From: Andrey Kislyuk Date: Fri, 7 May 2010 19:40:14 +0000 (+0000) Subject: Version bump X-Git-Url: http://git.tremily.us/?a=commitdiff_plain;h=7e7f9af1dfa33634f234c6577c5f95462f83cf4f;p=gentoo.git Version bump Package-Manager: portage-2.2_rc67/cvs/Linux x86_64 --- diff --git a/sci-biology/eugene/ChangeLog b/sci-biology/eugene/ChangeLog index 2e8c04b8fd9e..87f2b44aaaf4 100644 --- a/sci-biology/eugene/ChangeLog +++ b/sci-biology/eugene/ChangeLog @@ -1,6 +1,12 @@ # ChangeLog for sci-biology/eugene -# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/eugene/ChangeLog,v 1.4 2009/10/31 17:58:24 maekke Exp $ +# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/eugene/ChangeLog,v 1.5 2010/05/07 19:31:27 weaver Exp $ + +*eugene-3.6 (07 May 2010) + + 07 May 2010; Andrey Kislyuk -eugene-3.5d.ebuild, + +eugene-3.6.ebuild: + Version bump 31 Oct 2009; Markus Meier eugene-3.5g.ebuild: amd64/x86 stable, bug #290937 diff --git a/sci-biology/eugene/eugene-3.5d.ebuild b/sci-biology/eugene/eugene-3.6.ebuild similarity index 64% rename from sci-biology/eugene/eugene-3.5d.ebuild rename to sci-biology/eugene/eugene-3.6.ebuild index 6cb3ba3f02df..95144de428a1 100644 --- a/sci-biology/eugene/eugene-3.5d.ebuild +++ b/sci-biology/eugene/eugene-3.6.ebuild @@ -1,6 +1,6 @@ -# Copyright 1999-2009 Gentoo Foundation +# Copyright 1999-2010 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/eugene/eugene-3.5d.ebuild,v 1.4 2009/09/09 21:58:14 weaver Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/eugene/eugene-3.6.ebuild,v 1.1 2010/05/07 19:31:27 weaver Exp $ EAPI=2 @@ -8,12 +8,14 @@ inherit autotools DESCRIPTION="Eukaryotic gene predictor" HOMEPAGE="http://www.inra.fr/mia/T/EuGene/" -SRC_URI="http://mulcyber.toulouse.inra.fr/gf/download/frsrelease/220/3675/${P}-1.tar.gz" +# self-signed https SRC_URI +#SRC_URI="http://mulcyber.toulouse.inra.fr/gf/download/frsrelease/220/3675/${P}-1.tar.gz" +SRC_URI="mirror://gentoo/${P}.tar.gz" LICENSE="Artistic" SLOT="0" IUSE="doc" -KEYWORDS="amd64 x86" +KEYWORDS="~amd64 ~x86" RESTRICT="test" @@ -26,11 +28,7 @@ DEPEND="media-libs/gd[png] )" RDEPEND="${DEPEND}" -S="${WORKDIR}/${P}-1" - -src_unpack() { - unpack ${A} - cd "${S}" +src_prepare() { if ( ! use doc ); then sed -i -e '/SUBDIRS/ s/doc//' \ -e '/INSTALL.*doc/ s/\(.*\)//' \ diff --git a/sci-biology/last/ChangeLog b/sci-biology/last/ChangeLog index c5690010469e..fe4f969d1ee4 100644 --- a/sci-biology/last/ChangeLog +++ b/sci-biology/last/ChangeLog @@ -1,6 +1,11 @@ # ChangeLog for sci-biology/last # Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/last/ChangeLog,v 1.4 2010/04/05 12:10:02 phajdan.jr Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/last/ChangeLog,v 1.5 2010/05/07 19:35:18 weaver Exp $ + +*last-103 (07 May 2010) + + 07 May 2010; Andrey Kislyuk +last-103.ebuild: + Version bump 05 Apr 2010; Pawel Hajdan jr last-96.ebuild: x86 stable wrt bug #311831 diff --git a/sci-biology/last/last-103.ebuild b/sci-biology/last/last-103.ebuild new file mode 100644 index 000000000000..ede712fe8547 --- /dev/null +++ b/sci-biology/last/last-103.ebuild @@ -0,0 +1,34 @@ +# Copyright 1999-2010 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/last/last-103.ebuild,v 1.1 2010/05/07 19:35:18 weaver Exp $ + +EAPI="2" + +DESCRIPTION="Genome-scale comparison of biological sequences" +HOMEPAGE="http://last.cbrc.jp/" +SRC_URI="http://last.cbrc.jp/archive/${P}.zip" + +LICENSE="GPL-3" +SLOT="0" +IUSE="" +KEYWORDS="~amd64 ~x86" + +DEPEND="app-arch/unzip" +RDEPEND="" + +src_prepare() { + sed -i -e 's/CXXFLAGS =/CXXFLAGS +=/' -e 's/CCFLAGS =/CCFLAGS = ${CFLAGS}/' \ + src/makefile || die +} + +src_compile() { + emake -C src || die +} + +src_install() { + dobin src/last{al,db} || die + exeinto /usr/share/${PN}/scripts + doexe scripts/* || die + insinto /usr/share/doc/${PF} + doins -r doc ChangeLog.txt README.txt +} diff --git a/sci-biology/meme/ChangeLog b/sci-biology/meme/ChangeLog index e136263f8321..990b4987db5e 100644 --- a/sci-biology/meme/ChangeLog +++ b/sci-biology/meme/ChangeLog @@ -1,6 +1,12 @@ # ChangeLog for sci-biology/meme # Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/meme/ChangeLog,v 1.14 2010/03/07 20:56:03 jlec Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/meme/ChangeLog,v 1.15 2010/05/07 19:40:14 weaver Exp $ + +*meme-4.4.0 (07 May 2010) + + 07 May 2010; Andrey Kislyuk -meme-4.2.0.ebuild, + +meme-4.4.0.ebuild: + Version bump *meme-4.3.0-r1 (07 Mar 2010) diff --git a/sci-biology/meme/meme-4.2.0.ebuild b/sci-biology/meme/meme-4.4.0.ebuild similarity index 85% rename from sci-biology/meme/meme-4.2.0.ebuild rename to sci-biology/meme/meme-4.4.0.ebuild index 373cbbf7c0a1..bfde3f36c95d 100644 --- a/sci-biology/meme/meme-4.2.0.ebuild +++ b/sci-biology/meme/meme-4.4.0.ebuild @@ -1,6 +1,6 @@ -# Copyright 1999-2009 Gentoo Foundation +# Copyright 1999-2010 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/meme/meme-4.2.0.ebuild,v 1.1 2009/09/19 00:00:39 weaver Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/meme/meme-4.4.0.ebuild,v 1.1 2010/05/07 19:40:14 weaver Exp $ EAPI="2" @@ -12,7 +12,7 @@ SRC_URI="http://meme.nbcr.net/downloads/${PN}_${PV}.tar.gz" LICENSE="meme" SLOT="0" -KEYWORDS="~x86 ~amd64" +KEYWORDS="~amd64 ~x86" IUSE="mpi" @@ -59,5 +59,6 @@ src_install() { #} src_test() { - make test || die "Regression tests failed." + # bug #297070 + emake -j1 test || die "Regression tests failed." }