blob: 92a083e4dd8b9abec4f1c16091382978df7d7dcf (
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 1999-2012 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/ncbi-tools++/ncbi-tools++-2010.06.15-r1.ebuild,v 1.5 2012/06/03 12:53:18 jlec Exp $
EAPI="3"
inherit eutils flag-o-matic multilib toolchain-funcs
MY_TAG="Jun_15_2010"
MY_Y="${MY_TAG/*_/}"
MY_P="ncbi_cxx--${MY_TAG}"
DESCRIPTION="NCBI C++ Toolkit, including NCBI BLAST+"
HOMEPAGE="http://www.ncbi.nlm.nih.gov/books/bv.fcgi?rid=toolkit"
SRC_URI="
ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/${MY_Y}/${MY_TAG}/${MY_P}.tar.gz
http://dev.gentoo.org/~jlec/distfiles/${P}-asneeded.patch.xz"
LICENSE="public-domain"
SLOT="0"
IUSE="sqlite mysql"
KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
DEPEND="
sqlite? ( dev-db/sqlite:3 )
mysql? ( virtual/mysql )"
RDEPEND="${DEPEND}"
S="${WORKDIR}/${MY_P}"
src_prepare() {
# filter-ldflags -Wl,--as-needed
# append-ldflags -Wl,--no-undefined
sed -i -e 's/-print-file-name=libstdc++.a//' \
-e '/sed/ s/\([gO]\[0-9\]\)\*/\1\\+/' \
src/build-system/configure || die
epatch \
"${FILESDIR}"/${P}-gcc46.patch \
"${FILESDIR}"/${P}-gcc47.patch \
"${WORKDIR}"/${P}-asneeded.patch \
"${FILESDIR}"/${P}-libpng15.patch \
"${FILESDIR}"/${P}-glibc-214.patch
use prefix && append-ldflags -Wl,-rpath,"${EPREFIX}/usr/$(get_libdir)/${PN}"
}
src_configure() {
tc-export CXX CC
# conf check for sqlite and mysql
"${S}"/configure --without-debug \
--with-bin-release \
--with-bincopy \
--without-static \
--with-dll \
--with-mt \
--prefix="${ED}"/usr \
--libdir="${ED}"/usr/$(get_libdir)/${PN} \
|| die
}
src_compile() {
emake all_r -C GCC*-Release*/build || die
}
src_install() {
emake install || die
# File collisions with sci-biology/ncbi-tools
rm -f "${ED}"/usr/bin/{asn2asn,rpsblast,test_regexp}
echo "LDPATH=${EPREFIX}/usr/$(get_libdir)/${PN}" > ${S}/99${PN}
doenvd "${S}/99${PN}"
}
pkg_postinst() {
einfo 'Please run "source /etc/profile" before using this package in the current shell.'
}
|
GitWeb
