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# Copyright 1999-2022 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=8
inherit toolchain-funcs
DESCRIPTION="Sequence analysis using profile hidden Markov models"
HOMEPAGE="http://hmmer.org/"
SRC_URI="http://eddylab.org/software/${PN}/${PV}/${P}.tar.gz"
LICENSE="GPL-2"
SLOT="2"
KEYWORDS="~amd64 ~x86"
IUSE="cpu_flags_ppc_altivec test"
RESTRICT="!test? ( test )"
BDEPEND="test? ( dev-lang/perl )"
PATCHES=(
"${FILESDIR}/${P}-fix-perl-shebangs.patch"
"${FILESDIR}/${P}-fix-build-system-destdir.patch"
)
src_configure() {
# prevent stray environmental variable
# from causing issues in the test phase
unset TMPDIR
econf \
--enable-lfs \
--enable-threads \
$(use_enable cpu_flags_ppc_altivec altivec)
}
src_compile() {
emake AR="$(tc-getAR) rcs"
}
src_install() {
default
newlib.a src/libhmmer.a libhmmer2.a
insinto /usr/include/hmmer2
doins src/*.h
dobin squid/{afetch,alistat,compalign,compstruct,revcomp,seqstat,seqsplit,sfetch,shuffle,sreformat,sindex,weight,translate}
dolib.a squid/libsquid.a
insinto /usr/include/hmmer2
doins squid/*.h
dodoc NOTES Userguide.pdf
newdoc 00README README
# rename files due to collisions with hmmer-3
# in order to make SLOTing possible
local i
# first rename man pages...
pushd "${ED}"/usr/share/man/man1/ >/dev/null || die
for i in hmm*.1; do
mv ${i%.1}{,2}.1 || die
done
popd >/dev/null || die
# ... then rename binaries
pushd "${ED}"/usr/bin/ >/dev/null || die
for i in hmm*; do
mv ${i}{,2} || die
done
popd >/dev/null || die
}
pkg_postinst() {
elog "All ${P} binaries have been renamed, in order"
elog "to avoid collisions with hmmer-3. For instance"
elog
elog " hmmalign -> hmmalign2"
elog
}
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