67 lines
1.5 KiB
Bash
67 lines
1.5 KiB
Bash
# Copyright 1999-2020 Gentoo Authors
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# Distributed under the terms of the GNU General Public License v2
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EAPI=7
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inherit toolchain-funcs
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MY_P="lagan20"
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DESCRIPTION="The LAGAN suite of tools for whole-genome multiple alignment of genomic DNA"
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HOMEPAGE="http://lagan.stanford.edu/lagan_web/index.shtml"
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SRC_URI="http://lagan.stanford.edu/lagan_web/${MY_P}.tar.gz"
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LICENSE="GPL-2"
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SLOT="0"
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KEYWORDS="~amd64 ~x86"
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RDEPEND="dev-lang/perl"
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S="${WORKDIR}/${MY_P}"
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PATCHES=(
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"${FILESDIR}"/${P}-makefile.patch
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"${FILESDIR}"/${P}-conflicting-getline.patch
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"${FILESDIR}"/${P}-gcc-4.8.patch
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"${FILESDIR}"/${P}-ambiguous-end.patch
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"${FILESDIR}"/${P}-gcc-9.patch
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"${FILESDIR}"/${P}-gcc-10.patch
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"${FILESDIR}"/${P}-C99-static-inline.patch
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"${FILESDIR}"/${P}-qa-implicit-declarations.patch
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)
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src_prepare() {
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default
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sed -i "/use Getopt::Long;/ i use lib \"/usr/$(get_libdir)/lagan/lib\";" \
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supermap.pl || die
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}
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src_configure() {
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tc-export CC CXX
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}
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src_install() {
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newbin lagan.pl lagan
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newbin slagan.pl slagan
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dobin mlagan
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rm lagan.pl slagan.pl utils/Utils.pm || die
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insinto /usr/$(get_libdir)/lagan/lib
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doins Utils.pm
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exeinto /usr/$(get_libdir)/lagan/utils
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doexe utils/*
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exeinto /usr/$(get_libdir)/lagan
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doexe *.pl anchors chaos glocal order prolagan
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insinto /usr/$(get_libdir)/lagan
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doins *.txt
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dosym ../$(get_libdir)/lagan/supermap.pl /usr/bin/supermap
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newenvd - 99lagan <<- _EOF_
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LAGAN_DIR="${EPREFIX}/usr/$(get_libdir)/lagan"
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_EOF_
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dodoc Readmes/README.*
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}
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