diff options
Diffstat (limited to 'sci-biology/fasta/fasta-36.3.8h-r1.ebuild')
-rw-r--r-- | sci-biology/fasta/fasta-36.3.8h-r1.ebuild | 81 |
1 files changed, 81 insertions, 0 deletions
diff --git a/sci-biology/fasta/fasta-36.3.8h-r1.ebuild b/sci-biology/fasta/fasta-36.3.8h-r1.ebuild new file mode 100644 index 000000000000..1c396edf4586 --- /dev/null +++ b/sci-biology/fasta/fasta-36.3.8h-r1.ebuild @@ -0,0 +1,81 @@ +# Copyright 1999-2022 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +inherit flag-o-matic toolchain-funcs + +MY_PV="${PV}_04-May-2020" + +DESCRIPTION="FASTA is a DNA and Protein sequence alignment software package" +HOMEPAGE="https://fasta.bioch.virginia.edu/fasta_www2/fasta_down.shtml" +SRC_URI="https://github.com/wrpearson/fasta36/archive/refs/tags/v${MY_PV}.tar.gz -> ${P}.tar.gz" +S="${WORKDIR}/${PN}36-${MY_PV}" + +LICENSE="fasta" +SLOT="0" +KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux ~x64-macos" +IUSE="debug cpu_flags_x86_sse2 test" +RESTRICT="!test? ( test )" + +BDEPEND="test? ( app-shells/tcsh )" + +src_prepare() { + CC_ALT= + CFLAGS_ALT= + ALT= + + use debug && append-flags -DDEBUG + + if [[ $(tc-getCC) == *icc* ]]; then + CC_ALT=icc + ALT="${ALT}_icc" + else + CC_ALT=$(tc-getCC) + use x86 && ALT="32" + use amd64 && ALT="64" + fi + + if use cpu_flags_x86_sse2 ; then + ALT="${ALT}_sse2" + append-flags -msse2 + [[ $(tc-getCC) == *icc* ]] || append-flags -ffast-math + fi + + export CC_ALT="${CC_ALT}" + export ALT="${ALT}" + + eapply "${FILESDIR}"/${P}-ldflags.patch + + sed \ + -e 's:-ffast-math::g' \ + -i make/Makefile* || die + + eapply_user +} + +src_compile() { + emake -C src -f ../make/Makefile.linux${ALT} CC="${CC_ALT} ${CFLAGS}" HFLAGS="${LDFLAGS} -o" all +} + +src_test() { + cd test || die + FASTLIBS="../conf" bash test.sh || die +} + +src_install() { + dobin bin/* + + pushd bin >/dev/null || die + local i + for i in *36; do + dosym ${i} /usr/bin/${i%36} + done + popd >/dev/null || die + + insinto /usr/share/${PN} + doins -r conf/. data seq + + doman doc/{prss3.1,fasta36.1,fasts3.1,fastf3.1,ps_lav.1,map_db.1} + dodoc FASTA_LIST README* doc/{README*,readme*,fasta*,changes*} +} |