From bd2ca3655e9c6b2bdee3a7bd70a33e68bb3599c0 Mon Sep 17 00:00:00 2001
From: David Seifert <soap@gentoo.org>
Date: Thu, 7 Jul 2022 21:56:42 +0200
Subject: sci-biology/amap: update EAPI 6 -> 8

Closes: https://bugs.gentoo.org/725288
Signed-off-by: David Seifert <soap@gentoo.org>
---
 sci-biology/amap/amap-2.2-r5.ebuild | 59 +++++++++++++++++++++++++++++++++++++
 1 file changed, 59 insertions(+)
 create mode 100644 sci-biology/amap/amap-2.2-r5.ebuild

(limited to 'sci-biology/amap/amap-2.2-r5.ebuild')

diff --git a/sci-biology/amap/amap-2.2-r5.ebuild b/sci-biology/amap/amap-2.2-r5.ebuild
new file mode 100644
index 000000000000..949749969c27
--- /dev/null
+++ b/sci-biology/amap/amap-2.2-r5.ebuild
@@ -0,0 +1,59 @@
+# Copyright 1999-2022 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+inherit java-pkg-opt-2 java-ant-2 toolchain-funcs
+
+MY_P=${PN}.${PV}
+
+DESCRIPTION="Protein multiple-alignment-based sequence annealing"
+HOMEPAGE="https://wiki.gentoo.org/wiki/No_homepage"
+SRC_URI="http://baboon.math.berkeley.edu/${PN}/download/${MY_P}.tar.gz"
+S="${WORKDIR}/${PN}-align"
+
+LICENSE="GPL-2"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE="java"
+
+RDEPEND="java? ( >=virtual/jre-1.8:* )"
+BDEPEND="${RDEPEND}"
+
+PATCHES=(
+	"${FILESDIR}"/${P}-makefile.patch
+	"${FILESDIR}"/${P}-includes.patch
+)
+
+src_prepare() {
+	default
+	java-pkg-opt-2_src_prepare
+}
+
+src_configure() {
+	tc-export CXX
+}
+
+src_compile() {
+	emake -C align
+
+	if use java; then
+		pushd display >/dev/null || die
+		eant -Ddisplay all || die
+		popd >/dev/null || die
+	fi
+}
+
+src_install() {
+	dobin align/${PN}
+
+	dodoc align/{README,PROBCONS.README}
+
+	insinto /usr/share/${PN}
+	doins -r examples
+
+	if use java; then
+		java-pkg_newjar display/AmapDisplay.jar amapdisplay.jar
+		java-pkg_dolauncher amapdisplay --jar amapdisplay.jar
+	fi
+}
-- 
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