From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from lists.gentoo.org (pigeon.gentoo.org [208.92.234.80]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by finch.gentoo.org (Postfix) with ESMTPS id 95D9C1396D0 for ; Thu, 7 Sep 2017 20:49:45 +0000 (UTC) Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id E4BB0E0CC7; Thu, 7 Sep 2017 20:49:44 +0000 (UTC) Received: from smtp.gentoo.org (mail.gentoo.org [IPv6:2001:470:ea4a:1:5054:ff:fec7:86e4]) (using TLSv1.2 with cipher ECDHE-RSA-AES128-GCM-SHA256 (128/128 bits)) (No client certificate requested) by pigeon.gentoo.org (Postfix) with ESMTPS id C0E2FE0CC7 for ; Thu, 7 Sep 2017 20:49:44 +0000 (UTC) Received: from oystercatcher.gentoo.org (oystercatcher.gentoo.org [148.251.78.52]) (using TLSv1.2 with cipher ECDHE-RSA-AES128-GCM-SHA256 (128/128 bits)) (No client certificate requested) by smtp.gentoo.org (Postfix) with ESMTPS id DF11633FE74 for ; Thu, 7 Sep 2017 20:49:43 +0000 (UTC) Received: from localhost.localdomain (localhost [IPv6:::1]) by oystercatcher.gentoo.org (Postfix) with ESMTP id 7EC578F2F for ; Thu, 7 Sep 2017 20:49:42 +0000 (UTC) From: "David Seifert" To: gentoo-commits@lists.gentoo.org Content-Transfer-Encoding: 8bit Content-type: text/plain; charset=UTF-8 Reply-To: gentoo-dev@lists.gentoo.org, "David Seifert" Message-ID: <1504816742.4bc9cc3e0c3601751f67183b64405caf98191ec8.soap@gentoo> Subject: [gentoo-commits] proj/sci:master commit in: sci-biology/pairagon/ X-VCS-Repository: proj/sci X-VCS-Files: sci-biology/pairagon/pairagon-1.1.ebuild X-VCS-Directories: sci-biology/pairagon/ X-VCS-Committer: soap X-VCS-Committer-Name: David Seifert X-VCS-Revision: 4bc9cc3e0c3601751f67183b64405caf98191ec8 X-VCS-Branch: master Date: Thu, 7 Sep 2017 20:49:42 +0000 (UTC) Precedence: bulk List-Post: List-Help: List-Unsubscribe: List-Subscribe: List-Id: Gentoo Linux mail X-BeenThere: gentoo-commits@lists.gentoo.org X-Archives-Salt: afb6733a-c565-4de8-9645-ad78c999beb0 X-Archives-Hash: 67926af15a265cf9223c45bb01950fcf commit: 4bc9cc3e0c3601751f67183b64405caf98191ec8 Author: David Seifert gentoo org> AuthorDate: Thu Sep 7 20:39:02 2017 +0000 Commit: David Seifert gentoo org> CommitDate: Thu Sep 7 20:39:02 2017 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=4bc9cc3e sci-biology/pairagon: Fix double-prefix Closes: https://bugs.gentoo.org/show_bug.cgi?id=587702 Package-Manager: Portage-2.3.8, Repoman-2.3.3 sci-biology/pairagon/pairagon-1.1.ebuild | 37 +++++++++++++++++--------------- 1 file changed, 20 insertions(+), 17 deletions(-) diff --git a/sci-biology/pairagon/pairagon-1.1.ebuild b/sci-biology/pairagon/pairagon-1.1.ebuild index c23129f74..843198232 100644 --- a/sci-biology/pairagon/pairagon-1.1.ebuild +++ b/sci-biology/pairagon/pairagon-1.1.ebuild @@ -1,10 +1,9 @@ -# Copyright 1999-2015 Gentoo Foundation +# Copyright 1999-2017 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -EAPI=5 +EAPI=6 -PERL_EXPORT_PHASE_FUNCTIONS=no -inherit perl-module eutils toolchain-funcs +inherit perl-functions toolchain-funcs DESCRIPTION="HMM-based cDNA to genome aligner" HOMEPAGE="http://mblab.wustl.edu/software.html" @@ -15,26 +14,30 @@ SLOT="0" KEYWORDS="~amd64" IUSE="" -DEPEND="dev-lang/perl" +DEPEND="dev-lang/perl:=" RDEPEND="${DEPEND}" -S="${WORKDIR}"/pairagon +S=${WORKDIR}/${PN} -src_prepare(){ - sed -e 's:src/get-glib-flags.sh:#src/get-glib-flags.sh:; s:-Wall -Werror::' -i Makefile - sed -e 's/^use Alignment/use pairagon::Alignment/' -i bin/alignmentConvert.pl || die +src_prepare() { + default + + sed -e 's:src/get-glib-flags.sh:#src/get-glib-flags.sh:; s:-Wall -Werror::' \ + -i Makefile || die + sed -e 's/^use Alignment/use pairagon::Alignment/' \ + -i bin/alignmentConvert.pl || die } -src_compile(){ +src_compile() { emake pairagon-linux } -src_install(){ - dobin bin/pairagon bin/pairameter_estimate bin/Pairagon.pl bin/alignmentConvert.pl - dodoc README - perl_set_version +src_install() { + dobin bin/{pairagon,pairameter_estimate,Pairagon.pl,alignmentConvert.pl} + einstalldocs + insinto /usr/share/pairagon - doins parameters/* - insinto ${VENDOR_LIB}/${PN} - doins lib/perl5/Alignment.pm + doins -r parameters/. + + perl_domodule -C ${PN} lib/perl5/Alignment.pm }