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 1999-2012 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmerhmm/glimmerhmm-3.0.1-r1.ebuild,v 1.2 2012/09/14 14:20:49 ago Exp $
EAPI=4
inherit eutils toolchain-funcs
MY_P=GlimmerHMM
DESCRIPTION="An eukaryotic gene finding system from TIGR"
HOMEPAGE="http://www.cbcb.umd.edu/software/GlimmerHMM/"
SRC_URI="ftp://ftp.cbcb.umd.edu/pub/software/glimmerhmm/${MY_P}-${PV}.tar.gz"
LICENSE="Artistic"
SLOT="0"
IUSE=""
KEYWORDS="amd64 ~x86"
src_unpack() {
unpack ${A}
mv GlimmerHMM ${P}
}
src_prepare() {
sed \
-e 's|\(my $scriptdir=\)$FindBin::Bin|\1"/usr/libexec/'${PN}'/training_utils"|' \
-e 's|\(use lib\) $FindBin::Bin|\1 "/usr/share/'${PN}'/lib"|' \
-i "${S}/train/trainGlimmerHMM" || die
epatch "${FILESDIR}"/${PV}-gentoo.patch
tc-export CC CXX
}
src_compile() {
emake -C "${S}/sources"
emake -C "${S}/train"
}
src_install() {
dobin sources/glimmerhmm train/trainGlimmerHMM
insinto /usr/share/${PN}/lib
doins train/*.pm
insinto /usr/share/${PN}/models
doins -r trained_dir/*
exeinto /usr/libexec/${PN}/training_utils
doexe train/{build{1,2,-icm,-icm-noframe},erfapp,falsecomp,findsites,karlin,score,score{2,ATG,ATG2,STOP,STOP2},splicescore}
dodoc README.first train/readme.train
}
|
GitWeb
