[gentoo-commits] gentoo-x86 commit in sci-biology/muscle: muscle-3.7-r1.ebuild ChangeLog

[Justin Lecher (jlec)]

jlec        10/06/28 20:30:00

  Modified:             ChangeLog
  Added:                muscle-3.7-r1.ebuild
  Log:
  Fix for bufferoverflow, #309341
  (Portage version: 2.2_rc67/cvs/Linux x86_64)

Revision  Changes    Path
1.12                 sci-biology/muscle/ChangeLog

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/muscle/ChangeLog?rev=1.12&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/muscle/ChangeLog?rev=1.12&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/muscle/ChangeLog?r1=1.11&r2=1.12

Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/muscle/ChangeLog,v
retrieving revision 1.11
retrieving revision 1.12
diff -u -r1.11 -r1.12
--- ChangeLog	24 Jun 2010 20:47:35 -0000	1.11
+++ ChangeLog	28 Jun 2010 20:30:00 -0000	1.12
@@ -1,6 +1,12 @@
 # ChangeLog for sci-biology/muscle
 # Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/muscle/ChangeLog,v 1.11 2010/06/24 20:47:35 angelos Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/muscle/ChangeLog,v 1.12 2010/06/28 20:30:00 jlec Exp $
+
+*muscle-3.7-r1 (28 Jun 2010)
+
+  28 Jun 2010; Justin Lecher <jlec@g.o>
+  +files/3.7-bufferoverflow.patch, +muscle-3.7-r1.ebuild:
+  Fix for bufferoverflow, #309341
 
   24 Jun 2010; Christoph Mende <angelos@g.o> muscle-3.7.ebuild:
   Stable on amd64 wrt bug #277980



1.1                  sci-biology/muscle/muscle-3.7-r1.ebuild

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/muscle/muscle-3.7-r1.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/muscle/muscle-3.7-r1.ebuild?rev=1.1&content-type=text/plain

Index: muscle-3.7-r1.ebuild
===================================================================
# Copyright 1999-2010 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/muscle/muscle-3.7-r1.ebuild,v 1.1 2010/06/28 20:30:00 jlec Exp $

EAPI="3"

inherit eutils toolchain-funcs

MY_P="${PN}${PV}_src"
DESCRIPTION="Multiple sequence comparison by log-expectation"
HOMEPAGE="http://www.drive5.com/muscle/"
SRC_URI="http://www.drive5.com/muscle/downloads${PV}/${MY_P}.tar.gz"

LICENSE="public-domain"
SLOT="0"
KEYWORDS="~amd64 ~ppc ~x86"
IUSE=""

RDEPEND="!sci-libs/libmuscle"
DEPEND="${RDEPEND}"

S="${WORKDIR}"

src_prepare() {
	epatch"${FILESDIR}"/${PV}-bufferoverflow.patch
	sed -i \
		"s:-static::g" \
		"${S}/Makefile"
	sed -i \
		"/strip/d" \
		"${S}/Makefile"
}

src_compile() {
	emake \
		GPP="$(tc-getCXX)" \
		CFLAGS="${CXXFLAGS}" \
		|| die "make failed"
}

src_install() {
	dobin muscle || die
}