blob: 692c9e9ee5940c17294ad24b201dc40cc7145d5a (
plain)
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
|
# Copyright 1999-2018 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
EAPI=6
inherit eutils flag-o-matic autotools
DESCRIPTION="k-mer counter within reads for assemblies"
HOMEPAGE="http://www.genome.umd.edu/jellyfish.html"
SRC_URI="https://github.com/gmarcais/Jellyfish/releases/download/v${PV}/${P}.tar.gz"
# older version is hidden in trinityrnaseq_r20140413p1/trinity-plugins/jellyfish-1.1.11
LICENSE="GPL-3+ BSD"
SLOT="2"
KEYWORDS="~amd64 ~x86"
IUSE="cpu_flags_x86_sse"
RDEPEND=""
DEPEND="${RDEPEND}
virtual/pkgconfig"
src_prepare(){
eautoreconf
default
}
# TODO: enable compilation of Bindings to Ruby, Python and Perl
# '--enable-ruby-binding', '--enable-python-binding' or '--enable-perl-binding', '--enable-swig'
src_configure(){
# --with-sse enable SSE
# --with-half enable half float (16 bits)
# --with-int128 enable int128
local myconf
use cpu_flags_x86_sse && myconf+=( --with-sse )
econf econf ${myconf[@]}
}
src_install(){
default
mv "${ED}"/usr/bin/jellyfish "${ED}"/usr/bin/jellyfish2 || die
sed -e "s#jellyfish-${PV}#jellyfish#" -i "${ED}/usr/$(get_libdir)"/pkgconfig/jellyfish-2.0.pc || die
find "${ED}"/usr/include/"${P}"/"${PN}" -type f | while read f; do
sed -e "s#include <jellyfish/#include <jellyfish${SLOT}/#" -i $f || die
done
mkdir -p "${ED}/usr/include/${PN}${SLOT}" || die
mv "${ED}"/usr/include/"${P}"/"${PN}"/* "${ED}/usr/include/${PN}${SLOT}/" || die
rm -r "${ED}/usr/include/${P}" || die
mv "${ED}"/usr/share/man/man1/jellyfish.1 "${ED}"/usr/share/man/man1/jellyfish"${SLOT}".1 || die
dodoc doc/jellyfish.pdf
}
|
GitWeb
