blob: 653a27669cc8d4c96efa2eec7a0103028c00c7b1 (
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
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
|
# Copyright 1999-2004 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/bioperl/bioperl-1.2.2.ebuild,v 1.1 2004/12/23 22:05:32 ribosome Exp $
inherit perl-module eutils
CATEGORY="app-sci"
DESCRIPTION="collection of tools for bioinformatics, genomics and life science research"
HOMEPAGE="http://www.bioperl.org/"
#SRC_URI="http://www.cpan.org/modules/by-module/Bio/${P}.tar.gz"
SRC_URI="http://www.bioperl.org/ftp/DIST/${P}.tar.gz"
LICENSE="Artistic GPL-2"
SLOT="0"
KEYWORDS="x86"
IUSE="mysql gd"
DEPEND="${DEPEND}
dev-perl/File-Temp
dev-perl/HTML-Parser
dev-perl/IO-String
dev-perl/IO-stringy
dev-perl/SOAP-Lite
dev-perl/Storable
dev-perl/XML-DOM
dev-perl/XML-Parser
dev-perl/XML-Writer
dev-perl/XML-Twig
dev-perl/libxml-perl
dev-perl/libwww-perl
dev-perl/Graph
dev-perl/Text-Shellwords
gd? ( >=dev-perl/GD-1.32-r1 )
mysql? ( >=dev-perl/DBD-mysql-2.1004-r3 )"
src_unpack() {
unpack ${A}
cd ${S}
# remove interactiveness
use mysql && epatch ${FILESDIR}/biodbgff-enable-${PV}.patch
# want man pages in addition to perldoc documentation??
#epatch ${FILESDIR}/domanpages-${PV}.patch
}
src_compile() {
# there's a test to run for BioGFFDB if using mysql
perl-module_src_compile || die "compile failed"
# make test
## perl-module_src_test || die "src test failed"
}
src_install() {
mydoc="AUTHORS BUGS FAQ"
perl-module_src_install
# get the bptutorial installed and executeable
dodir /usr/bin
dosym /usr/lib/perl5/site_perl/5.8.0/bptutorial.pl /usr/bin/bptutorial.pl
fperms +x /usr/lib/perl5/site_perl/5.8.0/bptutorial.pl
# bioperl scripts and examples
einfo 'Adding bioperl examples and scripts to /usr/share/...'
dodir /usr/share/${PF}/scripts
#insinto /usr/share/${PF}/scripts
cd ${S}/scripts/
tar cf - ./ | ( cd ${D}/usr/share/${PF}/scripts; tar xf -)
dodir /usr/share/${PF}/examples
cd ${S}/examples/
tar cf - ./ | ( cd ${D}/usr/share/${PF}/examples; tar xf -)
cd ${S}
# some pods in maindir
eval `perl '-V:installsitelib'`
MY_SITE_LIB=${installsitelib}
insinto ${MY_SITE_LIB}
doins biodatabases.pod biodesign.pod bioperl.pod bioscripts.pod
}
|
GitWeb
