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 TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (2048 bits)) (No client certificate requested) by finch.gentoo.org (Postfix) with ESMTPS id 974E7158087 for ; Tue, 25 Jan 2022 13:12:18 +0000 (UTC) Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id AD90C2BC002; Tue, 25 Jan 2022 13:12:17 +0000 (UTC) Received: from smtp.gentoo.org (smtp.gentoo.org [IPv6:2001:470:ea4a:1:5054:ff:fec7:86e4]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits)) (No client certificate requested) by pigeon.gentoo.org (Postfix) with ESMTPS id 664782BC002 for ; Tue, 25 Jan 2022 13:12:17 +0000 (UTC) Received: from oystercatcher.gentoo.org (oystercatcher.gentoo.org [148.251.78.52]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256) (No client certificate requested) by smtp.gentoo.org (Postfix) with ESMTPS id 63717342E99 for ; Tue, 25 Jan 2022 13:12:16 +0000 (UTC) Received: from localhost.localdomain (localhost [IPv6:::1]) by oystercatcher.gentoo.org (Postfix) with ESMTP id D016E1F0 for ; Tue, 25 Jan 2022 13:12:14 +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: <1643116305.acc21d1b10bd722943d3d422baeeadb52098112c.andrewammerlaan@gentoo> Subject: [gentoo-commits] proj/sci:master commit in: sci-biology/oases/, sci-biology/oases/files/ X-VCS-Repository: proj/sci X-VCS-Files: sci-biology/oases/files/Makefile.patch sci-biology/oases/metadata.xml sci-biology/oases/oases-0.2.08.ebuild sci-biology/oases/oases-9999.ebuild X-VCS-Directories: sci-biology/oases/files/ sci-biology/oases/ X-VCS-Committer: andrewammerlaan X-VCS-Committer-Name: Andrew Ammerlaan X-VCS-Revision: acc21d1b10bd722943d3d422baeeadb52098112c X-VCS-Branch: master Date: Tue, 25 Jan 2022 13:12:14 +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: 449a5c9e-445c-47ea-a399-ca95151a6613 X-Archives-Hash: f773e036116a0056a47b7beb46b495fd commit: acc21d1b10bd722943d3d422baeeadb52098112c Author: Andrew Ammerlaan gentoo org> AuthorDate: Tue Jan 25 13:11:45 2022 +0000 Commit: Andrew Ammerlaan gentoo org> CommitDate: Tue Jan 25 13:11:45 2022 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=acc21d1b sci-biology/oases: drop dead package last update 2015 Signed-off-by: Andrew Ammerlaan gentoo.org> sci-biology/oases/files/Makefile.patch | 15 ------------- sci-biology/oases/metadata.xml | 12 ---------- sci-biology/oases/oases-0.2.08.ebuild | 40 ---------------------------------- sci-biology/oases/oases-9999.ebuild | 40 ---------------------------------- 4 files changed, 107 deletions(-) diff --git a/sci-biology/oases/files/Makefile.patch b/sci-biology/oases/files/Makefile.patch deleted file mode 100644 index fcd0842ff..000000000 --- a/sci-biology/oases/files/Makefile.patch +++ /dev/null @@ -1,15 +0,0 @@ ---- a/Makefile 2016-04-10 22:34:31.976222662 +0200 -+++ b/Makefile 2016-04-10 22:37:49.636225327 +0200 -@@ -1,8 +1,8 @@ --CC = gcc --CFLAGS = -Wall --DEBUG = -g -+CC ?= gcc -+CFLAGS ?= -Wall -+DEBUG ?= -g - LIBS = -lm --OPT = -O3 -+#OPT = -O3 - export MAXKMERLENGTH = 64 - export CATEGORIES = 2 - DEF = -D MAXKMERLENGTH=$(MAXKMERLENGTH) -D CATEGORIES=$(CATEGORIES) diff --git a/sci-biology/oases/metadata.xml b/sci-biology/oases/metadata.xml deleted file mode 100644 index 138cb7705..000000000 --- a/sci-biology/oases/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ - - - - - mmokrejs@fold.natur.cuni.cz - Martin Mokrejs - - - sci-biology@gentoo.org - Gentoo Biology Project - - diff --git a/sci-biology/oases/oases-0.2.08.ebuild b/sci-biology/oases/oases-0.2.08.ebuild deleted file mode 100644 index 74ad30f59..000000000 --- a/sci-biology/oases/oases-0.2.08.ebuild +++ /dev/null @@ -1,40 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -DESCRIPTION="De novo transcriptome assembler" -HOMEPAGE="http://www.ebi.ac.uk/~zerbino/oases" -if [ "$PV" == "9999" ]; then - inherit git-r3 - EGIT_REPO_URI="https://github.com/dzerbino/oases.git" - SRC_URI="http://www.ebi.ac.uk/~zerbino/oases/OasesManual.pdf" -else - SRC_URI="http://www.ebi.ac.uk/~zerbino/oases/oases_0.2.08.tgz - http://www.ebi.ac.uk/~zerbino/oases/OasesManual.pdf" - S="${WORKDIR}/oases_0.2.8" - KEYWORDS="" - # fails to find globals.h, but which globals.h does it want? -fi - -LICENSE="GPL-3" -SLOT="0" - -DEPEND="" -RDEPEND="${DEPEND} - >=sci-biology/velvet-1.2.08" - -PATCHES=( - "${FILESDIR}/Makefile.patch" -) - -src_prepare(){ - default - sed -e 's#cleanobj velvet oases doc#oases#' -i Makefile || die -} - -src_install(){ - dobin oases - dodoc README.md - dodoc "${DISTDIR}"/OasesManual.pdf -} diff --git a/sci-biology/oases/oases-9999.ebuild b/sci-biology/oases/oases-9999.ebuild deleted file mode 100644 index 74ad30f59..000000000 --- a/sci-biology/oases/oases-9999.ebuild +++ /dev/null @@ -1,40 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -DESCRIPTION="De novo transcriptome assembler" -HOMEPAGE="http://www.ebi.ac.uk/~zerbino/oases" -if [ "$PV" == "9999" ]; then - inherit git-r3 - EGIT_REPO_URI="https://github.com/dzerbino/oases.git" - SRC_URI="http://www.ebi.ac.uk/~zerbino/oases/OasesManual.pdf" -else - SRC_URI="http://www.ebi.ac.uk/~zerbino/oases/oases_0.2.08.tgz - http://www.ebi.ac.uk/~zerbino/oases/OasesManual.pdf" - S="${WORKDIR}/oases_0.2.8" - KEYWORDS="" - # fails to find globals.h, but which globals.h does it want? -fi - -LICENSE="GPL-3" -SLOT="0" - -DEPEND="" -RDEPEND="${DEPEND} - >=sci-biology/velvet-1.2.08" - -PATCHES=( - "${FILESDIR}/Makefile.patch" -) - -src_prepare(){ - default - sed -e 's#cleanobj velvet oases doc#oases#' -i Makefile || die -} - -src_install(){ - dobin oases - dodoc README.md - dodoc "${DISTDIR}"/OasesManual.pdf -}