Bump.

(Portage version: 2.1.5_rc3)

2 files changed, 74 insertions, 1 deletions

diff --git a/sci-biology/t-coffee/ChangeLog b/sci-biology/t-coffee/ChangeLog
index 96fbb36f16f2..0e66d9e243f0 100644
--- a/sci-biology/t-coffee/ChangeLog
+++ b/sci-biology/t-coffee/ChangeLog
@@ -1,6 +1,12 @@
 # ChangeLog for sci-biology/t-coffee
 # Copyright 1999-2008 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/t-coffee/ChangeLog,v 1.28 2008/02/17 11:02:35 opfer Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/t-coffee/ChangeLog,v 1.29 2008/04/14 23:16:36 dberkholz Exp $
+
+*t-coffee-5.65 (14 Apr 2008)
+
+  14 Apr 2008; Donnie Berkholz <dberkholz@gentoo.org>;
+  +t-coffee-5.65.ebuild:
+  Bump.
 
   17 Feb 2008; Christian Faulhammer <opfer@gentoo.org> t-coffee-5.31.ebuild:
   stable x86/amd64, bug 208416
diff --git a/sci-biology/t-coffee/t-coffee-5.65.ebuild b/sci-biology/t-coffee/t-coffee-5.65.ebuild
new file mode 100644
index 000000000000..f7c78c1f4827
--- /dev/null
+++ b/sci-biology/t-coffee/t-coffee-5.65.ebuild
@@ -0,0 +1,67 @@
+# Copyright 1999-2008 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/t-coffee/t-coffee-5.65.ebuild,v 1.1 2008/04/14 23:16:36 dberkholz Exp $
+
+inherit toolchain-funcs flag-o-matic
+
+DESCRIPTION="A multiple sequence alignment package"
+LICENSE="t-coffee"
+HOMEPAGE="http://www.tcoffee.org/Projects_home_page/t_coffee_home_page.html"
+SRC_URI="http://www.tcoffee.org/Packages/T-COFFEE_distribution_Version_${PV}.tar.gz"
+
+SLOT="0"
+IUSE=""
+KEYWORDS="~amd64 ~ppc ~x86"
+
+RESTRICT="mirror"
+
+DEPEND="sci-biology/clustalw"
+
+TCDIR="${WORKDIR}/T-COFFEE_distribution_Version_${PV}"
+S="${TCDIR}/t_coffee_source"
+
+src_unpack() {
+	unpack ${A}
+	cd "${S}"
+	sed -e "s/CC	= cc/CC	= $(tc-getCC) ${CFLAGS}/" -i makefile || die \
+		"Failed to patch makefile."
+}
+
+die_compile() {
+	echo
+	eerror "If you experience an internal compiler error (consult the above"
+	eerror "messages), try compiling t-coffee using very modest compiler flags."
+	eerror "See bug #114745 on the Gentoo Bugzilla for more details."
+	die "Compilation failed"
+}
+
+src_compile() {
+	[[ $(gcc-version) == "3.4" ]] && append-flags -fno-unit-at-a-time
+	[[ $(gcc-version) == "4.1" ]] && append-flags -fno-unit-at-a-time
+	emake all || die_compile
+}
+
+src_install() {
+	dobin "${TCDIR}"/bin/t_coffee \
+		|| die "Failed to install program."
+
+	insinto /usr/share/${PN}/lib/html
+	doins "${TCDIR}"/html/* \
+		|| die "Failed to install Web interface files."
+
+	cd "${TCDIR}"/doc
+	dodoc aln_compare.doc.txt README4T-COFFEE seq_reformat.doc.txt \
+			t_coffee_technical.txt t_coffee_tutorial.txt \
+			|| die "Failed to install text documentation."
+
+	dohtml t_coffee_technical.htm t_coffee_tutorial.htm \
+		|| die "Failed to install HTML documentation."
+
+	insinto /usr/share/doc/${PF}
+	doins t_coffee_technical.doc t_coffee_tutorial.doc \
+		|| die "Failed to install DOC documentation."
+
+	insinto /usr/share/${PN}/example
+	doins "${TCDIR}"/example/* \
+		|| die "Failed to install example files."
+}