1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
|
# Copyright 1999-2019 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=6
DESCRIPTION="Sequence analysis using profile hidden Markov models"
LICENSE="GPL-2"
HOMEPAGE="http://hmmer.org/"
SRC_URI="http://eddylab.org/software/${PN}/${PV}/${P}.tar.gz"
SLOT="2"
IUSE="altivec test threads"
RESTRICT="!test? ( test )"
KEYWORDS="~amd64 ~x86"
DEPEND="test? ( dev-lang/perl )"
RDEPEND=""
PATCHES=(
"${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 \
$(use_enable altivec) \
$(use_enable threads)
}
src_install() {
default
newlib.a src/libhmmer.a libhmmer2.a
insinto /usr/include/hmmer2
doins src/*.h
dobin squid/{afetch,alistat,compalign,compstruct,revcomp,seqstat,seqsplit,sfetch,shuffle,sreformat,sindex,weight,translate}
dolib.a squid/libsquid.a
insinto /usr/include/hmmer2
doins squid/*.h
dodoc NOTES Userguide.pdf
newdoc 00README README
# rename files due to collisions with hmmer-3
# in order to make SLOTing possible
local i
# first rename man pages...
pushd "${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
}
|
GitWeb
