New upstream version

(Portage version: 2.1.1)

3 files changed, 68 insertions, 1 deletions

diff --git a/sci-biology/t-coffee/ChangeLog b/sci-biology/t-coffee/ChangeLog
index ee8f0244c784..25f8fa411b9f 100644
--- a/sci-biology/t-coffee/ChangeLog
+++ b/sci-biology/t-coffee/ChangeLog
@@ -1,6 +1,11 @@
 # ChangeLog for sci-biology/t-coffee
 # Copyright 1999-2006 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/t-coffee/ChangeLog,v 1.15 2006/07/09 07:18:21 dberkholz Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/t-coffee/ChangeLog,v 1.16 2006/09/13 23:52:04 ribosome Exp $
+
+*t-coffee-4.45 (13 Sep 2006)
+
+  13 Sep 2006; Olivier Fisette <ribosome@gentoo.org> +t-coffee-4.45.ebuild:
+  New upstream version.
 
   09 Jul 2006; Donnie Berkholz <dberkholz@gentoo.org>; t-coffee-3.84.ebuild:
   x86/ppc stable.
diff --git a/sci-biology/t-coffee/files/digest-t-coffee-4.45 b/sci-biology/t-coffee/files/digest-t-coffee-4.45
new file mode 100644
index 000000000000..fee157903763
--- /dev/null
+++ b/sci-biology/t-coffee/files/digest-t-coffee-4.45
@@ -0,0 +1,3 @@
+MD5 5d3e15767206720f4aff82ffea8bfb40 T-COFFEE_distribution_Version_4.45.tar.gz 2735436
+RMD160 f05110dff0d05c852b9a72be7247ebe527a4649c T-COFFEE_distribution_Version_4.45.tar.gz 2735436
+SHA256 256675fdb3e438839a179c2ca5019a14045fcb346836c9c9c54581e7694d4ca3 T-COFFEE_distribution_Version_4.45.tar.gz 2735436
diff --git a/sci-biology/t-coffee/t-coffee-4.45.ebuild b/sci-biology/t-coffee/t-coffee-4.45.ebuild
new file mode 100644
index 000000000000..1af0091b2ebb
--- /dev/null
+++ b/sci-biology/t-coffee/t-coffee-4.45.ebuild
@@ -0,0 +1,59 @@
+# Copyright 1999-2006 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/t-coffee/t-coffee-4.45.ebuild,v 1.1 2006/09/13 23:52:04 ribosome Exp $
+
+inherit toolchain-funcs flag-o-matic
+
+DESCRIPTION="A multiple sequence alignment package"
+LICENSE="t-coffee"
+HOMEPAGE="http://igs-server.cnrs-mrs.fr/~cnotred/Projects_home_page/t_coffee_home_page.html"
+SRC_URI="http://igs-server.cnrs-mrs.fr/~cnotred/Packages/T-COFFEE_distribution_Version_${PV}.tar.gz"
+
+SLOT="0"
+IUSE=""
+KEYWORDS="~ppc ~x86"
+
+RESTRICT="nomirror"
+
+DEPEND="sci-biology/clustalw"
+
+TCDIR="${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
+	[[ $(gcc-version) == "4.1" ]] && append-flags -fno-unit-at-a-time
+	make all || die_compile
+}
+
+src_install() {
+	cd "${TCDIR}"/bin
+	dobin t_coffee || die "Failed to install program."
+	insinto /usr/share/${PN}/lib/html
+	doins ${TCDIR}/html/* || die "Failed to install HTML documentation,"
+
+	dodoc ${TCDIR}/doc/README4T-COFFEE || die \
+		"Failed to install basic documentation."
+	insinto /usr/share/doc/${PF}
+	doins ${TCDIR}/doc/t_coffee{_doc.{doc,pdf},.pdf} || die \
+		"Failed to install manuals and articles."
+	doins ${TCDIR}/doc/*.txt || die "Failed to install documentation."
+
+	insinto /usr/share/${PN}/example
+	doins ${TCDIR}/example/* || die "Failed to install example files."
+}