From: Olivier Fisette Date: Fri, 9 Mar 2007 02:43:13 +0000 (+0000) Subject: New upstream version. X-Git-Url: http://git.tremily.us/?a=commitdiff_plain;h=4bfa45644434e16d40b41fc810a89d09daf9a40a;p=gentoo.git New upstream version. Package-Manager: portage-2.1.2.2 --- diff --git a/sci-biology/t-coffee/ChangeLog b/sci-biology/t-coffee/ChangeLog index 25f8fa411b9f..1a630c6a439d 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 1.16 2006/09/13 23:52:04 ribosome Exp $ +# Copyright 1999-2007 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/t-coffee/ChangeLog,v 1.17 2007/03/09 02:43:13 ribosome Exp $ + +*t-coffee-4.96 (09 Mar 2007) + + 09 Mar 2007; Olivier Fisette +t-coffee-4.96.ebuild: + New upstream version. *t-coffee-4.45 (13 Sep 2006) diff --git a/sci-biology/t-coffee/Manifest b/sci-biology/t-coffee/Manifest index 64e074224285..35c18c0a9b6b 100644 --- a/sci-biology/t-coffee/Manifest +++ b/sci-biology/t-coffee/Manifest @@ -1,8 +1,6 @@ ------BEGIN PGP SIGNED MESSAGE----- -Hash: SHA1 - 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-iD8DBQFF3tSa/ejvha5XGaMRAnxFAKCD2fDtfgNi/BQXyir/3T/f1iLYtACgxa8p -srDjPM7JtOfQk9Iyl1LCqX0= -=7dcM ------END PGP SIGNATURE----- +MD5 f59bcfecf86c8b4729dc646cfe693047 files/digest-t-coffee-4.96 307 +RMD160 1813cba165d62ee51fcecbcc5f04fe587374a5c9 files/digest-t-coffee-4.96 307 +SHA256 2a6ffaf1bef9217315fb872171f49b5810002e900edb2ecc136d9a9f24503d7c files/digest-t-coffee-4.96 307 diff --git a/sci-biology/t-coffee/files/digest-t-coffee-4.96 b/sci-biology/t-coffee/files/digest-t-coffee-4.96 new file mode 100644 index 000000000000..d6f8c17360de --- /dev/null +++ b/sci-biology/t-coffee/files/digest-t-coffee-4.96 @@ -0,0 +1,3 @@ +MD5 ce40b2654663b7c22c1c8427fb5e32db T-COFFEE_distribution_Version_4.96.tar.gz 2863327 +RMD160 d6a7722f1fe3b2a8b186fad49e8bc136d812b610 T-COFFEE_distribution_Version_4.96.tar.gz 2863327 +SHA256 49181acd69a5723fd5b11f579b1efe685b5289bf187985b25b40c514b0af0213 T-COFFEE_distribution_Version_4.96.tar.gz 2863327 diff --git a/sci-biology/t-coffee/t-coffee-4.96.ebuild b/sci-biology/t-coffee/t-coffee-4.96.ebuild new file mode 100644 index 000000000000..ddc5809f988a --- /dev/null +++ b/sci-biology/t-coffee/t-coffee-4.96.ebuild @@ -0,0 +1,62 @@ +# Copyright 1999-2007 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/t-coffee/t-coffee-4.96.ebuild,v 1.1 2007/03/09 02:43:13 ribosome 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_${PV}.tar.gz" + +SLOT="0" +IUSE="" +KEYWORDS="~ppc ~x86" + +RESTRICT="nomirror" + +DEPEND="sci-biology/clustalw" + +TCDIR="${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 + [[ $(gcc-version) == "4.1" ]] && append-flags -fno-unit-at-a-time + make all || die_compile +} + +src_install() { + dobin "${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.pdf t_coffee_technical.doc t_coffee_tutorial.doc || die \ + "Failed to install DOC and PDF documentation." + + insinto /usr/share/${PN}/example + doins "${TCDIR}"/example/* || die "Failed to install example files." +}