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 25C8D1382C5 for ; Sun, 24 Jan 2021 14:24:49 +0000 (UTC) Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id 640B4E0887; Sun, 24 Jan 2021 14:24:48 +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 49B19E0887 for ; Sun, 24 Jan 2021 14:24:48 +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 1EDBB34113C for ; Sun, 24 Jan 2021 14:24:47 +0000 (UTC) Received: from localhost.localdomain (localhost [IPv6:::1]) by oystercatcher.gentoo.org (Postfix) with ESMTP id 7EE7F328 for ; Sun, 24 Jan 2021 14:24:45 +0000 (UTC) From: "Andrew Ammerlaan" To: gentoo-commits@lists.gentoo.org Content-Transfer-Encoding: 8bit Content-type: text/plain; charset=UTF-8 Reply-To: gentoo-dev@lists.gentoo.org, "Andrew Ammerlaan" Message-ID: <1611498272.3f11f39cd3669f9328b7599254b12c8a2bf4ea7d.andrewammerlaan@gentoo> Subject: [gentoo-commits] proj/sci:master commit in: sci-biology/exonerate-gff3/files/, sci-biology/exonerate-gff3/ X-VCS-Repository: proj/sci X-VCS-Files: sci-biology/exonerate-gff3/exonerate-gff3-9999.ebuild sci-biology/exonerate-gff3/files/exonerate-gff3-9999-asneeded.patch X-VCS-Directories: sci-biology/exonerate-gff3/files/ sci-biology/exonerate-gff3/ X-VCS-Committer: andrewammerlaan X-VCS-Committer-Name: Andrew Ammerlaan X-VCS-Revision: 3f11f39cd3669f9328b7599254b12c8a2bf4ea7d X-VCS-Branch: master Date: Sun, 24 Jan 2021 14:24:45 +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-Auto-Response-Suppress: DR, RN, NRN, OOF, AutoReply X-Archives-Salt: c92998af-e350-46a5-b441-c5a27fde22f6 X-Archives-Hash: 33d8bda3e82fc1514e861e356c1f0d24 commit: 3f11f39cd3669f9328b7599254b12c8a2bf4ea7d Author: Andrew Ammerlaan riseup net> AuthorDate: Sun Jan 24 14:24:32 2021 +0000 Commit: Andrew Ammerlaan riseup net> CommitDate: Sun Jan 24 14:24:32 2021 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=3f11f39c sci-biology/exonerate-gff3: EAPI bump Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan riseup.net> .../exonerate-gff3/exonerate-gff3-9999.ebuild | 29 ++++++++-------------- .../files/exonerate-gff3-9999-asneeded.patch | 15 ----------- 2 files changed, 10 insertions(+), 34 deletions(-) diff --git a/sci-biology/exonerate-gff3/exonerate-gff3-9999.ebuild b/sci-biology/exonerate-gff3/exonerate-gff3-9999.ebuild index cc0ba0118..3ca71c262 100644 --- a/sci-biology/exonerate-gff3/exonerate-gff3-9999.ebuild +++ b/sci-biology/exonerate-gff3/exonerate-gff3-9999.ebuild @@ -1,23 +1,20 @@ # Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=5 +EAPI=7 -AUTOTOOLS_AUTORECONF=true - -inherit autotools-utils toolchain-funcs git-r3 +inherit toolchain-funcs git-r3 DESCRIPTION="exonerate-2.2.0 with patches to add GFF3 formatted output" HOMEPAGE="https://github.com/hotdogee/exonerate-gff3" -SRC_URI="" EGIT_REPO_URI="https://github.com/hotdogee/exonerate-gff3.git" LICENSE="GPL-3" SLOT="0" -KEYWORDS="" +KEYWORDS="~amd64" + IUSE="utils test threads" RESTRICT="!test? ( test )" - REQUIRED_USE="test? ( utils )" # block with sci-biology/exonerate , maybe the best would be to change SRC_URI in sci-biology/exonerate @@ -26,10 +23,6 @@ DEPEND=" dev-libs/glib:2" RDEPEND="${DEPEND}" -AUTOTOOLS_IN_SOURCE_BUILD=1 - -PATCHES=( "${FILESDIR}"/${P}-asneeded.patch ) - src_prepare() { tc-export CC sed \ @@ -37,20 +30,18 @@ src_prepare() { -i configure.in || die # we patch the configure.in file like sci-biology/exonerate:gentoo does, though it is ugly hack # mv configure.in configure.ac - autotools-utils_src_prepare + default } src_configure() { - local myeconfargs=( - $(use_enable utils utilities) - $(use_enable threads pthreads) - --enable-largefile + econf \ + $(use_enable utils utilities) \ + $(use_enable threads pthreads) \ + --enable-largefile \ --enable-glib2 - ) - autotools-utils_src_configure } src_install() { - autotools-utils_src_install + default doman doc/man/man1/*.1 } diff --git a/sci-biology/exonerate-gff3/files/exonerate-gff3-9999-asneeded.patch b/sci-biology/exonerate-gff3/files/exonerate-gff3-9999-asneeded.patch deleted file mode 100644 index 3268055cd..000000000 --- a/sci-biology/exonerate-gff3/files/exonerate-gff3-9999-asneeded.patch +++ /dev/null @@ -1,15 +0,0 @@ -Fix build with --as-needed - -https://bugs.gentoo.org/268094 - ---- configure.in -+++ configure.in -@@ -289,7 +289,7 @@ - if test "$enable_pthreads" = yes; then - echo "Using PTHREADS" - CFLAGS="$CFLAGS -DUSE_PTHREADS" -- LDFLAGS="$LDFLAGS -lpthread" -+ LIBS="$LIBS -lpthread" - elif test "$enable_pthreads" = no; then - echo "Not using pthreads" - else