die - eautoreconf + sed \ + -e 's/CFLAGS="$OPTFLAGS/CFLAGS="$CFLAGS $OPTFLAGS/' \ + -e 's/-Werror//' \ + -i configure.in || die + autotools-utils_src_prepare } src_configure() { if use mpi; then export CC=mpicc; fi - econf $(use_enable mpi) || die + local myeconfargs=( $(use_enable mpi) ) + autotools-utils_src_configure } src_install() { - emake DESTDIR="${D}" install || die "install failed" - exeinto /usr/share/${PN} + autotools-utils_src_install + exeinto /usr/$(get_libdir)/${PN} doexe *.pl dodoc README ChangeLog } pkg_postinst() { - einfo "Supplementary Perl scripts for Gibbs have been installed into /usr/share/${PN}." + einfo "Supplementary Perl scripts for Gibbs have been installed into /usr/$(get_libdir)/${PN}." einfo "These scripts require installation of sci-biology/bioperl." } |