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# Copyright 1999-2022 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=8
inherit flag-o-matic perl-functions toolchain-funcs
DESCRIPTION="tRNA detection in large-scale genome sequences"
HOMEPAGE="http://lowelab.ucsc.edu/tRNAscan-SE/"
SRC_URI="http://lowelab.ucsc.edu/software/tRNAscan-SE.tar.gz -> ${P}.tar.gz"
S="${WORKDIR}"/tRNAscan-SE-1.3.1/
LICENSE="GPL-2"
SLOT="0"
KEYWORDS="~amd64 ~x86"
RDEPEND="dev-lang/perl:="
BDEPEND="${RDEPEND}"
PATCHES=(
"${FILESDIR}"/${P}-makefile.patch
"${FILESDIR}"/${P}-portable-perl-shebangs.patch
"${FILESDIR}"/${P}-clang16.patch
)
src_configure() {
tc-export CC
append-cflags -std=gnu89 # mid-migration from K&R C, incompatible with c2x
}
src_test() {
emake PATH="${S}:${PATH}" testrun
}
src_install() {
dobin covels-SE coves-SE eufindtRNA tRNAscan-SE trnascan-1.4
newman tRNAscan-SE.man tRNAscan-SE.man.1
dodoc MANUAL Manual.ps README Release.history
insinto /usr/share/trnascan-se
doins *.cm gcode.* Dsignal TPCsignal
perl_domodule -r tRNAscanSE
}
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