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Diffstat (limited to 'sci-biology/mafft/mafft-7.490.ebuild')
-rw-r--r-- | sci-biology/mafft/mafft-7.490.ebuild | 62 |
1 files changed, 62 insertions, 0 deletions
diff --git a/sci-biology/mafft/mafft-7.490.ebuild b/sci-biology/mafft/mafft-7.490.ebuild new file mode 100644 index 000000000000..a5ff0a5764d6 --- /dev/null +++ b/sci-biology/mafft/mafft-7.490.ebuild @@ -0,0 +1,62 @@ +# Copyright 1999-2022 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +inherit flag-o-matic toolchain-funcs + +EXTENSIONS="-without-extensions" + +DESCRIPTION="Multiple sequence alignments using a variety of algorithms" +HOMEPAGE="https://mafft.cbrc.jp/alignment/software/index.html" +SRC_URI="https://mafft.cbrc.jp/alignment/software/${P}${EXTENSIONS}-src.tgz" +S="${WORKDIR}/${P}${EXTENSIONS}" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos" + +src_prepare() { + default + + sed \ + -e 's/(PREFIX)\/man/(PREFIX)\/share\/man/' \ + -e 's:$(LDFLAGS)::g' \ + -e 's:$(CC) -o $@:$(CC) $(LDFLAGS) -o $@:g' \ + -e 's:$(CC) -shared -o $@:$(CC) $(LDFLAGS) -shared -o $@:g' \ + -e '/INSTALL/s: -s : :g' \ + -i core/Makefile || die +} + +src_configure() { + append-cflags -Wno-unused-result +} + +src_compile() { + emake -C core \ + PREFIX="${EPREFIX}"/usr \ + CC="$(tc-getCC)" \ + CFLAGS="${CFLAGS}" +} + +src_test() { + export MAFFT_BINARIES="${S}"/core + cd test || die + bash ../core/mafft sample > test.fftns2 || die "Tests failed" + bash ../core/mafft --maxiterate 100 sample > test.fftnsi || die "Tests failed" + bash ../core/mafft --globalpair sample > test.gins1 || die "Tests failed" + bash ../core/mafft --globalpair --maxiterate 100 sample > test.ginsi || die "Tests failed" + bash ../core/mafft --localpair sample > test.lins1 || die "Tests failed" + bash ../core/mafft --localpair --maxiterate 100 sample > test.linsi || die "Tests failed" + + diff test.fftns2 sample.fftns2 || die "Tests failed" + diff test.fftnsi sample.fftnsi || die "Tests failed" + diff test.gins1 sample.gins1 || die "Tests failed" + diff test.ginsi sample.ginsi || die "Tests failed" + diff test.lins1 sample.lins1 || die "Tests failed" +} + +src_install() { + emake -C core DESTDIR="${D}" STRIP=":" PREFIX="${EPREFIX}"/usr install + dodoc readme +} |