1 files changed, 45 insertions, 0 deletions
diff --git a/sci-biology/trnascan-se/trnascan-se-1.31-r3.ebuild b/sci-biology/trnascan-se/trnascan-se-1.31-r3.ebuild
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index 000000000000..f43243921f2f
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+++ b/sci-biology/trnascan-se/trnascan-se-1.31-r3.ebuild
@@ -0,0 +1,45 @@
+# 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
+}